#### 9130011E15Rik_ID9675_6 --> 0 - 0 Original Alignment GTCACAGATAATATC-AGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aatgtgttgttgtgcattaagaaagggggactcctcttttgcacttacagGTCACAGATAATATCCAGCCAGAACACTATCCTGGAATATGTAATGATCAACA-CATATTTGAAGCCATTTTACAGgtatgtagtttaactgacttatcctttatgtgtagtccttcattcaaaat Alignment from CESAR GTCACAGATAATATC-AGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aatgtgttgttgtgcattaagaaagggggactcctcttttgcacttacagGTCACAGATAATATCCAGCCAGAACACTATCCTGGAATATGTAATGATCAAC-ACATATTTGAAGCCATTTTACAGgtatgtagtttaactgacttatcctttatgtgtagtccttcattcaaaat Alignment from Spaln_aa2Genome CCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aatgtgttgttgtgcattaagaaagggggactcctcttttgcacttacaggtcacagataatatccagCCAGAACACTATCCTGGAATATGTAATGATCAACAC-ATATTTGAAGCCATTTTACAGgtatgtagtttaactgacttatcctttatgtgtagtccttcattcaaaat Alignment from Spaln_nt2Genome GTCACAGATAATATC-AGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aatgtgttgttgtgcattaagaaagggggactcctcttttgcacttacagGTCACAGATAATATCCAGCCAGAACACTATCCTGGAATATGTAATGATCAACA-CATATTTGAAGCCATTTTACAGgtatgtagtttaactgacttatcctttatgtgtagtccttcattcaaaat Alignment from Pairagon GTCACAGATAATAT-CAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aatgtgttgttgtgcattaagaaagggggactcctcttttgcacttacagGTCACAGATAATATCCAGCCAGAACACTATCCTGGAATATGTAATGATCAACA-CATATTTGAAGCCATTTTACAGgtatgtagtttaactgacttatcctttatgtgtagtccttcattcaaaat Alignment from Exonerate_protein2genome GTCACAGATAATATC-AGCCAGAACACTATCCTGGAATATGTAATGATCAAC--AGTATATTCGAAGCAATTTTACAG aatgtgttgttgtgcattaagaaagggggactcctcttttgcacttacagGTCACAGATAATATCCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAC---ATATTTGAAGCCATTTTACAGgtatgtagtttaactgacttatcctttatgtgtagtccttcattcaaaat Alignment from Exonerate_coding2genome GTCACAGATAATAT---CAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aatgtgttgttgtgcattaagaaagggggactcctcttttgcacttacagGTCACAGATAAT--ATCCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAC-ATATTTGAAGCCATTTTACAGgtatgtagtttaactgacttatcctttatgtgtagtccttcattcaaaat Alignment from GeneWise CCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAGATA aatgtgttgttgtgcattaagaaagggggactcctcttttgcacttacaggtcacagataatatccagCCAGAACACTATCCTGGAATATGTAATGATCAACACATATTTGAAGCCATTTTACAGGTATgtagtttaactgacttatcctttatgtgtagtccttcattcaaaat #### Acsl5_ID11614_19 --> 0 - 0 Original Alignment TGTGTAAAGGAAGCC-ATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctacaagccttgggtatcactttccttttgctttgtcagTTCGTAAAAGAGGCCCATTTTGGAGGACTTGCAGAAAATTGGGAAGGAGGGCGGCT-GAAATCCCTTGAGCAGgtaaggatgtggtatgctttttgtagttgatgcagtaagtctagcttgga Alignment from CESAR TGTGTAAAGGAAGCC-ATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctacaagccttgggtatcactttccttttgctttgtcagTTCGTAAAAGAGGCCCATTTTGGAGGACTTGCAGAAAATTGGGAAGGAGGGCG-GCTGAAATCCCTTGAGCAGgtaaggatgtggtatgctttttgtagttgatgcagtaagtctagcttgga Alignment from Spaln_aa2Genome TGTGTAAAGGAAGCC-ATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctacaagccttgggtatcactttccttttgctttgtcagTTCGTAAAAGAGGCCcATTTTGGAGGACTTGCAGAAAATTGGGAAGGAGGGCGGCTG-AAATCCCTTGAGCAGgtaaggatgtggtatgctttttgtagttgatgcagtaagtctagcttgga Alignment from Spaln_nt2Genome TGTGTAAAGGAAGCC-ATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctacaagccttgggtatcactttccttttgctttgtcagTTCGTAAAAGAGGCCCATTTTGGAGGACTTGCAGAAAATTGGGAAGGAGGGCGG-CTGAAATCCCTTGAGCAGgtaaggatgtggtatgctttttgtagttgatgcagtaagtctagcttgga Alignment from Pairagon TGTGTAAAGGAAG-CCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctacaagccttgggtatcactttccttttgctttgtcagTTCGTAAAAGAGGCCCATTTTGGAGGACTTGCAGAAAATTGGGAAGGAGGGCGG-CTGAAATCCCTTGAGCAGgtaaggatgtggtatgctttttgtagttgatgcagtaagtctagcttgga Alignment from Exonerate_protein2genome TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctacaagccttgggtatcactttccttttgctttgtcagTTCGTAAAAGAGGCCCATTTTGGAGGACTTGCAGAAAATTGGGAAGGAGGGCGGCTGAAATCCCTTGAGCAGgtaaggatgtggtatgctttttgtagttgatgcagtaagtctagcttgga Alignment from Exonerate_coding2genome TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctacaagccttgggtatcactttccttttgctttgtcagTTCGTAAAAGAGGCCCATTTTGGAGGACTTGCAGAAAATTGGGAAGGAGGGCGGCTGAAATCCCTTGAGCAGgtaaggatgtggtatgctttttgtagttgatgcagtaagtctagcttgga Alignment from GeneWise TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctacaagccttgggtatcactttccttttgctttgtcagTTCGTAAAAGAGGCCCATTTTGGAGGACTTGCAGAAAATTGGGAAGGAGGGCGGCTGAAATCCCTTGAGCAGgtaaggatgtggtatgctttttgtagttgatgcagtaagtctagcttgga #### Actn3_ID693_17 --> 0 - 0 Original Alignment GAAGTAGGACGG-CTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gagcaaagtggtgagtctggagactttatgcagcgattttctttttgtagGAAGTAGGACGACCTGGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGA-GGCAGGTCTGCGCCAGCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACCGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGgtgagtacccaaccataagaggagtactggccaccagataattgcagttt Alignment from CESAR GAAGTAGGACGG-CTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gagcaaagtggtgagtctggagactttatgcagcgattttctttttgtagGAAGTAGGACGACCTGGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAG-AGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACCGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGgtgagtacccaaccataagaggagtactggccaccagataattgcagttt Alignment from Spaln_aa2Genome GGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gagcaaagtggtgagtctggagactttatgcagcgattttctttttgtaggaagtagGACGACCTGGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGAG-GCAGGTCTGCGCCAGCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACCGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGgtgagtacccaaccataagaggagtactggccaccagataattgcagttt Alignment from Spaln_nt2Genome GAAGTAGGACGGC-TGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gagcaaagtggtgagtctggagactttatgcagcgattttctttttgtagGAAGTAGGACGACCTGGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGA-GGCAGGTCTGCGCCAGCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACCGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGgtgagtacccaaccataagaggagtactggccaccagataattgcagttt Alignment from Pairagon GAAGTAGGACGG-CTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gagcaaagtggtgagtctggagactttatgcagcgattttctttttgtagGAAGTAGGACGACCTGGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGA-GGCAGGTCTGCGCCAGCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACCGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGgtgagtacccaaccataagaggagtactggccaccagataattgcagttt Alignment from Exonerate_protein2genome GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gagcaaagtggtgagtctggagactttatgcagcgattttctttttgtagGAAGTAGGACGACCTGGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGAGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACCGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGgtgagtacccaaccataagaggagtactggccaccagataattgcagttt Alignment from Exonerate_coding2genome GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gagcaaagtggtgagtctggagactttatgcagcgattttctttttgtagGAAGTAGGACGACCTGGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGAGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACCGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGgtgagtacccaaccataagaggagtactggccaccagataattgcagttt Alignment from GeneWise GGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gagcaaagtggtgagtctggagactttatgcagcgattttctttttgtaggaagtagGACGACCTGGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGAG-GCAGGTCTGCGCCAGCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACCGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGgtgagtacccaaccataagaggagtactggccaccagataattgcagttt #### Actn3_ID694_16 --> 0 - 0 Original Alignment GTCAGA---AAGCTGGTACCCAGCCGTGAC-CAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG tccagtcaaagcaacaccttactatagacctgcttctcatctgcctctagGTTAGAAAAAAACTTGCCCCTGCTCATGAGCCAGACATTCCAAGAGAAGCTC---CGGCAGC-AGTTAATGAGAGGTCACAGTGGCAGTTTACAGCCCAGGCTAATGCTATAGGTCCCTGGATCCAGGCAAAGGTCAAGgtaagcgttgggagactgtgctcatggagatcagtccagagcaaagtggt Alignment from CESAR GTCAGA---AAGCTGGTACCCAGCCGTGAC-CAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG tccagtcaaagcaacaccttactatagacctgcttctcatctgcctctagGTTAGAAAAAAACTTGCCCCTGCTCATGAGCCAGACATTCCAAGAGAAGCTC---CGGCAGC-AGTTAATGAGAGGTCACAGTGGCAGTTTACAGCCCAGGCTAATGCTATAGGTCCCTGGATCCAGGCAAAGGTCAAGgtaagcgttgggagactgtgctcatggagatcagtccagagcaaagtggt Alignment from Spaln_aa2Genome GTCAGA---AAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG tccagtcaaagcaacaccttactatagacctgcttctcatctgcctctagGTTAGAAAAAAACTTGCCCCTGCTCATGAGCCAGACATTCCAAGAGAA---GCTCCGGCAGCAGTTAATGAGAGGTCACAGTGGCAGTTTACAGCCCAGGCTAATGCTATAGGTCCCTGGATCCAGGCAAAGGTCAAGgtaagcgttgggagactgtgctcatggagatcagtccagagcaaagtggt Alignment from Spaln_nt2Genome GTCAGAAAG---CTGGTACCCAGCCGTGA-CCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG tccagtcaaagcaacaccttactatagacctgcttctcatctgcctctagGTTAGAAAAAAACTTGCCCCTGCTCATGAGCCAGACATTCCAAGAGAAGCT---CCGGCAGCA-GTTAATGAGAGGTCACAGTGGCAGTTTACAGCCCAGGCTAATGCTATAGGTCCCTGGATCCAGGCAAAGGTCAAGgtaagcgttgggagactgtgctcatggagatcagtccagagcaaagtggt Alignment from Pairagon TACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG tccagtcaaagcaacaccttactatagacctgcttctcatctgcctctaggttagaaaaaaacttgcccctgctcatgag-------------CCAGACATTCCAAGAGAAGCT---CCGGCAGCA-GTTAATGAGAGGTCACAGTGGCAGTTTACAGCCCAGGCTAATGCTATAGGTCCCTGGATCCAGGCAAAGGTCAAGgtaagcgttgggagactgtgctcatggagatcagtccagagcaaagtggt Alignment from Exonerate_protein2genome GTCAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG tccagtcaaagcaacaccttactatagacctgcttctcatctgcctctagGTTAGAAAAAAACTTGCCCCTGCTCATGAGCCAGACATTCCAAGAGAAGCTCCGGCAGCAGTTAATGAGAGGTCACAGTGGCAGTTTACAGCCCAGGCTAATGCTATAGGTCCCTGGATCCAGGCAAAGGTCAAGgtaagcgttgggagactgtgctcatggagatcagtccagagcaaagtggt Alignment from Exonerate_coding2genome GTCAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG tccagtcaaagcaacaccttactatagacctgcttctcatctgcctctagGTTAGAAAAAAACTTGCCCCTGCTCATGAGCCAGACATTCCAAGAGAAGCTCCGGCAGCAGTTAATGAGAGGTCACAGTGGCAGTTTACAGCCCAGGCTAATGCTATAGGTCCCTGGATCCAGGCAAAGGTCAAGgtaagcgttgggagactgtgctcatggagatcagtccagagcaaagtggt Alignment from GeneWise GTCAGA---AAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG tccagtcaaagcaacaccttactatagacctgcttctcatctgcctctagGTTAGAAAAAAACTTGCCCCTGCTCATGAGCCAGACATTCCAAGAGAA---GCTCCGGCAGCAGTTAATGAGAGGTCACAGTGGCAGTTTACAGCCCAGGCTAATGCTATAGGTCCCTGGATCCAGGCAAAGGTCAAGgtaagcgttgggagactgtgctcatggagatcagtccagagcaaagtggt #### Actn3_ID695_15 --> 0 - 0 Original Alignment AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACA-TACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacctatgggcaaatgtggataatggcccttctctttcccccttttagAGCCTACTAACAGCACACGAACAATTCAAAGCAACATTACCTGAAGCTGATCGAGAGCGAGGTGCTGTCCCAGGCATCCAAGGAGAGATTTCAAAGATCTGCCAAACACTATGGGTTACGTCCCAAATCCGGGAACCCCTACA-TACCCTCAGTTCAAGGGACATCAATAATAAGTGGGATACTgtaggtaacctgggttatactaaatgggagttctgttgtagcaagattgg Alignment from CESAR AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACA-TACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacctatgggcaaatgtggataatggcccttctctttcccccttttagAGCCTACTAACAGCACACGAACAATTCAAAGCAACATTACCTGAAGCTGATCGAGAGCGAGGTGCTGTCCCAGGCATCCAAGGAGAGATTTCAAAGATCTGCCAAACACTATGGGTTACGTCCCAAATCCGGGAACCCCTACA-TACCCTCAGTTCAAGGGACATCAATAATAAGTGGGATACTgtaggtaacctgggttatactaaatgggagttctgttgtagcaagattgg Alignment from Spaln_aa2Genome AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacctatgggcaaatgtggataatggcccttctctttcccccttttagAGCCTACTAACAGCACACGAACAATTCAAAGCAACATTACCTGAAGCTGATCGAGAGCGAGGTGCTGTCCCAGGCATCCAAGGAGAGATTTCAAAGATCTGCCAAACACTATGGGTTACGTCCCAAATCCGGGAACCCCTACATACCCTCAGTTCAAGGGACATCAATAATAAGTGGGATACTgtaggtaacctgggttatactaaatgggagttctgttgtagcaagattgg Alignment from Spaln_nt2Genome AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACA-TACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacctatgggcaaatgtggataatggcccttctctttcccccttttagAGCCTACTAACAGCACACGAACAATTCAAAGCAACATTACCTGAAGCTGATCGAGAGCGAGGTGCTGTCCCAGGCATCCAAGGAGAGATTTCAAAGATCTGCCAAACACTATGGGTTACGTCCCAAATCCGGGAACCCCTACAT-ACCCTCAGTTCAAGGGACATCAATAATAAGTGGGATACTgtaggtaacctgggttatactaaatgggagttctgttgtagcaagattgg Alignment from Pairagon AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACA-TACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacctatgggcaaatgtggataatggcccttctctttcccccttttagAGCCTACTAACAGCACACGAACAATTCAAAGCAACATTACCTGAAGCTGATCGAGAGCGAGGTGCTGTCCCAGGCATCCAAGGAGAGATTTCAAAGATCTGCCAAACACTATGGGTTACGTCCCAAATCCGGGAACCCCTACAT-ACCCTCAGTTCAAGGGACATCAATAATAAGTGGGATACTgtaggtaacctgggttatactaaatgggagttctgttgtagcaagattgg Alignment from Exonerate_protein2genome AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacctatgggcaaatgtggataatggcccttctctttcccccttttagAGCCTACTAACAGCACACGAACAATTCAAAGCAACATTACCTGAAGCTGATCGAGAGCGAGGTGCTGTCCCAGGCATCCAAGGAGAGATTTCAAAGATCTGCCAAACACTATGGGTTACGTCCCAAATCCGGGAACCCCTACATACCCTCAGTTCAAGGGACATCAATAATAAGTGGGATACTgtaggtaacctgggttatactaaatgggagttctgttgtagcaagattgg Alignment from Exonerate_coding2genome AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacctatgggcaaatgtggataatggcccttctctttcccccttttagAGCCTACTAACAGCACACGAACAATTCAAAGCAACATTACCTGAAGCTGATCGAGAGCGAGGTGCTGTCCCAGGCATCCAAGGAGAGATTTCAAAGATCTGCCAAACACTATGGGTTACGTCCCAAATCCGGGAACCCCTACATACCCTCAGTTCAAGGGACATCAATAATAAGTGGGATACTgtaggtaacctgggttatactaaatgggagttctgttgtagcaagattgg Alignment from GeneWise AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacctatgggcaaatgtggataatggcccttctctttcccccttttagAGCCTACTAACAGCACACGAACAATTCAAAGCAACATTACCTGAAGCTGATCGAGAGCGAGGTGCTGTCCCAGGCATCCAAGGAGAGATTTCAAAGATCTGCCAAACACTATGGGTTACGTCCCAAATCCGGGAACCCCTACATACCCTCAGTTCAAGGGACATCAATAATAAGTGGGATACTgtaggtaacctgggttatactaaatgggagttctgttgtagcaagattgg #### Actn3_ID697_13 --> 1 - 0 Original Alignment tGAGCTCGACTACCATGAG-GCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cataatacagcaacataccttgggtctgtagcaccccttgtgaactgtagcGAGCTTGACTACCATGAGCGCAACTTCTGTGAACAGTCGGTGCCAAGCCATAT-TGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGgtaaaaggtagtccaggagggaggtaaggccagtaatgtctgtagtctga Alignment from CESAR tGAGCTCGACTACCATGAG-GCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cataatacagcaacataccttgggtctgtagcaccccttgtgaactgtagcGAGCTTGACTACCATGAGCGCAACTTCTGTGAACAGTCGGTGCCAAGCCATA-TTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGgtaaaaggtagtccaggagggaggtaaggccagtaatgtctgtagtctga Alignment from Spaln_aa2Genome TGAGCTCGACTACCATGAG-GCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cataatacagcaacataccttgggtctgtagcaccccttgtgaactgtagCGAGCTTGACTACCATGAGcGCAACTTCTGTGAACAGTCGGTGCCAAGCCATATT-GACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGgtaaaaggtagtccaggagggaggtaaggccagtaatgtctgtagtctga Alignment from Spaln_nt2Genome TGAGCTCGACTACCATGAG-GCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cataatacagcaacataccttgggtctgtagcaccccttgtgaactgtagCGAGCTTGACTACCATGAGCGCAACTTCTGTGAACAGTCGGTGCCAAGCCATAT-TGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGgtaaaaggtagtccaggagggaggtaaggccagtaatgtctgtagtctga Alignment from Pairagon TGAGCTCGACTACCATGAG-GCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cataatacagcaacataccttgggtctgtagcaccccttgtgaactgtagCGAGCTTGACTACCATGAGCGCAACTTCTGTGAACAGTCGGTGCCAAGCCATAT-TGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGgtaaaaggtagtccaggagggaggtaaggccagtaatgtctgtagtctga Alignment from Exonerate_protein2genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cataatacagcaacataccttgggtctgtagcaccccttgtgaactgtagCGAGCTTGACTACCATGAGCGCAACTTCTGTGAACAGTCGGTGCCAAGCCATATTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGgtaaaaggtagtccaggagggaggtaaggccagtaatgtctgtagtctga Alignment from Exonerate_coding2genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cataatacagcaacataccttgggtctgtagcaccccttgtgaactgtagCGAGCTTGACTACCATGAGCGCAACTTCTGTGAACAGTCGGTGCCAAGCCATATTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGgtaaaaggtagtccaggagggaggtaaggccagtaatgtctgtagtctga Alignment from GeneWise TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cataatacagcaacataccttgggtctgtagcaccccttgtgaactgtagCGAGCTTGACTACCATGAGCGCAACTTCTGTGAACAGTCGGTGCCAAGCCATATTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGgtaaaaggtagtccaggagggaggtaaggccagtaatgtctgtagtctga #### Actn3_ID701_9 --> 0 - 0 Original Alignment GCAGAGACTGCT-GCCAACAGGATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG tttttttggtatagcattgtaagagctacgctgcctctctttacttacagGCAGAGACTGCTCGCCAACAGGATCTGCAAGGTCTTGCCAGTGAACCAGGAAA-TGAGGAGCTGATGGAGAAGTATGCAAAACTGGCCAGTGAGgtgagcttagactacagtccaagaactccttcccagtgtttcctcagtgt Alignment from CESAR GCAGAGACTGCT-GCCAACAGGATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG tttttttggtatagcattgtaagagctacgctgcctctctttacttacagGCAGAGACTGCTCGCCAACAGGATCTGCAAGGTCTTGCCAGTGAACCAGG-AAATGAGGAGCTGATGGAGAAGTATGCAAAACTGGCCAGTGAGgtgagcttagactacagtccaagaactccttcccagtgtttcctcagtgt Alignment from Spaln_aa2Genome GCAGAGACTGCTGCCAACAGGATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG tttttttggtatagcattgtaagagctacgctgcctctctttacttacaggcag---AGACTGCTCGCCAACAGGATCTGCAAGGTCTTGCCAGTGAACCAGGAAAT-GAGGAGCTGATGGAGAAGTATGCAAAACTGGCCAGTGAGgtgagcttagactacagtccaagaactccttcccagtgtttcctcagtgt Alignment from Spaln_nt2Genome GCAGAGACTGCT-GCCAACAGGATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG tttttttggtatagcattgtaagagctacgctgcctctctttacttacagGCAGAGACTGCTCGCCAACAGGATCTGCAAGGTCTTGCCAGTGAACCAGG-AAATGAGGAGCTGATGGAGAAGTATGCAAAACTGGCCAGTGAGgtgagcttagactacagtccaagaactccttcccagtgtttcctcagtgt Alignment from Pairagon GCAGAGACTGCT-GCCAACAGGATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG tttttttggtatagcattgtaagagctacgctgcctctctttacttacagGCAGAGACTGCTCGCCAACAGGATCTGCAAGGTCTTGCCAGTGAACCAGG-AAATGAGGAGCTGATGGAGAAGTATGCAAAACTGGCCAGTGAGgtgagcttagactacagtccaagaactccttcccagtgtttcctcagtgt Alignment from Exonerate_protein2genome GCAGAGACTGCTGCCAACAGGATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG tttttttggtatagcattgtaagagctacgctgcctctctttacttacagGCAGAGACTGCTCGCCAACAGGATCTGCAAGGTCTTGCCAGTGAACCAGGAAATGAGGAGCTGATGGAGAAGTATGCAAAACTGGCCAGTGAGgtgagcttagactacagtccaagaactccttcccagtgtttcctcagtgt Alignment from Exonerate_coding2genome GCAGAGACTGCTGCCAACAGGATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG tttttttggtatagcattgtaagagctacgctgcctctctttacttacagGCAGAGACTGCTCGCCAACAGGATCTGCAAGGTCTTGCCAGTGAACCAGGAAATGAGGAGCTGATGGAGAAGTATGCAAAACTGGCCAGTGAGgtgagcttagactacagtccaagaactccttcccagtgtttcctcagtgt Alignment from GeneWise GCAGAGACTGCTGCCAACAGGATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG tttttttggtatagcattgtaagagctacgctgcctctctttacttacagGCAGAGACTGCTCGCCAACAGGATCTGCAAGGTCTTGCCAGTGAACCAGGAAATGAGGAGCTGATGGAGAAGTATGCAAAACTGGCCAGTGAGgtgagcttagactacagtccaagaactccttcccagtgtttcctcagtgt #### Actn3_ID705_5 --> 2 - 2 Original Alignment agACCTCAGCCAAAGAAGGC-TTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCag tgcaaaatgcctagttgggccagatcattcttctttccaatttgcttcagagGCTGCATCCAAACAGGGCCTTGTTCCTCTGGTGCCAGCGGAAAATAGCTCCATACCGCA-TGTTAATGTACAGAACTTCCATACTaggtagggatcctgagtatagtagttgggatctattaaagtgaaggatggca Alignment from CESAR agACCTCAGCCAAAGAAGGC-TTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCag tgcaaaatgcctagttgggccagatcattcttctttccaatttgcttcagagGCTGCATCCAAACAGGGCCTTGTTCCTCTGGTGCCAGCGGAAAATAGCTCCATACCGC-ATGTTAATGTACAGAACTTCCATACTaggtagggatcctgagtatagtagttgggatctattaaagtgaaggatggca Alignment from Spaln_aa2Genome AGACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG tgcaaaatgcctagttgggccagatcattcttctttccaatttgcttcagAGGCTGCATCCAAACAGGGCCTTGTTCCTCTGGTGCCAGCGGAAAATAGCTCCATACCGCATGTTAATGTACAGAACTTCCATACTAGgtagggatcctgagtatagtagttgggatctattaaagtgaaggatggca Alignment from Spaln_nt2Genome AGACCTCAGCCAAAGAAGGC-TTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG tgcaaaatgcctagttgggccagatcattcttctttccaatttgcttcagAGGCTGCATCCAAACAGGGCCTTGTTCCTCTGGTGCCAGCGGAAAATAGCTCCATACCGC-ATGTTAATGTACAGAACTTCCATACTAGgtagggatcctgagtatagtagttgggatctattaaagtgaaggatggca Alignment from Pairagon AGACCTCAGCCAAAGAAGG-CTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG tgcaaaatgcctagttgggccagatcattcttctttccaatttgcttcagAGGCTGCATCCAAACAGGGCCTTGTTCCTCTGGTGCCAGCGGAAAATAGCTCCATACCGC-ATGTTAATGTACAGAACTTCCATACTAGgtagggatcctgagtatagtagttgggatctattaaagtgaaggatggca Alignment from Exonerate_protein2genome AGACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG tgcaaaatgcctagttgggccagatcattcttctttccaatttgcttcagAGGCTGCATCCAAACAGGGCCTTGTTCCTCTGGTGCCAGCGGAAAATAGCTCCATACCGCATGTTAATGTACAGAACTTCCATACTAGgtagggatcctgagtatagtagttgggatctattaaagtgaaggatggca Alignment from Exonerate_coding2genome AGACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG tgcaaaatgcctagttgggccagatcattcttctttccaatttgcttcagAGGCTGCATCCAAACAGGGCCTTGTTCCTCTGGTGCCAGCGGAAAATAGCTCCATACCGCATGTTAATGTACAGAACTTCCATACTAGgtagggatcctgagtatagtagttgggatctattaaagtgaaggatggca Alignment from GeneWise -ACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG tgcaaaatgcctagttgggccagatcattcttctttccaatttgcttcagagGCTGCATCCAAACAGGGCCTTGTTCCTCTGGTGCCAGCGGAAAATAGCTCCATACCGCAT-GTTAATGTACAGAACTTCCATACTAGgtagggatcctgagtatagtagttgggatctattaaagtgaaggatggca #### Actn3_ID706_4 --> 2 - 1 Original Alignment aaATTGTTGACGGGAAC-CTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAg gtattgggggggaacaaaggctgtctcatttttttccccccaatctgcagaaATAGTTGACGGGAACCCTGAAGATGACCCTTGGCATGATTTGGACAATCA-CCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAggttggttgatgcaaaatgcctagttgggccagatcattctttgcctccct Alignment from CESAR aaATTGTTGACGGGAAC-CTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAg gtattgggggggaacaaaggctgtctcatttttttccccccaatctgcagaaATAGTTGACGGGAACCCTGAAGATGACCCTTGGCATGATTTGGACAATC-ACCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAggttggttgatgcaaaatgcctagttgggccagatcattcttctttccaat Alignment from Spaln_aa2Genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG gtattgggggggaacaaaggctgtctcatttttttccccccaatctgcagAAATAGTTGACGGGAACCCTGAAGATGACCCTTGGCATGATTTGGACAATCACCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgttggttgatgcaaaatgcctagttgggccagatcattctttgcctccct Alignment from Spaln_nt2Genome AAATTGTTGACGGGAACC-TGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG gtattgggggggaacaaaggctgtctcatttttttccccccaatctgcagAAATAGTTGACGGGAACCCTGAAGATGACCCTTGGCATGATTTGGACAATCA-CCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgttggttgatgcaaaatgcctagttgggccagatcattctttgcctccct Alignment from Pairagon AAATTGTTGACGGGAA-CCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG gtattgggggggaacaaaggctgtctcatttttttccccccaatctgcagAAATAGTTGACGGGAACCCTGAAGATGACCCTTGGCATGATTTGGACAATCA-CCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgttggttgatgcaaaatgcctagttgggccagatcattctttgcctccct Alignment from Exonerate_protein2genome AAATTGTTGACGGGAAC-CTGAAGATGACCCTGGGCATGATCTGGACCATC--ATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG gtattgggggggaacaaaggctgtctcatttttttccccccaatctgcagAAATAGTTGACGGGAACCCTGAAGATGACCCTTGGCATGATTTGGACAATCAC---CTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgttggttgatgcaaaatgcctagttgggccagatcattctttgcctccct Alignment from Exonerate_coding2genome AAATTGTTGACGGGAAC-CTGAAGATGACCCTGGGCATGATCTGGACCATC--ATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG gtattgggggggaacaaaggctgtctcatttttttccccccaatctgcagAAATAGTTGACGGGAACCCTGAAGATGACCCTTGGCATGATTTGGACAATCAC---CTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgttggttgatgcaaaatgcctagttgggccagatcattctttgcctccct Alignment from GeneWise AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG gtattgggggggaacaaaggctgtctcatttttttccccccaatctgcagAAATAGTTGACGGGAACCCTGAAGATGACCCTTGGCATGATTTGGACAATCACCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgttggttgatgcaaaatgcctagttgggccagatcattctttgcctccct #### Actn3_ID707_3 --> 2 - 1 Original Alignment gaGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAA-GCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAg tggtcttcaactcatgaccttcaacatgacaccatttctgttgtctacaggtGCTAGACTGCCTAGGCCCGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAACGTAAATAACCGCTCTAGACTTCATAGCTACCAAAGGTGTGAAGC-GGTTGCGATTAGTGCTGAAggtaagtgagggtggttaaaggataccagttgtgaggaagcaagatgttat Alignment from CESAR gaGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAA-GCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAg tggtcttcaactcatgaccttcaacatgacaccatttctgttgtctacaggtGCTAGACTGCCTAGGCCCGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAACGTAAATAACCGCTCTAGACTTCATAGCTACCAAAGGTGTGAAG-CGGTTGCGATTAGTGCTGAAggtaagtgagggtggttaaaggataccagttgtgaggaagcaagatgttat Alignment from Spaln_aa2Genome GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAA-GCCCTAGACTTCATTGCCAGCAAAGGAGTTAAG---------CTAGTGTCCATCGGTGCTGAAG tggtcttcaactcatgaccttcaacatgacaccatttctgttgtctacagGTGCTAGACTGCCTAGGCCCGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAACGTAAATAACcGCTCTAGACTTCATAGCTACCAAAGGTGTGAAGCGGTTGCGATTAGTGCTGAAGGTAAGTGAGGgtggttaaaggataccagttgtgaggaagcaagatgttat Alignment from Spaln_nt2Genome GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAA-GCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG tggtcttcaactcatgaccttcaacatgacaccatttctgttgtctacagGTGCTAGACTGCCTAGGCCCGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAACGTAAATAACCGCTCTAGACTTCATAGCTACCAAAGGTGTGAAGC-GGTTGCGATTAGTGCTGAAGgtaagtgagggtggttaaaggataccagttgtgaggaagcaagatgttat Alignment from Pairagon GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAA-AGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGC---------TAGTGTCCATCGGTGCTGAAG tggtcttcaactcatgaccttcaacatgacaccatttctgttgtctacagGTGCTAGACTGCCTAGGCCCGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAACGTAAATAACCGCTCTAGACTTCATAGCTACCAAAGGTGTGAAGCGGTTGCGATTA----------GTGCTGAAGgtaagtgagggtggttaaaggataccagttgtgaggaagcaagatgttat Alignment from Exonerate_protein2genome GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG tggtcttcaactcatgaccttcaacatgacaccatttctgttgtctacagGTGCTAGACTGCCTAGGCCCGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAACGTAAATAACCGCTCTAGACTTCATAGCTACCAAAGGTGTGAAGCGGTTGCGATTAGTGCTGAAGgtaagtgagggtggttaaaggataccagttgtgaggaagcaagatgttat Alignment from Exonerate_coding2genome GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG tggtcttcaactcatgaccttcaacatgacaccatttctgttgtctacagGTGCTAGACTGCCTAGGCCCGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAACGTAAATAACCGCTCTAGACTTCATAGCTACCAAAGGTGTGAAGCGGTTGCGATTAGTGCTGAAGgtaagtgagggtggttaaaggataccagttgtgaggaagcaagatgttat Alignment from GeneWise GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG tggtcttcaactcatgaccttcaacatgacaccatttctgttgtctacagGTGCTAGACTGCCTAGGCCCGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAACGTAAATAACCGCTCTAGACTTCATAGCTACCAAAGGTGTGAAGCGGTTGCGATTAGTGCTGAAGgtaagtgagggtggttaaaggataccagttgtgaggaagcaagatgttat #### Acy3_ID251_5 --> 2 - 0 Original Alignment gcATG------GACTTACCCGCCTTTGAGATGGATATCTAC-AGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagagttatctggaacgatagagatgagccctgtgttttgttctctgcaggtATGGACTCAGACTCAGCAGCATTTGAGATGGATATCTACCAGGAACTTGGGAAGTGTGGACTTCCCTTGCACTG-TGATGGTGACCTAGCCGGCATGGTGCACCCACAAATACAAgtaagtgtactactggtaatcaggtgtcccaagcagcaatatcagaactt Alignment from CESAR gcATG------GACTTACCCGCCTTTGAGATGGATATCTAC-AGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagagttatctggaacgatagagatgagccctgtgttttgttctctgcaggtATGGACTCAGACTCAGCAGCATTTGAGATGGATATCTACCAGGAACTTGGGAAGTGTGGACTTCCCTTGCACTG-TGATGGTGACCTAGCCGGCATGGTGCACCCACAAATACAAgtaagtgtactactggtaatcaggtgtcccaagcagcaatatcagaactt Alignment from Spaln_aa2Genome GCATG------GACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagagttatctggaacgatagagatgagccctgtgttttgttctctgcagGTATGGACTCAGACTCAGCAGCATTTGAGATGGATATCTACCAGGAACTTGGGAAGTGTGGACTTCCCTTGCACTGTGATGGTGACCTAGCCGGCATGGTGCACCCACAAATACAAgtaagtgtactactggtaatcaggtgtcccaagcagcaatatcagaactt Alignment from Spaln_nt2Genome GCATGGACTTACCC------GCCTTTGAGATGGATATCTA-CAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagagttatctggaacgatagagatgagccctgtgttttgttctctgcagGTATGGACTCAGACTCAGCAGCATTTGAGATGGATATCTACCAGGAACTTGGGAAGTGTGGACTTCCCTTGCACTG-TGATGGTGACCTAGCCGGCATGGTGCACCCACAAATACAAgtaagtgtactactggtaatcaggtgtcccaagcagcaatatcagaactt Alignment from Pairagon GCATG------GACTTACCCGCCTTTGAGATGGATATCTA-CAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagagttatctggaacgatagagatgagccctgtgttttgttctctgcagGTATGGACTCAGACTCAGCAGCATTTGAGATGGATATCTACCAGGAACTTGGGAAGTGTGGACTTCCCTTGCACTGT-GATGGTGACCTAGCCGGCATGGTGCACCCACAAATACAAgtaagtgtactactggtaatcaggtgtcccaagcagcaatatcagaactt Alignment from Exonerate_protein2genome GCATG------GACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagagttatctggaacgatagagatgagccctgtgttttgttctctgcagGTATGGACTCAGACTCAGCAGCATTTGAGATGGATATCTACCAGGAACTTGGGAAGTGTGGACTTCCCTTGCACTGTGATGGTGACCTAGCCGGCATGGTGCACCCACAAATACAAgtaagtgtactactggtaatcaggtgtcccaagcagcaatatcagaactt Alignment from Exonerate_coding2genome GCATG------GACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagagttatctggaacgatagagatgagccctgtgttttgttctctgcagGTATGGACTCAGACTCAGCAGCATTTGAGATGGATATCTACCAGGAACTTGGGAAGTGTGGACTTCCCTTGCACTGTGATGGTGACCTAGCCGGCATGGTGCACCCACAAATACAAgtaagtgtactactggtaatcaggtgtcccaagcagcaatatcagaactt Alignment from GeneWise ----------------------------------------------------------------------GCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG GAGAGTTATCTGGAACGATAGAGATGAGCCCTGTGTTTTGTTCTCTGCAGGTATGGACTCAGACTCAGCAGCATTTGAGATGGATATCTACCAGGAACTTGGGAAGTGTGGACTTCCCTTGCACTGTGATGGTGACCTAGCCGGCATGGTGCACCCACAAATACAAgtaagtgtactactggtaatcaggtgtcccaagcagcaatatcagaactt #### Adrbk1_ID478_17 --> 0 - 1 Original Alignment TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAA-CAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGg cttattccttagatctgcctatagcatcaccattgtgctttcccacccagTTACTGGACAGTGACCAGGAGTTGTATCGCATATTCCCTCTTACCATTGCTGAGTGGTGGCAACCAGGAGGTGGCAGAGACCGTTTTT---ACCA-CAATGCTGAAACAGACCGTCTTGAGGCACAA------------AACAAACAACTAGGTCAGGGGGAAggtaaaaacattccacccatcttagactgcaggagcaaaggctagaaggca Alignment from CESAR TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAA-CAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGg cttattccttagatctgcctatagcatcaccattgtgctttcccacccagTTACTGGACAGTGACCAGGAGTTGTATCGCATATTCCCTCTTACCATTGCTGAGTGGTGGCAACCAGGAGGTGGCAGAGACCGTTTTT---ACC-ACAATGCTGAAACAGACCGTCTTGAGGCACAA------------AACAAACAACTAGGTCAGGGGGAAggtaaaaacattccacccatcttagactgcaggagcaaaggctagaaggca Alignment from Spaln_aa2Genome cttattccttagatctgcctatagcatcaccattgtgctttcccacccagttactggacagtgaccaggagttgtatcgcatattccctcttaccattgctgagtggtggcaaccaggaggtggcagagaccgtttttaccacaatgctgaaacagaccgtcttgaggcacaaaacaaacaactaggtcagggggaaggtaaaaacattccacccatcttagactgcaggagcaaaggctagaaggca Alignment from Spaln_nt2Genome TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAA-CAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGG cttattccttagatctgcctatagcatcaccattgtgctttcccacccagTTACTGGACAGTGACCAGGAGTTGTATCGCATATTCCCTCTTACCATTGCTGAGTGGTGGCAACCAGGAGGTGGCAGAGACCGTTTT---TACCA-CAATGCTGAAACAGACCGTCTTGAGGCAC------------AAAACAAACAACTAGGTCAGGGGGAAGgtaaaaacattccacccatcttagactgcaggagcaaaggctagaaggca Alignment from Pairagon TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAA-CAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGG cttattccttagatctgcctatagcatcaccattgtgctttcccacccagTTACTGGACAGTGACCAGGAGTTGTATCGCATATTCCCTCTTACCATTGCTGAGTGGTGGCAACCAGGAGGTGGCAGAGACCGTTTT---TACCA-CAATGCTGAAACAGACCGTCTTGAGGCAC------------AAAACAAACAACTAGGTCAGGGGGAAGgtaaaaacattccacccatcttagactgcaggagcaaaggctagaaggca Alignment from Exonerate_protein2genome TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGG cttattccttagatctgcctatagcatcaccattgtgctttcccacccagTTACTGGACAGTGACCAGGAGTTGTATCGCATATTCCCTCTTACCATTGCTGAGTGGTGGCAACCAGGAGGTGGCAGAGACCGTTTT---TACCACAATGCTGAAACAGACCGTCTTGAG------------GCACAAAACAAACAACTAGGTCAGGGGGAAGgtaaaaacattccacccatcttagactgcaggagcaaaggctagaaggca Alignment from Exonerate_coding2genome TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGG cttattccttagatctgcctatagcatcaccattgtgctttcccacccagTTACTGGACAGTGACCAGGAGTTGTATCGCATATTCCCTCTTACCATTGCTGAGTGGTGGCAACCAGGAGGTGGCAGAGACCGTTTT---TACCACAATGCTGAAACAGACCGTCTTGAG------------GCACAAAACAAACAACTAGGTCAGGGGGAAGgtaaaaacattccacccatcttagactgcaggagcaaaggctagaaggca Alignment from GeneWise TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGG cttattccttagatctgcctatagcatcaccattgtgctttcccacccagTTACTGGACAGTGACCAGGAGTTGTATCGCATATTCCCTCTTACCATTGCTGAGTGGTGGCAACCAGGAGGTGGCAGAGACCGTTTT---TACCACAATGCTGAAACAGACCGTCTTGAGGCACAA------------AACAAACAACTAGGTCAGGGGGAAGgtaaaaacattccacccatcttagactgcaggagcaaaggctagaaggca #### Adrbk1_ID480_15 --> 1 - 0 Original Alignment gGCTCAGGAGGTAAAA-GAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG catctgaatgccatgtaataagcaacaagtctcccttacctgctccccaggGCTCAGGAGGTAAAACGAAAGTCCTTTCTTTCATTCTCTGGCCT-GCAGATGGCATTTTTACAGAAGgtaagaatataatccatagggagggtgtgttctctggtgcctctctctgc Alignment from CESAR gGCTCAGGAGGTAAAA-GAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG catctgaatgccatgtaataagcaacaagtctcccttacctgctccccaggGCTCAGGAGGTAAAACGAAAGTCCTTTCTTTCATTCTCTGGCC-TGCAGATGGCATTTTTACAGAAGgtaagaatataatccatagggagggtgtgttctctggtgcctctctctgc Alignment from Spaln_aa2Genome catctgaatgccatgtaataagcaacaagtctcccttacctgctccccagggctcaggaggtaaaacgaaagtcctttctttcattctctggcctgcagatggcatttttacagaaggtaagaatataatccatagggagggtgtgttctctggtgcctctctctgc Alignment from Spaln_nt2Genome catctgaatgccatgtaataagcaacaagtctcccttacctgctccccagggctcaggaggtaaaacgaaagtcctttctttcattctctggcctgcagatggcatttttacagaaggtaagaatataatccatagggagggtgtgttctctggtgcctctctctgc Alignment from Pairagon GGCTCAGGAGGTAAAA-GAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG catctgaatgccatgtaataagcaacaagtctcccttacctgctccccagGGCTCAGGAGGTAAAACGAAAGTCCTTTCTTTCATTCTCTGGCCT-GCAGATGGCATTTTTACAGAAGgtaagaatataatccatagggagggtgtgttctctggtgcctctctctgc Alignment from Exonerate_protein2genome GGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG catctgaatgccatgtaataagcaacaagtctcccttacctgctccccagGGCTCAGGAGGTAAAACGAAAGTCCTTTCTTTCATTCTCTGGCCTGCAGATGGCATTTTTACAGAAGgtaagaatataatccatagggagggtgtgttctctggtgcctctctctgc Alignment from Exonerate_coding2genome GGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG catctgaatgccatgtaataagcaacaagtctcccttacctgctccccagGGCTCAGGAGGTAAAACGAAAGTCCTTTCTTTCATTCTCTGGCCTGCAGATGGCATTTTTACAGAAGgtaagaatataatccatagggagggtgtgttctctggtgcctctctctgc Alignment from GeneWise -GCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG catctgaatgccatgtaataagcaacaagtctcccttacctgctccccagGGCTCAGGAGGTAAAACGAAAGTCCTTTCTTTCATTCTCTGGCCTGCAGATGGCATTTTTACAGAAGgtaagaatataatccatagggagggtgtgttctctggtgcctctctctgc #### Adrbk1_ID487_8 --> 1 - 0 Original Alignment gTACGCCATGAAGTGTCTG---GACAAGAAACGCATCAAGATGAAGCAG-GGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG gattgccctgacttgctgggcatgcttatgacctaggctttcctccacaggCATGCTAAGAGGTGTTTGGAAAACAAGAAACACATCAAGATGAAACAGCGGAGAGACACTGGCTCTGAATACGCGGATTATGC-ATCACTTGTGAGCACTGGGgtaagtcaagtggtcaggtggactcccacttagcttgccttctatgattc Alignment from CESAR gTACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAG-GGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG gattgccctgacttgctgggcatgcttatgacctaggctttcctccacaggCATGCTAAGAGGTGTTTGGAAAACAAGAAACACATCAAGATGAAACAGCGGAGAGACACTGGCTCTGAATACGCGGATTATG-CATCACTTGTGAGCACTGGGgtaagtcaagtggtcaggtggactcccacttagcttgccttctatgattc Alignment from Spaln_aa2Genome GTACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG gattgccctgacttgctgggcatgcttatgacctaggctttcctccacagGCATGCTAAGAGGTGTTTGGAAAACAAGAAACACATCAAGATGAAACAGCGGAGAGACACTGGCTCTGAATACGCGGATTATGCATCACTTGTGAGCACTGGGgtaagtcaagtggtcaggtggactcccacttagcttgccttctatgattc Alignment from Spaln_nt2Genome GTACGCCATGAAGTGTCTGGA---CAAGAAACGCATCAAGATGAAGCAG-GGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG gattgccctgacttgctgggcatgcttatgacctaggctttcctccacagGCATGCTAAGAGGTGTTTGGAAAACAAGAAACACATCAAGATGAAACAGCGGAGAGACACTGGCTCTGAATACGCGGATTATGC-ATCACTTGTGAGCACTGGGgtaagtcaagtggtcaggtggactcccacttagcttgccttctatgattc Alignment from Pairagon GTACGCCATGAAGTGTCTGG---ACAAGAAACGCATCAAGATGAAGCAG-GGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG gattgccctgacttgctgggcatgcttatgacctaggctttcctccacagGCATGCTAAGAGGTGTTTGGAAAACAAGAAACACATCAAGATGAAACAGCGGAGAGACACTGGCTCTGAATACGCGGATTATGC-ATCACTTGTGAGCACTGGGgtaagtcaagtggtcaggtggactcccacttagcttgccttctatgattc Alignment from Exonerate_protein2genome GTACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG gattgccctgacttgctgggcatgcttatgacctaggctttcctccacagGCATGCTAAGAGGTGTTTGGAAAACAAGAAACACATCAAGATGAAACAGCGGAGAGACACTGGCTCTGAATACGCGGATTATGCATCACTTGTGAGCACTGGGgtaagtcaagtggtcaggtggactcccacttagcttgccttctatgattc Alignment from Exonerate_coding2genome GTACGCCATGAAGTGTCTGGACAAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCA gattgccctgacttgctgggcatgcttatgacctaggctttcctccacaggcatgctaagaggtgtttggaaaacaagaaacacatcaagatgaaacagcggagagacactggctctgaatacgcgGATTATGCATCACTTGTGAGCACTGGGGTAAGTCAAGTGGTCAGGTGGACTCCCACTTAGCTTGCCTTCTATGATTC Alignment from GeneWise GTACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG gattgccctgacttgctgggcatgcttatgacctaggctttcctccacagGCATGCTAAGAGGTGTTTGGAAAACAAGAAACACATCAAGATGAAACAGCGGAGAGACACTGGCTCTGAATACGCGGATTATGCATCACTTGTGAGCACTGGGgtaagtcaagtggtcaggtggactcccacttagcttgccttctatgattc #### Adrbk1_ID488_7 --> 0 - 2 Original Alignment CTGACCATGAATGACTTCAGT-GTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAGat agcacaccagcaacactataagagtagttctcccctcccctcttaaccagCTGACCATGAATGATTTTAGTCGTACATCAAATTATCGGACATGGTGGCT-TGGTGAGGTATATGGTTGCCGCAAGGCAGATGTAGGCAAGatgtaaggagtggaccagtagaggtggccatcaaaggggccaggctttgcat Alignment from CESAR CTGACCATGAATGACTTCAGT-GTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAGat agcacaccagcaacactataagagtagttctcccctcccctcttaaccagCTGACCATGAATGATTTTAGTCGTACATCAAATTATCGGACATGGTGGC-TTGGTGAGGTATATGGTTGCCGCAAGGCAGATGTAGGCAAGatgtaaggagtggaccagtagaggtggccatcaaaggggccaggctttgcat Alignment from Spaln_aa2Genome CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAGAT agcacaccagcaacactataagagtagttctcccctcccctcttaaccagCTGACCATGAATGATTTTAGTCGTACATCAAATTATCGGACATGGTGGCTTGGTGAGGTATATGGTTGCCGCAAGGCAGATGTAGGCAAGATgtaaggagtggaccagtagaggtggccatcaaaggggccaggctttgcat Alignment from Spaln_nt2Genome CTGACCATGAATGACTTCAGT-GTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAGAT agcacaccagcaacactataagagtagttctcccctcccctcttaaccagCTGACCATGAATGATTTTAGTCGTACATCAAATTATCGGACATGGTGGCTT-GGTGAGGTATATGGTTGCCGCAAGGCAGATGTAGGCAAGATgtaaggagtggaccagtagaggtggccatcaaaggggccaggctttgcat Alignment from Pairagon CTGACCATGAATGACTTCAGT-GTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAGAT agcacaccagcaacactataagagtagttctcccctcccctcttaaccagCTGACCATGAATGATTTTAGTCGTACATCAAATTATCGGACATGGTGGCTT-GGTGAGGTATATGGTTGCCGCAAGGCAGATGTAGGCAAGATgtaaggagtggaccagtagaggtggccatcaaaggggccaggctttgcat Alignment from Exonerate_protein2genome CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAGAT agcacaccagcaacactataagagtagttctcccctcccctcttaaccagCTGACCATGAATGATTTTAGTCGTACATCAAATTATCGGACATGGTGGCTTGGTGAGGTATATGGTTGCCGCAAGGCAGATGTAGGCAAGATgtaaggagtggaccagtagaggtggccatcaaaggggccaggctttgcat Alignment from Exonerate_coding2genome ACAAGTTCACACGGTTCTGCCAGTGGAAGAATGTTGAGCTCAACATCCACCTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAGAT AGCACACCAGCAACACTATAAGAGTAGTTCTCCCCTCCCCTCTTAACCAGCTGACCATGAATGATTTTAGTCGTACATCAAATTATCGGACATGGTGGCTTGGTGAGGTATATGGTTGCCGCAAGGCAGATGTAGGCAAGATgtaaggagtggaccagtagaggtggccatcaaaggggccaggctttgcat Alignment from GeneWise CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAGAT agcacaccagcaacactataagagtagttctcccctcccctcttaaccagCTGACCATGAATGATTTTAGTCGTACATCAAATTATCGGACATGGTGGCTTGGTGAGGTATATGGTTGCCGCAAGGCAGATGTAGGCAAGATgtaaggagtggaccagtagaggtggccatcaaaggggccaggctttgcat #### Adrbk1_ID491_4 --> 0 - 0 Original Alignment CCCTTTTCAAAGAATGCT-ACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG tattccattttgtttgtttatgttcatacctcccaactctgcccacacagCCCTTCTCCCAAAATGCTCGCAGAGCATGTGCAGGCCCACCTTGTGAAGAAGCAGG-CCCTCCAGATCTGTTTCAGgtgcgtttggggtgatcatcatggtatcagacattggtaagatgtcactc Alignment from CESAR CCCTTTTCAAAGAATGCT-ACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG tattccattttgtttgtttatgttcatacctcccaactctgcccacacagCCCTTCTCCCAAAATGCTCGCAGAGCATGTGCAGGCCCACCTTGTGAAGAAGCAG-GCCCTCCAGATCTGTTTCAGgtgcgtttggggtgatcatcatggtatcagacattggtaagatgtcactc Alignment from Spaln_aa2Genome CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG tattccattttgtttgtttatgttcatacctcccaactctgcccacacagCCCTTCTCCCAAAATGCTCGCAGAGCATGTGCAGGCCCACCTTGTGAAGAAGCAGGCCCTCCAGATCTGTTTCAGgtgcgtttggggtgatcatcatggtatcagacattggtaagatgtcactc Alignment from Spaln_nt2Genome CCCTTTTCAAAGAATGCTA-CGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG tattccattttgtttgtttatgttcatacctcccaactctgcccacacagCCCTTCTCCCAAAATGCTCGCAGAGCATGTGCAGGCCCACCTTGTGAAGAAGCAGG-CCCTCCAGATCTGTTTCAGgtgcgtttggggtgatcatcatggtatcagacattggtaagatgtcactc Alignment from Pairagon CCCTTTTCAAAGAATGCT-ACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG tattccattttgtttgtttatgttcatacctcccaactctgcccacacagCCCTTCTCCCAAAATGCTCGCAGAGCATGTGCAGGCCCACCTTGTGAAGAAGCAGGC-CCTCCAGATCTGTTTCAGgtgcgtttggggtgatcatcatggtatcagacattggtaagatgtcactc Alignment from Exonerate_protein2genome CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG tattccattttgtttgtttatgttcatacctcccaactctgcccacacagCCCTTCTCCCAAAATGCTCGCAGAGCATGTGCAGGCCCACCTTGTGAAGAAGCAGGCCCTCCAGATCTGTTTCAGgtgcgtttggggtgatcatcatggtatcagacattggtaagatgtcactc Alignment from Exonerate_coding2genome CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG tattccattttgtttgtttatgttcatacctcccaactctgcccacacagCCCTTCTCCCAAAATGCTCGCAGAGCATGTGCAGGCCCACCTTGTGAAGAAGCAGGCCCTCCAGATCTGTTTCAGgtgcgtttggggtgatcatcatggtatcagacattggtaagatgtcactc Alignment from GeneWise CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG tattccattttgtttgtttatgttcatacctcccaactctgcccacacagCCCTTCTCCCAAAATGCTCGCAGAGCATGTGCAGGCCCACCTTGTGAAGAAGCAGGCCCTCCAGATCTGTTTCAGgtgcgtttggggtgatcatcatggtatcagacattggtaagatgtcactc #### Adrbk1_ID492_3 --> 0 - 0 Original Alignment ATCAAGAAATATGAGAAG-CTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccacccacagccagcttcatacagtggccattgttaaccttgttttatagATTAAAAAATATGCAAAGCCTGGAGACAGAGGAGGAATGTGTGGTCCGCAGCCGAGAGA-CTTTGAGTCCTACATTATGAAGGAGCTCCTCGCATGCTCACATgtaagcgctgaatccatccaatactcctagatatgtgggcttaaagagac Alignment from CESAR ATCAAGAAATATGAGAAG-CTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccacccacagccagcttcatacagtggccattgttaaccttgttttatagATTAAAAAATATGCAAAGCCTGGAGACAGAGGAGGAATGTGTGGTCCGCAGCCGAGAG-ACTTTGAGTCCTACATTATGAAGGAGCTCCTCGCATGCTCACATgtaagcgctgaatccatccaatactcctagatatgtgggcttaaagagac Alignment from Spaln_aa2Genome ATCAAGAAATATGAGAAG-CTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccacccacagccagcttcatacagtggccattgttaaccttgttttatagATTAAAAAATATGCAAAGcCTGGAGACAGAGGAGGAATGTGTGGTCCGCAGCCGAGAGAC-TTTGAGTCCTACATTATGAAGGAGCTCCTCGCATGCTCACATgtaagcgctgaatccatccaatactcctagatatgtgggcttaaagagac Alignment from Spaln_nt2Genome ATCAAGAAATATGAGAAGC-TGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccacccacagccagcttcatacagtggccattgttaaccttgttttatagATTAAAAAATATGCAAAGCCTGGAGACAGAGGAGGAATGTGTGGTCCGCAGCCGAGAGA-CTTTGAGTCCTACATTATGAAGGAGCTCCTCGCATGCTCACATgtaagcgctgaatccatccaatactcctagatatgtgggcttaaagagac Alignment from Pairagon ATCAAGAAATATGAGAAG-CTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccacccacagccagcttcatacagtggccattgttaaccttgttttatagATTAAAAAATATGCAAAGCCTGGAGACAGAGGAGGAATGTGTGGTCCGCAGCCGAGAGA-CTTTGAGTCCTACATTATGAAGGAGCTCCTCGCATGCTCACATgtaagcgctgaatccatccaatactcctagatatgtgggcttaaagagac Alignment from Exonerate_protein2genome ATCAAGAAATATGAGAAG-CTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAG--ATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccacccacagccagcttcatacagtggccattgttaaccttgttttatagATTAAAAAATATGCAAAGCCTGGAGACAGAGGAGGAATGTGTGGTCCGCAGCCGAGAGAC---TTTGAGTCCTACATTATGAAGGAGCTCCTCGCATGCTCACATgtaagcgctgaatccatccaatactcctagatatgtgggcttaaagagac Alignment from Exonerate_coding2genome ATCAAGAAATATGAGAAGCT---GGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccacccacagccagcttcatacagtggccattgttaaccttgttttatagATTAAAAAATATGCAAAG--CCTGGAGACAGAGGAGGAATGTGTGGTCCGCAGCCGAGAGAC-TTTGAGTCCTACATTATGAAGGAGCTCCTCGCATGCTCACATgtaagcgctgaatccatccaatactcctagatatgtgggcttaaagagac Alignment from GeneWise ----------TATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccacccacagccagcttcatacagtggccattgttaaccttgttttatagATTAAAAAATATGCAAAGCCTGGAGACAGAGGAGGAATGTGTGGTCCGCAGCCGAGAGAC-TTTGAGTCCTACATTATGAAGGAGCTCCTCGCATGCTCACATgtaagcgctgaatccatccaatactcctagatatgtgggcttaaagagac #### Afap1l2_ID12248_15 --> 0 - 0 Original Alignment GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCA-AAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG acacaccaaccatggcagcatcagagggctcactgtccctctcccttcagGTGGAACCCGCTGAAGAAGCAGCT---ACTGTTGACGCTAACAGTGGTAGTGAGCCAGACAGAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCATAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGCCGCACCAGGATGACATAGCTGAGACCCTTACAGTAGACCCACGAGTCCATCACTACCCAAGAGGAGCCCCATACG---G-ACCGGGAGATCCTGAGTTGCAGCAGgtaagagtggtctgcttactaactacatcacctgctctctaaacctgaag Alignment from CESAR GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCA-AAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG acacaccaaccatggcagcatcagagggctcactgtccctctcccttcagGTGGAACCCGCTGAAGAAGCAGCT---ACTGTTGACGCTAACAGTGGTAGTGAGCCAGACAGAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCATAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGCCGCACCAGGATGACATAGCTGAGACCCTTACAGTAGACCCACGAGTCCATCACTACCCAAGAGGAGCCCCATACGG-A---CCGGGAGATCCTGAGTTGCAGCAGgtaagagtggtctgcttactaactacatcacctgctctctaaacctgaag Alignment from Spaln_aa2Genome GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG acacaccaaccatggcagcatcagagggctcactgtccctctcccttcagGTGGAACCCGCTGAAGAAGCAGCT---ACTGTTGACGCTAACAGTGGTAGTGAGCCAGACAGAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCATAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGCCGCACCAGGATGACATAGCTGAGACCCTTACAGTAGACCCACGAGTCCATCACTACCCAAGAGGAGCCCCATAC---GGACCGGGAGATCCTGAGTTGCAGCAGgtaagagtggtctgcttactaactacatcacctgctctctaaacctgaag Alignment from Spaln_nt2Genome GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAA-AGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG acacaccaaccatggcagcatcagagggctcactgtccctctcccttcagGTGGAACCCGCTGAAGAAGCAG---CTACTGTTGACGCTAACAGTGGTAGTGAGCCAGACAGAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCATAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGCCGCACCAGGATGACATAGCTGAGACCCTTACAGTAGACCCACGAGTCCATCACTACCCAAGAGGAGCCCCATACGGA----CCGGGAGATCCTGAGTTGCAGCAGgtaagagtggtctgcttactaactacatcacctgctctctaaacctgaag Alignment from Pairagon GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCA-AAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG acacaccaaccatggcagcatcagagggctcactgtccctctcccttcagGTGGAACCCGCTGAAGAAGCAG---CTACTGTTGACGCTAACAGTGGTAGTGAGCCAGACAGAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCATAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGCCGCACCAGGATGACATAGCTGAGACCCTTACAGTAGACCCACGAGTCCATCACTACCCAAGAGGAGCCCCATACGGA----CCGGGAGATCCTGAGTTGCAGCAGgtaagagtggtctgcttactaactacatcacctgctctctaaacctgaag Alignment from Exonerate_protein2genome GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG acacaccaaccatggcagcatcagagggctcactgtccctctcccttcagGTGGAACCCGCTGAAGAAGCAGCT---ACTGTTGACGCTAACAGTGGTAGTGAGCCAGACAGAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCATAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGCCGCACCAGGATGACATAGCTGAGACCCTTACAGTAGACCCACGAGTCCATCACTACCCAAGAGGAGCC---CCATACGGACCGGGAGATCCTGAGTTGCAGCAGgtaagagtggtctgcttactaactacatcacctgctctctaaacctgaag Alignment from Exonerate_coding2genome GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG acacaccaaccatggcagcatcagagggctcactgtccctctcccttcagGTGGAACCCGCTGAAGAAGCAGCT---ACTGTTGACGCTAACAGTGGTAGTGAGCCAGACAGAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCATAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGCCGCACCAGGATGACATAGCTGAGACCCTTACAGTAGACCCACGAGTCCATCACTACCCAAGAGGAGCC---CCATACGGACCGGGAGATCCTGAGTTGCAGCAGgtaagagtggtctgcttactaactacatcacctgctctctaaacctgaag Alignment from GeneWise GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAG---GAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG acacaccaaccatggcagcatcagagggctcactgtccctctcccttcagGTGGAACCCGCTGAAGAAGCAGCT---ACTGTTGACGCTAACAGTGGTAGTGAGCCAGACAGAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCATAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGCCGCACCAGGATGACATAGCTGAGACCCTTACAGTAGACCCACGAGTCCATCACTACCCAAGAGGAGCCCCATAC------GGACCGGGAGATCCTGAGTTGCAGCAGgtaagagtggtctgcttactaactacatcacctgctctctaaacctgaag #### Aip_ID330_5 --> 0 - 1 Original Alignment GAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGAC-CTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATg gctgccatggctgcagctgagacttaccgctctctcctccacctccacagGAGCAGCCTGGCTCATCTGACTGGGTCCAGTTAGACCCTGCAGATCACACCACTGCTACCCAATTATTGCCAGTGCA-GCTGGTAGCTCCAGAGTATTATGAAGTGTTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTggtatgtatcatgcccaattacaacccagacttcccataagttgcagaggc Alignment from CESAR GAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGAC-CTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATg gctgccatggctgcagctgagacttaccgctctctcctccacctccacagGAGCAGCCTGGCTCATCTGACTGGGTCCAGTTAGACCCTGCAGATCACACCACTGCTACCCAATTATTGCCAGT-GCAGCTGGTAGCTCCAGAGTATTATGAAGTGTTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTggtatgtatcatgcccaattacaacccagacttcccataagttgcagaggc Alignment from Spaln_aa2Genome GAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG gctgccatggctgcagctgagacttaccgctctctcctccacctccacagGAGCAGCCTGGCTCATCTGACTGGGTCCAGTTAGACCCTGCAGATCACACCACTGCTACCCAATTATTGCCAGTGCAGCTGGTAGCTCCAGAGTATTATGAAGTGTTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtatgtatcatgcccaattacaacccagacttcccataagttgcagaggc Alignment from Spaln_nt2Genome GAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGACC-TGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG gctgccatggctgcagctgagacttaccgctctctcctccacctccacagGAGCAGCCTGGCTCATCTGACTGGGTCCAGTTAGACCCTGCAGATCACACCACTGCTACCCAATTATTGCCAGTGC-AGCTGGTAGCTCCAGAGTATTATGAAGTGTTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtatgtatcatgcccaattacaacccagacttcccataagttgcagaggc Alignment from Pairagon GAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGA-CCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG gctgccatggctgcagctgagacttaccgctctctcctccacctccacagGAGCAGCCTGGCTCATCTGACTGGGTCCAGTTAGACCCTGCAGATCACACCACTGCTACCCAATTATTGCCAGTGC-AGCTGGTAGCTCCAGAGTATTATGAAGTGTTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtatgtatcatgcccaattacaacccagacttcccataagttgcagaggc Alignment from Exonerate_protein2genome GAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGAC-CTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGC--AAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG gctgccatggctgcagctgagacttaccgctctctcctccacctccacagGAGCAGCCTGGCTCATCTGACTGGGTCCAGTTAGACCCTGCAGATCACACCACTGCTACCCAATTATTGCCAGTGCAG---CTGGTAGCTCCAGAGTATTATGAAGTGTTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtatgtatcatgcccaattacaacccagacttcccataagttgcagaggc Alignment from Exonerate_coding2genome GAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGA---CCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG gctgccatggctgcagctgagacttaccgctctctcctccacctccacagGAGCAGCCTGGCTCATCTGACTGGGTCCAGTTA--GACCCTGCAGATCACACCACTGCTACCCAATTATTGCCAGTGCAG-CTGGTAGCTCCAGAGTATTATGAAGTGTTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtatgtatcatgcccaattacaacccagacttcccataagttgcagaggc Alignment from GeneWise GAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG gctgccatggctgcagctgagacttaccgctctctcctccacctccacagGAGCAGCCTGGCTCATCTGACTGGGTCCAGTTAGACCCTGCAGATCACACCACTGCTACCCAATTATTGCCAGTGCAGCTGGTAGCTCCAGAGTATTATGAAGTGTTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtatgtatcatgcccaattacaacccagacttcccataagttgcagaggc #### Aip_ID331_4 --> 0 - 0 Original Alignment GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAGGCAGTA-CCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG catcggtggcagctgtccatgggacatggctctgtctcttgtacctgcagGTAGAAAGTCCTGGTACCTATCAACAGGACCCTTGGGCAATGACAGATGAGGAGAAAGCAAAGGAAGTACCCTGTCATCCACCAGGAAGGCAACCGGT-GTATCGTGAAAGCCAGGTGAGGGAGGCTGCTGCCAAGTACTACGATGCCATTGCTTCCCTCAAGAATCTGCAAATGAAAgtaagtctcatagtcacaatagtaggaaatgaagtacacatggctgccat Alignment from CESAR GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAGGCAGTA-CCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG catcggtggcagctgtccatgggacatggctctgtctcttgtacctgcagGTAGAAAGTCCTGGTACCTATCAACAGGACCCTTGGGCAATGACAGATGAGGAGAAAGCAAAGGAAGTACCCTGTCATCCACCAGGAAGGCAACC-GGTGTATCGTGAAAGCCAGGTGAGGGAGGCTGCTGCCAAGTACTACGATGCCATTGCTTCCCTCAAGAATCTGCAAATGAAAgtaagtctcatagtcacaatagtaggaaatgaagtacacatggctgccat Alignment from Spaln_aa2Genome GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAGGCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG catcggtggcagctgtccatgggacatggctctgtctcttgtacctgcagGTAGAAAGTCCTGGTACCTATCAACAGGACCCTTGGGCAATGACAGATGAGGAGAAAGCAAAGGAAGTACCCTGTCATCCACCAGGAAGGCAACCGGTGTATCGTGAAAGCCAGGTGAGGGAGGCTGCTGCCAAGTACTACGATGCCATTGCTTCCCTCAAGAATCTGCAAATGAAAgtaagtctcatagtcacaatagtaggaaatgaagtacacatggctgccat Alignment from Spaln_nt2Genome GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAGGCAGTACCA-GTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG catcggtggcagctgtccatgggacatggctctgtctcttgtacctgcagGTAGAAAGTCCTGGTACCTATCAACAGGACCCTTGGGCAATGACAGATGAGGAGAAAGCAAAGGAAGTACCCTGTCATCCACCAGGAAGGCAACCGG-TGTATCGTGAAAGCCAGGTGAGGGAGGCTGCTGCCAAGTACTACGATGCCATTGCTTCCCTCAAGAATCTGCAAATGAAAgtaagtctcatagtcacaatagtaggaaatgaagtacacatggctgccat Alignment from Pairagon GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAGGCAGTACCA-GTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG catcggtggcagctgtccatgggacatggctctgtctcttgtacctgcagGTAGAAAGTCCTGGTACCTATCAACAGGACCCTTGGGCAATGACAGATGAGGAGAAAGCAAAGGAAGTACCCTGTCATCCACCAGGAAGGCAACCGG-TGTATCGTGAAAGCCAGGTGAGGGAGGCTGCTGCCAAGTACTACGATGCCATTGCTTCCCTCAAGAATCTGCAAATGAAAgtaagtctcatagtcacaatagtaggaaatgaagtacacatggctgccat Alignment from Exonerate_protein2genome GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAGGCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG catcggtggcagctgtccatgggacatggctctgtctcttgtacctgcagGTAGAAAGTCCTGGTACCTATCAACAGGACCCTTGGGCAATGACAGATGAGGAGAAAGCAAAGGAAGTACCCTGTCATCCACCAGGAAGGCAACCGGTGTATCGTGAAAGCCAGGTGAGGGAGGCTGCTGCCAAGTACTACGATGCCATTGCTTCCCTCAAGAATCTGCAAATGAAAgtaagtctcatagtcacaatagtaggaaatgaagtacacatggctgccat Alignment from Exonerate_coding2genome GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAGGCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG catcggtggcagctgtccatgggacatggctctgtctcttgtacctgcagGTAGAAAGTCCTGGTACCTATCAACAGGACCCTTGGGCAATGACAGATGAGGAGAAAGCAAAGGAAGTACCCTGTCATCCACCAGGAAGGCAACCGGTGTATCGTGAAAGCCAGGTGAGGGAGGCTGCTGCCAAGTACTACGATGCCATTGCTTCCCTCAAGAATCTGCAAATGAAAgtaagtctcatagtcacaatagtaggaaatgaagtacacatggctgccat Alignment from GeneWise GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAGGCAGTACCAGTCATCCACCAAGAGGGCAACCGG---TTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG catcggtggcagctgtccatgggacatggctctgtctcttgtacctgcagGTAGAAAGTCCTGGTACCTATCAACAGGACCCTTGGGCAATGACAGATGAGGAGAAAGCAAAGGAAGTACCC---TGTCATCCACCAGGAAGGCAACCGGTGTATCGTGAAAGCCAGGTGAGGGAGGCTGCTGCCAAGTACTACGATGCCATTGCTTCCCTCAAGAATCTGCAAATGAAAgtaagtctcatagtcacaatagtaggaaatgaagtacacatggctgccat #### Aldh3b1_ID204_3 --> 0 - 1 Original Alignment GCTACACAGCTGGACTCA-GCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAg atgtttagagcccccctcaggaccacatctttctgtctgtttcccctcagGCTACAATGTTGGATGCCCACATTCATCAGGAAGGAGCCCTTTGGGCTGGTGC-AATCATTGTGCCCTGGAATTACCCCATCAACTTGACACTTGTGCCACTGGTGGGGGCTGTAGCTGCAggtaaggagtttttaaccttctggctgaggcttctgcatttgtcatgtagt Alignment from CESAR GCTACACAGCTGGACTCA-GCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAg atgtttagagcccccctcaggaccacatctttctgtctgtttcccctcagGCTACAATGTTGGATGCCCACATTCATCAGGAAGGAGCCCTTTGGGCTGGTG-CAATCATTGTGCCCTGGAATTACCCCATCAACTTGACACTTGTGCCACTGGTGGGGGCTGTAGCTGCAggtaaggagtttttaaccttctggctgaggcttctgcatttgtcatgtagt Alignment from Spaln_aa2Genome GCTACACAGCTGGACTCA-GCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG atgtttagagcccccctcaggaccacatctttctgtctgtttcccctcagGCTACAATGTTGGATGCCcACATTCATCAGGAAGGAGCCCTTTGGGCTGGTGCA-ATCATTGTGCCCTGGAATTACCCCATCAACTTGACACTTGTGCCACTGGTGGGGGCTGTAGCTGCAGgtaaggagtttttaaccttctggctgaggcttctgcatttgtcatgtagt Alignment from Spaln_nt2Genome GCTACACAGCTGGACTCAGCC-TTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG atgtttagagcccccctcaggaccacatctttctgtctgtttcccctcagGCTACAATGTTGGATGCCCACATTCATCAGGAAGGAGCCCTTTGGGCTGGTGC-AATCATTGTGCCCTGGAATTACCCCATCAACTTGACACTTGTGCCACTGGTGGGGGCTGTAGCTGCAGgtaaggagtttttaaccttctggctgaggcttctgcatttgtcatgtagt Alignment from Pairagon GCTA--------------CACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG atgtttagagcccccctcaggaccacatctttctgtctgtttcccctcagGCTACAATGTTGGATGCCCACA-------------TTCATCAGGAAGGAGCCCTTTGGGCTGGTGC-AATCATTGTGCCCTGGAATTACCCCATCAACTTGACACTTGTGCCACTGGTGGGGGCTGTAGCTGCAGgtaaggagtttttaaccttctggctgaggcttctgcatttgtcatgtagt Alignment from Exonerate_protein2genome GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG atgtttagagcccccctcaggaccacatctttctgtctgtttcccctcagGCTACAATGTTGGATGCCCACATTCATCAGGAAGGAGCCCTTTGGGCTGGTGCAATCATTGTGCCCTGGAATTACCCCATCAACTTGACACTTGTGCCACTGGTGGGGGCTGTAGCTGCAGgtaaggagtttttaaccttctggctgaggcttctgcatttgtcatgtagt Alignment from Exonerate_coding2genome GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG atgtttagagcccccctcaggaccacatctttctgtctgtttcccctcagGCTACAATGTTGGATGCCCACATTCATCAGGAAGGAGCCCTTTGGGCTGGTGCAATCATTGTGCCCTGGAATTACCCCATCAACTTGACACTTGTGCCACTGGTGGGGGCTGTAGCTGCAGgtaaggagtttttaaccttctggctgaggcttctgcatttgtcatgtagt Alignment from GeneWise GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG atgtttagagcccccctcaggaccacatctttctgtctgtttcccctcagGCTACAATGTTGGATGCCCACATTCATCAGGAAGGAGCCCTTTGGGCTGGTGCAATCATTGTGCCCTGGAATTACCCCATCAACTTGACACTTGTGCCACTGGTGGGGGCTGTAGCTGCAGgtaaggagtttttaaccttctggctgaggcttctgcatttgtcatgtagt #### Aldh3b2_ID238_4 --> 0 - 1 Original Alignment CTCACCAAGCTGAGCTCAGCCTTC-ATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg ttaagagtctaccattcaatttaccacaatattaaaatctctttttgaagCTCACAAAGCTTAGCTCCGCTTTCCATCCGGAAAGAGCCCTTTGGTCTTGTTCTAATCATTGCAC-TTGGAATTATCCTGTAAACTTGATGATCATACCTCAGGTGGGAGCCATTGCTGCAggtgagtgaaatattatggccacccatctagatgagagtgccctaagggga Alignment from CESAR CTCACCAAGCTGAGCTCAGCCTTC-ATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg ttaagagtctaccattcaatttaccacaatattaaaatctctttttgaagCTCACAAAGCTTAGCTCCGCTTTCCATCCGGAAAGAGCCCTTTGGTCTTGTTCTAATCATTGCA-CTTGGAATTATCCTGTAAACTTGATGATCATACCTCAGGTGGGAGCCATTGCTGCAggtgagtgaaatattatggccacccatctagatgagagtgccctaagggga Alignment from Spaln_aa2Genome CTCACCAAGCTGAGCTCAGCCTTC-ATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ttaagagtctaccattcaatttaccacaatattaaaatctctttttgaagCTCACAAAGCTTAGCTCCGCTTTCcATCCGGAAAGAGCCCTTTGGTCTTGTTCTAATCATTGCACT-TGGAATTATCCTGTAAACTTGATGATCATACCTCAGGTGGGAGCCATTGCTGCAGgtgagtgaaatattatggccacccatctagatgagagtgccctaagggga Alignment from Spaln_nt2Genome CTCACCAAGCTGAGCTCAGCCTTC-ATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ttaagagtctaccattcaatttaccacaatattaaaatctctttttgaagCTCACAAAGCTTAGCTCCGCTTTCCATCCGGAAAGAGCCCTTTGGTCTTGTTCTAATCATTGCA-CTTGGAATTATCCTGTAAACTTGATGATCATACCTCAGGTGGGAGCCATTGCTGCAGgtgagtgaaatattatggccacccatctagatgagagtgccctaagggga Alignment from Pairagon CTCACCAAGCTGAGCTCAGCCTT-CATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ttaagagtctaccattcaatttaccacaatattaaaatctctttttgaagCTCACAAAGCTTAGCTCCGCTTTCCATCCGGAAAGAGCCCTTTGGTCTTGTTCTAATCATTGCA-CTTGGAATTATCCTGTAAACTTGATGATCATACCTCAGGTGGGAGCCATTGCTGCAGgtgagtgaaatattatggccacccatctagatgagagtgccctaagggga Alignment from Exonerate_protein2genome CTCACCAAGCTGAGCTCAGCCTTC-ATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCA--CCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ttaagagtctaccattcaatttaccacaatattaaaatctctttttgaagCTCACAAAGCTTAGCTCCGCTTTCCATCCGGAAAGAGCCCTTTGGTCTTGTTCTAATCATTGCACT---TGGAATTATCCTGTAAACTTGATGATCATACCTCAGGTGGGAGCCATTGCTGCAGgtgagtgaaatattatggccacccatctagatgagagtgccctaagggga Alignment from Exonerate_coding2genome CTCACCAAGCTGAGCTCAGCCTTC-ATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCA--CCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ttaagagtctaccattcaatttaccacaatattaaaatctctttttgaagCTCACAAAGCTTAGCTCCGCTTTCCATCCGGAAAGAGCCCTTTGGTCTTGTTCTAATCATTGCACT---TGGAATTATCCTGTAAACTTGATGATCATACCTCAGGTGGGAGCCATTGCTGCAGgtgagtgaaatattatggccacccatctagatgagagtgccctaagggga Alignment from GeneWise GCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ttaagagtctaccattcaatttaccacaatattaaaatctctttttgaagctcacaaagcttagCTCCGCTTTCCATCCGGAAAGAGCCCTTTGGTCTTGTTCTAATCATTGCACT-TGGAATTATCCTGTAAACTTGATGATCATACCTCAGGTGGGAGCCATTGCTGCAGgtgagtgaaatattatggccacccatctagatgagagtgccctaagggga #### Aldh3b2_ID242_8 --> 2 - 0 Original Alignment ccCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATG-CAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cctctgcatgtcataaatcaggctagcttactaacttattttatgtttagccCCTACAGATCTAGTAGATGTCCATGCAACAGAACCCCTTATGCCAAGAGGAGATTTTTGGGCCCATCCTTCCTT-GGTGACTGTAAGAAGTCTGGATGAAGCCATTGTATCCAATAACCAGTGGGAAAAGCCTCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtacattggtggtgagacaataattagcctgcaaacagtaaatcaaggtg Alignment from CESAR ccCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATG-CAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cctctgcatgtcataaatcaggctagcttactaacttattttatgtttagccCCTACAGATCTAGTAGATGTCCATGCAACAGAACCCCTTATGCCAAGAGGAGATTTTTGGGCCCATCCTTC-CTTGGTGACTGTAAGAAGTCTGGATGAAGCCATTGTATCCAATAACCAGTGGGAAAAGCCTCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtacattggtggtgagacaataattagcctgcaaacagtaaatcaaggtg Alignment from Spaln_aa2Genome CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cctctgcatgtcataaatcaggctagcttactaacttattttatgtttagCCCCTACAGATCTAGTAGATGTCCATGCAACAGAACCCCTTATGCCAAGAGGAGATTTTTGGGCCCATCCTTCCTTGGTGACTGTAAGAAGTCTGGATGAAGCCATTGTATCCAATAACCAGTGGGAAAAGCCTCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtacattggtggtgagacaataattagcctgcaaacagtaaatcaaggtg Alignment from Spaln_nt2Genome CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGC-AGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cctctgcatgtcataaatcaggctagcttactaacttattttatgtttagCCCCTACAGATCTAGTAGATGTCCATGCAACAGAACCCCTTATGCCAAGAGGAGATTTTTGGGCCCATCCTT-CCTTGGTGACTGTAAGAAGTCTGGATGAAGCCATTGTATCCAATAACCAGTGGGAAAAGCCTCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtacattggtggtgagacaataattagcctgcaaacagtaaatcaaggtg Alignment from Pairagon CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATG-CAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cctctgcatgtcataaatcaggctagcttactaacttattttatgtttagCCCCTACAGATCTAGTAGATGTCCATGCAACAGAACCCCTTATGCCAAGAGGAGATTTTTGGGCCCATCCT-TCCTTGGTGACTGTAAGAAGTCTGGATGAAGCCATTGTATCCAATAACCAGTGGGAAAAGCCTCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtacattggtggtgagacaataattagcctgcaaacagtaaatcaaggtg Alignment from Exonerate_protein2genome CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cctctgcatgtcataaatcaggctagcttactaacttattttatgtttagCCCCTACAGATCTAGTAGATGTCCATGCAACAGAACCCCTTATGCCAAGAGGAGATTTTTGGGCCCATCCTTCCTTGGTGACTGTAAGAAGTCTGGATGAAGCCATTGTATCCAATAACCAGTGGGAAAAGCCTCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtacattggtggtgagacaataattagcctgcaaacagtaaatcaaggtg Alignment from Exonerate_coding2genome CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cctctgcatgtcataaatcaggctagcttactaacttattttatgtttagCCCCTACAGATCTAGTAGATGTCCATGCAACAGAACCCCTTATGCCAAGAGGAGATTTTTGGGCCCATCCTTCCTTGGTGACTGTAAGAAGTCTGGATGAAGCCATTGTATCCAATAACCAGTGGGAAAAGCCTCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtacattggtggtgagacaataattagcctgcaaacagtaaatcaaggtg Alignment from GeneWise CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cctctgcatgtcataaatcaggctagcttactaacttattttatgtttagCCCCTACAGATCTAGTAGATGTCCATGCAACAGAACCCCTTATGCCAAGAGGAGATTTTTGGGCCCATCCTTCCTTGGTGACTGTAAGAAGTCTGGATGAAGCCATTGTATCCAATAACCAGTGGGAAAAGCCTCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtacattggtggtgagacaataattagcctgcaaacagtaaatcaaggtg #### Aldh3b2_ID243_9 --> 0 - 1 Original Alignment GTGGTGAATCAGATG-TTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTg cagaacacaccagaatgcctgtatcacctctgagagccactcttttctagGTGGTGAATCAGATGCCTGGAGCGTACAAGCAGTGGGGGTTTTGGAGGCAATG-TGGCTTCCTCTACCTGACACTGCCTGCATTGCCTTTGGGAGGGGTTggtgagctcttacctcctattgccattggagagagttatgtgccaccttgg Alignment from CESAR GTGGTGAATCAGATG-TTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTg cagaacacaccagaatgcctgtatcacctctgagagccactcttttctagGTGGTGAATCAGATGCCTGGAGCGTACAAGCAGTGGGGGTTTTGGAGGCAAT-GTGGCTTCCTCTACCTGACACTGCCTGCATTGCCTTTGGGAGGGGTTggtgagctcttacctcctattgccattggagagagttatgtgccaccttgg Alignment from Spaln_aa2Genome GATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTG cagaacacaccagaatgcctgtatcacctctgagagccactcttttctaggtggtgaatcagATGCCTGGAGCGTACAAGCAGTGGGGGTTTTGGAGGCAATGT-GGCTTCCTCTACCTGACACTGCCTGCATTGCCTTTGGGAGGGGTTGgtgagctcttacctcctattgccattggagagagttatgtgccaccttgg Alignment from Spaln_nt2Genome GTGGTGAATCAGATGT-TGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTG cagaacacaccagaatgcctgtatcacctctgagagccactcttttctagGTGGTGAATCAGATGCCTGGAGCGTACAAGCAGTGGGGGTTTTGGAGGCAATG-TGGCTTCCTCTACCTGACACTGCCTGCATTGCCTTTGGGAGGGGTTGgtgagctcttacctcctattgccattggagagagttatgtgccaccttgg Alignment from Pairagon GTGGTGAATCAGATG-TTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTG cagaacacaccagaatgcctgtatcacctctgagagccactcttttctagGTGGTGAATCAGATGCCTGGAGCGTACAAGCAGTGGGGGTTTTGGAGGCAATG-TGGCTTCCTCTACCTGACACTGCCTGCATTGCCTTTGGGAGGGGTTGgtgagctcttacctcctattgccattggagagagttatgtgccaccttgg Alignment from Exonerate_protein2genome GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTG cagaacacaccagaatgcctgtatcacctctgagagccactcttttctagGTGGTGAATCAGATGCCTGGAGCGTACAAGCAGTGGGGGTTTTGGAGGCAATGTGGCTTCCTCTACCTGACACTGCCTGCATTGCCTTTGGGAGGGGTTGgtgagctcttacctcctattgccattggagagagttatgtgccaccttgg Alignment from Exonerate_coding2genome GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTG cagaacacaccagaatgcctgtatcacctctgagagccactcttttctagGTGGTGAATCAGATGCCTGGAGCGTACAAGCAGTGGGGGTTTTGGAGGCAATGTGGCTTCCTCTACCTGACACTGCCTGCATTGCCTTTGGGAGGGGTTGgtgagctcttacctcctattgccattggagagagttatgtgccaccttgg Alignment from GeneWise GATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTG cagaacacaccagaatgcctgtatcacctctgagagccactcttttctaggtggtgaatcagATGCCTGGAGCGTACAAGCAGTGGGGGTTTTGGAGGCAATGT-GGCTTCCTCTACCTGACACTGCCTGCATTGCCTTTGGGAGGGGTTGgtgagctcttacctcctattgccattggagagagttatgtgccaccttgg #### Ankrd13d_ID471_2 --> 0 - 1 Original Alignment CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTG-GAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAg ggattggtcctcttatctaatgaactattttctttcctccctggctgcagCATGACATTGAGCAGGAGGACCCCCAAGGGCAGACCCCTTTACGAGCTTGCTGTGACTTTGGGGAACTTAGAGTCAG-ACGAGTCCTCCTCAAACATAATGCCAATGTAGGCAAGGAAAGCCACCAGGGCTGGGCTggtaggatcgtaggtagtgcttcattacttgtgaagggtggctataggtct Alignment from CESAR CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTG-GAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAg ggattggtcctcttatctaatgaactattttctttcctccctggctgcagCATGACATTGAGCAGGAGGACCCCCAAGGGCAGACCCCTTTACGAGCTTGCTGTGACTTTGGGGAACTTAGAGTCA-GACGAGTCCTCCTCAAACATAATGCCAATGTAGGCAAGGAAAGCCACCAGGGCTGGGCTggtaggatcgtaggtagtgcttcattacttgtgaagggtggctataggtct Alignment from Spaln_aa2Genome CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG ggattggtcctcttatctaatgaactattttctttcctccctggctgcagCATGACATTGAGCAGGAGGACCCCCAAGGGCAGACCCCTTTACGAGCTTGCTGTGACTTTGGGGAACTTAGAGTCAGACGAGTCCTCCTCAAACATAATGCCAATGTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtaggatcgtaggtagtgcttcattacttgtgaagggtggctataggtct Alignment from Spaln_nt2Genome CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTG-GAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG ggattggtcctcttatctaatgaactattttctttcctccctggctgcagCATGACATTGAGCAGGAGGACCCCCAAGGGCAGACCCCTTTACGAGCTTGCTGTGACTTTGGGGAACTTAGAGTCAG-ACGAGTCCTCCTCAAACATAATGCCAATGTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtaggatcgtaggtagtgcttcattacttgtgaagggtggctataggtct Alignment from Pairagon CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTG-GAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG ggattggtcctcttatctaatgaactattttctttcctccctggctgcagCATGACATTGAGCAGGAGGACCCCCAAGGGCAGACCCCTTTACGAGCTTGCTGTGACTTTGGGGAACTTAGAGTCAG-ACGAGTCCTCCTCAAACATAATGCCAATGTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtaggatcgtaggtagtgcttcattacttgtgaagggtggctataggtct Alignment from Exonerate_protein2genome CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG ggattggtcctcttatctaatgaactattttctttcctccctggctgcagCATGACATTGAGCAGGAGGACCCCCAAGGGCAGACCCCTTTACGAGCTTGCTGTGACTTTGGGGAACTTAGAGTCAGACGAGTCCTCCTCAAACATAATGCCAATGTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtaggatcgtaggtagtgcttcattacttgtgaagggtggctataggtct Alignment from Exonerate_coding2genome AAGCACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG ggattggtcctcttatctaatgaactattttctttcctccctggctgCAGCATGACATTGAGCAGGAGGACCCCCAAGGGCAGACCCCTTTACGAGCTTGCTGTGACTTTGGGGAACTTAGAGTCAGACGAGTCCTCCTCAAACATAATGCCAATGTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtaggatcgtaggtagtgcttcattacttgtgaagggtggctataggtct Alignment from GeneWise CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG ggattggtcctcttatctaatgaactattttctttcctccctggctgcagCATGACATTGAGCAGGAGGACCCCCAAGGGCAGACCCCTTTACGAGCTTGCTGTGACTTTGGGGAACTTAGAGTCAGACGAGTCCTCCTCAAACATAATGCCAATGTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtaggatcgtaggtagtgcttcattacttgtgaagggtggctataggtct #### Anxa1_ID4766_4 --> 0 - 0 Original Alignment CCCTTGGATGAAGTCTTGAGAAAAGCC-CTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG aggccaggagaataatacacacctaagttgtcttcctctcttgtacccagCCCTTAGATGAAGTATTGAGGAAAGCCCCTCACAGGCCATCTGGAGGAGGTTGTTTTGGCTATGCTAAAAA-TCCAGCACAATTT---GCTGATGAACTACATGGTGCCATGAAGgtaatttgttcttaacagaattgctcctaaaacaggttcaaggaacttct Alignment from CESAR CCCTTGGATGAAGTCTTGAGAAAAGCC-CTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG aggccaggagaataatacacacctaagttgtcttcctctcttgtacccagCCCTTAGATGAAGTATTGAGGAAAGCCCCTCACAGGCCATCTGGAGGAGGTTGTTTTGGCTATGCTAA-AAATCCAGCACAATTT---GCTGATGAACTACATGGTGCCATGAAGgtaatttgttcttaacagaattgctcctaaaacaggttcaaggaacttct Alignment from Spaln_aa2Genome CCCTTGGATGAAGTCTTGAGAAAAGCC-CTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG aggccaggagaataatacacacctaagttgtcttcctctcttgtacccagCCCTTAGATGAAGTATTGAGGAAAGCCcCTCACAGGCCATCTGGAGGAGGTTGTTTTGGCTATGCTAAAAAT-CCAGCACAATTT---GCTGATGAACTACATGGTGCCATGAAGgtaatttgttcttaacagaattgctcctaaaacaggttcaaggaacttct Alignment from Spaln_nt2Genome CCCTTGGATGAAGTCTTGAGAAAAGCCCTT-ACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG aggccaggagaataatacacacctaagttgtcttcctctcttgtacccagCCCTTAGATGAAGTATTGAGGAAAGCCCCTCACAGGCCATCTGGAGGAGGTTGTTTTGGCTATGCTAAAAA-TCCAGCACAATT---TGCTGATGAACTACATGGTGCCATGAAGgtaatttgttcttaacagaattgctcctaaaacaggttcaaggaacttct Alignment from Pairagon CCCTTGGATGAAGTCTTGAGAAAAG-CCCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG aggccaggagaataatacacacctaagttgtcttcctctcttgtacccagCCCTTAGATGAAGTATTGAGGAAAGCCCCTCACAGGCCATCTGGAGGAGGTTGTTTTGGCTATGCTAAAAA-TCCAGCACAATTTGCT---GATGAACTACATGGTGCCATGAAGgtaatttgttcttaacagaattgctcctaaaacaggttcaaggaacttct Alignment from Exonerate_protein2genome CCCTTGGATGAAGTCTTGAGAAAAGCC-CTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAA--ACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG aggccaggagaataatacacacctaagttgtcttcctctcttgtacccagCCCTTAGATGAAGTATTGAGGAAAGCCCCTCACAGGCCATCTGGAGGAGGTTGTTTTGGCTATGCTAAAAAT---CCAGCACAATTT---GCTGATGAACTACATGGTGCCATGAAGgtaatttgttcttaacagaattgctcctaaaacaggttcaaggaacttct Alignment from Exonerate_coding2genome CCCTTGGATGAAGTCTTGAGAAAAGC---CCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG aggccaggagaataatacacacctaagttgtcttcctctcttgtacccagCCCTTAGATGAAGTATTGAGGAAA--GCCCCTCACAGGCCATCTGGAGGAGGTTGTTTTGGCTATGCTAAAAAT-CCAGCACAATTT---GCTGATGAACTACATGGTGCCATGAAGgtaatttgttcttaacagaattgctcctaaaacaggttcaaggaacttct Alignment from GeneWise CCCTTGGATGAAGTCTTGAGAAAAGCCCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG aggccaggagaataatacacacctaagttgtcttcctctcttgtacccagCCCTTAGATGAAGTATTGAGGAAAGCCCCTCACAGGCCATCTGGAGGAGGTTGTTTTGGCTATGCTAAAAATCCAGCACAATTT---GCTGATGAACTACATGGTGCCATGAAGgtaatttgttcttaacagaattgctcctaaaacaggttcaaggaacttct #### Bbs1_ID718_16 --> 0 - 0 Original Alignment GTTCCCTTGCTGGTACCAGGA-CTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gaatctaggcttctaactttagctgtggccaccaacctttgctcccatagGTTCCCCTGCTGGTACCAGGACCTCAGTTATCCACTGGAAACCTTTGTGGAGA-TCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtatccgagtacctgtaggatacatggatccaagtggaaacaattagata Alignment from CESAR GTTCCCTTGCTGGTACCAGGA-CTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gaatctaggcttctaactttagctgtggccaccaacctttgctcccatagGTTCCCCTGCTGGTACCAGGACCTCAGTTATCCACTGGAAACCTTTGTGGAG-ATCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtatccgagtacctgtaggatacatggatccaagtggaaacaattagata Alignment from Spaln_aa2Genome GTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gaatctaggcttctaactttagctgtggccaccaacctttgctcccatagGTTCCCCTGCTGGTACCAGGACCTCAGTTATCCACTGGAAACCTTTGTGGAGATCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtatccgagtacctgtaggatacatggatccaagtggaaacaattagata Alignment from Spaln_nt2Genome GTTCCCTTGCTGGTACCAGGA-CTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gaatctaggcttctaactttagctgtggccaccaacctttgctcccatagGTTCCCCTGCTGGTACCAGGACCTCAGTTATCCACTGGAAACCTTTGTGGAGA-TCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtatccgagtacctgtaggatacatggatccaagtggaaacaattagata Alignment from Pairagon GTTCCCTTGCTGGTACCAGGA-CTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gaatctaggcttctaactttagctgtggccaccaacctttgctcccatagGTTCCCCTGCTGGTACCAGGACCTCAGTTATCCACTGGAAACCTTTGTGGAGA-TCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtatccgagtacctgtaggatacatggatccaagtggaaacaattagata Alignment from Exonerate_protein2genome GTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gaatctaggcttctaactttagctgtggccaccaacctttgctcccatagGTTCCCCTGCTGGTACCAGGACCTCAGTTATCCACTGGAAACCTTTGTGGAGATCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtatccgagtacctgtaggatacatggatccaagtggaaacaattagata Alignment from Exonerate_coding2genome GTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gaatctaggcttctaactttagctgtggccaccaacctttgctcccatagGTTCCCCTGCTGGTACCAGGACCTCAGTTATCCACTGGAAACCTTTGTGGAGATCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtatccgagtacctgtaggatacatggatccaagtggaaacaattagata Alignment from GeneWise GTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gaatctaggcttctaactttagctgtggccaccaacctttgctcccatagGTTCCCCTGCTGGTACCAGGACCTCAGTTATCCACTGGAAACCTTTGTGGAGATCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtatccgagtacctgtaggatacatggatccaagtggaaacaattagata #### Bscl2_ID2423_6 --> 0 - 2 Original Alignment TATGTGCCAACAACTGGAGCAATTATTGAGATC-CACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTCag atcctcaatgtagccagaatcacatgtacacctgctctcttgtgtcatagTATGTGCCAACAACTGGAGCAATTATTGAAATTCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCT-GATCCATGCCCACTTTACAGGGCTCaggcaagaaaattatagaaggaacagttttcctacaatgtatcccaaatagt Alignment from CESAR TATGTGCCAACAACTGGAGCAATTATTGAGATC-CACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTCag atcctcaatgtagccagaatcacatgtacacctgctctcttgtgtcatagTATGTGCCAACAACTGGAGCAATTATTGAAATTCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTC-TGATCCATGCCCACTTTACAGGGCTCaggcaagaaaattatagaaggaacagttttcctacaatgtatcccaaatagt Alignment from Spaln_aa2Genome TATGTGCCAACAACTGGAGCAATTATTGAGATCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTCAG atcctcaatgtagccagaatcacatgtacacctgctctcttgtgtcatagTATGTGCCAACAACTGGAGCAATTATTGAAATTCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCTGATCCATGCCCACTTTACAGGGCTCAGgcaagaaaattatagaaggaacagttttcctacaatgtatcccaaatagt Alignment from Spaln_nt2Genome TATGTGCCAACAACTGGAGCAATTATTGAGAT-CCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTCAG atcctcaatgtagccagaatcacatgtacacctgctctcttgtgtcatagTATGTGCCAACAACTGGAGCAATTATTGAAATTCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCT-CTGATCCATGCCCACTTTACAGGGCTCAGgcaagaaaattatagaaggaacagttttcctacaatgtatcccaaatagt Alignment from Pairagon TATGTGCCAACAACTGGAGCAATTATTGAGA-TCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTCAG atcctcaatgtagccagaatcacatgtacacctgctctcttgtgtcatagTATGTGCCAACAACTGGAGCAATTATTGAAATTCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCT-GATCCATGCCCACTTTACAGGGCTCAGgcaagaaaattatagaaggaacagttttcctacaatgtatcccaaatagt Alignment from Exonerate_protein2genome GGAAGTAGAACTCTACTCTGACTATAGGGAGAATTCGTATGTGCCAACAACTGGAGCAATTATTGAGATC-CACAGCAAGCGCATCCAGATGTATGGAGCCTAC--CTCCGGATCCATGCCCACTTCACTGGGCTCAG atcctcaatgtagCCAGAATCACATGTACACCTGCTCTCTTGTGTCATAGTATGTGCCAACAACTGGAGCAATTATTGAAATTCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCTG---ATCCATGCCCACTTTACAGGGCTCAGgcaagaaaattatagaaggaacagttttcctacaatgtatcccaaatagt Alignment from Exonerate_coding2genome GGAAGTAGAACTCTACTCTGACTATAGGGAGAATTCGTATGTGCCAACAACTGGAGCAATTATTGAGAT---CCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTCAG atcctcaatgtagCCAGAATCACATGTACACCTGCTCTCTTGTGTCATAGTATGTGCCAACAACTGGAGCAATTATTGAA--ATTCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCT-CTGATCCATGCCCACTTTACAGGGCTCAGgcaagaaaattatagaaggaacagttttcctacaatgtatcccaaatagt Alignment from GeneWise TATGTGCCAACAACTGGAGCAATTATTGAGATCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTCAGG----------------------------------- atcctcaatgtagccagaatcacatgtacacctgctctcttgtgtcatagTATGTGCCAACAACTGGAGCAATTATTGAAATTCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCTGATCCATGCCCACTTTACAGGGCTCAGGCAAGAAAATTATAGAAGGAACAGTTTTCCTACAATgtatcccaaatagt #### Bscl2_ID2425_8 --> 0 - 1 Original Alignment GTTAATATCCGA-CAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCAg tttctcagagggcagtctaggatcacaactgccgtggttctgaccagcagGTCAATACATGTCCAAAGGGACAACTCACACCACGGA------GACC-TATTTCACACCACCAGCCAggtgtgtgaattaggcattaggaatttggaaaaatacacttggggagtcct Alignment from CESAR GTTAATATCCGA-CAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCAg tttctcagagggcagtctaggatcacaactgccgtggttctgaccagcagGTCAATACATGTCCAAAGGGACAACTCACACCACGGA-GACCT------ATTTCACACCACCAGCCAggtgtgtgaattaggcattaggaatttggaaaaatacacttggggagtcct Alignment from Spaln_aa2Genome ATCCGACAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCAG tttctcagagggcagtctaggatcacaactgccgtggttctgaccagcagGTCAATACATGTCCAAAGGGACAACTCACACCACGGAGACCTATTTCACACCACCAGCCAGgtgtgtgaattaggcattaggaatttggaaaaatacacttggggagtcct Alignment from Spaln_nt2Genome GTTAATATCCGAC-AAAGGGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCAG tttctcagagggcagtctaggatcacaactgccgtggttctgaccagcagGTCAATACATGTCCAAAGGGACAACTCACACCACGGAGACC-------TATTTCACACCACCAGCCAGgtgtgtgaattaggcattaggaatttggaaaaatacacttggggagtcct Alignment from Pairagon GTTAATA----TCCGACAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCAG tttctcagagggcagtctaggatcacaactgccgtggttctgaccagcagGTCAATACATGTC---CAAAGGGACAACTCACACCACGGAGACCT-------ATTTCACACCACCAGCCAGgtgtgtgaattaggcattaggaatttggaaaaatacacttggggagtcct Alignment from Exonerate_protein2genome GTTAATATCCGACAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCAG tttctcagagggcagtctaggatcacaactgccgtggttctgaccagcagGTCAATACATGTCCAAAGGGACAACTCACACCACGGAGACCT------ATTTCACACCACCAGCCAGgtgtgtgaattaggcattaggaatttggaaaaatacacttggggagtcct Alignment from Exonerate_coding2genome tttctcagagggcagtctaggatcacaactgccgtggttctgaccagcaggtcaatacatgtccaaagggacaactcacaccacggagacctatttcacaccaccagccaggtgtgtgaattaggcattaggaatttggaaaaatacacttggggagtcct Alignment from GeneWise tttctcagagggcagtctaggatcacaactgccgtggttctgaccagcaggtcaatacatgtccaaagggacaactcacaccacggagacctatttcacaccaccagccaggtgtgtgaattaggcattaggaatttggaaaaatacacttggggagtcct #### Bscl2_ID2427_10 --> 2 - 1 Original Alignment agGGCCAGCTGTCTGAGGAA-GAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATg cagttccgatactctcccccccattgcaacacttgccatttcttgcccagagGGGCAA---CCAGAAGAGCGAGAAAGCAAAGAAGTGGCCACTGAATGGGG-GGAGGAGCGGGAACCGGATGCTGGTGCTggtaggtgtggggtggcatactcatagccaggggtgctgtgtgctggggag Alignment from CESAR agGGCCAGCTGTCTGAGGAA-GAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATg cagttccgatactctcccccccattgcaacacttgccatttcttgcccagagGGGCAA---CCAGAAGAGCGAGAAAGCAAAGAAGTGGCCACTGAATGGG-GGGAGGAGCGGGAACCGGATGCTGGTGCTggtaggtgtggggtggcatactcatagccaggggtgctgtgtgctggggag Alignment from Spaln_aa2Genome AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG cagttccgatactctcccccccattgcaacacttgccatttcttgcccagAGGGGCAA---CCAGAAGAGCGAGAAAGCAAAGAAGTGGCCACTGAATGGGGGGAGGAGCGGGAACCGGATGCTGGTGCTGgtaggtgtggggtggcatactcatagccaggggtgctgtgtgctggggag Alignment from Spaln_nt2Genome AGGGCCAGCTGTCTGAGGAA-GAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG cagttccgatactctcccccccattgcaacacttgccatttcttgcccagAGGGGCAAC---CAGAAGAGCGAGAAAGCAAAGAAGTGGCCACTGAATGG-GGGGAGGAGCGGGAACCGGATGCTGGTGCTGgtaggtgtggggtggcatactcatagccaggggtgctgtgtgctggggag Alignment from Pairagon AGGGCC---------AGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG cagttccgatactctcccccccattgcaacacttgccatttcttgcccagAGGGGCAACCAGAAGAGC-----------GAGAAAGCAAAGAAGTGGCCACTGAATGG-GGGGAGGAGCGGGAACCGGATGCTGGTGCTGgtaggtgtggggtggcatactcatagccaggggtgctgtgtgctggggag Alignment from Exonerate_protein2genome cagttccgatactctcccccccattgcaacacttgccatttcttgcccagaggggcaaccagaagagcgagaaagcaaagaagtggccactgaatggggggaggagcgggaaccggatgctggtgctggtaggtgtggggtggcatactcatagccaggggtgctgtgtgctggggag Alignment from Exonerate_coding2genome cagttccgatactctcccccccattgcaacacttgccatttcttgcccagaggggcaaccagaagagcgagaaagcaaagaagtggccactgaatggggggaggagcgggaaccggatgctggtgctggtaggtgtggggtggcatactcatagccaggggtgctgtgtgctggggag Alignment from GeneWise cagttccgatactctcccccccattgcaacacttgccatttcttgcccagaggggcaaccagaagagcgagaaagcaaagaagtggccactgaatggggggaggagcgggaaccggatgctggtgctggtaggtgtggggtggcatactcatagccaggggtgctgtgtgctggggag #### Btaf1_ID7253_32 --> 2 - 0 Original Alignment gtGTCCTGGCAATGGACGCTCTG-CACCGCCAAGTCCTGCCGTTCCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gcagggagaatggggtcttgagtcctcaattccttctgtgacttttttaggtGTACTGGCAATGGATGCTCTACCAGCACCAAGTCTTGCCACTACTTCTGAGAA-AATGAAAGAAGCTGTATTGCATGATCTTCCACCTAAAATTATACAAGACTATTACTGTACTCTCAGCCCTCTTCAAgtatgtactgcagtcattgtagatgtaagtgtgctgctgtttgcatgaaa Alignment from CESAR gtGTCCTGGCAATGGACGCTCTG-CACCGCCAAGTCCTGCCGTTCCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gcagggagaatggggtcttgagtcctcaattccttctgtgacttttttaggtGTACTGGCAATGGATGCTCTACCAGCACCAAGTCTTGCCACTACTTCTGAGAA-AATGAAAGAAGCTGTATTGCATGATCTTCCACCTAAAATTATACAAGACTATTACTGTACTCTCAGCCCTCTTCAAgtatgtactgcagtcattgtagatgtaagtgtgctgctgtttgcatgaaa Alignment from Spaln_aa2Genome GTGTCCTGGCAATGGACGCTCTGCACCGCCAAGTCCTGCCGTTCCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gcagggagaatggggtcttgagtcctcaattccttctgtgacttttttagGTGTACTGGCAATGGATGCTCTACCAGCACCAAGTCTTGCCACTACTTCTGAGAAAATGAAAGAAGCTGTATTGCATGATCTTCCACCTAAAATTATACAAGACTATTACTGTACTCTCAGCCCTCTTCAAgtatgtactgcagtcattgtagatgtaagtgtgctgctgtttgcatgaaa Alignment from Spaln_nt2Genome GTGTCCTGGCAATGGACGCTCTGC-ACCGCCAAGTCCTGCCGTTCCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gcagggagaatggggtcttgagtcctcaattccttctgtgacttttttagGTGTACTGGCAATGGATGCTCTACCAGCACCAAGTCTTGCCACTACTTCTGAGAA-AATGAAAGAAGCTGTATTGCATGATCTTCCACCTAAAATTATACAAGACTATTACTGTACTCTCAGCCCTCTTCAAgtatgtactgcagtcattgtagatgtaagtgtgctgctgtttgcatgaaa Alignment from Pairagon GTGTCCTGGCAATGGACGCTCTG-CACCGCCAAGTCCTGCCGTTCCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gcagggagaatggggtcttgagtcctcaattccttctgtgacttttttagGTGTACTGGCAATGGATGCTCTACCAGCACCAAGTCTTGCCACTACTTCTGAGAA-AATGAAAGAAGCTGTATTGCATGATCTTCCACCTAAAATTATACAAGACTATTACTGTACTCTCAGCCCTCTTCAAgtatgtactgcagtcattgtagatgtaagtgtgctgctgtttgcatgaaa Alignment from Exonerate_protein2genome GTGTCCTGGCAATGGACGCTCTGCACCGCCAAGTCCTGCCGTTCCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gcagggagaatggggtcttgagtcctcaattccttctgtgacttttttagGTGTACTGGCAATGGATGCTCTACCAGCACCAAGTCTTGCCACTACTTCTGAGAAAATGAAAGAAGCTGTATTGCATGATCTTCCACCTAAAATTATACAAGACTATTACTGTACTCTCAGCCCTCTTCAAgtatgtactgcagtcattgtagatgtaagtgtgctgctgtttgcatgaaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTGTCCTGGCAATGGACGCTCTGCACCGCCAAGTCCTGCCGTTCCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gcagggagaatggggtcttgagtcctcaattccttctgtgacttttttagGTGTACTGGCAATGGATGCTCTACCAGCACCAAGTCTTGCCACTACTTCTGAGAAAATGAAAGAAGCTGTATTGCATGATCTTCCACCTAAAATTATACAAGACTATTACTGTACTCTCAGCCCTCTTCAAgtatgtactgcagtcattgtagatgtaagtgtgctgctgtttgcatgaaa #### Cabp2_ID287_2 --> 0 - 0 Original Alignment GAACGCTGGCAGTGGCCTGGATCCCCCCTAGGGGGCTCCCGCCCCAGCCCTGGTCCCAGAACT-GAGGAGCAGGAGGGGACACAGGGCTACTCAGTGCTCGGCAGCCTGGTGGGGCCAGCATGCATCTTCCTTCGACCCAGCATCGCGGCTACCCAGCTC catattgacaaatgtatgtgggcattggttttggaactctgtctttctagGTCCGCTGGCAATGGCCTGGATCCCCCTTAGGGGGCTCACTCCCCAGCCCAGGTCCAAGAACTCGAGGAGCAGGAGGGGTCACAGGGCTACTCAGTCC-TGGTAGCCTTGTAGGACCTGCATGCATTTTCCTGCGACCTAGCATAGCTGCTACCCAGCTTgtttgtacataatcccttgcatactggcatcttaaagctggtggcttcat Alignment from CESAR GAACGCTGGCAGTGGCCTGGATCCCCCCTAGGGGGCTCCCGCCCCAGCCCTGGTCCCAGAACT-GAGGAGCAGGAGGGGACACAGGGCTACTCAGTGCTCGGCAGCCTGGTGGGGCCAGCATGCATCTTCCTTCGACCCAGCATCGCGGCTACCCAGCTC catattgacaaatgtatgtgggcattggttttggaactctgtctttctagGTCCGCTGGCAATGGCCTGGATCCCCCTTAGGGGGCTCACTCCCCAGCCCAGGTCCAAGAACTCGAGGAGCAGGAGGGGTCACAGGGCTACTCAGTCC-TGGTAGCCTTGTAGGACCTGCATGCATTTTCCTGCGACCTAGCATAGCTGCTACCCAGCTTgtttgtacataatcccttgcatactggcatcttaaagctggtggcttcat Alignment from Spaln_aa2Genome GAACGCTGGCAGTGGCCTGGATCCCCCCTAGGGGGCTCCCGCCCCAGCCCTGGTCCCAGAACTGAGGAGCAGGAGGGGACACAGGGCTACTCAGTGCTCGGCAGCCTGGTGGGGCCAGCATGCATCTTCCTTCGACCCAGCATCGCGGCTACCCAGCTC catattgacaaatgtatgtgggcattggttttggaactctgtctttctagGTCCGCTGGCAATGGCCTGGATCCCCCTTAGGGGGCTCACTCCCCAGCCCAGGTCCAAGAACTCGAGGAGCAGGAGGGGTCACAGGGCTACTCAGTCCTGGTAGCCTTGTAGGACCTGCATGCATTTTCCTGCGACCTAGCATAGCTGCTACCCAGCTTgtttgtacataatcccttgcatactggcatcttaaagctggtggcttcat Alignment from Spaln_nt2Genome GAACGCTGGCAGTGGCCTGGATCCCCCCTAGGGGGCTCCCGCCCCAGCCCTGGTCCCAGAACT-GAGGAGCAGGAGGGGACACAGGGCTACTCAGTGCTCGGCAGCCTGGTGGGGCCAGCATGCATCTTCCTTCGACCCAGCATCGCGGCTACCCAGCTC catattgacaaatgtatgtgggcattggttttggaactctgtctttctagGTCCGCTGGCAATGGCCTGGATCCCCCTTAGGGGGCTCACTCCCCAGCCCAGGTCCAAGAACTCGAGGAGCAGGAGGGGTCACAGGGCTACTCAGTCCT-GGTAGCCTTGTAGGACCTGCATGCATTTTCCTGCGACCTAGCATAGCTGCTACCCAGCTTgtttgtacataatcccttgcatactggcatcttaaagctggtggcttcat Alignment from Pairagon GAACGCTGGCAGTGGCCTGGATCCCCCCTAGGGGGCTCCCGCCCCAGCCCTGGTCCCAGAACT-GAGGAGCAGGAGGGGACACAGGGCTACTCAGTGCTCGGCAGCCTGGTGGGGCCAGCATGCATCTTCCTTCGACCCAGCATCGCGGCTACCCAGCTC catattgacaaatgtatgtgggcattggttttggaactctgtctttctagGTCCGCTGGCAATGGCCTGGATCCCCCTTAGGGGGCTCACTCCCCAGCCCAGGTCCAAGAACTCGAGGAGCAGGAGGGGTCACAGGGCTACTCAGTCCT-GGTAGCCTTGTAGGACCTGCATGCATTTTCCTGCGACCTAGCATAGCTGCTACCCAGCTTgtttgtacataatcccttgcatactggcatcttaaagctggtggcttcat Alignment from Exonerate_protein2genome catattgacaaatgtatgtgggcattggttttggaactctgtctttctaggtccgctggcaatggcctggatcccccttagggggctcactccccagcccaggtccaagaactcgaggagcaggaggggtcacagggctactcagtcctggtagccttgtaggacctgcatgcattttcctgcgacctagcatagctgctacccagcttgtttgtacataatcccttgcatactggcatcttaaagctggtggcttcat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GAACGCTGGCAGTGGCCTGGATCCCCCCTAGGGGGCTCCCGCCCCAGCCCTGGTCCCAGAACTGAGGAGCAGGAGGGGACACAGGGCTACTCAGTGCTCGGCAGCCTGGTGGGGCCAGCATGCATCTTCCTTCGACCCAGCATCGCGGCTACCCAGCTCGATCGAGAGCTGAGACCAGAAGAGATCGAAG catattgacaaatgtatgtgggcattggttttggaactctgtctttctagGTCCGCTGGCAATGGCCTGGATCCCCCTTAGGGGGCTCACTCCCCAGCCCAGGTCCAAGAACTCGAGGAGCAGGAGGGGTCACAGGGCTACTCAGTCCTGGTAGCCTTGTAGGACCTGCATGCATTTTCCTGCGACCTAGCATAGCTGCTACCCAGCTT---------------------------GTTTgtacataatcccttgcata #### Cabp2_ID289_4 --> 2 - 1 Original Alignment agCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACA-CTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCa tcacccccttataacaactagggtgaaacaggaatcactttcttttgtagagCTGCAGATAGGCTTCCAGGAGTTCGACCGAGATAGGGATGGCTACATCGGGTACCGGGAGCTGGGTGCCTGCATGCAGACACCTGGGATACATGCCCACAGAGATGGCGCTCATTG-GATATCACAACAGGTTagtgagtggttattctatcgcccagtgcacatagccctcaggcagatgtgt Alignment from CESAR agCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACA-CTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCa tcacccccttataacaactagggtgaaacaggaatcactttcttttgtagagCTGCAGATAGGCTTCCAGGAGTTCGACCGAGATAGGGATGGCTACATCGGGTACCGGGAGCTGGGTGCCTGCATGCAGACACCTGGGATACATGCCCACAGAGATGGCGCTCATT-GGATATCACAACAGGTTagtgagtggttattctatcgcccagtgcacatagccctcaggcagatgtgt Alignment from Spaln_aa2Genome AGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA tcacccccttataacaactagggtgaaacaggaatcactttcttttgtagAGCTGCAGATAGGCTTCCAGGAGTTCGACCGAGATAGGGATGGCTACATCGGGTACCGGGAGCTGGGTGCCTGCATGCAGACACCTGGGATACATGCCCACAGAGATGGCGCTCATTGGATATCACAACAGGTTAgtgagtggttattctatcgcccagtgcacatagccctcaggcagatgtgt Alignment from Spaln_nt2Genome AGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACA-CTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA tcacccccttataacaactagggtgaaacaggaatcactttcttttgtagAGCTGCAGATAGGCTTCCAGGAGTTCGACCGAGATAGGGATGGCTACATCGGGTACCGGGAGCTGGGTGCCTGCATGCAGACACCTGGGATACATGCCCACAGAGATGGCGCTCATTG-GATATCACAACAGGTTAgtgagtggttattctatcgcccagtgcacatagccctcaggcagatgtgt Alignment from Pairagon AGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACA-CTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA tcacccccttataacaactagggtgaaacaggaatcactttcttttgtagAGCTGCAGATAGGCTTCCAGGAGTTCGACCGAGATAGGGATGGCTACATCGGGTACCGGGAGCTGGGTGCCTGCATGCAGACACCTGGGATACATGCCCACAGAGATGGCGCTCATTG-GATATCACAACAGGTTAgtgagtggttattctatcgcccagtgcacatagccctcaggcagatgtgt Alignment from Exonerate_protein2genome GAGAGCTGAGACCAGAAGAGATCGAAGAGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGAC------GGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA tcacccccttataacaaCTAGGGTGAAACAGGAATCACTTTCTTTTGTAGAGCTGCAGATAGGCTTCCAGGAGTTCGACCGAGATAGGGATGGCTACATCGGGTACCGGGAGCTGGGTGCCTGCATGCAGACACCTGGGATACATGCCCACAGAGATGGCGCTCATTGGATATCACAACAGGTTAgtgagtggttattctatcgcccagtgcacatagccctcaggcagatgtgt Alignment from Exonerate_coding2genome GAGAGCTGAGACCAGAAGAGATCGAAGAGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGAC------GGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA tcacccccttataacaaCTAGGGTGAAACAGGAATCACTTTCTTTTGTAGAGCTGCAGATAGGCTTCCAGGAGTTCGACCGAGATAGGGATGGCTACATCGGGTACCGGGAGCTGGGTGCCTGCATGCAGACACCTGGGATACATGCCCACAGAGATGGCGCTCATTGGATATCACAACAGGTTAgtgagtggttattctatcgcccagtgcacatagccctcaggcagatgtgt Alignment from GeneWise GATCGAGAGCTGAGACCAGAAGAGATCGAAGAGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA aacaactagggtgaaacagGAATCACTT------------TCTTTTGTAGAGCTGCAGATAGGCTTCCAGGAGTTCGACCGAGATAGGGATGGCTACATCGGGTACCGGGAGCTGGGTGCCTGCATGCAGACACCTGGGATACATGCCCACAGAGATGGCGCTCATTGGATATCACAACAGGTTAgtgagtggttattctatcgcccagtgcacatagccctcaggcagatgtgt #### Cabp2_ID290_5 --> 2 - 0 Original Alignment gtGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAG-CTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG gttagccgtgcactaacccaagccctctttgaattctttttttctttaaggtGGGGGGAAGGTTCACTTTGAAGTCTTTGTAGAGCCTGATGGGTCCCAAGCTACTAGTAGAGACAGCAGACATGATTG-GGAAAGAGAACTTAAAGACGCTTTTAGGGAGgtatgtcttaggtggtgggtggcagtggctaaaggatttatagctcagta Alignment from CESAR gtGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAG-CTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG gttagccgtgcactaacccaagccctctttgaattctttttttctttaaggtGGGGGGAAGGTTCACTTTGAAGTCTTTGTAGAGCCTGATGGGTCCCAAGCTACTAGTAGAGACAGCAGACATGATTGGG-AAAGAGAACTTAAAGACGCTTTTAGGGAGgtatgtcttaggtggtgggtggcagtggctaaaggatttatagctcagta Alignment from Spaln_aa2Genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAG-CTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG gttagccgtgcactaacccaagccctctttgaattctttttttctttaagGTGGGGGGAAGGTTCACTTTGAAGTCTTTGTAGAGcCTGATGGGTCCCAAGCTACTAGTAGAGACAGCAGACATGATTGGGAA-AGAGAACTTAAAGACGCTTTTAGGGAGgtatgtcttaggtggtgggtggcagtggctaaaggatttatagctcagta Alignment from Spaln_nt2Genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGC-TGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG gttagccgtgcactaacccaagccctctttgaattctttttttctttaagGTGGGGGGAAGGTTCACTTTGAAGTCTTTGTAGAGCCTGATGGGTCCCAAGCTACTAGTAGAGACAGCAGACATGATTGG-GAAAGAGAACTTAAAGACGCTTTTAGGGAGgtatgtcttaggtggtgggtggcagtggctaaaggatttatagctcagta Alignment from Pairagon GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAG-CTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG gttagccgtgcactaacccaagccctctttgaattctttttttctttaagGTGGGGGGAAGGTTCACTTTGAAGTCTTTGTAGAGCCTGATGGGTCCCAAGCTACTAGTAGAGACAGCAGACATGATTGG-GAAAGAGAACTTAAAGACGCTTTTAGGGAGgtatgtcttaggtggtgggtggcagtggctaaaggatttatagctcagta Alignment from Exonerate_protein2genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAG-CTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGC--GTGAGGGAGCTTCGAGACGCCTTCCGGGAG gttagccgtgcactaacccaagccctctttgaattctttttttctttaagGTGGGGGGAAGGTTCACTTTGAAGTCTTTGTAGAGCCTGATGGGTCCCAAGCTACTAGTAGAGACAGCAGACATGATTGGGAA---AGAGAACTTAAAGACGCTTTTAGGGAGgtatgtcttaggtggtgggtggcagtggctaaaggatttatagctcagta Alignment from Exonerate_coding2genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAG-CTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGC--GTGAGGGAGCTTCGAGACGCCTTCCGGGAG gttagccgtgcactaacccaagccctctttgaattctttttttctttaagGTGGGGGGAAGGTTCACTTTGAAGTCTTTGTAGAGCCTGATGGGTCCCAAGCTACTAGTAGAGACAGCAGACATGATTGGGAA---AGAGAACTTAAAGACGCTTTTAGGGAGgtatgtcttaggtggtgggtggcagtggctaaaggatttatagctcagta Alignment from GeneWise GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG gttagccgtgcactaacccaagccctctttgaattctttttttctttaagGTGGGGGGAAGGTTCACTTTGAAGTCTTTGTAGAGCCTGATGGGTCCCAAGCTACTAGTAGAGACAGCAGACATGATTGGGAAAGAGAACTTAAAGACGCTTTTAGGGAGgtatgtcttaggtggtgggtggcagtggctaaaggatttatagctcagta #### Cabp4_ID339_5 --> 0 - 1 Original Alignment TTTGACAAG---GACAGGGATGGA-CGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATA---GACTTTGACg aaagatactggaaagggcactgtttggatttttctccactttggatacagTTTGATAAGGAGGACAGGGATGGACTGGCTCATGGTAGTGGAGTTGCGCCAGGCTGTTCCAGCTCTGC-AGGG------GTAGACGGCACTGAAGTGGATGAAATGTTGCGCAAAATGGCCCTCAATGGGGATGGGACCATAGAAGAATTTGATggtatccaaccctatatccacatcatgcaaacatatataatgtgaatagct Alignment from CESAR TTTGACAAG---GACAGGGATGGACGG-ATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATA---GACTTTGACg aaagatactggaaagggcactgtttggatttttctccactttggatacagTTTGATAAGGAGGACAGGGATGGACTGGCTCATGGTAGTGGAGTTGCGCCAGGCTGTTCCAGCTCTGCAGGGG-------TAGACGGCACTGAAGTGGATGAAATGTTGCGCAAAATGGCCCTCAATGGGGATGGGACCATAGAAGAATTTGATggtatccaaccctatatccacatcatgcaaacatatataatgtgaatagct Alignment from Spaln_aa2Genome TTTGACAAG---GACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATA---GACTTTGACG aaagatactggaaagggcactgtttggatttttctccactttggatacagTTTGATAAGGAGGACAGGGATGGACTGGCTCATGGTAGTGGAGTTGCGCCAGGCTGTTCCAGCTCTGCAGGG------GTAGACGGCACTGAAGTGGATGAAATGTTGCGCAAAATGGCCCTCAATGGGGATGGGACCATAGAAGAATTTGATGgtatccaaccctatatccacatcatgcaaacatatataatgtgaatagct Alignment from Spaln_nt2Genome TTTGACAAGGA---CAGGGATGGAC-GGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATAGAC---TTTGACG aaagatactggaaagggcactgtttggatttttctccactttggatacagTTTGATAAGGAGGACAGGGATGGACTGGCTCATGGTAGTGGAGTTGCGCCAGGCTGTTCCAGCTCTGCAGGGG-------TAGACGGCACTGAAGTGGATGAAATGTTGCGCAAAATGGCCCTCAATGGGGATGGGACCATAGAAGAATTTGATGgtatccaaccctatatccacatcatgcaaacatatataatgtgaatagct Alignment from Pairagon TTTGACA---AGGACAGGGATGGAC-GGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCAT---AGACTTTGACG aaagatactggaaagggcactgtttggatttttctccactttggatacagTTTGATAAGGAGGACAGGGATGGACTGGCTCATGGTAGTGGAGTTGCGCCAGGCTGTTCCAGCTCTGCAGGGG-------TAGACGGCACTGAAGTGGATGAAATGTTGCGCAAAATGGCCCTCAATGGGGATGGGACCATAGAAGAATTTGATGgtatccaaccctatatccacatcatgcaaacatatataatgtgaatagct Alignment from Exonerate_protein2genome TTTGACAAGGACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCA---CTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATA---GACTTTGACG aaagatactggaaagggcactgtttggatttttctccactttggATACAGTTTGATAAGGAGGACAGGGATGGACTGGCTCATGGTAGTGGAGTTGCGCCAGGCTGTTCCAGCTCTGCAGGGGTAGACGGCACTGAAGTGGATGAAATGTTGCGCAAAATGGCCCTCAATGGGGATGGGACCATAGAAGAATTTGATGgtatccaaccctatatccacatcatgcaaacatatataatgtgaatagct Alignment from Exonerate_coding2genome TTTGACAAGGACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCA---CTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATAGAC aaagatactggaaagggcactgtttggatttttctccactttggATACAGTTTGATAAGGAGGACAGGGATGGACTGGCTCATGGTAGTGGAGTTGCGCCAGGCTGTTCCAGCTCTGCAGGGGTAGACGGCACTGAAGTGGATGAAATGTTGCGCAAAATGGCCCTCAATGGGGATGGGACCATAGAAgaatttgatggtatccaaccctatatccacatcatgcaaacatatataatgtgaatagct Alignment from GeneWise TTTGACAAG---GACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATAGAC---TTTGAC---------GAGTTTGTAATGATGCTATCTACAGGC aaagatactggaaagggcactgtttggatttttctccactttggatacagTTTGATAAGGAGGACAGGGATGGACTGGCTCATGGTAGTGGAGTTGCGCCAGGCTGTTCCAGCTCTGCAGGG------GTAGACGGCACTGAAGTGGATGAAATGTTGCGCAAAATGGCCCTCAATGGGGATGGGACCATAGAAGAATTTGATGGTATCCAACCCTATATCCACATCATGCAAACATATataatgtgaatagct #### Capn1_ID1359_17 --> 0 - 0 Original Alignment CGAGATGGCAACGGGAAG-CTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG tgatgaaggatacttaagccaaagcacttctttctctccttctcttgcagCGAGACGGAAATGGGAAGCTTAGGGCTGGTGGAATTCAACATCCTATGGAACC-TATCCGAAATTATCTGgtgagggatgagatgttctctggcatgttccctgggagcccaatggagtt Alignment from CESAR CGAGATGGCAACGGGAAGCTG-GGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG tgatgaaggatacttaagccaaagcacttctttctctccttctcttgcagCGAGACGGAAATGGGAAGCTTAGGGCTGGTGGAATTCAACATCCTATGGAAC-CTATCCGAAATTATCTGgtgagggatgagatgttctctggcatgttccctgggagcccaatggagtt Alignment from Spaln_aa2Genome CGAGATGGCAACGGGAAG-CTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG tgatgaaggatacttaagccaaagcacttctttctctccttctcttgcagCGAGACGGAAATGGGAAGcTTAGGGCTGGTGGAATTCAACATCCTATGGAACCT-ATCCGAAATTATCTGgtgagggatgagatgttctctggcatgttccctgggagcccaatggagtt Alignment from Spaln_nt2Genome CGAGATGGCAACGGGAAGCTG-GGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG tgatgaaggatacttaagccaaagcacttctttctctccttctcttgcagCGAGACGGAAATGGGAAGCTTAGGGCTGGTGGAATTCAACATCCTATGGAACC-TATCCGAAATTATCTGgtgagggatgagatgttctctggcatgttccctgggagcccaatggagtt Alignment from Pairagon CGAGATGGCAACGGGAAGC-TGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG tgatgaaggatacttaagccaaagcacttctttctctccttctcttgcagCGAGACGGAAATGGGAAGCTTAGGGCTGGTGGAATTCAACATCCTATGGAACC-TATCCGAAATTATCTGgtgagggatgagatgttctctggcatgttccctgggagcccaatggagtt Alignment from Exonerate_protein2genome CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG tgatgaaggatacttaagccaaagcacttctttctctccttctcttgcagCGAGACGGAAATGGGAAGCTTAGGGCTGGTGGAATTCAACATCCTATGGAACCTATCCGAAATTATCTGgtgagggatgagatgttctctggcatgttccctgggagcccaatggagtt Alignment from Exonerate_coding2genome tgatgaaggatacttaagccaaagcacttctttctctccttctcttgcagcgagacggaaatgggaagcttagggctggtggaattcaacatcctatggaacctatccgaaattatctggtgagggatgagatgttctctggcatgttccctgggagcccaatggagtt Alignment from GeneWise CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG tgatgaaggatacttaagccaaagcacttctttctctccttctcttgcagCGAGACGGAAATGGGAAGCTTAGGGCTGGTGGAATTCAACATCCTATGGAACCTATCCGAAATTATCTGgtgagggatgagatgttctctggcatgttccctgggagcccaatggagtt #### Capn1_ID1369_7 --> 0 - 2 Original Alignment GTAACTTACCAGGGCCAGCGGGTGAAC-CTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACag ggggagtgtgtcctgactctgatgcaacggtccgattctgtttctgacagGTAACCTATCAGGGCCCACGAGTGAACCCTTATTCGTATGTGGAATTCCTGGGGTCCAG-AGAGTGGAGAGGTCCTTGGAGTGACaggtgtgtgaatgcaagcagtttcttggagatggttttatgatcaaactcct Alignment from CESAR GTAACTTACCAGGGCCAGCGGGTGAAC-CTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACag ggggagtgtgtcctgactctgatgcaacggtccgattctgtttctgacagGTAACCTATCAGGGCCCACGAGTGAACCCTTATTCGTATGTGGAATTCCTGGGGTCCA-GAGAGTGGAGAGGTCCTTGGAGTGACaggtgtgtgaatgcaagcagtttcttggagatggttttatgatcaaactcct Alignment from Spaln_aa2Genome GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG ggggagtgtgtcctgactctgatgcaacggtccgattctgtttctgacagGTAACCTATCAGGGCCCACGAGTGAACCCTTATTCGTATGTGGAATTCCTGGGGTCCAGAGAGTGGAGAGGTCCTTGGAGTGACAGgtgtgtgaatgcaagcagtttcttggagatggttttatgatcaaactcct Alignment from Spaln_nt2Genome GTAACTTACCAGGGCCAGCGGGTGAACC-TAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG ggggagtgtgtcctgactctgatgcaacggtccgattctgtttctgacagGTAACCTATCAGGGCCCACGAGTGAACCCTTATTCGTATGTGGAATTCCTGGGGTCCAG-AGAGTGGAGAGGTCCTTGGAGTGACAGgtgtgtgaatgcaagcagtttcttggagatggttttatgatcaaactcct Alignment from Pairagon GTAACTTACCAGGGCCAGCGGGTGAA-CCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG ggggagtgtgtcctgactctgatgcaacggtccgattctgtttctgacagGTAACCTATCAGGGCCCACGAGTGAACCCTTATTCGTATGTGGAATTCCTGGGGTCCAG-AGAGTGGAGAGGTCCTTGGAGTGACAGgtgtgtgaatgcaagcagtttcttggagatggttttatgatcaaactcct Alignment from Exonerate_protein2genome GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG ggggagtgtgtcctgactctgatgcaacggtccgattctgtttctgacagGTAACCTATCAGGGCCCACGAGTGAACCCTTATTCGTATGTGGAATTCCTGGGGTCCAGAGAGTGGAGAGGTCCTTGGAGTGACAGgtgtgtgaatgcaagcagtttcttggagatggttttatgatcaaactcct Alignment from Exonerate_coding2genome ggggagtgtgtcctgactctgatgcaacggtccgattctgtttctgacaggtaacctatcagggcccacgagtgaacccttattcgtatgtggaattcctggggtccagagagtggagaggtccttggagtgacaggtgtgtgaatgcaagcagtttcttggagatggttttatgatcaaactcct Alignment from GeneWise GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG ggggagtgtgtcctgactctgatgcaacggtccgattctgtttctgacagGTAACCTATCAGGGCCCACGAGTGAACCCTTATTCGTATGTGGAATTCCTGGGGTCCAGAGAGTGGAGAGGTCCTTGGAGTGACAGgtgtgtgaatgcaagcagtttcttggagatggttttatgatcaaactcct #### Capn1_ID1376_2 --> 0 - 1 Original Alignment GAACTGATGTCA-AACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGg tttagaggcacatcaaagggggcccatgcccttcatttctcatttcatagGAATTGATGTCACAACCCCCAATTCATTGTAGACGGAGCCACCCGAA-AGACATCTGCCAGGGAGCACTAggtgagtaaacatccctaggcatggggtactgtgtgacttgagctatgttt Alignment from CESAR GAACTGATGTCA-AACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGg tttagaggcacatcaaagggggcccatgcccttcatttctcatttcatagGAATTGATGTCACAACCCCCAATTCATTGTAGACGGAGCCACCCGA-AAGACATCTGCCAGGGAGCACTAggtgagtaaacatccctaggcatggggtactgtgtgacttgagctatgttt Alignment from Spaln_aa2Genome GAACTGATGTCA-AACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG tttagaggcacatcaaagggggcccatgcccttcatttctcatttcatagGAATTGATGTCAcAACCCCCAATTCATTGTAGACGGAGCCACCCGAAA-GACATCTGCCAGGGAGCACTAGgtgagtaaacatccctaggcatggggtactgtgtgacttgagctatgttt Alignment from Spaln_nt2Genome GAACTGATGTCA-AACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG tttagaggcacatcaaagggggcccatgcccttcatttctcatttcatagGAATTGATGTCACAACCCCCAATTCATTGTAGACGGAGCCACCC-GAAAGACATCTGCCAGGGAGCACTAGgtgagtaaacatccctaggcatggggtactgtgtgacttgagctatgttt Alignment from Pairagon GAACTGATGTCA-AACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG tttagaggcacatcaaagggggcccatgcccttcatttctcatttcatagGAATTGATGTCACAACCCCCAATTCATTGTAGACGGAGCCACCCGAA-AGACATCTGCCAGGGAGCACTAGgtgagtaaacatccctaggcatggggtactgtgtgacttgagctatgttt Alignment from Exonerate_protein2genome GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG tttagaggcacatcaaagggggcccatgcccttcatttctcatttcatagGAATTGATGTCACAACCCCCAATTCATTGTAGACGGAGCCACCCGAAAGACATCTGCCAGGGAGCACTAGgtgagtaaacatccctaggcatggggtactgtgtgacttgagctatgttt Alignment from Exonerate_coding2genome tttagaggcacatcaaagggggcccatgcccttcatttctcatttcataggaattgatgtcacaacccccaattcattgtagacggagccacccgaaagacatctgccagggagcactaggtgagtaaacatccctaggcatggggtactgtgtgacttgagctatgttt Alignment from GeneWise GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG tttagaggcacatcaaagggggcccatgcccttcatttctcatttcatagGAATTGATGTCACAACCCCCAATTCATTGTAGACGGAGCCACCCGAAAGACATCTGCCAGGGAGCACTAGgtgagtaaacatccctaggcatggggtactgtgtgacttgagctatgttt #### Carns1_ID388_4 --> 2 - 0 Original Alignment gaAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGC-CCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG tgcttgttgatttcattgctttgcctgaatgtttctgtcttgccatctaggaAATATGCTCCTCTGCCTGTCT---GCCTGGCTAATGAAGGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTGCTGGTTTCTCAAGCTGTGAGTTTCTATCCAGGTGGTTTGACATTCCTGGATGACTTTGTTCCACCTCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCAGAATCCGGCCGTGGCAAGGAGGCAGCAGAACTGGCCCGGAATCTCACTTGCCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAG-GAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCTTCACAGgtgagtgcaccctcccagaaagtattcctaaatgtgtataccctttcatg Alignment from CESAR gaAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCC-ACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG tgcttgttgatttcattgctttgcctgaatgtttctgtcttgccatctaggaAATATGCTCCTCTGCCTGTCT---GCCTGGCTAATGAAGGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTGCTGGTTTCTCAAGCTGTGAGTTTCTATCCAGGTGGTTTGACATTCCTGGATGACTTTGTTCCACCTCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCAGAATCCGGCCGTGGCAAGGAGGCAGCAGAACTGGCCCGGAATCTCACTTGCCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTA-GGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCTTCACAGgtgagtgcaccctcccagaaagtattcctaaatgtgtataccctttcatg Alignment from Spaln_aa2Genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG tgcttgttgatttcattgctttgcctgaatgtttctgtcttgccatctagGAAATATGCTCCTCTGCCTGTCT---GCCTGGCTAATGAAGGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTGCTGGTTTCTCAAGCTGTGAGTTTCTATCCAGGTGGTTTGACATTCCTGGATGACTTTGTTCCACCTCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCAGAATCCGGCCGTGGCAAGGAGGCAGCAGAACTGGCCCGGAATCTCACTTGCCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCTTCACAGgtgagtgcaccctcccagaaagtattcctaaatgtgtataccctttcatg Alignment from Spaln_nt2Genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCC-ACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG tgcttgttgatttcattgctttgcctgaatgtttctgtcttgccatctagGAAATATGCTCCTCTGCCTGT---CTGCCTGGCTAATGAAGGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTGCTGGTTTCTCAAGCTGTGAGTTTCTATCCAGGTGGTTTGACATTCCTGGATGACTTTGTTCCACCTCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCAGAATCCGGCCGTGGCAAGGAGGCAGCAGAACTGGCCCGGAATCTCACTTGCCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAG-GAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCTTCACAGgtgagtgcaccctcccagaaagtattcctaaatgtgtataccctttcatg Alignment from Pairagon GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCC-ACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG tgcttgttgatttcattgctttgcctgaatgtttctgtcttgccatctagGAAATATGCTCCTCTGCCTGT---CTGCCTGGCTAATGAAGGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTGCTGGTTTCTCAAGCTGTGAGTTTCTATCCAGGTGGTTTGACATTCCTGGATGACTTTGTTCCACCTCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCAGAATCCGGCCGTGGCAAGGAGGCAGCAGAACTGGCCCGGAATCTCACTTGCCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAG-GAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCTTCACAGgtgagtgcaccctcccagaaagtattcctaaatgtgtataccctttcatg Alignment from Exonerate_protein2genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG tgcttgttgatttcattgctttgcctgaatgtttctgtcttgccatctagGAAATATGCTCCTCTGCCTGTCT---GCCTGGCTAATGAAGGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTGCTGGTTTCTCAAGCTGTGAGTTTCTATCCAGGTGGTTTGACATTCCTGGATGACTTTGTTCCACCTCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCAGAATCCGGCCGTGGCAAGGAGGCAGCAGAACTGGCCCGGAATCTCACTTGCCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCTTCACAGgtgagtgcaccctcccagaaagtattcctaaatgtgtataccctttcatg Alignment from Exonerate_coding2genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG tgcttgttgatttcattgctttgcctgaatgtttctgtcttgccatctagGAAATATGCTCCTCTGCCTGTCT---GCCTGGCTAATGAAGGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTGCTGGTTTCTCAAGCTGTGAGTTTCTATCCAGGTGGTTTGACATTCCTGGATGACTTTGTTCCACCTCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCAGAATCCGGCCGTGGCAAGGAGGCAGCAGAACTGGCCCGGAATCTCACTTGCCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCTTCACAGgtgagtgcaccctcccagaaagtattcctaaatgtgtataccctttcatg Alignment from GeneWise GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG tgcttgttgatttcattgctttgcctgaatgtttctgtcttgccatctagGAAATATGCTCCTCTGCCTGTCT---GCCTGGCTAATGAAGGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTGCTGGTTTCTCAAGCTGTGAGTTTCTATCCAGGTGGTTTGACATTCCTGGATGACTTTGTTCCACCTCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCAGAATCCGGCCGTGGCAAGGAGGCAGCAGAACTGGCCCGGAATCTCACTTGCCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCTTCACAGgtgagtgcaccctcccagaaagtattcctaaatgtgtataccctttcatg #### Carns1_ID389_3 --> 2 - 1 Original Alignment gcTGCCCTGGGGCAGAGGTGACCTTGTGCATT-CTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTg cacatacagacatggaggataggacagagccatgtaactttcttttccaggcTGCCCTGGGGCAGAGGTCACCTTGTGTGTTCCTAGGTTCTCTCAGCACCTTCCTATCACTGT-GCTGGAGGGTGGGGTCCAAAGCCCTggtcaggttgtgcttctgtaataccctaccttctcctacaaaattggaaca Alignment from CESAR gcTGCCCTGGGGCAGAGGTGACCTTGTGCATT-CTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTg cacatacagacatggaggataggacagagccatgtaactttcttttccaggcTGCCCTGGGGCAGAGGTCACCTTGTGTGTTCCTAGGTTCTCTCAGCACCTTCCTATCAC-TGTGCTGGAGGGTGGGGTCCAAAGCCCTggtcaggttgtgcttctgtaataccctaccttctcctacaaaattggaaca Alignment from Spaln_aa2Genome GCTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG cacatacagacatggaggataggacagagccatgtaactttcttttccagGCTGCCCTGGGGCAGAGGTCACCTTGTGTGTTCCTAGGTTCTCTCAGCACCTTCCTATCACTGTGCTGGAGGGTGGGGTCCAAAGCCCTGgtcaggttgtgcttctgtaataccctaccttctcctacaaaattggaaca Alignment from Spaln_nt2Genome GCTGCCCTGGGGCAGAGGTGACCTTGTGCATTC-TGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG cacatacagacatggaggataggacagagccatgtaactttcttttccagGCTGCCCTGGGGCAGAGGTCACCTTGTGTGTTCCTAGGTTCTCTCAGCACCTTCCTATCACTG-TGCTGGAGGGTGGGGTCCAAAGCCCTGgtcaggttgtgcttctgtaataccctaccttctcctacaaaattggaaca Alignment from Pairagon GCTGCCCTGGGGCAGAGGTGACCTTGTGCATT-CTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG cacatacagacatggaggataggacagagccatgtaactttcttttccagGCTGCCCTGGGGCAGAGGTCACCTTGTGTGTTCCTAGGTTCTCTCAGCACCTTCCTATCACTG-TGCTGGAGGGTGGGGTCCAAAGCCCTGgtcaggttgtgcttctgtaataccctaccttctcctacaaaattggaaca Alignment from Exonerate_protein2genome GCTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG cacatacagacatggaggataggacagagccatgtaactttcttttccagGCTGCCCTGGGGCAGAGGTCACCTTGTGTGTTCCTAGGTTCTCTCAGCACCTTCCTATCACTGTGCTGGAGGGTGGGGTCCAAAGCCCTGgtcaggttgtgcttctgtaataccctaccttctcctacaaaattggaaca Alignment from Exonerate_coding2genome GCTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG cacatacagacatggaggataggacagagccatgtaactttcttttccagGCTGCCCTGGGGCAGAGGTCACCTTGTGTGTTCCTAGGTTCTCTCAGCACCTTCCTATCACTGTGCTGGAGGGTGGGGTCCAAAGCCCTGgtcaggttgtgcttctgtaataccctaccttctcctacaaaattggaaca Alignment from GeneWise GCTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG cacatacagacatggaggataggacagagccatgtaactttcttttccagGCTGCCCTGGGGCAGAGGTCACCTTGTGTGTTCCTAGGTTCTCTCAGCACCTTCCTATCACTGTGCTGGAGGGTGGGGTCCAAAGCCCTGgtcaggttgtgcttctgtaataccctaccttctcctacaaaattggaaca #### Catsper1_ID926_3 --> 2 - 1 Original Alignment aaTGGTACTTCATGGTCTTGGACTCCATCTTC-CTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGg cgatgaggccacagcctgtgtcactgtactccccacaactccccatgcagaaTGGTACTTCATGGTCCTAGACTCCATCTTCCCTTACCATCTTTGTATTAGAAGCAGTC---AAACTTATTG-TTTGGGCTTAGAGTACTTTTATGACCCATCAAATAACCTGggtaagtgaatacaggcgatttagaatggtcagggaatacatcatttagag Alignment from CESAR aaTGGTACTTCATGGTCTTGGACTCCATCTTC-CTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGg cgatgaggccacagcctgtgtcactgtactccccacaactccccatgcagaaTGGTACTTCATGGTCCTAGACTCCATCTTCCCTTACCATCTTTGTATTAGAAGCAGTC---AAACTTATT-GTTTGGGCTTAGAGTACTTTTATGACCCATCAAATAACCTGggtaagtgaatacaggcgatttagaatggtcagggaatacatcatttagag Alignment from Spaln_aa2Genome AATGGTACTTCATGGTCTTGGACTCCATCTTC-CTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG cgatgaggccacagcctgtgtcactgtactccccacaactccccatgcagAATGGTACTTCATGGTCCTAGACTCCATCTTCcCTTACCATCTTTGTATTAGAAGCAGTC---AAACTTATTGT-TTGGGCTTAGAGTACTTTTATGACCCATCAAATAACCTGGgtaagtgaatacaggcgatttagaatggtcagggaatacatcatttagag Alignment from Spaln_nt2Genome AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCT-CCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG cgatgaggccacagcctgtgtcactgtactccccacaactccccatgcagAATGGTACTTCATGGTCCTAGACTCCATCTTCCCTTACCATCTTTGTATTAGAAGCAG---TCAAACTTATTG-TTTGGGCTTAGAGTACTTTTATGACCCATCAAATAACCTGGgtaagtgaatacaggcgatttagaatggtcagggaatacatcatttagag Alignment from Pairagon AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCT-CCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG cgatgaggccacagcctgtgtcactgtactccccacaactccccatgcagAATGGTACTTCATGGTCCTAGACTCCATCTTCCCTTACCATCTTTGTATTAGAAGCAG---TCAAACTTATTG-TTTGGGCTTAGAGTACTTTTATGACCCATCAAATAACCTGGgtaagtgaatacaggcgatttagaatggtcagggaatacatcatttagag Alignment from Exonerate_protein2genome AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG cgatgaggccacagcctgtgtcactgtactccccacaactccccatgcagAATGGTACTTCATGGTCCTAGACTCCATCTTC---CCTTACCATCTTTGTATTAGAAGCAGTCAAACTTATTGTTTGGGCTTAGAGTACTTTTATGACCCATCAAATAACCTGGgtaagtgaatacaggcgatttagaatggtcagggaatacatcatttagag Alignment from Exonerate_coding2genome AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG cgatgaggccacagcctgtgtcactgtactccccacaactccccatgcagAATGGTACTTCATGGTCCTAGACTCCATCTTC---CCTTACCATCTTTGTATTAGAAGCAGTCAAACTTATTGTTTGGGCTTAGAGTACTTTTATGACCCATCAAATAACCTGGgtaagtgaatacaggcgatttagaatggtcagggaatacatcatttagag Alignment from GeneWise AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG cgatgaggccacagcctgtgtcactgtactccccacaactccccatgcagAATGGTACTTCATGGTCCTAGACTCCATCTTC---CCTTACCATCTTTGTATTAGAAGCAGTCAAACTTATTGTTTGGGCTTAGAGTACTTTTATGACCCATCAAATAACCTGGgtaagtgaatacaggcgatttagaatggtcagggaatacatcatttagag #### Catsper1_ID929_6 --> 2 - 1 Original Alignment tcCTCTTCTCTGTGGTTCTCCGAGCACTG-TTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAg gcGCCT ggaatttcatttggttatgttgataatgatttttatgttaattttaacagtcCTCTTCTCTGTGATTCTCCAAGCACTCCTTCCAGGATTCAGATCCCAAGCGTTTCCAGA-CATCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAAggtaagataacctaaggctacagatagagcaatttctttccttagctGCCT Alignment from CESAR tcCTCTTCTCTGTGGTTCTCCGAGCACTG-TTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAg gcGCCT ggaatttcatttggttatgttgataatgatttttatgttaattttaacagtcCTCTTCTCTGTGATTCTCCAAGCACTCCTTCCAGGATTCAGATCCCAAGCGTTTCC-AGACATCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAAggtaagataacctaaggctacagtattttgttacttttaaactagctGCCT Alignment from Spaln_aa2Genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGCCT ggaatttcatttggttatgttgataatgatttttatgttaattttaacagTCCTCTTCTCTGTGATTCTCCAAGCACTCCTTCCAGGATTCAGATCCCAAGCGTTTCCAGACATCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAAGgtaagataacctaaggctacagatagagcaatttctttccttagCTGCCT Alignment from Spaln_nt2Genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTC-AGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGCCT ggaatttcatttggttatgttgataatgatttttatgttaattttaacagTCCTCTTCTCTGTGATTCTCCAAGCACTCCTTCCAGGATTCAGATCCCAAGCGTTTCCAG-ACATCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAAGgtaagataacctaaggctacagatagagcaatttctttccttagCTGCCT Alignment from Pairagon TCCTCTTCTCTGTGGTTCTCCGAGCACT-GTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGCCT ggaatttcatttggttatgttgataatgatttttatgttaattttaacagTCCTCTTCTCTGTGATTCTCCAAGCACTCCTTCCAGGATTCAGATCCCAAGCGTTTCCAG-ACATCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAAGgtaagataacctaaggctacagatagagcaatttctttccttagCTGCCT Alignment from Exonerate_protein2genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGCCT ggaatttcatttggttatgttgataatgatttttatgttaattttaacagTCCTCTTCTCTGTGATTCTCCAAGCACTCCTTCCAGGATTCAGATCCCAAGCGTTTCCAGACATCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAAGgtaagataacctaaggctacagatagagcaatttctttccttagCTGCCT Alignment from Exonerate_coding2genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGCCT ggaatttcatttggttatgttgataatgatttttatgttaattttaacagTCCTCTTCTCTGTGATTCTCCAAGCACTCCTTCCAGGATTCAGATCCCAAGCGTTTCCAGACATCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAAGgtaagataacctaaggctacagatagagcaatttctttccttagCTGCCT Alignment from GeneWise TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGCCT ggaatttcatttggttatgttgataatgatttttatgttaattttaacagTCCTCTTCTCTGTGATTCTCCAAGCACTCCTTCCAGGATTCAGATCCCAAGCGTTTCCAGACATCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAAGgtaagataacctaaggctacagatagagcaatttctttccttagCTGCCT #### Catsper1_ID931_8 --> 1 - 0 Original Alignment cCTGGTGATTGCTGTCCTGGTA-GATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG cattcctatactcagtcccatttaggcaggtcaaatattcatccttgcagcCTAGTGATTGCAGCTCTAGTACGACAACTTCCTAATGGTCCTGCTCAAAG-CCTGGAGAAAGTGAAGCTGGAAgtgagtacgacattggagggtagataacttcccgatgtgctgctcaaagg Alignment from CESAR cCTGGTGATTGCTGTCCTGGTA-GATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG cattcctatactcagtcccatttaggcaggtcaaatattcatccttgcagcCTAGTGATTGCAGCTCTAGTACGACAACTTCCTAATGGTCCTGCTCA-AAGCCTGGAGAAAGTGAAGCTGGAAgtgagtacgacattggagggtagataacttcccgatgtgctgctcaaagg Alignment from Spaln_aa2Genome CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAG G cattcctatactcagtcccatttaggcaggtcaaatattcatccttgcagCCTAGTGATTGCAGCTCTAGTACGACAACTTCCTAATGGTCCTGCTCAAAgcctggagaaagtgaagctggaagtgagtacgacattggagggtagataacttcccgatgtgctgctcaaagG Alignment from Spaln_nt2Genome CCTGGTGATTGCTGTCCT- GGTAGATAACTTCCAGATGGCGTTGCTCAAAG cattcctatactcagtcccatttaggcaggtcaaatattcatccttgcagCCTAGTGATTGCAGCTCTAgtacgacaacttcctaatggtcctgctcaaagcctggagaaagtgaagctggaagtgagtacgacattggagGGTAGATAACTTCCCGAT-GTGCTGCTCAAAG Alignment from Pairagon CCTGGTGATTGCTGTCCTGGTA-GATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG cattcctatactcagtcccatttaggcaggtcaaatattcatccttgcagCCTAGTGATTGCAGCTCTAGTACGACAACTTCCTAATGGTCCTGCTCAAA-GCCTGGAGAAAGTGAAGCTGGAAgtgagtacgacattggagggtagataacttcccgatgtgctgctcaaagg Alignment from Exonerate_protein2genome CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG cattcctatactcagtcccatttaggcaggtcaaatattcatccttgcagCCTAGTGATTGCAGCTCTAGTACGACAACTTCCTAATGGTCCTGCTCAAAGCCTGGAGAAAGTGAAGCTGGAAgtgagtacgacattggagggtagataacttcccgatgtgctgctcaaagg Alignment from Exonerate_coding2genome CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG cattcctatactcagtcccatttaggcaggtcaaatattcatccttgcagCCTAGTGATTGCAGCTCTAGTACGACAACTTCCTAATGGTCCTGCTCAAAGCCTGGAGAAAGTGAAGCTGGAAgtgagtacgacattggagggtagataacttcccgatgtgctgctcaaagg Alignment from GeneWise CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG cattcctatactcagtcccatttaggcaggtcaaatattcatccttgcagCCTAGTGATTGCAGCTCTAGTACGACAACTTCCTAATGGTCCTGCTCAAAGCCTGGAGAAAGTGAAGCTGGAAgtgagtacgacattggagggtagataacttcccgatgtgctgctcaaagg #### Ccdc88b_ID1824_25 --> 2 - 1 Original Alignment ggTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCA-GGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAg gttgtgatgacctcgcctgatccatacactttctttctcattctctgcagggTCATCATCACCAGCACCCATGCACCAAATTGAGAGCTCTCTTTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCCCTGTTGGACGAAGTCCAGCATCATTCAGTCCACAGC---ACATCACGGCAATGGTTCAAACAGCAAAGGC-AGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAggtgagtgatgttttactatgatttgagttgccattgttttaggtggtcag Alignment from CESAR ggTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAg gttgtgatgacctcgcctgatccatacactttctttctcattctctgcagggTCATCATCACCAGCACCCATGCACCAAATTGAGAGCTCTCTTTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCCCTGTTGGACGAAGTCCAGCATCATTCAGTCCA--CAGCACATCACGGCAATGGTTCAAACAGCAAAGG-CAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAggtgagtgatgttttactatgatttgagttgccattgttttaggtggtcag Alignment from Spaln_aa2Genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG gttgtgatgacctcgcctgatccatacactttctttctcattctctgcagGGTCATCATCACCAGCACCCATGCACCAAATTGAGAGCTCTCTTTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCCCTGTTGGACGAAGTCCAGCATCATTCAGTCCACAGCACATCACG---GCAATGGTTCAAACAGCAAAGGCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtgagtgatgttttactatgatttgagttgccattgttttaggtggtcag Alignment from Spaln_nt2Genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG gttgtgatgacctcgcctgatccatacactttctttctcattctctgcagGGTCATCATCACCAGCACCCATGCACCAAATTGAGAGCTCTCTTTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCCCTGTTGGACGAAGTCCAGCATCATTCAGTCCACAG--CACATCACGGCAATGGTTCAAACAGCAAAG-GCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtgagtgatgttttactatgatttgagttgccattgttttaggtggtcag Alignment from Pairagon GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG gttgtgatgacctcgcctgatccatacactttctttctcattctctgcagGGTCATCATCACCAGCACCCATGCACCAAATTGAGAGCTCTCTTTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCCCTGTTGGACGAAGTCCAGCATCATTCAGTCCACAG--CACATCACGGCAATGGTTCAAACAGCAAAG-GCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtgagtgatgttttactatgatttgagttgccattgttttaggtggtcag Alignment from Exonerate_protein2genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG gttgtgatgacctcgcctgatccatacactttctttctcattctctgcagGGTCATCATCACCAGCACCCATGCACCAAATTGAGAGCTCTCTTTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCCCTGTTGGACGAAGTCCAGCATCATTCAGTCCACAGCACATCACGGCAATG---GTTCAAACAGCAAAGGCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtgagtgatgttttactatgatttgagttgccattgttttaggtggtcag Alignment from Exonerate_coding2genome gttgtgatgacctcgcctgatccatacactttctttctcattctctgcagggtcatcatcaccagcacccatgcaccaaattgagagctctctttgcttgggagatgagaccctagctggtgggcagcgacggagtctcagttctcagttccctgttggacgaagtccagcatcattcagtccacagcacatcacggcaatggttcaaacagcaaaggcaggcccccttggggcactgagtacctacagcaaaggtgagtgatgttttactatgatttgagttgccattgttttaggtggtcag Alignment from GeneWise GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG gttgtgatgacctcgcctgatccatacactttctttctcattctctgcagGGTCATCATCACCAGCACCCATGCACCAAATTGAGAGCTCTCTTTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCCCTGTTGGACGAAGTCCAGCATCATTCAGTCCACAGCACATCACGGCAATG---GTTCAAACAGCAAAGGCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtgagtgatgttttactatgatttgagttgccattgttttaggtggtcag #### Ccdc88b_ID1826_23 --> 1 - 2 Original Alignment ct gGACCAGCTTAATGCCTTGCGCCGG-GAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCaa ctgtagcgccacttagggccaggttaaggctgacgggtggtcccctccaggGACCAACTCAATGGCTTGCGCCAACCAGAAACAGAAGCTGGTGGAT---ATCATGGACCAGT-CCGCGTAGTACAGCCTGGGCCGCTACCCCATACTaagtcaggtagcaccttatgtatcatgttagtattttgctctgttccacggc Alignment from CESAR ct gGACCAGCTTAATGCCTTGCGCCGG-GAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCaa ctgtgagtccacttagggccaggttaaggctgacgggtggtcccctccaggGACCAACTCAATGGCTTGCGCCAACCAGAAACAGAAGCTGGTGGAT---ATCATGGACCAG-TCCGCGTAGTACAGCCTGGGCCGCTACCCCATACTaagtcaggtagcaccttatgtatcatgttagtattttgctctgttccacggc Alignment from Spaln_aa2Genome CT GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA CTgtagcgccacttagggccaggttaaggctgacgggtggtcccctccagGGACCAACTCAATGGCTTGCGCCAACCAGAAACAGAA---GCTGGTGGATATCATGGACCAGTCCGCGTAGTACAGCCTGGGCCGCTACCCCATACTAAgtcaggtagcaccttatgtatcatgttagtattttgctctgttccacggc Alignment from Spaln_nt2Genome CT GGACCAGCTTAATGCCTTGCGCCGGG-AGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA CTgtagcgccacttagggccaggttaaggctgacgggtggtcccctccagGGACCAACTCAATGGCTTGCGCCAACCAGAAACAGAAGCTGGTGG---ATATCATGGACCAGT-CCGCGTAGTACAGCCTGGGCCGCTACCCCATACTAAgtcaggtagcaccttatgtatcatgttagtattttgctctgttccacggc Alignment from Pairagon CT GGACCAGCTTAATGCCTTGCGCCGG-GAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA CTgtagcgccacttagggccaggttaaggctgacgggtggtcccctccagGGACCAACTCAATGGCTTGCGCCAACCAGAAACAGAAGCTGGTGG---ATATCATGGACCAGT-CCGCGTAGTACAGCCTGGGCCGCTACCCCATACTAAgtcaggtagcaccttatgtatcatgttagtattttgctctgttccacggc Alignment from Exonerate_protein2genome CT GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA CTgtagcgccacttagggccaggttaaggctgacgggtggtcccctccagGGACCAACTCAATGGCTTGCGCCAACCAGAAACAGAA---GCTGGTGGATATCATGGACCAGTCCGCGTAGTACAGCCTGGGCCGCTACCCCATACTAAgtcaggtagcaccttatgtatcatgttagtattttgctctgttccacggc Alignment from Exonerate_coding2genome ctgtagcgccacttagggccaggttaaggctgacgggtggtcccctccagggaccaactcaatggcttgcgccaaccagaaacagaagctggtggatatcatggaccagtccgcgtagtacagcctgggccgctaccccatactaagtcaggtagcaccttatgtatcatgttagtattttgctctgttccacggc Alignment from GeneWise CT GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA CTgtagcgccacttagggccaggttaaggctgacgggtggtcccctccagGGACCAACTCAATGGCTTGCGCCAACCAGAAACAGAA---GCTGGTGGATATCATGGACCAGTCCGCGTAGTACAGCCTGGGCCGCTACCCCATACTAAgtcaggtagcaccttatgtatcatgttagtattttgctctgttccacggc #### Ccdc88b_ID1828_21 --> 1 - 0 Original Alignment aGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAG-CTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGT------GAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG gtgacattctccatttttaatatttaaagattctacattcttttgtgcagaGCCCAAATGTTACTGACCGAGGTGTCACGAGGGTGTGGAGAGATCCAGGGAGAATGCGGGGAGCCTGTGGGGCCGTCTATCAAGACTGGAACTGGAGCGGGCAC-ACTTGAAATCCAGAGCCAGCAGCTGCGTGTGTGGGAGTCCAACCAACAATTGGATCTGAGTGCATGTCACCTGACAACTCAATGTGAAgtatggcacaacagtgggcatataaggcctcacacactaatggtcactga Alignment from CESAR aGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAG-CTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGT------GAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG gtgacattctccatttttaatatttaaagattctacattcttttgtgcagaGCCCAAATGTTACTGACCGAGGTGTCACGAGGGTGTGGAGAGATCCAGGGAGAATGCGGGGAGCCTGTGGGGCCGTCTATCAAGACTGGAACTGGAGCGGGCAC-ACTTGAAATCCAGAGCCAGCAGCTGCGTGTGTGGGAGTCCAACCAACAATTGGATCTGAGTGCATGTCACCTGACAACTCAATGTGAAgtatggcacaacagtgggcatataaggcctcacacactaatggtcactga Alignment from Spaln_aa2Genome AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGT------GAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG gtgacattctccatttttaatatttaaagattctacattcttttgtgcagAGCCCAAATGTTACTGACCGAGGTGTCACGAGGGTGTGGAGAGATCCAGGGAGAATGCGGGGAGCCTGTGGGGCCGTCTATCAAGACTGGAACTGGAGCGGGCACACTTGAAATCCAGAGCCAGCAGCTGCGTGTGTGGGAGTCCAACCAACAATTGGATCTGAGTGCATGTCACCTGACAACTCAATGTGAAgtatggcacaacagtgggcatataaggcctcacacactaatggtcactga Alignment from Spaln_nt2Genome AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGC-TGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGTGA------GTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG gtgacattctccatttttaatatttaaagattctacattcttttgtgcagAGCCCAAATGTTACTGACCGAGGTGTCACGAGGGTGTGGAGAGATCCAGGGAGAATGCGGGGAGCCTGTGGGGCCGTCTATCAAGACTGGAACTGGAGCGGGCAC-ACTTGAAATCCAGAGCCAGCAGCTGCGTGTGTGGGAGTCCAACCAACAATTGGATCTGAGTGCATGTCACCTGACAACTCAATGTGAAgtatggcacaacagtgggcatataaggcctcacacactaatggtcactga Alignment from Pairagon AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAG-CTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGT------GAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG gtgacattctccatttttaatatttaaagattctacattcttttgtgcagAGCCCAAATGTTACTGACCGAGGTGTCACGAGGGTGTGGAGAGATCCAGGGAGAATGCGGGGAGCCTGTGGGGCCGTCTATCAAGACTGGAACTGGAGCGGGCAC-ACTTGAAATCCAGAGCCAGCAGCTGCGTGTGTGGGAGTCCAACCAACAATTGGATCTGAGTGCATGTCACCTGACAACTCAATGTGAAgtatggcacaacagtgggcatataaggcctcacacactaatggtcactga Alignment from Exonerate_protein2genome AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGT------GAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG gtgacattctccatttttaatatttaaagattctacattcttttgtgcagAGCCCAAATGTTACTGACCGAGGTGTCACGAGGGTGTGGAGAGATCCAGGGAGAATGCGGGGAGCCTGTGGGGCCGTCTATCAAGACTGGAACTGGAGCGGGCACACTTGAAATCCAGAGCCAGCAGCTGCGTGTGTGGGAGTCCAACCAACAATTGGATCTGAGTGCATGTCACCTGACAACTCAATGTGAAgtatggcacaacagtgggcatataaggcctcacacactaatggtcactga Alignment from Exonerate_coding2genome AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGT------GAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAGCTT gtgacattctccatttttaatatttaaagattctacattcttttgtgcagAGCCCAAATGTTACTGACCGAGGTGTCACGAGGGTGTGGAGAGATCCAGGGAGAATGCGGGGAGCCTGTGGGGCCGTCTATCAAGACTGGAACTGGAGCGGGCACACTTGAAATCCAGAGCCAGCAGCTGCGTGTGTGGGAGTCCAACCAACAATTGGATCTGAGTGCATGTCACCTGACAACTCAATGTGAAGTAtggcacaacagtgggcatataaggcctcacacactaatggtcactga Alignment from GeneWise AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGT------GAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG gtgacattctccatttttaatatttaaagattctacattcttttgtgcagAGCCCAAATGTTACTGACCGAGGTGTCACGAGGGTGTGGAGAGATCCAGGGAGAATGCGGGGAGCCTGTGGGGCCGTCTATCAAGACTGGAACTGGAGCGGGCACACTTGAAATCCAGAGCCAGCAGCTGCGTGTGTGGGAGTCCAACCAACAATTGGATCTGAGTGCATGTCACCTGACAACTCAATGTGAAgtatggcacaacagtgggcatataaggcctcacacactaatggtcactga #### Ccdc88b_ID1829_20 --> 1 - 2 Original Alignment gCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTA-CTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGag ctcaaaaagctggtgcgccaatggtctgttgtgctcgttttgttttgtagaCGTGGGCAGTTGCATGCCCAGCGGGCAAATGTTGAGGCTCAAGATGTAGCCCTACCTGGCAGAA---GAACAATTGATGCAGGATG-GCAGTGGCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTCCATAATGAACATCAAaggtaagtttgttagctcaggcctattccccccccctggcatagcattctca Alignment from CESAR gCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTA-CTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGag ctcaaaaagctggtgcgccaatggtctgttgtgctcgttttgttttgtagaCGTGGGCAGTTGCATGCCCAGCGGGCAAATGTTGAGGCTCAAGATGTAGCCCTACCTGGCAGAA---GAACAATTGATGCAGGATG-GCAGTGGCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTCCATAATGAACATCAAaggtaagtttgttagctcaggcctattccccccccctggcatagcattctca Alignment from Spaln_aa2Genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagctggtgcgccaatggtctgttgtgctcgttttgttttgtagACGTGGGCAGTTGCATGCCCAGCGGGCAAATGTTGAGGCTCAAGATGTAGCC---CTACCTGGCAGAAGAACAATTGATGCAGGATGGCAGTGGCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTCCATAATGAACATCAAAGgtaagtttgttagctcaggcctattccccccccctggcatagcattctca Alignment from Spaln_nt2Genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTAC-TGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagctggtgcgccaatggtctgttgtgctcgttttgttttgtagACGTGGGCAGTTGCATGCCCAGCGGGCAAATGTTGAGGCTCAAGATGTAGCCCTACCTGGCAGA---AGAACAATTGATGCAGGATGG-CAGTGGCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTCCATAATGAACATCAAAGgtaagtttgttagctcaggcctattccccccccctggcatagcattctca Alignment from Pairagon GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTA-CTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagctggtgcgccaatggtctgttgtgctcgttttgttttgtagACGTGGGCAGTTGCATGCCCAGCGGGCAAATGTTGAGGCTCAAGATGTAGCCCTACCTGGCAGAA---GAACAATTGATGCAGGATGG-CAGTGGCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTCCATAATGAACATCAAAGgtaagtttgttagctcaggcctattccccccccctggcatagcattctca Alignment from Exonerate_protein2genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagctggtgcgccaatggtctgttgtgctcgttttgttttgtagACGTGGGCAGTTGCATGCCCAGCGGGCAAATGTTGAGGCTCAAGATGTAGCC---CTACCTGGCAGAAGAACAATTGATGCAGGATGGCAGTGGCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTCCATAATGAACATCAAAGgtaagtttgttagctcaggcctattccccccccctggcatagcattctca Alignment from Exonerate_coding2genome ctcaaaaagctggtgcgccaatggtctgttgtgctcgttttgttttgtagacgtgggcagttgcatgcccagcgggcaaatgttgaggctcaagatgtagccctacctggcagaagaacaattgatgcaggatggcagtggcagtgtgggctggatgaggagctgcgcaggctccataatgaacatcaaaggtaagtttgttagctcaggcctattccccccccctggcatagcattctca Alignment from GeneWise GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagctggtgcgccaatggtctgttgtgctcgttttgttttgtagACGTGGGCAGTTGCATGCCCAGCGGGCAAATGTTGAGGCTCAAGATGTAGCCCTACCTGGCAGAAGA---ACAATTGATGCAGGATGGCAGTGGCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTCCATAATGAACATCAAAGgtaagtttgttagctcaggcctattccccccccctggcatagcattctca #### Ccdc88b_ID1831_18 --> 0 - 0 Original Alignment AATGCCACACTGGTG-GCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gaggtaatagggctcacaacattaatatggtctggacttgcccttcacagAATGCCACATTGGTGCGCAGAGAAAGCGGCTCTCCAGGGACAGTTGCAGCATCTTG-GGGACAGCTGGGGAGCCTACATGGCCGTGCACAGGAATTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtgagaatgggctgtggtgtgcacttctataacaatttattgactttcca Alignment from CESAR AATGCCACACTGGTG-GCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gaggtaatagggctcacaacattaatatggtctggacttgcccttcacagAATGCCACATTGGTGCGCAGAGAAAGCGGCTCTCCAGGGACAGTTGCAGCATCTT-GGGGACAGCTGGGGAGCCTACATGGCCGTGCACAGGAATTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtgagaatgggctgtggtgtgcacttctataacaatttattgactttcca Alignment from Spaln_aa2Genome AATGCCACACTGGTG-GCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gaggtaatagggctcacaacattaatatggtctggacttgcccttcacagAATGCCACATTGGTGcGCAGAGAAAGCGGCTCTCCAGGGACAGTTGCAGCATCTTGG-GGACAGCTGGGGAGCCTACATGGCCGTGCACAGGAATTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtgagaatgggctgtggtgtgcacttctataacaatttattgactttcca Alignment from Spaln_nt2Genome AATGCCACACTGGTG-GCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gaggtaatagggctcacaacattaatatggtctggacttgcccttcacagAATGCCACATTGGTGCGCAGAGAAAGCGGCTCTCCAGGGACAGTTGCAGCATCTTG-GGGACAGCTGGGGAGCCTACATGGCCGTGCACAGGAATTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtgagaatgggctgtggtgtgcacttctataacaatttattgactttcca Alignment from Pairagon AATGCCACACTGGTG-GCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gaggtaatagggctcacaacattaatatggtctggacttgcccttcacagAATGCCACATTGGTGCGCAGAGAAAGCGGCTCTCCAGGGACAGTTGCAGCATCTTG-GGGACAGCTGGGGAGCCTACATGGCCGTGCACAGGAATTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtgagaatgggctgtggtgtgcacttctataacaatttattgactttcca Alignment from Exonerate_protein2genome AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gaggtaatagggctcacaacattaatatggtctggacttgcccttcacagAATGCCACATTGGTGCGCAGAGAAAGCGGCTCTCCAGGGACAGTTGCAGCATCTTGGGGACAGCTGGGGAGCCTACATGGCCGTGCACAGGAATTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtgagaatgggctgtggtgtgcacttctataacaatttattgactttcca Alignment from Exonerate_coding2genome AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gaggtaatagggctcacaacattaatatggtctggacttgcccttcacagAATGCCACATTGGTGCGCAGAGAAAGCGGCTCTCCAGGGACAGTTGCAGCATCTTGGGGACAGCTGGGGAGCCTACATGGCCGTGCACAGGAATTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtgagaatgggctgtggtgtgcacttctataacaatttattgactttcca Alignment from GeneWise --------------------------------------------------AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG GAGGTAATAGGGCTCACAACATTAATATGGTCTGGACTTGCCCTTCACAGAATGCCACATTGGTGCGCAGAGAAAGCGGCTCTCCAGGGACAGTTGCAGCATCTTGGGGACAGCTGGGGAGCCTACATGGCCGTGCACAGGAATTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtgagaatgggctgtggtgtgcacttctataacaatttattgactttcca #### Ccdc88b_ID1832_17 --> 0 - 0 Original Alignment CTGCGCCAGTACCCGGTGGACCTGGCA-ACTGGGGCGCGA---GCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT agatcgatgtggagaacaactacctgtttacctccattttttttcctgagCTACATCAGTGCCCGGTG---CTT---CGAAGGGGCACGGCGAGATGGTCCTTGGGCTGTGGAGACACAGA-CGGGCGGCTCATTGTAGTAGAGCAAAATgtgagtaagaaggtgggggcttaccctagaggtaatagggctcacaacat Alignment from CESAR CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCG---CGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT agatcgatgtggagaacaactacctgtttacctccattttttttcctgagCTACATCAGTGCCCGGTG---CTT--CGAAGGGGCACGGCGAGATGGTCCTTGGGCTGTGGAGACAC-AGACGGGCGGCTCATTGTAGTAGAGCAAAATgtgagtaagaaggtgggggcttaccctagaggtaatagggctcacaacat Alignment from Spaln_aa2Genome CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT agatcgatgtggagaacaactacctgtttacctccattttttttcctgagCTACATCAGTGCCCGGTG---CTTCGAAGGGGCACGGCGAGATGGTCCTTGGGCTGTGGAGACACAGACGGGCGGCTCATTGTAGTAGAGCAAAATgtgagtaagaaggtgggggcttaccctagaggtaatagggctcacaacat Alignment from Spaln_nt2Genome CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCG-CGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT agatcgatgtggagaacaactacctgtttacctccattttttttcctgagCTACATCAGTGCCCGGTG---CTTCGAAGGGGCACGGCGAGATGGTCCTTGGGCTGTGGAGACACAG-ACGGGCGGCTCATTGTAGTAGAGCAAAATgtgagtaagaaggtgggggcttaccctagaggtaatagggctcacaacat Alignment from Pairagon CTGCGCCAGTACCCGGTGGACCTGGCAACT-----GGGGC---GCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT agatcgatgtggagaacaactacctgtttacctccattttttttcctgagCTACATCAGTGCCCGGTG----------CTTCGAAGGGGCACGGCGAGATGGTCCTTGGGCTGTGGAGACACAG-ACGGGCGGCTCATTGTAGTAGAGCAAAATgtgagtaagaaggtgggggcttaccctagaggtaatagggctcacaacat Alignment from Exonerate_protein2genome CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGG agatcgatgtggagaacaactacctgtttacctccattttttttcctgagctacatcagtgcccggtgcttcgaaggggcacggcgagatggtccttgggctgtggagacacagacgggcggCTCATTGTAGTAGAGCAAAATGTGAGTAAGAAGGTGGGGGCTTACCCTAGAGGTAATAGGGCTCACAACAT Alignment from Exonerate_coding2genome CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGG agatcgatgtggagaacaactacctgtttacctccattttttttcctgagctacatcagtgcccggtgcttcgaaggggcacggcgagatggtccttgggctgtggagacacagacgggcggCTCATTGTAGTAGAGCAAAATGTGAGTAAGAAGGTGGGGGCTTACCCTAGAGGTAATAGGGCTCACAACAT Alignment from GeneWise CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT agatcgatgtggagaacaactacctgtttacctccattttttttcctgagCTACATCAGTGCCCGGTG---CTTCGAAGGGGCACGGCGAGATGGTCCTTGGGCTGTGGAGACACAGACGGGCGGCTCATTGTAGTAGAGCAAAATgtgagtaagaaggtgggggcttaccctagaggtaatagggctcacaacat #### Ccdc88b_ID1837_12 --> 0 - 1 Original Alignment GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTG-GAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGg gggcctaatggacagacagctccgacacatgtatatttttttatttgtagGACCTGGACTCACTGCGGCACCAGTTGGAACAGCTAGTGGAAGAGAATGTGCGAGCTGGAGCTGGAACTGCAGAGAAGTTTGGAGC-ACCTCCAGGCTCCCCTGGGGAGggtgagtcaggtcttgtgtaacagacaggatttggcaaggaaggcaacctt Alignment from CESAR GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTG-GAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGg gggcctaatggacagacagctccgacacatgtatatttttttatttgtagGACCTGGACTCACTGCGGCACCAGTTGGAACAGCTAGTGGAAGAGAATGTGCGAGCTGGAGCTGGAACTGCAGAGAAGTTTGGAG-CACCTCCAGGCTCCCCTGGGGAGggtgagtcaggtcttgtgtaacagacaggatttggcaaggaaggcaacctt Alignment from Spaln_aa2Genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG gggcctaatggacagacagctccgacacatgtatatttttttatttgtagGACCTGGACTCACTGCGGCACCAGTTGGAACAGCTAGTGGAAGAGAATGTGCGAGCTGGAGCTGGAACTGCAGAGAAGTTTGGAGCACCTCCAGGCTCCCCTGGGGAGGgtgagtcaggtcttgtgtaacagacaggatttggcaaggaaggcaacctt Alignment from Spaln_nt2Genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTG-GAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG gggcctaatggacagacagctccgacacatgtatatttttttatttgtagGACCTGGACTCACTGCGGCACCAGTTGGAACAGCTAGTGGAAGAGAATGTGCGAGCTGGAGCTGGAACTGCAGAGAAGTTTGGAG-CACCTCCAGGCTCCCCTGGGGAGGgtgagtcaggtcttgtgtaacagacaggatttggcaaggaaggcaacctt Alignment from Pairagon GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTG-GAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG gggcctaatggacagacagctccgacacatgtatatttttttatttgtagGACCTGGACTCACTGCGGCACCAGTTGGAACAGCTAGTGGAAGAGAATGTGCGAGCTGGAGCTGGAACTGCAGAGAAGTTTGGAG-CACCTCCAGGCTCCCCTGGGGAGGgtgagtcaggtcttgtgtaacagacaggatttggcaaggaaggcaacctt Alignment from Exonerate_protein2genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG gggcctaatggacagacagctccgacacatgtatatttttttatttgtagGACCTGGACTCACTGCGGCACCAGTTGGAACAGCTAGTGGAAGAGAATGTGCGAGCTGGAGCTGGAACTGCAGAGAAGTTTGGAGCACCTCCAGGCTCCCCTGGGGAGGgtgagtcaggtcttgtgtaacagacaggatttggcaaggaaggcaacctt Alignment from Exonerate_coding2genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG gggcctaatggacagacagctccgacacatgtatatttttttatttgtagGACCTGGACTCACTGCGGCACCAGTTGGAACAGCTAGTGGAAGAGAATGTGCGAGCTGGAGCTGGAACTGCAGAGAAGTTTGGAGCACCTCCAGGCTCCCCTGGGGAGGgtgagtcaggtcttgtgtaacagacaggatttggcaaggaaggcaacctt Alignment from GeneWise GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG gggcctaatggacagacagctccgacacatgtatatttttttatttgtagGACCTGGACTCACTGCGGCACCAGTTGGAACAGCTAGTGGAAGAGAATGTGCGAGCTGGAGCTGGAACTGCAGAGAAGTTTGGAGCACCTCCAGGCTCCCCTGGGGAGGgtgagtcaggtcttgtgtaacagacaggatttggcaaggaaggcaacctt #### Ccdc88b_ID1841_8 --> 0 - 2 Original Alignment CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAAT-GCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGgt ggtcagtgtgggagttaatcatgtgttccatatcctgtcccccatgccagCGGTTGGCTGAACTGTTGCTTGAGAGGGAGCCAGACCACCTGCTGCTCCCTGAGGCTCCTGCCAATCGCA------GAGGGTGTCTCCCACCATTTAGATCTGC-ATTAACCAATGCTAAGGCTCAACTGAGATGCCTCAGGAGGGAGgtgtagggggccaaaggcacatgaaggcgtaagtgaaatcctggtgggtcct Alignment from CESAR CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGgt ggtcagtgtgggagttaatcatgtgttccatatcctgtcccccatgccagCGGTTGGCTGAACTGTTGCTTGAGAGGGAGCCAGACCACCTGCTGCTCCCTGAGGCTCCTGCCAAT-----CGCAGAGGGTGTCTCCCACCATTTAGATCTGC-ATTAACCAATGCTAAGGCTCAACTGAGATGCCTCAGGAGGGAGgtgtagggggccaaaggcacatgaaggcgtaagtgaaatcctggtgggtcct Alignment from Spaln_aa2Genome CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGT ggtcagtgtgggagttaatcatgtgttccatatcctgtcccccatgccagCGGTTGGCTGAACTGTTGCTTGAGAGGGAGCCAGACCACCTGCTGCTCCCTGAGGCTCCTGCCAATCGCAGA------GGGTGTCTCCCACCATTTAGATCTGCATTAACCAATGCTAAGGCTCAACTGAGATGCCTCAGGAGGGAGGTgtagggggccaaaggcacatgaaggcgtaagtgaaatcctggtgggtcct Alignment from Spaln_nt2Genome CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGT ggtcagtgtgggagttaatcatgtgttccatatcctgtcccccatgccagCGGTTGGCTGAACTGTTGCTTGAGAGGGAGCCAGACCACCTGCTGCTCCCTGAGGCTCCTGCCAAT-----CGCAGAGGGTGTCTCCCACCATTTAGATCTGCA-TTAACCAATGCTAAGGCTCAACTGAGATGCCTCAGGAGGGAGGTgtagggggccaaaggcacatgaaggcgtaagtgaaatcctggtgggtcct Alignment from Pairagon CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGT ggtcagtgtgggagttaatcatgtgttccatatcctgtcccccatgccagCGGTTGGCTGAACTGTTGCTTGAGAGGGAGCCAGACCACCTGCTGCTCCCTGAGGCTCCTGCCAAT-----CGCAGAGGGTGTCTCCCACCATTTAGATCTGCA-TTAACCAATGCTAAGGCTCAACTGAGATGCCTCAGGAGGGAGGTgtagggggccaaaggcacatgaaggcgtaagtgaaatcctggtgggtcct Alignment from Exonerate_protein2genome CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGT ggtcagtgtgggagttaatcatgtgttccatatcctgtcccccatgccagCGGTTGGCTGAACTGTTGCTTGAGAGGGAGCCAGACCACCTGCTGCTCCCTGAGGCTCCTGCCAAT------CGCAGAGGGTGTCTCCCACCATTTAGATCTGCATTAACCAATGCTAAGGCTCAACTGAGATGCCTCAGGAGGGAGGTgtagggggccaaaggcacatgaaggcgtaagtgaaatcctggtgggtcct Alignment from Exonerate_coding2genome ggtcagtgtgggagttaatcatgtgttccatatcctgtcccccatgccagcggttggctgaactgttgcttgagagggagccagaccacctgctgctccctgaggctcctgccaatcgcagagggtgtctcccaccatttagatctgcattaaccaatgctaaggctcaactgagatgcctcaggagggaggtgtagggggccaaaggcacatgaaggcgtaagtgaaatcctggtgggtcct Alignment from GeneWise CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGT ggtcagtgtgggagttaatcatgtgttccatatcctgtcccccatgccagCGGTTGGCTGAACTGTTGCTTGAGAGGGAGCCAGACCACCTGCTGCTCCCTGAGGCTCCTGCCAATCGC------AGAGGGTGTCTCCCACCATTTAGATCTGCATTAACCAATGCTAAGGCTCAACTGAGATGCCTCAGGAGGGAGGTgtagggggccaaaggcacatgaaggcgtaagtgaaatcctggtgggtcct #### Ccdc88b_ID1845_4 --> 0 - 1 Original Alignment GAGGAGCTACAGCTGCTG-ATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAg acccagtagcacctagcatggatacatttggcttctccttgaccttgcagGAGGAGCTACAGCTTTTACATCTTATCAGCACCACCAGACCTCCAGCCTACAG-GTGTGAACCCTTCTCAggtaagggttctagcctcttctaccatttgactctcttatataccctcatc Alignment from CESAR GAGGAGCTACAGCTGCTG-ATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAg acccagtagcacctagcatggatacatttggcttctccttgaccttgcagGAGGAGCTACAGCTTTTACATCTTATCAGCACCACCAGACCTCCAGCCTACAG-GTGTGAACCCTTCTCAggtaagggttctagcctcttctaccatttgactctcttatataccctcatc Alignment from Spaln_aa2Genome GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG acccagtagcacctagcatggatacatttggcttctccttgaccttgcagGAGGAGCTACAGCTTTTACATCTTATCAGCACCACCAGACCTCCAGCCTACAGGTGTGAACCCTTCTCAGgtaagggttctagcctcttctaccatttgactctcttatataccctcatc Alignment from Spaln_nt2Genome GAGGAGCTACAGCTGCTG-ATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG acccagtagcacctagcatggatacatttggcttctccttgaccttgcagGAGGAGCTACAGCTTTTACATCTTATCAGCACCACCAGACCTCCAGCCTA-CAGGTGTGAACCCTTCTCAGgtaagggttctagcctcttctaccatttgactctcttatataccctcatc Alignment from Pairagon GAGGAGCTACAGCTGCTG-ATCCTATCACCACCTCCAGACCTCCAG---ACAATGGGGTGTGACCCCTTCTCAG acccagtagcacctagcatggatacatttggcttctccttgaccttgcagGAGGAGCTACAGCTTTTACATCTTATCAGCACCACCAGACCTCCAGCCTACA----GGTGTGAACCCTTCTCAGgtaagggttctagcctcttctaccatttgactctcttatataccctcatc Alignment from Exonerate_protein2genome GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG acccagtagcacctagcatggatacatttggcttctccttgaccttgcagGAGGAGCTACAGCTTTTACATCTTATCAGCACCACCAGACCTCCAGCCTACAGGTGTGAACCCTTCTCAGgtaagggttctagcctcttctaccatttgactctcttatataccctcatc Alignment from Exonerate_coding2genome acccagtagcacctagcatggatacatttggcttctccttgaccttgcaggaggagctacagcttttacatcttatcagcaccaccagacctccagcctacaggtgtgaacccttctcaggtaagggttctagcctcttctaccatttgactctcttatataccctcatc Alignment from GeneWise GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG acccagtagcacctagcatggatacatttggcttctccttgaccttgcagGAGGAGCTACAGCTTTTACATCTTATCAGCACCACCAGACCTCCAGCCTACAGGTGTGAACCCTTCTCAGgtaagggttctagcctcttctaccatttgactctcttatataccctcatc #### Ccdc88b_ID1846_3 --> 1 - 0 Original Alignment tGCTCCCAGTTCCCGAGGAGGACTTCGA-ATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG aactctgattaacagaactctgattactttttgattcccccaaaatgtagtTCTCCAAGTTCTCAAGGGGGAGTTCGTCATGGTCAGGGGACGGGATGGTACTGCTGCTTGTCAGA-GTGGACCCTCTGTCATTTATGGGGGCAATTGAGAGACTTTTATCAGgtaagtttccagtatggtgaaatgtgagacccagtagcacctagcatgga Alignment from CESAR tGCTCCCAGTTCCCGAGGAGGACTTCGA-ATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG aactctgattaacagaactctgattactttttgattcccccaaaatgtagtTCTCCAAGTTCTCAAGGGGGAGTTCGTCATGGTCAGGGGACGGGATGGTACTGCTGCTTGTCAG-AGTGGACCCTCTGTCATTTATGGGGGCAATTGAGAGACTTTTATCAGgtaagtttccagtatggtgaaatgtgagacccagtagcacctagcatgga Alignment from Spaln_aa2Genome TGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG aactctgattaacagaactctgattactttttgattcccccaaaatgtagTTCTCCAAGTTCTCAAGGGGGAGTTCGTCATGGTCAGGGGACGGGATGGTACTGCTGCTTGTCAGAGTGGACCCTCTGTCATTTATGGGGGCAATTGAGAGACTTTTATCAGgtaagtttccagtatggtgaaatgtgagacccagtagcacctagcatgga Alignment from Spaln_nt2Genome TGCTCCCAGTTCCCGAGGAGGACTTCGA-ATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG aactctgattaacagaactctgattactttttgattcccccaaaatgtagTTCTCCAAGTTCTCAAGGGGGAGTTCGTCATGGTCAGGGGACGGGATGGTACTGCTGCTTGTCAGA-GTGGACCCTCTGTCATTTATGGGGGCAATTGAGAGACTTTTATCAGgtaagtttccagtatggtgaaatgtgagacccagtagcacctagcatgga Alignment from Pairagon TGCTCCCAGTTCCCGAGGAGGACTTCG-AATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG aactctgattaacagaactctgattactttttgattcccccaaaatgtagTTCTCCAAGTTCTCAAGGGGGAGTTCGTCATGGTCAGGGGACGGGATGGTACTGCTGCTTGTCAGA-GTGGACCCTCTGTCATTTATGGGGGCAATTGAGAGACTTTTATCAGgtaagtttccagtatggtgaaatgtgagacccagtagcacctagcatgga Alignment from Exonerate_protein2genome TGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG aactctgattaacagaactctgattactttttgattcccccaaaatgtagTTCTCCAAGTTCTCAAGGGGGAGTTCGTCATGGTCAGGGGACGGGATGGTACTGCTGCTTGTCAGAGTGGACCCTCTGTCATTTATGGGGGCAATTGAGAGACTTTTATCAGgtaagtttccagtatggtgaaatgtgagacccagtagcacctagcatgga Alignment from Exonerate_coding2genome aactctgattaacagaactctgattactttttgattcccccaaaatgtagttctccaagttctcaagggggagttcgtcatggtcaggggacgggatggtactgctgcttgtcagagtggaccctctgtcatttatgggggcaattgagagacttttatcaggtaagtttccagtatggtgaaatgtgagacccagtagcacctagcatgga Alignment from GeneWise TGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG aactctgattaacagaactctgattactttttgattcccccaaaatgtagTTCTCCAAGTTCTCAAGGGGGAGTTCGTCATGGTCAGGGGACGGGATGGTACTGCTGCTTGTCAGAGTGGACCCTCTGTCATTTATGGGGGCAATTGAGAGACTTTTATCAGgtaagtttccagtatggtgaaatgtgagacccagtagcacctagcatgga #### Ccdc88b_ID1847_2 --> 0 - 2 Original Alignment GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAG-GAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCat gcctggtattgtgtgcctgcctccctacaggccttggatctgcccttcagGCTTTAGGTTTAGCTGGCCTAGTGGGGGATGCAGAAAAGTCAGCAGGGGGAACTGAAGAGGATGAGGAGGAAGAGGAGCGAAGAAGGAGCCCTTTGTACAGAAAAAAGAT-CCTACGGTTGATTGATGGAGCCTTACTTCTTCGGGTTTTGGATATTatgcaagagatacagtgaaatttagctatggatgttggccatgaatggtagg Alignment from CESAR GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAG-GAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCat gcctggtattgtgtgcctgcctccctacaggccttggatctgcccttcagGCTTTAGGTTTAGCTGGCCTAGTGGGGGATGCAGAAAAGTCAGCAGGGGGAACTGAAGAGGATGAGGAGGAAGAGGAGCGAAGAAGGAGCCCTTTGTACAGAAAAAAGA-TCCTACGGTTGATTGATGGAGCCTTACTTCTTCGGGTTTTGGATATTatgcaagagatacagtgaaatttagctatggatgttggccatgaatggtagg Alignment from Spaln_aa2Genome GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT gcctggtattgtgtgcctgcctccctacaggccttggatctgcccttcagGCTTTAGGTTTAGCTGGCCTAGTGGGGGATGCAGAAAAGTCAGCAGGGGGAACTGAAGAGGATGAGGAGGAAGAGGAGCGAAGAAGGAGCCCTTTGTACAGAAAAAAGATCCTACGGTTGATTGATGGAGCCTTACTTCTTCGGGTTTTGGATATTATgcaagagatacagtgaaatttagctatggatgttggccatgaatggtagg Alignment from Spaln_nt2Genome GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAG-GAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT gcctggtattgtgtgcctgcctccctacaggccttggatctgcccttcagGCTTTAGGTTTAGCTGGCCTAGTGGGGGATGCAGAAAAGTCAGCAGGGGGAACTGAAGAGGATGAGGAGGAAGAGGAGCGAAGAAGGAGCCCTTTGTACAGAAAAAAGA-TCCTACGGTTGATTGATGGAGCCTTACTTCTTCGGGTTTTGGATATTATgcaagagatacagtgaaatttagctatggatgttggccatgaatggtagg Alignment from Pairagon GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAG-GAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT gcctggtattgtgtgcctgcctccctacaggccttggatctgcccttcagGCTTTAGGTTTAGCTGGCCTAGTGGGGGATGCAGAAAAGTCAGCAGGGGGAACTGAAGAGGATGAGGAGGAAGAGGAGCGAAGAAGGAGCCCTTTGTACAGAAAAAAGA-TCCTACGGTTGATTGATGGAGCCTTACTTCTTCGGGTTTTGGATATTATgcaagagatacagtgaaatttagctatggatgttggccatgaatggtagg Alignment from Exonerate_protein2genome GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT gcctggtattgtgtgcctgcctccctacaggccttggatctgcccttcagGCTTTAGGTTTAGCTGGCCTAGTGGGGGATGCAGAAAAGTCAGCAGGGGGAACTGAAGAGGATGAGGAGGAAGAGGAGCGAAGAAGGAGCCCTTTGTACAGAAAAAAGATCCTACGGTTGATTGATGGAGCCTTACTTCTTCGGGTTTTGGATATTATgcaagagatacagtgaaatttagctatggatgttggccatgaatggtagg Alignment from Exonerate_coding2genome gcctggtattgtgtgcctgcctccctacaggccttggatctgcccttcaggctttaggtttagctggcctagtgggggatgcagaaaagtcagcagggggaactgaagaggatgaggaggaagaggagcgaagaaggagccctttgtacagaaaaaagatcctacggttgattgatggagccttacttcttcgggttttggatattatgcaagagatacagtgaaatttagctatggatgttggccatgaatggtagg Alignment from GeneWise GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATC---------ATT-- gcctggtattgtgtgcctgcctccctacaggccttggatctgcccttcagGCTTTAGGTTTAGCTGGCCTAGTGGGGGATGCAGAAAAGTCAGCAGGGGGAACTGAAGAGGATGAGGAGGAAGAGGAGCGAAGAAGGAGCCCTTTGTACAGAAAAAAGATCCTACGGTTGATTGATGGAGCCTTACTTCTTCGGGTTTTGGATATTATGCAAGAGATACAgtgaaatttagctatggatgttggccatgaatggtagg #### Ccnj_ID8043_4 --> 2 - 2 Original Alignment atTATGCCTTTCTAAATTATGCACCT-TCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGct acatgcctaattaagtgttcaattgtagcctctgattttatgttctttagatTATGCATTTCTCAATTATGCACCCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTT-CAGGATTATACTTCGACTGTCTCCAACCTGGCCAACAAGACTACACTGTTTCACTGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGGAATGGTTATTGctgtgagtagagcctcataatcgaaatcagactgctggaggcagctatgcag Alignment from CESAR atTATGCCTTTCTAAATTATGCA-CCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGct acatgcctaattaagtgttcaattgtagcctctgattttatgttctttagatTATGCATTTCTCAATTATGCACCCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTT-CAGGATTATACTTCGACTGTCTCCAACCTGGCCAACAAGACTACACTGTTTCACTGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGGAATGGTTATTGctgtgagtagagcctcataatcgaaatcagactgctggaggcagctatgcag Alignment from Spaln_aa2Genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT acatgcctaattaagtgttcaattgtagcctctgattttatgttctttagATTATGCATTTCTCAATTATGCACCCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCAGGATTATACTTCGACTGTCTCCAACCTGGCCAACAAGACTACACTGTTTCACTGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGGAATGGTTATTGCTgtgagtagagcctcataatcgaaatcagactgctggaggcagctatgcag Alignment from Spaln_nt2Genome ATTATGCCTTTCTAAATTATGCACCT-TCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT acatgcctaattaagtgttcaattgtagcctctgattttatgttctttagATTATGCATTTCTCAATTATGCACCCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTC-AGGATTATACTTCGACTGTCTCCAACCTGGCCAACAAGACTACACTGTTTCACTGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGGAATGGTTATTGCTgtgagtagagcctcataatcgaaatcagactgctggaggcagctatgcag Alignment from Pairagon ATTATGCCTTTCTAAATTATGCA-CCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT acatgcctaattaagtgttcaattgtagcctctgattttatgttctttagATTATGCATTTCTCAATTATGCACCCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTC-AGGATTATACTTCGACTGTCTCCAACCTGGCCAACAAGACTACACTGTTTCACTGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGGAATGGTTATTGCTgtgagtagagcctcataatcgaaatcagactgctggaggcagctatgcag Alignment from Exonerate_protein2genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT acatgcctaattaagtgttcaattgtagcctctgattttatgttctttagATTATGCATTTCTCAATTATGCACCCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCAGGATTATACTTCGACTGTCTCCAACCTGGCCAACAAGACTACACTGTTTCACTGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGGAATGGTTATTGCTgtgagtagagcctcataatcgaaatcagactgctggaggcagctatgcag Alignment from Exonerate_coding2genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT acatgcctaattaagtgttcaattgtagcctctgattttatgttctttagATTATGCATTTCTCAATTATGCACCCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCAGGATTATACTTCGACTGTCTCCAACCTGGCCAACAAGACTACACTGTTTCACTGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGGAATGGTTATTGCTgtgagtagagcctcataatcgaaatcagactgctggaggcagctatgcag Alignment from GeneWise ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT acatgcctaattaagtgttcaattgtagcctctgattttatgttctttagATTATGCATTTCTCAATTATGCACCCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCAGGATTATACTTCGACTGTCTCCAACCTGGCCAACAAGACTACACTGTTTCACTGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGGAATGGTTATTGCTgtgagtagagcctcataatcgaaatcagactgctggaggcagctatgcag #### Cdc42bpg_ID1573_3 --> 0 - 0 Original Alignment GTTGCCGTGGTG-AGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttggtccttctgtgagtccagtcgcatttttctgttttcctctgcttcagGTTATTGTGGTGCAGGCAGAGGGGAAGTGGCCAGATCTTTGCAA-GAATATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGgtgggttggcacaaatgtaaaatctagccttgataccttgtttatcttgt Alignment from CESAR GTTGCCGTGGTG-AGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttggtccttctgtgagtccagtcgcatttttctgttttcctctgcttcagGTTATTGTGGTGCAGGCAGAGGGGAAGTGGCCAGATCTTTGCA-AGAATATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGgtgggttggcacaaatgtaaaatctagcctcccacctggtttcctcttgc Alignment from Spaln_aa2Genome ----GCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGA ttggtccttctgtgagtccagtcgcatttttctgttttcctctgcttcagGTTATTGTGGTGCAGGCAGAGGGGAAGTGGCCAGATCTTTGCAAG-AATATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGgtgggttggcacaaatgtaaaatctagccttgataccttgtttatcttgt Alignment from Spaln_nt2Genome GTTGCCGTGGTG-AGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttggtccttctgtgagtccagtcgcatttttctgttttcctctgcttcagGTTATTGTGGTGCAGGCAGAGGGGAAGTGGCCAGATCTTTGCAA-GAATATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGgtgggttggcacaaatgtaaaatctagccttgataccttgtttatcttgt Alignment from Pairagon GTTGCCGTGGTG-AGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttggtccttctgtgagtccagtcgcatttttctgttttcctctgcttcagGTTATTGTGGTGCAGGCAGAGGGGAAGTGGCCAGATCTTTGCAA-GAATATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGgtgggttggcacaaatgtaaaatctagccttgataccttgtttatcttgt Alignment from Exonerate_protein2genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttggtccttctgtgagtccagtcgcatttttctgttttcctctgcttcagGTTATTGTGGTGCAGGCAGAGGGGAAGTGGCCAGATCTTTGCAAGAATATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGgtgggttggcacaaatgtaaaatctagccttgataccttgtttatcttgt Alignment from Exonerate_coding2genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttggtccttctgtgagtccagtcgcatttttctgttttcctctgcttcagGTTATTGTGGTGCAGGCAGAGGGGAAGTGGCCAGATCTTTGCAAGAATATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGgtgggttggcacaaatgtaaaatctagccttgataccttgtttatcttgt Alignment from GeneWise GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttggtccttctgtgagtccagtcgcatttttctgttttcctctgcttcagGTTATTGTGGTGCAGGCAGAGGGGAAGTGGCCAGATCTTTGCAAGAATATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGgtgggttggcacaaatgtaaaatctagccttgataccttgtttatcttgt #### Cdc42bpg_ID1574_4 --> 0 - 0 Original Alignment ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAG-GGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG aagctggcacaaatgtaaaatctagcctcccacctggtttcctcttgcagACAACCTGTCTCCGGGAGGAGCGAGATGTTTTAGTGAAGCGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCC-GGATGAGGAGTTCTTAgtaaaaagtcctatgtcatagaggggttaccctgacagtgctgttttttt Alignment from CESAR ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAG-GGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG gggttggcacaaatgtaaaatctagcctcccacctggtttcctcttgcagACAACCTGTCTCCGGGAGGAGCGAGATGTTTTAGTGAAGCGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTC-CGGATGAGGAGTTCTTAgtaaaaagtcctatgtcatagaggggttaccctgacagtgctgttttttt Alignment from Spaln_aa2Genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG aagctggcacaaatgtaaaatctagcctcccacctggtttcctcttgcagACAACCTGTCTCCGGGAGGAGCGAGATGTTTTAGTGAAGCGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCGGATGAGGAGTTCTTAgtaaaaagtcctatgtcatagaggggttaccctgacagtgctgttttttt Alignment from Spaln_nt2Genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAG-GGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG aagctggcacaaatgtaaaatctagcctcccacctggtttcctcttgcagACAACCTGTCTCCGGGAGGAGCGAGATGTTTTAGTGAAGCGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCC-GGATGAGGAGTTCTTAgtaaaaagtcctatgtcatagaggggttaccctgacagtgctgttttttt Alignment from Pairagon ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAG-GGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG aagctggcacaaatgtaaaatctagcctcccacctggtttcctcttgcagACAACCTGTCTCCGGGAGGAGCGAGATGTTTTAGTGAAGCGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCC-GGATGAGGAGTTCTTAgtaaaaagtcctatgtcatagaggggttaccctgacagtgctgttttttt Alignment from Exonerate_protein2genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAG-GGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCT aagctggcacaaatgtaaaatctagcctcccacctggtttcctcttgcagACAACCTGTCTCCGGGAGGAGCGAGATGTTTTAGTGAAGCGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCGGATGAGGAGTTCTTAgtaaaaagtcctatgtcatagaggggttaccctgacagtgctgttttttt Alignment from Exonerate_coding2genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAG-GGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCT aagctggcacaaatgtaaaatctagcctcccacctggtttcctcttgcagACAACCTGTCTCCGGGAGGAGCGAGATGTTTTAGTGAAGCGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCGGATGAGGAGTTCTTAgtaaaaagtcctatgtcatagaggggttaccctgacagtgctgttttttt Alignment from GeneWise ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG aagctggcacaaatgtaaaatctagcctcccacctggtttcctcttgcagACAACCTGTCTCCGGGAGGAGCGAGATGTTTTAGTGAAGCGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCGGATGAGGAGTTCTTAgtaaaaagtcctatgtcatagaggggttaccctgacagtgctgttttttt #### Cdc42bpg_ID1576_6 --> 1 - 0 Original Alignment gGATGTGAAGCCT-GACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaactctagtccttcctttcctccagaGATGTGAAGCCACGACAACATTCTACTGAGCATGAATGGGCAGCTTTGCTTGG-TGACTTTGGCACCTGCCTACGCCTCAACAACAATGCCAAGgtgagtaaaccacctagaaattcatagataagtataaagacatttagtta Alignment from CESAR gGATGTGAAGCCT-GACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaactctagtccttcctttcctccagaGATGTGAAGCCACGACAACATTCTACTGAGCATGAATGGGCAGCTTTGCTTGG-TGACTTTGGCACCTGCCTACGCCTCAACAACAATGCCAAGgtgagtaaaccacctagaaattcatagataagtataaagacatttagtta Alignment from Spaln_aa2Genome T----GACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaactctagtccttcctttcctccagagatgtgaagCCACGACAACATTCTACTGAGCATGAATGGGCAGCTTTG-CTTGGTGACTTTGGCACCTGCCTACGCCTCAACAACAATGCCAAGgtgagtaaaccacctagaaattcatagataagtataaagacatttagtta Alignment from Spaln_nt2Genome -GATGTGAAGCCT-GACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaactctagtccttcctttcctccagAGATGTGAAGCCACGACAACATTCTACTGAGCATGAATGGGCAGCTTTGCTTGG-TGACTTTGGCACCTGCCTACGCCTCAACAACAATGCCAAGgtgagtaaaccacctagaaattcatagataagtataaagacatttagtta Alignment from Pairagon GGATGTGAAGCC-TGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaactctagtccttcctttcctccagAGATGTGAAGCCACGACAACATTCTACTGAGCATGAATGGGCAGCTTTGCTTGGT-GACTTTGGCACCTGCCTACGCCTCAACAACAATGCCAAGgtgagtaaaccacctagaaattcatagataagtataaagacatttagtta Alignment from Exonerate_protein2genome GGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaactctagtccttcctttcctccagAGATGTGAAGCCACGACAACATTCTACTGAGCATGAATGGGCAGCTTTGCTTGGTGACTTTGGCACCTGCCTACGCCTCAACAACAATGCCAAGgtgagtaaaccacctagaaattcatagataagtataaagacatttagtta Alignment from Exonerate_coding2genome GGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaactctagtccttcctttcctccagAGATGTGAAGCCACGACAACATTCTACTGAGCATGAATGGGCAGCTTTGCTTGGTGACTTTGGCACCTGCCTACGCCTCAACAACAATGCCAAGgtgagtaaaccacctagaaattcatagataagtataaagacatttagtta Alignment from GeneWise -CCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaactctagtccttcctttcctccagagatgtgaagCCACGACAACATTCTACTGAGCATGAATGGGCAGCTTTG-CTTGGTGACTTTGGCACCTGCCTACGCCTCAACAACAATGCCAAGgtgagtaaaccacctagaaattcatagataagtataaagacatttagtta #### Cdc42bpg_ID1577_7 --> 0 - 0 Original Alignment GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCC-TTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtggtacctcctctacctgcctccacttctctcctctgttgctttccagGTGGATTCATCAGTTCCCGTAGGAACTCCAGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTACGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCCTTTTATGCTGTATCTCTGGTAGAGACTTACGGGAAGA-CATGAACCATGAGgtacagctgtagggctcagggaccctggtattgtggaggtcatctttgta Alignment from CESAR GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCC-TTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtggtacctcctctacctgcctccacttctctcctctgttgctttccagGTGGATTCATCAGTTCCCGTAGGAACTCCAGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTACGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCCTTTTATGCTGTATCTCTGGTAGAGACTTACGGGAAG-ACATGAACCATGAGgtacagctgtagggctcagggaccctggtattgtggaggtcatctttgta Alignment from Spaln_aa2Genome GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCC-TTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtggtacctcctctacctgcctccacttctctcctctgttgctttccagGTGGATTCATCAGTTCCCGTAGGAACTCCAGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTACGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCcTTTTATGCTGTATCTCTGGTAGAGACTTACGGGAAGAC-ATGAACCATGAGgtacagctgtagggctcagggaccctggtattgtggaggtcatctttgta Alignment from Spaln_nt2Genome GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTT-TATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtggtacctcctctacctgcctccacttctctcctctgttgctttccagGTGGATTCATCAGTTCCCGTAGGAACTCCAGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTACGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCCTTTTATGCTGTATCTCTGGTAGAGACTTACGGGAAGA-CATGAACCATGAGgtacagctgtagggctcagggaccctggtattgtggaggtcatctttgta Alignment from Pairagon GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACA-CCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtggtacctcctctacctgcctccacttctctcctctgttgctttccagGTGGATTCATCAGTTCCCGTAGGAACTCCAGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTACGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCCTTTTATGCTGTATCTCTGGTAGAGACTTACGGGAAGA-CATGAACCATGAGgtacagctgtagggctcagggaccctggtattgtggaggtcatctttgta Alignment from Exonerate_protein2genome GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACA-CCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGAT agtggtacctcctctacctgcctccacttctctcctctgttgctttccagGTGGATTCATCAGTTCCCGTAGGAACTCCAGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTACGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCCTTTTATGCTGTATCTCTGGTAGAGACTTACGGGAAGACatgaaccatgaggtacagctgtagggctcagggaccctggtattgtggaggtcatctttgta Alignment from Exonerate_coding2genome GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACA-CCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGAT agtggtacctcctctacctgcctccacttctctcctctgttgctttccagGTGGATTCATCAGTTCCCGTAGGAACTCCAGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTACGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCCTTTTATGCTGTATCTCTGGTAGAGACTTACGGGAAGACatgaaccatgaggtacagctgtagggctcagggaccctggtattgtggaggtcatctttgta Alignment from GeneWise GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtggtacctcctctacctgcctccacttctctcctctgttgctttccagGTGGATTCATCAGTTCCCGTAGGAACTCCAGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTACGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCCTTTTATGCTGTATCTCTGGTAGAGACTTACGGGAAGACATGAACCATGAGgtacagctgtagggctcagggaccctggtattgtggaggtcatctttgta #### Cdc42bpg_ID1583_13 --> 0 - 0 Original Alignment GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTG-TGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG ccaagctgacccctctgagtttgctccgtgtcttttctgcatctcaacagGAGCTGCCTCAGGCTCAGGTAGCACTGCAAGTGCAAGATGCTGAATTGCTGCCAAGCA---AACCGGCAAGAAGAAGTCTTGCAGAGGC-GTGGGAAGCACAGGAGAGAGAATCTGCTGCAGCAGGGCAGCTTCAGAGCCTAAATACTCAGCTCCAAGAGGCATGGGTGGTCCGCAGGGAGgtgagttaagagacatccaaacttccatagatgtctttagatccatgtag Alignment from CESAR GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTG-TGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG ccaagctgacccctctgagtttgctccgtgtcttttctgcatctcaacagGAGCTGCCTCAGGCTCAGGTAGCACTGCAAGTGCAAGATGCTGAATTGCTGCCAAGCA---AACCGGCAAGAAGAAGTCTTGCAGAGG-CGTGGGAAGCACAGGAGAGAGAATCTGCTGCAGCAGGGCAGCTTCAGAGCCTAAATACTCAGCTCCAAGAGGCATGGGTGGTCCGCAGGGAGgtgagttaagagacatccaaacttccatagatgtctttagatccatgtag Alignment from Spaln_aa2Genome GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTG-TGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG ccaagctgacccctctgagtttgctccgtgtcttttctgcatctcaacagGAGCTGCCTCAGGCTCAGGTAGCACTGCAAGTGCAAGATGCTGAATTGcTGCCAAGCA---AACCGGCAAGAAGAAGTCTTGCAGAGGCG-TGGGAAGCACAGGAGAGAGAATCTGCTGCAGCAGGGCAGCTTCAGAGCCTAAATACTCAGCTCCAAGAGGCATGGGTGGTCCGCAGGGAGgtgagttaagagacatccaaacttccatagatgtctttagatccatgtag Alignment from Spaln_nt2Genome GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTG-TGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG ccaagctgacccctctgagtttgctccgtgtcttttctgcatctcaacagGAGCTGCCTCAGGCTCAGGTAGCACTGCAAGTGCAAGATGCTGAATTGCTGCCAAGC---AAACCGGCAAGAAGAAGTCTTGCAGAGGC-GTGGGAAGCACAGGAGAGAGAATCTGCTGCAGCAGGGCAGCTTCAGAGCCTAAATACTCAGCTCCAAGAGGCATGGGTGGTCCGCAGGGAGgtgagttaagagacatccaaacttccatagatgtctttagatccatgtag Alignment from Pairagon GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTG-TGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG ccaagctgacccctctgagtttgctccgtgtcttttctgcatctcaacagGAGCTGCCTCAGGCTCAGGTAGCACTGCAAGTGCAAGATGCTGAATTGCTGCCAAGC---AAACCGGCAAGAAGAAGTCTTGCAGAGGC-GTGGGAAGCACAGGAGAGAGAATCTGCTGCAGCAGGGCAGCTTCAGAGCCTAAATACTCAGCTCCAAGAGGCATGGGTGGTCCGCAGGGAGgtgagttaagagacatccaaacttccatagatgtctttagatccatgtag Alignment from Exonerate_protein2genome GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG ccaagctgacccctctgagtttgctccgtgtcttttctgcatctcaacagGAGCTGCCTCAGGCTCAGGTAGCACTGCAAGTGCAAGATGCTGAATTGCTGCCAAGCAAACCGGCAAGAAGAAGT---CTTGCAGAGGCGTGGGAAGCACAGGAGAGAGAATCTGCTGCAGCAGGGCAGCTTCAGAGCCTAAATACTCAGCTCCAAGAGGCATGGGTGGTCCGCAGGGAGgtgagttaagagacatccaaacttccatagatgtctttagatccatgtag Alignment from Exonerate_coding2genome GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG ccaagctgacccctctgagtttgctccgtgtcttttctgcatctcaacagGAGCTGCCTCAGGCTCAGGTAGCACTGCAAGTGCAAGATGCTGAATTGCTGCCAAGCAAACCGGCAAGAAGAAGT---CTTGCAGAGGCGTGGGAAGCACAGGAGAGAGAATCTGCTGCAGCAGGGCAGCTTCAGAGCCTAAATACTCAGCTCCAAGAGGCATGGGTGGTCCGCAGGGAGgtgagttaagagacatccaaacttccatagatgtctttagatccatgtag Alignment from GeneWise GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG ccaagctgacccctctgagtttgctccgtgtcttttctgcatctcaacagGAGCTGCCTCAGGCTCAGGTAGCACTGCAAGTGCAAGATGCTGAATTGCTGCCAAGCAAACCGGCAAGAAGAAGT---CTTGCAGAGGCGTGGGAAGCACAGGAGAGAGAATCTGCTGCAGCAGGGCAGCTTCAGAGCCTAAATACTCAGCTCCAAGAGGCATGGGTGGTCCGCAGGGAGgtgagttaagagacatccaaacttccatagatgtctttagatccatgtag #### Cdc42bpg_ID1586_16 --> 1 - 0 Original Alignment gATCAGTGTTGGGAAA-GAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG gtacttgctgtcaggaaggggcaaaatacacccagtaccctctttcccaggATCAGTGTTGGTAAACATGGAGGTTCTATGCCATCTACAGGCAGTAAACC-GCAGCTGAGTCGAGAGCAGGAGTGGgtgagtatgaagtatgacaaagccaaggttgccgccagctggctgggtta Alignment from CESAR gATCAGTGTTGGGAAA-GAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG gtacttgctgtcaggaaggggcaaaatacacccagtaccctctttcccaggATCAGTGTTGGTAAACATGGAGGTTCTATGCCATCTACAGGCAGTAAAC-CGCAGCTGAGTCGAGAGCAGGAGTGGgtgagtatgaagtatgacaaagccaaggttgccgccagctggctgggtta Alignment from Spaln_aa2Genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG gtacttgctgtcaggaaggggcaaaatacacccagtaccctctttcccagGATCAGTGTTGGTAAACATGGAGGTTCTATGCCATCTACAGGCAGTAAACCGCAGCTGAGTCGAGAGCAGGAGTGGgtgagtatgaagtatgacaaagccaaggttgccgccagctggctgggtta Alignment from Spaln_nt2Genome GATCAGTGTTGGGAAAGA-GGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG gtacttgctgtcaggaaggggcaaaatacacccagtaccctctttcccagGATCAGTGTTGGTAAACATGGAGGTTCTATGCCATCTACAGGCAGTAAACC-GCAGCTGAGTCGAGAGCAGGAGTGGgtgagtatgaagtatgacaaagccaaggttgccgccagctggctgggtta Alignment from Pairagon GATCAGTGTTGGGAAAGA-GGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG gtacttgctgtcaggaaggggcaaaatacacccagtaccctctttcccagGATCAGTGTTGGTAAACATGGAGGTTCTATGCCATCTACAGGCAGTAAACC-GCAGCTGAGTCGAGAGCAGGAGTGGgtgagtatgaagtatgacaaagccaaggttgccgccagctggctgggtta Alignment from Exonerate_protein2genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG gtacttgctgtcaggaaggggcaaaatacacccagtaccctctttcccagGATCAGTGTTGGTAAACATGGAGGTTCTATGCCATCTACAGGCAGTAAACCGCAGCTGAGTCGAGAGCAGGAGTGGgtgagtatgaagtatgacaaagccaaggttgccgccagctggctgggtta Alignment from Exonerate_coding2genome gtacttgctgtcaggaaggggcaaaatacacccagtaccctctttcccaggatcagtgttggtaaacatggaggttctatgccatctacaggcagtaaaccgcagctgagtcgagagcaggagtgggtgagtatgaagtatgacaaagccaaggttgccgccagctggctgggtta Alignment from GeneWise GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG gtacttgctgtcaggaaggggcaaaatacacccagtaccctctttcccagGATCAGTGTTGGTAAACATGGAGGTTCTATGCCATCTACAGGCAGTAAACCGCAGCTGAGTCGAGAGCAGGAGTGGgtgagtatgaagtatgacaaagccaaggttgccgccagctggctgggtta #### Cdc42bpg_ID1587_17 --> 0 - 2 Original Alignment CTGGCAGGAGAGCTGGAACTGGAGCTA-CAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCtg gaaaccattgggtaacgaggattaacatttttactttcttcctgaaacagTTGGCAGGAGAGCTGGAACTGGAACTTCCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTG-GAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCtggtgagactacacagctgggtggcaccattgatactgtgagcccgatctgc Alignment from CESAR CTGGCAGGAGAGCTGGAACTGGAGCTA-CAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCtg gaaaccattgggtaacgaggattaacatttttactttcttcctgaaacagTTGGCAGGAGAGCTGGAACTGGAACTTCCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACT-GGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCtggtgagactacacagctgggtggcaccattgatactgtgagccctttctct Alignment from Spaln_aa2Genome CTGGCAGGAGAGCTGGAACTGGAGCTA-CAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gaaaccattgggtaacgaggattaacatttttactttcttcctgaaacagTTGGCAGGAGAGCTGGAACTGGAACTTcCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGG-AGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCTGgtgagactacacagctgggtggcaccattgatactgtgagcccgatctgc Alignment from Spaln_nt2Genome CTGGCAGGAGAGCTGGAACTGGAGCTAC-AGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gaaaccattgggtaacgaggattaacatttttactttcttcctgaaacagTTGGCAGGAGAGCTGGAACTGGAACTTCCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTG-GAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCTGgtgagactacacagctgggtggcaccattgatactgtgagcccgatctgc Alignment from Pairagon CTGGCAGGAGAGCTGGAACTGGAGC-TACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gaaaccattgggtaacgaggattaacatttttactttcttcctgaaacagTTGGCAGGAGAGCTGGAACTGGAACTTCCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTG-GAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCTGgtgagactacacagctgggtggcaccattgatactgtgagcccgatctgc Alignment from Exonerate_protein2genome CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gaaaccattgggtaacgaggattaacatttttactttcttcctgaaacagTTGGCAGGAGAGCTGGAACTGGAACTTCCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCTGgtgagactacacagctgggtggcaccattgatactgtgagcccgatctgc Alignment from Exonerate_coding2genome CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gaaaccattgggtaacgaggattaacatttttactttcttcctgaaacagTTGGCAGGAGAGCTGGAACTGGAACTTCCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCTGgtgagactacacagctgggtggcaccattgatactgtgagcccgatctgc Alignment from GeneWise CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gaaaccattgggtaacgaggattaacatttttactttcttcctgaaacagTTGGCAGGAGAGCTGGAACTGGAACTTCCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCTGgtgagactacacagctgggtggcaccattgatactgtgagcccgatctgc #### Cdc42bpg_ID1590_20 --> 1 - 1 Original Alignment cCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTG-CAG---CAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGg cactgcaatgtatgagccctcctgggtgttttatactttacctctttcagcCGCCTGCAGGAAGCTGAGACACAAAGTAAGACACTCCCAGCAGCAGGAGGTGGCTGTGCTAAGGGAAG-GCTTCAAGCTCGAGGACCAGGAggtaagaacccacttggatccaaccacaaggcctaacctgtggggaccaga Alignment from CESAR cCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTG----CAGCAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGg cactgcaatgtatgagccctcctgggtgttttatactttacctctttcagcCGCCTGCAGGAAGCTGAGACACAAAGTAAGACACTCCCAGCAGCAGGAGGTGGCTGTGCTAAGGGAA-GGCTTCAAGCTCGAGGACCAGGAggtaagaacccacttggatccaaccacaaggcctaacctgtggggaccaga Alignment from Spaln_aa2Genome CCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTGCAGCAGGAGGTGGCTGAG---CTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGG cactgcaatgtatgagccctcctgggtgttttatactttacctctttcagCCGCCTGCAGGAAGCTGAGACACAAAGTAAGACACTCCCAGCAGCAGGAGGTGGCTGTGCTAAGGGAAGGCTTCAAGCTCGAGGACCAGGAGgtaagaacccacttggatccaaccacaaggcctaacctgtggggaccaga Alignment from Spaln_nt2Genome CCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCC----CTGCAGCAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGG cactgcaatgtatgagccctcctgggtgttttatactttacctctttcagCCGCCTGCAGGAAGCTGAGACACAAAGTAAGACACTCCCAGCAGCAGGAGGTGGCTGTGCTAAGGGAAG-GCTTCAAGCTCGAGGACCAGGAGgtaagaacccacttggatccaaccacaaggcctaacctgtggggaccaga Alignment from Pairagon CCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGG----CCCTGCAGCAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGG cactgcaatgtatgagccctcctgggtgttttatactttacctctttcagCCGCCTGCAGGAAGCTGAGACACAAAGTAAGACACTCCCAGCAGCAGGAGGTGGCTGTGCTAAGGGAAG-GCTTCAAGCTCGAGGACCAGGAGgtaagaacccacttggatccaaccacaaggcctaacctgtggggaccaga Alignment from Exonerate_protein2genome CCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTGCAGCAGGAGGTGGCTGAG---CTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGG cactgcaatgtatgagccctcctgggtgttttatactttacctctttcagCCGCCTGCAGGAAGCTGAGACACAAAGTAAGACACTCCCAGCAGCAGGAGGTGGCTGTGCTAAGGGAAGGCTTCAAGCTCGAGGACCAGGAGgtaagaacccacttggatccaaccacaaggcctaacctgtggggaccaga Alignment from Exonerate_coding2genome CCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTGCAGCAGGAGGTGGCTGAG---CTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGG cactgcaatgtatgagccctcctgggtgttttatactttacctctttcagCCGCCTGCAGGAAGCTGAGACACAAAGTAAGACACTCCCAGCAGCAGGAGGTGGCTGTGCTAAGGGAAGGCTTCAAGCTCGAGGACCAGGAGgtaagaacccacttggatccaaccacaaggcctaacctgtggggaccaga Alignment from GeneWise CCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTGCAGCAGGAGGTGGCTGAGCTCCGGGAG---GAACTGCAAGCTCGAGGACCGGGGG cactgcaatgtatgagccctcctgggtgttttatactttacctctttcagCCGCCTGCAGGAAGCTGAGACACAAAGTAAGACACTCCCAGCAGCAGGAGGTGGCTGTGCTAAGGGAAGGCTTCAAGCTCGAGGACCAGGAGgtaagaacccacttggatccaaccacaaggcctaacctgtggggaccaga #### Cdc42bpg_ID1596_26 --> 0 - 2 Original Alignment GCTTCCTGTCG GTGCCGCGGCCCTCAGGTGTC-CGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAag GCTTTTTGTCAgtaaaatgagggggctggagggataccctcccatttcagGTACGACAGCCATCATGTGTTCCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCA-TGACTCCCGTTTGTTATTGTTTGATGCCCCTGACCCTCGTGGTAGCCTGGCAAGTGGGATCCTTCTTCAGGCCTTAGATCTAaggtaagtgcaggcccacaggacatagggagtctacagcagggtggtctgtc Alignment from CESAR GCTTCCTGTCG GTGCCGCGGCCCTCAGGTGTC-CGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAag GCTTTTTGTCAgtaagttgagggggctggagggataccctcccatttcagGTACGACAGCCATCATGTGTTCCGATGGGACTGGCAGCGGGTGTATGCTGCTCTC-ATGACTCCCGTTTGTTATTGTTTGATGCCCCTGACCCTCGTGGTAGCCTGGCAAGTGGGATCCTTCTTCAGGCCTTAGATCTAaggtaagtgcaggcccacaggacatagggagtctacagcagggtggtctgtc Alignment from Spaln_aa2Genome GCTTCCT GTCGGTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG GCTTTTTgtcagtaaaatgagggggctggagggataccctcccatttcagGTACGACAGCCATCATGTG---TTCCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCAT-GACTCCCGTTTGTTATTGTTTGATGCCCCTGACCCTCGTGGTAGCCTGGCAAGTGGGATCCTTCTTCAGGCCTTAGATCTAAGgtaagtgcaggcccacaggacatagggagtctacagcagggtggtctgtc Alignment from Spaln_nt2Genome GCTTCCTGTCG GTGCCGCGGCCCTCAGGTGT-CCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG GCTTTTTGTCAgtaaaatgagggggctggagggataccctcccatttcagGTACGACAGCCATCATGTGTTCCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCA-TGACTCCCGTTTGTTATTGTTTGATGCCCCTGACCCTCGTGGTAGCCTGGCAAGTGGGATCCTTCTTCAGGCCTTAGATCTAAGgtaagtgcaggcccacaggacatagggagtctacagcagggtggtctgtc Alignment from Pairagon GCTTCCTGTC---------------------------------------GGTGCCGCGGCCCTCAGGTG-TCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG GCTTTTTGTCAGTAAAATGAGGGGGCTGGAGGGATACCCTCCCATTTCAGGTACGACAGCCATCATGTGTTCCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCA-TGACTCCCGTTTGTTATTGTTTGATGCCCCTGACCCTCGTGGTAGCCTGGCAAGTGGGATCCTTCTTCAGGCCTTAGATCTAAGgtaagtgcaggcccacaggacatagggagtctacagcagggtggtctgtc Alignment from Exonerate_protein2genome GCTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG GCTTTTTGTCAgtaaaatgagggggctggagggataccctcccatttcagGTACGACAGCCATCATGTGTTCCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCATGACTCCCGTTTGTTATTGTTTGATGCCCCTGACCCTCGTGGTAGCCTGGCAAGTGGGATCCTTCTTCAGGCCTTAGATCTAAGgtaagtgcaggcccacaggacatagggagtctacagcagggtggtctgtc Alignment from Exonerate_coding2genome GCTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG GCTTTTTGTCAgtaaaatgagggggctggagggataccctcccatttcagGTACGACAGCCATCATGTGTTCCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCATGACTCCCGTTTGTTATTGTTTGATGCCCCTGACCCTCGTGGTAGCCTGGCAAGTGGGATCCTTCTTCAGGCCTTAGATCTAAGgtaagtgcaggcccacaggacatagggagtctacagcagggtggtctgtc Alignment from GeneWise GCTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG GCTTTTTGTCAgtaaaatgagggggctggagggataccctcccatttcagGTACGACAGCCATCATGTGTTCCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCATGACTCCCGTTTGTTATTGTTTGATGCCCCTGACCCTCGTGGTAGCCTGGCAAGTGGGATCCTTCTTCAGGCCTTAGATCTAAGgtaagtgcaggcccacaggacatagggagtctacagcagggtggtctgtc #### Cdc42bpg_ID1604_34 --> 1 - 0 Original Alignment gGAGATGCTGAAGGACCCT-TTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG ataactcattgtcagctatttatcaataattgtggctgttttggttttaggGAGATGTTGAAAGACCCCCTTCGTGCGGTTCAAATTCATTTCACCACCCACCAACTTCA-TCACCTGGTTCATGTGGGACATACAGAGGGGAGGTCCAACACTAGGGATGGGACCCGTgtaagtcttgtgcaggggattgctagacctgtcacaaagcttcaatcatg Alignment from CESAR gGAGATGCTGAAGGAC-CCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG ataactcattgtcagctatttatcaataattgtggctgttttggttttaggGAGATGTTGAAAGACCCCCTTCGTGCGGTTCAAATTCATTTCACCACCCACCAACTTC-ATCACCTGGTTCATGTGGGACATACAGAGGGGAGGTCCAACACTAGGGATGGGACCCGTgtaagtcttgtgcaggggattgctagacctgtcacaaagcttcaatcatg Alignment from Spaln_aa2Genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG ataactcattgtcagctatttatcaataattgtggctgttttggttttagGGAGATGTTGAAAGACCCCCTTCGTGCGGTTCAAATTCATTTCACCACCCACCAACTTCATCACCTGGTTCATGTGGGACATACAGAGGGGAGGTCCAACACTAGGGATGGGACCCGTgtaagtcttgtgcaggggattgctagacctgtcacaaagcttcaatcatg Alignment from Spaln_nt2Genome GGAGATGCTGAAGGACCCTTTT-GTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG ataactcattgtcagctatttatcaataattgtggctgttttggttttagGGAGATGTTGAAAGACCCCCTTCGTGCGGTTCAAATTCATTTCACCACCCACCAACTTC-ATCACCTGGTTCATGTGGGACATACAGAGGGGAGGTCCAACACTAGGGATGGGACCCGTgtaagtcttgtgcaggggattgctagacctgtcacaaagcttcaatcatg Alignment from Pairagon GGAGATGCTGAAGGA-CCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG ataactcattgtcagctatttatcaataattgtggctgttttggttttagGGAGATGTTGAAAGACCCCCTTCGTGCGGTTCAAATTCATTTCACCACCCACCAACTTC-ATCACCTGGTTCATGTGGGACATACAGAGGGGAGGTCCAACACTAGGGATGGGACCCGTgtaagtcttgtgcaggggattgctagacctgtcacaaagcttcaatcatg Alignment from Exonerate_protein2genome GGAGATGCTGAAGGAC-CCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTC--AACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG ataactcattgtcagctatttatcaataattgtggctgttttggttttagGGAGATGTTGAAAGACCCCCTTCGTGCGGTTCAAATTCATTTCACCACCCACCAACTTCAT---CACCTGGTTCATGTGGGACATACAGAGGGGAGGTCCAACACTAGGGATGGGACCCGTgtaagtcttgtgcaggggattgctagacctgtcacaaagcttcaatcatg Alignment from Exonerate_coding2genome GGAGATGCTGAAGGAC-CCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTC--AACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG ataactcattgtcagctatttatcaataattgtggctgttttggttttagGGAGATGTTGAAAGACCCCCTTCGTGCGGTTCAAATTCATTTCACCACCCACCAACTTCAT---CACCTGGTTCATGTGGGACATACAGAGGGGAGGTCCAACACTAGGGATGGGACCCGTgtaagtcttgtgcaggggattgctagacctgtcacaaagcttcaatcatg Alignment from GeneWise GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG ataactcattgtcagctatttatcaataattgtggctgttttggttttagGGAGATGTTGAAAGACCCCCTTCGTGCGGTTCAAATTCATTTCACCACCCACCAACTTCATCACCTGGTTCATGTGGGACATACAGAGGGGAGGTCCAACACTAGGGATGGGACCCGTgtaagtcttgtgcaggggattgctagacctgtcacaaagcttcaatcatg #### Cdca5_ID1428_2 --> 2 - 0 Original Alignment ggCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCC-AAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG gccaagcaccttgcgatgtttgtttgtaaaggctctataatttttttcaggaCCAAGGACTTTACTAACTCAGCCTTCAGAGTCATTACAAACGCAAGTCAGGTTCAGACCTCACAAACTCAT-CTCTGAAACCTGGCAACGGgtaaaaactggccccccaggtccgaaagtagttgcatacaccaagattta Alignment from CESAR ggCCCAGGACTTCACTTACTAAGCCTTCGAAGTCG-TCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG gccaagcaccttgcgatgtttgtttgtaaaggctctataatttttttcaggaCCAAGGACTTTACTAACTCAGCCTTCAGAGTCATTACAAACGCAAGTCAGGTTCAGACCTCACAAACTCA-TCTCTGAAACCTGGCAACGGgtaaaaactggccccccaggtccgaaagtagttgcatacaccaagattta Alignment from Spaln_aa2Genome GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG gccaagcaccttgcgatgtttgtttgtaaaggctctataatttttttcagGACCAAGGACTTTACTAACTCAGCCTTCAGAGTCATTACAAACGCAAGTCAGGTTCAGACCTCACAAACTCATCTCTGAAACCTGGCAACGGgtaaaaactggccccccaggtccgaaagtagttgcatacaccaagattta Alignment from Spaln_nt2Genome GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTC-CAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG gccaagcaccttgcgatgtttgtttgtaaaggctctataatttttttcagGACCAAGGACTTTACTAACTCAGCCTTCAGAGTCATTACAAACGCAAGTCAGGTTCAGACCTCACAAACTC-ATCTCTGAAACCTGGCAACGGgtaaaaactggccccccaggtccgaaagtagttgcatacaccaagattta Alignment from Pairagon GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTC-CAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG gccaagcaccttgcgatgtttgtttgtaaaggctctataatttttttcagGACCAAGGACTTTACTAACTCAGCCTTCAGAGTCATTACAAACGCAAGTCAGGTTCAGACCTCACAAACTCAT-CTCTGAAACCTGGCAACGGgtaaaaactggccccccaggtccgaaagtagttgcatacaccaagattta Alignment from Exonerate_protein2genome GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG gccaagcaccttgcgatgtttgtttgtaaaggctctataatttttttcagGACCAAGGACTTTACTAACTCAGCCTTCAGAGTCATTACAAACGCAAGTCAGGTTCAGACCTCACAAACTCATCTCTGAAACCTGGCAACGGgtaaaaactggccccccaggtccgaaagtagttgcatacaccaagattta Alignment from Exonerate_coding2genome gccaagcaccttgcgatgtttgtttgtaaaggctctataatttttttcaggaccaaggactttactaactcagccttcagagtcattacaaacgcaagtcaggttcagacctcacaaactcatctctgaaacctggcaacgggtaaaaactggccccccaggtccgaaagtagttgcatacaccaagattta Alignment from GeneWise gccaagcaccttgcgatgtttgtttgtaaaggctctataatttttttcaggaccaaggactttactaactcagccttcagagtcattacaaacgcaagtcaggttcagacctcacaaactcatctctgaaacctggcaacgggtaaaaactggccccccaggtccgaaagtagttgcatacaccaagattta #### Cdk2ap2_ID299_3 --> 0 - 1 Original Alignment GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAG-AGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAg gacaaggcccctattgggggtacttgagctttctttctcattctctgcagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGG-CAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAggtattggcaaccatgggtaagctgtgacaagacagtgtagtcaggaaagt Alignment from CESAR GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAG-AGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAg gacaaggcccctattgggggtacttgagctttctttctcattctctgcagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGA-TGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAggtattggcaaccatgggtaagctgtgacaagacagtgtagtcaggaaagt Alignment from Spaln_aa2Genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gacaaggcccctattgggggtacttgagctttctttctcattctctgcagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAGgtattggcaaccatgggtaagctgtgacaagacagtgtagtcaggaaagt Alignment from Spaln_nt2Genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGA-GCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gacaaggcccctattgggggtacttgagctttctttctcattctctgcagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGAT-GGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAGgtattggcaaccatgggtaagctgtgacaagacagtgtagtcaggaaagt Alignment from Pairagon GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAG-AGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gacaaggcccctattgggggtacttgagctttctttctcattctctgcagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGAT-GGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAGgtattggcaaccatgggtaagctgtgacaagacagtgtagtcaggaaagt Alignment from Exonerate_protein2genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gacaaggcccctattgggggtacttgagctttctttctcattctctgcagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAGgtattggcaaccatgggtaagctgtgacaagacagtgtagtcaggaaagt Alignment from Exonerate_coding2genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAG---CACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gacaaggcccctattgggggtacttgagctttctttctcattctctgcagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAG--CCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGAT-GGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAGgtattggcaaccatgggtaagctgtgacaagacagtgtagtcaggaaagt Alignment from GeneWise GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gacaaggcccctattgggggtacttgagctttctttctcattctctgcagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAGgtattggcaaccatgggtaagctgtgacaagacagtgtagtcaggaaagt #### Cep78_ID3983_3 --> 0 - 1 Original Alignment GGACTGAGTAAA-TCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAa tggccattctcaatgggtagatacctgaattgcttctccctccttttcagGGATTGAGTAAACTCAACCTCTCTGGTGCACCTGTCTCTTGCAAATTGCCCAA-TGGAGATGGAGGGTTAGAAagtacgttgataaattttataatcatcttagtggctcattccactcatttg Alignment from CESAR GGACTGAGTAAA-TCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAa tggccattctcaatgggtagatacctgaattgcttctccctccttttcagGGATTGAGTAAACTCAACCTCTCTGGTGCACCTGTCTCTTGCAAATTGCCCAA-TGGAGATGGAGGGTTAGAAagtacgttgataaattttataatcatcttagtggctcattccactcatttg Alignment from Spaln_aa2Genome GGACTGAGTAAA-TCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAA tggccattctcaatgggtagatacctgaattgcttctccctccttttcagGGATTGAGTAAAcTCAACCTCTCTGGTGCACCTGTCTCTTGCAAATTGCCCAAT-GGAGATGGAGGGTTAGAAAgtacgttgataaattttataatcatcttagtggctcattccactcatttg Alignment from Spaln_nt2Genome GGACTGAGTAAA-TCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAA tggccattctcaatgggtagatacctgaattgcttctccctccttttcagGGATTGAGTAAACTCAACCTCTCTGGTGCACCTGTCTCTTGCAAATTGCCCAAT-GGAGATGGAGGGTTAGAAAgtacgttgataaattttataatcatcttagtggctcattccactcatttg Alignment from Pairagon GGACTGAGTAAA-TCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAA tggccattctcaatgggtagatacctgaattgcttctccctccttttcagGGATTGAGTAAACTCAACCTCTCTGGTGCACCTGTCTCTTGCAAATTGCCCAA-TGGAGATGGAGGGTTAGAAAgtacgttgataaattttataatcatcttagtggctcattccactcatttg Alignment from Exonerate_protein2genome GGACTGAGTAAA-TCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCA--ATTGGAGATGGAGGTTTAGAAA tggccattctcaatgggtagatacctgaattgcttctccctccttttcagGGATTGAGTAAACTCAACCTCTCTGGTGCACCTGTCTCTTGCAAATTGCCCAAT---GGAGATGGAGGGTTAGAAAgtacgttgataaattttataatcatcttagtggctcattccactcatttg Alignment from Exonerate_coding2genome GGACTGAGTAAA-TCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCA--ATTGGAGATGGAGGTTTAGAAA tggccattctcaatgggtagatacctgaattgcttctccctccttttcagGGATTGAGTAAACTCAACCTCTCTGGTGCACCTGTCTCTTGCAAATTGCCCAAT---GGAGATGGAGGGTTAGAAAgtacgttgataaattttataatcatcttagtggctcattccactcatttg Alignment from GeneWise GTAAATCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAA tggccattctcaatgggtagatacctgaattgcttctccctccttttcagggattgagTAAACTCAACCTCTCTGGTGCACCTGTCTCTTGCAAATTGCCCAAT-GGAGATGGAGGGTTAGAAAgtacgttgataaattttataatcatcttagtggctcattccactcatttg #### Chuk_ID8921_7 --> 0 - 2 Original Alignment GCCCCAGAGCTCTTTGAAAAT-AAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCtg tcaaaaatctcaactttatagctccagaaatgattctgctttatatttagGCCCCAGACCTCTTTGAAAATCAAGCCATACACAGCTACTGTGGATTATTGGAGCT-TGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCtggtaagtcagtgttgttcatggttgtgggaaacaccctgctgaatgagata Alignment from CESAR GCCCCAGAGCTCTTTGAAAAT-AAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCtg tcaaaaatctcaactttatagctccagaaatgattctgctttatatttagGCCCCAGACCTCTTTGAAAATCAAGCCATACACAGCTACTGTGGATTATTGGA-GCTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCtggtaagtcagtgttgttcatggttgtgggaaacaccctgctgaatgagata Alignment from Spaln_aa2Genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTG tcaaaaatctcaactttatagctccagaaatgattctgctttatatttagGCCCCAGACCTCTTTGAAAATCAAGCCATACACAGCTACTGTGGATTATTGGAGCTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCTGgtaagtcagtgttgttcatggttgtgggaaacaccctgctgaatgagata Alignment from Spaln_nt2Genome GCCCCAGAGCTCTTTGAAAAT-AAGCCGTACACA tcaaaaatctcaactttatagctccagaaatgattctgctttatatttagGCCCCAGACCTCTTTGAAAATCAAGCCATACACAgctactgtggattattggagcttggtaccatggtctttgaatgtattgctggatataggccttttttgcatcatctacagccatttacctggtaagtcagtgttgttcatggttgtgggaaacaccctgctgaatgagata Alignment from Pairagon GCCCCAGAGCTCTTTGAAAAT-AAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTG tcaaaaatctcaactttatagctccagaaatgattctgctttatatttagGCCCCAGACCTCTTTGAAAATCAAGCCATACACAGCTACTGTGGATTATTGGAGC-TTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCTGgtaagtcagtgttgttcatggttgtgggaaacaccctgctgaatgagata Alignment from Exonerate_protein2genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTG tcaaaaatctcaactttatagctccagaaatgattctgctttatatttagGCCCCAGACCTCTTTGAAAATCAAGCCATACACAGCTACTGTGGATTATTGGAGCTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCTGgtaagtcagtgttgttcatggttgtgggaaacaccctgctgaatgagata Alignment from Exonerate_coding2genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTG tcaaaaatctcaactttatagctccagaaatgattctgctttatatttagGCCCCAGACCTCTTTGAAAATCAAGCCATACACAGCTACTGTGGATTATTGGAGCTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCTGgtaagtcagtgttgttcatggttgtgggaaacaccctgctgaatgagata Alignment from GeneWise GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTG tcaaaaatctcaactttatagctccagaaatgattctgctttatatttagGCCCCAGACCTCTTTGAAAATCAAGCCATACACAGCTACTGTGGATTATTGGAGCTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCTGgtaagtcagtgttgttcatggttgtgggaaacaccctgctgaatgagata #### Col17a1_ID10275_47 --> 2 - 1 Original Alignment ccGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCC-CCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAa aaggtccgccctgcttaatgttgtttcttttgaaatgttttttcttgtagccACGAGTTTGTCGTCCACCCCAGGCCCAGCAGGACCATCAGGACCACCCAGCTCCTCGAGGGCCTCCTGGGGTTTCGACAGCCTCGT-TACATACGCTGCGGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACAagtaagcatcctggttgcttttctgtctccctacggagaacgtagccatta Alignment from CESAR ccGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCC-CCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAa aaggtccgccctgcttaatgttgtttcttttgaaatgttttttcttgtagccACGAGTTTGTCGTCCACCCCAGGCCCAGCAGGACCATCAGGACCACCCAGCTCCTCGAGGGCCTCCTGGGGTTTCGACAG-CCTCGTTACATACGCTGCGGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACAagtaagcatcctggttgcttttctgtctccctacggagaacgtagccatta Alignment from Spaln_aa2Genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA aaggtccgccctgcttaatgttgtttcttttgaaatgttttttcttgtagCCACGAGTTTGTCGTCCACCCCAGGCCCAGCAGGACCATCAGGACCACCCAGCTCCTCGAGGGCCTCCTGGGGTTTCGACAGCCTCGTTACATACGCTGCGGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACAAgtaagcatcctggttgcttttctgtctccctacggagaacgtagccatta Alignment from Spaln_nt2Genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCC-CCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA aaggtccgccctgcttaatgttgtttcttttgaaatgttttttcttgtagCCACGAGTTTGTCGTCCACCCCAGGCCCAGCAGGACCATCAGGACCACCCAGCTCCTCGAGGGCCTCCTGGGGTTTCGACAGC-CTCGTTACATACGCTGCGGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACAAgtaagcatcctggttgcttttctgtctccctacggagaacgtagccatta Alignment from Pairagon CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCC-CCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA aaggtccgccctgcttaatgttgtttcttttgaaatgttttttcttgtagCCACGAGTTTGTCGTCCACCCCAGGCCCAGCAGGACCATCAGGACCACCCAGCTCCTCGAGGGCCTCCTGGGGTTTCGACAGCCTCGT-TACATACGCTGCGGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACAAgtaagcatcctggttgcttttctgtctccctacggagaacgtagccatta Alignment from Exonerate_protein2genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA aaggtccgccctgcttaatgttgtttcttttgaaatgttttttcttgtagCCACGAGTTTGTCGTCCACCCCAGGCCCAGCAGGACCATCAGGACCACCCAGCTCCTCGAGGGCCTCCTGGGGTTTCGACAGCCTCGTTACATACGCTGCGGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACAAgtaagcatcctggttgcttttctgtctccctacggagaacgtagccatta Alignment from Exonerate_coding2genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA aaggtccgccctgcttaatgttgtttcttttgaaatgttttttcttgtagCCACGAGTTTGTCGTCCACCCCAGGCCCAGCAGGACCATCAGGACCACCCAGCTCCTCGAGGGCCTCCTGGGGTTTCGACAGCCTCGTTACATACGCTGCGGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACAAgtaagcatcctggttgcttttctgtctccctacggagaacgtagccatta Alignment from GeneWise CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA aaggtccgccctgcttaatgttgtttcttttgaaatgttttttcttgtagCCACGAGTTTGTCGTCCACCCCAGGCCCAGCAGGACCATCAGGACCACCCAGCTCCTCGAGGGCCTCCTGGGGTTTCGACAGCCTCGTTACATACGCTGCGGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACAAgtaagcatcctggttgcttttctgtctccctacggagaacgtagccatta #### Col17a1_ID10276_46 --> 2 - 1 Original Alignment gtTCTGGGATCAGCTTTGGGCATCCT-GGC---CCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAg accagagttctctcaaaattcctcttgcgacccctgaccctgaaccccaggtGCTGGCCTTAGCTTTGGACATCCTCGGCCCACCACCT---------------GCTGGAACTTCTT-TGAAAAGTTACTGTCCATGCTTAAAggtatgacaaaacccagaattgtccatgaactcaggatggtgcattggggg Alignment from CESAR gtTCTGGGATCAGCTTTGGGCATCCT-GGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAg accagagttctctcaaaattcctcttgcgacccctgaccctgaaccccaggtGCTGGCCTTAGCTTTGGACATCCTCGGCCCACCA---CCTGCT---------GGAACTT-CTTTGAAAAGTTACTGTCCATGCTTAAAggtatgacaaaacccagaattgtccatgaactcaggatggtgcattggggg Alignment from Spaln_aa2Genome GTTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAG accagagttctctcaaaattcctcttgcgacccctgaccctgaaccccagGTGCTGGCCTTAGCTTTGGACATCCTCGGCCCACCACC------------TGCTGGAACTTCTTTGAAAAGTTACTGTCCATGCTTAAAGgtatgacaaaacccagaattgtccatgaactcaggatggtgcattggggg Alignment from Spaln_nt2Genome GTTCTGGGATCAGCTTTGGGCATCCT-GGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAG accagagttctctcaaaattcctcttgcgacccctgaccctgaaccccagGTGCTGGCCTTAGCTTTGGACATCCTCGGCCCACC-----------ACCTG-CTGGAAC-TTCTTTGAAAAGTTACTGTCCATGCTTAAAGgtatgacaaaacccagaattgtccatgaactcaggatggtgcattggggg Alignment from Pairagon GTTCTGGGATCAGCTTTGGGCATCCT-GGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTAC----------------GAGGAGCTACTGACCATGCTCCGAG accagagttctctcaaaattcctcttgcgacccctgaccctgaaccccagGTGCTGGCCTTAGCTTTGGACATCCTCGGCCCACC-----------------------------ACCTGCTGGAACTTCTTTGAAAAGTTACTGTCCATGCTTAAAGgtatgacaaaacccagaattgtccatgaactcaggatggtgcattggggg Alignment from Exonerate_protein2genome GTTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAG accagagttctctcaaaattcctcttgcgacccctgaccctgaaccccagGTGCTGGCCTTAGCTTTGGACAT---------CCTCGGCCCACCACCTGCTGGAACTTC---TTTGAAAAGTTACTGTCCATGCTTAAAGgtatgacaaaacccagaattgtccatgaactcaggatggtgcattggggg Alignment from Exonerate_coding2genome accagagttctctcaaaattcctcttgcgacccctgaccctgaaccccaggtgctggccttagctttggacatcctcggcccaccacctgctggaacttctttgaaaagttactgtccatgcttaaaggtatgacaaaacccagaattgtccatgaactcaggatggtgcattggggg Alignment from GeneWise accagagttctctcaaaattcctcttgcgacccctgaccctgaaccccaggtgctggccttagctttggacatcctcggcccaccacctgctggaacttctttgaaaagttactgtccatgcttaaaggtatgacaaaacccagaattgtccatgaactcaggatggtgcattggggg #### Col17a1_ID10277_45 --> 2 - 1 Original Alignment ggAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCA-CCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAa acatagattgggctcaatgactctaagtatactttttttcttcatgctaggaAATGATGTGTGGCAAGACCTACGTCAAAATCTAGTAGGTCCTCCGAGTCCTTCAGGGCCACTTAGCCATCAGTGGAGAAGGGTCGCTAC-GTCT---------GGAGAGCTGAGCAAGCATATTCTCAACTATATGTCAagtaagaaggcaggtgtactcacctcactaaggatccgggggttgcctctt Alignment from CESAR ggAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGC-GTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAa acatagattgggctcaatgactctaagtatactttttttcttcatgctaggaAATGATGTGTGGCAAGACCTACGTCAAAATCTAGTAGGTCCTCCGAGTCCTTCAGGGCCACTTAGCCATCAGTGGAGAAGGGTCGCTA-CGTCT---------GGAGAGCTGAGCAAGCATATTCTCAACTATATGTCAagtaagaaggcaggtgtactcacctcactaaggatccgggggttgcctctt Alignment from Spaln_aa2Genome GGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA acatagattgggctcaatgactctaagtatactttttttcttcatgctagGAAATGATGTGTGGCAAGACCTACGTCAAAATCTAGTA---------GGTCCTCCGAGTCCTTCAGGGCCACTTAGCCATCAGTGGAGAAGGGTCGCTACGTCTGGAGAGCTGAGCAAGCATATTCTCAACTATATGTCAAgtaagaaggcaggtgtactcacctcactaaggatccgggggttgcctctt Alignment from Spaln_nt2Genome GGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACC-AGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA acatagattgggctcaatgactctaagtatactttttttcttcatgctagGAAATGATGTGTGGCAAGACCTACGTCAAAATCTAGTAGGTCCTCCGAGTCCTTCAGGGCCACTTAGCCATCAGTGGAGAAGGGTCGCTAC-GTC---------TGGAGAGCTGAGCAAGCATATTCTCAACTATATGTCAAgtaagaaggcaggtgtactcacctcactaaggatccgggggttgcctctt Alignment from Pairagon GGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCAC-CAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA acatagattgggctcaatgactctaagtatactttttttcttcatgctagGAAATGATGTGTGGCAAGACCTACGTCAAAATCTAGTAGGTCCTCCGAGTCCTTCAGGGCCACTTAGCCATCAGTGGAGAAGGGTCGCTAC----------GTCTGGAGAGCTGAGCAAGCATATTCTCAACTATATGTCAAgtaagaaggcaggtgtactcacctcactaaggatccgggggttgcctctt Alignment from Exonerate_protein2genome GGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA acatagattgggctcaatgactctaagtatactttttttcttcatgctagGAAATGATGTGTGGCAAGACCTACGTCAAAATCTAGTAGGTCCTCCGAGTCCTTCAGGGCCA------CTTAGCCATCAGTGGAGAAGGGTCGCTACGTCT---GGAGAGCTGAGCAAGCATATTCTCAACTATATGTCAAgtaagaaggcaggtgtactcacctcactaaggatccgggggttgcctctt Alignment from Exonerate_coding2genome acatagattgggctcaatgactctaagtatactttttttcttcatgctaggaaatgatgtgtggcaagacctacgtcaaaatctagtaggtcctccgagtccttcagggccacttagccatcagtggagaagggtcgctacgtctggagagctgagcaagcatattctcaactatatgtcaagtaagaaggcaggtgtactcacctcactaaggatccgggggttgcctctt Alignment from GeneWise GGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA acatagattgggctcaatgactctaagtatactttttttcttcatgctagGAAATGATGTGTGGCAAGACCTACGTCAAAATCTAGTAGGTCCTCCGAGTCCTTCAGGGCCA------CTTAGCCATCAGTGGAGAAGGGTCGCTACGTCT---GGAGAGCTGAGCAAGCATATTCTCAACTATATGTCAAgtaagaaggcaggtgtactcacctcactaaggatccgggggttgcctctt #### Col17a1_ID10279_43 --> 2 - 1 Original Alignment gtGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCC-CCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGt atgttgacttggaatgcagtcttgatcatggttgaccatctgtgttgcaggtGGTAACATCAGGACATATCTGCTAGGAGTTCAGGGGCCCCCCTGGA------------CCTGGATCTGTAATCACTA-CAAGGGAGAGACTTTTGATTATTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACGAtgtgttcctttagaaccttctgggtttttcccttccccagtctgaattgtt Alignment from CESAR gtGACAACATCAGGACTTATCTCTCAGGGGTTCAG-GGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGt atgttgacttggaatgcagtcttgatcatggttgaccatctgtgttgcaggtGGTAACATCAGGACATATCTGCTAGGAGTTCAGGGGCCCCCCTGGA------------CCTGGATCTGTAATCACT-ACAAGGGAGAGACTTTTGATTATTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACGAtgtgttcctttagaaccttctgggtttttcccttccccagtctgaattgtt Alignment from Spaln_aa2Genome GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT atgttgacttggaatgcagtcttgatcatggttgaccatctgtgttgcagGTGGTAACATCAGGACATATCTGCTAGGAGTTCAGGGGCCCCCCTGG------------ACCTGGATCTGTAATCACTACAAGGGAGAGACTTTTGATTATTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACGATgtgttcctttagaaccttctgggtttttcccttccccagtctgaattgtt Alignment from Spaln_nt2Genome GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT atgttgacttggaatgcagtcttgatcatggttgaccatctgtgttgcagGTGGTAACATCAGGACATATCTGCTAGGAGTTCAGG--------GGCCCCCCTGG---ACCTGGATCTGTAATCACTA-CAAGGGAGAGACTTTTGATTATTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACGATgtgttcctttagaaccttctgggtttttcccttccccagtctgaattgtt Alignment from Pairagon GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCC--------------------------AGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT atgttgacttggaatgcagtcttgatcatggttgaccatctgtgttgcagGTGGTAACATCAGGACATATCTGCTAGGAGTTCAGGGGCCCCCCTGGACCTGGATCTGTAATCACTACAAG--------------------------------------GGAGAGACTTTTGATTATTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACGATgtgttcctttagaaccttctgggtttttcccttccccagtctgaattgtt Alignment from Exonerate_protein2genome AGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT atgttgacttggaatgcagtcttgatcatggttgaccatctgtgttgcaggtggtaacatcaggacatatctgctaggagttcaggggcccccctggacctggatctgtaatcactacaaGGGAGAGACTTTTGATTATTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACGATgtgttcctttagaaccttctgggtttttcccttccccagtctgaattgtt Alignment from Exonerate_coding2genome atgttgacttggaatgcagtcttgatcatggttgaccatctgtgttgcaggtggtaacatcaggacatatctgctaggagttcaggggcccccctggacctggatctgtaatcactacaagggagagacttttgattattctcaactggcaagtcatgaagttagctacctacgatgtgttcctttagaaccttctgggtttttcccttccccagtctgaattgtt Alignment from GeneWise GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT atgttgacttggaatgcagtcttgatcatggttgaccatctgtgttgcagGTGGTAACATCAGGACATATCTGCTAGGAGTTCAGGGGCCCCCCTGGACC------------TGGATCTGTAATCACTACAAGGGAGAGACTTTTGATTATTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACGATgtgttcctttagaaccttctgggtttttcccttccccagtctgaattgtt #### Col17a1_ID10288_34 --> 2 - 1 Original Alignment agGGATCATCAACAATCACTGTGCCCGGA-CCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAg taggttaagatagcgtcacatggcatgtccccaccctatccaacttgcagaaGGATCCTCAACAATCACTGTGCCTGGACACTCCCGGACCTTCTGGTGCCATGGGTCCTC-TGGGCCTCCAGGGACACTGggtaagtctattctactttttcccaacaaatcaacaacgatttacataaat Alignment from CESAR agGGATCATCAACAATCACTGTGCCCGGA-CCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAg taggttaagatagcgtcacatggcatgtccccaccctatccaacttgcagaaGGATCCTCAACAATCACTGTGCCTGGACACTCCCGGACCTTCTGGTGCCATGGGTCCT-CTGGGCCTCCAGGGACACTGggtaagtctattctactttttcccaacaaatcaacaacgatttacataaat Alignment from Spaln_aa2Genome AGGGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAG taggttaagatagcgtcacatggcatgtccccaccctatccaacttgcagAAGGATCCTCAACAATCACTGTGCCTGGACACTCCCGGACCTTCTGGTGCCATGGGTCCTCTGGGCCTCCAGGGACACTGGgtaagtctattctactttttcccaacaaatcaacaacgatttacataaat Alignment from Spaln_nt2Genome AGGGATCATCAACAATCACTGTGCCCGGAC-CTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAG taggttaagatagcgtcacatggcatgtccccaccctatccaacttgcagAAGGATCCTCAACAATCACTGTGCCTGGACACTCCCGGACCTTCTGGTGCCATGGGT-CCTCTGGGCCTCCAGGGACACTGGgtaagtctattctactttttcccaacaaatcaacaacgatttacataaat Alignment from Pairagon AGGGATCATCAACAATCACTGTGCCCGGAC-CTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAG taggttaagatagcgtcacatggcatgtccccaccctatccaacttgcagAAGGATCCTCAACAATCACTGTGCCTGGACACTCCCGGACCTTCTGGTGCCATGGGTCCTCT-GGGCCTCCAGGGACACTGGgtaagtctattctactttttcccaacaaatcaacaacgatttacataaat Alignment from Exonerate_protein2genome AGGGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAG taggttaagatagcgtcacatggcatgtccccaccctatccaacttgcagAAGGATCCTCAACAATCACTGTGCCTGGACACTCCCGGACCTTCTGGTGCCATGGGTCCTCTGGGCCTCCAGGGACACTGGgtaagtctattctactttttcccaacaaatcaacaacgatttacataaat Alignment from Exonerate_coding2genome AGGGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAG taggttaagatagcgtcacatggcatgtccccaccctatccaacttgcagAAGGATCCTCAACAATCACTGTGCCTGGACACTCCCGGACCTTCTGGTGCCATGGGTCCTCTGGGCCTCCAGGGACACTGGgtaagtctattctactttttcccaacaaatcaacaacgatttacataaat Alignment from GeneWise ------CCCGGCGCTCCCGGCAGAGTCATGACTTCAGAGGGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAG taggttaagatagCGTCACATGGCATGTCCCCACCCTATCCAACTTGCAGAAGGATCCTCAACAATCACTGTGCCTGGACACTCCCGGACCTTCTGGTGCCATGGGTCCTCTGGGCCTCCAGGGACACTGGgtaagtctattctactttttcccaacaaatcaacaacgatttacataaat #### Col17a1_ID10300_22 --> 2 - 1 Original Alignment gaGATCCTGGCATGGAAGGA-CCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAg cactattctgtgctcttgcatctttcttctccccgaattccctctggcaggaGATCCTGGCATGGAAGCACCCGATAGGCCAGAGAGGGTTAGCAGGTCCCATGGGACCCA-TGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAggtaagcgtcactatcaacactatagtgtggtgacctgcatctgttcattt Alignment from CESAR gaGATCCTGGCATGGAAGGACCC-ATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAg cactattctgtgctcttgcatctttcttctccccgaattccctctggcaggaGATCCTGGCATGGAAGCACCCGATAGGCCAGAGAGGGTTAGCAGGTCCCATGGGAC-CCATGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAggtaagcgtcactatcaacactatagtgtggtgacctgcatctgttcattt Alignment from Spaln_aa2Genome GAGATCCTGGCATGGAAGGA-CCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAG cactattctgtgctcttgcatctttcttctccccgaattccctctggcagGAGATCCTGGCATGGAAGCAcCCGATAGGCCAGAGAGGGTTAGCAGGTCCCATGGGACCCAT-GGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAGgtaagcgtcactatcaacactatagtgtggtgacctgcatctgttcattt Alignment from Spaln_nt2Genome GAGATCCTGGCATGGAAGGA-CCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAG cactattctgtgctcttgcatctttcttctccccgaattccctctggcagGAGATCCTGGCATGGAAGCACCCGATAGGCCAGAGAGGGTTAGCAGGTCCCATGGGACC-CATGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAGgtaagcgtcactatcaacactatagtgtggtgacctgcatctgttcattt Alignment from Pairagon GAGATCCTGGCATGGAAGGACCC-ATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAG cactattctgtgctcttgcatctttcttctccccgaattccctctggcagGAGATCCTGGCATGGAAGCACCCGATAGGCCAGAGAGGGTTAGCAGGTCCCATGGGACC-CATGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAGgtaagcgtcactatcaacactatagtgtggtgacctgcatctgttcattt Alignment from Exonerate_protein2genome GAGATCCTGGCATGGAAGGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAG cactattctgtgctcttgcatctttcttctccccgaattccctctggcagGAGATCCTGGCATGGAAGCACCCGATAGGCCAGAGAGGGTTAGCAGGTCCCATGGGACCCATGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAGgtaagcgtcactatcaacactatagtgtggtgacctgcatctgttcattt Alignment from Exonerate_coding2genome GAGATCCTGGCATGGAAGGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAG cactattctgtgctcttgcatctttcttctccccgaattccctctggcagGAGATCCTGGCATGGAAGCACCCGATAGGCCAGAGAGGGTTAGCAGGTCCCATGGGACCCATGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAGgtaagcgtcactatcaacactatagtgtggtgacctgcatctgttcattt Alignment from GeneWise GAGATCCTGGCATGGAAGGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAG cactattctgtgctcttgcatctttcttctccccgaattccctctggcagGAGATCCTGGCATGGAAGCACCCGATAGGCCAGAGAGGGTTAGCAGGTCCCATGGGACCCATGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAGgtaagcgtcactatcaacactatagtgtggtgacctgcatctgttcattt #### Coro1b_ID353_3 --> 0 - 1 Original Alignment GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC------AAGCGC-GTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAg gataccccctcttgatgattgacctgtcactctattgttataccaaacagATTTGGCAGATCCCAGAAAATGGTTTGACT---CCACTGACGGAGCCCGTAGTTGTGCCTGAGGGGCACACAATTAAACGACGTCCTGGGTATTACTACTTGGCATCCTACTGCCCAGA-TGTGCTTCTTGGTGCTggtaagtatatgcccaaaccatgctctctactctaattatagtccagcatg Alignment from CESAR GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC---AAGCGC-GTG---GGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAg gataccccctcttgatgattgacctgtcactctattgttataccaaacagATTTGGCAGATCCCAGAAAATGGTTTGACT---CCACTGACGGAGCCCGTAGTTGTGCCTGAGGGGCACACAATTAAACGACGTCCTGGGTATTACTACTTGGCATCCTACTGCCC-AGATGTGCTTCTTGGTGCTggtaagtatatgcccaaaccatgctctctactctaattatagtccagcatg Alignment from Spaln_aa2Genome GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC------AAGCGCGTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAG gataccccctcttgatgattgacctgtcactctattgttataccaaacagATTTGGCAGATCCCAGAAAATGGTTTG---ACTCCACTGACGGAGCCCGTAGTTGTGCCTGAGGGGCACACAATTAAACGACGTCCTGGGTATTACTACTTGGCATCCTACTGCCCAGATGTGCTTCTTGGTGCTGgtaagtatatgcccaaaccatgctctctactctaattatagtccagcatg Alignment from Spaln_nt2Genome GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACCA---AGCG----CGTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAG gataccccctcttgatgattgacctgtcactctattgttataccaaacagATTTGGCAGATCCCAGAAAATGGTTTGA---CTCCACTGACGGAGCCCGTAGTTGTGCCTGAGGGGCACACAATTAAACGACGTCCTGGGTATTACTACTTGGCATCCTACTGCCC-AGATGTGCTTCTTGGTGCTGgtaagtatatgcccaaaccatgctctctactctaattatagtccagcatg Alignment from Pairagon GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATA--------------CCAAGCGCGTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAG gataccccctcttgatgattgacctgtcactctattgttataccaaacagATTTGGCAGATCCCAGAAAATGGTTTGA---CTCCACTGACGGAGCCCGTAGTTGTGCCTGAGGGGCACACAATTAAACGACGTCC-------TGGGTATTACTACTTGGCATCCTACTGCCC-AGATGTGCTTCTTGGTGCTGgtaagtatatgcccaaaccatgctctctactctaattatagtccagcatg Alignment from Exonerate_protein2genome GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC---AAGCGC----GTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCA gataccccctcttgatgattgacctgtcactctattgttataccaaacagATTTGGCAGATCCCAGAAAATGGTTTGACT---CCACTGACGGAGCCCGTAGTTGTGCCTGAGGGGCACACAATTAAACGACGTCCTGGGTATTACTACTTGGCATCCTACTGCCCAGATGTGCTTCTTGGTGCTGgtaagtatatgcccaaaccatgctctctactctaattatagtccagcatg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC------AAGCGCGTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAG gataccccctcttgatgattgacctgtcactctattgttataccaaacagATTTGGCAGATCCCAGAAAATGGTTTGACT---CCACTGACGGAGCCCGTAGTTGTGCCTGAGGGGCACACAATTAAACGACGTCCTGGGTATTACTACTTGGCATCCTACTGCCCAGATGTGCTTCTTGGTGCTGgtaagtatatgcccaaaccatgctctctactctaattatagtccagcatg #### Coro1b_ID357_7 --> 0 - 2 Original Alignment GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTAC-ATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCag tggatactaatgaacatttctttgactgttctgttctttgtccctcacagGGTGATTCTAGTATTCGATACTTTGAGAACACAGATGAACCC---CACCATCCATTTTTTGAACACATTTGCAAGCAAAGAAC-CCAAAGGGGTATGGGCAGCATGCTGAAGAGGGGCCTGGCAGTCAGCAAGTGTGAAATAGCCaggtaagcacaatcagtggttgtatatcagttacctcaatcttagcttgaaa Alignment from CESAR GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCag tggatactaatgaacatttctttgactgttctgttctttgtccctcacagGGTGATTCTAGTATTCGATACTTTGAGAACACAGATGAAC--CCCACCATCCATTTTTTGAACACATTTGCAAGCAAAGAAC-CCAAAGGGGTATGGGCAGCATGCTGAAGAGGGGCCTGGCAGTCAGCAAGTGTGAAATAGCCaggtaagcacaatcagtggttgtatatcagttacctcaatcttagcttgaaa Alignment from Spaln_aa2Genome GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG tggatactaatgaacatttctttgactgttctgttctttgtccctcacagGGTGATTCTAGTATTCGATACTTTGAGAACACAGATGAACCCCACC--ATCCATTTTTTGAACACATTTGCAAGCAAAGAACC-CAAAGGGGTATGGGCAGCATGCTGAAGAGGGGCCTGGCAGTCAGCAAGTGTGAAATAGCCAGgtaagcacaatcagtggttgtatatcagttacctcaatcttagcttgaaa Alignment from Spaln_nt2Genome GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG tggatactaatgaacatttctttgactgttctgttctttgtccctcacagGGTGATTCTAGTATTCGATACTTTGAGAACACAGATGAACCCCAC--CATCCATTTTTTGAACACATTTGCAAGCAAAGAA-CCCAAAGGGGTATGGGCAGCATGCTGAAGAGGGGCCTGGCAGTCAGCAAGTGTGAAATAGCCAGgtaagcacaatcagtggttgtatatcagttacctcaatcttagcttgaaa Alignment from Pairagon GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG tggatactaatgaacatttctttgactgttctgttctttgtccctcacagGGTGATTCTAGTATTCGATACTTTGAGAACACAGATGAACCCCAC--CATCCATTTTTTGAACACATTTGCAAGCAAAGAA-CCCAAAGGGGTATGGGCAGCATGCTGAAGAGGGGCCTGGCAGTCAGCAAGTGTGAAATAGCCAGgtaagcacaatcagtggttgtatatcagttacctcaatcttagcttgaaa Alignment from Exonerate_protein2genome GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG tggatactaatgaacatttctttgactgttctgttctttgtccctcacagGGTGATTCTAGTATTCGATACTTTGAGAACACAGATGAACCCCACCAT---CCATTTTTTGAACACATTTGCAAGCAAAGAACCCAAAGGGGTATGGGCAGCATGCTGAAGAGGGGCCTGGCAGTCAGCAAGTGTGAAATAGCCAGgtaagcacaatcagtggttgtatatcagttacctcaatcttagcttgaaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG tggatactaatgaacatttctttgactgttctgttctttgtccctcacagGGTGATTCTAGTATTCGATACTTTGAGAACACAGATGAACCCCACCAT---CCATTTTTTGAACACATTTGCAAGCAAAGAACCCAAAGGGGTATGGGCAGCATGCTGAAGAGGGGCCTGGCAGTCAGCAAGTGTGAAATAGCCAGgtaagcacaatcagtggttgtatatcagttacctcaatcttagcttgaaa #### Crtac1_ID8462_10 --> 2 - 0 Original Alignment ggGGCGTAGTGACCGACTTCGATGGT-GATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccttccttgcccaaatagtgacagcctgggatgctttctttctgttgcagggGGTGTGGTGACTGATTTTGATGGGCGATGGGATGTTGGATCTGATCTTGTCAC-TGGAAGGTCCATGGCTCAGCCCTTGTCCATTTTCCGTGGGAATCAGgtaaaaaacattttatctaagtgacccctctgtatgataatatacaccag Alignment from CESAR ggGGCGTAGTGACCGACTTCGAT-GGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccttccttgcccaaatagtgacagcctgggatgctttctttctgttgcagggGGTGTGGTGACTGATTTTGATGGGCGATGGGATGTTGGATCTGATCTTGTCA-CTGGAAGGTCCATGGCTCAGCCCTTGTCCATTTTCCGTGGGAATCAGgtaaaaaacattttatctaagtgacccctctgtatgataatatacaccag Alignment from Spaln_aa2Genome GGGGCGTAGTGACCGACTTCGATGGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccttccttgcccaaatagtgacagcctgggatgctttctttctgttgcagGGGGTGTGGTGACTGATTTTGATGGGCGATGGGATGTTGGATCTGATCTTGTCACTGGAAGGTCCATGGCTCAGCCCTTGTCCATTTTCCGTGGGAATCAGgtaaaaaacattttatctaagtgacccctctgtatgataatatacaccag Alignment from Spaln_nt2Genome GGGGCGTAGTGACCGACTTCGATGGT-GATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccttccttgcccaaatagtgacagcctgggatgctttctttctgttgcagGGGGTGTGGTGACTGATTTTGATGGGCGATGGGATGTTGGATCTGATCTTGTCAC-TGGAAGGTCCATGGCTCAGCCCTTGTCCATTTTCCGTGGGAATCAGgtaaaaaacattttatctaagtgacccctctgtatgataatatacaccag Alignment from Pairagon GGGGCGTAGTGACCGACTTCGAT-GGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccttccttgcccaaatagtgacagcctgggatgctttctttctgttgcagGGGGTGTGGTGACTGATTTTGATGGGCGATGGGATGTTGGATCTGATCTTGTCAC-TGGAAGGTCCATGGCTCAGCCCTTGTCCATTTTCCGTGGGAATCAGgtaaaaaacattttatctaagtgacccctctgtatgataatatacaccag Alignment from Exonerate_protein2genome GGGGCGTAGTGACCGACTTCGATGGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccttccttgcccaaatagtgacagcctgggatgctttctttctgttgcagGGGGTGTGGTGACTGATTTTGATGGGCGATGGGATGTTGGATCTGATCTTGTCACTGGAAGGTCCATGGCTCAGCCCTTGTCCATTTTCCGTGGGAATCAGgtaaaaaacattttatctaagtgacccctctgtatgataatatacaccag Alignment from Exonerate_coding2genome GGGGCGTAGTGACCGACTTCGATGGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccttccttgcccaaatagtgacagcctgggatgctttctttctgttgcagGGGGTGTGGTGACTGATTTTGATGGGCGATGGGATGTTGGATCTGATCTTGTCACTGGAAGGTCCATGGCTCAGCCCTTGTCCATTTTCCGTGGGAATCAGgtaaaaaacattttatctaagtgacccctctgtatgataatatacaccag Alignment from GeneWise GGGGCGTAGTGACCGACTTCGATGGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccttccttgcccaaatagtgacagcctgggatgctttctttctgttgcagGGGGTGTGGTGACTGATTTTGATGGGCGATGGGATGTTGGATCTGATCTTGTCACTGGAAGGTCCATGGCTCAGCCCTTGTCCATTTTCCGTGGGAATCAGgtaaaaaacattttatctaagtgacccctctgtatgataatatacaccag #### Csf2ra_ID13431_9 --> 2 - 2 Original Alignment agGCTGAGGACACGCGA-GTGCCCGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGag acaggaacagacaacttcctgattgccatttgtatatttacattttctagatGCAGATGACACACGGCGTGCCTGGCACACTCCTCTACACAGTAACTGCTTGTGCTGTCT-ACTGTGTGCACTAGTCCTTGGAGTGACTTGCAGGaggtaagtcaaaggggtaatatcatgaacaaggcgtgtaaacagttggttta Alignment from CESAR agGCTGAGGACACGCGA-GTGCCCGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGag acaggaacagacaacttcctgattgccatttgtatatttacattttctagatGCAGATGACACACGGCGTGCCTGGCACACTCCTCTACACAGTAACTGCTTGTGCTG-TCTACTGTGTGCACTAGTCCTTGGAGTGACTTGCAGGaggtaagtcaaaggggtaatatcatgaacaaggcgtgtaaacagttggttta Alignment from Spaln_aa2Genome AGGCTGAGGACACGCGAGTGCCCGGT---GCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGAG acaggaacagacaacttcctgattgccatttgtatatttacattttctagATGCAGATGACACACGGCGTGCCTGGCACACTCCTCTACACAGTAACTGCTTGTGCTGT---CTACTGTGTGCACTAGTCCTTGGAGTGACTTGCAGGAGgtaagtcaaaggggtaatatcatgaacaaggcgtgtaaacagttggttta Alignment from Spaln_nt2Genome AGGCTGAGGACACGCGA-GTGCCCGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGAG acaggaacagacaacttcctgattgccatttgtatatttacattttctagATGCAGATGACACACGGCGTGCCTGGCACACTCCTCTACACAGTAACTGCTTGTGCTGT-CTACTGTGTGCACTAGTCCTTGGAGTGACTTGCAGGAGgtaagtcaaaggggtaatatcatgaacaaggcgtgtaaacagttggttta Alignment from Pairagon AGGCTGAGGACACGCGA-GTGCCCGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGAG acaggaacagacaacttcctgattgccatttgtatatttacattttctagATGCAGATGACACACGGCGTGCCTGGCACACTCCTCTACACAGTAACTGCTTGTGCTGT-CTACTGTGTGCACTAGTCCTTGGAGTGACTTGCAGGAGgtaagtcaaaggggtaatatcatgaacaaggcgtgtaaacagttggttta Alignment from Exonerate_protein2genome AGGCTGAGGACACGCGA-GTGCCCGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCA--GTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGAG acaggaacagacaacttcctgattgccatttgtatatttacattttctagATGCAGATGACACACGGCGTGCCTGGCACACTCCTCTACACAGTAACTGCTTGTGCTGT---CTACTGTGTGCACTAGTCCTTGGAGTGACTTGCAGGAGgtaagtcaaaggggtaatatcatgaacaaggcgtgtaaacagttggttta Alignment from Exonerate_coding2genome acaggaacagacaacttcctgattgccatttgtatatttacattttctagatgcagatgacacacggcgtgcctggcacactcctctacacagtaactgcttgtgctgtctactgtgtgcactagtccttggagtgacttgcaggaggtaagtcaaaggggtaatatcatgaacaaggcgtgtaaacagttggttta Alignment from GeneWise GAGGACACGCGAGTGCCCGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGAG acaggaacagacaacttcctgattgccatttgtatatttacattttctagatgcagATGACACACGGCGTGCCTGGCACACTCCTCTACACAGTAACTGCTTGTGCTGT-CTACTGTGTGCACTAGTCCTTGGAGTGACTTGCAGGAGgtaagtcaaaggggtaatatcatgaacaaggcgtgtaaacagttggttta #### Csf2ra_ID13432_8 --> 0 - 1 Original Alignment GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCC-CACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCg ggttcacaaagataagttcttactcccacgccttcttcttccctcctcagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAG-TGACACTAGGATGAAGCACTGGGGAAAATGG------GCGCAGCCTCTTggtgtgccagctgtaatgcttgattcccccaaaaatatgcctgctgtccaa Alignment from CESAR GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCC-CACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCg ggttcacaaagataagttcttactcccacgccttcttcttccctcctcagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCCATGGATGGCACAGGGTCAAAGTCCGAG-CAGTGACACTAGGATGAAGCACTGGGGAAAATGG------GCGCAGCCTCTTggtgtgccagctgtaatgcttgattcccccaaaaatatgcctgctgtccaa Alignment from Spaln_aa2Genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG ggttcacaaagataagttcttactcccacgccttcttcttccctcctcagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGTGACACTAGGATGAAGCACTGGGGAAAATGG------GCGCAGCCTCTTGgtgtgccagctgtaatgcttgattcccccaaaaatatgcctgctgtccaa Alignment from Spaln_nt2Genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGC-CCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG ggttcacaaagataagttcttactcccacgccttcttcttccctcctcagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCCATGGATGGCACAGGGTCAAAGTCCGAGC-AGTGACACTAGGATGAAGCACTGGGGAAAATGG------GCGCAGCCTCTTGgtgtgccagctgtaatgcttgattcccccaaaaatatgcctgctgtccaa Alignment from Pairagon GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGC-CCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG ggttcacaaagataagttcttactcccacgccttcttcttccctcctcagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCCATGGATGGCACAGGGTCAAAGTCCGAGC-AGTGACACTAGGATGAAGCACTGGGGAAAATGG------GCGCAGCCTCTTGgtgtgccagctgtaatgcttgattcccccaaaaatatgcctgctgtccaa Alignment from Exonerate_protein2genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG ggttcacaaagataagttcttactcccacgccttcttcttccctcctcagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGTGACACTAGGATGAAGCACTGGGGAAAATGG------GCGCAGCCTCTTGgtgtgccagctgtaatgcttgattcccccaaaaatatgcctgctgtccaa Alignment from Exonerate_coding2genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGT ggttcacaaagataagttcttactcccacgccttcttcttccctcctcagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGTGACACTAGGATGAAGCACTGGGGAAAATGGGCGcagcctcttggtgtgccagctgtaatgcttgattcccccaaaaatatgcctgctgtccaa Alignment from GeneWise ----AGCGCAGAGCCAGGAAGCACACCCCGGAAGGTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG ggttcacaaagataagTTCTTACTCCCACGCCTTCTTCTTCCCTCCTCAGGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGTGACACTAGGATGAAGCACTGGGGAAAATGG------GCGCAGCCTCTTGgtgtgccagctgtaatgcttgattcccccaaaaatatgcctgctgtccaa #### Csf2ra_ID13434_6 --> 2 - 0 Original Alignment agCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCAC-TGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tacaatgtagagccttcacatgtttagtccacccttaattttccttgtagagCGTCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATCTGCACTGTGTCTTGGGCTCCACCTTCCACTTGGGCATCCC-GGCAGCACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgtcagaaggcctcttttttctgggaaagcctaggggatgctatgccca Alignment from CESAR agCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCAC-TGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tacaatgtagagccttcacatgtttagtccacccttaattttccttgtagagCGTCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATCTGCACTGTGTCTTGGGCTCCACCTTCCACTTGGGCATCC-CGGCAGCACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgtcagaaggcctcttttttctgggaaagcctaggggatgctatgccca Alignment from Spaln_aa2Genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCAC-TGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tacaatgtagagccttcacatgtttagtccacccttaattttccttgtagAGCGTCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATcTGCACTGTGTCTTGGGCTCCACCTTCCACTTGGGCATCCCG-GCAGCACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgtcagaaggcctcttttttctgggaaagcctaggggatgctatgccca Alignment from Spaln_nt2Genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCA-CTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tacaatgtagagccttcacatgtttagtccacccttaattttccttgtagAGCGTCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATCTGCACTGTGTCTTGGGCTCCACCTTCCACTTGGGCATCC-CGGCAGCACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgtcagaaggcctcttttttctgggaaagcctaggggatgctatgccca Alignment from Pairagon AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCA-CTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tacaatgtagagccttcacatgtttagtccacccttaattttccttgtagAGCGTCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATCTGCACTGTGTCTTGGGCTCCACCTTCCACTTGGGCATCC-CGGCAGCACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgtcagaaggcctcttttttctgggaaagcctaggggatgctatgccca Alignment from Exonerate_protein2genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCAC-TGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCC--TTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tacaatgtagagccttcacatgtttagtccacccttaattttccttgtagAGCGTCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATCTGCACTGTGTCTTGGGCTCCACCTTCCACTTGGGCATCCCG---GCAGCACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgtcagaaggcctcttttttctgggaaagcctaggggatgctatgccca Alignment from Exonerate_coding2genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCAC-TGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCC--TTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tacaatgtagagccttcacatgtttagtccacccttaattttccttgtagAGCGTCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATCTGCACTGTGTCTTGGGCTCCACCTTCCACTTGGGCATCCCG---GCAGCACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgtcagaaggcctcttttttctgggaaagcctaggggatgctatgccca Alignment from GeneWise AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCC-CACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tacaatgtagagccttcacatgtttagtccacccttaattttccttgtagAGCGTCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATCTGCACTGTGTCTTGGGCTCCACCTTCCACTTGGGCATCCCG-GCAGCACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgtcagaaggcctcttttttctgggaaagcctaggggatgctatgccca #### Csf2ra_ID13435_5 --> 1 - 1 Original Alignment gGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCC-TACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTCg tcagtcatattgccctcagctctctctatttgcccctcttcacttcccagaGGTCATGATGTGGCACACTCCATGGCTGATCCTGGGGATGATGTAATGACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCCTATTTAGTAGTTACTGGTCGAAGTGGGGCAGGGCCAGTGT-GTTTCTGGATGATGTGGTTGCTACAAAGGCACTGggtagcttcttgtttatgggtgcatatacagtcacagcttggatatggagc Alignment from CESAR gGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCC-TACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTCg tcagtcatattgccctcagctctctctatttgcccctcttcacttcccagaGGTCATGATGTGGCACACTCCATGGCTGATCCTGGGGATGATGTAATGACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCCTATTTAGTAGTTACTGGTCGAAGTGGGGCAGGGCCAGTG-TGTTTCTGGATGATGTGGTTGCTACAAAGGCACTGggtagcttcttgtttatgggtgcatatacagtcacagcttggatatggagc Alignment from Spaln_aa2Genome GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCC-TACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTCG tcagtcatattgccctcagctctctctatttgcccctcttcacttcccagAGGTCATGATGTGGCACACTCCATGGCTGATCCTGGGGATGATGTAATGACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCcTATTTAGTAGTTACTGGTCGAAGTGGGGCAGGGCCAGTGTGTTT-CTGGATGATGTGGTTGCTACAAAGGCACTGGgtagcttcttgtttatgggtgcatatacagtcacagcttggatatggagc Alignment from Spaln_nt2Genome GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCC-TACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTCG tcagtcatattgccctcagctctctctatttgcccctcttcacttcccagAGGTCATGATGTGGCACACTCCATGGCTGATCCTGGGGATGATGTAATGACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCCTATTTAGTAGTTACTGGTCGAAGTGGGGCAGGGCCAGTG-TGTTTCTGGATGATGTGGTTGCTACAAAGGCACTGGgtagcttcttgtttatgggtgcatatacagtcacagcttggatatggagc Alignment from Pairagon GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGG-CCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTCG tcagtcatattgccctcagctctctctatttgcccctcttcacttcccagAGGTCATGATGTGGCACACTCCATGGCTGATCCTGGGGATGATGTAATGACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCCTATTTAGTAGTTACTGGTCGAAGTGGGGCAGGGCCAGTGT-GTTTCTGGATGATGTGGTTGCTACAAAGGCACTGGgtagcttcttgtttatgggtgcatatacagtcacagcttggatatggagc Alignment from Exonerate_protein2genome GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCC-TACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCA--GTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTCG tcagtcatattgccctcagctctctctatttgcccctcttcacttcccagAGGTCATGATGTGGCACACTCCATGGCTGATCCTGGGGATGATGTAATGACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCCTATTTAGTAGTTACTGGTCGAAGTGGGGCAGGGCCAGTGTG---TTTCTGGATGATGTGGTTGCTACAAAGGCACTGGgtagcttcttgtttatgggtgcatatacagtcacagcttggatatggagc Alignment from Exonerate_coding2genome GGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCC-TACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCA--GTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTCG tcagtcatattgccctcagctctctctatttgcccctcttcacttcccagaGGTCATGATGTGGCACACTCCATGGCTGATCCTGGGGATGATGTAATGACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCCTATTTAGTAGTTACTGGTCGAAGTGGGGCAGGGCCAGTGTG---TTTCTGGATGATGTGGTTGCTACAAAGGCACTGGgtagcttcttgtttatgggtgcatatacagtcacagcttggatatggagc Alignment from GeneWise GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAG-GCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTCG tcagtcatattgccctcagctctctctatttgcccctcttcacttcccagAGGTCATGATGTGGCACACTCCATGGCTGATCCTGGGGATGATGTAATGACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCCTATTTAGTAGTTACTGGTCGAAGTGGGGCAGGGCCAGTGTG-TTTCTGGATGATGTGGTTGCTACAAAGGCACTGGgtagcttcttgtttatgggtgcatatacagtcacagcttggatatggagc #### Csf2ra_ID13436_4 --> 2 - 2 Original Alignment gcGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCG-TGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCac atagaagtagtgttggattgcacccaagaatgcacttggtgtctccctaggcACTGCAGGCACTGGGGCAGAGAATCTGATCTGTGAGATTCGAGCTTCACGCTTTCTTTCCTGTGCTCTGGCGAGAGGGGCCAGCTGCACCGGCAGATGTCCAGC-CTCACTGCAGGTCCTTAACTCAacgtataatgtaaacccccagctgtctgtccacagagcattgctactatttt Alignment from CESAR gcGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCG-TGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCac atagaagtagtgttggattgcacccaagaatgcacttggtgtctccctaggcACTGCAGGCACTGGGGCAGAGAATCTGATCTGTGAGATTCGAGCTTCACGCTTTCTTTCCTGTGCTCTGGCGAGAGGGGCCAGCTGCACCGGCAGATGTCCAG-CCTCACTGCAGGTCCTTAACTCAacgtataatgtaaacccccagctgtctgtccacagagcattgctactatttt Alignment from Spaln_aa2Genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC atagaagtagtgttggattgcacccaagaatgcacttggtgtctccctagGCACTGCAGGCACTGGGGCAGAGAATCTGATCTGTGAGATTCGAGCTTCACGCTTTCTTTCCTGTGCTCTGGCGAGAGGGGCCAGCTGCACCGGCAGATGTCCAGCCTCACTGCAGGTCCTTAACTCAACgtataatgtaaacccccagctgtctgtccacagagcattgctactatttt Alignment from Spaln_nt2Genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCG-TGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC atagaagtagtgttggattgcacccaagaatgcacttggtgtctccctagGCACTGCAGGCACTGGGGCAGAGAATCTGATCTGTGAGATTCGAGCTTCACGCTTTCTTTCCTGTGCTCTGGCGAGAGGGGCCAGCTGCACCGGCAGATGTCCAG-CCTCACTGCAGGTCCTTAACTCAACgtataatgtaaacccccagctgtctgtccacagagcattgctactatttt Alignment from Pairagon GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGC-GTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC atagaagtagtgttggattgcacccaagaatgcacttggtgtctccctagGCACTGCAGGCACTGGGGCAGAGAATCTGATCTGTGAGATTCGAGCTTCACGCTTTCTTTCCTGTGCTCTGGCGAGAGGGGCCAGCTGCACCGGCAGATGTCCAGC-CTCACTGCAGGTCCTTAACTCAACgtataatgtaaacccccagctgtctgtccacagagcattgctactatttt Alignment from Exonerate_protein2genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCG-TGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC atagaagtagtgttggattgcacccaagaatgcacttggtgtctccctagGCACTGCAGGCACTGGGGCAGAGAATCTGATCTGTGAGATTCGAGCTTCACGCTTTCTTTCCTGTGCTCTGGCGAGAGGGGCCAGCTGCACCGGCAGATGTCCAGCCTCACTGCAGGTCCTTAACTCAACGtataatgtaaacccccagctgtctgtccacagagcattgctactatttt Alignment from Exonerate_coding2genome atagaagtagtgttggattgcacccaagaatgcacttggtgtctccctaggcactgcaggcactggggcagagaatctgatctgtgagattcgagcttcacgctttctttcctgtgctctggcgagaggggccagctgcaccggcagatgtccagcctcactgcaggtccttaactcaacgtataatgtaaacccccagctgtctgtccacagagcattgctactatttt Alignment from GeneWise GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC atagaagtagtgttggattgcacccaagaatgcacttggtgtctccctagGCACTGCAGGCACTGGGGCAGAGAATCTGATCTGTGAGATTCGAGCTTCACGCTTTCTTTCCTGTGCTCTGGCGAGAGGGGCCAGCTGCACCGGCAGATGTCCAGCCTCACTGCAGGTCCTTAACTCAACgtataatgtaaacccccagctgtctgtccacagagcattgctactatttt #### Csf2ra_ID13437_3 --> 0 - 1 Original Alignment CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATG-ATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAg ataggactctcagtgcattaccctaacctaccccctcctccaatccttagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGCATGGCACTGCACCATGGTGTAACACTGGACG-CAATGGCACAGTTGGAGGTGCAGCCGCACATTGGAAGCTCAGCTTTGTCAATGAGggtaagagtagatgttggggactccatgatacccttactactaagctatca Alignment from CESAR CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATG-ATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAg ataggactctcagtgcattaccctaacctaccccctcctccaatccttagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGCATGGCACTGCACCATGGTGTAACACTGGAC-GCAATGGCACAGTTGGAGGTGCAGCCGCACATTGGAAGCTCAGCTTTGTCAATGAGggtaagagtagatgttggggactccatgatacccttactactaagctatca Alignment from Spaln_aa2Genome CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAG ataggactctcagtgcattaccctaacctaccccctcctccaatccttagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGCATGGCACTGCACCATGGTGTAACACTGGACGCAATGGCACAGTTGGAGGTGCAGCCGCACATTGGAAGCTCAGCTTTGTCAATGAGGgtaagagtagatgttggggactccatgatacccttactactaagctatca Alignment from Spaln_nt2Genome CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATG-ATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAG ataggactctcagtgcattaccctaacctaccccctcctccaatccttagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGCATGGCACTGCACCATGGTGTAACACTGGACG-CAATGGCACAGTTGGAGGTGCAGCCGCACATTGGAAGCTCAGCTTTGTCAATGAGGgtaagagtagatgttggggactccatgatacccttactactaagctatca Alignment from Pairagon CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATG-ATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAG ataggactctcagtgcattaccctaacctaccccctcctccaatccttagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGCATGGCACTGCACCATGGTGTAACACTGGACG-CAATGGCACAGTTGGAGGTGCAGCCGCACATTGGAAGCTCAGCTTTGTCAATGAGGgtaagagtagatgttggggactccatgatacccttactactaagctatca Alignment from Exonerate_protein2genome CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAG ataggactctcagtgcattaccctaacctaccccctcctccaatccttagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGCATGGCACTGCACCATGGTGTAACACTGGACGCAATGGCACAGTTGGAGGTGCAGCCGCACATTGGAAGCTCAGCTTTGTCAATGAGGgtaagagtagatgttggggactccatgatacccttactactaagctatca Alignment from Exonerate_coding2genome ataggactctcagtgcattaccctaacctaccccctcctccaatccttagccctttggttgccgctgctggttcagaaggatgcatggcactgcaccatggtgtaacactggacgcaatggcacagttggaggtgcagccgcacattggaagctcagctttgtcaatgagggtaagagtagatgttggggactccatgatacccttactactaagctatca Alignment from GeneWise CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAG ataggactctcagtgcattaccctaacctaccccctcctccaatccttagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGCATGGCACTGCACCATGGTGTAACACTGGACGCAATGGCACAGTTGGAGGTGCAGCCGCACATTGGAAGCTCAGCTTTGTCAATGAGGgtaagagtagatgttggggactccatgatacccttactactaagctatca #### Csf2ra_ID13438_2 --> 2 - 0 Original Alignment ctCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTC-GACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGC------ACCGTGACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTCG aggtcctccaccactcactaccaagacacatcttcactctgtatccacagccCCAACCACTCCGTATGTTGGCTCTGCTCTCAACCTGATCTTTCGACCCTTGGACCCGCATGCTGACCTGGG-TTGTGATACTGCTGCAGACAATGTCATGGTGATGTCATGCACTGTAACTGTTACATCATGGGAAGCATCAATACACCGGCGAGTGTCAgtaagtaggtaagatttgagcctatgcctaataatgccatgaggcccaat Alignment from CESAR ctCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTG-ACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTGACC------TCGCGGGAGGCGGGGATACACCGGCGAGTCTCG aggtcctccaccactcactaccaagacacatcttcactctgtatccacagccCCAACCACTCCGTATGTTGGCTCTGCTCTCAACCTGATCTTTCGACCCTTGGACCCGCATGCTGACCTGG-GTTGTGATACTGCTGCAGACAATGTCATGGTGATGTCATGCACTGTAACTGTTACATCATGGGAAGCATCAATACACCGGCGAGTGTCAgtaagtaggtaagatttgagcctatgcctaataatgccatgaggcccaat Alignment from Spaln_aa2Genome CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGC------ACCGTGACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTCG aggtcctccaccactcactaccaagacacatcttcactctgtatccacagCCCCAACCACTCCGTATGTTGGCTCTGCTCTCAACCTGATCTTTCGACCCTTGGACCCGCATGCTGACCTGGGTTGTGATACTGCTGCAGACAATGTCATGGTGATGTCATGCACTGTAACTGTTACATCATGGGAAGCATCAATACACCGGCGAGTGTCAgtaagtaggtaagatttgagcctatgcctaataatgccatgaggcccaat Alignment from Spaln_nt2Genome CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACC-TTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTGACC------TCGCGGGAGGCGGGGATACACCGGCGAGTCTCG aggtcctccaccactcactaccaagacacatcttcactctgtatccacagCCCCAACCACTCCGTATGTTGGCTCTGCTCTCAACCTGATCTTTCGACCCTTGGACCCGCATGCTGACCTGGG-TTGTGATACTGCTGCAGACAATGTCATGGTGATGTCATGCACTGTAACTGTTACATCATGGGAAGCATCAATACACCGGCGAGTGTCAgtaagtaggtaagatttgagcctatgcctaataatgccatgaggcccaat Alignment from Pairagon CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGA-CCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTGACC------TCGCGGGAGGCGGGGATACACCGGCGAGTCTCG aggtcctccaccactcactaccaagacacatcttcactctgtatccacagCCCCAACCACTCCGTATGTTGGCTCTGCTCTCAACCTGATCTTTCGACCCTTGGACCCGCATGCTGACCTGGG-TTGTGATACTGCTGCAGACAATGTCATGGTGATGTCATGCACTGTAACTGTTACATCATGGGAAGCATCAATACACCGGCGAGTGTCAgtaagtaggtaagatttgagcctatgcctaataatgccatgaggcccaat Alignment from Exonerate_protein2genome CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGC------ACCGTGACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTCG aggtcctccaccactcactaccaagacacatcttcactctgtatccacagCCCCAACCACTCCGTATGTTGGCTCTGCTCTCAACCTGATCTTTCGACCCTTGGACCCGCATGCTGACCTGGGTTGTGATACTGCTGCAGACAATGTCATGGTGATGTCATGCACTGTAACTGTTACATCATGGGAAGCATCAATACACCGGCGAGTGTCAgtaagtaggtaagatttgagcctatgcctaataatgccatgaggcccaat Alignment from Exonerate_coding2genome aggtcctccaccactcactaccaagacacatcttcactctgtatccacagccccaaccactccgtatgttggctctgctctcaacctgatctttcgacccttggacccgcatgctgacctgggttgtgatactgctgcagacaatgtcatggtgatgtcatgcactgtaactgttacatcatgggaagcatcaatacaccggcgagtgtcagtaagtaggtaagatttgagcctatgcctaataatgccatgaggcccaat Alignment from GeneWise CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTGACC------TCGCGGGAGGCGGGGATACACCGGCGAGTCTCG aggtcctccaccactcactaccaagacacatcttcactctgtatccacagCCCCAACCACTCCGTATGTTGGCTCTGCTCTCAACCTGATCTTTCGACCCTTGGACCCGCATGCTGACCTGGGTTGTGATACTGCTGCAGACAATGTCATGGTGATGTCATGCACTGTAACTGTTACATCATGGGAAGCATCAATACACCGGCGAGTGTCAgtaagtaggtaagatttgagcctatgcctaataatgccatgaggcccaat #### Ctsf_ID680_8 --> 0 - 1 Original Alignment GGC---ATGTGTGGCTCC-TGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGg cctcggagaaccccattagagaactctgacccttaatttgggggttctagAGCAGTATGTGCAGTTCCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGG-GGGCCAGTGG---TTGATCCGAGGAACTCTGCTTTCA---TCAGAACAGggtgagtatcctgatccattctgtgtttatcagacaaacccctccataggg Alignment from CESAR GGC---ATGTGTGGCTCC-TGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGg cctcggagaaccccattagagaactctgacccttaatttgggggttctagAGCAGTATGTGCAGTTCCCTGCTGGGCCTTCTCTGTCACTGGCAAT-GGGGGGGCCAGTGG---TTGATCCGAGGAACTCTGCTTTCA---TCAGAACAGggtgagtatcctgatccattctgtgtttatcagacaaacccctccataggg Alignment from Spaln_aa2Genome AACCAGGGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cctcggagaaccccattagagaactctgacccttaatttgggggttctagAGC---AGTATGTGCAGTTCCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGGGGCCAGTGGTTGATC---CGAGGAACTCTGCTTTCA---TCAGAACAGGgtgagtatcctgatccattctgtgtttatcagacaaacccctccataggg Alignment from Spaln_nt2Genome AACCAGGGCATGTGTGGCTCC-TGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cctcggagaaccccattagagaactctgacccttaatttgggggttctagAGC---AGTATGTGCAGTTCCCTGCTGGGCCTTCTCTGTCACTGGCAATG-GGGGGGCCAGTGGT---TGATCCGAGGAACTCTGCTTTC---ATCAGAACAGGgtgagtatcctgatccattctgtgtttatcagacaaacccctccataggg Alignment from Pairagon GCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cctcggagaaccccattagagaactctgacccttaatttgggggttctagagcagtatgtgcagTTCCCTGCTGGGCCTTCTCTGTCACTGGCAATG-GGGGGGCCAGTGGT---TGATCCGAGGAACTCTGCTTTC---ATCAGAACAGGgtgagtatcctgatccattctgtgtttatcagacaaacccctccataggg Alignment from Exonerate_protein2genome AACCAGGGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cctcggagaaccccattagagaactctgacccttaatttgggggttctagAGC---AGTATGTGCAGTTCCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGGGGCCAGTGGTTGATC---CGAGGAACTCTGCTTTCA---TCAGAACAGGgtgagtatcctgatccattctgtgtttatcagacaaacccctccataggg Alignment from Exonerate_coding2genome AACCAGGGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cctcggagaaccccattagagaactctgacccttaatttgggggttctagAGC---AGTATGTGCAGTTCCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGGGGCCAGTGGTTGATC---CGAGGAACTCTGCTTTCA---TCAGAACAGGgtgagtatcctgatccattctgtgtttatcagacaaacccctccataggg Alignment from GeneWise ---GGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCC------------------------------------------------------------ cctcggagaaccccattagagaactctgacccttaatttgggggttctagAGCAGTATGTGCAGTTCCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGGGGCCAGTGGTTGATC---CGAGGAACTCTGCTTTCATCAGAACAGGGTGAGTATCCTGATCCATTCTGTGTTTATCAGACAAACCCCTCCATAGGG #### Ctsf_ID681_9 --> 2 - 1 Original Alignment agCTCTTGGATTGTGACAAGGTGGAC-AAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGg tcagacaaacccctccatagggttcctttaactggccgtttctcatttagagCTCTCAGATTGTGGCAAAGAGGACCAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCT-TGCAGCCATAAAGAATCTGggtaaggtgtgctgaatccacctgtggatgatagtggctaccatgttattg Alignment from CESAR agCTCTTGGATTGTGACAAGGTGGAC-AAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGg tcagacaaacccctccatagggttcctttaactggccgtttctcatttagagCTCTCAGATTGTGGCAAAGAGGACCAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCC-TTGCAGCCATAAAGAATCTGggtaaggtgtgctgaatccacctgtggatgatagtggctaccatgttattg Alignment from Spaln_aa2Genome AGCTCTTGGATTGTGACAAGGTGGAC-AAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG tcagacaaacccctccatagggttcctttaactggccgtttctcatttagAGCTCTCAGATTGTGGCAAAGAGGACcAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTT-GCAGCCATAAAGAATCTGGgtaaggtgtgctgaatccacctgtggatgatagtggctaccatgttattg Alignment from Spaln_nt2Genome AGCTCTTGGATTGTGACAAGGTGGAC-AAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG tcagacaaacccctccatagggttcctttaactggccgtttctcatttagAGCTCTCAGATTGTGGCAAAGAGGACCAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCT-TGCAGCCATAAAGAATCTGGgtaaggtgtgctgaatccacctgtggatgatagtggctaccatgttattg Alignment from Pairagon AGCTCTTGGATTGTGACAAGGTGGA-CAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG tcagacaaacccctccatagggttcctttaactggccgtttctcatttagAGCTCTCAGATTGTGGCAAAGAGGACCAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCT-TGCAGCCATAAAGAATCTGGgtaaggtgtgctgaatccacctgtggatgatagtggctaccatgttattg Alignment from Exonerate_protein2genome AGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG tcagacaaacccctccatagggttcctttaactggccgtttctcatttagAGCTCTCAGATTGTGGCAAAGAGGACCAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTTGCAGCCATAAAGAATCTGGgtaaggtgtgctgaatccacctgtggatgatagtggctaccatgttattg Alignment from Exonerate_coding2genome AGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG tcagacaaacccctccatagggttcctttaactggccgtttctcatttagAGCTCTCAGATTGTGGCAAAGAGGACCAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTTGCAGCCATAAAGAATCTGGgtaaggtgtgctgaatccacctgtggatgatagtggctaccatgttattg Alignment from GeneWise AGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG tcagacaaacccctccatagggttcctttaactggccgtttctcatttagAGCTCTCAGATTGTGGCAAAGAGGACCAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTTGCAGCCATAAAGAATCTGGgtaaggtgtgctgaatccacctgtggatgatagtggctaccatgttattg #### Ctsf_ID682_10 --> 2 - 1 Original Alignment gaGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTC-TCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATa gcagggcatcaactgtagcaggtcgtcagctcacccctattccatcccaggaGGTCTGGAGACAGAAGATGACTATGGCTATCAGGGCCATGTTCAGACCTGTAACTTCCTCAGCACAGATGGCAAAAGTCTACATCAACGATTCAG-GGAGCTGAGTCAAAATGAAAATagtaagtgagggctaccctaggtgacttggggtaacacaactggcatgtcc Alignment from CESAR gaGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTC-TCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATa gcagggcatcaactgtagcaggtcgtcagctcacccctattccatcccaggaGGTCTGGAGACAGAAGATGACTATGGCTATCAGGGCCATGTTCAGACCTGTAACTTCCTCAGCACAGATGGCAAAAGTCTACATCAACGATTCA-GGGAGCTGAGTCAAAATGAAAATagtaagtgagggctaccctaggtgacttggggtaacacaactgggtccttt Alignment from Spaln_aa2Genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA gcagggcatcaactgtagcaggtcgtcagctcacccctattccatcccagGAGGTCTGGAGACAGAAGATGACTATGGCTATCAGGGCCATGTTCAGACCTGTAACTTCCTCAGCACAGATGGCAAAAGTCTACATCAACGATTCAGGGAGCTGAGTCAAAATGAAAATAgtaagtgagggctaccctaggtgacttggggtaacacaactggcatgtcc Alignment from Spaln_nt2Genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTT-CTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA gcagggcatcaactgtagcaggtcgtcagctcacccctattccatcccagGAGGTCTGGAGACAGAAGATGACTATGGCTATCAGGGCCATGTTCAGACCTGTAACTTCCTCAGCACAGATGGCAAAAGTCTACATCAACGATTCAG-GGAGCTGAGTCAAAATGAAAATAgtaagtgagggctaccctaggtgacttggggtaacacaactggcatgtcc Alignment from Pairagon GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTT-CTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA gcagggcatcaactgtagcaggtcgtcagctcacccctattccatcccagGAGGTCTGGAGACAGAAGATGACTATGGCTATCAGGGCCATGTTCAGACCTGTAACTTCCTCAGCACAGATGGCAAAAGTCTACATCAACGATTCAG-GGAGCTGAGTCAAAATGAAAATAgtaagtgagggctaccctaggtgacttggggtaacacaactggcatgtcc Alignment from Exonerate_protein2genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA gcagggcatcaactgtagcaggtcgtcagctcacccctattccatcccagGAGGTCTGGAGACAGAAGATGACTATGGCTATCAGGGCCATGTTCAGACCTGTAACTTCCTCAGCACAGATGGCAAAAGTCTACATCAACGATTCAGGGAGCTGAGTCAAAATGAAAATAgtaagtgagggctaccctaggtgacttggggtaacacaactggcatgtcc Alignment from Exonerate_coding2genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA gcagggcatcaactgtagcaggtcgtcagctcacccctattccatcccagGAGGTCTGGAGACAGAAGATGACTATGGCTATCAGGGCCATGTTCAGACCTGTAACTTCCTCAGCACAGATGGCAAAAGTCTACATCAACGATTCAGGGAGCTGAGTCAAAATGAAAATAgtaagtgagggctaccctaggtgacttggggtaacacaactggcatgtcc Alignment from GeneWise GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATAAGAT gcagggcatcaactgtagcaggtcgtcagctcacccctattccatcccagGAGGTCTGGAGACAGAAGATGACTATGGCTATCAGGGCCATGTTCAGACCTGTAACTTCCTCAGCACAGATGGCAAAAGTCTACATCAACGATTCAGGGAGCTGAGTCAAAATGAAAATAGTAAgtgagggctaccctaggtgacttggggtaacacaactggcatgtcc #### Ctsw_ID1019_7 --> 2 - 1 Original Alignment gtGGCCTGGCCAGTGAA-AAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGg tgtgcgcttggcatggaagtttcttgctaatattcttgttgcttttccaggtGGTCTGGCCACTGAACAAGGAATTTCCATTCCAGAGGGAAAGAAAGCCTCACAGATGCC-GGCTAAAAAGTATAAGGAAGTGGCATGGATTCCA------GCCACATTGTCTAATAATGAGCAGggtacaaccagggtaagatgggtgagctcatgtgacctgcatggcaatcaa Alignment from CESAR gtGGCCTGGCCAGTGAA-AAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGg tgtgcgcttggcatggaagtttcttgctaatattcttgttgcttttccaggtGGTCTGGCCACTGAACAAGGAATTTCCATTCCAGAGGGAAAGAAAGCCTCACAGATGC-CGGCTAAAAAGTATAAGGAAGTGGCATGGATTCCA------GCCACATTGTCTAATAATGAGCAGggtacaaccagggtaagatgggtgagctcatgtgacctgcatggcaatcaa Alignment from Spaln_aa2Genome GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG tgtgcgcttggcatggaagtttcttgctaatattcttgttgcttttccagGTGGTCTGGCCACTGAACAAGGAATTTCCATTCCAGAGGGAAAGAAAGCCTCACAGATGCCGGCTAAAAAGTATAAGGAAGTGGCATGGATTCCA------GCCACATTGTCTAATAATGAGCAGGgtacaaccagggtaagatgggtgagctcatgtgacctgcatggcaatcaa Alignment from Spaln_nt2Genome GTGGCCTGGCCAGTGAA-AAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG tgtgcgcttggcatggaagtttcttgctaatattcttgttgcttttccagGTGGTCTGGCCACTGAACAAGGAATTTCCATTCCAGAGGGAAAGAAAGCCTCACAGATGCC-GGCTAAAAAGTATAAGGAAGTGGCATGGATTCCAG------CCACATTGTCTAATAATGAGCAGGgtacaaccagggtaagatgggtgagctcatgtgacctgcatggcaatcaa Alignment from Pairagon GTGGCCTGGCCAGTGAA-AAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGA-TCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG tgtgcgcttggcatggaagtttcttgctaatattcttgttgcttttccagGTGGTCTGGCCACTGAACAAGGAATTTCCATTCCAGAGGGAAAGAAAGCCTCACAGATGCC-GGCTAAAAAGTATAAGGAAGTGGCATGGATTCCAG-------CCACATTGTCTAATAATGAGCAGGgtacaaccagggtaagatgggtgagctcatgtgacctgcatggcaatcaa Alignment from Exonerate_protein2genome GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG tgtgcgcttggcatggaagtttcttgctaatattcttgttgcttttccagGTGGTCTGGCCACTGAACAAGGAATTTCCATTCCAGAGGGAAAGAAAGCCTCACAGATGCCGGCTAAAAAGTATAAGGAAGTGGCATGGATTCCA------GCCACATTGTCTAATAATGAGCAGGgtacaaccagggtaagatgggtgagctcatgtgacctgcatggcaatcaa Alignment from Exonerate_coding2genome GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG tgtgcgcttggcatggaagtttcttgctaatattcttgttgcttttccagGTGGTCTGGCCACTGAACAAGGAATTTCCATTCCAGAGGGAAAGAAAGCCTCACAGATGCCGGCTAAAAAGTATAAGGAAGTGGCATGGATTCCA------GCCACATTGTCTAATAATGAGCAGGgtacaaccagggtaagatgggtgagctcatgtgacctgcatggcaatcaa Alignment from GeneWise GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG tgtgcgcttggcatggaagtttcttgctaatattcttgttgcttttccagGTGGTCTGGCCACTGAACAAGGAATTTCCATTCCAGAGGGAAAGAAAGCCTCACAGATGCCGGCTAAAAAGTATAAGGAAGTGGCATGGATTCCA------GCCACATTGTCTAATAATGAGCAGGgtacaaccagggtaagatgggtgagctcatgtgacctgcatggcaatcaa #### Ctsw_ID1022_4 --> 2 - 0 Original Alignment agGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAG-TCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accactcttttgccaccctgctgctacccctgctccttctcctctcccagagGAGGAGTTTGGGCAATTATATGGGCAA---AGATCACCAGAAAGGACCCCGAATATGACCAAAAGGGTGGAGCTCAAACACATGGGGGGAGTCTGTACCTCGAACCT-TGATTGGTGTAAAGCAAAGAACATTATCTCATCAATCAAGAATCAGgtaagtgccctagctcggtttgcacttatctaacccaaggacattcttat Alignment from CESAR agGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAG-TCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accactcttttgccaccctgctgctacccctgctccttctcctctcccagagGAGGAGTTTGGGCAATTATATGGGCAA---AGATCACCAGAAAGGACCCCGAATATGACCAAAAGGGTGGAGCTCAAACACATGGGGGGAGTCTGTACCTCGAACC-TTGATTGGTGTAAAGCAAAGAACATTATCTCATCAATCAAGAATCAGgtaagtgccctagctcggtttgcacttatctaacccaaggacagaatctc Alignment from Spaln_aa2Genome AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAGGGAAGCTGC-------- accactcttttgccaccctgctgctacccctgctccttctcctctcccagAGGAGGAGTTTGGGCAATTATATGGGCAA---AGATCACCAGAAAGGACCCCGAATATGACCAAAAGGGTGGAGCTCAAACACATGGGGGGAGTCTGTACCTCGAACCTTGATTGGTGTAAAGCAAAGAACATTATCTCATCAATCAAGAATCAGGTAAGTGCCCTAGCTCGgtttgcacttatctaacccaaggacattcttat Alignment from Spaln_nt2Genome AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAG-TCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accactcttttgccaccctgctgctacccctgctccttctcctctcccagAGGAGGAGTTTGGGCAATTATATGGGC---AAAGATCACCAGAAAGGACCCCGAATATGACCAAAAGGGTGGAGCTCAAACACATGGGGGGAGTCTGTACCTCGAACCT-TGATTGGTGTAAAGCAAAGAACATTATCTCATCAATCAAGAATCAGgtaagtgccctagctcggtttgcacttatctaacccaaggacattcttat Alignment from Pairagon AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAG-TCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accactcttttgccaccctgctgctacccctgctccttctcctctcccagAGGAGGAGTTTGGGCAATTATATGGGC---AAAGATCACCAGAAAGGACCCCGAATATGACCAAAAGGGTGGAGCTCAAACACATGGGGGGAGTCTGTACCTCGAACCT-TGATTGGTGTAAAGCAAAGAACATTATCTCATCAATCAAGAATCAGgtaagtgccctagctcggtttgcacttatctaacccaaggacattcttat Alignment from Exonerate_protein2genome AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accactcttttgccaccctgctgctacccctgctccttctcctctcccagAGGAGGAGTTTGGGCAATTATATGGGCAA---AGATCACCAGAAAGGACCCCGAATATGACCAAAAGGGTGGAGCTCAAACACATGGGGGGAGTCTGTACCTCGAACCTTGATTGGTGTAAAGCAAAGAACATTATCTCATCAATCAAGAATCAGgtaagtgccctagctcggtttgcacttatctaacccaaggacattcttat Alignment from Exonerate_coding2genome AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accactcttttgccaccctgctgctacccctgctccttctcctctcccagAGGAGGAGTTTGGGCAATTATATGGGCAA---AGATCACCAGAAAGGACCCCGAATATGACCAAAAGGGTGGAGCTCAAACACATGGGGGGAGTCTGTACCTCGAACCTTGATTGGTGTAAAGCAAAGAACATTATCTCATCAATCAAGAATCAGgtaagtgccctagctcggtttgcacttatctaacccaaggacattcttat Alignment from GeneWise AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAGGGAAGC---------TG accactcttttgccaccctgctgctacccctgctccttctcctctcccagAGGAGGAGTTTGGGCAATTATATGGGCAA---AGATCACCAGAAAGGACCCCGAATATGACCAAAAGGGTGGAGCTCAAACACATGGGGGGAGTCTGTACCTCGAACCTTGATTGGTGTAAAGCAAAGAACATTATCTCATCAATCAAGAATCAGGTAAGTGCCCTAGCTCGgtttgcacttatctaacccaaggacattcttat #### Cyp17a1_ID9993_7 --> 1 - 1 Original Alignment cATTGGAGAGTTTGCCATCCCG-AAGGACACACATGTGATCATCAATCTCTGGGCACTGCATCACGATAAAAATGAATGGGACCAGCCAGATCGGTTTATGCCTg ggactctctttggctaaattaactatttttccctctttcccccactgcagtATTGGAGAGTATGCCATCCTACAAAGATACTCATGTAATCATCAACCTGTGGG-ACTGCATCATGACAAAAATGAA---TATCAGGCAGATCAGTTCATGCCTggtaggaccctgtccactccatgcttactcctgtaccatctagtttctcat Alignment from CESAR cATTGGAGAGTTTGCCATCCCG-AAGGACACACATGTGATCATCAATCTCTGGGCACTGCATCACGATAAAAATGAATGGGACCAGCCAGATCGGTTTATGCCTg ggactctctttggctaaattaactatttttccctctttcccccactgcagtATTGGAGAGTATGCCATCCTACAAAGATACTCATGTAATCATCAACCTGTGG-GACTGCATCATGACAAAAATGAATAT---CAGGCAGATCAGTTCATGCCTggtaggaccctgtccactccatgcttactcctgtaccatctagtttctcat Alignment from Spaln_aa2Genome CATTGGAGAGTTTGCCATCCCG-AAGGACACACATGTGATCATCAATCTCTGGGCACTGCATCACGATAAAAATGAATGGGACCAGCCAGATCGGTTTATGCCTG ggactctctttggctaaattaactatttttccctctttcccccactgcagTATTGGAGAGTATGCCATCCTAcAAAGATACTCATGTAATCATCAACCTGTGGGA-CTGCATCATGACAAAAATGAATAT---CAGGCAGATCAGTTCATGCCTGgtaggaccctgtccactccatgcttactcctgtaccatctagtttctcat Alignment from Spaln_nt2Genome CATTGGAGAGTTTGCCATCCCG-AAGGACACACATGTGATCATCAATCTCTGGGCACTGCATCACGATAAAAATGAATGGGACCAGCCAGATCGGTTTATGCCTG ggactctctttggctaaattaactatttttccctctttcccccactgcagTATTGGAGAGTATGCCATCCTACAAAGATACTCATGTAATCATCAACCTGTGGG-ACTGCATCATGACAAAAATGAAT---ATCAGGCAGATCAGTTCATGCCTGgtaggaccctgtccactccatgcttactcctgtaccatctagtttctcat Alignment from Pairagon CATTGGAGAGTTTGCCATCCCG-AAGGACACACATGTGATCATCAATCTCTGGGCACTGCATCACGATAAAAATGAATGGGACCAGCCAGATCGGTTTATGCCTG ggactctctttggctaaattaactatttttccctctttcccccactgcagTATTGGAGAGTATGCCATCCTACAAAGATACTCATGTAATCATCAACCTGTGGG-ACTGCATCATGACAAAAATGAAT---ATCAGGCAGATCAGTTCATGCCTGgtaggaccctgtccactccatgcttactcctgtaccatctagtttctcat Alignment from Exonerate_protein2genome CATTGGAGAGTTTGCCATCCCGAAGGACACACATGTGATCATCAATCTCTGGGCACTGCATCACGATAAAAATGAATGGGACCAGCCAGATCGGTTTATGCCTG ggactctctttggctaaattaactatttttccctctttcccccactgcagTATTGGAGAGTATGCCATCCTACAAAGATACTCATGTAATCATCAACCTGTGGGACTGCATCATGACAAAAATGAATAT---CAGGCAGATCAGTTCATGCCTGgtaggaccctgtccactccatgcttactcctgtaccatctagtttctcat Alignment from Exonerate_coding2genome ggactctctttggctaaattaactatttttccctctttcccccactgcagtattggagagtatgccatcctacaaagatactcatgtaatcatcaacctgtgggactgcatcatgacaaaaatgaatatcaggcagatcagttcatgcctggtaggaccctgtccactccatgcttactcctgtaccatctagtttctcat Alignment from GeneWise CATTGGAGAGTTTGCCATCCCGAAGGACACACATGTGATCATCAATCTCTGGGCACTGCATCACGATAAAAATGAATGGGACCAGCCAGATCGGTTTATGCCTG ggactctctttggctaaattaactatttttccctctttcccccactgcagTATTGGAGAGTATGCCATCCTACAAAGATACTCATGTAATCATCAACCTGTGGGACTGCATCATGACAAAAATGAATAT---CAGGCAGATCAGTTCATGCCTGgtaggaccctgtccactccatgcttactcctgtaccatctagtttctcat #### Cyp17a1_ID9994_6 --> 0 - 2 Original Alignment GTGAAGAGGAAGATCCAAAAGGAGATTGACCAGTATGTAGGCTTCAGTCGAACACCGTCTTTCAATGACCGGACTCACCTCCTCATGCTGGAGGCCACTATCCGA-GAAGTGCTTCGTATCAGGCCGGTGGCCCCCTTGCTCATCCCACACAAGGCTAACATTGACTCCag attcctttgttcctcttgcaaatatgtatcatctccttttcccctcccagGTGCGGAGGAAGATCAAAAAGGAGATTGACCAGTATGTAGGTTTCAGACAAACTCCATCTTTCAATGACCGAACACACCTTCTCACACTGGAGGCCACAATGCGGCGAGGTTCTTCGTATCAGGCCAGTGGCCCCCCTGCTCATTCCCC-CAAAGCTAATATTGACTCCaggtgagtccttcttgctgaattatctacttaggtttcagccaatcggtttc Alignment from CESAR GTGAAGAGGAAGATCCAAAAGGAGATTGACCAGTATGTAGGCTTCAGTCGAACACCGTCTTTCAATGACCGGACTCACCTCCTCATGCTGGAGGCCACTATCCGA-GAAGTGCTTCGTATCAGGCCGGTGGCCCCCTTGCTCATCCCACACAAGGCTAACATTGACTCCag attcctttgttcctcttgcaaatatgtatcatctccttttcccctcccagGTGCGGAGGAAGATCAAAAAGGAGATTGACCAGTATGTAGGTTTCAGACAAACTCCATCTTTCAATGACCGAACACACCTTCTCACACTGGAGGCCACAATGCGGCGAGGTTCTTCGTATCAGGCCAGTGGCCCCCCTGCTCATTCCC-CCAAAGCTAATATTGACTCCaggtgagtccttcttgctgaattatctacttaggtttcagccaatcggtttc Alignment from Spaln_aa2Genome GTGAAGAGGAAGATCCAAAAGGAGATTGACCAGTATGTAGGCTTCAGTCGAACACCGTCTTTCAATGACCGGACTCACCTCCTCATGCTGGAGGCCACTATCCGA-GAAGTGCTTCGTATCAGGCCGGTGGCCCCCTTGCTCATCCCACACAAGGCTAACATTGACTCCAG attcctttgttcctcttgcaaatatgtatcatctccttttcccctcccagGTGCGGAGGAAGATCAAAAAGGAGATTGACCAGTATGTAGGTTTCAGACAAACTCCATCTTTCAATGACCGAACACACCTTCTCACACTGGAGGCCACAATGCGGcGAGGTTCTTCGTATCAGGCCAGTGGCCCCCCTGCTCATTCCCCC-AAAGCTAATATTGACTCCAGgtgagtccttcttgctgaattatctacttaggtttcagccaatcggtttc Alignment from Spaln_nt2Genome GTGAAGAGGAAGATCCAAAAGGAGATTGACCAGTATGTAGGCTTCAGTCGAACACCGTCTTTCAATGACCGGACTCACCTCCTCATGCTGGAGGCCACTATCCGA-GAAGTGCTTCGTATCAGGCCGGTGGCCCCCTTGCTCATCCCACACAAGGCTAACATTGACTCCAG attcctttgttcctcttgcaaatatgtatcatctccttttcccctcccagGTGCGGAGGAAGATCAAAAAGGAGATTGACCAGTATGTAGGTTTCAGACAAACTCCATCTTTCAATGACCGAACACACCTTCTCACACTGGAGGCCACAATGCGGCGAGGTTCTTCGTATCAGGCCAGTGGCCCCCCTGCTCATTCC-CCCAAAGCTAATATTGACTCCAGgtgagtccttcttgctgaattatctacttaggtttcagccaatcggtttc Alignment from Pairagon GTGAAGAGGAAGATCCAAAAGGAGATTGACCAGTATGTAGGCTTCAGTCGAACACCGTCTTTCAATGACCGGACTCACCTCCTCATGCTGGAGGCCACTATCCGA-GAAGTGCTTCGTATCAGGCCGGTGGCCCCCTTGCTCATCCCACACAAGGCTAACATTGACTCCAG attcctttgttcctcttgcaaatatgtatcatctccttttcccctcccagGTGCGGAGGAAGATCAAAAAGGAGATTGACCAGTATGTAGGTTTCAGACAAACTCCATCTTTCAATGACCGAACACACCTTCTCACACTGGAGGCCACAATGCGGCGAGGTTCTTCGTATCAGGCCAGTGGCCCCCCTGCTCATTCC-CCCAAAGCTAATATTGACTCCAGgtgagtccttcttgctgaattatctacttaggtttcagccaatcggtttc Alignment from Exonerate_protein2genome GTGAAGAGGAAGATCCAAAAGGAGATTGACCAGTATGTAGGCTTCAGTCGAACACCGTCTTTCAATGACCGGACTCACCTCCTCATGCTGGAGGCCACTATCCGA-GAAGTGCTTCGTATCAGGCCGGTGGCCCCCTTGCTCATCCCACACAAGGCTAACATTGACTCCA attcctttgttcctcttgcaaatatgtatcatctccttttcccctcccagGTGCGGAGGAAGATCAAAAAGGAGATTGACCAGTATGTAGGTTTCAGACAAACTCCATCTTTCAATGACCGAACACACCTTCTCACACTGGAGGCCACAATGCGGCGAGGTTCTTCGTATCAGGCCAGTGGCCCCCCTGCTCATTCCCCCAAAGCTAATATTGACTCCAGgtgagtccttcttgctgaattatctacttaggtttcagccaatcggtttc Alignment from Exonerate_coding2genome GTGAAGAGGAAGATCCAAAAGGAGATTGACCAGTATGTAGGCTTCAGTCGAACACCGTCTTTCAATGACCGGACTCACCTCCTCATGCTGGAGGCCACTATCCGA-GAAGTGCTTCGTATCAGGCCGGTGGCCCCCTTGCTCATCCCACACAAGGCTAACATTGACTCCA attcctttgttcctcttgcaaatatgtatcatctccttttcccctcccagGTGCGGAGGAAGATCAAAAAGGAGATTGACCAGTATGTAGGTTTCAGACAAACTCCATCTTTCAATGACCGAACACACCTTCTCACACTGGAGGCCACAATGCGGCGAGGTTCTTCGTATCAGGCCAGTGGCCCCCCTGCTCATTCCCCCAAAGCTAATATTGACTCCAGgtgagtccttcttgctgaattatctacttaggtttcagccaatcggtttc Alignment from GeneWise GTGAAGAGGAAGATCCAAAAGGAGATTGACCAGTATGTAGGCTTCAGTCGAACACCGTCTTTCAATGACCGGACTCACCTCCTCATGCTGGAGGCCACTATCCGA-GAAGTGCTTCGTATCAGGCCGGTGGCCCCCTTGCTCATCCCACACAAGGCTAACATTGACTCCAGC-- attcctttgttcctcttgcaaatatgtatcatctccttttcccctcccagGTGCGGAGGAAGATCAAAAAGGAGATTGACCAGTATGTAGGTTTCAGACAAACTCCATCTTTCAATGACCGAACACACCTTCTCACACTGGAGGCCACAATGCGGCGAGGTTCTTCGTATCAGGCCAGTGGCCCCCCTGCTCATTCCCCCAAAGCTAATATTGACTCCAGGTGAgtccttcttgctgaattatctacttaggtttcagccaatcggtttc #### Cyp17a1_ID9995_5 --> 0 - 0 Original Alignment GAGAAATTCAATAGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAG-CATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG ataataggtgagcagacatataacaatctctcttgctcctcccttcacagGAGAAATTCAACAGTGAGTCCCTTTCCAGCCTGACAGACATTCTTATACAGGCCAAAATGAATGCAGAAAATAATAACACAGGAGAAGGTCAAGACCCAAGTGTGTTCTCTGATAAGCCATGTCCTTGTCAGGGTTGGAGACATCTTG------G-CGTAGAAACAACTAGTTCTGTGCTGAATTGGCTACTGATGTTTTTAGTTCATAACCCTCAGgtccgtatgtgtcttaaccaccggaaaggccatgcctgtgaccatagtca Alignment from CESAR GAGAAATTCAATAGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAG-CATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG ataataggtgagcagacatataacaatctctcttgctcctcccttcacagGAGAAATTCAACAGTGAGTCCCTTTCCAGCCTGACAGACATTCTTATACAGGCCAAAATGAATGCAGAAAATAATAACACAGGAGAAGGTCAAGACCCAAGTGTGTTCTCTGATAAGCCATGTCCTTGTCAGGGTTGGAGACA-TCTT------GGCGTAGAAACAACTAGTTCTGTGCTGAATTGGCTACTGATGTTTTTAGTTCATAACCCTCAGgtccgtatgtgtcttaaccaccggaaaggccatgcctgtgaccatagtca Alignment from Spaln_aa2Genome GAGAAATTCAATAGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG ataataggtgagcagacatataacaatctctcttgctcctcccttcacagGAGAAATTCAACAGTGAGTCCCTTTCCAGCCTGACAGACATTCTTATACAGGCCAAAATGAATGCAGAAAATAATAACACAGGAGAAGGTCAAGACCCAAGTGTGTTCTCTGATAAGCCATGTCCTTGTCAGGGTTGGAGACATCTT------GGCGTAGAAACAACTAGTTCTGTGCTGAATTGGCTACTGATGTTTTTAGTTCATAACCCTCAGgtccgtatgtgtcttaaccaccggaaaggccatgcctgtgaccatagtca Alignment from Spaln_nt2Genome GAGAAATTCAATAGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAG-CATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG ataataggtgagcagacatataacaatctctcttgctcctcccttcacagGAGAAATTCAACAGTGAGTCCCTTTCCAGCCTGACAGACATTCTTATACAGGCCAAAATGAATGCAGAAAATAATAACACAGGAGAAGGTCAAGACCCAAGTGTGTTCTCTGATAAGCCATGTCCTTGTCAGGGTTGGAGACATCTTGGC-------GTAGAAACAACTAGTTCTGTGCTGAATTGGCTACTGATGTTTTTAGTTCATAACCCTCAGgtccgtatgtgtcttaaccaccggaaaggccatgcctgtgaccatagtca Alignment from Pairagon GAGAAATTCAATAGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAG-CATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG ataataggtgagcagacatataacaatctctcttgctcctcccttcacagGAGAAATTCAACAGTGAGTCCCTTTCCAGCCTGACAGACATTCTTATACAGGCCAAAATGAATGCAGAAAATAATAACACAGGAGAAGGTCAAGACCCAAGTGTGTTCTCTGATAAGCCATGTCCTTGTCAGGGTTGGAGACATCTT-------GGCGTAGAAACAACTAGTTCTGTGCTGAATTGGCTACTGATGTTTTTAGTTCATAACCCTCAGgtccgtatgtgtcttaaccaccggaaaggccatgcctgtgaccatagtca Alignment from Exonerate_protein2genome GAGAAATTCAATAGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG ataataggtgagcagacatataacaatctctcttgctcctcccttcacagGAGAAATTCAACAGTGAGTCCCTTTCCAGCCTGACAGACATTCTTATACAGGCCAAAATGAATGCAGAAAATAATAACACAGGAGAAGGTCAAGACCCAAGTGTGTTCTCTGATAAGCCA------TGTCCTTGTCAGGGTTGGAGACATCTTGGCGTAGAAACAACTAGTTCTGTGCTGAATTGGCTACTGATGTTTTTAGTTCATAACCCTCAGgtccgtatgtgtcttaaccaccggaaaggccatgcctgtgaccatagtca Alignment from Exonerate_coding2genome GAGAAATTCAATAGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG ataataggtgagcagacatataacaatctctcttgctcctcccttcacagGAGAAATTCAACAGTGAGTCCCTTTCCAGCCTGACAGACATTCTTATACAGGCCAAAATGAATGCAGAAAATAATAACACAGGAGAAGGTCAAGACCCAAGTGTGTTCTCTGATAAGCCA------TGTCCTTGTCAGGGTTGGAGACATCTTGGCGTAGAAACAACTAGTTCTGTGCTGAATTGGCTACTGATGTTTTTAGTTCATAACCCTCAGgtccgtatgtgtcttaaccaccggaaaggccatgcctgtgaccatagtca Alignment from GeneWise GAGAAATTCAATAGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG ataataggtgagcagacatataacaatctctcttgctcctcccttcacagGAGAAATTCAACAGTGAGTCCCTTTCCAGCCTGACAGACATTCTTATACAGGCCAAAATGAATGCAGAAAATAATAACACAGGAGAAGGTCAAGACCCAAGTGTGTTCTCTGATAAGCCATGTCCTTGTCAGGGTTGGAGACATCTTGGC------GTAGAAACAACTAGTTCTGTGCTGAATTGGCTACTGATGTTTTTAGTTCATAACCCTCAGgtccgtatgtgtcttaaccaccggaaaggccatgcctgtgaccatagtca #### Cyp26a1_ID7415_3 --> 0 - 0 Original Alignment GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATG-TTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACC tcgagcacaaatataggccaataaacagtttctcctcacttttctcccagGTTATAATGCAGGCATTCAGCAGGGAAGCACTCCAGTGTTATGTCCCTGTTATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGGTGAACATGGCCTCCTGGCCTACCCTGAGGTGAAGCGCCTCATGCTTCCACATTGCCATGCGAATCTTGCTAGGCTGTCAGCAAG-CTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCGTTTGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGCGGTCTGTACCGTgtattacatccagtgtctttgtattccctagGGTGTT---ACTCGTAATA Alignment from CESAR GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATG-TTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACC tcgagcacaaatataggccaataaacagtttctcctcacttttctcccagGTTATAATGCAGGCATTCAGCAGGGAAGCACTCCAGTGTTATGTCCCTGTTATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGGTGAACATGGCCTCCTGGCCTACCCTGAGGTGAAGCGCCTCATGCTTCCACATTGCCATGCGAATCTTGCTAGGCTGTCAG-CAAGCTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCGTTTGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGCGGTCTGTACCGTgtattacataaaggatgatgtcttcttctagGGTGTT---ACTCGTAATA Alignment from Spaln_aa2Genome GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACC tcgagcacaaatataggccaataaacagtttctcctcacttttctcccagGTTATAATGCAGGCATTCAGCAGGGAAGCACTCCAGTGTTATGTCCCTGTTATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGGTGAACATGGCCTCCTGGCCTACCCTGAGGTGAAGCGCCTCATGCTTCCACATTGCCATGCGAATCTTGCTAGGCTGTCAGCAAGCTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCGTTTGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGCGGTCTGTACCGTgtattacatccagtgtctttgtattccctagGGTGTT---ACTCGTAATA Alignment from Spaln_nt2Genome GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATG-TTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG-------------------------------GGCGTGAAGGCGCGGAACC tcgagcacaaatataggccaataaacagtttctcctcacttttctcccagGTTATAATGCAGGCATTCAGCAGGGAAGCACTCCAGTGTTATGTCCCTGTTATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGGTGAACATGGCCTCCTGGCCTACCCTGAGGTGAAGCGCCTCATGCTTCCACATTGCCATGCGAATCTTGCTAGGCTGTCAGCAAGCT-CAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCGTTTGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGCGGTCTGTACCGTGTATTACATCCAGTGTCTTTGTATTCCCTAGGGTGTTA---CTCGTAATA Alignment from Pairagon GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATG-TTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGGGGCGTGAAGGCGCGGAACCTT-------------------------------------------------A tcgagcacaaatataggccaataaacagtttctcctcacttttctcccagGTTATAATGCAGGCATTCAGCAGGGAAGCACTCCAGTGTTATGTCCCTGTTATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGGTGAACATGGCCTCCTGGCCTACCCTGAGGTGAAGCGCCTCATGCTTCCACATTGCCATGCGAATCTTGCTAGGCTGTCAGCAAGCT-CAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCGTTTGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGCGGTCTGTACCG---------------------TGTATTACATCCAGTGTCTTTGTATTCCCTAGGGTGTTACTCGTAATATAA Alignment from Exonerate_protein2genome GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACC tcgagcacaaatataggccaataaacagtttctcctcacttttctcccagGTTATAATGCAGGCATTCAGCAGGGAAGCACTCCAGTGTTATGTCCCTGTTATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGGTGAACATGGCCTCCTGGCCTACCCTGAGGTGAAGCGCCTCATGCTTCCACATTGCCATGCGAATCTTGCTAGGCTGTCAGCAAGCTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCGTTTGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGCGGTCTGTACCGTgtattacatccagtgtctttgtattccctagGGTGTT---ACTCGTAATA Alignment from Exonerate_coding2genome GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACC tcgagcacaaatataggccaataaacagtttctcctcacttttctcccagGTTATAATGCAGGCATTCAGCAGGGAAGCACTCCAGTGTTATGTCCCTGTTATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGGTGAACATGGCCTCCTGGCCTACCCTGAGGTGAAGCGCCTCATGCTTCCACATTGCCATGCGAATCTTGCTAGGCTGTCAGCAAGCTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCGTTTGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGCGGTCTGTACCGTgtattacatccagtgtctttgtattccctagGGTGTT---ACTCGTAATA Alignment from GeneWise GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACC tcgagcacaaatataggccaataaacagtttctcctcacttttctcccagGTTATAATGCAGGCATTCAGCAGGGAAGCACTCCAGTGTTATGTCCCTGTTATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGGTGAACATGGCCTCCTGGCCTACCCTGAGGTGAAGCGCCTCATGCTTCCACATTGCCATGCGAATCTTGCTAGGCTGTCAGCAAGCTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCGTTTGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGCGGTCTGTACCGTgtattacatccagtgtctttgtattccctagGGTGTT---ACTCGTAATA #### Cyp26a1_ID7416_4 --> 0 - 0 Original Alignment CTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAG-AACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG ATTCAGCGGTCTGTACCGTgtgagacataaaggatgatgtcttcttctagGGTGTT---ACTCGTAATATAATACAGGCATGCATTGAGGAGCAACATTCATGCAAATATCCACCAGCTCCAGG-CACAGAACCAGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATCAAGCACTCATGGGAG---GGTGAAGAATTAGACATACAGgtgaggaacaatttcaaaaggtaccaaagggcagctgagtgtattcccaa Alignment from CESAR CTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAG-AACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG ATTCAGCGGTCTGTACCGTgtattacataaaggatgatgtcttcttctagGGTGTT---ACTCGTAATATAATACAGGCATGCATTGAGGAGCAACATTCATGCAAATATCCACCAGCTCCAGG-CACAGAACCAGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATCAAGCACTCATGGGAG---GGTGAAGAATTAGACATACAGgtgaggaacaatttcaaaaggtaccaaagggcagctgagtgtattcccaa Alignment from Spaln_aa2Genome CTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG ATTCAGCGGTCTGTACCGTgtgagacataaaggatgatgtcttcttctagGGTGTT---ACTCGTAATATAATACAGGCATGCATTGAGGAGCAACATTCATGCAAATATCCACCAGCTCCAGGCACAGAACCAGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATCAAGCACTCATGGGAG---GGTGAAGAATTAGACATACAGgtgaggaacaatttcaaaaggtaccaaagggcagctgagtgtattcccaa Alignment from Spaln_nt2Genome CTTTAGCGGCCTGTACCGG-------------------------------GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAG-AACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG ATTCAGCGGTCTGTACCGTGTGAGACATAAAGGATGATGTCTTCTTCTAGGGTGTTA---CTCGTAATATAATACAGGCATGCATTGAGGAGCAACATTCATGCAAATATCCACCAGCTCCAGGC-ACAGAACCAGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATCAAGCACTCATGGGAGGGTGAAGA---ATTAGACATACAGgtgaggaacaatttcaaaaggtaccaaagggcagctgagtgtattcccaa Alignment from Pairagon CGTGAAGGCGCGGAACCTT-------------------------------------------------ATACACGCGCGCATCGAGGAG-AACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG ------------------TGTGAGACATAAAGGATGATGTCTTCTTCTAGGGTGTTACTCGTAATATAATACAGGCATGCATTGAGGAGCAACATTCATGCAAATATCCACCAGCTCCAGGC-ACAGAACCAGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATCAAGCACTCATGGGAG-----------------------Ggtgaagaattagacatacaggtgaggaacaatttcaaaaggtaccaaagggcagctgagtgtattcccaa Alignment from Exonerate_protein2genome CTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG ATTCAGCGGTCTGTACCGTgtgagacataaaggatgatgtcttcttctagGGTGTT---ACTCGTAATATAATACAGGCATGCATTGAGGAGCAACATTCATGCAAATATCCACCAGCTCCAGGCACAGAACCAGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATCAAGCACTCATGGGAG---GGTGAAGAATTAGACATACAGgtgaggaacaatttcaaaaggtaccaaagggcagctgagtgtattcccaa Alignment from Exonerate_coding2genome CTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG ATTCAGCGGTCTGTACCGTgtgagacataaaggatgatgtcttcttctagGGTGTT---ACTCGTAATATAATACAGGCATGCATTGAGGAGCAACATTCATGCAAATATCCACCAGCTCCAGGCACAGAACCAGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATCAAGCACTCATGGGAG---GGTGAAGAATTAGACATACAGgtgaggaacaatttcaaaaggtaccaaagggcagctgagtgtattcccaa Alignment from GeneWise CTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG ATTCAGCGGTCTGTACCGTgtgagacataaaggatgatgtcttcttctagGGTGTT---ACTCGTAATATAATACAGGCATGCATTGAGGAGCAACATTCATGCAAATATCCACCAGCTCCAGGCACAGAACCAGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATCAAGCACTCATGGGAG---GGTGAAGAATTAGACATACAGgtgaggaacaatttcaaaaggtaccaaagggcagctgagtgtattcccaa #### Cyp2c50_ID7862_3 --> 2 - 1 Original Alignment gcATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTC-ACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg agtgaaagaatgtgtgagtccatcccaggtggcttttttctttgtcttagggATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTCACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCA-TGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCCTGTTGAGGAACTTAAGAAGACCAATggtgcgtcaaagtgcagacccagaacctagtgtgattttaatcaagttttt Alignment from CESAR gcATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTC-ACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg agtgaaagaatgtgtgagtccatcccaggtggcttttttctttgtcttagggATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTCACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCA-TGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCCTGTTGAGGAACTTAAGAAGACCAATggtgcgtcaaagtgcagacccagaacctagtgtgattttaatcaagttttt Alignment from Spaln_aa2Genome GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG agtgaaagaatgtgtgagtccatcccaggtggcttttttctttgtcttagGGATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTCACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCCTGTTGAGGAACTTAAGAAGACCAATGgtgcgtcaaagtgcagacccagaacctagtgtgattttaatcaagttttt Alignment from Spaln_nt2Genome GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCAC-TCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG agtgaaagaatgtgtgagtccatcccaggtggcttttttctttgtcttagGGATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTCACAACTCTGCGAAATTTAGGCAT-GGGAAAAAGAAGCATGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCCTGTTGAGGAACTTAAGAAGACCAATGgtgcgtcaaagtgcagacccagaacctagtgtgattttaatcaagttttt Alignment from Pairagon GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCAC-TCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG agtgaaagaatgtgtgagtccatcccaggtggcttttttctttgtcttagGGATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTCACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCA-TGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCCTGTTGAGGAACTTAAGAAGACCAATGgtgcgtcaaagtgcagacccagaacctagtgtgattttaatcaagttttt Alignment from Exonerate_protein2genome GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG agtgaaagaatgtgtgagtccatcccaggtggcttttttctttgtcttagGGATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTCACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCCTGTTGAGGAACTTAAGAAGACCAATGgtgcgtcaaagtgcagacccagaacctagtgtgattttaatcaagttttt Alignment from Exonerate_coding2genome GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG agtgaaagaatgtgtgagtccatcccaggtggcttttttctttgtcttagGGATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTCACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCCTGTTGAGGAACTTAAGAAGACCAATGgtgcgtcaaagtgcagacccagaacctagtgtgattttaatcaagttttt Alignment from GeneWise GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG agtgaaagaatgtgtgagtccatcccaggtggcttttttctttgtcttagGGATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTCACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCCTGTTGAGGAACTTAAGAAGACCAATGgtgcgtcaaagtgcagacccagaacctagtgtgattttaatcaagttttt #### Cyp2c54_ID7855_3 --> 2 - 1 Original Alignment gcATTGGATTTAGTAATGGAAGTGTATGGAAAAACACG-AGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg ctgctgtagcaccaaggttgttcatgtatctccttctgtgccccgaacaggcATTGGATTTAGCAATGGAACTGTATGGAAGAACACACAGGCACTTCTCACTCATGACATTGCGGAATTTAGGTATGGGAA-AAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGACTAATggtacaaaaaaaaaaagggaggtagccaactgggtcttgcaaatcctgtct Alignment from CESAR gcATTGGATTTAGTAATGGAAGTGTATGGAAAAACACG-AGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg ctgctgtagcaccaaggttgttcatgtatctccttctgtgccccgaacaggcATTGGATTTAGCAATGGAACTGTATGGAAGAACACACAGGCACTTCTCACTCATGACATTGCGGAATTTAGGTATGGGAA-AAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGACTAATggtacaaaaaaaaaaagggaggtagccaactgggtcttgcaaatcctgtct Alignment from Spaln_aa2Genome GCATTGGATTTAGTAATGGAAGTGTATGGAAAAACACG-AGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgtagcaccaaggttgttcatgtatctccttctgtgccccgaacagGCATTGGATTTAGCAATGGAACTGTATGGAAGAACACAcAGGCACTTCTCACTCATGACATTGCGGAATTTAGGTATGGGAAA-AGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGACTAATGgtacaaaaaaaaaaagggaggtagccaactgggtcttgcaaatcctgtct Alignment from Spaln_nt2Genome GCATTGGATTTAGTAATGGAAGTGTATGGAAAAACACG-AGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgtagcaccaaggttgttcatgtatctccttctgtgccccgaacagGCATTGGATTTAGCAATGGAACTGTATGGAAGAACACACAGGCACTTCTCACTCATGACATTGCGGAATTTAGGTATGGG-AAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGACTAATGgtacaaaaaaaaaaagggaggtagccaactgggtcttgcaaatcctgtct Alignment from Pairagon GCATTGGATTTAGTAATGGAAGTGTATGGAAAAACACG-AGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgtagcaccaaggttgttcatgtatctccttctgtgccccgaacagGCATTGGATTTAGCAATGGAACTGTATGGAAGAACACACAGGCACTTCTCACTCATGACATTGCGGAATTTAGGTATGGG-AAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGACTAATGgtacaaaaaaaaaaagggaggtagccaactgggtcttgcaaatcctgtct Alignment from Exonerate_protein2genome GCATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgtagcaccaaggttgttcatgtatctccttctgtgccccgaacagGCATTGGATTTAGCAATGGAACTGTATGGAAGAACACACAGGCACTTCTCACTCATGACATTGCGGAATTTAGGTATGGGAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGACTAATGgtacaaaaaaaaaaagggaggtagccaactgggtcttgcaaatcctgtct Alignment from Exonerate_coding2genome GCATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgtagcaccaaggttgttcatgtatctccttctgtgccccgaacagGCATTGGATTTAGCAATGGAACTGTATGGAAGAACACACAGGCACTTCTCACTCATGACATTGCGGAATTTAGGTATGGGAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGACTAATGgtacaaaaaaaaaaagggaggtagccaactgggtcttgcaaatcctgtct Alignment from GeneWise GCATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgtagcaccaaggttgttcatgtatctccttctgtgccccgaacagGCATTGGATTTAGCAATGGAACTGTATGGAAGAACACACAGGCACTTCTCACTCATGACATTGCGGAATTTAGGTATGGGAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGACTAATGgtacaaaaaaaaaaagggaggtagccaactgggtcttgcaaatcctgtct #### Cyp2c54_ID7856_2 --> 0 - 1 Original Alignment TTATCAAGAGTTTATGGTCCTGTGTAT-ACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg tgagaaccagggctggtgacttcacattaccttgtgtttgttgtctgcagTTATCACGAGTTTATGGTCCAGTGTATCACTTCATATCTGGGGAGGAAGCCAACTGTTGTGT-ACATGGATATGAGGCCGTGAAGGAGGAAGCTCTTGCTGACCAAGGGGATGTTTTCGCTGGAAGGGGTAGTCTCCCAGTTTTTGATAAAGCTACTAATGGAATGggtgagttttgtggtgtgtagtatgcatggttgcagtacagtgatacccaa Alignment from CESAR TTATCAAGAGTTTATGGTCCTGTGTAT-ACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg tgagaaccagggctggtgacttcacattaccttgtgtttgttgtctgcagTTATCACGAGTTTATGGTCCAGTGTATCACTTCATATCTGGGGAGGAAGCCAACTGTTGTG-TACATGGATATGAGGCCGTGAAGGAGGAAGCTCTTGCTGACCAAGGGGATGTTTTCGCTGGAAGGGGTAGTCTCCCAGTTTTTGATAAAGCTACTAATGGAATGggtgagttttgtggtgtgtagtatgcatggttgcagtacagtgatacccaa Alignment from Spaln_aa2Genome TTATCAAGAGTTTATGGTCCTGTGTAT-ACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG tgagaaccagggctggtgacttcacattaccttgtgtttgttgtctgcagTTATCACGAGTTTATGGTCCAGTGTATcACTTCATATCTGGGGAGGAAGCCAACTGTTGT-GTACATGGATATGAGGCCGTGAAGGAGGAAGCTCTTGCTGACCAAGGGGATGTTTTCGCTGGAAGGGGTAGTCTCCCAGTTTTTGATAAAGCTACTAATGGAATGGgtgagttttgtggtgtgtagtatgcatggttgcagtacagtgatacccaa Alignment from Spaln_nt2Genome TTATCAAGAGTTTATGGTCCTGTGTAT-ACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGA---AGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG tgagaaccagggctggtgacttcacattaccttgtgtttgttgtctgcagTTATCACGAGTTTATGGTCCAGTGTATCACTTCATATCTGGGGAGGAAGCCAACTGTTGTG-TACATGGATATGAGGCCGTGAAGGAGGAAGCTCTTGCTGACCAAGGGGATGTTTTCGCTGGAAGGGGTAGTCTCCCAGTTTTTGATAAAGCTACTAATGGAATGGgtgagttttgtggtgtgtagtatgcatggttgcagtacagtgatacccaa Alignment from Pairagon TTATCAAGAGTTTATGGTCCTGTGTAT-ACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGA---AGGAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG tgagaaccagggctggtgacttcacattaccttgtgtttgttgtctgcagTTATCACGAGTTTATGGTCCAGTGTATCACTTCATATCTGGGGAGGAAGCCAACTGTTGTG-TACATGGATATGAGGCCGTGAAGGAGGAAGCTCTTGCTGACCAAGGGGATGTTTTCGCTGGAAGGGGTAGTCTCCCAGTTTTTGATAAAGCTACTAATGGAATGGgtgagttttgtggtgtgtagtatgcatggttgcagtacagtgatacccaa Alignment from Exonerate_protein2genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG tgagaaccagggctggtgacttcacattaccttgtgtttgttgtctgcagTTATCACGAGTTTATGGTCCAGTGTATCACTTCATATCTGGGGAGGAAGCCAACTGTTGTGTACATGGATATGAGGCCGTGAAGGAGGAAGCTCTTGCTGACCAAGGGGATGTTTTCGCTGGAAGGGGTAGTCTCCCAGTTTTTGATAAAGCTACTAATGGAATGGgtgagttttgtggtgtgtagtatgcatggttgcagtacagtgatacccaa Alignment from Exonerate_coding2genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG tgagaaccagggctggtgacttcacattaccttgtgtttgttgtctgcagTTATCACGAGTTTATGGTCCAGTGTATCACTTCATATCTGGGGAGGAAGCCAACTGTTGTGTACATGGATATGAGGCCGTGAAGGAGGAAGCTCTTGCTGACCAAGGGGATGTTTTCGCTGGAAGGGGTAGTCTCCCAGTTTTTGATAAAGCTACTAATGGAATGGgtgagttttgtggtgtgtagtatgcatggttgcagtacagtgatacccaa Alignment from GeneWise TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAA---GCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG tgagaaccagggctggtgacttcacattaccttgtgtttgttgtctgcagTTATCACGAGTTTATGGTCCAGTGTATCACTTCATATCTGGGGAGGAAGCCAACTGTTGTGTACATGGATATGAGGCCGTGAAGGAGGAAGCTCTTGCTGACCAAGGGGATGTTTTCGCTGGAAGGGGTAGTCTCCCAGTTTTTGATAAAGCTACTAATGGAATGGgtgagttttgtggtgtgtagtatgcatggttgcagtacagtgatacccaa #### Dagla_ID2755_15 --> 1 - 0 Original Alignment gATTGGCCTTTCCCAGCTGGAA-GGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA gaataaagatgttagcaaagaaggacacggcagcctgtctcttcctgtaggGTTGGCCTTTCCCAACTAGAACGGATTCTGCCGGCAGCTTTTAGATGTCTTGCAACGAA-TACTAAACCCAAGgtaagtactgttcagatctacagcaccaaaaaagccctgtgactcccatg Alignment from CESAR gATTGGCCTTTCCCAGCTGGAA-GGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA gaataaagatgttagcaaagaaggacacggcagcctgtctcttcctgtaggGTTGGCCTTTCCCAACTAGAACGGATTCTGCCGGCAGCTTTTAGATGTCTTGCAAC-GAATACTAAACCCAAGgtaagtactgttcagatctacagcaccaaaaaagccctgtgactcccatg Alignment from Spaln_aa2Genome GATTGGCCTTTCCCAGCTGGAA-GGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA gaataaagatgttagcaaagaaggacacggcagcctgtctcttcctgtagGGTTGGCCTTTCCCAACTAGAAcGGATTCTGCCGGCAGCTTTTAGATGTCTTGCAACGAAT-ACTAAACCCAAGgtaagtactgttcagatctacagcaccaaaaaagccctgtgactcccatg Alignment from Spaln_nt2Genome GATTGGCCTTTCCCAGCTGGAA-GGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA gaataaagatgttagcaaagaaggacacggcagcctgtctcttcctgtagGGTTGGCCTTTCCCAACTAGAACGGATTCTGCCGGCAGCTTTTAGATGTCTTGCAAC-GAATACTAAACCCAAGgtaagtactgttcagatctacagcaccaaaaaagccctgtgactcccatg Alignment from Pairagon GATTGGCCTTTCCCAGCTGGAA-GGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA gaataaagatgttagcaaagaaggacacggcagcctgtctcttcctgtagGGTTGGCCTTTCCCAACTAGAACGGATTCTGCCGGCAGCTTTTAGATGTCTTGCAAC-GAATACTAAACCCAAGgtaagtactgttcagatctacagcaccaaaaaagccctgtgactcccatg Alignment from Exonerate_protein2genome GATTGGCCTTTCCCAGCTGGAA-GGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAA gaataaagatgttagcaaagaaggacacggcagcctgtctcttcctgtagGGTTGGCCTTTCCCAACTAGAACGGATTCTGCCGGCAGCTTTTAGATGTCTTGCAACGAATACTAAACCCAAGgtaagtactgttcagatctacagcaccaaaaaagccctgtgactcccatg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA gaataaagatgttagcaaagaaggacacggcagcctgtctcttcctgtagGGTTGGCCTTTCCCAACTAGAACGGATTCTGCCGGCAGCTTTTAGATGTCTTGCAACGAATACTAAACCCAAGgtaagtactgttcagatctacagcaccaaaaaagccctgtgactcccatg #### Dagla_ID2758_12 --> 0 - 0 Original Alignment GGCATGGTACTCTCAGCTGAG-TACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG tcacaattgctctgatgttgaaggtctatggcgttcttcccttctcctagGACATGGTACTGGCAGCTGAGCTACATAAAGAAGAAGCTGGAACAGGAGATGGTCTTGT-CCAGGCTTTTGGGCGAGACCTGgtgagctttgaactattcccaaacctgcactaatctataccactgttact Alignment from CESAR GGCATGGTACTCTCAGCTGAG-TACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG tcacaattgctctgatgttgaaggtctatggcgttcttcccttctcctagGACATGGTACTGGCAGCTGAGCTACATAAAGAAGAAGCTGGAACAGGAGATGGTCTTGT-CCAGGCTTTTGGGCGAGACCTGgtgagctttgaactattcccaaacctgcactaatctataccactgttact Alignment from Spaln_aa2Genome GGCATGGTACTCTCAGCTGAG-TACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG tcacaattgctctgatgttgaaggtctatggcgttcttcccttctcctagGACATGGTACTGGCAGCTGAGcTACATAAAGAAGAAGCTGGAACAGGAGATGGTCTTGTC-CAGGCTTTTGGGCGAGACCTGgtgagctttgaactattcccaaacctgcactaatctataccactgttact Alignment from Spaln_nt2Genome GGCATGGTACTCTCAGCTGAG-TACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG tcacaattgctctgatgttgaaggtctatggcgttcttcccttctcctagGACATGGTACTGGCAGCTGAGCTACATAAAGAAGAAGCTGGAACAGGAGATGGTCTTGT-CCAGGCTTTTGGGCGAGACCTGgtgagctttgaactattcccaaacctgcactaatctataccactgttact Alignment from Pairagon GGCATGGTACTCTCAGCTGAG-TACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG tcacaattgctctgatgttgaaggtctatggcgttcttcccttctcctagGACATGGTACTGGCAGCTGAGCTACATAAAGAAGAAGCTGGAACAGGAGATGGTCTTGT-CCAGGCTTTTGGGCGAGACCTGgtgagctttgaactattcccaaacctgcactaatctataccactgttact Alignment from Exonerate_protein2genome GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG tcacaattgctctgatgttgaaggtctatggcgttcttcccttctcctagGACATGGTACTGGCAGCTGAGCTACATAAAGAAGAAGCTGGAACAGGAGATGGTCTTGTCCAGGCTTTTGGGCGAGACCTGgtgagctttgaactattcccaaacctgcactaatctataccactgttact Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG tcacaattgctctgatgttgaaggtctatggcgttcttcccttctcctagGACATGGTACTGGCAGCTGAGCTACATAAAGAAGAAGCTGGAACAGGAGATGGTCTTGTCCAGGCTTTTGGGCGAGACCTGgtgagctttgaactattcccaaacctgcactaatctataccactgttact #### Dak_ID2897_16 --> 0 - 0 Original Alignment CTGGATTCTCTGTGGGCA-GCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG tgggccctcctatggtgctggggtctggccattttctattgtcaatatagCTAGACTCTCTGTGGTCACGCGGCACAGGAATTCCAAGCCTGGAAAAGCCCCGGGG-TAGCCTCCTTCCGGTCCTTACAAAAGCTGTGAAGgtacgacactcactagtaatttagctgcacaattaaggatccaaggcttc Alignment from CESAR CTGGATTCTCTGTGGGCA-GCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG tgggccctcctatggtgctggggtctggccattttctattgtcaatatagCTAGACTCTCTGTGGTCACGCGGCACAGGAATTCCAAGCCTGGAAAAGCCCCGGG-GTAGCCTCCTTCCGGTCCTTACAAAAGCTGTGAAGgtacgacactcactagtaatttagctgcacaattaaggatccaaggcttc Alignment from Spaln_aa2Genome CTGGATTCTCTGTGGGCA-GCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG tgggccctcctatggtgctggggtctggccattttctattgtcaatatagCTAGACTCTCTGTGGTCAcGCGGCACAGGAATTCCAAGCCTGGAAAAGCCCCGGGGT-AGCCTCCTTCCGGTCCTTACAAAAGCTGTGAAGgtacgacactcactagtaatttagctgcacaattaaggatccaaggcttc Alignment from Spaln_nt2Genome CTGGATTCTCTGTGGGCA-GCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG tgggccctcctatggtgctggggtctggccattttctattgtcaatatagCTAGACTCTCTGTGGTCACGCGGCACAGGAATTCCAAGCCTGGAAAAGCCCCGGGG-TAGCCTCCTTCCGGTCCTTACAAAAGCTGTGAAGgtacgacactcactagtaatttagctgcacaattaaggatccaaggcttc Alignment from Pairagon CTGGATTCTCTGTGGGCA-GCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG tgggccctcctatggtgctggggtctggccattttctattgtcaatatagCTAGACTCTCTGTGGTCACGCGGCACAGGAATTCCAAGCCTGGAAAAGCCCCGGGG-TAGCCTCCTTCCGGTCCTTACAAAAGCTGTGAAGgtacgacactcactagtaatttagctgcacaattaaggatccaaggcttc Alignment from Exonerate_protein2genome CTGGATTCTCTGTGGGCAGCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG tgggccctcctatggtgctggggtctggccattttctattgtcaatatagCTAGACTCTCTGTGGTCACGCGGCACAGGAATTCCAAGCCTGGAAAAGCCCCGGGGTAGCCTCCTTCCGGTCCTTACAAAAGCTGTGAAGgtacgacactcactagtaatttagctgcacaattaaggatccaaggcttc Alignment from Exonerate_coding2genome tgggccctcctatggtgctggggtctggccattttctattgtcaatatagctagactctctgtggtcacgcggcacaggaattccaagcctggaaaagccccggggtagcctccttccggtccttacaaaagctgtgaaggtacgacactcactagtaatttagctgcacaattaaggatccaaggcttc Alignment from GeneWise CTGGATTCTCTGTGGGCAGCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG tgggccctcctatggtgctggggtctggccattttctattgtcaatatagCTAGACTCTCTGTGGTCACGCGGCACAGGAATTCCAAGCCTGGAAAAGCCCCGGGGTAGCCTCCTTCCGGTCCTTACAAAAGCTGTGAAGgtacgacactcactagtaatttagctgcacaattaaggatccaaggcttc #### Dak_ID2900_13 --> 2 - 0 Original Alignment ccATTCAGGGCTGGCTAAAGGAAGGC-CCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtagttcagataactggcctcctattccctcagccATCCAGGGGTGGTTGAAGGAGGGCCCCATCACTGACCAGCCCGACCCAGCTACTCTCCA-ATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtgaagaagaacagtccttaggactattgtacaaagccttactacatggc Alignment from CESAR ccATTCAGGGCTGGCTAAAGGAAGGC-CCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtagttcagataactggcctcctattccctcagccATCCAGGGGTGGTTGAAGGAGGGCCCCATCACTGACCAGCCCGACCCAGCTACTCTCC-AATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtgaagaagaacagtccttaggactattgtacaaagccttactacatggc Alignment from Spaln_aa2Genome CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtagttcagataactggcctcctattccctcagCCATCCAGGGGTGGTTGAAGGAGGGCCCCATCACTGACCAGCCCGACCCAGCTACTCTCCAATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtgaagaagaacagtccttaggactattgtacaaagccttactacatggc Alignment from Spaln_nt2Genome CCATTCAGGGCTGGCTAAAGGAAGGCCC-ATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtagttcagataactggcctcctattccctcagCCATCCAGGGGTGGTTGAAGGAGGGCCCCATCACTGACCAGCCCGACCCAGCTACTCTCCA-ATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtgaagaagaacagtccttaggactattgtacaaagccttactacatggc Alignment from Pairagon CCATTCAGGGCTGGCTAAAGGAAGG-CCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtagttcagataactggcctcctattccctcagCCATCCAGGGGTGGTTGAAGGAGGGCCCCATCACTGACCAGCCCGACCCAGCTACTCTCCA-ATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtgaagaagaacagtccttaggactattgtacaaagccttactacatggc Alignment from Exonerate_protein2genome CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtagttcagataactggcctcctattccctcagCCATCCAGGGGTGGTTGAAGGAGGGCCCCATCACTGACCAGCCCGACCCAGCTACTCTCCAATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtgaagaagaacagtccttaggactattgtacaaagccttactacatggc Alignment from Exonerate_coding2genome agaaattaaagtggcttgtagttcagataactggcctcctattccctcagccatccaggggtggttgaaggagggccccatcactgaccagcccgacccagctactctccaattgcctgtcctgctgctggagaggatgggagcttcatctggggcagtgaagaagaacagtccttaggactattgtacaaagccttactacatggc Alignment from GeneWise CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtagttcagataactggcctcctattccctcagCCATCCAGGGGTGGTTGAAGGAGGGCCCCATCACTGACCAGCCCGACCCAGCTACTCTCCAATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtgaagaagaacagtccttaggactattgtacaaagccttactacatggc #### Dak_ID2902_11 --> 2 - 1 Original Alignment atGCTGAAACTACTGCAAAAGCCTGGCCTCACATGGCCAAGGTCTCTGTG-------------------ACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAg gtatgtccaggcactattggtgtatgaactatgtcaaattattttttcagatGCTGAGTCAACTGCAAAACGT---TAT---ATGACCAAAGTCTCTGTCATGACCAAAGTCTCTGTACACTGGGAGGAAACAGATCAGGGCATCCCCCACGG-GCCACCTGAGTCCCCTGAAGCTACTGTTGCAGGGggtaagaagcccagatctgaatactaaggccccttggcagctgaacctcta Alignment from CESAR atGCTGAAACTACTGCAAAAGCCTGG------------CCTCACATGGCCAAGGTCTCTGTG-ACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAg gtatgtccaggcactattggtgtatgaactatgtcaaattattttttcagatGCTGAGTCAACTGCAAAACGTTATATGACCAAAGTCTCTGTCATGACCAAAGTCTCTGTACACTGGGAGGAAACAGATCAGGGCATCCCCCACG-GGCCACCTGAGTCCCCTGAAGCTACTGTTGCAGGGggtaagaagcccagatctgaatactaaggccccttggcagctgaacctcta Alignment from Spaln_aa2Genome ATGCTGAAACTACTGCAAAAGCCTGG------------CCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAG gtatgtccaggcactattggtgtatgaactatgtcaaattattttttcagATGCTGAGTCAACTGCAAAACGTTATATGACCAAAGTCTCTGTCATGACCAAAGTCTCTGTACACTGGGAGGAAACAGATCAGGGCATCCCCCACGGGCCACCTGAGTCCCCTGAAGCTACTGTTGCAGGGGgtaagaagcccagatctgaatactaaggccccttggcagctgaacctcta Alignment from Spaln_nt2Genome ATGCTGAAACTACTGCAAAAGCCTG----------GCCTCA--CATGGCCAAGGTCTCTGTG-ACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAG gtatgtccaggcactattggtgtatgaactatgtcaaattattttttcagATGCTGAGTCAACTGCAAAACGTTATATGACCAAAGTCTCTGTCATGACCAAAGTCTCTGTACACTGGGAGGAAACAGATCAGGGCATCCCCCAC-GGGCCACCTGAGTCCCCTGAAGCTACTGTTGCAGGGGgtaagaagcccagatctgaatactaaggccccttggcagctgaacctcta Alignment from Pairagon ATGCTGAAACTACTGCAAAAGCCTGGCCTCACATGGCCAAGGTCTCTGT-------------------GACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAG gtatgtccaggcactattggtgtatgaactatgtcaaattattttttcagATGCTGAGTCAACTGCAAAA------CGTTATATGACCAAAGTCTCTGTCATGACCAAAGTCTCTGTACACTGGGAGGAAACAGATCAGGGCATCCCCCAC-GGGCCACCTGAGTCCCCTGAAGCTACTGTTGCAGGGGgtaagaagcccagatctgaatactaaggccccttggcagctgaacctcta Alignment from Exonerate_protein2genome ATGCTGAAACTACTGCAAAAGCCTGG------------CCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAG gtatgtccaggcactattggtgtatgaactatgtcaaattattttttcagATGCTGAGTCAACTGCAAAACGTTATATGACCAAAGTCTCTGTCATGACCAAAGTCTCTGTACACTGGGAGGAAACAGATCAGGGCATCCCCCACGGGCCACCTGAGTCCCCTGAAGCTACTGTTGCAGGGGgtaagaagcccagatctgaatactaaggccccttggcagctgaacctcta Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATGCTGAAACTACTGCAAAAGCCTGG------------CCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAG gtatgtccaggcactattggtgtatgaactatgtcaaattattttttcagATGCTGAGTCAACTGCAAAACGTTATATGACCAAAGTCTCTGTCATGACCAAAGTCTCTGTACACTGGGAGGAAACAGATCAGGGCATCCCCCACGGGCCACCTGAGTCCCCTGAAGCTACTGTTGCAGGGGgtaagaagcccagatctgaatactaaggccccttggcagctgaacctcta #### Dak_ID2910_3 --> 2 - 1 Original Alignment gtTTTATCGGGAAAGGGATGCTAACAGGTGTC-ATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAg tgcagctttgggacaactatgcatacctcttctgaacatctctttcctaggtTTTATTGGCAAAGGGATGCTAACAGGTATTCATTGTAGGGTTGGTGTTTGCCTCTCCTCCTG-GGGCAGTATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCACGggtaagttgtgcttgtacagggttggataggttgtggaggggagcacattg Alignment from CESAR gtTTTATCGGGAAAGGGATGCTAACAGGTGTC-ATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAg tgcagctttgggacaactatgcatacctcttctgaacatctctttcctaggtTTTATTGGCAAAGGGATGCTAACAGGTATTCATTGTAGGGTTGGTGTTTGCCTCTCCTCCT-GGGGCAGTATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCACGggtaagttgtgcttgtacagggttggataggttgtggaggggagcacattg Alignment from Spaln_aa2Genome GTTTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAG tgcagctttgggacaactatgcatacctcttctgaacatctctttcctagGTTTTATTGGCAAAGGGATGCTAACAGGTATTCATTGTAGGGTTGGTGTTTGCCTCTCCTCCTGGGGCAGTATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCACGGgtaagttgtgcttgtacagggttggataggttgtggaggggagcacattg Alignment from Spaln_nt2Genome GTTTTATCGGGAAAGGGATGCTAACAGGTGT-CATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAG tgcagctttgggacaactatgcatacctcttctgaacatctctttcctagGTTTTATTGGCAAAGGGATGCTAACAGGTATTCATTGTAGGGTTGGTGTTTGCCTCTCCTCCTG-GGGCAGTATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCACGGgtaagttgtgcttgtacagggttggataggttgtggaggggagcacattg Alignment from Pairagon GTTTTATCGGGAAAGGGATGCTAACAGGTGT-CATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAG tgcagctttgggacaactatgcatacctcttctgaacatctctttcctagGTTTTATTGGCAAAGGGATGCTAACAGGTATTCATTGTAGGGTTGGTGTTTGCCTCTCCTCCTG-GGGCAGTATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCACGGgtaagttgtgcttgtacagggttggataggttgtggaggggagcacattg Alignment from Exonerate_protein2genome GTTTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAG tgcagctttgggacaactatgcatacctcttctgaacatctctttcctagGTTTTATTGGCAAAGGGATGCTAACAGGTATTCATTGTAGGGTTGGTGTTTGCCTCTCCTCCTGGGGCAGTATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCACGGgtaagttgtgcttgtacagggttggataggttgtggaggggagcacattg Alignment from Exonerate_coding2genome GTTTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAG tgcagctttgggacaactatgcatacctcttctgaacatctctttcctagGTTTTATTGGCAAAGGGATGCTAACAGGTATTCATTGTAGGGTTGGTGTTTGCCTCTCCTCCTGGGGCAGTATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCACGGgtaagttgtgcttgtacagggttggataggttgtggaggggagcacattg Alignment from GeneWise GTTTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAG tgcagctttgggacaactatgcatacctcttctgaacatctctttcctagGTTTTATTGGCAAAGGGATGCTAACAGGTATTCATTGTAGGGTTGGTGTTTGCCTCTCCTCCTGGGGCAGTATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCACGGgtaagttgtgcttgtacagggttggataggttgtggaggggagcacattg #### Ddb1_ID2917_2 --> 2 - 0 Original Alignment gaCACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGT-CTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tgacatggacggtcctccttgattgcaagtcctcggtctctgtcttgcaggcCACTTTACCCCAGCGGAGGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATCTATGTGGTTACTGCAGAGGGTCGTGCGCCCAGTAAAAGAGGTTGGAATGTACG-CAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtaaaggactctgacagtgcaagagacaacctggtgagaatgatgcacag Alignment from CESAR gaCACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGT-CTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tgacatggacggtcctccttgattgcaagtcctcggtctctgtcttgcaggcCACTTTACCCCAGCGGAGGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATCTATGTGGTTACTGCAGAGGGTCGTGCGCCCAGTAAAAGAGGTTGGAATGTAC-GCAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtaaaggactctgacagtgcaagagacaacctggtgagaatgatgcacag Alignment from Spaln_aa2Genome GACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tgacatggacggtcctccttgattgcaagtcctcggtctctgtcttgcagGCCACTTTACCCCAGCGGAGGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATCTATGTGGTTACTGCAGAGGGTCGTGCGCCCAGTAAAAGAGGTTGGAATGTACGCAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtaaaggactctgacagtgcaagagacaacctggtgagaatgatgcacag Alignment from Spaln_nt2Genome GACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTT-CGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tgacatggacggtcctccttgattgcaagtcctcggtctctgtcttgcagGCCACTTTACCCCAGCGGAGGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATCTATGTGGTTACTGCAGAGGGTCGTGCGCCCAGTAAAAGAGGTTGGAATGTAC-GCAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtaaaggactctgacagtgcaagagacaacctggtgagaatgatgcacag Alignment from Pairagon GACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTC-TTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tgacatggacggtcctccttgattgcaagtcctcggtctctgtcttgcagGCCACTTTACCCCAGCGGAGGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATCTATGTGGTTACTGCAGAGGGTCGTGCGCCCAGTAAAAGAGGTTGGAATGTAC-GCAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtaaaggactctgacagtgcaagagacaacctggtgagaatgatgcacag Alignment from Exonerate_protein2genome GACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tgacatggacggtcctccttgattgcaagtcctcggtctctgtcttgcagGCCACTTTACCCCAGCGGAGGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATCTATGTGGTTACTGCAGAGGGTCGTGCGCCCAGTAAAAGAGGTTGGAATGTACGCAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtaaaggactctgacagtgcaagagacaacctggtgagaatgatgcacag Alignment from Exonerate_coding2genome TGTGTGACCGGACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tgacatggacggtcctccttgattgcaagtcctcggtctcTGTCTTGCAGGCCACTTTACCCCAGCGGAGGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATCTATGTGGTTACTGCAGAGGGTCGTGCGCCCAGTAAAAGAGGTTGGAATGTACGCAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtaaaggactctgacagtgcaagagacaacctggtgagaatgatgcacag Alignment from GeneWise GACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tgacatggacggtcctccttgattgcaagtcctcggtctctgtcttgcagGCCACTTTACCCCAGCGGAGGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATCTATGTGGTTACTGCAGAGGGTCGTGCGCCCAGTAAAAGAGGTTGGAATGTACGCAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtaaaggactctgacagtgcaagagacaacctggtgagaatgatgcacag #### Ddb1_ID2924_9 --> 0 - 0 Original Alignment CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGA-CCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tctgtttattgaggattctttagtctcattttctttgcctcttgaaatagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTTACTAATTTGGGACCCTATTGTAGATATGTTTGTGGTGGACCTGGAGA-GCAGGGACAGGGGCAGgtgtgtggcacccctatgggtcatcccctatggctctgtgtttccgctca Alignment from CESAR CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCC-ATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tctgtttattgaggattctttagtctcattttctttgcctcttgaaatagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTTACTAATTTGGGACCCTATTGTAGATATGTTTGTGGTGGACCTGGAG-AGCAGGGACAGGGGCAGgtgtgtggcacccctatgggtcatcccctatggctctgtgtttccgctca Alignment from Spaln_aa2Genome CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCC-ATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG--- tctgtttattgaggattctttagtctcattttctttgcctcttgaaatagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTTACTAATTTGGGACCCtATTGTAGATATGTTTGTGGTGGACCTGGAGAGCAGGGACAGGGGCAGGTGTgtggcacccctatgggtcatcccctatggctctgtgtttccgctca Alignment from Spaln_nt2Genome CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCC-ATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tctgtttattgaggattctttagtctcattttctttgcctcttgaaatagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTTACTAATTTGGGACCCTATTGTAGATATGTTTGTGGTGGACCTGGAGA-GCAGGGACAGGGGCAGgtgtgtggcacccctatgggtcatcccctatggctctgtgtttccgctca Alignment from Pairagon CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCC-ATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tctgtttattgaggattctttagtctcattttctttgcctcttgaaatagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTTACTAATTTGGGACCCTATTGTAGATATGTTTGTGGTGGACCTGGAGA-GCAGGGACAGGGGCAGgtgtgtggcacccctatgggtcatcccctatggctctgtgtttccgctca Alignment from Exonerate_protein2genome CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tctgtttattgaggattctttagtctcattttctttgcctcttgaaatagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTTACTAATTTGGGACCCTATTGTAGATATGTTTGTGGTGGACCTGGAGAGCAGGGACAGGGGCAGgtgtgtggcacccctatgggtcatcccctatggctctgtgtttccgctca Alignment from Exonerate_coding2genome CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tctgtttattgaggattctttagtctcattttctttgcctcttgaaatagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTTACTAATTTGGGACCCTATTGTAGATATGTTTGTGGTGGACCTGGAGAGCAGGGACAGGGGCAGgtgtgtggcacccctatgggtcatcccctatggctctgtgtttccgctca Alignment from GeneWise CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tctgtttattgaggattctttagtctcattttctttgcctcttgaaatagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTTACTAATTTGGGACCCTATTGTAGATATGTTTGTGGTGGACCTGGAGAGCAGGGACAGGGGCAGgtgtgtggcacccctatgggtcatcccctatggctctgtgtttccgctca #### Ddb1_ID2929_14 --> 1 - 1 Original Alignment cCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGC-CTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAg gtttagcactcatttcttctattaatgtacaagtcctttttgatactcagtCACACAGAAATGGAACATGAAGTGGCATGTTTGGACACTACCCCATTAGGGGATAGCAATGGTCCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCT-AGCTCGTATCTTGAGGCTCCCGTCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAggcaagtcttttatttactttcaggacaacaccctagtaaggttaaacaag Alignment from CESAR cCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGC-CTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAg gtttagcactcatttcttctattaatgtacaagtcctttttgatactcagtCACACAGAAATGGAACATGAAGTGGCATGTTTGGACACTACCCCATTAGGGGATAGCAATGGTCCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATC-TAGCTCGTATCTTGAGGCTCCCGTCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAggcaagtcttttatttactttcaggacaacaccctagtaaggttaaacaag Alignment from Spaln_aa2Genome CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGC-CTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG gtttagcactcatttcttctattaatgtacaagtcctttttgatactcagTCACACAGAAATGGAACATGAAGTGGCATGTTTGGACACTACCCCATTAGGGGATAGCAATGGTcCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTA-GCTCGTATCTTGAGGCTCCCGTCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAGgcaagtcttttatttactttcaggacaacaccctagtaaggttaaacaag Alignment from Spaln_nt2Genome CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGG-CCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG gtttagcactcatttcttctattaatgtacaagtcctttttgatactcagTCACACAGAAATGGAACATGAAGTGGCATGTTTGGACACTACCCCATTAGGGGATAGCAATGGTCCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCT-AGCTCGTATCTTGAGGCTCCCGTCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAGgcaagtcttttatttactttcaggacaacaccctagtaaggttaaacaag Alignment from Pairagon CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGG-CCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG gtttagcactcatttcttctattaatgtacaagtcctttttgatactcagTCACACAGAAATGGAACATGAAGTGGCATGTTTGGACACTACCCCATTAGGGGATAGCAATGGTCCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCT-AGCTCGTATCTTGAGGCTCCCGTCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAGgcaagtcttttatttactttcaggacaacaccctagtaaggttaaacaag Alignment from Exonerate_protein2genome CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGC-CTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATC--TCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG gtttagcactcatttcttctattaatgtacaagtcctttttgatactcagTCACACAGAAATGGAACATGAAGTGGCATGTTTGGACACTACCCCATTAGGGGATAGCAATGGTCCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTA---GCTCGTATCTTGAGGCTCCCGTCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAGgcaagtcttttatttactttcaggacaacaccctagtaaggttaaacaag Alignment from Exonerate_coding2genome CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGC-CTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATC--TCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG gtttagcactcatttcttctattaatgtacaagtcctttttgatactcagTCACACAGAAATGGAACATGAAGTGGCATGTTTGGACACTACCCCATTAGGGGATAGCAATGGTCCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTA---GCTCGTATCTTGAGGCTCCCGTCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAGgcaagtcttttatttactttcaggacaacaccctagtaaggttaaacaag Alignment from GeneWise CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACA------GACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAGAG-- gtttagcactcatttcttctattaatgtacaagtcctttttgatactcagTCACACAGAAATGGAACATGAAGTGGCATGTTTGGACACTACCCCATTAGGGGATAGCAATGGT------CCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTAGCTCGTATCTTGAGGCTCCCGTCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAGGCAAgtcttttatttactttcaggacaacaccctagtaaggttaaacaag #### Ddb1_ID2930_15 --> 2 - 1 Original Alignment agATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCAC-TACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAg cttggtccatcctgatggccctagtacatttttgtttttgtttttttaagagATCATTCCTCGATCCATATTGATGACCACTTTTGAAGGTAGCCACCTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTT-CTACTTTGGGCTCAATATTGAGACAggtacagctggagatgattctaatgctgggtattttccataataaggatcc Alignment from CESAR agATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCAC-TACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAg cttggtccatcctgatggccctagtacatttttgtttttgtttttttaagagATCATTCCTCGATCCATATTGATGACCACTTTTGAAGGTAGCCACCTACCTCCTTTGTGCCTTGGGAGATGGGGCTC-TTTCTACTTTGGGCTCAATATTGAGACAggtacagctggagatgattctaatgctgggtattttccataataaggatcc Alignment from Spaln_aa2Genome AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG cttggtccatcctgatggccctagtacatttttgtttttgtttttttaagAGATCATTCCTCGATCCATATTGATGACCACTTTTGAAGGTAGCCACCTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTCTACTTTGGGCTCAATATTGAGACAGgtacagctggagatgattctaatgctgggtattttccataataaggatcc Alignment from Spaln_nt2Genome AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCA-CTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG cttggtccatcctgatggccctagtacatttttgtttttgtttttttaagAGATCATTCCTCGATCCATATTGATGACCACTTTTGAAGGTAGCCACCTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTT-CTACTTTGGGCTCAATATTGAGACAGgtacagctggagatgattctaatgctgggtattttccataataaggatcc Alignment from Pairagon AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCA-CTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG cttggtccatcctgatggccctagtacatttttgtttttgtttttttaagAGATCATTCCTCGATCCATATTGATGACCACTTTTGAAGGTAGCCACCTACCTCCTTTGTGCCTTGGGAGATGGGGCTC-TTTCTACTTTGGGCTCAATATTGAGACAGgtacagctggagatgattctaatgctgggtattttccataataaggatcc Alignment from Exonerate_protein2genome AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG cttggtccatcctgatggccctagtacatttttgtttttgtttttttaagAGATCATTCCTCGATCCATATTGATGACCACTTTTGAAGGTAGCCACCTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTCTACTTTGGGCTCAATATTGAGACAGgtacagctggagatgattctaatgctgggtattttccataataaggatcc Alignment from Exonerate_coding2genome AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG cttggtccatcctgatggccctagtacatttttgtttttgtttttttaagAGATCATTCCTCGATCCATATTGATGACCACTTTTGAAGGTAGCCACCTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTCTACTTTGGGCTCAATATTGAGACAGgtacagctggagatgattctaatgctgggtattttccataataaggatcc Alignment from GeneWise AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG cttggtccatcctgatggccctagtacatttttgtttttgtttttttaagAGATCATTCCTCGATCCATATTGATGACCACTTTTGAAGGTAGCCACCTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTCTACTTTGGGCTCAATATTGAGACAGgtacagctggagatgattctaatgctgggtattttccataataaggatcc #### Ddb1_ID2931_16 --> 2 - 2 Original Alignment gtTTACTGAGTGACCGTAAA-AAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACag gtaagaactgtaccctattttgcctccctaattttaactcttcttcaaaggtTTATTGAGTGACCGTAAACAAGGTAACTTTGGGCACCCAGCCCACCGTGC-GAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACaggtaagtttcctaagtgtctcaagtaggggtcacatatcctttttatgatt Alignment from CESAR gtTTACTGAGTGACCGTAAA-AAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACag gtaagaactgtaccctattttgcctccctaattttaactcttcttcaaaggtTTATTGAGTGACCGTAAACAAGGTAACTTTGGGCACCCAGCCCACCGTG-CGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACaggtaagtttcctaagtgtctcaagtaggggtcacatatcctttttatgatt Alignment from Spaln_aa2Genome GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaagaactgtaccctattttgcctccctaattttaactcttcttcaaagGTTTATTGAGTGACCGTAAACAAGGTAACTTTGGGCACCCAGCCCACCGTGCGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctaagtgtctcaagtaggggtcacatatcctttttatgatt Alignment from Spaln_nt2Genome GTTTACTGAGTGACCGTAAA-AAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaagaactgtaccctattttgcctccctaattttaactcttcttcaaagGTTTATTGAGTGACCGTAAACAAGGTAACTTTGGGCACCCAGCCCACCGTG-CGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctaagtgtctcaagtaggggtcacatatcctttttatgatt Alignment from Pairagon GTTTACTGAGTGACCGTAAA-AAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaagaactgtaccctattttgcctccctaattttaactcttcttcaaagGTTTATTGAGTGACCGTAAACAAGGTAACTTTGGGCACCCAGCCCACCGTG-CGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctaagtgtctcaagtaggggtcacatatcctttttatgatt Alignment from Exonerate_protein2genome GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaagaactgtaccctattttgcctccctaattttaactcttcttcaaagGTTTATTGAGTGACCGTAAACAAGGTAACTTTGGGCACCCAGCCCACCGTGCGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctaagtgtctcaagtaggggtcacatatcctttttatgatt Alignment from Exonerate_coding2genome GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaagaactgtaccctattttgcctccctaattttaactcttcttcaaagGTTTATTGAGTGACCGTAAACAAGGTAACTTTGGGCACCCAGCCCACCGTGCGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctaagtgtctcaagtaggggtcacatatcctttttatgatt Alignment from GeneWise GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaagaactgtaccctattttgcctccctaattttaactcttcttcaaagGTTTATTGAGTGACCGTAAACAAGGTAACTTTGGGCACCCAGCCCACCGTGCGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctaagtgtctcaagtaggggtcacatatcctttttatgatt #### Ddb1_ID2935_20 --> 2 - 1 Original Alignment tgCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACT-TACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATg taggatggttggaacccgtgtagataaagcttctcccgcctgtctgaaagtgCTTCATGCCCACCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAATTGGTTAAAGATCCCAACACTCTACTTCATTGTTGGTACAGCAATGGTATATCCAGAAGAGGCAG-GCCCAAGCAGGGTCATATTGTGGTTTTCCAATATTCTGATggtactatgatctaggagtccttttccagctttttagaggcctatttgtaa Alignment from CESAR tgCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACT-TACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATg taggatggttggaacccgtgtagataaagcttctcccgcctgtctgaaagtgCTTCATGCCCACCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAATTGGTTAAAGATCCCAACACTCTACTTCATTGTTGGTACAGCAATGGTATATCCAGAAGAGGCA-GGCCCAAGCAGGGTCATATTGTGGTTTTCCAATATTCTGATggtactatgatctaggagtccttttccagctttttagaggcctatttgtaa Alignment from Spaln_aa2Genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACT-TACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG taggatggttggaacccgtgtagataaagcttctcccgcctgtctgaaagTGCTTCATGCCCACCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAATTGGTTAAAGATCCCAACACTcTACTTCATTGTTGGTACAGCAATGGTATATCCAGAAGAGGCAGGCCC-AAGCAGGGTCATATTGTGGTTTTCCAATATTCTGATGgtactatgatctaggagtccttttccagctttttagaggcctatttgtaa Alignment from Spaln_nt2Genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACT-TACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG taggatggttggaacccgtgtagataaagcttctcccgcctgtctgaaagTGCTTCATGCCCACCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAATTGGTTAAAGATCCCAACACTCTACTTCATTGTTGGTACAGCAATGGTATATCCAGAAGAGGCAG-GCCCAAGCAGGGTCATATTGTGGTTTTCCAATATTCTGATGgtactatgatctaggagtccttttccagctttttagaggcctatttgtaa Alignment from Pairagon -----------------------------------------------AAGTGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACT-TACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG TAGGATGGTTGGAACCCGTGTAGATAAAGCTTCTCCCGCCTGTCTGAAAGTGCTTCATGCCCACCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAATTGGTTAAAGATCCCAACACTCTACTTCATTGTTGGTACAGCAATGGTATATCCAGAAGAGGCAG-GCCCAAGCAGGGTCATATTGTGGTTTTCCAATATTCTGATGgtactatgatctaggagtccttttccagctttttagaggcctatttgtaa Alignment from Exonerate_protein2genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACT-TACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCA--GAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG taggatggttggaacccgtgtagataaagcttctcccgcctgtctgaaagTGCTTCATGCCCACCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAATTGGTTAAAGATCCCAACACTCTACTTCATTGTTGGTACAGCAATGGTATATCCAGAAGAGGCAGG---CCCAAGCAGGGTCATATTGTGGTTTTCCAATATTCTGATGgtactatgatctaggagtccttttccagctttttagaggcctatttgtaa Alignment from Exonerate_coding2genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACT-TACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCA--GAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG taggatggttggaacccgtgtagataaagcttctcccgcctgtctgaaagTGCTTCATGCCCACCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAATTGGTTAAAGATCCCAACACTCTACTTCATTGTTGGTACAGCAATGGTATATCCAGAAGAGGCAGG---CCCAAGCAGGGTCATATTGTGGTTTTCCAATATTCTGATGgtactatgatctaggagtccttttccagctttttagaggcctatttgtaa Alignment from GeneWise TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAAC-ACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG taggatggttggaacccgtgtagataaagcttctcccgcctgtctgaaagTGCTTCATGCCCACCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAATTGGTTAAAGATCCCAACACTCTACTTCATTGTTGGTACAGCAATGGTATATCCAGAAGAGGCAGG-CCCAAGCAGGGTCATATTGTGGTTTTCCAATATTCTGATGgtactatgatctaggagtccttttccagctttttagaggcctatttgtaa #### Dkk1_ID6483_2 --> 0 - 1 Original Alignment CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTC-GGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATg agacttggcaactcgactgatctagctgaacccgattgtttgtcccacagCCATTCCCTTGTGTTATAGATGAGGAGTGTGGTTCTGATAAATATTGTCCCAGTCCCAGCTGTGGAGCAGCT---GTTCGAAGGTGTTCAGATCTGCTTGGCTTGCC-AAGACATAGGAAGTGTTGTGTAAGGCATGCCATGTGCTGCCCTGAGAACCACTGCAAGAATcgtatgtatgccccagtacctgtcgtcttttatttaacaagttctacctag Alignment from CESAR CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATg agacttggcaactcgactgatctagctgaacccgattgtttgtcccacagCCATTCCCTTGTGTTATAGATGAGGAGTGTGGTTCTGATAAATATTGTCCCAGTCCCAGCTGTGGAGCAGCT--GTTCGAAGGTGTTCAGATCTGCTTGGCTTGCC-AAGACATAGGAAGTGTTGTGTAAGGCATGCCATGTGCTGCCCTGAGAACCACTGCAAGAATcgtatgtatgccccagtacctgtcgtcttttatttaacaagttctacctag Alignment from Spaln_aa2Genome CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG agacttggcaactcgactgatctagctgaacccgattgtttgtcccacagCCATTCCCTTGTGTTATAGATGAGGAGTGTGGTTCTGATAAATATTGTCCCAGTCCCAGCTGTGGAGCAGCTGTTC--GAAGGTGTTCAGATCTGCTTGGCTTGCCA-AGACATAGGAAGTGTTGTGTAAGGCATGCCATGTGCTGCCCTGAGAACCACTGCAAGAATCgtatgtatgccccagtacctgtcgtcttttatttaacaagttctacctag Alignment from Spaln_nt2Genome CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG agacttggcaactcgactgatctagctgaacccgattgtttgtcccacagCCATTCCCTTGTGTTATAGATGAGGAGTGTGGTTCTGATAAATATTGTCCCAGTCCCAGCTGTGGAGCAGCTG--TTCGAAGGTGTTCAGATCTGCTTGGCTTGCC-AAGACATAGGAAGTGTTGTGTAAGGCATGCCATGTGCTGCCCTGAGAACCACTGCAAGAATCgtatgtatgccccagtacctgtcgtcttttatttaacaagttctacctag Alignment from Pairagon CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG agacttggcaactcgactgatctagctgaacccgattgtttgtcccacagCCATTCCCTTGTGTTATAGATGAGGAGTGTGGTTCTGATAAATATTGTCCCAGTCCCAGCTGTGGAGCAGCTG--TTCGAAGGTGTTCAGATCTGCTTGGCTTGCC-AAGACATAGGAAGTGTTGTGTAAGGCATGCCATGTGCTGCCCTGAGAACCACTGCAAGAATCgtatgtatgccccagtacctgtcgtcttttatttaacaagttctacctag Alignment from Exonerate_protein2genome CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG agacttggcaactcgactgatctagctgaacccgattgtttgtcccacagCCATTCCCTTGTGTTATAGATGAGGAGTGTGGTTCTGATAAATATTGTCCCAGTCCCAGCTGTGGAGCAGCT---GTTCGAAGGTGTTCAGATCTGCTTGGCTTGCCAAGACATAGGAAGTGTTGTGTAAGGCATGCCATGTGCTGCCCTGAGAACCACTGCAAGAATCgtatgtatgccccagtacctgtcgtcttttatttaacaagttctacctag Alignment from Exonerate_coding2genome CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG agacttggcaactcgactgatctagctgaacccgattgtttgtcccacagCCATTCCCTTGTGTTATAGATGAGGAGTGTGGTTCTGATAAATATTGTCCCAGTCCCAGCTGTGGAGCAGCT--GTTCGAAGGTGTTCAGATCTGCTTGGCTTGCCA-AGACATAGGAAGTGTTGTGTAAGGCATGCCATGTGCTGCCCTGAGAACCACTGCAAGAATCgtatgtatgccccagtacctgtcgtcttttatttaacaagttctacctag Alignment from GeneWise CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG agacttggcaactcgactgatctagctgaacccgattgtttgtcccacagCCATTCCCTTGTGTTATAGATGAGGAGTGTGGTTCTGATAAATATTGTCCCAGTCCCAGCTGTGGAGCAGCT---GTTCGAAGGTGTTCAGATCTGCTTGGCTTGCCAAGACATAGGAAGTGTTGTGTAAGGCATGCCATGTGCTGCCCTGAGAACCACTGCAAGAATCgtatgtatgccccagtacctgtcgtcttttatttaacaagttctacctag #### Dock8_ID5396_17 --> 1 - 0 Original Alignment gTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAAT-CATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG acctgtgccttacatcacaattgcttgcctctgtctctcctccctcctaggTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCCAAGCTGACAGTGAATCCATCATCTTCTCTTCACCTTCTATCACATCA-CTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtgagttaacaagaactgatggtttcctaccttccagtttggtttcgcat Alignment from CESAR gTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAAT-CATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG acctgtgccttacatcacaattgcttgcctctgtctctcctccctcctaggTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCCAAGCTGACAGTGAATCCATCATCTTCTCTTCACCTTCTATCACATCA-CTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtgagttaacaagaactgatggtttcctaccttccagtttggtttcgcat Alignment from Spaln_aa2Genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG acctgtgccttacatcacaattgcttgcctctgtctctcctccctcctagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCCAAGCTGACAGTGAATCCATCATCTTCTCTTCACCTTCTATCACATCACTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtgagttaacaagaactgatggtttcctaccttccagtttggtttcgcat Alignment from Spaln_nt2Genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAAT-CATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG acctgtgccttacatcacaattgcttgcctctgtctctcctccctcctagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCCAAGCTGACAGTGAATCCATCATCTTCTCTTCACCTTCTATCACATCA-CTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtgagttaacaagaactgatggtttcctaccttccagtttggtttcgcat Alignment from Pairagon GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAAT-CATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG acctgtgccttacatcacaattgcttgcctctgtctctcctccctcctagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCCAAGCTGACAGTGAATCCATCATCTTCTCTTCACCTTCTATCACATCA-CTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtgagttaacaagaactgatggtttcctaccttccagtttggtttcgcat Alignment from Exonerate_protein2genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAAT-CATCACCTCCTCTTCACCTTCTACCACATC--AGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG acctgtgccttacatcacaattgcttgcctctgtctctcctccctcctagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCCAAGCTGACAGTGAATCCATCATCTTCTCTTCACCTTCTATCACATCAC---TGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtgagttaacaagaactgatggtttcctaccttccagtttggtttcgcat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG acctgtgccttacatcacaattgcttgcctctgtctctcctccctcctagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCCAAGCTGACAGTGAATCCATCATCTTCTCTTCACCTTCTATCACATCACTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtgagttaacaagaactgatggtttcctaccttccagtttggtttcgcat #### Dock8_ID5413_32 --> 0 - 1 Original Alignment GGAAAGCAGAGTTCTGACAAAGTCAGTAAC-CAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAg tgttcgtggagacctagtaaactcaaagtcccctctacctctgtctttagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCA-ACTGGAAGAGGCCCTGCTCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAggtgagattccaacactgtaacctcaagttagtcaaggttgttgcatagag Alignment from CESAR GGAAAGCAGAGTTCTGACAAAGTCAGTAAC-CAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAg tgttcgtggagacctagtaaactcaaagtcccctctacctctgtctttagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCC-AACTGGAAGAGGCCCTGCTCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAggtgagattccaacactgtaacctcaagttagtcaaggttgttgcatagag Alignment from Spaln_aa2Genome GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG tgttcgtggagacctagtaaactcaaagtcccctctacctctgtctttagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAACTGGAAGAGGCCCTGCTCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgagattccaacactgtaacctcaagttagtcaaggttgttgcatagag Alignment from Spaln_nt2Genome GGAAAGCAGAGTTCTGACAAAGTCAGTAA-CCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG tgttcgtggagacctagtaaactcaaagtcccctctacctctgtctttagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAA-CTGGAAGAGGCCCTGCTCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgagattccaacactgtaacctcaagttagtcaaggttgttgcatagag Alignment from Pairagon GGAAAGCAGAGTTCTGACAAAGTCAGTAA-CCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG tgttcgtggagacctagtaaactcaaagtcccctctacctctgtctttagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAA-CTGGAAGAGGCCCTGCTCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgagattccaacactgtaacctcaagttagtcaaggttgttgcatagag Alignment from Exonerate_protein2genome GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG tgttcgtggagacctagtaaactcaaagtcccctctacctctgtctttagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAACTGGAAGAGGCCCTGCTCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgagattccaacactgtaacctcaagttagtcaaggttgttgcatagag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG tgttcgtggagacctagtaaactcaaagtcccctctacctctgtctttagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAACTGGAAGAGGCCCTGCTCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgagattccaacactgtaacctcaagttagtcaaggttgttgcatagag #### Dpp3_ID743_10 --> 2 - 0 Original Alignment acGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCG-CTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcagtacaaatacagtccactcctggtgggtttactgtgtcttacagacGATGACCTGAGACAAACAGAAGGCTTTAAGAACGTATCGCCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGC-AGAGAAGCTCACATTCTTGGAGGAGGAAGACAAGgtacgtatggccccccaagcttatggtgtggctgttctggttctgggcga Alignment from CESAR acGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCG-CTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcagtacaaatacagtccactcctggtgggtttactgtgtcttacagacGATGACCTGAGACAAACAGAAGGCTTTAAGAACGTATCGCCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGC-AGAGAAGCTCACATTCTTGGAGGAGGAAGACAAGgtacgtatggccccccaagcttatggtgtggctgttctggttctgggcga Alignment from Spaln_aa2Genome ACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcagtacaaatacagtccactcctggtgggtttactgtgtcttacagACGATGACCTGAGACAAACAGAAGGCTTTAAGAACGTATCGCCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCAGAGAAGCTCACATTCTTGGAGGAGGAAGACAAGgtacgtatggccccccaagcttatggtgtggctgttctggttctgggcga Alignment from Spaln_nt2Genome ACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCG-CTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcagtacaaatacagtccactcctggtgggtttactgtgtcttacagACGATGACCTGAGACAAACAGAAGGCTTTAAGAACGTATCGCCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGC-AGAGAAGCTCACATTCTTGGAGGAGGAAGACAAGgtacgtatggccccccaagcttatggtgtggctgttctggttctgggcga Alignment from Pairagon ACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCG-CTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcagtacaaatacagtccactcctggtgggtttactgtgtcttacagACGATGACCTGAGACAAACAGAAGGCTTTAAGAACGTATCGCCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGC-AGAGAAGCTCACATTCTTGGAGGAGGAAGACAAGgtacgtatggccccccaagcttatggtgtggctgttctggttctgggcga Alignment from Exonerate_protein2genome ACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcagtacaaatacagtccactcctggtgggtttactgtgtcttacagACGATGACCTGAGACAAACAGAAGGCTTTAAGAACGTATCGCCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCAGAGAAGCTCACATTCTTGGAGGAGGAAGACAAGgtacgtatggccccccaagcttatggtgtggctgttctggttctgggcga Alignment from Exonerate_coding2genome ACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcagtacaaatacagtccactcctggtgggtttactgtgtcttacagACGATGACCTGAGACAAACAGAAGGCTTTAAGAACGTATCGCCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCAGAGAAGCTCACATTCTTGGAGGAGGAAGACAAGgtacgtatggccccccaagcttatggtgtggctgttctggttctgggcga Alignment from GeneWise ACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcagtacaaatacagtccactcctggtgggtttactgtgtcttacagACGATGACCTGAGACAAACAGAAGGCTTTAAGAACGTATCGCCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCAGAGAAGCTCACATTCTTGGAGGAGGAAGACAAGgtacgtatggccccccaagcttatggtgtggctgttctggttctgggcga #### Dpp3_ID746_7 --> 0 - 2 Original Alignment GCTTATGCAGCCAACAGCCACCAGGAGCAA-ATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGag gactgtgtggatcaatcgaaatgaggattgtactgtctccctgtccccagGCCTATGCAGCCAACTGCCACCAGAAACAACATGCTGTCCCAGTATGTGGAAAGCTTCACTG-GGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTATTGTAAAAaggtaagttgtcatccaagcctcccaatatctcttccaatacaccctctagg Alignment from CESAR GCTTATGCAGCCAACAGCCACCAGGAGCAA-ATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGag gactgtgtggatcaatcgaaatgaggattgtactgtctccctgtccccagGCCTATGCAGCCAACTGCCACCAGAAACAACATGCTGTCCCAGTATGTGGAAAGCTTCACT-GGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTATTGTAAAAaggtaagttgtcatccaagcctcccaatatctcttccaatacaccctctagg Alignment from Spaln_aa2Genome GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gactgtgtggatcaatcgaaatgaggattgtactgtctccctgtccccagGCCTATGCAGCCAACTGCCACCAGAAACAACATGCTGTCCCAGTATGTGGAAAGCTTCACTGGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTATTGTAAAAAGgtaagttgtcatccaagcctcccaatatctcttccaatacaccctctagg Alignment from Spaln_nt2Genome GCTTATGCAGCCAACAGCCACCAGGAGCAA-ATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gactgtgtggatcaatcgaaatgaggattgtactgtctccctgtccccagGCCTATGCAGCCAACTGCCACCAGAAACAACATGCTGTCCCAGTATGTGGAAAGCTTCA-CTGGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTATTGTAAAAAGgtaagttgtcatccaagcctcccaatatctcttccaatacaccctctagg Alignment from Pairagon GCTTATGCAGCCAACAGCCACCAGGAGCAA-ATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gactgtgtggatcaatcgaaatgaggattgtactgtctccctgtccccagGCCTATGCAGCCAACTGCCACCAGAAACAACATGCTGTCCCAGTATGTGGAAAGCTTCA-CTGGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTATTGTAAAAAGgtaagttgtcatccaagcctcccaatatctcttccaatacaccctctagg Alignment from Exonerate_protein2genome GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gactgtgtggatcaatcgaaatgaggattgtactgtctccctgtccccagGCCTATGCAGCCAACTGCCACCAGAAACAACATGCTGTCCCAGTATGTGGAAAGCTTCACTGGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTATTGTAAAAAGgtaagttgtcatccaagcctcccaatatctcttccaatacaccctctagg Alignment from Exonerate_coding2genome GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gactgtgtggatcaatcgaaatgaggattgtactgtctccctgtccccagGCCTATGCAGCCAACTGCCACCAGAAACAACATGCTGTCCCAGTATGTGGAAAGCTTCACTGGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTATTGTAAAAAGgtaagttgtcatccaagcctcccaatatctcttccaatacaccctctagg Alignment from GeneWise GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gactgtgtggatcaatcgaaatgaggattgtactgtctccctgtccccagGCCTATGCAGCCAACTGCCACCAGAAACAACATGCTGTCCCAGTATGTGGAAAGCTTCACTGGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTATTGTAAAAAGgtaagttgtcatccaagcctcccaatatctcttccaatacaccctctagg #### Drap1_ID987_3 --> 2 - 2 Original Alignment ccCGGGCCCTTGAGCTCTTC-CTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACct tagtctgaggtggagtaatgccttacacattggtgctgcctttgttgtagcgCGGGCACTTGAGCTTTTCCTTGGAGTCCTTGCTGAAGAAGGCTTGCCAGG-GACCCAGTCTCGAAATGCAAAGACAATGACCACTTCTCACctgtaggttttcccaacctggcaggggtgtttaaaactatggggcaagaatt Alignment from CESAR ccCGGGCCCTTGAGCTCTTC-CTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACct tagtctgaggtggagtaatgccttacacattggtgctgcctttgttgtagcgCGGGCACTTGAGCTTTTCCTTGGAGTCCTTGCTGAAGAAGGCTTGCCAG-GGACCCAGTCTCGAAATGCAAAGACAATGACCACTTCTCACctgtaggttttcccaacctggcaggggtgtttaaaactatggggcaagaatt Alignment from Spaln_aa2Genome CCCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCT tagtctgaggtggagtaatgccttacacattggtgctgcctttgttgtagCGCGGGCACTTGAGCTTTTCCTTGGAGTCCTTGCTGAAGAAGGCTTGCCAGGGACCCAGTCTCGAAATGCAAAGACAATGACCACTTCTCACCTgtaggttttcccaacctggcaggggtgtttaaaactatggggcaagaatt Alignment from Spaln_nt2Genome CCCGGGCCCTTGAGCTCTTCCT-GGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCT tagtctgaggtggagtaatgccttacacattggtgctgcctttgttgtagCGCGGGCACTTGAGCTTTTCCTTGGAGTCCTTGCTGAAGAAGGCTTGCCAGG-GACCCAGTCTCGAAATGCAAAGACAATGACCACTTCTCACCTgtaggttttcccaacctggcaggggtgtttaaaactatggggcaagaatt Alignment from Pairagon CCCGGGCCCTTGAGCTCTTCC-TGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCT tagtctgaggtggagtaatgccttacacattggtgctgcctttgttgtagCGCGGGCACTTGAGCTTTTCCTTGGAGTCCTTGCTGAAGAAGGCTTGCCAGG-GACCCAGTCTCGAAATGCAAAGACAATGACCACTTCTCACCTgtaggttttcccaacctggcaggggtgtttaaaactatggggcaagaatt Alignment from Exonerate_protein2genome CCCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCT tagtctgaggtggagtaatgccttacacattggtgctgcctttgttgtagCGCGGGCACTTGAGCTTTTCCTTGGAGTCCTTGCTGAAGAAGGCTTGCCAGGGACCCAGTCTCGAAATGCAAAGACAATGACCACTTCTCACCTgtaggttttcccaacctggcaggggtgtttaaaactatggggcaagaatt Alignment from Exonerate_coding2genome CCCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCT tagtctgaggtggagtaatgccttacacattggtgctgcctttgttgtagCGCGGGCACTTGAGCTTTTCCTTGGAGTCCTTGCTGAAGAAGGCTTGCCAGGGACCCAGTCTCGAAATGCAAAGACAATGACCACTTCTCACCTgtaggttttcccaacctggcaggggtgtttaaaactatggggcaagaatt Alignment from GeneWise CCCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCT tagtctgaggtggagtaatgccttacacattggtgctgcctttgttgtagCGCGGGCACTTGAGCTTTTCCTTGGAGTCCTTGCTGAAGAAGGCTTGCCAGGGACCCAGTCTCGAAATGCAAAGACAATGACCACTTCTCACCTgtaggttttcccaacctggcaggggtgtttaaaactatggggcaagaatt #### Eef1g_ID2562_4 --> 2 - 0 Original Alignment taAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGT-GACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG caagcctgaggttgttatgtactaaatgtgcctgttgatttccccctcagtgAGCAATGAGGAACTGCGAGGAAGTGCACCAGAAGCAGCAGCTCAGGTAGCACAGTGGGTTAGCTTTACAGACAGTCGACATCGTTCCACCAGCAAGTACCTGGGTGTTCC-CACCTTGGGAATCATGCACCACAACAAACAGgtaaattttgttggtggtggtccaccactagagtgagaatggtaagtgca Alignment from CESAR taAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGT-GACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG caagcctgaggttgttatgtactaaatgtgcctgttgatttccccctcagtgAGCAATGAGGAACTGCGAGGAAGTGCACCAGAAGCAGCAGCTCAGGTAGCACAGTGGGTTAGCTTTACAGACAGTCGACATCGTTCCACCAGCAAGTACCTGGGTGT-TCCCACCTTGGGAATCATGCACCACAACAAACAGgtaaattttgttggtggtggtccaccactagagtgagaatggtaagtgca Alignment from Spaln_aa2Genome TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG caagcctgaggttgttatgtactaaatgtgcctgttgatttccccctcagTGAGCAATGAGGAACTGCGAGGAAGTGCACCAGAAGCAGCAGCTCAGGTAGCACAGTGGGTTAGCTTTACAGACAGTCGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCACCTTGGGAATCATGCACCACAACAAACAGgtaaattttgttggtggtggtccaccactagagtgagaatggtaagtgca Alignment from Spaln_nt2Genome TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGT-GACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG caagcctgaggttgttatgtactaaatgtgcctgttgatttccccctcagTGAGCAATGAGGAACTGCGAGGAAGTGCACCAGAAGCAGCAGCTCAGGTAGCACAGTGGGTTAGCTTTACAGACAGTCGACATCGTTCCACCAGCAAGTACCTGGGTGTT-CCCACCTTGGGAATCATGCACCACAACAAACAGgtaaattttgttggtggtggtccaccactagagtgagaatggtaagtgca Alignment from Pairagon TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGT-GACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG caagcctgaggttgttatgtactaaatgtgcctgttgatttccccctcagTGAGCAATGAGGAACTGCGAGGAAGTGCACCAGAAGCAGCAGCTCAGGTAGCACAGTGGGTTAGCTTTACAGACAGTCGACATCGTTCCACCAGCAAGTACCTGGGTGTT-CCCACCTTGGGAATCATGCACCACAACAAACAGgtaaattttgttggtggtggtccaccactagagtgagaatggtaagtgca Alignment from Exonerate_protein2genome TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG caagcctgaggttgttatgtactaaatgtgcctgttgatttccccctcagTGAGCAATGAGGAACTGCGAGGAAGTGCACCAGAAGCAGCAGCTCAGGTAGCACAGTGGGTTAGCTTTACAGACAGTCGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCACCTTGGGAATCATGCACCACAACAAACAGgtaaattttgttggtggtggtccaccactagagtgagaatggtaagtgca Alignment from Exonerate_coding2genome TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG caagcctgaggttgttatgtactaaatgtgcctgttgatttccccctcagTGAGCAATGAGGAACTGCGAGGAAGTGCACCAGAAGCAGCAGCTCAGGTAGCACAGTGGGTTAGCTTTACAGACAGTCGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCACCTTGGGAATCATGCACCACAACAAACAGgtaaattttgttggtggtggtccaccactagagtgagaatggtaagtgca Alignment from GeneWise TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG caagcctgaggttgttatgtactaaatgtgcctgttgatttccccctcagTGAGCAATGAGGAACTGCGAGGAAGTGCACCAGAAGCAGCAGCTCAGGTAGCACAGTGGGTTAGCTTTACAGACAGTCGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCACCTTGGGAATCATGCACCACAACAAACAGgtaaattttgttggtggtggtccaccactagagtgagaatggtaagtgca #### Efemp2_ID1033_6 --> 2 - 1 Original Alignment atGTGAATGAGTGTGACATGGGAGCCCCATGT-GAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCg gcagtccatgactttcgccttcctatctcaaattatgcttgtgtttttagatGTGAATGAGTGTGACATGGGAGCCCCTTGTCGAGCAGCGTTGTTTCAATTCATACGGGACCTTTCTGTGTCGGT-TAACCAGGGCTATGAGCTGCACTGGGATGGCTTCTCCTGCAGTggtgagtgtcaactgtgacatcccctttatgccatgtagcaggatttatac Alignment from CESAR atGTGAATGAGTGTGACATGGGAGCCCCATGT-GAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCg gcagtccatgactttcgccttcctatctcaaattatgcttgtgtttttagatGTGAATGAGTGTGACATGGGAGCCCCTTGTCGAGCAGCGTTGTTTCAATTCATACGGGACCTTTCTGTGTCGG-TTAACCAGGGCTATGAGCTGCACTGGGATGGCTTCTCCTGCAGTggtgagtgtcaactgtgacatcccctttatgccatgtagcaggatttatac Alignment from Spaln_aa2Genome ATGTGAATGAGTGTGACATGGGAGCCCCATGT-GAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG gcagtccatgactttcgccttcctatctcaaattatgcttgtgtttttagATGTGAATGAGTGTGACATGGGAGCCCCTTGTcGAGCAGCGTTGTTTCAATTCATACGGGACCTTTCTGTGTCGGTT-AACCAGGGCTATGAGCTGCACTGGGATGGCTTCTCCTGCAGTGgtgagtgtcaactgtgacatcccctttatgccatgtagcaggatttatac Alignment from Spaln_nt2Genome ATGTGAATGAGTGTGACATGGGAGCCCCATGT-GAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG gcagtccatgactttcgccttcctatctcaaattatgcttgtgtttttagATGTGAATGAGTGTGACATGGGAGCCCCTTGTCGAGCAGCGTTGTTTCAATTCATACGGGACCTTTCTGTGTCGGT-TAACCAGGGCTATGAGCTGCACTGGGATGGCTTCTCCTGCAGTGgtgagtgtcaactgtgacatcccctttatgccatgtagcaggatttatac Alignment from Pairagon ATGTGAATGAGTGTGACATGGGAGCCCCATGT-GAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG gcagtccatgactttcgccttcctatctcaaattatgcttgtgtttttagATGTGAATGAGTGTGACATGGGAGCCCCTTGTCGAGCAGCGTTGTTTCAATTCATACGGGACCTTTCTGTGTCGGT-TAACCAGGGCTATGAGCTGCACTGGGATGGCTTCTCCTGCAGTGgtgagtgtcaactgtgacatcccctttatgccatgtagcaggatttatac Alignment from Exonerate_protein2genome ATGTGAATGAGTGTGACATGGGAGCCCCATGT-GAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGC--TGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG gcagtccatgactttcgccttcctatctcaaattatgcttgtgtttttagATGTGAATGAGTGTGACATGGGAGCCCCTTGTCGAGCAGCGTTGTTTCAATTCATACGGGACCTTTCTGTGTCGGTT---AACCAGGGCTATGAGCTGCACTGGGATGGCTTCTCCTGCAGTGgtgagtgtcaactgtgacatcccctttatgccatgtagcaggatttatac Alignment from Exonerate_coding2genome ATGTGAATGAGTGTGACATGGGAGCCCCATGT-GAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGC--TGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG gcagtccatgactttcgccttcctatctcaaattatgcttgtgtttttagATGTGAATGAGTGTGACATGGGAGCCCCTTGTCGAGCAGCGTTGTTTCAATTCATACGGGACCTTTCTGTGTCGGTT---AACCAGGGCTATGAGCTGCACTGGGATGGCTTCTCCTGCAGTGgtgagtgtcaactgtgacatcccctttatgccatgtagcaggatttatac Alignment from GeneWise ATGTGAATGAGTGTGACATGGGAGCCCCATGT-GAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG gcagtccatgactttcgccttcctatctcaaattatgcttgtgtttttagATGTGAATGAGTGTGACATGGGAGCCCCTTGTCGAGCAGCGTTGTTTCAATTCATACGGGACCTTTCTGTGTCGGTT-AACCAGGGCTATGAGCTGCACTGGGATGGCTTCTCCTGCAGTGgtgagtgtcaactgtgacatcccctttatgccatgtagcaggatttatac #### Efemp2_ID1034_7 --> 2 - 1 Original Alignment atATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAAC-GAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAg tctcaaattttccgcatgaccaataattggtaacctatatttctgacaagatATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAACCGAGCCTGGCCAATTCTCCTGCCACTGCCCAC-GGGCTACCAGCTGTTGGCAACAAGGCTCTGCCAAggtagagaggcttgggtggacaagcacaaaaagcccataacttaccatgag Alignment from CESAR atATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAAC-GAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAg tctcaaattttccgcatgaccaataattggtaacctatatttctgacaagatATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAACCGAGCCTGGCCAATTCTCCTGCCACTGCCCA-CGGGCTACCAGCTGTTGGCAACAAGGCTCTGCCAAggtagagaggcttgggtggacaagcacaaaaagcccataacttaccatgag Alignment from Spaln_aa2Genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaattttccgcatgaccaataattggtaacctatatttctgacaagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAACCGAGCCTGGCCAATTCTCCTGCCACTGCCCACGGGCTACCAGCTGTTGGCAACAAGGCTCTGCCAAGgtagagaggcttgggtggacaagcacaaaaagcccataacttaccatgag Alignment from Spaln_nt2Genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAA-CGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaattttccgcatgaccaataattggtaacctatatttctgacaagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAACCGAGCCTGGCCAATTCTCCTGCCACTGCCCAC-GGGCTACCAGCTGTTGGCAACAAGGCTCTGCCAAGgtagagaggcttgggtggacaagcacaaaaagcccataacttaccatgag Alignment from Pairagon ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAA-CGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaattttccgcatgaccaataattggtaacctatatttctgacaagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAACCGAGCCTGGCCAATTCTCCTGCCACTGCCCAC-GGGCTACCAGCTGTTGGCAACAAGGCTCTGCCAAGgtagagaggcttgggtggacaagcacaaaaagcccataacttaccatgag Alignment from Exonerate_protein2genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaattttccgcatgaccaataattggtaacctatatttctgacaagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAACCGAGCCTGGCCAATTCTCCTGCCACTGCCCACGGGCTACCAGCTGTTGGCAACAAGGCTCTGCCAAGgtagagaggcttgggtggacaagcacaaaaagcccataacttaccatgag Alignment from Exonerate_coding2genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaattttccgcatgaccaataattggtaacctatatttctgacaagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAACCGAGCCTGGCCAATTCTCCTGCCACTGCCCACGGGCTACCAGCTGTTGGCAACAAGGCTCTGCCAAGgtagagaggcttgggtggacaagcacaaaaagcccataacttaccatgag Alignment from GeneWise ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaattttccgcatgaccaataattggtaacctatatttctgacaagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAACCGAGCCTGGCCAATTCTCCTGCCACTGCCCACGGGCTACCAGCTGTTGGCAACAAGGCTCTGCCAAGgtagagaggcttgggtggacaagcacaaaaagcccataacttaccatgag #### Efemp2_ID1035_8 --> 2 - 2 Original Alignment atATTGACGAGTGTGAAACAGGTGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAAC-TTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACaa taccatgagtatggaactaagactctccgacatgctctcctgtttcctagagTTAGGAGACTGTGAGACAGGTGTCCACCGATGTTCTGAGGCCCAAACTTGTGTCAACCTTCCATGCTGGTTACCGCTGTGTCGAGATCA-CCGCTGTGTAGAGCCATATGTTCATGTATCGGACaagtgaggacacctggcacttgctgacttgcataggtcaagatgttagtggg Alignment from CESAR atATTGACGAGTGTGAAACAGGTGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAAC-TTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACaa taccatgagtatggaactaagactctccgacatgctctcctgtttcctagagTTAGGAGACTGTGAGACAGGTGTCCACCGATGTTCTGAGGCCCAAACTTGTGTCAACCTTCCATGCTGGTTACCGCTGTGTCGAG-ATCACCGCTGTGTAGAGCCATATGTTCATGTATCGGACaagtgaggacacctggcacttgctgacttgcataggtcaagatgttagtggg Alignment from Spaln_aa2Genome ATATTGACGAGTGTGAAACAGGTGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACAA taccatgagtatggaactaagactctccgacatgctctcctgtttcctagAGTTAGGAGACTGTGAGACAGGTGTCCACCGATGTTCTGAGGCCCAAACTTGTGTCAACCTTCCATGCTGGTTACCGCTGTGTCGAGATCACCGCTGTGTAGAGCCATATGTTCATGTATCGGACAAgtgaggacacctggcacttgctgacttgcataggtcaagatgttagtggg Alignment from Spaln_nt2Genome ATATTGACGAGTGTGAAACAGGTGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAAC-TTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACAA taccatgagtatggaactaagactctccgacatgctctcctgtttcctagAGTTAGGAGACTGTGAGACAGGTGTCCACCGATGTTCTGAGGCCCAAACTTGTGTCAACCTTCCATGCTGGTTACCGCTGTGTCGAGATC-ACCGCTGTGTAGAGCCATATGTTCATGTATCGGACAAgtgaggacacctggcacttgctgacttgcataggtcaagatgttagtggg Alignment from Pairagon ATATTGACGAGTGTGAAACAGGTGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAA-CTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACAA taccatgagtatggaactaagactctccgacatgctctcctgtttcctagAGTTAGGAGACTGTGAGACAGGTGTCCACCGATGTTCTGAGGCCCAAACTTGTGTCAACCTTCCATGCTGGTTACCGCTGTGTCGAGATC-ACCGCTGTGTAGAGCCATATGTTCATGTATCGGACAAgtgaggacacctggcacttgctgacttgcataggtcaagatgttagtggg Alignment from Exonerate_protein2genome ATATTGACGAGTGTGAAACAGGTGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACAA taccatgagtatggaactaagactctccgacatgctctcctgtttcctagAGTTAGGAGACTGTGAGACAGGTGTCCACCGATGTTCTGAGGCCCAAACTTGTGTCAACCTTCCATGCTGGTTACCGCTGTGTCGAGATCACCGCTGTGTAGAGCCATATGTTCATGTATCGGACAAgtgaggacacctggcacttgctgacttgcataggtcaagatgttagtggg Alignment from Exonerate_coding2genome ATATTGACGAGTGTGAAACAGGTGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACAA taccatgagtatggaactaagactctccgacatgctctcctgtttcctagAGTTAGGAGACTGTGAGACAGGTGTCCACCGATGTTCTGAGGCCCAAACTTGTGTCAACCTTCCATGCTGGTTACCGCTGTGTCGAGATCACCGCTGTGTAGAGCCATATGTTCATGTATCGGACAAgtgaggacacctggcacttgctgacttgcataggtcaagatgttagtggg Alignment from GeneWise ATATTGACGAGTGTGAAACAGGTGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACAA taccatgagtatggaactaagactctccgacatgctctcctgtttcctagAGTTAGGAGACTGTGAGACAGGTGTCCACCGATGTTCTGAGGCCCAAACTTGTGTCAACCTTCCATGCTGGTTACCGCTGTGTCGAGATCACCGCTGTGTAGAGCCATATGTTCATGTATCGGACAAgtgaggacacctggcacttgctgacttgcataggtcaagatgttagtggg #### Ehbp1l1_ID1217_18 --> 2 - 2 Original Alignment agTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTC-CTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGat ttcttcatagcagggcggaaagaagtccctctgacttctgtttcatacagaaTGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCCTCCTCGAGGGACTCGTATCTTTAGTGAACCAGAGGGAAG-GCTAGTTGGGGATTTAGATCAGAAGGAGCGGgtgtacgtgtgtgagcatgcttggtcctggggaactcccattgaggagtccc Alignment from CESAR agTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTC-CTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGat ttcttcatagcagggcggaaagaagtccctctgacttctgtttcatacagaaTGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCCTCCTCGAGGGACTCGTATCTTTAGTGAACCAGAGGGAA-GGCTAGTTGGGGATTTAGATCAGAAGGAGCGGgtgtacgtgtgtgagcatgcttggtcctggggaactcccattgaggagtccc Alignment from Spaln_aa2Genome AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGAT ttcttcatagcagggcggaaagaagtccctctgacttctgtttcatacagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCCTCCTCGAGGGACTCGTATCTTTAGTGAACCAGAGGGAAGGCTAGTTGGGGATTTAGATCAGAAGGAGCGGGTgtacgtgtgtgagcatgcttggtcctggggaactcccattgaggagtccc Alignment from Spaln_nt2Genome AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCC-TGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGAT ttcttcatagcagggcggaaagaagtccctctgacttctgtttcatacagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCCTCCTCGAGGGACTCGTATCTTTAGTGAACCAGAGGGAAG-GCTAGTTGGGGATTTAGATCAGAAGGAGCGGGTgtacgtgtgtgagcatgcttggtcctggggaactcccattgaggagtccc Alignment from Pairagon AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACT-CCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGAT ttcttcatagcagggcggaaagaagtccctctgacttctgtttcatacagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCCTCCTCGAGGGACTCGTATCTTTAGTGAACCAGAGGGAAG-GCTAGTTGGGGATTTAGATCAGAAGGAGCGGGTgtacgtgtgtgagcatgcttggtcctggggaactcccattgaggagtccc Alignment from Exonerate_protein2genome AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGAT ttcttcatagcagggcggaaagaagtccctctgacttctgtttcatacagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCCTCCTCGAGGGACTCGTATCTTTAGTGAACCAGAGGGAAGGCTAGTTGGGGATTTAGATCAGAAGGAGCGGGTgtacgtgtgtgagcatgcttggtcctggggaactcccattgaggagtccc Alignment from Exonerate_coding2genome AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGAT ttcttcatagcagggcggaaagaagtccctctgacttctgtttcatacagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCCTCCTCGAGGGACTCGTATCTTTAGTGAACCAGAGGGAAGGCTAGTTGGGGATTTAGATCAGAAGGAGCGGGTgtacgtgtgtgagcatgcttggtcctggggaactcccattgaggagtccc Alignment from GeneWise AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGAT ttcttcatagcagggcggaaagaagtccctctgacttctgtttcatacagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCCTCCTCGAGGGACTCGTATCTTTAGTGAACCAGAGGGAAGGCTAGTTGGGGATTTAGATCAGAAGGAGCGGGTgtacgtgtgtgagcatgcttggtcctggggaactcccattgaggagtccc #### Ehbp1l1_ID1227_8 --> 2 - 2 Original Alignment ctGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTC-AGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAag gggaggcaatctgaacctgcaaaagctgtccccttgctaatctgttgtagctGCCAGACCCTCTAGTGCTGAAGACACAAGTCCTGCTCCGGTAAGTGCCCCTGCGCCCCAAGTTCAGAGCTTTCCGGGGCCAAGGG---GATCCAA-TGCCATGACTGATGGG---GTGGGGCATGAGACCCTAGAGCCCCCAGCGACTCCACCTGAGACAaggtaatcatcatctcagcttctttgagcaagaagaggataccacacatccc Alignment from CESAR ctGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTC-AGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAag gggaggcaatctgaacctgcaaaagctgtccccttgctaatctgttgtagctGCCAGACCCTCTAGTGCTGAAGACACAAGTCCTGCTCCGGTAAGTGCCCCTGCGCCCCAAGTTCAGAGCTTTCCGGGGCCAAGGG---GATCCA-ATGCCATGACTGATGGG---GTGGGGCATGAGACCCTAGAGCCCCCAGCGACTCCACCTGAGACAaggtaatcatcatctcagcttctttgagcaagaagaggataccacacatccc Alignment from Spaln_aa2Genome CTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAAG gggaggcaatctgaacctgcaaaagctgtccccttgctaatctgttgtagCTGCCAGACCCTCTAGTGCTGAAGACACAAGTCCTGCTCCGGTAAGTGCCCCTGCGCCCCAAGTTCAGAGCTTTCCGGGGCCAAGGGGA---TCCAATGCCATGACTGATGGG---GTGGGGCATGAGACCCTAGAGCCCCCAGCGACTCCACCTGAGACAAGgtaatcatcatctcagcttctttgagcaagaagaggataccacacatccc Alignment from Spaln_nt2Genome CTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGT-CAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAAG gggaggcaatctgaacctgcaaaagctgtccccttgctaatctgttgtagCTGCCAGACCCTCTAGTGCTGAAGACACAAGTCCTGCTCCGGTAAGTGCCCCTGCGCCCCAAGTTCAGAGCTTTCCGGGGCCAAGGG---GATCCA-ATGCCATGACTGATGG---GGTGGGGCATGAGACCCTAGAGCCCCCAGCGACTCCACCTGAGACAAGgtaatcatcatctcagcttctttgagcaagaagaggataccacacatccc Alignment from Pairagon CTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGG-TCAGGGCCTTCCGGGGCCA------------------------GGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAAG gggaggcaatctgaacctgcaaaagctgtccccttgctaatctgttgtagCTGCCAGACCCTCTAGTGCTGAAGACACAAGTCCTGCTCCGGTAAGTGCCCCTGCGCCCCAAGTTCAGAGCTTTCCGGGGCCAAGGGGATCCAATGCCATGACTGATGG-------------------------------GGTGGGGCATGAGACCCTAGAGCCCCCAGCGACTCCACCTGAGACAAGgtaatcatcatctcagcttctttgagcaagaagaggataccacacatccc Alignment from Exonerate_protein2genome gggaggcaatctgaacctgcaaaagctgtccccttgctaatctgttgtagctgccagaccctctagtgctgaagacacaagtcctgctccggtaagtgcccctgcgccccaagttcagagctttccggggccaaggggatccaatgccatgactgatggggtggggcatgagaccctagagcccccagcgactccacctgagacaaggtaatcatcatctcagcttctttgagcaagaagaggataccacacatccc Alignment from Exonerate_coding2genome gggaggcaatctgaacctgcaaaagctgtccccttgctaatctgttgtagctgccagaccctctagtgctgaagacacaagtcctgctccggtaagtgcccctgcgccccaagttcagagctttccggggccaaggggatccaatgccatgactgatggggtggggcatgagaccctagagcccccagcgactccacctgagacaaggtaatcatcatctcagcttctttgagcaagaagaggataccacacatccc Alignment from GeneWise CTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGC---CAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAAG gggaggcaatctgaacctgcaaaagctgtccccttgctaatctgttgtagCTGCCAGACCCTCTAGTGCTGAAGACACAAGTCCTGCTCCGGTAAGTGCCCCTGCGCCCCAAGTTCAGAGCTTTCCGGGGCCAAGGGGATCCAAT------GCCATGACTGATGGG---GTGGGGCATGAGACCCTAGAGCCCCCAGCGACTCCACCTGAGACAAGgtaatcatcatctcagcttctttgagcaagaagaggataccacacatccc #### Ehbp1l1_ID1230_5 --> 0 - 2 Original Alignment GAGTCCAAGGGACAG-CGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCac ctcccccacccctgccagagcagagaacaagatatttcactttactttagGAGTCAAAGGGACAGCCGGAAAGTATTAGCAACAGTTGGTGTCAATT-AGACCATCATGCAGGGCCCCTACCTGCCCAGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCGTCAAAGTTGTGCATGCTGAGCTTAGCCTCACACTTGCAGTC---CTTCTACAAGAAGGCCGTGCCatgtttgtggacctatcctctgtcttgcacttaggcttgtcagcaggcatta Alignment from CESAR GAGTCCAAGGGACAG-CGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCac ctcccccacccctgccagagcagagaacaagatatttcactttactttagGAGTCAAAGGGACAGCCGGAAAGTATTAGCAACAGTTGGTGTCA-ATTAGACCATCATGCAGGGCCCCTACCTGCCCAGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCGTCAAAGTTGTGCATGCTGAGCTTAGCCTCACACTTGCA---GTCCTTCTACAAGAAGGCCGTGCCatgtttgtggacctatcctctgtcttgcacttaggcttgtcagcaggcatta Alignment from Spaln_aa2Genome GAGTCCAAGGGACAG-CGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC ctcccccacccctgccagagcagagaacaagatatttcactttactttagGAGTCAAAGGGACAGcCGGAAAGTATTAGCAACAGTTGGTGTCAA-TTAGACCATCATGCAGGGCCCCTACCTGCCCAGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCGTCAAAGTTGTGCATGCTGAGCTTAGCCTCACACTTGCA---GTCCTTCTACAAGAAGGCCGTGCCATgtttgtggacctatcctctgtcttgcacttaggcttgtcagcaggcatta Alignment from Spaln_nt2Genome GAGTCCAAGGGACAGC-GGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC ctcccccacccctgccagagcagagaacaagatatttcactttactttagGAGTCAAAGGGACAGCCGGAAAGTATTAGCAACAGTTGGTGTCAA-TTAGACCATCATGCAGGGCCCCTACCTGCCCAGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCGTCAAAGTTGTGCATGCTGAGCTTAGCCTCACACT---TGCAGTCCTTCTACAAGAAGGCCGTGCCATgtttgtggacctatcctctgtcttgcacttaggcttgtcagcaggcatta Alignment from Pairagon GAGTCCAAGGGACAG-CGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC ctcccccacccctgccagagcagagaacaagatatttcactttactttagGAGTCAAAGGGACAGCCGGAAAGTATTAGCAACAGTTGGTGTCAA-TTAGACCATCATGCAGGGCCCCTACCTGCCCAGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCGTCAAAGTTGTGCATGCTGAGCTTAGCCTCACACT---TGCAGTCCTTCTACAAGAAGGCCGTGCCATgtttgtggacctatcctctgtcttgcacttaggcttgtcagcaggcatta Alignment from Exonerate_protein2genome ctcccccacccctgccagagcagagaacaagatatttcactttactttaggagtcaaagggacagccggaaagtattagcaacagttggtgtcaattagaccatcatgcagggcccctacctgcccagatctcacttcaattgcggcagaagcccaagtccgtcaaagttgtgcatgctgagcttagcctcacacttgcagtccttctacaagaaggccgtgccatgtttgtggacctatcctctgtcttgcacttaggcttgtcagcaggcatta Alignment from Exonerate_coding2genome ctcccccacccctgccagagcagagaacaagatatttcactttactttaggagtcaaagggacagccggaaagtattagcaacagttggtgtcaattagaccatcatgcagggcccctacctgcccagatctcacttcaattgcggcagaagcccaagtccgtcaaagttgtgcatgctgagcttagcctcacacttgcagtccttctacaagaaggccgtgccatgtttgtggacctatcctctgtcttgcacttaggcttgtcagcaggcatta Alignment from GeneWise GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC ctcccccacccctgccagagcagagaacaagatatttcactttactttagGAGTCAAAGGGACAGCCGGAAAGTATTAGCAACAGTTGGTGTCAATTAGACCATCATGCAGGGCCCCTACCTGCCCAGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCGTCAAAGTTGTGCATGCTGAGCTTAGCCTCACACTTGCA---GTCCTTCTACAAGAAGGCCGTGCCATgtttgtggacctatcctctgtcttgcacttaggcttgtcagcaggcatta #### Eif3a_ID13317_13 --> 0 - 0 Original Alignment GACCTTGAAGAACTGGATCCAGATTTT-ATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG agttgtagtactttatgataggtctaagaaagctgttttctcgtctatagGACTTTGAAGAACTGGATCAGGATTTTCATTATGGCCAAACAGGTAGAGCAGCTGGAAAAGG-AAAGAAGGAACTTCAAGAACGCCTCAAAACACAAGAAGAGAAGgtatttgtggatcactgataagatctgaaagtaaattgcatcaaaagagt Alignment from CESAR GACCTTGAAGAACTGGATCCAGATTTT-ATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG agttgtagtactttatgataggtctaagaaagctgttttctcgtctatagGACTTTGAAGAACTGGATCAGGATTTTCATTATGGCCAAACAGGTAGAGCAGCTGGAAAAGG-AAAGAAGGAACTTCAAGAACGCCTCAAAACACAAGAAGAGAAGgtatttgtggatcactgataagatctgaaagtaaattgcatcaaaagagt Alignment from Spaln_aa2Genome GACCTTGAAGAACTGGATCCAGAT-TTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG agttgtagtactttatgataggtctaagaaagctgttttctcgtctatagGACTTTGAAGAACTGGATCAGGATtTTCATTATGGCCAAACAGGTAGAGCAGCTGGAAAAGGAAAGAAG-GAACTTCAAGAACGCCTCAAAACACAAGAAGAGAAGgtatttgtggatcactgataagatctgaaagtaaattgcatcaaaagagt Alignment from Spaln_nt2Genome GACCTTGAAGAACTGGATCCAGA-TTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG agttgtagtactttatgataggtctaagaaagctgttttctcgtctatagGACTTTGAAGAACTGGATCAGGATTTTCATTATGGCCAAACAGGTAGAGCAGCTGGA-AAAGGAAAGAAGGAACTTCAAGAACGCCTCAAAACACAAGAAGAGAAGgtatttgtggatcactgataagatctgaaagtaaattgcatcaaaagagt Alignment from Pairagon GACCTTGAAGAACTGGATCCAGATTTT-ATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG agttgtagtactttatgataggtctaagaaagctgttttctcgtctatagGACTTTGAAGAACTGGATCAGGATTTTCATTATGGCCAAACAGGTAGAGCAGCTGGA-AAAGGAAAGAAGGAACTTCAAGAACGCCTCAAAACACAAGAAGAGAAGgtatttgtggatcactgataagatctgaaagtaaattgcatcaaaagagt Alignment from Exonerate_protein2genome GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG agttgtagtactttatgataggtctaagaaagctgttttctcgtctatagGACTTTGAAGAACTGGATCAGGATTTTCATTATGGCCAAACAGGTAGAGCAGCTGGAAAAGGAAAGAAGGAACTTCAAGAACGCCTCAAAACACAAGAAGAGAAGgtatttgtggatcactgataagatctgaaagtaaattgcatcaaaagagt Alignment from Exonerate_coding2genome GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG agttgtagtactttatgataggtctaagaaagctgttttctcgtctatagGACTTTGAAGAACTGGATCAGGATTTTCATTATGGCCAAACAGGTAGAGCAGCTGGAAAAGGAAAGAAGGAACTTCAAGAACGCCTCAAAACACAAGAAGAGAAGgtatttgtggatcactgataagatctgaaagtaaattgcatcaaaagagt Alignment from GeneWise GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG agttgtagtactttatgataggtctaagaaagctgttttctcgtctatagGACTTTGAAGAACTGGATCAGGATTTTCATTATGGCCAAACAGGTAGAGCAGCTGGAAAAGGAAAGAAGGAACTTCAAGAACGCCTCAAAACACAAGAAGAGAAGgtatttgtggatcactgataagatctgaaagtaaattgcatcaaaagagt #### Eif3a_ID13319_11 --> 0 - 0 Original Alignment GTACGTATTGACCATACTTCCCGGACT-CTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG agttgacttaacagtctgaacatacagtaaatgctttctttccacaacagGTACGTATAGACCATACCTCCCGGACCCCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAG-AGATGCCCCAGTTGGCCCACATCTACAAGGTATGCCTTCGGAACAGATAAGGAACCAGCTCACTGCTATGTCCTCAGTGCTTGCCAAAGCACTAGGAATTATTAGGCCTGCACACATTTTGgtatgtatctagggaagggatgatttgcacaagaattaatatcatgagag Alignment from CESAR GTACGTATTGACCATACTTCCCGGACT-CTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG agttgacttaacagtctgaacatacagtaaatgctttctttccacaacagGTACGTATAGACCATACCTCCCGGACCCCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAG-AGATGCCCCAGTTGGCCCACATCTACAAGGTATGCCTTCGGAACAGATAAGGAACCAGCTCACTGCTATGTCCTCAGTGCTTGCCAAAGCACTAGGAATTATTAGGCCTGCACACATTTTGgtatgtatctagggaagggatgatttgcacaagaattaatatcatgagag Alignment from Spaln_aa2Genome GTACGTATTGACCATACTTCCCGGACT-CTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG agttgacttaacagtctgaacatacagtaaatgctttctttccacaacagGTACGTATAGACCATACCTCCCGGACCcCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGA-GATGCCCCAGTTGGCCCACATCTACAAGGTATGCCTTCGGAACAGATAAGGAACCAGCTCACTGCTATGTCCTCAGTGCTTGCCAAAGCACTAGGAATTATTAGGCCTGCACACATTTTGgtatgtatctagggaagggatgatttgcacaagaattaatatcatgagag Alignment from Spaln_nt2Genome GTACGTATTGACCATACTTCCCGGACTC-TGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG agttgacttaacagtctgaacatacagtaaatgctttctttccacaacagGTACGTATAGACCATACCTCCCGGACCCCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAG-AGATGCCCCAGTTGGCCCACATCTACAAGGTATGCCTTCGGAACAGATAAGGAACCAGCTCACTGCTATGTCCTCAGTGCTTGCCAAAGCACTAGGAATTATTAGGCCTGCACACATTTTGgtatgtatctagggaagggatgatttgcacaagaattaatatcatgagag Alignment from Pairagon GTACGTATTGACCATACTTCCCGGA-CTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG agttgacttaacagtctgaacatacagtaaatgctttctttccacaacagGTACGTATAGACCATACCTCCCGGACCCCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAG-AGATGCCCCAGTTGGCCCACATCTACAAGGTATGCCTTCGGAACAGATAAGGAACCAGCTCACTGCTATGTCCTCAGTGCTTGCCAAAGCACTAGGAATTATTAGGCCTGCACACATTTTGgtatgtatctagggaagggatgatttgcacaagaattaatatcatgagag Alignment from Exonerate_protein2genome GTACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG agttgacttaacagtctgaacatacagtaaatgctttctttccacaacagGTACGTATAGACCATACCTCCCGGACCCCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAGATGCCCCAGTTGGCCCACATCTACAAGGTATGCCTTCGGAACAGATAAGGAACCAGCTCACTGCTATGTCCTCAGTGCTTGCCAAAGCACTAGGAATTATTAGGCCTGCACACATTTTGgtatgtatctagggaagggatgatttgcacaagaattaatatcatgagag Alignment from Exonerate_coding2genome GTACGTATTGACCATACTTCCCGGACTCT---GAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG agttgacttaacagtctgaacatacagtaaatgctttctttccacaacagGTACGTATAGACCATACCTCCCGGACC--CCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGA-GATGCCCCAGTTGGCCCACATCTACAAGGTATGCCTTCGGAACAGATAAGGAACCAGCTCACTGCTATGTCCTCAGTGCTTGCCAAAGCACTAGGAATTATTAGGCCTGCACACATTTTGgtatgtatctagggaagggatgatttgcacaagaattaatatcatgagag Alignment from GeneWise GTACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG agttgacttaacagtctgaacatacagtaaatgctttctttccacaacagGTACGTATAGACCATACCTCCCGGACCCCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAGATGCCCCAGTTGGCCCACATCTACAAGGTATGCCTTCGGAACAGATAAGGAACCAGCTCACTGCTATGTCCTCAGTGCTTGCCAAAGCACTAGGAATTATTAGGCCTGCACACATTTTGgtatgtatctagggaagggatgatttgcacaagaattaatatcatgagag #### Eml3_ID2507_6 --> 2 - 2 Original Alignment aaGGCATTTCAGTGAAG-ATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGgt gtgccaagtgctctcctaaaaggaggctagtcccagcatctccctcccagaaGGGATCTCAGTGAAGCATGTTCCTTTGTGGCCGTCCCATTACAATGTACATTCCATCTG-GGTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCCTGACCCTTGATTGGgtgtgtgtggttgaaactgtcacacacaatagaaagcctggcacttttgcag Alignment from CESAR aaGGCATTTCAGTGAAG-ATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGgt gtgccaagtgctctcctaaaaggaggctagtcccagcatctccctcccagaaGGGATCTCAGTGAAGCATGTTCCTTTGTGGCCGTCCCATTACAATGTACATTCCATCTG-GGTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCCTGACCCTTGATTGGgtgtgtgtggttgaaactgtcacacacaatagaaagcctggcacttttgcag Alignment from Spaln_aa2Genome AAGGCATTTCAGTGAAG-ATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT gtgccaagtgctctcctaaaaggaggctagtcccagcatctccctcccagAAGGGATCTCAGTGAAGcATGTTCCTTTGTGGCCGTCCCATTACAATGTACATTCCATCTGG-GTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCCTGACCCTTGATTGGGTgtgtgtggttgaaactgtcacacacaatagaaagcctggcacttttgcag Alignment from Spaln_nt2Genome AAGGCATTTCAGTGAAG-ATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT gtgccaagtgctctcctaaaaggaggctagtcccagcatctccctcccagAAGGGATCTCAGTGAAGCATGTTCCTTTGTGGCCGTCCCATTACAATGTACATTCCATCTGG-GTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCCTGACCCTTGATTGGGTgtgtgtggttgaaactgtcacacacaatagaaagcctggcacttttgcag Alignment from Pairagon AAGGCATTTCAGTGAAG-ATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT gtgccaagtgctctcctaaaaggaggctagtcccagcatctccctcccagAAGGGATCTCAGTGAAGCATGTTCCTTTGTGGCCGTCCCATTACAATGTACATTCCATCTGG-GTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCCTGACCCTTGATTGGGTgtgtgtggttgaaactgtcacacacaatagaaagcctggcacttttgcag Alignment from Exonerate_protein2genome AAGGCATTTCAGTGAAG-ATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGC--ATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT gtgccaagtgctctcctaaaaggaggctagtcccagcatctccctcccagAAGGGATCTCAGTGAAGCATGTTCCTTTGTGGCCGTCCCATTACAATGTACATTCCATCTGGGTC---CGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCCTGACCCTTGATTGGGTgtgtgtggttgaaactgtcacacacaatagaaagcctggcacttttgcag Alignment from Exonerate_coding2genome AAGGCATTTCAGTGAAGAT---GTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT gtgccaagtgctctcctaaaaggaggctagtcccagcatctccctcccagAAGGGATCTCAGTGAAG--CATGTTCCTTTGTGGCCGTCCCATTACAATGTACATTCCATCTGG-GTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCCTGACCCTTGATTGGGTgtgtgtggttgaaactgtcacacacaatagaaagcctggcacttttgcag Alignment from GeneWise CATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT gtgccaagtgctctcctaaaaggaggctagtcccagcatctccctcccagaagggatctcagtgaagC------------ATGTTCCTTTGTGGCCGTCCCATTACAATGTACATTCCATCTGGGTC-CGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCCTGACCCTTGATTGGGTgtgtgtggttgaaactgtcacacacaatagaaagcctggcacttttgcag #### Eml3_ID2508_7 --> 1 - 2 Original Alignment tTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTA-GTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGAtg ttccttctgctaacccccttccatggccttcattttctctttttccaaagtTATGGTTATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCTCTGGGGAGGTCGTCTATCTTATTGCCTGTGTACGTGGTACTGTACCGGCCGGGAGGAGGCCCGGGTGGACCAG-AGGTGGTGGTCAGAGACATTATCGGGGTCACACAGACTGTGTTCGAtggtaagcattgtggtaaatactttattcctgttgccttcaaggaacatctt Alignment from CESAR tTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTA-GTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGAtg ttccttctgctaacccccttccatggccttcattttctctttttccaaagtTATGGTTATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCTCTGGGGAGGTCGTCTATCTTATTGCCTGTGTACGTGGTACTGTACCGGCCGGGAGGAGGCCCGGGTGGACCA-GAGGTGGTGGTCAGAGACATTATCGGGGTCACACAGACTGTGTTCGAtggtaagcattgtggtaaatactttattcctgttgccttcaaggaacatctt Alignment from Spaln_aa2Genome TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTA-GTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttccttctgctaacccccttccatggccttcattttctctttttccaaagTTATGGTTATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCTCTGGGGAGGTCGTCTATCTTATTGCCTGTGTAcGTGGTACTGTACCGGCCGGGAGGAGGCCCGGGTGGACCAGA-GGTGGTGGTCAGAGACATTATCGGGGTCACACAGACTGTGTTCGATGgtaagcattgtggtaaatactttattcctgttgccttcaaggaacatctt Alignment from Spaln_nt2Genome TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTA-GTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttccttctgctaacccccttccatggccttcattttctctttttccaaagTTATGGTTATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCTCTGGGGAGGTCGTCTATCTTATTGCCTGTGTACGTGGTACTGTACCGGCCGGGAGGAGGCCCGGGTGGACC-AGAGGTGGTGGTCAGAGACATTATCGGGGTCACACAGACTGTGTTCGATGgtaagcattgtggtaaatactttattcctgttgccttcaaggaacatctt Alignment from Pairagon TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTA-GTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttccttctgctaacccccttccatggccttcattttctctttttccaaagTTATGGTTATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCTCTGGGGAGGTCGTCTATCTTATTGCCTGTGTACGTGGTACTGTACCGGCCGGGAGGAGGCCCGGGTGGACC-AGAGGTGGTGGTCAGAGACATTATCGGGGTCACACAGACTGTGTTCGATGgtaagcattgtggtaaatactttattcctgttgccttcaaggaacatctt Alignment from Exonerate_protein2genome TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTA-GTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCT--GGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttccttctgctaacccccttccatggccttcattttctctttttccaaagTTATGGTTATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCTCTGGGGAGGTCGTCTATCTTATTGCCTGTGTACGTGGTACTGTACCGGCCGGGAGGAGGCCCGGGTGGACCAGA---GGTGGTGGTCAGAGACATTATCGGGGTCACACAGACTGTGTTCGATGgtaagcattgtggtaaatactttattcctgttgccttcaaggaacatctt Alignment from Exonerate_coding2genome TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTA-GTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCT--GGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttccttctgctaacccccttccatggccttcattttctctttttccaaagTTATGGTTATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCTCTGGGGAGGTCGTCTATCTTATTGCCTGTGTACGTGGTACTGTACCGGCCGGGAGGAGGCCCGGGTGGACCAGA---GGTGGTGGTCAGAGACATTATCGGGGTCACACAGACTGTGTTCGATGgtaagcattgtggtaaatactttattcctgttgccttcaaggaacatctt Alignment from GeneWise TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttccttctgctaacccccttccatggccttcattttctctttttccaaagTTATGGTTATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCTCTGGGGAGGTCGTCTATCTTATTGCCTGTGTACGTGGTACTGTACCGGCCGGGAGGAGGCCCGGGTGGACCAGAGGTGGTGGTCAGAGACATTATCGGGGTCACACAGACTGTGTTCGATGgtaagcattgtggtaaatactttattcctgttgccttcaaggaacatctt #### Eml3_ID2509_8 --> 1 - 0 Original Alignment cCTTGCTGTTCACCCTGAT-GGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG acgtggagttttaatgtaggatttcatgagagtctgcttctctcgcacagtCTTGCTGTTCATCCTGATCGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGAGTGG-CAAGGATGGGAAGgtaagagccagtgtgcagatggcaatgagattatggatcaagttttctgc Alignment from CESAR cCTTGCTGTTCACCCTGAT-GGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG acgtggagttttaatgtaggatttcatgagagtctgcttctctcgcacagtCTTGCTGTTCATCCTGATCGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGAGTG-GCAAGGATGGGAAGgtaagagccagtgtgcagatggcaatgagattatggatcaagttttctgc Alignment from Spaln_aa2Genome CCTTGCTGTTCACCCTGAT-GGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG acgtggagttttaatgtaggatttcatgagagtctgcttctctcgcacagTCTTGCTGTTCATCCTGATcGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGAGTGGC-AAGGATGGGAAGgtaagagccagtgtgcagatggcaatgagattatggatcaagttttctgc Alignment from Spaln_nt2Genome CCTTGCTGTTCACCCTGAT-GGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG acgtggagttttaatgtaggatttcatgagagtctgcttctctcgcacagTCTTGCTGTTCATCCTGATCGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGAGTGG-CAAGGATGGGAAGgtaagagccagtgtgcagatggcaatgagattatggatcaagttttctgc Alignment from Pairagon CCTTGCTGTTCACCCTGAT-GGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG acgtggagttttaatgtaggatttcatgagagtctgcttctctcgcacagTCTTGCTGTTCATCCTGATCGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGAGTGG-CAAGGATGGGAAGgtaagagccagtgtgcagatggcaatgagattatggatcaagttttctgc Alignment from Exonerate_protein2genome CCTTGCTGTTCACCCTGAT-GGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAA acgtggagttttaatgtaggatttcatgagagtctgcttctctcgcacagTCTTGCTGTTCATCCTGATCGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGAGTGGCAAGGATGGGAAGgtaagagccagtgtgcagatggcaatgagattatggatcaagttttctgc Alignment from Exonerate_coding2genome CCTTGCTGTTCACCCTGAT-GGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAA acgtggagttttaatgtaggatttcatgagagtctgcttctctcgcacagTCTTGCTGTTCATCCTGATCGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGAGTGGCAAGGATGGGAAGgtaagagccagtgtgcagatggcaatgagattatggatcaagttttctgc Alignment from GeneWise CCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG acgtggagttttaatgtaggatttcatgagagtctgcttctctcgcacagTCTTGCTGTTCATCCTGATCGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGAGTGGCAAGGATGGGAAGgtaagagccagtgtgcagatggcaatgagattatggatcaagttttctgc #### Eml3_ID2510_9 --> 0 - 0 Original Alignment CCCCTGCAGCCCGTGGTT-CATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gattatggatcaagttttctgccccgctcccagcttccttcctgtctcagCCCCTGCAGCCGGTGGTTCCATACCTGGGACTCAGAAACACTCCTAAAACTACAGG-AATTGGCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtgagtcaggcatgggggcatgtttgtgaccttattatgttgtttgataa Alignment from CESAR CCCCTGCAGCCCGTGGTT-CATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gattatggatcaagttttctgccccgctcccagcttccttcctgtctcagCCCCTGCAGCCGGTGGTTCCATACCTGGGACTCAGAAACACTCCTAAAACTACAGG-AATTGGCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtgagtcaggcatgggggcatgtttgtgaccttattatgttgtttgataa Alignment from Spaln_aa2Genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gattatggatcaagttttctgccccgctcccagcttccttcctgtctcagCCCCTGCAGCCGGTGGTTCCATACCTGGGACTCAGAAACACTCCTAAAACTACAGGAATTGGCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtgagtcaggcatgggggcatgtttgtgaccttattatgttgtttgataa Alignment from Spaln_nt2Genome CCCCTGCAGCCCGTGGTT-CATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gattatggatcaagttttctgccccgctcccagcttccttcctgtctcagCCCCTGCAGCCGGTGGTTCCATACCTGGGACTCAGAAACACTCCTAAAACTACAGGA-ATTGGCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtgagtcaggcatgggggcatgtttgtgaccttattatgttgtttgataa Alignment from Pairagon CCCCTGCAGCCCGTGGTT-CATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gattatggatcaagttttctgccccgctcccagcttccttcctgtctcagCCCCTGCAGCCGGTGGTTCCATACCTGGGACTCAGAAACACTCCTAAAACTACAGGA-ATTGGCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtgagtcaggcatgggggcatgtttgtgaccttattatgttgtttgataa Alignment from Exonerate_protein2genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gattatggatcaagttttctgccccgctcccagcttccttcctgtctcagCCCCTGCAGCCGGTGGTTCCATACCTGGGACTCAGAAACACTCCTAAAACTACAGGAATTGGCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtgagtcaggcatgggggcatgtttgtgaccttattatgttgtttgataa Alignment from Exonerate_coding2genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gattatggatcaagttttctgccccgctcccagcttccttcctgtctcagCCCCTGCAGCCGGTGGTTCCATACCTGGGACTCAGAAACACTCCTAAAACTACAGGAATTGGCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtgagtcaggcatgggggcatgtttgtgaccttattatgttgtttgataa Alignment from GeneWise --------------------------------------------------CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG GATTATGGATCAAGTTTTCTGCCCCGCTCCCAGCTTCCTTCCTGTCTCAGCCCCTGCAGCCGGTGGTTCCATACCTGGGACTCAGAAACACTCCTAAAACTACAGGAATTGGCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtgagtcaggcatgggggcatgtttgtgaccttattatgttgtttgataa #### Eml3_ID2512_11 --> 0 - 0 Original Alignment AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCAT-GTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG aaggcctgcacttgcctcagtgtgagtacctctctctctggtcacttcagAGTACAAATGACTCCGTACTTGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTCACTAGCGGAAAATCACATCGTCCACTTTTGGAACTGGAGTGGTGGCACAGGGGCTC-TGGGAATGGACTCCTTGCACGGAAGCAGGGTGTTCTTGGGgtaagttgggtaaggtcaccaaaggcactgcatactcattataacacacc Alignment from CESAR AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCAT-GTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG aaggcctgcacttgcctcagtgtgagtacctctctctctggtcacttcagAGTACAAATGACTCCGTACTTGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTCACTAGCGGAAAATCACATCGTCCACTTTTGGAACTGGAGTGGTGGCACAGGGG-CTCTGGGAATGGACTCCTTGCACGGAAGCAGGGTGTTCTTGGGgtaagttgggtaaggtcaccaaaggcactgcatactcattataacacacc Alignment from Spaln_aa2Genome AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCAT-GTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG aaggcctgcacttgcctcagtgtgagtacctctctctctggtcacttcagAGTACAAATGACTCCGTACTTGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTCACTAGCGGAAAATCACATcGTCCACTTTTGGAACTGGAGTGGTGGCACAGGGGCTCTGGG-AATGGACTCCTTGCACGGAAGCAGGGTGTTCTTGGGgtaagttgggtaaggtcaccaaaggcactgcatactcattataacacacc Alignment from Spaln_nt2Genome AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCAT-GTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG aaggcctgcacttgcctcagtgtgagtacctctctctctggtcacttcagAGTACAAATGACTCCGTACTTGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTCACTAGCGGAAAATCACATCGTCCACTTTTGGAACTGGAGTGGTGGCACAGGGGCT-CTGGGAATGGACTCCTTGCACGGAAGCAGGGTGTTCTTGGGgtaagttgggtaaggtcaccaaaggcactgcatactcattataacacacc Alignment from Pairagon AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCAT-GTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG aaggcctgcacttgcctcagtgtgagtacctctctctctggtcacttcagAGTACAAATGACTCCGTACTTGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTCACTAGCGGAAAATCACATCGTCCACTTTTGGAACTGGAGTGGTGGCACAGGGGCT-CTGGGAATGGACTCCTTGCACGGAAGCAGGGTGTTCTTGGGgtaagttgggtaaggtcaccaaaggcactgcatactcattataacacacc Alignment from Exonerate_protein2genome AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCAT-GTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCT--CCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG aaggcctgcacttgcctcagtgtgagtacctctctctctggtcacttcagAGTACAAATGACTCCGTACTTGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTCACTAGCGGAAAATCACATCGTCCACTTTTGGAACTGGAGTGGTGGCACAGGGGCTCT---GGGAATGGACTCCTTGCACGGAAGCAGGGTGTTCTTGGGgtaagttgggtaaggtcaccaaaggcactgcatactcattataacacacc Alignment from Exonerate_coding2genome AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCAT-GTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCT--CCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG aaggcctgcacttgcctcagtgtgagtacctctctctctggtcacttcagAGTACAAATGACTCCGTACTTGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTCACTAGCGGAAAATCACATCGTCCACTTTTGGAACTGGAGTGGTGGCACAGGGGCTCT---GGGAATGGACTCCTTGCACGGAAGCAGGGTGTTCTTGGGgtaagttgggtaaggtcaccaaaggcactgcatactcattataacacacc Alignment from GeneWise AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCAT-GTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG aaggcctgcacttgcctcagtgtgagtacctctctctctggtcacttcagAGTACAAATGACTCCGTACTTGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTCACTAGCGGAAAATCACATCGTCCACTTTTGGAACTGGAGTGGTGGCACAGGGGCTCT-GGGAATGGACTCCTTGCACGGAAGCAGGGTGTTCTTGGGgtaagttgggtaaggtcaccaaaggcactgcatactcattataacacacc #### Eml3_ID2519_18 --> 2 - 0 Original Alignment atGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTAC-ATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG caaatatggtagcccctggtgtcacaaacctcgcgaatctgtatccccagatGGGTTGTACCTTGCAATAGGTTCACATGACAATATGATTTACCATATACAGTATTTCCAGTTGTGGTACCAAAT-TAGCCGCTTTGGAAGGTGTATGgtatgtcttcctggaggttctatcttccttactttggttatgagcacaag Alignment from CESAR atGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTAC-ATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG caaatatggtagcccctggtgtcacaaacctcgcgaatctgtatccccagatGGGTTGTACCTTGCAATAGGTTCACATGACAATATGATTTACCATATACAGTATTTCCAGTTGTGGTACCAAA-TTAGCCGCTTTGGAAGGTGTATGgtatgtcttcctggaggttctatcttccttactttggttatgagcacaag Alignment from Spaln_aa2Genome ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG caaatatggtagcccctggtgtcacaaacctcgcgaatctgtatccccagATGGGTTGTACCTTGCAATAGGTTCACATGACAATATGATTTACCATATACAGTATTTCCAGTTGTGGTACCAAATTAGCCGCTTTGGAAGGTGTATGgtatgtcttcctggaggttctatcttccttactttggttatgagcacaag Alignment from Spaln_nt2Genome ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTAC-ATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG caaatatggtagcccctggtgtcacaaacctcgcgaatctgtatccccagATGGGTTGTACCTTGCAATAGGTTCACATGACAATATGATTTACCATATACAGTATTTCCAGTTGTGGTACCAAAT-TAGCCGCTTTGGAAGGTGTATGgtatgtcttcctggaggttctatcttccttactttggttatgagcacaag Alignment from Pairagon ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTA-CATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG caaatatggtagcccctggtgtcacaaacctcgcgaatctgtatccccagATGGGTTGTACCTTGCAATAGGTTCACATGACAATATGATTTACCATATACAGTATTTCCAGTTGTGGTACCAAAT-TAGCCGCTTTGGAAGGTGTATGgtatgtcttcctggaggttctatcttccttactttggttatgagcacaag Alignment from Exonerate_protein2genome ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG caaatatggtagcccctggtgtcacaaacctcgcgaatctgtatccccagATGGGTTGTACCTTGCAATAGGTTCACATGACAATATGATTTACCATATACAGTATTTCCAGTTGTGGTACCAAATTAGCCGCTTTGGAAGGTGTATGgtatgtcttcctggaggttctatcttccttactttggttatgagcacaag Alignment from Exonerate_coding2genome ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG caaatatggtagcccctggtgtcacaaacctcgcgaatctgtatccccagATGGGTTGTACCTTGCAATAGGTTCACATGACAATATGATTTACCATATACAGTATTTCCAGTTGTGGTACCAAATTAGCCGCTTTGGAAGGTGTATGgtatgtcttcctggaggttctatcttccttactttggttatgagcacaag Alignment from GeneWise ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG caaatatggtagcccctggtgtcacaaacctcgcgaatctgtatccccagATGGGTTGTACCTTGCAATAGGTTCACATGACAATATGATTTACCATATACAGTATTTCCAGTTGTGGTACCAAATTAGCCGCTTTGGAAGGTGTATGgtatgtcttcctggaggttctatcttccttactttggttatgagcacaag #### Eml3_ID2522_21 --> 2 - 0 Original Alignment gtGTGTGGCCTGATGGC-TCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG gtgggagccaaaggatgaatgaaaagtgcgggtgccgtatttggtttcaggtGTATGGCCTGGTGGCCTGCGATGGTACGGGCATCAATTCCCTATGCCCTTCACACA-TGAACGGGTGGTAGCTGTTGCAGATGATTGCTGTAAAGTACATGTCTTTCAGTACCCCTGTGCCCGGGCCAAAgtcagtctctatcagcctattgggcccaggaacaaacagttgtggttact Alignment from CESAR gtGTGTGGCCTGATGGC-TCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG gtgggagccaaaggatgaatgaaaagtgcgggtgccgtatttggtttcaggtGTATGGCCTGGTGGCCTGCGATGGTACGGGCATCAATTCCCTATGCCCTTCACAC-ATGAACGGGTGGTAGCTGTTGCAGATGATTGCTGTAAAGTACATGTCTTTCAGTACCCCTGTGCCCGGGCCAAAgtcagtctctatcagcctattgggcccaggaacaaacagttgtggttact Alignment from Spaln_aa2Genome GTGTGTGGCCTGATGGC-TCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG gtgggagccaaaggatgaatgaaaagtgcgggtgccgtatttggtttcagGTGTATGGCCTGGTGGCcTGCGATGGTACGGGCATCAATTCCCTATGCCCTTCACACAT-GAACGGGTGGTAGCTGTTGCAGATGATTGCTGTAAAGTACATGTCTTTCAGTACCCCTGTGCCCGGGCCAAAgtcagtctctatcagcctattgggcccaggaacaaacagttgtggttact Alignment from Spaln_nt2Genome GTGTGTGGCCTGATGGC-TCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG gtgggagccaaaggatgaatgaaaagtgcgggtgccgtatttggtttcagGTGTATGGCCTGGTGGCCTGCGATGGTACGGGCATCAATTCCCTATGCCCTTCACAC-ATGAACGGGTGGTAGCTGTTGCAGATGATTGCTGTAAAGTACATGTCTTTCAGTACCCCTGTGCCCGGGCCAAAgtcagtctctatcagcctattgggcccaggaacaaacagttgtggttact Alignment from Pairagon GTGTGTGGCCTGATGG-CTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG gtgggagccaaaggatgaatgaaaagtgcgggtgccgtatttggtttcagGTGTATGGCCTGGTGGCCTGCGATGGTACGGGCATCAATTCCCTATGCCCTTCACAC-ATGAACGGGTGGTAGCTGTTGCAGATGATTGCTGTAAAGTACATGTCTTTCAGTACCCCTGTGCCCGGGCCAAAgtcagtctctatcagcctattgggcccaggaacaaacagttgtggttact Alignment from Exonerate_protein2genome GTGTGTGGCCTGATGGC-TCTGATGGGACAGACATCAACTCCCTTTGCCGCTCC--CACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG gtgggagccaaaggatgaatgaaaagtgcgggtgccgtatttggtttcagGTGTATGGCCTGGTGGCCTGCGATGGTACGGGCATCAATTCCCTATGCCCTTCACACAT---GAACGGGTGGTAGCTGTTGCAGATGATTGCTGTAAAGTACATGTCTTTCAGTACCCCTGTGCCCGGGCCAAAgtcagtctctatcagcctattgggcccaggaacaaacagttgtggttact Alignment from Exonerate_coding2genome GTGTGTGGCCTGATGGC-TCTGATGGGACAGACATCAACTCCCTTTGCCGCTCC--CACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG gtgggagccaaaggatgaatgaaaagtgcgggtgccgtatttggtttcagGTGTATGGCCTGGTGGCCTGCGATGGTACGGGCATCAATTCCCTATGCCCTTCACACAT---GAACGGGTGGTAGCTGTTGCAGATGATTGCTGTAAAGTACATGTCTTTCAGTACCCCTGTGCCCGGGCCAAAgtcagtctctatcagcctattgggcccaggaacaaacagttgtggttact Alignment from GeneWise GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG gtgggagccaaaggatgaatgaaaagtgcgggtgccgtatttggtttcagGTGTATGGCCTGGTGGCCTGCGATGGTACGGGCATCAATTCCCTATGCCCTTCACACATGAACGGGTGGTAGCTGTTGCAGATGATTGCTGTAAAGTACATGTCTTTCAGTACCCCTGTGCCCGGGCCAAAgtcagtctctatcagcctattgggcccaggaacaaacagttgtggttact #### Eno4_ID12833_5 --> 2 - 0 Original Alignment gaCGGAGGGATACGCTTTTGGAGAAA-CCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG tttcaacgttgccttggaaaagactagacttcattttattttacacttaggaCGGAGGGATATGCTTTTGGAGAGACCCTGTGTCACCCCCAGAGCCACCCGAACCGGTTC-GCATGGTAGCATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCAGTGATCCTCTCTACTCAGCCCTGGCATCACTGAAACAAGATCAAgtttgttaatgttgtggatgtggaaaaagatatggtggcagtatgtagag Alignment from CESAR gaCGGAGGGATACGCTTTTGGAGAAA-CCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG tttcaacgttgccttggaaaagactagacttcattttattttacacttaggaCGGAGGGATATGCTTTTGGAGAGACCCTGTGTCACCCCCAGAGCCACCCGAACCGGTT-CGCATGGTAGCATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCAGTGATCCTCTCTACTCAGCCCTGGCATCACTGAAACAAGATCAAgtttgttaatgttgtggatgtggaaaaagatatggtggcagtatgtagag Alignment from Spaln_aa2Genome GACGGAGGGATACGCTTTTGGAGAAACCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG tttcaacgttgccttggaaaagactagacttcattttattttacacttagGACGGAGGGATATGCTTTTGGAGAGACCCTGTGTCACCCCCAGAGCCACCCGAACCGGTTCGCATGGTAGCATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCAGTGATCCTCTCTACTCAGCCCTGGCATCACTGAAACAAGATCAAgtttgttaatgttgtggatgtggaaaaagatatggtggcagtatgtagag Alignment from Spaln_nt2Genome GACGGAGGGATACGCTTTTGGAGAAACC-TGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG tttcaacgttgccttggaaaagactagacttcattttattttacacttagGACGGAGGGATATGCTTTTGGAGAGACCCTGTGTCACCCCCAGAGCCACCCGAACCGGTTC-GCATGGTAGCATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCAGTGATCCTCTCTACTCAGCCCTGGCATCACTGAAACAAGATCAAgtttgttaatgttgtggatgtggaaaaagatatggtggcagtatgtagag Alignment from Pairagon GACGGAGGGATACGCTTTTGGAGAAA-CCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG tttcaacgttgccttggaaaagactagacttcattttattttacacttagGACGGAGGGATATGCTTTTGGAGAGACCCTGTGTCACCCCCAGAGCCACCCGAACCGGTTC-GCATGGTAGCATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCAGTGATCCTCTCTACTCAGCCCTGGCATCACTGAAACAAGATCAAgtttgttaatgttgtggatgtggaaaaagatatggtggcagtatgtagag Alignment from Exonerate_protein2genome GACGGAGGGATACGCTTTTGGAGAAACCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG tttcaacgttgccttggaaaagactagacttcattttattttacacttagGACGGAGGGATATGCTTTTGGAGAGACCCTGTGTCACCCCCAGAGCCACCCGAACCGGTTCGCATGGTAGCATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCAGTGATCCTCTCTACTCAGCCCTGGCATCACTGAAACAAGATCAAgtttgttaatgttgtggatgtggaaaaagatatggtggcagtatgtagag Alignment from Exonerate_coding2genome GACGGAGGGATACGCTTTTGGAGAAACCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG tttcaacgttgccttggaaaagactagacttcattttattttacacttagGACGGAGGGATATGCTTTTGGAGAGACCCTGTGTCACCCCCAGAGCCACCCGAACCGGTTCGCATGGTAGCATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCAGTGATCCTCTCTACTCAGCCCTGGCATCACTGAAACAAGATCAAgtttgttaatgttgtggatgtggaaaaagatatggtggcagtatgtagag Alignment from GeneWise GACGGAGGGATACGCTTTTGGAGAAACCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG tttcaacgttgccttggaaaagactagacttcattttattttacacttagGACGGAGGGATATGCTTTTGGAGAGACCCTGTGTCACCCCCAGAGCCACCCGAACCGGTTCGCATGGTAGCATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCAGTGATCCTCTCTACTCAGCCCTGGCATCACTGAAACAAGATCAAgtttgttaatgttgtggatgtggaaaaagatatggtggcagtatgtagag #### Exosc1_ID8337_2 --> 2 - 0 Original Alignment gcGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTAC-ACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgataagccatggttctttctcaggtGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACCACCTGGCATGGCTACATCTCTTCATCATTGGCTG-CTGTCCTATGAAGACCAGCGAGAATGGTGCAgtaagcaaggaggctccctagactgtgttcactcctccctgtgagctatt Alignment from CESAR gcGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTAC-ACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgataagccatggttctttctcaggtGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACCACCTGGCATGGCTACATCTCTTCATCATTGGCT-GCTGTCCTATGAAGACCAGCGAGAATGGTGCAgtaagcaaggaggctccctagactgtgttcactcctccctgtgagctatt Alignment from Spaln_aa2Genome GCGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgataagccatggttctttctcagGTGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACCACCTGGCATGGCTACATCTCTTCATCATTGGCTGCTGTCCTATGAAGACCAGCGAGAATGGTGCAgtaagcaaggaggctccctagactgtgttcactcctccctgtgagctatt Alignment from Spaln_nt2Genome GCGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTA-CACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgataagccatggttctttctcagGTGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACCACCTGGCATGGCTACATCTCTTCATCATTGGCT-GCTGTCCTATGAAGACCAGCGAGAATGGTGCAgtaagcaaggaggctccctagactgtgttcactcctccctgtgagctatt Alignment from Pairagon GCGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTA-CACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgataagccatggttctttctcagGTGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACCACCTGGCATGGCTACATCTCTTCATCATTGGCT-GCTGTCCTATGAAGACCAGCGAGAATGGTGCAgtaagcaaggaggctccctagactgtgttcactcctccctgtgagctatt Alignment from Exonerate_protein2genome GCGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgataagccatggttctttctcagGTGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACCACCTGGCATGGCTACATCTCTTCATCATTGGCTGCTGTCCTATGAAGACCAGCGAGAATGGTGCAgtaagcaaggaggctccctagactgtgttcactcctccctgtgagctatt Alignment from Exonerate_coding2genome GGCGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgataagccatggttctttctcaGGTGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACCACCTGGCATGGCTACATCTCTTCATCATTGGCTGCTGTCCTATGAAGACCAGCGAGAATGGTGCAgtaagcaaggaggctccctagactgtgttcactcctccctgtgagctatt Alignment from GeneWise GCACCACCGGTGAGGTACTGCATCCCCGGCGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG tgttgcaggcaacttgataagc------------CATGGTTCTTTCTCAGGTGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACCACCTGGCATGGCTACATCTCTTCATCATTGGCTGCTGTCCTATGAAGACCAGCGAGAATGGTGCAgtaagcaaggaggctccctagactgtgttcactcctccctgtgagctatt #### Fads1_ID2690_4 --> 0 - 0 Original Alignment GCTCAGGCAGGTTGGCTACAGCATGACTTTGGG-CACCTGTCAGTCTTTGGCACC---TCGACATGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttccgactccagcattggtatctagggggatgattctgtttgcttttcagGGTCAGGCAGGTTGGCTACAGCATGACTTTGGGCCGTTTGTCACTCTTTGGCACCTCATCAATGTGGAATTACC-GCTGCACCATTTTGTGATTGGACACCTAAAGgtgagtactcaaggtatggttgtcaatattttgtcaagtttttgcaaact Alignment from CESAR GCTCAGGCAGGTTGGCTACAGCATGACTTTGGG-CACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttccgactccagcattggtatctagggggatgattctgtttgcttttcagGGTCAGGCAGGTTGGCTACAGCATGACTTTGGGCCGTTTGTCACTCTTTGGCACCTCATCAATGTGGAATTAC-CGCTGCACCATTTTGTGATTGGACACCTAAAGgtgagtactcaaggtatggttgtcaatattttgtcaagtttttgcaaact Alignment from Spaln_aa2Genome GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACATGGAATCACCTG---CTACATCATTTTGTGATTGGCCACCTGAAG ttccgactccagcattggtatctagggggatgattctgtttgcttttcagGGTCAGGCAGGTTGGCTACAGCATGACTTTGGGCCGTTTGTCACTCTTTGGCACCTCATCAATGTGGAATTACCGCTGCACCATTTTGTGATTGGACACCTAAAGgtgagtactcaaggtatggttgtcaatattttgtcaagtttttgcaaact Alignment from Spaln_nt2Genome GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCT-GTCAGTCTTTGGCACCTCGACA---TGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttccgactccagcattggtatctagggggatgattctgtttgcttttcagGGTCAGGCAGGTTGGCTACAGCATGACTTTGGGCCGTTTGTCACTCTTTGGCACCTCATCAATGTGGAATTACC-GCTGCACCATTTTGTGATTGGACACCTAAAGgtgagtactcaaggtatggttgtcaatattttgtcaagtttttgcaaact Alignment from Pairagon GCTCAGGCAGGTTGGCTACAGCATGACTTTGGG-CACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttccgactccagcattggtatctagggggatgattctgtttgcttttcagGGTCAGGCAGGTTGGCTACAGCATGACTTTGGGCCGTTTGTCACTCTTTGGCACCTCATCAATGTGGAATTACC-GCTGCACCATTTTGTGATTGGACACCTAAAGgtgagtactcaaggtatggttgtcaatattttgtcaagtttttgcaaact Alignment from Exonerate_protein2genome GCTCAGGCAGGTTGGCTACAGCATGACTTTGGG---CACCTGTCAGTCTTTGGCACCTCGACATGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttccgactccagcattggtatctagggggatgattctgtttgcttttcagGGTCAGGCAGGTTGGCTACAGCATGACTTTGGGCCGTTTGTCACTCTTTGGCACCTCATCAATGTGGAATTACCGCTGCACCATTTTGTGATTGGACACCTAAAGgtgagtactcaaggtatggttgtcaatattttgtcaagtttttgcaaact Alignment from Exonerate_coding2genome GCTCAGGCAGGTTGGCTACAGCATGACTTTGGG---CACCTGTCAGTCTTTGGCACCTCGACATGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttccgactccagcattggtatctagggggatgattctgtttgcttttcagGGTCAGGCAGGTTGGCTACAGCATGACTTTGGGCCGTTTGTCACTCTTTGGCACCTCATCAATGTGGAATTACCGCTGCACCATTTTGTGATTGGACACCTAAAGgtgagtactcaaggtatggttgtcaatattttgtcaagtttttgcaaact Alignment from GeneWise GCTCAGGCAGGTTGGCTACAGCATGACTTTGGG---CACCTGTCAGTCTTTGGCACCTCGACATGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttccgactccagcattggtatctagggggatgattctgtttgcttttcagGGTCAGGCAGGTTGGCTACAGCATGACTTTGGGCCGTTTGTCACTCTTTGGCACCTCATCAATGTGGAATTACCGCTGCACCATTTTGTGATTGGACACCTAAAGgtgagtactcaaggtatggttgtcaatattttgtcaagtttttgcaaact #### Fads1_ID2694_8 --> 0 - 2 Original Alignment GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACT-TACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCag aatcctttaagaacagcaaaaaccttgcatgttctatgttttctacttagGATTTGGCCTGGATGCTCAGTTTCTATGCCCACATCTTTTTAGCCCTATATATCACTCCCAGGGCTGAAGGGCTTCC-AGGGCTCTTCTTCATTGTTaggtaagtataatcagtgaatttatacaagtaagcctagacaccaccagtaa Alignment from CESAR GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACT-TACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCag aatcctttaagaacagcaaaaaccttgcatgttctatgttttctacttagGATTTGGCCTGGATGCTCAGTTTCTATGCCCACATCTTTTTAGCCCTATATATCACTCCCAGGGCTGAAGGGCTTCCAGG-GCTCTTCTTCATTGTTaggtaagtataatcagtgaatttatacaagtaagcctagacaccaccagtaa Alignment from Spaln_aa2Genome GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG aatcctttaagaacagcaaaaaccttgcatgttctatgttttctacttagGATTTGGCCTGGATGCTCAGTTTCTATGCCCACATCTTTTTAGCCCTATATATCACTCCCAGGGCTGAAGGGCTTCCAGGGCTCTTCTTCATTGTTAGgtaagtataatcagtgaatttatacaagtaagcctagacaccaccagtaa Alignment from Spaln_nt2Genome GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACT-TACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG aatcctttaagaacagcaaaaaccttgcatgttctatgttttctacttagGATTTGGCCTGGATGCTCAGTTTCTATGCCCACATCTTTTTAGCCCTATATATCACTCCCAGGGCTGAAGGGCTTCCAGGG-CTCTTCTTCATTGTTAGgtaagtataatcagtgaatttatacaagtaagcctagacaccaccagtaa Alignment from Pairagon GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCT------------TCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG aatcctttaagaacagcaaaaaccttgcatgttctatgttttctacttagGATTTGGCCTGGATGCTCAGTTTCTATGCCCACATCTTTTTAGCCCTATATATCACTCCCA-----------GGGCTGAAGGGCTTCCAGGG-CTCTTCTTCATTGTTAGgtaagtataatcagtgaatttatacaagtaagcctagacaccaccagtaa Alignment from Exonerate_protein2genome GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG aatcctttaagaacagcaaaaaccttgcatgttctatgttttctacttagGATTTGGCCTGGATGCTCAGTTTCTATGCCCACATCTTTTTAGCCCTATATATCACTCCCAGGGCTGAAGGGCTTCCAGGGCTCTTCTTCATTGTTAGgtaagtataatcagtgaatttatacaagtaagcctagacaccaccagtaa Alignment from Exonerate_coding2genome GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG aatcctttaagaacagcaaaaaccttgcatgttctatgttttctacttagGATTTGGCCTGGATGCTCAGTTTCTATGCCCACATCTTTTTAGCCCTATATATCACTCCCAGGGCTGAAGGGCTTCCAGGGCTCTTCTTCATTGTTAGgtaagtataatcagtgaatttatacaagtaagcctagacaccaccagtaa Alignment from GeneWise GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG aatcctttaagaacagcaaaaaccttgcatgttctatgttttctacttagGATTTGGCCTGGATGCTCAGTTTCTATGCCCACATCTTTTTAGCCCTATATATCACTCCCAGGGCTGAAGGGCTTCCAGGGCTCTTCTTCATTGTTAGgtaagtataatcagtgaatttatacaagtaagcctagacaccaccagtaa #### Fads1_ID2696_10 --> 0 - 2 Original Alignment CTGCAGGCAACCTGC-AACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACca tgatccctacactgatacatggaaattttcactgtcctcgtttccttcagCTGCAGGCAACCTGCCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGAC-CCTGAATTTCCAGATTGAACACcagtactttcatatctccaggaaacatgggtggcacagggagaagggtaggc Alignment from CESAR CTGCAGGCAACCTGC-AACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACca tgatccctacactgatacatggaaattttcactgtcctcgtttccttcagCTGCAGGCAACCTGCCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGA-CCCTGAATTTCCAGATTGAACACcagtactttcatatctccaggaaacatgggtggcacagggagaagggtaggc Alignment from Spaln_aa2Genome GGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA tgatccctacactgatacatggaaattttcactgtcctcgtttccttcagctgcagGCAACCTGCCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGACC-CTGAATTTCCAGATTGAACACCAgtactttcatatctccaggaaacatgggtggcacagggagaagggtaggc Alignment from Spaln_nt2Genome CTGCAGGCAACCTG-CAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA tgatccctacactgatacatggaaattttcactgtcctcgtttccttcagCTGCAGGCAACCTGCCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGAC-CCTGAATTTCCAGATTGAACACCAgtactttcatatctccaggaaacatgggtggcacagggagaagggtaggc Alignment from Pairagon CTGCAGGCAACCTG-CAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA tgatccctacactgatacatggaaattttcactgtcctcgtttccttcagCTGCAGGCAACCTGCCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGAC-CCTGAATTTCCAGATTGAACACCAgtactttcatatctccaggaaacatgggtggcacagggagaagggtaggc Alignment from Exonerate_protein2genome CTGCAGGCAACCTGC-AACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGC--CACCTAAATTTCCAGATTGAACACCA tgatccctacactgatacatggaaattttcactgtcctcgtttccttcagCTGCAGGCAACCTGCCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGACC---CTGAATTTCCAGATTGAACACCAgtactttcatatctccaggaaacatgggtggcacagggagaagggtaggc Alignment from Exonerate_coding2genome CTGCAGGCAACCTGC-AACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGC--CACCTAAATTTCCAGATTGAACACCA tgatccctacactgatacatggaaattttcactgtcctcgtttccttcagCTGCAGGCAACCTGCCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGACC---CTGAATTTCCAGATTGAACACCAgtactttcatatctccaggaaacatgggtggcacagggagaagggtaggc Alignment from GeneWise GGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA tgatccctacactgatacatggaaattttcactgtcctcgtttccttcagctgcagGCAACCTGCCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGACC-CTGAATTTCCAGATTGAACACCAgtactttcatatctccaggaaacatgggtggcacagggagaagggtaggc #### Fads3_ID2662_5 --> 0 - 0 Original Alignment GGCTTTTCCGCCCACTGGTGGAATTTCCGC-CACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tagcacgcttgtacacaacaatgcagcattattctatggttgctatgcagGAC---TCTGCCCACTGGTGGAATTTCCGGCCACTTGAAGCATCATGCCAAGCCCAACATAT-CCACAAAGACCCTGATGTAACTGTTGCACCTGTCTTCCTGCTTGGTGTGTCATCTGTGGAAgtaaatggtagtccctgcgtctagaggagctgtttcccctgggtaccttg Alignment from CESAR GGCTTTTCCGCCCACTGGTGGAATTTCCGC-CACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tagcacgcttgtacacaacaatgcagcattattctatggttgctatgcagGAC---TCTGCCCACTGGTGGAATTTCCGGCCACTTGAAGCATCATGCCAAGCCCAACATA-TCCACAAAGACCCTGATGTAACTGTTGCACCTGTCTTCCTGCTTGGTGTGTCATCTGTGGAAgtaaatggtagtccctgcgtctagaggagctgtttcccctggcctctctc Alignment from Spaln_aa2Genome GGCTTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tagcacgcttgtacacaacaatgcagcattattctatggttgctatgcagGAC---TCTGCCCACTGGTGGAATTTCCGGCCACTTGAAGCATCATGCCAAGCCCAACATATCCACAAAGACCCTGATGTAACTGTTGCACCTGTCTTCCTGCTTGGTGTGTCATCTGTGGAAgtaaatggtagtccctgcgtctagaggagctgtttcccctgggtaccttg Alignment from Spaln_nt2Genome GGCTTTTCCGCCCACTGGTGGAA-TTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tagcacgcttgtacacaacaatgcagcattattctatggttgctatgcagGAC---TCTGCCCACTGGTGGAATTTCCGGCCACTTGAAGCATCATGCCAAGCCCAACAT-ATCCACAAAGACCCTGATGTAACTGTTGCACCTGTCTTCCTGCTTGGTGTGTCATCTGTGGAAgtaaatggtagtccctgcgtctagaggagctgtttcccctgggtaccttg Alignment from Pairagon GGCTTTTCCGCCCACTGGTGGAATTTCC-GCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tagcacgcttgtacacaacaatgcagcattattctatggttgctatgcagGAC---TCTGCCCACTGGTGGAATTTCCGGCCACTTGAAGCATCATGCCAAGCCCAACATA-TCCACAAAGACCCTGATGTAACTGTTGCACCTGTCTTCCTGCTTGGTGTGTCATCTGTGGAAgtaaatggtagtccctgcgtctagaggagctgtttcccctgggtaccttg Alignment from Exonerate_protein2genome TTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tagcacgcttgtacacaacaatgcagcattattctatggttgctatgcagGACTCTGCCCACTGGTGGAATTTCCGGCCACTTGAAGCATCATGCCAAGCCCAACATATCCACAAAGACCCTGATGTAACTGTTGCACCTGTCTTCCTGCTTGGTGTGTCATCTGTGGAAgtaaatggtagtccctgcgtctagaggagctgtttcccctgggtaccttg Alignment from Exonerate_coding2genome TTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tagcacgcttgtacacaacaatgcagcattattctatggttgctatgcagGACTCTGCCCACTGGTGGAATTTCCGGCCACTTGAAGCATCATGCCAAGCCCAACATATCCACAAAGACCCTGATGTAACTGTTGCACCTGTCTTCCTGCTTGGTGTGTCATCTGTGGAAgtaaatggtagtccctgcgtctagaggagctgtttcccctgggtaccttg Alignment from GeneWise ---TCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tagcacgcttgtacacaacaatgcagcattattctatggttgctatgcagGACTCTGCCCACTGGTGGAATTTCCGGCCACTTGAAGCATCATGCCAAGCCCAACATATCCACAAAGACCCTGATGTAACTGTTGCACCTGTCTTCCTGCTTGGTGTGTCATCTGTGGAAgtaaatggtagtccctgcgtctagaggagctgtttcccctgggtaccttg #### Fads3_ID2665_8 --> 0 - 2 Original Alignment GACTTGCTGTGGGCTGCCAGTTTCTACTCC-CGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCag tttctgggcccctaggtccccagacaacgtgtctcccctcttgcctctagGACTTACTGTGGGCTGCCAGTTTCTACACCCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTG-GACACTAATCCTCTTTGTTGTTGTGaggtaggatgcaacatgctggccacccaaatccatttaggtcctgtggactt Alignment from CESAR GACTTGCTGTGGGCTGCCAGTTTCTACTCC-CGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCag tttctgggcccctaggtccccagacaacgtgtctcccctcttgcctctagGACTTACTGTGGGCTGCCAGTTTCTACACCCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTG-GACACTAATCCTCTTTGTTGTTGTGaggtaggatgcaacatgctggccacccaaatccatttaggtcctgtggactt Alignment from Spaln_aa2Genome GACTTGCTGTGGGCTGCCAGTTTCTACTCC-CGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG tttctgggcccctaggtccccagacaacgtgtctcccctcttgcctctagGACTTACTGTGGGCTGCCAGTTTCTACACCcCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGACA-CTAATCCTCTTTGTTGTTGTGAGgtaggatgcaacatgctggccacccaaatccatttaggtcctgtggactt Alignment from Spaln_nt2Genome GACTTGCTGTGGGCTGCCAGTTTCTACT-CCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG tttctgggcccctaggtccccagacaacgtgtctcccctcttgcctctagGACTTACTGTGGGCTGCCAGTTTCTACACCCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACT-GGACACTAATCCTCTTTGTTGTTGTGAGgtaggatgcaacatgctggccacccaaatccatttaggtcctgtggactt Alignment from Pairagon GACTTGCTGTGGGCTGCCAGTTTCTAC-TCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG tttctgggcccctaggtccccagacaacgtgtctcccctcttgcctctagGACTTACTGTGGGCTGCCAGTTTCTACACCCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACT-GGACACTAATCCTCTTTGTTGTTGTGAGgtaggatgcaacatgctggccacccaaatccatttaggtcctgtggactt Alignment from Exonerate_protein2genome GACTTGCTGTGGGCTGCCAGTTTCTACTCC-CGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGG--ACACTGCTCCTCTTTGTTGCTGTCAG tttctgggcccctaggtccccagacaacgtgtctcccctcttgcctctagGACTTACTGTGGGCTGCCAGTTTCTACACCCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGACA---CTAATCCTCTTTGTTGTTGTGAGgtaggatgcaacatgctggccacccaaatccatttaggtcctgtggactt Alignment from Exonerate_coding2genome GACTTGCTGTGGGCTGCCAGTTTCTACTCC-CGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGG--ACACTGCTCCTCTTTGTTGCTGTCAG tttctgggcccctaggtccccagacaacgtgtctcccctcttgcctctagGACTTACTGTGGGCTGCCAGTTTCTACACCCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGACA---CTAATCCTCTTTGTTGTTGTGAGgtaggatgcaacatgctggccacccaaatccatttaggtcctgtggactt Alignment from GeneWise GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG tttctgggcccctaggtccccagacaacgtgtctcccctcttgcctctagGACTTACTGTGGGCTGCCAGTTTCTACACCCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGACACTAATCCTCTTTGTTGTTGTGAGgtaggatgcaacatgctggccacccaaatccatttaggtcctgtggactt #### Fam160b1_ID12356_7 --> 0 - 2 Original Alignment GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATG-CTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGgg tccatttatgctaaatctgacaatctccagatttctcccctaccctgcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCCTCTTAGTGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTG-TCAGAGCACTTGCCTGTGTGAGCTGCTGACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTGGACCCCTTGGACATTGAAACGGTGGAGGCAGTAAACTGGgggtaggcatccatttggtagaccgcttggacagtgaaatggtggaagcagt Alignment from CESAR GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATG-CTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGgg tccatttatgctaaatctgacaatctccagatttctcccctaccctgcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCCTCTTAGTGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTT-GTCAGAGCACTTGCCTGTGTGAGCTGCTGACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTGGACCCCTTGGACATTGAAACGGTGGAGGCAGTAAACTGGgggtaggcatccatttggtagaccgcttggacagtgaaatggtggaagcagt Alignment from Spaln_aa2Genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATG-CTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG tccatttatgctaaatctgacaatctccagatttctcccctaccctgcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGcCTCTTAGTGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGT-CAGAGCACTTGCCTGTGTGAGCTGCTGACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTGGACCCCTTGGACATTGAAACGGTGGAGGCAGTAAACTGGGGgtaggcatccatttggtagaccgcttggacagtgaaatggtggaagcagt Alignment from Spaln_nt2Genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGC-TCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG tccatttatgctaaatctgacaatctccagatttctcccctaccctgcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCCTCTTAGTGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTG-TCAGAGCACTTGCCTGTGTGAGCTGCTGACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTGGACCCCTTGGACATTGAAACGGTGGAGGCAGTAAACTGGGGgtaggcatccatttggtagaccgcttggacagtgaaatggtggaagcagt Alignment from Pairagon GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATG-CTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG tccatttatgctaaatctgacaatctccagatttctcccctaccctgcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCCTCTTAGTGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTG-TCAGAGCACTTGCCTGTGTGAGCTGCTGACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTGGACCCCTTGGACATTGAAACGGTGGAGGCAGTAAACTGGGGgtaggcatccatttggtagaccgcttggacagtgaaatggtggaagcagt Alignment from Exonerate_protein2genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATG-CTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTT--GCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG tccatttatgctaaatctgacaatctccagatttctcccctaccctgcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCCTCTTAGTGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGT---CAGAGCACTTGCCTGTGTGAGCTGCTGACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTGGACCCCTTGGACATTGAAACGGTGGAGGCAGTAAACTGGGGgtaggcatccatttggtagaccgcttggacagtgaaatggtggaagcagt Alignment from Exonerate_coding2genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATG-CTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTT--GCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG tccatttatgctaaatctgacaatctccagatttctcccctaccctgcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCCTCTTAGTGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGT---CAGAGCACTTGCCTGTGTGAGCTGCTGACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTGGACCCCTTGGACATTGAAACGGTGGAGGCAGTAAACTGGGGgtaggcatccatttggtagaccgcttggacagtgaaatggtggaagcagt Alignment from GeneWise GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG tccatttatgctaaatctgacaatctccagatttctcccctaccctgcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCCTCTTAGTGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGTCAGAGCACTTGCCTGTGTGAGCTGCTGACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTGGACCCCTTGGACATTGAAACGGTGGAGGCAGTAAACTGGGGgtaggcatccatttggtagaccgcttggacagtgaaatggtggaagcagt #### Fam160b1_ID12358_9 --> 0 - 2 Original Alignment ACTGCTGCTGTT-GCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGac gttatagtatggatgtcatatgtcttcttactctctctatgttcttccagACGGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCT-TGTTGGTGTTACGGAACCCCAGCTGATGCAAacgtgagtgtctactgactttgtaggaaacaaactctgctgtatcttttcct Alignment from CESAR ACTGCTGCTGTT-GCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGac gttatagtatggatgtcatatgtcttcttactctctctatgttcttccagACGGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGT-TCTTGTTGGTGTTACGGAACCCCAGCTGATGCAAacgtgagtgtctactgactttgtaggaaacaaactctgctgtatcttttcct Alignment from Spaln_aa2Genome ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gttatagtatggatgtcatatgtcttcttactctctctatgttcttccagACGGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTGTTGGTGTTACGGAACCCCAGCTGATGCAAACgtgagtgtctactgactttgtaggaaacaaactctgctgtatcttttcct Alignment from Spaln_nt2Genome ACTGCTGCTGTT-GCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gttatagtatggatgtcatatgtcttcttactctctctatgttcttccagACGGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTC-TTGTTGGTGTTACGGAACCCCAGCTGATGCAAACgtgagtgtctactgactttgtaggaaacaaactctgctgtatcttttcct Alignment from Pairagon ACTGCTGCTGT-TGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gttatagtatggatgtcatatgtcttcttactctctctatgttcttccagACGGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTC-TTGTTGGTGTTACGGAACCCCAGCTGATGCAAACgtgagtgtctactgactttgtaggaaacaaactctgctgtatcttttcct Alignment from Exonerate_protein2genome ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gttatagtatggatgtcatatgtcttcttactctctctatgttcttccagACGGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTGTTGGTGTTACGGAACCCCAGCTGATGCAAACgtgagtgtctactgactttgtaggaaacaaactctgctgtatcttttcct Alignment from Exonerate_coding2genome ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gttatagtatggatgtcatatgtcttcttactctctctatgttcttccagACGGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTGTTGGTGTTACGGAACCCCAGCTGATGCAAACgtgagtgtctactgactttgtaggaaacaaactctgctgtatcttttcct Alignment from GeneWise ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gttatagtatggatgtcatatgtcttcttactctctctatgttcttccagACGGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTGTTGGTGTTACGGAACCCCAGCTGATGCAAACgtgagtgtctactgactttgtaggaaacaaactctgctgtatcttttcct #### Fgf8_ID9566_3 --> 0 - 0 Original Alignment GAAGGCCCGGGCGGGGGGCCTGCGCTGGGC-AGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG ggcatggcacagtcacgttgtggcatggtgcttgtctctctacccttcagGGAGGCCCAGGAGGGGGGCCTGCGCTGGGCCAGGGAGCCAACATCCCTGCTCCGAGCTGGTCGGG-ACCTCAAGGTGTTTCCCAACAAgtgagtagttggggttggtttatccatttcaggccccgggtccccaagca Alignment from CESAR GAAGGCCCGGGCGGGGGGCCTGCGCTGGGC-AGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG ggcatggcacagtcacgttgtggcatggtgcttgtctctctacccttcagGGAGGCCCAGGAGGGGGGCCTGCGCTGGGCCAGGGAGCCAACATCCCTGCTCCGAGCTGGTCGGG-ACCTCAAGGTGTTTCCCAACAAgtgagtagttggggttggtttatccatttcaggccccgggtccccaagca Alignment from Spaln_aa2Genome GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG ggcatggcacagtcacgttgtggcatggtgcttgtctctctacccttcagGGAGGCCCAGGAGGGGGGCCTGCGCTGGGCCAGGGAGCCAACATCCCTGCTCCGAGCTGGTCGGGACCTCAAGGTGTTTCCCAACAAgtgagtagttggggttggtttatccatttcaggccccgggtccccaagca Alignment from Spaln_nt2Genome GAAGGCCCGGGCGGGGGGCCTGCGCTGGG-CAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG ggcatggcacagtcacgttgtggcatggtgcttgtctctctacccttcagGGAGGCCCAGGAGGGGGGCCTGCGCTGGGCCAGGGAGCCAACATCCCTGCTCCGAGCTGGTCGGGA-CCTCAAGGTGTTTCCCAACAAgtgagtagttggggttggtttatccatttcaggccccgggtccccaagca Alignment from Pairagon GAAGGCCCGGGCGGGGGGCCTGCGCTGGGC-AGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG ggcatggcacagtcacgttgtggcatggtgcttgtctctctacccttcagGGAGGCCCAGGAGGGGGGCCTGCGCTGGGCCAGGGAGCCAACATCCCTGCTCCGAGCTGGTCGGGA-CCTCAAGGTGTTTCCCAACAAgtgagtagttggggttggtttatccatttcaggccccgggtccccaagca Alignment from Exonerate_protein2genome GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG ggcatggcacagtcacgttgtggcatggtgcttgtctctctacccttcagGGAGGCCCAGGAGGGGGGCCTGCGCTGGGCCAGGGAGCCAACATCCCTGCTCCGAGCTGGTCGGGACCTCAAGGTGTTTCCCAACAAgtgagtagttggggttggtttatccatttcaggccccgggtccccaagca Alignment from Exonerate_coding2genome GGAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG ggcatggcacagtcacgttgtggcatggtgcttgtctctctacccttcagGGAGGCCCAGGAGGGGGGCCTGCGCTGGGCCAGGGAGCCAACATCCCTGCTCCGAGCTGGTCGGGA-CCTCAAGGTGTTTCCCAACAAgtgagtagttggggttggtttatccatttcaggccccgggtccccaagca Alignment from GeneWise ggcatggcacagtcacgttgtggcatggtgcttgtctctctacccttcagggaggcccaggaggggggcctgcgctgggccagggagccaacatccctgctccgagctggtcgggacctcaaggtgtttcccaacaagtgagtagttggggttggtttatccatttcaggccccgggtccccaagca #### Fibp_ID1005_2 --> 2 - 2 Original Alignment tgAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTG-CTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAGag cagggccttctagtgttatatccctcaccctgttttaatttaattttcagtgAATGATGCAGTGGCCCTCCATGTTCGTTCTGGTATCTTAGAACAGACTGGGGCCACTACAGGAGTGCTGCAGACTGACACAATGGATCACTACCGAACCTTTCGCATGCTTGAACGACTACCTATGTTCACCCCCAAAGCTCCTG------CTTGTATTTC-GATTCCTCCTGCCCGACAGACTCTCCTCATTGAAaggtgagaaacaggatgattagtggggtgggtcctggccagagggtcattct Alignment from CESAR tgAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTG-CTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAGag cagggccttctagtgttatatccctcaccctgttttaatttaattttcagtgAATGATGCAGTGGCCCTCCATGTTCGTTCTGGTATCTTAGAACAGACTGGGGCCACTACAGGAGTGCTGCAGACTGACACAATGGATCACTACCGAACCTTTCGCATGCTTGAACGACTACCTATGTTCACCCCCAAAGCTCCTG------CTTGTATTT-CGATTCCTCCTGCCCGACAGACTCTCCTCATTGAAaggtgagaaacaggatgattagtggggtgggtcctggccagagggtcattct Alignment from Spaln_aa2Genome TGAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAGAG cagggccttctagtgttatatccctcaccctgttttaatttaattttcagTGAATGATGCAGTGGCCCTCCATGTTCGTTCTGGTATCTTAGAACAGACTGGGGCCACTACAGGAGTGCTGCAGACTGACACAATGGATCACTACCGAACCTTTCGCATGCTTGAACGACTACCTATGTTCACCCCCAAAGCTCCTGCTTGTATT------TCGATTCCTCCTGCCCGACAGACTCTCCTCATTGAAAGgtgagaaacaggatgattagtggggtgggtcctggccagagggtcattct Alignment from Spaln_nt2Genome TGAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGC-TGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAGAG cagggccttctagtgttatatccctcaccctgttttaatttaattttcagTGAATGATGCAGTGGCCCTCCATGTTCGTTCTGGTATCTTAGAACAGACTGGGGCCACTACAGGAGTGCTGCAGACTGACACAATGGATCACTACCGAACCTTTCGCATGCTTGAACGACTACCTATGTTCACCCCCAAAGCT------CCTGCTTGTATTTC-GATTCCTCCTGCCCGACAGACTCTCCTCATTGAAAGgtgagaaacaggatgattagtggggtgggtcctggccagagggtcattct Alignment from Pairagon TGAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCG-------------------------------------TCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAGAG cagggccttctagtgttatatccctcaccctgttttaatttaattttcagTGAATGATGCAGTGGCCCTCCATGTTCGTTCTGGTATCTTAGAACAGACTGGGGCCACTACAGGAGTGCTGCAGACTGACACAATGGATCACTACCGAACCTTTCGCATGCTTGAACGACTACCTATGTTCACCCCCAAAGCTCCTGCTTGTATTTC-------------------------------------------GATTCCTCCTGCCCGACAGACTCTCCTCATTGAAAGgtgagaaacaggatgattagtggggtgggtcctggccagagggtcattct Alignment from Exonerate_protein2genome TGAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAGAG cagggccttctagtgttatatccctcaccctgttttaatttaattttcagTGAATGATGCAGTGGCCCTCCATGTTCGTTCTGGTATCTTAGAACAGACTGGGGCCACTACAGGAGTGCTGCAGACTGACACAATGGATCACTACCGAACCTTTCGCATGCTTGAACGACTACCTATGTTCACCCCCAAAGCT------CCTGCTTGTATTTCGATTCCTCCTGCCCGACAGACTCTCCTCATTGAAAGgtgagaaacaggatgattagtggggtgggtcctggccagagggtcattct Alignment from Exonerate_coding2genome TGAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAGAG cagggccttctagtgttatatccctcaccctgttttaatttaattttcagTGAATGATGCAGTGGCCCTCCATGTTCGTTCTGGTATCTTAGAACAGACTGGGGCCACTACAGGAGTGCTGCAGACTGACACAATGGATCACTACCGAACCTTTCGCATGCTTGAACGACTACCTATGTTCACCCCCAAAGCT------CCTGCTTGTATTTCGATTCCTCCTGCCCGACAGACTCTCCTCATTGAAAGgtgagaaacaggatgattagtggggtgggtcctggccagagggtcattct Alignment from GeneWise TGAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAGAG cagggccttctagtgttatatccctcaccctgttttaatttaattttcagTGAATGATGCAGTGGCCCTCCATGTTCGTTCTGGTATCTTAGAACAGACTGGGGCCACTACAGGAGTGCTGCAGACTGACACAATGGATCACTACCGAACCTTTCGCATGCTTGAACGACTACCTATGTTCACCCCCAAAGCT------CCTGCTTGTATTTCGATTCCTCCTGCCCGACAGACTCTCCTCATTGAAAGgtgagaaacaggatgattagtggggtgggtcctggccagagggtcattct #### Fibp_ID1008_5 --> 1 - 1 Original Alignment gGATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAG-AAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAg ttcaagtataagagagataaagagcataggtgaccaactgttttcctcaggGATTATGCAGCTATTGTTTTCTTTGCCAATAATGACTTTGAAACTGGGAAACAAAAGGCTGCAGCACCTGAGCTTTGGGGCCTTTGCCTTCC-CGCAGAACTCATGATCCAGAATTGGACCCTTGGGGCCATTGGTGAGGCCCCAACTGATCCAggtgcgtaaactcccctcatggtgctccataccactcatggctcttatcat Alignment from CESAR gGATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAG-AAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAg ttcaagtataagagagataaagagcataggtgaccaactgttttcctcaggGATTATGCAGCTATTGTTTTCTTTGCCAATAATGACTTTGAAACTGGGAAACAAAAGGCTGCAGCACCTGAGCTTTGGGGCCTTTGCCTTC-CCGCAGAACTCATGATCCAGAATTGGACCCTTGGGGCCATTGGTGAGGCCCCAACTGATCCAggtgcgtaaactcccctcatggtgctccataccactcatggctcttatcat Alignment from Spaln_aa2Genome GGATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG ttcaagtataagagagataaagagcataggtgaccaactgttttcctcagGGATTATGCAGCTATTGTTTTCTTTGCCAATAATGACTTTGAAACTGGGAAACAAAAGGCTGCAGCACCTGAGCTTTGGGGCCTTTGCCTTCCCGCAGAACTCATGATCCAGAATTGGACCCTTGGGGCCATTGGTGAGGCCCCAACTGATCCAGgtgcgtaaactcccctcatggtgctccataccactcatggctcttatcat Alignment from Spaln_nt2Genome GGATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGG-AAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG ttcaagtataagagagataaagagcataggtgaccaactgttttcctcagGGATTATGCAGCTATTGTTTTCTTTGCCAATAATGACTTTGAAACTGGGAAACAAAAGGCTGCAGCACCTGAGCTTTGGGGCCTTTGCCTTC-CCGCAGAACTCATGATCCAGAATTGGACCCTTGGGGCCATTGGTGAGGCCCCAACTGATCCAGgtgcgtaaactcccctcatggtgctccataccactcatggctcttatcat Alignment from Pairagon GGATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAAC-AGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG ttcaagtataagagagataaagagcataggtgaccaactgttttcctcagGGATTATGCAGCTATTGTTTTCTTTGCCAATAATGACTTTGAAACTGGGAAACAAAAGGCTGCAGCACCTGAGCTTTGGGGCCTTTGCCTTCC-CGCAGAACTCATGATCCAGAATTGGACCCTTGGGGCCATTGGTGAGGCCCCAACTGATCCAGgtgcgtaaactcccctcatggtgctccataccactcatggctcttatcat Alignment from Exonerate_protein2genome GGATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG ttcaagtataagagagataaagagcataggtgaccaactgttttcctcagGGATTATGCAGCTATTGTTTTCTTTGCCAATAATGACTTTGAAACTGGGAAACAAAAGGCTGCAGCACCTGAGCTTTGGGGCCTTTGCCTTCCCGCAGAACTCATGATCCAGAATTGGACCCTTGGGGCCATTGGTGAGGCCCCAACTGATCCAGgtgcgtaaactcccctcatggtgctccataccactcatggctcttatcat Alignment from Exonerate_coding2genome GGATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG ttcaagtataagagagataaagagcataggtgaccaactgttttcctcagGGATTATGCAGCTATTGTTTTCTTTGCCAATAATGACTTTGAAACTGGGAAACAAAAGGCTGCAGCACCTGAGCTTTGGGGCCTTTGCCTTCCCGCAGAACTCATGATCCAGAATTGGACCCTTGGGGCCATTGGTGAGGCCCCAACTGATCCAGgtgcgtaaactcccctcatggtgctccataccactcatggctcttatcat Alignment from GeneWise GGATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG ttcaagtataagagagataaagagcataggtgaccaactgttttcctcagGGATTATGCAGCTATTGTTTTCTTTGCCAATAATGACTTTGAAACTGGGAAACAAAAGGCTGCAGCACCTGAGCTTTGGGGCCTTTGCCTTCCCGCAGAACTCATGATCCAGAATTGGACCCTTGGGGCCATTGGTGAGGCCCCAACTGATCCAGgtgcgtaaactcccctcatggtgctccataccactcatggctcttatcat #### Fibp_ID1010_7 --> 1 - 0 Original Alignment cCTGGTGTGCACT-GCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG ctgaacttactatactcagtctacagaacctcctactgtgcctcctgcagcCTAGTCTGCACTCGCCCTTCGTGGAAAACTTGGTGTCTTCTCTG-GATGGAATCCAACTTCAAGgtgagtttgcttggcatccatagtcccctggttagatcactgagtgcctt Alignment from CESAR cCTGGTGTGCACT-GCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG ctgaacttactatactcagtctacagaacctcctactgtgcctcctgcagcCTAGTCTGCACTCGCCCTTCGTGGAAAACTTGGTGTCTTCTCT-GGATGGAATCCAACTTCAAGgtgagtttgcttggcatccatagtcccctggttagatcactgagtgcctt Alignment from Spaln_aa2Genome CCTGGTGTGCACT-GCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG ctgaacttactatactcagtctacagaacctcctactgtgcctcctgcagCCTAGTCTGCACTcGCCCTTCGTGGAAAACTTGGTGTCTTCTCTGG-ATGGAATCCAACTTCAAGgtgagtttgcttggcatccatagtcccctggttagatcactgagtgcctt Alignment from Spaln_nt2Genome CCTGGTGTGCACT-GCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG ctgaacttactatactcagtctacagaacctcctactgtgcctcctgcagCCTAGTCTGCACTCGCCCTTCGTGGAAAACTTGGTGTCTTCTCTG-GATGGAATCCAACTTCAAGgtgagtttgcttggcatccatagtcccctggttagatcactgagtgcctt Alignment from Pairagon CCTGGTGTGCACT-GCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG ctgaacttactatactcagtctacagaacctcctactgtgcctcctgcagCCTAGTCTGCACTCGCCCTTCGTGGAAAACTTGGTGTCTTCTCTG-GATGGAATCCAACTTCAAGgtgagtttgcttggcatccatagtcccctggttagatcactgagtgcctt Alignment from Exonerate_protein2genome CCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG ctgaacttactatactcagtctacagaacctcctactgtgcctcctgcagCCTAGTCTGCACTCGCCCTTCGTGGAAAACTTGGTGTCTTCTCTGGATGGAATCCAACTTCAAGgtgagtttgcttggcatccatagtcccctggttagatcactgagtgcctt Alignment from Exonerate_coding2genome ctgaacttactatactcagtctacagaacctcctactgtgcctcctgcagcctagtctgcactcgcccttcgtggaaaacttggtgtcttctctggatggaatccaacttcaaggtgagtttgcttggcatccatagtcccctggttagatcactgagtgcctt Alignment from GeneWise CCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG ctgaacttactatactcagtctacagaacctcctactgtgcctcctgcagCCTAGTCTGCACTCGCCCTTCGTGGAAAACTTGGTGTCTTCTCTGGATGGAATCCAACTTCAAGgtgagtttgcttggcatccatagtcccctggttagatcactgagtgcctt #### Fkbp2_ID1947_2 --> 0 - 2 Original Alignment GGAAAGCTAGAAGATGGGACGGAGTTTGAC-AGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGgg caatctctcctgggcgttgcatggtctgccttccttccttcttttcctagGGAAAGCTGGGAGATGGGACAGAGTTTGACCAGCAGCCTACCACAGAACCAGCCCTTTATTTTCT-CCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGTCTACTGgggtgagattggcatataatccaagttgcagtgaatgctataataaaggcgt Alignment from CESAR GGAAAGCTAGAAGATGGGACGGAGTTTGAC-AGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGgg caatctctcctgggcgttgcatggtctgccttccttccttcttttcctagGGAAAGCTGGGAGATGGGACAGAGTTTGACCAGCAGCCTACCACAGAACCAGCCCTTTATTTTCT-CCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGTCTACTGgggtgagattggcatataatccaagttgcagtgaatgctataataaaggcgt Alignment from Spaln_aa2Genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG caatctctcctgggcgttgcatggtctgccttccttccttcttttcctagGGAAAGCTGGGAGATGGGACAGAGTTTGACCAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGTCTACTGGGgtgagattggcatataatccaagttgcagtgaatgctataataaaggcgt Alignment from Spaln_nt2Genome GGAAAGCTAGAAGATGGGACGGAGTTTGA-CAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG caatctctcctgggcgttgcatggtctgccttccttccttcttttcctagGGAAAGCTGGGAGATGGGACAGAGTTTGACCAGCAGCCTACCACAGAACCAGCCCTTTATTTTCT-CCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGTCTACTGGGgtgagattggcatataatccaagttgcagtgaatgctataataaaggcgt Alignment from Pairagon GGAAAGCTAGAAGATGGGACGGAGTTTGA-CAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG caatctctcctgggcgttgcatggtctgccttccttccttcttttcctagGGAAAGCTGGGAGATGGGACAGAGTTTGACCAGCAGCCTACCACAGAACCAGCCCTTTATTTTCT-CCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGTCTACTGGGgtgagattggcatataatccaagttgcagtgaatgctataataaaggcgt Alignment from Exonerate_protein2genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG caatctctcctgggcgttgcatggtctgccttccttccttcttttcctagGGAAAGCTGGGAGATGGGACAGAGTTTGACCAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGTCTACTGGGgtgagattggcatataatccaagttgcagtgaatgctataataaaggcgt Alignment from Exonerate_coding2genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG caatctctcctgggcgttgcatggtctgccttccttccttcttttcctagGGAAAGCTGGGAGATGGGACAGAGTTTGACCAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGTCTACTGGGgtgagattggcatataatccaagttgcagtgaatgctataataaaggcgt Alignment from GeneWise GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG caatctctcctgggcgttgcatggtctgccttccttccttcttttcctagGGAAAGCTGGGAGATGGGACAGAGTTTGACCAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGTCTACTGGGgtgagattggcatataatccaagttgcagtgaatgctataataaaggcgt #### Ganab_ID2470_9 --> 2 - 2 Original Alignment gcCCCACGTCTGTAGGTTTG-GACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTga gtgaggaattggcaagtcttaatagtaaaagccttaacctgttttgaaaggtCCCATGTCTGTTGGTTTACGACTTTTCTCTGCCATGGATGGAACATGCATATGGGATCC-TGAACATGCTGACAGCTTGAGACTGAAGGTTACTgagtaagtccatgatgaggtgtgataacagtggtaatgaaagacctaacttt Alignment from CESAR gcCCCACGTCTGTAGGTTTG-GACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTga gtgagcaattggcaagtcttaatagtaaaagccttaacctgttttgaaaggtCCCATGTCTGTTGGTTTACGACTTTTCTCTGCCATGGATGGAACATGCATATGGGA-TCCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTgagtaagtccatgatgaggtgtgataacagtggtaatgaaagacctaacttt Alignment from Spaln_aa2Genome GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTAT---GGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA gtgaggaattggcaagtcttaatagtaaaagccttaacctgttttgaaagGTCCCATGTCTGTTGGTTTACGACTT---TTCTCTGCCATGGATGGAACATGCATATGGGATCCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTGAgtaagtccatgatgaggtgtgataacagtggtaatgaaagacctaacttt Alignment from Spaln_nt2Genome GCCCCACGTCTGTAGGTTTG-GACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA gtgaggaattggcaagtcttaatagtaaaagccttaacctgttttgaaagGTCCCATGTCTGTTGGTTTACGACTTTTCTCTGCCATGGATGGAACATGCATATGGGAT-CCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTGAgtaagtccatgatgaggtgtgataacagtggtaatgaaagacctaacttt Alignment from Pairagon GCCCCACGTCTGTAGGTTTG-GACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA gtgaggaattggcaagtcttaatagtaaaagccttaacctgttttgaaagGTCCCATGTCTGTTGGTTTACGACTTTTCTCTGCCATGGATGGAACATGCATATGGGAT-CCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTGAgtaagtccatgatgaggtgtgataacagtggtaatgaaagacctaacttt Alignment from Exonerate_protein2genome GCCCCACGTCTGTAGGTTTG-GACTTTTCTCTGCCAGGAATGGAACATGTGTATGGG--ATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA gtgaggaattggcaagtcttaatagtaaaagccttaacctgttttgaaagGTCCCATGTCTGTTGGTTTACGACTTTTCTCTGCCATGGATGGAACATGCATATGGGAT---CCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTGAgtaagtccatgatgaggtgtgataacagtggtaatgaaagacctaacttt Alignment from Exonerate_coding2genome GCCCCACGTCTGTAGGTTTGGA---CTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA gtgaggaattggcaagtcttaatagtaaaagccttaacctgttttgaaagGTCCCATGTCTGTTGGTTTA--CGACTTTTCTCTGCCATGGATGGAACATGCATATGGGAT-CCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTGAgtaagtccatgatgaggtgtgataacagtggtaatgaaagacctaacttt Alignment from GeneWise GCCCCACGTCTGTAGGTTTGGAC---TTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA gtgaggaattggcaagtcttaatagtaaaagccttaacctgttttgaaagGTCCCATGTCTGTTGGTTTACGACTTTTCTCTGCCATGGATGGAACATGCATATGGGAT---CCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTGAgtaagtccatgatgaggtgtgataacagtggtaatgaaagacctaacttt #### Ganab_ID2472_11 --> 0 - 1 Original Alignment ACCCTGTTTGGGAAGATGCTTGATTACCTGCAGGGCTCT-GGGGAGACTCCACAGACAGACATTCGTTGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTGGCCCTTCGGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAg acatttgagtacagtgccagaaggtcctagtggtggtattcttttgtcagACACTATTTGGTAAGATGCTTGATTACTTGCAGGGTTCTCGGGGAGACTCCCCAGACAGATATTCGATGGATGTCAGAGAGTG-CATTATTGATGTTTTCCTAATGCTTGGTCCTCCAGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAggtatggatgtttttcttccttacaaataaatgctataaagtatttacact Alignment from CESAR ACCCTGTTTGGGAAGATGCTTGATTACCTGCAGGGCTCT-GGGGAGACTCCACAGACAGACATTCGTTGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTGGCCCTTCGGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAg acatttgagtacagtgccagaaggtcctagtggtggtattcttttgtcagACACTATTTGGTAAGATGCTTGATTACTTGCAGGGTTCTCGGGGAGACTCCCCAGACAGATATTCGATGGATGTCAGAGAGT-GCATTATTGATGTTTTCCTAATGCTTGGTCCTCCAGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAggtatggatgtttttcttccttacaaataaatgctataaagtatttacact Alignment from Spaln_aa2Genome ACCCTGTTTGGGAAGATGCTTGATTACCTGCAGGGCTCT-GGGGAGACTCCACAGACAGACATTCGTTGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTGGCCCTTCGGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAG acatttgagtacagtgccagaaggtcctagtggtggtattcttttgtcagACACTATTTGGTAAGATGCTTGATTACTTGCAGGGTTCTcGGGGAGACTCCCCAGACAGATATTCGATGGATGTCAGAGAGTGC-ATTATTGATGTTTTCCTAATGCTTGGTCCTCCAGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAGgtatggatgtttttcttccttacaaataaatgctataaagtatttacact Alignment from Spaln_nt2Genome ACCCTGTTTGGGAAGATGCTTGATTACCTGCAGGGCTCTG-GGGAGACTCCACAGACAGACATTCGTTGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTGGCCCTTCGGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAG acatttgagtacagtgccagaaggtcctagtggtggtattcttttgtcagACACTATTTGGTAAGATGCTTGATTACTTGCAGGGTTCTCGGGGAGACTCCCCAGACAGATATTCGATGGATGTCAGAGAGT-GCATTATTGATGTTTTCCTAATGCTTGGTCCTCCAGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAGgtatggatgtttttcttccttacaaataaatgctataaagtatttacact Alignment from Pairagon ACCCTGTTTGGGAAGATGCTTGATTACCTGCAGGGCTCT-GGGGAGACTCCACAGACAGACATTCGTTGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTGGCCCTTCGGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAG acatttgagtacagtgccagaaggtcctagtggtggtattcttttgtcagACACTATTTGGTAAGATGCTTGATTACTTGCAGGGTTCTCGGGGAGACTCCCCAGACAGATATTCGATGGATGTCAGAGAGT-GCATTATTGATGTTTTCCTAATGCTTGGTCCTCCAGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAGgtatggatgtttttcttccttacaaataaatgctataaagtatttacact Alignment from Exonerate_protein2genome ACCCTGTTTGGGAAGATGCTTGATTACCTGCAGGGCTCT-GGGGAGACTCCACAGACAGACATTCGTTGGATGTCAGAGAGT--GGCATTATTGATGTTTTCCTAATGCTTGGCCCTTCGGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAG acatttgagtacagtgccagaaggtcctagtggtggtattcttttgtcagACACTATTTGGTAAGATGCTTGATTACTTGCAGGGTTCTCGGGGAGACTCCCCAGACAGATATTCGATGGATGTCAGAGAGTGC---ATTATTGATGTTTTCCTAATGCTTGGTCCTCCAGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAGgtatggatgtttttcttccttacaaataaatgctataaagtatttacact Alignment from Exonerate_coding2genome ACCCTGTTTGGGAAGATGCTTGATTACCTGCAGGGCTCT-GGGGAGACTCCACAGACAGACATTCGTTGGATGTCAGAGAGT--GGCATTATTGATGTTTTCCTAATGCTTGGCCCTTCGGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAG acatttgagtacagtgccagaaggtcctagtggtggtattcttttgtcagACACTATTTGGTAAGATGCTTGATTACTTGCAGGGTTCTCGGGGAGACTCCCCAGACAGATATTCGATGGATGTCAGAGAGTGC---ATTATTGATGTTTTCCTAATGCTTGGTCCTCCAGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAGgtatggatgtttttcttccttacaaataaatgctataaagtatttacact Alignment from GeneWise ACCCTGTTTGGGAAGATGCTTGATTACCTGCAGGGC-TCTGGGGAGACTCCACAGACAGACATTCGTTGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTGGCCCTTCGGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAG acatttgagtacagtgccagaaggtcctagtggtggtattcttttgtcagACACTATTTGGTAAGATGCTTGATTACTTGCAGGGTTCTCGGGGAGACTCCCCAGACAGATATTCGATGGATGTCAGAGAGTGC-ATTATTGATGTTTTCCTAATGCTTGGTCCTCCAGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAGgtatggatgtttttcttccttacaaataaatgctataaagtatttacact #### Ganab_ID2473_12 --> 2 - 0 Original Alignment ggACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGC-AAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG ataaagtatttacacttttaccagcctggttttctttcttatttgaacagggTCCCAGGCATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTAGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGCTGGATGTTGAACACGCCGATGGCCAAGAGGTACTTCACCTGGGACCCCACCCAATTCCCCCAGC-ACTCAATATGCTTGATCACTTGACTTCAAAAAGACGGAAGgtaggaggtgttacagctgtccacatgtcttttgtccagtgttggggaag Alignment from CESAR ggACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGC-AAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG ataaagtatttacacttttaccagcctggttttctttcttatttgaacagggTCCCAGGCATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTAGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGCTGGATGTTGAACACGCCGATGGCCAAGAGGTACTTCACCTGGGACCCCACCCAATTCCCCCAG-CACTCAATATGCTTGATCACTTGACTTCAAAAAGACGGAAGgtaggaggtgttacagctgtccacatgtcttttgtccagtgttggggaag Alignment from Spaln_aa2Genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG ataaagtatttacacttttaccagcctggttttctttcttatttgaacagGGTCCCAGGCATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTAGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGCTGGATGTTGAACACGCCGATGGCCAAGAGGTACTTCACCTGGGACCCCACCCAATTCCCCCAGCACTCAATATGCTTGATCACTTGACTTCAAAAAGACGGAAGgtaggaggtgttacagctgtccacatgtcttttgtccagtgttggggaag Alignment from Spaln_nt2Genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGC-AAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG ataaagtatttacacttttaccagcctggttttctttcttatttgaacagGGTCCCAGGCATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTAGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGCTGGATGTTGAACACGCCGATGGCCAAGAGGTACTTCACCTGGGACCCCACCCAATTCCCCCAGCA-CTCAATATGCTTGATCACTTGACTTCAAAAAGACGGAAGgtaggaggtgttacagctgtccacatgtcttttgtccagtgttggggaag Alignment from Pairagon GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGG-CAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG ataaagtatttacacttttaccagcctggttttctttcttatttgaacagGGTCCCAGGCATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTAGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGCTGGATGTTGAACACGCCGATGGCCAAGAGGTACTTCACCTGGGACCCCACCCAATTCCCCCAG-CACTCAATATGCTTGATCACTTGACTTCAAAAAGACGGAAGgtaggaggtgttacagctgtccacatgtcttttgtccagtgttggggaag Alignment from Exonerate_protein2genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG ataaagtatttacacttttaccagcctggttttctttcttatttgaacagGGTCCCAGGCATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTAGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGCTGGATGTTGAACACGCCGATGGCCAAGAGGTACTTCACCTGGGACCCCACCCAATTCCCCCAGCACTCAATATGCTTGATCACTTGACTTCAAAAAGACGGAAGgtaggaggtgttacagctgtccacatgtcttttgtccagtgttggggaag Alignment from Exonerate_coding2genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG ataaagtatttacacttttaccagcctggttttctttcttatttgaacagGGTCCCAGGCATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTAGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGCTGGATGTTGAACACGCCGATGGCCAAGAGGTACTTCACCTGGGACCCCACCCAATTCCCCCAGCACTCAATATGCTTGATCACTTGACTTCAAAAAGACGGAAGgtaggaggtgttacagctgtccacatgtcttttgtccagtgttggggaag Alignment from GeneWise GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG ataaagtatttacacttttaccagcctggttttctttcttatttgaacagGGTCCCAGGCATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTAGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGCTGGATGTTGAACACGCCGATGGCCAAGAGGTACTTCACCTGGGACCCCACCCAATTCCCCCAGCACTCAATATGCTTGATCACTTGACTTCAAAAAGACGGAAGgtaggaggtgttacagctgtccacatgtcttttgtccagtgttggggaag #### Ganab_ID2477_16 --> 0 - 1 Original Alignment CACATGGCGACTGCTGAT-GGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTTg accaggaagtaggtagtatgtgttcttttcatgtttgcctctttactcagCATATGGCAACCGCTGATCGGGCTGATACAGTGTTCAGGGGGCGTAGAGCGTTCGT-TGTGTTGAGTAGGTCTTTCTCTTCAGGTTTCCAGCGCTTTggtatattgttgaaactagggtcaaaactctagtcacctatggttaatctg Alignment from CESAR CACATGGCGACTGCTGAT-GGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTTg accaggaagtaggtagtatgtgttcttttcatgtttgcctctttactcagCATATGGCAACCGCTGATCGGGCTGATACAGTGTTCAGGGGGCGTAGAGCGT-TCGTTGTGTTGAGTAGGTCTTTCTCTTCAGGTTTCCAGCGCTTTggtatattgttgaaactagggtcaaaactctagtcacctatggttaatctg Alignment from Spaln_aa2Genome CACATGGCGACTGCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTTG accaggaagtaggtagtatgtgttcttttcatgtttgcctctttactcagCATATGGCAACCGCTGATCGGGCTGATACAGTGTTCAGGGGGCGTAGAGCGTTCGTTGTGTTGAGTAGGTCTTTCTCTTCAGGTTTCCAGCGCTTTGgtatattgttgaaactagggtcaaaactctagtcacctatggttaatctg Alignment from Spaln_nt2Genome CACATGGCGACTGCTGAT-GGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTTG accaggaagtaggtagtatgtgttcttttcatgtttgcctctttactcagCATATGGCAACCGCTGATCGGGCTGATACAGTGTTCAGGGGGCGTAGAGCGT-TCGTTGTGTTGAGTAGGTCTTTCTCTTCAGGTTTCCAGCGCTTTGgtatattgttgaaactagggtcaaaactctagtcacctatggttaatctg Alignment from Pairagon CACATGGCGACTGCTGAT-GGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTTG accaggaagtaggtagtatgtgttcttttcatgtttgcctctttactcagCATATGGCAACCGCTGATCGGGCTGATACAGTGTTCAGGGGGCGTAGAGCGTTCG-TTGTGTTGAGTAGGTCTTTCTCTTCAGGTTTCCAGCGCTTTGgtatattgttgaaactagggtcaaaactctagtcacctatggttaatctg Alignment from Exonerate_protein2genome CACATGGCGACTGCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTTG accaggaagtaggtagtatgtgttcttttcatgtttgcctctttactcagCATATGGCAACCGCTGATCGGGCTGATACAGTGTTCAGGGGGCGTAGAGCGTTCGTTGTGTTGAGTAGGTCTTTCTCTTCAGGTTTCCAGCGCTTTGgtatattgttgaaactagggtcaaaactctagtcacctatggttaatctg Alignment from Exonerate_coding2genome CACATGGCGACTGCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTTG accaggaagtaggtagtatgtgttcttttcatgtttgcctctttactcagCATATGGCAACCGCTGATCGGGCTGATACAGTGTTCAGGGGGCGTAGAGCGTTCGTTGTGTTGAGTAGGTCTTTCTCTTCAGGTTTCCAGCGCTTTGgtatattgttgaaactagggtcaaaactctagtcacctatggttaatctg Alignment from GeneWise CACATGGCGACTGCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTTG accaggaagtaggtagtatgtgttcttttcatgtttgcctctttactcagCATATGGCAACCGCTGATCGGGCTGATACAGTGTTCAGGGGGCGTAGAGCGTTCGTTGTGTTGAGTAGGTCTTTCTCTTCAGGTTTCCAGCGCTTTGgtatattgttgaaactagggtcaaaactctagtcacctatggttaatctg #### Ganab_ID2478_17 --> 2 - 1 Original Alignment gaGCTGTGTGGACAGGGGACAACACTGCCGAATGG-GATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAg cttctactattttgtgggtactcagaattgtcttactctccaccctaaaggaGCTGTGTGGACAGGGGACAACACTGCTGAATGGCGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCT-GGCATTGGTGGGGCTTTCCTTCTGTGGAggtaagaggagtaatcatttggggtcttgcattggatgcttgtggtgggta Alignment from CESAR gaGCTGTGTGGACAGGGGACAACACTGCCGAATGG-GATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAg cttctactattttgtgggtactcagaattgtcttactctccaccctaaaggaGCTGTGTGGACAGGGGACAACACTGCTGAATGGCGATCATTTGAAGATCTCTATCCATATGTGTCTCA-GCTGGCATTGGTGGGGCTTTCCTTCTGTGGAggtaagaggagtaatcatttggggtcttgcattggatgcttgtggtgggta Alignment from Spaln_aa2Genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAG cttctactattttgtgggtactcagaattgtcttactctccaccctaaagGAGCTGTGTGGACAGGGGACAACACTGCTGAATGGCGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCTGGCATTGGTGGGGCTTTCCTTCTGTGGAGgtaagaggagtaatcatttggggtcttgcattggatgcttgtggtgggta Alignment from Spaln_nt2Genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGG-GATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAG cttctactattttgtgggtactcagaattgtcttactctccaccctaaagGAGCTGTGTGGACAGGGGACAACACTGCTGAATGGCGATCATTTGAAGATCTCTATCCATATGTGTCTCAGC-TGGCATTGGTGGGGCTTTCCTTCTGTGGAGgtaagaggagtaatcatttggggtcttgcattggatgcttgtggtgggta Alignment from Pairagon GAGCTGTGTGGACAGGGGACAACACTGCCGAATGG-GATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAG cttctactattttgtgggtactcagaattgtcttactctccaccctaaagGAGCTGTGTGGACAGGGGACAACACTGCTGAATGGCGATCATTTGAAGATCTCTATCCATATGTGTCTCAG-CTGGCATTGGTGGGGCTTTCCTTCTGTGGAGgtaagaggagtaatcatttggggtcttgcattggatgcttgtggtgggta Alignment from Exonerate_protein2genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAG cttctactattttgtgggtactcagaattgtcttactctccaccctaaagGAGCTGTGTGGACAGGGGACAACACTGCTGAATGGCGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCTGGCATTGGTGGGGCTTTCCTTCTGTGGAGgtaagaggagtaatcatttggggtcttgcattggatgcttgtggtgggta Alignment from Exonerate_coding2genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAG cttctactattttgtgggtactcagaattgtcttactctccaccctaaagGAGCTGTGTGGACAGGGGACAACACTGCTGAATGGCGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCTGGCATTGGTGGGGCTTTCCTTCTGTGGAGgtaagaggagtaatcatttggggtcttgcattggatgcttgtggtgggta Alignment from GeneWise GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAG cttctactattttgtgggtactcagaattgtcttactctccaccctaaagGAGCTGTGTGGACAGGGGACAACACTGCTGAATGGCGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCTGGCATTGGTGGGGCTTTCCTTCTGTGGAGgtaagaggagtaatcatttggggtcttgcattggatgcttgtggtgggta #### Ganab_ID2481_20 --> 2 - 0 Original Alignment gtGATGCACTCCTTATTCAC-CCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA aggtcaggctgcataaatgtgtgcaaaaacgcctcactgtactcctgcaggtGACACACTCCTTATTCACCCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATT-GCCCGGCCAAGAAGAAgtgagttgccaaatagcacagcccaagggacccaaaatggcaaaaacata Alignment from CESAR gtGATGCACTCCTTATTCAC-CCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA aggtcaggctgcataaatgtgtgcaaaaacgcctcactgtactcctgcaggtGACACACTCCTTATTCACCCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCT-ATTGCCCGGCCAAGAAGAAgtgagttgccaaatagcacagcccaagggacccaaaatggcaaaaacata Alignment from Spaln_aa2Genome CTTGGTGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA aggtcaggctgcataaatgtgtgcaaaaacgcctcactgtactcctgcagGTGACACACTCCTTATTCACC---CCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTG-CCCGGCCAAGAAGAAgtgagttgccaaatagcacagcccaagggacccaaaatggcaaaaacata Alignment from Spaln_nt2Genome GTGATGCACTCCTTATTCACCC-TGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA aggtcaggctgcataaatgtgtgcaaaaacgcctcactgtactcctgcagGTGACACACTCCTTATTCACCCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATT-GCCCGGCCAAGAAGAAgtgagttgccaaatagcacagcccaagggacccaaaatggcaaaaacata Alignment from Pairagon GTGATGCACTCCTTATTCA-CCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA aggtcaggctgcataaatgtgtgcaaaaacgcctcactgtactcctgcagGTGACACACTCCTTATTCACCCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTA-TTGCCCGGCCAAGAAGAAgtgagttgccaaatagcacagcccaagggacccaaaatggcaaaaacata Alignment from Exonerate_protein2genome GTGATGCACTCCTTATTCAC-CCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGA aggtcaggctgcataaatgtgtgcaaaaacgcctcactgtactcctgcagGTGACACACTCCTTATTCACCCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTGCCCGGCCAAGAAGAAgtgagttgccaaatagcacagcccaagggacccaaaatggcaaaaacata Alignment from Exonerate_coding2genome GTGATGCACTCCTTATTCAC-CCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGA aggtcaggctgcataaatgtgtgcaaaaacgcctcactgtactcctgcagGTGACACACTCCTTATTCACCCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTGCCCGGCCAAGAAGAAgtgagttgccaaatagcacagcccaagggacccaaaatggcaaaaacata Alignment from GeneWise GTGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA aggtcaggctgcataaatgtgtgcaaaaacgcctcactgtactcctgcagGTGACACACTCCTTATTCACCCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTGCCCGGCCAAGAAGAAgtgagttgccaaatagcacagcccaagggacccaaaatggcaaaaacata #### Ganab_ID2482_21 --> 0 - 0 Original Alignment GTGTGGTATGAC-ATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT ggcaaaaacataggtgccttaggagtggccataccttgtcttctttttagGTGTGGTATGATCATTCAGAGCTATCAGAAACATCATGGGCCCC-AACCTTGTATCTACCAGTAACCTTGAGCAGCgtaggtatgactatctcaccagtatctgtgttcatttgtcaggattgaaa Alignment from CESAR GTGTGGTATGAC-ATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT ggcaaaaacataggtgccttaggagtggccataccttgtcttctttttagGTGTGGTATGATCATTCAGAGCTATCAGAAACATCATGGGCCCC-AACCTTGTATCTACCAGTAACCTTGAGCAGCgtaggtatgactatctcaccagtatctgtgttcatttgtcaggattgaaa Alignment from Spaln_aa2Genome GTGTGGTATGAC-ATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT ggcaaaaacataggtgccttaggagtggccataccttgtcttctttttagGTGTGGTATGATcATTCAGAGCTATCAGAAACATCATGGGCCCCA-ACCTTGTATCTACCAGTAACCTTGAGCAGCgtaggtatgactatctcaccagtatctgtgttcatttgtcaggattgaaa Alignment from Spaln_nt2Genome GTGTGGTATGA-CATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT ggcaaaaacataggtgccttaggagtggccataccttgtcttctttttagGTGTGGTATGATCATTCAGAGCTATCAGAAACATCATGGG-CCCCAACCTTGTATCTACCAGTAACCTTGAGCAGCgtaggtatgactatctcaccagtatctgtgttcatttgtcaggattgaaa Alignment from Pairagon GTGTGGTATGA-CATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT ggcaaaaacataggtgccttaggagtggccataccttgtcttctttttagGTGTGGTATGATCATTCAGAGCTATCAGAAACATCATGGGCCCCA-ACCTTGTATCTACCAGTAACCTTGAGCAGCgtaggtatgactatctcaccagtatctgtgttcatttgtcaggattgaaa Alignment from Exonerate_protein2genome GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT ggcaaaaacataggtgccttaggagtggccataccttgtcttctttttagGTGTGGTATGATCATTCAGAGCTATCAGAAACATCATGGGCCCCAACCTTGTATCTACCAGTAACCTTGAGCAGCgtaggtatgactatctcaccagtatctgtgttcatttgtcaggattgaaa Alignment from Exonerate_coding2genome GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT ggcaaaaacataggtgccttaggagtggccataccttgtcttctttttagGTGTGGTATGATCATTCAGAGCTATCAGAAACATCATGGGCCCCAACCTTGTATCTACCAGTAACCTTGAGCAGCgtaggtatgactatctcaccagtatctgtgttcatttgtcaggattgaaa Alignment from GeneWise GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT ggcaaaaacataggtgccttaggagtggccataccttgtcttctttttagGTGTGGTATGATCATTCAGAGCTATCAGAAACATCATGGGCCCCAACCTTGTATCTACCAGTAACCTTGAGCAGCgtaggtatgactatctcaccagtatctgtgttcatttgtcaggattgaaa #### Ganab_ID2483_22 --> 0 - 0 Original Alignment ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGA-TGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gcaaagcatgaaaggaatgaagtcacctactgaagccctcctcctcacagATCCCTGTGTTCCAGCGTGGTGGAACCATTGTGCCTCGACTGGATGCGTGTCAGGCGCCCTTCAGACT-CATGAAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGgtaagtatccaatcaccaggactgggttaattatagattcattttaaatg Alignment from CESAR ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGA-TGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gcaaagcatgaaaggaatgaagtcacctactgaagccctcctcctcacagATCCCTGTGTTCCAGCGTGGTGGAACCATTGTGCCTCGACTGGATGCGTGTCAGGCGCCCTTCAGAC-TCATGAAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGgtaagtatccaatcaccaggactgggttaattatagattcattttaaatg Alignment from Spaln_aa2Genome ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gcaaagcatgaaaggaatgaagtcacctactgaagccctcctcctcacagATCCCTGTGTTCCAGCGTGGTGGAACCATTGTGCCTCGACTGGATGCGTGTCAGGCGCCCTTCAGACTCATGAAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGgtaagtatccaatcaccaggactgggttaattatagattcattttaaatg Alignment from Spaln_nt2Genome ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGA-TGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gcaaagcatgaaaggaatgaagtcacctactgaagccctcctcctcacagATCCCTGTGTTCCAGCGTGGTGGAACCATTGTGCCTCGACTGGATGCGTGTCAGGCGCCCTTCAGACT-CATGAAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGgtaagtatccaatcaccaggactgggttaattatagattcattttaaatg Alignment from Pairagon ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGA-TGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gcaaagcatgaaaggaatgaagtcacctactgaagccctcctcctcacagATCCCTGTGTTCCAGCGTGGTGGAACCATTGTGCCTCGACTGGATGCGTGTCAGGCGCCCTTCAGACT-CATGAAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGgtaagtatccaatcaccaggactgggttaattatagattcattttaaatg Alignment from Exonerate_protein2genome ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gcaaagcatgaaaggaatgaagtcacctactgaagccctcctcctcacagATCCCTGTGTTCCAGCGTGGTGGAACCATTGTGCCTCGACTGGATGCGTGTCAGGCGCCCTTCAGACTCATGAAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGgtaagtatccaatcaccaggactgggttaattatagattcattttaaatg Alignment from Exonerate_coding2genome ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gcaaagcatgaaaggaatgaagtcacctactgaagccctcctcctcacagATCCCTGTGTTCCAGCGTGGTGGAACCATTGTGCCTCGACTGGATGCGTGTCAGGCGCCCTTCAGACTCATGAAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGgtaagtatccaatcaccaggactgggttaattatagattcattttaaatg Alignment from GeneWise ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gcaaagcatgaaaggaatgaagtcacctactgaagccctcctcctcacagATCCCTGTGTTCCAGCGTGGTGGAACCATTGTGCCTCGACTGGATGCGTGTCAGGCGCCCTTCAGACTCATGAAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGgtaagtatccaatcaccaggactgggttaattatagattcattttaaatg #### Ganab_ID2485_24 --> 1 - 1 Original Alignment tTCAGCAGACCCCAAAGGCCACCTT-GAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAg gccctgcctccagggttctgctatgtgttcttacctatttgtggttatagcCTAGCAGACCCTAAGGGCCATCAGCGAGACACCTATCTGGGTGGAGCAAGTTGTCATAATGG-GGCTGGGAAGCCAGCTGCTGTGGTGCACCAGACAAAGggtgagtaaagatgcagtatgaattgatagaaacagtattagagataacca Alignment from CESAR tTCAGCAGACCCCAAAGGCCACCTT-GAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAg gccctgcctccagggttctgctatgtgttcttacctatttgtggttatagcCTAGCAGACCCTAAGGGCCATCAGCGAGACACCTATCTGGGTGGAGCAAGTTGTCATAA-TGGGGCTGGGAAGCCAGCTGCTGTGGTGCACCAGACAAAGggtgagtaaagatgcagtatgaattgatagaaacagtattagagataacca Alignment from Spaln_aa2Genome TTCAGCAGACCCCAAAGGCCACCTT-GAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG gccctgcctccagggttctgctatgtgttcttacctatttgtggttatagCCTAGCAGACCCTAAGGGCCATCAGcGAGACACCTATCTGGGTGGAGCAAGTTGTCATAATGGGGCT-GGGAAGCCAGCTGCTGTGGTGCACCAGACAAAGGgtgagtaaagatgcagtatgaattgatagaaacagtattagagataacca Alignment from Spaln_nt2Genome TTCAGCAGACCCCAAAGGCCACCTT-GAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG gccctgcctccagggttctgctatgtgttcttacctatttgtggttatagCCTAGCAGACCCTAAGGGCCATCAGCGAGACACCTATCTGGGTGGAGCAAGTTGTCATAAT-GGGGCTGGGAAGCCAGCTGCTGTGGTGCACCAGACAAAGGgtgagtaaagatgcagtatgaattgatagaaacagtattagagataacca Alignment from Pairagon TTCAGCAGACCCCAAAGGCCACC-TTGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG gccctgcctccagggttctgctatgtgttcttacctatttgtggttatagCCTAGCAGACCCTAAGGGCCATCAGCGAGACACCTATCTGGGTGGAGCAAGTTGTCATAAT-GGGGCTGGGAAGCCAGCTGCTGTGGTGCACCAGACAAAGGgtgagtaaagatgcagtatgaattgatagaaacagtattagagataacca Alignment from Exonerate_protein2genome TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG gccctgcctccagggttctgctatgtgttcttacctatttgtggttatagCCTAGCAGACCCTAAGGGCCATCAGCGAGACACCTATCTGGGTGGAGCAAGTTGTCATAATGGGGCTGGGAAGCCAGCTGCTGTGGTGCACCAGACAAAGGgtgagtaaagatgcagtatgaattgatagaaacagtattagagataacca Alignment from Exonerate_coding2genome TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG gccctgcctccagggttctgctatgtgttcttacctatttgtggttatagCCTAGCAGACCCTAAGGGCCATCAGCGAGACACCTATCTGGGTGGAGCAAGTTGTCATAATGGGGCTGGGAAGCCAGCTGCTGTGGTGCACCAGACAAAGGgtgagtaaagatgcagtatgaattgatagaaacagtattagagataacca Alignment from GeneWise TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG gccctgcctccagggttctgctatgtgttcttacctatttgtggttatagCCTAGCAGACCCTAAGGGCCATCAGCGAGACACCTATCTGGGTGGAGCAAGTTGTCATAATGGGGCTGGGAAGCCAGCTGCTGTGGTGCACCAGACAAAGGgtgagtaaagatgcagtatgaattgatagaaacagtattagagataacca #### Gbf1_ID9795_14 --> 0 - 1 Original Alignment AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAAC-ACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGt acagtataccactggctgggtcacatagcctgtgtctttcattttctaagAATGCATTTCCTGTATCTGGTCAGCTCGATACTACACATCTTCTGTCCCTTGATGCTCTTTTGACTTTTATTGACAGTACTGAGTTTCATTCTCAAGCCAAAGTTCTCAATCGCCCTCAACCAGCAAGAGAAAAAGGAAACATCGAGGCCTG-TTTTGAAGCAGTTGAT---AACCCAGATGCTAACAAGtgtatccaacctaattatgttattattactattctttatgtccatgctctc Alignment from CESAR AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAAC-ACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGt acagtataccactggctgggtcacatagcctgtgtctttcattttctaagAATGCATTTCCTGTATCTGGTCAGCTCGATACTACACATCTTCTGTCCCTTGATGCTCTTTTGACTTTTATTGACAGTACTGAGTTTCATTCTCAAGCCAAAGTTCTCAATCGCCCTCAACCAGCAAGAGAAAAAGGAAACATCGAGGCCT-GTTTTGAAGCAGTTGAT---AACCCAGATGCTAACAAGtgtatccaacctaattatgttattattactattctttatgtccatgctctc Alignment from Spaln_aa2Genome AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAAC-ACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT acagtataccactggctgggtcacatagcctgtgtctttcattttctaagAATGCATTTCCTGTATCTGGTCAGCTCGATACTACACATCTTCTGTCCCTTGATGCTCTTTTGACTTTTATTGACAGTACTGAGTTTCATTCTCAAGCCAAAGTTCTCAATcGCCCTCAACCAGCAAGAGAAAAAGGAAACATCGAGGCCTGT-TTTGAAGCAGTTGAT---AACCCAGATGCTAACAAGTgtatccaacctaattatgttattattactattctttatgtccatgctctc Alignment from Spaln_nt2Genome AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAA-CACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT acagtataccactggctgggtcacatagcctgtgtctttcattttctaagAATGCATTTCCTGTATCTGGTCAGCTCGATACTACACATCTTCTGTCCCTTGATGCTCTTTTGACTTTTATTGACAGTACTGAGTTTCATTCTCAAGCCAAAGTTCTCAATCGCCCTCAACCAGCAAGAGAAAAAGGAAACATCGAGGCCT-GTTTTGAAGCAGTTGAT---AACCCAGATGCTAACAAGTgtatccaacctaattatgttattattactattctttatgtccatgctctc Alignment from Pairagon AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAA-CACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT acagtataccactggctgggtcacatagcctgtgtctttcattttctaagAATGCATTTCCTGTATCTGGTCAGCTCGATACTACACATCTTCTGTCCCTTGATGCTCTTTTGACTTTTATTGACAGTACTGAGTTTCATTCTCAAGCCAAAGTTCTCAATCGCCCTCAACCAGCAAGAGAAAAAGGAAACATCGAGGCCT-GTTTTGAAGCAGTTGAT---AACCCAGATGCTAACAAGTgtatccaacctaattatgttattattactattctttatgtccatgctctc Alignment from Exonerate_protein2genome AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT acagtataccactggctgggtcacatagcctgtgtctttcattttctaagAATGCATTTCCTGTATCTGGTCAGCTCGATACTACACATCTTCTGTCCCTTGATGCTCTTTTGACTTTTATTGACAGTACTGAGTTTCATTCTCAAGCCAAAGTTCTCAATCGCCCTCAACCAGCAAGAGAAAAAGGAAACATCGAGGCCTGTTTTGAAGCAGTTGAT---AACCCAGATGCTAACAAGTgtatccaacctaattatgttattattactattctttatgtccatgctctc Alignment from Exonerate_coding2genome AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT acagtataccactggctgggtcacatagcctgtgtctttcattttctaagAATGCATTTCCTGTATCTGGTCAGCTCGATACTACACATCTTCTGTCCCTTGATGCTCTTTTGACTTTTATTGACAGTACTGAGTTTCATTCTCAAGCCAAAGTTCTCAATCGCCCTCAACCAGCAAGAGAAAAAGGAAACATCGAGGCCTGTTTTGAAGCAGTTGAT---AACCCAGATGCTAACAAGTgtatccaacctaattatgttattattactattctttatgtccatgctctc Alignment from GeneWise --------------------------------------------TCCAAGAATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT ACAGTATACCACTGGCTGGGTCACATAGCCTGTGTCTTTCATTTTCTAAGAATGCATTTCCTGTATCTGGTCAGCTCGATACTACACATCTTCTGTCCCTTGATGCTCTTTTGACTTTTATTGACAGTACTGAGTTTCATTCTCAAGCCAAAGTTCTCAATCGCCCTCAACCAGCAAGAGAAAAAGGAAACATCGAGGCCTGTTTTGAAGCAGTTGAT---AACCCAGATGCTAACAAGTgtatccaacctaattatgttattattactattctttatgtccatgctctc #### Gbf1_ID9796_15 --> 2 - 1 Original Alignment ctGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGA-GGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGg atcaccagccacaaggtttacgagaatgttttgtctctttctcccgtcagctGAGAGAGCAACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATTCTCGGGGTCTTTACTTTCCCAGTGGACGGGTGGTTG---ACAGACTATGGAAAGCCAGGGTGCAGAGACC-AGAGGAAGCAGGTGACTCTAGCcgtgagaatccagtatattcttcctggctgaacccccagtcaatgttttac Alignment from CESAR ctGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGA-GGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGg atcaccagccacaaggtttacgagaatgttttgtctctttctcccgtcagctGAGAGAGCAACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATTCTCGGGGTCTTTACTTTCCCAGTGGACGGGTGGTTG---ACAGACTATGGAAAGCCAGGGTGCAGAGAC-CAGAGGAAGCAGGTGACTCTAGCcgtgagaatccagtatattcttcctggctgaacccccagtcaatgttttac Alignment from Spaln_aa2Genome CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG atcaccagccacaaggtttacgagaatgttttgtctctttctcccgtcagCTGAGAGAGCAACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATTCTCGGGGTCTTTACTTTCCCAGT---GGACGGGTGGTTGACAGACTATGGAAAGCCAGGGTGCAGAGACCAGAGGAAGCAGGTGACTCTAGCCgtgagaatccagtatattcttcctggctgaacccccagtcaatgttttac Alignment from Spaln_nt2Genome CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG atcaccagccacaaggtttacgagaatgttttgtctctttctcccgtcagCTGAGAGAGCAACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATTCTCGGGGTCTTTACTTTCCCAGTGGACG--GGTGGTTGACAGACTATGGAAAGCCAGGGTGCAGAGA-CCAGAGGAAGCAGGTGACTCTAGCCgtgagaatccagtatattcttcctggctgaacccccagtcaatgttttac Alignment from Pairagon CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGA-GGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG atcaccagccacaaggtttacgagaatgttttgtctctttctcccgtcagCTGAGAGAGCAACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATTCTCGGGGTCTTTACTTTCCCAGTGGACGGGTGGTTG---ACAGACTATGGAAAGCCAGGGTGCAGAGA-CCAGAGGAAGCAGGTGACTCTAGCCgtgagaatccagtatattcttcctggctgaacccccagtcaatgttttac Alignment from Exonerate_protein2genome CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGA-GGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGAT--CTGGAGGAAGCTGGTGACTCTGGGG atcaccagccacaaggtttacgagaatgttttgtctctttctcccgtcagCTGAGAGAGCAACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATTCTCGGGGTCTTTACTTTCCCAGTGGACGGGTGGTTG---ACAGACTATGGAAAGCCAGGGTGCAGAGACCA---GAGGAAGCAGGTGACTCTAGCCgtgagaatccagtatattcttcctggctgaacccccagtcaatgttttac Alignment from Exonerate_coding2genome CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG atcaccagccacaaggtttacgagaatgttttgtctctttctcccgtcagCTGAGAGAGCAACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATTCTCGGGGTCTTTACTTTCCCAGTGGA--CGGGTGGTTGACAGACTATGGAAAGCCAGGGTGCAGAGACCA-GAGGAAGCAGGTGACTCTAGCCgtgagaatccagtatattcttcctggctgaacccccagtcaatgttttac Alignment from GeneWise CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGA-GGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG atcaccagccacaaggtttacgagaatgttttgtctctttctcccgtcagCTGAGAGAGCAACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATTCTCGGGGTCTTTACTTTCCCAGTGGACGGGTGGTTG---ACAGACTATGGAAAGCCAGGGTGCAGAGACCA-GAGGAAGCAGGTGACTCTAGCCgtgagaatccagtatattcttcctggctgaacccccagtcaatgttttac #### Gbf1_ID9797_16 --> 2 - 0 Original Alignment ctGACAAAAAGTTCACCAGG-AAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG gaatcctttacattgtgcactgtgttttatagttttctttaccattctagcaGACAAAAAGTTCACCAGGCAAGCCACCTCGATTTTCCTGTCTCCTGCCAGATCCATGGG-ATTAATTGAAATTAAAAACAAAAAAAAGgtgagtgtagcgaatctatttagctgtctctaacgctcatctgtctcagt Alignment from CESAR ctGACAAAAAGTTCACCAGG-AAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG gaatcctttacattgtgcactgtgttttatagttttctttaccattctagcaGACAAAAAGTTCACCAGGCAAGCCACCTCGATTTTCCTGTCTCCTGCCAGATCCATGGG-ATTAATTGAAATTAAAAACAAAAAAAAGgtgagtgtagcgaatctatttagctgtctctaacgctcatctgtctcagt Alignment from Spaln_aa2Genome CTGACAAAAAGTTCACCAGG-AAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG gaatcctttacattgtgcactgtgttttatagttttctttaccattctagCAGACAAAAAGTTCACCAGGcAAGCCACCTCGATTTTCCTGTCTCCTGCCAGATCCATGGGA-TTAATTGAAATTAAAAACAAAAAAAAGgtgagtgtagcgaatctatttagctgtctctaacgctcatctgtctcagt Alignment from Spaln_nt2Genome CTGACAAAAAGTTCACCAGG-AAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG gaatcctttacattgtgcactgtgttttatagttttctttaccattctagCAGACAAAAAGTTCACCAGGCAAGCCACCTCGATTTTCCTGTCTCCTGCCAGATCCATGGG-ATTAATTGAAATTAAAAACAAAAAAAAGgtgagtgtagcgaatctatttagctgtctctaacgctcatctgtctcagt Alignment from Pairagon CTGACAAAAAGTTCACCAGG-AAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG gaatcctttacattgtgcactgtgttttatagttttctttaccattctagCAGACAAAAAGTTCACCAGGCAAGCCACCTCGATTTTCCTGTCTCCTGCCAGATCCATGGG-ATTAATTGAAATTAAAAACAAAAAAAAGgtgagtgtagcgaatctatttagctgtctctaacgctcatctgtctcagt Alignment from Exonerate_protein2genome CTGACAAAAAGTTCACCAGG-AAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAA gaatcctttacattgtgcactgtgttttatagttttctttaccattctagCAGACAAAAAGTTCACCAGGCAAGCCACCTCGATTTTCCTGTCTCCTGCCAGATCCATGGGATTAATTGAAATTAAAAACAAAAAAAAGgtgagtgtagcgaatctatttagctgtctctaacgctcatctgtctcagt Alignment from Exonerate_coding2genome CTGACAAAAAGTTCACCAGG-AAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAA gaatcctttacattgtgcactgtgttttatagttttctttaccattctagCAGACAAAAAGTTCACCAGGCAAGCCACCTCGATTTTCCTGTCTCCTGCCAGATCCATGGGATTAATTGAAATTAAAAACAAAAAAAAGgtgagtgtagcgaatctatttagctgtctctaacgctcatctgtctcagt Alignment from GeneWise CTGACAAAAAGTTCACCAGG-AAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG gaatcctttacattgtgcactgtgttttatagttttctttaccattctagCAGACAAAAAGTTCACCAGGCAAGCCACCTCGATTTTCCTGTCTCCTGCCAGATCCATG-GGATTAATTGAAATTAAAAACAAAAAAAAGgtgagtgtagcgaatctatttagctgtctctaacgctcatctgtctcagt #### Gbf1_ID9800_19 --> 0 - 0 Original Alignment AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGC-TTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcattatgaggtgttacattaatgttttctcttttaacagAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCCTCTGCCTTAGCCTATGGTGCCATCATGCTGAACACTG-CCAGCATAACCACAATGTTCGAAAGCAGAATGCATCCATGACTCTAGAAgtaagtacagaatagctgtctaacttcagaagtcaggtgacttgtggcaa Alignment from CESAR AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTT-GCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcattatgaggtgttacattaatgttttctcttttaacagAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCCTCTGCCTTAGCCTATGGTGCCATCATGCTGAACACT-GCCAGCATAACCACAATGTTCGAAAGCAGAATGCATCCATGACTCTAGAAgtaagtacagaatagctgtctaacttcagaagtcaggtgacttgtggcaa Alignment from Spaln_aa2Genome AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcattatgaggtgttacattaatgttttctcttttaacagAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCCTCTGCCTTAGCCTATGGTGCCATCATGCTGAACACTGCCAGCATAACCACAATGTTCGAAAGCAGAATGCATCCATGACTCTAGAAgtaagtacagaatagctgtctaacttcagaagtcaggtgacttgtggcaa Alignment from Spaln_nt2Genome AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCT-TTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcattatgaggtgttacattaatgttttctcttttaacagAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCCTCTGCCTTAGCCTATGGTGCCATCATGCTGAACACTG-CCAGCATAACCACAATGTTCGAAAGCAGAATGCATCCATGACTCTAGAAgtaagtacagaatagctgtctaacttcagaagtcaggtgacttgtggcaa Alignment from Pairagon AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTG-CTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcattatgaggtgttacattaatgttttctcttttaacagAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCCTCTGCCTTAGCCTATGGTGCCATCATGCTGAACACTG-CCAGCATAACCACAATGTTCGAAAGCAGAATGCATCCATGACTCTAGAAgtaagtacagaatagctgtctaacttcagaagtcaggtgacttgtggcaa Alignment from Exonerate_protein2genome AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcattatgaggtgttacattaatgttttctcttttaacagAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCCTCTGCCTTAGCCTATGGTGCCATCATGCTGAACACTGCCAGCATAACCACAATGTTCGAAAGCAGAATGCATCCATGACTCTAGAAgtaagtacagaatagctgtctaacttcagaagtcaggtgacttgtggcaa Alignment from Exonerate_coding2genome AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcattatgaggtgttacattaatgttttctcttttaacagAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCCTCTGCCTTAGCCTATGGTGCCATCATGCTGAACACTGCCAGCATAACCACAATGTTCGAAAGCAGAATGCATCCATGACTCTAGAAgtaagtacagaatagctgtctaacttcagaagtcaggtgacttgtggcaa Alignment from GeneWise AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcattatgaggtgttacattaatgttttctcttttaacagAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCCTCTGCCTTAGCCTATGGTGCCATCATGCTGAACACTGCCAGCATAACCACAATGTTCGAAAGCAGAATGCATCCATGACTCTAGAAgtaagtacagaatagctgtctaacttcagaagtcaggtgacttgtggcaa #### Gbf1_ID9805_24 --> 0 - 2 Original Alignment GTAGAAGATTTT-GTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACcg gacttagcaattgttcccaggtagaagattttgtctcctccacctggcagGTAGAAGATTTTCGTAGACCCCAATGGCAAGATCTCTTTAC-ACATAAGGAGATACCATCAAACcagtaagttttgattaataagtgggctagagaagcagatatgatcagttcta Alignment from CESAR GTAGAAGATTTT-GTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACcg gacttagcaattgttcccaggtagaagattttgtctcctccacctggcagGTAGAAGATTTTCGTAGACCCCAATGGCAAGATCTCTTTACAC-ATAAGGAGATACCATCAAACcagtaagttttgattaataagtgggctagagaagcagatatgatcagttcta Alignment from Spaln_aa2Genome GTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAG---CGGGAGGAGACACCATCCAACCG gacttagcaattgttcccaggtagaagattttgtctcctccacctggcaggtagaagATT------TTCGTAGACCCCAATGGCAAGATCTCTTTACACATAAGGAGATACCATCAAACCAGTAAgttttgattaataagtgggctagagaagcagatatgatcagttcta Alignment from Spaln_nt2Genome GTAGAAGATTTT-GTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACCG gacttagcaattgttcccaggtagaagattttgtctcctccacctggcagGTAGAAGATTTTCGTAGACCCCAATGGCAAGATCTCTTTACA-CATAAGGAGATACCATCAAACCAgtaagttttgattaataagtgggctagagaagcagatatgatcagttcta Alignment from Pairagon GTAGAAGATTTT-GTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACCG gacttagcaattgttcccaggtagaagattttgtctcctccacctggcagGTAGAAGATTTTCGTAGACCCCAATGGCAAGATCTCTTTACA-CATAAGGAGATACCATCAAACCAgtaagttttgattaataagtgggctagagaagcagatatgatcagttcta Alignment from Exonerate_protein2genome GTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACCG gacttagcaattgttcccaggtagaagattttgtctcctccacctggcagGTAGAAGATTTTCGTAGACCCCAATGGCAAGATCTCTTTACACATAAGGAGATACCATCAAACCAgtaagttttgattaataagtgggctagagaagcagatatgatcagttcta Alignment from Exonerate_coding2genome GTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACCG gacttagcaattgttcccaggtagaagattttgtctcctccacctggcagGTAGAAGATTTTCGTAGACCCCAATGGCAAGATCTCTTTACACATAAGGAGATACCATCAAACCAgtaagttttgattaataagtgggctagagaagcagatatgatcagttcta Alignment from GeneWise AGATC gacttagcaattgttcccaggtagaagattttgtctcctccacctggcaggtagaagattttcgtagaccccaatggcaagatctctttacacataaggagataccatcaaaccagtaagttttgattaataagtgggctagagaagcagatatgatcagTTCTA #### Gbf1_ID9806_25 --> 1 - 0 Original Alignment aGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCC-AGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ctagagaagcagatatgatcagttctatactgaatattgcttctttgcagaGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCTGACTTTGAGTGGCCCTGAACAGTCACAGTGTCCAGGGTCCATCTACAGAGAACCAAGAGG-CAAAAGGGTGGCCTTAGATTGTATTAAGgtgagttgttgacccaatgttacaaggataatcatgcagggataatatag Alignment from CESAR aGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCC-AGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ctagagaagcagatatgatcagttctatactgaatattgcttctttgcagaGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCTGACTTTGAGTGGCCCTGAACAGTCACAGTGTCCAGGGTCCATCTACAGAGAACCAAGAGGCAA-AAGGGTGGCCTTAGATTGTATTAAGgtgagttgttgacccaatgttacaaggataatcatgcagggataatatag Alignment from Spaln_aa2Genome AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ctagagaagcagatatgatcagttctatactgaatattgcttctttgcagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCTGACTTTGAGTGGCCCTGAACAGTCACAGTGTCCAGGGTCCATCTACAGAGAACCAAGAGGCAAAAGGGTGGCCTTAGATTGTATTAAGgtgagttgttgacccaatgttacaaggataatcatgcagggataatatag Alignment from Spaln_nt2Genome AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTC-CAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ctagagaagcagatatgatcagttctatactgaatattgcttctttgcagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCTGACTTTGAGTGGCCCTGAACAGTCACAGTGTCCAGGGTCCATCTACAGAGAACCAAGAGG-CAAAAGGGTGGCCTTAGATTGTATTAAGgtgagttgttgacccaatgttacaaggataatcatgcagggataatatag Alignment from Pairagon AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTC-CAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ctagagaagcagatatgatcagttctatactgaatattgcttctttgcagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCTGACTTTGAGTGGCCCTGAACAGTCACAGTGTCCAGGGTCCATCTACAGAGAACCAAGAGG-CAAAAGGGTGGCCTTAGATTGTATTAAGgtgagttgttgacccaatgttacaaggataatcatgcagggataatatag Alignment from Exonerate_protein2genome AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ctagagaagcagatatgatcagttctatactgaatattgcttctttgcagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCTGACTTTGAGTGGCCCTGAACAGTCACAGTGTCCAGGGTCCATCTACAGAGAACCAAGAGGCAAAAGGGTGGCCTTAGATTGTATTAAGgtgagttgttgacccaatgttacaaggataatcatgcagggataatatag Alignment from Exonerate_coding2genome AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ctagagaagcagatatgatcagttctatactgaatattgcttctttgcagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCTGACTTTGAGTGGCCCTGAACAGTCACAGTGTCCAGGGTCCATCTACAGAGAACCAAGAGGCAAAAGGGTGGCCTTAGATTGTATTAAGgtgagttgttgacccaatgttacaaggataatcatgcagggataatatag Alignment from GeneWise AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ctagagaagcagatatgatcagttctatactgaatattgcttctttgcagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCTGACTTTGAGTGGCCCTGAACAGTCACAGTGTCCAGGGTCCATCTACAGAGAACCAAGAGGCAAAAGGGTGGCCTTAGATTGTATTAAGgtgagttgttgacccaatgttacaaggataatcatgcagggataatatag #### Gbf1_ID9807_26 --> 0 - 0 Original Alignment CAATGTGACCCAGAA-AAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgccctgaactttctttgcttatcatactctgctcatctggttcctagCAGTGTGACCCAGAACAAGATGATCACGGAAAGCAAGTTCCTCC-GCTGGAATCACTGCAGGAACTCATGAAGgtgggttgtgaacagatcgtggaaagatagaatcttactggtgcagtgca Alignment from CESAR CAATGTGACCCAGAA-AAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgccctgaactttctttgcttatcatactctgctcatctggttcctagCAGTGTGACCCAGAACAAGATGATCACGGAAAGCAAGTTCCTC-CGCTGGAATCACTGCAGGAACTCATGAAGgtgggttgtgaacagatcgtggaaagatagaatcttactggtgcagtgca Alignment from Spaln_aa2Genome CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgccctgaactttctttgcttatcatactctgctcatctggttcctagCAGTGTGACCCAGAACAAGATGATCACGGAAAGCAAGTTCCTCCGCTGGAATCACTGCAGGAACTCATGAAGgtgggttgtgaacagatcgtggaaagatagaatcttactggtgcagtgca Alignment from Spaln_nt2Genome CAATGTGACCCAGAAAAA-ATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgccctgaactttctttgcttatcatactctgctcatctggttcctagCAGTGTGACCCAGAACAAGATGATCACGGAAAGCAAGTTCCTCC-GCTGGAATCACTGCAGGAACTCATGAAGgtgggttgtgaacagatcgtggaaagatagaatcttactggtgcagtgca Alignment from Pairagon CAATGTGACCCAGAA-AAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgccctgaactttctttgcttatcatactctgctcatctggttcctagCAGTGTGACCCAGAACAAGATGATCACGGAAAGCAAGTTCCTCC-GCTGGAATCACTGCAGGAACTCATGAAGgtgggttgtgaacagatcgtggaaagatagaatcttactggtgcagtgca Alignment from Exonerate_protein2genome CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgccctgaactttctttgcttatcatactctgctcatctggttcctagCAGTGTGACCCAGAACAAGATGATCACGGAAAGCAAGTTCCTCCGCTGGAATCACTGCAGGAACTCATGAAGgtgggttgtgaacagatcgtggaaagatagaatcttactggtgcagtgca Alignment from Exonerate_coding2genome CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgccctgaactttctttgcttatcatactctgctcatctggttcctagCAGTGTGACCCAGAACAAGATGATCACGGAAAGCAAGTTCCTCCGCTGGAATCACTGCAGGAACTCATGAAGgtgggttgtgaacagatcgtggaaagatagaatcttactggtgcagtgca Alignment from GeneWise CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgccctgaactttctttgcttatcatactctgctcatctggttcctagCAGTGTGACCCAGAACAAGATGATCACGGAAAGCAAGTTCCTCCGCTGGAATCACTGCAGGAACTCATGAAGgtgggttgtgaacagatcgtggaaagatagaatcttactggtgcagtgca #### Gbf1_ID9818_37 --> 0 - 1 Original Alignment TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTC-TGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGg agtctccattcaaaacactacttctcctcattgaaattctttccacccagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCTCTCCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGC-ACACTTGCGTGATGAACTCTTCAAGCAGACTGTCATCCAAggtgagggcagatttgataaccaagcactttactcacagaactacccagag Alignment from CESAR TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTC-TGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGg agtctccattcaaaacactacttctcctcattgaaattctttccacccagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCTCTCCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTG-CACACTTGCGTGATGAACTCTTCAAGCAGACTGTCATCCAAggtgagggcagatttgataaccaagcactttactcacagaactacccagag Alignment from Spaln_aa2Genome TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtctccattcaaaacactacttctcctcattgaaattctttccacccagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCTCTCCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCACACTTGCGTGATGAACTCTTCAAGCAGACTGTCATCCAAGgtgagggcagatttgataaccaagcactttactcacagaactacccagag Alignment from Spaln_nt2Genome TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCT-CTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtctccattcaaaacactacttctcctcattgaaattctttccacccagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCTCTCCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTG-CACACTTGCGTGATGAACTCTTCAAGCAGACTGTCATCCAAGgtgagggcagatttgataaccaagcactttactcacagaactacccagag Alignment from Pairagon TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCT-CTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtctccattcaaaacactacttctcctcattgaaattctttccacccagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCTCTCCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTG-CACACTTGCGTGATGAACTCTTCAAGCAGACTGTCATCCAAGgtgagggcagatttgataaccaagcactttactcacagaactacccagag Alignment from Exonerate_protein2genome TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTC-TGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTG--CCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtctccattcaaaacactacttctcctcattgaaattctttccacccagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCTCTCCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCA---CACTTGCGTGATGAACTCTTCAAGCAGACTGTCATCCAAGgtgagggcagatttgataaccaagcactttactcacagaactacccagag Alignment from Exonerate_coding2genome TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTC-TGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTG--CCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtctccattcaaaacactacttctcctcattgaaattctttccacccagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCTCTCCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCA---CACTTGCGTGATGAACTCTTCAAGCAGACTGTCATCCAAGgtgagggcagatttgataaccaagcactttactcacagaactacccagag Alignment from GeneWise TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtctccattcaaaacactacttctcctcattgaaattctttccacccagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCTCTCCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCACACTTGCGTGATGAACTCTTCAAGCAGACTGTCATCCAAGgtgagggcagatttgataaccaagcactttactcacagaactacccagag #### Gif_ID3278_2 --> 2 - 1 Original Alignment ctGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCC-TACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAg gtcattctgtggagcagcacacatgtagacacctgttcctatccttgcagctGTTCCCCCAGATCAGCAGCCTTGGGTTGAGGGCTTACAAACACTCATGGAAAATTCAGTGACTGACTCTGACTTCCCAAACCCAACCATG---ATTGCCAAGAACCTGGCTGGTGCACTACATTGTGGAACCTCAAAAACTCCTGACTTACCAGC-AATGGCCAGTGACAGTGCAggtaagtcactaagggcacatcctcaccctgagtctctcatgctcacccaa Alignment from CESAR ctGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCC-TACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAg gtcattctgtggagcagcacacatgtagacacctgttcctatccttgcagctGTTCCCCCAGATCAGCAGCCTTGGGTTGAGGGCTTACAAACACTCATGGAAAATTCAGTGACTGACTCTGACTTCCCAAACCCAACC---ATGATTGCCAAGAACCTGGCTGGTGCACTACATTGTGGAACCTCAAAAACTCCTGACTTACCAG-CAATGGCCAGTGACAGTGCAggtaagtcactaagggcacatcctcaccctgagtctctcatgctcacccaa Alignment from Spaln_aa2Genome CTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG gtcattctgtggagcagcacacatgtagacacctgttcctatccttgcagCTGTTCCCCCAGATCAGCAGCCTTGGGTTGAGGGCTTACAAACACTCATGGAAAATTCAGTGACTGACTCTGACTTCCCAAACCCAACCATG---ATTGCCAAGAACCTGGCTGGTGCACTACATTGTGGAACCTCAAAAACTCCTGACTTACCAGCAATGGCCAGTGACAGTGCAGgtaagtcactaagggcacatcctcaccctgagtctctcatgctcacccaa Alignment from Spaln_nt2Genome CTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGC-CTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG gtcattctgtggagcagcacacatgtagacacctgttcctatccttgcagCTGTTCCCCCAGATCAGCAGCCTTGGGTTGAGGGCTTACAAACACTCATGGAAAATTCAGTGACTGACTCTGACTTCCCAAACCCAACCA---TGATTGCCAAGAACCTGGCTGGTGCACTACATTGTGGAACCTCAAAAACTCCTGACTTACCAGC-AATGGCCAGTGACAGTGCAGgtaagtcactaagggcacatcctcaccctgagtctctcatgctcacccaa Alignment from Pairagon CTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGC-CTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG gtcattctgtggagcagcacacatgtagacacctgttcctatccttgcagCTGTTCCCCCAGATCAGCAGCCTTGGGTTGAGGGCTTACAAACACTCATGGAAAATTCAGTGACTGACTCTGACTTCCCAAACCCAACCA---TGATTGCCAAGAACCTGGCTGGTGCACTACATTGTGGAACCTCAAAAACTCCTGACTTACCAGC-AATGGCCAGTGACAGTGCAGgtaagtcactaagggcacatcctcaccctgagtctctcatgctcacccaa Alignment from Exonerate_protein2genome CTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG gtcattctgtggagcagcacacatgtagacacctgttcctatccttgcagCTGTTCCCCCAGATCAGCAGCCTTGGGTTGAGGGCTTACAAACACTCATGGAAAATTCAGTGACTGACTCTGACTTCCCAAACCCAACC---ATGATTGCCAAGAACCTGGCTGGTGCACTACATTGTGGAACCTCAAAAACTCCTGACTTACCAGCAATGGCCAGTGACAGTGCAGgtaagtcactaagggcacatcctcaccctgagtctctcatgctcacccaa Alignment from Exonerate_coding2genome CTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG gtcattctgtggagcagcacacatgtagacacctgttcctatccttgcagCTGTTCCCCCAGATCAGCAGCCTTGGGTTGAGGGCTTACAAACACTCATGGAAAATTCAGTGACTGACTCTGACTTCCCAAACCCAACC---ATGATTGCCAAGAACCTGGCTGGTGCACTACATTGTGGAACCTCAAAAACTCCTGACTTACCAGCAATGGCCAGTGACAGTGCAGgtaagtcactaagggcacatcctcaccctgagtctctcatgctcacccaa Alignment from GeneWise CTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG gtcattctgtggagcagcacacatgtagacacctgttcctatccttgcagCTGTTCCCCCAGATCAGCAGCCTTGGGTTGAGGGCTTACAAACACTCATGGAAAATTCAGTGACTGACTCTGACTTCCCAAACCCAACC---ATGATTGCCAAGAACCTGGCTGGTGCACTACATTGTGGAACCTCAAAAACTCCTGACTTACCAGCAATGGCCAGTGACAGTGCAGgtaagtcactaagggcacatcctcaccctgagtctctcatgctcacccaa #### Gif_ID3279_3 --> 2 - 1 Original Alignment acCTGACAAGTGGGCAGCTTGCC-CTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAa ctccctctttttcttgtgttgtgtgtcttgtgtccctggtctcttcacagacTTGACAAGTGGGCAGCTGGCTCCTCACTGTTATGGCTTTCACATCCTCTTGCAGAGACCCAGGTA-TAAGGTTTCTACTCTG---AGGAAAATGGAAAACTGGTCACCTTCAagtgagtgtggtctatggggatattaggaggaatagagtgtcatctatgcg Alignment from CESAR acCTGACAAGTGGGCAGCTTGCC-CTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAa ctccctctttttcttgtgttgtgtgtcttgtgtccctggtctcttcacagacTTGACAAGTGGGCAGCTGGCTCCTCACTGTTATGGCTTTCACATCCTCTTGCAGAGACCCAGGT-ATAAGGTTTCTACT---CTGAGGAAAATGGAAAACTGGTCACCTTCAagtgagtgtggtctatggggatattaggaggaatagagtgtcatctatgcg Alignment from Spaln_aa2Genome ACCTGACAAGTGGGCAGCTTGCC-CTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAA ctccctctttttcttgtgttgtgtgtcttgtgtccctggtctcttcacagACTTGACAAGTGGGCAGCTGGCTcCTCACTGTTATGGCTTTCACATCCTCTTGCAGAGACCCAGGTAT-AAGGTTTCTACT---CTGAGGAAAATGGAAAACTGGTCACCTTCAAgtgagtgtggtctatggggatattaggaggaatagagtgtcatctatgcg Alignment from Spaln_nt2Genome ACCTGACAAGTGGGCAGCTTGC-CCTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAA ctccctctttttcttgtgttgtgtgtcttgtgtccctggtctcttcacagACTTGACAAGTGGGCAGCTGGCTCCTCACTGTTATGGCTTTCACATCCTCTTGCAGAGACCCAGGTA-TAAGGTTTCTACT---CTGAGGAAAATGGAAAACTGGTCACCTTCAAgtgagtgtggtctatggggatattaggaggaatagagtgtcatctatgcg Alignment from Pairagon ACCTGACAAGTGGGCAGCTTGC-CCTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAA ctccctctttttcttgtgttgtgtgtcttgtgtccctggtctcttcacagACTTGACAAGTGGGCAGCTGGCTCCTCACTGTTATGGCTTTCACATCCTCTTGCAGAGACCCAGGTA-TAAGGTTTCTACT---CTGAGGAAAATGGAAAACTGGTCACCTTCAAgtgagtgtggtctatggggatattaggaggaatagagtgtcatctatgcg Alignment from Exonerate_protein2genome ACCTGACAAGTGGGCAGCTTGCC-CTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGA--AGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAA ctccctctttttcttgtgttgtgtgtcttgtgtccctggtctcttcacagACTTGACAAGTGGGCAGCTGGCTCCTCACTGTTATGGCTTTCACATCCTCTTGCAGAGACCCAGGTAT---AAGGTTTCTACT---CTGAGGAAAATGGAAAACTGGTCACCTTCAAgtgagtgtggtctatggggatattaggaggaatagagtgtcatctatgcg Alignment from Exonerate_coding2genome ACCTGACAAGTGGGCAGCTTGCC-CTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGA--AGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAA ctccctctttttcttgtgttgtgtgtcttgtgtccctggtctcttcacagACTTGACAAGTGGGCAGCTGGCTCCTCACTGTTATGGCTTTCACATCCTCTTGCAGAGACCCAGGTAT---AAGGTTTCTACT---CTGAGGAAAATGGAAAACTGGTCACCTTCAAgtgagtgtggtctatggggatattaggaggaatagagtgtcatctatgcg Alignment from GeneWise ACCTGACAAGTGGGCAGCTTGCCCTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAA ctccctctttttcttgtgttgtgtgtcttgtgtccctggtctcttcacagACTTGACAAGTGGGCAGCTGGCTCCTCACTGTTATGGCTTTCACATCCTCTTGCAGAGACCCAGGTATAAGGTTTCTACTCTG---AGGAAAATGGAAAACTGGTCACCTTCAAgtgagtgtggtctatggggatattaggaggaatagagtgtcatctatgcg #### Gldc_ID6402_13 --> 1 - 0 Original Alignment cTATCACTCAGAAACT-AATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG attgtggatttgcttaactcactgtttatgtttgtttctttgtttttcagtTACCACTCAGAAACTCAATCTTGTTCCTTACATGAAGAGATTGGAGAACCAAGACA-CTCCCTTCTACACAGTATGATTCCTCTAgtaagtgcagcatgacatggttaccatgtacattggtatgtattaggtgt Alignment from CESAR cTATCACTCAGAAACT-AATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG attgtggatttgcttaactcactgtttatgtttgtttctttgtttttcagtTACCACTCAGAAACTCAATCTTGTTCCTTACATGAAGAGATTGGAGAACCAAGAC-ACTCCCTTCTACACAGTATGATTCCTCTAgtaagtgcagcatgacatggttaccatgtacattggtatgtattaggtgt Alignment from Spaln_aa2Genome CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG attgtggatttgcttaactcactgtttatgtttgtttctttgtttttcagTTACCACTCAGAAACTCAATCTTGTTCCTTACATGAAGAGATTGGAGAACCAAGACACTCCCTTCTACACAGTATGATTCCTCTAgtaagtgcagcatgacatggttaccatgtacattggtatgtattaggtgt Alignment from Spaln_nt2Genome CTATCACTCAGAAACT-AATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG attgtggatttgcttaactcactgtttatgtttgtttctttgtttttcagTTACCACTCAGAAACTCAATCTTGTTCCTTACATGAAGAGATTGGAGAACCAAGACA-CTCCCTTCTACACAGTATGATTCCTCTAgtaagtgcagcatgacatggttaccatgtacattggtatgtattaggtgt Alignment from Pairagon CTATCACTCAGAAACT-AATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG attgtggatttgcttaactcactgtttatgtttgtttctttgtttttcagTTACCACTCAGAAACTCAATCTTGTTCCTTACATGAAGAGATTGGAGAACCAAGACA-CTCCCTTCTACACAGTATGATTCCTCTAgtaagtgcagcatgacatggttaccatgtacattggtatgtattaggtgt Alignment from Exonerate_protein2genome CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG attgtggatttgcttaactcactgtttatgtttgtttctttgtttttcagTTACCACTCAGAAACTCAATCTTGTTCCTTACATGAAGAGATTGGAGAACCAAGACACTCCCTTCTACACAGTATGATTCCTCTAgtaagtgcagcatgacatggttaccatgtacattggtatgtattaggtgt Alignment from Exonerate_coding2genome CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG attgtggatttgcttaactcactgtttatgtttgtttctttgtttttcagTTACCACTCAGAAACTCAATCTTGTTCCTTACATGAAGAGATTGGAGAACCAAGACACTCCCTTCTACACAGTATGATTCCTCTAgtaagtgcagcatgacatggttaccatgtacattggtatgtattaggtgt Alignment from GeneWise CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG attgtggatttgcttaactcactgtttatgtttgtttctttgtttttcagTTACCACTCAGAAACTCAATCTTGTTCCTTACATGAAGAGATTGGAGAACCAAGACACTCCCTTCTACACAGTATGATTCCTCTAgtaagtgcagcatgacatggttaccatgtacattggtatgtattaggtgt #### Got1_ID8751_4 --> 2 - 0 Original Alignment agAACCATAATGCTGTGTTTTCTGCCGCC-GGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG ttagttatatgtccattcctaatggatatttacagactgtattttcacagagAACCATAATGCTGTATTCTCTGCTGCTCGGTTTCAAGGATATTCGACCCTATTGCTACTGGGATG-TGAGAAAAGAGGACTGGACCTTCAGGGTTTTCTTAATGATCTGGAGgtaagtgagacagaagcacagagaactctgtttagtcgctaggaggaata Alignment from CESAR agAACCATAATGCTGTGTTTTCTGCCGCC-GGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG ttagttatatgtccattcctaatggatatttacagactgtattttcacagagAACCATAATGCTGTATTCTCTGCTGCTCGGTTTCAAGGATATTCGACCCTATTGCTACTGGGATG-TGAGAAAAGAGGACTGGACCTTCAGGGTTTTCTTAATGATCTGGAGgtaagtgagacagaagcacagagaactctgtttagtcgctaggaggaata Alignment from Spaln_aa2Genome AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG ttagttatatgtccattcctaatggatatttacagactgtattttcacagAGAACCATAATGCTGTATTCTCTGCTGCTCGGTTTCAAGGATATTCGACCCTATTGCTACTGGGATGTGAGAAAAGAGGACTGGACCTTCAGGGTTTTCTTAATGATCTGGAGgtaagtgagacagaagcacagagaactctgtttagtcgctaggaggaata Alignment from Spaln_nt2Genome AGAACCATAATGCTGTGTTTTCTGCCGC-CGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG ttagttatatgtccattcctaatggatatttacagactgtattttcacagAGAACCATAATGCTGTATTCTCTGCTGCTCGGTTTCAAGGATATTCGACCCTATTGCTACTGGGATGT-GAGAAAAGAGGACTGGACCTTCAGGGTTTTCTTAATGATCTGGAGgtaagtgagacagaagcacagagaactctgtttagtcgctaggaggaata Alignment from Pairagon AGAACCATAATGCTGTGTTTTCTGCCGC-CGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG ttagttatatgtccattcctaatggatatttacagactgtattttcacagAGAACCATAATGCTGTATTCTCTGCTGCTCGGTTTCAAGGATATTCGACCCTATTGCTACTGGGATGT-GAGAAAAGAGGACTGGACCTTCAGGGTTTTCTTAATGATCTGGAGgtaagtgagacagaagcacagagaactctgtttagtcgctaggaggaata Alignment from Exonerate_protein2genome AGAACCATAATGCTGTGTTTTCTGCCGCC-GGTTTTAAGGACATTCGGCCCTATTGCTACTGGGAT--GCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG ttagttatatgtccattcctaatggatatttacagactgtattttcacagAGAACCATAATGCTGTATTCTCTGCTGCTCGGTTTCAAGGATATTCGACCCTATTGCTACTGGGATGT---GAGAAAAGAGGACTGGACCTTCAGGGTTTTCTTAATGATCTGGAGgtaagtgagacagaagcacagagaactctgtttagtcgctaggaggaata Alignment from Exonerate_coding2genome AGAACCATAATGCTGTGTTTTCTGCCGCC-GGTTTTAAGGACATTCGGCCCTATTGCTACTGGGAT--GCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG ttagttatatgtccattcctaatggatatttacagactgtattttcacagAGAACCATAATGCTGTATTCTCTGCTGCTCGGTTTCAAGGATATTCGACCCTATTGCTACTGGGATGT---GAGAAAAGAGGACTGGACCTTCAGGGTTTTCTTAATGATCTGGAGgtaagtgagacagaagcacagagaactctgtttagtcgctaggaggaata Alignment from GeneWise AGAACCATAATGCTGTGTTTTCTGCC-GCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG ttagttatatgtccattcctaatggatatttacagactgtattttcacagAGAACCATAATGCTGTATTCTCTGCTGCTCGGTTTCAAGGATATTCGACCCTATTGCTACTGGGATGT-GAGAAAAGAGGACTGGACCTTCAGGGTTTTCTTAATGATCTGGAGgtaagtgagacagaagcacagagaactctgtttagtcgctaggaggaata #### Gpam_ID11539_10 --> 0 - 0 Original Alignment GGAAAGCCCAAGAAGAACGAGAGCCTCTGGAGTGTGGCGAGAGGCGTTATCAGAATGCTGCGG-AAAAACTACGGCTACGTCCGAGTGGATTTTGCACAGCCATTTTCCTTGAAG tagggatgtgaacatccagaagtaaatgacaccctcatggaatgccacagGGCAAGCCCAAGAAGAATGAGAGCCTCTGGAGTGTAGCTAGAGGTGTTGTCAGAATGCTGCGTCAAAAACTATGGTTATGTCAGAGTGGATTTTGCACAGC-ATTTTCACTGAAAgtctggatatacacaaaggtgcagactcaaacccagagcttgttttttta Alignment from CESAR GGAAAGCCCAAGAAGAACGAGAGCCTCTGGAGTGTGGCGAGAGGCGTTATCAGAATGCTGCGG-AAAAACTACGGCTACGTCCGAGTGGATTTTGCACAGCCATTTTCCTTGAAG tagggatgtgaacatccagaagtaaatgacaccctcatggaatgccacagGGCAAGCCCAAGAAGAATGAGAGCCTCTGGAGTGTAGCTAGAGGTGTTGTCAGAATGCTGCGTCAAAAACTATGGTTATGTCAGAGTGGATTTTGCACAG-CATTTTCACTGAAAgtctggatatacacaaaggtgcagactcaaacccagagcttgttttttta Alignment from Spaln_aa2Genome GGAAAGCCCAAGAAGAACGAGAGCCTCTGGAGTGTGGCGAGAGGCGTTATCAGAATGCTGCGG-AAAAACTACGGCTACGTCCGAGTGGATTTTGCACAGCCATTTTCCTTGAAG tagggatgtgaacatccagaagtaaatgacaccctcatggaatgccacagGGCAAGCCCAAGAAGAATGAGAGCCTCTGGAGTGTAGCTAGAGGTGTTGTCAGAATGCTGCGTcAAAAACTATGGTTATGTCAGAGTGGATTTTGCACAGCA-TTTTCACTGAAAgtctggatatacacaaaggtgcagactcaaacccagagcttgttttttta Alignment from Spaln_nt2Genome GGAAAGCCCAAGAAGAACGAGAGCCTCTGGAGTGTGGCGAGAGGCGTTATCAGAATGCTGCGG-AAAAACTACGGCTACGTCCGAGTGGATTTTGCACAGCCATTTTCCTTGAAG tagggatgtgaacatccagaagtaaatgacaccctcatggaatgccacagGGCAAGCCCAAGAAGAATGAGAGCCTCTGGAGTGTAGCTAGAGGTGTTGTCAGAATGCTGCGTCAAAAACTATGGTTATGTCAGAGTGGATTTTGCACAG-CATTTTCACTGAAAgtctggatatacacaaaggtgcagactcaaacccagagcttgttttttta Alignment from Pairagon GGAAAGCCCAAGAAGAACGAGAGCCTCTGGAGTGTGGCGAGAGGCGTTATCAGAATGCTGCG-GAAAAACTACGGCTACGTCCGAGTGGATTTTGCACAGCCATTTTCCTTGAAG tagggatgtgaacatccagaagtaaatgacaccctcatggaatgccacagGGCAAGCCCAAGAAGAATGAGAGCCTCTGGAGTGTAGCTAGAGGTGTTGTCAGAATGCTGCGTCAAAAACTATGGTTATGTCAGAGTGGATTTTGCACAG-CATTTTCACTGAAAgtctggatatacacaaaggtgcagactcaaacccagagcttgttttttta Alignment from Exonerate_protein2genome GGAAAGCCCAAGAAGAACGAGAGCCTCTGGAGTGTGGCGAGAGGCGTTATCAGAATGCTGCGG-AAAAACTACGGCTACGTCCGAGTGGATTTTGCACAGCCATTTTCCTTGAAG tagggatgtgaacatccagaagtaaatgacaccctcatggaatgccacagGGCAAGCCCAAGAAGAATGAGAGCCTCTGGAGTGTAGCTAGAGGTGTTGTCAGAATGCTGCGTCAAAAACTATGGTTATGTCAGAGTGGATTTTGCACAGCATTTTCACTGAAAGtctggatatacacaaaggtgcagactcaaacccagagcttgttttttta Alignment from Exonerate_coding2genome GGAAAGCCCAAGAAGAACGAGAGCCTCTGGAGTGTGGCGAGAGGCGTTATCAGAATGCTGCGG-AAAAACTACGGCTACGTCCGAGTGGATTTTGCACAGCCATTTTCCTTGAAG tagggatgtgaacatccagaagtaaatgacaccctcatggaatgccacagGGCAAGCCCAAGAAGAATGAGAGCCTCTGGAGTGTAGCTAGAGGTGTTGTCAGAATGCTGCGTCAAAAACTATGGTTATGTCAGAGTGGATTTTGCACAGCATTTTCACTGAAAGtctggatatacacaaaggtgcagactcaaacccagagcttgttttttta Alignment from GeneWise GGAAAGCCCAAGAAGAACGAGAGCCTCTGGAGTGTGGCGAGAGGCGTTATCAGAATGCTGCGGAAAAACTACGGCTACGTCCGAGTGGATTTTGCACAGCCATTTTCCTTGAAG tagggatgtgaacatccagaagtaaatgacaccctcatggaatgccacagGGCAAGCCCAAGAAGAATGAGAGCCTCTGGAGTGTAGCTAGAGGTGTTGTCAGAATGCTGCGTCAAAAACTATGGTTATGTCAGAGTGGATTTTGCACAGCATTTTCACTGAAAgtctggatatacacaaaggtgcagactcaaacccagagcttgttttttta #### Gpam_ID11543_6 --> 1 - 0 Original Alignment gCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTC-TGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG gtgcccattctccggctatcgtgacgcactcttggcactgtgtgttgtaggTTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCA-GGCTGCCACTGAGgtaagatctgaatttaaaaacctgagggaaggtgtgcattactggatgtt Alignment from CESAR gCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTC-TGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG gtgcccattctccggctatcgtgacgcactcttggcactgtgtgttgtaggTTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCA-GGCTGCCACTGAGgtaagatctgaatttaaaaacctgagggaaggtgtgcattactggatgtt Alignment from Spaln_aa2Genome GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTC-TGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG gtgcccattctccggctatcgtgacgcactcttggcactgtgtgttgtagGTTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCcTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAG-GCTGCCACTGAGgtaagatctgaatttaaaaacctgagggaaggtgtgcattactggatgtt Alignment from Spaln_nt2Genome GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTT-CTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG gtgcccattctccggctatcgtgacgcactcttggcactgtgtgttgtagGTTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTC-AGGCTGCCACTGAGgtaagatctgaatttaaaaacctgagggaaggtgtgcattactggatgtt Alignment from Pairagon GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTT-CTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG gtgcccattctccggctatcgtgacgcactcttggcactgtgtgttgtagGTTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTC-AGGCTGCCACTGAGgtaagatctgaatttaaaaacctgagggaaggtgtgcattactggatgtt Alignment from Exonerate_protein2genome GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTC-TGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGA gtgcccattctccggctatcgtgacgcactcttggcactgtgtgttgtagGTTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAGGCTGCCACTGAGgtaagatctgaatttaaaaacctgagggaaggtgtgcattactggatgtt Alignment from Exonerate_coding2genome GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTC-TGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGA gtgcccattctccggctatcgtgacgcactcttggcactgtgtgttgtagGTTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAGGCTGCCACTGAGgtaagatctgaatttaaaaacctgagggaaggtgtgcattactggatgtt Alignment from GeneWise GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG gtgcccattctccggctatcgtgacgcactcttggcactgtgtgttgtagGTTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAGGCTGCCACTGAGgtaagatctgaatttaaaaacctgagggaaggtgtgcattactggatgtt #### Gpha2_ID1505_2 --> 2 - 0 Original Alignment ccTTCAATGTG---ACGGTGCGCAGTGAT-CGCCTCGGCACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG caatatgataggtatcctagtttttcagccgtgttttttctgcttcatagcaTTCAATGTTGCAGCAGTGCATAGTGACCCACCTTGGAAAGTGTCAGGCATCCCAATTATCACAGG-CTGTGTGGGATACTGTGAGTCCAGTGCTTTTCCCTCCCGGTACTCTGTATTGGTGGTCAGTGGTTATCGGCACAATACTACATCATCATCCCCCTGCTGCACTATCAGCAGCCTTAGAAAGgtaagtgttctgtgtctgcaagttacactttggacacatatgccaatggt Alignment from CESAR ccTTCAATGTG---ACGGTGCGCAGTGAT-CGCCTCGGCACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG caatatgataggtatcctagtttttcagccgtgttttttctgcttcatagcaTTCAATGTTGCAGCAGTGCATAGTGACCCACCTTGGAAAGTGTCAGGCATCCCAATTATCACAGG-CTGTGTGGGATACTGTGAGTCCAGTGCTTTTCCCTCCCGGTACTCTGTATTGGTGGTCAGTGGTTATCGGCACAATACTACATCATCATCCCCCTGCTGCACTATCAGCAGCCTTAGAAAGgtaagtgttctgtgtctgcaagttacactttggacacatatgccaatggt Alignment from Spaln_aa2Genome CCTTCAATGTG---ACGGTGCGCAGTGATCGCCTCGGCACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG caatatgataggtatcctagtttttcagccgtgttttttctgcttcatagCATTCAATGTTGCAGCAGTGCATAGTGACCCACCTTGGAAAGTGTCAGGCATCCCAATTATCACAGGCTGTGTGGGATACTGTGAGTCCAGTGCTTTTCCCTCCCGGTACTCTGTATTGGTGGTCAGTGGTTATCGGCACAATACTACATCATCATCCCCCTGCTGCACTATCAGCAGCCTTAGAAAGgtaagtgttctgtgtctgcaagttacactttggacacatatgccaatggt Alignment from Spaln_nt2Genome CCTTCAATGTGACGG---TGCGCAGTGATCG-CCTCGGCACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG caatatgataggtatcctagtttttcagccgtgttttttctgcttcatagCATTCAATGTTGCAGCAGTGCATAGTGACCCACCTTGGAAAGTGTCAGGCATCCCAATTATCACAGG-CTGTGTGGGATACTGTGAGTCCAGTGCTTTTCCCTCCCGGTACTCTGTATTGGTGGTCAGTGGTTATCGGCACAATACTACATCATCATCCCCCTGCTGCACTATCAGCAGCCTTAGAAAGgtaagtgttctgtgtctgcaagttacactttggacacatatgccaatggt Alignment from Pairagon CCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG caatatgataggtatcctagtttttcagccgtgttttttctgcttcatagcattcaatgttgcagcagtgcatagtgacccaccttggaaagtgtcaggcatcccaattatcacagGCTGTGTGGGATACTGTGAGTCCAGTGCTTTTCCCTCCCGGTACTCTGTATTGGTGGTCAGTGGTTATCGGCACAATACTACATCATCATCCCCCTGCTGCACTATCAGCAGCCTTAGAAAGgtaagtgttctgtgtctgcaagttacactttggacacatatgccaatggt Alignment from Exonerate_protein2genome CCTTCAATGTG---ACGGTGCGCAGTGATCGCCTCGGCACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG caatatgataggtatcctagtttttcagccgtgttttttctgcttcatagCATTCAATGTTGCAGCAGTGCATAGTGACCCACCTTGGAAAGTGTCAGGCATCCCAATTATCACAGGCTGTGTGGGATACTGTGAGTCCAGTGCTTTTCCCTCCCGGTACTCTGTATTGGTGGTCAGTGGTTATCGGCACAATACTACATCATCATCCCCCTGCTGCACTATCAGCAGCCTTAGAAAGgtaagtgttctgtgtctgcaagttacactttggacacatatgccaatggt Alignment from Exonerate_coding2genome CCTTCAATGTG---ACGGTGCGCAGTGATCGCCTCGGCACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG caatatgataggtatcctagtttttcagccgtgttttttctgcttcatagCATTCAATGTTGCAGCAGTGCATAGTGACCCACCTTGGAAAGTGTCAGGCATCCCAATTATCACAGGCTGTGTGGGATACTGTGAGTCCAGTGCTTTTCCCTCCCGGTACTCTGTATTGGTGGTCAGTGGTTATCGGCACAATACTACATCATCATCCCCCTGCTGCACTATCAGCAGCCTTAGAAAGgtaagtgttctgtgtctgcaagttacactttggacacatatgccaatggt Alignment from GeneWise CCTTCAATGTGACG---GTGCGCAGTGATCGCCTCGGCACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG caatatgataggtatcctagtttttcagccgtgttttttctgcttcatagCATTCAATGTTGCAGCAGTGCATAGTGACCCACCTTGGAAAGTGTCAGGCATCCCAATTATCACAGGCTGTGTGGGATACTGTGAGTCCAGTGCTTTTCCCTCCCGGTACTCTGTATTGGTGGTCAGTGGTTATCGGCACAATACTACATCATCATCCCCCTGCTGCACTATCAGCAGCCTTAGAAAGgtaagtgttctgtgtctgcaagttacactttggacacatatgccaatggt #### Gpr137_ID1886_5 --> 0 - 0 Original Alignment GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTAC-CTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG ctgcacattagtgtctgtattgacaaacacaggtgtcctttgtctttcagGCAGATCTGGTCAATGACCTAGTGAACAAAGGTTACCCTCGTGTTTGGTCTCATTCTC---TTTTGGCAATTGCTACCCA-CACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaggaaacccctgccacaacatgttccatgaaatagagggatcatgtca Alignment from CESAR GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTAC-CTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG ctgcacattagtgtctgtattgacaaacacaggtgtcctttgtctttcagGCAGATCTGGTCAATGACCTAGTGAACAAAGGTTACCCTCGTGTTTGGTCTCATTCTCTTT---TGGCAATTGCTACCCA-CACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaggaaacccctgccacaacatgttccatgaaatagagggatcatgtca Alignment from Spaln_aa2Genome GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTACCTG---GTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG ctgcacattagtgtctgtattgacaaacacaggtgtcctttgtctttcagGCAGATCTGGTCAATGACCTAGTGAACAAAGGTTACCCTCGTGTTTGGTCTCATTCTCTTTTGGCA------ATTGCTACCCACACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaggaaacccctgccacaacatgttccatgaaatagagggatcatgtca Alignment from Spaln_nt2Genome GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTACC-TGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG ctgcacattagtgtctgtattgacaaacacaggtgtcctttgtctttcagGCAGATCTGGTCAATGACCTAGTGAACAAAGGTTACCCTCGTGTTTGGTCTCATTCTCT---TTTGGCAATTGCTACCCA-CACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaggaaacccctgccacaacatgttccatgaaatagagggatcatgtca Alignment from Pairagon GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTA-CCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG ctgcacattagtgtctgtattgacaaacacaggtgtcctttgtctttcagGCAGATCTGGTCAATGACCTAGTGAACAAAGGTTACCCTCGTGTTTGGTCTCATTCTCT---TTTGGCAATTGCTACCCA-CACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaggaaacccctgccacaacatgttccatgaaatagagggatcatgtca Alignment from Exonerate_protein2genome GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTAC-CTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACA--TTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG ctgcacattagtgtctgtattgacaaacacaggtgtcctttgtctttcagGCAGATCTGGTCAATGACCTAGTGAACAAAGGTTACCCTCGTGTTTGGTCTCATTCTCTTT---TGGCAATTGCTACCCACACGTGG---CTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaggaaacccctgccacaacatgttccatgaaatagagggatcatgtca Alignment from Exonerate_coding2genome GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTAC-CTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACA--TTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG ctgcacattagtgtctgtattgacaaacacaggtgtcctttgtctttcagGCAGATCTGGTCAATGACCTAGTGAACAAAGGTTACCCTCGTGTTTGGTCTCATTCTCTTT---TGGCAATTGCTACCCACACGTGG---CTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaggaaacccctgccacaacatgttccatgaaatagagggatcatgtca Alignment from GeneWise GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTAC---CTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG ctgcacattagtgtctgtattgacaaacacaggtgtcctttgtctttcagGCAGATCTGGTCAATGACCTAGTGAACAAAGGTTACCCTCGTGTTTGGTCTCATTCTCTTTTGGCA------ATTGCTACCCACACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaggaaacccctgccacaacatgttccatgaaatagagggatcatgtca #### Gpr137_ID1888_3 --> 1 - 0 Original Alignment gCTGGCTGTCCGAGGGGCCTTC-GTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG tgtacagccactgcagtgagggtgtccacactttgacattcttctgaaaggCTGGCTGTTCGAGGTGCCTTTCGTGGGTGCTTCATTGCTTTTTTTATTGGTGA-TGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACGACAACCCTGGATTCTTTTACTGGTACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGT------GCTCTTGCTGCATGCCTCTGCCTTGTAGCCCGTCGTGCCCCGACCACCAGTATCTACTTAGATGCAAAGgtaagggtgccatatagatgcggcattgttggatttgtggacagagtact Alignment from CESAR gCTGGCTGTCCGAGGGGCC-TTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG tgtacagccactgcagtgagggtgtccacactttgacattcttctgaaaggCTGGCTGTTCGAGGTGCCTTTCGTGGGTGCTTCATTGCTTTTTTTATTGG-TGATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACGACAACCCTGGATTCTTTTACTGGTACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTGCT------CTTGCTGCATGCCTCTGCCTTGTAGCCCGTCGTGCCCCGACCACCAGTATCTACTTAGATGCAAAGgtaagggtgccatatagatgcggcattgttggatttgtggacagagtact Alignment from Spaln_aa2Genome GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG tgtacagccactgcagtgagggtgtccacactttgacattcttctgaaagGCTGGCTGTTCGAGGTGCCTTTCGTGGGTGCTTCATTGCTTTTTTTATTGGTGATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACGACAACCCTGGATTCTTTTACTGGTACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTGCT------CTTGCTGCATGCCTCTGCCTTGTAGCCCGTCGTGCCCCGACCACCAGTATCTACTTAGATGCAAAGgtaagggtgccatatagatgcggcattgttggatttgtggacagagtact Alignment from Spaln_nt2Genome GCTGGCTGTCCGAGGGGCCTT-CGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG tgtacagccactgcagtgagggtgtccacactttgacattcttctgaaagGCTGGCTGTTCGAGGTGCCTTTCGTGGGTGCTTCATTGCTTTTTTTATTGGTG-ATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACGACAACCCTGGATTCTTTTACTGGTACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTGCT------CTTGCTGCATGCCTCTGCCTTGTAGCCCGTCGTGCCCCGACCACCAGTATCTACTTAGATGCAAAGgtaagggtgccatatagatgcggcattgttggatttgtggacagagtact Alignment from Pairagon GCTGGCTGTCCGAGGGGCC-TTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG tgtacagccactgcagtgagggtgtccacactttgacattcttctgaaagGCTGGCTGTTCGAGGTGCCTTTCGTGGGTGCTTCATTGCTTTTTTTATTGGTG-ATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACGACAACCCTGGATTCTTTTACTGGTACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTGCT------CTTGCTGCATGCCTCTGCCTTGTAGCCCGTCGTGCCCCGACCACCAGTATCTACTTAGATGCAAAGgtaagggtgccatatagatgcggcattgttggatttgtggacagagtact Alignment from Exonerate_protein2genome GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG tgtacagccactgcagtgagggtgtccacactttgacattcttctgaaagGCTGGCTGTTCGAGGTGCCTTTCGTGGGTGCTTCATTGCTTTTTTTATTGGTGATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACGACAACCCTGGATTCTTTTACTGGTACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTGCT------CTTGCTGCATGCCTCTGCCTTGTAGCCCGTCGTGCCCCGACCACCAGTATCTACTTAGATGCAAAGgtaagggtgccatatagatgcggcattgttggatttgtggacagagtact Alignment from Exonerate_coding2genome GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTTGCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG TGTACAGCCACTGCAGTGAGGGTGTCCACACTTTGACATTCTTCTGAAAGGCTGGCTGTTCGAGGTGCCTTTCGTGGGTGCTTCATTGCTTTTTTTATTGGTGATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACGACAACCCTGGATTCTTTTACTGGTACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTGCT------CTTGCTGCATGCCTCTGCCTTGTAGCCCGTCGTGCCCCGACCACCAGTATCTACTTAGATGCAAAGgtaagggtgccatatagatgcggcattgttggatttgtggacagagtact Alignment from GeneWise GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG tgtacagccactgcagtgagggtgtccacactttgacattcttctgaaagGCTGGCTGTTCGAGGTGCCTTTCGTGGGTGCTTCATTGCTTTTTTTATTGGTGATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACGACAACCCTGGATTCTTTTACTGGTACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTGCTCTT------GCTGCATGCCTCTGCCTTGTAGCCCGTCGTGCCCCGACCACCAGTATCTACTTAGATGCAAAGgtaagggtgccatatagatgcggcattgttggatttgtggacagagtact #### Hells_ID7708_15 --> 0 - 0 Original Alignment ATTGATGAAGAGTTGGTAACAAATTCTGGGAAG-TTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG tcagtaattcaaaattctattgctgcaataaaagtttacatatattgcagAATGATGAAGAGTTTGTAACAAATTCTGGGAAGCTTCTTGATTTCAGATCGAATGCTGCCAGAAC-TAAGAAAAGAGGTCATAAGgtacgtatggctagaatttgtgctgtccagtgtaatatggatcagtctag Alignment from CESAR ATTGATGAAGAGTTGGTAACAAATTCTGGGAAG-TTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG tcagtaattcaaaattctattgctgcaataaaagtttacatatattgcagAATGATGAAGAGTTTGTAACAAATTCTGGGAAGCTTCTTGATTTCAGATCGAATGCTGCCAGAAC-TAAGAAAAGAGGTCATAAGgtacgtatggctagaatttgtgctgtccagtgtaatatggatcagtctag Alignment from Spaln_aa2Genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAG-TTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG--- tcagtaattcaaaattctattgctgcaataaaagtttacatatattgcagAATGATGAAGAGTTTGTAACAAATTCTGGGAAGcTTCTTGATTTCAGATCGAATGCTGCCAGAACTAAGAAAAGAGGTCATAAGGTACgtatggctagaatttgtgctgtccagtgtaatatggatcagtctag Alignment from Spaln_nt2Genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGT-TCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG tcagtaattcaaaattctattgctgcaataaaagtttacatatattgcagAATGATGAAGAGTTTGTAACAAATTCTGGGAAGCTTCTTGATTTCAGATCGAATGCTGCCAGAAC-TAAGAAAAGAGGTCATAAGgtacgtatggctagaatttgtgctgtccagtgtaatatggatcagtctag Alignment from Pairagon ATTGATGAAGAGTTGGTAACAAATTCTGGGAAG-TTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG tcagtaattcaaaattctattgctgcaataaaagtttacatatattgcagAATGATGAAGAGTTTGTAACAAATTCTGGGAAGCTTCTTGATTTCAGATCGAATGCTGCCAGAAC-TAAGAAAAGAGGTCATAAGgtacgtatggctagaatttgtgctgtccagtgtaatatggatcagtctag Alignment from Exonerate_protein2genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG tcagtaattcaaaattctattgctgcaataaaagtttacatatattgcagAATGATGAAGAGTTTGTAACAAATTCTGGGAAGCTTCTTGATTTCAGATCGAATGCTGCCAGAACTAAGAAAAGAGGTCATAAGgtacgtatggctagaatttgtgctgtccagtgtaatatggatcagtctag Alignment from Exonerate_coding2genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG tcagtaattcaaaattctattgctgcaataaaagtttacatatattgcagAATGATGAAGAGTTTGTAACAAATTCTGGGAAGCTTCTTGATTTCAGATCGAATGCTGCCAGAACTAAGAAAAGAGGTCATAAGgtacgtatggctagaatttgtgctgtccagtgtaatatggatcagtctag Alignment from GeneWise ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAGGTT----------------------------------------------- tcagtaattcaaaattctattgctgcaataaaagtttacatatattgcagAATGATGAAGAGTTTGTAACAAATTCTGGGAAGCTTCTTGATTTCAGATCGAATGCTGCCAGAACTAAGAAAAGAGGTCATAAGGTACGTATGGCTAGAATTTGTGCTGTCCAGTGTAATATGGATCAGTCTAG #### Hnrnpul2_ID2400_4 --> 2 - 0 Original Alignment atACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGC-CAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cctcttcagcactgaatgttgtagtgacctctctcctcctcctcctccagatACATCTGATCTGCACTTTCAAATTAGCAAAGACCGGTATGGAGGCCCAACCACTGTTCTCAGAAAAATTCCCTACCCTTTGGTCTGGGG-AAGAAGTACCTATGGTGTAACAAAGGGGAAAGTATGCTTTGAAGCTAGGgtatgtcactagcttcagtgggacaaagtatgctagcttgttcctcactc Alignment from CESAR atACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGC-CAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cctcttcagcactgaatgttgtagtgacctctctcctcctcctcctccagatACATCTGATCTGCACTTTCAAATTAGCAAAGACCGGTATGGAGGCCCAACCACTGTTCTCAGAAAAATTCCCTACCCTTTGGTCTGGG-GAAGAAGTACCTATGGTGTAACAAAGGGGAAAGTATGCTTTGAAGCTAGGgtatgtcactagcttcagtgggacaaagtatgctagcttgttcctcactc Alignment from Spaln_aa2Genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGC-CAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cctcttcagcactgaatgttgtagtgacctctctcctcctcctcctccagATACATCTGATCTGCACTTTCAAATTAGCAAAGACCGGTATGGAGGCcCAACCACTGTTCTCAGAAAAATTCCCTACCCTTTGGTCTGGGGA-AGAAGTACCTATGGTGTAACAAAGGGGAAAGTATGCTTTGAAGCTAGGgtatgtcactagcttcagtgggacaaagtatgctagcttgttcctcactc Alignment from Spaln_nt2Genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCC-AGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cctcttcagcactgaatgttgtagtgacctctctcctcctcctcctccagATACATCTGATCTGCACTTTCAAATTAGCAAAGACCGGTATGGAGGCCCAACCACTGTTCTCAGAAAAATTCCCTACCCTTTGGTCT-GGGGAAGAAGTACCTATGGTGTAACAAAGGGGAAAGTATGCTTTGAAGCTAGGgtatgtcactagcttcagtgggacaaagtatgctagcttgttcctcactc Alignment from Pairagon ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGG-CCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cctcttcagcactgaatgttgtagtgacctctctcctcctcctcctccagATACATCTGATCTGCACTTTCAAATTAGCAAAGACCGGTATGGAGGCCCAACCACTGTTCTCAGAAAAATTCCCTACCCTTTGGTCTGGGG-AAGAAGTACCTATGGTGTAACAAAGGGGAAAGTATGCTTTGAAGCTAGGgtatgtcactagcttcagtgggacaaagtatgctagcttgttcctcactc Alignment from Exonerate_protein2genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGC-CAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCT--GGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cctcttcagcactgaatgttgtagtgacctctctcctcctcctcctccagATACATCTGATCTGCACTTTCAAATTAGCAAAGACCGGTATGGAGGCCCAACCACTGTTCTCAGAAAAATTCCCTACCCTTTGGTCTGGGGA---AGAAGTACCTATGGTGTAACAAAGGGGAAAGTATGCTTTGAAGCTAGGgtatgtcactagcttcagtgggacaaagtatgctagcttgttcctcactc Alignment from Exonerate_coding2genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGC-CAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCT--GGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cctcttcagcactgaatgttgtagtgacctctctcctcctcctcctccagATACATCTGATCTGCACTTTCAAATTAGCAAAGACCGGTATGGAGGCCCAACCACTGTTCTCAGAAAAATTCCCTACCCTTTGGTCTGGGGA---AGAAGTACCTATGGTGTAACAAAGGGGAAAGTATGCTTTGAAGCTAGGgtatgtcactagcttcagtgggacaaagtatgctagcttgttcctcactc Alignment from GeneWise ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cctcttcagcactgaatgttgtagtgacctctctcctcctcctcctccagATACATCTGATCTGCACTTTCAAATTAGCAAAGACCGGTATGGAGGCCCAACCACTGTTCTCAGAAAAATTCCCTACCCTTTGGTCTGGGGAAGAAGTACCTATGGTGTAACAAAGGGGAAAGTATGCTTTGAAGCTAGGgtatgtcactagcttcagtgggacaaagtatgctagcttgttcctcactc #### Hnrnpul2_ID2404_8 --> 0 - 0 Original Alignment GTGATTCTGATG-GTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtaggaaacctaataatgcttctaattttttttgttgtttatttttagGTGATTCTGATGCGTGGGAGTCCCTGGATCAGCAAAGACGCAGTGGGCACTGA-ATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtgagtaattggcgaggtctgattagcagaattggcagaggtcatagccc Alignment from CESAR GTGATTCTGATG-GTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtaggaaacctaataatgcttctaattttttttgttgtttatttttagGTGATTCTGATGCGTGGGAGTCCCTGGATCAGCAAAGACGCAGTGGGCAC-TGAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtgagtaattggcgaggtctgattagcagaattggcagaggtcatagccc Alignment from Spaln_aa2Genome GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtaggaaacctaataatgcttctaattttttttgttgtttatttttagGTGATTCTGATGCGTGGGAGTCCCTGGATCAGCAAAGACGCAGTGGGCACTGAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtgagtaattggcgaggtctgattagcagaattggcagaggtcatagccc Alignment from Spaln_nt2Genome GTGATTCTGATG-GTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtaggaaacctaataatgcttctaattttttttgttgtttatttttagGTGATTCTGATGCGTGGGAGTCCCTGGATCAGCAAAGACGCAGTGGGCACTG-AATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtgagtaattggcgaggtctgattagcagaattggcagaggtcatagccc Alignment from Pairagon GTGATTCTGATG-GTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtaggaaacctaataatgcttctaattttttttgttgtttatttttagGTGATTCTGATGCGTGGGAGTCCCTGGATCAGCAAAGACGCAGTGGGCACTG-AATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtgagtaattggcgaggtctgattagcagaattggcagaggtcatagccc Alignment from Exonerate_protein2genome GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtaggaaacctaataatgcttctaattttttttgttgtttatttttagGTGATTCTGATGCGTGGGAGTCCCTGGATCAGCAAAGACGCAGTGGGCACTGAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtgagtaattggcgaggtctgattagcagaattggcagaggtcatagccc Alignment from Exonerate_coding2genome GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtaggaaacctaataatgcttctaattttttttgttgtttatttttagGTGATTCTGATGCGTGGGAGTCCCTGGATCAGCAAAGACGCAGTGGGCACTGAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtgagtaattggcgaggtctgattagcagaattggcagaggtcatagccc Alignment from GeneWise GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtaggaaacctaataatgcttctaattttttttgttgtttatttttagGTGATTCTGATGCGTGGGAGTCCCTGGATCAGCAAAGACGCAGTGGGCACTGAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtgagtaattggcgaggtctgattagcagaattggcagaggtcatagccc #### Hoga1_ID8381_4 --> 0 - 0 Original Alignment GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTG-GATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaagggttaagactgcaaatggcttatgtgtctgcttcttttcagATTGCTGACGTTTCCCCAATCCCTGTAGTATTATACAGTGTCCCAGCCAATACAGGGCTAGAGCTACCTGTGCGATGCTGTGGTCACATTGTCTCAACACCCAAATATTA-TGGCCTGAAGGACAGTGGTGGAGATgtatgtctttgcagcatccaatttgcccaaacacccaccaccccaggtcg Alignment from CESAR GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTG-GATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaagggttaagactgcaaatggcttatgtgtctgcttcttttcagATTGCTGACGTTTCCCCAATCCCTGTAGTATTATACAGTGTCCCAGCCAATACAGGGCTAGAGCTACCTGTGCGATGCTGTGGTCACATTGTCTCAACACCCAAATATTA-TGGCCTGAAGGACAGTGGTGGAGATgtatgtctttgcagcatccaatttgcccaaacacccaccaccccaggtcg Alignment from Spaln_aa2Genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaagggttaagactgcaaatggcttatgtgtctgcttcttttcagATTGCTGACGTTTCCCCAATCCCTGTAGTATTATACAGTGTCCCAGCCAATACAGGGCTAGAGCTACCTGTGCGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATGGCCTGAAGGACAGTGGTGGAGATgtatgtctttgcagcatccaatttgcccaaacacccaccaccccaggtcg Alignment from Spaln_nt2Genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTG-GATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaagggttaagactgcaaatggcttatgtgtctgcttcttttcagATTGCTGACGTTTCCCCAATCCCTGTAGTATTATACAGTGTCCCAGCCAATACAGGGCTAGAGCTACCTGTGCGATGCTGTGGTCACATTGTCTCAACACCCAAATATTAT-GGCCTGAAGGACAGTGGTGGAGATgtatgtctttgcagcatccaatttgcccaaacacccaccaccccaggtcg Alignment from Pairagon GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTG-GATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaagggttaagactgcaaatggcttatgtgtctgcttcttttcagATTGCTGACGTTTCCCCAATCCCTGTAGTATTATACAGTGTCCCAGCCAATACAGGGCTAGAGCTACCTGTGCGATGCTGTGGTCACATTGTCTCAACACCCAAATATTAT-GGCCTGAAGGACAGTGGTGGAGATgtatgtctttgcagcatccaatttgcccaaacacccaccaccccaggtcg Alignment from Exonerate_protein2genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaagggttaagactgcaaatggcttatgtgtctgcttcttttcagATTGCTGACGTTTCCCCAATCCCTGTAGTATTATACAGTGTCCCAGCCAATACAGGGCTAGAGCTACCTGTGCGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATGGCCTGAAGGACAGTGGTGGAGATgtatgtctttgcagcatccaatttgcccaaacacccaccaccccaggtcg Alignment from Exonerate_coding2genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaagggttaagactgcaaatggcttatgtgtctgcttcttttcagATTGCTGACGTTTCCCCAATCCCTGTAGTATTATACAGTGTCCCAGCCAATACAGGGCTAGAGCTACCTGTGCGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATGGCCTGAAGGACAGTGGTGGAGATgtatgtctttgcagcatccaatttgcccaaacacccaccaccccaggtcg Alignment from GeneWise GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaagggttaagactgcaaatggcttatgtgtctgcttcttttcagATTGCTGACGTTTCCCCAATCCCTGTAGTATTATACAGTGTCCCAGCCAATACAGGGCTAGAGCTACCTGTGCGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATGGCCTGAAGGACAGTGGTGGAGATgtatgtctttgcagcatccaatttgcccaaacacccaccaccccaggtcg #### Hoga1_ID8382_5 --> 0 - 1 Original Alignment GTGACCAGGATTGGACTGATAGTTCAC---AAGACC-AGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGg gataaatgtaatggggagcaggatcattaagggttattttctcttgacagGTGACCAGGATTGGACTGATAGTTCATCACAAGTCTCAGCAAGCAGGATTTTCAGGTGCTGGCAGGGTCCGTTGGCTCCC-TCTAGCTAGCTATTCTGTGggtgagattgctgtcagttctaaaccaccatctccaaccaagctgtgttgc Alignment from CESAR GTGACCAGGATTGGACTGATAGTT---CACAAGACC-AGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGg gataaatgtaatggggagcaggatcattaagggttattttctcttgacagGTGACCAGGATTGGACTGATAGTTCATCACAAGTCTCAGCAAGCAGGATTTTCAGGTGCTGGCAGGGTCCGTTGGCTCCC-TCTAGCTAGCTATTCTGTGggtgagattgctgtcagttctaaaccaccatctccaaccaagctgtgttgc Alignment from Spaln_aa2Genome GTGACCAGGATTGGACTGATAGTTCACAAGACC----AGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCT gataaatgtaatggggagcaggatcattaagggttattttctcttgacagGTGACCAGGATTGGACTGATAGTTCATCACAAGTCTcAGCAAGCAGGATTTTCAGGTGCTGGCAGGGTCCGTTGGCTCCCTCTAgctagctattctgtgggtgagattgctgtcagttctaaaccaccatctccaaccaagctgtgttgc Alignment from Spaln_nt2Genome GTGACCAGGATTGGACTGATAGTTCA---CAAGAC-CAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGG gataaatgtaatggggagcaggatcattaagggttattttctcttgacagGTGACCAGGATTGGACTGATAGTTCATCACAAGTCTCAGCAAGCAGGATTTTCAGGTGCTGGCAGGGTCCGTTGGCTCCCT-CTAGCTAGCTATTCTGTGGgtgagattgctgtcagttctaaaccaccatctccaaccaagctgtgttgc Alignment from Pairagon GTGACCAGGATTGGACTGATAGT---TCACAAGAC-CAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGG gataaatgtaatggggagcaggatcattaagggttattttctcttgacagGTGACCAGGATTGGACTGATAGTTCATCACAAGTCTCAGCAAGCAGGATTTTCAGGTGCTGGCAGGGTCCGTTGGCTCCCT-CTAGCTAGCTATTCTGTGGgtgagattgctgtcagttctaaaccaccatctccaaccaagctgtgttgc Alignment from Exonerate_protein2genome GTGACCAGGATTGGACTGATAGTTCACAAGACCAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTC---CTGGCCAGCTATGCTGTGG gataaatgtaatggggagcaggatcattaagggttattttctcttgacagGTGACCAGGATTGGACTGATAGTTCATCACAAGTCTCAGCAAGCAGGATTTTCAGGTGCTGGCAGGGTCCGTTGGCTCCCTCTAGCTAGCTATTCTGTGGgtgagattgctgtcagttctaaaccaccatctccaaccaagctgtgttgc Alignment from Exonerate_coding2genome GTGACCAGGATTGGACTGATAGTTCACAAGACCAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTC---CTGGCCAGCTATGCTGTGG gataaatgtaatggggagcaggatcattaagggttattttctcttgacagGTGACCAGGATTGGACTGATAGTTCATCACAAGTCTCAGCAAGCAGGATTTTCAGGTGCTGGCAGGGTCCGTTGGCTCCCTCTAGCTAGCTATTCTGTGGgtgagattgctgtcagttctaaaccaccatctccaaccaagctgtgttgc Alignment from GeneWise GTGACCAGGATTGGACTGATAGTTCACAAGACCAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTC---CTGGCCAGCTATGCTGTGG gataaatgtaatggggagcaggatcattaagggttattttctcttgacagGTGACCAGGATTGGACTGATAGTTCATCACAAGTCTCAGCAAGCAGGATTTTCAGGTGCTGGCAGGGTCCGTTGGCTCCCTCTAGCTAGCTATTCTGTGGgtgagattgctgtcagttctaaaccaccatctccaaccaagctgtgttgc #### Hps1_ID8615_13 --> 1 - 2 Original Alignment gCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTC-ACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGaa ctgtgttctgtaatgtaaaggccaatattaagtccatcttgcctcttcaggTTGCTCCAGGTCTGTGGGAAGTTAAAGCGACAGTTGTGTATAATGTATCAGCTCAGCTTCCTGGTCCACAGCACCCAGCAGAGGAGGGCCACACCTGCCCCAGC-TATACAGGAC---CCCCAAAAACTTATGaagtaagaggaccaagcccaaaaacttatcaagctagggcgttatgtctgag Alignment from CESAR gCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTC-ACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGaa ctgtgttctgtaatgtaaaggccaatattaagtccatcttgcctcttcaggTTGCTCCAGGTCTGTGGGAAGTTAAAGCGACAGTTGTGTATAATGTATCAGCTCAGCTTCCTGGTCCACAGCACCCAGCAGAGGAGGGCCACACCTGCCCCAG-CTATACAGGAC---CCCCAAAAACTTATGaagtaagaggaccaagcccaaaaacttatcaagctagggcgttatgtctgag Alignment from Spaln_aa2Genome GCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTC-ACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGAA ctgtgttctgtaatgtaaaggccaatattaagtccatcttgcctcttcagGTTGCTCCAGGTCTGTGGGAAGTTAAAGCGACAGTTGTGTATAATGTATCAGCTCAGCTTCCTGGTCcACAGCACCCAGCAGAGGAGGGCCACACCTGCCCCAGCT-ATACAGGAC---CCCCAAAAACTTATGAAgtaagaggaccaagcccaaaaacttatcaagctagggcgttatgtctgag Alignment from Spaln_nt2Genome GCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTC-ACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGAA ctgtgttctgtaatgtaaaggccaatattaagtccatcttgcctcttcagGTTGCTCCAGGTCTGTGGGAAGTTAAAGCGACAGTTGTGTATAATGTATCAGCTCAGCTTCCTGGTCCACAGCACCCAGCAGAGGAGGGCCACACCTGCCCCAGC-TATACAGGACC---CCCAAAAACTTATGAAgtaagaggaccaagcccaaaaacttatcaagctagggcgttatgtctgag Alignment from Pairagon GCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGT-CACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGAA ctgtgttctgtaatgtaaaggccaatattaagtccatcttgcctcttcagGTTGCTCCAGGTCTGTGGGAAGTTAAAGCGACAGTTGTGTATAATGTATCAGCTCAGCTTCCTGGTCCACAGCACCCAGCAGAGGAGGGCCACACCTGCCCCAGC-TATACAGGACC---CCCAAAAACTTATGAAgtaagaggaccaagcccaaaaacttatcaagctagggcgttatgtctgag Alignment from Exonerate_protein2genome GCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTC-ACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCA ctgtgttctgtaatgtaaaggccaatattaagtccatcttgcctcttcagGTTGCTCCAGGTCTGTGGGAAGTTAAAGCGACAGTTGTGTATAATGTATCAGCTCAGCTTCCTGGTCCACAGCACCCAGCAGAGGAGGGCCACACCTGCCCCAGCTATACAGGACCCCCAAAAACTTATGAAgtaagaggaccaagcccaaaaacttatcaagctagggcgttatgtctgag Alignment from Exonerate_coding2genome GCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTC-ACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCA ctgtgttctgtaatgtaaaggccaatattaagtccatcttgcctcttcagGTTGCTCCAGGTCTGTGGGAAGTTAAAGCGACAGTTGTGTATAATGTATCAGCTCAGCTTCCTGGTCCACAGCACCCAGCAGAGGAGGGCCACACCTGCCCCAGCTATACAGGACCCCCAAAAACTTATGAAgtaagaggaccaagcccaaaaacttatcaagctagggcgttatgtctgag Alignment from GeneWise GCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGAA ctgtgttctgtaatgtaaaggccaatattaagtccatcttgcctcttcagGTTGCTCCAGGTCTGTGGGAAGTTAAAGCGACAGTTGTGTATAATGTATCAGCTCAGCTTCCTGGTCCACAGCACCCAGCAGAGGAGGGCCACACCTGCCCCAGCTATACAGGAC---CCCCAAAAACTTATGAAgtaagaggaccaagcccaaaaacttatcaagctagggcgttatgtctgag #### Hps1_ID8617_11 --> 0 - 0 Original Alignment AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAA-GGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG tgtgttatcccatgccctgggtgccccatctgctctcctttgcctggcagAGCCCTGGTGCCCCACTGACCCAAATTCTATGCCAACTGCTGGATGGATTCTCACTTCTGGAGAAAAGGTTGAAGGAGCGGCCAGGAGGCTGGCAGTGCCTTACGATCCC-GCCCTTTGTGACTGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGGTTCAGgtagtttctcagaactaatgtggaccaattttggaggaccctgactaggg Alignment from CESAR AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAA-GGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG tgtgttatcccatgccctgggtgccccatctgctctcctttgcctggcagAGCCCTGGTGCCCCACTGACCCAAATTCTATGCCAACTGCTGGATGGATTCTCACTTCTGGAGAAAAGGTTGAAGGAGCGGCCAGGAGGCTGGCAGTGCCTTACGATCC-CGCCCTTTGTGACTGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGGTTCAGgtagtttctcagaactaatgtggaccaattttggaggaccctgactaggg Alignment from Spaln_aa2Genome AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAA-GGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG tgtgttatcccatgccctgggtgccccatctgctctcctttgcctggcagAGCCCTGGTGCCCCACTGACCCAAATTCTATGCCAACTGCTGGATGGATTCTCACTTCTGGAGAAAAGGTTGAAGGAGcGGCCAGGAGGCTGGCAGTGCCTTACGATCCCG-CCCTTTGTGACTGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGGTTCAGgtagtttctcagaactaatgtggaccaattttggaggaccctgactaggg Alignment from Spaln_nt2Genome AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAA-GGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG tgtgttatcccatgccctgggtgccccatctgctctcctttgcctggcagAGCCCTGGTGCCCCACTGACCCAAATTCTATGCCAACTGCTGGATGGATTCTCACTTCTGGAGAAAAGGTTGAAGGAGCGGCCAGGAGGCTGGCAGTGCCTTACGATCCC-GCCCTTTGTGACTGACCCACACCAGAACA---ACAAGTTCATCAAGAATCGGGTAGGGCAGGAGGTTCAGgtagtttctcagaactaatgtggaccaattttggaggaccctgactaggg Alignment from Pairagon AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAA-GGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG tgtgttatcccatgccctgggtgccccatctgctctcctttgcctggcagAGCCCTGGTGCCCCACTGACCCAAATTCTATGCCAACTGCTGGATGGATTCTCACTTCTGGAGAAAAGGTTGAAGGAGCGGCCAGGAGGCTGGCAGTGCCTTACGATCCC-GCCCTTTGTGACTGACCCACACCAGAACA---ACAAGTTCATCAAGAATCGGGTAGGGCAGGAGGTTCAGgtagtttctcagaactaatgtggaccaattttggaggaccctgactaggg Alignment from Exonerate_protein2genome AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG tgtgttatcccatgccctgggtgccccatctgctctcctttgcctggcagAGCCCTGGTGCCCCACTGACCCAAATTCTATGCCAACTGCTGGATGGATTCTCACTTCTGGAGAAAAGGTTGAAGGAGCGGCCAGGAGGCTGGCAGTGCCTTACGATCCCGCCCTTTGTGACTGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGGTTCAGgtagtttctcagaactaatgtggaccaattttggaggaccctgactaggg Alignment from Exonerate_coding2genome AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG tgtgttatcccatgccctgggtgccccatctgctctcctttgcctggcagAGCCCTGGTGCCCCACTGACCCAAATTCTATGCCAACTGCTGGATGGATTCTCACTTCTGGAGAAAAGGTTGAAGGAGCGGCCAGGAGGCTGGCAGTGCCTTACGATCCCGCCCTTTGTGACTGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGGTTCAGgtagtttctcagaactaatgtggaccaattttggaggaccctgactaggg Alignment from GeneWise AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG tgtgttatcccatgccctgggtgccccatctgctctcctttgcctggcagAGCCCTGGTGCCCCACTGACCCAAATTCTATGCCAACTGCTGGATGGATTCTCACTTCTGGAGAAAAGGTTGAAGGAGCGGCCAGGAGGCTGGCAGTGCCTTACGATCCCGCCCTTTGTGACTGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGGTTCAGgtagtttctcagaactaatgtggaccaattttggaggaccctgactaggg #### Hps1_ID8621_7 --> 0 - 0 Original Alignment AGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAG-CAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tgtgccatgctattctgctccgtcattagagccactttactttgcactagAGGCGTCCAAAGAGTAGCCAAAACATACCAGTGCCACCAGGCCAGGAGCCAGAGTACCTCAGTACCTG-CAGGGGTTGTAAGGAGACAgtgagtcctaggctgtaagcaaaatagggtgtactctctgctttccctca Alignment from CESAR AGGAGACCCAAGAGCAGCCAAAACATCCCAGTG-CAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tgtgccatgctattctgctccgtcattagagccactttactttgcactagAGGCGTCCAAAGAGTAGCCAAAACATACCAGTGCCACCAGGCCAGGAGCCAGAGTACCTCAGTACCT-GCAGGGGTTGTAAGGAGACAgtgagtcctaggctgtaagcaaaatagggtgtactctctgctttccctca Alignment from Spaln_aa2Genome AGGAGACCCAAGAGCAGCCAAAACATCCCAGTG-CAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGAC tgtgccatgctattctgctccgtcattagagccactttactttgcactagAGGCGTCCAAAGAGTAGCCAAAACATACCAGTGcCACCAGGCCAGGAGCCAGAGTACCTCAGTACCTGCAGGGGTTGTAAGGAGACAgtgagtcctaggctgtaagcaaaatagggtgtactctctgctttccctca Alignment from Spaln_nt2Genome AGGAGACCCAAGAGCAGCCAAAACATCCCAGTG-CAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tgtgccatgctattctgctccgtcattagagccactttactttgcactagAGGCGTCCAAAGAGTAGCCAAAACATACCAGTGCCACCAGGCCAGGAGCCAGAGTACCTCAGT-ACCTGCAGGGGTTGTAAGGAGACAgtgagtcctaggctgtaagcaaaatagggtgtactctctgctttccctca Alignment from Pairagon AGGAGACCCAAGAGCAGCCAAAACATCCCAGTG-CAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tgtgccatgctattctgctccgtcattagagccactttactttgcactagAGGCGTCCAAAGAGTAGCCAAAACATACCAGTGCCACCAGGCCAGGAGCCAGAGTACCTCAGTACCT-GCAGGGGTTGTAAGGAGACAgtgagtcctaggctgtaagcaaaatagggtgtactctctgctttccctca Alignment from Exonerate_protein2genome AGGAGACCCAAGAGCAGCCAAAACATCCCAGTG-CAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACAGACACA tgtgccatgctattctgctccgtcattagagccactttactttgcactagAGGCGTCCAAAGAGTAGCCAAAACATACCAGTGCCACCAGGCCAGGAGCCAGAGTACCTCAGTACCTGCAGGGGTTGTAAGGAGACAGTGAGTCctaggctgtaagcaaaatagggtgtactctctgctttccctca Alignment from Exonerate_coding2genome tgtgccatgctattctgctccgtcattagagccactttactttgcactagaggcgtccaaagagtagccaaaacataccagtgccaccaggccaggagccagagtacctcagtacctgcaggggttgtaaggagacagtgagtcctaggctgtaagcaaaatagggtgtactctctgctttccctca Alignment from GeneWise AGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tgtgccatgctattctgctccgtcattagagccactttactttgcactagAGGCGTCCAAAGAGTAGCCAAAACATACCAGTGCCACCAGGCCAGGAGCCAGAGTACCTCAGTACCTGCAGGGGTTGTAAGGAGACAgtgagtcctaggctgtaagcaaaatagggtgtactctctgctttccctca #### Hps1_ID8622_6 --> 1 - 0 Original Alignment cCATGGTGCGAGCACCCTGCGCCCCGCA-GACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGC---CCTCAG tcccccctcaccattttagttgtattctgctgatttcctctgccttccagcCAAGGCGCAAGCACCCTATGTCCAGCACGATTTCCTT---------CTCCTAGTGCATG-TCCACAGCCTTCACCAGCCATGACGGAGGAGGAGGGGGAGCAAGAAGATGGTCACAGCAGCCCACAGgtcggtgcaaatcccagaataagggtagactaattgcagtaagatcaaaa Alignment from CESAR cCATGGTGCGAGCACCCTGCGCCCCGCA-GACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGC---GACAGCCCTCAG tcccccctcaccattttagttgtattctgctgatttcctctgccttccagcCAAGGCGCAAGCACCCTATGTCCAGCACGATTTCCTT---------CTCCTAGTGCAT-GTCCACAGCCTTCACCAGCCATGACGGAGGAGGAGGGGGAGCAAGAAGATGGTCACAGCAGCCCACAGgtcggtgcaaatcccagaataagggtagactaattgcagtaagatcaaaa Alignment from Spaln_aa2Genome CCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGAC---AGCCCTCAG tcccccctcaccattttagttgtattctgctgatttcctctgccttccagCCAAGGCGCAAGCACCCTATGTCCAGCACGATTTCCTTCT---------CCTAGTGCATGTCCACAGCCTTCACCAGCCATGACGGAGGAGGAGGGGGAGCAAGAAGATGGTCACAGCAGCCCACAGgtcggtgcaaatcccagaataagggtagactaattgcagtaagatcaaaa Alignment from Spaln_nt2Genome CCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGC---CCTCAG tcccccctcaccattttagttgtattctgctgatttcctctgccttccagCCAAGGCGCAAGCACCCTATGTCCAGCA--------CGATTTCCTTCTCCTAGTGCATGTCC-ACAGCCTTCACCAGCCATGACGGAGGAGGAGGGGGAGCAAGAAGATGGTCACAGCAGCCCACAGgtcggtgcaaatcccagaataagggtagactaattgcagtaagatcaaaa Alignment from Pairagon CCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTC--------------------------CAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAG---CGACAGCCCTCAG tcccccctcaccattttagttgtattctgctgatttcctctgccttccagCCAAGGCGCAAGCACCCTATGTCCAGCA-----------------------------------CGATTTCCTTCTCCTAGTGCATGTCCACAGCCTTCACCAGCCATGACGGAGGAGGAGGGGGAGCAAGAAGATGGTCACAGCAGCCCACAGgtcggtgcaaatcccagaataagggtagactaattgcagtaagatcaaaa Alignment from Exonerate_protein2genome tcccccctcaccattttagttgtattctgctgatttcctctgccttccagccaaggcgcaagcaccctatgtccagcacgatttccttctcctagtgcatgtccacagccttcaccagccatgacggaggaggagggggagcaagaagatggtcacagcagcccacaggtcggtgcaaatcccagaataagggtagactaattgcagtaagatcaaaa Alignment from Exonerate_coding2genome CCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGC---GACAGCCCTCAG tcccccctcaccattttagttgtattctgctgatttcctctgccttccagCCAAGGCGCAAGCACCCTATGTCCAGCACGATTTCCTTCTCCTAGTGCATGTCCA---------CAGCCTTCACCAGCCATGACGGAGGAGGAGGGGGAGCAAGAAGATGGTCACAGCAGCCCACAGgtcggtgcaaatcccagaataagggtagactaattgcagtaagatcaaaa Alignment from GeneWise CCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGC---GACAGCCCTCAG tcccccctcaccattttagttgtattctgctgatttcctctgccttccagCCAAGGCGCAAGCACCCTATGTCCAGCACGATTTCCTTCTCCTAGTGCATGTCCACAG---------CCTTCACCAGCCATGACGGAGGAGGAGGGGGAGCAAGAAGATGGTCACAGCAGCCCACAGgtcggtgcaaatcccagaataagggtagactaattgcagtaagatcaaaa #### Incenp_ID2604_15 --> 0 - 0 Original Alignment GAAGAGCAACAGCGCCTGGCTGAGCAG-CAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG gagggtagtgatgctgtagggggagaggacgatcccctgtgtccccgcagGAGGAGAAGCAGCACCTGGCTAAGCAGCCAGCCACAGGAAGAACAGGCACGGAAAGCAAAGG-GGTGGCAGCAGCCAGAAGGGTGCTCAACATGATGGTGGATGTGAGAgtaagtctgaaagctagcctccagatcaaatatatgcttactgtgaatgg Alignment from CESAR GAAGAGCAACAGCGCCTGGCTGAGCAG-CAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG gagggtagtgatgctgtagggggagaggacgatcccctgtgtccccgcagGAGGAGAAGCAGCACCTGGCTAAGCAGCCAGCCACAGGAAGAACAGGCACGGAAAGCAAAG-GGGTGGCAGCAGCCAGAAGGGTGCTCAACATGATGGTGGATGTGAGAgtaagtctgaaagctagcctccagatcaaatatatgcttactgtgaatgg Alignment from Spaln_aa2Genome GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG gagggtagtgatgctgtagggggagaggacgatcccctgtgtccccgcagGAGGAGAAGCAGCACCTGGCTAAGCAGCCAGCCACAGGAAGAACAGGCACGGAAAGCAAAGGGGTGGCAGCAGCCAGAAGGGTGCTCAACATGATGGTGGATGTGAGAgtaagtctgaaagctagcctccagatcaaatatatgcttactgtgaatgg Alignment from Spaln_nt2Genome GAAGAGCAACAGCGCCTGGCTGAGCAGCAA-CTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG gagggtagtgatgctgtagggggagaggacgatcccctgtgtccccgcagGAGGAGAAGCAGCACCTGGCTAAGCAGCCAGCCACAGGAAGAACAGGCACGGAAAGCAAAGG-GGTGGCAGCAGCCAGAAGGGTGCTCAACATGATGGTGGATGTGAGAgtaagtctgaaagctagcctccagatcaaatatatgcttactgtgaatgg Alignment from Pairagon GAAGAGCAACAGCGCCTGGCTGAGCAG-CAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG gagggtagtgatgctgtagggggagaggacgatcccctgtgtccccgcagGAGGAGAAGCAGCACCTGGCTAAGCAGCCAGCCACAGGAAGAACAGGCACGGAAAGCAAAGG-GGTGGCAGCAGCCAGAAGGGTGCTCAACATGATGGTGGATGTGAGAgtaagtctgaaagctagcctccagatcaaatatatgcttactgtgaatgg Alignment from Exonerate_protein2genome GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG gagggtagtgatgctgtagggggagaggacgatcccctgtgtccccgcagGAGGAGAAGCAGCACCTGGCTAAGCAGCCAGCCACAGGAAGAACAGGCACGGAAAGCAAAGGGGTGGCAGCAGCCAGAAGGGTGCTCAACATGATGGTGGATGTGAGAgtaagtctgaaagctagcctccagatcaaatatatgcttactgtgaatgg Alignment from Exonerate_coding2genome GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG gagggtagtgatgctgtagggggagaggacgatcccctgtgtccccgcagGAGGAGAAGCAGCACCTGGCTAAGCAGCCAGCCACAGGAAGAACAGGCACGGAAAGCAAAGGGGTGGCAGCAGCCAGAAGGGTGCTCAACATGATGGTGGATGTGAGAgtaagtctgaaagctagcctccagatcaaatatatgcttactgtgaatgg Alignment from GeneWise GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG gagggtagtgatgctgtagggggagaggacgatcccctgtgtccccgcagGAGGAGAAGCAGCACCTGGCTAAGCAGCCAGCCACAGGAAGAACAGGCACGGAAAGCAAAGGGGTGGCAGCAGCCAGAAGGGTGCTCAACATGATGGTGGATGTGAGAgtaagtctgaaagctagcctccagatcaaatatatgcttactgtgaatgg #### Incenp_ID2605_14 --> 1 - 0 Original Alignment gGAGATGCAGGAGAGAGAG-AAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ttgttggaaactagcttcatttgtagacctgactgggcctgttttttcaggGAGATGCAAGAGAGAGAGCAAGGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGGAACTGG-GGAAAAGAAGCAGAAGgtaagagccttgtagacatatattctccacagtaaatctgatctggagca Alignment from CESAR gGAGATGCAGGAGAGAGAG-AAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ttgttggaaactagcttcatttgtagacctgactgggcctgttttttcaggGAGATGCAAGAGAGAGAGCAAGGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGGAACTG-GGGAAAAGAAGCAGAAGgtaagagccttgtagacatatattctccacagtaaatctgatctggagca Alignment from Spaln_aa2Genome GGAGATGCAGGAGAGAGAG-AAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ttgttggaaactagcttcatttgtagacctgactgggcctgttttttcagGGAGATGCAAGAGAGAGAGcAAGGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGGAACTGGG-GAAAAGAAGCAGAAGgtaagagccttgtagacatatattctccacagtaaatctgatctggagca Alignment from Spaln_nt2Genome GGAGATGCAGGAGAGAGAGAAAGCCCT-GCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ttgttggaaactagcttcatttgtagacctgactgggcctgttttttcagGGAGATGCAAGAGAGAGAGCAAGGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGGAACTGG-GGAAAAGAAGCAGAAGgtaagagccttgtagacatatattctccacagtaaatctgatctggagca Alignment from Pairagon GGAGATGCAGGAGAGAGAG-AAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ttgttggaaactagcttcatttgtagacctgactgggcctgttttttcagGGAGATGCAAGAGAGAGAGCAAGGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGGAACTGG-GGAAAAGAAGCAGAAGgtaagagccttgtagacatatattctccacagtaaatctgatctggagca Alignment from Exonerate_protein2genome GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ttgttggaaactagcttcatttgtagacctgactgggcctgttttttcagGGAGATGCAAGAGAGAGAGCAAGGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGGAACTGGGGAAAAGAAGCAGAAGgtaagagccttgtagacatatattctccacagtaaatctgatctggagca Alignment from Exonerate_coding2genome GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ttgttggaaactagcttcatttgtagacctgactgggcctgttttttcagGGAGATGCAAGAGAGAGAGCAAGGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGGAACTGGGGAAAAGAAGCAGAAGgtaagagccttgtagacatatattctccacagtaaatctgatctggagca Alignment from GeneWise GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ttgttggaaactagcttcatttgtagacctgactgggcctgttttttcagGGAGATGCAAGAGAGAGAGCAAGGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGGAACTGGGGAAAAGAAGCAGAAGgtaagagccttgtagacatatattctccacagtaaatctgatctggagca #### Kat5_ID1110_12 --> 2 - 2 Original Alignment gcTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGAT-CTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCaa cctgtaccagggatgaaggtctgcagggccgcatctgtttccaaatccaggcTATGAACTCTCAAAAGTAGATGGGAAGACTGGCACCCCCGAGAAACCCCTATCAGATCCTTGGCCTCCTATCCTACCGAAGTTACTGGT-CCAAACCATCTTGGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCaagtgagtgaaagtgctaaccggggggatgtggtagggtttccacagatgga Alignment from CESAR gcTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGAT-CTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCaa cctgtaccagggatgaaggtctgcagggccgcatctgtttccaaatccaggcTATGAACTCTCAAAAGTAGATGGGAAGACTGGCACCCCCGAGAAACCCCTATCAGATCCTTGGCCTCCTATCCTACCGAAGTTACTGGT-CCAAACCATCTTGGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCaagtgagtgaaagtgctaaccggggggatgtggtagggtttccacagatgga Alignment from Spaln_aa2Genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA cctgtaccagggatgaaggtctgcagggccgcatctgtttccaaatccagGCTATGAACTCTCAAAAGTAGATGGGAAGACTGGCACCCCCGAGAAACCCCTATCAGATCCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCAAACCATCTTGGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtgagtgaaagtgctaaccggggggatgtggtagggtttccacagatgga Alignment from Spaln_nt2Genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGAT-CTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA cctgtaccagggatgaaggtctgcagggccgcatctgtttccaaatccagGCTATGAACTCTCAAAAGTAGATGGGAAGACTGGCACCCCCGAGAAACCCCTATCAGATCCTTGGCCTCCTATCCTACCGAAGTTACTGGT-CCAAACCATCTTGGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtgagtgaaagtgctaaccggggggatgtggtagggtttccacagatgga Alignment from Pairagon GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGAT-CTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA cctgtaccagggatgaaggtctgcagggccgcatctgtttccaaatccagGCTATGAACTCTCAAAAGTAGATGGGAAGACTGGCACCCCCGAGAAACCCCTATCAGATCCTTGGCCTCCTATCCTACCGAAGTTACTGGT-CCAAACCATCTTGGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtgagtgaaagtgctaaccggggggatgtggtagggtttccacagatgga Alignment from Exonerate_protein2genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGAT-CTTGGCCTCCTATCCTACCGAAGTTACTGG--TCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA cctgtaccagggatgaaggtctgcagggccgcatctgtttccaaatccagGCTATGAACTCTCAAAAGTAGATGGGAAGACTGGCACCCCCGAGAAACCCCTATCAGATCCTTGGCCTCCTATCCTACCGAAGTTACTGGTC---CAAACCATCTTGGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtgagtgaaagtgctaaccggggggatgtggtagggtttccacagatgga Alignment from Exonerate_coding2genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCT---TGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA cctgtaccagggatgaaggtctgcagggccgcatctgtttccaaatccagGCTATGAACTCTCAAAAGTAGATGGGAAGACTGGCACCCCCGAGAAACCCCTATCAGAT--CCTTGGCCTCCTATCCTACCGAAGTTACTGGTC-CAAACCATCTTGGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtgagtgaaagtgctaaccggggggatgtggtagggtttccacagatgga Alignment from GeneWise GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA cctgtaccagggatgaaggtctgcagggccgcatctgtttccaaatccagGCTATGAACTCTCAAAAGTAGATGGGAAGACTGGCACCCCCGAGAAACCCCTATCAGATCCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCAAACCATCTTGGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtgagtgaaagtgctaaccggggggatgtggtagggtttccacagatgga #### Kat5_ID1111_11 --> 0 - 1 Original Alignment GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGC-ATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCa gtccatgtccctaccctccaacctgttcactgttccaatcttccccacagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCCATTTTAACTCTACCCCCCTACCAGCGGCGCG-CTATGGTAGGTTGCTTATTGAGTTCagtaaatatatgctatctgctcatggtctggtagctaaagagatgaggttg Alignment from CESAR GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGC-ATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCa gtccatgtccctaccctccaacctgttcactgttccaatcttccccacagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCCATTTTAACTCTACCCCCCTACCAGCGGCGC-GCTATGGTAGGTTGCTTATTGAGTTCagtaaatatatgctatctgctcatggtctggtagctaaagagatgaggttg Alignment from Spaln_aa2Genome GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA gtccatgtccctaccctccaacctgttcactgttccaatcttccccacagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCCATTTTAACTCTACCCCCCTACCAGCGGCGCGCTATGGTAGGTTGCTTATTGAGTTCAgtaaatatatgctatctgctcatggtctggtagctaaagagatgaggttg Alignment from Spaln_nt2Genome GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGC-ATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA gtccatgtccctaccctccaacctgttcactgttccaatcttccccacagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCCATTTTAACTCTACCCCCCTACCAGCGGC-GCGCTATGGTAGGTTGCTTATTGAGTTCAgtaaatatatgctatctgctcatggtctggtagctaaagagatgaggttg Alignment from Pairagon GAAAAGGAATCCACAGAAGATTACAATGTGGCCTG-CATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA gtccatgtccctaccctccaacctgttcactgttccaatcttccccacagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCCATTTTAACTCTACCCCCCTACCAGCGGC-GCGCTATGGTAGGTTGCTTATTGAGTTCAgtaaatatatgctatctgctcatggtctggtagctaaagagatgaggttg Alignment from Exonerate_protein2genome GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA gtccatgtccctaccctccaacctgttcactgttccaatcttccccacagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCCATTTTAACTCTACCCCCCTACCAGCGGCGCGCTATGGTAGGTTGCTTATTGAGTTCAgtaaatatatgctatctgctcatggtctggtagctaaagagatgaggttg Alignment from Exonerate_coding2genome GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA gtccatgtccctaccctccaacctgttcactgttccaatcttccccacagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCCATTTTAACTCTACCCCCCTACCAGCGGCGCGCTATGGTAGGTTGCTTATTGAGTTCAgtaaatatatgctatctgctcatggtctggtagctaaagagatgaggttg Alignment from GeneWise GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA gtccatgtccctaccctccaacctgttcactgttccaatcttccccacagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCCATTTTAACTCTACCCCCCTACCAGCGGCGCGCTATGGTAGGTTGCTTATTGAGTTCAgtaaatatatgctatctgctcatggtctggtagctaaagagatgaggttg #### Kat5_ID1115_7 --> 0 - 0 Original Alignment AATGGGTCAGCCCGT-AGG---GCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG tctcatgcttactgtaggacccttctcaatttttttgttttcttttttagAATGGATCAACTTGTCAGAGCTGCTGTAGCAGCTCAGGCTGGGTGGAAGCGCAAATCTA-CTGCTTAGGCACTGATGAGgtacggccaagcacccaagcagggctggacttaaatttaatttctgattg Alignment from CESAR AATGGGTCAGCCCGT-AGGGCA---GTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG tctcatgcttactgtaggacccttctcaatttttttgttttcttttttagAATGGATCAACTTGTCAGAGCTGCTGTAGCAGCTCAGGCTGGGTGGAAGCGCAAATCT-ACTGCTTAGGCACTGATGAGgtacggccaagcacccaagcagggctggacttaaatttaatttctgattg Alignment from Spaln_aa2Genome AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGG---AAGCGGAAATCTAATTGCTTGGGCACTGATGAG tctcatgcttactgtaggacccttctcaatttttttgttttcttttttagAATGGATCAACTTGTCAGAGCTGCTGTAGCAGCTCAGGCTGGGTGGAAGCGCAAATCTACTGCTTAGGCACTGATGAGgtacggccaagcacccaagcagggctggacttaaatttaatttctgattg Alignment from Spaln_nt2Genome AATGGGTCAGCCCGTAGG----GCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG tctcatgcttactgtaggacccttctcaatttttttgttttcttttttagAATGGATCAACTTGTCAGAGCTGCTGTAGCAGCTCAGGCTGGGTGGAAGCGCAAATCT-ACTGCTTAGGCACTGATGAGgtacggccaagcacccaagcagggctggacttaaatttaatttctgattg Alignment from Pairagon AATGGGTCAGCCCGTAGG----GCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG tctcatgcttactgtaggacccttctcaatttttttgttttcttttttagAATGGATCAACTTGTCAGAGCTGCTGTAGCAGCTCAGGCTGGGTGGAAGCGCAAATCT-ACTGCTTAGGCACTGATGAGgtacggccaagcacccaagcagggctggacttaaatttaatttctgattg Alignment from Exonerate_protein2genome AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGA---CGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG tctcatgcttactgtaggacccttctcaatttttttgttttcttttttagAATGGATCAACTTGTCAGAGCTGCTGTAGCAGCTCAGGCTGGGTGGAAGCGCAAATCTACTGCTTAGGCACTGATGAGgtacggccaagcacccaagcagggctggacttaaatttaatttctgattg Alignment from Exonerate_coding2genome tctcatgcttactgtaggacccttctcaatttttttgttttcttttttagaatggatcaacttgtcagagctgctgtagcagctcaggctgggtggaagcgcaaatctactgcttaggcactgatgaggtacggccaagcacccaagcagggctggacttaaatttaatttctgattg Alignment from GeneWise tctcatgcttactgtaggacccttctcaatttttttgttttcttttttagaatggatcaacttgtcagagctgctgtagcagctcaggctgggtggaagcgcaaatctactgcttaggcactgatgaggtacggccaagcacccaagcagggctggacttaaatttaatttctgattg #### Kat5_ID1119_3 --> 2 - 1 Original Alignment ccCTGGCTGAGATCCTG-AGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGACt ctccaggctggccccgatggctaaactctaacatttccactcctttttagcaTTGGCTGAGATCCTACAGTGTGAAGGACATAAGTGGCAGAAAGCTTT-CTATGTTTACTACATTGACtgtgcagcaagccacactagaagatggttactataaaagattagaaaatct Alignment from CESAR ccCTGGCTGAGATCCTG-AGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGACt ctccaggctggccccgatggctaaactctaacatttccactcctttttagcaTTGGCTGAGATCCTACAGTGTGAAGGACATAAGTGGCAGAAAGC-TTTCTATGTTTACTACATTGACtgtgcagcaagccacactagaagatggttactataaaagattagaaaatct Alignment from Spaln_aa2Genome CCCTGGCTGAGATCCTG-AGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGACT ctccaggctggccccgatggctaaactctaacatttccactcctttttagCATTGGCTGAGATCCTAcAGTGTGAAGGACATAAGTGGCAGAAAGCT-TTCTATGTTTACTACATTGACTgtgcagcaagccacactagaagatggttactataaaagattagaaaatct Alignment from Spaln_nt2Genome CCCTGGCTGAGATCCTG-AGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGACT ctccaggctggccccgatggctaaactctaacatttccactcctttttagCATTGGCTGAGATCCTACAGTGTGAAGGACATAAGTGGCAGAAAGC-TTTCTATGTTTACTACATTGACTgtgcagcaagccacactagaagatggttactataaaagattagaaaatct Alignment from Pairagon CCCTGGCTGAGATCCTG-AGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGACT ctccaggctggccccgatggctaaactctaacatttccactcctttttagCATTGGCTGAGATCCTACAGTGTGAAGGACATAAGTGGCAGAAAGC-TTTCTATGTTTACTACATTGACTgtgcagcaagccacactagaagatggttactataaaagattagaaaatct Alignment from Exonerate_protein2genome CCCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGACT ctccaggctggccccgatggctaaactctaacatttccactcctttttagCATTGGCTGAGATCCTACAGTGTGAAGGACATAAGTGGCAGAAAGCTTTCTATGTTTACTACATTGACTgtgcagcaagccacactagaagatggttactataaaagattagaaaatct Alignment from Exonerate_coding2genome ctccaggctggccccgatggctaaactctaacatttccactcctttttagcattggctgagatcctacagtgtgaaggacataagtggcagaaagctttctatgtttactacattgactgtgcagcaagccacactagaagatggttactataaaagattagaaaatct Alignment from GeneWise CCCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGACT ctccaggctggccccgatggctaaactctaacatttccactcctttttagCATTGGCTGAGATCCTACAGTGTGAAGGACATAAGTGGCAGAAAGCTTTCTATGTTTACTACATTGACTgtgcagcaagccacactagaagatggttactataaaagattagaaaatct #### Kat5_ID1120_2 --> 0 - 1 Original Alignment GGGGAGATAATC-GAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGc ggtaatcaaggcctaccaatacacatcccactcttgaattttcgcggcagGGGGAGATAATTCGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATC-AGATAATGAAGATGAGTGGcgtatgagtgtcctgaggggtagtctgaagaagctaagggcaaggtcccag Alignment from CESAR GGGGAGATAATC-GAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGc ggtaatcaaggcctaccaatacacatcccactcttgaattttcgcggcagGGGGAGATAATTCGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATC-AGATAATGAAGATGAGTGGcgtatgagtgtcctgaggggtagtctgaagaagctaagggcaaggtcccag Alignment from Spaln_aa2Genome GGGGAGATAATC-GAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC ggtaatcaaggcctaccaatacacatcccactcttgaattttcgcggcagGGGGAGATAATTcGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATCA-GATAATGAAGATGAGTGGCgtatgagtgtcctgaggggtagtctgaagaagctaagggcaaggtcccag Alignment from Spaln_nt2Genome GGGGAGATAAT-CGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC ggtaatcaaggcctaccaatacacatcccactcttgaattttcgcggcagGGGGAGATAATTCGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATCA-GATAATGAAGATGAGTGGCgtatgagtgtcctgaggggtagtctgaagaagctaagggcaaggtcccag Alignment from Pairagon GGGGGAGATAA-TCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC ggtaatcaaggcctaccaatacacatcccactcttgaattttcgcggcaGGGGGAGATAATTCGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATCAG-ATAATGAAGATGAGTGGCgtatgagtgtcctgaggggtagtctgaagaagctaagggcaaggtcccag Alignment from Exonerate_protein2genome GGGGAGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC ggtaatcaaggcctaccaatacacatcccactcttgaattttcgcggcagGGGGAGATAATTCGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATCAGATAATGAAGATGAGTGGCgtatgagtgtcctgaggggtagtctgaagaagctaagggcaaggtcccag Alignment from Exonerate_coding2genome GGGGAGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC ggtaatcaaggcctaccaatacacatcccactcttgaattttcgcggcagGGGGAGATAATTCGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATCAGATAATGAAGATGAGTGGCgtatgagtgtcctgaggggtagtctgaagaagctaagggcaaggtcccag Alignment from GeneWise ggtaatcaaggcctaccaatacacatcccactcttgaattttcgcggcagggggagataattcgagggctgctgcctacctgtccttcggcgcaatcagataatgaagatgagtggcgtatgagtgtcctgaggggtagtctgaagaagctaagggcaaggtcccag #### Kcnip2_ID9608_4 --> 2 - 0 Original Alignment acAGCGTGGAGGATGAGTTTGAACTATCC-ACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAG---TTGCAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggcttgtgctggtaatgaagtattgcagtcctattctgtcctcagatAGTGTTGAGGATGAGTTTGAACTGTCACATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAAAC-CGCCAAGTTTGCACACAGAGAGTTGTTGCAGGTCTTGTATAGAGGGTTCAAGAATgtccgtggggaatggaactagctgtgcagtagccgaccctccaagctccc Alignment from CESAR acAGCGTGGAGGATGAGTTTGAACTATCC-ACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAGTTG---CAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggcttgtgctggtaatgaagtattgcagtcctattctgtcctcagatAGTGTTGAGGATGAGTTTGAACTGTCACATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTAC-AGAAACCGCCAAGTTTGCACACAGAGAGTTGTTGCAGGTCTTGTATAGAGGGTTCAAGAATgtccgtggggaatggaactagctgtgcagtagccgaccctccaagctccc Alignment from Spaln_aa2Genome ACAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAG---TTGCAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggcttgtgctggtaatgaagtattgcagtcctattctgtcctcagATAGTGTTGAGGATGAGTTTGAACTGTCACATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAAACCGCCAAGTTTGCACACAGAGAGTTGTTGCAGGTCTTGTATAGAGGGTTCAAGAATgtccgtggggaatggaactagctgtgcagtagccgaccctccaagctccc Alignment from Spaln_nt2Genome ACAGCGTGGAGGATGAGTTTGAACTATC-CACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAGTTG---CAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggcttgtgctggtaatgaagtattgcagtcctattctgtcctcagATAGTGTTGAGGATGAGTTTGAACTGTCACATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAAAC-CGCCAAGTTTGCACACAGAGAGTTGTTGCAGGTCTTGTATAGAGGGTTCAAGAATgtccgtggggaatggaactagctgtgcagtagccgaccctccaagctccc Alignment from Pairagon ACAGCGTGGAGGATGAGTTTGAACTATC-CACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGA---GTTGCAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggcttgtgctggtaatgaagtattgcagtcctattctgtcctcagATAGTGTTGAGGATGAGTTTGAACTGTCACATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAAAC-CGCCAAGTTTGCACACAGAGAGTTGTTGCAGGTCTTGTATAGAGGGTTCAAGAATgtccgtggggaatggaactagctgtgcagtagccgaccctccaagctccc Alignment from Exonerate_protein2genome ACAGCGTGGAGGATGAGTTTGAACTATCC-ACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTC--ACACGCAGAGAGTTGCAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggcttgtgctggtaatgaagtattgcagtcctattctgtcctcagATAGTGTTGAGGATGAGTTTGAACTGTCACATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAAACCGCCAAGTTTGCACACAGAGAGTTGTTGCAGGTCTTGTATAGAGGGTTCAAGAATgtccgtggggaatggaactagctgtgcagtagccgaccctccaagctccc Alignment from Exonerate_coding2genome ACAGCGTGGAGGATGAGTTTGAACTATCC-ACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTC--ACACGCAGAGAGTTGCAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggcttgtgctggtaatgaagtattgcagtcctattctgtcctcagATAGTGTTGAGGATGAGTTTGAACTGTCACATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAAACCGCCAAGTTTGCACACAGAGAGTTGTTGCAGGTCTTGTATAGAGGGTTCAAGAATgtccgtggggaatggaactagctgtgcagtagccgaccctccaagctccc Alignment from GeneWise ACAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAGTTG---CAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggcttgtgctggtaatgaagtattgcagtcctattctgtcctcagATAGTGTTGAGGATGAGTTTGAACTGTCACATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAAACCGCCAAGTTTGCACACAGAGAGTTGTTGCAGGTCTTGTATAGAGGGTTCAAGAATgtccgtggggaatggaactagctgtgcagtagccgaccctccaagctccc #### Kif11_ID7318_8 --> 0 - 0 Original Alignment GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGG-GAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG agctgcaacttccacagttcaacaacttcttttgtgctgcaaacatatagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTTAAGAGGGCACGGCGAAGCTGGAAATATCAACCAATCCCTCTTAACTCTGG-AAGAGTAATTACTGCTCTCTTGGAGAGAACACCTCATATTCCCTATCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCATCTTTCAATCTTGAAgtcagacaagtagtagccatggcacttgggaggcctctgcagccattgca Alignment from CESAR GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGG-GAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG agctgcaacttccacagttcaacaacttcttttgtgctgcaaacatatagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTTAAGAGGGCACGGCGAAGCTGGAAATATCAACCAATCCCTCTTAACTC-TGGAAGAGTAATTACTGCTCTCTTGGAGAGAACACCTCATATTCCCTATCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCATCTTTCAATCTTGAAgtcagacaagtagtagccatggcacttgggaggcctctgcagccattgca Alignment from Spaln_aa2Genome GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG agctgcaacttccacagttcaacaacttcttttgtgctgcaaacatatagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTTAAGAGGGCACGGCGAAGCTGGAAATATCAACCAATCCCTCTTAACTCTGGAAGAGTAATTACTGCTCTCTTGGAGAGAACACCTCATATTCCCTATCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCATCTTTCAATCTTGAAgtcagacaagtagtagccatggcacttgggaggcctctgcagccattgca Alignment from Spaln_nt2Genome GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGG-GAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG agctgcaacttccacagttcaacaacttcttttgtgctgcaaacatatagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTTAAGAGGGCACGGCGAAGCTGGAAATATCAACCAATCCCTCTTAACTCT-GGAAGAGTAATTACTGCTCTCTTGGAGAGAACACCTCATATTCCCTATCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCATCTTTCAATCTTGAAgtcagacaagtagtagccatggcacttgggaggcctctgcagccattgca Alignment from Pairagon GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGG-GAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG agctgcaacttccacagttcaacaacttcttttgtgctgcaaacatatagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTTAAGAGGGCACGGCGAAGCTGGAAATATCAACCAATCCCTCTTAACTCT-GGAAGAGTAATTACTGCTCTCTTGGAGAGAACACCTCATATTCCCTATCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCATCTTTCAATCTTGAAgtcagacaagtagtagccatggcacttgggaggcctctgcagccattgca Alignment from Exonerate_protein2genome GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG agctgcaacttccacagttcaacaacttcttttgtgctgcaaacatatagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTTAAGAGGGCACGGCGAAGCTGGAAATATCAACCAATCCCTCTTAACTCTGGAAGAGTAATTACTGCTCTCTTGGAGAGAACACCTCATATTCCCTATCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCATCTTTCAATCTTGAAgtcagacaagtagtagccatggcacttgggaggcctctgcagccattgca Alignment from Exonerate_coding2genome GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG agctgcaacttccacagttcaacaacttcttttgtgctgcaaacatatagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTTAAGAGGGCACGGCGAAGCTGGAAATATCAACCAATCCCTCTTAACTCTGGAAGAGTAATTACTGCTCTCTTGGAGAGAACACCTCATATTCCCTATCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCATCTTTCAATCTTGAAgtcagacaagtagtagccatggcacttgggaggcctctgcagccattgca Alignment from GeneWise GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG agctgcaacttccacagttcaacaacttcttttgtgctgcaaacatatagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTTAAGAGGGCACGGCGAAGCTGGAAATATCAACCAATCCCTCTTAACTCTGGAAGAGTAATTACTGCTCTCTTGGAGAGAACACCTCATATTCCCTATCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCATCTTTCAATCTTGAAgtcagacaagtagtagccatggcacttgggaggcctctgcagccattgca #### Kif20b_ID7008_13 --> 0 - 2 Original Alignment GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTT-AAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTaa ataaaatgtaatcacagatgcaacttggcatacctgcttttgtcttccagGAACTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAGAATCAAGAAAAATTATCATTAGAACTTCAAGATCCGAGAAGATGTTACACAGAAATTCACTC-GTATTGGAGCCATCGGGAAGCTGATTTTaagtaatataattgtttgcgctatcgtggcgatgatttagacatacttgctc Alignment from CESAR GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTT-AAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTaa ataaaatgtaatcacagatgcaacttggcatacctgcttttgtcttccagGAACTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAGAATCAAGAAAAATTATCATTAGAACTTCAAGATCCGAGAAGATGTTACACAGAAATTCACT-CGTATTGGAGCCATCGGGAAGCTGATTTTaagtaatataattgtttgcgctatcgtggcgatgatttagacatacttgctc Alignment from Spaln_aa2Genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA ataaaatgtaatcacagatgcaacttggcatacctgcttttgtcttccagGAACTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAGAATCAAGAAAAATTATCATTAGAACTTCAAGATCCGAGAAGATGTTACACAGAAATTCACTCGTATTGGAGCCATCGGGAAGCTGATTTTAAgtaatataattgtttgcgctatcgtggcgatgatttagacatacttgctc Alignment from Spaln_nt2Genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTT-AAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA ataaaatgtaatcacagatgcaacttggcatacctgcttttgtcttccagGAACTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAGAATCAAGAAAAATTATCATTAGAACTTCAAGATCCGAGAAGATGTTACACAGAAATTCACTC-GTATTGGAGCCATCGGGAAGCTGATTTTAAgtaatataattgtttgcgctatcgtggcgatgatttagacatacttgctc Alignment from Pairagon GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTT-AAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA ataaaatgtaatcacagatgcaacttggcatacctgcttttgtcttccagGAACTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAGAATCAAGAAAAATTATCATTAGAACTTCAAGATCCGAGAAGATGTTACACAGAAATTCACTC-GTATTGGAGCCATCGGGAAGCTGATTTTAAgtaatataattgtttgcgctatcgtggcgatgatttagacatacttgctc Alignment from Exonerate_protein2genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA ataaaatgtaatcacagatgcaacttggcatacctgcttttgtcttccagGAACTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAGAATCAAGAAAAATTATCATTAGAACTTCAAGATCCGAGAAGATGTTACACAGAAATTCACTCGTATTGGAGCCATCGGGAAGCTGATTTTAAgtaatataattgtttgcgctatcgtggcgatgatttagacatacttgctc Alignment from Exonerate_coding2genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA ataaaatgtaatcacagatgcaacttggcatacctgcttttgtcttccagGAACTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAGAATCAAGAAAAATTATCATTAGAACTTCAAGATCCGAGAAGATGTTACACAGAAATTCACTCGTATTGGAGCCATCGGGAAGCTGATTTTAAgtaatataattgtttgcgctatcgtggcgatgatttagacatacttgctc Alignment from GeneWise GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA ataaaatgtaatcacagatgcaacttggcatacctgcttttgtcttccagGAACTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAGAATCAAGAAAAATTATCATTAGAACTTCAAGATCCGAGAAGATGTTACACAGAAATTCACTCGTATTGGAGCCATCGGGAAGCTGATTTTAAgtaatataattgtttgcgctatcgtggcgatgatttagacatacttgctc #### Klc2_ID853_13 --> 0 - 2 Original Alignment GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGT-GAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTag ggtgatagatgaatctatcttgagccaagtctctgcttctgtttctgcagGATGGAAGTGGTTCCCTGCAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGTAGCAGTCGAAATGCTTGTAAGGAAACTGCAGGGGGGTGGACCACAGG-GCCCTCTAATTCTaggtgagacatcacctctcccttccatattattaatgatgagtagcagggca Alignment from CESAR GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGT-GAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTag ggtgatagatgaatctatcttgagccaagtctctgcttctgtttctgcagGATGGAAGTGGTTCCCTGCAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGTAGCAGTCGAAATGCTTGTAAGGAAACTGCAGGGGGGTGGACCACAG-GGCCCTCTAATTCTaggtgagacatcacctctcccttccatattattaatgatgagtagcagggca Alignment from Spaln_aa2Genome GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGT-GAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG ggtgatagatgaatctatcttgagccaagtctctgcttctgtttctgcagGATGGAAGTGGTTCCCTGCAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGTAGCAGTcGAAATGCTTGTAAGGAAACTGCAGGGGGGTGGACCACAGGG-CCCTCTAATTCTAGgtgagacatcacctctcccttccatattattaatgatgagtagcagggca Alignment from Spaln_nt2Genome GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGT-GAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG ggtgatagatgaatctatcttgagccaagtctctgcttctgtttctgcagGATGGAAGTGGTTCCCTGCAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGTAGCAGTCGAAATGCTTGTAAGGAAACTGCAGGGGGGTGGACCACAGG-GCCCTCTAATTCTAGgtgagacatcacctctcccttccatattattaatgatgagtagcagggca Alignment from Pairagon GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGT-GAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG ggtgatagatgaatctatcttgagccaagtctctgcttctgtttctgcagGATGGAAGTGGTTCCCTGCAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGTAGCAGTCGAAATGCTTGTAAGGAAACTGCAGGGGGGTGGACCACAGG-GCCCTCTAATTCTAGgtgagacatcacctctcccttccatattattaatgatgagtagcagggca Alignment from Exonerate_protein2genome GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGT-GAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTA ggtgatagatgaatctatcttgagccaagtctctgcttctgtttctgcagGATGGAAGTGGTTCCCTGCAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGTAGCAGTCGAAATGCTTGTAAGGAAACTGCAGGGGGGTGGACCACAGGGCCCTCTAATTCTAGgtgagacatcacctctcccttccatattattaatgatgagtagcagggca Alignment from Exonerate_coding2genome ggtgatagatgaatctatcttgagccaagtctctgcttctgtttctgcaggatggaagtggttccctgcagtgcagtggttcttttgggaaactccgagatgctctaagacgtagcagtcgaaatgcttgtaaggaaactgcaggggggtggaccacagggccctctaattctaggtgagacatcacctctcccttccatattattaatgatgagtagcagggca Alignment from GeneWise GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG ggtgatagatgaatctatcttgagccaagtctctgcttctgtttctgcagGATGGAAGTGGTTCCCTGCAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGTAGCAGTCGAAATGCTTGTAAGGAAACTGCAGGGGGGTGGACCACAGGGCCCTCTAATTCTAGgtgagacatcacctctcccttccatattattaatgatgagtagcagggca #### Klc2_ID859_7 --> 0 - 0 Original Alignment GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAA-TACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG cacatgaatgccaagcagcactaggatcgactgctccctgtcggctttagGTCCTTGGAAAATTT------GATGTGGCTGAGCAGCTTAGCAACCTGGTTTTGCTATGCCAGAACCAGGGCAGAGCTGAAGAGGTGGAACTACTATTACCCACGGGGCTTGAAGATATATGCCACACGCC-TAGTCCTGAAGATCCCAATGTGGCAAAAACTAAGAACAACCTGgtgagatgtaaaggtaagggatgccgataaagaaggcagcacatccggga Alignment from CESAR GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAA-TACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG cacatgaatgccaagcagcactaggatcgactgctccctgtcggctttagGTCCTTGGAAAATTT------GATGTGGCTGAGCAGCTTAGCAACCTGGTTTTGCTATGCCAGAACCAGGGCAGAGCTGAAGAGGTGGAACTACTATTACCCACGGGGCTTGAAGATATATGCCACACGCC-TAGTCCTGAAGATCCCAATGTGGCAAAAACTAAGAACAACCTGgtgagatgtaaaggtaagggatgccgataaagaaggcagcacatccggga Alignment from Spaln_aa2Genome GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG cacatgaatgccaagcagcactaggatcgactgctccctgtcggctttagGTCCTTGGAAAATTT------GATGTGGCTGAGCAGCTTAGCAACCTGGTTTTGCTATGCCAGAACCAGGGCAGAGCTGAAGAGGTGGAACTACTATTACCCACGGGGCTTGAAGATATATGCCACACGCCTAGTCCTGAAGATCCCAATGTGGCAAAAACTAAGAACAACCTGgtgagatgtaaaggtaagggatgccgataaagaaggcagcacatccggga Alignment from Spaln_nt2Genome GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAA-TACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG cacatgaatgccaagcagcactaggatcgactgctccctgtcggctttagGTCCTTGGAAAATTT------GATGTGGCTGAGCAGCTTAGCAACCTGGTTTTGCTATGCCAGAACCAGGGCAGAGCTGAAGAGGTGGAACTACTATTACCCACGGGGCTTGAAGATATATGCCACACGCC-TAGTCCTGAAGATCCCAATGTGGCAAAAACTAAGAACAACCTGgtgagatgtaaaggtaagggatgccgataaagaaggcagcacatccggga Alignment from Pairagon GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAA-TACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG cacatgaatgccaagcagcactaggatcgactgctccctgtcggctttagGTCCTTGGAAAATTT------GATGTGGCTGAGCAGCTTAGCAACCTGGTTTTGCTATGCCAGAACCAGGGCAGAGCTGAAGAGGTGGAACTACTATTACCCACGGGGCTTGAAGATATATGCCACACGCC-TAGTCCTGAAGATCCCAATGTGGCAAAAACTAAGAACAACCTGgtgagatgtaaaggtaagggatgccgataaagaaggcagcacatccggga Alignment from Exonerate_protein2genome GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG cacatgaatgccaagcagcactaggatcgactgctccctgtcggctttagGTCCTTGGAAAATTT------GATGTGGCTGAGCAGCTTAGCAACCTGGTTTTGCTATGCCAGAACCAGGGCAGAGCTGAAGAGGTGGAACTACTATTACCCACGGGGCTTGAAGATATATGCCACACGCCTAGTCCTGAAGATCCCAATGTGGCAAAAACTAAGAACAACCTGgtgagatgtaaaggtaagggatgccgataaagaaggcagcacatccggga Alignment from Exonerate_coding2genome cacatgaatgccaagcagcactaggatcgactgctccctgtcggctttaggtccttggaaaatttgatgtggctgagcagcttagcaacctggttttgctatgccagaaccagggcagagctgaagaggtggaactactattacccacggggcttgaagatatatgccacacgcctagtcctgaagatcccaatgtggcaaaaactaagaacaacctggtgagatgtaaaggtaagggatgccgataaagaaggcagcacatccggga Alignment from GeneWise GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG cacatgaatgccaagcagcactaggatcgactgctccctgtcggctttagGTCCTTGGAAAATTT------GATGTGGCTGAGCAGCTTAGCAACCTGGTTTTGCTATGCCAGAACCAGGGCAGAGCTGAAGAGGTGGAACTACTATTACCCACGGGGCTTGAAGATATATGCCACACGCCTAGTCCTGAAGATCCCAATGTGGCAAAAACTAAGAACAACCTGgtgagatgtaaaggtaagggatgccgataaagaaggcagcacatccggga #### Ldb1_ID9691_9 --> 0 - 1 Original Alignment CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGA-GACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCg gtacaggccaacccttacactgttttagtgagtcccatctcccatcccagCTCTGTGTAATTCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTTAGTCCTCGGCGATTGCCTCAAGACATGTCTCTTCCAGAAGTGGC-GCGAATGGTAGCACCTCCTggtaagtctctctctaatccgagtgaaatagttgtgtgacggctgagcttc Alignment from CESAR CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGA-GACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCg gtacaggccaacccttacactgttttagtgagtcccatctcccatcccagCTCTGTGTAATTCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTTAGTCCTCGGCGATTGCCTCAAGACATGTCTCTTCCAGAAGTGG-CGCGAATGGTAGCACCTCCTggtaagtctctctctaatccgagtgaaatagttgtgtgacggctgagcttc Alignment from Spaln_aa2Genome CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGA-GACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG gtacaggccaacccttacactgttttagtgagtcccatctcccatcccagCTCTGTGTAATTCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTTAGTCCTCGGcGATTGCCTCAAGACATGTCTCTTCCAGAAGTGGCG-CGAATGGTAGCACCTCCTGgtaagtctctctctaatccgagtgaaatagttgtgtgacggctgagcttc Alignment from Spaln_nt2Genome CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGA-GACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG gtacaggccaacccttacactgttttagtgagtcccatctcccatcccagCTCTGTGTAATTCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTTAGTCCTCGGCGATTGCCTCAAGACATGTCTCTTCCAGAAGTGGC-GCGAATGGTAGCACCTCCTGgtaagtctctctctaatccgagtgaaatagttgtgtgacggctgagcttc Alignment from Pairagon CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGA-GACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG gtacaggccaacccttacactgttttagtgagtcccatctcccatcccagCTCTGTGTAATTCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTTAGTCCTCGGCGATTGCCTCAAGACATGTCTCTTCCAGAAGTGGC-GCGAATGGTAGCACCTCCTGgtaagtctctctctaatccgagtgaaatagttgtgtgacggctgagcttc Alignment from Exonerate_protein2genome CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGA-GACTGCCTCAAGACCTGCCTCTTCCAGAAGTGG--CAGCGAATGGTAGCGCCTCCCG gtacaggccaacccttacactgttttagtgagtcccatctcccatcccagCTCTGTGTAATTCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTTAGTCCTCGGCGATTGCCTCAAGACATGTCTCTTCCAGAAGTGGCG---CGAATGGTAGCACCTCCTGgtaagtctctctctaatccgagtgaaatagttgtgtgacggctgagcttc Alignment from Exonerate_coding2genome CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGA-GACTGCCTCAAGACCTGCCTCTTCCAGAAGTGG--CAGCGAATGGTAGCGCCTCCCG gtacaggccaacccttacactgttttagtgagtcccatctcccatcccagCTCTGTGTAATTCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTTAGTCCTCGGCGATTGCCTCAAGACATGTCTCTTCCAGAAGTGGCG---CGAATGGTAGCACCTCCTGgtaagtctctctctaatccgagtgaaatagttgtgtgacggctgagcttc Alignment from GeneWise CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCC-CGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGA-- gtacaggccaacccttacactgttttagtgagtcccatctcccatcccagCTCTGTGTAATTCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTTAGTCCTCGGCGATTGCCTCAAGACATGTCTCTTCCAGAAGTGGCGCGAATGgtagcacctcctggtaagtctctctctaatccgagtgaaatagttgtgtgacggctgagcttc #### Ldb1_ID9693_7 --> 0 - 0 Original Alignment GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTC-AGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC gtagtaaatcaccaaagcaaaggatgggtattctggtttatgtcttccagGTTTGTGTAGAAGGACGGCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCCAGCATCCAGCAGCACAGAGAACTTATTCCAA-AAGTATCCTGGCGATGCATgtaagtctgtgccagcaccacctgaaacgaggggattggagtccgcatct Alignment from CESAR GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTC-AGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC gtagtaaatcaccaaagcaaaggatgggtattctggtttatgtcttccagGTTTGTGTAGAAGGACGGCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCCAGCATCCAGCAGCACAGAGAACTTATTC-CAAAAGTATCCTGGCGATGCATgtaagtctgtgccagcaccacctgaaacgaggggattggagtccgcatct Alignment from Spaln_aa2Genome GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC gtagtaaatcaccaaagcaaaggatgggtattctggtttatgtcttccagGTTTGTGTAGAAGGACGGCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCCAGCATCCAGCAGCACAGAGAACTTATTCCAAAAGTATCCTGGCGATGCATgtaagtctgtgccagcaccacctgaaacgaggggattggagtccgcatct Alignment from Spaln_nt2Genome GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTC-AGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC gtagtaaatcaccaaagcaaaggatgggtattctggtttatgtcttccagGTTTGTGTAGAAGGACGGCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCCAGCATCCAGCAGCACAGAGAACTTAT-TCCAAAAGTATCCTGGCGATGCATgtaagtctgtgccagcaccacctgaaacgaggggattggagtccgcatct Alignment from Pairagon GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTT-CAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC gtagtaaatcaccaaagcaaaggatgggtattctggtttatgtcttccagGTTTGTGTAGAAGGACGGCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCCAGCATCCAGCAGCACAGAGAACTTAT-TCCAAAAGTATCCTGGCGATGCATgtaagtctgtgccagcaccacctgaaacgaggggattggagtccgcatct Alignment from Exonerate_protein2genome GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC gtagtaaatcaccaaagcaaaggatgggtattctggtttatgtcttccagGTTTGTGTAGAAGGACGGCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCCAGCATCCAGCAGCACAGAGAACTTATTCCAAAAGTATCCTGGCGATGCATgtaagtctgtgccagcaccacctgaaacgaggggattggagtccgcatct Alignment from Exonerate_coding2genome GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC gtagtaaatcaccaaagcaaaggatgggtattctggtttatgtcttccagGTTTGTGTAGAAGGACGGCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCCAGCATCCAGCAGCACAGAGAACTTATTCCAAAAGTATCCTGGCGATGCATgtaagtctgtgccagcaccacctgaaacgaggggattggagtccgcatct Alignment from GeneWise GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC gtagtaaatcaccaaagcaaaggatgggtattctggtttatgtcttccagGTTTGTGTAGAAGGACGGCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCCAGCATCCAGCAGCACAGAGAACTTATTCCAAAAGTATCCTGGCGATGCATgtaagtctgtgccagcaccacctgaaacgaggggattggagtccgcatct #### Lipa_ID6938_5 --> 2 - 0 Original Alignment gtTTCATAGCTTTTTCACAGATGCCTGAGTTGGCA-AAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgatagaaatgtgttcaagctcaggtccttcttcctcttccccatccaggtTTCATAGCTTTTTCACAAATGCCTGAGTTAGCCCAAGAAGATCAAAATGTTTTTAGCACTGTCTCCAG-ATTGTCTCTCAATTTTGCTTCCAGCCCACTATTGCAATTAGGACACTTGCCTGATCCACTGCTCAAAgtgaggggtttgacattttgtacatttaatagtctattgtgagtgtccgt Alignment from CESAR gtTTCATAGCTTTTTCACAGATGCCTGAGTTGGCA-AAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgatagaaatgtgttcaagctcaggtccttcttcctcttccccatccaggtTTCATAGCTTTTTCACAAATGCCTGAGTTAGCCCAAGAAGATCAAAATGTTTTTAGCACTGTCTCCA-GATTGTCTCTCAATTTTGCTTCCAGCCCACTATTGCAATTAGGACACTTGCCTGATCCACTGCTCAAAgtgaggggtttgacattttgtacatttaatagtctattgtgagtgtccgt Alignment from Spaln_aa2Genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgatagaaatgtgttcaagctcaggtccttcttcctcttccccatccagGTTTCATAGCTTTTTCACAAATGCCTGAGTTAGCCCAAGAAGATCAAAATGTTTTTAGCACTGTCTCCAGATTGTCTCTCAATTTTGCTTCCAGCCCACTATTGCAATTAGGACACTTGCCTGATCCACTGCTCAAAgtgaggggtttgacattttgtacatttaatagtctattgtgagtgtccgt Alignment from Spaln_nt2Genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCA-AAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgatagaaatgtgttcaagctcaggtccttcttcctcttccccatccagGTTTCATAGCTTTTTCACAAATGCCTGAGTTAGCCCAAGAAGATCAAAATGTTTTTAGCACTGTCTCCAG-ATTGTCTCTCAATTTTGCTTCCAGCCCACTATTGCAATTAGGACACTTGCCTGATCCACTGCTCAAAgtgaggggtttgacattttgtacatttaatagtctattgtgagtgtccgt Alignment from Pairagon GTTTCATAGCTTTTTCACAGATGCCTGAGTTGG-CAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgatagaaatgtgttcaagctcaggtccttcttcctcttccccatccagGTTTCATAGCTTTTTCACAAATGCCTGAGTTAGCCCAAGAAGATCAAAATGTTTTTAGCACTGTCTCCAG-ATTGTCTCTCAATTTTGCTTCCAGCCCACTATTGCAATTAGGACACTTGCCTGATCCACTGCTCAAAgtgaggggtttgacattttgtacatttaatagtctattgtgagtgtccgt Alignment from Exonerate_protein2genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgatagaaatgtgttcaagctcaggtccttcttcctcttccccatccagGTTTCATAGCTTTTTCACAAATGCCTGAGTTAGCCCAAGAAGATCAAAATGTTTTTAGCACTGTCTCCAGATTGTCTCTCAATTTTGCTTCCAGCCCACTATTGCAATTAGGACACTTGCCTGATCCACTGCTCAAAgtgaggggtttgacattttgtacatttaatagtctattgtgagtgtccgt Alignment from Exonerate_coding2genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgatagaaatgtgttcaagctcaggtccttcttcctcttccccatccagGTTTCATAGCTTTTTCACAAATGCCTGAGTTAGCCCAAGAAGATCAAAATGTTTTTAGCACTGTCTCCAGATTGTCTCTCAATTTTGCTTCCAGCCCACTATTGCAATTAGGACACTTGCCTGATCCACTGCTCAAAgtgaggggtttgacattttgtacatttaatagtctattgtgagtgtccgt Alignment from GeneWise GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgatagaaatgtgttcaagctcaggtccttcttcctcttccccatccagGTTTCATAGCTTTTTCACAAATGCCTGAGTTAGCCCAAGAAGATCAAAATGTTTTTAGCACTGTCTCCAGATTGTCTCTCAATTTTGCTTCCAGCCCACTATTGCAATTAGGACACTTGCCTGATCCACTGCTCAAAgtgaggggtttgacattttgtacatttaatagtctattgtgagtgtccgt #### Loxl4_ID8561_12 --> 2 - 0 Original Alignment gaGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAA-CAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcctgggcatttctgcctctgctggctggggactctctcttgcagggGTACAACGTCGCTATGCATATGCTAATTTTGGAGAGCCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATG-CAGTGATTGTCAGTGGGTGGATATCAAAGAG---GTTCCAGGGGACTACATCTTCCAGgtgagcatcagtccaggacatacacttcaggttttactgtaagtcggttc Alignment from CESAR gaGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAA-CAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcctgggcatttctgcctctgctggctggggactctctcttgcagggGTACAACGTCGCTATGCATATGCTAATTTTGGAGAGCCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATGCAG-TGATTGTCAGTGGGTGGATATCAAAGAGGTT---CCAGGGGACTACATCTTCCAGgtgagcatcagtccaggacatacacttcaggttttactgtaagtcggttc Alignment from Spaln_aa2Genome GAGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAA-CAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcctgggcatttctgcctctgctggctggggactctctcttgcagGGGTACAACGTCGCTATGCATATGCTAATTTTGGAGAGcCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATGCAGT-GATTGTCAGTGGGTGGATATCAAAGAGGTT---CCAGGGGACTACATCTTCCAGgtgagcatcagtccaggacatacacttcaggttttactgtaagtcggttc Alignment from Spaln_nt2Genome GAGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAAC-AGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcctgggcatttctgcctctgctggctggggactctctcttgcagGGGTACAACGTCGCTATGCATATGCTAATTTTGGAGAGCCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATG-CAGTGATTGTCAGTGGGTGGATATCAAAGA---GGTTCCAGGGGACTACATCTTCCAGgtgagcatcagtccaggacatacacttcaggttttactgtaagtcggttc Alignment from Pairagon GAGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAA-CAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcctgggcatttctgcctctgctggctggggactctctcttgcagGGGTACAACGTCGCTATGCATATGCTAATTTTGGAGAGCCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATG-CAGTGATTGTCAGTGGGTGGATATCAAAGAGGT---TCCAGGGGACTACATCTTCCAGgtgagcatcagtccaggacatacacttcaggttttactgtaagtcggttc Alignment from Exonerate_protein2genome GAGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAA-CAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCAT--GACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcctgggcatttctgcctctgctggctggggactctctcttgcagGGGTACAACGTCGCTATGCATATGCTAATTTTGGAGAGCCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATGCAGT---GATTGTCAGTGGGTGGATATCAAAGAGGTT---CCAGGGGACTACATCTTCCAGgtgagcatcagtccaggacatacacttcaggttttactgtaagtcggttc Alignment from Exonerate_coding2genome aaaatgcctgggcatttctgcctctgctggctggggactctctcttgcaggggtacaacgtcgctatgcatatgctaattttggagagccaaggggttgcagtaggttgctgggacacctatcagcatgcagtgattgtcagtgggtggatatcaaagaggttccaggggactacatcttccaggtgagcatcagtccaggacatacacttcaggttttactgtaagtcggttc Alignment from GeneWise GAGTGCAGCGGCGCTATGCATGTGCCAACTTTGGG-GAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcctgggcatttctgcctctgctggctggggactctctcttgcagGGGTACAACGTCGCTATGCATATGCTAATTTTGGAGAGCCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATGC-AGTGATTGTCAGTGGGTGGATATCAAAGAGGTT---CCAGGGGACTACATCTTCCAGgtgagcatcagtccaggacatacacttcaggttttactgtaagtcggttc #### Lpxn_ID3473_6 --> 0 - 0 Original Alignment GTGATCCATGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGC-CTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT tatttgtgcaatagaaagaggtaatgatcgtttctgtctgtctcatacagGTGATCCACGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGCAGCCCTGGCCTACTGCTCCAAAGACTACCACC-CCTGTTCTCTCCACACTGTGCCTACTGTGCTACTCCCATCACAGATgtaagcgatgtcccatgccagtagtacacacatagtgtaatcaattatga Alignment from CESAR GTGATCCATGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGC-CTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT tatttgtgcaatagaaagaggtaatgatcgtttctgtctgtctcatacagGTGATCCACGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGCAGCCCTGGCCTACTGCTCCAAAGACTACCAC-CCCTGTTCTCTCCACACTGTGCCTACTGTGCTACTCCCATCACAGATgtaagcgatgtcccatgccagtagtacacacatagtgtaatcattctcct Alignment from Spaln_aa2Genome GTGATCCATGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT tatttgtgcaatagaaagaggtaatgatcgtttctgtctgtctcatacagGTGATCCACGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGCAGCCCTGGCCTACTGCTCCAAAGACTACCACCCCTGTTCTCTCCACACTGTGCCTACTGTGCTACTCCCATCACAGATgtaagcgatgtcccatgccagtagtacacacatagtgtaatcaattatga Alignment from Spaln_nt2Genome GTGATCCATGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCC-TGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT tatttgtgcaatagaaagaggtaatgatcgtttctgtctgtctcatacagGTGATCCACGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGCAGCCCTGGCCTACTGCTCCAAAGACTACCACC-CCTGTTCTCTCCACACTGTGCCTACTGTGCTACTCCCATCACAGATgtaagcgatgtcccatgccagtagtacacacatagtgtaatcaattatga Alignment from Pairagon GTGATCCATGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGG-CCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT tatttgtgcaatagaaagaggtaatgatcgtttctgtctgtctcatacagGTGATCCACGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGCAGCCCTGGCCTACTGCTCCAAAGACTACCACC-CCTGTTCTCTCCACACTGTGCCTACTGTGCTACTCCCATCACAGATgtaagcgatgtcccatgccagtagtacacacatagtgtaatcaattatga Alignment from Exonerate_protein2genome GTGATCCATGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT tatttgtgcaatagaaagaggtaatgatcgtttctgtctgtctcatacagGTGATCCACGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGCAGCCCTGGCCTACTGCTCCAAAGACTACCACCCCTGTTCTCTCCACACTGTGCCTACTGTGCTACTCCCATCACAGATgtaagcgatgtcccatgccagtagtacacacatagtgtaatcaattatga Alignment from Exonerate_coding2genome GTGATCCATGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT tatttgtgcaatagaaagaggtaatgatcgtttctgtctgtctcatacagGTGATCCACGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGCAGCCCTGGCCTACTGCTCCAAAGACTACCACCCCTGTTCTCTCCACACTGTGCCTACTGTGCTACTCCCATCACAGATgtaagcgatgtcccatgccagtagtacacacatagtgtaatcaattatga Alignment from GeneWise GTGATCCATGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT tatttgtgcaatagaaagaggtaatgatcgtttctgtctgtctcatacagGTGATCCACGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGCAGCCCTGGCCTACTGCTCCAAAGACTACCACCCCTGTTCTCTCCACACTGTGCCTACTGTGCTACTCCCATCACAGATgtaagcgatgtcccatgccagtagtacacacatagtgtaatcaattatga #### Ltbp3_ID1258_10 --> 0 - 1 Original Alignment CCAGTGAGTGAGGAGCGA-TCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAg tatgacagctcaaactaccattatgaggttctatcctcaattccctgcagCCAGTGAGTGAGGAGCGACTCTGTGCAACAGAGCCATCCCACTACCATTACCT-ACCTTCTCGGCCTTTCCTGggtatggtggttggaggggatgggcaaatcataccaacaggggtaagccta Alignment from CESAR CCAGTGAGTGAGGAGCGA-TCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAg tatgacagctcaaactaccattatgaggttctatcctcaattccctgcagCCAGTGAGTGAGGAGCGACTCTGTGCAACAGAGCCATCCCACTACCATTACC-TACCTTCTCGGCCTTTCCTGggtatggtggttggaggggatgggcaaatcataccaacaggggtaagccta Alignment from Spaln_aa2Genome CCAGTGAGTGAGGAGCGA-TCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG tatgacagctcaaactaccattatgaggttctatcctcaattccctgcagCCAGTGAGTGAGGAGCGAcTCTGTGCAACAGAGCCATCCCACTACCATTACCTA-CCTTCTCGGCCTTTCCTGGgtatggtggttggaggggatgggcaaatcataccaacaggggtaagccta Alignment from Spaln_nt2Genome CCAGTGAGTGAGGAGCGA-TCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG tatgacagctcaaactaccattatgaggttctatcctcaattccctgcagCCAGTGAGTGAGGAGCGACTCTGTGCAACAGAGCCATCCCACTACCATTACCT-ACCTTCTCGGCCTTTCCTGGgtatggtggttggaggggatgggcaaatcataccaacaggggtaagccta Alignment from Pairagon CCAGTGAGTGAGGAGCGA-TCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG tatgacagctcaaactaccattatgaggttctatcctcaattccctgcagCCAGTGAGTGAGGAGCGACTCTGTGCAACAGAGCCATCCCACTACCATTACCT-ACCTTCTCGGCCTTTCCTGGgtatggtggttggaggggatgggcaaatcataccaacaggggtaagccta Alignment from Exonerate_protein2genome CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG tatgacagctcaaactaccattatgaggttctatcctcaattccctgcagCCAGTGAGTGAGGAGCGACTCTGTGCAACAGAGCCATCCCACTACCATTACCTACCTTCTCGGCCTTTCCTGGgtatggtggttggaggggatgggcaaatcataccaacaggggtaagccta Alignment from Exonerate_coding2genome tatgacagctcaaactaccattatgaggttctatcctcaattccctgcagccagtgagtgaggagcgactctgtgcaacagagccatcccactaccattacctaccttctcggcctttcctgggtatggtggttggaggggatgggcaaatcataccaacaggggtaagccta Alignment from GeneWise tatgacagctcaaactaccattatgaggttctatcctcaattccctgcagccagtgagtgaggagcgactctgtgcaacagagccatcccactaccattacctaccttctcggcctttcctgggtatggtggttggaggggatgggcaaatcataccaacaggggtaagccta #### Ltbp3_ID1261_13 --> 2 - 1 Original Alignment atGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTAC-AATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGg gatatgactggtcaattccgcccatatcgtgcattgctttttcaacacagatGTGAATGGGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGATCGTATCAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAG-GGGCCGCCTGTGTGTGggttcggatacttgggtagcacacacctgggtccatttctgaccccagccc Alignment from CESAR atGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTAC-AATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGg gatatgactggtcaattccgcccatatcgtgcattgctttttcaacacagatGTGAATGGGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGATCGTATCAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAG-GGGCCGCCTGTGTGTGggttcggatacttgggtagcacacacctgggtccatttctgaccccagccc Alignment from Spaln_aa2Genome ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTAC-AATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG gatatgactggtcaattccgcccatatcgtgcattgctttttcaacacagATGTGAATGGGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGATCGTATcAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGCC---------GCCTgtgtgtgggttcggatacttgggtagcacacacctgggtccatttctgaccccagccc Alignment from Spaln_nt2Genome ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTA-CAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG gatatgactggtcaattccgcccatatcgtgcattgctttttcaacacagATGTGAATGGGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGATCGTATCAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCA-GGGGCCGCCTGTGTGTGGgttcggatacttgggtagcacacacctgggtccatttctgaccccagccc Alignment from Pairagon ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTA-CAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG gatatgactggtcaattccgcccatatcgtgcattgctttttcaacacagATGTGAATGGGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGATCGTATCAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCA-GGGGCCGCCTGTGTGTGGgttcggatacttgggtagcacacacctgggtccatttctgaccccagccc Alignment from Exonerate_protein2genome ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTAC-AATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGT gatatgactggtcaattccgcccatatcgtgcattgctttttcaacacagATGTGAATGGGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGATCGTATCAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGCC---GCCTGTGTgtgggttcggatacttgggtagcacacacctgggtccatttctgaccccagccc Alignment from Exonerate_coding2genome ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTAC-AATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGT gatatgactggtcaattccgcccatatcgtgcattgctttttcaacacagATGTGAATGGGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGATCGTATCAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGCC---GCCTGTGTgtgggttcggatacttgggtagcacacacctgggtccatttctgaccccagccc Alignment from GeneWise ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTAC-AATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGC-- gatatgactggtcaattccgcccatatcgtgcattgctttttcaacacagATGTGAATGGGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGATCGTATCAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGCC---GCCTGTGTgtgggttcggatacttgggtagcacacacctgggtccatttctgaccccagccc #### Ltbp3_ID1262_14 --> 2 - 1 Original Alignment acCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTC-TGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAg atttctgaccccagcccctccccttcctcctttgccactgtctcccgcagatCTAAATGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCCTGCATCAACTTCCCAGGCCACTACACATGCAACTGTT-TCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAggtaacatgtcatcctatttctcctccctggccttaggttggatgagggca Alignment from CESAR acCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTC-TGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAg atttctgaccccagcccctccccttcctcctttgccactgtctcccgcagatCTAAATGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCCTGCATCAACTTCCCAGGCCACTACACATGCAACT-GTTTCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAggtaacatgtcatcctatttctcctccctggccttaggttggatgagggca Alignment from Spaln_aa2Genome ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG atttctgaccccagcccctccccttcctcctttgccactgtctcccgcagATCTAAATGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCCTGCATCAACTTCCCAGGCCACTACACATGCAACTGTTTCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAGgtaacatgtcatcctatttctcctccctggccttaggttggatgagggca Alignment from Spaln_nt2Genome ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTT-CTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG atttctgaccccagcccctccccttcctcctttgccactgtctcccgcagATCTAAATGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCCTGCATCAACTTCCCAGGCCACTACACATGCAACTGTT-TCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAGgtaacatgtcatcctatttctcctccctggccttaggttggatgagggca Alignment from Pairagon ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTT-CTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG atttctgaccccagcccctccccttcctcctttgccactgtctcccgcagATCTAAATGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCCTGCATCAACTTCCCAGGCCACTACACATGCAACTGTT-TCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAGgtaacatgtcatcctatttctcctccctggccttaggttggatgagggca Alignment from Exonerate_protein2genome ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTC-TGCATCAACTTCCCTGGTCACTACAAATGCAACTGC--TATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG atttctgaccccagcccctccccttcctcctttgccactgtctcccgcagATCTAAATGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCCTGCATCAACTTCCCAGGCCACTACACATGCAACTGTTT---CCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAGgtaacatgtcatcctatttctcctccctggccttaggttggatgagggca Alignment from Exonerate_coding2genome ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTC-TGCATCAACTTCCCTGGTCACTACAAATGCAACTGC--TATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG atttctgaccccagcccctccccttcctcctttgccactgtctcccgcagATCTAAATGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCCTGCATCAACTTCCCAGGCCACTACACATGCAACTGTTT---CCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAGgtaacatgtcatcctatttctcctccctggccttaggttggatgagggca Alignment from GeneWise ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG atttctgaccccagcccctccccttcctcctttgccactgtctcccgcagATCTAAATGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCCTGCATCAACTTCCCAGGCCACTACACATGCAACTGTTTCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAGgtaacatgtcatcctatttctcctccctggccttaggttggatgagggca #### Ltbp3_ID1263_15 --> 2 - 1 Original Alignment acATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTC-AAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTg tggcgccatacttgtatcagaccatcctaacaccaccccatgtgctccagatATTGATGAATGTCATGACCCCAGCACCTGCCCTGATGGGAAGTGTGAAAATAAACTTGGTAGCTTCCAGGTGCATTGCTTGCCAGCCTGGTTACC-AAGCCAGGGGGGTGGGACATGCCATggtaaaacaaatccagtctcccccatagggttagtagggcccccatggatg Alignment from CESAR acATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTC-AAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTg tggcgccatacttgtatcagaccatcctaacaccaccccatgtgctccagatATTGATGAATGTCATGACCCCAGCACCTGCCCTGATGGGAAGTGTGAAAATAAACTTGGTAGCTTCCAGGTGCATTGCTTGCCAGCCTGGTTAC-CAAGCCAGGGGGGTGGGACATGCCATggtaaaacaaatccagtctcccccatagggttagtagggcccccatggatg Alignment from Spaln_aa2Genome ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTG tggcgccatacttgtatcagaccatcctaacaccaccccatgtgctccagATATTGATGAATGTCATGACCCCAGCACCTGCCCTGATGGGAAGTGTGAAAATAAACTTGGTAGCTTCCAGGTGCATTGCTTGCCAGCCTGGTTACCAAGCCAGGGGGGTGGGACATGCCATGgtaaaacaaatccagtctcccccatagggttagtagggcccccatggatg Alignment from Spaln_nt2Genome ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAG-TGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTG tggcgccatacttgtatcagaccatcctaacaccaccccatgtgctccagATATTGATGAATGTCATGACCCCAGCACCTGCCCTGATGGGAAGTGTGAAAATAAACTTGGTAGCTTCCAGGTGCATTGCTTGCCAGCCTGGTTACC-AAGCCAGGGGGGTGGGACATGCCATGgtaaaacaaatccagtctcccccatagggttagtagggcccccatggatg Alignment from Pairagon ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTT-CAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTG tggcgccatacttgtatcagaccatcctaacaccaccccatgtgctccagATATTGATGAATGTCATGACCCCAGCACCTGCCCTGATGGGAAGTGTGAAAATAAACTTGGTAGCTTCCAGGTGCATTGCTTGCCAGCCTGGTTACCA-AGCCAGGGGGGTGGGACATGCCATGgtaaaacaaatccagtctcccccatagggttagtagggcccccatggatg Alignment from Exonerate_protein2genome ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTG tggcgccatacttgtatcagaccatcctaacaccaccccatgtgctccagATATTGATGAATGTCATGACCCCAGCACCTGCCCTGATGGGAAGTGTGAAAATAAACTTGGTAGCTTCCAGGTGCATTGCTTGCCAGCCTGGTTACCAAGCCAGGGGGGTGGGACATGCCATGgtaaaacaaatccagtctcccccatagggttagtagggcccccatggatg Alignment from Exonerate_coding2genome ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTG tggcgccatacttgtatcagaccatcctaacaccaccccatgtgctccagATATTGATGAATGTCATGACCCCAGCACCTGCCCTGATGGGAAGTGTGAAAATAAACTTGGTAGCTTCCAGGTGCATTGCTTGCCAGCCTGGTTACCAAGCCAGGGGGGTGGGACATGCCATGgtaaaacaaatccagtctcccccatagggttagtagggcccccatggatg Alignment from GeneWise ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTAC---CGTAGCCAGGGGGGCGGGGCCTGTCGTG tggcgccatacttgtatcagaccatcctaacaccaccccatgtgctccagATATTGATGAATGTCATGACCCCAGCACCTGCCCTGATGGGAAGTGTGAAAATAAACTTGGTAGCTTCCAG---GTGCATTGCTTGCCAGCCTGGTTACCAAGCCAGGGGGGTGGGACATGCCATGgtaaaacaaatccagtctcccccatagggttagtagggcccccatggatg #### Ltbp3_ID1268_20 --> 2 - 1 Original Alignment agGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACC-AATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAg gtcatagctcagtaaatattaattggaataagttgccttatcgtttaaagagGTGGAGCAGCCTCACCATAAGAAGGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCATACTAGCTACTCAATGTTACTCAACAGGAATGCTGTTGCTCTCTGG-AGCAGGATGGGGAGACCACTGTGAAATCTATCCCTGTCCCATCTACAGCTCAggtaaatcaacagactgaatcatggccctatgaaactggcctgagaattct Alignment from CESAR agGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACC-AATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAg gtcatagctcagtaaatattaattggaataagttgccttatcgtttaaagagGTGGAGCAGCCTCACCATAAGAAGGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCATACTAGCTACTCAATGTTACTCAACAGGAATGCTGTTGCTCTC-TGGAGCAGGATGGGGAGACCACTGTGAAATCTATCCCTGTCCCATCTACAGCTCAggtaaatcaacagactgaatcatggccctatgaaactggcctgagaattct Alignment from Spaln_aa2Genome AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG gtcatagctcagtaaatattaattggaataagttgccttatcgtttaaagAGGTGGAGCAGCCTCACCATAAGAAGGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCATACTAGCTACTCAATGTTACTCAACAGGAATGCTGTTGCTCTCTGGAGCAGGATGGGGAGACCACTGTGAAATCTATCCCTGTCCCATCTACAGCTCAGgtaaatcaacagactgaatcatggccctatgaaactggcctgagaattct Alignment from Spaln_nt2Genome AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTAC-CAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG gtcatagctcagtaaatattaattggaataagttgccttatcgtttaaagAGGTGGAGCAGCCTCACCATAAGAAGGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCATACTAGCTACTCAATGTTACTCAACAGGAATGCTGTTGCTCTCT-GGAGCAGGATGGGGAGACCACTGTGAAATCTATCCCTGTCCCATCTACAGCTCAGgtaaatcaacagactgaatcatggccctatgaaactggcctgagaattct Alignment from Pairagon AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTAC-CAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG gtcatagctcagtaaatattaattggaataagttgccttatcgtttaaagAGGTGGAGCAGCCTCACCATAAGAAGGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCATACTAGCTACTCAATGTTACTCAACAGGAATGCTGTTGCTCTCT-GGAGCAGGATGGGGAGACCACTGTGAAATCTATCCCTGTCCCATCTACAGCTCAGgtaaatcaacagactgaatcatggccctatgaaactggcctgagaattct Alignment from Exonerate_protein2genome AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG gtcatagctcagtaaatattaattggaataagttgccttatcgtttaaagAGGTGGAGCAGCCTCACCATAAGAAGGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCATACTAGCTACTCAATGTTACTCAACAGGAATGCTGTTGCTCTCTGGAGCAGGATGGGGAGACCACTGTGAAATCTATCCCTGTCCCATCTACAGCTCAGgtaaatcaacagactgaatcatggccctatgaaactggcctgagaattct Alignment from Exonerate_coding2genome AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG gtcatagctcagtaaatattaattggaataagttgccttatcgtttaaagAGGTGGAGCAGCCTCACCATAAGAAGGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCATACTAGCTACTCAATGTTACTCAACAGGAATGCTGTTGCTCTCTGGAGCAGGATGGGGAGACCACTGTGAAATCTATCCCTGTCCCATCTACAGCTCAGgtaaatcaacagactgaatcatggccctatgaaactggcctgagaattct Alignment from GeneWise AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG gtcatagctcagtaaatattaattggaataagttgccttatcgtttaaagAGGTGGAGCAGCCTCACCATAAGAAGGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCATACTAGCTACTCAATGTTACTCAACAGGAATGCTGTTGCTCTCTGGAGCAGGATGGGGAGACCACTGTGAAATCTATCCCTGTCCCATCTACAGCTCAGgtaaatcaacagactgaatcatggccctatgaaactggcctgagaattct #### Ltbp3_ID1272_24 --> 2 - 1 Original Alignment agCACGCCCCAGAGAGACGTGAAGTGTGC-TGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCg ggTCCCAGTGC ttagcagcatattgctctggtctctctagtgttccccccccccaccccagagCATGCCCCAGAAAGATGTGAAGTATGCCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGC-CCTAGTGGGACCCGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGTCGTGGCTGGGGGACCCAGTGCAGACCATGCCCCCCACGTGGTACTggtgagcatttttgaaggagtacctgttttcccctctcagggTCCCAGTGC Alignment from CESAR agCACGCCCCAGAGAGACGTGAAGTGTGC-TGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCg ggTCCCAGTGC ttagcagcatattgctctggtctctctagtgttccccccccccaccccagagCATGCCCCAGAAAGATGTGAAGTATGCCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGC-CCTAGTGGGACCCGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGTCGTGGCTGGGGGACCCAGTGCAGACCATGCCCCCCACGTGGTACTggtgagcatttttgaaggcggtttctctcttaacttacagggTCCCAGTGC Alignment from Spaln_aa2Genome AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCCAGTGC ttagcagcatattgctctggtctctctagtgttccccccccccaccccagAGCATGCCCCAGAAAGATGTGAAGTATGCCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGCCCTAGTGGGACCCGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGTCGTGGCTGGGGGACCCAGTGCAGACCATGCCCCCCACGTGGTACTGgtgagcatttttgaaggagtacctgttttcccctctcagGGTCCCAGTGC Alignment from Spaln_nt2Genome AGCACGCCCCAGAGAGACGTGAAGTGTGC-TGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCCAGTGC ttagcagcatattgctctggtctctctagtgttccccccccccaccccagAGCATGCCCCAGAAAGATGTGAAGTATGCCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGG-CCCTAGTGGGACCCGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGTCGTGGCTGGGGGACCCAGTGCAGACCATGCCCCCCACGTGGTACTGgtgagcatttttgaaggagtacctgttttcccctctcagGGTCCCAGTGC Alignment from Pairagon AGCACGCCCCAGAGAGACGTGAAGTGTG-CTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCCAGTGC ttagcagcatattgctctggtctctctagtgttccccccccccaccccagAGCATGCCCCAGAAAGATGTGAAGTATGCCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGG-CCCTAGTGGGACCCGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGTCGTGGCTGGGGGACCCAGTGCAGACCATGCCCCCCACGTGGTACTGgtgagcatttttgaaggagtacctgttttcccctctcagGGTCCCAGTGC Alignment from Exonerate_protein2genome AGCACGCCCCAGAGAGACGTGAAGTGTGC-TGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCC--CTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCCAGTGC ttagcagcatattgctctggtctctctagtgttccccccccccaccccagAGCATGCCCCAGAAAGATGTGAAGTATGCCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGCCCTAGTG---GGACCCGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGTCGTGGCTGGGGGACCCAGTGCAGACCATGCCCCCCACGTGGTACTGgtgagcatttttgaaggagtacctgttttcccctctcagGGTCCCAGTGC Alignment from Exonerate_coding2genome AGCACGCCCCAGAGAGACGTGAAGTGTGC-TGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCC--CTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCGGG ttagcagcatattgctctggtctctctagtgttccccccccccaccccagAGCATGCCCCAGAAAGATGTGAAGTATGCCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGCCCTAGTG---GGACCCGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGTCGTGGCTGGGGGACCCAGTGCAGACCATGCCCCCCACGTGGTACTGGTgagcatttttgaaggagtacctgttttcccctctcagggtcccagtgc Alignment from GeneWise AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCCAGTGC ttagcagcatattgctctggtctctctagtgttccccccccccaccccagAGCATGCCCCAGAAAGATGTGAAGTATGCCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGCCCTAGTGGGACCCGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGTCGTGGCTGGGGGACCCAGTGCAGACCATGCCCCCCACGTGGTACTGgtgagcatttttgaaggagtacctgttttcccctctcagGGTCCCAGTGC #### Ltbp3_ID1273_25 --> 2 - 1 Original Alignment ACGTGGCACCg ggTCCCAGTGCCCGACTTCACAGAGTGAG-AGC---AATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAg ACGTGGTACTggtaggtatttttgaaggcggtttctctcttaacttacagggTCCCAGTGCTCTACTTTACAGAGTGAGCATGCTCAACTCATTTTGGGATACCACCCCGCTGC-ACTTGGG---------CGAggtaagtaaggctaagctgatgattgtatgcaaagtctactatgggaacta Alignment from CESAR ACGTGGCACCg ggTCCCAGTGCCCGACTTCACAGAGTGAGAGC------AATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAg ACGTGGTACTggtgagcatttttgaaggcggtttctctcttaacttacagggTCCCAGTGCTCTACTTTACAGAGTG--AGCATGCTCAACTCATTTTGGGATACCACCCCGCTGCACTTGGGCGAGGTA------agtaaggctaagctgatgattgtatgcaaagtctactatgg Alignment from Spaln_aa2Genome ACGTGGCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAGC----AATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCT- ACGTGGTACTGgtaggtatttttgaaggcggtttctctcttaacttacagGGTCCCAGTGCTCTACTTTACAGAGTGAGCATGCTcAACTCATTTTGGGATACCACCCCGCTGCACTTGGGCGAGGTAAgtaaggctaagctgatgattgtatgcaaagtctactatgggaacta Alignment from Spaln_nt2Genome ACGTGGCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAG----CAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG ACGTGGTACTGgtaggtatttttgaaggcggtttctctcttaacttacagGGTCCCAGTGCTCTACTTTACAGAGTGAGCATGCTCAACTCATTTTGGGATACCACCCCGCTGC-ACTTGG---------GCGAGgtaagtaaggctaagctgatgattgtatgcaaagtctactatgggaacta Alignment from Pairagon ACGTGGCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAG----CAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG ACGTGGTACTGgtaggtatttttgaaggcggtttctctcttaacttacagGGTCCCAGTGCTCTACTTTACAGAGTGAGCATGCTCAACTCATTTTGGGATACCACCCCGCTGCACTTGG----------GCGAGgtaagtaaggctaagctgatgattgtatgcaaagtctactatgggaacta Alignment from Exonerate_protein2genome ACGTGGCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAGC----AATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG ACGTGGTACTGgtaggtatttttgaaggcggtttctctcttaacttacagGGTCCCAGTGCTCTACTTTACAGAGTGAGCATGCTCAACTCATTTTGGGATACCACCCCGCTGCACTTGGGCGAGGTAAGTAAGGctaagctgatgattgtatgcaaagtctactatgggaacta Alignment from Exonerate_coding2genome ACGTGGCACCGGGTC CCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGG ACGTGGTACTGGTAGgtatttttgaaggcggtttctctcttaacttacagggtcccagtgctctactttacagagtgagcatgctcaactcattttgggataccaccccgctgCACTTGGGCGAGGTAAGTAAGGCTAAGCTGATGATTGTATGCAAAGTCTACTATGGGAACTA Alignment from GeneWise ACGTGGCACCGGGTC CCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTC ACGTGGTACTGGTAGgtatttttgaaggcggtttctctcttaacttacagggtcccagTGCTCTACTTTACAGAGTGAGCATGCTCAACTCATTTTGGGATACCACCCCGCTGCACTTGGGCGAGGTAAgtaaggctaagctgatgattgtatgcaaagtctactatgggaacta #### Macrod1_ID2051_6 --> 2 - 0 Original Alignment atGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGC-AGCTGCTACTTGAGCAGC---CTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG ggaagacatcattggcactcccctctttacaaacctgttgttctgtgtagatGTCATT------GTGGGGCTCATTGCAGTAGGG------------AGTGAGGCGGCTGAATTTCACCAGCTGTTATCTGAGCAGTCCTTTAGATCTGCTGCTAG-GCACAGATTATGTCCAGTTgtgagattcaagtggttgaaacaacagcaaaagatggcatttaaatgcta Alignment from CESAR atGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGC-AGCTGCTACTTGAGCAGC---CTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG ggaagacatcattggcactcccctctttacaaacctgttgttctgtgtagatGTCATT------GTGGGGCTCATTGCAGTAGGG------------AGTGAGGCGGCTGAATTTCACCAGCTGTTATCTGAGCAGTCCTTTAGATCTGCTGCTA-GGCACAGATTATGTCCAGTTgtgagattcaagtggttgaaacaacagcaaaagatggcatttaaatgcta Alignment from Spaln_aa2Genome ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTG---AGCAGCCTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG ggaagacatcattggcactcccctctttacaaacctgttgttctgtgtagATGTCATT------GTGGGGCTCATTGCAGTAGGG------------AGTGAGGCGGCTGAATTTCACCAGCTGTTATCTGAGCAGTCCTTTAGATCTGCTGCTAGGCACAGATTATGTCCAGTTgtgagattcaagtggttgaaacaacagcaaaagatggcatttaaatgcta Alignment from Spaln_nt2Genome ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGC-AGCTGCTACTTGAGCAGCC---TGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG ggaagacatcattggcactcccctctttacaaacctgttgttctgtgtagATGTCAT------TGTGGGGCTCATTGCAGTAGG------------GAGTGAGGCGGCTGAATTTCACCAGCTGTTATCTGAGCAGTCCTTTAGATCTGCTGCTAG-GCACAGATTATGTCCAGTTgtgagattcaagtggttgaaacaacagcaaaagatggcatttaaatgcta Alignment from Pairagon ggaagacatcattggcactcccctctttacaaacctgttgttctgtgtagatgtcattgtggggctcattgcagtagggagtgaggcggctgaatttcaccagctgttatctgagcagtcctttagatctgctgctaggcacagattatgtccagttgtgagattcaagtggttgaaacaacagcaaaagatggcatttaaatgcta Alignment from Exonerate_protein2genome ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTG---AGCAGCCTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG ggaagacatcattggcactcccctctttacaaACCTGTTGTTCTGTGTAGATGTCATTGTGGGGCTCATTGCAGTAGGGAGTGAGGCGGCTGAATTTCACCAGCTGTTATCTGAGCAGTCCTTTAGATCTGCTGCTAGGCACAGATTATGTCCAGTTgtgagattcaagtggttgaaacaacagcaaaagatggcatttaaatgcta Alignment from Exonerate_coding2genome ggaagacatcattggcactcccctctttacaaacctgttgttctgtgtagatgtcattgtggggctcattgcagtagggagtgaggcggctgaatttcaccagctgttatctgagcagtcctttagatctgctgctaggcacagattatgtccagttgtgagattcaagtggttgaaacaacagcaaaagatggcatttaaatgcta Alignment from GeneWise ggaagacatcattggcactcccctctttacaaacctgttgttctgtgtagatgtcattgtggggctcattgcagtagggagtgaggcggctgaatttcaccagctgttatctgagcagtcctttagatctgctgctaggcacagattatgtccagttgtgagattcaagtggttgaaacaacagcaaaagatggcatttaaatgcta #### Macrod1_ID2053_8 --> 2 - 0 Original Alignment gcTACCCCAATGAGGAGGCT-GCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG aatggggtggggtccaatatgcatttacaaatctagcttcaccttaacaggcTACCCCAATGAGGAGGCTCGCAGAGGTAGTGCTGGTTTCATTGCGGGAATGGT-GGAGCAACACAAGGACAAGgtagagccaaattcatattacatgatgggagcctggttgctatgaattga Alignment from CESAR gcTACCCCAATGAGGAGGCT-GCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG aatggggtggggtccaatatgcatttacaaatctagcttcaccttaacaggcTACCCCAATGAGGAGGCTCGCAGAGGTAGTGCTGGTTTCATTGCGGGAAT-GGTGGAGCAACACAAGGACAAGgtagagccaaattcatattacatgatgggagcctggttgctatgaattga Alignment from Spaln_aa2Genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG aatggggtggggtccaatatgcatttacaaatctagcttcaccttaacagGCTACCCCAATGAGGAGGCTCGCAGAGGTAGTGCTGGTTTCATTGCGGGAATGGTGGAGCAACACAAGGACAAGgtagagccaaattcatattacatgatgggagcctggttgctatgaattga Alignment from Spaln_nt2Genome GCTACCCCAATGAGGAGGCT-GCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG aatggggtggggtccaatatgcatttacaaatctagcttcaccttaacagGCTACCCCAATGAGGAGGCTCGCAGAGGTAGTGCTGGTTTCATTGCGGGAATGG-TGGAGCAACACAAGGACAAGgtagagccaaattcatattacatgatgggagcctggttgctatgaattga Alignment from Pairagon GCTACCCCAATGAGGAGGCT-GCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG aatggggtggggtccaatatgcatttacaaatctagcttcaccttaacagGCTACCCCAATGAGGAGGCTCGCAGAGGTAGTGCTGGTTTCATTGCGGGAATGG-TGGAGCAACACAAGGACAAGgtagagccaaattcatattacatgatgggagcctggttgctatgaattga Alignment from Exonerate_protein2genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG aatggggtggggtccaatatgcatttacaaatctagcttcaccttaacagGCTACCCCAATGAGGAGGCTCGCAGAGGTAGTGCTGGTTTCATTGCGGGAATGGTGGAGCAACACAAGGACAAGgtagagccaaattcatattacatgatgggagcctggttgctatgaattga Alignment from Exonerate_coding2genome aatggggtggggtccaatatgcatttacaaatctagcttcaccttaacaggctaccccaatgaggaggctcgcagaggtagtgctggtttcattgcgggaatggtggagcaacacaaggacaaggtagagccaaattcatattacatgatgggagcctggttgctatgaattga Alignment from GeneWise CATCTCCACAGGCGTGTTTGGCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG gtggggtccaatatgcatttacaaatctagCTTCACC------TTAACAGGCTACCCCAATGAGGAGGCTCGCAGAGGTAGTGCTGGTTTCATTGCGGGAATGGTGGAGCAACACAAGGACAAGgtagagccaaattcatattacatgatgggagcctggttgctatgaattga #### Macrod1_ID2054_9 --> 0 - 1 Original Alignment GTGGATCGGCTCATCATCTGTGTG-TTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAg ttcacctgttatgttccaagtttaagttgagctttactttctcttcgtagGTGGATCGGCTCATTATCTGTGTCCTTCTTGGAGAAAGAAGAGGGCATTTACAGGG-ACATCTTCCCCATTATTTCCCAGTAggtaagtacaaattgctcatatgctcgaaggcaccccattgtctccgcctt Alignment from CESAR GTGGATCGGCTCATCATCTGTGTG-TTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAg ttcacctgttatgttccaagtttaagttgagctttactttctcttcgtagGTGGATCGGCTCATTATCTGTGTCCTTCTTGGAGAAAGAAGAGGGCATTTACAGGGAC-ATCTTCCCCATTATTTCCCAGTAggtaagtacaaattgctcatatgctcgaaggcacccacttgagctcttctg Alignment from Spaln_aa2Genome GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAG ttcacctgttatgttccaagtttaagttgagctttactttctcttcgtagGTGGATCGGCTCATTATCTGTGTCCTTCTTGGAGAAAGAAGAGGGCATTTACAGGGACATCTTCCCCATTATTTCCCAGTAGgtaagtacaaattgctcatatgctcgaaggcaccccattgtctccgcctt Alignment from Spaln_nt2Genome GTGGATCGGCTCATCATCTGTGTG-TTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAGCC ttcacctgttatgttccaagtttaagttgagctttactttctcttcgtagGTGGATCGGCTCATTATCTGTGTCCTTCTTGGAGAAAGAAGAGGGCATTTACAGGGA-CATCTTCCCCATTATTTCCCAGTAGGTaagtacaaattgctcatatgctcgaaggcaccccattgtctccgcctt Alignment from Pairagon GTGGATCGGCTCATCATCTGTGT-GTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAG ttcacctgttatgttccaagtttaagttgagctttactttctcttcgtagGTGGATCGGCTCATTATCTGTGTCCTTCTTGGAGAAAGAAGAGGGCATTTACAGGGA-CATCTTCCCCATTATTTCCCAGTAGgtaagtacaaattgctcatatgctcgaaggcaccccattgtctccgcctt Alignment from Exonerate_protein2genome GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTA ttcacctgttatgttccaagtttaagttgagctttactttctcttcgtagGTGGATCGGCTCATTATCTGTGTCCTTCTTGGAGAAAGAAGAGGGCATTTACAGGGACATCTTCCCCATTATTTCCCAGTAggtaagtacaaattgctcatatgctcgaaggcaccccattgtctccgcctt Alignment from Exonerate_coding2genome ttcacctgttatgttccaagtttaagttgagctttactttctcttcgtaggtggatcggctcattatctgtgtccttcttggagaaagaagagggcatttacagggacatcttccccattatttcccagtaggtaagtacaaattgctcatatgctcgaaggcaccccattgtctccgcctt Alignment from GeneWise GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAGCC ttcacctgttatgttccaagtttaagttgagctttactttctcttcgtagGTGGATCGGCTCATTATCTGTGTCCTTCTTGGAGAAAGAAGAGGGCATTTACAGGGACATCTTCCCCATTATTTCCCAGTAGGTaagtacaaattgctcatatgctcgaaggcaccccattgtctccgcctt #### Map3k11_ID1202_3 --> 1 - 1 Original Alignment cTTTGGAGTGCTG-CTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTg atagttccacctggatcacatccgcgcgagcatacttaattgttccccagtTTTGGAGTGTTACCTGTGGGAGCTGCTGACTGGCAAAGTGCCATACCGAG-CATTGACTGTCTCGCAGTGGTTTATGGTGTGGCTGTAAATAAATTAACATTACCCATTCCATCTACTTGTCCCGAGCCCTTCGCACAACTCATGGCTggtaagagagataaggttgtgtggagctgaaatgcaggcccctggtgcgaa Alignment from CESAR cTTTGGAGTGCTG-CTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTg atagttccacctggatcacatccgcgcgagcatacttaattgttccccagtTTTGGAGTGTTACCTGTGGGAGCTGCTGACTGGCAAAGTGCCATACC-GAGCATTGACTGTCTCGCAGTGGTTTATGGTGTGGCTGTAAATAAATTAACATTACCCATTCCATCTACTTGTCCCGAGCCCTTCGCACAACTCATGGCTggtaagagagataaggttgtgtggagctgaaatgcaggcccctggtgcgaa Alignment from Spaln_aa2Genome CTTTGGAGTGCTG-CTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTG atagttccacctggatcacatccgcgcgagcatacttaattgttccccagTTTTGGAGTGTTAcCTGTGGGAGCTGCTGACTGGCAAAGTGCCATACCGAGC-ATTGACTGTCTCGCAGTGGTTTATGGTGTGGCTGTAAATAAATTAACATTACCCATTCCATCTACTTGTCCCGAGCCCTTCGCACAACTCATGGCTGgtaagagagataaggttgtgtggagctgaaatgcaggcccctggtgcgaa Alignment from Spaln_nt2Genome CTTTGGAGTGCTGC-TGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTG atagttccacctggatcacatccgcgcgagcatacttaattgttccccagTTTTGGAGTGTTACCTGTGGGAGCTGCTGACTGGCAAAGTGCCATACCG-AGCATTGACTGTCTCGCAGTGGTTTATGGTGTGGCTGTAAATAAATTAACATTACCCATTCCATCTACTTGTCCCGAGCCCTTCGCACAACTCATGGCTGgtaagagagataaggttgtgtggagctgaaatgcaggcccctggtgcgaa Alignment from Pairagon CTTTGGAGTGCTG-CTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTG atagttccacctggatcacatccgcgcgagcatacttaattgttccccagTTTTGGAGTGTTACCTGTGGGAGCTGCTGACTGGCAAAGTGCCATACCG-AGCATTGACTGTCTCGCAGTGGTTTATGGTGTGGCTGTAAATAAATTAACATTACCCATTCCATCTACTTGTCCCGAGCCCTTCGCACAACTCATGGCTGgtaagagagataaggttgtgtggagctgaaatgcaggcccctggtgcgaa Alignment from Exonerate_protein2genome CTTTGGAGTGCTG-CTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGT--GGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTG atagttccacctggatcacatccgcgcgagcatacttaattgttccccagTTTTGGAGTGTTACCTGTGGGAGCTGCTGACTGGCAAAGTGCCATACCGAGC---ATTGACTGTCTCGCAGTGGTTTATGGTGTGGCTGTAAATAAATTAACATTACCCATTCCATCTACTTGTCCCGAGCCCTTCGCACAACTCATGGCTGgtaagagagataaggttgtgtggagctgaaatgcaggcccctggtgcgaa Alignment from Exonerate_coding2genome CTTTGGAGTGCTG-CTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGT--GGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTG atagttccacctggatcacatccgcgcgagcatacttaattgttccccagTTTTGGAGTGTTACCTGTGGGAGCTGCTGACTGGCAAAGTGCCATACCGAGC---ATTGACTGTCTCGCAGTGGTTTATGGTGTGGCTGTAAATAAATTAACATTACCCATTCCATCTACTTGTCCCGAGCCCTTCGCACAACTCATGGCTGgtaagagagataaggttgtgtggagctgaaatgcaggcccctggtgcgaa Alignment from GeneWise GGAGTGCTGCTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTG atagttccacctggatcacatccgcgcgagcatacttaattgttccccagttttggagTGT---TACCTGTGGGAGCTGCTGACTGGCAAAGTGCCATACCGAGC-ATTGACTGTCTCGCAGTGGTTTATGGTGTGGCTGTAAATAAATTAACATTACCCATTCCATCTACTTGTCCCGAGCCCTTCGCACAACTCATGGCTGgtaagagagataaggttgtgtggagctgaaatgcaggcccctggtgcgaa #### Map3k11_ID1203_4 --> 2 - 0 Original Alignment acTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTC-GCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG tgcaggcccctggtgcgaatgtctcgagctctttatttgctcttccccagatTGCTGGGCACAGGATCCACACCGCAGGCCCCATTTTCGCTTCTTTATTGCAGCAGTTGGAAGCTC-AGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAGATGTGAGATAGAGGGTTTGTTTGACGATCTGCGGGCCAAGGAAAAGgtaaattgcatctgcctatgggacatagaaagtaatacgtaatgtggtgg Alignment from CESAR acTGCTGGGCACAGGACCCCCACCGCAGGCCCGAC-TTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG tgcaggcccctggtgcgaatgtctcgagctctttatttgctcttccccagatTGCTGGGCACAGGATCCACACCGCAGGCCCCATTTTCGCTTCTTTATTGCAGCAGTTGGAAGCT-CAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAGATGTGAGATAGAGGGTTTGTTTGACGATCTGCGGGCCAAGGAAAAGgtaaattgcatctgcctatgggacatagaaagtaatacgtaatgtggtgg Alignment from Spaln_aa2Genome ACTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG tgcaggcccctggtgcgaatgtctcgagctctttatttgctcttccccagATTGCTGGGCACAGGATCCACACCGCAGGCCCCATTTTCGCTTCTTTATTGCAGCAGTTGGAAGCTCAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAGATGTGAGATAGAGGGTTTGTTTGACGATCTGCGGGCCAAGGAAAAGgtaaattgcatctgcctatgggacatagaaagtaatacgtaatgtggtgg Alignment from Spaln_nt2Genome ACTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTT-CGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG tgcaggcccctggtgcgaatgtctcgagctctttatttgctcttccccagATTGCTGGGCACAGGATCCACACCGCAGGCCCCATTTTCGCTTCTTTATTGCAGCAGTTGGAAGCTC-AGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAGATGTGAGATAGAGGGTTTGTTTGACGATCTGCGGGCCAAGGAAAAGgtaaattgcatctgcctatgggacatagaaagtaatacgtaatgtggtgg Alignment from Pairagon ACTGCTGGGCACAGGACCCCCACCGCAGGCCCGA-CTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG tgcaggcccctggtgcgaatgtctcgagctctttatttgctcttccccagATTGCTGGGCACAGGATCCACACCGCAGGCCCCATTTTCGCTTCTTTATTGCAGCAGTTGGAAGCTC-AGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAGATGTGAGATAGAGGGTTTGTTTGACGATCTGCGGGCCAAGGAAAAGgtaaattgcatctgcctatgggacatagaaagtaatacgtaatgtggtgg Alignment from Exonerate_protein2genome ACTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG tgcaggcccctggtgcgaatgtctcgagctctttatttgctcttccccagATTGCTGGGCACAGGATCCACACCGCAGGCCCCATTTTCGCTTCTTTATTGCAGCAGTTGGAAGCTCAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAGATGTGAGATAGAGGGTTTGTTTGACGATCTGCGGGCCAAGGAAAAGgtaaattgcatctgcctatgggacatagaaagtaatacgtaatgtggtgg Alignment from Exonerate_coding2genome ACTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG tgcaggcccctggtgcgaatgtctcgagctctttatttgctcttccccagATTGCTGGGCACAGGATCCACACCGCAGGCCCCATTTTCGCTTCTTTATTGCAGCAGTTGGAAGCTCAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAGATGTGAGATAGAGGGTTTGTTTGACGATCTGCGGGCCAAGGAAAAGgtaaattgcatctgcctatgggacatagaaagtaatacgtaatgtggtgg Alignment from GeneWise ACTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG tgcaggcccctggtgcgaatgtctcgagctctttatttgctcttccccagATTGCTGGGCACAGGATCCACACCGCAGGCCCCATTTTCGCTTCTTTATTGCAGCAGTTGGAAGCTCAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAGATGTGAGATAGAGGGTTTGTTTGACGATCTGCGGGCCAAGGAAAAGgtaaattgcatctgcctatgggacatagaaagtaatacgtaatgtggtgg #### Map3k11_ID1204_5 --> 0 - 1 Original Alignment GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGA------CGGCGCGAG-CACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGg tctacattagtgaactgatagccatattattaatacacgttccatttcagGAACTCCTTAGTCGAGAGGAAGAATTGACATGGGCTGCATGCGTGCAGTGGTCTCAGGCAGAGCAGCTCCAGCTGCGGCGGCATGAGCCACTTGCTGGCACAATGGGAGCTGGAGGTAT-TGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACATCGACGGCGGGGCACCTCCAAGTTGAGTAAACTCCGAGCAAGAGACAGTGAAGAACGGGTCAGCATGCCCTTGggtaagagctgggacttcaattatgtctgcaatttgctagtggtgctgctg Alignment from CESAR GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAG------CAGCTGCGACGGCGCGAG-CACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGg tctacattagtgaactgatagccatattattaatacacgttccatttcagGAACTCCTTAGTCGAGAGGAAGAATTGACATGGGCTGCATGCGTGCAGTGGTCTCAGGCAGAGCAGCTCCAGCTGCGGCGGCATGAGCCACTTGCTGGCACAATGGGAGCTGGAGGTA-TTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACATCGACGGCGGGGCACCTCCAAGTTGAGTAAACTCCGAGCAAGAGACAGTGAAGAACGGGTCAGCATGCCCTTGggtaagagctgggacttcaattatgtctgcaatttgctagtggtgctgctg Alignment from Spaln_aa2Genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAG------CAGCTGCGACGGCGCGAG-CACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC-----GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG tctacattagtgaactgatagccatattattaatacacgttccatttcagGAACTCCTTAGTCGAGAGGAAGAATTGACATGGGCTGCATGCGTGCAGTGGTCTCAGGCAGAGCAGCTCCAGCTGCGGCGGCATGAGcCACTTGCTGGCACAATGGGAGCTGGAGGTATTGAACAACTGCctGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACATCGACGGCGGGGCACCTCCAAGTTGAGTAAACTCCGAGCAAGAGACAGTGAAGAACGGGTCAGCATGCCCTTGGgtaagagctgggacttcaattatgtctgcaatttgctagtggtgctgctg Alignment from Spaln_nt2Genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCT------GCGACGGCGCGAGC-ACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGA-----GCGCGAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG tctacattagtgaactgatagccatattattaatacacgttccatttcagGAACTCCTTAGTCGAGAGGAAGAATTGACATGGGCTGCATGCGTGCAGTGGTCTCAGGCAGAGCAGCTCCAGCTGCGGCGGCATGAGCCACTTGCTGGCACAATGGGAGCTGGAGGTATTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACATCGACGGCGGGGCACCTCCAAGTTGAGTAAACTCCGAGCAAGAGACAGTGAAGAACGGGTCAGCATGCCCTTGGgtaagagctgggacttcaattatgtctgcaatttgctagtggtgctgctg Alignment from Pairagon GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAG------CAGCTGCGACGGCGCGAG-CACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGCGAG--------------CTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG tctacattagtgaactgatagccatattattaatacacgttccatttcagGAACTCCTTAGTCGAGAGGAAGAATTGACATGGGCTGCATGCGTGCAGTGGTCTCAGGCAGAGCAGCTCCAGCTGCGGCGGCATGAGCCACTTGCTGGCACAATGGGAGCTGGAGGTATT---------GAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACATCGACGGCGGGGCACCTCCAAGTTGAGTAAACTCCGAGCAAGAGACAGTGAAGAACGGGTCAGCATGCCCTTGGgtaagagctgggacttcaattatgtctgcaatttgctagtggtgctgctg Alignment from Exonerate_protein2genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGA---CGGCGC----GAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC-----GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG tctacattagtgaactgatagccatattattaatacacgttccatttcagGAACTCCTTAGTCGAGAGGAAGAATTGACATGGGCTGCATGCGTGCAGTGGTCTCAGGCAGAGCAGCTCCAGCTGCGGCGGCATGAGCCACTTGCTGGCACAATGGGAGCTGGAGGTATTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACATCGACGGCGGGGCACCTCCAAGTTGAGTAAACTCCGAGCAAGAGACAGTGAAGAACGGGTCAGCATGCCCTTGGgtaagagctgggacttcaattatgtctgcaatttgctagtggtgctgctg Alignment from Exonerate_coding2genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGA---CGGCGC----GAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC-----GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG tctacattagtgaactgatagccatattattaatacacgttccatttcagGAACTCCTTAGTCGAGAGGAAGAATTGACATGGGCTGCATGCGTGCAGTGGTCTCAGGCAGAGCAGCTCCAGCTGCGGCGGCATGAGCCACTTGCTGGCACAATGGGAGCTGGAGGTATTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACATCGACGGCGGGGCACCTCCAAGTTGAGTAAACTCCGAGCAAGAGACAGTGAAGAACGGGTCAGCATGCCCTTGGgtaagagctgggacttcaattatgtctgcaatttgctagtggtgctgctg Alignment from GeneWise GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTG------CGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG tctacattagtgaactgatagccatattattaatacacgttccatttcagGAACTCCTTAGTCGAGAGGAAGAATTGACATGGGCTGCATGCGTGCAGTGGTCTCAGGCAGAGCAGCTCCAGCTGCGGCGGCATGAGCCACTTGCTGGCACAATGGGAGCTGGAGGTATTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACATCGACGGCGGGGCACCTCCAAGTTGAGTAAACTCCGAGCAAGAGACAGTGAAGAACGGGTCAGCATGCCCTTGGgtaagagctgggacttcaattatgtctgcaatttgctagtggtgctgctg #### Map4k2_ID1634_13 --> 0 - 1 Original Alignment ACCCATGACATGTTT-CCAGATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGt taagtctactggtgcgtagcaagttaactccatccctctgttctacatagACCCATGATATGTTCCCCGGATACTATCCATTCCCACAGCCATCATGGTC-AGCTGAGAGGACTCCTTCAGAGATCCAAtgtaagctatcgggtggtgagaaaatcctaataagatcaggtacctgcaga Alignment from CESAR ACCCATGACATGTTTCCA-GATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGt taagtctactggtgcgtagcaagttaactccatccctctgttctacatagACCCATGATATGTTCCCCGGATACTATCCATTCCCACAGCCATCATGGT-CAGCTGAGAGGACTCCTTCAGAGATCCAAtgtaagctatcgggtggtgagaaaatcctaataagatcaggtacctgcaga Alignment from Spaln_aa2Genome ACCCATGACATGTTTCCAGATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGT taagtctactggtgcgtagcaagttaactccatccctctgttctacatagACCCATGATATGTTCCCCGGATACTATCCATTCCCACAGCCATCATGGTCAGCTGAGAGGACTCCTTCAGAGATCCAATgtaagctatcgggtggtgagaaaatcctaataagatcaggtacctgcaga Alignment from Spaln_nt2Genome ACCCATGACATGTTTCCAG-ATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGT taagtctactggtgcgtagcaagttaactccatccctctgttctacatagACCCATGATATGTTCCCCGGATACTATCCATTCCCACAGCCATCATGGT-CAGCTGAGAGGACTCCTTCAGAGATCCAATgtaagctatcgggtggtgagaaaatcctaataagatcaggtacctgcaga Alignment from Pairagon ACCCATGACATGTT-TCCAGATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGT taagtctactggtgcgtagcaagttaactccatccctctgttctacatagACCCATGATATGTTCCCCGGATACTATCCATTCCCACAGCCATCATGGTCA-GCTGAGAGGACTCCTTCAGAGATCCAATgtaagctatcgggtggtgagaaaatcctaataagatcaggtacctgcaga Alignment from Exonerate_protein2genome taagtctactggtgcgtagcaagttaactccatccctctgttctacatagacccatgatatgttccccggatactatccattcccacagccatcatggtcagctgagaggactccttcagagatccaatgtaagctatcgggtggtgagaaaatcctaataagatcaggtacctgcaga Alignment from Exonerate_coding2genome ACCCATGACATGTTTCCAGA---TACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGT taagtctactggtgcgtagcaagttaactccatccctctgttctacatagACCCATGATATGTTCCCC--GGATACTATCCATTCCCACAGCCATCATGGTCA-GCTGAGAGGACTCCTTCAGAGATCCAATgtaagctatcgggtggtgagaaaatcctaataagatcaggtacctgcaga Alignment from GeneWise ACCCATGACATGTTTCCAGATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGT taagtctactggtgcgtagcaagttaactccatccctctgttctacatagACCCATGATATGTTCCCCGGATACTATCCATTCCCACAGCCATCATGGTCAGCTGAGAGGACTCCTTCAGAGATCCAATgtaagctatcgggtggtgagaaaatcctaataagatcaggtacctgcaga #### Map4k2_ID1635_14 --> 2 - 0 Original Alignment ttCACCAAGTGAAATTC-GGT------------------GCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG aataagatcaggtacctgcagagggactccgtcccttatacctgatgcagttCACCAAGTGGAATTCCGCAGCTCCACACCAGAAGGAGACTCCCCAACAGAAAG-GACAGAC------AATGATCCAgtgagataaaggtatagggggagaggctgaggtcgactcccacttcaggt Alignment from CESAR ttCACCAAGTGAAATTC-GGTGCTCCTCGCCGGAAGGAGACAGATCCTCTC------------AATGAACCG aataagatcaggtacctgcagagggactccgtcccttatacctgatgcagttCACCAAGTGGAATTCCGCAGCTCCACACCAGAAGGAGACT-CCCCAACAGAAAGGACAGACAATGATCCAgtgagataaaggtatagggggagaggctgaggtcgactcccacttcaggt Alignment from Spaln_aa2Genome TTCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTC------------AATGAACCG aataagatcaggtacctgcagagggactccgtcccttatacctgatgcagTTCACCAAGTGGAATTCCGCAGCTCCACACCAGAAGGAGACTCCCCAACAGAAAGGACAGACAATGATCCAgtgagataaaggtatagggggagaggctgaggtcgactcccacttcaggt Alignment from Spaln_nt2Genome TTCACCAAGTGAAATTCGGT-GCTCCTCGCCGGAAGGAGAC--------AGATC---CTCTCAATGAACCG aataagatcaggtacctgcagagggactccgtcccttatacctgatgcagTTCACCAAGTGGAATTCCGCAGCTCCACACCAGAAGGAGACTCCCCAACAGAAAGGACAGACAATGATCCAgtgagataaaggtatagggggagaggctgaggtcgactcccacttcaggt Alignment from Pairagon TTCACCAAGTGAAATTCGGT-GCTCCTCGCCGGAAGGA-----------------GACAGATCCTCTCAATGAACCG aataagatcaggtacctgcagagggactccgtcccttatacctgatgcagTTCACCAAGTGGAATTCCGCAGCTCCACACCAGAAGGAGACTCCCCAACAGAAAGGACAGA------CAATGATCCAgtgagataaaggtatagggggagaggctgaggtcgactcccacttcaggt Alignment from Exonerate_protein2genome aataagatcaggtacctgcagagggactccgtcccttatacctgatgcagttcaccaagtggaattccgcagctccacaccagaaggagactccccaacagaaaggacagacaatgatccagtgagataaaggtatagggggagaggctgaggtcgactcccacttcaggt Alignment from Exonerate_coding2genome aataagatcaggtacctgcagagggactccgtcccttatacctgatgcagttcaccaagtggaattccgcagctccacaccagaaggagactccccaacagaaaggacagacaatgatccagtgagataaaggtatagggggagaggctgaggtcgactcccacttcaggt Alignment from GeneWise ATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCGTGG AATAAGATCAGGTACCTGCAGAGGGACTCCGTCCCTTATACCTGATGCAgttcaccaagtggaattccgcagctccacaccagaaggagactccccaacagaaaggacagacaatgatccagtgagataaaggtatagggggagaggctgaggtcgactcccacttcaggt #### Map4k2_ID1642_21 --> 0 - 1 Original Alignment ATGGGTGCCTGCTTCTCCAAGGTCTTC-AATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAg gaggtgccatgatgtcctagccaactggtctttctgtcaccctgggctagATGGGTGCTTGCTTCACCAAGGTCTCTCAATGGCTGTCCTCTGCAGATTCATGCTGCCGTTACTT-GGTTCACCCTGTGACACGAggtaggggtaggtagactagaagggataacttaggaacccatgaccctgag Alignment from CESAR ATGGGTGCCTGCTTCTCCAAGGTC-TTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAg ggggtgccatgatgtcctagccaactggtctttctgtcaccctgggctagATGGGTGCTTGCTTCACCAAGGTCTCTCAATGGCTGTCCTCTGCAGATTCATGCTGCCGTTACTT-GGTTCACCCTGTGACACGAggtaggggtaggtagactagaagggataacttaggaacccatgaccctgag Alignment from Spaln_aa2Genome ATGGGTGCCTGCTTCTCCAAGGTC-TTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAG gaggtgccatgatgtcctagccaactggtctttctgtcaccctgggctagATGGGTGCTTGCTTCACCAAGGTCtCTCAATGGCTGTCCTCTGCAGATTCATGCTGCCGTTACTTGGTT-CACCCTGTGACACGAGgtaggggtaggtagactagaagggataacttaggaacccatgaccctgag Alignment from Spaln_nt2Genome ATGGGTGCCTGCTTCTCCAAGGTCT-TCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAG gaggtgccatgatgtcctagccaactggtctttctgtcaccctgggctagATGGGTGCTTGCTTCACCAAGGTCTCTCAATGGCTGTCCTCTGCAGATTCATGCTGCCGTTACTT-GGTTCACCCTGTGACACGAGgtaggggtaggtagactagaagggataacttaggaacccatgaccctgag Alignment from Pairagon ------------------------------------------------ACATGGGTGCCTGCTTCTCCAAGGTCT-TCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAG GAGGTGCCATGATGTCCTAGCCAACTGGTCTTTCTGTCACCCTGGGCTAGATGGGTGCTTGCTTCACCAAGGTCTCTCAATGGCTGTCCTCTGCAGATTCATGCTGCCGTTACTT-GGTTCACCCTGTGACACGAGgtaggggtaggtagactagaagggataacttaggaacccatgaccctgag Alignment from Exonerate_protein2genome ATGGGTGCCTGCTTCTCCAAGGTC-TTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGG--GTTCACCCTGTGACTCGAG gaggtgccatgatgtcctagccaactggtctttctgtcaccctgggctagATGGGTGCTTGCTTCACCAAGGTCTCTCAATGGCTGTCCTCTGCAGATTCATGCTGCCGTTACTTGGTT---CACCCTGTGACACGAGgtaggggtaggtagactagaagggataacttaggaacccatgaccctgag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATGGGTGCCTGCTTCTCCAAGGTC-TTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAG gaggtgccatgatgtcctagccaactggtctttctgtcaccctgggctagATGGGTGCTTGCTTCACCAAGGTCTCTCAATGGCTGTCCTCTGCAGATTCATGCTGCCGTTACTTGGTT-CACCCTGTGACACGAGgtaggggtaggtagactagaagggataacttaggaacccatgaccctgag #### Map4k2_ID1649_28 --> 2 - 1 Original Alignment agGGGATCCCAGGTTCT-GCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAAc aatgctagctcaataaccagtgagaggccatcttcttcctcctaccttagagGGGATTCCAGGGCCTCGCACAACAAGTGATACAGGTAGATCGAGACAAAGTCT-GGTCAGCTTTGAAcgtacaaaactgaatgtcaaaaggaggttgtaaacagagtgggagtaaagc Alignment from CESAR agGGGATCCCAGGTTCT-GCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAAc aatgctagctcaataaccagtgagaggccatcttcttcctcctaccttagagGGGATTCCAGGGCCTCGCACAACAAGTGATACAGGTAGATCGAGACAAAG-TCTGGTCAGCTTTGAAcgtacaaaactgaatgtcaaaaggaggttgtaaacagagtgggagtaaagc Alignment from Spaln_aa2Genome GGTTCTGCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAAC aatgctagctcaataaccagtgagaggccatcttcttcctcctaccttagaggggattccagGGCCTCGCACAACAAGTGATACAGGTAGATCGAGACAA-AGTCTGGTCAGCTTTGAACgtacaaaactgaatgtcaaaaggaggttgtaaacagagtgggagtaaagc Alignment from Spaln_nt2Genome AGGGGATCCCAGGTTCT-GCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAAC aatgctagctcaataaccagtgagaggccatcttcttcctcctaccttagAGGGGATTCCAGGGCCTCGCACAACAAGTGATACAGGTAGATCGAGACAAAGT-CTGGTCAGCTTTGAACgtacaaaactgaatgtcaaaaggaggttgtaaacagagtgggagtaaagc Alignment from Pairagon AGGGGATCCCAGGTTCT-GCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAAC aatgctagctcaataaccagtgagaggccatcttcttcctcctaccttagAGGGGATTCCAGGGCCTCGCACAACAAGTGATACAGGTAGATCGAGACAAAGT-CTGGTCAGCTTTGAACgtacaaaactgaatgtcaaaaggaggttgtaaacagagtgggagtaaagc Alignment from Exonerate_protein2genome AGGGGATCCCAGGTTCT-GCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCT aatgctagctcaataaccagtgagaggccatcttcttcctcctaccttagAGGGGATTCCAGGGCCTCGCACAACAAGTGATACAGGTAGATCGAGACAAAGTCTGgtcagctttgaacgtacaaaactgaatgtcaaaaggaggttgtaaacagagtgggagtaaagc Alignment from Exonerate_coding2genome aatgctagctcaataaccagtgagaggccatcttcttcctcctaccttagaggggattccagggcctcgcacaacaagtgatacaggtagatcgagacaaagtctggtcagctttgaacgtacaaaactgaatgtcaaaaggaggttgtaaacagagtgggagtaaagc Alignment from GeneWise -GGGATCCCAGGTTCTGCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAAC aatgctagctcaataaccagtgagaggccatcttcttcctcctaccttagagGGGATTCCAGGGCCTCGCACAACAAGTGATACAGGTAGATCGAGACAAAGT-CTGGTCAGCTTTGAACgtacaaaactgaatgtcaaaaggaggttgtaaacagagtgggagtaaagc #### Mark2_ID2106_15 --> 1 - 2 Original Alignment cCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCC-CGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCag cctttctaacccttcactctgtgtgtttgctgctgccatttctattccagcCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCTGTGC-CCCCAACAAGGCTTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCAGCCCaggtaggtctgcagggatagctatacatctatggcaccatgttgcacacctg Alignment from CESAR cCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCC-CGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCag cctttctaacccttcactctgtgtgtttgctgctgccatttctattccagcCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCTGTG-CCCCCAACAAGGCTTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCAGCCCaggtaggtctgcagggatagctatacatctatggcaccatgttgcacacctg Alignment from Spaln_aa2Genome CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCC-CGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cctttctaacccttcactctgtgtgtttgctgctgccatttctattccagCCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCcCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCTGTGCCCCCAACAAG-GCTTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaggtctgcagggatagctatacatctatggcaccatgttgcacacctg Alignment from Spaln_nt2Genome CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGG-CCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cctttctaacccttcactctgtgtgtttgctgctgccatttctattccagCCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCTGTGC-CCCCAACAAGGCTTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaggtctgcagggatagctatacatctatggcaccatgttgcacacctg Alignment from Pairagon CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGG-CCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cctttctaacccttcactctgtgtgtttgctgctgccatttctattccagCCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCTGTGC-CCCCAACAAGGCTTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaggtctgcagggatagctatacatctatggcaccatgttgcacacctg Alignment from Exonerate_protein2genome CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCC-CGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTA--CACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cctttctaacccttcactctgtgtgtttgctgctgccatttctattccagCCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCTGTGCC---CCCAACAAGGCTTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaggtctgcagggatagctatacatctatggcaccatgttgcacacctg Alignment from Exonerate_coding2genome CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCC-CGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTA--CACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cctttctaacccttcactctgtgtgtttgctgctgccatttctattccagCCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCTGTGCC---CCCAACAAGGCTTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaggtctgcagggatagctatacatctatggcaccatgttgcacacctg Alignment from GeneWise CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCG-GCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cctttctaacccttcactctgtgtgtttgctgctgccatttctattccagCCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCTGTGCC-CCCAACAAGGCTTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaggtctgcagggatagctatacatctatggcaccatgttgcacacctg #### Mark2_ID2108_13 --> 2 - 0 Original Alignment ccGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGC-AGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG tcgaaaggacttgtacagagagattgggctagctttactttaccatgtagccGTCCCCGGCATTCCCACCTCCAATTCCTACTCTAAAAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAGGAAACAGGGCGAAGAGCCAGCCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAG-CCTGGATAGGAAGAAGACTACC---GCACCCTCCACAgtaatccctaaagttactctccaaggggctaagtgcactacattagaggc Alignment from CESAR ccGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGC-AGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG tcgaaaggacttgtacagagagattgggctagctttactttaccatgtagccGTCCCCGGCATTCCCACCTCCAATTCCTACTCTAAAAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAGGAAACAGGGCGAAGAGCCAGCCAGCACTGCCAAGGTGCCCACCAGCCCATTGC-CAGCCTGGATAGGAAGAAGACTACC---GCACCCTCCACAgtaatccctaaagttactctccaaggggctaagtgcactacattagaggc Alignment from Spaln_aa2Genome CCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG tcgaaaggacttgtacagagagattgggctagctttactttaccatgtagCCGTCCCCGGCATTCCCACCTCCAATTCCTACTCTAAAAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAGGAAACAGGGCGAAGAGCCAGCCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGCCTGGATAGGAAGAAGACTACC---GCACCCTCCACAgtaatccctaaagttactctccaaggggctaagtgcactacattagaggc Alignment from Spaln_nt2Genome CCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGC-AGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG tcgaaaggacttgtacagagagattgggctagctttactttaccatgtagCCGTCCCCGGCATTCCCACCTCCAATTCCTACTCTAAAAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAGGAAACAGGGCGAAGAGCCAGCCAGCACTGCCAAGGTGCCCACCAGCCCATTGCC-AGCCTGGATAGGAAGAAG---ACTACCGCACCCTCCACAgtaatccctaaagttactctccaaggggctaagtgcactacattagaggc Alignment from Pairagon CCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAG-CAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCAC--------------------------------------------------- tcgaaaggacttgtacagagagattgggctagctttactttaccatgtagCCGTCCCCGGCATTCCCACCTCCAATTCCTACTCTAAAAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAGGAAACAGGGCGAAGAGCCAGCCAGCACTGCCAAGGTGCCCACCAGCCCATTGCC-AGCCTGGATAGGAAGAAGACTA---CCGCACCCTCCACAGTAATCCCTAAAGTTACTCTCCAAGGGGCTAAGTGCACTACATTAGAGGC Alignment from Exonerate_protein2genome CCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG tcgaaaggacttgtacagagagattgggctagctttactttaccatgtagCCGTCCCCGGCATTCCCACCTCCAATTCCTACTCTAAAAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAGGAAACAGGGCGAAGAGCCAGCCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGCCTGGATAGGAAGAAGACTACC---GCACCCTCCACAgtaatccctaaagttactctccaaggggctaagtgcactacattagaggc Alignment from Exonerate_coding2genome CCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG tcgaaaggacttgtacagagagattgggctagctttactttaccatgtagCCGTCCCCGGCATTCCCACCTCCAATTCCTACTCTAAAAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAGGAAACAGGGCGAAGAGCCAGCCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGCCTGGATAGGAAGAAGACTACC---GCACCCTCCACAgtaatccctaaagttactctccaaggggctaagtgcactacattagaggc Alignment from GeneWise CCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG tcgaaaggacttgtacagagagattgggctagctttactttaccatgtagCCGTCCCCGGCATTCCCACCTCCAATTCCTACTCTAAAAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAGGAAACAGGGCGAAGAGCCAGCCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGCCTGGATAGGAAGAAGACTACC---GCACCCTCCACAgtaatccctaaagttactctccaaggggctaagtgcactacattagaggc #### Mark2_ID2115_6 --> 2 - 0 Original Alignment gaGAGGTGTTTGATTAC-CTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG tgacacgacccctacccttgattctgacattgaaaatcatttcgtttcaggtGAGCTGTTTGATTATCCTAGTGGCTCATGGCAGGATGAAAGAAAAAG-GGCTCGAGCCAAATTCCACCAGgtaagggtgttgccaaatttggctctagatcttggatgagaatatggcat Alignment from CESAR gaGAGGTGTTTGATTAC-CTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG tgacacgacccctacccttgattctgacattgaaaatcatttcgtttcaggtGAGCTGTTTGATTATCCTAGTGGCTCATGGCAGGATGAAAGAAAAA-GGGCTCGAGCCAAATTCCACCAGgtaagggtgttgccaaatttggctctagatcttggatgagaatatggcat Alignment from Spaln_aa2Genome TGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG tgacacgacccctacccttgattctgacattgaaaatcatttcgtttcaggtgagctgtttgattatcctagTGGCTCATGGCAGGATGAAAGAAAAAGG-GCTCGAGCCAAATTCCACCAGgtaagggtgttgccaaatttggctctagatcttggatgagaatatggcat Alignment from Spaln_nt2Genome GAGAGGTGTTTGATTA-CCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG tgacacgacccctacccttgattctgacattgaaaatcatttcgtttcagGTGAGCTGTTTGATTATCCTAGTGGCTCATGGCAGGATGAAAGAAAAAG-GGCTCGAGCCAAATTCCACCAGgtaagggtgttgccaaatttggctctagatcttggatgagaatatggcat Alignment from Pairagon GAGAGGTGTTTGATTA-CCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG tgacacgacccctacccttgattctgacattgaaaatcatttcgtttcagGTGAGCTGTTTGATTATCCTAGTGGCTCATGGCAGGATGAAAGAAAAAG-GGCTCGAGCCAAATTCCACCAGgtaagggtgttgccaaatttggctctagatcttggatgagaatatggcat Alignment from Exonerate_protein2genome GAGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG tgacacgacccctacccttgattctgacattgaaaatcatttcgtttcagGTGAGCTGTTTGATTATCCTAGTGGCTCATGGCAGGATGAAAGAAAAAGGGCTCGAGCCAAATTCCACCAGgtaagggtgttgccaaatttggctctagatcttggatgagaatatggcat Alignment from Exonerate_coding2genome GAGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG tgacacgacccctacccttgattctgacattgaaaatcatttcgtttcagGTGAGCTGTTTGATTATCCTAGTGGCTCATGGCAGGATGAAAGAAAAAGGGCTCGAGCCAAATTCCACCAGgtaagggtgttgccaaatttggctctagatcttggatgagaatatggcat Alignment from GeneWise GAGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG tgacacgacccctacccttgattctgacattgaaaatcatttcgtttcagGTGAGCTGTTTGATTATCCTAGTGGCTCATGGCAGGATGAAAGAAAAAGGGCTCGAGCCAAATTCCACCAGgtaagggtgttgccaaatttggctctagatcttggatgagaatatggcat #### Mrpl43_ID9260_2 --> 1 - 1 Original Alignment gGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGG-AACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACc agcacaaaactgagaactagcctaatacatgccggcccgttctcctttagaGAGTTAGTGGAACGTGAGGTTACTGACTTTTCCCAATGGCAACCCAGGAGTTGTGGTATATGTGAACTCTTGGC-TTGCACCATGCCACGAATGGTGGCAGAATACtgtaagtgtagctgagtgagggcaggggtgtgcagtgcttgatctactaca Alignment from CESAR gGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGG-AACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACc agcacaaaactgagaactagcctaatacatgccggcccgttctcctttagaGAGTTAGTGGAACGTGAGGTTACTGACTTTTCCCAATGGCAACCCAGGAGTTGTGGTATATGTGAACTCT-TGGCTTGCACCATGCCACGAATGGTGGCAGAATACtgtaagtgtagctgagtgagggcaggggtgtgcagtgcttgatctactaca Alignment from Spaln_aa2Genome GGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC agcacaaaactgagaactagcctaatacatgccggcccgttctcctttagAGAGTTAGTGGAACGTGAGGTTACTGACTTTTCCCAATGGCAACCCAGGAGTTGTGGTATATGTGAACTCTTGGCTTGCACCATGCCACGAATGGTGGCAGAATACTgtaagtgtagctgagtgagggcaggggtgtgcagtgcttgatctactaca Alignment from Spaln_nt2Genome GGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGG-AACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC agcacaaaactgagaactagcctaatacatgccggcccgttctcctttagAGAGTTAGTGGAACGTGAGGTTACTGACTTTTCCCAATGGCAACCCAGGAGTTGTGGTATATGTGAACTCTTG-GCTTGCACCATGCCACGAATGGTGGCAGAATACTgtaagtgtagctgagtgagggcaggggtgtgcagtgcttgatctactaca Alignment from Pairagon GGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGG-AACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC agcacaaaactgagaactagcctaatacatgccggcccgttctcctttagAGAGTTAGTGGAACGTGAGGTTACTGACTTTTCCCAATGGCAACCCAGGAGTTGTGGTATATGTGAACTCTTGGCT-TGCACCATGCCACGAATGGTGGCAGAATACTgtaagtgtagctgagtgagggcaggggtgtgcagtgcttgatctactaca Alignment from Exonerate_protein2genome GGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC agcacaaaactgagaactagcctaatacatgccggcccgttctcctttagAGAGTTAGTGGAACGTGAGGTTACTGACTTTTCCCAATGGCAACCCAGGAGTTGTGGTATATGTGAACTCTTGGCTTGCACCATGCCACGAATGGTGGCAGAATACTgtaagtgtagctgagtgagggcaggggtgtgcagtgcttgatctactaca Alignment from Exonerate_coding2genome GGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC agcacaaaactgagaactagcctaatacatgccggcccgttctcctttagAGAGTTAGTGGAACGTGAGGTTACTGACTTTTCCCAATGGCAACCCAGGAGTTGTGGTATATGTGAACTCTTGGCTTGCACCATGCCACGAATGGTGGCAGAATACTgtaagtgtagctgagtgagggcaggggtgtgcagtgcttgatctactaca Alignment from GeneWise GGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC agcacaaaactgagaactagcctaatacatgccggcccgttctcctttagAGAGTTAGTGGAACGTGAGGTTACTGACTTTTCCCAATGGCAACCCAGGAGTTGTGGTATATGTGAACTCTTGGCTTGCACCATGCCACGAATGGTGGCAGAATACTgtaagtgtagctgagtgagggcaggggtgtgcagtgcttgatctactaca #### Ms4a10_ID3085_2 --> 0 - 0 Original Alignment GGCTTTCACATCGCCATTGCTTTTGCACACTTGGCCTTTGGTGGCTACTTG-ATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccagacacagctaagcatcagcaagctcaagccttccactgtccccagGGATTTCACATTACCATTGCCTTTGCTCATTTAGCCTTTGGTGGGTACTTGCATCTCCACGGTCAAGAATCTGCACCTTGTAGTGCTGAAATGTT-GTATCCACTTTGGGGAACTGTCTCGgtgagtaagttcccataccaaccagccaaagtgcactcaggatgtctaca Alignment from CESAR GGCTTTCACATCGCCATTGCTTTTGCACACTTGGCCTTTGGTGGCTACTTG-ATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccagacacagctaagcatcagcaagctcaagccttccactgtccccagGGATTTCACATTACCATTGCCTTTGCTCATTTAGCCTTTGGTGGGTACTTGCATCTCCACGGTCAAGAATCTGCACCTTGTAGTGCTGAAATGT-TGTATCCACTTTGGGGAACTGTCTCGgtgagtaagttcccataccaaccagccaaagtgcactcaggatgtctaca Alignment from Spaln_aa2Genome GGCTTTCACATCGCCATTGCTTTTGCACACTTGGCCTTTGGTGGCTACTTG-ATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccagacacagctaagcatcagcaagctcaagccttccactgtccccagGGATTTCACATTACCATTGCCTTTGCTCATTTAGCCTTTGGTGGGTACTTGcATCTCCACGGTCAAGAATCTGCACCTTGTAGTGCTGAAATGTTG-TATCCACTTTGGGGAACTGTCTCGgtgagtaagttcccataccaaccagccaaagtgcactcaggatgtctaca Alignment from Spaln_nt2Genome GGCTTTCACATCGCCATTGCTTTTGCACACTTGGCCTTTGGTGGCTACTTG-ATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccagacacagctaagcatcagcaagctcaagccttccactgtccccagGGATTTCACATTACCATTGCCTTTGCTCATTTAGCCTTTGGTGGGTACTTGCATCTCCACGGTCAAGAATCTGCACCTTGTAGTGCTGAAATG-TTGTATCCACTTTGGGGAACTGTCTCGgtgagtaagttcccataccaaccagccaaagtgcactcaggatgtctaca Alignment from Pairagon GGCTTTCACATCGCCATTGCTTTTGCACACTTGGCCTTTGGTGGCTACTTG-ATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccagacacagctaagcatcagcaagctcaagccttccactgtccccagGGATTTCACATTACCATTGCCTTTGCTCATTTAGCCTTTGGTGGGTACTTGCATCTCCACGGTCAAGAATCTGCACCTTGTAGTGCTGAAATGTT-GTATCCACTTTGGGGAACTGTCTCGgtgagtaagttcccataccaaccagccaaagtgcactcaggatgtctaca Alignment from Exonerate_protein2genome GGCTTTCACATCGCCATTGCTTTTGCACACTTGGCCTTTGGTGGCTACTTG-ATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGC--TGGTATCCACTCTGGGGAACTGTCTCT gtccagacacagctaagcatcagcaagctcaagccttccactgtccccagGGATTTCACATTACCATTGCCTTTGCTCATTTAGCCTTTGGTGGGTACTTGCATCTCCACGGTCAAGAATCTGCACCTTGTAGTGCTGAAATGTTG---TATCCACTTTGGGGAACTGTCTCGgtgagtaagttcccataccaaccagccaaagtgcactcaggatgtctaca Alignment from Exonerate_coding2genome GGCTTTCACATCGCCATTGCTTTTGCACACTTGGCCTTTGGTGGCTACTTG-ATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGC--TGGTATCCACTCTGGGGAACTGTCTCT gtccagacacagctaagcatcagcaagctcaagccttccactgtccccagGGATTTCACATTACCATTGCCTTTGCTCATTTAGCCTTTGGTGGGTACTTGCATCTCCACGGTCAAGAATCTGCACCTTGTAGTGCTGAAATGTTG---TATCCACTTTGGGGAACTGTCTCGgtgagtaagttcccataccaaccagccaaagtgcactcaggatgtctaca Alignment from GeneWise GGCTTTCACATCGCCATTGCTTTTGCACACTTGGCCTTTGGTGGCTAC-TTGATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccagacacagctaagcatcagcaagctcaagccttccactgtccccagGGATTTCACATTACCATTGCCTTTGCTCATTTAGCCTTTGGTGGGTACTTGCATCTCCACGGTCAAGAATCTGCACCTTGTAGTGCTGAAATGTTG-TATCCACTTTGGGGAACTGTCTCGgtgagtaagttcccataccaaccagccaaagtgcactcaggatgtctaca #### Ms4a2_ID3243_2 --> 1 - 0 Original Alignment tGCACCTGACATTGAACTCTTG-GAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA acacagaggattaagatctgttaagaacgactcgggtttctgggtttcagtGCACCTGACATTGAGCTCCTGCGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGC-GACATGGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtggagttgtggcctttgttttcaatgacaaaagcactgccttctcctac Alignment from CESAR tGCACCTGACATTGAACTCTTG-GAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA acacagaggattaagatctgttaagaacgactcgggtttctgggtttcagtGCACCTGACATTGAGCTCCTGCGAAGCATCACCTGCCAAAGCAGCTCCACCAAAG-CGACATGGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtggagttgtggcctttgttttcaatgacaaaagcactgccttctcctac Alignment from Spaln_aa2Genome TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA acacagaggattaagatctgttaagaacgactcgggtttctgggtttcagTGCACCTGACATTGAGCTCCTGCGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCGACATGGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtggagttgtggcctttgttttcaatgacaaaagcactgccttctcctac Alignment from Spaln_nt2Genome TGCACCTGACATTGAACTCTTG-GAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA acacagaggattaagatctgttaagaacgactcgggtttctgggtttcagTGCACCTGACATTGAGCTCCTGCGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGC-GACATGGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtggagttgtggcctttgttttcaatgacaaaagcactgccttctcctac Alignment from Pairagon TGCACCTGACATTGAACTCTTG-GAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA acacagaggattaagatctgttaagaacgactcgggtttctgggtttcagTGCACCTGACATTGAGCTCCTGCGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGC-GACATGGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtggagttgtggcctttgttttcaatgacaaaagcactgccttctcctac Alignment from Exonerate_protein2genome TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA acacagaggattaagatctgttaagaacgactcgggtttctgggtttcagTGCACCTGACATTGAGCTCCTGCGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCGACATGGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtggagttgtggcctttgttttcaatgacaaaagcactgccttctcctac Alignment from Exonerate_coding2genome TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA acacagaggattaagatctgttaagaacgactcgggtttctgggtttcagTGCACCTGACATTGAGCTCCTGCGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCGACATGGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtggagttgtggcctttgttttcaatgacaaaagcactgccttctcctac Alignment from GeneWise TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA acacagaggattaagatctgttaagaacgactcgggtttctgggtttcagTGCACCTGACATTGAGCTCCTGCGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCGACATGGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtggagttgtggcctttgttttcaatgacaaaagcactgccttctcctac #### Ms4a5_ID3161_4 --> 0 - 0 Original Alignment ATAAAAATGAGCCGGGCAATGAATTTACTTAGTGCTCTGGGAGCAGCAGCTGGAATCATT-CTCCTCATATTTGGCTTCCTTCTAGATGGGGAATTCATCTGTGGCTATTCTCCAGATGGTATGCAGTGTGGTGTTATTACCATTCTATTCATT gagcatatgataagaaagcaggcaacctccccgttcttcttcaccccaagATAAAAATGAGCCGGGCAATGAATTTGCTTAGTGCTCTGGGAGCAGCAGCTGGTATCATTCCTCCTCATATTTGGTTTCCTTCTAGACGGGGAGTTCA-CTGTGGCTATTCCCCTGCTGGTATGCAGTGTGGTGTGATTACCATCCTATTCATTgtaagtaacatattctgctgattaggactaaacaaaggtgagaaaggggc Alignment from CESAR ATAAAAATGAGCCGGGCAATGAATTTACTTAGTGCTCTGGGAGCAGCAGCTGGAATCATT-CTCCTCATATTTGGCTTCCTTCTAGATGGGGAATTCATCTGTGGCTATTCTCCAGATGGTATGCAGTGTGGTGTTATTACCATTCTATTCATT gagcatatgataagaaagcaggcaacctccccgttcttcttcaccccaagATAAAAATGAGCCGGGCAATGAATTTGCTTAGTGCTCTGGGAGCAGCAGCTGGTATCATTCCTCCTCATATTTGGTTTCCTTCTAGACGGGGAGTTC-ACTGTGGCTATTCCCCTGCTGGTATGCAGTGTGGTGTGATTACCATCCTATTCATTgtaagtaacatattctgctgattaggactaaacaaaggtgagaaaggggc Alignment from Spaln_aa2Genome ATAAAAATGAGCCGGGCAATGAATTTACTTAGTGCTCTGGGAGCAGCAGCTGGAATCATTCTCCTCATATTTGGCTTCCTTCTAGATGGGGAATTCATCTGTGGCTATTCTCCAGATGGTATGCAGTGTGGTGTTATTACCATTCTATTCATT gagcatatgataagaaagcaggcaacctccccgttcttcttcaccccaagATAAAAATGAGCCGGGCAATGAATTTGCTTAGTGCTCTGGGAGCAGCAGCTGGTATCATTCCTCCTCATATTTGGTTTCCTTCTAGACGGGGAGTTCACTGTGGCTATTCCCCTGCTGGTATGCAGTGTGGTGTGATTACCATCCTATTCATTgtaagtaacatattctgctgattaggactaaacaaaggtgagaaaggggc Alignment from Spaln_nt2Genome ATAAAAATGAGCCGGGCAATGAATTTACTTAGTGCTCTGGGAGCAGCAGCTGGAATCATT-CTCCTCATATTTGGCTTCCTTCTAGATGGGGAATTCATCTGTGGCTATTCTCCAGATGGTATGCAGTGTGGTGTTATTACCATTCTATTCATT gagcatatgataagaaagcaggcaacctccccgttcttcttcaccccaagATAAAAATGAGCCGGGCAATGAATTTGCTTAGTGCTCTGGGAGCAGCAGCTGGTATCATTCCTCCTCATATTTGGTTTCCTTCTAGACGGGGAGTTCA-CTGTGGCTATTCCCCTGCTGGTATGCAGTGTGGTGTGATTACCATCCTATTCATTgtaagtaacatattctgctgattaggactaaacaaaggtgagaaaggggc Alignment from Pairagon ATAAAAATGAGCCGGGCAATGAATTTACTTAGTGCTCTGGGAGCAGCAGCTGGAATCATT-CTCCTCATATTTGGCTTCCTTCTAGATGGGGAATTCATCTGTGGCTATTCTCCAGATGGTATGCAGTGTGGTGTTATTACCATTCTATTCATT gagcatatgataagaaagcaggcaacctccccgttcttcttcaccccaagATAAAAATGAGCCGGGCAATGAATTTGCTTAGTGCTCTGGGAGCAGCAGCTGGTATCATTCCTCCTCATATTTGGTTTCCTTCTAGACGGGGAGTTCA-CTGTGGCTATTCCCCTGCTGGTATGCAGTGTGGTGTGATTACCATCCTATTCATTgtaagtaacatattctgctgattaggactaaacaaaggtgagaaaggggc Alignment from Exonerate_protein2genome ATAAAAATGAGCCGGGCAATGAATTTACTTAGTGCTCTGGGAGCAGCAGCTGGAATCATT-CTCCTCATATTTGGCTTCCTTCTAGATGGGGAATTC--ATCTGTGGCTATTCTCCAGATGGTATGCAGTGTGGTGTTATTACCATTCTATTCATT gagcatatgataagaaagcaggcaacctccccgttcttcttcaccccaagATAAAAATGAGCCGGGCAATGAATTTGCTTAGTGCTCTGGGAGCAGCAGCTGGTATCATTCCTCCTCATATTTGGTTTCCTTCTAGACGGGGAGTTCAC---TGTGGCTATTCCCCTGCTGGTATGCAGTGTGGTGTGATTACCATCCTATTCATTgtaagtaacatattctgctgattaggactaaacaaaggtgagaaaggggc Alignment from Exonerate_coding2genome ATAAAAATGAGCCGGGCAATGAATTTACTTAGTGCTCTGGGAGCAGCAGCTGGAATCATT-CTCCTCATATTTGGCTTCCTTCTAGATGGGGAATTC--ATCTGTGGCTATTCTCCAGATGGTATGCAGTGTGGTGTTATTACCATTCTATTCATT gagcatatgataagaaagcaggcaacctccccgttcttcttcaccccaagATAAAAATGAGCCGGGCAATGAATTTGCTTAGTGCTCTGGGAGCAGCAGCTGGTATCATTCCTCCTCATATTTGGTTTCCTTCTAGACGGGGAGTTCAC---TGTGGCTATTCCCCTGCTGGTATGCAGTGTGGTGTGATTACCATCCTATTCATTgtaagtaacatattctgctgattaggactaaacaaaggtgagaaaggggc Alignment from GeneWise ATAAAAATGAGCCGGGCAATGAATTTACTTAGTGCTCTGGGAGCAGCAGCTGGAATCATTCTCCTCATATTTGGCTTCCTTCTAGATGGGGAATTCATCTGTGGCTATTCTCCAGATGGTATGCAGTGTGGTGTTATTACCATTCTATTCATT gagcatatgataagaaagcaggcaacctccccgttcttcttcaccccaagATAAAAATGAGCCGGGCAATGAATTTGCTTAGTGCTCTGGGAGCAGCAGCTGGTATCATTCCTCCTCATATTTGGTTTCCTTCTAGACGGGGAGTTCACTGTGGCTATTCCCCTGCTGGTATGCAGTGTGGTGTGATTACCATCCTATTCATTgtaagtaacatattctgctgattaggactaaacaaaggtgagaaaggggc #### Mta2_ID2534_7 --> 2 - 2 Original Alignment gaGAATCAGATAATCGAAACCAACAGAAGATGGAGATG-AAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCcg cacacttctattagtacattatggctgactctgtgctttttgtcttacaggaGAGTCAGATAATAGAAACCAACAGAAGATGGAGATGCAAAGTCTGGGACCCAGGCAATCCCCTCACAGACC-GCAGATTGACCAGTTCCTAGTTGTGGCTcggtactgaaatgttcagggaggtcacataggtgcactaaaccttgcattgg Alignment from CESAR gaGAATCAGATAATCGAAACCAACAGAAGATGGAGATG-AAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCcg cacacttctattagtacattatggctgactctgtgctttttgtcttacaggaGAGTCAGATAATAGAAACCAACAGAAGATGGAGATGCAAAGTCTGGGACCCAGGCAATCCCCTCACAGACC-GCAGATTGACCAGTTCCTAGTTGTGGCTcggtactgaaatgttcagggaggtcacataggtgcactaaaccttgcattgg Alignment from Spaln_aa2Genome GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG cacacttctattagtacattatggctgactctgtgctttttgtcttacagGAGAGTCAGATAATAGAAACCAACAGAAGATGGAGATGCAAAGTCTGGGACCCAGGCAATCCCCTCACAGACCGCAGATTGACCAGTTCCTAGTTGTGGCTCGgtactgaaatgttcagggaggtcacataggtgcactaaaccttgcattgg Alignment from Spaln_nt2Genome GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATG-AAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG cacacttctattagtacattatggctgactctgtgctttttgtcttacagGAGAGTCAGATAATAGAAACCAACAGAAGATGGAGATGCAAAGTCTGGGACCCAGGCAATCCCCTCACAGACC-GCAGATTGACCAGTTCCTAGTTGTGGCTCGgtactgaaatgttcagggaggtcacataggtgcactaaaccttgcattgg Alignment from Pairagon GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATG-AAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG cacacttctattagtacattatggctgactctgtgctttttgtcttacagGAGAGTCAGATAATAGAAACCAACAGAAGATGGAGATGCAAAGTCTGGGACCCAGGCAATCCCCTCACAGACC-GCAGATTGACCAGTTCCTAGTTGTGGCTCGgtactgaaatgttcagggaggtcacataggtgcactaaaccttgcattgg Alignment from Exonerate_protein2genome GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG cacacttctattagtacattatggctgactctgtgctttttgtcttacagGAGAGTCAGATAATAGAAACCAACAGAAGATGGAGATGCAAAGTCTGGGACCCAGGCAATCCCCTCACAGACCGCAGATTGACCAGTTCCTAGTTGTGGCTCGgtactgaaatgttcagggaggtcacataggtgcactaaaccttgcattgg Alignment from Exonerate_coding2genome cacacttctattagtacattatggctgactctgtgctttttgtcttacaggagagtcagataatagaaaccaacagaagatggagatgcaaagtctgggacccaggcaatcccctcacagaccgcagattgaccagttcctagttgtggctcggtactgaaatgttcagggaggtcacataggtgcactaaaccttgcattgg Alignment from GeneWise GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG cacacttctattagtacattatggctgactctgtgctttttgtcttacagGAGAGTCAGATAATAGAAACCAACAGAAGATGGAGATGCAAAGTCTGGGACCCAGGCAATCCCCTCACAGACCGCAGATTGACCAGTTCCTAGTTGTGGCTCGgtactgaaatgttcagggaggtcacataggtgcactaaaccttgcattgg #### Mta2_ID2535_8 --> 1 - 0 Original Alignment aGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGC-AGCTCAATT------CGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGAT---ATCACTCTG gctaatgtggcttccaatatgaagaaccatgagtctttttgttccttcagtGCCGTGAGCACTTTTGTAAGAGCTCTAGATTGCAACCAGCTCCATTTCTATTCAGAAGTCCAGCTTGCATATGA-TGCA------GCTACCACAGATATTATCACTCTGgtgagtaccaagtcacaaatatttttgtatgataagccaagagtggagtg Alignment from CESAR aGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGC-AGC------TCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGAT---ATCACTCTG gctaatgtggcttccaatatgaagaaccatgagtctttttgttccttcagtGCCGTGAGCACTTTTGTAAGAGCTCTAGATTGCAACCAGCTCCATTTCTATTCAGAAGTCCAGCTTGCATATG-ATGCAGCTACCACA------GATATTATCACTCTGgtgagtaccaagtcacaaatatttttgtatgataagccaagagtggagtg Alignment from Spaln_aa2Genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGAT---ATCACTCTG gctaatgtggcttccaatatgaagaaccatgagtctttttgttccttcagTGCCGTGAGCACTTTTGTAAGAGCTCTAGATTGCAACCAGCTCCATTTCTATTCAGAAGTCCAGCTTGCATATGATGCAGCTACCACAGATATTATCACTCTGgtgagtaccaagtcacaaatatttttgtatgataagccaagagtggagtg Alignment from Spaln_nt2Genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGC-AGCTCAATT------CGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGAT-ATCACTCTG gctaatgtggcttccaatatgaagaaccatgagtctttttgttccttcagTGCCGTGAGCACTTTTGTAAGAGCTCTAGATTGCAACCAGCTCCATTTCTATTCAGAAGTCCAGCTTGCATATGA-TGCAGCTAC----CACAGATATTATCACTCTGgtgagtaccaagtcacaaatatttttgtatgataagccaagagtggagtg Alignment from Pairagon AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAG-------CAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGA----------TATCACTCTG gctaatgtggcttccaatatgaagaaccatgagtctttttgttccttcagTGCCGTGAGCACTTTTGTAAGAGCTCTAGATTGCAACCAGCTCCATTTCTATTCAGAAGTCCAGCTTGCATATGA-TGCAGCT-------------ACCACAGATATTATCACTCTGgtgagtaccaagtcacaaatatttttgtatgataagccaagagtggagtg Alignment from Exonerate_protein2genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGAT---ATCACTCTG gctaatgtggcttccaatatgaagaaccatgagtctttttgttccttcagTGCCGTGAGCACTTTTGTAAGAGCTCTAGATTGCAACCAGCTCCATTTCTATTCAGAAGTCCAGCTTGCATATGATGCAGCTACCACAGATATTATCACTCTGgtgagtaccaagtcacaaatatttttgtatgataagccaagagtggagtg Alignment from Exonerate_coding2genome gctaatgtggcttccaatatgaagaaccatgagtctttttgttccttcagtgccgtgagcacttttgtaagagctctagattgcaaccagctccatttctattcagaagtccagcttgcatatgatgcagctaccacagatattatcactctggtgagtaccaagtcacaaatatttttgtatgataagccaagagtggagtg Alignment from GeneWise AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATC---ACTCTG gctaatgtggcttccaatatgaagaaccatgagtctttttgttccttcagTGCCGTGAGCACTTTTGTAAGAGCTCTAGATTGCAACCAGCTCCATTTCTATTCAGAAGTCCAGCTTGCATATGATGCAGCTACCACAGATATTATCACTCTGgtgagtaccaagtcacaaatatttttgtatgataagccaagagtggagtg #### Mta2_ID2536_9 --> 0 - 0 Original Alignment TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCT-ATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT agggtaaaaagaccatcaaaaccctcaggattggtgtgctctgttttcagTTTCATGCTATGGATACCTTGCAAAAGAATGGATATGACCTAGCCAAGGCTCATGTCAACTCTAGTACCACAGGGAGGTCCAGTTCTTTGTC-AGATGAGATGGGAGAATGGTCCGCTTCCGAAGCCATGCTGGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTCAATGACATCCGCCAAGACTTTgtgagcgatcaagaccaaggagtgaaagaacaatgatgatactgaaaaga Alignment from CESAR TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCT-ATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT agggtaaaaagaccatcaaaaccctcaggattggtgtgctctgttttcagTTTCATGCTATGGATACCTTGCAAAAGAATGGATATGACCTAGCCAAGGCTCATGTCAACTCTAGTACCACAGGGAGGTCCAGTTCTTTGTC-AGATGAGATGGGAGAATGGTCCGCTTCCGAAGCCATGCTGGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTCAATGACATCCGCCAAGACTTTgtgagcgatcaagaccaaggagtgaaagaacaatgatgatactgaaaaga Alignment from Spaln_aa2Genome TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCT-ATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT agggtaaaaagaccatcaaaaccctcaggattggtgtgctctgttttcagTTTCATGCTATGGATACCTTGCAAAAGAATGGATATGACCTAGCCAAGGCTcATGTCAACTCTAGTACCACAGGGAGGTCCAGTTCTTTGTCA-GATGAGATGGGAGAATGGTCCGCTTCCGAAGCCATGCTGGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTCAATGACATCCGCCAAGACTTTgtgagcgatcaagaccaaggagtgaaagaacaatgatgatactgaaaaga Alignment from Spaln_nt2Genome TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCT-ATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT agggtaaaaagaccatcaaaaccctcaggattggtgtgctctgttttcagTTTCATGCTATGGATACCTTGCAAAAGAATGGATATGACCTAGCCAAGGCTCATGTCAACTCTAGTACCACAGGGAGGTCCAGTTCTTTGTC-AGATGAGATGGGAGAATGGTCCGCTTCCGAAGCCATGCTGGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTCAATGACATCCGCCAAGACTTTgtgagcgatcaagaccaaggagtgaaagaacaatgatgatactgaaaaga Alignment from Pairagon TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCT-ATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT agggtaaaaagaccatcaaaaccctcaggattggtgtgctctgttttcagTTTCATGCTATGGATACCTTGCAAAAGAATGGATATGACCTAGCCAAGGCTCATGTCAACTCTAGTACCACAGGGAGGTCCAGTTCTTTGTC-AGATGAGATGGGAGAATGGTCCGCTTCCGAAGCCATGCTGGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTCAATGACATCCGCCAAGACTTTgtgagcgatcaagaccaaggagtgaaagaacaatgatgatactgaaaaga Alignment from Exonerate_protein2genome TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCT-ATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGT--CGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT agggtaaaaagaccatcaaaaccctcaggattggtgtgctctgttttcagTTTCATGCTATGGATACCTTGCAAAAGAATGGATATGACCTAGCCAAGGCTCATGTCAACTCTAGTACCACAGGGAGGTCCAGTTCTTTGTCA---GATGAGATGGGAGAATGGTCCGCTTCCGAAGCCATGCTGGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTCAATGACATCCGCCAAGACTTTgtgagcgatcaagaccaaggagtgaaagaacaatgatgatactgaaaaga Alignment from Exonerate_coding2genome TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCT-ATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGT--CGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT agggtaaaaagaccatcaaaaccctcaggattggtgtgctctgttttcagTTTCATGCTATGGATACCTTGCAAAAGAATGGATATGACCTAGCCAAGGCTCATGTCAACTCTAGTACCACAGGGAGGTCCAGTTCTTTGTCA---GATGAGATGGGAGAATGGTCCGCTTCCGAAGCCATGCTGGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTCAATGACATCCGCCAAGACTTTgtgagcgatcaagaccaaggagtgaaagaacaatgatgatactgaaaaga Alignment from GeneWise TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT agggtaaaaagaccatcaaaaccctcaggattggtgtgctctgttttcagTTTCATGCTATGGATACCTTGCAAAAGAATGGATATGACCTAGCCAAGGCTCATGTCAACTCTAGTACCACAGGGAGGTCCAGTTCTTTGTCAGATGAGATGGGAGAATGGTCCGCTTCCGAAGCCATGCTGGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTCAATGACATCCGCCAAGACTTTgtgagcgatcaagaccaaggagtgaaagaacaatgatgatactgaaaaga #### Mta2_ID2542_15 --> 2 - 1 Original Alignment gcTCGATCCGACTTCCTAAGGCTGCC-AAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGg tgctggtaaccctggagattcttctctcctccactttggatcactggcaggcTCAATCCGACTTCCTAAGTCTGCCCAAGACTCCACTGAAAATTCACCCTCTTGTGC-GCTGCCCTTGGCAACTATCATCAAAGATCTGggtgcagaggatgacattttcaagccaggtcagatcttctaactgtttagt Alignment from CESAR gcTCGATCCGACTTCCTAAGGCTGCC-AAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGg tgctggtaaccctggagattcttctctcctccactttggatcactggcaggcTCAATCCGACTTCCTAAGTCTGCCCAAGACTCCACTGAAAATTCACCCTCTTGTGC-GCTGCCCTTGGCAACTATCATCAAAGATCTGggtgcagaggatgacattttcaagccaggtcagatcttcttgcctcctgcc Alignment from Spaln_aa2Genome GCTCGATCCGACTTCCTAAGGCTGCC-AAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG tgctggtaaccctggagattcttctctcctccactttggatcactggcagGCTCAATCCGACTTCCTAAGTCTGCCcAAGACTCCACTGAAAATTCACCCTCTTGTGCGCTGCCC-TTGGCAACTATCATCAAAGATCTGGgtgcagaggatgacattttcaagccaggtcagatcttctaactgtttagt Alignment from Spaln_nt2Genome GCTCGATCCGACTTCCTAAGGCTGCC-AAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG tgctggtaaccctggagattcttctctcctccactttggatcactggcagGCTCAATCCGACTTCCTAAGTCTGCCCAAGACTCCACTGAAAATTCACCCTCTTGTGC-GCTGCCCTTGGCAACTATCATCAAAGATCTGGgtgcagaggatgacattttcaagccaggtcagatcttctaactgtttagt Alignment from Pairagon GCTCGATCCGACTTCCTAAGGCTG-CCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG tgctggtaaccctggagattcttctctcctccactttggatcactggcagGCTCAATCCGACTTCCTAAGTCTGCCCAAGACTCCACTGAAAATTCACCCTCTTGTGC-GCTGCCCTTGGCAACTATCATCAAAGATCTGGgtgcagaggatgacattttcaagccaggtcagatcttctaactgtttagt Alignment from Exonerate_protein2genome GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG tgctggtaaccctggagattcttctctcctccactttggatcactggcagGCTCAATCCGACTTCCTAAGTCTGCCCAAGACTCCACTGAAAATTCACCCTCTTGTGCGCTGCCCTTGGCAACTATCATCAAAGATCTGGgtgcagaggatgacattttcaagccaggtcagatcttctaactgtttagt Alignment from Exonerate_coding2genome GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG tgctggtaaccctggagattcttctctcctccactttggatcactggcagGCTCAATCCGACTTCCTAAGTCTGCCCAAGACTCCACTGAAAATTCACCCTCTTGTGCGCTGCCCTTGGCAACTATCATCAAAGATCTGGgtgcagaggatgacattttcaagccaggtcagatcttctaactgtttagt Alignment from GeneWise GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG tgctggtaaccctggagattcttctctcctccactttggatcactggcagGCTCAATCCGACTTCCTAAGTCTGCCCAAGACTCCACTGAAAATTCACCCTCTTGTGCGCTGCCCTTGGCAACTATCATCAAAGATCTGGgtgcagaggatgacattttcaagccaggtcagatcttctaactgtttagt #### Mta2_ID2543_16 --> 2 - 0 Original Alignment tgGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAG-CTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gacattttcaagccaggtcagatcttcttgcctcctgccttaccacacagttGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACCTGACCCAGAATCGAGGCCTGGGGGGAA-TATGGTGAAACGTTCATATGAGACAgtgagatgaccagaataaaagcatactagggtaattattttactttttta Alignment from CESAR tgGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAG-CTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gacattttcaagccaggtcagatcttcttgcctcctgccttaccacacagttGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACCTGACCCAGAATCGAGGCCTGGGGGGAA-TATGGTGAAACGTTCATATGAGACAgtgagatgaccagaataaaagcatactagggtaattattttactttttta Alignment from Spaln_aa2Genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gacattttcaagccaggtcagatcttcttgcctcctgccttaccacacagTTGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACCTGACCCAGAATCGAGGCCTGGGGGGAATATGGTGAAACGTTCATATGAGACAgtgagatgaccagaataaaagcatactagggtaattattttactttttta Alignment from Spaln_nt2Genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAG-CTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gacattttcaagccaggtcagatcttcttgcctcctgccttaccacacagTTGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACCTGACCCAGAATCGAGGCCTGGGGGGAA-TATGGTGAAACGTTCATATGAGACAgtgagatgaccagaataaaagcatactagggtaattattttactttttta Alignment from Pairagon TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAG-CTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gacattttcaagccaggtcagatcttcttgcctcctgccttaccacacagTTGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACCTGACCCAGAATCGAGGCCTGGGGGGAA-TATGGTGAAACGTTCATATGAGACAgtgagatgaccagaataaaagcatactagggtaattattttactttttta Alignment from Exonerate_protein2genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gacattttcaagccaggtcagatcttcttgcctcctgccttaccacacagTTGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACCTGACCCAGAATCGAGGCCTGGGGGGAATATGGTGAAACGTTCATATGAGACAgtgagatgaccagaataaaagcatactagggtaattattttactttttta Alignment from Exonerate_coding2genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gacattttcaagccaggtcagatcttcttgcctcctgccttaccacacagTTGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACCTGACCCAGAATCGAGGCCTGGGGGGAATATGGTGAAACGTTCATATGAGACAgtgagatgaccagaataaaagcatactagggtaattattttactttttta Alignment from GeneWise TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gacattttcaagccaggtcagatcttcttgcctcctgccttaccacacagTTGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACCTGACCCAGAATCGAGGCCTGGGGGGAATATGGTGAAACGTTCATATGAGACAgtgagatgaccagaataaaagcatactagggtaattattttactttttta #### Mta2_ID2544_17 --> 0 - 2 Original Alignment ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCA-AGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCag tgaattatcgaccacaatcagggatggctttaatgatttttattttgtagATGGCAGGTGCGGGGGTCCCCTTCTCTGTGAATGGGAGGCCCCTGGCTTCAGGGATTCGTTCACAGTTCCCAGCCGGCAGCCAAGCGTCAGAAATTAAACCCTG-CGAGGCTCCCAATCCAGTGGTATTTGTAGCCACGAAGGACACCaggtgagtaatgagtcaaccaagggaggctggtaacatcaatgtatgtagaa Alignment from CESAR ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCA-AGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCag tgaattatcgaccacaatcagggatggctttaatgatttttattttgtagATGGCAGGTGCGGGGGTCCCCTTCTCTGTGAATGGGAGGCCCCTGGCTTCAGGGATTCGTTCACAGTTCCCAGCCGGCAGCCAAGCGTCAGAAATTAAACCCTG-CGAGGCTCCCAATCCAGTGGTATTTGTAGCCACGAAGGACACCaggtgagtaatgagtcaaccaagggaggctggtaacatcaatgtatgtagaa Alignment from Spaln_aa2Genome ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCA-AGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG tgaattatcgaccacaatcagggatggctttaatgatttttattttgtagATGGCAGGTGCGGGGGTCCCCTTCTCTGTGAATGGGAGGCCCCTGGCTTCAGGGATTCGTTCAcAGTTCCCAGCCGGCAGCCAAGCGTCAGAAATTAAACCCTGC-GAGGCTCCCAATCCAGTGGTATTTGTAGCCACGAAGGACACCAGgtgagtaatgagtcaaccaagggaggctggtaacatcaatgtatgtagaa Alignment from Spaln_nt2Genome ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCA-AGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG tgaattatcgaccacaatcagggatggctttaatgatttttattttgtagATGGCAGGTGCGGGGGTCCCCTTCTCTGTGAATGGGAGGCCCCTGGCTTCAGGGATTCGTTCACAGTTCCCAGCCGGCAGCCAAGCGTCAGAAATTAAACCCTGC-GAGGCTCCCAATCCAGTGGTATTTGTAGCCACGAAGGACACCAGgtgagtaatgagtcaaccaagggaggctggtaacatcaatgtatgtagaa Alignment from Pairagon ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCA-AGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG tgaattatcgaccacaatcagggatggctttaatgatttttattttgtagATGGCAGGTGCGGGGGTCCCCTTCTCTGTGAATGGGAGGCCCCTGGCTTCAGGGATTCGTTCACAGTTCCCAGCCGGCAGCCAAGCGTCAGAAATTAAACCCTGC-GAGGCTCCCAATCCAGTGGTATTTGTAGCCACGAAGGACACCAGgtgagtaatgagtcaaccaagggaggctggtaacatcaatgtatgtagaa Alignment from Exonerate_protein2genome ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG tgaattatcgaccacaatcagggatggctttaatgatttttattttgtagATGGCAGGTGCGGGGGTCCCCTTCTCTGTGAATGGGAGGCCCCTGGCTTCAGGGATTCGTTCACAGTTCCCAGCCGGCAGCCAAGCGTCAGAAATTAAACCCTGCGAGGCTCCCAATCCAGTGGTATTTGTAGCCACGAAGGACACCAGgtgagtaatgagtcaaccaagggaggctggtaacatcaatgtatgtagaa Alignment from Exonerate_coding2genome ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG tgaattatcgaccacaatcagggatggctttaatgatttttattttgtagATGGCAGGTGCGGGGGTCCCCTTCTCTGTGAATGGGAGGCCCCTGGCTTCAGGGATTCGTTCACAGTTCCCAGCCGGCAGCCAAGCGTCAGAAATTAAACCCTGCGAGGCTCCCAATCCAGTGGTATTTGTAGCCACGAAGGACACCAGgtgagtaatgagtcaaccaagggaggctggtaacatcaatgtatgtagaa Alignment from GeneWise ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG tgaattatcgaccacaatcagggatggctttaatgatttttattttgtagATGGCAGGTGCGGGGGTCCCCTTCTCTGTGAATGGGAGGCCCCTGGCTTCAGGGATTCGTTCACAGTTCCCAGCCGGCAGCCAAGCGTCAGAAATTAAACCCTGCGAGGCTCCCAATCCAGTGGTATTTGTAGCCACGAAGGACACCAGgtgagtaatgagtcaaccaagggaggctggtaacatcaatgtatgtagaa #### Myof_ID7468_34 --> 0 - 0 Original Alignment GATGGCTCCAACCTTCCCATCCTCCCCTCT-CAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG tgtgtcttaatgagagggaagacttatttttgtgccgcttttctgatcagGACGGATCCAATCTTCCCATCCTTCCATCTCCAGAGAGCACCCAACCTATACATGGTCCCACAGGGGATCAGAC-TGTGGTACCACTCACTGCCATTGAAgtaaaaatttgataaccctccttaagctgtgcaaatgcagggcatatgtc Alignment from CESAR GATGGCTCCAACCTTCCCATCCTCCCCTCT-CAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG tgtgtcttaatgagagggaagacttatttttgtgccgcttttctgatcagGACGGATCCAATCTTCCCATCCTTCCATCTCCAGAGAGCACCCAACCTATACATGGTCCCACAGGGGATCAGA-CTGTGGTACCACTCACTGCCATTGAAgtaaaaatttgataaccctccttaagctgtgcaaatgcagggcatatgtc Alignment from Spaln_aa2Genome GATGGCTCCAACCTTCCCATCCTCCCCTCT-CAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG tgtgtcttaatgagagggaagacttatttttgtgccgcttttctgatcagGACGGATCCAATCTTCCCATCCTTCCATCTcCAGAGAGCACCCAACCTATACATGGTCCCACAGGGGATCAGACT-GTGGTACCACTCACTGCCATTGAAgtaaaaatttgataaccctccttaagctgtgcaaatgcagggcatatgtc Alignment from Spaln_nt2Genome GATGGCTCCAACCTTCCCATCCTCCCCTCTCAA-AGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG tgtgtcttaatgagagggaagacttatttttgtgccgcttttctgatcagGACGGATCCAATCTTCCCATCCTTCCATCTCCAGAGAGCACCCAACCTATACATGGTCCCACAGGGGATCAGAC-TGTGGTACCACTCACTGCCATTGAAgtaaaaatttgataaccctccttaagctgtgcaaatgcagggcatatgtc Alignment from Pairagon GATGGCTCCAACCTTCCCATCCTCCCCTCT-CAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG tgtgtcttaatgagagggaagacttatttttgtgccgcttttctgatcagGACGGATCCAATCTTCCCATCCTTCCATCTCCAGAGAGCACCCAACCTATACATGGTCCCACAGGGGATCAGA-CTGTGGTACCACTCACTGCCATTGAAgtaaaaatttgataaccctccttaagctgtgcaaatgcagggcatatgtc Alignment from Exonerate_protein2genome GATGGCTCCAACCTTCCCATCCTCCCCTCT-CAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGA tgtgtcttaatgagagggaagacttatttttgtgccgcttttctgatcagGACGGATCCAATCTTCCCATCCTTCCATCTCCAGAGAGCACCCAACCTATACATGGTCCCACAGGGGATCAGACTGTGGTACCACTCACTGCCATTGAAgtaaaaatttgataaccctccttaagctgtgcaaatgcagggcatatgtc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GATGGCTCCAACCTTCCCATCCTCCCCTCTCAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG tgtgtcttaatgagagggaagacttatttttgtgccgcttttctgatcagGACGGATCCAATCTTCCCATCCTTCCATCTCCAGAGAGCACCCAACCTATACATGGTCCCACAGGGGATCAGACTGTGGTACCACTCACTGCCATTGAAgtaaaaatttgataaccctccttaagctgtgcaaatgcagggcatatgtc #### Myof_ID7469_33 --> 0 - 0 Original Alignment GGCAAAGATGAATTTTTAGGTCGAAGC-ATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG cataaagtttttgctggaacaatgggtgaacagtgctcttgctcccctagGGTAAAGATGAATTTTTAGGTCAGAGCCATTTGCTCCCCCCTGGTGAAACTGAACTCCCAAACAG-TGTTACACCTAAACCTCTCTGGCATCCTGTTATGAATGGGGACAAAGCTTGTGCAGATGTCCTTATCACAGCAGAGTTGATTTTGAGGAACAAGgtgagtcctattctgatttgcacatttctcagtgaagtaatgagatacat Alignment from CESAR GGCAAAGATGAATTTTTAGGTCGAAGC-ATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG cataaagtttttgctggaacaatgggtgaacagtgctcttgctcccctagGGTAAAGATGAATTTTTAGGTCAGAGCCATTTGCTCCCCCCTGGTGAAACTGAACTCCCAAACA-GTGTTACACCTAAACCTCTCTGGCATCCTGTTATGAATGGGGACAAAGCTTGTGCAGATGTCCTTATCACAGCAGAGTTGATTTTGAGGAACAAGgtgagtcctattctgatttgcacatttctcagtgaagtaatgagatacat Alignment from Spaln_aa2Genome GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG cataaagtttttgctggaacaatgggtgaacagtgctcttgctcccctagGGTAAAGATGAATTTTTAGGTCAGAGCCATTTGCTCCCCCCTGGTGAAACTGAACTCCCAAACAGTGTTACACCTAAACCTCTCTGGCATCCTGTTATGAATGGGGACAAAGCTTGTGCAGATGTCCTTATCACAGCAGAGTTGATTTTGAGGAACAAGgtgagtcctattctgatttgcacatttctcagtgaagtaatgagatacat Alignment from Spaln_nt2Genome GGCAAAGATGAATTTTTAGGTC-GAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG cataaagtttttgctggaacaatgggtgaacagtgctcttgctcccctagGGTAAAGATGAATTTTTAGGTCAGAGCCATTTGCTCCCCCCTGGTGAAACTGAACTCCCAAACAG-TGTTACACCTAAACCTCTCTGGCATCCTGTTATGAATGGGGACAAAGCTTGTGCAGATGTCCTTATCACAGCAGAGTTGATTTTGAGGAACAAGgtgagtcctattctgatttgcacatttctcagtgaagtaatgagatacat Alignment from Pairagon GGCAAAGATGAATTTTTAGGTCGAAG-CATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG cataaagtttttgctggaacaatgggtgaacagtgctcttgctcccctagGGTAAAGATGAATTTTTAGGTCAGAGCCATTTGCTCCCCCCTGGTGAAACTGAACTCCCAAACAG-TGTTACACCTAAACCTCTCTGGCATCCTGTTATGAATGGGGACAAAGCTTGTGCAGATGTCCTTATCACAGCAGAGTTGATTTTGAGGAACAAGgtgagtcctattctgatttgcacatttctcagtgaagtaatgagatacat Alignment from Exonerate_protein2genome GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG cataaagtttttgctggaacaatgggtgaacagtgctcttgctcccctagGGTAAAGATGAATTTTTAGGTCAGAGCCATTTGCTCCCCCCTGGTGAAACTGAACTCCCAAACAGTGTTACACCTAAACCTCTCTGGCATCCTGTTATGAATGGGGACAAAGCTTGTGCAGATGTCCTTATCACAGCAGAGTTGATTTTGAGGAACAAGgtgagtcctattctgatttgcacatttctcagtgaagtaatgagatacat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG cataaagtttttgctggaacaatgggtgaacagtgctcttgctcccctagGGTAAAGATGAATTTTTAGGTCAGAGCCATTTGCTCCCCCCTGGTGAAACTGAACTCCCAAACAGTGTTACACCTAAACCTCTCTGGCATCCTGTTATGAATGGGGACAAAGCTTGTGCAGATGTCCTTATCACAGCAGAGTTGATTTTGAGGAACAAGgtgagtcctattctgatttgcacatttctcagtgaagtaatgagatacat #### Myrf_ID2720_17 --> 0 - 2 Original Alignment TCATCGCCAGCGGTCCCAGACCAGGCCTGC-ATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCag atgggcatcttgactctatatagtgcgactatgccatccctgtgtttcagTCATCATCCGCAGTCCCAGACCAAGCCTGCCATCAGTCAGCATTTTCTGCAGGGAACTATCATAGCTC-TGTAGTAGTGATGGCCTTCaggtgagtccctttaccaagttgagtcccttaaaacgccatacaattgtgta Alignment from CESAR TCATCGCCAGCGGTCCCAGACCAGGCCTGC-ATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCag atgggcatcttgactctatatagtgcgactatgccatccctgtgtttcagTCATCATCCGCAGTCCCAGACCAAGCCTGCCATCAGTCAGCATTTTCTGCAGGGAACTATCATAGCTC-TGTAGTAGTGATGGCCTTCaggtgagtccctttaccaagttgagtcccttaaaacgccatacaattgtgta Alignment from Spaln_aa2Genome TCATCGCCAGCGGTCCCAGACCAGGCCTGC-ATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAG atgggcatcttgactctatatagtgcgactatgccatccctgtgtttcagTCATCATCCGCAGTCCCAGACCAAGCCTGCcATCAGTCAGCATTTTCTGCAGGGAACTATCATAGCTCTGTA-GTAGTGATGGCCTTCAGgtgagtccctttaccaagttgagtcccttaaaacgccatacaattgtgta Alignment from Spaln_nt2Genome TCATCGCCAGCGGTCCCAGACCAGGCCTGC-ATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAG atgggcatcttgactctatatagtgcgactatgccatccctgtgtttcagTCATCATCCGCAGTCCCAGACCAAGCCTGCCATCAGTCAGCATTTTCTGCAGGGAACTATCATAGCTCT-GTAGTAGTGATGGCCTTCAGgtgagtccctttaccaagttgagtcccttaaaacgccatacaattgtgta Alignment from Pairagon TCATCGCCAGCGGTCCCAGACCAGGCCTG-CATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAG atgggcatcttgactctatatagtgcgactatgccatccctgtgtttcagTCATCATCCGCAGTCCCAGACCAAGCCTGCCATCAGTCAGCATTTTCTGCAGGGAACTATCATAGCTCT-GTAGTAGTGATGGCCTTCAGgtgagtccctttaccaagttgagtcccttaaaacgccatacaattgtgta Alignment from Exonerate_protein2genome TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAG atgggcatcttgactctatatagtgcgactatgccatccctgtgtttcagTCATCATCCGCAGTCCCAGACCAAGCCTGCCATCAGTCAGCATTTTCTGCAGGGAACTATCATAGCTCTGTAGTAGTGATGGCCTTCAGgtgagtccctttaccaagttgagtcccttaaaacgccatacaattgtgta Alignment from Exonerate_coding2genome TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAG atgggcatcttgactctatatagtgcgactatgccatccctgtgtttcagTCATCATCCGCAGTCCCAGACCAAGCCTGCCATCAGTCAGCATTTTCTGCAGGGAACTATCATAGCTCTGTAGTAGTGATGGCCTTCAGgtgagtccctttaccaagttgagtcccttaaaacgccatacaattgtgta Alignment from GeneWise TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAG atgggcatcttgactctatatagtgcgactatgccatccctgtgtttcagTCATCATCCGCAGTCCCAGACCAAGCCTGCCATCAGTCAGCATTTTCTGCAGGGAACTATCATAGCTCTGTAGTAGTGATGGCCTTCAGgtgagtccctttaccaagttgagtcccttaaaacgccatacaattgtgta #### Myrf_ID2723_14 --> 2 - 0 Original Alignment gtGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAG-GACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcttggcaaggtagagtcctggttccaaacatgtctttatttgcttgcaggtGTCATTGCCCGGGAAGTGAAGGTGATTCTGCCTGAAGCCGTGGAGCGACACAGGGGACGTTGTTTTTGCAAATGGAAAAAGCATAAAGA-CTTCCTTGTAGTGAACAAAgtaccatataggatctgtctgatgcaacttgagcatgaaatctagctgtc Alignment from CESAR gtGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAG-GACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcttggcaaggtagagtcctggttccaaacatgtctttatttgcttgcaggtGTCATTGCCCGGGAAGTGAAGGTGATTCTGCCTGAAGCCGTGGAGCGACACAGGGGACGTTGTTTTTGCAAATGGAAAAAGCATA-AAGACTTCCTTGTAGTGAACAAAgtaccatataggatctgtctgatgcaacttgagcatgaaatctagctgtc Alignment from Spaln_aa2Genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAG-GACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcttggcaaggtagagtcctggttccaaacatgtctttatttgcttgcagGTGTCATTGCCCGGGAAGTGAAGGTGATTCTGCCTGAAGCCGTGGAGcGACACAGGGGACGTTGTTTTTGCAAATGGAAAAAGCATAAA-GACTTCCTTGTAGTGAACAAAgtaccatataggatctgtctgatgcaacttgagcatgaaatctagctgtc Alignment from Spaln_nt2Genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAG-GACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcttggcaaggtagagtcctggttccaaacatgtctttatttgcttgcagGTGTCATTGCCCGGGAAGTGAAGGTGATTCTGCCTGAAGCCGTGGAGCGACACAGGGGACGTTGTTTTTGCAAATGGAAAAAGCATAAAG-ACTTCCTTGTAGTGAACAAAgtaccatataggatctgtctgatgcaacttgagcatgaaatctagctgtc Alignment from Pairagon GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAG-GACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcttggcaaggtagagtcctggttccaaacatgtctttatttgcttgcagGTGTCATTGCCCGGGAAGTGAAGGTGATTCTGCCTGAAGCCGTGGAGCGACACAGGGGACGTTGTTTTTGCAAATGGAAAAAGCATAAAG-ACTTCCTTGTAGTGAACAAAgtaccatataggatctgtctgatgcaacttgagcatgaaatctagctgtc Alignment from Exonerate_protein2genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcttggcaaggtagagtcctggttccaaacatgtctttatttgcttgcagGTGTCATTGCCCGGGAAGTGAAGGTGATTCTGCCTGAAGCCGTGGAGCGACACAGGGGACGTTGTTTTTGCAAATGGAAAAAGCATAAAGACTTCCTTGTAGTGAACAAAgtaccatataggatctgtctgatgcaacttgagcatgaaatctagctgtc Alignment from Exonerate_coding2genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcttggcaaggtagagtcctggttccaaacatgtctttatttgcttgcagGTGTCATTGCCCGGGAAGTGAAGGTGATTCTGCCTGAAGCCGTGGAGCGACACAGGGGACGTTGTTTTTGCAAATGGAAAAAGCATAAAGACTTCCTTGTAGTGAACAAAgtaccatataggatctgtctgatgcaacttgagcatgaaatctagctgtc Alignment from GeneWise GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcttggcaaggtagagtcctggttccaaacatgtctttatttgcttgcagGTGTCATTGCCCGGGAAGTGAAGGTGATTCTGCCTGAAGCCGTGGAGCGACACAGGGGACGTTGTTTTTGCAAATGGAAAAAGCATAAAGACTTCCTTGTAGTGAACAAAgtaccatataggatctgtctgatgcaacttgagcatgaaatctagctgtc #### Myrf_ID2724_13 --> 0 - 1 Original Alignment GTGGACACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTG-CACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAg cctgaggtcactgtgcccacagactaatccctcccccacttctgctttagGTTGATACCACTGAACACCTAAAGAGGATCTCACGGACACGTCTAGTGCCACTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCA-TGAAGCCACTGCGCCAGAGACAggtgagtatgcgtgtctgaagggttcctaactatgcctggcttctcctaac Alignment from CESAR GTGGACACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTG-CACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAg cctgaggtcactgtgcccacagactaatccctcccccacttctgctttagGTTGATACCACTGAACACCTAAAGAGGATCTCACGGACACGTCTAGTGCCACTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCA-TGAAGCCACTGCGCCAGAGACAggtgagtatgcgtgtctgaagggttcctaactatgcctggcttctcctaac Alignment from Spaln_aa2Genome GTGGACACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTG-CACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG cctgaggtcactgtgcccacagactaatccctcccccacttctgctttagGTTGATACCACTGAACACCTAAAGAGGATCTCACGGACACGTCTAGTGcCACTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCAT-GAAGCCACTGCGCCAGAGACAGgtgagtatgcgtgtctgaagggttcctaactatgcctggcttctcctaac Alignment from Spaln_nt2Genome GTGGACACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGC-ACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG cctgaggtcactgtgcccacagactaatccctcccccacttctgctttagGTTGATACCACTGAACACCTAAAGAGGATCTCACGGACACGTCTAGTGCCACTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCA-TGAAGCCACTGCGCCAGAGACAGgtgagtatgcgtgtctgaagggttcctaactatgcctggcttctcctaac Alignment from Pairagon GTGGACACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTG-CACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG cctgaggtcactgtgcccacagactaatccctcccccacttctgctttagGTTGATACCACTGAACACCTAAAGAGGATCTCACGGACACGTCTAGTGCCACTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCA-TGAAGCCACTGCGCCAGAGACAGgtgagtatgcgtgtctgaagggttcctaactatgcctggcttctcctaac Alignment from Exonerate_protein2genome GTGGACACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTG-CACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGC--ATTGAAGCCACCGCACCGGAGACAG cctgaggtcactgtgcccacagactaatccctcccccacttctgctttagGTTGATACCACTGAACACCTAAAGAGGATCTCACGGACACGTCTAGTGCCACTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCAT---GAAGCCACTGCGCCAGAGACAGgtgagtatgcgtgtctgaagggttcctaactatgcctggcttctcctaac Alignment from Exonerate_coding2genome GTGGACACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTG-CACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGC--ATTGAAGCCACCGCACCGGAGACAG cctgaggtcactgtgcccacagactaatccctcccccacttctgctttagGTTGATACCACTGAACACCTAAAGAGGATCTCACGGACACGTCTAGTGCCACTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCAT---GAAGCCACTGCGCCAGAGACAGgtgagtatgcgtgtctgaagggttcctaactatgcctggcttctcctaac Alignment from GeneWise GTGGACACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG cctgaggtcactgtgcccacagactaatccctcccccacttctgctttagGTTGATACCACTGAACACCTAAAGAGGATCTCACGGACACGTCTAGTGCCACTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCATGAAGCCACTGCGCCAGAGACAGgtgagtatgcgtgtctgaagggttcctaactatgcctggcttctcctaac #### Myrf_ID2726_11 --> 1 - 0 Original Alignment gTATTTCATGCTGGTGGTGGCC-CTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG atgggacaatgggtacaggtatccctgatgactgtgaattttgttttcaggTATTTCATGCTGGTGGTTGCCCCTCCAGGCACATGCACAGAACCAAAACTACA-CCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtaccaactacaactacaccctagcagcccagatttcaaagcatatcatt Alignment from CESAR gTATTTCATGCTGGTGGTGGCC-CTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG atgggacaatgggtacaggtatccctgatgactgtgaattttgttttcaggTATTTCATGCTGGTGGTTGCCCCTCCAGGCACATGCACAGAACCAAAACTACA-CCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtaccaactacaactacaccctagcagcccagatttcaaagcatatcatt Alignment from Spaln_aa2Genome GTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG atgggacaatgggtacaggtatccctgatgactgtgaattttgttttcagGTATTTCATGCTGGTGGTTGCCCCTCCAGGCACATGCACAGAACCAAAACTACACCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtaccaactacaactacaccctagcagcccagatttcaaagcatatcatt Alignment from Spaln_nt2Genome GTATTTCATGCTGGTGG-TGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG atgggacaatgggtacaggtatccctgatgactgtgaattttgttttcagGTATTTCATGCTGGTGGTTGCCCCTCCAGGCACATGCACAGAACCAAAACTACAC-CTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtaccaactacaactacaccctagcagcccagatttcaaagcatatcatt Alignment from Pairagon GTATTTCATGCTGGTGG-TGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG atgggacaatgggtacaggtatccctgatgactgtgaattttgttttcagGTATTTCATGCTGGTGGTTGCCCCTCCAGGCACATGCACAGAACCAAAACTACAC-CTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtaccaactacaactacaccctagcagcccagatttcaaagcatatcatt Alignment from Exonerate_protein2genome GTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG atgggacaatgggtacaggtatccctgatgactgtgaattttgttttcagGTATTTCATGCTGGTGGTTGCCCCTCCAGGCACATGCACAGAACCAAAACTACACCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtaccaactacaactacaccctagcagcccagatttcaaagcatatcatt Alignment from Exonerate_coding2genome GTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG atgggacaatgggtacaggtatccctgatgactgtgaattttgttttcagGTATTTCATGCTGGTGGTTGCCCCTCCAGGCACATGCACAGAACCAAAACTACACCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtaccaactacaactacaccctagcagcccagatttcaaagcatatcatt Alignment from GeneWise GTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG atgggacaatgggtacaggtatccctgatgactgtgaattttgttttcagGTATTTCATGCTGGTGGTTGCCCCTCCAGGCACATGCACAGAACCAAAACTACACCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtaccaactacaactacaccctagcagcccagatttcaaagcatatcatt #### Myrf_ID2732_6 --> 1 - 1 Original Alignment aCTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCC-CCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAg gagggtggaccaatatttcctgcaatctgcagcgatgtatcttttttcagaCTACCACCACACCCCTCCAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTCACAACCTTACCACTGCACCCTGCCAGAGTCCCCTTCACCTCCATGGTTACCTCAAGGCCCACTTT-ACCTGGCACTGGATCTTTGCCCCTCAGTATTGCCCGGGCTCAAACTCCACCCTGGCACCCACCAGGTGCACCCTCCCCTggtaggggagaccaaagtagactggatgaccatgcagatttagtttcctcc Alignment from CESAR aCTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGA-GCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAg gagggtggaccaatatttcctgcaatctgcagcgatgtatcttttttcagaCTACCACCACACCCCTCCAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTCACAACCTTACCACTGCACCCTGCCAGAGTCCCCTTCACCTCCATGGTTACCTCAAGGCCCACTT-TACCTGGCACTGGATCTTTGCCCCTCAGTATTGCCCGGGCTCAAACTCCACCCTGGCACCCACCAGGTGCACCCTCCCCTggtaggggagaccaaagtagactggatgaccatgcagatttagttctctgc Alignment from Spaln_aa2Genome ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG gagggtggaccaatatttcctgcaatctgcagcgatgtatcttttttcagACTACCACCACACCCCTCCAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTCACAACCTTACCACTGCACCCTGCCAGAGTCCCCTTCACCTCCATGGTTACCTCAAGGCCCACTTTACCTGGCACTGGATCTTTGCCCCTCAGTATTGCCCGGGCTCAAACTCCACCCTGGCACCCACCAGGTGCACCCTCCCCTGgtaggggagaccaaagtagactggatgaccatgcagatttagtttcctcc Alignment from Spaln_nt2Genome ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAG-CCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG gagggtggaccaatatttcctgcaatctgcagcgatgtatcttttttcagACTACCACCACACCCCTCCAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTCACAACCTTACCACTGCACCCTGCCAGAGTCCCCTTCACCTCCATGGTTACCTCAAGGCCCACT-TTACCTGGCACTGGATCTTTGCCCCTCAGTATTGCCCGGGCTCAAACTCCACCCTGGCACCCACCAGGTGCACCCTCCCCTGgtaggggagaccaaagtagactggatgaccatgcagatttagtttcctcc Alignment from Pairagon ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAG-CCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG gagggtggaccaatatttcctgcaatctgcagcgatgtatcttttttcagACTACCACCACACCCCTCCAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTCACAACCTTACCACTGCACCCTGCCAGAGTCCCCTTCACCTCCATGGTTACCTCAAGGCCCACT-TTACCTGGCACTGGATCTTTGCCCCTCAGTATTGCCCGGGCTCAAACTCCACCCTGGCACCCACCAGGTGCACCCTCCCCTGgtaggggagaccaaagtagactggatgaccatgcagatttagtttcctcc Alignment from Exonerate_protein2genome ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG gagggtggaccaatatttcctgcaatctgcagcgatgtatcttttttcagACTACCACCACACCCCTCCAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTCACAACCTTACCACTGCACCCTGCCAGAGTCCCCTTCACCTCCATGGTTACCTCAAGGCCCACTTTACCTGGCACTGGATCTTTGCCCCTCAGTATTGCCCGGGCTCAAACTCCACCCTGGCACCCACCAGGTGCACCCTCCCCTGgtaggggagaccaaagtagactggatgaccatgcagatttagtttcctcc Alignment from Exonerate_coding2genome ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG gagggtggaccaatatttcctgcaatctgcagcgatgtatcttttttcagACTACCACCACACCCCTCCAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTCACAACCTTACCACTGCACCCTGCCAGAGTCCCCTTCACCTCCATGGTTACCTCAAGGCCCACTTTACCTGGCACTGGATCTTTGCCCCTCAGTATTGCCCGGGCTCAAACTCCACCCTGGCACCCACCAGGTGCACCCTCCCCTGgtaggggagaccaaagtagactggatgaccatgcagatttagtttcctcc Alignment from GeneWise ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG gagggtggaccaatatttcctgcaatctgcagcgatgtatcttttttcagACTACCACCACACCCCTCCAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTCACAACCTTACCACTGCACCCTGCCAGAGTCCCCTTCACCTCCATGGTTACCTCAAGGCCCACTTTACCTGGCACTGGATCTTTGCCCCTCAGTATTGCCCGGGCTCAAACTCCACCCTGGCACCCACCAGGTGCACCCTCCCCTGgtaggggagaccaaagtagactggatgaccatgcagatttagtttcctcc #### Naa40_ID2074_6 --> 1 - 2 Original Alignment cTATGAAGTGCAGCTGGAA-AGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACag tgcgtctctccatggtgtccaggtgctcagtttttctttgtttgttttagcTATGAAGTACAGCTAGAACAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTC-CATTCAGATTCTCCAGCTAATGGCCAACaggtagccagcatcttgcaagaattggcttgctgggagaggttggtcctgag Alignment from CESAR cTATGAAGTGCAGCTGGAA-AGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACag tgcgtctctccatggtgtccaggtgctcagtttttctttgtttgttttagcTATGAAGTACAGCTAGAACAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTT-CCATTCAGATTCTCCAGCTAATGGCCAACaggtagccagcatcttgcaagaattggcttgctgggagaggttggtcctgag Alignment from Spaln_aa2Genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAG tgcgtctctccatggtgtccaggtgctcagtttttctttgtttgttttagCTATGAAGTACAGCTAGAACAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCCATTCAGATTCTCCAGCTAATGGCCAACAGgtagccagcatcttgcaagaattggcttgctgggagaggttggtcctgag Alignment from Spaln_nt2Genome CTATGAAGTGCAGCTGGAA-AGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAG tgcgtctctccatggtgtccaggtgctcagtttttctttgtttgttttagCTATGAAGTACAGCTAGAACAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTC-CATTCAGATTCTCCAGCTAATGGCCAACAGgtagccagcatcttgcaagaattggcttgctgggagaggttggtcctgag Alignment from Pairagon CTATGAAGTGCAGCTGGAA-AGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAG tgcgtctctccatggtgtccaggtgctcagtttttctttgtttgttttagCTATGAAGTACAGCTAGAACAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTC-CATTCAGATTCTCCAGCTAATGGCCAACAGgtagccagcatcttgcaagaattggcttgctgggagaggttggtcctgag Alignment from Exonerate_protein2genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAG tgcgtctctccatggtgtccaggtgctcagtttttctttgtttgttttagCTATGAAGTACAGCTAGAACAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCCATTCAGATTCTCCAGCTAATGGCCAACAGgtagccagcatcttgcaagaattggcttgctgggagaggttggtcctgag Alignment from Exonerate_coding2genome tgcgtctctccatggtgtccaggtgctcagtttttctttgtttgttttagctatgaagtacagctagaacagcaaggtaaggcagaaaggtctagagaagtttccattcagattctccagctaatggccaacaggtagccagcatcttgcaagaattggcttgctgggagaggttggtcctgag Alignment from GeneWise CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAG tgcgtctctccatggtgtccaggtgctcagtttttctttgtttgttttagCTATGAAGTACAGCTAGAACAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCCATTCAGATTCTCCAGCTAATGGCCAACAGgtagccagcatcttgcaagaattggcttgctgggagaggttggtcctgag #### Naa40_ID2075_5 --> 1 - 2 Original Alignment gTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGAC-CGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACtg atcaggatctagggggcagtctactaatcaacgtgtgttctatttcacaggTATGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCCACGCCTGGTACCTCATTGCATGGGAAAACA-TTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTGGGGACGAGGTCTTATATtggtaaggaacttttgcctttggtataagaggttatgcaattagtggagtag Alignment from CESAR gTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGAC-CGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACtg atcaggatctagggggcagtctactaatcaacgtgtgttctatttcacaggTATGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCCACGCCTGGTACCTCATTGCATGGGAAAAC-ATTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTGGGGACGAGGTCTTATATtggtaaggaacttttgcctttggtataagaggttatgcaattagtggagtag Alignment from Spaln_aa2Genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG atcaggatctagggggcagtctactaatcaacgtgtgttctatttcacagGTATGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCCACGCCTGGTACCTCATTGCATGGGAAAACATTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTGGGGACGAGGTCTTATATTGgtaaggaacttttgcctttggtataagaggttatgcaattagtggagtag Alignment from Spaln_nt2Genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGA-CCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG atcaggatctagggggcagtctactaatcaacgtgtgttctatttcacagGTATGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCCACGCCTGGTACCTCATTGCATGGGAAAACA-TTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTGGGGACGAGGTCTTATATTGgtaaggaacttttgcctttggtataagaggttatgcaattagtggagtag Alignment from Pairagon GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGA-GCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG atcaggatctagggggcagtctactaatcaacgtgtgttctatttcacagGTATGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCCACGCCTGGTACCTCATTGCATGGGAAAACA-TTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTGGGGACGAGGTCTTATATTGgtaaggaacttttgcctttggtataagaggttatgcaattagtggagtag Alignment from Exonerate_protein2genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG atcaggatctagggggcagtctactaatcaacgtgtgttctatttcacagGTATGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCCACGCCTGGTACCTCATTGCATGGGAAAACATTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTGGGGACGAGGTCTTATATTGgtaaggaacttttgcctttggtataagaggttatgcaattagtggagtag Alignment from Exonerate_coding2genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG atcaggatctagggggcagtctactaatcaacgtgtgttctatttcacagGTATGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCCACGCCTGGTACCTCATTGCATGGGAAAACATTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTGGGGACGAGGTCTTATATTGgtaaggaacttttgcctttggtataagaggttatgcaattagtggagtag Alignment from GeneWise GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG atcaggatctagggggcagtctactaatcaacgtgtgttctatttcacagGTATGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCCACGCCTGGTACCTCATTGCATGGGAAAACATTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTGGGGACGAGGTCTTATATTGgtaaggaacttttgcctttggtataagaggttatgcaattagtggagtag #### Naaladl1_ID1443_2 --> 1 - 1 Original Alignment aGAACTCTCCAAG-GAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCg atctgctgctggattctattctcctccgtctcctttacctgctttggcagaGAGCTTGCAAAACGAACCACATGTTGCCACCAGCACTCGAGATG-TGCCCTGGTTCAGCTGCTGTTGGGACGCTGGAAGGATACAGCACCAGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTTGCTTTCCCTAATGCA---GAGGCTAACAGTGTGGAAGTTggtaagagtctagaagtttccaggcaggatgctgacttttcccccccgatc Alignment from CESAR aGAACTCTCCAAG-GAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCg atctgctgctggattctattctcctccgtctcctttacctgctttggcagaGAGCTTGCAAAACGAACCACATGTTGCCACCAGCACTCGAGAT-GTGCCCTGGTTCAGCTGCTGTTGGGACGCTGGAAGGATACAGCACCAGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTTGCTTTCCCTAATGCAGAG---GCTAACAGTGTGGAAGTTggtaagagtctagaagtttccaggcaggatgcattttctccgtttgattta Alignment from Spaln_aa2Genome AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG atctgctgctggattctattctcctccgtctcctttacctgctttggcagagagC---TTGCAAAACGAACCACATGTTGCCACCAGCACTCGAGATGT-GCCCTGGTTCAGCTGCTGTTGGGACGCTGGAAGGATACAGCACCAGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTTGCTTTCCCTAATGCAGAG---GCTAACAGTGTGGAAGTTGgtaagagtctagaagtttccaggcaggatgctgacttttcccccccgatc Alignment from Spaln_nt2Genome AGAACTCTCCAAG-GAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG atctgctgctggattctattctcctccgtctcctttacctgctttggcagAGAGCTTGCAAAACGAACCACATGTTGCCACCAGCACTCGAGATG-TGCCCTGGTTCAGCTGCTGTTGGGACGCTGGAAGGATACAGCACCAGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTTGCTTTCCCTAATGCAG---AGGCTAACAGTGTGGAAGTTGgtaagagtctagaagtttccaggcaggatgctgacttttcccccccgatc Alignment from Pairagon AGAACTCTCCAAG-GAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG atctgctgctggattctattctcctccgtctcctttacctgctttggcagAGAGCTTGCAAAACGAACCACATGTTGCCACCAGCACTCGAGATG-TGCCCTGGTTCAGCTGCTGTTGGGACGCTGGAAGGATACAGCACCAGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTTGCTTTCCCTAATGCAG---AGGCTAACAGTGTGGAAGTTGgtaagagtctagaagtttccaggcaggatgctgacttttcccccccgatc Alignment from Exonerate_protein2genome AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG atctgctgctggattctattctcctccgtctcctttacctgctttggcagAGAGCTTGCAAAACGAACCACATGTTGCCACCAGCACTCGAGATGTGCCCTGGTTCAGCTGCTGTTGGGACGCTGGAAGGATACAGCACCAGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTTGCTTTCCCTAATGCAGAG---GCTAACAGTGTGGAAGTTGgtaagagtctagaagtttccaggcaggatgctgacttttcccccccgatc Alignment from Exonerate_coding2genome AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG atctgctgctggattctattctcctccgtctcctttacctgctttggcagAGAGCTTGCAAAACGAACCACATGTTGCCACCAGCACTCGAGATGTGCCCTGGTTCAGCTGCTGTTGGGACGCTGGAAGGATACAGCACCAGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTTGCTTTCCCTAATGCAGAG---GCTAACAGTGTGGAAGTTGgtaagagtctagaagtttccaggcaggatgctgacttttcccccccgatc Alignment from GeneWise AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG atctgctgctggattctattctcctccgtctcctttacctgctttggcagAGAGCTTGCAAAACGAACCACATGTTGCCACCAGCACTCGAGATGTGCCCTGGTTCAGCTGCTGTTGGGACGCTGGAAGGATACAGCACCAGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTTGCTTTCCCTAATGCAGAGGCT---AACAGTGTGGAAGTTGgtaagagtctagaagtttccaggcaggatgctgacttttcccccccgatc #### Naaladl1_ID1447_6 --> 1 - 2 Original Alignment tAACCTCACCGGA-ACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGag aattgaagctaatgacacagcctgccctacttctcactcaatccttatagtAACCTCACAGGACACTTCCGCCCCTACTTTCTGGCAGAGAGCTCTAG-CTGTGAATACAAGCTAGGACCTGGATTTGAGCCAAATGAAAGTTTCCCTGATGGAaggtgagtttaggacacatgaagctaagtccccttgagggggcccccagaat Alignment from CESAR tAACCTCACCGGA-ACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGag aattgaagctaatgacacagcctgccctacttctcactcaatccttatagtAACCTCACAGGACACTTCCGCCCCTACTTTCTGGCAGAGAGCTC-TAGCTGTGAATACAAGCTAGGACCTGGATTTGAGCCAAATGAAAGTTTCCCTGATGGAaggtgagtttaggacacatgaagctaagtccccttgagggggcccccagaat Alignment from Spaln_aa2Genome TAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG aattgaagctaatgacacagcctgccctacttctcactcaatccttatagTAACCTCACAGGACACTTCCGCCCCTACTTTCTGGCAGAGAGCTCTAGCTGTGAATACAAGCTAGGACCTGGATTTGAGCCAAATGAAAGTTTCCCTGATGGAAGgtgagtttaggacacatgaagctaagtccccttgagggggcccccagaat Alignment from Spaln_nt2Genome TAACCTCACCGGA-ACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG aattgaagctaatgacacagcctgccctacttctcactcaatccttatagTAACCTCACAGGACACTTCCGCCCCTACTTTCTGGCAGAGAGCTCT-AGCTGTGAATACAAGCTAGGACCTGGATTTGAGCCAAATGAAAGTTTCCCTGATGGAAGgtgagtttaggacacatgaagctaagtccccttgagggggcccccagaat Alignment from Pairagon TAACCTCACCGGA-ACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG aattgaagctaatgacacagcctgccctacttctcactcaatccttatagTAACCTCACAGGACACTTCCGCCCCTACTTTCTGGCAGAGAGCTCT-AGCTGTGAATACAAGCTAGGACCTGGATTTGAGCCAAATGAAAGTTTCCCTGATGGAAGgtgagtttaggacacatgaagctaagtccccttgagggggcccccagaat Alignment from Exonerate_protein2genome TAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG aattgaagctaatgacacagcctgccctacttctcactcaatccttatagTAACCTCACAGGACACTTCCGCCCCTACTTTCTGGCAGAGAGCTCTAGCTGTGAATACAAGCTAGGACCTGGATTTGAGCCAAATGAAAGTTTCCCTGATGGAAGgtgagtttaggacacatgaagctaagtccccttgagggggcccccagaat Alignment from Exonerate_coding2genome aattgaagctaatgacacagcctgccctacttctcactcaatccttatagtaacctcacaggacacttccgcccctactttctggcagagagctctagctgtgaatacaagctaggacctggatttgagccaaatgaaagtttccctgatggaaggtgagtttaggacacatgaagctaagtccccttgagggggcccccagaat Alignment from GeneWise TAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG aattgaagctaatgacacagcctgccctacttctcactcaatccttatagTAACCTCACAGGACACTTCCGCCCCTACTTTCTGGCAGAGAGCTCTAGCTGTGAATACAAGCTAGGACCTGGATTTGAGCCAAATGAAAGTTTCCCTGATGGAAGgtgagtttaggacacatgaagctaagtccccttgagggggcccccagaat #### Naaladl1_ID1452_11 --> 2 - 0 Original Alignment ccAATGCTACCCTCCGG-GCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG caggaagtgatgtgttcacagccaacaggacagtctggctaacttctcagcaAATACTACTCTGCAGCGCCCAGGGCACACCACCGGTACAAGGTGTGC-CTTTTCTTCAGCCAAAGATgtaagcagatgaccttcaaaggagttaggctcaaccacaccttcctgggt Alignment from CESAR ccAATGCTACCCTCCGG-GCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG caggaagtgatgtgttcacagccaacaggacagtctggctaacttctcagcaAATACTACTCTGCAGCGCCCAGGGCACACCACCGGTACAAGGTGTG-CCTTTTCTTCAGCCAAAGATgtaagcagatgaccttcaaaggagttaggctcaaccacaccttcctgggt Alignment from Spaln_aa2Genome GCTACCCTC------CGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG caggaagtgatgtgttcacagccaacaggacagtctggctaacttctcagCAAATACTACTCTGCAGCGCCCAGGGCACACCACCGGTACAAGGTGTGCC-TTTTCTTCAGCCAAAGATgtaagcagatgaccttcaaaggagttaggctcaaccacaccttcctgggt Alignment from Spaln_nt2Genome CCAATGCTACCCTCCGG-GCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG caggaagtgatgtgttcacagccaacaggacagtctggctaacttctcagCAAATACTACTCTGCAGCGCCCAGGGCACACCACCGGTACAAGGTGTG-CCTTTTCTTCAGCCAAAGATgtaagcagatgaccttcaaaggagttaggctcaaccacaccttcctgggt Alignment from Pairagon CCAATGCTACCCTCCGG-GCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG caggaagtgatgtgttcacagccaacaggacagtctggctaacttctcagCAAATACTACTCTGCAGCGCCCAGGGCACACCACCGGTACAAGGTGTG-CCTTTTCTTCAGCCAAAGATgtaagcagatgaccttcaaaggagttaggctcaaccacaccttcctgggt Alignment from Exonerate_protein2genome CCAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG caggaagtgatgtgttcacagccaacaggacagtctggctaacttctcagCAAATACTACTCTGCAGCGCCCAGGGCACACCACCGGTACAAGGTGTGCCTTTTCTTCAGCCAAAGATgtaagcagatgaccttcaaaggagttaggctcaaccacaccttcctgggt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG caggaagtgatgtgttcacagccaacaggacagtctggctaacttctcagCAAATACTACTCTGCAGCGCCCAGGGCACACCACCGGTACAAGGTGTGCCTTTTCTTCAGCCAAAGATgtaagcagatgaccttcaaaggagttaggctcaaccacaccttcctgggt #### Naaladl1_ID1456_15 --> 2 - 1 Original Alignment gtTTCAGCAGCCACCAAGCT-GTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGg gg atgaaggtgaaacttggatgtcgcctctgcattgttgttcctcttgtcaggtTTTAGTAGCCAACAAGCTCGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTG-TAGCCTCTTCCTGCCCCTAAATGTTAGCGACTATAGTGAGACCTTACAAGGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGggtaaggcacaacatcctgaggcagtgcatttttgttgctgaattttaggg Alignment from CESAR gtTTCAGCAGCCACCAAGCT-GTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGg gg atgaaggtgaaacttggatgtcgcctctgcattgttgttcctcttgtcaggtTTTAGTAGCCAACAAGCTCGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGT-GTAGCCTCTTCCTGCCCCTAAATGTTAGCGACTATAGTGAGACCTTACAAGGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGggtaaggcacaacatcctgaggcagtggctctgaccctctgtcccgcaggg Alignment from Spaln_aa2Genome ---TTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG atgaaggtgaaacttggatgtcgcctctgcattgttgttcctcttgtcagGTTTTAGTAGCCAACAAGCTCGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGT-AGCCTCTTCCTGCCCCTAAATGTTAGCGACTATAGTGAGACCTTACAAGGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtaaggcacaacatcctgaggcagtgcatttttgttgctgaattttagGG Alignment from Spaln_nt2Genome GTTTCAGCAGCCACCAAGCT-GTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG atgaaggtgaaacttggatgtcgcctctgcattgttgttcctcttgtcagGTTTTAGTAGCCAACAAGCTCGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTG-TAGCCTCTTCCTGCCCCTAAATGTTAGCGACTATAGTGAGACCTTACAAGGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtaaggcacaacatcctgaggcagtgcatttttgttgctgaattttagGG Alignment from Pairagon GTTTCAGCAGCCACCAAGCT-GTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG atgaaggtgaaacttggatgtcgcctctgcattgttgttcctcttgtcagGTTTTAGTAGCCAACAAGCTCGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTG-TAGCCTCTTCCTGCCCCTAAATGTTAGCGACTATAGTGAGACCTTACAAGGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtaaggcacaacatcctgaggcagtgcatttttgttgctgaattttagGG Alignment from Exonerate_protein2genome GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG atgaaggtgaaacttggatgtcgcctctgcattgttgttcctcttgtcagGTTTTAGTAGCCAACAAGCTCGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGTAGCCTCTTCCTGCCCCTAAATGTTAGCGACTATAGTGAGACCTTACAAGGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtaaggcacaacatcctgaggcagtgcatttttgttgctgaattttagGG Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ------AGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG atgaaggtgaaacttggatgtcgcctctgcattgttgttcctcttgtcagGTTTTAGTAGCCAACAAGCTCGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGT-AGCCTCTTCCTGCCCCTAAATGTTAGCGACTATAGTGAGACCTTACAAGGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtaaggcacaacatcctgaggcagtgcatttttgttgctgaattttagGG #### Naaladl1_ID1457_16 --> 2 - 2 Original Alignment Gg ggCCTTTGGTGACTGCAGTGGCGAACTTT-AAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTga GggtcagccacaacatcctgaggcagtggctctgaccctctgtcccgcagggCCTTTGGTAACGGCAGTAGCAAACTTTCAAGGCTTCAGCTGCCTCACTGGGAGAAGACATCCTGACCCTAG-CGAGAGCAGCCCTgagtatgtgccagcagaggacatgtctcaccaggtatacatgggggtggtac Alignment from CESAR Gg ggCCTTTGGTGACTGCAGTGGCGAACTTT-AAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTga GggtaaggcacaacatcctgaggcagtggctctgaccctctgtcccgcagggCCTTTGGTAACGGCAGTAGCAAACTTTCAAGGCTTCAGCTGCCTCACTGGGAGAAGACATCCTGACCCTA-GCGAGAGCAGCCCTgagtatgtgccagcagaggacatgtctcaccaggtatacatgggggtggtac Alignment from Spaln_aa2Genome GG GGCCTTTGGTGACTGCAGTGGCGAAC-TTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGC---CCTGA GGgtcagccacaacatcctgaggcagtggctctgaccctctgtcccgcagGGCCTTTGGTAACGGCAGTAGCAAACtTTCAAGGCTTCAGCTGCCTCACTGGGAGAAGACATCCTGACCCTAGCGAGAGCAGCCCTGAGTATgtgccagcagaggacatgtctcaccaggtatacatgggggtggtac Alignment from Spaln_nt2Genome GG GGCCTTTGGTGACTGCAGTGGCGAACTTT-AAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGA GGgtcagccacaacatcctgaggcagtggctctgaccctctgtcccgcagGGCCTTTGGTAACGGCAGTAGCAAACTTTCAAGGCTTCAGCTGCCTCACTGGGAGAAGACATCCTGACCCTAGCG-AGAGCAGCCCTGAgtatgtgccagcagaggacatgtctcaccaggtatacatgggggtggtac Alignment from Pairagon GG GGCCTTTGGTGACTGCAGTGGCGAACTTT-AAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGA GGgtcagccacaacatcctgaggcagtggctctgaccctctgtcccgcagGGCCTTTGGTAACGGCAGTAGCAAACTTTCAAGGCTTCAGCTGCCTCACTGGGAGAAGACATCCTGACCCTAGCG-AGAGCAGCCCTGAgtatgtgccagcagaggacatgtctcaccaggtatacatgggggtggtac Alignment from Exonerate_protein2genome GG GGCCTTTGGTGACTGCAGTGGCGAAC-TTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGC GGgtcagccacaacatcctgaggcagtggctctgaccctctgtcccgcagGGCCTTTGGTAACGGCAGTAGCAAACTTTCAAGGCTTCAGCTGCCTCACTGGGAGAAGACATCCTGACCCTAGCGAGAGCAGCCctgagtatgtgccagcagaggacatgtctcaccaggtatacatgggggtggtac Alignment from Exonerate_coding2genome GG GGCCTTTGGTGACTGCAGTGGCGAAC-TTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGC GGgtcagccacaacatcctgaggcagtggctctgaccctctgtcccgcagGGCCTTTGGTAACGGCAGTAGCAAACTTTCAAGGCTTCAGCTGCCTCACTGGGAGAAGACATCCTGACCCTAGCGAGAGCAGCCctgagtatgtgccagcagaggacatgtctcaccaggtatacatgggggtggtac Alignment from GeneWise G------------------------------------------------GGGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGA GGGTCAGCCACAACATCCTGAGGCAGTGGCTCTGACCCTCTGTCCCGCAGGGCCTTTGGTAACGGCAGTAGCAAACTTTCAAGGCTTCAGCTGCCTCACTGGGAGAAGACATCCTGACCCTAGCGAGAGCAGCCCTGAgtatgtgccagcagaggacatgtctcaccaggtatacatgggggtggtac #### Ndufv1_ID275_7 --> 2 - 0 Original Alignment gtGGTGTCACAGGTGGCTGGGACAAC-CTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaaccctgacatgcttttgatttccccctctaggtGGTGTCACAGGTGGCTGGGACAATCCTGCTCGCTGTGACACCAGGTGGATCATCC---A-ATTGATTCCCAAATCTGTTTGTGAGACAGTACTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTTATC---ATGGATCGTCTGgtaagcggtcataaacaccctcatactcgtcactatggggtgtgtttctc Alignment from CESAR gtGGTGTCACAGGTGGCTGGGACAAC-CTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaaccctgacatgcttttgatttccccctctaggtGGTGTCACAGGTGGCTGGGACAATCCTGCTCGCTGTGACACCAGGTGGATCATCCA-A---TTGATTCCCAAATCTGTTTGTGAGACAGTACTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTTATC---ATGGATCGTCTGgtaagcggtcataaacaccctcatactcgtcactatggggtgtgtttctc Alignment from Spaln_aa2Genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaaccctgacatgcttttgatttccccctctagGTGGTGTCACAGGTGGCTGGGACAAT---CCTGCTCGCTGTGACACCAGGTGGATCATCCAATTGATTCCCAAATCTGTTTGTGAGACAGTACTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTTATC---ATGGATCGTCTGgtaagcggtcataaacaccctcatactcgtcactatggggtgtgtttctc Alignment from Spaln_nt2Genome GTGGTGTCACAGGTGGCTGGGACAA-CCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaaccctgacatgcttttgatttccccctctagGTGGTGTCACAGGTGGCTGGGACAATCCTGCTCGCTGTGACACCAGGTGGATCATC----CAATTGATTCCCAAATCTGTTTGTGAGACAGTACTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTTA---TCATGGATCGTCTGgtaagcggtcataaacaccctcatactcgtcactatggggtgtgtttctc Alignment from Pairagon GTGGTGTCACAGGTGGCTGGGACAA-CCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaaccctgacatgcttttgatttccccctctagGTGGTGTCACAGGTGGCTGGGACAATCCTGCTCGCTGTGACACCAGGTGGATCATCCA----ATTGATTCCCAAATCTGTTTGTGAGACAGTACTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTTA---TCATGGATCGTCTGgtaagcggtcataaacaccctcatactcgtcactatggggtgtgtttctc Alignment from Exonerate_protein2genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaaccctgacatgcttttgatttccccctctagGTGGTGTCACAGGTGGCTGGGACAAT---CCTGCTCGCTGTGACACCAGGTGGATCATCCAATTGATTCCCAAATCTGTTTGTGAGACAGTACTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTTATC---ATGGATCGTCTGgtaagcggtcataaacaccctcatactcgtcactatggggtgtgtttctc Alignment from Exonerate_coding2genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaaccctgacatgcttttgatttccccctctagGTGGTGTCACAGGTGGCTGGGACAAT---CCTGCTCGCTGTGACACCAGGTGGATCATCCAATTGATTCCCAAATCTGTTTGTGAGACAGTACTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTTATC---ATGGATCGTCTGgtaagcggtcataaacaccctcatactcgtcactatggggtgtgtttctc Alignment from GeneWise GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaaccctgacatgcttttgatttccccctctagGTGGTGTCACAGGTGGCTGGGACAATCCT---GCTCGCTGTGACACCAGGTGGATCATCCAATTGATTCCCAAATCTGTTTGTGAGACAGTACTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTTATC---ATGGATCGTCTGgtaagcggtcataaacaccctcatactcgtcactatggggtgtgtttctc #### Ndufv1_ID276_6 --> 2 - 1 Original Alignment gaGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTG-GCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTg gacggtgtttgatcatgccttagttaatggcttgtgtcattactttgcaggaGTGTTTGGCTGCCCCACAACTGTGGCCAATGTTAAAACAGTGCGCTGTGTCCCCCACAATTTGTCGCCGTGGGGGCACCT-GTTTGCTGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTggtgtgtcttaagcgaactcaaggtcagggcatcagaggggtgcttgcaaa Alignment from CESAR gaGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTG-GCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTg gacggtgtttgatcatgccttagttaatggcttgtgtcattactttgcaggaGTGTTTGGCTGCCCCACAACTGTGGCCAATGTTAAAACAGTGCGCTGTGTCCCCCACAATTTGTCGCCGTGGGGGCACC-TGTTTGCTGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTggtgtgtcttaagcgaactcaaggtcagggcatcagaggggtgcttgcaaa Alignment from Spaln_aa2Genome GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gacggtgtttgatcatgccttagttaatggcttgtgtcattactttgcagGAGTGTTTGGCTGCCCCACAACTGTGGCCAATGTTAAAACAGTGCGCTGTGTCCCCCACAATTTGTCGCCGTGGGGGCACCTGTTTGCTGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtgtgtcttaagcgaactcaaggtcagggcatcagaggggtgcttgcaaa Alignment from Spaln_nt2Genome GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTG-GCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gacggtgtttgatcatgccttagttaatggcttgtgtcattactttgcagGAGTGTTTGGCTGCCCCACAACTGTGGCCAATGTTAAAACAGTGCGCTGTGTCCCCCACAATTTGTCGCCGTGGGGGCACCT-GTTTGCTGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtgtgtcttaagcgaactcaaggtcagggcatcagaggggtgcttgcaaa Alignment from Pairagon GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTG-GCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gacggtgtttgatcatgccttagttaatggcttgtgtcattactttgcagGAGTGTTTGGCTGCCCCACAACTGTGGCCAATGTTAAAACAGTGCGCTGTGTCCCCCACAATTTGTCGCCGTGGGGGCACCT-GTTTGCTGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtgtgtcttaagcgaactcaaggtcagggcatcagaggggtgcttgcaaa Alignment from Exonerate_protein2genome GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gacggtgtttgatcatgccttagttaatggcttgtgtcattactttgcagGAGTGTTTGGCTGCCCCACAACTGTGGCCAATGTTAAAACAGTGCGCTGTGTCCCCCACAATTTGTCGCCGTGGGGGCACCTGTTTGCTGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtgtgtcttaagcgaactcaaggtcagggcatcagaggggtgcttgcaaa Alignment from Exonerate_coding2genome GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gacggtgtttgatcatgccttagttaatggcttgtgtcattactttgcagGAGTGTTTGGCTGCCCCACAACTGTGGCCAATGTTAAAACAGTGCGCTGTGTCCCCCACAATTTGTCGCCGTGGGGGCACCTGTTTGCTGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtgtgtcttaagcgaactcaaggtcagggcatcagaggggtgcttgcaaa Alignment from GeneWise GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gacggtgtttgatcatgccttagttaatggcttgtgtcattactttgcagGAGTGTTTGGCTGCCCCACAACTGTGGCCAATGTTAAAACAGTGCGCTGTGTCCCCCACAATTTGTCGCCGTGGGGGCACCTGTTTGCTGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtgtgtcttaagcgaactcaaggtcagggcatcagaggggtgcttgcaaa #### Nfkb2_ID9826_4 --> 0 - 0 Original Alignment CGAGGCTTCAGATTTCGATATGGCTGTGAA-GGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG ggtagtttgcttctcctcctcattactgatatttcatttttttctttcagCGAGGCTATAGATTCCGATATGGCTGTGAGCGGCCCCTCCCATGGTGGCTTGCCAGGTGCGT-CAGTGAGAAGGGCCGGAAGACCTATCCTACCGTAAAAgtacttgcagatgccacagctgaccttgctctgtagtgcgcatgaacttg Alignment from CESAR CGAGGCTTCAGATTTCGATATGGCTGTGAA-GGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG ggtagtttgcttctcctcctcattactgatatttcatttttttctttcagCGAGGCTATAGATTCCGATATGGCTGTGAGCGGCCCCTCCCATGGTGGCTTGCCAGGTGCGT-CAGTGAGAAGGGCCGGAAGACCTATCCTACCGTAAAAgtacttgcagatgccacagctgaccttgctctgtagtgcgcatgaaactc Alignment from Spaln_aa2Genome CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG ggtagtttgcttctcctcctcattactgatatttcatttttttctttcagCGAGGCTATAGATTCCGATATGGCTGTGAGCGGCCCCTCCCATGGTGGCTTGCCAGGTGCGTCAGTGAGAAGGGCCGGAAGACCTATCCTACCGTAAAAgtacttgcagatgccacagctgaccttgctctgtagtgcgcatgaacttg Alignment from Spaln_nt2Genome CGAGGCTTCAGATTTCGATATGGCTGTGAA-GGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG ggtagtttgcttctcctcctcattactgatatttcatttttttctttcagCGAGGCTATAGATTCCGATATGGCTGTGAGCGGCCCCTCCCATGGTGGCTTGCCAGGTGCGT-CAGTGAGAAGGGCCGGAAGACCTATCCTACCGTAAAAgtacttgcagatgccacagctgaccttgctctgtagtgcgcatgaacttg Alignment from Pairagon CGAGGCTTCAGATTTCGATATGGCTGTGAA-GGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG ggtagtttgcttctcctcctcattactgatatttcatttttttctttcagCGAGGCTATAGATTCCGATATGGCTGTGAGCGGCCCCTCCCATGGTGGCTTGCCAGGTGCGTC-AGTGAGAAGGGCCGGAAGACCTATCCTACCGTAAAAgtacttgcagatgccacagctgaccttgctctgtagtgcgcatgaacttg Alignment from Exonerate_protein2genome CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG ggtagtttgcttctcctcctcattactgatatttcatttttttctttcagCGAGGCTATAGATTCCGATATGGCTGTGAGCGGCCCCTCCCATGGTGGCTTGCCAGGTGCGTCAGTGAGAAGGGCCGGAAGACCTATCCTACCGTAAAAgtacttgcagatgccacagctgaccttgctctgtagtgcgcatgaacttg Alignment from Exonerate_coding2genome CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG ggtagtttgcttctcctcctcattactgatatttcatttttttctttcagCGAGGCTATAGATTCCGATATGGCTGTGAGCGGCCCCTCCCATGGTGGCTTGCCAGGTGCGTCAGTGAGAAGGGCCGGAAGACCTATCCTACCGTAAAAgtacttgcagatgccacagctgaccttgctctgtagtgcgcatgaacttg Alignment from GeneWise CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG ggtagtttgcttctcctcctcattactgatatttcatttttttctttcagCGAGGCTATAGATTCCGATATGGCTGTGAGCGGCCCCTCCCATGGTGGCTTGCCAGGTGCGTCAGTGAGAAGGGCCGGAAGACCTATCCTACCGTAAAAgtacttgcagatgccacagctgaccttgctctgtagtgcgcatgaacttg #### Nfkb2_ID9827_5 --> 0 - 2 Original Alignment ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCA-CCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTca gctgaccttgctctgtagtgcgcatgaaactctttaactctctcatacagATATGTAACTATGAGGGACCCACAAAGATTGTGGTTGACCTGGCGACACACAGTGACCCACCCTCGTGCACATGCCCACAGTCTGGTGG-CAAGCAGTGTTCAGAACTCGGGGTGTGTGCCATTTCTGTAGGACCCAAGGACATGACTGCTcagtgagtgatgcttctctgtcttggagttgcaaatgatccaatggatatcc Alignment from CESAR ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCA-CCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTca gctgaccttgctctgtagtgcgcatgaaactctttaactctctcatacagATATGTAACTATGAGGGACCCACAAAGATTGTGGTTGACCTGGCGACACACAGTGACCCACCCTCGTGCACATGCCCACAGTCTGG-TGGCAAGCAGTGTTCAGAACTCGGGGTGTGTGCCATTTCTGTAGGACCCAAGGACATGACTGCTcagtgagtgatgcttctctgtcttggagttgcaaatgatccaatggatatcc Alignment from Spaln_aa2Genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA gctgaccttgctctgtagtgcgcatgaaactctttaactctctcatacagATATGTAACTATGAGGGACCCACAAAGATTGTGGTTGACCTGGCGACACACAGTGACCCACCCTCGTGCACATGCCCACAGTCTGGTGGCAAGCAGTGTTCAGAACTCGGGGTGTGTGCCATTTCTGTAGGACCCAAGGACATGACTGCTCAgtgagtgatgcttctctgtcttggagttgcaaatgatccaatggatatcc Alignment from Spaln_nt2Genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA gctgaccttgctctgtagtgcgcatgaaactctttaactctctcatacagATATGTAACTATGAGGGACCCACAAAGATTGTGGTTGACCTGGCGACACACAGTGACCCACCCTCGTGCACATGCCCACAGTCTGGTGGCAAGCAGTGTTCAGAACTCGGGGTGTGTGCCATTTCTGTAGGACCCAAGGACATGACTGCTCAgtgagtgatgcttctctgtcttggagttgcaaatgatccaatggatatcc Alignment from Pairagon ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCA-CCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA gctgaccttgctctgtagtgcgcatgaaactctttaactctctcatacagATATGTAACTATGAGGGACCCACAAAGATTGTGGTTGACCTGGCGACACACAGTGACCCACCCTCGTGCACATGCCCACAGTCTGGT-GGCAAGCAGTGTTCAGAACTCGGGGTGTGTGCCATTTCTGTAGGACCCAAGGACATGACTGCTCAgtgagtgatgcttctctgtcttggagttgcaaatgatccaatggatatcc Alignment from Exonerate_protein2genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA gctgaccttgctctgtagtgcgcatgaaactctttaactctctcatacagATATGTAACTATGAGGGACCCACAAAGATTGTGGTTGACCTGGCGACACACAGTGACCCACCCTCGTGCACATGCCCACAGTCTGGTGGCAAGCAGTGTTCAGAACTCGGGGTGTGTGCCATTTCTGTAGGACCCAAGGACATGACTGCTCAgtgagtgatgcttctctgtcttggagttgcaaatgatccaatggatatcc Alignment from Exonerate_coding2genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA gctgaccttgctctgtagtgcgcatgaaactctttaactctctcatacagATATGTAACTATGAGGGACCCACAAAGATTGTGGTTGACCTGGCGACACACAGTGACCCACCCTCGTGCACATGCCCACAGTCTGGTGGCAAGCAGTGTTCAGAACTCGGGGTGTGTGCCATTTCTGTAGGACCCAAGGACATGACTGCTCAgtgagtgatgcttctctgtcttggagttgcaaatgatccaatggatatcc Alignment from GeneWise ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA gctgaccttgctctgtagtgcgcatgaaactctttaactctctcatacagATATGTAACTATGAGGGACCCACAAAGATTGTGGTTGACCTGGCGACACACAGTGACCCACCCTCGTGCACATGCCCACAGTCTGGTGGCAAGCAGTGTTCAGAACTCGGGGTGTGTGCCATTTCTGTAGGACCCAAGGACATGACTGCTCAgtgagtgatgcttctctgtcttggagttgcaaatgatccaatggatatcc #### Nfkb2_ID9828_6 --> 1 - 1 Original Alignment aTTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAG-AACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAg ggggtgcctcagcacggatcatccagaacatggtaccactttccccacagaTTCAATAATTTGGGC------CATGTAACAAAGAAACAACATGATGGAGATAATGATACAGAAACTTC-AAGGCAGCGTCTCCAATCCAAACCACAGGGCCTAGCTggtgacacactggaaggtgtcttgggtggtgctcttaaataggctgtaaaa Alignment from CESAR aTTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAG-AACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAg ggggtgcctcagcacggatcatccagaacatggtaccactttccccacagaTTCAATAATTTGGGC------CATGTAACAAAGAAACAACATGATGGAGATAATGATACAGAAACTTC-AAGGCAGCGTCTCCAATCCAAACCACAGGGCCTAGCTggtgacacactggaaggtgtcttgggtggtgctcttaaataggctgtaaaa Alignment from Spaln_aa2Genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAG-AACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG ggggtgcctcagcacggatcatccagaacatggtaccactttccccacagATTCAATAATTTGGGC------CATGTAACAAAGAAAcAACATGATGGAGATAATGATACAGAAACTTCA-AGGCAGCGTCTCCAATCCAAACCACAGGGCCTAGCTGgtgacacactggaaggtgtcttgggtggtgctcttaaataggctgtaaaa Alignment from Spaln_nt2Genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAG-AACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG ggggtgcctcagcacggatcatccagaacatggtaccactttccccacagATTCAATAATTTGGG------CCATGTAACAAAGAAACAACATGATGGAGATAATGATACAGAAACTTCA-AGGCAGCGTCTCCAATCCAAACCACAGGGCCTAGCTGgtgacacactggaaggtgtcttgggtggtgctcttaaataggctgtaaaa Alignment from Pairagon ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAG-AACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG ggggtgcctcagcacggatcatccagaacatggtaccactttccccacagATTCAATAATTTGGGC------CATGTAACAAAGAAACAACATGATGGAGATAATGATACAGAAACTTCA-AGGCAGCGTCTCCAATCCAAACCACAGGGCCTAGCTGgtgacacactggaaggtgtcttgggtggtgctcttaaataggctgtaaaa Alignment from Exonerate_protein2genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG ggggtgcctcagcacggatcatccagaacatggtaccactttccccacagATTCAATAATTTGGGC------CATGTAACAAAGAAACAACATGATGGAGATAATGATACAGAAACTTCAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTAGCTGgtgacacactggaaggtgtcttgggtggtgctcttaaataggctgtaaaa Alignment from Exonerate_coding2genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG ggggtgcctcagcacggatcatccagaacatggtaccactttccccacagATTCAATAATTTGGGCCATGTA-----ACAAAGAAACAACATGATGGAGATAATGATACAGAAACTTCA-AGGCAGCGTCTCCAATCCAAACCACAGGGCCTAGCTGgtgacacactggaaggtgtcttgggtggtgctcttaaataggctgtaaaa Alignment from GeneWise ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG ggggtgcctcagcacggatcatccagaacatggtaccactttccccacagATTCAATAATTTGGGC------CATGTAACAAAGAAACAACATGATGGAGATAATGATACAGAAACTTCAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTAGCTGgtgacacactggaaggtgtcttgggtggtgctcttaaataggctgtaaaa #### Nfkb2_ID9829_7 --> 2 - 1 Original Alignment agGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTC-ATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCa ggcaatttattgcttgcaccacccatattccttggtgcttttcccctcagagGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTT-CCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAGCCAATCCATGACAGCagtaaggctggcacacactgataactgataagagttcaggtaagagatctg Alignment from CESAR agGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTC-ATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCa ggcaatttattgcttgcaccacccatattccttggtgcttttcccctcagagGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCTG-CTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAGCCAATCCATGACAGCagtaaggctggcacacactgataactgataagagttcaggtaagagatctg Alignment from Spaln_aa2Genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTC-ATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA ggcaatttattgcttgcaccacccatattccttggtgcttttcccctcagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTcATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTCCTT-AGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAGCCAATCCATGACAGCAgtaaggctggcacacactgataactgataagagttcaggtaagagatctg Alignment from Spaln_nt2Genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAG-AAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA ggcaatttattgcttgcaccacccatattccttggtgcttttcccctcagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGC-TTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAGCCAATCCATGACAGCAgtaaggctggcacacactgataactgataagagttcaggtaagagatctg Alignment from Pairagon AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAG-TCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA ggcaatttattgcttgcaccacccatattccttggtgcttttcccctcagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGC-TTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAGCCAATCCATGACAGCAgtaaggctggcacacactgataactgataagagttcaggtaagagatctg Alignment from Exonerate_protein2genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA ggcaatttattgcttgcaccacccatattccttggtgcttttcccctcagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAGCCAATCCATGACAGCAgtaaggctggcacacactgataactgataagagttcaggtaagagatctg Alignment from Exonerate_coding2genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA ggcaatttattgcttgcaccacccatattccttggtgcttttcccctcagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAGCCAATCCATGACAGCAgtaaggctggcacacactgataactgataagagttcaggtaagagatctg Alignment from GeneWise AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA ggcaatttattgcttgcaccacccatattccttggtgcttttcccctcagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAGCCAATCCATGACAGCAgtaaggctggcacacactgataactgataagagttcaggtaagagatctg #### Nfkb2_ID9833_11 --> 2 - 1 Original Alignment acAAGGAGGAAGTGCAGAGGAAGCGGAGA-AAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAg gcatgtgtctgtatttattaagtctcaacctgatgtgttcttctctccagacAAGGAGGAA------AGTAAAAGGAGGCAAGGCCTTGCCCACCTTCTCCCAGCCCTTTGGGG-TGGAACCCATATGGGTGGACGTTCTGGTGGGTCTGCGGGGGGTTATGGAGATGCTGGGGGAggtaagtaagcacaaatgaaaggagaaaggaaggagaatggttaacgatat Alignment from CESAR acAAGGAGGAAGTGCAGAGGAAGCGGAGA-AAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAg gcatgtgtctgtatttattaagtctcaacctgatgtgttcttctctccagacAAGGAGGAA------AGTAAAAGGAGGCAAGGCCTTGCCCACCTTCTCCCAGCCCTTTG-GGGTGGAACCCATATGGGTGGACGTTCTGGTGGGTCTGCGGGGGGTTATGGAGATGCTGGGGGAggtaagtaagcacaaatgaaaggagaaaggaaggagaatggttaacgatat Alignment from Spaln_aa2Genome GCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG gcatgtgtctgtatttattaagtctcaacctgatgtgttcttctctccagacaaggagGAAAGTAAAAGGAGGCAAGGCCTTGCCCACCTTCTCCCAGCCCTTTGG-GGTGGAACCCATATGGGTGGACGTTCTGGTGGGTCTGCGGGGGGTTATGGAGATGCTGGGGGAGgtaagtaagcacaaatgaaaggagaaaggaaggagaatggttaacgatat Alignment from Spaln_nt2Genome ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG gcatgtgtctgtatttattaagtctcaacctgatgtgttcttctctccagACAAGGAGGAAAGTAAAAGGAGGC-----AAGGCCTTGCCCACCTTCTCCCAGCCCTT-TGGGGTGGAACCCATATGGGTGGACGTTCTGGTGGGTCTGCGGGGGGTTATGGAGATGCTGGGGGAGgtaagtaagcacaaatgaaaggagaaaggaaggagaatggttaacgatat Alignment from Pairagon ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG gcatgtgtctgtatttattaagtctcaacctgatgtgttcttctctccagACAAGGAGGAAAGTAAAAGGAGGC-----AAGGCCTTGCCCACCTTCTCCCAGCCCTTT-GGGGTGGAACCCATATGGGTGGACGTTCTGGTGGGTCTGCGGGGGGTTATGGAGATGCTGGGGGAGgtaagtaagcacaaatgaaaggagaaaggaaggagaatggttaacgatat Alignment from Exonerate_protein2genome ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG gcatgtgtctgtatttattaagtctcaacctgatgtgttcttctctccagACAAGGAGGAA------AGTAAAAGGAGGCAAGGCCTTGCCCACCTTCTCCCAGCCCTTTGGGGTGGAACCCATATGGGTGGACGTTCTGGTGGGTCTGCGGGGGGTTATGGAGATGCTGGGGGAGgtaagtaagcacaaatgaaaggagaaaggaaggagaatggttaacgatat Alignment from Exonerate_coding2genome ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG gcatgtgtctgtatttattaagtctcaacctgatgtgttcttctctccagACAAGGAGGAAAGTAAAAGGAGG-----CAAGGCCTTGCCCACCTTCTCCCAGCCCTT-TGGGGTGGAACCCATATGGGTGGACGTTCTGGTGGGTCTGCGGGGGGTTATGGAGATGCTGGGGGAGgtaagtaagcacaaatgaaaggagaaaggaaggagaatggttaacgatat Alignment from GeneWise GCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG gcatgtgtctgtatttattaagtctcaacctgatgtgttcttctctccagacaaggagGAAAGTAAAAGGAGGCAAGGCCTTGCCCACCTTCTCCCAGCCCTTTGGGGT-GGAACCCATATGGGTGGACGTTCTGGTGGGTCTGCGGGGGGTTATGGAGATGCTGGGGGAGgtaagtaagcacaaatgaaaggagaaaggaaggagaatggttaacgatat #### Nfkb2_ID9834_12 --> 2 - 1 Original Alignment gtGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGC-TGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAg tattgcctctataaggaaccttataaggaatgctattgctgttgttttaggtGGGAGCCTTGGTTTTTTATCCCCCCCATTGGCCTATAATCCCTACCAATCTGGTGCTTCCCCTATGGGTCTATTATCTGGGTGGGGGGGGTGGAACACAGATGG-TGGCTCTAGACGGGACACTGATGCTGGTGAGGGTGCTGAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACATTGCACCGAggtgagcgctggcatcaaggttcacatgtgctattaaaagtgcaaggcagg Alignment from CESAR gtGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGC-TGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAg tattgcctctataaggaaccttataaggaatgctattgctgttgttttaggtGGGAGCCTTGGTTTTTTATCCCCCCCATTGGCCTATAATCCCTACCAATCTGGTGCTTCCCCTATGGGTCTATTATCTGGGTGGGGGGGGTGGAACACAGATG-GTGGCTCTAGACGGGACACTGATGCTGGTGAGGGTGCTGAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACATTGCACCGAggtgagcgctggcatcaaggttcacatgtgctattaaaagtgcaaggcagg Alignment from Spaln_aa2Genome GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctctataaggaaccttataaggaatgctattgctgttgttttagGTGGGAGCCTTGGTTTTTTATCCCCCCCATTGGCCTATAATCCCTACCAATCTGGTGCTTCCCCTATGGGTCTATTATCTGGGTGGGGGGGGTGGAACACAGATGGTGGCTCTAGACGGGACACTGATGCTGGTGAGGGTGCTGAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACATTGCACCGAGgtgagcgctggcatcaaggttcacatgtgctattaaaagtgcaaggcagg Alignment from Spaln_nt2Genome GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGG-CTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctctataaggaaccttataaggaatgctattgctgttgttttagGTGGGAGCCTTGGTTTTTTATCCCCCCCATTGGCCTATAATCCCTACCAATCTGGTGCTTCCCCTATGGGTCTATTATCTGGGTGGGGGGGGTGGAACACAGATGG-TGGCTCTAGACGGGACACTGATGCTGGTGAGGGTGCTGAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACATTGCACCGAGgtgagcgctggcatcaaggttcacatgtgctattaaaagtgcaaggcagg Alignment from Pairagon GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGG-CTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctctataaggaaccttataaggaatgctattgctgttgttttagGTGGGAGCCTTGGTTTTTTATCCCCCCCATTGGCCTATAATCCCTACCAATCTGGTGCTTCCCCTATGGGTCTATTATCTGGGTGGGGGGGGTGGAACACAGATGG-TGGCTCTAGACGGGACACTGATGCTGGTGAGGGTGCTGAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACATTGCACCGAGgtgagcgctggcatcaaggttcacatgtgctattaaaagtgcaaggcagg Alignment from Exonerate_protein2genome GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctctataaggaaccttataaggaatgctattgctgttgttttagGTGGGAGCCTTGGTTTTTTATCCCCCCCATTGGCCTATAATCCCTACCAATCTGGTGCTTCCCCTATGGGTCTATTATCTGGGTGGGGGGGGTGGAACACAGATGGTGGCTCTAGACGGGACACTGATGCTGGTGAGGGTGCTGAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACATTGCACCGAGgtgagcgctggcatcaaggttcacatgtgctattaaaagtgcaaggcagg Alignment from Exonerate_coding2genome GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctctataaggaaccttataaggaatgctattgctgttgttttagGTGGGAGCCTTGGTTTTTTATCCCCCCCATTGGCCTATAATCCCTACCAATCTGGTGCTTCCCCTATGGGTCTATTATCTGGGTGGGGGGGGTGGAACACAGATGGTGGCTCTAGACGGGACACTGATGCTGGTGAGGGTGCTGAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACATTGCACCGAGgtgagcgctggcatcaaggttcacatgtgctattaaaagtgcaaggcagg Alignment from GeneWise GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctctataaggaaccttataaggaatgctattgctgttgttttagGTGGGAGCCTTGGTTTTTTATCCCCCCCATTGGCCTATAATCCCTACCAATCTGGTGCTTCCCCTATGGGTCTATTATCTGGGTGGGGGGGGTGGAACACAGATGGTGGCTCTAGACGGGACACTGATGCTGGTGAGGGTGCTGAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACATTGCACCGAGgtgagcgctggcatcaaggttcacatgtgctattaaaagtgcaaggcagg #### Nfkb2_ID9837_15 --> 0 - 1 Original Alignment ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCC-ACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCT------------------------------------------CTCCGGGCAGGT---GCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGg ttgtaagcaaggagtggaaggctaacccgggtaattatctctgtttgcagACCCCGCTGCATCTTGCCTTAATCACTGGGCAGACAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTGCAGACCCCCACACTGCTGGAGAGGCACGAA---TCTGCACTCCACC-GGCTCACACCTGTGAAAATTTCTTGCCGTCTTGGACCTCTCAGGAGCTCAGAGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTACGCAGTGAAGCCCATGCTGTACCCCATATA---CATATGCCTGAGTTTGAGggtttgtggcgaactactcttgtccagagctaaaagccaaggcacaagaac Alignment from CESAR ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCC-ACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCT------------------------------------------CTCCGGGCAGGTGCTGCA---GCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGg ttgtaagcaaggagtggaaggctaacccgggtaattatctctgtttgcagACCCCGCTGCATCTTGCCTTAATCACTGGGCAGACAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTGCAGACCCCCACACTGCTGGAGAGGCAC---GAATCTGCACTCCAC-CGGCTCACACCTGTGAAAATTTCTTGCCGTCTTGGACCTCTCAGGAGCTCAGAGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTACGCAGTGAAGCCCATGCTGTACCCCATATA---CATATGCCTGAGTTTGAGggtttgtggcgaactactcttgtccagagctaaaagccaaggcacaagaac Alignment from Spaln_aa2Genome ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCAC TTGGCTCTCCGGGCAGGT---GCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG ttgtaagcaaggagtggaaggctaacccgggtaattatctctgtttgcagACCCCGCTGCATCTTGCCTTAATCACTGGGCAGACAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTGCAGACCCCCACACTGCTGGAGAGGCACGAATCTGCACTCCACCGgctcacacctgtgaaaatttcttgccgtcttggacctctcag---GAGCTCAGAGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTACGCAGTGAAGCCCATGCTGTACCCCATATA---CATATGCCTGAGTTTGAGGgtttgtggcgaactactcttgtccagagctaaaagccaaggcacaagaac Alignment from Spaln_nt2Genome ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCC-ACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTG GCTCTCCGGGCAGGTGCTGCAGC---CCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG ttgtaagcaaggagtggaaggctaacccgggtaattatctctgtttgcagACCCCGCTGCATCTTGCCTTAATCACTGGGCAGACAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTGCAGACCCCCACACTGCTGGAGAGGCAC---GAATCTGCACTCCAC-CGgctcacacctgtgaaaatttcttgccgtcttggacctctcagGAGCTCAGAGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTACGCAGTGAAGCCCATGCTGTACCCCATATA---CATATGCCTGAGTTTGAGGgtttgtggcgaactactcttgtccagagctaaaagccaaggcacaagaac Alignment from Pairagon ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGA-CCCCACGCTGCTGGATCGGCAC----------------------------------------------------------GGAGACTCCGCCCTCCACTTGGCTCTCCGGGCAGGTGCTGCA---GCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG ttgtaagcaaggagtggaaggctaacccgggtaattatctctgtttgcagACCCCGCTGCATCTTGCCTTAATCACTGGGCAGACAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTGCAGACCCCCACACTGCTGGAGAGGCACGAATCTGCACTCCACCGGCTCACACCTGTGAAAATTTCTTGCCGTCTTGGACCTCTCAGGAG--------------------CTCAGAGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTACGCAGTGAAGCCCATGCTGTACCCCATATA---CATATGCCTGAGTTTGAGGgtttgtggcgaactactcttgtccagagctaaaagccaaggcacaagaac Alignment from Exonerate_protein2genome ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGAC-CCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTG GCTCTCCGGGCAGGT---GCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG ttgtaagcaaggagtggaaggctaacccgggtaattatctctgtttgcagACCCCGCTGCATCTTGCCTTAATCACTGGGCAGACAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTGCAGACCCCCACACTGCTGGAGAGGCAC---GAATCTGCACTCCACCGGctcacacctgtgaaaatttcttgccgtcttggacctctcagGAGCTCAGAGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTACGCAGTGAAGCCCATGCTGTACCCCATATA---CATATGCCTGAGTTTGAGGgtttgtggcgaactactcttgtccagagctaaaagccaaggcacaagaac Alignment from Exonerate_coding2genome ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGAC-CCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTG GCTCTCCGGGCAGGT---GCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG ttgtaagcaaggagtggaaggctaacccgggtaattatctctgtttgcagACCCCGCTGCATCTTGCCTTAATCACTGGGCAGACAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTGCAGACCCCCACACTGCTGGAGAGGCAC---GAATCTGCACTCCACCGGctcacacctgtgaaaatttcttgccgtcttggacctctcagGAGCTCAGAGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTACGCAGTGAAGCCCATGCTGTACCCCATATA---CATATGCCTGAGTTTGAGGgtttgtggcgaactactcttgtccagagctaaaagccaaggcacaagaac Alignment from GeneWise ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCC---------------------------------------ACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCTCTCCGGGCAGGTGCT---GCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG ttgtaagcaaggagtggaaggctaacccgggtaattatctctgtttgcagACCCCGCTGCATCTTGCCTTAATCACTGGGCAGACAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTGCAGACCCCCACACTGCTGGAGAGGCACGAATCTGCACTCCACCGGCTCACACCTGTGAAAATTTCTTGCCGTCTTGGACCTCTCAGGAGCTCAGAGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTACGCAGTGAAGCCCATGCTGTACCCCATATA---CATATGCCTGAGTTTGAGGgtttgtggcgaactactcttgtccagagctaaaagccaaggcacaagaac #### Nfkb2_ID9839_17 --> 0 - 1 Original Alignment CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGA-AACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTg gatttggttgattgtggccagactttgttctctgtcccttctctgttcagCTACATGCCAATGTCAATACTTGGACCTTTGCTGCACAATACGCCACTCCATCTGGCAGCTGGACTTGGATCCC-AACACTTTCTCACCTCCTTCTAAAGGCTggtaggtcttgcattaacttgcatttacaaaattgaaagccaggggaggaa Alignment from CESAR CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGA-AACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTg gatttggttgattgtggccagactttgttctctgtcccttctctgttcagCTACATGCCAATGTCAATACTTGGACCTTTGCTGCACAATACGCCACTCCATCTGGCAGCTGGACTTGGAT-CCCAACACTTTCTCACCTCCTTCTAAAGGCTggtaggtcttgcattaacttgcatttacaaaattgaaagccaggggaggaa Alignment from Spaln_aa2Genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGA-AACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gatttggttgattgtggccagactttgttctctgtcccttctctgttcagCTACATGCCAATGTCAATACTTGGACCTTTGCTGCAcAATACGCCACTCCATCTGGCAGCTGGACTTGGATC-CCAACACTTTCTCACCTCCTTCTAAAGGCTGgtaggtcttgcattaacttgcatttacaaaattgaaagccaggggaggaa Alignment from Spaln_nt2Genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGA-AACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gatttggttgattgtggccagactttgttctctgtcccttctctgttcagCTACATGCCAATGTCAATACTTGGACCTTTGCTGCACAATACGCCACTCCATCTGGCAGCTGGACTTGGAT-CCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtaggtcttgcattaacttgcatttacaaaattgaaagccaggggaggaa Alignment from Pairagon CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGA-AACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gatttggttgattgtggccagactttgttctctgtcccttctctgttcagCTACATGCCAATGTCAATACTTGGACCTTTGCTGCACAATACGCCACTCCATCTGGCAGCTGGACTTGGAT-CCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtaggtcttgcattaacttgcatttacaaaattgaaagccaggggaggaa Alignment from Exonerate_protein2genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gatttggttgattgtggccagactttgttctctgtcccttctctgttcagCTACATGCCAATGTCAATACTTGGACCTTTGCTGCACAATACGCCACTCCATCTGGCAGCTGGACTTGGATCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtaggtcttgcattaacttgcatttacaaaattgaaagccaggggaggaa Alignment from Exonerate_coding2genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gatttggttgattgtggccagactttgttctctgtcccttctctgttcagCTACATGCCAATGTCAATACTTGGACCTTTGCTGCACAATACGCCACTCCATCTGGCAGCTGGACTTGGATCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtaggtcttgcattaacttgcatttacaaaattgaaagccaggggaggaa Alignment from GeneWise CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gatttggttgattgtggccagactttgttctctgtcccttctctgttcagCTACATGCCAATGTCAATACTTGGACCTTTGCTGCACAATACGCCACTCCATCTGGCAGCTGGACTTGGATCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtaggtcttgcattaacttgcatttacaaaattgaaagccaggggaggaa #### Nfkb2_ID9840_18 --> 2 - 0 Original Alignment gtGCTGACATCCATGCAGAGAATGAG-GAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtagtctttcaatgtttccttgtctcctgagtaggcGCTGATACCCATACAGAGAATGAACGAGCCACTGTGTCCTCTGCCATCCCCCTCAA-TTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGATCTCACTCGCAGTACAAAGgtgagttacgcagagtctgctactgttcagaaagtatccaagtgggtgta Alignment from CESAR gtGCTGACATCCATGCAGAGAATGAG-GAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtagtctttcaatgtttccttgtctcctgagtaggcGCTGATACCCATACAGAGAATGAACGAGCCACTGTGTCCTCTGCCATCCCCCTCA-ATTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGATCTCACTCGCAGTACAAAGgtgagttacgcagagtctgctactgttcagaaagtatccaagtgggtgta Alignment from Spaln_aa2Genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtagtctttcaatgtttccttgtctcctgagtagGCGCTGATACCCATACAGAGAATGAACGAGCCACTGTGTCCTCTGCCATCCCCCTCAATTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGATCTCACTCGCAGTACAAAGgtgagttacgcagagtctgctactgttcagaaagtatccaagtgggtgta Alignment from Spaln_nt2Genome GTGCTGACATCCATGCAGAGAATGAG-GAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtagtctttcaatgtttccttgtctcctgagtagGCGCTGATACCCATACAGAGAATGAACGAGCCACTGTGTCCTCTGCCATCCCCCTC-AATTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGATCTCACTCGCAGTACAAAGgtgagttacgcagagtctgctactgttcagaaagtatccaagtgggtgta Alignment from Pairagon GTGCTGACATCCATGCAGAGAATGAG-GAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAGGTG----------------------------------------------- cagttagagactataagtagtctttcaatgtttccttgtctcctgagtagGCGCTGATACCCATACAGAGAATGAACGAGCCACTGTGTCCTCTGCCATCCCCCTCAA-TTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGATCTCACTCGCAGTACAAAGGTGAGTTACGCAGAGTCTGCTACTGTTCAGAAAGTATCCAAGTGGGTGTA Alignment from Exonerate_protein2genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtagtctttcaatgtttccttgtctcctgagtagGCGCTGATACCCATACAGAGAATGAACGAGCCACTGTGTCCTCTGCCATCCCCCTCAATTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGATCTCACTCGCAGTACAAAGgtgagttacgcagagtctgctactgttcagaaagtatccaagtgggtgta Alignment from Exonerate_coding2genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtagtctttcaatgtttccttgtctcctgagtagGCGCTGATACCCATACAGAGAATGAACGAGCCACTGTGTCCTCTGCCATCCCCCTCAATTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGATCTCACTCGCAGTACAAAGgtgagttacgcagagtctgctactgttcagaaagtatccaagtgggtgta Alignment from GeneWise --GGTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtagtctttcaatgtttccttgtctcctgagTAGGCGCTGATACCCATACAGAGAATGAACGAGCCACTGTGTCCTCTGCCATCCCCCTCAATTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGATCTCACTCGCAGTACAAAGgtgagttacgcagagtctgctactgttcagaaagtatccaagtgggtgta #### Nfkb2_ID9841_19 --> 0 - 1 Original Alignment GTG---AAGACTCTGCTG-CTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAg tgatagtgacacatacttcccctttaggcctccatctgccatccccacagGTAAAAAAAACCCTACTGCCTAAACGCTGCTCAGAATTCCACAGAGCCACCCTTGGCCC-ACCGACCCCAGTAggtacccctgcagtgacttctggcacaaggcgcaatatccttagagattaa Alignment from CESAR GTG---AAGACTCTGCTG-CTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAg tgatagtgacacatacttcccctttaggcctccatctgccatccccacagGTAAAAAAAACCCTACTGCCTAAACGCTGCTCAGAATTCCACAGAGCCACCCTTGG-CCCACCGACCCCAGTAggtacccctgcagtgacttctggcacaaggcgcaatatccttagagattaa Alignment from Spaln_aa2Genome GTG---AAGACTCTGCTG-CTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG tgatagtgacacatacttcccctttaggcctccatctgccatccccacagGTAAAAAAAACCCTACTGcCTAAACGCTGCTCAGAATTCCACAGAGCCACCCTTGGC-CCACCGACCCCAGTAGgtacccctgcagtgacttctggcacaaggcgcaatatccttagagattaa Alignment from Spaln_nt2Genome GTGAAGA---CTCTGCTGC-TAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG tgatagtgacacatacttcccctttaggcctccatctgccatccccacagGTAAAAAAAACCCTACTGCCTAAACGCTGCTCAGAATTCCACAGAGCCACCCTTGG-CCCACCGACCCCAGTAGgtacccctgcagtgacttctggcacaaggcgcaatatccttagagattaa Alignment from Pairagon ---------------------------------------------------------------------CTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG TGATAGTGACACATACTTCCCCTTTAGGCCTCCATCTGCCATCCCCACAGGTAAAAAAAACCCTACTGCCTAAACGCTGCTCAGAATTCCACAGAGCCACCCTTGG-CCCACCGACCCCAGTAGgtacccctgcagtgacttctggcacaaggcgcaatatccttagagattaa Alignment from Exonerate_protein2genome GTG---AAGACTCTGCTGCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG tgatagtgacacatacttcccctttaggcctccatctgccatccccacagGTAAAAAAAACCCTACTGCCTAAACGCTGCTCAGAATTCCACAGAGCCACCCTTGGCCCACCGACCCCAGTAGgtacccctgcagtgacttctggcacaaggcgcaatatccttagagattaa Alignment from Exonerate_coding2genome tgatagtgacacatacttcccctttaggcctccatctgccatccccacaggtaaaaaaaaccctactgcctaaacgctgctcagaattccacagagccacccttggcccaccgaccccagtaggtacccctgcagtgacttctggcacaaggcgcaatatccttagagattaa Alignment from GeneWise GTGAAG---ACTCTGCTGCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG tgatagtgacacatacttcccctttaggcctccatctgccatccccacagGTAAAAAAAACCCTACTGCCTAAACGCTGCTCAGAATTCCACAGAGCCACCCTTGGCCCACCGACCCCAGTAGgtacccctgcagtgacttctggcacaaggcgcaatatccttagagattaa #### Noc3l_ID7658_17 --> 2 - 0 Original Alignment gtGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTT-TGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT gcacccctgaatacaagaggtgatgaatcctcttcttcctgtttccacaggcACCACTAATGATGGCATAGAGATTGTGCTCCACTGCCTGGATGTCATGGTTAGCAAATGCAGAAAGCAAGTTTCT---CAGAGGGCTATTGCCTTCATCAAGCGCCTTCTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCA-TGGGCTTTTACCAACTACAAGGGTACTGATGCATgtatatcaaagtctgaagagagttaagttgtgcaggtcaaacaggctgca Alignment from CESAR gtGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTT-TGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT gcacccctgaatacaagaggtgatgaatcctcttcttcctgtttccacaggcACCACTAATGATGGCATAGAGATTGTGCTCCACTGCCTGGATGTCATGGTTAGCAAATGCAGAAAGCAAGTTTCT---CAGAGGGCTATTGCCTTCATCAAGCGCCTTCTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATGG-GCTTTTACCAACTACAAGGGTACTGATGCATgtatatcaaagtctgaagagagttaagttgtgcaggtcaaacaggctgca Alignment from Spaln_aa2Genome GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTT-TGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT gcacccctgaatacaagaggtgatgaatcctcttcttcctgtttccacagGCACCACTAATGATGGCATAGAGATTGTGCTCCACTGCCTGGATGTCATGGTTAGCAAATGCAGAAAGCAAGTTTCT---CAGAGGGCTATTGCCTTCATCAAGCGCCTTcTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATGGG-CTTTTACCAACTACAAGGGTACTGATGCATgtatatcaaagtctgaagagagttaagttgtgcaggtcaaacaggctgca Alignment from Spaln_nt2Genome GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTT-TGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT gcacccctgaatacaagaggtgatgaatcctcttcttcctgtttccacagGCACCACTAATGATGGCATAGAGATTGTGCTCCACTGCCTGGATGTCATGGTTAGCAAATGCAGAAAGCAAGTTTC---TCAGAGGGCTATTGCCTTCATCAAGCGCCTTCTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATG-GGCTTTTACCAACTACAAGGGTACTGATGCATgtatatcaaagtctgaagagagttaagttgtgcaggtcaaacaggctgca Alignment from Pairagon GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTT-TGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT gcacccctgaatacaagaggtgatgaatcctcttcttcctgtttccacagGCACCACTAATGATGGCATAGAGATTGTGCTCCACTGCCTGGATGTCATGGTTAGCAAATGCAGAAAGCAAGTTTC---TCAGAGGGCTATTGCCTTCATCAAGCGCCTTCTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCA-TGGGCTTTTACCAACTACAAGGGTACTGATGCATgtatatcaaagtctgaagagagttaagttgtgcaggtcaaacaggctgca Alignment from Exonerate_protein2genome GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT gcacccctgaatacaagaggtgatgaatcctcttcttcctgtttccacagGCACCACTAATGATGGCATAGAGATTGTGCTCCACTGCCTGGATGTCATGGTTAGCAAATGCAGAAAGCAAGTTTCT---CAGAGGGCTATTGCCTTCATCAAGCGCCTTCTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATGGGCTTTTACCAACTACAAGGGTACTGATGCATgtatatcaaagtctgaagagagttaagttgtgcaggtcaaacaggctgca Alignment from Exonerate_coding2genome GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT gcacccctgaatacaagaggtgatgaatcctcttcttcctgtttccacagGCACCACTAATGATGGCATAGAGATTGTGCTCCACTGCCTGGATGTCATGGTTAGCAAATGCAGAAAGCAAGTTTCT---CAGAGGGCTATTGCCTTCATCAAGCGCCTTCTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATGGGCTTTTACCAACTACAAGGGTACTGATGCATgtatatcaaagtctgaagagagttaagttgtgcaggtcaaacaggctgca Alignment from GeneWise GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT gcacccctgaatacaagaggtgatgaatcctcttcttcctgtttccacagGCACCACTAATGATGGCATAGAGATTGTGCTCCACTGCCTGGATGTCATGGTTAGCAAATGCAGAAAGCAAGTTTCT---CAGAGGGCTATTGCCTTCATCAAGCGCCTTCTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATGGGCTTTTACCAACTACAAGGGTACTGATGCATgtatatcaaagtctgaagagagttaagttgtgcaggtcaaacaggctgca #### Noc3l_ID7659_16 --> 2 - 1 Original Alignment gtGATGTTTTAAATATT-GACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAg catttggtctccctttcatttcactaaatcgtgtgttctctttcccacaggaGATGATTTGAATATTCGACCCCATGAAATTTTATACCCCACTATTTCAGACAC-ATTTACATTGCATGCAggtatttcattgtagcttagagcgtttttattcagtggttgctagtattga Alignment from CESAR gtGATGTTTTAAATATT-GACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAg catttggtctccctttcatttcactaaatcgtgtgttctctttcccacaggaGATGATTTGAATATTCGACCCCATGAAATTTTATACCCCACTATTTCAGACA-CATTTACATTGCATGCAggtatttcattgtagcttagagcgtttttattcagtggttgctagtattga Alignment from Spaln_aa2Genome GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG catttggtctccctttcatttcactaaatcgtgtgttctctttcccacagGAGATGATTTGAATATTCGACCCCATGAAATTTTATACCCCACTATTTCAGACACATTTACATTGCATGCAGgtatttcattgtagcttagagcgtttttattcagtggttgctagtattga Alignment from Spaln_nt2Genome GTGATGTTTTAAATATT-GACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG catttggtctccctttcatttcactaaatcgtgtgttctctttcccacagGAGATGATTTGAATATTCGACCCCATGAAATTTTATACCCCACTATTTCAGACAC-ATTTACATTGCATGCAGgtatttcattgtagcttagagcgtttttattcagtggttgctagtattga Alignment from Pairagon ----------------------------------------------------GATGTTTTAAATATT-GACCCGATGAAATTCTAT---------------ACACATCTCTACAAGACACTGTTCACATTACATGCAG CATTTGGTCTCCCTTTCATTTCACTAAATCGTGTGTTCTCTTTCCCACAGGAGATGATTTGAATATTCGACCCCATGAAATTTTATACCCCACTATTTCAGACACA----------------TTTACATTGCATGCAGgtatttcattgtagcttagagcgtttttattcagtggttgctagtattga Alignment from Exonerate_protein2genome GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG catttggtctccctttcatttcactaaatcgtgtgttctctttcccacagGAGATGATTTGAATATTCGACCCCATGAAATTTTATACCCCACTATTTCAGACACATTTACATTGCATGCAGgtatttcattgtagcttagagcgtttttattcagtggttgctagtattga Alignment from Exonerate_coding2genome GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG catttggtctccctttcatttcactaaatcgtgtgttctctttcccacagGAGATGATTTGAATATTCGACCCCATGAAATTTTATACCCCACTATTTCAGACACATTTACATTGCATGCAGgtatttcattgtagcttagagcgtttttattcagtggttgctagtattga Alignment from GeneWise AAATATTGACCCGATGAAATTCTATACACAT- CATTTGGTCTCCCTTTCATTTCACTAAATCGTgtgttctctttcccacaggagatgatttgaatattcgaccccatgaaattttataccccactatttcagacacatttacattgcatgcaggtatttcattgtagcttagagcgtttttattcagtggttgctagtattga #### Npm3_ID9576_4 --> 0 - 1 Original Alignment CTCAGTGTGGAT-GATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCg tgaattccagaatgcaaggcaatggcacgaattttaaaataattttatagCTTGGTGTTGATCGATCTCCAACTCCAACCACCAGTTTCCTTCCGATTGA-GTCAGGTTCAGGTCCAGTTCGAATC---------CATCAGATTggtacttggggagaatgtctaggactattatgcagtgatttgccagcaaca Alignment from CESAR CTCAGTGTGGAT-GATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCg tgaattccagaatgcaaggcaatggcacgaattttaaaataattttatagCTTGGTGTTGATCGATCTCCAACTCCAACCACCAGTTTCCTTCCGAT-TGAGTCAGGTTCAGGTCCAGTTCGAATC---------CATCAGATTggtacttggggagaatgtctaggactattatgcagtgatttgccagcaaca Alignment from Spaln_aa2Genome -CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG tgaattccagaatgcaaggcaatggcacgaattttaaaataattttatagCTTGGTGTTGATCGATCTCCAACTCCAACCACCAGTTTCCTTCCGATTGAG-TCAGGTTCAGGTCCAGTTCGAATC---------CATCAGATTGgtacttggggagaatgtctaggactattatgcagtgatttgccagcaaca Alignment from Spaln_nt2Genome CTCAGTGTGGAT-GATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG tgaattccagaatgcaaggcaatggcacgaattttaaaataattttatagCTTGGTGTTGATCGATCTCCAACTCCAACCACCAGTTTCCTTCCGATTG-AGTCAGGTTCAGGTCCAGTTCGAATC---------CATCAGATTGgtacttggggagaatgtctaggactattatgcagtgatttgccagcaaca Alignment from Pairagon CTCAGTGTGGAT-GATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG tgaattccagaatgcaaggcaatggcacgaattttaaaataattttatagCTTGGTGTTGATCGATCTCCAACTCCAACCACCAGTTTCCTTCCGATTG-AGTCAGGTTCAGGTCCAGTTCGAATC---------CATCAGATTGgtacttggggagaatgtctaggactattatgcagtgatttgccagcaaca Alignment from Exonerate_protein2genome CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG tgaattccagaatgcaaggcaatggcacgaattttaaaataattttatagCTTGGTGTTGATCGATCTCCAACTCCAACCACCAGTTTCCTTCCGATTGAGTCAGGTTCAGGTCCAGTTCGAATC---------CATCAGATTGgtacttggggagaatgtctaggactattatgcagtgatttgccagcaaca Alignment from Exonerate_coding2genome CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG tgaattccagaatgcaaggcaatggcacgaattttaaaataattttatagCTTGGTGTTGATCGATCTCCAACTCCAACCACCAGTTTCCTTCCGATTGAGTCAGGTTCAGGTCCAGTTCGAATC---------CATCAGATTGgtacttggggagaatgtctaggactattatgcagtgatttgccagcaaca Alignment from GeneWise ----AGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG tgaattccagaatgcaaggcaatggcacgaattttaaaataattttatagCTTGGTGTTGATCGATCTCCAACTCCAACCACCAGTTTCCTTCCGATTGAG-TCAGGTTCAGGTCCAGTTCGAATC---------CATCAGATTGgtacttggggagaatgtctaggactattatgcagtgatttgccagcaaca #### Npm3_ID9578_2 --> 2 - 0 Original Alignment gtTGTGAGCTCTCCGGCCACACCCGC-TCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggtccagggtgtacctaggaggtatagacgtccgtgtctccctaggtTGTGAGCTCTCTGATCACACACGCCTCGTTCACTTTCAATGTTGCAGAGGAAGATG-CACAGAGCAGGTGCTGGCATTGAACATGgtgagtgctacataaggagtgaggtcaggcacacccctggtcttatcttt Alignment from CESAR gtTGTGAGCTCTCCGGCCACACCCGC-TCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggtccagggtgtacctaggaggtatagacgtccgtgtctccctaggtTGTGAGCTCTCTGATCACACACGCCTCGTTCACTTTCAATGTTGCAGAGGAAGAT-GCACAGAGCAGGTGCTGGCATTGAACATGgtgagtgctacataaggagtgaggtcaggcacacccctggtcttatcttt Alignment from Spaln_aa2Genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggtccagggtgtacctaggaggtatagacgtccgtgtctccctagGTTGTGAGCTCTCTGATCACACACGCCTCGTTCACTTTCAATGTTGCAGAGGAAGATGCACAGAGCAGGTGCTGGCATTGAACATGgtgagtgctacataaggagtgaggtcaggcacacccctggtcttatcttt Alignment from Spaln_nt2Genome GTTGTGAGCTCTCCGGCCACACCCGC-TCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggtccagggtgtacctaggaggtatagacgtccgtgtctccctagGTTGTGAGCTCTCTGATCACACACGCCTCGTTCACTTTCAATGTTGCAGAGGAAGATG-CACAGAGCAGGTGCTGGCATTGAACATGgtgagtgctacataaggagtgaggtcaggcacacccctggtcttatcttt Alignment from Pairagon GTTGTGAGCTCTCCGGCCACACCCG-CTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggtccagggtgtacctaggaggtatagacgtccgtgtctccctagGTTGTGAGCTCTCTGATCACACACGCCTCGTTCACTTTCAATGTTGCAGAGGAAGATG-CACAGAGCAGGTGCTGGCATTGAACATGgtgagtgctacataaggagtgaggtcaggcacacccctggtcttatcttt Alignment from Exonerate_protein2genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggtccagggtgtacctaggaggtatagacgtccgtgtctccctagGTTGTGAGCTCTCTGATCACACACGCCTCGTTCACTTTCAATGTTGCAGAGGAAGATGCACAGAGCAGGTGCTGGCATTGAACATGgtgagtgctacataaggagtgaggtcaggcacacccctggtcttatcttt Alignment from Exonerate_coding2genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggtccagggtgtacctaggaggtatagacgtccgtgtctccctagGTTGTGAGCTCTCTGATCACACACGCCTCGTTCACTTTCAATGTTGCAGAGGAAGATGCACAGAGCAGGTGCTGGCATTGAACATGgtgagtgctacataaggagtgaggtcaggcacacccctggtcttatcttt Alignment from GeneWise GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggtccagggtgtacctaggaggtatagacgtccgtgtctccctagGTTGTGAGCTCTCTGATCACACACGCCTCGTTCACTTTCAATGTTGCAGAGGAAGATGCACAGAGCAGGTGCTGGCATTGAACATGgtgagtgctacataaggagtgaggtcaggcacacccctggtcttatcttt #### Nt5c2_ID10036_17 --> 0 - 0 Original Alignment AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTT-GCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG gtattgccaaaggattagatatagttgcgtctgctgttgtcctctttcagGAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTCGCCAGCCTAGTTATGCGTTATGCAGACCTCT-CACATCCTCATTCATTAACCTACTGTACTACCCGTTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtcagtactgatccttacaactgacagttgatgcaacaccacagtcacta Alignment from CESAR AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTT-GCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG gtattgccaaaggattagatatagttgcgtctgctgttgtcctctttcagGAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTCGCCAGCCTAGTTATGCGTTATGCAGACCTC-TCACATCCTCATTCATTAACCTACTGTACTACCCGTTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtcagtactgatccttacaactgacagttgatgcaacaccacagtcacta Alignment from Spaln_aa2Genome AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG gtattgccaaaggattagatatagttgcgtctgctgttgtcctctttcagGAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTCGCCAGCCTAGTTATGCGTTATGCAGACCTCTCACATCCTCATTCATTAACCTACTGTACTACCCGTTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtcagtactgatccttacaactgacagttgatgcaacaccacagtcacta Alignment from Spaln_nt2Genome AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTT-GCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG gtattgccaaaggattagatatagttgcgtctgctgttgtcctctttcagGAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTCGCCAGCCTAGTTATGCGTTATGCAGACCTCT-CACATCCTCATTCATTAACCTACTGTACTACCCGTTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtcagtactgatccttacaactgacagttgatgcaacaccacagtcacta Alignment from Pairagon AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTT-GCCAGCCAAGTGATGCGCTATGCAGATCTCT---ATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG gtattgccaaaggattagatatagttgcgtctgctgttgtcctctttcagGAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTCGCCAGCCTAGTTATGCGTTATGCAGACCTCTCACAT----CCTCATTCATTAACCTACTGTACTACCCGTTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtcagtactgatccttacaactgacagttgatgcaacaccacagtcacta Alignment from Exonerate_protein2genome AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG gtattgccaaaggattagatatagttgcgtctgctgttgtcctctttcagGAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTCGCCAGCCTAGTTATGCGTTATGCAGACCTCTCACATCCTCATTCATTAACCTACTGTACTACCCGTTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtcagtactgatccttacaactgacagttgatgcaacaccacagtcacta Alignment from Exonerate_coding2genome AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG gtattgccaaaggattagatatagttgcgtctgctgttgtcctctttcagGAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTCGCCAGCCTAGTTATGCGTTATGCAGACCTCTCACATCCTCATTCATTAACCTACTGTACTACCCGTTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtcagtactgatccttacaactgacagttgatgcaacaccacagtcacta Alignment from GeneWise AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG gtattgccaaaggattagatatagttgcgtctgctgttgtcctctttcagGAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTCGCCAGCCTAGTTATGCGTTATGCAGACCTCTCACATCCTCATTCATTAACCTACTGTACTACCCGTTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtcagtactgatccttacaactgacagttgatgcaacaccacagtcacta #### Nt5c2_ID10040_13 --> 0 - 1 Original Alignment AAAACTGGAAAACTG-AAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGg tgagtaccagactaatgagaaagctgaaaattttattttccatttggcagAAAACTGGAAAACTGCAAGAATGGCTCCTACACAGGCCCTTTGCAGCAT---GTTGTATATTCTGGGggtaaggatgccatcagcctatgagggttattttcatgagaagtactcttt Alignment from CESAR AAAACTGGAAAACTG-AAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGg tgagtaccagactaatgagaaagctgaaaattttattttccatttggcagAAAACTGGAAAACTGCAAGAATGGCTCCTACACAGGCCCTTTGCAGCAT---GTTGTATATTCTGGGggtaaggatgccatcagcctatgagggttattttcatgagaagtactcttt Alignment from Spaln_aa2Genome AAAACTGGAAAACTG-AAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgagtaccagactaatgagaaagctgaaaattttattttccatttggcagAAAACTGGAAAACTGcAAGAATGGCTCCTACACAGGCCCTTTGCAGCAT---GTTGTATATTCTGGGGgtaaggatgccatcagcctatgagggttattttcatgagaagtactcttt Alignment from Spaln_nt2Genome AAAACTGGAAAACTGAAA-ATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgagtaccagactaatgagaaagctgaaaattttattttccatttggcagAAAACTGGAAAACTGCAAGAATGGCTCCTACACAGGCCCTTTGCAGCATG---TTGTATATTCTGGGGgtaaggatgccatcagcctatgagggttattttcatgagaagtactcttt Alignment from Pairagon AAAACTGGAAAACTG-AAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgagtaccagactaatgagaaagctgaaaattttattttccatttggcagAAAACTGGAAAACTGCAAGAATGGCTCCTACACAGGCCCTTTGCAGCATG---TTGTATATTCTGGGGgtaaggatgccatcagcctatgagggttattttcatgagaagtactcttt Alignment from Exonerate_protein2genome AAAACTGGAAAACTG-AAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgagtaccagactaatgagaaagctgaaaattttattttccatttggcagAAAACTGGAAAACTGCAAGAATGGCTCCTACACAGGCCCTTTGCAGCAT---GTTGTATATTCTGGGGgtaaggatgccatcagcctatgagggttattttcatgagaagtactcttt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AAAACTGGAAAACTGAAA-ATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgagtaccagactaatgagaaagctgaaaattttattttccatttggcagAAAACTGGAAAACTGCAAGAATGGCTCCTACACAGGCCCTTTGCAGCAT---GTTGTATATTCTGGGGgtaaggatgccatcagcctatgagggttattttcatgagaagtactcttt #### Nt5c2_ID10041_12 --> 0 - 0 Original Alignment CCCGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGAC-CTGATTTTGGTGGATGCTCGGAAACCACTCTTTTTTGGAGAAGGCACAGTGCTGCGTCAGGTGGACACT caaggaacttctggcttccatgagaagatcttatctctcctatttcccagCCTGGGAGCTCACACCGGCCATGGCAGTCCTACTTTGACCCTGATTCTG---GATGCTCGGAAACCACTCT-TTTTGGTGAAGGAACAGTGCTGCGTCAGGTTGACACTgtgagagtgaaacaaaatggattaaatagatatgaaccctgatcctcaca Alignment from CESAR CCCGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGAC-CTGATTTTGGTGGATGCTCGGAAACCACTCTTTTTTGGAGAAGGCACAGTGCTGCGTCAGGTGGACACT caaggaacttctggcttccatgagaagatcttatctctcctatttcccagCCTGGGAGCTCACACCGGCCATGGCAGTCCTACTTTGACCCTGATTCTG---GATGCTCGGAAACCACTCT-TTTTGGTGAAGGAACAGTGCTGCGTCAGGTTGACACTgtgagagtgaaacaaaatggattaaatagatatgaaccctgatcctcaca Alignment from Spaln_aa2Genome CCCGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGAC-CTGATTTTGGTGGATGCTCGGAAACCACTCTTTTTTGGAGAAGGCACAGTGCTGCGTCAGGTGGACACT caaggaacttctggcttccatgagaagatcttatctctcctatttcccagCCTGGGAGCTCACACCGGCCATGGCAGTCCTACTTTGACcCTGATTCTG---GATGCTCGGAAACCACTCTT-TTTGGTGAAGGAACAGTGCTGCGTCAGGTTGACACTgtgagagtgaaacaaaatggattaaatagatatgaaccctgatcctcaca Alignment from Spaln_nt2Genome CCCGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGACC-TGATTTTGGTGGATGCTCGGAAACCACTCTTTTTTGGAGAAGGCACAGTGCTGCGTCAGGTGGACACT caaggaacttctggcttccatgagaagatcttatctctcctatttcccagCCTGGGAGCTCACACCGGCCATGGCAGTCCTACTTTGACCCTGATT---CTGGATGCTCGGAAACCACTCTTTTTG-GTGAAGGAACAGTGCTGCGTCAGGTTGACACTgtgagagtgaaacaaaatggattaaatagatatgaaccctgatcctcaca Alignment from Pairagon CCCGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGA-CCTGATTTTGGTGGATGCTCGGAAACCACTCTTTTTTGGAGAAGGCACAGTGCTGCGTCAGGTGGACACT caaggaacttctggcttccatgagaagatcttatctctcctatttcccagCCTGGGAGCTCACACCGGCCATGGCAGTCCTACTTTGACCCTGATTC---TGGATGCTCGGAAACCACTC-TTTTTGGTGAAGGAACAGTGCTGCGTCAGGTTGACACTgtgagagtgaaacaaaatggattaaatagatatgaaccctgatcctcaca Alignment from Exonerate_protein2genome CCCGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGACCTGATTTTGGTGGATGCTCGGAAACCACTCTTTTTTGGAGAAGGCACAGTGCTGCGTCAGGTGGACACT caaggaacttctggcttccatgagaagatcttatctctcctatttcccagCCTGGGAGCTCACACCGGCCATGGCAGTCCTACTTTGACCCTGAT---TCTGGATGCTCGGAAACCACTCTTTTTGGTGAAGGAACAGTGCTGCGTCAGGTTGACACTgtgagagtgaaacaaaatggattaaatagatatgaaccctgatcctcaca Alignment from Exonerate_coding2genome CCCGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGACCTGATTTTGGTGGATGCTCGGAAACCACTCTTTTTTGGAGAAGGCACAGTGCTGCGTCAGGTGGACACT caaggaacttctggcttccatgagaagatcttatctctcctatttcccagCCTGGGAGCTCACACCGGCCATGGCAGTCCTACTTTGAC--CCTGATTCTGGATGCTCGGAAACCACTCTT-TTTGGTGAAGGAACAGTGCTGCGTCAGGTTGACACTgtgagagtgaaacaaaatggattaaatagatatgaaccctgatcctcaca Alignment from GeneWise CCCGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGACCTGATTTTGGTGGATGCTCGGAAACCACTCTTTTTTGGAGAAGGCACAGTGCTGCGTCAGGTGGACACT caaggaacttctggcttccatgagaagatcttatctctcctatttcccagCCTGGGAGCTCACACCGGCCATGGCAGTCCTACTTTGACCCTGATTCT---GGATGCTCGGAAACCACTCTTTTTGGTGAAGGAACAGTGCTGCGTCAGGTTGACACTgtgagagtgaaacaaaatggattaaatagatatgaaccctgatcctcaca #### Nudt22_ID1971_4 --> 1 - 0 Original Alignment gTGCAGCTTGACTTCA-GAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gactacgaggattcagcactatcctgggactccctatgcataccccacaggTGCAGCTTGACTTCACGAGGAGGTCAGGAGCTATTACCTGAGTGGGG-ACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACGCAGgtaaaagaatttagctccagttggctgctagcacattcagggttattaac Alignment from CESAR gTGCAGCTTGACTTCA-GAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gactacgaggattcagcactatcctgggactccctatgcataccccacaggTGCAGCTTGACTTCACGAGGAGGTCAGGAGCTATTACCTGAGTG-GGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACGCAGgtaaaagaatttagctccagttggctgctagcacattcagggttattaac Alignment from Spaln_aa2Genome GTGCAGCTTGACTTCA-GAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gactacgaggattcagcactatcctgggactccctatgcataccccacagGTGCAGCTTGACTTCAcGAGGAGGTCAGGAGCTATTACCTGAGTGG-GGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACGCAGgtaaaagaatttagctccagttggctgctagcacattcagggttattaac Alignment from Spaln_nt2Genome GTGCAGCTTGACTTCA-GAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gactacgaggattcagcactatcctgggactccctatgcataccccacagGTGCAGCTTGACTTCACGAGGAGGTCAGGAGCTATTACCTGAGT-GGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACGCAGgtaaaagaatttagctccagttggctgctagcacattcagggttattaac Alignment from Pairagon GTGCAGCTTGACTTCA-GAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gactacgaggattcagcactatcctgggactccctatgcataccccacagGTGCAGCTTGACTTCACGAGGAGGTCAGGAGCTATTACCTGAGT-GGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACGCAGgtaaaagaatttagctccagttggctgctagcacattcagggttattaac Alignment from Exonerate_protein2genome GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gactacgaggattcagcactatcctgggactccctatgcataccccacagGTGCAGCTTGACTTCACGAGGAGGTCAGGAGCTATTACCTGAGTGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACGCAGgtaaaagaatttagctccagttggctgctagcacattcagggttattaac Alignment from Exonerate_coding2genome GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gactacgaggattcagcactatcctgggactccctatgcataccccacagGTGCAGCTTGACTTCACGAGGAGGTCAGGAGCTATTACCTGAGTGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACGCAGgtaaaagaatttagctccagttggctgctagcacattcagggttattaac Alignment from GeneWise GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gactacgaggattcagcactatcctgggactccctatgcataccccacagGTGCAGCTTGACTTCACGAGGAGGTCAGGAGCTATTACCTGAGTGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACGCAGgtaaaagaatttagctccagttggctgctagcacattcagggttattaac #### Nudt8_ID267_2 --> 1 - 0 Original Alignment tTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTA---ATACATACGGCCCTTCGGGAG-ACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG gttgctcaacctagagcattaaacattaacaagtacacatatgtttaaagtTTCCCAGGTGGTAAGTGTGACCCTGATGACCGAGATGTTGTAATACACACTGCCCTTCAGGAGCACACAGGAGGAGTTAGACTTG---GTACCCAAGGAGCATGTTT-GGGGGTGCTGCAACCTGTGCATGACCGGgtaagtacttcaatagcaaaaccctatcatccagatgactgagatcagct Alignment from CESAR tTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAG-ACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG gttgctcaacctagagcattaaacattaacaagtacacatatgtttaaagtTTCCCAGGTGGTAAGTGTGACCCTGATGACCGAGATGTTGTAATACACACTGCCCTTCAGGAGCACACAGGAGGAGTTAGACTTG---GTACCCAAGGAGCATGTTT-GGGGGTGCTGCAACCTGTGCATGACCGGgtaagtacttcaatagcaaaaccctatcatccagatgactgagatcagct Alignment from Spaln_aa2Genome TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG gttgctcaacctagagcattaaacattaacaagtacacatatgtttaaagTTTCCCAGGTGGTAAGTGTGACCCTGATGACCGAGATGTTGTAATACACACTGCCCTTCAGGAGCACACAGGAGGAGTTAGACTTGGTACCCAAGGAGCATGTTTG---GGGGTGCTGCAACCTGTGCATGACCGGgtaagtacttcaatagcaaaaccctatcatccagatgactgagatcagct Alignment from Spaln_nt2Genome TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGT---AATACATACGGCCCTTCGGGAG-ACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG gttgctcaacctagagcattaaacattaacaagtacacatatgtttaaagTTTCCCAGGTGGTAAGTGTGACCCTGATGACCGAGATGTTGTAATACACACTGCCCTTCAGGAGCACACAGGAGGAGTTAGACTT---GGTACCCAAGGAGCATGTTTGGGG-GTGCTGCAACCTGTGCATGACCGGgtaagtacttcaatagcaaaaccctatcatccagatgactgagatcagct Alignment from Pairagon TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGA---TGTAATACATACGGCCCTTCGGGAG-ACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG gttgctcaacctagagcattaaacattaacaagtacacatatgtttaaagTTTCCCAGGTGGTAAGTGTGACCCTGATGACCGAGATGTTGTAATACACACTGCCCTTCAGGAGCACACAGGAGGAGTTAGACTT---GGTACCCAAGGAGCATGTTTGGGG-GTGCTGCAACCTGTGCATGACCGGgtaagtacttcaatagcaaaaccctatcatccagatgactgagatcagct Alignment from Exonerate_protein2genome TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAG-ACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGT--GTCCTGCAGCCAGTGTATGACCGG gttgctcaacctagagcattaaacattaacaagtacacatatgtttaaagTTTCCCAGGTGGTAAGTGTGACCCTGATGACCGAGATGTTGTAATACACACTGCCCTTCAGGAGCACACAGGAGGAGTTAGACTTG---GTACCCAAGGAGCATGTTTGGGGGTG---CTGCAACCTGTGCATGACCGGgtaagtacttcaatagcaaaaccctatcatccagatgactgagatcagct Alignment from Exonerate_coding2genome gttgctcaacctagagcattaaacattaacaagtacacatatgtttaaagtttcccaggtggtaagtgtgaccctgatgaccgagatgttgtaatacacactgcccttcaggagcacacaggaggagttagacttggtacccaaggagcatgtttgggggtgctgcaacctgtgcatgaccgggtaagtacttcaatagcaaaaccctatcatccagatgactgagatcagct Alignment from GeneWise TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTA---ATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG gttgctcaacctagagcattaaacattaacaagtacacatatgtttaaagTTTCCCAGGTGGTAAGTGTGACCCTGATGACCGAGATGTTGTAATACACACTGCCCTTCAGGAGCACACAGGAGGAGTTAGACTTGGTACC---CAAGGAGCATGTTTGGGGGTGCTGCAACCTGTGCATGACCGGgtaagtacttcaatagcaaaaccctatcatccagatgactgagatcagct #### Nxf1_ID2345_5 --> 0 - 0 Original Alignment TTTCACTATGAAAATACACGGGCCCATTTTTTT-GTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATC---CAGGATCGAGAAAACAGAAGG tgagcagcttatgttggatgaggggtactcttacttgttttttctttcagTTTCACTATGAAAATACACGCACTCATTTCTTTCGTAGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTGA-CCATAAGATCATCCAGGATCGAGAGAACAGACGGgtgagtagacagctgacattattaaaatgaactgattgtaacaacttttt Alignment from CESAR TTTCACTATGAAAATACACGGGCCCATTTTTTT-GTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGAGAAAACAGAAGG tgagcagcttatgttggatgaggggtactcttacttgttttttctttcagTTTCACTATGAAAATACACGCACTCATTTCTTTCGTAGAGGATGCAACTACTGGTTCCACATTAAAAGGTG-TGACCATAAGATCATCCAGGATCGAGAGAACAGACGGgtgagtagacagctgacattattaaaatgaactgattgtaacaacttttt Alignment from Spaln_aa2Genome TTTCACTATGAAAATACACGGGCCCATTTTTTT-GTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGAGAAAACAGAAGG tgagcagcttatgttggatgaggggtactcttacttgttttttctttcagTTTCACTATGAAAATACACGCACTCATTTCTTTcGTAGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTGAC-CATAAGATCATCCAGGATCGAGAGAACAGACGGgtgagtagacagctgacattattaaaatgaactgattgtaacaacttttt Alignment from Spaln_nt2Genome TTTCACTATGAAAATACACGGGCCCATTTTTTT-GTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATC---CAGGATCGAGAAAACAGAAGG tgagcagcttatgttggatgaggggtactcttacttgttttttctttcagTTTCACTATGAAAATACACGCACTCATTTCTTTCGTAGAGGATGCAACTACTGGTTCCACATTAAAAGGTGT-GACCATAAGATCATCCAGGATCGAGAGAACAGACGGgtgagtagacagctgacattattaaaatgaactgattgtaacaacttttt Alignment from Pairagon TTTCACTATGAAAATACACGGGCCCATTT-TTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGAGAAAACAGAAGG tgagcagcttatgttggatgaggggtactcttacttgttttttctttcagTTTCACTATGAAAATACACGCACTCATTTCTTTCGTAGAGGATGCAACTACTGGTTCCACATTAAAAGGTGT-GACCATAAGATCATCCAGGATCGAGAGAACAGACGGgtgagtagacagctgacattattaaaatgaactgattgtaacaacttttt Alignment from Exonerate_protein2genome TTTCACTATGAAAATACACGGGCCCATTTT-TTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG--ATCCAGGATCGAGAAAACAGAAGG tgagcagcttatgttggatgaggggtactcttacttgttttttctttcagTTTCACTATGAAAATACACGCACTCATTTCTTTCGTAGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTGACCATAAGATCATCCAGGATCGAGAGAACAGACGGgtgagtagacagctgacattattaaaatgaactgattgtaacaacttttt Alignment from Exonerate_coding2genome TTTCACTATGAAAATACACGGGCCCATTTT-TTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG--ATCCAGGATCGAGAAAACAGAAGG tgagcagcttatgttggatgaggggtactcttacttgttttttctttcagTTTCACTATGAAAATACACGCACTCATTTCTTTCGTAGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTGACCATAAGATCATCCAGGATCGAGAGAACAGACGGgtgagtagacagctgacattattaaaatgaactgattgtaacaacttttt Alignment from GeneWise --------------------------------------------------TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATC---CAGGATCGAGAAAACAGAAGG TGAGCAGCTTATGTTGGATGAGGGGTACTCTTACTTGTTTTTTCTTTCAGTTTCACTATGAAAATACACGCACTCATTTCTTTCGTAGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTGACCATAAGATCATCCAGGATCGAGAGAACAGACGGgtgagtagacagctgacattattaaaatgaactgattgtaacaacttttt #### Nxf1_ID2346_6 --> 0 - 0 Original Alignment ATATCTATCATCATCAAT-GCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG ttttttacattgtaaccagttgtcctgttccttgtcttccattcctgcagATATCAATCATAATTAATCACATCTGCTCCAGCCTACACTGTGCAGA-CGAACTAAAGGCTGAACAAATAGAGCAGCTCAAGgtaagtcgcataagtctagttacactaagggcaacccctgaactcacgtc Alignment from CESAR ATATCTATCATCATCAAT-GCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG ttttttacattgtaaccagttgtcctgttccttgtcttccattcctgcagATATCAATCATAATTAATCACATCTGCTCCAGCCTACACTGTGC-AGACGAACTAAAGGCTGAACAAATAGAGCAGCTCAAGgtaagtcgcataagtctagttacactaagggcaacccctgaactcacgtc Alignment from Spaln_aa2Genome ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG ttttttacattgtaaccagttgtcctgttccttgtcttccattcctgcagATATCAATCATAATTAATCACATCTGCTCCAGCCTACACTGTGCAGACGAACTAAAGGCTGAACAAATAGAGCAGCTCAAGgtaagtcgcataagtctagttacactaagggcaacccctgaactcacgtc Alignment from Spaln_nt2Genome ATATCTATCATCATCAATG-CTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG ttttttacattgtaaccagttgtcctgttccttgtcttccattcctgcagATATCAATCATAATTAATCACATCTGCTCCAGCCTACACTGTGCAG-ACGAACTAAAGGCTGAACAAATAGAGCAGCTCAAGgtaagtcgcataagtctagttacactaagggcaacccctgaactcacgtc Alignment from Pairagon ATATCTATCATCATCAAT-GCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG ttttttacattgtaaccagttgtcctgttccttgtcttccattcctgcagATATCAATCATAATTAATCACATCTGCTCCAGCCTACACTGTGCAG-ACGAACTAAAGGCTGAACAAATAGAGCAGCTCAAGgtaagtcgcataagtctagttacactaagggcaacccctgaactcacgtc Alignment from Exonerate_protein2genome ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG ttttttacattgtaaccagttgtcctgttccttgtcttccattcctgcagATATCAATCATAATTAATCACATCTGCTCCAGCCTACACTGTGCAGACGAACTAAAGGCTGAACAAATAGAGCAGCTCAAGgtaagtcgcataagtctagttacactaagggcaacccctgaactcacgtc Alignment from Exonerate_coding2genome ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG ttttttacattgtaaccagttgtcctgttccttgtcttccattcctgcagATATCAATCATAATTAATCACATCTGCTCCAGCCTACACTGTGCAGACGAACTAAAGGCTGAACAAATAGAGCAGCTCAAGgtaagtcgcataagtctagttacactaagggcaacccctgaactcacgtc Alignment from GeneWise ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG ttttttacattgtaaccagttgtcctgttccttgtcttccattcctgcagATATCAATCATAATTAATCACATCTGCTCCAGCCTACACTGTGCAGACGAACTAAAGGCTGAACAAATAGAGCAGCTCAAGgtaagtcgcataagtctagttacactaagggcaacccctgaactcacgtc #### Nxf1_ID2348_8 --> 2 - 0 Original Alignment atTTGGTGGCCCAGAACATC-GATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG tgggcaccaattttgagtcagtcgttccttgtcctgtccttgcttttcagatTTGGTAGCTCAGAACATTCGTTGTCATTCTAAACCGCAGGAGCTGCATGG-AGCAACTGTCCGCACCATCAAGGAGAATATTCCTGAGgtaagagttctttctctccgttatcatctaatcatgcttacttaattaga Alignment from CESAR atTTGGTGGCCCAGAACATC-GATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG tgggcaccaattttgagtcagtcgttccttgtcctgtccttgcttttcagatTTGGTAGCTCAGAACATTCGTTGTCATTCTAAACCGCAGGAGCTGCATG-GAGCAACTGTCCGCACCATCAAGGAGAATATTCCTGAGgtaagagttctttctctccgttatcatctaatcatgcttacttaattaga Alignment from Spaln_aa2Genome ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG tgggcaccaattttgagtcagtcgttccttgtcctgtccttgcttttcagATTTGGTAGCTCAGAACATTCGTTGTCATTCTAAACCGCAGGAGCTGCATGGAGCAACTGTCCGCACCATCAAGGAGAATATTCCTGAGgtaagagttctttctctccgttatcatctaatcatgcttacttaattaga Alignment from Spaln_nt2Genome ATTTGGTGGCCCAGAACAT-CGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG C tgggcaccaattttgagtcagtcgttccttgtcctgtccttgcttttcagATTTGGTAGCTCAGAACATTCGTTGTCATTCTAAACCGCAGGAGCTGCATGG-AGCAACTGTCCGCACCATCAAGGAGAATATTCCTGAGgtaagagttctttctctccgttatcatctaatcatgcttacttaattagA Alignment from Pairagon ATTTGGTGGCCCAGAACA-TCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG tgggcaccaattttgagtcagtcgttccttgtcctgtccttgcttttcagATTTGGTAGCTCAGAACATTCGTTGTCATTCTAAACCGCAGGAGCTGCATGG-AGCAACTGTCCGCACCATCAAGGAGAATATTCCTGAGgtaagagttctttctctccgttatcatctaatcatgcttacttaattaga Alignment from Exonerate_protein2genome ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG tgggcaccaattttgagtcagtcgttccttgtcctgtccttgcttttcagATTTGGTAGCTCAGAACATTCGTTGTCATTCTAAACCGCAGGAGCTGCATGGAGCAACTGTCCGCACCATCAAGGAGAATATTCCTGAGgtaagagttctttctctccgttatcatctaatcatgcttacttaattaga Alignment from Exonerate_coding2genome tgggcaccaattttgagtcagtcgttccttgtcctgtccttgcttttcagatttggtagctcagaacattcgttgtcattctaaaccgcaggagctgcatggagcaactgtccgcaccatcaaggagaatattcctgaggtaagagttctttctctccgttatcatctaatcatgcttacttaattaga Alignment from GeneWise ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAGCTATTG tgggcaccaattttgagtcagtcgttccttgtcctgtccttgcttttcagATTTGGTAGCTCAGAACATTCGTTGTCATTCTAAACCGCAGGAGCTGCATGGAGCAACTGTCCGCACCATCAAGGAGAATATTCCTGAGGTAAGAgttctttctctccgttatcatctaatcatgcttacttaattaga #### Nxf1_ID2354_14 --> 1 - 2 Original Alignment gTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCAT-GATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCcg taacaatttgtttatacatatctaagggtttgttttgttttttcctctaggTACTTTGTCATTTGTGACTTGGGAGACCGTCAGGGTCTTCAGTATGCCTACCATCGATGGTGCTTGTTGCTCTCTGGGCATCCCTTACA-CCCTCAGAACCCTGTCaggtaggcgtatatgtcttactctatctggaattgtaaaactccctgccaac Alignment from CESAR gTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCAT-GATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCcg taacaatttgtttatacatatctaagggtttgttttgttttttcctctaggTACTTTGTCATTTGTGACTTGGGAGACCGTCAGGGTCTTCAGTATGCCTACCATCGATGGTGCTTGTTGCTCTCTGGGCATCCCTT-ACACCCTCAGAACCCTGTCaggtaggcgtatatgtcttactctatctggaattgtaaaactccctgccaac Alignment from Spaln_aa2Genome GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCAT-GATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCG taacaatttgtttatacatatctaagggtttgttttgttttttcctctagGTACTTTGTCATTTGTGACTTGGGAGACCGTCAGGGTCTTCAGTATGCCTACCATcGATGGTGCTTGTTGCTCTCTGGGCATCCCTTACAC-CCTCAGAACCCTGTCAGgtaggcgtatatgtcttactctatctggaattgtaaaactccctgccaac Alignment from Spaln_nt2Genome GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCAT-GATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCG taacaatttgtttatacatatctaagggtttgttttgttttttcctctagGTACTTTGTCATTTGTGACTTGGGAGACCGTCAGGGTCTTCAGTATGCCTACCATCGATGGTGCTTGTTGCTCTCTGGGCATCCCTTAC-ACCCTCAGAACCCTGTCAGgtaggcgtatatgtcttactctatctggaattgtaaaactccctgccaac Alignment from Pairagon GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCAT-GATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCG taacaatttgtttatacatatctaagggtttgttttgttttttcctctagGTACTTTGTCATTTGTGACTTGGGAGACCGTCAGGGTCTTCAGTATGCCTACCATCGATGGTGCTTGTTGCTCTCTGGGCATCCCTTAC-ACCCTCAGAACCCTGTCAGgtaggcgtatatgtcttactctatctggaattgtaaaactccctgccaac Alignment from Exonerate_protein2genome GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCG taacaatttgtttatacatatctaagggtttgttttgttttttcctctagGTACTTTGTCATTTGTGACTTGGGAGACCGTCAGGGTCTTCAGTATGCCTACCATCGATGGTGCTTGTTGCTCTCTGGGCATCCCTTACACCCTCAGAACCCTGTCAGgtaggcgtatatgtcttactctatctggaattgtaaaactccctgccaac Alignment from Exonerate_coding2genome ---TTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCGCTTCTTGCAGCAGTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCG TAACAATTTGTTTATACATATCTAAGGGTTTGTTTTGTTTTTTCCTCTAGGTACTTTGTCATTTGTGACTTGGGAGACCGTCAGGGTCTTCAGTATGCCTACCATCGATGGTGCTTGTTGCTCTCTGGGCATCCCTTACACCCTCAGAACCCTGTCAGgtaggcgtatatgtcttactctatctggaattgtaaaactccctgccaac Alignment from GeneWise GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCG taacaatttgtttatacatatctaagggtttgttttgttttttcctctagGTACTTTGTCATTTGTGACTTGGGAGACCGTCAGGGTCTTCAGTATGCCTACCATCGATGGTGCTTGTTGCTCTCTGGGCATCCCTTACACCCTCAGAACCCTGTCAGgtaggcgtatatgtcttactctatctggaattgtaaaactccctgccaac #### Nxf1_ID2358_18 --> 2 - 2 Original Alignment tgGATGGGAAGTCTCGAGAT-TCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAgg ttaaactctttagcacctcagggcattttgtttttgattttgccttgtagtaGATGGGAAGTCTCGAGACCTCTCTACATGCCTTTGCAAGGACATTCATTGCAG-TCCTGCAAGTAATACAgggtaagcagatctgattgattaacaatgataggagtgggtgtaaaaggaca Alignment from CESAR tgGATGGGAAGTCTCGAGAT-TCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAgg ttaaactctttagcacctcagggcattttgtttttgattttgccttgtagtaGATGGGAAGTCTCGAGACCTCTCTACATGCCTTTGCAAGGACATTCATTGCAG-TCCTGCAAGTAATACAgggtaagcagatctgattgattaacaatgataggagtgggtgtaaaaggaca Alignment from Spaln_aa2Genome TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG ttaaactctttagcacctcagggcattttgtttttgattttgccttgtagTAGATGGGAAGTCTCGAGACCTCTCTACATGCCTTTGCAAGGACATTCATTGCAGTCCTGCAAGTAATACAGGgtaagcagatctgattgattaacaatgataggagtgggtgtaaaaggaca Alignment from Spaln_nt2Genome TGGATGGGAAGTCTCGAGAT-TCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG ttaaactctttagcacctcagggcattttgtttttgattttgccttgtagTAGATGGGAAGTCTCGAGACCTCTCTACATGCCTTTGCAAGGACATTCATTGCAG-TCCTGCAAGTAATACAGGgtaagcagatctgattgattaacaatgataggagtgggtgtaaaaggaca Alignment from Pairagon TGGATGGGAAGTCTCGAGA-TTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG ttaaactctttagcacctcagggcattttgtttttgattttgccttgtagTAGATGGGAAGTCTCGAGACCTCTCTACATGCCTTTGCAAGGACATTCATTGCAG-TCCTGCAAGTAATACAGGgtaagcagatctgattgattaacaatgataggagtgggtgtaaaaggaca Alignment from Exonerate_protein2genome TCTTCAAGGAAGTGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG ttaaactctttagcacctcagggcattttgtttttgatTTTGCCTTGTAGTAGATGGGAAGTCTCGAGACCTCTCTACATGCCTTTGCAAGGACATTCATTGCAGTCCTGCAAGTAATACAGGgtaagcagatctgattgattaacaatgataggagtgggtgtaaaaggaca Alignment from Exonerate_coding2genome TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG ttaaactctttagcacctcagggcattttgtttttgattttgccttgtagTAGATGGGAAGTCTCGAGACCTCTCTACATGCCTTTGCAAGGACATTCATTGCAGTCCTGCAAGTAATACAGGgtaagcagatctgattgattaacaatgataggagtgggtgtaaaaggaca Alignment from GeneWise TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG ttaaactctttagcacctcagggcattttgtttttgattttgccttgtagTAGATGGGAAGTCTCGAGACCTCTCTACATGCCTTTGCAAGGACATTCATTGCAGTCCTGCAAGTAATACAGGgtaagcagatctgattgattaacaatgataggagtgggtgtaaaaggaca #### Otub1_ID2060_6 --> 0 - 0 Original Alignment TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACC-TCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAAGGAGTTCTGCCAGCAG aaccagcttcatactttgtcataccgtgttttttgtcttttcctccttagTTCATGGACTTTATTGAGCGCGTGGAGAAGCAGACCTCTGTCACTGACCTGCTTGCTTCCTTCAATGACCAAAGCACTCTCAGACTACCTTGTGGTCTACCTGCAGCTGCTAACCTCAG-CTATGTACAACGAAAAAGCAAGTTCTTTGAGCACTTCATTGAAGGTGGCCAG---------------AGTCAAGAGgtaagtcctcccctaccatctgcactgaggccccccttttttttcttgat Alignment from CESAR TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACC-TCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAAGGAGTTCTGCCAGCAG aaccagcttcatactttgtcataccgtgttttttgtcttttcctccttagTTCATGGACTTTATTGAGCGCGTGGAGAAGCAGACCTCTGTCACTGACCTGCTTGCTTCCTTCAATGACCAAAGCACTCTCAGACTACCTTGTGGTCTACCTGCAGCTGCTAACCT-CAGCTATGTACAACGAAAAAGCAAGTTCTTTGAGCACTTCATTGAAGGTGGCCAGAGT---------------CAAGAGgtaagtcctcccctaccatctgcactgaggccccccttttttttcttgat Alignment from Spaln_aa2Genome TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAAGGAGTTCTGCCAGCAG aaccagcttcatactttgtcataccgtgttttttgtcttttcctccttagTTCATGGACTTTATTGAGCGCGTGGAGAAGCAGACCTCTGTCACTGACCTGCTTGCTTCCTTCAATGACCAAAGCACTCTCAGACTACCTTGTGGTCTACCTGCAGCTGCTAACCTCAGCTATGTACAACGAAAAAGCAAGTTCTTTGAGCACTTCATTGAAGGTGGCCAGAGT---------------CAAGAGgtaagtcctcccctaccatctgcactgaggccccccttttttttcttgat Alignment from Spaln_nt2Genome TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCAC-CTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAAGGA aaccagcttcatactttgtcataccgtgttttttgtcttttcctccttagTTCATGGACTTTATTGAGCGCGTGGAGAAGCAGACCTCTGTCACTGACCTGCTTGCTTCCTTCAATGACCAAAGCACTCTCAGACTACCTTGTGGTCTACCTGCAGCTGCTAACCTCA-GCTATGTACAACGAAAAAGCAAGTTCTTTGAGCACTTCATTGAAGGTGGCCAGA--GTCAAGAGgtaagtcctcccctaccatctgcactgaggccccccttttttttcttgat Alignment from Pairagon TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCAC-CTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAAGGAGTTCTGCCAGCAG aaccagcttcatactttgtcataccgtgttttttgtcttttcctccttagTTCATGGACTTTATTGAGCGCGTGGAGAAGCAGACCTCTGTCACTGACCTGCTTGCTTCCTTCAATGACCAAAGCACTCTCAGACTACCTTGTGGTCTACCTGCAGCTGCTAACCTCA-GCTATGTACAACGAAAAAGCAAGTTCTTTGAGCACTTCATTGAAGGTGGCCAGA---------------GTCAAGAGgtaagtcctcccctaccatctgcactgaggccccccttttttttcttgat Alignment from Exonerate_protein2genome TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACC-TCAGACTACCTTGTGGTCTACCTGCGACTGCTCACC--TCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAAGGAG aaccagcttcatactttgtcataccgtgttttttgtcttttcctccttagTTCATGGACTTTATTGAGCGCGTGGAGAAGCAGACCTCTGTCACTGACCTGCTTGCTTCCTTCAATGACCAAAGCACTCTCAGACTACCTTGTGGTCTACCTGCAGCTGCTAACCTCAGC---TATGTACAACGAAAAAGCAAGTTCTTTGAGCACTTCATTGAAGGTGGCCAGAGT---CAAGAGgtaagtcctcccctaccatctgcactgaggccccccttttttttcttgat Alignment from Exonerate_coding2genome TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACC-TCAGACTACCTTGTGGTCTACCTGCGACTGCTCACC--TCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAAGGAG aaccagcttcatactttgtcataccgtgttttttgtcttttcctccttagTTCATGGACTTTATTGAGCGCGTGGAGAAGCAGACCTCTGTCACTGACCTGCTTGCTTCCTTCAATGACCAAAGCACTCTCAGACTACCTTGTGGTCTACCTGCAGCTGCTAACCTCAGC---TATGTACAACGAAAAAGCAAGTTCTTTGAGCACTTCATTGAAGGTGGCCAGAGT---CAAGAGgtaagtcctcccctaccatctgcactgaggccccccttttttttcttgat Alignment from GeneWise TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAAGGAGTTCTGCCAGCAG aaccagcttcatactttgtcataccgtgttttttgtcttttcctccttagTTCATGGACTTTATTGAGCGCGTGGAGAAGCAGACCTCTGTCACTGACCTGCTTGCTTCCTTCAATGACCAAAGCACTCTCAGACTACCTTGTGGTCTACCTGCAGCTGCTAACCTCAGCTATGTACAACGAAAAAGCAAGTTCTTTGAGCACTTCATTGAAGGTGGCCAGAGT---------------CAAGAGgtaagtcctcccctaccatctgcactgaggccccccttttttttcttgat #### Pacs1_ID876_18 --> 2 - 2 Original Alignment agCCACTGGACGTGGTG-GGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGtt ttaagggtctagtggaatataattcttatgtgatcttcgtgtttccccagaaCCACTAGATGTGGTGCGGTCGTGTGATGCTGTATATCAATGGTGCTATAACAACACACC-GCTTCCCATTGCTGAAGCTATGCTGACCTGCAGACATAAGttgtgagtccaatatcaggaccttcaggaaatcagcttggactaatggatga Alignment from CESAR agCCACTGGACGTGGTG-GGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGtt ttaagggtctagtggaatataattcttatgtgatcttcgtgtttccccagaaCCACTAGATGTGGTGCGGTCGTGTGATGCTGTATATCAATGGTGCTATAACAACACAC-CGCTTCCCATTGCTGAAGCTATGCTGACCTGCAGACATAAGttgtgagtccaatatcaggaccttcaggaaatcagcttggactaatggatga Alignment from Spaln_aa2Genome AGCCACTGGACGTGGTG-GGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGTT ttaagggtctagtggaatataattcttatgtgatcttcgtgtttccccagAACCACTAGATGTGGTGcGGTCGTGTGATGCTGTATATCAATGGTGCTATAACAACACACCG-CTTCCCATTGCTGAAGCTATGCTGACCTGCAGACATAAGTTgtgagtccaatatcaggaccttcaggaaatcagcttggactaatggatga Alignment from Spaln_nt2Genome AGCCACTGGACGTGGTG-GGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGTT ttaagggtctagtggaatataattcttatgtgatcttcgtgtttccccagAACCACTAGATGTGGTGCGGTCGTGTGATGCTGTATATCAATGGTGCTATAACAACACACC-GCTTCCCATTGCTGAAGCTATGCTGACCTGCAGACATAAGTTgtgagtccaatatcaggaccttcaggaaatcagcttggactaatggatga Alignment from Pairagon AGCCACTGGACGTGGTG-GGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGTT ttaagggtctagtggaatataattcttatgtgatcttcgtgtttccccagAACCACTAGATGTGGTGCGGTCGTGTGATGCTGTATATCAATGGTGCTATAACAACACACC-GCTTCCCATTGCTGAAGCTATGCTGACCTGCAGACATAAGTTgtgagtccaatatcaggaccttcaggaaatcagcttggactaatggatga Alignment from Exonerate_protein2genome AGCCACTGGACGTGGTG-GGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACAC--CAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGTT ttaagggtctagtggaatataattcttatgtgatcttcgtgtttccccagAACCACTAGATGTGGTGCGGTCGTGTGATGCTGTATATCAATGGTGCTATAACAACACACCG---CTTCCCATTGCTGAAGCTATGCTGACCTGCAGACATAAGTTgtgagtccaatatcaggaccttcaggaaatcagcttggactaatggatga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGTT ttaagggtctagtggaatataattcttatgtgatcttcgtgtttccccagAACCACTAGATGTGGTGCGGTCGTGTGATGCTGTATATCAATGGTGCTATAACAACACACCGCTTCCCATTGCTGAAGCTATGCTGACCTGCAGACATAAGTTgtgagtccaatatcaggaccttcaggaaatcagcttggactaatggatga #### Pacs1_ID888_6 --> 2 - 0 Original Alignment atCGCTCCCCAGATATTGAC-AACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG ctggatattgtgaaactctcattgcagtgaccctgtctttccttgcatagacCGCTCCCCAGACATTGACCAATTATTCAGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGCAGG-TGACACTGATGATCCGCTGCATGGACAAgtgaggatctgacagtgtacaagttgaaacagggtgaggcaccacctcac Alignment from CESAR atCGCTCCCCAGATATTGAC-AACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG ctggatattgtgaaactctcattgcagtgaccctgtctttccttgcatagacCGCTCCCCAGACATTGACCAATTATTCAGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGCAG-GTGACACTGATGATCCGCTGCATGGACAAgtgaggatctgacagtgtacaagttgaaacagggtgaggcaccacctcac Alignment from Spaln_aa2Genome ATCGCTCCCCAGATATTGAC-AACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG ctggatattgtgaaactctcattgcagtgaccctgtctttccttgcatagACCGCTCCCCAGACATTGACcAATTATTCAGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGCAGGT-GACACTGATGATCCGCTGCATGGACAAgtgaggatctgacagtgtacaagttgaaacagggtgaggcaccacctcac Alignment from Spaln_nt2Genome ATCGCTCCCCAGATATTGAC-AACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG ctggatattgtgaaactctcattgcagtgaccctgtctttccttgcatagACCGCTCCCCAGACATTGACCAATTATTCAGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGCAGG-TGACACTGATGATCCGCTGCATGGACAAgtgaggatctgacagtgtacaagttgaaacagggtgaggcaccacctcac Alignment from Pairagon ATCGCTCCCCAGATATTGA-CAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG ctggatattgtgaaactctcattgcagtgaccctgtctttccttgcatagACCGCTCCCCAGACATTGACCAATTATTCAGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGCAGG-TGACACTGATGATCCGCTGCATGGACAAgtgaggatctgacagtgtacaagttgaaacagggtgaggcaccacctcac Alignment from Exonerate_protein2genome ATCGCTCCCCAGATATTGAC-AACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAG--GAAGGCAGTGACGACCCATTGCATGGGCAG ctggatattgtgaaactctcattgcagtgaccctgtctttccttgcatagACCGCTCCCCAGACATTGACCAATTATTCAGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGCAGGTGAC---ACTGATGATCCGCTGCATGGACAAgtgaggatctgacagtgtacaagttgaaacagggtgaggcaccacctcac Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG ctggatattgtgaaactctcattgcagtgaccctgtctttccttgcatagACCGCTCCCCAGACATTGACCAATTATTCAGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGCAGGTGACACTGATGATCCGCTGCATGGACAAgtgaggatctgacagtgtacaagttgaaacagggtgaggcaccacctcac #### Patl1_ID3327_12 --> 2 - 0 Original Alignment tgCAGTTTGAGGGCTCGTTGGGGAAGCTTACTGTCTCTAGTGTGAAT-AATCCTCGGAAGATGATAGATGCTGTTGTGACATCTCGAAGTGAGGATGAT atggtcttagttcaaaaggctagaagctagcccagcttatccttccacagtgCAGTTTGATGGCTCATTGGGGAAACTTACTGTCTCCAGTGTGAATCAATCCTCGGAAGATGATAGATGCTGTTG-GACATCTAGAAGCGAGGATGATgtaaggttgagggcagtgtttactggcggtaactattggaaaatccatct Alignment from CESAR tgCAGTTTGAGGGCTCGTTGGGGAAGCTTACTGTCTCTAGTGTGAAT-AATCCTCGGAAGATGATAGATGCTGTTGTGACATCTCGAAGTGAGGATGAT atggtcttagttcaaaaggctagaagctagcccagcttatccttccacagtgCAGTTTGATGGCTCATTGGGGAAACTTACTGTCTCCAGTGTGAATCAATCCTCGGAAGATGATAGATGCTGTT-GGACATCTAGAAGCGAGGATGATgtaaggttgagggcagtgtttactggcggtaactattggaaaatccatct Alignment from Spaln_aa2Genome TGCAGTTTGAGGGCTCGTTGGGGAAGCTTACTGTCTCTAGTGTGAATAATCCTCGGAAGATGATAGATGCTGTTGTGACATCTCGAAGTGAGGATGAT atggtcttagttcaaaaggctagaagctagcccagcttatccttccacagTGCAGTTTGATGGCTCATTGGGGAAACTTACTGTCTCCAGTGTGAATCAATCCTCGGAAGATGATAGATGCTGTTGGACATCTAGAAGCGAGGATGATgtaaggttgagggcagtgtttactggcggtaactattggaaaatccatct Alignment from Spaln_nt2Genome TGCAGTTTGAGGGCTCGTTGGGGAAGCTTACTGTCTCTAGTGTGAAT-AATCCTCGGAAGATGATAGATGCTGTTGTGACATCTCGAAGTGAGGATGAT atggtcttagttcaaaaggctagaagctagcccagcttatccttccacagTGCAGTTTGATGGCTCATTGGGGAAACTTACTGTCTCCAGTGTGAATCAATCCTCGGAAGATGATAGATGCTGTTG-GACATCTAGAAGCGAGGATGATgtaaggttgagggcagtgtttactggcggtaactattggaaaatccatct Alignment from Pairagon TGCAGTTTGAGGGCTCGTTGGGGAAGCTTACTGTCTCTAGTGTGAAT-AATCCTCGGAAGATGATAGATGCTGTTGTGACATCTCGAAGTGAGGATGAT atggtcttagttcaaaaggctagaagctagcccagcttatccttccacagTGCAGTTTGATGGCTCATTGGGGAAACTTACTGTCTCCAGTGTGAATCAATCCTCGGAAGATGATAGATGCTGTTG-GACATCTAGAAGCGAGGATGATgtaaggttgagggcagtgtttactggcggtaactattggaaaatccatct Alignment from Exonerate_protein2genome TGCAGTTTGAGGGCTCGTTGGGGAAGCTTACTGTCTCTAGTGTGAATAATCCTCGGAAGATGATAGATGCTGTTGTGACATCTCGAAGTGAGGATGAT atggtcttagttcaaaaggctagaagctagcccagcttatccttccacagTGCAGTTTGATGGCTCATTGGGGAAACTTACTGTCTCCAGTGTGAATCAATCCTCGGAAGATGATAGATGCTGTTGGACATCTAGAAGCGAGGATGATgtaaggttgagggcagtgtttactggcggtaactattggaaaatccatct Alignment from Exonerate_coding2genome TGCAGTTTGAGGGCTCGTTGGGGAAGCTTACTGTCTCTAGTGTGAATAATCCTCGGAAGATGATAGATGCTGTTGTGACATCTCGAAGTGAGGATGAT atggtcttagttcaaaaggctagaagctagcccagcttatccttccacagTGCAGTTTGATGGCTCATTGGGGAAACTTACTGTCTCCAGTGTGAATCAATCCTCGGAAGATGATAGATGCTGTTGGACATCTAGAAGCGAGGATGATgtaaggttgagggcagtgtttactggcggtaactattggaaaatccatct Alignment from GeneWise TGCAGTTTGAGGGCTCGTTGGGGAAGCTTACTGTCTCTAGTGTGAATAATCCTCGGAAGATGATAGATGCTGTTGTGACATCTCGAAGTGAGGATGAT atggtcttagttcaaaaggctagaagctagcccagcttatccttccacagTGCAGTTTGATGGCTCATTGGGGAAACTTACTGTCTCCAGTGTGAATCAATCCTCGGAAGATGATAGATGCTGTTGGACATCTAGAAGCGAGGATGATgtaaggttgagggcagtgtttactggcggtaactattggaaaatccatct #### Patl1_ID3332_17 --> 0 - 2 Original Alignment TTTGGCTTGTCACTGCTCCTAATCCTACTA-AGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGtg cacccctgaccaccctgactgttagctgtgggtctgtgtgcccaccacagTTTGGGTTGTCACTGCTCCTAATCCTATTGCAGCCGAGGAGAAGACCTGCAGAGCTCAG-TCCAGCTATAGAACTTATGCAAAATAACCAGtggtgagtatagtagcaggctatgtgaatcaactctgtcgccttccatgtca Alignment from CESAR TTTGGCTTGTCACTGCTCCTAATCCTACTA-AGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGtg cacccctgaccaccctgactgttagctgtgggtctgtgtgcccaccacagTTTGGGTTGTCACTGCTCCTAATCCTATTGCAGCCGAGGAGAAGACCTGCAGAGCTCA-GTCCAGCTATAGAACTTATGCAAAATAACCAGtggtgagtatagtagcaggctatgtgaatcaactctgtcgccttccatgtca Alignment from Spaln_aa2Genome TTTGGCTTGTCACTGCTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG cacccctgaccaccctgactgttagctgtgggtctgtgtgcccaccacagTTTGGGTTGTCACTGCTCCTAATCCTATTGCAGCCGAGGAGAAGACCTGCAGAGCTCAGTCCAGCTATAGAACTTATGCAAAATAACCAGTGgtgagtatagtagcaggctatgtgaatcaactctgtcgccttccatgtca Alignment from Spaln_nt2Genome TTTGGCTTGTCACTGCTCCTAATCCTACTA-AGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG cacccctgaccaccctgactgttagctgtgggtctgtgtgcccaccacagTTTGGGTTGTCACTGCTCCTAATCCTATTGCAGCCGAGGAGAAGACCTGCAGAGCTCAG-TCCAGCTATAGAACTTATGCAAAATAACCAGTGgtgagtatagtagcaggctatgtgaatcaactctgtcgccttccatgtca Alignment from Pairagon TTTGGCTTGTCACTGCTCCTAATCCTACTA-AGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG cacccctgaccaccctgactgttagctgtgggtctgtgtgcccaccacagTTTGGGTTGTCACTGCTCCTAATCCTATTGCAGCCGAGGAGAAGACCTGCAGAGCTCAG-TCCAGCTATAGAACTTATGCAAAATAACCAGTGgtgagtatagtagcaggctatgtgaatcaactctgtcgccttccatgtca Alignment from Exonerate_protein2genome TTTGGCTTGTCACTGCTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG cacccctgaccaccctgactgttagctgtgggtctgtgtgcccaccacagTTTGGGTTGTCACTGCTCCTAATCCTATTGCAGCCGAGGAGAAGACCTGCAGAGCTCAGTCCAGCTATAGAACTTATGCAAAATAACCAGTGgtgagtatagtagcaggctatgtgaatcaactctgtcgccttccatgtca Alignment from Exonerate_coding2genome TTTGGCTTGTCACTGCTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG cacccctgaccaccctgactgttagctgtgggtctgtgtgcccaccacagTTTGGGTTGTCACTGCTCCTAATCCTATTGCAGCCGAGGAGAAGACCTGCAGAGCTCAGTCCAGCTATAGAACTTATGCAAAATAACCAGTGgtgagtatagtagcaggctatgtgaatcaactctgtcgccttccatgtca Alignment from GeneWise TTTGGCTTGTCACTGCTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG cacccctgaccaccctgactgttagctgtgggtctgtgtgcccaccacagTTTGGGTTGTCACTGCTCCTAATCCTATTGCAGCCGAGGAGAAGACCTGCAGAGCTCAGTCCAGCTATAGAACTTATGCAAAATAACCAGTGgtgagtatagtagcaggctatgtgaatcaactctgtcgccttccatgtca #### Patl1_ID3333_18 --> 1 - 2 Original Alignment gACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTA-CGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGca tcctagctttccccttttctggtctatcaatatttgaatcttaacattaggACAGAGGTGATGTTTATGGCAGCCCGAGAACTGGTCCCGTATCCTGCAAGTGGCCCTTTCCAACTCAATTT-TATTCCTACAAATCTAGCATCCTTCTTGTCCCGCTTTGTTGACCGACAGAAACTGAATTTGTTAGAGACCAAACTGcagtgagttttgtcacgctttttctgctttgtcggctgacaaaaactgagtt Alignment from CESAR gACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTA-CGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGca tcctagctttccccttttctggtctatcaatatttgaatcttaacattaggACAGAGGTGATGTTTATGGCAGCCCGAGAACTGGTCCCGTATCCTGCAAGTGGCCCTTTCCAACTCAATT-TTATTCCTACAAATCTAGCATCCTTCTTGTCCCGCTTTGTTGACCGACAGAAACTGAATTTGTTAGAGACCAAACTGcagtgagttttgtcacgctttttctgctttgtcggctgacaaaaactgagtt Alignment from Spaln_aa2Genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCA tcctagctttccccttttctggtctatcaatatttgaatcttaacattagGACAGAGGTGATGTTTATGGCAGCCCGAGAACTGGTCCCGTATCCTGCAAGTGGCCCTTTCCAACTCAATTTTATTCCTACAAATCTAGCATCCTTCTTGTCCCGCTTTGTTGACCGACAGAAACTGAATTTGTTAGAGACCAAACTGCAgtgagttttgtcacgctttttctgctttgtcggctgacaaaaactgagtt Alignment from Spaln_nt2Genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGG-ATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCA tcctagctttccccttttctggtctatcaatatttgaatcttaacattagGACAGAGGTGATGTTTATGGCAGCCCGAGAACTGGTCCCGTATCCTGCAAGTGGCCCTTTCCAACTCAAT-TTTATTCCTACAAATCTAGCATCCTTCTTGTCCCGCTTTGTTGACCGACAGAAACTGAATTTGTTAGAGACCAAACTGCAgtgagttttgtcacgctttttctgctttgtcggctgacaaaaactgagtt Alignment from Pairagon GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGG-ATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCA tcctagctttccccttttctggtctatcaatatttgaatcttaacattagGACAGAGGTGATGTTTATGGCAGCCCGAGAACTGGTCCCGTATCCTGCAAGTGGCCCTTTCCAACTCAAT-TTTATTCCTACAAATCTAGCATCCTTCTTGTCCCGCTTTGTTGACCGACAGAAACTGAATTTGTTAGAGACCAAACTGCAgtgagttttgtcacgctttttctgctttgtcggctgacaaaaactgagtt Alignment from Exonerate_protein2genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAG tcctagctttccccttttctggtctatcaatatttgaatcttaacattagGACAGAGGTGATGTTTATGGCAGCCCGAGAACTGGTCCCGTATCCTGCAAGTGGCCCTTTCCAACTCAATTTTATTCCTACAAATCTAGCATCCTTCTTGTCCCGCTTTGTTGACCGACAGAAACTGAATTTGTTAGAGACCAAACTGCAGtgagttttgtcacgctttttctgctttgtcggctgacaaaaactgagtt Alignment from Exonerate_coding2genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAG tcctagctttccccttttctggtctatcaatatttgaatcttaacattagGACAGAGGTGATGTTTATGGCAGCCCGAGAACTGGTCCCGTATCCTGCAAGTGGCCCTTTCCAACTCAATTTTATTCCTACAAATCTAGCATCCTTCTTGTCCCGCTTTGTTGACCGACAGAAACTGAATTTGTTAGAGACCAAACTGCAGtgagttttgtcacgctttttctgctttgtcggctgacaaaaactgagtt Alignment from GeneWise GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAG tcctagctttccccttttctggtctatcaatatttgaatcttaacattagGACAGAGGTGATGTTTATGGCAGCCCGAGAACTGGTCCCGTATCCTGCAAGTGGCCCTTTCCAACTCAATTTTATTCCTACAAATCTAGCATCCTTCTTGTCCCGCTTTGTTGACCGACAGAAACTGAATTTGTTAGAGACCAAACTGCAGtgagttttgtcacgctttttctgctttgtcggctgacaaaaactgagtt #### Pcnxl3_ID1159_34 --> 2 - 0 Original Alignment gcAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCC-CCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tataaggtgagacattgtgctggcagctacccccaccttccccaccgcaggcAGCAGTGAGCAGCCCCTCCCACCAGGCCCTAGCTGGGGACCCCGACCCTCCCTAATTGGCTCTGGAGATGGGCAGCCCCCCTTCTCTTTTACAGTGGCCCCCCCCTCGGCTCCCAG-ACCACCCCCTGTTTCACCTGCTCCCACTGATGGACCCCGGCCCTCAAGACTTTCAGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGGCTGGGAGGAGCTGATGGGGAGCCTGCTTCAGGGAGCCCAAAAGGAGGTAGCCCCAAGTCTCAGgtacaggacttgtggtaaaggggtctccctggtcaccaaggtggttactc Alignment from CESAR gcAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGG-CCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tataaggtgagacattgtgctggcagctacccccaccttccccaccgcaggcAGCAGTGAGCAGCCCCTCCCACCAGGCCCTAGCTGGGGACCCCGACCCTCCCTAATTGGCTCTGGAGATGGGCAGCCCCCCTTCTCTTTTACAGTGGCCCCCCCCTCGGCTCCCA-GACCACCCCCTGTTTCACCTGCTCCCACTGATGGACCCCGGCCCTCAAGACTTTCAGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGGCTGGGAGGAGCTGATGGGGAGCCTGCTTCAGGGAGCCCAAAAGGAGGTAGCCCCAAGTCTCAGgtacaggacttgtggtaaaggggtctccctggtcaccaaggtggttactc Alignment from Spaln_aa2Genome GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tataaggtgagacattgtgctggcagctacccccaccttccccaccgcagGCAGCAGTGAGCAGCCCCTCCCACCAGGCCCTAGCTGGGGACCCCGACCCTCCCTAATTGGCTCTGGAGATGGGCAGCCCCCCTTCTCTTTTACAGTGGCCCCCCCCTCGGCTCCCAGACCACCCCCTGTTTCACCTGCTCCCACTGATGGACCCCGGCCCTCAAGACTTTCAGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGGCTGGGAGGAGCTGATGGGGAGCCTGCTTCAGGGAGCCCAAAAGGAGGTAGCCCCAAGTCTCAGgtacaggacttgtggtaaaggggtctccctggtcaccaaggtggttactc Alignment from Spaln_nt2Genome GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCC-TCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tataaggtgagacattgtgctggcagctacccccaccttccccaccgcagGCAGCAGTGAGCAGCCCCTCCCACCAGGCCCTAGCTGGGGACCCCGACCCTCCCTAATTGGCTCTGGAGATGGGCAGCCCCCCTTCTCTTTTACAGTGGCCCCCCCCTCGGCT-CCCAGACCACCCCCTGTTTCACCTGCTCCCACTGATGGACCCCGGCCCTCAAGACTTTCAGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGGCTGGGAGGAGCTGATGGGGAGCCTGCTTCAGGGAGCCCAAAAGGAGGTAGCCCCAAGTCTCAGgtacaggacttgtggtaaaggggtctccctggtcaccaaggtggttactc Alignment from Pairagon GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGG-CCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tataaggtgagacattgtgctggcagctacccccaccttccccaccgcagGCAGCAGTGAGCAGCCCCTCCCACCAGGCCCTAGCTGGGGACCCCGACCCTCCCTAATTGGCTCTGGAGATGGGCAGCCCCCCTTCTCTTTTACAGTGGCCCCCCCCTCGGCTCCC-AGACCACCCCCTGTTTCACCTGCTCCCACTGATGGACCCCGGCCCTCAAGACTTTCAGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGGCTGGGAGGAGCTGATGGGGAGCCTGCTTCAGGGAGCCCAAAAGGAGGTAGCCCCAAGTCTCAGgtacaggacttgtggtaaaggggtctccctggtcaccaaggtggttactc Alignment from Exonerate_protein2genome GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tataaggtgagacattgtgctggcagctacccccaccttccccaccgcagGCAGCAGTGAGCAGCCCCTCCCACCAGGCCCTAGCTGGGGACCCCGACCCTCCCTAATTGGCTCTGGAGATGGGCAGCCCCCCTTCTCTTTTACAGTGGCCCCCCCCTCGGCTCCCAGACCACCCCCTGTTTCACCTGCTCCCACTGATGGACCCCGGCCCTCAAGACTTTCAGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGGCTGGGAGGAGCTGATGGGGAGCCTGCTTCAGGGAGCCCAAAAGGAGGTAGCCCCAAGTCTCAGgtacaggacttgtggtaaaggggtctccctggtcaccaaggtggttactc Alignment from Exonerate_coding2genome GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tataaggtgagacattgtgctggcagctacccccaccttccccaccgcagGCAGCAGTGAGCAGCCCCTCCCACCAGGCCCTAGCTGGGGACCCCGACCCTCCCTAATTGGCTCTGGAGATGGGCAGCCCCCCTTCTCTTTTACAGTGGCCCCCCCCTCGGCTCCCAGACCACCCCCTGTTTCACCTGCTCCCACTGATGGACCCCGGCCCTCAAGACTTTCAGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGGCTGGGAGGAGCTGATGGGGAGCCTGCTTCAGGGAGCCCAAAAGGAGGTAGCCCCAAGTCTCAGgtacaggacttgtggtaaaggggtctccctggtcaccaaggtggttactc Alignment from GeneWise CAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tataaggtgagacattgtgctggcagctacccccaccttccccaccgcaggcagCAGTGAGCAGCCCCTCCCACCAGGCCCTAGCTGGGGACCCCGACCCTCCCTAATTGGCTCTGGAGATGGGCAGCCCCCCTTCTCTTTTACAGTGGCCCCCCCCTCGGCTCCCAGACCACCCCCTGTTTCACCTGCTCCCACTGATGGACCCCGGCCCTCAAGACTTTCAGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGGCTGGGAGGAGCTGATGGGGAGCCTGCTTCAGGGAGCCCAAAAGGAGGTAGCCCCAAGTCTCAGgtacaggacttgtggtaaaggggtctccctggtcaccaaggtggttactc #### Pcnxl3_ID1161_32 --> 0 - 2 Original Alignment GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGA-TATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGag taagttgtattgttgccccccctcattactgtcccttaattctctgccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGTGATCGGCCACTAGGACTATCCAATCTTTGTCTCACCATTGACTACATCTTTGCCTG-GACACATCCCCAATTACAGGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAAcggtacactctgatagtcatgggttctgatagtccccaaaattgaaaagctt Alignment from CESAR GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGA-TATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGag taagttgtattgttgccccccctcattactgtcccttaattctctgccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGTGATCGGCCACTAGGACTATCCAATCTTTGTCTCACCATTGACTACATCTTTGCCTGGA-CACATCCCCAATTACAGGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAAcggtacactctgatagtcatgggttctgatagtccccaaaattgaaaagctt Alignment from Spaln_aa2Genome GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGAG taagttgtattgttgccccccctcattactgtcccttaattctctgccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGTGATCGGCCACTAGGACTATCCAATCTTTGTCTCACCATTGACTACATCTTTGCCTGGACACATCCCCAATTACAGGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAACGgtacactctgatagtcatgggttctgatagtccccaaaattgaaaagctt Alignment from Spaln_nt2Genome GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGA-TATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGAG taagttgtattgttgccccccctcattactgtcccttaattctctgccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGTGATCGGCCACTAGGACTATCCAATCTTTGTCTCACCATTGACTACATCTTTGCCTGG-ACACATCCCCAATTACAGGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAACGgtacactctgatagtcatgggttctgatagtccccaaaattgaaaagctt Alignment from Pairagon GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGA-TATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGAG taagttgtattgttgccccccctcattactgtcccttaattctctgccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGTGATCGGCCACTAGGACTATCCAATCTTTGTCTCACCATTGACTACATCTTTGCCTGG-ACACATCCCCAATTACAGGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAACGgtacactctgatagtcatgggttctgatagtccccaaaattgaaaagctt Alignment from Exonerate_protein2genome GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGAG taagttgtattgttgccccccctcattactgtcccttaattctctgccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGTGATCGGCCACTAGGACTATCCAATCTTTGTCTCACCATTGACTACATCTTTGCCTGGACACATCCCCAATTACAGGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAACGgtacactctgatagtcatgggttctgatagtccccaaaattgaaaagctt Alignment from Exonerate_coding2genome GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGAG taagttgtattgttgccccccctcattactgtcccttaattctctgccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGTGATCGGCCACTAGGACTATCCAATCTTTGTCTCACCATTGACTACATCTTTGCCTGGACACATCCCCAATTACAGGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAACGgtacactctgatagtcatgggttctgatagtccccaaaattgaaaagctt Alignment from GeneWise GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGAG taagttgtattgttgccccccctcattactgtcccttaattctctgccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGTGATCGGCCACTAGGACTATCCAATCTTTGTCTCACCATTGACTACATCTTTGCCTGGACACATCCCCAATTACAGGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAACGgtacactctgatagtcatgggttctgatagtccccaaaattgaaaagctt #### Pcnxl3_ID1164_29 --> 0 - 2 Original Alignment CCCGTGGACCAGGACTGG-AATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCag gggatgttaccctgggctcttgagtaaatcttctcttacctctttaacagCCCGTGGACCAGGATTGGCAATTCACCATTGGTTACATCGTGCTTTGGCT-GTGTGTGTTGGGTCGCCGGGCTCTGGGAACAGCATCACACAGCATGTCAGCCaggtaagtgcctacaggcagcagaagaagacccaacaactcattagtagact Alignment from CESAR CCCGTGGACCAGGACTGG-AATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCag gggatgttaccctgggctcttgagtaaatcttctcttacctctttaacagCCCGTGGACCAGGATTGGCAATTCACCATTGGTTACATCGTGCTTTG-GCTGTGTGTGTTGGGTCGCCGGGCTCTGGGAACAGCATCACACAGCATGTCAGCCaggtaagtgcctacaggcagcagaagaagacccaacaactcattagtagact Alignment from Spaln_aa2Genome CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG gggatgttaccctgggctcttgagtaaatcttctcttacctctttaacagCCCGTGGACCAGGATTGGCAATTCACCATTGGTTACATCGTGCTTTGGCTGTGTGTGTTGGGTCGCCGGGCTCTGGGAACAGCATCACACAGCATGTCAGCCAGgtaagtgcctacaggcagcagaagaagacccaacaactcattagtagact Alignment from Spaln_nt2Genome CCCGTGGACCAGGACTGG-AATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG gggatgttaccctgggctcttgagtaaatcttctcttacctctttaacagCCCGTGGACCAGGATTGGCAATTCACCATTGGTTACATCGTGCTTTGG-CTGTGTGTGTTGGGTCGCCGGGCTCTGGGAACAGCATCACACAGCATGTCAGCCAGgtaagtgcctacaggcagcagaagaagacccaacaactcattagtagact Alignment from Pairagon CCCGTGGACCAGGACTGG-AATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG gggatgttaccctgggctcttgagtaaatcttctcttacctctttaacagCCCGTGGACCAGGATTGGCAATTCACCATTGGTTACATCGTGCTTTGG-CTGTGTGTGTTGGGTCGCCGGGCTCTGGGAACAGCATCACACAGCATGTCAGCCAGgtaagtgcctacaggcagcagaagaagacccaacaactcattagtagact Alignment from Exonerate_protein2genome CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG gggatgttaccctgggctcttgagtaaatcttctcttacctctttaacagCCCGTGGACCAGGATTGGCAATTCACCATTGGTTACATCGTGCTTTGGCTGTGTGTGTTGGGTCGCCGGGCTCTGGGAACAGCATCACACAGCATGTCAGCCAGgtaagtgcctacaggcagcagaagaagacccaacaactcattagtagact Alignment from Exonerate_coding2genome CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG gggatgttaccctgggctcttgagtaaatcttctcttacctctttaacagCCCGTGGACCAGGATTGGCAATTCACCATTGGTTACATCGTGCTTTGGCTGTGTGTGTTGGGTCGCCGGGCTCTGGGAACAGCATCACACAGCATGTCAGCCAGgtaagtgcctacaggcagcagaagaagacccaacaactcattagtagact Alignment from GeneWise CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG gggatgttaccctgggctcttgagtaaatcttctcttacctctttaacagCCCGTGGACCAGGATTGGCAATTCACCATTGGTTACATCGTGCTTTGGCTGTGTGTGTTGGGTCGCCGGGCTCTGGGAACAGCATCACACAGCATGTCAGCCAGgtaagtgcctacaggcagcagaagaagacccaacaactcattagtagact #### Pcnxl3_ID1167_26 --> 2 - 1 Original Alignment gcGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTG-CAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGg aggcaatgcatttacttcgtttacttgaaattaatctcgtctgttcacaggaGCTGATGACAATAACCTCAATTTGCTCTTCTATCAACATTTGACACGCTCATTGCCAACACATGCTTTGTGGCGATCTGGTCCTGG-CTGCTGGGGCAACTATGGTCCAGGAGATTGCTTTGTACTGGCTCCAGACTACCTAAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGggtagggcagtttgggatcgaacacaagttaagggcagagcatagatatat Alignment from CESAR gcGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTG-CAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGg aggcaatgcatttacttcgtttacttgaaattaatctcgtctgttcacaggaGCTGATGACAATAACCTCAATTTGCTCTTCTATCAACATTTGACACGCTCATTGCCAACACATGCTTTGTGGCGATCTGGTCC-TGGCTGCTGGGGCAACTATGGTCCAGGAGATTGCTTTGTACTGGCTCCAGACTACCTAAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGggtagggcagtttgggatcgaacacaagttaagggcagagcatagatatat Alignment from Spaln_aa2Genome GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGG aggcaatgcatttacttcgtttacttgaaattaatctcgtctgttcacagGAGCTGATGACAATAACCTCAATTTGCTCTTCTATCAACATTTGACACGCTCATTGCCAACACATGCTTTGTGGCGATCTGGTCCTGGCTGCTGGGGCAACTATGGTCCAGGAGATTGCTTTGTACTGGCTCCAGACTACCTAAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGGgtagggcagtttgggatcgaacacaagttaagggcagagcatagatatat Alignment from Spaln_nt2Genome GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGC-AGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGG aggcaatgcatttacttcgtttacttgaaattaatctcgtctgttcacagGAGCTGATGACAATAACCTCAATTTGCTCTTCTATCAACATTTGACACGCTCATTGCCAACACATGCTTTGTGGCGATCTGGTCCT-GGCTGCTGGGGCAACTATGGTCCAGGAGATTGCTTTGTACTGGCTCCAGACTACCTAAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGGgtagggcagtttgggatcgaacacaagttaagggcagagcatagatatat Alignment from Pairagon GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTG-CAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGG aggcaatgcatttacttcgtttacttgaaattaatctcgtctgttcacagGAGCTGATGACAATAACCTCAATTTGCTCTTCTATCAACATTTGACACGCTCATTGCCAACACATGCTTTGTGGCGATCTGGTCCT-GGCTGCTGGGGCAACTATGGTCCAGGAGATTGCTTTGTACTGGCTCCAGACTACCTAAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGGgtagggcagtttgggatcgaacacaagttaagggcagagcatagatatat Alignment from Exonerate_protein2genome GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGG aggcaatgcatttacttcgtttacttgaaattaatctcgtctgttcacagGAGCTGATGACAATAACCTCAATTTGCTCTTCTATCAACATTTGACACGCTCATTGCCAACACATGCTTTGTGGCGATCTGGTCCTGGCTGCTGGGGCAACTATGGTCCAGGAGATTGCTTTGTACTGGCTCCAGACTACCTAAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGGgtagggcagtttgggatcgaacacaagttaagggcagagcatagatatat Alignment from Exonerate_coding2genome GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGG aggcaatgcatttacttcgtttacttgaaattaatctcgtctgttcacagGAGCTGATGACAATAACCTCAATTTGCTCTTCTATCAACATTTGACACGCTCATTGCCAACACATGCTTTGTGGCGATCTGGTCCTGGCTGCTGGGGCAACTATGGTCCAGGAGATTGCTTTGTACTGGCTCCAGACTACCTAAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGGgtagggcagtttgggatcgaacacaagttaagggcagagcatagatatat Alignment from GeneWise GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGG aggcaatgcatttacttcgtttacttgaaattaatctcgtctgttcacagGAGCTGATGACAATAACCTCAATTTGCTCTTCTATCAACATTTGACACGCTCATTGCCAACACATGCTTTGTGGCGATCTGGTCCTGGCTGCTGGGGCAACTATGGTCCAGGAGATTGCTTTGTACTGGCTCCAGACTACCTAAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGGgtagggcagtttgggatcgaacacaagttaagggcagagcatagatatat #### Pcnxl3_ID1169_24 --> 2 - 2 Original Alignment acTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGC-AGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACaa ggctacagaggaggggagaccgaggcagtctttctttatctccatgacagacTCAGCTATGTTGTTCCTTCAAGCTTTGCTCTCAGGTCTGTTCTCTACCCCACTCAATCCGTTATTGGGCCAGTGCAGTATTCATTATGTCCTACACAAGTCCCC-CAAATACTGGGAGAGAGACTACaagtgagtcattaagggagagcactgtagtcccagagagaccttgagggatt Alignment from CESAR acTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGC-AGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACaa ggctacagaggaggggagaccgaggcagtctttctttatctccatgacagacTCAGCTATGTTGTTCCTTCAAGCTTTGCTCTCAGGTCTGTTCTCTACCCCACTCAATCCGTTATTGGGCCAGTGCAGTATTCATTATGTCCTACACAAGTCCC-CCAAATACTGGGAGAGAGACTACaagtgagtcattaagggagagcactgtagtcccagagagaccttgagggatt Alignment from Spaln_aa2Genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ggctacagaggaggggagaccgaggcagtctttctttatctccatgacagACTCAGCTATGTTGTTCCTTCAAGCTTTGCTCTCAGGTCTGTTCTCTACCCCACTCAATCCGTTATTGGGCCAGTGCAGTATTCATTATGTCCTACACAAGTCCCCCAAATACTGGGAGAGAGACTACAAgtgagtcattaagggagagcactgtagtcccagagagaccttgagggatt Alignment from Spaln_nt2Genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGC-AGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ggctacagaggaggggagaccgaggcagtctttctttatctccatgacagACTCAGCTATGTTGTTCCTTCAAGCTTTGCTCTCAGGTCTGTTCTCTACCCCACTCAATCCGTTATTGGGCCAGTGCAGTATTCATTATGTCCTACACAAGTCCCC-CAAATACTGGGAGAGAGACTACAAgtgagtcattaagggagagcactgtagtcccagagagaccttgagggatt Alignment from Pairagon ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGG-CAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ggctacagaggaggggagaccgaggcagtctttctttatctccatgacagACTCAGCTATGTTGTTCCTTCAAGCTTTGCTCTCAGGTCTGTTCTCTACCCCACTCAATCCGTTATTGGGCCAGTGCAGTATTCATTATGTCCTACACAAGTCCCC-CAAATACTGGGAGAGAGACTACAAgtgagtcattaagggagagcactgtagtcccagagagaccttgagggatt Alignment from Exonerate_protein2genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ggctacagaggaggggagaccgaggcagtctttctttatctccatgacagACTCAGCTATGTTGTTCCTTCAAGCTTTGCTCTCAGGTCTGTTCTCTACCCCACTCAATCCGTTATTGGGCCAGTGCAGTATTCATTATGTCCTACACAAGTCCCCCAAATACTGGGAGAGAGACTACAAgtgagtcattaagggagagcactgtagtcccagagagaccttgagggatt Alignment from Exonerate_coding2genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ggctacagaggaggggagaccgaggcagtctttctttatctccatgacagACTCAGCTATGTTGTTCCTTCAAGCTTTGCTCTCAGGTCTGTTCTCTACCCCACTCAATCCGTTATTGGGCCAGTGCAGTATTCATTATGTCCTACACAAGTCCCCCAAATACTGGGAGAGAGACTACAAgtgagtcattaagggagagcactgtagtcccagagagaccttgagggatt Alignment from GeneWise ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ggctacagaggaggggagaccgaggcagtctttctttatctccatgacagACTCAGCTATGTTGTTCCTTCAAGCTTTGCTCTCAGGTCTGTTCTCTACCCCACTCAATCCGTTATTGGGCCAGTGCAGTATTCATTATGTCCTACACAAGTCCCCCAAATACTGGGAGAGAGACTACAAgtgagtcattaagggagagcactgtagtcccagagagaccttgagggatt #### Pcnxl3_ID1174_19 --> 0 - 0 Original Alignment CGGGAAGTCTTGCACTCCGACCTG-GTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG gtgaagcaatctgggcagtcactgtcacccttttctgtaatttttatcagAGGGAAGTCTTGCACTCTGACCTGCGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCCGTCAGCG-TAGCATTGTGTTCATTGCCTTGAAAgtgcgtgcagcatggagcagcctagatagatctgctgctatcttggttat Alignment from CESAR CGGGAAGTCTTGCACTCCGACCTG-GTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG gtgaagcaatctgggcagtcactgtcacccttttctgtaatttttatcagAGGGAAGTCTTGCACTCTGACCTGCGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCCGTCAGC-GTAGCATTGTGTTCATTGCCTTGAAAgtgcgtgcagcatggagcagcctagatagatctgctgctatcttggttat Alignment from Spaln_aa2Genome CGGGAAGTCTTGCACTCCGACCTG-GTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG gtgaagcaatctgggcagtcactgtcacccttttctgtaatttttatcagAGGGAAGTCTTGCACTCTGACCTGcGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCCGTCAGCGT-AGCATTGTGTTCATTGCCTTGAAAgtgcgtgcagcatggagcagcctagatagatctgctgctatcttggttat Alignment from Spaln_nt2Genome CGGGAAGTCTTGCACTCCGACCTG-GTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG gtgaagcaatctgggcagtcactgtcacccttttctgtaatttttatcagAGGGAAGTCTTGCACTCTGACCTGCGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCCGTCAGCG-TAGCATTGTGTTCATTGCCTTGAAAgtgcgtgcagcatggagcagcctagatagatctgctgctatcttggttat Alignment from Pairagon CGGGAAGTCTTGCACTCCGACCTG-GTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG gtgaagcaatctgggcagtcactgtcacccttttctgtaatttttatcagAGGGAAGTCTTGCACTCTGACCTGCGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCCGTCAGCG-TAGCATTGTGTTCATTGCCTTGAAAgtgcgtgcagcatggagcagcctagatagatctgctgctatcttggttat Alignment from Exonerate_protein2genome CGGGAAGTCTTGCACTCCGACCTG-GTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGT--GCCAGCACCGTCTTCATTGCCCTGAAG gtgaagcaatctgggcagtcactgtcacccttttctgtaatttttatcagAGGGAAGTCTTGCACTCTGACCTGCGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCCGTCAGCGT---AGCATTGTGTTCATTGCCTTGAAAgtgcgtgcagcatggagcagcctagatagatctgctgctatcttggttat Alignment from Exonerate_coding2genome CGGGAAGTCTTGCACTCCGACCTGGT---GATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG gtgaagcaatctgggcagtcactgtcacccttttctgtaatttttatcagAGGGAAGTCTTGCACTCTGACCTG--CGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCCGTCAG-CGTAGCATTGTGTTCATTGCCTTGAAAgtgcgtgcagcatggagcagcctagatagatctgctgctatcttggttat Alignment from GeneWise CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG gtgaagcaatctgggcagtcactgtcacccttttctgtaatttttatcagAGGGAAGTCTTGCACTCTGACCTGCGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCCGTCAGCGTAGCATTGTGTTCATTGCCTTGAAAgtgcgtgcagcatggagcagcctagatagatctgctgctatcttggttat #### Pcnxl3_ID1178_15 --> 2 - 1 Original Alignment GTGGCCACTg tgTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTC-CTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAg GTGGCAACTggtaagacagttcaagatacacttatgttttctttgtttagtaTTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCCTGCCCCAGGTCAACACCTGCCTCACGTACCTCTTGGAACAAA-AGATATGCATGGTTTTGGAGGCACAggtgtgttgtgctcagggtggtcttttccaggaagatcgcatctaccaaat Alignment from CESAR GTGGCCACTg tgTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTC-CTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAg GTGGCAACTggtagaccagttcaagatacacttatgttttctttgtttagtaTTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCCTGCCCCAGGTCAACACCTGCCTCACGTACCTCTTGGAACAA-AAGATATGCATGGTTTTGGAGGCACAggtgtgttgtgctcagggtggtcttttccaggaagatcgcatctaccaaat Alignment from Spaln_aa2Genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaagacagttcaagatacacttatgttttctttgtttagTATTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCCTGCCCCAGGTCAACACCTGCCTCACGTACCTCTTGGAACAAAAGATATGCATGGTTTTGGAGGCACAGgtgtgttgtgctcagggtggtcttttccaggaagatcgcatctaccaaat Alignment from Spaln_nt2Genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCC-TGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaagacagttcaagatacacttatgttttctttgtttagTATTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCCTGCCCCAGGTCAACACCTGCCTCACGTACCTCTTGGAACA-AAAGATATGCATGGTTTTGGAGGCACAGgtgtgttgtgctcagggtggtcttttccaggaagatcgcatctaccaaat Alignment from Pairagon GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCT-CCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaagacagttcaagatacacttatgttttctttgtttagTATTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCCTGCCCCAGGTCAACACCTGCCTCACGTACCTCTTGGAACAAA-AGATATGCATGGTTTTGGAGGCACAGgtgtgttgtgctcagggtggtcttttccaggaagatcgcatctaccaaat Alignment from Exonerate_protein2genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTC-CTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAG--ATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaagacagttcaagatacacttatgttttctttgtttagTATTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCCTGCCCCAGGTCAACACCTGCCTCACGTACCTCTTGGAACAAAA---GATATGCATGGTTTTGGAGGCACAGgtgtgttgtgctcagggtggtcttttccaggaagatcgcatctaccaaat Alignment from Exonerate_coding2genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTC-CTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAG--ATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaagacagttcaagatacacttatgttttctttgtttagTATTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCCTGCCCCAGGTCAACACCTGCCTCACGTACCTCTTGGAACAAAA---GATATGCATGGTTTTGGAGGCACAGgtgtgttgtgctcagggtggtcttttccaggaagatcgcatctaccaaat Alignment from GeneWise GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTC-CTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaagacagttcaagatacacttatgttttctttgtttagTATTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCCTGCCCCAGGTCAACACCTGCCTCACGTACCTCTTGGAACAAAA-GATATGCATGGTTTTGGAGGCACAGgtgtgttgtgctcagggtggtcttttccaggaagatcgcatctaccaaat #### Pcnxl3_ID1188_5 --> 2 - 1 Original Alignment acATCAAGGAGCTGGTA-CGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGa ccatgattgggagaaagccagttagaataatataaatgtttgctttgtagacATCAAAGAGCTGGTACCGGGAGCAGAGCAGCAACAATGTAATTGTTACATCTG-GGGCCGTGAAATGCTGAGGCTCAGCTCCAAGGAGAAACTCagtgagaggaaatctggcaggctccttttaaaagtagaacatctttaaaag Alignment from CESAR acATCAAGGAGCTGGTA-CGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGa ccatgattgggagaaagccagttagaataatataaatgtttgctttgtagacATCAAAGAGCTGGTACCGGGAGCAGAGCAGCAACAATGTAATTGTTACATCT-GGGGCCGTGAAATGCTGAGGCTCAGCTCCAAGGAGAAACTCagtgagaggaaatctggcaggctccttttaaaagtagaacatctttaaaag Alignment from Spaln_aa2Genome ACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA ccatgattgggagaaagccagttagaataatataaatgtttgctttgtagACATCAAAGAGCTGGTACCGGGAGCAGAGCAGCAACAATGTAATTGTTACATCTGGGGCCGTGAAATGCTGAGGCTCAGCTCCAAGGAGAAACTCAgtgagaggaaatctggcaggctccttttaaaagtagaacatctttaaaag Alignment from Spaln_nt2Genome ACATCAAGGAGCTGGTAC-GGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA ccatgattgggagaaagccagttagaataatataaatgtttgctttgtagACATCAAAGAGCTGGTACCGGGAGCAGAGCAGCAACAATGTAATTGTTACATCTG-GGGCCGTGAAATGCTGAGGCTCAGCTCCAAGGAGAAACTCAgtgagaggaaatctggcaggctccttttaaaagtagaacatctttaaaag Alignment from Pairagon ACATCAAGGAGCTGGTA-CGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA ccatgattgggagaaagccagttagaataatataaatgtttgctttgtagACATCAAAGAGCTGGTACCGGGAGCAGAGCAGCAACAATGTAATTGTTACATCTG-GGGCCGTGAAATGCTGAGGCTCAGCTCCAAGGAGAAACTCAgtgagaggaaatctggcaggctccttttaaaagtagaacatctttaaaag Alignment from Exonerate_protein2genome ACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA ccatgattgggagaaagccagttagaataatataaatgtttgctttgtagACATCAAAGAGCTGGTACCGGGAGCAGAGCAGCAACAATGTAATTGTTACATCTGGGGCCGTGAAATGCTGAGGCTCAGCTCCAAGGAGAAACTCAgtgagaggaaatctggcaggctccttttaaaagtagaacatctttaaaag Alignment from Exonerate_coding2genome ccatgattgggagaaagccagttagaataatataaatgtttgctttgtagacatcaaagagctggtaccgggagcagagcagcaacaatgtaattgttacatctggggccgtgaaatgctgaggctcagctccaaggagaaactcagtgagaggaaatctggcaggctccttttaaaagtagaacatctttaaaag Alignment from GeneWise ACATCAAGGAGCTGGTA------CGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA ccatgattgggagaaagccagttagaataatataaatgtttgctttgtagACATCAAAGAGCTGGTACCGGGAGCAGAGCAGCAACAATGTAATTGTTACATCTGGGGC------CGTGAAATGCTGAGGCTCAGCTCCAAGGAGAAACTCAgtgagaggaaatctggcaggctccttttaaaagtagaacatctttaaaag #### Pcsk5_ID4264_19 --> 2 - 2 Original Alignment ggGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGT-GTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGag gggtatgacatgtaccagctgattgcctttaattgtcttttctacaaaagggGCTGGAGCAGATGGATTCATAAATTGCACTGAGGGGTATGTCATGGAAGAGGGAAAATGTGTTCAGAGTTGTAGTCGTGAGTTACTACTTGGACCACTCCTCAGAGGGTG-CTACAAATCCTGCAAAaggtaaggttaccaattgtagtccagccccgacactcagtatgagttggctc Alignment from CESAR ggGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGT-GTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGag gggtatgacatgtaccagctgattgcctttaattgtcttttctacaaaagggGCTGGAGCAGATGGATTCATAAATTGCACTGAGGGGTATGTCATGGAAGAGGGAAAATGTGTTCAGAGTTGTAGTCGTGAGTTACTACTTGGACCACTCCTCAGAGGGT-GCTACAAATCCTGCAAAaggtaaggttaccaattgtagtccagccccgacactcagtatgagttggctc Alignment from Spaln_aa2Genome GGGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGT-GTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG gggtatgacatgtaccagctgattgcctttaattgtcttttctacaaaagGGGCTGGAGCAGATGGATTCATAAATTGCACTGAGGGGTATGTCATGGAAGAGGGAAAATGTGTTCAGAGTTGTAGTcGTGAGTTACTACTTGGACCACTCCTCAGAGGGTGC-TACAAATCCTGCAAAAGgtaaggttaccaattgtagtccagccccgacactcagtatgagttggctc Alignment from Spaln_nt2Genome GGGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGT-GTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG gggtatgacatgtaccagctgattgcctttaattgtcttttctacaaaagGGGCTGGAGCAGATGGATTCATAAATTGCACTGAGGGGTATGTCATGGAAGAGGGAAAATGTGTTCAGAGTTGTAGTCGTGAGTTACTACTTGGACCACTCCTCAGAGGGT-GCTACAAATCCTGCAAAAGgtaaggttaccaattgtagtccagccccgacactcagtatgagttggctc Alignment from Pairagon GGGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGT-GTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG gggtatgacatgtaccagctgattgcctttaattgtcttttctacaaaagGGGCTGGAGCAGATGGATTCATAAATTGCACTGAGGGGTATGTCATGGAAGAGGGAAAATGTGTTCAGAGTTGTAGTCGTGAGTTACTACTTGGACCACTCCTCAGAGGGT-GCTACAAATCCTGCAAAAGgtaaggttaccaattgtagtccagccccgacactcagtatgagttggctc Alignment from Exonerate_protein2genome CTTGCTCTGGGGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG gggtatgacatgtaccagctgattgcctttaattgtcttttCTACAAAAGGGGCTGGAGCAGATGGATTCATAAATTGCACTGAGGGGTATGTCATGGAAGAGGGAAAATGTGTTCAGAGTTGTAGTCGTGAGTTACTACTTGGACCACTCCTCAGAGGGTGCTACAAATCCTGCAAAAGgtaaggttaccaattgtagtccagccccgacactcagtatgagttggctc Alignment from Exonerate_coding2genome ACTTGCTCTGGGGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG gggtatgacatgtaccagctgattgcctttaattgtctttTCTACAAAAGGGGCTGGAGCAGATGGATTCATAAATTGCACTGAGGGGTATGTCATGGAAGAGGGAAAATGTGTTCAGAGTTGTAGTCGTGAGTTACTACTTGGACCACTCCTCAGAGGGTGCTACAAATCCTGCAAAAGgtaaggttaccaattgtagtccagccccgacactcagtatgagttggctc Alignment from GeneWise GGGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG gggtatgacatgtaccagctgattgcctttaattgtcttttctacaaaagGGGCTGGAGCAGATGGATTCATAAATTGCACTGAGGGGTATGTCATGGAAGAGGGAAAATGTGTTCAGAGTTGTAGTCGTGAGTTACTACTTGGACCACTCCTCAGAGGGTGCTACAAATCCTGCAAAAGgtaaggttaccaattgtagtccagccccgacactcagtatgagttggctc #### Pcx_ID553_3 --> 2 - 0 Original Alignment gtGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTT-ATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tttatctccagcatcttcagggagggggataatcataactcctcttacaggtGAGATTGCTATCCGAGTCTTTCGTGCATGCAGAGAACTGGGCATCCGCACAGTAGCTGTGTATTCGGAACAGGATACAGGGCTAATGCATAGGCAGAAAGCAGATGAGGGTTACCTTCCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACA-TCCAGACATCATTAGGGTTTCCAAGgtgagcactgattacctttacagggtttctgctgacttggaagaactgcg Alignment from CESAR gtGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTT-ATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tttatctccagcatcttcagggagggggataatcataactcctcttacaggtGAGATTGCTATCCGAGTCTTTCGTGCATGCAGAGAACTGGGCATCCGCACAGTAGCTGTGTATTCGGAACAGGATACAGGGCTAATGCATAGGCAGAAAGCAGATGAGGGTTACCTTCCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACA-TCCAGACATCATTAGGGTTTCCAAGgtgagcactgattacctttacagggtttctgctgacttggaagaactgcg Alignment from Spaln_aa2Genome tttatctccagcatcttcagggagggggataatcataactcctcttacaggtgagattgctatccgagtctttcgtgcatgcagagaactgggcatccgcacagtagctgtgtattcggaacaggatacagggctaatgcataggcagaaagcagatgagggttaccttccttggtcgtggcctggcacctgtccaaacctatttgcacatccagacatcattagggtttccaaggtgagcactgattacctttacagggtttctgctgacttggaagaactgcg Alignment from Spaln_nt2Genome tttatctccagcatcttcagggagggggataatcataactcctcttacaggtgagattgctatccgagtctttcgtgcatgcagagaactgggcatccgcacagtagctgtgtattcggaacaggatacagggctaatgcataggcagaaagcagatgagggttaccttccttggtcgtggcctggcacctgtccaaacctatttgcacatccagacatcattagggtttccaaggtgagcactgattacctttacagggtttctgctgacttggaagaactgcg Alignment from Pairagon GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTT-ATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tttatctccagcatcttcagggagggggataatcataactcctcttacagGTGAGATTGCTATCCGAGTCTTTCGTGCATGCAGAGAACTGGGCATCCGCACAGTAGCTGTGTATTCGGAACAGGATACAGGGCTAATGCATAGGCAGAAAGCAGATGAGGGTTACCTTCCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACA-TCCAGACATCATTAGGGTTTCCAAGgtgagcactgattacctttacagggtttctgctgacttggaagaactgcg Alignment from Exonerate_protein2genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTT-ATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTG--CACATTCCAGACATCATCAAGGTGGCCAAG tttatctccagcatcttcagggagggggataatcataactcctcttacagGTGAGATTGCTATCCGAGTCTTTCGTGCATGCAGAGAACTGGGCATCCGCACAGTAGCTGTGTATTCGGAACAGGATACAGGGCTAATGCATAGGCAGAAAGCAGATGAGGGTTACCTTCCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACAT---CCAGACATCATTAGGGTTTCCAAGgtgagcactgattacctttacagggtttctgctgacttggaagaactgcg Alignment from Exonerate_coding2genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTT-ATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTG--CACATTCCAGACATCATCAAGGTGGCCAAG tttatctccagcatcttcagggagggggataatcataactcctcttacagGTGAGATTGCTATCCGAGTCTTTCGTGCATGCAGAGAACTGGGCATCCGCACAGTAGCTGTGTATTCGGAACAGGATACAGGGCTAATGCATAGGCAGAAAGCAGATGAGGGTTACCTTCCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACAT---CCAGACATCATTAGGGTTTCCAAGgtgagcactgattacctttacagggtttctgctgacttggaagaactgcg Alignment from GeneWise GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTT-ATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tttatctccagcatcttcagggagggggataatcataactcctcttacagGTGAGATTGCTATCCGAGTCTTTCGTGCATGCAGAGAACTGGGCATCCGCACAGTAGCTGTGTATTCGGAACAGGATACAGGGCTAATGCATAGGCAGAAAGCAGATGAGGGTTACCTTCCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACAT-CCAGACATCATTAGGGTTTCCAAGgtgagcactgattacctttacagggtttctgctgacttggaagaactgcg #### Pcx_ID556_6 --> 0 - 1 Original Alignment GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCG-TTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAg tgtattgaaaatgcagacccatggctgcagaggactctttctctgcacagGAGCTAGAGAAGAATTATACCCGAGCCTACTCTGAAGCCTTGGCGGCTTTTGGGAACAGAGCCCCTGTTTGTCGAGAAGTTTATTGGACAGCCAAGCC-TTTTGAGGTGCAGATCCTAggtaaggaaatagatggctgcaactgcccaatacatctgagagactgccat Alignment from CESAR GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCG-TTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAg tgtattgaaaatgcagacccatggctgcagaggactctttctctgcacagGAGCTAGAGAAGAATTATACCCGAGCCTACTCTGAAGCCTTGGCGGCTTTTGGGAACAGAGCCCCTGTTTGTCGAGAAGTTTATTGGACAGC-CAAGCCTTTTGAGGTGCAGATCCTAggtaaggaaatagatggctgcaactgcccaatacatctgagagactgccat Alignment from Spaln_aa2Genome GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG tgtattgaaaatgcagacccatggctgcagaggactctttctctgcacagGAGCTAGAGAAGAATTATACCCGAGCCTACTCTGAAGCCTTGGCGGCTTTTGGGAACAGAGCCCCTGTTTGTCGAGAAGTTTATTGGACAGCCAAGCCTTTTGAGGTGCAGATCCTAGgtaaggaaatagatggctgcaactgcccaatacatctgagagactgccat Alignment from Spaln_nt2Genome tgtattgaaaatgcagacccatggctgcagaggactctttctctgcacaggagctagagaagaattatacccgagcctactctgaagccttggcggcttttgggaacagagcccctgtttgtcgagaagtttattggacagccaagccttttgaggtgcagatcctaggtaaggaaatagatggctgcaactgcccaatacatctgagagactgccat Alignment from Pairagon GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAG-CGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG tgtattgaaaatgcagacccatggctgcagaggactctttctctgcacagGAGCTAGAGAAGAATTATACCCGAGCCTACTCTGAAGCCTTGGCGGCTTTTGGGAACAGAGCCCCTGTTTGTCGAGAAGTTTATTGGACAGCCAA-GCCTTTTGAGGTGCAGATCCTAGgtaaggaaatagatggctgcaactgcccaatacatctgagagactgccat Alignment from Exonerate_protein2genome GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG tgtattgaaaatgcagacccatggctgcagaggactctttctctgcacagGAGCTAGAGAAGAATTATACCCGAGCCTACTCTGAAGCCTTGGCGGCTTTTGGGAACAGAGCCCCTGTTTGTCGAGAAGTTTATTGGACAGCCAAGCCTTTTGAGGTGCAGATCCTAGgtaaggaaatagatggctgcaactgcccaatacatctgagagactgccat Alignment from Exonerate_coding2genome GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG tgtattgaaaatgcagacccatggctgcagaggactctttctctgcacagGAGCTAGAGAAGAATTATACCCGAGCCTACTCTGAAGCCTTGGCGGCTTTTGGGAACAGAGCCCCTGTTTGTCGAGAAGTTTATTGGACAGCCAAGCCTTTTGAGGTGCAGATCCTAGgtaaggaaatagatggctgcaactgcccaatacatctgagagactgccat Alignment from GeneWise GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG tgtattgaaaatgcagacccatggctgcagaggactctttctctgcacagGAGCTAGAGAAGAATTATACCCGAGCCTACTCTGAAGCCTTGGCGGCTTTTGGGAACAGAGCCCCTGTTTGTCGAGAAGTTTATTGGACAGCCAAGCCTTTTGAGGTGCAGATCCTAGgtaaggaaatagatggctgcaactgcccaatacatctgagagactgccat #### Pcx_ID563_12 --> 2 - 1 Original Alignment gaCATGTCATGGTGAATGGC-CCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAg ctctttggaatcccagaagccagcgtggttgcttttgtgtctttttttaggaCATGTTATGGTCAATGGCCCCTATCACACCAATCCCAGTCAATGTGACCCCCAGTC-TGTAGATCCTGCAGTTCCGGCAGTCCCTATAggtaagatatggtacctgtttgtatcttaatgagaaggtgtgtcagatgat Alignment from CESAR gaCATGTCATGGTGAATGGC-CCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAg ctctttggaatcccagaagccagcgtggttgcttttgtgtctttttttaggaCATGTTATGGTCAATGGCCCCTATCACACCAATCCCAGTCAATGTGACCCCCA-GTCTGTAGATCCTGCAGTTCCGGCAGTCCCTATAggtaagatatggtacctgtttgtatcttaatgagaaggtgtgtcagatgat Alignment from Spaln_aa2Genome GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG ctctttggaatcccagaagccagcgtggttgcttttgtgtctttttttagGACATGTTATGGTCAATGGCCCCTATCACACCAATCCCAGTCAATGTGACCCCCAGTCTGTAGATCCTGCAGTTCCGGCAGTCCCTATAGgtaagatatggtacctgtttgtatcttaatgagaaggtgtgtcagatgat Alignment from Spaln_nt2Genome GACATGTCATGGTGAATGGCCC-TACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG ctctttggaatcccagaagccagcgtggttgcttttgtgtctttttttagGACATGTTATGGTCAATGGCCCCTATCACACCAATCCCAGTCAATGTGACCCCCAGT-CTGTAGATCCTGCAGTTCCGGCAGTCCCTATAGgtaagatatggtacctgtttgtatcttaatgagaaggtgtgtcagatgat Alignment from Pairagon GACATGTCATGGTGAATGG-CCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG ctctttggaatcccagaagccagcgtggttgcttttgtgtctttttttagGACATGTTATGGTCAATGGCCCCTATCACACCAATCCCAGTCAATGTGACCCCCAGT-CTGTAGATCCTGCAGTTCCGGCAGTCCCTATAGgtaagatatggtacctgtttgtatcttaatgagaaggtgtgtcagatgat Alignment from Exonerate_protein2genome GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG ctctttggaatcccagaagccagcgtggttgcttttgtgtctttttttagGACATGTTATGGTCAATGGCCCCTATCACACCAATCCCAGTCAATGTGACCCCCAGTCTGTAGATCCTGCAGTTCCGGCAGTCCCTATAGgtaagatatggtacctgtttgtatcttaatgagaaggtgtgtcagatgat Alignment from Exonerate_coding2genome ctctttggaatcccagaagccagcgtggttgcttttgtgtctttttttaggacatgttatggtcaatggcccctatcacaccaatcccagtcaatgtgacccccagtctgtagatcctgcagttccggcagtccctataggtaagatatggtacctgtttgtatcttaatgagaaggtgtgtcagatgat Alignment from GeneWise GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG ctctttggaatcccagaagccagcgtggttgcttttgtgtctttttttagGACATGTTATGGTCAATGGCCCCTATCACACCAATCCCAGTCAATGTGACCCCCAGTCTGTAGATCCTGCAGTTCCGGCAGTCCCTATAGgtaagatatggtacctgtttgtatcttaatgagaaggtgtgtcagatgat #### Pcx_ID565_14 --> 1 - 0 Original Alignment gTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTG-GAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG aatgaatcataagagtcagaaatgtgtcctttttaaaaatatttttgcaggTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTCGAGGCTGCCATTTCCTACACTGGGGAAG-GGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAGCTGGATCTCACATATTGTGTATTAAGgtgagcgggctattcagtgtgtctcaatcttttgatcatagctccttttc Alignment from CESAR gTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTG-GAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG aatgaatcataagagtcagaaatgtgtcctttttaaaaatatttttgcaggTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTCGAGGCTGCCATTTCCTACACTGGGGAA-GGGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAGCTGGATCTCACATATTGTGTATTAAGgtgagcgggctattcagtgtgtctcaatcttttgatcatagctctgttct Alignment from Spaln_aa2Genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG aatgaatcataagagtcagaaatgtgtcctttttaaaaatatttttgcagGTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTCGAGGCTGCCATTTCCTACACTGGGGAAGGGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAGCTGGATCTCACATATTGTGTATTAAGgtgagcgggctattcagtgtgtctcaatcttttgatcatagctccttttc Alignment from Spaln_nt2Genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTG-GAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG aatgaatcataagagtcagaaatgtgtcctttttaaaaatatttttgcagGTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTCGAGGCTGCCATTTCCTACACTGGGGAAG-GGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAGCTGGATCTCACATATTGTGTATTAAGgtgagcgggctattcagtgtgtctcaatcttttgatcatagctccttttc Alignment from Pairagon GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGG-TGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG aatgaatcataagagtcagaaatgtgtcctttttaaaaatatttttgcagGTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTCGAGGCTGCCATTTCCTACACTGGGGAAG-GGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAGCTGGATCTCACATATTGTGTATTAAGgtgagcgggctattcagtgtgtctcaatcttttgatcatagctccttttc Alignment from Exonerate_protein2genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG aatgaatcataagagtcagaaatgtgtcctttttaaaaatatttttgcagGTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTCGAGGCTGCCATTTCCTACACTGGGGAAGGGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAGCTGGATCTCACATATTGTGTATTAAGgtgagcgggctattcagtgtgtctcaatcttttgatcatagctccttttc Alignment from Exonerate_coding2genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG aatgaatcataagagtcagaaatgtgtcctttttaaaaatatttttgcagGTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTCGAGGCTGCCATTTCCTACACTGGGGAAGGGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAGCTGGATCTCACATATTGTGTATTAAGgtgagcgggctattcagtgtgtctcaatcttttgatcatagctccttttc Alignment from GeneWise GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG aatgaatcataagagtcagaaatgtgtcctttttaaaaatatttttgcagGTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTCGAGGCTGCCATTTCCTACACTGGGGAAGGGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAGCTGGATCTCACATATTGTGTATTAAGgtgagcgggctattcagtgtgtctcaatcttttgatcatagctccttttc #### Pcx_ID566_15 --> 0 - 1 Original Alignment GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAG-CCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAg agtgtgtctcaatcttttgatcatagctctgttctgttctttggtgatagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGCTAGTCAGTTCCCTGTGGGACCGGTCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGAGCAGGTGTTGCAGCCACACTGGCTTGTTCACAGGCAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGA-TCCCTCTGAAACAggtgagacaagagattgacttatagttgaatgactgatagtgctgcaataa Alignment from CESAR GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAG-CCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAg agtgtgtctcaatcttttgatcatagctctgttctgttctttggtgatagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGCTAGTCAGTTCCCTGTGGGACCGGTCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGAGCAGGTGTTGCAGCCACACTGGCTTGTTCACAGGCAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGATCCCTC-TGAAACAggtgagacaagagattgacttatagttgaatgactgatagtgctgcaataa Alignment from Spaln_aa2Genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGAC---GTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCA-AGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG agtgtgtctcaatcttttgatcatagctctgttctgttctttggtgatagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGCTAGTCAGTTCCCTGTGGGACCGGTCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGAGCAGGTGTTGCAGCCACACTGGCTTGTTCACAGGCAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCCaAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGATCCCTCTGAA-ACAGgtgagacaagagattgacttatagttgaatgactgatagtgctgcaataa Alignment from Spaln_nt2Genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTGG---CAGTAGACTCCATGTCTGGGATGACCTCACAGCC-AAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG agtgtgtctcaatcttttgatcatagctctgttctgttctttggtgatagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGCTAGTCAGTTCCCTGTGGGACCGGTCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGAGCAGGTGTTGCAGCCACACTGGCTTGTTCACAGGCAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGA-TCCCTCTGAAACAGgtgagacaagagattgacttatagttgaatgactgatagtgctgcaataa Alignment from Pairagon GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAG-CCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG agtgtgtctcaatcttttgatcatagctctgttctgttctttggtgatagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGCTAGTCAGTTCCCTGTGGGACCGGTCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGAGCAGGTGTTGCAGCCACACTGGCTTGTTCACAGGCAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGATCCCTCTGAA-ACAGgtgagacaagagattgacttatagttgaatgactgatagtgctgcaataa Alignment from Exonerate_protein2genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGAC---GTGGCAGTAGACTCCATGTCTGGGATGACCTCACAG-CCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACA agtgtgtctcaatcttttgatcatagctctgttctgttctttggtgatagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGCTAGTCAGTTCCCTGTGGGACCGGTCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGAGCAGGTGTTGCAGCCACACTGGCTTGTTCACAGGCAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGATCCCTCTGAAACAGgtgagacaagagattgacttatagttgaatgactgatagtgctgcaataa Alignment from Exonerate_coding2genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGAC---GTGGCAGTAGACTCCATGTCTGGGATGACCTCACAG-CCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACA agtgtgtctcaatcttttgatcatagctctgttctgttctttggtgatagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGCTAGTCAGTTCCCTGTGGGACCGGTCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGAGCAGGTGTTGCAGCCACACTGGCTTGTTCACAGGCAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGATCCCTCTGAAACAGgtgagacaagagattgacttatagttgaatgactgatagtgctgcaataa Alignment from GeneWise GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGAC---GTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG agtgtgtctcaatcttttgatcatagctctgttctgttctttggtgatagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGCTAGTCAGTTCCCTGTGGGACCGGTCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGAGCAGGTGTTGCAGCCACACTGGCTTGTTCACAGGCAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGATCCCTCTGAAACAGgtgagacaagagattgacttatagttgaatgactgatagtgctgcaataa #### Pcx_ID567_16 --> 2 - 0 Original Alignment agGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAAC-TCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCAAG actaactatttttgtacaaccaactcctactgtgttccctcccactccagcaTTACCCCTGGAACGTGTATTTGACTATAGTGGGTACTGGGAAGGTTCTAGGGGGTTGTAT------TTTGATTGTATTGCCTCTATGAAATCTGGTAACCTTGGATCTATACAAAAACGAGATTCCAGGTGGAC-ATACACCAATCTGCATTTCCCAGCCCGT------AGACTTGGTTCAAAGTTCAAGGCAGTTAAGAAAGCTTATGTGGAGGCTAATCAAATGCTGGGGGACCTCATCGAAgtgagatggaatgccaggtgtttggcaactatctatggtggttacctgac Alignment from CESAR agGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAAC-TCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCAAG actaactatttttgtacaaccaactcctactgtgttccctcccactccagcaTTACCCCTGGAACGTGTATTTGACTATAGTGGGTACTGGGAAGGTTCTAGGGGGTTGTAT------TTTGATTGTATTGCCTCTATGAAATCTGGTAACCTTGGATCTATACAAAAACGAGATTCCAGGTGGAC-ATACACCAATCTGCATTTCCCAGCCCGTAGA------CTTGGTTCAAAGTTCAAGGCAGTTAAGAAAGCTTATGTGGAGGCTAATCAAATGCTGGGGGACCTCATCGAAgtgagatggaatgccaggtgtttggcaactatctatggtggttacctgac Alignment from Spaln_aa2Genome AGGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCAAG actaactatttttgtacaaccaactcctactgtgttccctcccactccagCATTACCCCTGGAACGTGTATTTGACTATAGTGGGTACTGGGAAGGTTCTAGGGGGTTGTAT------TTTGATTGTATTGCCTCTATGAAATCTGGTAACCTTGGATCTATACAAAAACGAGATTCCAGGTGGACATACACCAATCTGCATTTCCCAGCCCGT------AGACTTGGTTCAAAGTTCAAGGCAGTTAAGAAAGCTTATGTGGAGGCTAATCAAATGCTGGGGGACCTCATCGAAgtgagatggaatgccaggtgtttggcaactatctatggtggttacctgac Alignment from Spaln_nt2Genome AGGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAAC-TCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCAAG actaactatttttgtacaaccaactcctactgtgttccctcccactccagCATTACCCCTGGAACGTGTATTTGACTATAGTGGGTACTGGGAAGGTTCTAGGGGGTTGTA------TTTTGATTGTATTGCCTCTATGAAATCTGGTAACCTTGGATCTATACAAAAACGAGATTCCAGGTGGACA-TACACCAATCTGCATTTCCCAGCCCGTA------GACTTGGTTCAAAGTTCAAGGCAGTTAAGAAAGCTTATGTGGAGGCTAATCAAATGCTGGGGGACCTCATCGAAgtgagatggaatgccaggtgtttggcaactatctatggtggttacctgac Alignment from Pairagon AGGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAA-CTCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCAAG actaactatttttgtacaaccaactcctactgtgttccctcccactccagCATTACCCCTGGAACGTGTATTTGACTATAGTGGGTACTGGGAAGGTTCTAGGGGGTTGTA------TTTTGATTGTATTGCCTCTATGAAATCTGGTAACCTTGGATCTATACAAAAACGAGATTCCAGGTGGACA-TACACCAATCTGCATTTCCCAGCCCGTA------GACTTGGTTCAAAGTTCAAGGCAGTTAAGAAAGCTTATGTGGAGGCTAATCAAATGCTGGGGGACCTCATCGAAgtgagatggaatgccaggtgtttggcaactatctatggtggttacctgac Alignment from Exonerate_protein2genome AGGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCAAG actaactatttttgtacaaccaactcctactgtgttccctcccactccagCATTACCCCTGGAACGTGTATTTGACTATAGTGGGTACTGGGAAGGTTCTAGGGGGTTGTAT------TTTGATTGTATTGCCTCTATGAAATCTGGTAACCTTGGATCTATACAAAAACGAGATTCCAGGTGGACATACACCAATCTGCATTTCCCAGCCCGTAGA------CTTGGTTCAAAGTTCAAGGCAGTTAAGAAAGCTTATGTGGAGGCTAATCAAATGCTGGGGGACCTCATCGAAgtgagatggaatgccaggtgtttggcaactatctatggtggttacctgac Alignment from Exonerate_coding2genome AGGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCAAG actaactatttttgtacaaccaactcctactgtgttccctcccactccagCATTACCCCTGGAACGTGTATTTGACTATAGTGGGTACTGGGAAGGTTCTAGGGGGTTGTAT------TTTGATTGTATTGCCTCTATGAAATCTGGTAACCTTGGATCTATACAAAAACGAGATTCCAGGTGGACATACACCAATCTGCATTTCCCAGCCCGTAGA------CTTGGTTCAAAGTTCAAGGCAGTTAAGAAAGCTTATGTGGAGGCTAATCAAATGCTGGGGGACCTCATCGAAgtgagatggaatgccaggtgtttggcaactatctatggtggttacctgac Alignment from GeneWise AGGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATC----------------------------------------------------- actaactatttttgtacaaccaactcctactgtgttccctcccactccagCATTACCCCTGGAACGTGTATTTGACTATAGTGGGTACTGGGAAGGTTCTAGGGGGTTGTAT------TTTGATTGTATTGCCTCTATGAAATCTGGTAACCTTGGATCTATACAAAAACGAGATTCCAGGTGGACATACACCAATCTGCATTTCCCAGCCCGTAGA------CTTGGTTCAAAGTTCAAGGCAGTTAAGAAAGCTTATGTGGAGGCTAATCAAATGCTGGGGGACCTCATCGAAGTGAGATGGAATGCCAGGTGTTTGGCAACTATCTATGGTGGTTACCTGAC #### Pcx_ID568_17 --> 0 - 0 Original Alignment GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCA-GAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG ctatctatggtggttacctgacaagcctctgttgatgtctgtctctgcagGTGAAGTCATCTTCCAAGATTGTGGGAGACCTAGCCCAGTTCATGGTGCAGAATGGATCAAGTCGGACTGAGACACGAAGCTCAGGCAGAGGAGCTCTCCTTCCCCTGTTCTGTAGTGG-GTTCCTACAGGGGTATATTGGCATCCCACATGGAGGTTTCCCCAAGCCATTTCATTCTAAAgtgatgtaggttggtcagggtgtaaatcagtctttttctttttcctctgc Alignment from CESAR GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCA-GAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG ctatctatggtggttacctgacaagcctctgttgatgtctgtctctgcagGTGAAGTCATCTTCCAAGATTGTGGGAGACCTAGCCCAGTTCATGGTGCAGAATGGATCAAGTCGGACTGAGACACGAAGCTCAGGCAGAGGAGCTCTCCTTCCCCTGTTCTGTAGTG-GGTTCCTACAGGGGTATATTGGCATCCCACATGGAGGTTTCCCCAAGCCATTTCATTCTAAAgtgatgtaggttggtcagggtgtaaatcagtcttttgagtatacggccac Alignment from Spaln_aa2Genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG ctatctatggtggttacctgacaagcctctgttgatgtctgtctctgcagGTGAAGTCATCTTCCAAGATTGTGGGAGACCTAGCCCAGTTCATGGTGCAGAATGGATCAAGTCGGACTGAGACACGAAGCTCAGGCAGAGGAGCTCTCCTTCCCCTGTTCTGTAGTGGGTTCCTACAGGGGTATATTGGCATCCCACATGGAGGTTTCCCCAAGCCATTTCATTCTAAAgtgatgtaggttggtcagggtgtaaatcagtctttttctttttcctctgc Alignment from Spaln_nt2Genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCA-GAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG ctatctatggtggttacctgacaagcctctgttgatgtctgtctctgcagGTGAAGTCATCTTCCAAGATTGTGGGAGACCTAGCCCAGTTCATGGTGCAGAATGGATCAAGTCGGACTGAGACACGAAGCTCAGGCAGAGGAGCTCTCCTTCCCCTGTTCTGTAGTGG-GTTCCTACAGGGGTATATTGGCATCCCACATGGAGGTTTCCCCAAGCCATTTCATTCTAAAgtgatgtaggttggtcagggtgtaaatcagtctttttctttttcctctgc Alignment from Pairagon GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCA-GAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTA---------------------------------------------------- ctatctatggtggttacctgacaagcctctgttgatgtctgtctctgcagGTGAAGTCATCTTCCAAGATTGTGGGAGACCTAGCCCAGTTCATGGTGCAGAATGGATCAAGTCGGACTGAGACACGAAGCTCAGGCAGAGGAGCTCTCCTTCCCCTGTTCTGTAGTGG-GTTCCTACAGGGGTATATTGGCATCCCACATGGAGGTTTCCCCAAGCCATTTCATTCTAAAGTGATGTAGGTTGGTCAGGGTGTAAATCAGTCTTTTTCTTTTTCCTCTGC Alignment from Exonerate_protein2genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG ctatctatggtggttacctgacaagcctctgttgatgtctgtctctgcagGTGAAGTCATCTTCCAAGATTGTGGGAGACCTAGCCCAGTTCATGGTGCAGAATGGATCAAGTCGGACTGAGACACGAAGCTCAGGCAGAGGAGCTCTCCTTCCCCTGTTCTGTAGTGGGTTCCTACAGGGGTATATTGGCATCCCACATGGAGGTTTCCCCAAGCCATTTCATTCTAAAgtgatgtaggttggtcagggtgtaaatcagtctttttctttttcctctgc Alignment from Exonerate_coding2genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG ctatctatggtggttacctgacaagcctctgttgatgtctgtctctgcagGTGAAGTCATCTTCCAAGATTGTGGGAGACCTAGCCCAGTTCATGGTGCAGAATGGATCAAGTCGGACTGAGACACGAAGCTCAGGCAGAGGAGCTCTCCTTCCCCTGTTCTGTAGTGGGTTCCTACAGGGGTATATTGGCATCCCACATGGAGGTTTCCCCAAGCCATTTCATTCTAAAgtgatgtaggttggtcagggtgtaaatcagtctttttctttttcctctgc Alignment from GeneWise GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG ctatctatggtggttacctgacaagcctctgttgatgtctgtctctgcagGTGAAGTCATCTTCCAAGATTGTGGGAGACCTAGCCCAGTTCATGGTGCAGAATGGATCAAGTCGGACTGAGACACGAAGCTCAGGCAGAGGAGCTCTCCTTCCCCTGTTCTGTAGTGGGTTCCTACAGGGGTATATTGGCATCCCACATGGAGGTTTCCCCAAGCCATTTCATTCTAAAgtgatgtaggttggtcagggtgtaaatcagtctttttctttttcctctgc #### Pcx_ID569_18 --> 0 - 0 Original Alignment GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAA-TTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttggtcagggtgtaaatcagtcttttgagtatacggccactgagcagGTGCTAAAGGACCTGCCAAGAATTGAAGGACGGCCGGGAGCCTCCTTACCTCCCTTAAACCTGAAGGAGTTGGATAAGGGCCTGATTGATAGACACGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCGGCTATGTACCCATAT------ACACAACTTCAAAGACTTCACAGCTACTTTCAGCCCCC-CGATAGCCTAAATACGCGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtgcgtggtttctatatttgtgtctactcatcccatgggcctttagtgtg Alignment from CESAR GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAA-TTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttggtcagggtgtaaatcagtcttttgagtatacggccactgagcagGTGCTAAAGGACCTGCCAAGAATTGAAGGACGGCCGGGAGCCTCCTTACCTCCCTTAAACCTGAAGGAGTTGGATAAGGGCCTGATTGATAGACACGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCGGCTATGTACCCA------TATACACAACTTCAAAGACTTCACAGCTACTTTCAGCCCC-CCGATAGCCTAAATACGCGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtgcgtggtttctatatttgtgtctactcatcccatgggcctttagtgtg Alignment from Spaln_aa2Genome GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAA-TTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttggtcagggtgtaaatcagtcttttgagtatacggccactgagcagGTGCTAAAGGACCTGCCAAGAATTGAAGGACGGCCGGGAGCCTCCTTACCTCCCTTAAACCTGAAGGAGTTGGATAAGGGCCTGATTGATAGACACGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCGGCTATGTACCCA------TATACACAAcTTCAAAGACTTCACAGCTACTTTCAGCCCCCC-GATAGCCTAAATACGCGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtgcgtggtttctatatttgtgtctactcatcccatgggcctttagtgtg Alignment from Spaln_nt2Genome GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAA-TTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttggtcagggtgtaaatcagtcttttgagtatacggccactgagcagGTGCTAAAGGACCTGCCAAGAATTGAAGGACGGCCGGGAGCCTCCTTACCTCCCTTAAACCTGAAGGAGTTGGATAAGGGCCTGATTGATAGACACGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCGGCTATGTACCC------ATATACACAACTTCAAAGACTTCACAGCTACTTTCAGCCCCC-CGATAGCCTAAATACGCGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtgcgtggtttctatatttgtgtctactcatcccatgggcctttagtgtg Alignment from Pairagon GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAA----------TTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttggtcagggtgtaaatcagtcttttgagtatacggccactgagcagGTGCTAAAGGACCTGCCAAGAATTGAAGGACGGCCGGGAGCCTCCTTACCTCCCTTAAACCTGAAGGAGTTGGATAAGGGCCTGATTGATAGACACGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCGGCTATGTACCC---------------ATATACACAACTTCAAAGACTTCACAGCTACTTTCAGCCCCCC-GATAGCCTAAATACGCGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtgcgtggtttctatatttgtgtctactcatcccatgggcctttagtgtg Alignment from Exonerate_protein2genome GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttggtcagggtgtaaatcagtcttttgagtatacggccactgagcagGTGCTAAAGGACCTGCCAAGAATTGAAGGACGGCCGGGAGCCTCCTTACCTCCCTTAAACCTGAAGGAGTTGGATAAGGGCCTGATTGATAGACACGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCGGCTATGTACCCA------TATACACAACTTCAAAGACTTCACAGCTACTTTCAGCCCCCCGATAGCCTAAATACGCGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtgcgtggtttctatatttgtgtctactcatcccatgggcctttagtgtg Alignment from Exonerate_coding2genome GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttggtcagggtgtaaatcagtcttttgagtatacggccactgagcagGTGCTAAAGGACCTGCCAAGAATTGAAGGACGGCCGGGAGCCTCCTTACCTCCCTTAAACCTGAAGGAGTTGGATAAGGGCCTGATTGATAGACACGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCGGCTATGTACCCA-----TATACACAACTTCAAAGACTTCACAGCTACTTTCAGCCCCCC-GATAGCCTAAATACGCGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtgcgtggtttctatatttgtgtctactcatcccatgggcctttagtgtg Alignment from GeneWise GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttggtcagggtgtaaatcagtcttttgagtatacggccactgagcagGTGCTAAAGGACCTGCCAAGAATTGAAGGACGGCCGGGAGCCTCCTTACCTCCCTTAAACCTGAAGGAGTTGGATAAGGGCCTGATTGATAGACACGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCGGCTATGTACCCA------TATACACAACTTCAAAGACTTCACAGCTACTTTCAGCCCCCCGATAGCCTAAATACGCGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtgcgtggtttctatatttgtgtctactcatcccatgggcctttagtgtg #### Pdcd11_ID10134_28 --> 1 - 0 Original Alignment cGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCA-GACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG ggggtgtcaagacaccctattcgccccttaacaagtcccactgcccgcagcATCAACCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCAACGATGTTTCCCCTCCTGCCCCAGAACCAG-ACAAGAGGAAGGTAGCGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtatggcaggcagtatgtattgcctcttcttatgggacacatttgctgct Alignment from CESAR cGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCA-GACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG ggggtgtcaagacaccctattcgccccttaacaagtcccactgcccgcagcATCAACCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCAACGATGTTTCCCCTCCTGCCCCAGAAC-CAGACAAGAGGAAGGTAGCGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtatggcaggcagtatgtattgcctcttcttatgggacacatttgctgct Alignment from Spaln_aa2Genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG ggggtgtcaagacaccctattcgccccttaacaagtcccactgcccgcagCATCAACCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCAACGATGTTTCCCCTCCTGCCCCAGAACCAGACAAGAGGAAGGTAGCGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtatggcaggcagtatgtattgcctcttcttatgggacacatttgctgct Alignment from Spaln_nt2Genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCA-GACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG ggggtgtcaagacaccctattcgccccttaacaagtcccactgcccgcagCATCAACCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCAACGATGTTTCCCCTCCTGCCCCAGAACC-AGACAAGAGGAAGGTAGCGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtatggcaggcagtatgtattgcctcttcttatgggacacatttgctgct Alignment from Pairagon CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCA-GACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG ggggtgtcaagacaccctattcgccccttaacaagtcccactgcccgcagCATCAACCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCAACGATGTTTCCCCTCCTGCCCCAGAACC-AGACAAGAGGAAGGTAGCGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtatggcaggcagtatgtattgcctcttcttatgggacacatttgctgct Alignment from Exonerate_protein2genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG ggggtgtcaagacaccctattcgccccttaacaagtcccactgcccgcagCATCAACCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCAACGATGTTTCCCCTCCTGCCCCAGAACCAGACAAGAGGAAGGTAGCGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtatggcaggcagtatgtattgcctcttcttatgggacacatttgctgct Alignment from Exonerate_coding2genome ggggtgtcaagacaccctattcgccccttaacaagtcccactgcccgcagcatcaaccccatgaagaacctgatagagttgtccctccttccaagtgacactgggaggcaacgatgtttcccctcctgccccagaaccagacaagaggaaggtagcggaggggctgaagggggccaaaaacagaaggaaaagaatcagaagagacgggatgagaaggaagagccacagaagtcacagaggggtgggcgaggaaagcgtgagcatcatgaatctgagagtgagcaggtatggcaggcagtatgtattgcctcttcttatgggacacatttgctgct Alignment from GeneWise CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG ggggtgtcaagacaccctattcgccccttaacaagtcccactgcccgcagCATCAACCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCAACGATGTTTCCCCTCCTGCCCCAGAACCAGACAAGAGGAAGGTAGCGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtatggcaggcagtatgtattgcctcttcttatgggacacatttgctgct #### Pdcd11_ID10139_33 --> 0 - 1 Original Alignment GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAG-GAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGG------GCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAc gcaatgcaagtaatgttctaagaaagggcctcccttcttttctgtcccagGAAGCCGGAGAGCTGTATAACCGCATGATCAAACGGTTCCAGGAACAAGGACGCGGTCTGTATCAAATATGGTTCCTTTGGTT-GGGAAGGAGCCAGGCTGGGGCTGGAGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCAGCCAAAGAAcgtatgatctcttgtaacgaccgaactttatggttctggcacctgatccca Alignment from CESAR GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAG---GCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGCC------AGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAc gcaatgcaagtaatgttctaagaaagggcctcccttcttttctgtcccagGAAGCCGGAGAGCTGTATAACCGCATGATCAAACGGTTCCAGGAA--CAAGGACGCGGTCTGTATCAAATATGGTTCCTTT-GGTTGGGAAGGAGCCAGGCTGGGGCTGGAGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCAGCCAAAGAAcgtatgatctcttgtaacgaccgaactttatggttctggcacctgatccca Alignment from Spaln_aa2Genome GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGCC------AGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC gcaatgcaagtaatgttctaagaaagggcctcccttcttttctgtcccagGAAGCCGGAGAGCTGTATAACCGCATGATCAAACGGTTCCAGGAACAAGGACGCGGTCTGTATCAAATATGGTTCCTTTGGTTGGGAAGGAGCCAGGCTGGGGCTGGAGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCAGCCAAAGAACgtatgatctcttgtaacgaccgaactttatggttctggcacctgatccca Alignment from Spaln_nt2Genome GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCC-GGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGCC------AGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC gcaatgcaagtaatgttctaagaaagggcctcccttcttttctgtcccagGAAGCCGGAGAGCTGTATAACCGCATGATCAAACGGTTCCAGGAACAAGGACGCGGTCTGTATCAAATATGGTTCCTTTG-GTTGGGAAGGAGCCAGGCTGGGGCTGGAGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCAGCCAAAGAACgtatgatctcttgtaacgaccgaactttatggttctggcacctgatccca Alignment from Pairagon GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCC-GGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGCC------AGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC gcaatgcaagtaatgttctaagaaagggcctcccttcttttctgtcccagGAAGCCGGAGAGCTGTATAACCGCATGATCAAACGGTTCCAGGAACAAGGACGCGGTCTGTATCAAATATGGTTCCTTTG-GTTGGGAAGGAGCCAGGCTGGGGCTGGAGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCAGCCAAAGAACgtatgatctcttgtaacgaccgaactttatggttctggcacctgatccca Alignment from Exonerate_protein2genome GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGCC------AGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC gcaatgcaagtaatgttctaagaaagggcctcccttcttttctgtcccagGAAGCCGGAGAGCTGTATAACCGCATGATCAAACGGTTCCAGGAACAAGGACGCGGTCTGTATCAAATATGGTTCCTTTGGTTGGGAAGGAGCCAGGCTGGGGCTGGAGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCAGCCAAAGAACgtatgatctcttgtaacgaccgaactttatggttctggcacctgatccca Alignment from Exonerate_coding2genome gcaatgcaagtaatgttctaagaaagggcctcccttcttttctgtcccaggaagccggagagctgtataaccgcatgatcaaacggttccaggaacaaggacgcggtctgtatcaaatatggttcctttggttgggaaggagccaggctggggctggagtgagtcactatgtcctacagcgagcaccagagtgcttgccagccaaagaacgtatgatctcttgtaacgaccgaactttatggttctggcacctgatccca Alignment from GeneWise GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGCC------AGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC gcaatgcaagtaatgttctaagaaagggcctcccttcttttctgtcccagGAAGCCGGAGAGCTGTATAACCGCATGATCAAACGGTTCCAGGAACAAGGACGCGGTCTGTATCAAATATGGTTCCTTTGGTTGGGAAGGAGCCAGGCTGGGGCTGGAGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCAGCCAAAGAACgtatgatctcttgtaacgaccgaactttatggttctggcacctgatccca #### Pdcd11_ID10140_34 --> 2 - 2 Original Alignment atGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAA-AACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCag ctgctctgatcagcctcttttggggtctttttaacttgcttgttttttagatGTGGATGTGATTGTTAAGTTTGCCCAGTTGGAGTTCCAACTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAACAACACACTGAGTGCCTACCCCAAACGCACGG-TGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGCCATACAGCAGTCaggtgtgtgtaaccgacagggataattgcaatggaacaagtggtaggaggtg Alignment from CESAR atGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAA-AACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCag ctgctctgatcagcctcttttggggtctttttaacttgcttgttttttagatGTGGATGTGATTGTTAAGTTTGCCCAGTTGGAGTTCCAACTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAACAACACACTGAGTGCCTACCCCAAACGCACG-GTGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGCCATACAGCAGTCaggtgtgtgtaaccgacagggataattgcaatggaacaagtggtaggaggtg Alignment from Spaln_aa2Genome ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG ctgctctgatcagcctcttttggggtctttttaacttgcttgttttttagATGTGGATGTGATTGTTAAGTTTGCCCAGTTGGAGTTCCAACTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAACAACACACTGAGTGCCTACCCCAAACGCACGGTGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGCCATACAGCAGTCAGgtgtgtgtaaccgacagggataattgcaatggaacaagtggtaggaggtg Alignment from Spaln_nt2Genome ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAA-AACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG ctgctctgatcagcctcttttggggtctttttaacttgcttgttttttagATGTGGATGTGATTGTTAAGTTTGCCCAGTTGGAGTTCCAACTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAACAACACACTGAGTGCCTACCCCAAACGCAC-GGTGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGCCATACAGCAGTCAGgtgtgtgtaaccgacagggataattgcaatggaacaagtggtaggaggtg Alignment from Pairagon ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAA-AACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAGGG ctgctctgatcagcctcttttggggtctttttaacttgcttgttttttagATGTGGATGTGATTGTTAAGTTTGCCCAGTTGGAGTTCCAACTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAACAACACACTGAGTGCCTACCCCAAACGCAC-GGTGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGCCATACAGCAGTCAGGTgtgtgtaaccgacagggataattgcaatggaacaagtggtaggaggtg Alignment from Exonerate_protein2genome ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG ctgctctgatcagcctcttttggggtctttttaacttgcttgttttttagATGTGGATGTGATTGTTAAGTTTGCCCAGTTGGAGTTCCAACTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAACAACACACTGAGTGCCTACCCCAAACGCACGGTGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGCCATACAGCAGTCAGgtgtgtgtaaccgacagggataattgcaatggaacaagtggtaggaggtg Alignment from Exonerate_coding2genome ctgctctgatcagcctcttttggggtctttttaacttgcttgttttttagatgtggatgtgattgttaagtttgcccagttggagttccaacttggggatgtgaagcgagctaaagccatttttgaacaacacactgagtgcctaccccaaacgcacggtgtctggtcagtctacattcacatgaccatcaagcatggcagccatacagcagtcaggtgtgtgtaaccgacagggataattgcaatggaacaagtggtaggaggtg Alignment from GeneWise ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG ctgctctgatcagcctcttttggggtctttttaacttgcttgttttttagATGTGGATGTGATTGTTAAGTTTGCCCAGTTGGAGTTCCAACTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAACAACACACTGAGTGCCTACCCCAAACGCACGGTGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGCCATACAGCAGTCAGgtgtgtgtaaccgacagggataattgcaatggaacaagtggtaggaggtg #### Pde6c_ID7533_3 --> 0 - 0 Original Alignment GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTC-GCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccactataaatctccttgtactgtatcctagGTCATCTCAAAATACCTCAGCTTTGTTGCTGTTCGCACTAAGGCTGAAGCACACCAGTTATCTGTACAGTGTGGAGT-CCGGCGGAGTCAAgtaagctaatactacaagaagtctgccctttccacacctacacattgtca Alignment from CESAR GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTC-GCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccactataaatctccttgtactgtatcctagGTCATCTCAAAATACCTCAGCTTTGTTGCTGTTCGCACTAAGGCTGAAGCACACCAGTTATCTGTACAGTGTGGAGT-CCGGCGGAGTCAAgtaagctaatactacaagaagtctgccctttccacacctacacattgtca Alignment from Spaln_aa2Genome GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTC-GCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGA caaacaagccatgggttcaccactataaatctccttgtactgtatcctagGTCATCTCAAAATACCTCAGCTTTGTTGCTGTTcGCACTAAGGCTGAAGCACACCAGTTATCTGTACAGTGTGGAGTCCGGCGGAgtcaagtaagctaatactacaagaagtctgccctttccacacctacacattgtca Alignment from Spaln_nt2Genome GTCTTTTCTAAGTACCTCAGCTTTGTTGCTG-TCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccactataaatctccttgtactgtatcctagGTCATCTCAAAATACCTCAGCTTTGTTGCTGTTCGCACTAAGGCTGAAGCACACCAGTTATCTGTACAGTGTGGAGT-CCGGCGGAGTCAAgtaagctaatactacaagaagtctgccctttccacacctacacattgtca Alignment from Pairagon GTCTTTTCTAAGTACCTCAGCTTTGTTGCTG-TCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccactataaatctccttgtactgtatcctagGTCATCTCAAAATACCTCAGCTTTGTTGCTGTTCGCACTAAGGCTGAAGCACACCAGTTATCTGTACAGTGTGGAGT-CCGGCGGAGTCAAgtaagctaatactacaagaagtctgccctttccacacctacacattgtca Alignment from Exonerate_protein2genome GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTC-GCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccactataaatctccttgtactgtatcctagGTCATCTCAAAATACCTCAGCTTTGTTGCTGTTCGCACTAAGGCTGAAGCACACCAGTTATCTGTACAGTGTGGAGTCCGGCGGAGTCAAGtaagctaatactacaagaagtctgccctttccacacctacacattgtca Alignment from Exonerate_coding2genome GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTC-GCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccactataaatctccttgtactgtatcctagGTCATCTCAAAATACCTCAGCTTTGTTGCTGTTCGCACTAAGGCTGAAGCACACCAGTTATCTGTACAGTGTGGAGTCCGGCGGAGTCAAGtaagctaatactacaagaagtctgccctttccacacctacacattgtca Alignment from GeneWise ---------------------------------------------------------------------------GTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG CAAACAAGCCATGGGTTCACCACTATAAATCTCCTTGTACTGTATCCTAGGTCATCTCAAAATACCTCAGCTTTGTTGCTGTTCGCACTAAGGCTGAAGCACACCAGTTATCTGTACAGTGTGGAGTCC------GGCGGAgtcaagtaagctaatactacaagaagtctgccctttccacacctacacattgtca #### Pde6c_ID7543_13 --> 0 - 0 Original Alignment GTTCTTACAAGG-TGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG tagtgttgcgtgtccccccaagtaatgagggtctgcctgtctttcctcagATTCTTACAAAGCTGGATGTACACAGTCCGAAAGGGGTACCGAC-TGCTACGTACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACGATATCTCCTTTGTTAATGgtatgtttagctgttgataggctgaacgttatcctcctactaagcgccag Alignment from CESAR GTTCTTACAAGG-TGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG tagtgttgcgtgtccccccaagtaatgagggtctgcctgtctttcctcagATTCTTACAAAGCTGGATGTACACAGTCCGAAAGGGGTACCGA-CTGCTACGTACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACGATATCTCCTTTGTTAATGgtatgtttagctgttgataggctgaacgttatcctcctactaagcgccag Alignment from Spaln_aa2Genome GTTCTTACAAGG-TGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG tagtgttgcgtgtccccccaagtaatgagggtctgcctgtctttcctcagATTCTTACAAAGcTGGATGTACACAGTCCGAAAGGGGTACCGACT-GCTACGTACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACGATATCTCCTTTGTTAATGgtatgtttagctgttgataggctgaacgttatcctcctactaagcgccag Alignment from Spaln_nt2Genome GTTCTTACAAGG-TGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG tagtgttgcgtgtccccccaagtaatgagggtctgcctgtctttcctcagATTCTTACAAAGCTGGATGTACACAGTCCGAAAGGGGTACCG-ACTGCTACGTACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACGATATCTCCTTTGTTAATGgtatgtttagctgttgataggctgaacgttatcctcctactaagcgccag Alignment from Pairagon GTTCTTACAAGG-TGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG tagtgttgcgtgtccccccaagtaatgagggtctgcctgtctttcctcagATTCTTACAAAGCTGGATGTACACAGTCCGAAAGGGGTACCG-ACTGCTACGTACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACGATATCTCCTTTGTTAATGgtatgtttagctgttgataggctgaacgttatcctcctactaagcgccag Alignment from Exonerate_protein2genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG tagtgttgcgtgtccccccaagtaatgagggtctgcctgtctttcctcagATTCTTACAAAGCTGGATGTACACAGTCCGAAAGGGGTACCGACTGCTACGTACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACGATATCTCCTTTGTTAATGgtatgtttagctgttgataggctgaacgttatcctcctactaagcgccag Alignment from Exonerate_coding2genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG tagtgttgcgtgtccccccaagtaatgagggtctgcctgtctttcctcagATTCTTACAAAGCTGGATGTACACAGTCCGAAAGGGGTACCGACTGCTACGTACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACGATATCTCCTTTGTTAATGgtatgtttagctgttgataggctgaacgttatcctcctactaagcgccag Alignment from GeneWise GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG tagtgttgcgtgtccccccaagtaatgagggtctgcctgtctttcctcagATTCTTACAAAGCTGGATGTACACAGTCCGAAAGGGGTACCGACTGCTACGTACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACGATATCTCCTTTGTTAATGgtatgtttagctgttgataggctgaacgttatcctcctactaagcgccag #### Pga5_ID2970_8 --> 0 - 0 Original Alignment TACTTCCTCAAGTGTGACACCATCAACACCCTG-CCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG tgggcggcccactctaggcctcctgctaattttagttttcttttctgcagTACTTTCTAAAGTGTGAT---GTTAACTGCTTGCCCAGATATTGTA---------------TTTACATACCCAG-GCCAGCTAGTACCTACATTCGAAAGgtaaggcaggtaggagtgattaagtaacttatcttgctttggtttctatg Alignment from CESAR TACTTCCTCAAGTGTGACACCATCAACACCCTG-CCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG tgggcggcccactctaggcctcctgctaattttagttttcttttctgcagTACTTTCTAAAGTGTGAT---GTTAACTGCTTGCCCAGATATTGTATTT---------------ACATACCCA-GGCCAGCTAGTACCTACATTCGAAAGgtaaggcaggtaggagtgattaagtaacttatcttgctttggtttctatg Alignment from Spaln_aa2Genome TACTTCCTCAAGTGTGACACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG tgggcggcccactctaggcctcctgctaattttagttttcttttctgcagTACTTTCTAAAGTGTGAT---GTTAACTGCTTGCCCAGATATTGTATTTACATA---------------CCCAGGCCAGCTAGTACCTACATTCGAAAGgtaaggcaggtaggagtgattaagtaacttatcttgctttggtttctatg Alignment from Spaln_nt2Genome TACTTCCTCAAGTGTGACACCATCAACACCCTGCCT-GATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG tgggcggcccactctaggcctcctgctaattttagttttcttttctgcagTACTTTCTAAAGTGTGA---TGTTAACTGCTTGCCCAGATATTGTAT---------------TTACATACCCAG-GCCAGCTAGTACCTACATTCGAAAGgtaaggcaggtaggagtgattaagtaacttatcttgctttggtttctatg Alignment from Pairagon TACTTCCTCAAGTGTGACACCATCAACACCCTG------------CCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG tgggcggcccactctaggcctcctgctaattttagttttcttttctgcagTACTTTCTAAAGTGTGA--------------TGTTAACTGCTTGCCCAGATATTGTAT---------------TTACATACCCAG-GCCAGCTAGTACCTACATTCGAAAGgtaaggcaggtaggagtgattaagtaacttatcttgctttggtttctatg Alignment from Exonerate_protein2genome TACTTCCTCAAGTGTGACACCATCAACACCCTG-CCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAG tgggcggcccactctaggcctcctgctaattttagttttcttttctgcagTACTTTCTAAAGTGTGAT---GTTAACTGCTTGCCCAGATATTGTATTTACATACCCAGGCCAGCTAGTACCTACATTCGAAAGgtaaggcaggtaggagtgattaagtaacttatcttgctttggtttctatg Alignment from Exonerate_coding2genome tgggcggcccactctaggcctcctgctaattttagttttcttttctgcagtactttctaaagtgtgatgttaactgcttgcccagatattgtatttacatacccaggccagctagtacctacattcgaaaggtaaggcaggtaggagtgattaagtaacttatcttgctttggtttctatg Alignment from GeneWise TACTTCCTCAAGTGTGACACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG tgggcggcccactctaggcctcctgctaattttagttttcttttctgcagTACTTTCTAAAGTGTGAT---GTTAACTGCTTGCCCAGATATTGTATTTACATA---------------CCCAGGCCAGCTAGTACCTACATTCGAAAGgtaaggcaggtaggagtgattaagtaacttatcttgctttggtttctatg #### Pga5_ID2972_6 --> 1 - 2 Original Alignment cAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAG-CTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATag tcatacactttgaagtcctccagagattctgctcttgctcttcccctcagtAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTAGATCCCTCCTACTACCATGGAGAACCTTCACTGGGTACCTGTCTCAAAGCCCAGTTACT-GCAGTTAGCTGTGGATaggtaacccataggtgcttctcgcccacaggccctatctcagcagcatgcat Alignment from CESAR cAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAG-CTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATag tcatacactttgaagtcctccagagattctgctcttgctcttcccctcagtAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTAGATCCCTCCTACTACCATGGAGAACCTTCACTGGGTACCTGTCTCAAAGCCCAGTTAC-TGCAGTTAGCTGTGGATaggtaacccataggtgcttctcgcccacaggccctatctcagcagcatgcat Alignment from Spaln_aa2Genome CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAG-CTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacactttgaagtcctccagagattctgctcttgctcttcccctcagTAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTAGATCCCTCCTACTACCATGGAGAAcCTTCACTGGGTACCTGTCTCAAAGCCCAGTTACTG-CAGTTAGCTGTGGATAGgtaacccataggtgcttctcgcccacaggccctatctcagcagcatgcat Alignment from Spaln_nt2Genome CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAGC-TTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacactttgaagtcctccagagattctgctcttgctcttcccctcagTAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTAGATCCCTCCTACTACCATGGAGAACCTTCACTGGGTACCTGTCTCAAAGCCCAGTTACT-GCAGTTAGCTGTGGATAGgtaacccataggtgcttctcgcccacaggccctatctcagcagcatgcat Alignment from Pairagon CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAG-CTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacactttgaagtcctccagagattctgctcttgctcttcccctcagTAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTAGATCCCTCCTACTACCATGGAGAACCTTCACTGGGTACCTGTCTCAAAGCCCAGTTACT-GCAGTTAGCTGTGGATAGgtaacccataggtgcttctcgcccacaggccctatctcagcagcatgcat Alignment from Exonerate_protein2genome CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAG-CTTCACTGGGTACCAGTGTCCAAGCCCAGCTAC--TGGCAATTAGCTGTGGATAG tcatacactttgaagtcctccagagattctgctcttgctcttcccctcagTAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTAGATCCCTCCTACTACCATGGAGAACCTTCACTGGGTACCTGTCTCAAAGCCCAGTTACTG---CAGTTAGCTGTGGATAGgtaacccataggtgcttctcgcccacaggccctatctcagcagcatgcat Alignment from Exonerate_coding2genome CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAG-CTTCACTGGGTACCAGTGTCCAAGCCCAGCTAC--TGGCAATTAGCTGTGGATAG tcatacactttgaagtcctccagagattctgctcttgctcttcccctcagTAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTAGATCCCTCCTACTACCATGGAGAACCTTCACTGGGTACCTGTCTCAAAGCCCAGTTACTG---CAGTTAGCTGTGGATAGgtaacccataggtgcttctcgcccacaggccctatctcagcagcatgcat Alignment from GeneWise CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAGCTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacactttgaagtcctccagagattctgctcttgctcttcccctcagTAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTAGATCCCTCCTACTACCATGGAGAACCTTCACTGGGTACCTGTCTCAAAGCCCAGTTACTGCAGTTAGCTGTGGATAGgtaacccataggtgcttctcgcccacaggccctatctcagcagcatgcat #### Pitpnm1_ID312_9 --> 0 - 2 Original Alignment GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTC-CCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCaa aacaggtggggtcaacatatgctcttgttgaccgtctgtgctgtctgcagGGACTGGATGGGGCTGGGGACCTAGTCGTTGAAGCATGCTCTGTGCATGACCTTTTCCTCATACTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAAGCCGATGTCCAAACACTGAGCACTGCTTTTGAGGCTGTCTTCCGAGTCCATTCCCCCCAAGGCACTTGGACATGTAGCACTGCGGCTGATAC-CTGTCCATCC---TGTGCAGCAGCTTATGCGCTTGTCTCCaagtatgggcagagaggaatagtaaacagacatgaacagagcaaataatgat Alignment from CESAR GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTC-CCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCaa aacaggtggggtcaacatatgctcttgttgaccgtctgtgctgtctgcagGGACTGGATGGGGCTGGGGACCTAGTCGTTGAAGCATGCTCTGTGCATGACCTTTTCCTCATACTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAAGCCGATGTCCAAACACTGAGCACTGCTTTTGAGGCTGTCTTCCGAGTCCATTCCCCCCAAGGCACTTGGACATGTAGCACTGCGGCTGATAC-CTGTCCATCC---TGTGCAGCAGCTTATGCGCTTGTCTCCaagtatgggcagagaggaatagtaaacagacatgaacagagcaaataatgat Alignment from Spaln_aa2Genome GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAG-GCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA aacaggtggggtcaacatatgctcttgttgaccgtctgtgctgtctgcagGGACTGGATGGGGCTGGGGACCTAGTCGTTGAAGCATGCTCTGTGCATGACCTTTTCCTCATACTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAAGCCGATGTCCAAACACTGAGCACTGCTTTTGAGGCTGTCTTCCGAGTCCATTCCCCCCAAgGCACTTGGACATGTAGCACTGCGGCTGATACCTGT----CCATCCTGTGCAGCAGCTTATGCGCTTGTCTCCAAgtatgggcagagaggaatagtaaacagacatgaacagagcaaataatgat Alignment from Spaln_nt2Genome GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGA-GGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA aacaggtggggtcaacatatgctcttgttgaccgtctgtgctgtctgcagGGACTGGATGGGGCTGGGGACCTAGTCGTTGAAGCATGCTCTGTGCATGACCTTTTCCTCATACTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAAGCCGATGTCCAAACACTGAGCACTGCTTTTGAGGCTGTCTTCCGAGTCCATTCCCCCCAAGGCACTTGGACATGTAGCACTGCGGCTGAT-ACCTGTCCATCC---TGTGCAGCAGCTTATGCGCTTGTCTCCAAgtatgggcagagaggaatagtaaacagacatgaacagagcaaataatgat Alignment from Pairagon GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATT-TCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA aacaggtggggtcaacatatgctcttgttgaccgtctgtgctgtctgcagGGACTGGATGGGGCTGGGGACCTAGTCGTTGAAGCATGCTCTGTGCATGACCTTTTCCTCATACTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAAGCCGATGTCCAAACACTGAGCACTGCTTTTGAGGCTGTCTTCCGAGTCCATTCCCCCCAAGGCACTTGGACATGTAGCACTGCGGCTGATA-CCTGTCCATCC---TGTGCAGCAGCTTATGCGCTTGTCTCCAAgtatgggcagagaggaatagtaaacagacatgaacagagcaaataatgat Alignment from Exonerate_protein2genome GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA aacaggtggggtcaacatatgctcttgttgaccgtctgtgctgtctgcagGGACTGGATGGGGCTGGGGACCTAGTCGTTGAAGCATGCTCTGTGCATGACCTTTTCCTCATACTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAAGCCGATGTCCAAACACTGAGCACTGCTTTTGAGGCTGTCTTCCGAGTCCATTCCCCCCAAGGCACTTGGACATGTAGCACTGCGGCTGATACCTGTCCATCC---TGTGCAGCAGCTTATGCGCTTGTCTCCAAgtatgggcagagaggaatagtaaacagacatgaacagagcaaataatgat Alignment from Exonerate_coding2genome GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA aacaggtggggtcaacatatgctcttgttgaccgtctgtgctgtctgcagGGACTGGATGGGGCTGGGGACCTAGTCGTTGAAGCATGCTCTGTGCATGACCTTTTCCTCATACTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAAGCCGATGTCCAAACACTGAGCACTGCTTTTGAGGCTGTCTTCCGAGTCCATTCCCCCCAAGGCACTTGGACATGTAGCACTGCGGCTGATACCTGTCCATCC---TGTGCAGCAGCTTATGCGCTTGTCTCCAAgtatgggcagagaggaatagtaaacagacatgaacagagcaaataatgat Alignment from GeneWise GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA aacaggtggggtcaacatatgctcttgttgaccgtctgtgctgtctgcagGGACTGGATGGGGCTGGGGACCTAGTCGTTGAAGCATGCTCTGTGCATGACCTTTTCCTCATACTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAAGCCGATGTCCAAACACTGAGCACTGCTTTTGAGGCTGTCTTCCGAGTCCATTCCCCCCAAGGCACTTGGACATGTAGCACTGCGGCTGATACCTGTCCATCC---TGTGCAGCAGCTTATGCGCTTGTCTCCAAgtatgggcagagaggaatagtaaacagacatgaacagagcaaataatgat #### Pitpnm1_ID313_10 --> 1 - 0 Original Alignment cCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCA-TCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG aagcagatcagatatgtttgtgtcacctttctctctctctctcccatcagtCTAAGTCCTTACAGCCATGATGGAGATTGTCTATCCCGATCCCCAGACCACATTCCATTGGCTACCCTGCCTCTTTTGGCCACCTTACTCCTCTCAATACCAGGGTGCAGTTACCACCGTTATTGCTC-CACCAACCAGGCCTTTGCAGCTTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtttgtgtgactgtgtttgcataagttagtcaaaacttatgctgctgcct Alignment from CESAR cCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCA-TCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG aagcagatcagatatgtttgtgtcacctttctctctctctctcccatcagtCTAAGTCCTTACAGCCATGATGGAGATTGTCTATCCCGATCCCCAGACCACATTCCATTGGCTACCCTGCCTCTTTTGGCCACCTTACTCCTCTCAATACCAGGGTGCAGTTACCACCGTTATTGCT-CCACCAACCAGGCCTTTGCAGCTTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtttgtgtgactgtgtttgcataagttagtcaaaacttatgctgctgcct Alignment from Spaln_aa2Genome CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG aagcagatcagatatgtttgtgtcacctttctctctctctctcccatcagTCTAAGTCCTTACAGCCATGATGGAGATTGTCTATCCCGATCCCCAGACCACATTCCATTGGCTACCCTGCCTCTTTTGGCCACCTTACTCCTCTCAATACCAGGGTGCAGTTACCACCGTTATTGCTCCACCAACCAGGCCTTTGCAGCTTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtttgtgtgactgtgtttgcataagttagtcaaaacttatgctgctgcct Alignment from Spaln_nt2Genome CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCA-TCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG aagcagatcagatatgtttgtgtcacctttctctctctctctcccatcagTCTAAGTCCTTACAGCCATGATGGAGATTGTCTATCCCGATCCCCAGACCACATTCCATTGGCTACCCTGCCTCTTTTGGCCACCTTACTCCTCTCAATACCAGGGTGCAGTTACCACCGTTATTGCTC-CACCAACCAGGCCTTTGCAGCTTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtttgtgtgactgtgtttgcataagttagtcaaaacttatgctgctgcct Alignment from Pairagon CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCA-TCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG aagcagatcagatatgtttgtgtcacctttctctctctctctcccatcagTCTAAGTCCTTACAGCCATGATGGAGATTGTCTATCCCGATCCCCAGACCACATTCCATTGGCTACCCTGCCTCTTTTGGCCACCTTACTCCTCTCAATACCAGGGTGCAGTTACCACCGTTATTGCTC-CACCAACCAGGCCTTTGCAGCTTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtttgtgtgactgtgtttgcataagttagtcaaaacttatgctgctgcct Alignment from Exonerate_protein2genome CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG aagcagatcagatatgtttgtgtcacctttctctctctctctcccatcagTCTAAGTCCTTACAGCCATGATGGAGATTGTCTATCCCGATCCCCAGACCACATTCCATTGGCTACCCTGCCTCTTTTGGCCACCTTACTCCTCTCAATACCAGGGTGCAGTTACCACCGTTATTGCTCCACCAACCAGGCCTTTGCAGCTTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtttgtgtgactgtgtttgcataagttagtcaaaacttatgctgctgcct Alignment from Exonerate_coding2genome CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG aagcagatcagatatgtttgtgtcacctttctctctctctctcccatcagTCTAAGTCCTTACAGCCATGATGGAGATTGTCTATCCCGATCCCCAGACCACATTCCATTGGCTACCCTGCCTCTTTTGGCCACCTTACTCCTCTCAATACCAGGGTGCAGTTACCACCGTTATTGCTCCACCAACCAGGCCTTTGCAGCTTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtttgtgtgactgtgtttgcataagttagtcaaaacttatgctgctgcct Alignment from GeneWise CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG aagcagatcagatatgtttgtgtcacctttctctctctctctcccatcagTCTAAGTCCTTACAGCCATGATGGAGATTGTCTATCCCGATCCCCAGACCACATTCCATTGGCTACCCTGCCTCTTTTGGCCACCTTACTCCTCTCAATACCAGGGTGCAGTTACCACCGTTATTGCTCCACCAACCAGGCCTTTGCAGCTTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtttgtgtgactgtgtttgcataagttagtcaaaacttatgctgctgcct #### Pitpnm1_ID319_16 --> 2 - 0 Original Alignment tcCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAG-GCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG agtatacagttgaagctgctttgtactcgaacacttctcatccactgcagtcCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCGGAACGCACTTACAGCCTTTCCCACTGTCACACTGCCCC-CCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGgtaaggacaccccgggattggcccaacactgagccgagacaacaggaact Alignment from CESAR tcCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAG-GCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG agtatacagttgaagctgctttgtactcgaacacttctcatccactgcagtcCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCGGAACGCACTTACAGCCTTTCCCACTGTCACACTGCCC-CCCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGgtaaggacaccccgggattggcccaacactgagccgagacaacaggaact Alignment from Spaln_aa2Genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG agtatacagttgaagctgctttgtactcgaacacttctcatccactgcagTCCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCGGAACGCACTTACAGCCTTTCCCACTGTCACACTGCCCCCCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGgtaaggacaccccgggattggcccaacactgagccgagacaacaggaact Alignment from Spaln_nt2Genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAG-GCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG agtatacagttgaagctgctttgtactcgaacacttctcatccactgcagTCCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCGGAACGCACTTACAGCCTTTCCCACTGTCACACTGCCCC-CCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGgtaaggacaccccgggattggcccaacactgagccgagacaacaggaact Alignment from Pairagon TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAG-GCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG agtatacagttgaagctgctttgtactcgaacacttctcatccactgcagTCCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCGGAACGCACTTACAGCCTTTCCCACTGTCACACTGCCCC-CCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGgtaaggacaccccgggattggcccaacactgagccgagacaacaggaact Alignment from Exonerate_protein2genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG agtatacagttgaagctgctttgtactcgaacacttctcatccactgcagTCCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCGGAACGCACTTACAGCCTTTCCCACTGTCACACTGCCCCCCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGgtaaggacaccccgggattggcccaacactgagccgagacaacaggaact Alignment from Exonerate_coding2genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG agtatacagttgaagctgctttgtactcgaacacttctcatccactgcagTCCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCGGAACGCACTTACAGCCTTTCCCACTGTCACACTGCCCCCCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGgtaaggacaccccgggattggcccaacactgagccgagacaacaggaact Alignment from GeneWise TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG agtatacagttgaagctgctttgtactcgaacacttctcatccactgcagTCCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCGGAACGCACTTACAGCCTTTCCCACTGTCACACTGCCCCCCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGgtaaggacaccccgggattggcccaacactgagccgagacaacaggaact #### Pitpnm1_ID322_19 --> 0 - 2 Original Alignment TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGT-CTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCag TGTAGTTACACTCACCGGAGAAGAGgtaagagcgtgcttttctttgacagGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACTAACAGTTCTGGCCATCCTTACCTTCCCAGTGTCATCAGAACATGCACTGGGCA-TGGTGTCTACCCTTTGCACATGGTGGTCaggtaagtgagttagaagttagctgctaacttggctcctgtgaaacactgac Alignment from CESAR TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGT-CTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCag TGTAGTTACACTCACCGGAGAAGAGgtcgcagcgtgcttttctttgacagGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACTAACAGTTCTGGCCATCCTTACCTTCCCAGTGTCATCAGAACATGCACTGGGCA-TGGTGTCTACCCTTTGCACATGGTGGTCaggtaagtgagttagaagttagctgctaacttggctcctgtgaaacactgac Alignment from Spaln_aa2Genome TGTGGTCACGCTCACTGGAGAGAAG-------------------------GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCGGAGAAGAGGTAAGAGCGTGCTTTTCTTTGACAgGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACTAACAGTTCTGGCCATCCTTACCTTCCCAGTGTCATCAGAACATGCACTGGGCATGGTGTCTACCCTTTGCACATGGTGGTCAGgtaagtgagttagaagttagctgctaacttggctcctgtgaaacactgac Alignment from Spaln_nt2Genome TGTGGTCACGCTCACTGGAGA------------------------GA-AGGTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTC-TCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCGGAGAAGAGGTAAGAGCGTGCTTTTCTTTGACAGGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACTAACAGTTCTGGCCATCCTTACCTTCCCAGTGTCATCAGAACATGCACTGGGCATG-GTGTCTACCCTTTGCACATGGTGGTCAGgtaagtgagttagaagttagctgctaacttggctcctgtgaaacactgac Alignment from Pairagon TGTGGTCACGCTCACTGGAGAGAAG-------------------------GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGT-CTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCGGAGAAGAGGTAAGAGCGTGCTTTTCTTTGACAGGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACTAACAGTTCTGGCCATCCTTACCTTCCCAGTGTCATCAGAACATGCACTGGGCA-TGGTGTCTACCCTTTGCACATGGTGGTCAGgtaagtgagttagaagttagctgctaacttggctcctgtgaaacactgac Alignment from Exonerate_protein2genome TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCGGAGAAGAGgtaagagcgtgcttttctttgacaggttgatGTCTATGTC------ATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACTAACAGTTCTGGCCATCCTTACCTTCCCAGTGTCATCAGAACATGCACTGGGCATGGTGTCTACCCTTTGCACATGGTGGTCAGgtaagtgagttagaagttagctgctaacttggctcctgtgaaacactgac Alignment from Exonerate_coding2genome TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCGGAGAAGAGgtaagagcgtgcttttctttgacaggttgatGTCTATGTC------ATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACTAACAGTTCTGGCCATCCTTACCTTCCCAGTGTCATCAGAACATGCACTGGGCATGGTGTCTACCCTTTGCACATGGTGGTCAGgtaagtgagttagaagttagctgctaacttggctcctgtgaaacactgac Alignment from GeneWise TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCGGAGAAGAGgtaagagcgtgcttttctttgacagGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACTAACAGTTCTGGCCATCCTTACCTTCCCAGTGTCATCAGAACATGCACTGGGCATGGTGTCTACCCTTTGCACATGGTGGTCAGgtaagtgagttagaagttagctgctaacttggctcctgtgaaacactgac #### Pkd2l1_ID8955_13 --> 0 - 2 Original Alignment GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAA-TTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACat atcactcaccagactcaggttctcttgaggacacgcatacccctctctagGTGACCCTCAATGTTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCTGGTGAACCTG------GAGGCTGCAAGGGGAAAAAGTTGGGTTT-TGGAGAAGGATTTGACatgtatgatgagggtagtatgagtggtgactgactagggcccttgtgttggt Alignment from CESAR GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAA-TTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACat atcactcaccagactcaggttctcttgaggacacgcatacccctctctagGTGACCCTCAATGTTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCTGGTGAACCTG------GAGGCTGCAAGGGGAAAAAGTTGGGTT-TTGGAGAAGGATTTGACatgtatgatgagggtagtatgagtggtgactgactagggcccttgtgttggt Alignment from Spaln_aa2Genome GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT atcactcaccagactcaggttctcttgaggacacgcatacccctctctagGTGACCCTCAATGTTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCTGGTGAACCTGGA------GGCTGCAAGGGGAAAAAGTTGGGTTTTGGAGAAGGATTTGACATgtatgatgagggtagtatgagtggtgactgactagggcccttgtgttggt Alignment from Spaln_nt2Genome GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT atcactcaccagactcaggttctcttgaggacacgcatacccctctctagGTGACCCTCAATGTTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCTGGTGAA-----CCTGGAGGCTGCAAGGGGAAAAAGTTGGGTTT-TGGAGAAGGATTTGACATgtatgatgagggtagtatgagtggtgactgactagggcccttgtgttggt Alignment from Pairagon GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT atcactcaccagactcaggttctcttgaggacacgcatacccctctctagGTGACCCTCAATGTTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCTGGTGAA-----CCTGGAGGCTGCAAGGGGAAAAAGTTGGGTTT-TGGAGAAGGATTTGACATgtatgatgagggtagtatgagtggtgactgactagggcccttgtgttggt Alignment from Exonerate_protein2genome GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT atcactcaccagactcaggttctcttgaggacacgcatacccctctctagGTGACCCTCAATGTTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCTGGTGAACCTGGA------GGCTGCAAGGGGAAAAAGTTGGGTTTTGGAGAAGGATTTGACATgtatgatgagggtagtatgagtggtgactgactagggcccttgtgttggt Alignment from Exonerate_coding2genome GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT atcactcaccagactcaggttctcttgaggacacgcatacccctctctagGTGACCCTCAATGTTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCTGGTGAA-----CCTGGAGGCTGCAAGGGGAAAAAGTTGGGTTTT-GGAGAAGGATTTGACATgtatgatgagggtagtatgagtggtgactgactagggcccttgtgttggt Alignment from GeneWise GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT atcactcaccagactcaggttctcttgaggacacgcatacccctctctagGTGACCCTCAATGTTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCTGGTGAACCTGGAGGC------TGCAAGGGGAAAAAGTTGGGTTTTGGAGAAGGATTTGACATgtatgatgagggtagtatgagtggtgactgactagggcccttgtgttggt #### Pkd2l1_ID8959_9 --> 1 - 0 Original Alignment tTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTG-GGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG atgagagcctcagatacacagcgtgctccagcacatttttgcctctctagtTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTGCGGCCCTGTGTACTTTGTCACCTATGTCTTCT-CGTCTTCTTCGTGCTCCTGgtaagtgtgacttaaagaactgtgtgttctttttctgttggggatattct Alignment from CESAR tTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTG-GGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG atgagagcctcagatacacagcgtgctccagcacatttttgcctctctagtTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTGCGGCCCTGTGTACTTTGTCACCTATGTCT-TCTCGTCTTCTTCGTGCTCCTGgtaagtgtgacttaaagaactgtgtgttctttttctgttggggatattct Alignment from Spaln_aa2Genome TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCT-GTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG atgagagcctcagatacacagcgtgctccagcacatttttgcctctctagTTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTGCGGCCCtGTGTACTTTGTCACCTATGTCTTCTC-GTCTTCTTCGTGCTCCTGgtaagtgtgacttaaagaactgtgtgttctttttctgttggggatattct Alignment from Spaln_nt2Genome TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTG-GGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG atgagagcctcagatacacagcgtgctccagcacatttttgcctctctagTTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTGCGGCCCTGTGTACTTTGTCACCTATGTCTTCT-CGTCTTCTTCGTGCTCCTGgtaagtgtgacttaaagaactgtgtgttctttttctgttggggatattct Alignment from Pairagon TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTG-GGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG atgagagcctcagatacacagcgtgctccagcacatttttgcctctctagTTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTGCGGCCCTGTGTACTTTGTCACCTATGTCTTC-TCGTCTTCTTCGTGCTCCTGgtaagtgtgacttaaagaactgtgtgttctttttctgttggggatattct Alignment from Exonerate_protein2genome TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG atgagagcctcagatacacagcgtgctccagcacatttttgcctctctagTTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTGCGGCCCTGTGTACTTTGTCACCTATGTCTTCTCGTCTTCTTCGTGCTCCTGgtaagtgtgacttaaagaactgtgtgttctttttctgttggggatattct Alignment from Exonerate_coding2genome TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG atgagagcctcagatacacagcgtgctccagcacatttttgcctctctagTTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTGCGGCCCTGTGTACTTTGTCACCTATGTCTTCTCGTCTTCTTCGTGCTCCTGgtaagtgtgacttaaagaactgtgtgttctttttctgttggggatattct Alignment from GeneWise TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG atgagagcctcagatacacagcgtgctccagcacatttttgcctctctagTTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTGCGGCCCTGTGTACTTTGTCACCTATGTCTTCTCGTCTTCTTCGTGCTCCTGgtaagtgtgacttaaagaactgtgtgttctttttctgttggggatattct #### Plcb3_ID1901_30 --> 0 - 0 Original Alignment CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTG-GTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG tttcctcatcattgctctgcctacaacctatttttcaaattcttttctagTTGGGGGAGGCCCAAAAACAGCAGCATGAACGGCTACGTGGCAGGACAACAGCAAGTCCTCCAGCAATTAGAGG-AGAGAAACCCAAGgtgagaccttgtggggttgcatatacacaccaataggggaactggtcagc Alignment from CESAR CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTG-GTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG tttcctcatcattgctctgcctacaacctatttttcaaattcttttctagTTGGGGGAGGCCCAAAAACAGCAGCATGAACGGCTACGTGGCAGGACAACAGCAAGTCCTCCAGCAATTAGAGG-AGAGAAACCCAAGgtgagaccttgtggggttgcatatacacaccaataggggaactggtcagc Alignment from Spaln_aa2Genome CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTG-GTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG tttcctcatcattgctctgcctacaacctatttttcaaattcttttctagTTGGGGGAGGCCCAAAAACAGCAGCATGAACGGCTAcGTGGCAGGACAACAGCAAGTCCTCCAGCAATTAGAGGA-GAGAAACCCAAGgtgagaccttgtggggttgcatatacacaccaataggggaactggtcagc Alignment from Spaln_nt2Genome CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTG-GTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG tttcctcatcattgctctgcctacaacctatttttcaaattcttttctagTTGGGGGAGGCCCAAAAACAGCAGCATGAACGGCTACGTGGCAGGACAACAGCAAGTCCTCCAGCAATTAGAGG-AGAGAAACCCAAGgtgagaccttgtggggttgcatatacacaccaataggggaactggtcagc Alignment from Pairagon CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTG-GTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG tttcctcatcattgctctgcctacaacctatttttcaaattcttttctagTTGGGGGAGGCCCAAAAACAGCAGCATGAACGGCTACGTGGCAGGACAACAGCAAGTCCTCCAGCAATTAGAGG-AGAGAAACCCAAGgtgagaccttgtggggttgcatatacacaccaataggggaactggtcagc Alignment from Exonerate_protein2genome CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTG-GTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAA tttcctcatcattgctctgcctacaacctatttttcaaattcttttctagTTGGGGGAGGCCCAAAAACAGCAGCATGAACGGCTACGTGGCAGGACAACAGCAAGTCCTCCAGCAATTAGAGGAGAGAAACCCAAGgtgagaccttgtggggttgcatatacacaccaataggggaactggtcagc Alignment from Exonerate_coding2genome CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTG-GTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAA tttcctcatcattgctctgcctacaacctatttttcaaattcttttctagTTGGGGGAGGCCCAAAAACAGCAGCATGAACGGCTACGTGGCAGGACAACAGCAAGTCCTCCAGCAATTAGAGGAGAGAAACCCAAGgtgagaccttgtggggttgcatatacacaccaataggggaactggtcagc Alignment from GeneWise CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG tttcctcatcattgctctgcctacaacctatttttcaaattcttttctagTTGGGGGAGGCCCAAAAACAGCAGCATGAACGGCTACGTGGCAGGACAACAGCAAGTCCTCCAGCAATTAGAGGAGAGAAACCCAAGgtgagaccttgtggggttgcatatacacaccaataggggaactggtcagc #### Plcb3_ID1904_27 --> 0 - 2 Original Alignment GACAG GCTCATCAGCGGCTCAAGGAG-GTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAag GACAGgtatgtgatcagtggggggtggtcctgccacatcggctctcctagGCGCATCAATGGGTCAAGGAGCGTTGTCCTGGATACACACACAATCCAATTCA-GAGGCTAAGGGAACTGAAAGAAaggtaagcataagtagaaaatcagtatgactctttttacccaatctgaagag Alignment from CESAR GACAG GCTCATCAGCGGCTCAAGGAG-GTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAag GACAGgtatgtgatcagtggggggtggtcctgccacatcggctctcctagGCGCATCAATGGGTCAAGGAGCGTTGTCCTGGATACACACACAATCCAAT-TCAGAGGCTAAGGGAACTGAAAGAAaggtaagcataagtagaaaatcagtatgactctttttacccaatctgagcta Alignment from Spaln_aa2Genome GACAG GCTCATCAGCGGCTCAAGGAG-GTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG GACAGgtatgtgatcagtggggggtggtcctgccacatcggctctcctagGCGCATCAATGGGTCAAGGAGcGTTGTCCTGGATACACACACAATCCAATTCAG-AGGCTAAGGGAACTGAAAGAAAGgtaagcataagtagaaaatcagtatgactctttttacccaatctgaagag Alignment from Spaln_nt2Genome GACAG GCTCATCAGCGGCTCAAGGAG-GTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG GACAGgtatgtgatcagtggggggtggtcctgccacatcggctctcctagGCGCATCAATGGGTCAAGGAGCGTTGTCCTGGATACACACACAATCCAATTC-AGAGGCTAAGGGAACTGAAAGAAAGgtaagcataagtagaaaatcagtatgactctttttacccaatctgaagag Alignment from Pairagon GACAG GCTCATCAGCGGCTCAAGGAG-GTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG GACAGgtatgtgatcagtggggggtggtcctgccacatcggctctcctagGCGCATCAATGGGTCAAGGAGCGTTGTCCTGGATACACACACAATCCAATTC-AGAGGCTAAGGGAACTGAAAGAAAGgtaagcataagtagaaaatcagtatgactctttttacccaatctgaagag Alignment from Exonerate_protein2genome GACAG GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG GACAGgtatgtgatcagtggggggtggtcctgccacatcggctctcctagGCGCATCAATGGGTCAAGGAGCGTTGTCCTGGATACACACACAATCCAATTCAGAGGCTAAGGGAACTGAAAGAAAGgtaagcataagtagaaaatcagtatgactctttttacccaatctgaagag Alignment from Exonerate_coding2genome GACAG GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG GACAGgtatgtgatcagtggggggtggtcctgccacatcggctctcctagGCGCATCAATGGGTCAAGGAGCGTTGTCCTGGATACACACACAATCCAATTCAGAGGCTAAGGGAACTGAAAGAAAGgtaagcataagtagaaaatcagtatgactctttttacccaatctgaagag Alignment from GeneWise GACAG GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG GACAGgtatgtgatcagtggggggtggtcctgccacatcggctctcctagGCGCATCAATGGGTCAAGGAGCGTTGTCCTGGATACACACACAATCCAATTCAGAGGCTAAGGGAACTGAAAGAAAGgtaagcataagtagaaaatcagtatgactctttttacccaatctgaagag #### Plcb3_ID1906_25 --> 2 - 2 Original Alignment agGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAG-GCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCct ggcatcccacaacagccacaccaatcggagtgatgtgatttcatctctagaaGTAATCCCCACACCTCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCGCAGCCGACAGTGTGACCAAGACTTACGGGAATTACATAAGAAGCACCAACGTAAGCGTTATAGCACTCACACGCCGTTTGCTGGATGGCC-AGCTCAGACAAGAGCTGAGGGGAAGTGCCGGCCATCTTCCAGTGTCctgtaaagacactccactacactgtaacttggcagtgtgtacgtactggaat Alignment from CESAR agGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAG-GCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCct ggcatcccacaacagccacaccaatcggagtgatgtgatttcatctctagaaGTAATCCCCACACCTCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCGCAGCCGACAGTGTGACCAAGACTTACGGGAATTACATAAGAAGCACCAACGTAAGCGTTATAGCACTCACACGCCGTTTGCTGGATGGC-CAGCTCAGACAAGAGCTGAGGGGAAGTGCCGGCCATCTTCCAGTGTCctgtaaagacactccactacactgtaacttggcagtgtgtacgtactggaat Alignment from Spaln_aa2Genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ggcatcccacaacagccacaccaatcggagtgatgtgatttcatctctagAAGTAATCCCCACACCTCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCGCAGCCGACAGTGTGACCAAGACTTACGGGAATTACATAAGAAGCACCAACGTAAGCGTTATAGCACTCACACGCCGTTTGCTGGATGGCCAGCTCAGACAAGAGCTGAGGGGAAGTGCCGGCCATCTTCCAGTGTCCTgtaaagacactccactacactgtaacttggcagtgtgtacgtactggaat Alignment from Spaln_nt2Genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAG-GCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ggcatcccacaacagccacaccaatcggagtgatgtgatttcatctctagAAGTAATCCCCACACCTCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCGCAGCCGACAGTGTGACCAAGACTTACGGGAATTACATAAGAAGCACCAACGTAAGCGTTATAGCACTCACACGCCGTTTGCTGGATGGCC-AGCTCAGACAAGAGCTGAGGGGAAGTGCCGGCCATCTTCCAGTGTCCTgtaaagacactccactacactgtaacttggcagtgtgtacgtactggaat Alignment from Pairagon AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAG-GCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ggcatcccacaacagccacaccaatcggagtgatgtgatttcatctctagAAGTAATCCCCACACCTCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCGCAGCCGACAGTGTGACCAAGACTTACGGGAATTACATAAGAAGCACCAACGTAAGCGTTATAGCACTCACACGCCGTTTGCTGGATGGCC-AGCTCAGACAAGAGCTGAGGGGAAGTGCCGGCCATCTTCCAGTGTCCTgtaaagacactccactacactgtaacttggcagtgtgtacgtactggaat Alignment from Exonerate_protein2genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ggcatcccacaacagccacaccaatcggagtgatgtgatttcatctctagAAGTAATCCCCACACCTCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCGCAGCCGACAGTGTGACCAAGACTTACGGGAATTACATAAGAAGCACCAACGTAAGCGTTATAGCACTCACACGCCGTTTGCTGGATGGCCAGCTCAGACAAGAGCTGAGGGGAAGTGCCGGCCATCTTCCAGTGTCCTgtaaagacactccactacactgtaacttggcagtgtgtacgtactggaat Alignment from Exonerate_coding2genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ggcatcccacaacagccacaccaatcggagtgatgtgatttcatctctagAAGTAATCCCCACACCTCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCGCAGCCGACAGTGTGACCAAGACTTACGGGAATTACATAAGAAGCACCAACGTAAGCGTTATAGCACTCACACGCCGTTTGCTGGATGGCCAGCTCAGACAAGAGCTGAGGGGAAGTGCCGGCCATCTTCCAGTGTCCTgtaaagacactccactacactgtaacttggcagtgtgtacgtactggaat Alignment from GeneWise TGATTTGATTGCCAGCATCCTCTCTGAGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ccacaacagccacaccaatcggagTGATGTGATTTCATCTCTA------GAAGTAATCCCCACACCTCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCGCAGCCGACAGTGTGACCAAGACTTACGGGAATTACATAAGAAGCACCAACGTAAGCGTTATAGCACTCACACGCCGTTTGCTGGATGGCCAGCTCAGACAAGAGCTGAGGGGAAGTGCCGGCCATCTTCCAGTGTCCTgtaaagacactccactacactgtaacttggcagtgtgtacgtactggaat #### Plcb3_ID1912_19 --> 0 - 0 Original Alignment GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATAT-CGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG cacaggaaaaccctctcattaacttccacctgaaaacttctactccccagGTGATTCCAGGGCAATTCCTATCTCACAAGAAAGTCGGTATCTACGTTGAGGTGGACATGTTTGGCCTTCCATTAGATACCAGATGTAAATATCCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTAT-GGAAGAAGAACCATTTGACTTCCCCAAGgtaacacctagcacctgtccctcccagttcatgtaggaccgcagcacagc Alignment from CESAR GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATAT-CGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG cacaggaaaaccctctcattaacttccacctgaaaacttctactccccagGTGATTCCAGGGCAATTCCTATCTCACAAGAAAGTCGGTATCTACGTTGAGGTGGACATGTTTGGCCTTCCATTAGATACCAGATGTAAATATCCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTAT-GGAAGAAGAACCATTTGACTTCCCCAAGgtaacacctagcacctgtccctcccagttcatgtaggaccgcagcacagc Alignment from Spaln_aa2Genome GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATAT-CGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG cacaggaaaaccctctcattaacttccacctgaaaacttctactccccagGTGATTCCAGGGCAATTCCTATCTCACAAGAAAGTCGGTATCTACGTTGAGGTGGACATGTTTGGCCTTCCATTAGATACCAGATGTAAATATcCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTATGGAA-GAAGAACCATTTGACTTCCCCAAGgtaacacctagcacctgtccctcccagttcatgtaggaccgcagcacagc Alignment from Spaln_nt2Genome GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATC-GTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG cacaggaaaaccctctcattaacttccacctgaaaacttctactccccagGTGATTCCAGGGCAATTCCTATCTCACAAGAAAGTCGGTATCTACGTTGAGGTGGACATGTTTGGCCTTCCATTAGATACCAGATGTAAATATCCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTATGGAA-GAAGAACCATTTGACTTCCCCAAGgtaacacctagcacctgtccctcccagttcatgtaggaccgcagcacagc Alignment from Pairagon GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATAT-CGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG cacaggaaaaccctctcattaacttccacctgaaaacttctactccccagGTGATTCCAGGGCAATTCCTATCTCACAAGAAAGTCGGTATCTACGTTGAGGTGGACATGTTTGGCCTTCCATTAGATACCAGATGTAAATATCCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTATGGAA-GAAGAACCATTTGACTTCCCCAAGgtaacacctagcacctgtccctcccagttcatgtaggaccgcagcacagc Alignment from Exonerate_protein2genome GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATAT-CGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGG--GACGAGGAACCCTTTGACTTCCCCAAG cacaggaaaaccctctcattaacttccacctgaaaacttctactccccagGTGATTCCAGGGCAATTCCTATCTCACAAGAAAGTCGGTATCTACGTTGAGGTGGACATGTTTGGCCTTCCATTAGATACCAGATGTAAATATCCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTATGGAA---GAAGAACCATTTGACTTCCCCAAGgtaacacctagcacctgtccctcccagttcatgtaggaccgcagcacagc Alignment from Exonerate_coding2genome GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATAT-CGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGG--GACGAGGAACCCTTTGACTTCCCCAAG cacaggaaaaccctctcattaacttccacctgaaaacttctactccccagGTGATTCCAGGGCAATTCCTATCTCACAAGAAAGTCGGTATCTACGTTGAGGTGGACATGTTTGGCCTTCCATTAGATACCAGATGTAAATATCCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTATGGAA---GAAGAACCATTTGACTTCCCCAAGgtaacacctagcacctgtccctcccagttcatgtaggaccgcagcacagc Alignment from GeneWise GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG cacaggaaaaccctctcattaacttccacctgaaaacttctactccccagGTGATTCCAGGGCAATTCCTATCTCACAAGAAAGTCGGTATCTACGTTGAGGTGGACATGTTTGGCCTTCCATTAGATACCAGATGTAAATATCCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTATGGAAGAAGAACCATTTGACTTCCCCAAGgtaacacctagcacctgtccctcccagttcatgtaggaccgcagcacagc #### Plcb3_ID1914_17 --> 1 - 1 Original Alignment aTACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTG-GACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGg cctcctggctgctggaaccccaggacaatgtttctattctttatttctagaTACAACAGACAACAGCTCAGCCAGATTTACTCCAGGAGCAAACAGGTGCGACTCTTCAAACTACATGCCTTACCTCTTTT-GAATGTGGGCTGCCAACTTGTTGCCCTCAACTTCCAGAGTCTGggtgggaatatgtttgcttttggtctctctaacaatctacatttaattttg Alignment from CESAR aTACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTG-GACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGg cctcctggctgctggaaccccaggacaatgtttctattctttatttctagaTACAACAGACAACAGCTCAGCCAGATTTACTCCAGGAGCAAACAGGTGCGACTCTTCAAACTACATGCCTTACCTCTTT-TGAATGTGGGCTGCCAACTTGTTGCCCTCAACTTCCAGAGTCTGggtgggaatatgtttgcttttggtctctctaacaatctacatttaattttg Alignment from Spaln_aa2Genome ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG cctcctggctgctggaaccccaggacaatgtttctattctttatttctagATACAACAGACAACAGCTCAGCCAGATTTACTCCAGGAGCAAACAGGTGCGACTCTTCAAACTACATGCCTTACCTCTTTTGAATGTGGGCTGCCAACTTGTTGCCCTCAACTTCCAGAGTCTGGgtgggaatatgtttgcttttggtctctctaacaatctacatttaattttg Alignment from Spaln_nt2Genome ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTG-GACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG cctcctggctgctggaaccccaggacaatgtttctattctttatttctagATACAACAGACAACAGCTCAGCCAGATTTACTCCAGGAGCAAACAGGTGCGACTCTTCAAACTACATGCCTTACCTCTT-TTGAATGTGGGCTGCCAACTTGTTGCCCTCAACTTCCAGAGTCTGGgtgggaatatgtttgcttttggtctctctaacaatctacatttaattttg Alignment from Pairagon ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTG-GACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG cctcctggctgctggaaccccaggacaatgtttctattctttatttctagATACAACAGACAACAGCTCAGCCAGATTTACTCCAGGAGCAAACAGGTGCGACTCTTCAAACTACATGCCTTACCTCTTTT-GAATGTGGGCTGCCAACTTGTTGCCCTCAACTTCCAGAGTCTGGgtgggaatatgtttgcttttggtctctctaacaatctacatttaattttg Alignment from Exonerate_protein2genome ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG cctcctggctgctggaaccccaggacaatgtttctattctttatttctagATACAACAGACAACAGCTCAGCCAGATTTACTCCAGGAGCAAACAGGTGCGACTCTTCAAACTACATGCCTTACCTCTTTTGAATGTGGGCTGCCAACTTGTTGCCCTCAACTTCCAGAGTCTGGgtgggaatatgtttgcttttggtctctctaacaatctacatttaattttg Alignment from Exonerate_coding2genome ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG cctcctggctgctggaaccccaggacaatgtttctattctttatttctagATACAACAGACAACAGCTCAGCCAGATTTACTCCAGGAGCAAACAGGTGCGACTCTTCAAACTACATGCCTTACCTCTTTTGAATGTGGGCTGCCAACTTGTTGCCCTCAACTTCCAGAGTCTGGgtgggaatatgtttgcttttggtctctctaacaatctacatttaattttg Alignment from GeneWise ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG cctcctggctgctggaaccccaggacaatgtttctattctttatttctagATACAACAGACAACAGCTCAGCCAGATTTACTCCAGGAGCAAACAGGTGCGACTCTTCAAACTACATGCCTTACCTCTTTTGAATGTGGGCTGCCAACTTGTTGCCCTCAACTTCCAGAGTCTGGgtgggaatatgtttgcttttggtctctctaacaatctacatttaattttg #### Plcb3_ID1915_16 --> 2 - 2 Original Alignment aaAGGAACAAGTGCTTCGAGATG-TCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGga caacaggttggtctgtcaggtgattgctctatgtttctttgcttcgctagaaAGGAACAAGTGTTTTAGAATGCTCATCCTTCGTGGAAACCAAAGCA------------A-CAAGAGCCCTATGGAGCTAGTGgagtaatttcaccaatggcatggctggtgtagtgtagtgccaggagggttac Alignment from CESAR aaAGGAACAAGTGCTTCGAGATG-TCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGga caacaggttggtctgtcaggtgattgctctatgtttctttgcttcgctagaaAGGAACAAGTGTTTTAGAATGCTCATCCTTCGTGGAAACCAAAGCA------------A-CAAGAGCCCTATGGAGCTAGTGgagtaatttcaccaatggcatggctggtgtagtgtagtgccaggagggttac Alignment from Spaln_aa2Genome AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA caacaggttggtctgtcaggtgattgctctatgtttctttgcttcgctagAAAGGAACAAGTGTTTTAGAATGCTCATCCTTCGTGGAAAC------------CAAAGCAACAAGAGCCCTATGGAGCTAGTGGAgtaatttcaccaatggcatggctggtgtagtgtagtgccaggagggttac Alignment from Spaln_nt2Genome AAAGGAACAAGTGCTTCGAGATG-TCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA caacaggttggtctgtcaggtgattgctctatgtttctttgcttcgctagAAAGGAACAAGTGTTTTAGAATGCTCATCCTTCGTGGAAACCAAAGCAA-------------CAAGAGCCCTATGGAGCTAGTGGAgtaatttcaccaatggcatggctggtgtagtgtagtgccaggagggttac Alignment from Pairagon AAAGGAACAAGTGCTTCGAGATG-TCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA caacaggttggtctgtcaggtgattgctctatgtttctttgcttcgctagAAAGGAACAAGTGTTTTAGAATGCTCATCCTTCGTGGAAACCAAAGCAA-------------CAAGAGCCCTATGGAGCTAGTGGAgtaatttcaccaatggcatggctggtgtagtgtagtgccaggagggttac Alignment from Exonerate_protein2genome AAAGGAACAAGTGCTTCGAGATG-TCATCCTTCGTGGAGACCAAGGCAATGGAGCAACT caacaggttggtctgtcaggtgattgctctatgtttctttgcttcgctagAAAGGAACAAGTGTTTTAGAATGCTCATCCTTCGTGGAAACCAAAGCAACAAGAGCCCTatggagctagtggagtaatttcaccaatggcatggctggtgtagtgtagtgccaggagggttac Alignment from Exonerate_coding2genome TCATCCTTCGTGGAGACCA CAACAGGTTGGTCTGTCAGgtgattgctctatgtttctttgcttcgctagaaaggaacaagtgttttagaatgctcatccttcgtggaaaccaaagcaacaagagccctatggagctagtggagtaatttcaccaatggcatggctggtgtagtgtagtgccaggagggttac Alignment from GeneWise AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA caacaggttggtctgtcaggtgattgctctatgtttctttgcttcgctagAAAGGAACAAGTGTTTTAGAATGCTCATCCTT------------CGTGGAAACCAAAGCAACAAGAGCCCTATGGAGCTAGTGGAgtaatttcaccaatggcatggctggtgtagtgtagtgccaggagggttac #### Plcb3_ID1922_9 --> 1 - 1 Original Alignment aGGTGCCAAGGGCAAGCCGTAC-CTCACTCTGGAGCAGCTCATGGACTTTATCAAC------CAGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCg agtagtaaggagctaccatcaggagtgttcaccttgttctggtgtcctagaGGCATGAAGGGCAAGCCTTACCCTT---CTGGAGCAGCTTATGGACTTTGTGAACCAACAAGAGA-GCAGAGAGACCCGAGACTG---------------------------TCCTCACAAGCTCGTCTACTTATTGAGGAGTATGAGACGAACAAACAGTTTCTGGAGTGTggtatggccatacaggtaagatagcagtgcgggtgggatctgctttgctta Alignment from CESAR aGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAACCAG--AAG---CAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCg agtagtaaggagctaccatcaggagtgttcaccttgttctggtgtcctagaGGCATGAAGGGCAAGCCTTACCCTT--CTGGAGCAGCTTATGGACTTTGTGAACCAACAAGAGAGCAGAGAGACCCGAGACTG---------------------------TCCTCACAAGCTCGTCTACTTATTGAGGAGTATGAGACGAACAAACAGTTTCTGGAGTGTggtatggccatacaggtaagatagcagtgcgggtgggatctgctttgctta Alignment from Spaln_aa2Genome AGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAACCAGAAG-----CAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCG agtagtaaggagctaccatcaggagtgttcaccttgttctggtgtcctagAGGCATGAAGGGCAAGCCTTACCCTT--CTGGAGCAGCTTATGGACTTTGTGAACCAACAAGAGagCAGAGAGACCCGAGACTG---------------------------TCCTCACAAGCTCGTCTACTTATTGAGGAGTATGAGACGAACAAACAGTTTCTGGAGTGTGgtatggccatacaggtaagatagcagtgcgggtgggatctgctttgctta Alignment from Spaln_nt2Genome AGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAACCAGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCG agtagtaaggagctaccatcaggagtgttcaccttgttctggtgtcctagAGGCATGAAGGGCAAGCCTTAC--CCTTCTGGAGCAGCTTATGGACTTTGTGAACCAACA----AGAGAGCAGAGA---------------GACCCGAGACT---GTCCTCACAAGCTCGTCTACTTATTGAGGAGTATGAGACGAACAAACAGTTTCTGGAGTGTGgtatggccatacaggtaagatagcagtgcgggtgggatctgctttgctta Alignment from Pairagon AGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAACCA-----GAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCG agtagtaaggagctaccatcaggagtgttcaccttgttctggtgtcctagAGGCATGAAGGGCAAGCCTTACCC--TTCTGGAGCAGCTTATGGACTTTGTGAACCAACAAGAGAGCAGAGAGACCCGAGACT---------------------------GTCCTCACAAGCTCGTCTACTTATTGAGGAGTATGAGACGAACAAACAGTTTCTGGAGTGTGgtatggccatacaggtaagatagcagtgcgggtgggatctgctttgctta Alignment from Exonerate_protein2genome AGGTGCCAAGGGCAAGCCGTAC-CTCACTCTGGAGCAGCTCATGGACTTTATCAACCAG-----AAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAG agtagtaaggagctaccatcaggagtgttcaccttgttctggtgtcctagAGGCATGAAGGGCAAGCCTTACCCTT---CTGGAGCAGCTTATGGACTTTGTGAACCAACAAGAGAGCAGAGAGACCCGAGACTGTCCTCACAAGCTCGTCTACTTATTGAGGAGTATGAGACGAACAAACAGTTTCTGGAGTGTGGTATGGCCATACAGgtaagatagcagtgcgggtgggatctgctttgctta Alignment from Exonerate_coding2genome CCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCG agtagtaaggagctaccatcaggagtgttcaccttgttctggtgtcctagaggcatgaagggcaagccttacccttctggagcagcttatggactttgtgaaccaacaagagagcagagagacCCGAGACTGTCCTCACAAGCTCGTCTACTTATTGAGGAGTATGAGACGAACAAACAGTTTCTGGAGTGTGgtatggccatacaggtaagatagcagtgcgggtgggatctgctttgctta Alignment from GeneWise AGGTGCCAAGGGCAAGCCGTACCTCACT---CTGGAGCAGCTCATGGACTTTATCAACCAGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCG agtagtaaggagctaccatcaggagtgttcaccttgttctggtgtcctagAGGCATGAAGGGCAAGCCTTACCCTTCTGGAGCAGCTTATGGACTTTGTGAACCAACAAGAGAGCAGAGAGACCCGAGACTG---------------------------TCCTCACAAGCTCGTCTACTTATTGAGGAGTATGAGACGAACAAACAGTTTCTGGAGTGTGgtatggccatacaggtaagatagcagtgcgggtgggatctgctttgctta #### Plcb3_ID1926_5 --> 0 - 2 Original Alignment GTCTGGTCAGAGGAGTTGTTTAAA-CTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAgc ggggttaaccccctgctcctttccactagcaaagtaacctttttctccagGTATGGTCAGAGGAGTTGTTTAGACTTAGCCATGAACATATTGGCCCAGAATGCATCCCAGA-CACATTCTTGCGTAAAgcgtaagtctacaaccacataggggaatgctggaatgtcccgctgtgcacca Alignment from CESAR GTCTGGTCAGAGGAGTTGTTTAAACTG-GCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAgc ggggttaaccccctgctcctttccactagcaaagtaacctttttctccagGTATGGTCAGAGGAGTTGTTTAGACTTAGCCATGAACATATTGGCCCAGAATGCATCCC-AGACACATTCTTGCGTAAAgcgtaagtctacaaccacataggggaatgctggaatgtcccgctgtgcacca Alignment from Spaln_aa2Genome GTCTGGTCAGAGGAGTTGTTTAAACTG-GCCATGAACATATTGGCTCAGAACGCCTCCCGG---AACACCTTCCTGCGGAAAGC ggggttaaccccctgctcctttccactagcaaagtaacctttttctccagGTATGGTCAGAGGAGTTGTTTAGACTTaGCCATGAACATATTGGCCCAGAATGCATCCCAGACACATTCTTGCGTAAAGCGTAAgtctacaaccacataggggaatgctggaatgtcccgctgtgcacca Alignment from Spaln_nt2Genome GTCTGGTCAGAGGAGTTGTTTAAACTG-GCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC ggggttaaccccctgctcctttccactagcaaagtaacctttttctccagGTATGGTCAGAGGAGTTGTTTAGACTTAGCCATGAACATATTGGCCCAGAATGCATCCCAG-ACACATTCTTGCGTAAAGCgtaagtctacaaccacataggggaatgctggaatgtcccgctgtgcacca Alignment from Pairagon GTCTGGTCAGAGGAGTTGTTTAAAC-TGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC ggggttaaccccctgctcctttccactagcaaagtaacctttttctccagGTATGGTCAGAGGAGTTGTTTAGACTTAGCCATGAACATATTGGCCCAGAATGCATCCCAG-ACACATTCTTGCGTAAAGCgtaagtctacaaccacataggggaatgctggaatgtcccgctgtgcacca Alignment from Exonerate_protein2genome ggggttaaccccctgctcctttccactagcaaagtaacctttttctccaggtatggtcagaggagttgtttagacttagccatgaacatattggcccagaatgcatcccagacacattcttgcgtaaagcgtaagtctacaaccacataggggaatgctggaatgtcccgctgtgcacca Alignment from Exonerate_coding2genome ggggttaaccccctgctcctttccactagcaaagtaacctttttctccaggtatggtcagaggagttgtttagacttagccatgaacatattggcccagaatgcatcccagacacattcttgcgtaaagcgtaagtctacaaccacataggggaatgctggaatgtcccgctgtgcacca Alignment from GeneWise GTCTGGTCAGAGGAGTTGTTTAAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC ggggttaaccccctgctcctttccactagcaaagtaacctttttctccagGTATGGTCAGAGGAGTTGTTTAGACTTAGCCATGAACATATTGGCCCAGAATGCATCCCAGACACATTCTTGCGTAAAGCgtaagtctacaaccacataggggaatgctggaatgtcccgctgtgcacca #### Plcb3_ID1927_4 --> 0 - 0 Original Alignment GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAG-GAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG aggatcaaaatttatgcacattttgagcttgggttcctttcttgtttcagGATCCTAAGATTCGAGAAGTT------TTTGGTGGCCCTGATACACGACTGGAGCGAGAGATTGATGACAGTGGTTGCTGGGC-GGATTTAGTAACTACCACATTCTTGAATTTCATGGCTGTGCAGGACGGCACAGTCAAGgtgagtccaggctgatctccatattgaaggcattagtacattcaaacctt Alignment from CESAR GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAG-GAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG aggatcaaaatttatgcacattttgagcttgggttcctttcttgtttcagGATCCTAAGATTCGAGAAGTT------TTTGGTGGCCCTGATACACGACTGGAGCGAGAGATTGATGACAGTGGTTGCTGGG-CGGATTTAGTAACTACCACATTCTTGAATTTCATGGCTGTGCAGGACGGCACAGTCAAGgtgagtccaggctgatctccatattgaaggcattagtacattcaaacctt Alignment from Spaln_aa2Genome GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG aggatcaaaatttatgcacattttgagcttgggttcctttcttgtttcagGATCCTAAGATTCGAGAAGTT------TTTGGTGGCCCTGATACACGACTGGAGCGAGAGATTGATGACAGTGGTTGCTGGGCGGATTTAGTAACTACCACATTCTTGAATTTCATGGCTGTGCAGGACGGCACAGTCAAGgtgagtccaggctgatctccatattgaaggcattagtacattcaaacctt Alignment from Spaln_nt2Genome GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAG-GAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG aggatcaaaatttatgcacattttgagcttgggttcctttcttgtttcagGATCCTAAGATTCGAGAAGT------TTTTGGTGGCCCTGATACACGACTGGAGCGAGAGATTGATGACAGTGGTTGCTGGG-CGGATTTAGTAACTACCACATTCTTGAATTTCATGGCTGTGCAGGACGGCACAGTCAAGgtgagtccaggctgatctccatattgaaggcattagtacattcaaacctt Alignment from Pairagon GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAG-GAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG aggatcaaaatttatgcacattttgagcttgggttcctttcttgtttcagGATCCTAAGATTCGAGAAGT------TTTTGGTGGCCCTGATACACGACTGGAGCGAGAGATTGATGACAGTGGTTGCTGGG-CGGATTTAGTAACTACCACATTCTTGAATTTCATGGCTGTGCAGGACGGCACAGTCAAGgtgagtccaggctgatctccatattgaaggcattagtacattcaaacctt Alignment from Exonerate_protein2genome GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG aggatcaaaatttatgcacattttgagcttgggttcctttcttgtttcagGATCCTAAGATTCGAGAAGTT------TTTGGTGGCCCTGATACACGACTGGAGCGAGAGATTGATGACAGTGGTTGCTGGGCGGATTTAGTAACTACCACATTCTTGAATTTCATGGCTGTGCAGGACGGCACAGTCAAGgtgagtccaggctgatctccatattgaaggcattagtacattcaaacctt Alignment from Exonerate_coding2genome aggatcaaaatttatgcacattttgagcttgggttcctttcttgtttcaggatcctaagattcgagaagtttttggtggccctgatacacgactggagcgagagattgatgacagtggttgctgggcggatttagtaactaccacattcttgaatttcatggctgtgcaggacggcacagtcaaggtgagtccaggctgatctccatattgaaggcattagtacattcaaacctt Alignment from GeneWise GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG aggatcaaaatttatgcacattttgagcttgggttcctttcttgtttcagGATCCTAAGATTCGAGAAGTT------TTTGGTGGCCCTGATACACGACTGGAGCGAGAGATTGATGACAGTGGTTGCTGGGCGGATTTAGTAACTACCACATTCTTGAATTTCATGGCTGTGCAGGACGGCACAGTCAAGgtgagtccaggctgatctccatattgaaggcattagtacattcaaacctt #### Plce1_ID7626_12 --> 1 - 1 Original Alignment cATCAGGAGCCGCAAGGACTTGAAGGACATCTTT-GACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAg gctgtatattactattcataaaggctacatattttgcttctatttcccagcATTAGGAGCCGAAAGGACCTGAAGGACATCTTTCGACATCTATACAGTG---------AGATCTACCTCAG-GTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGggtacccttgttggcccactcctcccatcaagcaggattgtaattttgata Alignment from CESAR cATCAGGAGCCGCAAGGACTTGAAGGACATCTTT-GACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAg gctgtatattactattcataaaggctacatattttgcttctatttcccagcATTAGGAGCCGAAAGGACCTGAAGGACATCTTTCGACATCTATACAGTG---------AGATCTACCTCA-GGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGggtacccttgttggcccactcctcccatcaagcaggattgtaattttgata Alignment from Spaln_aa2Genome CATCAGGAGCCGCAAGGACTTGAAGGACATCTTT---GACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG gctgtatattactattcataaaggctacatattttgcttctatttcccagCATTAGGAGCCGAAAGGACCTGAAGGACATCTTTCGACATCTATACAGTGAGATCTACCTCAGG------------TCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGGgtacccttgttggcccactcctcccatcaagcaggattgtaattttgata Alignment from Spaln_nt2Genome CATCAGGAGCCGCAAGGACTTGAAGGACATCTTT-GACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG gctgtatattactattcataaaggctacatattttgcttctatttcccagCATTAGGAGCCGAAAGGACCTGAAGGACATCTTTCGACATCTA-----TACAGTG----AGATCTACCTCAG-GTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGGgtacccttgttggcccactcctcccatcaagcaggattgtaattttgata Alignment from Pairagon CATCAGGAGCCGCAAGGACTTGAAGGACATCTTT-GACATCTA---------------CTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG gctgtatattactattcataaaggctacatattttgcttctatttcccagCATTAGGAGCCGAAAGGACCTGAAGGACATCTTTCGACATCTATACAGTGAGATCTACCTCAG-------------------------GTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGGgtacccttgttggcccactcctcccatcaagcaggattgtaattttgata Alignment from Exonerate_protein2genome CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG gctgtatattactattcataaaggctacatattttgcttctatttcccagCATTAGGAGCCGAAAGGACCTGAAGGACATCTTTCGACATCTA---------TACAGTGAGATCTACCTCAGGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGGgtacccttgttggcccactcctcccatcaagcaggattgtaattttgata Alignment from Exonerate_coding2genome CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG gctgtatattactattcataaaggctacatattttgcttctatttcccagCATTAGGAGCCGAAAGGACCTGAAGGACATCTTT----CGACATCTATACAGTGAGATCTACCTC-----AGGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGGgtacccttgttggcccactcctcccatcaagcaggattgtaattttgata Alignment from GeneWise CATCAGGAGCCGCAAGGACTTGAAGGACATCTTT---GACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG gctgtatattactattcataaaggctacatattttgcttctatttcccagCATTAGGAGCCGAAAGGACCTGAAGGACATCTTTCGACATCTATACAGTGAGATCTACCTCAGGTCCACC------------CCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGGgtacccttgttggcccactcctcccatcaagcaggattgtaattttgata #### Pnlip_ID12751_10 --> 2 - 2 Original Alignment gtTGGCGGTACCAGGTGACTGTCACCCTGTCTGGA-CAGAAGGTCACTGGGCACATTCTAGTTTCTTTGTTTGGAAATGGAGGAAACTCTAAACAGTATGAAGTTTTCaa agcatgcaaggctggtaattgcccccatgaccaccactgttcgctctcaggtTGGTGGTACCAGATAACTGTCACCCTCTCAGGACCAGAAGGAGACTGGG---CTCCTAGTG---TTGTTCGGAAACG-ACGTAACTCTAAGCAGTATCAAGTTTTCaagtaagtaattggaaacatcacacagccccttagtgttctaagtgaggaat Alignment from CESAR gtTGGCGGTACCAGGTGACTGTCACCCTGTCTGGA-CAGAAGGTCACTGGGCACATTCTAGTTTCTTTGTTTGGAAATGGAGGAAACTCTAAACAGTATGAAGTTTTCaa agcatgcaaggctggtaattgcccccatgaccaccactgttcgctctcaggtTGGTGGTACCAGATAACTGTCACCCTCTCAGGACCAGAAGGAGACTGGG---CTCCTAGTG---TTGTTCGGAAACGAC-GTAACTCTAAGCAGTATCAAGTTTTCaagtaagtaattggaaacatcacacagccccttagtgttctaagtgaggaat Alignment from Spaln_aa2Genome GTTGGCGGTACCAGGTGACTGTCACCCTGTCTGGACAGAAGGTCACTGGGCACATTCTAGTTTCTTTGTTTGGAAATGGAGGAAACTCTAAACAGTATGAAGTTTTCAA agcatgcaaggctggtaattgcccccatgaccaccactgttcgctctcagGTTGGTGGTACCAGATAACTGTCACCCTCTCAGGACCAGAA------GGAGACTGGGCTCCTAGTGTTGTTCGGAAACGACGTAACTCTAAGCAGTATCAAGTTTTCAAgtaagtaattggaaacatcacacagccccttagtgttctaagtgaggaat Alignment from Spaln_nt2Genome GTTGGCGGTACCAGGTGACTGTCACCCTGTCTGGAC-AGAAGGTCACTGGGCACATTCTAGTTTCTTTGTTTGGAAATGGAGGAAACTCTAAACAGTATGAAGTTTTCAA agcatgcaaggctggtaattgcccccatgaccaccactgttcgctctcagGTTGGTGGTACCAGATAACTGTCACCCTCTCAGGACCAGAAGGAGACTGGGC---TCCTAGT---GTTGTTCGGAAA-CGACGTAACTCTAAGCAGTATCAAGTTTTCAAgtaagtaattggaaacatcacacagccccttagtgttctaagtgaggaat Alignment from Pairagon GTTGGCGGTACCAGGTGACTGTCACCCTGTCTGGA-CAGAAGGTCACTGGGCACATTCTAGTTTCTTTGTTTGGAAATGGAGGAAACTCTAAACAGTATGAAGTTTTCAA agcatgcaaggctggtaattgcccccatgaccaccactgttcgctctcagGTTGGTGGTACCAGATAACTGTCACCCTCTCAGGACCAGAAGGAGACTGGGC---TCCTAGT---GTTGTTCGGAAAC-GACGTAACTCTAAGCAGTATCAAGTTTTCAAgtaagtaattggaaacatcacacagccccttagtgttctaagtgaggaat Alignment from Exonerate_protein2genome GTTGGCGGTACCAGGTGACTGTCACCCTGTCTGGACAGAAGGTCACTGGGCACATTCTAGTTTCTTTGTTTGGAAATGGAGGAAACTCTAAACAGTATGAAGTTTTCAAGGGCTCTCTGCAGCCAGGTACTTCTCACGTCA agcatgcaaggctggtaattgcccccatgaccaccactgttcgctctcagGTTGGTGGTACCAGATAACTGTCACCCTCTCAGGACCAGAA------GGAGACTGGGCTCCTAGTGTTGTTCGGAAACGACGTAACTCTAAGCAGTATCAAGTTTTCAAGTAAGTAATTGGAAACATCACACAGCCCCTTAgtgttctaagtgaggaat Alignment from Exonerate_coding2genome agcatgcaaggctggtaattgcccccatgaccaccactgttcgctctcaggttggtggtaccagataactgtcaccctctcaggaccagaaggagactgggctcctagtgttgttcggaaacgacgtaactctaagcagtatcaagttttcaagtaagtaattggaaacatcacacagccccttagtgttctaagtgaggaat Alignment from GeneWise GTTGGCGGTACCAGGTGACTGTCACCCTGTCTGGACAGAAGGTCACTGGGCACATTCTAGTTTCTTTGTTTGGAAATGGAGGAAACTCTAAACAGTATGAA agcatgcaaggctggtaattgcccccatgaccaccactgttcgctctcagGTTGGTGGTACCAGATAACTGTCACCCTCTCAGGACCAGAA------GGAGACTGGGCTCCTAGTGTTGTTCGGAAACGACGTAACTCTAAGCAGTATCAAgttttcaagtaagtaattggaaacatcacacagccccttagtgttctaagtgaggaat #### Pola2_ID1323_17 --> 1 - 0 Original Alignment tTACTACCCACTT-TATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG ggtgactgtatggtcaggagatccctcatgcatcctcttccctctcgcagtTACTATCCACTTCTATCCACCCCACGTGGACATGGCCATAGACT-TAAGAATTTTTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGgtaggatttggattgctttttcttgcgaacaccctgggacttctgacatg Alignment from CESAR tTACTACCCACTT-TATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG ggtgactgtatggtcaggagatccctcatgcatcctcttccctctcgcagtTACTATCCACTTCTATCCACCCCACGTGGACATGGCCATAGAC-TTAAGAATTTTTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGgtaggatttggattgctttttcttgcgaacaccctgggacttctgacatg Alignment from Spaln_aa2Genome TTACTACCCACTT-TATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG ggtgactgtatggtcaggagatccctcatgcatcctcttccctctcgcagTTACTATCCACTTcTATCCACCCCACGTGGACATGGCCATAGACTT-AAGAATTTTTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGgtaggatttggattgctttttcttgcgaacaccctgggacttctgacatg Alignment from Spaln_nt2Genome TTACTACCCACTT-TATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG ggtgactgtatggtcaggagatccctcatgcatcctcttccctctcgcagTTACTATCCACTTCTATCCACCCCACGTGGACATGGCCATAGACT-TAAGAATTTTTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGgtaggatttggattgctttttcttgcgaacaccctgggacttctgacatg Alignment from Pairagon TTACTACCCACTT-TATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG ggtgactgtatggtcaggagatccctcatgcatcctcttccctctcgcagTTACTATCCACTTCTATCCACCCCACGTGGACATGGCCATAGACT-TAAGAATTTTTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGgtaggatttggattgctttttcttgcgaacaccctgggacttctgacatg Alignment from Exonerate_protein2genome ggtgactgtatggtcaggagatccctcatgcatcctcttccctctcgcagttactatccacttctatccaccccacgtggacatggccatagacttaagaatttttacacctatgctcagctgccagtgacacctggtgtattcatagtgccatctgagctgaaatactttgtaaaggtaggatttggattgctttttcttgcgaacaccctgggacttctgacatg Alignment from Exonerate_coding2genome ggtgactgtatggtcaggagatccctcatgcatcctcttccctctcgcagttactatccacttctatccaccccacgtggacatggccatagacttaagaatttttacacctatgctcagctgccagtgacacctggtgtattcatagtgccatctgagctgaaatactttgtaaaggtaggatttggattgctttttcttgcgaacaccctgggacttctgacatg Alignment from GeneWise TTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG ggtgactgtatggtcaggagatccctcatgcatcctcttccctctcgcagTTACTATCCACTTCTATCCACCCCACGTGGACATGGCCATAGACTTAAGAATTTTTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGgtaggatttggattgctttttcttgcgaacaccctgggacttctgacatg #### Pola2_ID1325_15 --> 0 - 2 Original Alignment CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTCTCCATAAATGGAGTGATGTTT-GGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTag agctcactgtaggttttattgcaaggagaacaacaacaacaacaaatcagCGAGTGCAGTTTGTATCAGAGCCCTGCAGCCTACCGATAAATGGAGTAATG---CTATTCAACTACTGCAGACTTACTGTATCACCTTG-GGCTGAGGAACTGTTCaggtgaggccattcaacccaataagggcagtgacataacatggtccttaaag Alignment from CESAR CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTCTCCATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTag agctcactgtaggttttattgcaaggagaacaacaacaacaacaaatcagCGAGTGCAGTTTGTATCAGAGCCCTGCAGCCTACCGATAAATGGAGTAATGCTA--TTCAACTACTGCAGACTTACTGTATCACCTTG-GGCTGAGGAACTGTTCaggtgaggccattcaacccaataagggcagtgacataacatggtccttaaag Alignment from Spaln_aa2Genome CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTCTCCATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTAG agctcactgtaggttttattgcaaggagaacaacaacaacaacaaatcagCGAGTGCAGTTTGTATCAGAGCCCTGCAGCCTACCGATAAATGGAGTAATGCTA---TTCAACTACTGCAGACTTACTGTATCACCTTGGGCTGAGGAACTGTTCAGgtgaggccattcaacccaataagggcagtgacataacatggtccttaaag Alignment from Spaln_nt2Genome CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTCTCCATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTAG agctcactgtaggttttattgcaaggagaacaacaacaacaacaaatcagCGAGTGCAGTTTGTATCAGAGCCCTGCAGCCTACCGATAAATGGAGTAATGCT--ATTCAACTACTGCAGACTTACTGTATCACCT-TGGGCTGAGGAACTGTTCAGgtgaggccattcaacccaataagggcagtgacataacatggtccttaaag Alignment from Pairagon CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTCTCCATAAATGGAGTGATG--------------------------------TTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTAG agctcactgtaggttttattgcaaggagaacaacaacaacaacaaatcagCGAGTGCAGTTTGTATCAGAGCCCTGCAGCCTACCGATAAATGGAGTAATGCTATTCAACTACTGCAGACTTACTGTATCACCTT-----------------------------------GGGCTGAGGAACTGTTCAGgtgaggccattcaacccaataagggcagtgacataacatggtccttaaag Alignment from Exonerate_protein2genome CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTCTCCATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTAG agctcactgtaggttttattgcaaggagaacaacaacaacaacaaatcagCGAGTGCAGTTTGTATCAGAGCCCTGCAGCCTACCGATAAATGGAGTAATGCTA---TTCAACTACTGCAGACTTACTGTATCACCTTGGGCTGAGGAACTGTTCAGgtgaggccattcaacccaataagggcagtgacataacatggtccttaaag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTCTCCATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTAG agctcactgtaggttttattgcaaggagaacaacaacaacaacaaatcagCGAGTGCAGTTTGTATCAGAGCCCTGCAGCCTACCGATAAATGGAGTAATGCTA---TTCAACTACTGCAGACTTACTGTATCACCTTGGGCTGAGGAACTGTTCAGgtgaggccattcaacccaataagggcagtgacataacatggtccttaaag #### Pold4_ID438_3 --> 2 - 2 Original Alignment gtATCACAAGG---CTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTG-AAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCag cactccactaccaccccctgcttgtctccccattcttttacttcctacaggtATCTCAAGGTTGTTGCAGCGC---AGCCGCGCAGAGCAGATGGGCTTGCAAGCCCCCCCTAGAGGTGTATCCTGTGTTGAAAG-CCACCCTGAAGACCCTCACTACTGGTGTacgtgagtacagccccagagagctttctactgtctatctgggagctcatctg Alignment from CESAR gtATCACAAGG---CTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTG-AAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCag cactccactaccaccccctgcttgtctccccattcttttacttcctacaggtATCTCAAGGTTGTTGCAGCGC---AGCCGCGCAGAGCAGATGGGCTTGCAAGCCCCCCCTAGAGGTGTATCCTGTGTTGAAAG-CCACCCTGAAGACCCTCACTACTGGTGTacgtgagtacagccccagagagctttctactgtctatctgggagctcatctg Alignment from Spaln_aa2Genome GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG cactccactaccaccccctgcttgtctccccattcttttacttcctacagGTATCTCAAGGTTGTTGCAGCGCAGCCGCGCAGAGCAGATGGGCTTGCAAGCCCCCCCTAGAGGTGTATCCTGTGTTGAAAGCCACCCTGAAGACCCTCACTACTGGTGTACgtgagtacagccccagagagctttctactgtctatctgggagctcatctg Alignment from Spaln_nt2Genome GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGC-ACACCCTGAAGACCCTCACTTCCAATGCAG cactccactaccaccccctgcttgtctccccattcttttacttcctacagGTATCTCAAGGTTGTTGCAGCGCAGCCGCGCAGAGCAGATGGGCTTGCAAGCCCCCCCTAGAGGTGTATCCTGTGTTGAAAGC-CACCCTGAAGACCCTCACTACTGGTGTACgtgagtacagccccagagagctttctactgtctatctgggagctcatctg Alignment from Pairagon GTATCACAAG---GCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTG-AAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG cactccactaccaccccctgcttgtctccccattcttttacttcctacagGTATCTCAAGGTTGTTGCAGCGC---AGCCGCGCAGAGCAGATGGGCTTGCAAGCCCCCCCTAGAGGTGTATCCTGTGTTGAAAGC-CACCCTGAAGACCCTCACTACTGGTGTACgtgagtacagccccagagagctttctactgtctatctgggagctcatctg Alignment from Exonerate_protein2genome GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG cactccactaccaccccctgcttgtctccccattcttttacttcctacagGTATCTCAAGGTTGTTGCAGCGCAGCCGCGCAGAGCAGATGGGCTTGCAAGCCCCCCCTAGAGGTGTATCCTGTGTTGAAAGCCACCCTGAAGACCCTCACTACTGGTGTACgtgagtacagccccagagagctttctactgtctatctgggagctcatctg Alignment from Exonerate_coding2genome GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAGC cactccactaccaccccctgcttgtctccccattcttttacttcctacagGTATCTCAAGGTTGTTGCAGCGCAGCCGCGCAGAGCAGATGGGCTTGCAAGCCCCCCCTAGAGGTGTATCCTGTGTTGAAAGCCACCCTGAAGACCCTCACTACTGGTGTACGtgagtacagccccagagagctttctactgtctatctgggagctcatctg Alignment from GeneWise GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAGC cactccactaccaccccctgcttgtctccccattcttttacttcctacagGTATCTCAAGGTTGTTGCAGCGCAGCCGCGCAGAGCAGATGGGCTTGCAAGCCCCCCCTAGAGGTGTATCCTGTGTTGAAAGCCACCCTGAAGACCCTCACTACTGGTGTACGtgagtacagccccagagagctttctactgtctatctgggagctcatctg #### Poll_ID9484_3 --> 1 - 0 Original Alignment gTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAG-CGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG aaccattcatactctttaaatagctccctgctgagggtcccttcacacaggTCCTTGGATGAGCCACAGCCCAGCAAGTCTGGCCAGGATGCTTCTGCTCCTGGTACCCAGCTGGGACTTGCCCAGAACCACACTCTCTCTTT-CCCTCCCCACCCTCGAGCAGTATCACCTCCTCCAACAGCAGAAAAACCATCCAGAACTCGAGCCCAAgtaaaatggcaagccactcgagaccgttaatgatagaaaatgcaagaatc Alignment from CESAR gTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGG-GATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG aaccattcatactctttaaatagctccctgctgagggtcccttcacacaggTCCTTGGATGAGCCACAGCCCAGCAAGTCTGGCCAGGATGCTTCTGCTCCTGGTACCCAGCTGGGACTTGCCCAGAACCACACTCTCTCTTT-CCCTCCCCACCCTCGAGCAGTATCACCTCCTCCAACAGCAGAAAAACCATCCAGAACTCGAGCCCAAgtaaaatggcaagccactcgagaccgttaatgatagaaaatgcaagaatc Alignment from Spaln_aa2Genome GTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG aaccattcatactctttaaatagctccctgctgagggtcccttcacacagGTCCTTGGATGAGCCACAGCCCAGCAAGTCTGGCCAGGATGCTTCTGCTCCTGGTACCCAGCTGGGACTTGCCCAGAACCACACTCTCTCTTTCCCTCCCCACCCTCGAGCAGTATCACCTCCTCCAACAGCAGAAAAACCATCCAGAACTCGAGCCCAAgtaaaatggcaagccactcgagaccgttaatgatagaaaatgcaagaatc Alignment from Spaln_nt2Genome GTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGC-GGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG aaccattcatactctttaaatagctccctgctgagggtcccttcacacagGTCCTTGGATGAGCCACAGCCCAGCAAGTCTGGCCAGGATGCTTCTGCTCCTGGTACCCAGCTGGGACTTGCCCAGAACCACACTCTCTCTTT-CCCTCCCCACCCTCGAGCAGTATCACCTCCTCCAACAGCAGAAAAACCATCCAGAACTCGAGCCCAAgtaaaatggcaagccactcgagaccgttaatgatagaaaatgcaagaatc Alignment from Pairagon GTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGC-GGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG aaccattcatactctttaaatagctccctgctgagggtcccttcacacagGTCCTTGGATGAGCCACAGCCCAGCAAGTCTGGCCAGGATGCTTCTGCTCCTGGTACCCAGCTGGGACTTGCCCAGAACCACACTCTCTCTTT-CCCTCCCCACCCTCGAGCAGTATCACCTCCTCCAACAGCAGAAAAACCATCCAGAACTCGAGCCCAAgtaaaatggcaagccactcgagaccgttaatgatagaaaatgcaagaatc Alignment from Exonerate_protein2genome GTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG aaccattcatactctttaaatagctccctgctgagggtcccttcacacagGTCCTTGGATGAGCCACAGCCCAGCAAGTCTGGCCAGGATGCTTCTGCTCCTGGTACCCAGCTGGGACTTGCCCAGAACCACACTCTCTCTTTCCCTCCCCACCCTCGAGCAGTATCACCTCCTCCAACAGCAGAAAAACCATCCAGAACTCGAGCCCAAgtaaaatggcaagccactcgagaccgttaatgatagaaaatgcaagaatc Alignment from Exonerate_coding2genome GTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG aaccattcatactctttaaatagctccctgctgagggtcccttcacacagGTCCTTGGATGAGCCACAGCCCAGCAAGTCTGGCCAGGATGCTTCTGCTCCTGGTACCCAGCTGGGACTTGCCCAGAACCACACTCTCTCTTTCCCTCCCCACCCTCGAGCAGTATCACCTCCTCCAACAGCAGAAAAACCATCCAGAACTCGAGCCCAAgtaaaatggcaagccactcgagaccgttaatgatagaaaatgcaagaatc Alignment from GeneWise GTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG aaccattcatactctttaaatagctccctgctgagggtcccttcacacagGTCCTTGGATGAGCCACAGCCCAGCAAGTCTGGCCAGGATGCTTCTGCTCCTGGTACCCAGCTGGGACTTGCCCAGAACCACACTCTCTCTTTCCCTCCCCACCCTCGAGCAGTATCACCTCCTCCAACAGCAGAAAAACCATCCAGAACTCGAGCCCAAgtaaaatggcaagccactcgagaccgttaatgatagaaaatgcaagaatc #### Polr2g_ID2381_2 --> 0 - 2 Original Alignment ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATAC-TTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGaa tcctgtcccttgtgaagctagttaaagtctgtttgacccttctctaccagATTTCCCTGGAGCGCGAGATCCTCCTGCACCCACGATACCTTCGGTCCAAACTTGCTCAACATGGTGAAGC-GAAGCCGTTTACTGAAGTGGAGGGGACCTGCACTGGGaagtgagactcctctttacgggagcaggtcctgttgaatgcattggcagcaa Alignment from CESAR ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATAC-TTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGaa tcctgtcccttgtgaagctagttaaagtctgtttgacccttctctaccagATTTCCCTGGAGCGCGAGATCCTCCTGCACCCACGATACCTTCGGTCCAAACTTGCTCAACATGGTGAAG-CGAAGCCGTTTACTGAAGTGGAGGGGACCTGCACTGGGaagtgagactcctctttacgggagcaggtcctgttgaatgcattggcagcaa Alignment from Spaln_aa2Genome ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA tcctgtcccttgtgaagctagttaaagtctgtttgacccttctctaccagATTTCCCTGGAGCGCGAGATCCTCCTGCACCCACGATACCTTCGGTCCAAACTTGCTCAACATGGTGAAGCGAAGCCGTTTACTGAAGTGGAGGGGACCTGCACTGGGAAgtgagactcctctttacgggagcaggtcctgttgaatgcattggcagcaa Alignment from Spaln_nt2Genome ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATA-CTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA tcctgtcccttgtgaagctagttaaagtctgtttgacccttctctaccagATTTCCCTGGAGCGCGAGATCCTCCTGCACCCACGATACCTTCGGTCCAAACTTGCTCAACATGGTGAAGC-GAAGCCGTTTACTGAAGTGGAGGGGACCTGCACTGGGAAgtgagactcctctttacgggagcaggtcctgttgaatgcattggcagcaa Alignment from Pairagon TTTTATCACATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATA-CTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA tcctgtcccttgtgaagctagttaaagtctgtttgacccttCTCTACCAGATTTCCCTGGAGCGCGAGATCCTCCTGCACCCACGATACCTTCGGTCCAAACTTGCTCAACATGGTGAAGC-GAAGCCGTTTACTGAAGTGGAGGGGACCTGCACTGGGAAgtgagactcctctttacgggagcaggtcctgttgaatgcattggcagcaa Alignment from Exonerate_protein2genome TTTTATCACATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA tcctgtcccttgtgaagctagttaaagtctgtttgacccttCTCTACCAGATTTCCCTGGAGCGCGAGATCCTCCTGCACCCACGATACCTTCGGTCCAAACTTGCTCAACATGGTGAAGCGAAGCCGTTTACTGAAGTGGAGGGGACCTGCACTGGGAAgtgagactcctctttacgggagcaggtcctgttgaatgcattggcagcaa Alignment from Exonerate_coding2genome TTATCACATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATA-CTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA tcctgtcccttgtgaagctagttaaagtctgtttgacccttctCTACCAGATTTCCCTGGAGCGCGAGATCCTCCTGCACCCACGATACCTTCGGTCCAAACTTGCTCAACATGGTGAAGCG-AAGCCGTTTACTGAAGTGGAGGGGACCTGCACTGGGAAgtgagactcctctttacgggagcaggtcctgttgaatgcattggcagcaa Alignment from GeneWise TTTTATCACATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA tcctgtcccttgtgaagctagttaaagtctgtttgacccttCTCTACCAGATTTCCCTGGAGCGCGAGATCCTCCTGCACCCACGATACCTTCGGTCCAAACTTGCTCAACATGGTGAAGCGAAGCCGTTTACTGAAGTGGAGGGGACCTGCACTGGGAAgtgagactcctctttacgggagcaggtcctgttgaatgcattggcagcaa #### Ppp1ca_ID411_5 --> 2 - 0 Original Alignment gcCTGTCTCCAGACTTG-CAATCCATGGAGCAGATTAGGCGTATTATGCGGCCCACAGACGTGCCTGACCAGGGCCTACTGTGTGATCTCCTGTGGTCTGACCCTGACAAGGATGTTCAAGGCTGGGGCGAGAATGACCGTGGTGTCTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATCTGCAGAGCACATCAG tgttctcatcctttagttaggtataagactgcaataacaatctcttttaggcCTGTCTCCAGGCTTACCAATCCATGGAGCAAATCAGGCACATTATGC-GCCCACAGATGTTCCAGACCAAGGCCTACTGTGTGATCTCCTGTGGTCTGATCCTGATAAGGATGTTCAAGGCTGGGCTGAGAATGACCGAGGTGTTTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCATAAGCATGATTTGGACCTTATTTGCAGAGCTCATCAGgtatgtacaaatgacactgggactggtgggcagtccccatggattgacca Alignment from CESAR gcCTGTCTCCAGACTTG-CAATCCATGGAGCAGATTAGGCGTATTATGCGGCCCACAGACGTGCCTGACCAGGGCCTACTGTGTGATCTCCTGTGGTCTGACCCTGACAAGGATGTTCAAGGCTGGGGCGAGAATGACCGTGGTGTCTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATCTGCAGAGCACATCAG tgttctcatcctttagttaggtataagactgcaataacaatctcttttaggcCTGTCTCCAGGCTTACCAATCCATGGAGCAAATCAGGCACATTATGC-GCCCACAGATGTTCCAGACCAAGGCCTACTGTGTGATCTCCTGTGGTCTGATCCTGATAAGGATGTTCAAGGCTGGGCTGAGAATGACCGAGGTGTTTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCATAAGCATGATTTGGACCTTATTTGCAGAGCTCATCAGgtatgtacaaatgacactgggactggtgggcagtccccatggattgacca Alignment from Spaln_aa2Genome GACTTGCAATCCATGGAGCAGATTAGGCGTATTATGCGGCCCACAGACGTGCCTGACCAGGGCCTACTGTGTGATCTCCTGTGGTCTGACCCTGACAAGGATGTTCAAGGCTGGGGCGAGAATGACCGTGGTGTCTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATCTGCAGAGCACATCAG tgttctcatcctttagttaggtataagactgcaataacaatctcttttaggcctgtctccagGCTTACCAATCCATGGAGCAAATCAGGCACATTATGCG-CCCACAGATGTTCCAGACCAAGGCCTACTGTGTGATCTCCTGTGGTCTGATCCTGATAAGGATGTTCAAGGCTGGGCTGAGAATGACCGAGGTGTTTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCATAAGCATGATTTGGACCTTATTTGCAGAGCTCATCAGgtatgtacaaatgacactgggactggtgggcagtccccatggattgacca Alignment from Spaln_nt2Genome GCCTGTCTCCAGACTTGC-AATCCATGGAGCAGATTAGGCGTATTATGCGGCCCACAGACGTGCCTGACCAGGGCCTACTGTGTGATCTCCTGTGGTCTGACCCTGACAAGGATGTTCAAGGCTGGGGCGAGAATGACCGTGGTGTCTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATCTGCAGAGCACATCAG tgttctcatcctttagttaggtataagactgcaataacaatctcttttagGCCTGTCTCCAGGCTTACCAATCCATGGAGCAAATCAGGCACATTATGC-GCCCACAGATGTTCCAGACCAAGGCCTACTGTGTGATCTCCTGTGGTCTGATCCTGATAAGGATGTTCAAGGCTGGGCTGAGAATGACCGAGGTGTTTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCATAAGCATGATTTGGACCTTATTTGCAGAGCTCATCAGgtatgtacaaatgacactgggactggtgggcagtccccatggattgacca Alignment from Pairagon GCCTGTCTCCAGACTTG-CAATCCATGGAGCAGATTAGGCGTATTATGCGGCCCACAGACGTGCCTGACCAGGGCCTACTGTGTGATCTCCTGTGGTCTGACCCTGACAAGGATGTTCAAGGCTGGGGCGAGAATGACCGTGGTGTCTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATCTGCAGAGCACATCAG tgttctcatcctttagttaggtataagactgcaataacaatctcttttagGCCTGTCTCCAGGCTTACCAATCCATGGAGCAAATCAGGCACATTATGC-GCCCACAGATGTTCCAGACCAAGGCCTACTGTGTGATCTCCTGTGGTCTGATCCTGATAAGGATGTTCAAGGCTGGGCTGAGAATGACCGAGGTGTTTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCATAAGCATGATTTGGACCTTATTTGCAGAGCTCATCAGgtatgtacaaatgacactgggactggtgggcagtccccatggattgacca Alignment from Exonerate_protein2genome GCCTGTCTCCAGACTTGCAATCCATGGAGCAGATTAGGCGTATTATGCGGCCCACAGACGTGCCTGACCAGGGCCTACTGTGTGATCTCCTGTGGTCTGACCCTGACAAGGATGTTCAAGGCTGGGGCGAGAATGACCGTGGTGTCTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATCTGCAGAGCACATCAG tgttctcatcctttagttaggtataagactgcaataacaatctcttttagGCCTGTCTCCAGGCTTACCAATCCATGGAGCAAATCAGGCACATTATGCGCCCACAGATGTTCCAGACCAAGGCCTACTGTGTGATCTCCTGTGGTCTGATCCTGATAAGGATGTTCAAGGCTGGGCTGAGAATGACCGAGGTGTTTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCATAAGCATGATTTGGACCTTATTTGCAGAGCTCATCAGgtatgtacaaatgacactgggactggtgggcagtccccatggattgacca Alignment from Exonerate_coding2genome GCCTGTCTCCAGACTTGCAATCCATGGAGCAGATTAGGCGTATTATGCGGCCCACAGACGTGCCTGACCAGGGCCTACTGTGTGATCTCCTGTGGTCTGACCCTGACAAGGATGTTCAAGGCTGGGGCGAGAATGACCGTGGTGTCTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATCTGCAGAGCACATCAG tgttctcatcctttagttaggtataagactgcaataacaatctcttttagGCCTGTCTCCAGGCTTACCAATCCATGGAGCAAATCAGGCACATTATGCGCCCACAGATGTTCCAGACCAAGGCCTACTGTGTGATCTCCTGTGGTCTGATCCTGATAAGGATGTTCAAGGCTGGGCTGAGAATGACCGAGGTGTTTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCATAAGCATGATTTGGACCTTATTTGCAGAGCTCATCAGgtatgtacaaatgacactgggactggtgggcagtccccatggattgacca Alignment from GeneWise GCCTGTCTCCAGACTTGCAATCCATGGAGCAGATTAGGCGTATTATGCGGCCCACAGACGTGCCTGACCAGGGCCTACTGTGTGATCTCCTGTGGTCTGACCCTGACAAGGATGTTCAAGGCTGGGGCGAGAATGACCGTGGTGTCTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATCTGCAGAGCACATCAG tgttctcatcctttagttaggtataagactgcaataacaatctcttttagGCCTGTCTCCAGGCTTACCAATCCATGGAGCAAATCAGGCACATTATGCGCCCACAGATGTTCCAGACCAAGGCCTACTGTGTGATCTCCTGTGGTCTGATCCTGATAAGGATGTTCAAGGCTGGGCTGAGAATGACCGAGGTGTTTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCATAAGCATGATTTGGACCTTATTTGCAGAGCTCATCAGgtatgtacaaatgacactgggactggtgggcagtccccatggattgacca #### Ppp1ca_ID412_6 --> 0 - 0 Original Alignment GTTGTAGAAGATGGCTATGAGTTCTTTGCCAAG---AGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTT-GACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCC------TTCCAG catgatctgatgtctaacttaaagatttcaaatactatctttattttcagGTTGTT---GGTGGATATGAGTTCTTTGCAAAAAAGAAAAAACTGGTAACGTTCTTCTCAGCTCCTAATTACTGTGGAGAATTTCGAAAATGCTGGTGCCATGATGAGTGTAGACAAGACCCTCA-ATGCTCCAGAGCTTTCCCTgtaagaacaaggaatagcctgtagggaataacctgtctttagaaactggc Alignment from CESAR GTTGTAGAAGATGGCTATGAGTTCTTTGCC---AAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTT-GACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCC------TTCCAG catgatctgatgtctaacttaaagatttcaaatactatctttattttcagGTTGTT---GGTGGATATGAGTTCTTTGCAAAAAAGAAAAAACTGGTAACGTTCTTCTCAGCTCCTAATTACTGTGGAGAATTTCGAAAATGCTGGTGCCATGATGAGTGTAGACAAGACCCTC-AATGCTCCAGAGCTTTCCCTgtaagaacaaggaatagcctgtagggaataacctgtctttagaaactggc Alignment from Spaln_aa2Genome GTTGTAGAAGATGGCTATGAGTTCTTTGCC---AAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTT-GACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCCTTCCAG catgatctgatgtctaacttaaagatttcaaatactatctttattttcagGTTGTT---GGTGGATATGAGTTCTTTGCAAAAAAGAAAAAACTGGTAACGTTCTTCTCAGCTCCTAATTACTGTGGAGAATTTcGAAAATGCTGGTGCCATGATGAGTGTAGACAAGACCCTC------------AATgctccagagctttccctgtaagaacaaggaatagcctgtagggaataacctgtctttagaaactggc Alignment from Spaln_nt2Genome GTTGTAGAAGATGGCTATGAGTTCTTTGCCAA---GAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTT-GACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCC------TTCCAG catgatctgatgtctaacttaaagatttcaaatactatctttattttcagGTTGT---TGGTGGATATGAGTTCTTTGCAAAAAAGAAAAAACTGGTAACGTTCTTCTCAGCTCCTAATTACTGTGGAGAATTTCGAAAATGCTGGTGCCATGATGAGTGTAGACAAGACCCTCA-ATGCTCCAGAGCTTTCCCTgtaagaacaaggaatagcctgtagggaataacctgtctttagaaactggc Alignment from Pairagon GTTGTAGAAGATGGCTATGAGTTCTTTGC---CAAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTT-GACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCA--------------------------------------------------------------------- catgatctgatgtctaacttaaagatttcaaatactatctttattttcagGTTGT---TGGTGGATATGAGTTCTTTGCAAAAAAGAAAAAACTGGTAACGTTCTTCTCAGCTCCTAATTACTGTGGAGAATTTCGAAAATGCTGGTGCCATGATGAGTGTAGACAAGACCCTCAATGCTCCAGAGCTTTCCCTGTAAGAACAAGGAATAGCCTGTAGGGAATAACCTGTCTTTAGAAACTGGC Alignment from Exonerate_protein2genome GTTGTAGAAGATGGCTATGAGTTCTTTGCC---AAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAG-TTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCC catgatctgatgtctaacttaaagatttcaaatactatctttattttcagGTTGTT---GGTGGATATGAGTTCTTTGCAAAAAAGAAAAAACTGGTAACGTTCTTCTCAGCTCCTAATTACTGTGGAGAATTTCGAAAATGCTGGTGCCATGATGAGTGTAGACAAGACCCTCAATGCTCCAgagctttccctgtaagaacaaggaatagcctgtagggaataacctgtctttagaaactggc Alignment from Exonerate_coding2genome GTTGTAGAAGATGGCTATGAGTTCTTTGCC---AAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAG-TTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCC catgatctgatgtctaacttaaagatttcaaatactatctttattttcagGTTGTT---GGTGGATATGAGTTCTTTGCAAAAAAGAAAAAACTGGTAACGTTCTTCTCAGCTCCTAATTACTGTGGAGAATTTCGAAAATGCTGGTGCCATGATGAGTGTAGACAAGACCCTCAATGCTCCAgagctttccctgtaagaacaaggaatagcctgtagggaataacctgtctttagaaactggc Alignment from GeneWise GTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGACAG---TTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGA catgatctgatgtctaacttaaagatttcaaatactatctttattttcagGTTGTT---GGTGGATATGAGTTCTTTGCAAAAAAGAAAAAACTGGTAACGTTCTTCTCAGCTCCTAATTACTGTGGAGAATTTCGAAAATGCTGGTGCCAT---------GATGAGTgtagacaagaccctcaatgctccagagctttccctgtaagaacaaggaatagcctgtagggaataacctgtctttagaaactggc #### Ppp1r32_ID2841_10 --> 0 - 2 Original Alignment GAGCCCACAGGGTTCACTCTT-AACAACCCCAGCTATGTTCGGAGTTCCTATGAACAGGACAGAGATCAGCGGTACCTGACCACCTACAACCAAgg gttatcatcccaaattatgagctaccattgttttattctcctgttataagGAACCAACAGGGTTTAACCTGCAACAACCCCAGTTATGTTCAAACTTCTT-TGAGGAAGACAGAGACCAGAGGTACCTAAGTACCTATAATCAGgggtacgtctgtagaaatggaacgtgggacgacattgtcactggattatgtt Alignment from CESAR GAGCCCACAGGGTTCACTCTT-AACAACCCCAGCTATGTTCGGAGTTCCTATGAACAGGACAGAGATCAGCGGTACCTGACCACCTACAACCAAgg gttatcatcccaaattatgagctaccattgttttattctcctgttataagGAACCAACAGGGTTTAACCTGCAACAACCCCAGTTATGTTCAAACTT-CTTTGAGGAAGACAGAGACCAGAGGTACCTAAGTACCTATAATCAGgggtacgtctgtagaaatggaacgtgggacgacattgtcactggattatgtt Alignment from Spaln_aa2Genome GAGCCCACAGGGTTCACTCTTAACAACCCCAGCTATGTTCGGAGTTCCTATGAACAGGACAGAGATCAGCGGTACCTGACCACCTACAACCAAGG gttatcatcccaaattatgagctaccattgttttattctcctgttataagGAACCAACAGGGTTTAACCTGCAACAACCCCAGTTATGTTCAAACTTCTTTGAGGAAGACAGAGACCAGAGGTACCTAAGTACCTATAATCAGGGgtacgtctgtagaaatggaacgtgggacgacattgtcactggattatgtt Alignment from Spaln_nt2Genome GAGCCCACAGGGTTCACTCTT-AACAACCCCAGCTATGTTCGGAGTTCCTATGAACAGGACAGAGATCAGCGGTACCTGACCACCTACAACCAAGG gttatcatcccaaattatgagctaccattgttttattctcctgttataagGAACCAACAGGGTTTAACCTGCAACAACCCCAGTTATGTTCAAACTT-CTTTGAGGAAGACAGAGACCAGAGGTACCTAAGTACCTATAATCAGGGgtacgtctgtagaaatggaacgtgggacgacattgtcactggattatgtt Alignment from Pairagon ---------------------------------------------ACAAGGAGCCCACAGGGTTCACTCT-TAACAACCCCAGCTATGTTCGGAGTTCCTATGAACAGGACAGAGATCAGCGGTACCTGACCACCTACAACCAAGG GTTATCATCCCAAATTATGAGCTACCATTGTTTTATTCTCCTGTTATAAGGAACCAACAGGGTTTAACCTGCAACAACCCCAGTTATGTTCAAACTTCTT-TGAGGAAGACAGAGACCAGAGGTACCTAAGTACCTATAATCAGGGgtacgtctgtagaaatggaacgtgggacgacattgtcactggattatgtt Alignment from Exonerate_protein2genome GAGCCCACAGGGTTCACTCTTAACAACCCCAGCTATGTTCGGAGTTCCTATGAACAGGACAGAGATCAGCGGTACCTGACCACCTACAACCAAGG gttatcatcccaaattatgagctaccattgttttattctcctgttataagGAACCAACAGGGTTTAACCTGCAACAACCCCAGTTATGTTCAAACTTCTTTGAGGAAGACAGAGACCAGAGGTACCTAAGTACCTATAATCAGGGgtacgtctgtagaaatggaacgtgggacgacattgtcactggattatgtt Alignment from Exonerate_coding2genome gttatcatcccaaattatgagctaccattgttttattctcctgttataaggaaccaacagggtttaacctgcaacaaccccagttatgttcaaacttctttgaggaagacagagaccagaggtacctaagtacctataatcaggggtacgtctgtagaaatggaacgtgggacgacattgtcactggattatgtt Alignment from GeneWise GAGCCCACAGGGTTCACTCTTAACAACCCCAGCTATGTTCGGAGTTCCTATGAACAGGACAGAGATCAGCGGTACCTGACCACCTACAACCAAGG gttatcatcccaaattatgagctaccattgttttattctcctgttataagGAACCAACAGGGTTTAACCTGCAACAACCCCAGTTATGTTCAAACTTCTTTGAGGAAGACAGAGACCAGAGGTACCTAAGTACCTATAATCAGGGgtacgtctgtagaaatggaacgtgggacgacattgtcactggattatgtt #### Ppp1r32_ID2842_9 --> 0 - 0 Original Alignment GTGCCTACTCCAGCCCCACAGTCTGCCAGCATG-AGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG ctggaatatatgtgcaagtgtaccttgccttctttgtctttgctctccagGTTCCTGCCTCAGCTCCCCAATCTGCCAGCATGCAGTCACAGATTCTACCGCGCCCCCCAGCGAATGC-ACAGGCTAATGTTGCCCTGCTTGGAAGGGAGTCTGTGGGGAATAAAgtaagaattctaacacaaatcctatgttatcatcccaaattatgagctac Alignment from CESAR GTGCCTACTCCAGCCCCACAGTCTGCCAGCATG-AGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG ctggaatatatgtgcaagtgtaccttgccttctttgtctttgctctccagGTTCCTGCCTCAGCTCCCCAATCTGCCAGCATGCAGTCACAGATTCTACCGCGCCCCCCAGCGAATGC-ACAGGCTAATGTTGCCCTGCTTGGAAGGGAGTCTGTGGGGAATAAAgtaagaattctaacacaaatcctatgttatcatcccaaattatgagctac Alignment from Spaln_aa2Genome GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG ctggaatatatgtgcaagtgtaccttgccttctttgtctttgctctccagGTTCCTGCCTCAGCTCCCCAATCTGCCAGCATGCAGTCACAGATTCTACCGCGCCCCCCAGCGAATGCACAGGCTAATGTTGCCCTGCTTGGAAGGGAGTCTGTGGGGAATAAAgtaagaattctaacacaaatcctatgttatcatcccaaattatgagctac Alignment from Spaln_nt2Genome GTGCCTACTCCAGCCCCACAGTCTGCCAGCATG-AGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG ctggaatatatgtgcaagtgtaccttgccttctttgtctttgctctccagGTTCCTGCCTCAGCTCCCCAATCTGCCAGCATGCAGTCACAGATTCTACCGCGCCCCCCAGCGAATGC-ACAGGCTAATGTTGCCCTGCTTGGAAGGGAGTCTGTGGGGAATAAAgtaagaattctaacacaaatcctatgttatcatcccaaattatgagctac Alignment from Pairagon GTGCCTACTCCAGCCCCACAGTCTGCCAGCATG-AGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG ctggaatatatgtgcaagtgtaccttgccttctttgtctttgctctccagGTTCCTGCCTCAGCTCCCCAATCTGCCAGCATGCAGTCACAGATTCTACCGCGCCCCCCAGCGAATGC-ACAGGCTAATGTTGCCCTGCTTGGAAGGGAGTCTGTGGGGAATAAAgtaagaattctaacacaaatcctatgttatcatcccaaattatgagctac Alignment from Exonerate_protein2genome GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG ctggaatatatgtgcaagtgtaccttgccttctttgtctttgctctccagGTTCCTGCCTCAGCTCCCCAATCTGCCAGCATGCAGTCACAGATTCTACCGCGCCCCCCAGCGAATGCACAGGCTAATGTTGCCCTGCTTGGAAGGGAGTCTGTGGGGAATAAAgtaagaattctaacacaaatcctatgttatcatcccaaattatgagctac Alignment from Exonerate_coding2genome GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG ctggaatatatgtgcaagtgtaccttgccttctttgtctttgctctccagGTTCCTGCCTCAGCTCCCCAATCTGCCAGCATGCAGTCACAGATTCTACCGCGCCCCCCAGCGAATGCACAGGCTAATGTTGCCCTGCTTGGAAGGGAGTCTGTGGGGAATAAAgtaagaattctaacacaaatcctatgttatcatcccaaattatgagctac Alignment from GeneWise GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG ctggaatatatgtgcaagtgtaccttgccttctttgtctttgctctccagGTTCCTGCCTCAGCTCCCCAATCTGCCAGCATGCAGTCACAGATTCTACCGCGCCCCCCAGCGAATGCACAGGCTAATGTTGCCCTGCTTGGAAGGGAGTCTGTGGGGAATAAAgtaagaattctaacacaaatcctatgttatcatcccaaattatgagctac #### Ppp1r32_ID2845_6 --> 2 - 0 Original Alignment atCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACT-GGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttccttggccccccattgattctaaatctttgttttgtagatCTCTTGCTCAAGAAAACAATTGGATCCAAGGAGGAGATTCGGCTTTGTAGAAGAGTCCACAAAAAATCCAATTGTTT-CCAGCCACCTTCACAGACCTTCCCTGGGAAGCCTgtaagagggaatggttaagggtgcttcttgaacactcacaatgctgaggt Alignment from CESAR atCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACT-GGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttccttggccccccattgattctaaatctttgttttgtagatCTCTTGCTCAAGAAAACAATTGGATCCAAGGAGGAGATTCGGCTTTGTAGAAGAGTCCACAAAAAATCCAATTG-TTTCCAGCCACCTTCACAGACCTTCCCTGGGAAGCCTgtaagagggaatggttaagggtgcttcttgaacactcacaatgctgaggt Alignment from Spaln_aa2Genome ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttccttggccccccattgattctaaatctttgttttgtagATCTCTTGCTCAAGAAAACAATTGGATCCAAGGAGGAGATTCGGCTTTGTAGAAGAGTCCACAAAAAATCCAATTGTTTCCAGCCACCTTCACAGACCTTCCCTGGGAAGCCTgtaagagggaatggttaagggtgcttcttgaacactcacaatgctgaggt Alignment from Spaln_nt2Genome ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACT-GGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttccttggccccccattgattctaaatctttgttttgtagATCTCTTGCTCAAGAAAACAATTGGATCCAAGGAGGAGATTCGGCTTTGTAGAAGAGTCCACAAAAAATCCAATTGT-TTCCAGCCACCTTCACAGACCTTCCCTGGGAAGCCTgtaagagggaatggttaagggtgcttcttgaacactcacaatgctgaggt Alignment from Pairagon ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACT-GGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttccttggccccccattgattctaaatctttgttttgtagATCTCTTGCTCAAGAAAACAATTGGATCCAAGGAGGAGATTCGGCTTTGTAGAAGAGTCCACAAAAAATCCAATTGT-TTCCAGCCACCTTCACAGACCTTCCCTGGGAAGCCTgtaagagggaatggttaagggtgcttcttgaacactcacaatgctgaggt Alignment from Exonerate_protein2genome ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttccttggccccccattgattctaaatctttgttttgtagATCTCTTGCTCAAGAAAACAATTGGATCCAAGGAGGAGATTCGGCTTTGTAGAAGAGTCCACAAAAAATCCAATTGTTTCCAGCCACCTTCACAGACCTTCCCTGGGAAGCCTgtaagagggaatggttaagggtgcttcttgaacactcacaatgctgaggt Alignment from Exonerate_coding2genome ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttccttggccccccattgattctaaatctttgttttgtagATCTCTTGCTCAAGAAAACAATTGGATCCAAGGAGGAGATTCGGCTTTGTAGAAGAGTCCACAAAAAATCCAATTGTTTCCAGCCACCTTCACAGACCTTCCCTGGGAAGCCTgtaagagggaatggttaagggtgcttcttgaacactcacaatgctgaggt Alignment from GeneWise ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttccttggccccccattgattctaaatctttgttttgtagATCTCTTGCTCAAGAAAACAATTGGATCCAAGGAGGAGATTCGGCTTTGTAGAAGAGTCCACAAAAAATCCAATTGTTTCCAGCCACCTTCACAGACCTTCCCTGGGAAGCCTgtaagagggaatggttaagggtgcttcttgaacactcacaatgctgaggt #### Prpf19_ID3044_3 --> 2 - 0 Original Alignment ttGCTCACCCAATCCGACCCAAG-CCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA ctgtgaaaagttatatgtgagcaatattgtggaaacctgctttcccacagttGCACACCCAATTCGACCCAAGCCCTCCCTCTGCTACCAGTATTCCAGCCATCC-AAAGGCCTTGCAAGATGAGTGGgtgagactacttgatgcctccttcttcccacagGATGCAGTCATGCTGCA Alignment from CESAR ttGCTCACCCAATCCGACCCAAG-CCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA ctgtgaaaagttatatgtgagcaatattgtggaaacctgctttcccacagttGCACACCCAATTCGACCCAAGCCCTCCCTCTGCTACCAGTATTCCAGCCATC-CAAAGGCCTTGCAAGATGAGTGGgtgagactacttttgcccattcaccctccctagGATGCAGTCATGCTGCA Alignment from Spaln_aa2Genome TTGCTCACCCAATCCGACCCAAG-CCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA ctgtgaaaagttatatgtgagcaatattgtggaaacctgctttcccacagTTGCACACCCAATTCGACCCAAGcCCTCCCTCTGCTACCAGTATTCCAGCCATCCA-AAGGCCTTGCAAGATGAGTGGgtgagactacttgatgcctccttcttcccacagGATGCAGTCATGCTGCA Alignment from Spaln_nt2Genome TTGCTCACCCAATCCGACCCAAG-CCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA ctgtgaaaagttatatgtgagcaatattgtggaaacctgctttcccacagTTGCACACCCAATTCGACCCAAGCCCTCCCTCTGCTACCAGTATTCCAGCCA-TCCAAAGGCCTTGCAAGATGAGTGGgtgagactacttgatgcctccttcttcccacagGATGCAGTCATGCTGCA Alignment from Pairagon TTGCTCACCCAATCCGACCCAAG-CCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA ctgtgaaaagttatatgtgagcaatattgtggaaacctgctttcccacagTTGCACACCCAATTCGACCCAAGCCCTCCCTCTGCTACCAGTATTCCAGCCA-TCCAAAGGCCTTGCAAGATGAGTGGgtgagactacttgatgcctccttcttcccacagGATGCAGTCATGCTGCA Alignment from Exonerate_protein2genome TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA ctgtgaaaagttatatgtgagcaatattgtggaaacctgctttcccacagTTGCACACCCAATTCGACCCAAGCCCTCCCTCTGCTACCAGTATTCCAGCCATCCAAAGGCCTTGCAAGATGAGTGGgtgagactacttgatgcctccttcttcccacagGATGCAGTCATGCTGCA Alignment from Exonerate_coding2genome TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGGGATGCAGTCATGCT ctgtgaaaagttatatgtgagcaatattgtggaaacctgctttcccacagttgcacacccaattcgacccaagccctccctctgctACCAGTATTCCAGCCATCCAAAGGCCTTGCAAGATGAGTGGGTG---AGACTACTTGATGCCTCCTTCTTCCCACAGGATGCAGTCATGCT Alignment from GeneWise TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG---------------------------------GATGCAGTCATGCTGCA ctgtgaaaagttatatgtgagcaatattgtggaaacctgctttcccacagTTGCACACCCAATTCGACCCAAGCCCTCCCTCTGCTACCAGTATTCCAGCCATCCAAAGGCCTTGCAAGATGAGTGGGTGAGACTACTTGATGCCTCCTTCTTCCCACAGGATGCAGTCATGCTGCA #### Prpf19_ID3046_5 --> 2 - 0 Original Alignment ctCTGGCTACTCTGAAA-CCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG tgagacacattccactgtagactccccacactcgcctctctctttgacagccTTGGCCACCCTAAAACCCACAAGCTGGCCTGATAGTACCTCAAGCTGTGCCAAGCTCAC-ACCCAGTGTAGTAgtaagttttgcacccttagcaccccactagcaaataacacctcatgagag Alignment from CESAR ctCTGGCTACTCTGAAA-CCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG tatgtcacattccactgtagactccccacactcgcctctctctttgacagccTTGGCCACCCTAAAACCCACAAGCTGGCCTGATAGTACCTCAAGCTGTGCCAAGCTCAC-ACCCAGTGTAGTAgtaagttttgcacccttagcaccccactagcaaataacacctcatgagag Alignment from Spaln_aa2Genome CTCTGGCTACTCTGAAA-CCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCC tgagacacattccactgtagactccccacactcgcctctctctttgacagCCTTGGCCACCCTAAAAcCCACAAGCTGGCCTGATAGTACCTCAAGCTGTGCCAAGCTCACACCCAgtgtagtagtaagttttgcacccttagcaccccactagcaaataacacctcatgagag Alignment from Spaln_nt2Genome CTCTGGCTACTCTGAAACC-ACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG tgagacacattccactgtagactccccacactcgcctctctctttgacagCCTTGGCCACCCTAAAACCCACAAGCTGGCCTGATAGTACCTCAAGCTGTGCCAAGCTCACA-CCCAGTGTAGTAgtaagttttgcacccttagcaccccactagcaaataacacctcatgagag Alignment from Pairagon CTCTGGCTACTCTGAAA-CCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG tgagacacattccactgtagactccccacactcgcctctctctttgacagCCTTGGCCACCCTAAAACCCACAAGCTGGCCTGATAGTACCTCAAGCTGTGCCAAGCTCACA-CCCAGTGTAGTAgtaagttttgcacccttagcaccccactagcaaataacacctcatgagag Alignment from Exonerate_protein2genome CTCTGGCTACTCTGAAA-CCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGT tgagacacattccactgtagactccccacactcgcctctctctttgacagCCTTGGCCACCCTAAAACCCACAAGCTGGCCTGATAGTACCTCAAGCTGTGCCAAGCTCACACCCAGTGTAGTAgtaagttttgcacccttagcaccccactagcaaataacacctcatgagag Alignment from Exonerate_coding2genome CTCTGGCTACTCTGAAA-CCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGT tgagacacattccactgtagactccccacactcgcctctctctttgacagCCTTGGCCACCCTAAAACCCACAAGCTGGCCTGATAGTACCTCAAGCTGTGCCAAGCTCACACCCAGTGTAGTAgtaagttttgcacccttagcaccccactagcaaataacacctcatgagag Alignment from GeneWise -------------------------------------------------GCTCTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG TGAGACACATTCCACTGTAGACTCCCCACACTCGCCTCTCTCTTTGACAGCCTTGGCCACCCTAAAACCCACAAGCTGGCCTGATAGTACCTCAAGCTGTGCCAAGCTCACACCCAGTGTAGTAgtaagttttgcacccttagcaccccactagcaaataacacctcatgagag #### Prpf19_ID3055_14 --> 0 - 0 Original Alignment GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAG-AATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG gcaccttttctcattaagtcaatcgacaatcctgcccatttttttgctagGAGCATACTAATGTGGTAATCTTCCCT------GCTGGGCCTATCACCAGCATTGTATTCTCTGAGCAATGGGTACTACTTGGCAACAGCAACAGACGATT-ACCAGTCAAGCTTTGGGACTTACAAAAGCTGAAGAACTTTAAAATGTTGCAGTTGCACAACAACTTTGAGgtatggtttatcccctttcttttctttcgctgttattgggctatcccttg Alignment from CESAR GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAG-AATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG gcaccttttctcattaagtcaatcgacaatcctgcccatttttttgctagGAGCATACTAATGTGGTAATCTTCCCT------GCTGGGCCTATCACCAGCATTGTATTCTCTGAGCAATGGGTACTACTTGGCAACAGCAACAGACGAT-TACCAGTCAAGCTTTGGGACTTACAAAAGCTGAAGAACTTTAAAATGTTGCAGTTGCACAACAACTTTGAGgtatggtttatcccctttcttttctttcgctgttattgggctatcccttg Alignment from Spaln_aa2Genome GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG gcaccttttctcattaagtcaatcgacaatcctgcccatttttttgctagGAGCATACTAATGTGGTAATCTTCCCT------GCTGGGCCTATCACCAGCATTGTATTCTCTGAGCAATGGGTACTACTTGGCAACAGCAACAGACGATTACCAGTCAAGCTTTGGGACTTACAAAAGCTGAAGAACTTTAAAATGTTGCAGTTGCACAACAACTTTGAGgtatggtttatcccctttcttttctttcgctgttattgggctatcccttg Alignment from Spaln_nt2Genome GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGA-ATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG gcaccttttctcattaagtcaatcgacaatcctgcccatttttttgctagGAGCATACTAATGTGGTAATCTTCCCTG------CTGGGCCTATCACCAGCATTGTATTCTCTGAGCAATGGGTACTACTTGGCAACAGCAACAGACGATTAC-CAGTCAAGCTTTGGGACTTACAAAAGCTGAAGAACTTTAAAATGTTGCAGTTGCACAACAACTTTGAGgtatggtttatcccctttcttttctttcgctgttattgggctatcccttg Alignment from Pairagon GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAG-AATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG gcaccttttctcattaagtcaatcgacaatcctgcccatttttttgctagGAGCATACTAATGTGGTAATCTTCCCTG------CTGGGCCTATCACCAGCATTGTATTCTCTGAGCAATGGGTACTACTTGGCAACAGCAACAGACGATTAC-CAGTCAAGCTTTGGGACTTACAAAAGCTGAAGAACTTTAAAATGTTGCAGTTGCACAACAACTTTGAGgtatggtttatcccctttcttttctttcgctgttattgggctatcccttg Alignment from Exonerate_protein2genome GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG gcaccttttctcattaagtcaatcgacaatcctgcccatttttttgctagGAGCATACTAATGTGGTAATCTTCCCT------GCTGGGCCTATCACCAGCATTGTATTCTCTGAGCAATGGGTACTACTTGGCAACAGCAACAGACGATTACCAGTCAAGCTTTGGGACTTACAAAAGCTGAAGAACTTTAAAATGTTGCAGTTGCACAACAACTTTGAGgtatggtttatcccctttcttttctttcgctgttattgggctatcccttg Alignment from Exonerate_coding2genome GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG gcaccttttctcattaagtcaatcgacaatcctgcccatttttttgctagGAGCATACTAATGTGGTAATCTTCCCT------GCTGGGCCTATCACCAGCATTGTATTCTCTGAGCAATGGGTACTACTTGGCAACAGCAACAGACGATTACCAGTCAAGCTTTGGGACTTACAAAAGCTGAAGAACTTTAAAATGTTGCAGTTGCACAACAACTTTGAGgtatggtttatcccctttcttttctttcgctgttattgggctatcccttg Alignment from GeneWise GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG gcaccttttctcattaagtcaatcgacaatcctgcccatttttttgctagGAGCATACTAATGTGGTAATCTTCCCT------GCTGGGCCTATCACCAGCATTGTATTCTCTGAGCAATGGGTACTACTTGGCAACAGCAACAGACGATTACCAGTCAAGCTTTGGGACTTACAAAAGCTGAAGAACTTTAAAATGTTGCAGTTGCACAACAACTTTGAGgtatggtttatcccctttcttttctttcgctgttattgggctatcccttg #### Pygm_ID1678_2 --> 0 - 0 Original Alignment AGGATCTACTACCTGTCTTTGGAGTTCTACATGGGCCGGACACTG-CAGAACACCATGGTGAACCTGGCCTTGGAGAACGCCTGTGATGAGGCCACTTACCAG gtagtgcagacccaattgagacctttcgtgatttggtcttctctccccagCGGATTTATTATCTGTCTTTGGAGTTCTACATGGGCCGGACACTACCAAAACACCATGGTAAATCTTGCCTTAGGGA-TGCCTGTGATGAGGCTACTTACCAGgtgagtaataaagcagcatctacgtgagcatttgagttttagctagcttg Alignment from CESAR AGGATCTACTACCTGTCTTTGGAGTTCTACATGGGCCGGACACTG-CAGAACACCATGGTGAACCTGGCCTTGGAGAACGCCTGTGATGAGGCCACTTACCAG gtagtgcagacccaattgagacctttcgtgatttggtcttctctccccagCGGATTTATTATCTGTCTTTGGAGTTCTACATGGGCCGGACACTACCAAAACACCATGGTAAATCTTGCCTTA-GGGATGCCTGTGATGAGGCTACTTACCAGgtgagtaataaagcagcatctacgtgagcatttgagttttatttgttttt Alignment from Spaln_aa2Genome AGGATCTACTACCTGTCTTTGGAGTTCTACATGGGCCGGACACTGCAGAACACCATGGTGAACCTGGCCTTGGAGAACGCCTGTGATGAGGCCACTTACCAG gtagtgcagacccaattgagacctttcgtgatttggtcttctctccccagCGGATTTATTATCTGTCTTTGGAGTTCTACATGGGCCGGACACTACCAAAACACCATGGTAAATCTTGCCTTAGGGATGCCTGTGATGAGGCTACTTACCAGgtgagtaataaagcagcatctacgtgagcatttgagttttagctagcttg Alignment from Spaln_nt2Genome AGGATCTACTACCTGTCTTTGGAGTTCTACATGGGCCGGACACTGC-AGAACACCATGGTGAACCTGGCCTTGGAGAACGCCTGTGATGAGGCCACTTACCAG gtagtgcagacccaattgagacctttcgtgatttggtcttctctccccagCGGATTTATTATCTGTCTTTGGAGTTCTACATGGGCCGGACACTACCAAAACACCATGGTAAATCTTGCCTTAG-GGATGCCTGTGATGAGGCTACTTACCAGgtgagtaataaagcagcatctacgtgagcatttgagttttagctagcttg Alignment from Pairagon AGGATCTACTACCTGTCTTTGGAGTTCTACATGGGCCGGACACTG-CAGAACACCATGGTGAACCTGGCCTTGGAGAACGCCTGTGATGAGGCCACTTACCAG gtagtgcagacccaattgagacctttcgtgatttggtcttctctccccagCGGATTTATTATCTGTCTTTGGAGTTCTACATGGGCCGGACACTACCAAAACACCATGGTAAATCTTGCCTTAG-GGATGCCTGTGATGAGGCTACTTACCAGgtgagtaataaagcagcatctacgtgagcatttgagttttagctagcttg Alignment from Exonerate_protein2genome AGGATCTACTACCTGTCTTTGGAGTTCTACATGGGCCGGACACTGCAGAACACCATGGTGAACCTGGCCTTGGAGAACGCCTGTGATGAGGCCACTTACCAG gtagtgcagacccaattgagacctttcgtgatttggtcttctctccccagCGGATTTATTATCTGTCTTTGGAGTTCTACATGGGCCGGACACTACCAAAACACCATGGTAAATCTTGCCTTAGGGATGCCTGTGATGAGGCTACTTACCAGgtgagtaataaagcagcatctacgtgagcatttgagttttagctagcttg Alignment from Exonerate_coding2genome gtagtgcagacccaattgagacctttcgtgatttggtcttctctccccagcggatttattatctgtctttggagttctacatgggccggacactaccaaaacaccatggtaaatcttgccttagggatgcctgtgatgaggctacttaccaggtgagtaataaagcagcatctacgtgagcatttgagttttagctagcttg Alignment from GeneWise AGGATCTACTACCTGTCTTTGGAGTTCTACATGGGCCGGACACTGCAGAACACCATGGTGAACCTGGCCTTGGAGAACGCCTGTGATGAGGCCACTTACCAG gtagtgcagacccaattgagacctttcgtgatttggtcttctctccccagCGGATTTATTATCTGTCTTTGGAGTTCTACATGGGCCGGACACTACCAAAACACCATGGTAAATCTTGCCTTAGGGATGCCTGTGATGAGGCTACTTACCAGgtgagtaataaagcagcatctacgtgagcatttgagttttagctagcttg #### Pygm_ID1684_8 --> 0 - 0 Original Alignment TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTG-GCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG gatataatttgcagcagttcttgttggtccccccctttttttttaaatagTTCTTTGAAGGGAAGGAGCTGCGGCTGAAACAGGAGTACTTGGTGGTGCGCTGCCAGCCTCCAAGACATCATCCGACGTTTCAAGT-CTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtgagtttaggctcaagttgttactctacccaacatctcacaacgtatct Alignment from CESAR TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTG-GCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG gatataatttgcagcagttcttgttggtccccccctttttttttaaatagTTCTTTGAAGGGAAGGAGCTGCGGCTGAAACAGGAGTACTTGGTGGTGCGCTGCCAGCCTCCAAGACATCATCCGACGTTTCAAGT-CTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtgagtttaggctcaagttgttactctacccaacatctcacaacgtatct Alignment from Spaln_aa2Genome TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTG-GCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG gatataatttgcagcagttcttgttggtccccccctttttttttaaatagTTCTTTGAAGGGAAGGAGCTGCGGCTGAAACAGGAGTACTTGGTGGTGcGCTGCCAGCCTCCAAGACATCATCCGACGTTTCAAGTC-TCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtgagtttaggctcaagttgttactctacccaacatctcacaacgtatct Alignment from Spaln_nt2Genome TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTG-GCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG gatataatttgcagcagttcttgttggtccccccctttttttttaaatagTTCTTTGAAGGGAAGGAGCTGCGGCTGAAACAGGAGTACTTGGTGGTGCGCTGCCAGCCTCCAAGACATCATCCGACGTTTCAAGT-CTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtgagtttaggctcaagttgttactctacccaacatctcacaacgtatct Alignment from Pairagon TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTG-GCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG gatataatttgcagcagttcttgttggtccccccctttttttttaaatagTTCTTTGAAGGGAAGGAGCTGCGGCTGAAACAGGAGTACTTGGTGGTGCGCTGCCAGCCTCCAAGACATCATCCGACGTTTCAAGT-CTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtgagtttaggctcaagttgttactctacccaacatctcacaacgtatct Alignment from Exonerate_protein2genome TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG gatataatttgcagcagttcttgttggtccccccctttttttttaaatagTTCTTTGAAGGGAAGGAGCTGCGGCTGAAACAGGAGTACTTGGTGGTGCGCTGCCAGCCTCCAAGACATCATCCGACGTTTCAAGTCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtgagtttaggctcaagttgttactctacccaacatctcacaacgtatct Alignment from Exonerate_coding2genome TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGC---TGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG gatataatttgcagcagttcttgttggtccccccctttttttttaaatagTTCTTTGAAGGGAAGGAGCTGCGGCTGAAACAGGAGTACTTGGTGGTG--CGCTGCCAGCCTCCAAGACATCATCCGACGTTTCAAGTC-TCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtgagtttaggctcaagttgttactctacccaacatctcacaacgtatct Alignment from GeneWise TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG gatataatttgcagcagttcttgttggtccccccctttttttttaaatagTTCTTTGAAGGGAAGGAGCTGCGGCTGAAACAGGAGTACTTGGTGGTGCGCTGCCAGCCTCCAAGACATCATCCGACGTTTCAAGTCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtgagtttaggctcaagttgttactctacccaacatctcacaacgtatct #### Pygm_ID1687_11 --> 0 - 2 Original Alignment CGGGTGGCGGCTGCATTCCCTGGGGAC-GTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCat gaaggggaagacttctgaaccaggggtcaacattgttattttcttcctagCGGGTGGCAGCTGCATCCCCAGGGGATCGTAGACAGGCTGTGGCGCATGTCACTTGTGG-GGACGGAGCAGTGAGGCGCATCAACATGTCACACCTGTGCATTACAGGCTCACACGCTGTCAACAGTCTGGCTCGAATCCATTCAGAGATCCTCAAAAAGACCatgtatgggtaacttcatctagattgagttgggcaacagggccacaaggtag Alignment from CESAR CGGGTGGCGGCTGCATTCCCTGGGGAC-GTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCat gaaggggaagacttctgaaccaggggtcaacattgttattttcttcctagCGGGTGGCAGCTGCATCCCCAGGGGATCGTAGACAGGCTGTGGCGCATGTCACTTGTG-GGGACGGAGCAGTGAGGCGCATCAACATGTCACACCTGTGCATTACAGGCTCACACGCTGTCAACAGTCTGGCTCGAATCCATTCAGAGATCCTCAAAAAGACCatgtatgggtaacttcatctagattgagttgggcaacagggccacaaggtag Alignment from Spaln_aa2Genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gaaggggaagacttctgaaccaggggtcaacattgttattttcttcctagCGGGTGGCAGCTGCATCCCCAGGGGATCGTAGACAGGCTGTGGCGCATGTCACTTGTGGGGACGGAGCAGTGAGGCGCATCAACATGTCACACCTGTGCATTACAGGCTCACACGCTGTCAACAGTCTGGCTCGAATCCATTCAGAGATCCTCAAAAAGACCATgtatgggtaacttcatctagattgagttgggcaacagggccacaaggtag Alignment from Spaln_nt2Genome CGGGTGGCGGCTGCATTCCCTGGGGA-CGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gaaggggaagacttctgaaccaggggtcaacattgttattttcttcctagCGGGTGGCAGCTGCATCCCCAGGGGATCGTAGACAGGCTGTGGCGCATGTCACTTGTGG-GGACGGAGCAGTGAGGCGCATCAACATGTCACACCTGTGCATTACAGGCTCACACGCTGTCAACAGTCTGGCTCGAATCCATTCAGAGATCCTCAAAAAGACCATgtatgggtaacttcatctagattgagttgggcaacagggccacaaggtag Alignment from Pairagon CGGGTGGCGGCTGCATTCCCTGGGGA-CGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gaaggggaagacttctgaaccaggggtcaacattgttattttcttcctagCGGGTGGCAGCTGCATCCCCAGGGGATCGTAGACAGGCTGTGGCGCATGTCACTTGTGG-GGACGGAGCAGTGAGGCGCATCAACATGTCACACCTGTGCATTACAGGCTCACACGCTGTCAACAGTCTGGCTCGAATCCATTCAGAGATCCTCAAAAAGACCATgtatgggtaacttcatctagattgagttgggcaacagggccacaaggtag Alignment from Exonerate_protein2genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gaaggggaagacttctgaaccaggggtcaacattgttattttcttcctagCGGGTGGCAGCTGCATCCCCAGGGGATCGTAGACAGGCTGTGGCGCATGTCACTTGTGGGGACGGAGCAGTGAGGCGCATCAACATGTCACACCTGTGCATTACAGGCTCACACGCTGTCAACAGTCTGGCTCGAATCCATTCAGAGATCCTCAAAAAGACCATgtatgggtaacttcatctagattgagttgggcaacagggccacaaggtag Alignment from Exonerate_coding2genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gaaggggaagacttctgaaccaggggtcaacattgttattttcttcctagCGGGTGGCAGCTGCATCCCCAGGGGATCGTAGACAGGCTGTGGCGCATGTCACTTGTGGGGACGGAGCAGTGAGGCGCATCAACATGTCACACCTGTGCATTACAGGCTCACACGCTGTCAACAGTCTGGCTCGAATCCATTCAGAGATCCTCAAAAAGACCATgtatgggtaacttcatctagattgagttgggcaacagggccacaaggtag Alignment from GeneWise CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gaaggggaagacttctgaaccaggggtcaacattgttattttcttcctagCGGGTGGCAGCTGCATCCCCAGGGGATCGTAGACAGGCTGTGGCGCATGTCACTTGTGGGGACGGAGCAGTGAGGCGCATCAACATGTCACACCTGTGCATTACAGGCTCACACGCTGTCAACAGTCTGGCTCGAATCCATTCAGAGATCCTCAAAAAGACCATgtatgggtaacttcatctagattgagttgggcaacagggccacaaggtag #### Rab3il1_ID2648_4 --> 0 - 0 Original Alignment GAAGCTCACAAGATG-GTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG cctattcctgtccaggtttttttagtggattataactgttttacttgtagGAAGCCCACAAAATGCGTGCAGGAAGCAAACATGAAACAGGCAACATCAG-AAAGCAGCTGAAGGAAGCTTGGGGCAAGgtgagctggggcaaagtgatcgctagtgccgtgcaccttacaatgcgcct Alignment from CESAR GAAGCTCACAAGATG-GTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG cctattcctgtccaggtttttttagtggattataactgttttacttgtagGAAGCCCACAAAATGCGTGCAGGAAGCAAACATGAAACAGGCAACATCAG-AAAGCAGCTGAAGGAAGCTTGGGGCAAGgtgagctggggcaaagtgatcgctagtgccgtgcaccttacaatgcgcct Alignment from Spaln_aa2Genome GAAGCTCACAAGATG-GTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG cctattcctgtccaggtttttttagtggattataactgttttacttgtagGAAGCCCACAAAATGcGTGCAGGAAGCAAACATGAAACAGGCAACATCAGA-AAGCAGCTGAAGGAAGCTTGGGGCAAGgtgagctggggcaaagtgatcgctagtgccgtgcaccttacaatgcgcct Alignment from Spaln_nt2Genome GAAGCTCACAAGATG-GTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG cctattcctgtccaggtttttttagtggattataactgttttacttgtagGAAGCCCACAAAATGCGTGCAGGAAGCAAACATGAAACAGGCAACATCAG-AAAGCAGCTGAAGGAAGCTTGGGGCAAGgtgagctggggcaaagtgatcgctagtgccgtgcaccttacaatgcgcct Alignment from Pairagon GAAGCTCACAAGATG-GTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG cctattcctgtccaggtttttttagtggattataactgttttacttgtagGAAGCCCACAAAATGCGTGCAGGAAGCAAACATGAAACAGGCAACATCAG-AAAGCAGCTGAAGGAAGCTTGGGGCAAGgtgagctggggcaaagtgatcgctagtgccgtgcaccttacaatgcgcct Alignment from Exonerate_protein2genome GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG cctattcctgtccaggtttttttagtggattataactgttttacttgtagGAAGCCCACAAAATGCGTGCAGGAAGCAAACATGAAACAGGCAACATCAGAAAGCAGCTGAAGGAAGCTTGGGGCAAGgtgagctggggcaaagtgatcgctagtgccgtgcaccttacaatgcgcct Alignment from Exonerate_coding2genome GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG cctattcctgtccaggtttttttagtggattataactgttttacttgtagGAAGCCCACAAAATGCGTGCAGGAAGCAAACATGAAACAGGCAACATCAGAAAGCAGCTGAAGGAAGCTTGGGGCAAGgtgagctggggcaaagtgatcgctagtgccgtgcaccttacaatgcgcct Alignment from GeneWise GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG cctattcctgtccaggtttttttagtggattataactgttttacttgtagGAAGCCCACAAAATGCGTGCAGGAAGCAAACATGAAACAGGCAACATCAGAAAGCAGCTGAAGGAAGCTTGGGGCAAGgtgagctggggcaaagtgatcgctagtgccgtgcaccttacaatgcgcct #### Rab3il1_ID2652_7 --> 0 - 2 Original Alignment CTCTCAGCTCTG-GTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACCaa tcttgtagtgatctgtcaccctcttaagtactttctttttaactccgtagCTTTCAGCTTTGCGTTCGAACTGCTGTAGAAGACAATACACTCACTATTG-GCCTGTAGCTTCACAGACACTGCCTGCAGTGAAGGTACCTAGTATTGAGTGTAACAACACCaagtgagttcacactcccactactcccatgtctctgaaaggctcaaaatttc Alignment from CESAR CTCTCAGCTCTG-GTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACCaa tcttgtagtgatctgtcaccctcttaagtactttctttttaactccgtagCTTTCAGCTTTGCGTTCGAACTGCTGTAGAAGACAATACACTCACTATT-GGCCTGTAGCTTCACAGACACTGCCTGCAGTGAAGGTACCTAGTATTGAGTGTAACAACACCaagtgagttcacactcccactactcccatgtctctgaaaggctcaaaatttc Alignment from Spaln_aa2Genome GCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACCAA tcttgtagtgatctgtcaccctcttaagtactttctttttaactccgtagctttcagCTTTGCGTTCGAACTGCTGTAGAAGACAATACACTCACTATTGG-CCTGTAGCTTCACAGACACTGCCTGCAGTGAAGGTACCTAGTATTGAGTGTAACAACACCAAgtgagttcacactcccactactcccatgtctctgaaaggctcaaaatttc Alignment from Spaln_nt2Genome CTCTCAGCTCTG-GTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACCAA tcttgtagtgatctgtcaccctcttaagtactttctttttaactccgtagCTTTCAGCTTTGCGTTCGAACTGCTGTAGAAGACAATACACTCACTATTG-GCCTGTAGCTTCACAGACACTGCCTGCAGTGAAGGTACCTAGTATTGAGTGTAACAACACCAAgtgagttcacactcccactactcccatgtctctgaaaggctcaaaatttc Alignment from Pairagon CTCTCAGCTCTG-GTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACCAA tcttgtagtgatctgtcaccctcttaagtactttctttttaactccgtagCTTTCAGCTTTGCGTTCGAACTGCTGTAGAAGACAATACACTCACTATTG-GCCTGTAGCTTCACAGACACTGCCTGCAGTGAAGGTACCTAGTATTGAGTGTAACAACACCAAgtgagttcacactcccactactcccatgtctctgaaaggctcaaaatttc Alignment from Exonerate_protein2genome CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACCAA tcttgtagtgatctgtcaccctcttaagtactttctttttaactccgtagCTTTCAGCTTTGCGTTCGAACTGCTGTAGAAGACAATACACTCACTATTGGCCTGTAGCTTCACAGACACTGCCTGCAGTGAAGGTACCTAGTATTGAGTGTAACAACACCAAgtgagttcacactcccactactcccatgtctctgaaaggctcaaaatttc Alignment from Exonerate_coding2genome CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACCAA tcttgtagtgatctgtcaccctcttaagtactttctttttaactccgtagCTTTCAGCTTTGCGTTCGAACTGCTGTAGAAGACAATACACTCACTATTGGCCTGTAGCTTCACAGACACTGCCTGCAGTGAAGGTACCTAGTATTGAGTGTAACAACACCAAgtgagttcacactcccactactcccatgtctctgaaaggctcaaaatttc Alignment from GeneWise CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACCAA tcttgtagtgatctgtcaccctcttaagtactttctttttaactccgtagctttcagCTT------TGCGTTCGAACTGCTGTAGAAGACAATACACTCACTATTGG-CCTGTAGCTTCACAGACACTGCCTGCAGTGAAGGTACCTAGTATTGAGTGTAACAACACCAAgtgagttcacactcccactactcccatgtctctgaaaggctcaaaatttc #### Rasgrp2_ID1703_2 --> 2 - 2 Original Alignment atGACTCCGGAAAGGTGCGAGAT-CCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACtt cgatgtccccaggctgaagctccaagacctgaccctcccccaccccgcagatGATTCAGGAAAGGTGCAAGATCTCCCAGCTAGTACGTATGTTCCTAATGATGTATCCAT-GTACATACCTTCCACTCAGTTGGCTTCAAAACTGCTCCACttgtgagtttggtggtccataacattggaaaatgttgagtgtctagtaccaa Alignment from CESAR atGACTCCGGAAAGGTGCGAGAT-CCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACtt cgatgtccccaggctgaagctccaagacctgaccctcccccaccccgcagatGATTCAGGAAAGGTGCAAGATCTCCCAGCTAGTACGTATGTTCCTAATGATGTATCCA-TGTACATACCTTCCACTCAGTTGGCTTCAAAACTGCTCCACttgtgagtttggtggtccataacattggaaaatgttgagtgtctagtaccaa Alignment from Spaln_aa2Genome ATGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT cgatgtccccaggctgaagctccaagacctgaccctcccccaccccgcagATGATTCAGGAAAGGTGCAAGATCTCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGTACATACCTTCCACTCAGTTGGCTTCAAAACTGCTCCACTTgtgagtttggtggtccataacattggaaaatgttgagtgtctagtaccaa Alignment from Spaln_nt2Genome ATGACTCCGGAAAGGTGCGAGATC-CACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT cgatgtccccaggctgaagctccaagacctgaccctcccccaccccgcagATGATTCAGGAAAGGTGCAAGATCTCCCAGCTAGTACGTATGTTCCTAATGATGTATCCAT-GTACATACCTTCCACTCAGTTGGCTTCAAAACTGCTCCACTTgtgagtttggtggtccataacattggaaaatgttgagtgtctagtaccaa Alignment from Pairagon ATGACTCCGGAAAGGTGCGAGATC-CACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT cgatgtccccaggctgaagctccaagacctgaccctcccccaccccgcagATGATTCAGGAAAGGTGCAAGATCTCCCAGCTAGTACGTATGTTCCTAATGATGTATCCAT-GTACATACCTTCCACTCAGTTGGCTTCAAAACTGCTCCACTTgtgagtttggtggtccataacattggaaaatgttgagtgtctagtaccaa Alignment from Exonerate_protein2genome ATGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT cgatgtccccaggctgaagctccaagacctgaccctcccccaccccgcagATGATTCAGGAAAGGTGCAAGATCTCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGTACATACCTTCCACTCAGTTGGCTTCAAAACTGCTCCACTTgtgagtttggtggtccataacattggaaaatgttgagtgtctagtaccaa Alignment from Exonerate_coding2genome ATGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT cgatgtccccaggctgaagctccaagacctgaccctcccccaccccgcagATGATTCAGGAAAGGTGCAAGATCTCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGTACATACCTTCCACTCAGTTGGCTTCAAAACTGCTCCACTTgtgagtttggtggtccataacattggaaaatgttgagtgtctagtaccaa Alignment from GeneWise ATGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT cgatgtccccaggctgaagctccaagacctgaccctcccccaccccgcagATGATTCAGGAAAGGTGCAAGATCTCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGTACATACCTTCCACTCAGTTGGCTTCAAAACTGCTCCACTTgtgagtttggtggtccataacattggaaaatgttgagtgtctagtaccaa #### Rasgrp2_ID1707_6 --> 0 - 0 Original Alignment TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTG-GAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgaagtccactgtcaacagtttcacatcgctaataccttgatttttagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGCGAGCGATTTATCTCTCTATTCAACAGTGTGCCTCAGTGGG-CCAGATAATGATCCTCAGCAAGCCAACGGCCACACAGCAGGCACTCGTCATTACCCACTTTGTACATGTAGCAGAGgtaagcacatttctgtcatatgagaccagattctttgttgaatgtacaga Alignment from CESAR TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTG-GAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgaagtccactgtcaacagtttcacatcgctaataccttgatttttagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGCGAGCGATTTATCTCTCTATTCAACAGTGTGCCTCAGTGGG-CCAGATAATGATCCTCAGCAAGCCAACGGCCACACAGCAGGCACTCGTCATTACCCACTTTGTACATGTAGCAGAGgtaagcacatttctgtcatatgagaccagattctttgttgaatgtacaga Alignment from Spaln_aa2Genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgaagtccactgtcaacagtttcacatcgctaataccttgatttttagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGCGAGCGATTTATCTCTCTATTCAACAGTGTGCCTCAGTGGGCCAGATAATGATCCTCAGCAAGCCAACGGCCACACAGCAGGCACTCGTCATTACCCACTTTGTACATGTAGCAGAGgtaagcacatttctgtcatatgagaccagattctttgttgaatgtacaga Alignment from Spaln_nt2Genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTG-GAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgaagtccactgtcaacagtttcacatcgctaataccttgatttttagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGCGAGCGATTTATCTCTCTATTCAACAGTGTGCCTCAGT-GGGCCAGATAATGATCCTCAGCAAGCCAACGGCCACACAGCAGGCACTCGTCATTACCCACTTTGTACATGTAGCAGAGgtaagcacatttctgtcatatgagaccagattctttgttgaatgtacaga Alignment from Pairagon TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTG-GAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgaagtccactgtcaacagtttcacatcgctaataccttgatttttagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGCGAGCGATTTATCTCTCTATTCAACAGTGTGCCTCAGTGGG-CCAGATAATGATCCTCAGCAAGCCAACGGCCACACAGCAGGCACTCGTCATTACCCACTTTGTACATGTAGCAGAGgtaagcacatttctgtcatatgagaccagattctttgttgaatgtacaga Alignment from Exonerate_protein2genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTG-GAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGG--GTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgaagtccactgtcaacagtttcacatcgctaataccttgatttttagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGCGAGCGATTTATCTCTCTATTCAACAGTGTGCCTCAGTGGGC---CAGATAATGATCCTCAGCAAGCCAACGGCCACACAGCAGGCACTCGTCATTACCCACTTTGTACATGTAGCAGAGgtaagcacatttctgtcatatgagaccagattctttgttgaatgtacaga Alignment from Exonerate_coding2genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTG-GAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGG--GTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgaagtccactgtcaacagtttcacatcgctaataccttgatttttagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGCGAGCGATTTATCTCTCTATTCAACAGTGTGCCTCAGTGGGC---CAGATAATGATCCTCAGCAAGCCAACGGCCACACAGCAGGCACTCGTCATTACCCACTTTGTACATGTAGCAGAGgtaagcacatttctgtcatatgagaccagattctttgttgaatgtacaga Alignment from GeneWise TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgaagtccactgtcaacagtttcacatcgctaataccttgatttttagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGCGAGCGATTTATCTCTCTATTCAACAGTGTGCCTCAGTGGGCCAGATAATGATCCTCAGCAAGCCAACGGCCACACAGCAGGCACTCGTCATTACCCACTTTGTACATGTAGCAGAGgtaagcacatttctgtcatatgagaccagattctttgttgaatgtacaga #### Rbp4_ID7524_3 --> 0 - 2 Original Alignment TTCTCTGGGCTCTGGTAT-GCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGag ctaatttaggtgggaggtgaacttaggcactgttctccattcttacacagTTTTCAGGGCTCTTGTACCACTATTGCA---AAGGGTCCCAAGGGGCTCT-TTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGaggtaagtgaacctgagtacagtactgtcactttagctaaataaggagggga Alignment from CESAR TTCTCTGGGCTCTGGTAT-GCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGag ctaatttaggtgggaggtgaacttaggcactgttctccattcttacacagTTTTCAGGGCTCTTGTACCACTATTGCA---AAGGGTCCCAAGGGGCTCT-TTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGaggtaagtgaacctgagtacagtactgtcactttagctaaataaggagggga Alignment from Spaln_aa2Genome TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaatttaggtgggaggtgaacttaggcactgttctccattcttacacagTTTTCAGGGCTCTTGTACCACTATTGC---AAAGGGTCCCAAGGGGCTCTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGAGgtaagtgaacctgagtacagtactgtcactttagctaaataaggagggga Alignment from Spaln_nt2Genome TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaatttaggtgggaggtgaacttaggcactgttctccattcttacacagTTTTCAGGGCTCTTGTA--CCACTATTGCAAAGGGTCCCAAGGGGCTC-TTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGAGgtaagtgaacctgagtacagtactgtcactttagctaaataaggagggga Alignment from Pairagon TTCTCTGGGCTCTGGTA-------TGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaatttaggtgggaggtgaacttaggcactgttctccattcttacacagTTTTCAGGGCTCTTGTACCACTATTGC---------AAAGGGTCCCAAGGGGCTCTTTT-GCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGAGgtaagtgaacctgagtacagtactgtcactttagctaaataaggagggga Alignment from Exonerate_protein2genome TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaatttaggtgggaggtgaacttaggcactgttctccattcttacacagTTTTCAGGGCTCTTGTACCACTATTGC---AAAGGGTCCCAAGGGGCTCTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGAGgtaagtgaacctgagtacagtactgtcactttagctaaataaggagggga Alignment from Exonerate_coding2genome GCTCGTTTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaatttaggtgggaggtgaacttaggcactgttctccattcttACACAGTTTTCAGGGCTCTTGTACCACTATTGC---AAAGGGTCCCAAGGGGCTCTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGAGgtaagtgaacctgagtacagtactgtcactttagctaaataaggagggga Alignment from GeneWise TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaatttaggtgggaggtgaacttaggcactgttctccattcttacacagTTTTCAGGGCTCTTGTACCACTATTGCAAA---GGGTCCCAAGGGGCTCTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGAGgtaagtgaacctgagtacagtactgtcactttagctaaataaggagggga #### Rce1_ID576_6 --> 2 - 1 Original Alignment CTTTTTTGGAGTCg ccCATTTTCACCACATT-ATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAg CTTTCTTGGGGTTggtgagcctgtggtgaccctgtacctttgttttccagccCATTTTCAGCACATTCATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCA-CTTTGTGTCTACAggtaaacgggaaaagtagtgagttacgaagaggaaaaagggctggatctgg Alignment from CESAR CTTTTTTGGAGTCg ccCATTTTCACCACATT-ATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAg CTTTCTTGGGGTTggtgaggctgtggtgaccctgtacctttgttttccagccCATTTTCAGCACATTCATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGC-ACTTTGTGTCTACAggtaaacgggaaaagtagtgagttacgaagaggaaaaagggctggatctgg Alignment from Spaln_aa2Genome CTTTTTTGGAGTCG CCCATTTTCACCACATT-ATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTC- CTTTCTTGGGGTTGgtgagcctgtggtgaccctgtacctttgttttccagCCCATTTTCAGCACATTcATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCACTTTGTgtctacaggtaaacgggaaaagtagtgagttacgaagaggaaaaagggctggatctgg Alignment from Spaln_nt2Genome CTTTTTTGGAGTCG CCCATTTTCACCACATT-ATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CTTTCTTGGGGTTGgtgagcctgtggtgaccctgtacctttgttttccagCCCATTTTCAGCACATTCATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCA-CTTTGTGTCTACAGgtaaacgggaaaagtagtgagttacgaagaggaaaaagggctggatctgg Alignment from Pairagon CTTTTTTGGAGTCG CCCATTTTCACCACATT-ATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CTTTCTTGGGGTTGgtgagcctgtggtgaccctgtacctttgttttccagCCCATTTTCAGCACATTCATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCA-CTTTGTGTCTACAGgtaaacgggaaaagtagtgagttacgaagaggaaaaagggctggatctgg Alignment from Exonerate_protein2genome CTTTTTTGGAGTCG CCCATTTTCACCACATT-ATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCA CTTTCTTGGGGTTGgtgagcctgtggtgaccctgtacctttgttttccagCCCATTTTCAGCACATTCATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCACTTTGTGTCTACAGgtaaacgggaaaagtagtgagttacgaagaggaaaaagggctggatctgg Alignment from Exonerate_coding2genome CTTTTTTGGAGTCG CCCATTTTCACCACATT-ATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCA CTTTCTTGGGGTTGgtgagcctgtggtgaccctgtacctttgttttccagCCCATTTTCAGCACATTCATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCACTTTGTGTCTACAGgtaaacgggaaaagtagtgagttacgaagaggaaaaagggctggatctgg Alignment from GeneWise CTTTTTTGGAGTC------------------------------------GCCCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CTTTCTTGGGGTTGGTGAGCCTGTGGTGACCCTGTACCTTTGTTTTCCAGCCCATTTTCAGCACATTCATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCACTTTGTGTCTACAGgtaaacgggaaaagtagtgagttacgaagaggaaaaagggctggatctgg #### Rce1_ID577_5 --> 2 - 1 Original Alignment ccCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGG-GCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCg ccCATTTTCACCAC gtagttttgttcaaacaggtggctagttatttttgtgttgtactttgcagcgCCTTGTTCATGGGCTCAATGCCTCACTGAAATGCGCTGGCTAAGAAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGCGCATGCATGTTGCCCATGCTAGCACCAT-TACAGGTCTCAGTCCAGCCGTGTTCACATGCCCACTCTTTCTTGGGGTTggtgaggctgtggtgatttaattttccctcaccacagccCATTTTCAGCAC Alignment from CESAR ccCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGG-GCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCg ccCATTTTCACCAC gtagttttgttcaaacaggtggctagttatttttgtgttgtactttgcagcgCCTTGTTCATGGGCTCAATGCCTCACTGAAATGCGCTGGCTAAGAAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGCGCATGCATGTTGCCCATGCTAGCACCA-TTACAGGTCTCAGTCCAGCCGTGTTCACATGCCCACTCTTTCTTGGGGTTggtgaggctgtggtgaccctgtacctttgttttccagccCATTTTCAGCAC Alignment from Spaln_aa2Genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCG CCCATTTTCACCAC gtagttttgttcaaacaggtggctagttatttttgtgttgtactttgcagCGCCTTGTTCATGGGCTCAATGCCTCACTGAAATGCGCTGGCTAAGAAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGCGCATGCATGTTGCCCATGCTAGCACCATTACAGGTCTCAGTCCAGCCGTGTTCACATGCCCACTCTTTCTTGGGGTTGgtgaggctgtggtgatttaattttccctcaccacagCCCATTTTCAGCAC Alignment from Spaln_nt2Genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGG-GCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCG CCCATTTTCACCAC gtagttttgttcaaacaggtggctagttatttttgtgttgtactttgcagCGCCTTGTTCATGGGCTCAATGCCTCACTGAAATGCGCTGGCTAAGAAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGCGCATGCATGTTGCCCATGCTAGCACCAT-TACAGGTCTCAGTCCAGCCGTGTTCACATGCCCACTCTTTCTTGGGGTTGgtgaggctgtggtgatttaattttccctcaccacagCCCATTTTCAGCAC Alignment from Pairagon CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGG-GCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCG CCCATTTTCACCAC gtagttttgttcaaacaggtggctagttatttttgtgttgtactttgcagCGCCTTGTTCATGGGCTCAATGCCTCACTGAAATGCGCTGGCTAAGAAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGCGCATGCATGTTGCCCATGCTAGCACCAT-TACAGGTCTCAGTCCAGCCGTGTTCACATGCCCACTCTTTCTTGGGGTTGgtgaggctgtggtgatttaattttccctcaccacagCCCATTTTCAGCAC Alignment from Exonerate_protein2genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCG CCCATTTTCACCAC gtagttttgttcaaacaggtggctagttatttttgtgttgtactttgcagCGCCTTGTTCATGGGCTCAATGCCTCACTGAAATGCGCTGGCTAAGAAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGCGCATGCATGTTGCCCATGCTAGCACCATTACAGGTCTCAGTCCAGCCGTGTTCACATGCCCACTCTTTCTTGGGGTTGgtgaggctgtggtgatttaattttccctcaccacagCCCATTTTCAGCAC Alignment from Exonerate_coding2genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCG CCCATTTTCACCAC gtagttttgttcaaacaggtggctagttatttttgtgttgtactttgcagCGCCTTGTTCATGGGCTCAATGCCTCACTGAAATGCGCTGGCTAAGAAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGCGCATGCATGTTGCCCATGCTAGCACCATTACAGGTCTCAGTCCAGCCGTGTTCACATGCCCACTCTTTCTTGGGGTTGgtgaggctgtggtgatttaattttccctcaccacagCCCATTTTCAGCAC Alignment from GeneWise CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCG CCCATTTTCACCAC gtagttttgttcaaacaggtggctagttatttttgtgttgtactttgcagCGCCTTGTTCATGGGCTCAATGCCTCACTGAAATGCGCTGGCTAAGAAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGCGCATGCATGTTGCCCATGCTAGCACCATTACAGGTCTCAGTCCAGCCGTGTTCACATGCCCACTCTTTCTTGGGGTTGgtgaggctgtggtgatttaattttccctcaccacagCCCATTTTCAGCAC #### Rce1_ID580_2 --> 1 - 0 Original Alignment gGACCACCCCGCTGTTATCAAGCGG-CGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG ctttaatcacaagtaccccccagatctgtctcctgacctgctctccccaggGACCACCCCTCTGTAGTGAAGCGGCCATTTTACCGGTGTTCTGATTGTATCTA-CTTGTCTCCTCTTTGTGTGCTGCTG------GAACTCACTGGTATCCAGgtgagtcgaagaggatgatgtcctgggcagcataccaaggaatcttttgc Alignment from CESAR gGACCACCCCGCTGTTATCAAGCGG-CGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG ctttaatcacaagtaccccccagatctgtctcctgacctgctctccccaggGACCACCCCTCTGTAGTGAAGCGGCCATTTTACCGGTGTTCTGATTGTATCTA-CTTGTCTCCTCTTTGTGTGCTGCTG------GAACTCACTGGTATCCAGgtgagtcgaagaggatgatgtcctgggcagcataccaaggaatcttttgc Alignment from Spaln_aa2Genome GGACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG ctttaatcacaagtaccccccagatctgtctcctgacctgctctccccagGGACCACCCCTCTGTAGTGAAGCGGCCATTTTACCGGTGTTCTGATTGTATCTACTTGTCTCCTCTTTGTGTGCTGCTG------GAACTCACTGGTATCCAGgtgagtcgaagaggatgatgtcctgggcagcataccaaggaatcttttgc Alignment from Spaln_nt2Genome GGACCACCCCGCTGTTATCAAGCGGCG-TTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG ctttaatcacaagtaccccccagatctgtctcctgacctgctctccccagGGACCACCCCTCTGTAGTGAAGCGGCCATTTTACCGGTGTTCTGATTGTATCTA-CTTGTCTCCTCTTTGTGTGCTGCT------GGAACTCACTGGTATCCAGgtgagtcgaagaggatgatgtcctgggcagcataccaaggaatcttttgc Alignment from Pairagon GGACCACCCCGCTGTTATCAAGCGG-CGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG ctttaatcacaagtaccccccagatctgtctcctgacctgctctccccagGGACCACCCCTCTGTAGTGAAGCGGCCATTTTACCGGTGTTCTGATTGTATCTA-CTTGTCTCCTCTTTGTGTGCTGCT------GGAACTCACTGGTATCCAGgtgagtcgaagaggatgatgtcctgggcagcataccaaggaatcttttgc Alignment from Exonerate_protein2genome GGACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG ctttaatcacaagtaccccccagatctgtctcctgacctgctctccccagGGACCACCCCTCTGTAGTGAAGCGGCCATTTTACCGGTGTTCTGATTGTATCTACTTGTCTCCTCTTTGTGTGCTGCTG------GAACTCACTGGTATCCAGgtgagtcgaagaggatgatgtcctgggcagcataccaaggaatcttttgc Alignment from Exonerate_coding2genome GGACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG ctttaatcacaagtaccccccagatctgtctcctgacctgctctccccagGGACCACCCCTCTGTAGTGAAGCGGCCATTTTACCGGTGTTCTGATTGTATCTACTTGTCTCCTCTTTGTGTGCTGCTG------GAACTCACTGGTATCCAGgtgagtcgaagaggatgatgtcctgggcagcataccaaggaatcttttgc Alignment from GeneWise GGACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG ctttaatcacaagtaccccccagatctgtctcctgacctgctctccccagGGACCACCCCTCTGTAGTGAAGCGGCCATTTTACCGGTGTTCTGATTGTATCTACTTGTCTCCTCTTTGTGTGCTGCTG------GAACTCACTGGTATCCAGgtgagtcgaagaggatgatgtcctgggcagcataccaaggaatcttttgc #### Rcor2_ID2099_10 --> 2 - 0 Original Alignment ctATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAG-GATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GT ggaccagctgttttgtccacattcagacgaaaacatttccttttaaacagccATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAACGATGGGGCCCCCACGGCTCCGGTCCCCACGGAAGAGGCCC-GCGAGGGGCTCCTGTTTCAACCACAGCCCTTGAGGAGGATGATAAGgtaagcgacctctctatgaaacatccgttttaacccctggcccttcagGT Alignment from CESAR ctATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAG-GATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GT ggaccagctgttttgtccacattcagacgaaaacatttccttttaaacagccATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAACGATGGGGCCCCCACGGCTCCGGTCCCCACGGAAGAGGCCC-GCGAGGGGCTCCTGTTTCAACCACAGCCCTTGAGGAGGATGATAAGgtaagcgacctctctatgaaacatcctgtcctttctttgcatctgcagGT Alignment from Spaln_aa2Genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GT ggaccagctgttttgtccacattcagacgaaaacatttccttttaaacagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAACGATGGGGCCCCCACGGCTCCGGTCCCCACGGAAGAGGCCCGCGAGGGGCTCCTGTTTCAACCACAGCCCTTGAGGAGGATGATAAGgtaagcgacctctctatgaaacatccgttttaacccctggcccttcagGT Alignment from Spaln_nt2Genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAG-GATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GT ggaccagctgttttgtccacattcagacgaaaacatttccttttaaacagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAACGATGGGGCCCCCACGGCTCCGGTCCCCACGGAAGAGGCCC-GCGAGGGGCTCCTGTTTCAACCACAGCCCTTGAGGAGGATGATAAGgtaagcgacctctctatgaaacatccgttttaacccctggcccttcagGT Alignment from Pairagon CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAG-GATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GT ggaccagctgttttgtccacattcagacgaaaacatttccttttaaacagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAACGATGGGGCCCCCACGGCTCCGGTCCCCACGGAAGAGGCCC-GCGAGGGGCTCCTGTTTCAACCACAGCCCTTGAGGAGGATGATAAGgtaagcgacctctctatgaaacatccgttttaacccctggcccttcagGT Alignment from Exonerate_protein2genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GT ggaccagctgttttgtccacattcagacgaaaacatttccttttaaacagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAACGATGGGGCCCCCACGGCTCCGGTCCCCACGGAAGAGGCCCGCGAGGGGCTCCTGTTTCAACCACAGCCCTTGAGGAGGATGATAAGgtaagcgacctctctatgaaacatccgttttaacccctggcccttcagGT Alignment from Exonerate_coding2genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GT ggaccagctgttttgtccacattcagacgaaaacatttccttttaaacagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAACGATGGGGCCCCCACGGCTCCGGTCCCCACGGAAGAGGCCCGCGAGGGGCTCCTGTTTCAACCACAGCCCTTGAGGAGGATGATAAGgtaagcgacctctctatgaaacatccgttttaacccctggcccttcagGT Alignment from GeneWise CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GT ggaccagctgttttgtccacattcagacgaaaacatttccttttaaacagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAACGATGGGGCCCCCACGGCTCCGGTCCCCACGGAAGAGGCCCGCGAGGGGCTCCTGTTTCAACCACAGCCCTTGAGGAGGATGATAAGgtaagcgacctctctatgaaacatccgttttaacccctggcccttcagGT #### Rela_ID1126_3 --> 2 - 0 Original Alignment agCCAGCCCAGGCTTCTGGGCCT-TATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG ctggaggccagggcacactgtaccacctttttttcttattctctcctcagaaCCAGCCCAGGCAGCTGGCCCTCTATGTGGACATCATCAAACAACCAAATCAACAAGGC---CGTT-CCGCTATAAATCTGAGGGGCACTCTGAAGGTGGTATCCCTGGTGAGAGAAGCATGGATACTAAAAAGACACATCCCACTATAAAGgtgagtaacaaggtccttgcatggctaacaagcaaacaggtgtcagtatc Alignment from CESAR agCCAGCCCAGGCTTCTGGGCCT-TATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG ctggaggccagggcacactgtaccacctttttttcttattctctcctcagaaCCAGCCCAGGCAGCTGGCCCTCTATGTGGACATCATCAAACAACCAAATCAACAAGGC---C-GTTCCGCTATAAATCTGAGGGGCACTCTGAAGGTGGTATCCCTGGTGAGAGAAGCATGGATACTAAAAAGACACATCCCACTATAAAGgtgagtaacaaggtccttgcatggctaacaagcaaacaggtgtcagtatc Alignment from Spaln_aa2Genome AGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG ctggaggccagggcacactgtaccacctttttttcttattctctcctcagAACCAGCCCAGGCAGCTGGCCCTCTATGTGGA---CATCATCAAACAACCAAATCAACAAGGCCGTTCCGCTATAAATCTGAGGGGCACTCTGAAGGTGGTATCCCTGGTGAGAGAAGCATGGATACTAAAAAGACACATCCCACTATAAAGgtgagtaacaaggtccttgcatggctaacaagcaaacaggtgtcagtatc Alignment from Spaln_nt2Genome AGCCAGCCCAGGCTTCTGGGCCT-TATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG ctggaggccagggcacactgtaccacctttttttcttattctctcctcagAACCAGCCCAGGCAGCTGGCCCTCTATGTGGACATCATCAAACAACCAAATCAACAAGGC---CG-TTCCGCTATAAATCTGAGGGGCACTCTGAAGGTGGTATCCCTGGTGAGAGAAGCATGGATACTAAAAAGACACATCCCACTATAAAGgtgagtaacaaggtccttgcatggctaacaagcaaacaggtgtcagtatc Alignment from Pairagon CCTCAGAGCCAGCCCAGGCTTCTGGGCCT-TATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG ctggaggccagggcacactgtaccacctttttttcttattctctCCTCAGAACCAGCCCAGGCAGCTGGCCCTCTATGTGGACATCATCAAACAACCAAATCAACAAGGCC----GTTCCGCTATAAATCTGAGGGGCACTCTGAAGGTGGTATCCCTGGTGAGAGAAGCATGGATACTAAAAAGACACATCCCACTATAAAGgtgagtaacaaggtccttgcatggctaacaagcaaacaggtgtcagtatc Alignment from Exonerate_protein2genome AGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG ctggaggccagggcacactgtaccacctttttttcttattctctcctcagAACCAGCCCAGGCAGCTGGCCCTCTATGTGGA---CATCATCAAACAACCAAATCAACAAGGCCGTTCCGCTATAAATCTGAGGGGCACTCTGAAGGTGGTATCCCTGGTGAGAGAAGCATGGATACTAAAAAGACACATCCCACTATAAAGgtgagtaacaaggtccttgcatggctaacaagcaaacaggtgtcagtatc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GACGATCTGTTTCCCCTCATCTTTCCCTCAGAGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG agggcacactgtaccacct---------TTTTTTCTTATTCTCTCCTCAGAACCAGCCCAGGCAGCTGGCCCTCTATGTGGACATCATCAAACAACCAAATCAACA---AGGCCGTTCCGCTATAAATCTGAGGGGCACTCTGAAGGTGGTATCCCTGGTGAGAGAAGCATGGATACTAAAAAGACACATCCCACTATAAAGgtgagtaacaaggtccttgcatggctaacaagcaaacaggtgtcagtatc #### Rela_ID1129_6 --> 2 - 1 Original Alignment ttCCTATAGAGGAGCAGCGCGGGGACTATGACTTGAAT-GCAGTGCGCCTCTGCTTCCAGGTGACAGTGCGGGACCCAGCAGGCAGGCCCCTCCTCCTGACCCCTGTCCTCTCACATCCGATTTTTGATAACc ttaccacagaatttggtgttttctctttttgtctcctgcttctcctctagtcCCCATGGAGGAGCAGCACGGGGAATATGACTTAAATCGCTGTGCGCCTCTGCTTCGAGGTGACAGTGCGGG-CCCAGCAGGTGGGCCACTCCTCCTCACCCCTGTCCTCTCACATCCAATTTTTGATAACcgtaaatggcagattcagatagtcacaaagtctttcttctcagccgcattc Alignment from CESAR ttCCTATAGAGGAGCAGCGCGGGGACTATGACTTGAAT-GCAGTGCGCCTCTGCTTCCAGGTGACAGTGCGGGACCCAGCAGGCAGGCCCCTCCTCCTGACCCCTGTCCTCTCACATCCGATTTTTGATAACc ttaccacagaatttggtgttttctctttttgtctcctgcttctcctctagtcCCCATGGAGGAGCAGCACGGGGAATATGACTTAAATCGCTGTGCGCCTCTGCTTCGAGGTGACAGTGCGG-GCCCAGCAGGTGGGCCACTCCTCCTCACCCCTGTCCTCTCACATCCAATTTTTGATAACcgtaaatggcagattcagatagtcacaaagtctttcttctcagccgcattc Alignment from Spaln_aa2Genome TTCCTATAGAGGAGCAGCGCGGGGACTATGACTTGAATGCAGTGCGCCTCTGCTTCCAGGTGACAGTGCGGGACCCAGCAGGCAGGCCCCTCCTCCTGACCCCTGTCCTCTCACATCCGATTTTTGATAACC ttaccacagaatttggtgttttctctttttgtctcctgcttctcctctagTCCCCATGGAGGAGCAGCACGGGGAATATGACTTAAATCGCTGTGCGCCTCTGCTTCGAGGTGACAGTGCGGGCCCAGCAGGTGGGCCACTCCTCCTCACCCCTGTCCTCTCACATCCAATTTTTGATAACCgtaaatggcagattcagatagtcacaaagtctttcttctcagccgcattc Alignment from Spaln_nt2Genome TTCCTATAGAGGAGCAGCGCGGGGACTATGACTTGAAT-GCAGTGCGCCTCTGCTTCCAGGTGACAGTGCGGGACCCAGCAGGCAGGCCCCTCCTCCTGACCCCTGTCCTCTCACATCCGATTTTTGATAACC ttaccacagaatttggtgttttctctttttgtctcctgcttctcctctagTCCCCATGGAGGAGCAGCACGGGGAATATGACTTAAATCGCTGTGCGCCTCTGCTTCGAGGTGACAGTGC-GGGCCCAGCAGGTGGGCCACTCCTCCTCACCCCTGTCCTCTCACATCCAATTTTTGATAACCgtaaatggcagattcagatagtcacaaagtctttcttctcagccgcattc Alignment from Pairagon TTCCTATAGAGGAGCAGCGCGGGGACTATGACTTGAAT-GCAGTGCGCCTCTGCTTCCAGGTGACAGTGCGGGACCCAGCAGGCAGGCCCCTCCTCCTGACCCCTGTCCTCTCACATCCGATTTTTGATAACC ttaccacagaatttggtgttttctctttttgtctcctgcttctcctctagTCCCCATGGAGGAGCAGCACGGGGAATATGACTTAAATCGCTGTGCGCCTCTGCTTCGAGGTGACAGTGCGGG-CCCAGCAGGTGGGCCACTCCTCCTCACCCCTGTCCTCTCACATCCAATTTTTGATAACCgtaaatggcagattcagatagtcacaaagtctttcttctcagccgcattc Alignment from Exonerate_protein2genome TTCCTATAGAGGAGCAGCGCGGGGACTATGACTTGAATGCAGTGCGCCTCTGCTTCCAGGTGACAGTGCGGGACCCAGCAGGCAGGCCCCTCCTCCTGACCCCTGTCCTCTCACATCCGATTTTTGATAACC ttaccacagaatttggtgttttctctttttgtctcctgcttctcctctagTCCCCATGGAGGAGCAGCACGGGGAATATGACTTAAATCGCTGTGCGCCTCTGCTTCGAGGTGACAGTGCGGGCCCAGCAGGTGGGCCACTCCTCCTCACCCCTGTCCTCTCACATCCAATTTTTGATAACCgtaaatggcagattcagatagtcacaaagtctttcttctcagccgcattc Alignment from Exonerate_coding2genome ttaccacagaatttggtgttttctctttttgtctcctgcttctcctctagtccccatggaggagcagcacggggaatatgacttaaatcgctgtgcgcctctgcttcgaggtgacagtgcgggcccagcaggtgggccactcctcctcacccctgtcctctcacatccaatttttgataaccgtaaatggcagattcagatagtcacaaagtctttcttctcagccgcattc Alignment from GeneWise TTCCTATAGAGGAGCAGCGCGGGGACTATGACTTGAATGCAGTGCGCCTCTGCTTCCAGGTGACAGTGCGGGACCCAGCAGGCAGGCCCCTCCTCCTGACCCCTGTCCTCTCACATCCGATTTTTGATAACC ttaccacagaatttggtgttttctctttttgtctcctgcttctcctctagTCCCCATGGAGGAGCAGCACGGGGAATATGACTTAAATCGCTGTGCGCCTCTGCTTCGAGGTGACAGTGCGGGCCCAGCAGGTGGGCCACTCCTCCTCACCCCTGTCCTCTCACATCCAATTTTTGATAACCgtaaatggcagattcagatagtcacaaagtctttcttctcagccgcattc #### Rin1_ID807_2 --> 1 - 0 Original Alignment gCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTG-TGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG gggttttaaaacaatgggcagaggaagtgtatttatatattcttttacaggCCCTCCACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTGCAGGCTGGTGGGTCACAACAACCAGCATGCAAAGTGAGCCTTCACGAGCGGCTGTTGATCACATGTCCTGTGCTGGTTACGGCTCCGGGCCAATGCAGCTGCTGCACTAC-TGTGCTAAGTACAGAGCCTCCAGGGgtgagtcacttagtcaccaattggccacatctgatcaggacaaaaggtgc Alignment from CESAR gCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTG-TGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG gggttttaaaacaatgggcagaggaagtgtatttatatattcttttacaggCCCTCCACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTGCAGGCTGGTGGGTCACAACAACCAGCATGCAAAGTGAGCCTTCACGAGCGGCTGTTGATCACATGTCCTGTGCTGGTTACGGCTCCGGGCCAATGCAGCTGCTGCACTA-CTGTGCTAAGTACAGAGCCTCCAGGGgtgagtcacttagtcaccaattggccacatctgatcaggacaaaaggtgc Alignment from Spaln_aa2Genome GCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTG-TGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG gggttttaaaacaatgggcagaggaagtgtatttatatattcttttacagGCCCTCCACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTGCAGGCTGGTGGGTCACAACAACCAGCATGCAAAGTGAGCCTTCACGAGCGGCTGTTGATCACATGTCCTGTGcTGGTTACGGCTCCGGGCCAATGCAGCTGCTGCACTACT-GTGCTAAGTACAGAGCCTCCAGGGgtgagtcacttagtcaccaattggccacatctgatcaggacaaaaggtgc Alignment from Spaln_nt2Genome GCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTG-TGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG gggttttaaaacaatgggcagaggaagtgtatttatatattcttttacagGCCCTCCACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTGCAGGCTGGTGGGTCACAACAACCAGCATGCAAAGTGAGCCTTCACGAGCGGCTGTTGATCACATGTCCTGTGCTGGTTACGGCTCCGGGCCAATGCAGCTGCTGCACTAC-TGTGCTAAGTACAGAGCCTCCAGGGgtgagtcacttagtcaccaattggccacatctgatcaggacaaaaggtgc Alignment from Pairagon GCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTG-TGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCAC----GTGCTGAGGACAGAGCCTCCGGGG gggttttaaaacaatgggcagaggaagtgtatttatatattcttttacagGCCCTCCACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTGCAGGCTGGTGGGTCACAACAACCAGCATGCAAAGTGAGCCTTCACGAGCGGCTGTTGATCACATGTCCTGTGCTGGTTACGGCTCCGGGCCAATGCAGC-----TGCTGCACTACTGTGCTAAGTACAGAGCCTCCAGGGgtgagtcacttagtcaccaattggccacatctgatcaggacaaaaggtgc Alignment from Exonerate_protein2genome GCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG gggttttaaaacaatgggcagaggaagtgtatttatatattcttttacagGCCCTCCACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTGCAGGCTGGTGGGTCACAACAACCAGCATGCAAAGTGAGCCTTCACGAGCGGCTGTTGATCACATGTCCTGTGCTGGTTACGGCTCCGGGCCAATGCAGCTGCTGCACTACTGTGCTAAGTACAGAGCCTCCAGGGgtgagtcacttagtcaccaattggccacatctgatcaggacaaaaggtgc Alignment from Exonerate_coding2genome AAGCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG gggttttaaaacaatgggcagaggaagtgtatttatatattcttttacAGGCCCTCCACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTGCAGGCTGGTGGGTCACAACAACCAGCATGCAAAGTGAGCCTTCACGAGCGGCTGTTGATCACATGTCCTGTGCTGGTTACGGCTCCGGGCCAATGCAGCTGCTGCACTACTGTGCTAAGTACAGAGCCTCCAGGGgtgagtcacttagtcaccaattggccacatctgatcaggacaaaaggtgc Alignment from GeneWise GCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG gggttttaaaacaatgggcagaggaagtgtatttatatattcttttacagGCCCTCCACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTGCAGGCTGGTGGGTCACAACAACCAGCATGCAAAGTGAGCCTTCACGAGCGGCTGTTGATCACATGTCCTGTGCTGGTTACGGCTCCGGGCCAATGCAGCTGCTGCACTACTGTGCTAAGTACAGAGCCTCCAGGGgtgagtcacttagtcaccaattggccacatctgatcaggacaaaaggtgc #### Rin1_ID808_3 --> 0 - 1 Original Alignment ACCTTCCTGGTGCGGAAATCTAAC-ACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCg ctacaggagatggacaaagagacctaaaaaacactgtcttttctttacagACATTTGTTGTATGCAAATACAACCACTCGCCAGTGCCAGGCTCTGTGTGTAC-GTTACCAGAACCTAGTGGCCCAGCTTTTGTCTCCAGCCACTATATTGAAGAAAGTACTGGTggtcagaaggataataaggggtctaggcacattcataagtacatgaatgag Alignment from CESAR ACCTTCCTGGTGCGGAAATCTAAC-ACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCg ctacaggagatggacaaagagacctaaaaaacactgtcttttctttacagACATTTGTTGTATGCAAATACAACCACTCGCCAGTGCCAGGCTCTGTGTGTAC-GTTACCAGAACCTAGTGGCCCAGCTTTTGTCTCCAGCCACTATATTGAAGAAAGTACTGGTggtcagaaggataataaggggtctaggcacattcataagtacatgaatgag Alignment from Spaln_aa2Genome ACCTTCCTGGTGCGGAAATCTAAC-ACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG ctacaggagatggacaaagagacctaaaaaacactgtcttttctttacagACATTTGTTGTATGCAAATACAACcACTCGCCAGTGCCAGGCTCTGTGTGTACG-TTACCAGAACCTAGTGGCCCAGCTTTTGTCTCCAGCCACTATATTGAAGAAAGTACTGGTGgtcagaaggataataaggggtctaggcacattcataagtacatgaatgag Alignment from Spaln_nt2Genome ACCTTCCTGGTGCGGAAATCTAAC-ACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG ctacaggagatggacaaagagacctaaaaaacactgtcttttctttacagACATTTGTTGTATGCAAATACAACCACTCGCCAGTGCCAGGCTCTGTGTGTAC-GTTACCAGAACCTAGTGGCCCAGCTTTTGTCTCCAGCCACTATATTGAAGAAAGTACTGGTGgtcagaaggataataaggggtctaggcacattcataagtacatgaatgag Alignment from Pairagon ACCTTCCTGGTGCGGAAATCTAA-CACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG ctacaggagatggacaaagagacctaaaaaacactgtcttttctttacagACATTTGTTGTATGCAAATACAACCACTCGCCAGTGCCAGGCTCTGTGTGTAC-GTTACCAGAACCTAGTGGCCCAGCTTTTGTCTCCAGCCACTATATTGAAGAAAGTACTGGTGgtcagaaggataataaggggtctaggcacattcataagtacatgaatgag Alignment from Exonerate_protein2genome ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG ctacaggagatggacaaagagacctaaaaaacactgtcttttctttacagACATTTGTTGTATGCAAATACAACCACTCGCCAGTGCCAGGCTCTGTGTGTACGTTACCAGAACCTAGTGGCCCAGCTTTTGTCTCCAGCCACTATATTGAAGAAAGTACTGGTGgtcagaaggataataaggggtctaggcacattcataagtacatgaatgag Alignment from Exonerate_coding2genome ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG ctacaggagatggacaaagagacctaaaaaacactgtcttttctttacagACATTTGTTGTATGCAAATACAACCACTCGCCAGTGCCAGGCTCTGTGTGTACGTTACCAGAACCTAGTGGCCCAGCTTTTGTCTCCAGCCACTATATTGAAGAAAGTACTGGTGgtcagaaggataataaggggtctaggcacattcataagtacatgaatgag Alignment from GeneWise ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG ctacaggagatggacaaagagacctaaaaaacactgtcttttctttacagACATTTGTTGTATGCAAATACAACCACTCGCCAGTGCCAGGCTCTGTGTGTACGTTACCAGAACCTAGTGGCCCAGCTTTTGTCTCCAGCCACTATATTGAAGAAAGTACTGGTGgtcagaaggataataaggggtctaggcacattcataagtacatgaatgag #### Rin1_ID809_4 --> 2 - 2 Original Alignment gtGTCTCTTTGGAGGGC-TCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCag tgaggattgcactgagctaaacagatagttttctgctatcattctttcaggaATCTCTTTGGAGGTCCTCAGAACTCATGTTCCAGGACCTTGTAC-ACTCATC------TATTGCCGTACCaggtgagactgtctgtgcacacctgctgacccttcaagccaactcagcacat Alignment from CESAR gtGTCTCTTTGGAG-GGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCag tgaggattgcactgagctaaacagatagttttctgctatcattctttcaggaATCTCTTTGGAGGTCCTCAGAACTCATGTTCCAGGACCTTGTAC-ACTCATC------TATTGCCGTACCaggtgagactgtctgtgcacacctgctgacccttcaagccaactcagcacat Alignment from Spaln_aa2Genome GTGTCTCTTTGGAG-GGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgaggattgcactgagctaaacagatagttttctgctatcattctttcagGAATCTCTTTGGAGgTCCTCAGAACTCATGTTCCAGGACCTTGTACACTCATC-------TATTGCCGTACCAGgtgagactgtctgtgcacacctgctgacccttcaagccaactcagcacat Alignment from Spaln_nt2Genome GTGTCTCTTTGGAGGGC-TCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgaggattgcactgagctaaacagatagttttctgctatcattctttcagGAATCTCTTTGGAGGTCCTCAGAACTCATGTTCCAGGACCTTGTACA-CTCATC------TATTGCCGTACCAGgtgagactgtctgtgcacacctgctgacccttcaagccaactcagcacat Alignment from Pairagon GTGTCTCTTTGGAGG-GCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgaggattgcactgagctaaacagatagttttctgctatcattctttcagGAATCTCTTTGGAGGTCCTCAGAACTCATGTTCCAGGACCTTGTACA-CTCATC------TATTGCCGTACCAGgtgagactgtctgtgcacacctgctgacccttcaagccaactcagcacat Alignment from Exonerate_protein2genome GTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgaggattgcactgagctaaacagatagttttctgctatcattctttcagGAATCTCTTTGGAGGTCCTCAGAACTCATGTTCCAGGACCTTGTACACTCATC------TATTGCCGTACCAGgtgagactgtctgtgcacacctgctgacccttcaagccaactcagcacat Alignment from Exonerate_coding2genome tgaggattgcactgagctaaacagatagttttctgctatcattctttcaggaatctctttggaggtcctcagaactcatgttccaggaccttgtacactcatctattgccgtaccaggtgagactgtctgtgcacacctgctgacccttcaagccaactcagcacat Alignment from GeneWise GTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgaggattgcactgagctaaacagatagttttctgctatcattctttcagGAATCTCTTTGGAGGTCCTCAGAACTCATGTTCCAGGACCTTGTACACTCATC------TATTGCCGTACCAGgtgagactgtctgtgcacacctgctgacccttcaagccaactcagcacat #### Rin1_ID811_6 --> 2 - 1 Original Alignment agTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACT-GGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGg gctagaatcaactgtacgcacccctccccctggcctttcactgccaccagagTGCTGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTCCTGAAGCCTCACCTATACCTCAGCTAAAGGCTCGCTCCCCACAGGATCTGGCCCAAGGGTCTCGGAGCTGCGCTTTGCTTCTTCAACCCTCCCTTATCAG-AGATCTAGGCCCAACTAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTACTGACACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCTCCTGTCCATGTGCTCCCAGGCACATCTTCAAGCCAAACTGAACGACTACCC---CGACAGTTGCAACAGCGGGAAGGCTCAGTGGGGTATCATGTTCCAGGAAGTGCTGCCAGCCCATGTCTTCCTCCACTGCCATCCCTCCAGGAAGTGGACTGCTGCTCTCCTAGCAGTTCAGAGGAGGAAGGCTCCTCAGGT---CCTACAACCTCACCATGTCTGAGCCGCCCAAGGCAGCGGCAGCCTCTACTCAGATCCATGAGTTCTGCTTTCTGCTCTTTGCTGATACCAGAACGGCAGGTTGACTGGGCAGCCACAACACTGATGCAAAATCGATGCACAGTTGTGGGTCAACTGGTCCAAGACACCCTGTCTCAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCCCTAAGTCGGGCACAAGCTATGCTAAGTGCAGAGCTGGGGCCGGAAGAGCTACTGCTACCAGAGTGGCTCagtaaggcacttcagaagtacgatttcaacacaaaatcccctggaattccc Alignment from CESAR agTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACT-GGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGg gctagaatcaactgtacgcacccctccccctggcctttcactgccaccagagTGCTGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTCCTGAAGCCTCACCTATACCTCAGCTAAAGGCTCGCTCCCCACAGGATCTGGCCCAAGGGTCTCGGAGCTGCGCTTTGCTTCTTCAACCCTCCCTTATCAG-AGATCTAGGCCCAACTAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTACTGACACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCTCCTGTCCATGTGCTCCCAGGCACATCTTCAAGCCAAACTGAACGACTACCC---CGACAGTTGCAACAGCGGGAAGGCTCAGTGGGGTATCATGTTCCAGGAAGTGCTGCCAGCCCATGTCTTCCTCCACTGCCATCCCTCCAGGAAGTGGACTGCTGCTCTCCTAGCAGTTCAGAGGAGGAAGGCTCCTCAGGT---CCTACAACCTCACCATGTCTGAGCCGCCCAAGGCAGCGGCAGCCTCTACTCAGATCCATGAGTTCTGCTTTCTGCTCTTTGCTGATACCAGAACGGCAGGTTGACTGGGCAGCCACAACACTGATGCAAAATCGATGCACAGTTGTGGGTCAACTGGTCCAAGACACCCTGTCTCAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCCCTAAGTCGGGCACAAGCTATGCTAAGTGCAGAGCTGGGGCCGGAAGAGCTACTGCTACCAGAGTGGCTCagtaaggcacttcagaagtacgatttcaacacaaaatcccctgggatctgc Alignment from Spaln_aa2Genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG gctagaatcaactgtacgcacccctccccctggcctttcactgccaccagAGTGCTGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTCCTGAAGCCTCACCTATACCTCAGCTAAAGGCTCGCTCCCCACAGGATCTGGCCCAAGGGTCTCGGAGCTGCGCTTTGCTTCTTCAACCCTCCCTTATCAGAGATCTAGGCCCAACTAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTACTGACACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCTCCTGTCCATGTGCTCCCAGGCACATCTTCAAGCCAAACTGAACGACTA---CCCCGACAGTTGCAACAGCGGGAAGGCTCAGTGGGGTATCATGTTCCAGGAAGTGCTGCCAGCCCATGTCTTCCTCCACTGCCATCCCTCCAGGAAGTGGACTGCTGCTCTCCTAGCAGTTCAGAGGAGGAAGGCTCCTCAGGT---CCTACAACCTCACCATGTCTGAGCCGCCCAAGGCAGCGGCAGCCTCTACTCAGATCCATGAGTTCTGCTTTCTGCTCTTTGCTGATACCAGAACGGCAGGTTGACTGGGCAGCCACAACACTGATGCAAAATCGATGCACAGTTGTGGGTCAACTGGTCCAAGACACCCTGTCTCAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCCCTAAGTCGGGCACAAGCTATGCTAAGTGCAGAGCTGGGGCCGGAAGAGCTACTGCTACCAGAGTGGCTCAgtaaggcacttcagaagtacgatttcaacacaaaatcccctggaattccc Alignment from Spaln_nt2Genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACT-GGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG gctagaatcaactgtacgcacccctccccctggcctttcactgccaccagAGTGCTGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTCCTGAAGCCTCACCTATACCTCAGCTAAAGGCTCGCTCCCCACAGGATCTGGCCCAAGGGTCTCGGAGCTGCGCTTTGCTTCTTCAACCCTCCCTT-ATCAGAGATCTAGGCCCAACTAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTACTGACACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCTCCTGTCCATGTGCTCCCAGGCACATCTTCAAGCCAAACTGAACGACTACCC---CGACAGTTGCAACAGCGGGAAGGCTCAGTGGGGTATCATGTTCCAGGAAGTGCTGCCAGCCCATGTCTTCCTCCACTGCCATCCCTCCAGGAAGTGGACTGCTGCTCTCCTAGCAGTTCAGAGGAGGAAGGCTCCTCAG---GTCCTACAACCTCACCATGTCTGAGCCGCCCAAGGCAGCGGCAGCCTCTACTCAGATCCATGAGTTCTGCTTTCTGCTCTTTGCTGATACCAGAACGGCAGGTTGACTGGGCAGCCACAACACTGATGCAAAATCGATGCACAGTTGTGGGTCAACTGGTCCAAGACACCCTGTCTCAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCCCTAAGTCGGGCACAAGCTATGCTAAGTGCAGAGCTGGGGCCGGAAGAGCTACTGCTACCAGAGTGGCTCAgtaaggcacttcagaagtacgatttcaacacaaaatcccctggaattccc Alignment from Pairagon AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACT-GGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCC----CGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG gctagaatcaactgtacgcacccctccccctggcctttcactgccaccagAGTGCTGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTCCTGAAGCCTCACCTATACCTCAGCTAAAGGCTCGCTCCCCACAGGATCTGGCCCAAGGGTCTCGGAGCTGCGCTTTGCTTCTTCAACCC-----TCCCTTATCAGAGATCTAGGCCCAACTAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTACTGACACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCTCCTGTCCATGTGCTCCCAGGCACATCTTCAAGCCAAACTGAACGACTACCC---CGACAGTTGCAACAGCGGGAAGGCTCAGTGGGGTATCATGTTCCAGGAAGTGCTGCCAGCCCATGTCTTCCTCCACTGCCATCCCTCCAGGAAGTGGACTGCTGCTCTCCTAGCAGTTCAGAGGAGGAAGGCTCCTCAG---GTCCTACAACCTCACCATGTCTGAGCCGCCCAAGGCAGCGGCAGCCTCTACTCAGATCCATGAGTTCTGCTTTCTGCTCTTTGCTGATACCAGAACGGCAGGTTGACTGGGCAGCCACAACACTGATGCAAAATCGATGCACAGTTGTGGGTCAACTGGTCCAAGACACCCTGTCTCAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCCCTAAGTCGGGCACAAGCTATGCTAAGTGCAGAGCTGGGGCCGGAAGAGCTACTGCTACCAGAGTGGCTCAgtaaggcacttcagaagtacgatttcaacacaaaatcccctggaattccc Alignment from Exonerate_protein2genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG gctagaatcaactgtacgcacccctccccctggcctttcactgccaccagAGTGCTGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTCCTGAAGCCTCACCTATACCTCAGCTAAAGGCTCGCTCCCCACAGGATCTGGCCCAAGGGTCTCGGAGCTGCGCTTTGCTTCTTCAACCCTCCCTTATCAGAGATCTAGGCCCAACTAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTACTGACACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCTCCTGTCCATGTGCTCCCAGGCACATCTTCAAGCCAAACTGAACGACTA---CCCCGACAGTTGCAACAGCGGGAAGGCTCAGTGGGGTATCATGTTCCAGGAAGTGCTGCCAGCCCATGTCTTCCTCCACTGCCATCCCTCCAGGAAGTGGACTGCTGCTCTCCTAGCAGTTCAGAGGAGGAAGGCTCCTCAGGT---CCTACAACCTCACCATGTCTGAGCCGCCCAAGGCAGCGGCAGCCTCTACTCAGATCCATGAGTTCTGCTTTCTGCTCTTTGCTGATACCAGAACGGCAGGTTGACTGGGCAGCCACAACACTGATGCAAAATCGATGCACAGTTGTGGGTCAACTGGTCCAAGACACCCTGTCTCAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCCCTAAGTCGGGCACAAGCTATGCTAAGTGCAGAGCTGGGGCCGGAAGAGCTACTGCTACCAGAGTGGCTCAgtaaggcacttcagaagtacgatttcaacacaaaatcccctggaattccc Alignment from Exonerate_coding2genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG gctagaatcaactgtacgcacccctccccctggcctttcactgccaccagAGTGCTGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTCCTGAAGCCTCACCTATACCTCAGCTAAAGGCTCGCTCCCCACAGGATCTGGCCCAAGGGTCTCGGAGCTGCGCTTTGCTTCTTCAACCCTCCCTTATCAGAGATCTAGGCCCAACTAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTACTGACACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCTCCTGTCCATGTGCTCCCAGGCACATCTTCAAGCCAAACTGAACGACTA---CCCCGACAGTTGCAACAGCGGGAAGGCTCAGTGGGGTATCATGTTCCAGGAAGTGCTGCCAGCCCATGTCTTCCTCCACTGCCATCCCTCCAGGAAGTGGACTGCTGCTCTCCTAGCAGTTCAGAGGAGGAAGGCTCCTCAGGT---CCTACAACCTCACCATGTCTGAGCCGCCCAAGGCAGCGGCAGCCTCTACTCAGATCCATGAGTTCTGCTTTCTGCTCTTTGCTGATACCAGAACGGCAGGTTGACTGGGCAGCCACAACACTGATGCAAAATCGATGCACAGTTGTGGGTCAACTGGTCCAAGACACCCTGTCTCAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCCCTAAGTCGGGCACAAGCTATGCTAAGTGCAGAGCTGGGGCCGGAAGAGCTACTGCTACCAGAGTGGCTCAgtaaggcacttcagaagtacgatttcaacacaaaatcccctggaattccc Alignment from GeneWise AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG gctagaatcaactgtacgcacccctccccctggcctttcactgccaccagAGTGCTGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTCCTGAAGCCTCACCTATACCTCAGCTAAAGGCTCGCTCCCCACAGGATCTGGCCCAAGGGTCTCGGAGCTGCGCTTTGCTTCTTCAACCCTCCCTTATCAGAGATCTAGGCCCAACTAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTACTGACACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCTCCTGTCCATGTGCTCCCAGGCACATCTTCAAGCCAAACTGAACGACTACCC---CGACAGTTGCAACAGCGGGAAGGCTCAGTGGGGTATCATGTTCCAGGAAGTGCTGCCAGCCCATGTCTTCCTCCACTGCCATCCCTCCAGGAAGTGGACTGCTGCTCTCCTAGCAGTTCAGAGGAGGAAGGCTCCTCAGGT---CCTACAACCTCACCATGTCTGAGCCGCCCAAGGCAGCGGCAGCCTCTACTCAGATCCATGAGTTCTGCTTTCTGCTCTTTGCTGATACCAGAACGGCAGGTTGACTGGGCAGCCACAACACTGATGCAAAATCGATGCACAGTTGTGGGTCAACTGGTCCAAGACACCCTGTCTCAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCCCTAAGTCGGGCACAAGCTATGCTAAGTGCAGAGCTGGGGCCGGAAGAGCTACTGCTACCAGAGTGGCTCAgtaaggcacttcagaagtacgatttcaacacaaaatcccctggaattccc #### Rin1_ID812_7 --> 2 - 1 Original Alignment aaTTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAG-GGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAg agtacgatttcaacacaaaatcccctgggatctgcctctggtttctttagaaTTGGTGCTGGAGAAGTCCCTGCATCGCTCGGTTCTCAAACCACTTCGACCTATCCTGGCTGCTCGCCTACGCCACCGGCTTTCTACTGATGGTTCTCTTGGTTGTCTAGCAGAGCGGCTTTCTCCTCACCCGAACCCAGGGACCTG-GGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTATGTCAGAAGCTTCTACAGCTCCTACGTGCGTACTCACCTAGTGCCCAAGTTAAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTGAAGAGCCAAGCAggtgagtgacaaccatcttcccctagggctagagcacatatcacacctcca Alignment from CESAR aaTTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAG-GGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAg agtacgatttcaacacaaaatcccctgggatctgcctctggtttctttagaaTTGGTGCTGGAGAAGTCCCTGCATCGCTCGGTTCTCAAACCACTTCGACCTATCCTGGCTGCTCGCCTACGCCACCGGCTTTCTACTGATGGTTCTCTTGGTTGTCTAGCAGAGCGGCTTTCTCCTCACCCGAACCCAGGGACCTG-GGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTATGTCAGAAGCTTCTACAGCTCCTACGTGCGTACTCACCTAGTGCCCAAGTTAAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTGAAGAGCCAAGCAggtgagtgacaaccatcttcccctagggctagagcacatatcacacctcca Alignment from Spaln_aa2Genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG agtacgatttcaacacaaaatcccctgggatctgcctctggtttctttagAATTGGTGCTGGAGAAGTCCCTGCATCGCTCGGTTCTCAAACCACTTCGACCTATCCTGGCTGCTCGCCTACGCCACCGGCTTTCTACTGATGGTTCTCTTGGTTGTCTAGCAGAGCGGCTTTCTCCTCACCCGAACCCAGGGACCTGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTATGTCAGAAGCTTCTACAGCTCCTACGTGCGTACTCACCTAGTGCCCAAGTTAAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTGAAGAGCCAAGCAGgtgagtgacaaccatcttcccctagggctagagcacatatcacacctcca Alignment from Spaln_nt2Genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAG-GGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG agtacgatttcaacacaaaatcccctgggatctgcctctggtttctttagAATTGGTGCTGGAGAAGTCCCTGCATCGCTCGGTTCTCAAACCACTTCGACCTATCCTGGCTGCTCGCCTACGCCACCGGCTTTCTACTGATGGTTCTCTTGGTTGTCTAGCAGAGCGGCTTTCTCCTCACCCGAACCCAGGGACCTGG-GCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTATGTCAGAAGCTTCTACAGCTCCTACGTGCGTACTCACCTAGTGCCCAAGTTAAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTGAAGAGCCAAGCAGgtgagtgacaaccatcttcccctagggctagagcacatatcacacctcca Alignment from Pairagon AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAG-GGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG agtacgatttcaacacaaaatcccctgggatctgcctctggtttctttagAATTGGTGCTGGAGAAGTCCCTGCATCGCTCGGTTCTCAAACCACTTCGACCTATCCTGGCTGCTCGCCTACGCCACCGGCTTTCTACTGATGGTTCTCTTGGTTGTCTAGCAGAGCGGCTTTCTCCTCACCCGAACCCAGGGACCTGG-GCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTATGTCAGAAGCTTCTACAGCTCCTACGTGCGTACTCACCTAGTGCCCAAGTTAAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTGAAGAGCCAAGCAGgtgagtgacaaccatcttcccctagggctagagcacatatcacacctcca Alignment from Exonerate_protein2genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG agtacgatttcaacacaaaatcccctgggatctgcctctggtttctttagAATTGGTGCTGGAGAAGTCCCTGCATCGCTCGGTTCTCAAACCACTTCGACCTATCCTGGCTGCTCGCCTACGCCACCGGCTTTCTACTGATGGTTCTCTTGGTTGTCTAGCAGAGCGGCTTTCTCCTCACCCGAACCCAGGGACCTGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTATGTCAGAAGCTTCTACAGCTCCTACGTGCGTACTCACCTAGTGCCCAAGTTAAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTGAAGAGCCAAGCAGgtgagtgacaaccatcttcccctagggctagagcacatatcacacctcca Alignment from Exonerate_coding2genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG agtacgatttcaacacaaaatcccctgggatctgcctctggtttctttagAATTGGTGCTGGAGAAGTCCCTGCATCGCTCGGTTCTCAAACCACTTCGACCTATCCTGGCTGCTCGCCTACGCCACCGGCTTTCTACTGATGGTTCTCTTGGTTGTCTAGCAGAGCGGCTTTCTCCTCACCCGAACCCAGGGACCTGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTATGTCAGAAGCTTCTACAGCTCCTACGTGCGTACTCACCTAGTGCCCAAGTTAAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTGAAGAGCCAAGCAGgtgagtgacaaccatcttcccctagggctagagcacatatcacacctcca Alignment from GeneWise AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG agtacgatttcaacacaaaatcccctgggatctgcctctggtttctttagAATTGGTGCTGGAGAAGTCCCTGCATCGCTCGGTTCTCAAACCACTTCGACCTATCCTGGCTGCTCGCCTACGCCACCGGCTTTCTACTGATGGTTCTCTTGGTTGTCTAGCAGAGCGGCTTTCTCCTCACCCGAACCCAGGGACCTGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTATGTCAGAAGCTTCTACAGCTCCTACGTGCGTACTCACCTAGTGCCCAAGTTAAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTGAAGAGCCAAGCAGgtgagtgacaaccatcttcccctagggctagagcacatatcacacctcca #### Rnaseh2c_ID1104_3 --> 0 - 0 Original Alignment GACCGCCTTATCGGGGCCACC-GGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG attttgcacaagtgtgtccaatgtacaaataagactttttctttatccagGACCGCCTTATCGGGGCCACTCGGAAGCTTCAGCCATTTCACCTTGTGGGATCTGGAAACAGTCC-AGGTCCAGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTCGCAGCAGCAgtgaggaggctgaagaaatttacctccaatggctgacaattcctttatct Alignment from CESAR GACCGCCTTATCGGGGCCACC-GGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG attttgcacaagtgtgtccaatgtacaaataagactttttctttatccagGACCGCCTTATCGGGGCCACTCGGAAGCTTCAGCCATTTCACCTTGTGGGATCTGGAAACAG-TCCAGGTCCAGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTCGCAGCAGCAgtgaggaggctgaagaaatttacctccaatggctgacaattcctttatct Alignment from Spaln_aa2Genome GACCGCCTTATCGGGGCCACCGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG attttgcacaagtgtgtccaatgtacaaataagactttttctttatccagGACCGCCTTATCGGGGCCACTCGGAAGCTTCAGCCATTTCACCTTGTGGGATCTGGAAACAGTCCAGGTCCAGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTCGCAGCAGCAgtgaggaggctgaagaaatttacctccaatggctgacaattcctttatct Alignment from Spaln_nt2Genome CTGGAGCGGGA CTTCGACCGCCTTATCGGGGCCAC-CGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG ATTTTGCACAAgtgtgtccaatgtacaaataagactttttctttatccag----GACCGCCTTATCGGGGCCACTCGGAAGCTTCAGCCATTTCACCTTGTGGGATCTGGAAACAGT-CCAGGTCCAGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTCGCAGCAGCAgtgaggaggctgaagaaatttacctccaatggctgacaattcctttatct Alignment from Pairagon GACCGCCTTATCGGGGCCAC-CGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG attttgcacaagtgtgtccaatgtacaaataagactttttctttatccagGACCGCCTTATCGGGGCCACTCGGAAGCTTCAGCCATTTCACCTTGTGGGATCTGGAAACAGT-CCAGGTCCAGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTCGCAGCAGCAgtgaggaggctgaagaaatttacctccaatggctgacaattcctttatct Alignment from Exonerate_protein2genome attttgcacaagtgtgtccaatgtacaaataagactttttctttatccaggaccgccttatcggggccactcggaagcttcagccatttcaccttgtgggatctggaaacagtccaggtccagatgccatagtgcatagggccctaggatggcccaccctcgcagcagcagtgaggaggctgaagaaatttacctccaatggctgacaattcctttatct Alignment from Exonerate_coding2genome CCGCCTTATCGGGGCCAC-CGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCGATT attttgcacaagtgtgtccaatgtacaaataagactttttctttatccaggaCCGCCTTATCGGGGCCACTCGGAAGCTTCAGCCATTTCACCTTGTGGGATCTGGAAACAGT-CCAGGTCCAGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTCGCAGCAGCAGTGaggaggctgaagaaatttacctccaatggctgacaattcctttatct Alignment from GeneWise GACCGCCTTATCGGGGCCACCGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCGATTCACGCCCAGGTCCCTGAGGAC attttgcacaagtgtgtccaatgtacaaataagactttttctttatccagGACCGCCTTATCGGGGCCACTCGGAAGCTTCAGCCATTTCACCTTGTGGGATCTGGAAACAGTCCAGGTCCAGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTCGCAGCAGCAGTGAGGAGGCTGAAGAAATTTACCtccaatggctgacaattcctttatct #### Rom1_ID2497_2 --> 1 - 0 Original Alignment cCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCC-CAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ttcagtcccgcttcactacatctcatttgtccagacctttcctcttacagtCAGATTCCAAGCAATATAGAAGGATTATACCTGATTGATGGGGTTCCGTTCTCCTGCTGTAATCCCCACTCACCA------TGCCTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCACTTCTT---CCTCAGCAGCCAAATCTAAACCTGTGGTCCCCAAGGATGCCACAAAGTGCTGTTGGAAC-CCTGCAGGGTTTATCTGGGACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGgtaaagcatcaagatctctaacttccatactctatttttagacctaaaac Alignment from CESAR cCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCC-CAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ttcagtcccgcttcactacatctcatttgtccagacctttcctcttacagtCAGATTCCAAGCAATATAGAAGGATTATACCTGATTGATGGGGTTCCGTTCTCCTGCTGTAATCCCCACTCA------CCATGCCTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCACTTCTT---CCTCAGCAGCCAAATCTAAACCTGTGGTCCCCAAGGATGCCACAAAGTGCTGTTGGAA-CCCTGCAGGGTTTATCTGGGACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGgtaaagcatcaagatctctaacttccatactctatttttagacctaaaac Alignment from Spaln_aa2Genome CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ttcagtcccgcttcactacatctcatttgtccagacctttcctcttacagTCAGATTCCAAGCAATATAGAAGGATTATACCTGATTGATGGGGTTCCGTTCTCCTGCTGTAATCCCCACTCA------CCATGCCTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCACTTCTT---CCTCAGCAGCCAAATCTAAACCTGTGGTCCCCAAGGATGCCACAAAGTGCTGTTGGAACCCTGCAGGGTTTATCTGGGACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGgtaaagcatcaagatctctaacttccatactctatttttagacctaaaac Alignment from Spaln_nt2Genome CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCC-AAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ttcagtcccgcttcactacatctcatttgtccagacctttcctcttacagTCAGATTCCAAGCAATATAGAAGGATTATACCTGATTGATGGGGTTCCGTTCTCCTGCTGTAATCCCCACTCA------CCATGCCTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCACTTCT---TCCTCAGCAGCCAAATCTAAACCTGTGGTCCCCAAGGATGCCACAAAGTGCTGTTGGAAC-CCTGCAGGGTTTATCTGGGACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGgtaaagcatcaagatctctaacttccatactctatttttagacctaaaac Alignment from Pairagon CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGG-GCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ttcagtcccgcttcactacatctcatttgtccagacctttcctcttacagTCAGATTCCAAGCAATATAGAAGGATTATACCTGATTGATGGGGTTCCGTTCTCCTGCTGTAATCCCCACTCACCA------TGCCTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCACTTCT---TCCTCAGCAGCCAAATCTAAACCTGTGGTCCCCAAGGATGCCACAAAGTGCTGTTGGAAC-CCTGCAGGGTTTATCTGGGACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGgtaaagcatcaagatctctaacttccatactctatttttagacctaaaac Alignment from Exonerate_protein2genome CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ttcagtcccgcttcactacatctcatttgtccagacctttcctcttacagTCAGATTCCAAGCAATATAGAAGGATTATACCTGATTGATGGGGTTCCGTTCTCCTGCTGTAATCCCCACTCA------CCATGCCTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCACTTCTT---CCTCAGCAGCCAAATCTAAACCTGTGGTCCCCAAGGATGCCACAAAGTGCTGTTGGAACCCTGCAGGGTTTATCTGGGACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGgtaaagcatcaagatctctaacttccatactctatttttagacctaaaac Alignment from Exonerate_coding2genome CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ttcagtcccgcttcactacatctcatttgtccagacctttcctcttacagTCAGATTCCAAGCAATATAGAAGGATTATACCTGATTGATGGGGTTCCGTTCTCCTGCTGTAATCCCCACTCA------CCATGCCTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCACTTCTT---CCTCAGCAGCCAAATCTAAACCTGTGGTCCCCAAGGATGCCACAAAGTGCTGTTGGAACCCTGCAGGGTTTATCTGGGACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGgtaaagcatcaagatctctaacttccatactctatttttagacctaaaac Alignment from GeneWise CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ttcagtcccgcttcactacatctcatttgtccagacctttcctcttacagTCAGATTCCAAGCAATATAGAAGGATTATACCTGATTGATGGGGTTCCGTTCTCCTGCTGTAATCCCCACTCACCA------TGCCTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCACTTCTT---CCTCAGCAGCCAAATCTAAACCTGTGGTCCCCAAGGATGCCACAAAGTGCTGTTGGAACCCTGCAGGGTTTATCTGGGACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGgtaaagcatcaagatctctaacttccatactctatttttagacctaaaac #### Rps6kb2_ID368_14 --> 0 - 2 Original Alignment GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCC-TTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCag gaagggggttgtgccacttggctttactctgaattcccttcctctgccagGGTTTTATGTATGTGGCGCCTTTCGTCCTAGACAGCATCAAAGAAGGTTTCTCACTTCCAGCCCAAGCTGCGTTCTCCACGATGCCTCAACAGCAGTC-CCGCACACCCATCaggtgagtggcagggcagataaatatctagtccatgactttcaaaaatgcac Alignment from CESAR GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCC-TTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCag gaagggggttgtgccacttggctttactctgaattcccttcctctgccagGGTTTTATGTATGTGGCGCCTTTCGTCCTAGACAGCATCAAAGAAGGTTTCTCACTTCCAGCCCAAGCTGCGTTCTCCACGATGCCTCAACAGCAGTC-CCGCACACCCATCaggtgagtggcagggcagataaatatctagtccatgactttcaaaaatgcac Alignment from Spaln_aa2Genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCC-TTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAGC----- gaagggggttgtgccacttggctttactctgaattcccttcctctgccagGGTTTTATGTATGTGGCGCCTTTCGTCCTAGACAGCATCAAAGAAGGTTTCTCAcTTCCAGCCCAAGCTGCGTTCTCCACGATGCCTCAACAGCAGTCCCGCACACCCATCAGGTGAGTGgcagggcagataaatatctagtccatgactttcaaaaatgcac Alignment from Spaln_nt2Genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTC-CTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAG gaagggggttgtgccacttggctttactctgaattcccttcctctgccagGGTTTTATGTATGTGGCGCCTTTCGTCCTAGACAGCATCAAAGAAGGTTTCTCACTTCCAGCCCAAGCTGCGTTCTCCACGATGCCTCAACAGCAGT-CCCGCACACCCATCAGgtgagtggcagggcagataaatatctagtccatgactttcaaaaatgcac Alignment from Pairagon GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTC-CTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAG gaagggggttgtgccacttggctttactctgaattcccttcctctgccagGGTTTTATGTATGTGGCGCCTTTCGTCCTAGACAGCATCAAAGAAGGTTTCTCACTTCCAGCCCAAGCTGCGTTCTCCACGATGCCTCAACAGCAGT-CCCGCACACCCATCAGgtgagtggcagggcagataaatatctagtccatgactttcaaaaatgcac Alignment from Exonerate_protein2genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCC-TTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCA gaagggggttgtgccacttggctttactctgaattcccttcctctgccagGGTTTTATGTATGTGGCGCCTTTCGTCCTAGACAGCATCAAAGAAGGTTTCTCACTTCCAGCCCAAGCTGCGTTCTCCACGATGCCTCAACAGCAGTCCCGCACACCCATCAGgtgagtggcagggcagataaatatctagtccatgactttcaaaaatgcac Alignment from Exonerate_coding2genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCC-TTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCA gaagggggttgtgccacttggctttactctgaattcccttcctctgccagGGTTTTATGTATGTGGCGCCTTTCGTCCTAGACAGCATCAAAGAAGGTTTCTCACTTCCAGCCCAAGCTGCGTTCTCCACGATGCCTCAACAGCAGTCCCGCACACCCATCAGgtgagtggcagggcagataaatatctagtccatgactttcaaaaatgcac Alignment from GeneWise GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTC-TCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAGC-- gaagggggttgtgccacttggctttactctgaattcccttcctctgccagGGTTTTATGTATGTGGCGCCTTTCGTCCTAGACAGCATCAAAGAAGGTTTCTCACTTCCAGCCCAAGCTGCGTTCTCCACGATGCCTCAACAGCAGTCCCGCACACCCATCAGGTGAgtggcagggcagataaatatctagtccatgactttcaaaaatgcac #### Rrp12_ID8295_28 --> 1 - 1 Original Alignment cATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGG-GGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTg agctagggctgggtagcctcattatttgcttctccttttcctgttaacagcATTGAGGAAATTTCAGCTGACTCAGAGGACGAGTTTGAGGAAGAACAAAGAGGCCGACGGCAAAGAGCAA------TTGGTG------AGGAGCC-ATCATGG---AAGGATGGAGGTGGT---GCGCCTCTCAATTTC------CCAAAAGTAGCACATCGTGTCCAGggtaagaaggggtaaggttacccccctttgttgatggggtcatgggatagg Alignment from CESAR cATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGG-GGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTg agctagggctgggtagcctcattatttgcttctccttttcctgttaacagcATTGAGGAAATTTCAGCTGACTCAGAGGACGAGTTTGAGGAAGAACAAAGAGGCCGACGGCAAAGAGCAA------TTGGTG------AGGAGC-CATCATGG---AAGGATGGAGGTGGT---GCGCCTCTCAATTTC------CCAAAAGTAGCACATCGTGTCCAGggtaagaaggggtaaggttacccccctttgttgatggggtcatgggatagg Alignment from Spaln_aa2Genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG agctagggctgggtagcctcattatttgcttctccttttcctgttaacagCATTGAGGAAATTTCAGCTGACTCAGAGGACGAGTTTGAGGAAGAACAAAGAGGCCGACGG------CAAAGAGCAATTGGTGAGGAGCCATCA------TGG---AAGGATGGAGGTGGT---GCGCCTCTCAATTTC------CCAAAAGTAGCACATCGTGTCCAGGgtaagaaggggtaaggttacccccctttgttgatggggtcatgggatagg Alignment from Spaln_nt2Genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGG-GGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG agctagggctgggtagcctcattatttgcttctccttttcctgttaacagCATTGAGGAAATTTCAGCTGACTCAGAGGACGAGTTTGAGGAAGAACAAAGAGGCCGACGGCAAAGAGC------AATTGG------TGAGGAGCC-ATCATG---GAAGGATGGAGGTGG---TGCGCCTCTCAATTTC------CCAAAAGTAGCACATCGTGTCCAGGgtaagaaggggtaaggttacccccctttgttgatggggtcatgggatagg Alignment from Pairagon CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGG-GGCAAGGAGCA-------------------GCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG agctagggctgggtagcctcattatttgcttctccttttcctgttaacagCATTGAGGAAATTTCAGCTGACTCAGAGGACGAGTTTGAGGAAGAACAAAGAGGCCGACGGCAAAGAGCAATTGGTGAGGAGCCATCATG-----------------------------------GAAGGATGGAGGTGG---TGCGCCTCTCAATTTC------CCAAAAGTAGCACATCGTGTCCAGGgtaagaaggggtaaggttacccccctttgttgatggggtcatgggatagg Alignment from Exonerate_protein2genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG agctagggctgggtagcctcattatttgcttctccttttcctgttaacagCATTGAGGAAATTTCAGCTGACTCAGAGGACGAGTTTGAGGAAGAACAAAGAGGCCGA------CGGCAAAGAGCAATTGGTGAGGAGCCATCA------TGG---AAGGATGGAGGTGGT---GCGCCTCTCAATTTC------CCAAAAGTAGCACATCGTGTCCAGGgtaagaaggggtaaggttacccccctttgttgatggggtcatgggatagg Alignment from Exonerate_coding2genome agctagggctgggtagcctcattatttgcttctccttttcctgttaacagcattgaggaaatttcagctgactcagaggacgagtttgaggaagaacaaagaggccgacggcaaagagcaattggtgaggagccatcatggaaggatggaggtggtgcgcctctcaatttcccaaaagtagcacatcgtgtccagggtaagaaggggtaaggttacccccctttgttgatggggtcatgggatagg Alignment from GeneWise CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG agctagggctgggtagcctcattatttgcttctccttttcctgttaacagCATTGAGGAAATTTCAGCTGACTCAGAGGACGAGTTTGAGGAAGAACAAAGAGGCCGA------CGGCAAAGAGCAATTGGTGAGGAGCCATCA------TGG---AAGGATGGAGGTGGT---GCGCCTCTCAATTTC------CCAAAAGTAGCACATCGTGTCCAGGgtaagaaggggtaaggttacccccctttgttgatggggtcatgggatagg #### Rrp12_ID8296_27 --> 1 - 2 Original Alignment aTTCGAGTTGGTGAAGGGTCTGCTA-CCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACag atgccattcagacatcaattcctggcgataagtttcctctccttctgcaggTATGAATTGGTCAAGGGATTGTTACCCTGCAGAGTACCACAAAGTACTGATAAACA-GAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCCGTGCAAAGCAAAGGTGACaggtatgtccaattctcttctcagcaatgagttagctagggctgggtagcct Alignment from CESAR aTTCGAGTTGGTGAAGGGTCTGCTACCC-GCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACag atgccattcagacatcaattcctggcgataagtttcctctccttctgcaggTATGAATTGGTCAAGGGATTGTTACCCTGCAGAGTACCACAAAGTACTGATAAAC-AGAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCCGTGCAAAGCAAAGGTGACaggtatgtccaattctcttctcagcaatgagttagctagggctgggtagcct Alignment from Spaln_aa2Genome ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG atgccattcagacatcaattcctggcgataagtttcctctccttctgcagGTATGAATTGGTCAAGGGATTGTTACCCTGCAGAGTACCACAAAGTACTGATAAACAGAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCCGTGCAAAGCAAAGGTGACAGgtatgtccaattctcttctcagcaatgagttagctagggctgggtagcct Alignment from Spaln_nt2Genome ATTCGAGTTGGTGAAGGGTCTGCTACCC-GCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG atgccattcagacatcaattcctggcgataagtttcctctccttctgcagGTATGAATTGGTCAAGGGATTGTTACCCTGCAGAGTACCACAAAGTACTGATAAACA-GAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCCGTGCAAAGCAAAGGTGACAGgtatgtccaattctcttctcagcaatgagttagctagggctgggtagcct Alignment from Pairagon ATTCGAGTTGGTGAAGGGTCTGCTACCC-GCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG atgccattcagacatcaattcctggcgataagtttcctctccttctgcagGTATGAATTGGTCAAGGGATTGTTACCCTGCAGAGTACCACAAAGTACTGATAAACA-GAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCCGTGCAAAGCAAAGGTGACAGgtatgtccaattctcttctcagcaatgagttagctagggctgggtagcct Alignment from Exonerate_protein2genome ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG atgccattcagacatcaattcctggcgataagtttcctctccttctgcagGTATGAATTGGTCAAGGGATTGTTACCCTGCAGAGTACCACAAAGTACTGATAAACAGAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCCGTGCAAAGCAAAGGTGACAGgtatgtccaattctcttctcagcaatgagttagctagggctgggtagcct Alignment from Exonerate_coding2genome ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG atgccattcagacatcaattcctggcgataagtttcctctccttctgcagGTATGAATTGGTCAAGGGATTGTTACCCTGCAGAGTACCACAAAGTACTGATAAACAGAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCCGTGCAAAGCAAAGGTGACAGgtatgtccaattctcttctcagcaatgagttagctagggctgggtagcct Alignment from GeneWise ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG atgccattcagacatcaattcctggcgataagtttcctctccttctgcagGTATGAATTGGTCAAGGGATTGTTACCCTGCAGAGTACCACAAAGTACTGATAAACAGAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCCGTGCAAAGCAAAGGTGACAGgtatgtccaattctcttctcagcaatgagttagctagggctgggtagcct #### Rrp12_ID8302_21 --> 0 - 0 Original Alignment AGCAAGGTCCACGGTGTACAGAAGAAGGCCTACCGCGTGCTGGAGGAGGTGTGTGCCAGTTCTCAGGGCCCGGCAGCCCGCTTCGTGCAGAGCCACCTGGATGAT-CTGAAGAAGACTCTGCTGGACTCGCTTCGGACCACATCCTCGCCTGCTAAAAGG tattaacacttgagcctgtttttacctgtgtgtgttctcttcctgcccagAGTAAAGTACATGGAATACAGAAAAAGGCTTTCCGTGTCCTGGAAGAAGTTTGTGACAGCTCTCAGGGCCCAGCAGCTCACTTATTGCAAAGCCACCGCGATGATCCTGAAAAAAACTCTCCTGGACTCACTTCGGA-AACATCATCCCCTGCAAAAAGGgtatctgctctgacttgatccaccaaatacaggtgagggtgtgtgcaagc Alignment from CESAR AGCAAGGTCCACGGTGTACAGAAGAAGGCCTACCGCGTGCTGGAGGAGGTGTGTGCCAGTTCTCAGGGCCCGGCAGCCCGCTTCGTGCAGAGCCACCTGGATGAT-CTGAAGAAGACTCTGCTGGACTCGCTTCGGACCACATCCTCGCCTGCTAAAAGG tattaacacttgagcctgtttttacctgtgtgtgttctcttcctgcccagAGTAAAGTACATGGAATACAGAAAAAGGCTTTCCGTGTCCTGGAAGAAGTTTGTGACAGCTCTCAGGGCCCAGCAGCTCACTTATTGCAAAGCCACCGCGATGATCCTGAAAAAAACTCTCCTGGACTCACTTCGG-AAACATCATCCCCTGCAAAAAGGgtatctgctctgacttgatccaccaaatacaggtgagggtgtgtgcaagc Alignment from Spaln_aa2Genome AGCAAGGTCCACGGTGTACAGAAGAAGGCCTACCGCGTGCTGGAGGAGGTGTGTGCCAGTTCTCAGGGCCCGGCAGCCCGCTTCGTGCAGAGCCACCTGGATGAT-CTGAAGAAGACTCTGCTGGACTCGCTTCGGACCACATCCTCGCCTGCTAAAAGG tattaacacttgagcctgtttttacctgtgtgtgttctcttcctgcccagAGTAAAGTACATGGAATACAGAAAAAGGCTTTCCGTGTCCTGGAAGAAGTTTGTGACAGCTCTCAGGGCCCAGCAGCTCACTTATTGCAAAGCCACCGCGATGATcCTGAAAAAAACTCTCCTGGACTCACTTCGGAA-ACATCATCCCCTGCAAAAAGGgtatctgctctgacttgatccaccaaatacaggtgagggtgtgtgcaagc Alignment from Spaln_nt2Genome AGCAAGGTCCACGGTGTACAGAAGAAGGCCTACCGCGTGCTGGAGGAGGTGTGTGCCAGTTCTCAGGGCCCGGCAGCCCGCTTCGTGCAGAGCCACCTGGATGATC-TGAAGAAGACTCTGCTGGACTCGCTTCGGACCACATCCTCGCCTGCTAAAAGG tattaacacttgagcctgtttttacctgtgtgtgttctcttcctgcccagAGTAAAGTACATGGAATACAGAAAAAGGCTTTCCGTGTCCTGGAAGAAGTTTGTGACAGCTCTCAGGGCCCAGCAGCTCACTTATTGCAAAGCCACCGCGATGATCCTGAAAAAAACTCTCCTGGACTCACTTCGGA-AACATCATCCCCTGCAAAAAGGgtatctgctctgacttgatccaccaaatacaggtgagggtgtgtgcaagc Alignment from Pairagon AGCAAGGTCCACGGTGTACAGAAGAAGGCCTACCGCGTGCTGGAGGAGGTGTGTGCCAGTTCTCAGGGCCCGGCAGCCCGCTTCGTGCAGAGCCACCTGGATGAT-CTGAAGAAGACTCTGCTGGACTCGCTTCGGACCACATCCTCGCCTGCTAAAAGG tattaacacttgagcctgtttttacctgtgtgtgttctcttcctgcccagAGTAAAGTACATGGAATACAGAAAAAGGCTTTCCGTGTCCTGGAAGAAGTTTGTGACAGCTCTCAGGGCCCAGCAGCTCACTTATTGCAAAGCCACCGCGATGATCCTGAAAAAAACTCTCCTGGACTCACTTCGGA-AACATCATCCCCTGCAAAAAGGgtatctgctctgacttgatccaccaaatacaggtgagggtgtgtgcaagc Alignment from Exonerate_protein2genome AGCAAGGTCCACGGTGTACAGAAGAAGGCCTACCGCGTGCTGGAGGAGGTGTGTGCCAGTTCTCAGGGCCCGGCAGCCCGCTTCGTGCAGAGCCACCTGGATGATCTGAAGAAGACTCTGCTGGACTCGCTTCGGACCACATCCTCGCCTGCTAAAAGG tattaacacttgagcctgtttttacctgtgtgtgttctcttcctgcccagAGTAAAGTACATGGAATACAGAAAAAGGCTTTCCGTGTCCTGGAAGAAGTTTGTGACAGCTCTCAGGGCCCAGCAGCTCACTTATTGCAAAGCCACCGCGATGATCCTGAAAAAAACTCTCCTGGACTCACTTCGGAAACATCATCCCCTGCAAAAAGGgtatctgctctgacttgatccaccaaatacaggtgagggtgtgtgcaagc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AGCAAGGTCCACGGTGTACAGAAGAAGGCCTACCGCGTGCTGGAGGAGGTGTGTGCCAGTTCTCAGGGCCCGGCAGCCCGCTTCGTGCAGAGCCACCTGGATGATCTGAAGAAGACTCTGCTGGACTCGCTTCGGACCACATCCTCGCCTGCTAAAAGG tattaacacttgagcctgtttttacctgtgtgtgttctcttcctgcccagAGTAAAGTACATGGAATACAGAAAAAGGCTTTCCGTGTCCTGGAAGAAGTTTGTGACAGCTCTCAGGGCCCAGCAGCTCACTTATTGCAAAGCCACCGCGATGATCCTGAAAAAAACTCTCCTGGACTCACTTCGGAAACATCATCCCCTGCAAAAAGGgtatctgctctgacttgatccaccaaatacaggtgagggtgtgtgcaagc #### Rrp12_ID8308_15 --> 1 - 1 Original Alignment gGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGAT-CATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAg cagggggctggttcaataagctttcgcttttttttcgcatttaattttaggGAAACTCTGGACTTT---CAGAGCTGGTTGCTGTCTGTCATCCGGGATCTATGTCCAGGAAACCCGGCTTGGTTTCTTCA-CACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAggtacatagcttttctttctataaaatacaggtcacagaaggaatatcagt Alignment from CESAR gGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGAT-CATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAg cagggggctggttcaataagctttcgcttttttttcgcatttaattttaggGAAACTCTGGACTTT---CAGAGCTGGTTGCTGTCTGTCATCCGGGATCTATGTCCAGGAAACCCGGCTTGGTTTCTTCA-CACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAggtacatagcttttctttctataaaatacaggtcacagaaggaatatcagt Alignment from Spaln_aa2Genome GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG cagggggctggttcaataagctttcgcttttttttcgcatttaattttagGGAAACTCTGGACTTT---CAGAGCTGGTTGCTGTCTGTCATCCGGGATCTATGTCCAGGAAACCCGGCTTGGTTTCTTCACACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtacatagcttttctttctataaaatacaggtcacagaaggaatatcagt Alignment from Spaln_nt2Genome GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATC-ATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG cagggggctggttcaataagctttcgcttttttttcgcatttaattttagGGAAACTCTGGACTT---TCAGAGCTGGTTGCTGTCTGTCATCCGGGATCTATGTCCAGGAAACCCGGCTTGGTTTCTTCA-CACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtacatagcttttctttctataaaatacaggtcacagaaggaatatcagt Alignment from Pairagon GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATC-ATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG cagggggctggttcaataagctttcgcttttttttcgcatttaattttagGGAAACTCTGGACTTT---CAGAGCTGGTTGCTGTCTGTCATCCGGGATCTATGTCCAGGAAACCCGGCTTGGTTTCTTCA-CACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtacatagcttttctttctataaaatacaggtcacagaaggaatatcagt Alignment from Exonerate_protein2genome GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG cagggggctggttcaataagctttcgcttttttttcgcatttaattttagGGAAACTCTGGACTTT---CAGAGCTGGTTGCTGTCTGTCATCCGGGATCTATGTCCAGGAAACCCGGCTTGGTTTCTTCACACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtacatagcttttctttctataaaatacaggtcacagaaggaatatcagt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG cagggggctggttcaataagctttcgcttttttttcgcatttaattttagGGAAACTCTGGACTTT---CAGAGCTGGTTGCTGTCTGTCATCCGGGATCTATGTCCAGGAAACCCGGCTTGGTTTCTTCACACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtacatagcttttctttctataaaatacaggtcacagaaggaatatcagt #### Sart1_ID956_19 --> 0 - 2 Original Alignment CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTG-GCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATgc ataatatgtcaaaattggcagcgctgactgagcctgtgcttctccttaagCTTCGTAAGAAAATGAGCTCTAGTGATACACCCCTGGGAACGGTGCGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGACACCTC-AATTGTACTCAGTGGCAGTGGCAAGAGCATGAATgcgtgagtgggtaggagttggcagcttggatggtgtgctgaataattagtga Alignment from CESAR CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTG-GCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATgc ataatatgtcaaaattggcagcgctgactgagcctgtgcttctccttaagCTTCGTAAGAAAATGAGCTCTAGTGATACACCCCTGGGAACGGTGCGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGACACCT-CAATTGTACTCAGTGGCAGTGGCAAGAGCATGAATgcgtgagtgggtaggagttggcagcttggatggtgtgctgaataattagtga Alignment from Spaln_aa2Genome CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGC ataatatgtcaaaattggcagcgctgactgagcctgtgcttctccttaagCTTCGTAAGAAAATGAGCTCTAGTGATACACCCCTGGGAACGGTGCGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGACACCTCAATTGTACTCAGTGGCAGTGGCAAGAGCATGAATGCgtgagtgggtaggagttggcagcttggatggtgtgctgaataattagtga Alignment from Spaln_nt2Genome CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTG-GCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGC ataatatgtcaaaattggcagcgctgactgagcctgtgcttctccttaagCTTCGTAAGAAAATGAGCTCTAGTGATACACCCCTGGGAACGGTGCGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGACACC-TCAATTGTACTCAGTGGCAGTGGCAAGAGCATGAATGCgtgagtgggtaggagttggcagcttggatggtgtgctgaataattagtga Alignment from Pairagon -------------------------------------------------GCTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTG-GCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGC ATAATATGTCAAAATTGGCAGCGCTGACTGAGCCTGTGCTTCTCCTTAAGCTTCGTAAGAAAATGAGCTCTAGTGATACACCCCTGGGAACGGTGCGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGACACCTCA-ATTGTACTCAGTGGCAGTGGCAAGAGCATGAATGCgtgagtgggtaggagttggcagcttggatggtgtgctgaataattagtga Alignment from Exonerate_protein2genome CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGCG ataatatgtcaaaattggcagcgctgactgagcctgtgcttctccttaagCTTCGTAAGAAAATGAGCTCTAGTGATACACCCCTGGGAACGGTGCGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGACACCTCAATTGTACTCAGTGGCAGTGGCAAGAGCATGAATGCGtgagtgggtaggagttggcagcttggatggtgtgctgaataattagtga Alignment from Exonerate_coding2genome CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGCG ataatatgtcaaaattggcagcgctgactgagcctgtgcttctccttaagCTTCGTAAGAAAATGAGCTCTAGTGATACACCCCTGGGAACGGTGCGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGACACCTCAATTGTACTCAGTGGCAGTGGCAAGAGCATGAATGCGtgagtgggtaggagttggcagcttggatggtgtgctgaataattagtga Alignment from GeneWise CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGCG ataatatgtcaaaattggcagcgctgactgagcctgtgcttctccttaagCTTCGTAAGAAAATGAGCTCTAGTGATACACCCCTGGGAACGGTGCGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGACACCTCAATTGTACTCAGTGGCAGTGGCAAGAGCATGAATGCGtgagtgggtaggagttggcagcttggatggtgtgctgaataattagtga #### Sart1_ID957_18 --> 0 - 0 Original Alignment GCATTCCGGCAG-CTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG cccacttctagtgggttcactcaccctcagggttcttcctccacccacagGCTTTCCGGCAACCTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGA-AACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCAgtaactctgaagccaggtggctagtctccattcctgtgaaatataatatg Alignment from CESAR GCATTCCGGCAG-CTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG cccacttctagtgggttcactcaccctcagggttcttcctccacccacagGCTTTCCGGCAACCTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGA-AACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCAgtaactctgaagccaggtggctagtctccattcctgtgaaatataatatg Alignment from Spaln_aa2Genome GCATTCCGGCAG-CTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG cccacttctagtgggttcactcaccctcagggttcttcctccacccacagGCTTTCCGGCAAcCTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAA-ACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCAgtaactctgaagccaggtggctagtctccattcctgtgaaatataatatg Alignment from Spaln_nt2Genome GCATTCCGGCAGC-TGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG cccacttctagtgggttcactcaccctcagggttcttcctccacccacagGCTTTCCGGCAACCTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAA-ACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCAgtaactctgaagccaggtggctagtctccattcctgtgaaatataatatg Alignment from Pairagon GCATTCCGGCAG-CTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG cccacttctagtgggttcactcaccctcagggttcttcctccacccacagGCTTTCCGGCAACCTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAA-ACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCAgtaactctgaagccaggtggctagtctccattcctgtgaaatataatatg Alignment from Exonerate_protein2genome cccacttctagtgggttcactcaccctcagggttcttcctccacccacaggctttccggcaacctgtcccaccgcttccatggaaagggctcaggcaagatgaaactgagcggtggatgaagaagctggatgaggaggcagtaactctgaagccaggtggctagtctccattcctgtgaaatataatatg Alignment from Exonerate_coding2genome cccacttctagtgggttcactcaccctcagggttcttcctccacccacaggctttccggcaacctgtcccaccgcttccatggaaagggctcaggcaagatgaaactgagcggtggatgaagaagctggatgaggaggcagtaactctgaagccaggtggctagtctccattcctgtgaaatataatatg Alignment from GeneWise cccacttctagtgggttcactcaccctcagggttcttcctccacccacaggctttccggcaacctgtcccaccgcttccatggaaagggctcaggcaagatgaaactgagcggtggatgaagaagctggatgaggaggcagtaactctgaagccaggtggctagtctccattcctgtgaaatataatatg #### Sart1_ID960_15 --> 0 - 1 Original Alignment TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAG-CCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAg tggcagggcaatctggggccaccttttcgtgacccttggtccccacacagTTCTCTGCTTCTTCTACAACTATCTTGGATGAGGAGCCCCATAGTGAACCGAGGGCTAGCTGCTG-CCTGCTCCTATGTCAGAACAGAggtaagtgtttgggggggctgttatcacagttgtatattttattgatcatg Alignment from CESAR TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCC-ATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAg tggcagggcaatctggggccaccttttcgtgacccttggtccccacacagTTCTCTGCTTCTTCTACAACTATCTTGGATGAGGAGCCCCATAGTGAACCGAGGGCTAGCTGCTG-CCTGCTCCTATGTCAGAACAGAggtaagtgtttgggggggctgttatcacagttgtatattttattgatcatg Alignment from Spaln_aa2Genome TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAG tggcagggcaatctggggccaccttttcgtgacccttggtccccacacagTTCTCTGCTTCTTCTACAACTATCTTGGATGAGGAGCCCCATAGTGAACCGAGGGCTAGCTGCTGCCTGCTCCTATGTCAGAACAGAGgtaagtgtttgggggggctgttatcacagttgtatattttattgatcatg Alignment from Spaln_nt2Genome TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCC-CATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAG tggcagggcaatctggggccaccttttcgtgacccttggtccccacacagTTCTCTGCTTCTTCTACAACTATCTTGGATGAGGAGCCCCATAGTGAACCGAGGGCTAGCTGCTG-CCTGCTCCTATGTCAGAACAGAGgtaagtgtttgggggggctgttatcacagttgtatattttattgatcatg Alignment from Pairagon TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAG-CCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAG tggcagggcaatctggggccaccttttcgtgacccttggtccccacacagTTCTCTGCTTCTTCTACAACTATCTTGGATGAGGAGCCCCATAGTGAACCGAGGGCTAGCTGCTG-CCTGCTCCTATGTCAGAACAGAGgtaagtgtttgggggggctgttatcacagttgtatattttattgatcatg Alignment from Exonerate_protein2genome ATTTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAG tggcagggcaatctggggccaccttttcgtgacccttggtccccacacAGTTCTCTGCTTCTTCTACAACTATCTTGGATGAGGAGCCCCATAGTGAACCGAGGGCTAGCTGCTGCCTGCTCCTATGTCAGAACAGAGgtaagtgtttgggggggctgttatcacagttgtatattttattgatcatg Alignment from Exonerate_coding2genome ATTTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAG tggcagggcaatctggggccaccttttcgtgacccttggtccccacacAGTTCTCTGCTTCTTCTACAACTATCTTGGATGAGGAGCCCCATAGTGAACCGAGGGCTAGCTGCTGCCTGCTCCTATGTCAGAACAGAGgtaagtgtttgggggggctgttatcacagttgtatattttattgatcatg Alignment from GeneWise TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAG tggcagggcaatctggggccaccttttcgtgacccttggtccccacacagTTCTCTGCTTCTTCTACAACTATCTTGGATGAGGAGCCCCATAGTGAACCGAGGGCTAGCTGCTGCCTGCTCCTATGTCAGAACAGAGgtaagtgtttgggggggctgttatcacagttgtatattttattgatcatg #### Sart1_ID961_14 --> 0 - 0 Original Alignment GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGAT-GGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT catgagatactggtagaatctgtgcatgcactggcctttcttctccacagGACTTTGAGAGGGATGAGGAGCACTCAGCAAATGGTGGATCTGAATCAGATCGGGGAAGAGAACATTGGCTGGAGCACAATCAACC-GGAT------GAACAGCCTCAGGATgtaagtgctcatgaccataggtgaagggcagcggtgcatccaccgtaggt Alignment from CESAR GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGAT-GGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT catgagatactggtagaatctgtgcatgcactggcctttcttctccacagGACTTTGAGAGGGATGAGGAGCACTCAGCAAATGGTGGATCTGAATCAGATCGGGGAAGAGAACATTGGCTGGAGCACAATCAAC-CGGATGAA------CAGCCTCAGGATgtaagtgctcatgaccataggtgaagggcagcggtgcatccaccgtaggt Alignment from Spaln_aa2Genome GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGAT-GGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT catgagatactggtagaatctgtgcatgcactggcctttcttctccacagGACTTTGAGAGGGATGAGGAGCACTCAGCAAATGGTGGATCTGAATCAGATcGGGGAAGAGAACATTGGCTGGAGCACAATCAACCG-------GATGAACAGCCTCAGGATgtaagtgctcatgaccataggtgaagggcagcggtgcatccaccgtaggt Alignment from Spaln_nt2Genome GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGA-AGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT catgagatactggtagaatctgtgcatgcactggcctttcttctccacagGACTTTGAGAGGGATGAGGAGCACTCAGCAAATGGTGGATCTGAATCAGATCGGGGAAGAGAACATTGGCTGGAGCACAATCAACC-GGATG------AACAGCCTCAGGATgtaagtgctcatgaccataggtgaagggcagcggtgcatccaccgtaggt Alignment from Pairagon GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGAT-GGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT catgagatactggtagaatctgtgcatgcactggcctttcttctccacagGACTTTGAGAGGGATGAGGAGCACTCAGCAAATGGTGGATCTGAATCAGATCGGGGAAGAGAACATTGGCTGGAGCACAATCAACC-------GGATGAACAGCCTCAGGATgtaagtgctcatgaccataggtgaagggcagcggtgcatccaccgtaggt Alignment from Exonerate_protein2genome GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGAT-GGGGAAGAGAACATTGGCTGGAGCACCGTCAAC---CTGGATGAGGAGAAGCA catgagatactggtagaatctgtgcatgcactggcctttcttctccacagGACTTTGAGAGGGATGAGGAGCACTCAGCAAATGGTGGATCTGAATCAGATCGGGGAAGAGAACATTGGCTGGAGCACAATCAACCGGATGAACAGCCTCAGGATgtaagtgctcatgaccataggtgaagggcagcggtgcatccaccgtaggt Alignment from Exonerate_coding2genome GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGAT-GGGGAAGAGAACATTGGCTGGAGCACCGTCAAC---CTGGATGAGGAGAAGCA catgagatactggtagaatctgtgcatgcactggcctttcttctccacagGACTTTGAGAGGGATGAGGAGCACTCAGCAAATGGTGGATCTGAATCAGATCGGGGAAGAGAACATTGGCTGGAGCACAATCAACCGGATGAACAGCCTCAGGATgtaagtgctcatgaccataggtgaagggcagcggtgcatccaccgtaggt Alignment from GeneWise GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGAT---GGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT catgagatactggtagaatctgtgcatgcactggcctttcttctccacagGACTTTGAGAGGGATGAGGAGCACTCAGCAAATGGTGGATCTGAATCAGATCGGGGAAGAGAACAT------TGGCTGGAGCACAATCAACCGGATGAA---CAGCCTCAGGATgtaagtgctcatgaccataggtgaagggcagcggtgcatccaccgtaggt #### Sart1_ID962_13 --> 0 - 0 Original Alignment GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACC-ATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG aggcttacagattctatactgcctataaagtttcctaactctaccgctagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCGTGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAAGGGGACACTCAGTTTTCAATGCCACATCAGAATTTTGCTGTATAC-AGGGGAATCTCCCACATATGAGTTGGTGGGTAACCGTGAGGGGCAGGAGGAGTTGATGgtgaggcaatcaattcttagcttttatcgtaaggctagtgatacatctag Alignment from CESAR GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATC-GTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG aggcttacagattctatactgcctataaagtttcctaactctaccgctagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCGTGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAAGGGGACACTCAGTTTTCAATGCCACATCAGAATTTTGCTGTATA-CAGGGGAATCTCCCACATATGAGTTGGTGGGTAACCGTGAGGGGCAGGAGGAGTTGATGgtgaggcaatcaattcttagcttttatcgtaaggctagtgatacatctag Alignment from Spaln_aa2Genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG aggcttacagattctatactgcctataaagtttcctaactctaccgctagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCGTGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAAGGGGACACTCAGTTTTCAATGCCACATCAGAATTTTGCTGTATACAGGGGAATCTCCCACATATGAGTTGGTGGGTAACCGTGAGGGGCAGGAGGAGTTGATGgtgaggcaatcaattcttagcttttatcgtaaggctagtgatacatctag Alignment from Spaln_nt2Genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATC-GTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG aggcttacagattctatactgcctataaagtttcctaactctaccgctagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCGTGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAAGGGGACACTCAGTTTTCAATGCCACATCAGAATTTTGCTGTATACAGGGGAATCT-CCCACATATGAGTTGGTGGGTAACCGTGAGGGGCAGGAGGAGTTGATGgtgaggcaatcaattcttagcttttatcgtaaggctagtgatacatctag Alignment from Pairagon GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATC-GTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG aggcttacagattctatactgcctataaagtttcctaactctaccgctagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCGTGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAAGGGGACACTCAGTTTTCAATGCCACATCAGAATTTTGCTGTATACAGGGGAATCT-CCCACATATGAGTTGGTGGGTAACCGTGAGGGGCAGGAGGAGTTGATGgtgaggcaatcaattcttagcttttatcgtaaggctagtgatacatctag Alignment from Exonerate_protein2genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG aggcttacagattctatactgcctataaagtttcctaactctaccgctagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCGTGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAAGGGGACACTCAGTTTTCAATGCCACATCAGAATTTTGCTGTATACAGGGGAATCTCCCACATATGAGTTGGTGGGTAACCGTGAGGGGCAGGAGGAGTTGATGgtgaggcaatcaattcttagcttttatcgtaaggctagtgatacatctag Alignment from Exonerate_coding2genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG aggcttacagattctatactgcctataaagtttcctaactctaccgctagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCGTGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAAGGGGACACTCAGTTTTCAATGCCACATCAGAATTTTGCTGTATACAGGGGAATCTCCCACATATGAGTTGGTGGGTAACCGTGAGGGGCAGGAGGAGTTGATGgtgaggcaatcaattcttagcttttatcgtaaggctagtgatacatctag Alignment from GeneWise GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG aggcttacagattctatactgcctataaagtttcctaactctaccgctagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCGTGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAAGGGGACACTCAGTTTTCAATGCCACATCAGAATTTTGCTGTATACAGGGGAATCTCCCACATATGAGTTGGTGGGTAACCGTGAGGGGCAGGAGGAGTTGATGgtgaggcaatcaattcttagcttttatcgtaaggctagtgatacatctag #### Sart1_ID963_12 --> 2 - 0 Original Alignment agGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAG-AAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG atgtgagggtatcacttgtgctgacacatgactattttcatttctcatagaaGATGGGGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAACAAGCAGCTAGAAAAGGGGCGTCGGCTGCGGCAACTCCAGC-ACTACAGCAGCTCAGAGATAGTGGGGAGAAAgtatgtctcaacaaatagcttgcgatgaggggactgtgcactgttgagat Alignment from CESAR agGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAG-AAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG atgtgagggtatcacttgtgctgacacatgactattttcatttctcatagaaGATGGGGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAACAAGCAGCTAGAAAAGGGGCGTCGGCTGCGGCAACTCCAGC-ACTACAGCAGCTCAGAGATAGTGGGGAGAAAgtatgtctcaacaaatagcttgcgatgaggggactgtgcactgttgagat Alignment from Spaln_aa2Genome AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAG-AAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG atgtgagggtatcacttgtgctgacacatgactattttcatttctcatagAAGATGGGGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAAcAAGCAGCTAGAAAAGGGGCGTCGGCTGCGGCAACTCCAGCA-CTACAGCAGCTCAGAGATAGTGGGGAGAAAgtatgtctcaacaaatagcttgcgatgaggggactgtgcactgttgagat Alignment from Spaln_nt2Genome AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAG-AAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG atgtgagggtatcacttgtgctgacacatgactattttcatttctcatagAAGATGGGGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAACAAGCAGCTAGAAAAGGGGCGTCGGCTGCGGCAACTCCAGC-ACTACAGCAGCTCAGAGATAGTGGGGAGAAAgtatgtctcaacaaatagcttgcgatgaggggactgtgcactgttgagat Alignment from Pairagon AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAG-AAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG atgtgagggtatcacttgtgctgacacatgactattttcatttctcatagAAGATGGGGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAACAAGCAGCTAGAAAAGGGGCGTCGGCTGCGGCAACTCCAGC-ACTACAGCAGCTCAGAGATAGTGGGGAGAAAgtatgtctcaacaaatagcttgcgatgaggggactgtgcactgttgagat Alignment from Exonerate_protein2genome AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG atgtgagggtatcacttgtgctgacacatgactattttcatttctcatagAAGATGGGGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAACAAGCAGCTAGAAAAGGGGCGTCGGCTGCGGCAACTCCAGCACTACAGCAGCTCAGAGATAGTGGGGAGAAAgtatgtctcaacaaatagcttgcgatgaggggactgtgcactgttgagat Alignment from Exonerate_coding2genome AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG atgtgagggtatcacttgtgctgacacatgactattttcatttctcatagAAGATGGGGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAACAAGCAGCTAGAAAAGGGGCGTCGGCTGCGGCAACTCCAGCACTACAGCAGCTCAGAGATAGTGGGGAGAAAgtatgtctcaacaaatagcttgcgatgaggggactgtgcactgttgagat Alignment from GeneWise AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG atgtgagggtatcacttgtgctgacacatgactattttcatttctcatagAAGATGGGGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAACAAGCAGCTAGAAAAGGGGCGTCGGCTGCGGCAACTCCAGCACTACAGCAGCTCAGAGATAGTGGGGAGAAAgtatgtctcaacaaatagcttgcgatgaggggactgtgcactgttgagat #### Sart1_ID964_11 --> 1 - 1 Original Alignment gCTCCGGGGCCGGGGT-CGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAAg tatgagatggagaaattcaaaaaacatagctatggttctggtcttggcagaCTTCGGGGCCGGGGTCAGGCACCAAGTTCCC------AAGGAGGAGACAC-TGAGGATGAGGAGAAGGACCTTGTAGCCAAACCACCTCCATCAGATGACACTCGAGTC------ATGGACATCAGTGATGAAggtgaagtgttgattaataggggtcagggtaaatatgcaggcaaggctatc Alignment from CESAR gCTCCGGGGCCGGGGT-CGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAAg tatgagatggagaaattcaaaaaacatagctatggttctggtcttggcagaCTTCGGGGCCGGGGTCAGGCACCAAGTTCCC------AAGGAGGAGACAC-TGAGGATGAGGAGAAGGACCTTGTAGCCAAACCACCTCCATCAGATGACACTCGAGTC------ATGGACATCAGTGATGAAggtgaagtgttgattaataggggtcagggtaaatatgcaggcaaggctatc Alignment from Spaln_aa2Genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAAG tatgagatggagaaattcaaaaaacatagctatggttctggtcttggcagACTTCGGGGCCGGGGT------CAGGCACCAAGTTCCCAAGGAGGAGACACTGAGGATGAGGAGAAGGACCTTGTAGCCAAACCACCTCCATCAGATGACACTCGAGTC------ATGGACATCAGTGATGAAGgtgaagtgttgattaataggggtcagggtaaatatgcaggcaaggctatc Alignment from Spaln_nt2Genome GCTCCGGGGCCGGGGTC-GGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAAG tatgagatggagaaattcaaaaaacatagctatggttctggtcttggcagACTTCGGGGCCGGGGTCAGGCACCAAGTTCC------CAAGGAGGAGACAC-TGAGGATGAGGAGAAGGACCTTGTAGCCAAACCACCTCCATCAGATGACACTCGAGT------CATGGACATCAGTGATGAAGgtgaagtgttgattaataggggtcagggtaaatatgcaggcaaggctatc Alignment from Pairagon -----------------------------------------------CAGGCTCCGGGGCCGGGGTC-GGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAAG TATGAGATGGAGAAATTCAAAAAACATAGCTATGGTTCTGGTCTTGGCAGACTTCGGGGCCGGGGTCAGGCACCAAGTTCCCAAGGAGGAGA-------CACTGAGGATGAGGAGAAGGACCTTGTAGCCAAACCACCTCCATCAGATGACACTCGAGT------CATGGACATCAGTGATGAAGgtgaagtgttgattaataggggtcagggtaaatatgcaggcaaggctatc Alignment from Exonerate_protein2genome GGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAAG tatgagatggagaaattcaaaaaacatagctatggttctggtcttggcagACTTCGGGGCCGGGGTCAGGCACCAAGTTCCCAAGGAGGAGACACTGAGGATGAGGAGAAGGACCTTGTAGCCAAACCACCTCCATCAGATGACACTCGAGTC------ATGGACATCAGTGATGAAGgtgaagtgttgattaataggggtcagggtaaatatgcaggcaaggctatc Alignment from Exonerate_coding2genome GGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAAG tatgagatggagaaattcaaaaaacatagctatggttctggtcttggcagACTTCGGGGCCGGGGTCAGGCACCAAGTTCCCAAGGAGGAGACACTGAGGATGAGGAGAAGGACCTTGTAGCCAAACCACCTCCATCAGATGACACTCGAGTC------ATGGACATCAGTGATGAAGgtgaagtgttgattaataggggtcagggtaaatatgcaggcaaggctatc Alignment from GeneWise GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAAG tatgagatggagaaattcaaaaaacatagctatggttctggtcttggcagACTTCGGGGCCGGGGT------CAGGCACCAAGTTCCCAAGGAGGAGACACTGAGGATGAGGAGAAGGACCTTGTAGCCAAACCACCTCCATCAGATGACACTCGAGTC------ATGGACATCAGTGATGAAGgtgaagtgttgattaataggggtcagggtaaatatgcaggcaaggctatc #### Sart1_ID966_9 --> 0 - 0 Original Alignment CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTG-CAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG gtaagtctagtaagtctgagagaagaaattctgagcctgggcccttttagCAGAAACCTTGTTCAATTCTAGCTAAATATGATGAAGAATTAGACGGTGAGCGACCACATTCCTGCCGTCTTAAGCACGGTGGGATGGCTGATGGACTGAGGGAGAAAGAGTTAGAAGAAATTCGCACCAAGCTTCGACTACCCAGCCCAATCTCTAAGTTCAATGGGCCCCAGAC-TACTACTCAGTATCTCAGTCCTGAAGAGATGgtgagtcatcgggttatggtcatctattcagcccacagctaatccaagca Alignment from CESAR CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTG-CAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG gtaggtctagtaagtctgagagaagaaattctgagcctgggcccttttagCAGAAACCTTGTTCAATTCTAGCTAAATATGATGAAGAATTAGACGGTGAGCGACCACATTCCTGCCGTCTTAAGCACGGTGGGATGGCTGATGGACTGAGGGAGAAAGAGTTAGAAGAAATTCGCACCAAGCTTCGACTACCCAGCCCAATCTCTAAGTTCAATGGGCCCCAGACTA-CTACTCAGTATCTCAGTCCTGAAGAGATGgtgagtcatcgggttatggtcatctattcagcccacagctaatccaagca Alignment from Spaln_aa2Genome CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG gtaagtctagtaagtctgagagaagaaattctgagcctgggcccttttagCAGAAACCTTGTTCAATTCTAGCTAAATATGATGAAGAATTAGACGGTGAGCGACCACATTCCTGCCGTCTTAAGCACGGTGGGATGGCTGATGGACTGAGGGAGAAAGAGTTAGAAGAAATTCGCACCAAGCTTCGACTACCCAGCCCAATCTCTAAGTTCAATGGGCCCCAGACTACTACTCAGTATCTCAGTCCTGAAGAGATGgtgagtcatcgggttatggtcatctattcagcccacagctaatccaagca Alignment from Spaln_nt2Genome CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAG-GCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG gtaagtctagtaagtctgagagaagaaattctgagcctgggcccttttagCAGAAACCTTGTTCAATTCTAGCTAAATATGATGAAGAATTAGACGGTGAGCGACCACATTCCTGCCGTCTTAAGCACGGTGGGATGGCTGATGGACTGAGGGAGAAAGAGTTAGAAGAAATTCGCACCAAGCTTCGACTACCCAGCCCAATCTCTAAGTTCAAT-GGGCCCCAGACTACTACTCAGTATCTCAGTCCTGAAGAGATGgtgagtcatcgggttatggtcatctattcagcccacagctaatccaagca Alignment from Pairagon CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTA------------------------GGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG gtaagtctagtaagtctgagagaagaaattctgagcctgggcccttttagCAGAAACCTTGTTCAATTCTAGCTAAATATGATGAAGAATTAGACGGTGAGCGACCACATTCCTGCCGTCTTAAGCACGGTGGGATGGCTGATGGACTGAGGGAGAAAGAGTTAGAAGAAATTCGCACCAAGCTTCGAC------------------------TACCCAGCCCAATCTCTAAGTTCAATGGGCCCCAGACTACTACTCAGTATCTCAGTCCTGAAGAGATGgtgagtcatcgggttatggtcatctattcagcccacagctaatccaagca Alignment from Exonerate_protein2genome CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG gtaagtctagtaagtctgagagaagaaattctgagcctgggcccttttagCAGAAACCTTGTTCAATTCTAGCTAAATATGATGAAGAATTAGACGGTGAGCGACCACATTCCTGCCGTCTTAAGCACGGTGGGATGGCTGATGGACTGAGGGAGAAAGAGTTAGAAGAAATTCGCACCAAGCTTCGACTACCCAGCCCAATCTCTAAGTTCAATGGGCCCCAGACTACTACTCAGTATCTCAGTCCTGAAGAGATGgtgagtcatcgggttatggtcatctattcagcccacagctaatccaagca Alignment from Exonerate_coding2genome CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG gtaagtctagtaagtctgagagaagaaattctgagcctgggcccttttagCAGAAACCTTGTTCAATTCTAGCTAAATATGATGAAGAATTAGACGGTGAGCGACCACATTCCTGCCGTCTTAAGCACGGTGGGATGGCTGATGGACTGAGGGAGAAAGAGTTAGAAGAAATTCGCACCAAGCTTCGACTACCCAGCCCAATCTCTAAGTTCAATGGGCCCCAGACTACTACTCAGTATCTCAGTCCTGAAGAGATGgtgagtcatcgggttatggtcatctattcagcccacagctaatccaagca Alignment from GeneWise CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG gtaagtctagtaagtctgagagaagaaattctgagcctgggcccttttagCAGAAACCTTGTTCAATTCTAGCTAAATATGATGAAGAATTAGACGGTGAGCGACCACATTCCTGCCGTCTTAAGCACGGTGGGATGGCTGATGGACTGAGGGAGAAAGAGTTAGAAGAAATTCGCACCAAGCTTCGACTACCCAGCCCAATCTCTAAGTTCAATGGGCCCCAGACTACTACTCAGTATCTCAGTCCTGAAGAGATGgtgagtcatcgggttatggtcatctattcagcccacagctaatccaagca #### Sart1_ID967_8 --> 2 - 0 Original Alignment ggGTACTGCAGGACGGG-GAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG agatgcttaatggggtagaatatgactggtatgtgggtcttcttctacagggGTACTCCAGGATGGACGAAGATGTGCTGGTGAATGTGAACATGGTGGACA-GGAGCGGGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGATTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATTTAGCACAGgtaggtctagtaagtctgagagaagaaagcttacttcaatgtctatccag Alignment from CESAR ggGTACTGCAGGACGGG-GAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG agatgcttaatggggtagaatatgactggtatgtgggtcttcttctacagggGTACTCCAGGATGGACGAAGATGTGCTGGTGAATGTGAACATGGTGGACA-GGAGCGGGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGATTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATTTAGCACAGgtaggtctagtaagtctgagagaagaaattctgagcctgggcccttttag Alignment from Spaln_aa2Genome GGGTACTGCAGGACGGG-GAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG agatgcttaatggggtagaatatgactggtatgtgggtcttcttctacagGGGTACTCCAGGATGGAcGAAGATGTGCTGGTGAATGTGAACATGGTGGACAG-GAGCGGGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGATTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATTTAGCACAGgtaggtctagtaagtctgagagaagaaagcttacttcaatgtctatccag Alignment from Spaln_nt2Genome GGGTACTGCAGGACGGG-GAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG agatgcttaatggggtagaatatgactggtatgtgggtcttcttctacagGGGTACTCCAGGATGGACGAAGATGTGCTGGTGAATGTGAACATGGTGGACA-GGAGCGGGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGATTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATTTAGCACAGgtaggtctagtaagtctgagagaagaaagcttacttcaatgtctatccag Alignment from Pairagon GGGTACTGCAGGACGGG-GAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG agatgcttaatggggtagaatatgactggtatgtgggtcttcttctacagGGGTACTCCAGGATGGACGAAGATGTGCTGGTGAATGTGAACATGGTGGAC-AGGAGCGGGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGATTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATTTAGCACAGgtaggtctagtaagtctgagagaagaaagcttacttcaatgtctatccag Alignment from Exonerate_protein2genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG agatgcttaatggggtagaatatgactggtatgtgggtcttcttctacagGGGTACTCCAGGATGGACGAAGATGTGCTGGTGAATGTGAACATGGTGGACAGGAGCGGGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGATTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATTTAGCACAGgtaggtctagtaagtctgagagaagaaagcttacttcaatgtctatccag Alignment from Exonerate_coding2genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG agatgcttaatggggtagaatatgactggtatgtgggtcttcttctacagGGGTACTCCAGGATGGACGAAGATGTGCTGGTGAATGTGAACATGGTGGACAGGAGCGGGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGATTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATTTAGCACAGgtaggtctagtaagtctgagagaagaaagcttacttcaatgtctatccag Alignment from GeneWise GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG agatgcttaatggggtagaatatgactggtatgtgggtcttcttctacagGGGTACTCCAGGATGGACGAAGATGTGCTGGTGAATGTGAACATGGTGGACAGGAGCGGGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGATTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATTTAGCACAGgtaggtctagtaagtctgagagaagaaagcttacttcaatgtctatccag #### Sec31b_ID9037_15 --> 0 - 1 Original Alignment CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGA-GAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTg tgctcttccgatgcaccagcccgtgggttcgcattctgaatcttctccagTTCCTAGCCTGTGTTATAAAAAAGAATTGGAAAGACCTCGTGTGTGCTTTTCGCTTG---AACTGGAGACGAGACACTGGCCTTGCTACTAACATATTCAGGGC-AGAAAAGTTCCCTGAACTTTGTggtgagagtgagattaacatgattcattgtaccgatgccaagtaaaggcaa Alignment from CESAR CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGA-GAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTg tgctcttccgatgcaccagcccgtgggttcgcattctgaatcttctccagTTCCTAGCCTGTGTTATAAAAAAGAATTGGAAAGACCTCGTGTGTGCTTTTCGCTTG---AACTGGAGACGAGACACTGGCCTTGCTACTAACATATTCAGGGC-AGAAAAGTTCCCTGAACTTTGTggtgagagtgagattaacatgattcattgtaccgatgccaagtaaaggcaa Alignment from Spaln_aa2Genome CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG tgctcttccgatgcaccagcccgtgggttcgcattctgaatcttctccagTTCCTAGCCTGTGTTATAAAAAAGAATTGGAAAGACCTCGTGTGTGCTTTTCGCTTG---AACTGGAGACGAGACACTGGCCTTGCTACTAACATATTCAGGGCAGAAAAGTTCCCTGAACTTTGTGgtgagagtgagattaacatgattcattgtaccgatgccaagtaaaggcaa Alignment from Spaln_nt2Genome CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGA-GAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG tgctcttccgatgcaccagcccgtgggttcgcattctgaatcttctccagTTCCTAGCCTGTGTTATAAAAAAGAATTGGAAAGACCTCGTGTGTGCTTTTCGCTT---GAACTGGAGACGAGACACTGGCCTTGCTACTAACATATTCA-GGGCAGAAAAGTTCCCTGAACTTTGTGgtgagagtgagattaacatgattcattgtaccgatgccaagtaaaggcaa Alignment from Pairagon CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGA-GAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG tgctcttccgatgcaccagcccgtgggttcgcattctgaatcttctccagTTCCTAGCCTGTGTTATAAAAAAGAATTGGAAAGACCTCGTGTGTGCTTTTCGCTT---GAACTGGAGACGAGACACTGGCCTTGCTACTAACATATTCAGGG-CAGAAAAGTTCCCTGAACTTTGTGgtgagagtgagattaacatgattcattgtaccgatgccaagtaaaggcaa Alignment from Exonerate_protein2genome CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG tgctcttccgatgcaccagcccgtgggttcgcattctgaatcttctccagTTCCTAGCCTGTGTTATAAAAAAGAATTGGAAAGACCTCGTGTGTGCTTTTCGCTTG---AACTGGAGACGAGACACTGGCCTTGCTACTAACATATTCAGGGCAGAAAAGTTCCCTGAACTTTGTGgtgagagtgagattaacatgattcattgtaccgatgccaagtaaaggcaa Alignment from Exonerate_coding2genome CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG tgctcttccgatgcaccagcccgtgggttcgcattctgaatcttctccagTTCCTAGCCTGTGTTATAAAAAAGAATTGGAAAGACCTCGTGTGTGCTTTTCGCTTG---AACTGGAGACGAGACACTGGCCTTGCTACTAACATATTCAGGGCAGAAAAGTTCCCTGAACTTTGTGgtgagagtgagattaacatgattcattgtaccgatgccaagtaaaggcaa Alignment from GeneWise CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG tgctcttccgatgcaccagcccgtgggttcgcattctgaatcttctccagTTCCTAGCCTGTGTTATAAAAAAGAATTGGAAAGACCTCGTGTGTGCTTTTCGCTTG---AACTGGAGACGAGACACTGGCCTTGCTACTAACATATTCAGGGCAGAAAAGTTCCCTGAACTTTGTGgtgagagtgagattaacatgattcattgtaccgatgccaagtaaaggcaa #### Sec31b_ID9038_14 --> 2 - 0 Original Alignment acACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTG-CGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG gatgtttgaggaagcaactgagtgagtgtggactttgtcttttcccttagatACTGATGGGCTCCTGAGCCAGGCTTTGCTAATTGGGGAACTGCCACTCTGCTGTAGAGCTGTGTTTGAAAGAGGAAC-ATTTGCAGATGCTGTCATTTTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaagtcctgttgtccataattgtgttgccctcacacccatgtccttcaa Alignment from CESAR acACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTG-CGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG gatgtttgaggaagcaactgagtgagtgtggactttgtcttttcccttagatACTGATGGGCTCCTGAGCCAGGCTTTGCTAATTGGGGAACTGCCACTCTGCTGTAGAGCTGTGTTTGAAAGAGGAA-CATTTGCAGATGCTGTCATTTTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaagtcctgttgtccataattgtgttgccctcacacccatgtccttcaa Alignment from Spaln_aa2Genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG gatgtttgaggaagcaactgagtgagtgtggactttgtcttttcccttagATACTGATGGGCTCCTGAGCCAGGCTTTGCTAATTGGGGAACTGCCACTCTGCTGTAGAGCTGTGTTTGAAAGAGGAACATTTGCAGATGCTGTCATTTTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaagtcctgttgtccataattgtgttgccctcacacccatgtccttcaa Alignment from Spaln_nt2Genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGG-TCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG gatgtttgaggaagcaactgagtgagtgtggactttgtcttttcccttagATACTGATGGGCTCCTGAGCCAGGCTTTGCTAATTGGGGAACTGCCACTCTGCTGTAGAGCTGTGTTTGAAAGAGGAAC-ATTTGCAGATGCTGTCATTTTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaagtcctgttgtccataattgtgttgccctcacacccatgtccttcaa Alignment from Pairagon ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTG-CGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG gatgtttgaggaagcaactgagtgagtgtggactttgtcttttcccttagATACTGATGGGCTCCTGAGCCAGGCTTTGCTAATTGGGGAACTGCCACTCTGCTGTAGAGCTGTGTTTGAAAGAGGAACA-TTTGCAGATGCTGTCATTTTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaagtcctgttgtccataattgtgttgccctcacacccatgtccttcaa Alignment from Exonerate_protein2genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG gatgtttgaggaagcaactgagtgagtgtggactttgtcttttcccttagATACTGATGGGCTCCTGAGCCAGGCTTTGCTAATTGGGGAACTGCCACTCTGCTGTAGAGCTGTGTTTGAAAGAGGAACATTTGCAGATGCTGTCATTTTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaagtcctgttgtccataattgtgttgccctcacacccatgtccttcaa Alignment from Exonerate_coding2genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG gatgtttgaggaagcaactgagtgagtgtggactttgtcttttcccttagATACTGATGGGCTCCTGAGCCAGGCTTTGCTAATTGGGGAACTGCCACTCTGCTGTAGAGCTGTGTTTGAAAGAGGAACATTTGCAGATGCTGTCATTTTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaagtcctgttgtccataattgtgttgccctcacacccatgtccttcaa Alignment from GeneWise ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG gatgtttgaggaagcaactgagtgagtgtggactttgtcttttcccttagATACTGATGGGCTCCTGAGCCAGGCTTTGCTAATTGGGGAACTGCCACTCTGCTGTAGAGCTGTGTTTGAAAGAGGAACATTTGCAGATGCTGTCATTTTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaagtcctgttgtccataattgtgttgccctcacacccatgtccttcaa #### Sec31b_ID9044_8 --> 0 - 0 Original Alignment GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGC-TCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG gcttagttccgctggcatgtgttctctatattactgtttcttttttatagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTCTATGTCTCTGTGACAGGAAGGAGCTGGGAAGTGCAGCATATGA-GCAGGCTGATGAGgtatgtagcggttgtattaataggcgggggacttgcagaaaagagaactt Alignment from CESAR GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGC-TCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG gcttagttccgctggcatgtgttctctatattactgtttcttttttatagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTCTATGTCTCTGTGACAGGAAGGAGCTGGGAAGTGCAGCATATG-AGCAGGCTGATGAGgtatgtagcggttgtattaataggcgggggacttgcagaaaagagaactt Alignment from Spaln_aa2Genome GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG gcttagttccgctggcatgtgttctctatattactgtttcttttttatagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTCTATGTCTCTGTGACAGGAAGGAGCTGGGAAGTGCAGCATATGAGCAGGCTGATGAGgtatgtagcggttgtattaataggcgggggacttgcagaaaagagaactt Alignment from Spaln_nt2Genome GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTG-CTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG gcttagttccgctggcatgtgttctctatattactgtttcttttttatagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTCTATGTCTCTGTGACAGGAAGGAGCTGGGAAGTGCAGCATATGA-GCAGGCTGATGAGgtatgtagcggttgtattaataggcgggggacttgcagaaaagagaactt Alignment from Pairagon ------------------------------------------------------TCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTG-CTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG GCTTAGTTCCGCTGGCATGTGTTCTCTATATTACTGTTTCTTTTTTATAGATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTCTATGTCTCTGTGACAGGAAGGAGCTGGGAAGTGCAGCATATGA-GCAGGCTGATGAGgtatgtagcggttgtattaataggcgggggacttgcagaaaagagaactt Alignment from Exonerate_protein2genome GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGC-TCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAGGTG gcttagttccgctggcatgtgttctctatattactgtttcttttttatagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTCTATGTCTCTGTGACAGGAAGGAGCTGGGAAGTGCAGCATATGAGCAGGCTGATGAGGTATgtagcggttgtattaataggcgggggacttgcagaaaagagaactt Alignment from Exonerate_coding2genome GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGC-TCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAGGTG gcttagttccgctggcatgtgttctctatattactgtttcttttttatagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTCTATGTCTCTGTGACAGGAAGGAGCTGGGAAGTGCAGCATATGAGCAGGCTGATGAGGTATgtagcggttgtattaataggcgggggacttgcagaaaagagaactt Alignment from GeneWise GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGC-TCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAGGTG gcttagttccgctggcatgtgttctctatattactgtttcttttttatagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTCTATGTCTCTGTGACAGGAAGGAGCTGGGAAGTGCAGCATATGAGCAGGCTGATGAGGTATgtagcggttgtattaataggcgggggacttgcagaaaagagaactt #### Sema4g_ID9244_2 --> 2 - 0 Original Alignment agCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAG-AGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gtgcattagtaaagtatttacctacttgtgcgctctctacaccctcacagaaGTTTCACAAGTGCAACACTTTAGGGGGCAGGCCCAAATTCATTCAACATTGCTGTTGGAGGAGGCTTCTGAACAAGCTGTCAGCAGGGGCTCGAGGTCCATTGT-CTCCCTC------AGTGAAATCAGAGAGAGAACACATAAAGAGgtaggtcactgatattgggtttacaggaccccacatttagcttctggtct Alignment from CESAR agCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAG-AGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gtgcattagtaaagtatttacctacttgtgcgctctctacaccctcacagaaGTTTCACAAGTGCAACACTTTAGGGGGCAGGCCCAAATTCATTCAACATTGCTGTTGGAGGAGGCTTCTGAACAAGCTGTCAGCAGGGGCTCGAGGTCCATTG-TCTCCCTCAGT------GAAATCAGAGAGAGAACACATAAAGAGgtaggtcactgatattgggtttacaggaccccacatttagcttctggtct Alignment from Spaln_aa2Genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gtgcattagtaaagtatttacctacttgtgcgctctctacaccctcacagAAGTTTCACAAGTGCAACACTTTAGGGGGCAGGCCCAAATTCATTCAACATTGCTGTTGGAGGAGGCTTCTGAACAAGCTGTCAGCAGGGGCTCGAGGTCCATTGTCTCCCTCAGT------GAAATCAGAGAGAGAACACATAAAGAGgtaggtcactgatattgggtttacaggaccccacatttagcttctggtct Alignment from Spaln_nt2Genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAG-AGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gtgcattagtaaagtatttacctacttgtgcgctctctacaccctcacagAAGTTTCACAAGTGCAACACTTTAGGGGGCAGGCCCAAATTCATTCAACATTGCTGTTGGAGGAGGCTTCTGAACAAGCTGTCAGCAGGGGCTCGAGG-TCCATTGTCTCCCTCA------GTGAAATCAGAGAGAGAACACATAAAGAGgtaggtcactgatattgggtttacaggaccccacatttagcttctggtct Alignment from Pairagon AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAG-AGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gtgcattagtaaagtatttacctacttgtgcgctctctacaccctcacagaagtttcacaagtgcaacactttag-------------------------GGGGCAGGCCCAAATTCATTCAACATTGCTGTTGGAGGAGGCTTCTGAACAAGCTGTCAGCAGGGGCTCGAGGTCCATTG-TCTCCCTCA------GTGAAATCAGAGAGAGAACACATAAAGAGgtaggtcactgatattgggtttacaggaccccacatttagcttctggtct Alignment from Exonerate_protein2genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gtgcattagtaaagtatttacctacttgtgcgctctctacaccctcacagAAGTTTCACAAGTGCAACACTTTAGGGGGCAGGCCCAAATTCATTCAACATTGCTGTTGGAGGAGGCTTCTGAACAAGCTGTC------AGCAGGGGCTCGAGGTCCATTGTCTCCCTCAGTGAAATCAGAGAGAGAACACATAAAGAGgtaggtcactgatattgggtttacaggaccccacatttagcttctggtct Alignment from Exonerate_coding2genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gtgcattagtaaagtatttacctacttgtgcgctctctacaccctcacagAAGTTTCACAAGTGCAACACTTTAGGGGGCAGGCCCAAATTCATTCAACATTGCTGTTGGAGGAGGCTTCTGAACAAGCTGTC------AGCAGGGGCTCGAGGTCCATTGTCTCCCTCAGTGAAATCAGAGAGAGAACACATAAAGAGgtaggtcactgatattgggtttacaggaccccacatttagcttctggtct Alignment from GeneWise AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gtgcattagtaaagtatttacctacttgtgcgctctctacaccctcacagAAGTTTCACAAGTGCAACACTTTAGGGGGCAGGCCCAAATTCATTCAACATTGCTGTTGGAGGAGGCTTCTGAACAAGCTGTC------AGCAGGGGCTCGAGGTCCATTGTCTCCCTCAGTGAAATCAGAGAGAGAACACATAAAGAGgtaggtcactgatattgggtttacaggaccccacatttagcttctggtct #### Sema4g_ID9248_6 --> 2 - 1 Original Alignment atGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGAT-ATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTCAATg gtttcctagtagtgcatgccctatctccaacgcttttatttttcttttagatGGTGGCCTCTATACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATCATTCGACGGAGCCGCCACCCACACTCTCTGAGAA-TGAGGAGGCACCGATGCACTGGCTCAATggcaagtatagggtgctttcaaggggttggagaagggggcagctctggtgt Alignment from CESAR atGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGAT-ATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTCAATg gtttcctagtagtgcatgccctatctccaacgcttttatttttcttttagatGGTGGCCTCTATACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATCATTCGACGGAGCCGCCACCCACACTCTCTGA-GAATGAGGAGGCACCGATGCACTGGCTCAATggcaagtatagggtgctttcaaggggttggagaagggggcagctctggtgt Alignment from Spaln_aa2Genome ATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTCAATG gtttcctagtagtgcatgccctatctccaacgcttttatttttcttttagATGGTGGCCTCTATACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATCATTCGACGGAGCCGCCACCCACACTCTCTGAGAATGAGGAGGCACCGATGCACTGGCTCAATGgcaagtatagggtgctttcaaggggttggagaagggggcagctctggtgt Alignment from Spaln_nt2Genome ATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGAT-ATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTCAATG gtttcctagtagtgcatgccctatctccaacgcttttatttttcttttagATGGTGGCCTCTATACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATCATTCGACGGAGCCGCCACCCACACTCTCTGAGAA-TGAGGAGGCACCGATGCACTGGCTCAATGgcaagtatagggtgctttcaaggggttggagaagggggcagctctggtgt Alignment from Pairagon ATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGAT-ATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTCAATG gtttcctagtagtgcatgccctatctccaacgcttttatttttcttttagATGGTGGCCTCTATACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATCATTCGACGGAGCCGCCACCCACACTCTCTGAGAA-TGAGGAGGCACCGATGCACTGGCTCAATGgcaagtatagggtgctttcaaggggttggagaagggggcagctctggtgt Alignment from Exonerate_protein2genome ATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTCAATG gtttcctagtagtgcatgccctatctccaacgcttttatttttcttttagATGGTGGCCTCTATACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATCATTCGACGGAGCCGCCACCCACACTCTCTGAGAATGAGGAGGCACCGATGCACTGGCTCAATGgcaagtatagggtgctttcaaggggttggagaagggggcagctctggtgt Alignment from Exonerate_coding2genome ATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTCAATG gtttcctagtagtgcatgccctatctccaacgcttttatttttcttttagATGGTGGCCTCTATACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATCATTCGACGGAGCCGCCACCCACACTCTCTGAGAATGAGGAGGCACCGATGCACTGGCTCAATGgcaagtatagggtgctttcaaggggttggagaagggggcagctctggtgt Alignment from GeneWise ATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTCAAT------------------------G gtttcctagtagtgcatgccctatctccaacgcttttatttttcttttagATGGTGGCCTCTATACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATCATTCGACGGAGCCGCCACCCACACTCTCTGAGAATGAGGAGGCACCGATGCACTGGCTCAATGGCAAGTATAGGGTGCTTTCAAGGGgttggagaagggggcagctctggtgt #### Sema4g_ID9250_8 --> 0 - 2 Original Alignment GGAGATCTGGGAGGGAAG-AAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGtg tagttttaccccccagatttatggactgtgagctctgtgcttctctttagGGAGATCTGGCTGGAGAACGAAATTTTACAGAAGAAGTGGGAATCCT-CCTGAAGGCTCGACTCATCTGCCATGTTCCTCAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCATCCCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGtggtaagtgtggagaatgggcatagacagcgggtaaggacaagagagctggc Alignment from CESAR GGAGATCTGGGAGGGAAG-AAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGtg tagttttaccccccagatttatggactgtgagctctgtgcttctctttagGGAGATCTGGCTGGAGAACGAAATTTTACAGAAGAAGTGGGAAT-CCTCCTGAAGGCTCGACTCATCTGCCATGTTCCTCAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCATCCCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGtggtaagtgtggagaatgggcatagacagcgggtaaggacaagagagctggc Alignment from Spaln_aa2Genome GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG tagttttaccccccagatttatggactgtgagctctgtgcttctctttagGGAGATCTGGCTGGAGAACGAAATTTTACAGAAGAAGTGGGAATCCTCCTGAAGGCTCGACTCATCTGCCATGTTCCTCAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCATCCCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGTGgtaagtgtggagaatgggcatagacagcgggtaaggacaagagagctggc Alignment from Spaln_nt2Genome GGAGATCTGGGAGG-GAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG tagttttaccccccagatttatggactgtgagctctgtgcttctctttagGGAGATCTGGCTGGAGAACGAAATTTTACAGAAGAAGTGGGAATCC-TCCTGAAGGCTCGACTCATCTGCCATGTTCCTCAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCATCCCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGTGgtaagtgtggagaatgggcatagacagcgggtaaggacaagagagctggc Alignment from Pairagon GGAGATCTGGGAGG-GAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG tagttttaccccccagatttatggactgtgagctctgtgcttctctttagGGAGATCTGGCTGGAGAACGAAATTTTACAGAAGAAGTGGGAATCC-TCCTGAAGGCTCGACTCATCTGCCATGTTCCTCAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCATCCCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGTGgtaagtgtggagaatgggcatagacagcgggtaaggacaagagagctggc Alignment from Exonerate_protein2genome GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG tagttttaccccccagatttatggactgtgagctctgtgcttctctttagGGAGATCTGGCTGGAGAACGAAATTTTACAGAAGAAGTGGGAATCCTCCTGAAGGCTCGACTCATCTGCCATGTTCCTCAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCATCCCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGTGgtaagtgtggagaatgggcatagacagcgggtaaggacaagagagctggc Alignment from Exonerate_coding2genome GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG tagttttaccccccagatttatggactgtgagctctgtgcttctctttagGGAGATCTGGCTGGAGAACGAAATTTTACAGAAGAAGTGGGAATCCTCCTGAAGGCTCGACTCATCTGCCATGTTCCTCAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCATCCCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGTGgtaagtgtggagaatgggcatagacagcgggtaaggacaagagagctggc Alignment from GeneWise GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG tagttttaccccccagatttatggactgtgagctctgtgcttctctttagGGAGATCTGGCTGGAGAACGAAATTTTACAGAAGAAGTGGGAATCCTCCTGAAGGCTCGACTCATCTGCCATGTTCCTCAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCATCCCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGTGgtaagtgtggagaatgggcatagacagcgggtaaggacaagagagctggc #### Sema4g_ID9251_9 --> 1 - 0 Original Alignment gAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGAT-GGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG cataggtgcaggttgaaggtatttgaattctgtgattttgtatgctctaggAAGACACTGGAGGCTTCAGAAATCTGCCGGTATGACTTGGCAGAGATTCAAGCTGTCTTT---AGCCCCTTTATGGAGTACCAGGATCGGTGCCCGATGTTGGGGGTGCTATGGAGGTGGAGTACATC-ACCCCGACCTGGCTTAgtgagaactccaagtttggaccccactaattgggacatagagagttggcc Alignment from CESAR gAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGAT-GGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG cataggtgcaggttgaaggtatttgaattctgtgattttgtatgctctaggAAGACACTGGAGGCTTCAGAAATCTGCCGGTATGACTTGGCAGAGATTCAAGCTGTCTTT---AGCCCCTTTATGGAGTACCAGGATCGGTGCCCGATGTTGGGGGTGCTATGGAGGTGGAGTACAT-CACCCCGACCTGGCTTAgtgagaactccaagtttggaccccactaattgggacatagagagttggcc Alignment from Spaln_aa2Genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG cataggtgcaggttgaaggtatttgaattctgtgattttgtatgctctagGAAGACACTGGAGGCTTCAGAAATCTGCCGGTATGACTTGGCAGAGATTCAAGCTGTCTTTAGC---CCCTTTATGGAGTACCAGGATCGGTGCCCGATGTTGGGGGTGCTATGGAGGTGGAGTACATCACCCCGACCTGGCTTAgtgagaactccaagtttggaccccactaattgggacatagagagttggcc Alignment from Spaln_nt2Genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGAT-GGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG cataggtgcaggttgaaggtatttgaattctgtgattttgtatgctctagGAAGACACTGGAGGCTTCAGAAATCTGCCGGTATGACTTGGCAGAGATTCAAGCTGTCTTTA---GCCCCTTTATGGAGTACCAGGATCGGTGCCCGATGTTGGGGGTGCTATGGAGGTGGAGTACAT-CACCCCGACCTGGCTTAgtgagaactccaagtttggaccccactaattgggacatagagagttggcc Alignment from Pairagon GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGAT-GGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG cataggtgcaggttgaaggtatttgaattctgtgattttgtatgctctagGAAGACACTGGAGGCTTCAGAAATCTGCCGGTATGACTTGGCAGAGATTCAAGCTGTCTTTA---GCCCCTTTATGGAGTACCAGGATCGGTGCCCGATGTTGGGGGTGCTATGGAGGTGGAGTACAT-CACCCCGACCTGGCTTAgtgagaactccaagtttggaccccactaattgggacatagagagttggcc Alignment from Exonerate_protein2genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG cataggtgcaggttgaaggtatttgaattctgtgattttgtatgctctagGAAGACACTGGAGGCTTCAGAAATCTGCCGGTATGACTTGGCAGAGATTCAAGCTGTCTTTAGC---CCCTTTATGGAGTACCAGGATCGGTGCCCGATGTTGGGGGTGCTATGGAGGTGGAGTACATCACCCCGACCTGGCTTAgtgagaactccaagtttggaccccactaattgggacatagagagttggcc Alignment from Exonerate_coding2genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG cataggtgcaggttgaaggtatttgaattctgtgattttgtatgctctagGAAGACACTGGAGGCTTCAGAAATCTGCCGGTATGACTTGGCAGAGATTCAAGCTGTCTTTAGC---CCCTTTATGGAGTACCAGGATCGGTGCCCGATGTTGGGGGTGCTATGGAGGTGGAGTACATCACCCCGACCTGGCTTAgtgagaactccaagtttggaccccactaattgggacatagagagttggcc Alignment from GeneWise GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG cataggtgcaggttgaaggtatttgaattctgtgattttgtatgctctagGAAGACACTGGAGGCTTCAGAAATCTGCCGGTATGACTTGGCAGAGATTCAAGCTGTCTTTAGC---CCCTTTATGGAGTACCAGGATCGGTGCCCGATGTTGGGGGTGCTATGGAGGTGGAGTACATCACCCCGACCTGGCTTAgtgagaactccaagtttggaccccactaattgggacatagagagttggcc #### Sema4g_ID9252_10 --> 0 - 1 Original Alignment TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTC-ACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAg gtcatgtggaagtatagcagcagagtcctttttttaatgcttccttgcagTGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGACTTGCCATCGCTTGTCCTTGACTCCGTGAAGCTGCATCCACCACTGATGGCTCAGCCTGTAGTGCCCACGCGGGGACAGCCCCTACTGCTGAAGCACAATGTACGCTACACACATGTCCACAGGTACACATGTCAGTACACCTGCAG-ACCTACCTATGAGTTGCTCTTTCTAGGCACGggtaagtcatacccaccctggacatgtctccacctagcggggatacaatgc Alignment from CESAR TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTC-ACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAg gtcatgtggaagtatagcagcagagtcctttttttaatgcttccttgcagTGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGACTTGCCATCGCTTGTCCTTGACTCCGTGAAGCTGCATCCACCACTGATGGCTCAGCCTGTAGTGCCCACGCGGGGACAGCCCCTACTGCTGAAGCACAATGTACGCTACACACATGTCCACAGGTACACATGTCAGTACACCTGCA-GACCTACCTATGAGTTGCTCTTTCTAGGCACGggtaagtcatacccaccctggacatgtctccacctagcggggatacaatgc Alignment from Spaln_aa2Genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gtcatgtggaagtatagcagcagagtcctttttttaatgcttccttgcagTGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGACTTGCCATCGCTTGTCCTTGACTCCGTGAAGCTGCATCCACCACTGATGGCTCAGCCTGTAGTGCCCACGCGGGGACAGCCCCTACTGCTGAAGCACAATGTACGCTACACACATGTCCACAGGTACACATGTCAGTACACCTGCAGACCTACCTATGAGTTGCTCTTTCTAGGCACGGgtaagtcatacccaccctggacatgtctccacctagcggggatacaatgc Alignment from Spaln_nt2Genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCC---TGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTC-ACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gtcatgtggaagtatagcagcagagtcctttttttaatgcttccttgcagTGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGACTTGCCATCGCTTGTCCTTGACTCCGTGAAGCTGCATCCACCACTGATGGCTCAGCCTGTAGTGCCCACGCGGGGACAGCCCCTACTGCTGAAGCACAATGTACGCTACACACATGTCCACAGGTACACATGTCAGTACACCTGC-AGACCTACCTATGAGTTGCTCTTTCTAGGCACGGgtaagtcatacccaccctggacatgtctccacctagcggggatacaatgc Alignment from Pairagon TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCT-CACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gtcatgtggaagtatagcagcagagtcctttttttaatgcttccttgcagTGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGACTTGCCATCGCTTGTCCTTGACTCCGTGAAGCTGCATCCACCACTGATGGCTCAGCCTGTAGTGCCCACGCGGGGACAGCCCCTACTGCTGAAGCACAATGTACGCTACACACATGTCCACAGGTACACATGTCAGTACACCTGC-AGACCTACCTATGAGTTGCTCTTTCTAGGCACGGgtaagtcatacccaccctggacatgtctccacctagcggggatacaatgc Alignment from Exonerate_protein2genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gtcatgtggaagtatagcagcagagtcctttttttaatgcttccttgcagTGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGACTTGCCATCGCTTGTCCTTGACTCCGTGAAGCTGCATCCACCACTGATGGCTCAGCCTGTAGTGCCCACGCGGGGACAGCCCCTACTGCTGAAGCACAATGTACGCTACACACATGTCCACAGGTACACATGTCAGTACACCTGCAGACCTACCTATGAGTTGCTCTTTCTAGGCACGGgtaagtcatacccaccctggacatgtctccacctagcggggatacaatgc Alignment from Exonerate_coding2genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gtcatgtggaagtatagcagcagagtcctttttttaatgcttccttgcagTGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGACTTGCCATCGCTTGTCCTTGACTCCGTGAAGCTGCATCCACCACTGATGGCTCAGCCTGTAGTGCCCACGCGGGGACAGCCCCTACTGCTGAAGCACAATGTACGCTACACACATGTCCACAGGTACACATGTCAGTACACCTGCAGACCTACCTATGAGTTGCTCTTTCTAGGCACGGgtaagtcatacccaccctggacatgtctccacctagcggggatacaatgc Alignment from GeneWise TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gtcatgtggaagtatagcagcagagtcctttttttaatgcttccttgcagTGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGACTTGCCATCGCTTGTCCTTGACTCCGTGAAGCTGCATCCACCACTGATGGCTCAGCCTGTAGTGCCCACGCGGGGACAGCCCCTACTGCTGAAGCACAATGTACGCTACACACATGTCCACAGGTACACATGTCAGTACACCTGCAGACCTACCTATGAGTTGCTCTTTCTAGGCACGGgtaagtcatacccaccctggacatgtctccacctagcggggatacaatgc #### Sf1_ID1666_7 --> 0 - 2 Original Alignment ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGAT-CTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATag agccaaactgccaagttttttgatgaggcttcctcctgtgtcccacccagATCCGAAATATGCTAAAGCAAGGTATTGAAACCCCAGAAGGCCAGAATGATCCTACACAAGATGCAGCTTCGAGAGCTGGCTCACCTAAATGGCA-TCTACGGGAGGAA---GCCcggtaagtggaatgttgaagaaactgcataggcaggtttaagttttactgaa Alignment from CESAR ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGAT-CTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATag agccaaactgccaagttttttgatgaggcttcctcctgtgtcccacccagATCCGAAATATGCTAAAGCAAGGTATTGAAACCCCAGAAGGCCAGAATGATCCTACACAAGATGCAGCTTCGAGAGCTGGCTCACCTAAATGGC-ATCTACGGGAG---GAAGCCcggtaagtggaatgttgaagaaactgcataggcaggtttaagttttactgaa Alignment from Spaln_aa2Genome ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGAT-CTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATAG agccaaactgccaagttttttgatgaggcttcctcctgtgtcccacccagATCCGAAATATGCTAAAGCAAGGTATTGAAACCCCAGAAGGCCAGAATGATcCTACACAAGATGCAGCTTCGAGAGCTGGCTCACCTAAATGGCATCTACGGGAGGAAGCCCGGTAAgtggaatgttgaagaaactgcataggcaggtttaagttttactgaa Alignment from Spaln_nt2Genome ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATC-TACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATAG agccaaactgccaagttttttgatgaggcttcctcctgtgtcccacccagATCCGAAATATGCTAAAGCAAGGTATTGAAACCCCAGAAGGCCAGAATGATCCTACACAAGATGCAGCTTCGAGAGCTGGCTCACCTAAATGGCA-TCTACGGGAGGAAG---CCCGgtaagtggaatgttgaagaaactgcataggcaggtttaagttttactgaa Alignment from Pairagon ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGAT-CTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGA----------------------------------------------------- agccaaactgccaagttttttgatgaggcttcctcctgtgtcccacccagATCCGAAATATGCTAAAGCAAGGTATTGAAACCCCAGAAGGCCAGAATGATCCTACACAAGATGCAGCTTCGAGAGCTGGCTCACCTAAATGGCA-TCTACGGGAGGAAGCCCGGTAAGTGGAATGTTGAAGAAACTGCATAGGCAGGTTTAAGTTTTACTGAA Alignment from Exonerate_protein2genome ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGAT-CTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATAG agccaaactgccaagttttttgatgaggcttcctcctgtgtcccacccagATCCGAAATATGCTAAAGCAAGGTATTGAAACCCCAGAAGGCCAGAATGATCCTACACAAGATGCAGCTTCGAGAGCTGGCTCACCTAAATGGCATCTACGGGAGGAAGCCCGGTAAgtggaatgttgaagaaactgcataggcaggtttaagttttactgaa Alignment from Exonerate_coding2genome ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGAT-CTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATAG agccaaactgccaagttttttgatgaggcttcctcctgtgtcccacccagATCCGAAATATGCTAAAGCAAGGTATTGAAACCCCAGAAGGCCAGAATGATCCTACACAAGATGCAGCTTCGAGAGCTGGCTCACCTAAATGGCATCTACGGGAGGAAGCCCGGTAAgtggaatgttgaagaaactgcataggcaggtttaagttttactgaa Alignment from GeneWise ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGAT-CTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATAG agccaaactgccaagttttttgatgaggcttcctcctgtgtcccacccagATCCGAAATATGCTAAAGCAAGGTATTGAAACCCCAGAAGGCCAGAATGATCCTACACAAGATGCAGCTTCGAGAGCTGGCTCACCTAAATGGCATCTACGGGAGGAAGCCCGGTAAgtggaatgttgaagaaactgcataggcaggtttaagttttactgaa #### Sf1_ID1667_8 --> 1 - 2 Original Alignment gATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACT-GTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAGag ttaagttttactgaagggttatggagtgcactaatgtatttgtcttgtagaATCTTGAGGCCCTGGCAAAGCTCAGAGACCCGGACTATTACCAATTCTACTCGTGTGTACCAAATGTGGAGGAGCCGGTCACATAGCCT-TGATTGCAAAGTTCAGaggtatccccaacctagaagacctggctactgcacaggttgataagaggtgg Alignment from CESAR gATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACT-GTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAGag ttaagttttactgaagggttatggagtgcactaatgtatttgtcttgtagaATCTTGAGGCCCTGGCAAAGCTCAGAGACCCGGACTATTACCAATTCTACTCGTGTGTACCAAATGTGGAGGAGCCGGTCACATAGCC-TTGATTGCAAAGTTCAGaggtatccccaacctagaagacctggctactgcacaggttgataagaggtgg Alignment from Spaln_aa2Genome GATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACT-GTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAGAG ttaagttttactgaagggttatggagtgcactaatgtatttgtcttgtagAATCTTGAGGCCCTGGCAAAGCTCAGAGACCCGGACTATTACCAATTCTACTcGTGTGTACCAAATGTGGAGGAGCCGGTCACATAGCCTT-GATTGCAAAGTTCAGAGgtatccccaacctagaagacctggctactgcacaggttgataagaggtgg Alignment from Spaln_nt2Genome GATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACT-GTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAGAG ttaagttttactgaagggttatggagtgcactaatgtatttgtcttgtagAATCTTGAGGCCCTGGCAAAGCTCAGAGACCCGGACTATTACCAATTCTACTCGTGTGTACCAAATGTGGAGGAGCCGGTCACATAGCCT-TGATTGCAAAGTTCAGAGgtatccccaacctagaagacctggctactgcacaggttgataagaggtgg Alignment from Pairagon -----------------------------------------TGATAATAGGATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACT-GTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAGAG GTTTTACTGAAGGGTTATGGAGTGCACTAATGTATTTGTCTTG----TAGAATCTTGAGGCCCTGGCAAAGCTCAGAGACCCGGACTATTACCAATTCTACTCGTGTGTACCAAATGTGGAGGAGCCGGTCACATAGCCT-TGATTGCAAAGTTCAGAGgtatccccaacctagaagacctggctactgcacaggttgataagaggtgg Alignment from Exonerate_protein2genome TAGGATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACT-GTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCT--TCTGATTGCAAATTTCAGAG ttaagttttactgaagggttatggagtgcactaatgtatttgtcttgTAGAATCTTGAGGCCCTGGCAAAGCTCAGAGACCCGGACTATTACCAATTCTACTCGTGTGTACCAAATGTGGAGGAGCCGGTCACATAGCCTT---GATTGCAAAGTTCAGAGgtatccccaacctagaagacctggctactgcacaggttgataagaggtgg Alignment from Exonerate_coding2genome TAGGATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACT-GTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCT--TCTGATTGCAAATTTCAGAG ttaagttttactgaagggttatggagtgcactaatgtatttgtcttgTAGAATCTTGAGGCCCTGGCAAAGCTCAGAGACCCGGACTATTACCAATTCTACTCGTGTGTACCAAATGTGGAGGAGCCGGTCACATAGCCTT---GATTGCAAAGTTCAGAGgtatccccaacctagaagacctggctactgcacaggttgataagaggtgg Alignment from GeneWise TAGGATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACT-GTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAGAG ttaagttttactgaagggttatggagtgcactaatgtatttgtcttgtagA---ATCTTGAGGCCCTGGCAAAGCTCAGAGACCCGGACTATTACCAATTCTACTCGTGTGTACCAAATGTGGAGGAGCCGGTCACATAGCCTT-GATTGCAAAGTTCAGAGgtatccccaacctagaagacctggctactgcacaggttgataagaggtgg #### Sf1_ID1669_10 --> 0 - 1 Original Alignment TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGT-GGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGg ggggtcagacttgtctctgctaaaacagtatctttgttttccccatacagTCTCTCATGTCTACAACTCAGAGCCACCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGGCCTGGAGGACGGCCCCCACAGTTTTCCACACCCATTACCCAGTCTCACAGGTG-GCATGGTGGACACCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGGCCCTCCTCCAATGggtataaaagatgaccaagaacatatagggcttgaacaaatggcggacacc Alignment from CESAR TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGT-GGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGg ggggtcagacttgtctctgctaaaacagtatctttgttttccccatacagTCTCTCATGTCTACAACTCAGAGCCACCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGGCCTGGAGGACGGCCCCCACAGTTTTCCACACCCATTACCCAGTCTCACAGGTG-GCATGGTGGACACCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGGCCCTCCTCCAATGggtataaaagatgaccaagaacatatagggcttgaacaaatggcggacacc Alignment from Spaln_aa2Genome TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGT-GGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGG ggggtcagacttgtctctgctaaaacagtatctttgttttccccatacagTCTCTCATGTCTACAACTCAGAGCCACCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGGCCTGGAGGAcGGCCCCCACAGTTTTCCACACCCATTACCCAGTCTCACAGGTGG-CATGGTGGACACCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGGCCCTCCTCCAATGGgtataaaagatgaccaagaacatatagggcttgaacaaatggcggacacc Alignment from Spaln_nt2Genome TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGT-GGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGG ggggtcagacttgtctctgctaaaacagtatctttgttttccccatacagTCTCTCATGTCTACAACTCAGAGCCACCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGGCCTGGAGGACGGCCCCCACAGTTTTCCACACCCATTACCCAGTCTCACAGGT-GGCATGGTGGACACCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGGCCCTCCTCCAATGGgtataaaagatgaccaagaacatatagggcttgaacaaatggcggacacc Alignment from Pairagon TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGG-TGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGG ggggtcagacttgtctctgctaaaacagtatctttgttttccccatacagTCTCTCATGTCTACAACTCAGAGCCACCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGGCCTGGAGGACGGCCCCCACAGTTTTCCACACCCATTACCCAGTCTCACAGGT-GGCATGGTGGACACCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGGCCCTCCTCCAATGGgtataaaagatgaccaagaacatatagggcttgaacaaatggcggacacc Alignment from Exonerate_protein2genome TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGT-GGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGT--GGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGG ggggtcagacttgtctctgctaaaacagtatctttgttttccccatacagTCTCTCATGTCTACAACTCAGAGCCACCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGGCCTGGAGGACGGCCCCCACAGTTTTCCACACCCATTACCCAGTCTCACAGGTGG---CATGGTGGACACCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGGCCCTCCTCCAATGGgtataaaagatgaccaagaacatatagggcttgaacaaatggcggacacc Alignment from Exonerate_coding2genome TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGT-GGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGT--GGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGG ggggtcagacttgtctctgctaaaacagtatctttgttttccccatacagTCTCTCATGTCTACAACTCAGAGCCACCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGGCCTGGAGGACGGCCCCCACAGTTTTCCACACCCATTACCCAGTCTCACAGGTGG---CATGGTGGACACCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGGCCCTCCTCCAATGGgtataaaagatgaccaagaacatatagggcttgaacaaatggcggacacc Alignment from GeneWise TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGG ggggtcagacttgtctctgctaaaacagtatctttgttttccccatacagTCTCTCATGTCTACAACTCAGAGCCACCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGGCCTGGAGGACGGCCCCCACAGTTTTCCACACCCATTACCCAGTCTCACAGGTGGCATGGTGGACACCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGGCCCTCCTCCAATGGgtataaaagatgaccaagaacatatagggcttgaacaaatggcggacacc #### Sf3b2_ID898_20 --> 0 - 0 Original Alignment GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAG-CACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG tgggattgggccctgatctgtaggaccttactttcttgtttcatttccagGTTATGAGCCAAAAGGGTGCTGCCCCTGAGTTACAAGGTGTGGAAGTGGCATTGGCACCTGAAGAATTAGACTTGGATTCTATGGCTACAATGCAGAAGTATGAAGAACCATGTTCAGGAAAAACAGGCCAAAGTAGAGAAGGGAGATT-CAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtgagtatgattggcgtattcggcatgggggctattctctctagtgggaa Alignment from CESAR GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAG-CACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG tgggattgggccctgatctgtaggaccttactttcttgtttcatttccagGTTATGAGCCAAAAGGGTGCTGCCCCTGAGTTACAAGGTGTGGAAGTGGCATTGGCACCTGAAGAATTAGACTTGGATTCTATGGCTACAATGCAGAAGTATGAAGAACCATGTTCAGGAAAAACAGGCCAAAGTAGAGAAGGGAG-ATTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtgagtatgattggcgtattcggcatgggggctattctctctagtgggaa Alignment from Spaln_aa2Genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG tgggattgggccctgatctgtaggaccttactttcttgtttcatttccagGTTATGAGCCAAAAGGGTGCTGCCCCTGAGTTACAAGGTGTGGAAGTGGCATTGGCACCTGAAGAATTAGACTTGGATTCTATGGCTACAATGCAGAAGTATGAAGAACCATGTTCAGGAAAAACAGGCCAAAGTAGAGAAGGGAGATTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtgagtatgattggcgtattcggcatgggggctattctctctagtgggaa Alignment from Spaln_nt2Genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGC-ACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGACATG---GTGGCTGAGCATGCTGCTAAGCAGAAG tgggattgggccctgatctgtaggaccttactttcttgtttcatttccagGTTATGAGCCAAAAGGGTGCTGCCCCTGAGTTACAAGGTGTGGAAGTGGCATTGGCACCTGAAGAATTAGACTTGGATTCTATGGCTACAATGCAGAAGTATGAAGAACCATGTTCAGGAAAAACAGGCCAAAGTAGAGAAGGGAGA-TTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtgagtatgattggcgtattcggcatgggggctattctctctagtgggaa Alignment from Pairagon GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAG-CACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG tgggattgggccctgatctgtaggaccttactttcttgtttcatttccagGTTATGAGCCAAAAGGGTGCTGCCCCTGAGTTACAAGGTGTGGAAGTGGCATTGGCACCTGAAGAATTAGACTTGGATTCTATGGCTACAATGCAGAAGTATGAAGAACCATGTTCAGGAAAAACAGGCCAAAGTAGAGAAGGGAGA-TTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtgagtatgattggcgtattcggcatgggggctattctctctagtgggaa Alignment from Exonerate_protein2genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG tgggattgggccctgatctgtaggaccttactttcttgtttcatttccagGTTATGAGCCAAAAGGGTGCTGCCCCTGAGTTACAAGGTGTGGAAGTGGCATTGGCACCTGAAGAATTAGACTTGGATTCTATGGCTACAATGCAGAAGTATGAAGAACCATGTTCAGGAAAAACAGGCCAAAGTAGAGAAGGGAGATTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtgagtatgattggcgtattcggcatgggggctattctctctagtgggaa Alignment from Exonerate_coding2genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG tgggattgggccctgatctgtaggaccttactttcttgtttcatttccagGTTATGAGCCAAAAGGGTGCTGCCCCTGAGTTACAAGGTGTGGAAGTGGCATTGGCACCTGAAGAATTAGACTTGGATTCTATGGCTACAATGCAGAAGTATGAAGAACCATGTTCAGGAAAAACAGGCCAAAGTAGAGAAGGGAGATTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtgagtatgattggcgtattcggcatgggggctattctctctagtgggaa Alignment from GeneWise GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGACATG---GTGGCTGAGCATGCTGCTAAGCAGAAG tgggattgggccctgatctgtaggaccttactttcttgtttcatttccagGTTATGAGCCAAAAGGGTGCTGCCCCTGAGTTACAAGGTGTGGAAGTGGCATTGGCACCTGAAGAATTAGACTTGGATTCTATGGCTACAATGCAGAAGTATGAAGAACCATGTTCAGGAAAAACAGGCCAAAGTAGAGAAGGGAGATTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtgagtatgattggcgtattcggcatgggggctattctctctagtgggaa #### Sf3b2_ID901_17 --> 0 - 2 Original Alignment ACCAAAACGGAAGAAGAAGAAATT-GACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACag gccagtttcagcaactcccctccatgaaaggaaagtatttctgttttcagACCAAAACGGAAAAGGAGGAAATTCGACCAAACCCCATGGGGGGAGCTGGAACCTT-TGATGAAGAATCCTCAGAAGAGGAAGAAGAGGAGGATAGTGATGAAGATAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACaggtaagcaccaggctgtcccccttcagtcacctacctggcactgcgattat Alignment from CESAR ACCAAAACGGAAGAAGAAGAAATT-GACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACag gccagtttcagcaactcccctccatgaaaggaaagtatttctgttttcagACCAAAACGGAAAAGGAGGAAATTCGACCAAACCCCATGGGGGGAGCTGGAACCT-TTGATGAAGAATCCTCAGAAGAGGAAGAAGAGGAGGATAGTGATGAAGATAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACaggtaagcaccaggctgtcccccttcagtcacctacctggcactgcgattat Alignment from Spaln_aa2Genome ACCAAAACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG gccagtttcagcaactcccctccatgaaaggaaagtatttctgttttcagACCAAAACGGAAAAGGAGGAAATTCGACCAAACCCCATGGGGGGAGCTGGAACCTTTGATGAAGAATCCTCAGAAGAGGAAGAAGAGGAGGATAGTGATGAAGATAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAGgtaagcaccaggctgtcccccttcagtcacctacctggcactgcgattat Alignment from Spaln_nt2Genome ACCAAAACGGAAGAAGAAGAAATT-GACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG gccagtttcagcaactcccctccatgaaaggaaagtatttctgttttcagACCAAAACGGAAAAGGAGGAAATTCGACCAAACCCCATGGGGGGAGCTGGAACC-TTTGATGAAGAATCCTCAGAAGAGGAAGAAGAGGAGGATAGTGATGAAGATAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAGgtaagcaccaggctgtcccccttcagtcacctacctggcactgcgattat Alignment from Pairagon ACCAAAACGGAAGAAGAAGAAATT-GACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG gccagtttcagcaactcccctccatgaaaggaaagtatttctgttttcagACCAAAACGGAAAAGGAGGAAATTCGACCAAACCCCATGGGGGGAGCTGGAACC-TTTGATGAAGAATCCTCAGAAGAGGAAGAAGAGGAGGATAGTGATGAAGATAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAGgtaagcaccaggctgtcccccttcagtcacctacctggcactgcgattat Alignment from Exonerate_protein2genome ACCAAAACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG gccagtttcagcaactcccctccatgaaaggaaagtatttctgttttcagACCAAAACGGAAAAGGAGGAAATTCGACCAAACCCCATGGGGGGAGCTGGAACCTTTGATGAAGAATCCTCAGAAGAGGAAGAAGAGGAGGATAGTGATGAAGATAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAGgtaagcaccaggctgtcccccttcagtcacctacctggcactgcgattat Alignment from Exonerate_coding2genome ACCAAAACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG gccagtttcagcaactcccctccatgaaaggaaagtatttctgttttcagACCAAAACGGAAAAGGAGGAAATTCGACCAAACCCCATGGGGGGAGCTGGAACCTTTGATGAAGAATCCTCAGAAGAGGAAGAAGAGGAGGATAGTGATGAAGATAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAGgtaagcaccaggctgtcccccttcagtcacctacctggcactgcgattat Alignment from GeneWise ACCAAAACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG gccagtttcagcaactcccctccatgaaaggaaagtatttctgttttcagACCAAAACGGAAAAGGAGGAAATTCGACCAAACCCCATGGGGGGAGCTGGAACCTTTGATGAAGAATCCTCAGAAGAGGAAGAAGAGGAGGATAGTGATGAAGATAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAGgtaagcaccaggctgtcccccttcagtcacctacctggcactgcgattat #### Sf3b2_ID907_11 --> 0 - 0 Original Alignment GAAAAGAAGCCGGAAGCCCCTAAA-CTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG tcaggctgcctcacatgatgacacctaacatcttttgtcttgtcacctagAAGAAGAAGCCAGAGGCCCCCAAACCTATCACGAAAGAAGTTGCGCCGTATGAACCGATTTA-TGTTGCAGAATTAAAGCAAgtgagttctgggaaggtcaagccagctactccagctctgttcaacattca Alignment from CESAR GAAAAGAAGCCGGAAGCCCCTAAA-CTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG tcaggctgcctcacatgatgacacctaacatcttttgtcttgtcacctagAAGAAGAAGCCAGAGGCCCCCAAACCTATCACGAAAGAAGTTGCGCCGTATGAACCGATTT-ATGTTGCAGAATTAAAGCAAgtgagttctgggaaggtcaagccagctactccagctctgttcaacattca Alignment from Spaln_aa2Genome GAAAAGAAGCCGGAAGCCCCTAAA-CTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG tcaggctgcctcacatgatgacacctaacatcttttgtcttgtcacctagAAGAAGAAGCCAGAGGCCCCCAAAcCTATCACGAAAGAAGTTGCGCCGTATGAACCGATTTAT-GTTGCAGAATTAAAGCAAgtgagttctgggaaggtcaagccagctactccagctctgttcaacattca Alignment from Spaln_nt2Genome GAAAAGAAGCCGGAAGCCCCTAAAC-TGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG tcaggctgcctcacatgatgacacctaacatcttttgtcttgtcacctagAAGAAGAAGCCAGAGGCCCCCAAACCTATCACGAAAGAAGTTGCGCCGTATGAACCGATTTA-TGTTGCAGAATTAAAGCAAgtgagttctgggaaggtcaagccagctactccagctctgttcaacattca Alignment from Pairagon GAAAAGAAGCCGGAAGCCCCTAAA-CTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG tcaggctgcctcacatgatgacacctaacatcttttgtcttgtcacctagAAGAAGAAGCCAGAGGCCCCCAAACCTATCACGAAAGAAGTTGCGCCGTATGAACCGATTTA-TGTTGCAGAATTAAAGCAAgtgagttctgggaaggtcaagccagctactccagctctgttcaacattca Alignment from Exonerate_protein2genome GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG tcaggctgcctcacatgatgacacctaacatcttttgtcttgtcacctagAAGAAGAAGCCAGAGGCCCCCAAACCTATCACGAAAGAAGTTGCGCCGTATGAACCGATTTATGTTGCAGAATTAAAGCAAgtgagttctgggaaggtcaagccagctactccagctctgttcaacattca Alignment from Exonerate_coding2genome GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG tcaggctgcctcacatgatgacacctaacatcttttgtcttgtcacctagAAGAAGAAGCCAGAGGCCCCCAAACCTATCACGAAAGAAGTTGCGCCGTATGAACCGATTTATGTTGCAGAATTAAAGCAAgtgagttctgggaaggtcaagccagctactccagctctgttcaacattca Alignment from GeneWise GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG tcaggctgcctcacatgatgacacctaacatcttttgtcttgtcacctagAAGAAGAAGCCAGAGGCCCCCAAACCTATCACGAAAGAAGTTGCGCCGTATGAACCGATTTATGTTGCAGAATTAAAGCAAgtgagttctgggaaggtcaagccagctactccagctctgttcaacattca #### Sf3b2_ID909_9 --> 0 - 0 Original Alignment AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAG-AAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG gagtaagagatggattatttaaaaagccgtgtggatgttatttgtcacagAAAAACCAAAAACATCAAAATCGGAAGAAGAAAAAAAAACCAAAGCAGGTGAGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAACAAAGACTCTGGTCAATCCGAAGGGTCAGGTCCGCCCA-AGGA---ATAGAGATCAAGTATGTGAGTGAGGAGCCTGAGATCTATGAGCCCAATTTCATCTTCTTCAAGAGGGTGTATGAGGCTTTTAAGgtaaactggctcatgcctcttctgaggaccatacggattaaggcggcaaa Alignment from CESAR AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAG-AAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG gagtaagagatggattatttaaaaagccgtgtggatgttatttgtcacagAAAAACCAAAAACATCAAAATCGGAAGAAGAAAAAAAAACCAAAGCAGGTGAGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAACAAAGACTCTGGTCAATCCGAAGGGTCAGGTCCGCCC---AAGG-AATAGAGATCAAGTATGTGAGTGAGGAGCCTGAGATCTATGAGCCCAATTTCATCTTCTTCAAGAGGGTGTATGAGGCTTTTAAGgtaaactggctcatgcctcttctgaggaccatacggattaaggcggcaaa Alignment from Spaln_aa2Genome AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAG-AAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG gagtaagagatggattatttaaaaagccgtgtggatgttatttgtcacagAAAAACCAAAAACATCAAAATCGGAAGAAGAAAAAAAAACCAAAGCAGGTGAGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAAcAAAGACTCTGGTCAATCCGAAGGGTCAGGTCCGCCCAA----GGAATAGAGATCAAGTATGTGAGTGAGGAGCCTGAGATCTATGAGCCCAATTTCATCTTCTTCAAGAGGGTGTATGAGGCTTTTAAGgtaaactggctcatgcctcttctgaggaccatacggattaaggcggcaaa Alignment from Spaln_nt2Genome AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAG-AAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG gagtaagagatggattatttaaaaagccgtgtggatgttatttgtcacagAAAAACCAAAAACATCAAAATCGGAAGAAGAAAAAAAAACCAAAGCAGGTGAGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAACAAAGACTCTGGTCAATCCGAAGGGTCAGGTCC----GCCCAAGGAATAGAGATCAAGTATGTGAGTGAGGAGCCTGAGATCTATGAGCCCAATTTCATCTTCTTCAAGAGGGTGTATGAGGCTTTTAAGgtaaactggctcatgcctcttctgaggaccatacggattaaggcggcaaa Alignment from Pairagon AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGA-----------------------------------------GAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG gagtaagagatggattatttaaaaagccgtgtggatgttatttgtcacagAAAAACCAAAAACATCAAAATCGGAAGAAGAAAAAAAAACCAAAGCAGGTGAGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAACAAAGACTCTGGTCAATCCGAAGGGTCAGGTCCGCCCAAGGAA--------------------------------------------TAGAGATCAAGTATGTGAGTGAGGAGCCTGAGATCTATGAGCCCAATTTCATCTTCTTCAAGAGGGTGTATGAGGCTTTTAAGgtaaactggctcatgcctcttctgaggaccatacggattaaggcggcaaa Alignment from Exonerate_protein2genome AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG gagtaagagatggattatttaaaaagccgtgtggatgttatttgtcacagAAAAACCAAAAACATCAAAATCGGAAGAAGAAAAAAAAACCAAAGCAGGTGAGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAACAAAGACTCTGGTCAATCCGA---AGGGTCAGGTCCGCCCAAGGAATAGAGATCAAGTATGTGAGTGAGGAGCCTGAGATCTATGAGCCCAATTTCATCTTCTTCAAGAGGGTGTATGAGGCTTTTAAGgtaaactggctcatgcctcttctgaggaccatacggattaaggcggcaaa Alignment from Exonerate_coding2genome AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG gagtaagagatggattatttaaaaagccgtgtggatgttatttgtcacagAAAAACCAAAAACATCAAAATCGGAAGAAGAAAAAAAAACCAAAGCAGGTGAGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAACAAAGACTCTGGTCAATCCGA---AGGGTCAGGTCCGCCCAAGGAATAGAGATCAAGTATGTGAGTGAGGAGCCTGAGATCTATGAGCCCAATTTCATCTTCTTCAAGAGGGTGTATGAGGCTTTTAAGgtaaactggctcatgcctcttctgaggaccatacggattaaggcggcaaa Alignment from GeneWise AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG gagtaagagatggattatttaaaaagccgtgtggatgttatttgtcacagAAAAACCAAAAACATCAAAATCGGAAGAAGAAAAAAAAACCAAAGCAGGTGAGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAACAAAGACTCTGGTCAATCCGA---AGGGTCAGGTCCGCCCAAGGAATAGAGATCAAGTATGTGAGTGAGGAGCCTGAGATCTATGAGCCCAATTTCATCTTCTTCAAGAGGGTGTATGAGGCTTTTAAGgtaaactggctcatgcctcttctgaggaccatacggattaaggcggcaaa #### Sf3b2_ID911_7 --> 0 - 1 Original Alignment ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTG-GAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGg tctgcatagatttttgagtttcagacccgaccttgcctttccggttccagATT---GACCCCTCAGTGGGCCCCAAAATCCCTCAGGCTGTGCGAAAAGATCCTTCAGCTGAAGGAGAGTCAGC-GCAAGAGATGAACTCTCAG---ggtacccgattaaacattcccttgatacttcaacacacgttagctggggac Alignment from CESAR ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTG-GAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGg tctgcatagatttttgagtttcagacccgaccttgcctttccggttccagATT---GACCCCTCAGTGGGCCCCAAAATCCCTCAGGCTGTGCGAAAAGATCCTTCAGCTGAAGGAGAGTCAG-CGCAAGAGATGAACTCT---CAGggtacccgattaaacattcccttgatacttcaacacacgttagctggggac Alignment from Spaln_aa2Genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAG- tctgcatagatttttgagtttcagacccgaccttgcctttccggttccagATT---GACCCCTCAGTGGGCCCCAAAATCCCTCAGGCTGTGCGAAAAGATCCTTCAGCTGAAGGAGAGTCAGCGCAAGAGATGAACTCTCAGGgtacccgattaaacattcccttgatacttcaacacacgttagctggggac Alignment from Spaln_nt2Genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTG-GAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG tctgcatagatttttgagtttcagacccgaccttgcctttccggttccagAT---TGACCCCTCAGTGGGCCCCAAAATCCCTCAGGCTGTGCGAAAAGATCCTTCAGCTGAAGGAGAGTCAGC-GCAAGAGATGAACTCT---CAGGgtacccgattaaacattcccttgatacttcaacacacgttagctggggac Alignment from Pairagon ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTG-GAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG tctgcatagatttttgagtttcagacccgaccttgcctttccggttccagAT---TGACCCCTCAGTGGGCCCCAAAATCCCTCAGGCTGTGCGAAAAGATCCTTCAGCTGAAGGAGAGTCAGC-GCAAGAGATGAACTCTCAG---Ggtacccgattaaacattcccttgatacttcaacacacgttagctggggac Alignment from Exonerate_protein2genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGC tctgcatagatttttgagtttcagacccgaccttgcctttccggttccagATT---GACCCCTCAGTGGGCCCCAAAATCCCTCAGGCTGTGCGAAAAGATCCTTCAGCTGAAGGAGAGTCAGCGCAAGAGATGAACTCTCAGGgtacccgattaaacattcccttgatacttcaacacacgttagctggggac Alignment from Exonerate_coding2genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGC tctgcatagatttttgagtttcagacccgaccttgcctttccggttccagATT---GACCCCTCAGTGGGCCCCAAAATCCCTCAGGCTGTGCGAAAAGATCCTTCAGCTGAAGGAGAGTCAGCGCAAGAGATGAACTCTCAGGgtacccgattaaacattcccttgatacttcaacacacgttagctggggac Alignment from GeneWise ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG tctgcatagatttttgagtttcagacccgaccttgcctttccggttccagATTGAC---CCCTCAGTGGGCCCCAAAATCCCTCAGGCTGTGCGAAAAGATCCTTCAGCTGAAGGAGAGTCAGCGCAAGAGATGAACTCT---CAGGgtacccgattaaacattcccttgatacttcaacacacgttagctggggac #### Sfxn3_ID9286_4 --> 1 - 0 Original Alignment gCAGTTGGGGACAGCCTATGTG-AGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cagcccaaaattggtagcctactacacactaaccttttctttccctccaggCAGTTAGGGACAGCCTATGTGCAGTGCCACCACTGGAGCTGTGGCTACTGCTC-GGGACTAAAGTCTCTGACCAAGgtagcctttccctccttctttctagagttctatcttcatgaagtcaccac Alignment from CESAR gCAGTTGGGGACAGCCTATGTG-AGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cagcccaaaattggtagcctactacacactaaccttttctttccctccaggCAGTTAGGGACAGCCTATGTGCAGTGCCACCACTGGAGCTGTGGCTACTGCT-CGGGACTAAAGTCTCTGACCAAGgtagcctttccctccttctttctagagttctatcttcatgaagtcaccac Alignment from Spaln_aa2Genome GCAGTTGGGGACAGCCTATGTG-AGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cagcccaaaattggtagcctactacacactaaccttttctttccctccagGCAGTTAGGGACAGCCTATGTGcAGTGCCACCACTGGAGCTGTGGCTACTGCTCG-GGACTAAAGTCTCTGACCAAGgtagcctttccctccttctttctagagttctatcttcatgaagtcaccac Alignment from Spaln_nt2Genome GCAGTTGGGGACAGCCTATGTG-AGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cagcccaaaattggtagcctactacacactaaccttttctttccctccagGCAGTTAGGGACAGCCTATGTGCAGTGCCACCACTGGAGCTGTGGCTACTGCTC-GGGACTAAAGTCTCTGACCAAGgtagcctttccctccttctttctagagttctatcttcatgaagtcaccac Alignment from Pairagon GCAGTTGGGGACAGCCTATGTG-AGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cagcccaaaattggtagcctactacacactaaccttttctttccctccagGCAGTTAGGGACAGCCTATGTGCAGTGCCACCACTGGAGCTGTGGCTACTGCTC-GGGACTAAAGTCTCTGACCAAGgtagcctttccctccttctttctagagttctatcttcatgaagtcaccac Alignment from Exonerate_protein2genome GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cagcccaaaattggtagcctactacacactaaccttttctttccctccagGCAGTTAGGGACAGCCTATGTGCAGTGCCACCACTGGAGCTGTGGCTACTGCTCGGGACTAAAGTCTCTGACCAAGgtagcctttccctccttctttctagagttctatcttcatgaagtcaccac Alignment from Exonerate_coding2genome GTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cagcccaaaattggtagcctactacacactaaccttttctttccctccaggcagTTAGGGACAGCCTATGTGCAGTGCCACCACTGGAGCTGTGGCTACTGCTCG-GGACTAAAGTCTCTGACCAAGgtagcctttccctccttctttctagagttctatcttcatgaagtcaccac Alignment from GeneWise GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cagcccaaaattggtagcctactacacactaaccttttctttccctccagGCAGTTAGGGACAGCCTATGTGCAGTGCCACCACTGGAGCTGTGGCTACTGCTCGGGACTAAAGTCTCTGACCAAGgtagcctttccctccttctttctagagttctatcttcatgaagtcaccac #### Shoc2_ID11421_7 --> 0 - 1 Original Alignment AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACC-AACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCg gcagttgaatatagaccatgtatgttcgtacaaatgtttctctgccacagGAATTAGTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGAGGCATAGGCCACCTCACTCAACCTCACTCACCTTGGTCTAGGCGAGAACC-ACTCACTCACCTTCCTGAAGAAATTggtgggcactgggatgccatccatgattttgtatatctgacgttttaagaa Alignment from CESAR AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACC-AACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCg gcagttgaatatagaccatgtatgttcgtacaaatgtttctctgccacagGAATTAGTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGAGGCATAGGCCACCTCACTCAACCTCACTCACCTTGGTCTAGGCGAGAAC-CACTCACTCACCTTCCTGAAGAAATTggtgggcactgggatgccatccatgattttgtatatctgacgttttaagaa Alignment from Spaln_aa2Genome AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCG gcagttgaatatagaccatgtatgttcgtacaaatgtttctctgccacagGAATTAGTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGAGGCATAGGCCACCTCACTCAACCTCACTCACCTTGGTCTAGGCGAGAACCACTCACTCACCTTCCTGAAGAAATTGgtgggcactgggatgccatccatgattttgtatatctgacgttttaagaa Alignment from Spaln_nt2Genome AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTAC-CAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCG gcagttgaatatagaccatgtatgttcgtacaaatgtttctctgccacagGAATTAGTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGAGGCATAGGCCACCTCACTCAACCTCACTCACCTTGGTCTAGGCGAGAACC-ACTCACTCACCTTCCTGAAGAAATTGgtgggcactgggatgccatccatgattttgtatatctgacgttttaagaa Alignment from Pairagon AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTAC-CAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCG gcagttgaatatagaccatgtatgttcgtacaaatgtttctctgccacagGAATTAGTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGAGGCATAGGCCACCTCACTCAACCTCACTCACCTTGGTCTAGGCGAGAACC-ACTCACTCACCTTCCTGAAGAAATTGgtgggcactgggatgccatccatgattttgtatatctgacgttttaagaa Alignment from Exonerate_protein2genome AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCG gcagttgaatatagaccatgtatgttcgtacaaatgtttctctgccacagGAATTAGTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGAGGCATAGGCCACCTCACTCAACCTCACTCACCTTGGTCTAGGCGAGAACCACTCACTCACCTTCCTGAAGAAATTGgtgggcactgggatgccatccatgattttgtatatctgacgttttaagaa Alignment from Exonerate_coding2genome AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCG gcagttgaatatagaccatgtatgttcgtacaaatgtttctctgccacagGAATTAGTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGAGGCATAGGCCACCTCACTCAACCTCACTCACCTTGGTCTAGGCGAGAACCACTCACTCACCTTCCTGAAGAAATTGgtgggcactgggatgccatccatgattttgtatatctgacgttttaagaa Alignment from GeneWise AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCG gcagttgaatatagaccatgtatgttcgtacaaatgtttctctgccacagGAATTAGTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGAGGCATAGGCCACCTCACTCAACCTCACTCACCTTGGTCTAGGCGAGAACCACTCACTCACCTTCCTGAAGAAATTGgtgggcactgggatgccatccatgattttgtatatctgacgttttaagaa #### Sipa1_ID1138_14 --> 1 - 0 Original Alignment gCCAGAACCCGGGAGCCTGTCAGAAAAG-GTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG ctcaattttctgttgggtgtggcatccttcccatctctttgttatttcaggCCA---CCTGGGAGCCTATCAGAAAAGCATCTCTCATCTAGAGTCCATGCTCTGGAAATTGCAAG-GGATTCGCAGAGAgtgggctgcctacctgggaagggtttaaagggctgccatgggacatggga Alignment from CESAR gCCAGAACCCGGGAGCCTGTCAGAAAAG-GTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG ctcaattttctgttgggtgtggcatccttcccatctctttgttatttcaggCCA---CCTGGGAGCCTATCAGAAAAGCATCTCTCATCTAGAGTCCATGCTCTGGAAATTGCAA-GGGATTCGCAGAGAgtgggctgcctacctgggaagggtttaaagggctgccatgggacatggga Alignment from Spaln_aa2Genome GCCAGAACCCGGGAGCCTGTCAGAAAAG-GTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGGGAGAAG ctcaattttctgttgggtgtggcatccttcccatctctttgttatttcagGCCA---CCTGGGAGCCTATCAGAAAAGcATCTCTCATCTAGAGTCCATGCTCTGGAAATTGCAA---GGGATTCGCAGAGAGTGGgctgcctacctgggaagggtttaaagggctgccatgggacatggga Alignment from Spaln_nt2Genome GCCAGAACCCGGGAGCCTGTCAGAAAAGG-TCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG ctcaattttctgttgggtgtggcatccttcccatctctttgttatttcagGCC---ACCTGGGAGCCTATCAGAAAAGCATCTCTCATCTAGAGTCCATGCTCTGGAAATTGCAAG-GGATTCGCAGAGAgtgggctgcctacctgggaagggtttaaagggctgccatgggacatggga Alignment from Pairagon GCCAGAACCCGGGAGCCTGTCAGAAAAG-GTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG ctcaattttctgttgggtgtggcatccttcccatctctttgttatttcagGCC---ACCTGGGAGCCTATCAGAAAAGCATCTCTCATCTAGAGTCCATGCTCTGGAAATTGCAAG-GGATTCGCAGAGAgtgggctgcctacctgggaagggtttaaagggctgccatgggacatggga Alignment from Exonerate_protein2genome GCCAGAACCCGGGAGCCTGTCAGAAAAG-GTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG ctcaattttctgttgggtgtggcatccttcccatctctttgttatttcagGCCA---CCTGGGAGCCTATCAGAAAAGCATCTCTCATCTAGAGTCCATGCTCTGGAAATTGCAA---GGGATTCGCAGAgagtgggctgcctacctgggaagggtttaaagggctgccatgggacatggga Alignment from Exonerate_coding2genome ctcaattttctgttgggtgtggcatccttcccatctctttgttatttcaggccacctgggagcctatcagaaaagcatctctcatctagagtccatgctctggaaattgcaagggattcgcagagagtgggctgcctacctgggaagggtttaaagggctgccatgggacatggga Alignment from GeneWise GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAG------GAGGACCTGCAGAGG ctcaattttctgttgggtgtggcatccttcccatctctttgttatttcagGCCA---CCTGGGAGCCTATCAGAAAAG------CATCTCTCATCTAGAGTCCATGCTCTGGAAATTGCAAGGGATTCGCAGAGAgtgggctgcctacctgggaagggtttaaagggctgccatgggacatggga #### Sipa1_ID1140_12 --> 2 - 1 Original Alignment ttATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCC-ATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGg g aggtttgacataattatcttcaccctttaagctacttccctctcacccagttATGCCAGAAGCTGCGACTGAAACCTTGGAT---GAATGGCAGTCCCATCTCTGCAATCTCCTCCACTTGCAACACAATCT-GGAGTCCCTGTCTCGGGAAggtaaggctgttaattggatattagccatcttttatctatctccttacagg Alignment from CESAR ttATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCC-ATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGg g aggtttgacataattatcttcaccctttaagctacttccctctcacccagttATGCCAGAAGCTGCGACTGAAACCTTG---GATGAATGGCAGTCCCATCTCTGCAATCTCCTCCACTTGCAACACAA-TCTGGAGTCCCTGTCTCGGGAAggtaaggctgttaattggatattagccagaatgacttttgtcatcctcagg Alignment from Spaln_aa2Genome TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG G aggtttgacataattatcttcaccctttaagctacttccctctcacccagTTATGCCAGAAGCTGCGACTGAAACCTTG---GATGAATGGCAGTCCCATCTCTGCAATCTCCTCCACTTGCAACACAATCTGGAGTCCCTGTCTCGGGAAGgtaaggctgttaattggatattagccatcttttatctatctccttacagG Alignment from Spaln_nt2Genome TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCC-ATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG G aggtttgacataattatcttcaccctttaagctacttccctctcacccagTTATGCCAGAAGCTGCGACTGAAACCTT---GGATGAATGGCAGTCCCATCTCTGCAATCTCCTCCACTTGCAACACAAT-CTGGAGTCCCTGTCTCGGGAAGgtaaggctgttaattggatattagccatcttttatctatctccttacagG Alignment from Pairagon TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGT-CCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG G aggtttgacataattatcttcaccctttaagctacttccctctcacccagTTATGCCAGAAGCTGCGACTGAAACCTT---GGATGAATGGCAGTCCCATCTCTGCAATCTCCTCCACTTGCAACACAA-TCTGGAGTCCCTGTCTCGGGAAGgtaaggctgttaattggatattagccatcttttatctatctccttacagG Alignment from Exonerate_protein2genome TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG G aggtttgacataattatcttcaccctttaagctacttccctctcacccagTTATGCCAGAAGCTGCGACTGAAACCTTG---GATGAATGGCAGTCCCATCTCTGCAATCTCCTCCACTTGCAACACAATCTGGAGTCCCTGTCTCGGGAAGgtaaggctgttaattggatattagccatcttttatctatctccttacagG Alignment from Exonerate_coding2genome aggtttgacataattatcttcaccctttaagctacttccctctcacccagttatgccagaagctgcgactgaaaccttggatgaatggcagtcccatctctgcaatctcctccacttgcaacacaatctggagtccctgtctcgggaaggtaaggctgttaattggatattagccatcttttatctatctccttacagg Alignment from GeneWise TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG G aggtttgacataattatcttcaccctttaagctacttccctctcacccagTTATGCCAGAAGCTGCGACTGAAACCTTG---GATGAATGGCAGTCCCATCTCTGCAATCTCCTCCACTTGCAACACAATCTGGAGTCCCTGTCTCGGGAAGgtaaggctgttaattggatattagccatcttttatctatctccttacagG #### Sipa1_ID1146_6 --> 0 - 2 Original Alignment CTCCTGAGGAAGCGTCATATCGGCAACGAT-ATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACag ttgagcacactgaaaatcatgtattttttaaacacaccttccctttgcagCTCCTAAGGAAACGTCACATCAGTAATGACCATTGTGACCATTGTGTTTCAAGAGCCTGGCAGCAAGCCCT-CTGTCCTATGACAATATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACaggtgagcatttggttaaactggtgtcttagggttgggtcaactgtcatggt Alignment from CESAR CTCCTGAGGAAGCGTCATATCGGCAACGAT-ATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACag ttgagcacactgaaaatcatgtattttttaaacacaccttccctttgcagCTCCTAAGGAAACGTCACATCAGTAATGACCATTGTGACCATTGTGTTTCAAGAGCCTGGCAGCAAGC-CCTCTGTCCTATGACAATATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACaggtgagcatttggttaaactggtgtcttagggttgggtcaactgtcatggt Alignment from Spaln_aa2Genome CTCCTGAGGAAGCGTCATATCGGCAACGAT-ATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG ttgagcacactgaaaatcatgtattttttaaacacaccttccctttgcagCTCCTAAGGAAACGTCACATCAGTAATGACcATTGTGACCATTGTGTTTCAAGAGCCTGGCAGCAAGCCCTC-TGTCCTATGACAATATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACAGgtgagcatttggttaaactggtgtcttagggttgggtcaactgtcatggt Alignment from Spaln_nt2Genome CTCCTGAGGAAGCGTCATATCGGCAACGAT-ATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG ttgagcacactgaaaatcatgtattttttaaacacaccttccctttgcagCTCCTAAGGAAACGTCACATCAGTAATGACCATTGTGACCATTGTGTTTCAAGAGCCTGGCAGCAAGCCC-TCTGTCCTATGACAATATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACAGgtgagcatttggttaaactggtgtcttagggttgggtcaactgtcatggt Alignment from Pairagon CTCCTGAGGAAGCGTCATATCGGCAACGA-TATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG ttgagcacactgaaaatcatgtattttttaaacacaccttccctttgcagCTCCTAAGGAAACGTCACATCAGTAATGACCATTGTGACCATTGTGTTTCAAGAGCCTGGCAGCAAGCCC-TCTGTCCTATGACAATATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACAGgtgagcatttggttaaactggtgtcttagggttgggtcaactgtcatggt Alignment from Exonerate_protein2genome CTCCTGAGGAAGCGTCATATCGGCAACGAT-ATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCC--TTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG ttgagcacactgaaaatcatgtattttttaaacacaccttccctttgcagCTCCTAAGGAAACGTCACATCAGTAATGACCATTGTGACCATTGTGTTTCAAGAGCCTGGCAGCAAGCCCTC---TGTCCTATGACAATATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACAGgtgagcatttggttaaactggtgtcttagggttgggtcaactgtcatggt Alignment from Exonerate_coding2genome CTCCTGAGGAAGCGTCATATCGGCAACGAT-ATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCC--TTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG ttgagcacactgaaaatcatgtattttttaaacacaccttccctttgcagCTCCTAAGGAAACGTCACATCAGTAATGACCATTGTGACCATTGTGTTTCAAGAGCCTGGCAGCAAGCCCTC---TGTCCTATGACAATATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACAGgtgagcatttggttaaactggtgtcttagggttgggtcaactgtcatggt Alignment from GeneWise CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG ttgagcacactgaaaatcatgtattttttaaacacaccttccctttgcagCTCCTAAGGAAACGTCACATCAGTAATGACCATTGTGACCATTGTGTTTCAAGAGCCTGGCAGCAAGCCCTCTGTCCTATGACAATATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACAGgtgagcatttggttaaactggtgtcttagggttgggtcaactgtcatggt #### Sipa1_ID1147_5 --> 2 - 0 Original Alignment cgGATTCCACGGGCACA-CACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG tgtagccttccataacatccttgccaacgacacctttcctttttttctagcgGATTCCACGGGCACCCCACTCACTCTACACCACCTACCAAGATCATG-GATCATGTTTCACGTGTCCACGATGTTGCCTTACACACCTAATAACCAGCAACAGgtaagtagagaatttgccaaggctaggaaagaccactgggaatcagtctc Alignment from CESAR cgGATTCCACGGGCACA-CACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG tgtagccttccataacatccttgccaacgacacctttcctttttttctagcgGATTCCACGGGCACCCCACTCACTCTACACCACCTACCAAGATCAT-GGATCATGTTTCACGTGTCCACGATGTTGCCTTACACACCTAATAACCAGCAACAGgtaagtagagaatttgccaaggctaggaaagaccactgggaatcagtctc Alignment from Spaln_aa2Genome CGGATTCCACGGGCACA-CACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG tgtagccttccataacatccttgccaacgacacctttcctttttttctagCGGATTCCACGGGCACCcCACTCACTCTACACCACCTACCAAGATCATGG-ATCATGTTTCACGTGTCCACGATGTTGCCTTACACACCTAATAACCAGCAACAGgtaagtagagaatttgccaaggctaggaaagaccactgggaatcagtctc Alignment from Spaln_nt2Genome CGGATTCCACGGGCACAC-ACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG tgtagccttccataacatccttgccaacgacacctttcctttttttctagCGGATTCCACGGGCACCCCACTCACTCTACACCACCTACCAAGATCATG-GATCATGTTTCACGTGTCCACGATGTTGCCTTACACACCTAATAACCAGCAACAGgtaagtagagaatttgccaaggctaggaaagaccactgggaatcagtctc Alignment from Pairagon CGGATTCCACGGGCA-CACACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG tgtagccttccataacatccttgccaacgacacctttcctttttttctagCGGATTCCACGGGCACCCCACTCACTCTACACCACCTACCAAGATCATG-GATCATGTTTCACGTGTCCACGATGTTGCCTTACACACCTAATAACCAGCAACAGgtaagtagagaatttgccaaggctaggaaagaccactgggaatcagtctc Alignment from Exonerate_protein2genome CGGATTCCACGGGCACA-CACTCACTCTACACCACCTACCAAGACCAT--GAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG tgtagccttccataacatccttgccaacgacacctttcctttttttctagCGGATTCCACGGGCACCCCACTCACTCTACACCACCTACCAAGATCATGG---ATCATGTTTCACGTGTCCACGATGTTGCCTTACACACCTAATAACCAGCAACAGgtaagtagagaatttgccaaggctaggaaagaccactgggaatcagtctc Alignment from Exonerate_coding2genome CGGATTCCACGGGCACA-CACTCACTCTACACCACCTACCAAGACCAT--GAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG tgtagccttccataacatccttgccaacgacacctttcctttttttctagCGGATTCCACGGGCACCCCACTCACTCTACACCACCTACCAAGATCATGG---ATCATGTTTCACGTGTCCACGATGTTGCCTTACACACCTAATAACCAGCAACAGgtaagtagagaatttgccaaggctaggaaagaccactgggaatcagtctc Alignment from GeneWise CGGATTCCACGGGCACACACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG tgtagccttccataacatccttgccaacgacacctttcctttttttctagCGGATTCCACGGGCACCCCACTCACTCTACACCACCTACCAAGATCATGGATCATGTTTCACGTGTCCACGATGTTGCCTTACACACCTAATAACCAGCAACAGgtaagtagagaatttgccaaggctaggaaagaccactgggaatcagtctc #### Sipa1_ID1150_2 --> 2 - 0 Original Alignment aaCACCAGAACTTCTTTGGGCTGGATGAGGCGCTGGGTCCGGTGGCCGTGAGC-CTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG agaggcactttacaacaaaccaacaacacaggctttattcttccttttagaaCACCAAAACTTCTTTGGACTAGATGAGGCACTAGGCCCTGTGGCTTTGAGTCCTCCAACGGGAGGAAAAGGAGGGCAGTGGAG-GGCCCCCTTACACAGCTTTCAAGTCATTGTGCGAACAATGCAGgtgagtgacatcaccgggtgtaaatagctatccaatcccaatttttctta Alignment from CESAR aaCACCAGAACTTCTTTGGGCTGGATGAGGCGCTGGGTCCGGTGGCCGTGAGC-CTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG agaggcactttacaacaaaccaacaacacaggctttattcttccttttagaaCACCAAAACTTCTTTGGACTAGATGAGGCACTAGGCCCTGTGGCTTTGAGTCCTCCAACGGGAGGAAAAGGAGGGCAGTGGAG-GGCCCCCTTACACAGCTTTCAAGTCATTGTGCGAACAATGCAGgtgagtgacatcaccgggtgtaaatagctatccatctctgttgctcttta Alignment from Spaln_aa2Genome AACACCAGAACTTCTTTGGGCTGGATGAGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG agaggcactttacaacaaaccaacaacacaggctttattcttccttttagAACACCAAAACTTCTTTGGACTAGATGAGGCACTAGGCCCTGTGGCTTTGAGTCCTCCAACGGGAGGAAAAGGAGGGCAGTGGAGGGCCCCCTTACACAGCTTTCAAGTCATTGTGCGAACAATGCAGgtgagtgacatcaccgggtgtaaatagctatccaatcccaatttttctta Alignment from Spaln_nt2Genome AACACCAGAACTTCTTTGGGCTGGATGAGGCGCTGGGTCCGGTGGCCGTGAG-CCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG agaggcactttacaacaaaccaacaacacaggctttattcttccttttagAACACCAAAACTTCTTTGGACTAGATGAGGCACTAGGCCCTGTGGCTTTGAGTCCTCCAACGGGAGGAAAAGGAGGGCAGTGGA-GGGCCCCCTTACACAGCTTTCAAGTCATTGTGCGAACAATGCAGgtgagtgacatcaccgggtgtaaatagctatccaatcccaatttttctta Alignment from Pairagon AACACCAGAACTTCTTTGGGCTGGATGAGGCGCTGGGTCCGGTGGCCGTGAG-CCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG agaggcactttacaacaaaccaacaacacaggctttattcttccttttagAACACCAAAACTTCTTTGGACTAGATGAGGCACTAGGCCCTGTGGCTTTGAGTCCTCCAACGGGAGGAAAAGGAGGGCAGTGGA-GGGCCCCCTTACACAGCTTTCAAGTCATTGTGCGAACAATGCAGgtgagtgacatcaccgggtgtaaatagctatccaatcccaatttttctta Alignment from Exonerate_protein2genome AACACCAGAACTTCTTTGGGCTGGATGAGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG agaggcactttacaacaaaccaacaacacaggctttattcttccttttagAACACCAAAACTTCTTTGGACTAGATGAGGCACTAGGCCCTGTGGCTTTGAGTCCTCCAACGGGAGGAAAAGGAGGGCAGTGGAGGGCCCCCTTACACAGCTTTCAAGTCATTGTGCGAACAATGCAGgtgagtgacatcaccgggtgtaaatagctatccaatcccaatttttctta Alignment from Exonerate_coding2genome agaggcactttacaacaaaccaacaacacaggctttattcttccttttagaacaccaaaacttctttggactagatgaggcactaggccctgtggctttgagtcctccaacgggaggaaaaggagggcagtggagggcccccttacacagctttcaagtcattgtgcgaacaatgcaggtgagtgacatcaccgggtgtaaatagctatccaatcccaatttttctta Alignment from GeneWise AACACCAGAACTTCTTTGGGCTGGATGAGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG agaggcactttacaacaaaccaacaacacaggctttattcttccttttagAACACCAAAACTTCTTTGGACTAGATGAGGCACTAGGCCCTGTGGCTTTGAGTCCTCCAACGGGAGGAAAAGGAGGGCAGTGGAGGGCCCCCTTACACAGCTTTCAAGTCATTGTGCGAACAATGCAGgtgagtgacatcaccgggtgtaaatagctatccaatcccaatttttctta #### Slc15a3_ID3029_4 --> 0 - 0 Original Alignment ATGCAGTCCACC-TATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ttttagggctctactactatgtactgaccatgactccttctgtgccgcagATGCAGTCAACTCTACATCCTCCAAGGTCTACACCTCCATATCC-AAACATCTTCAGGACTAATCCTAACATATCTCTGTTGCTGAGATCAGACAGCAGTAACTACAGAgtaagttgctactacatgattatatcacaatgaggaaagttgggacagca Alignment from CESAR ATGCAGTCCACC-TATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ttttagggctctactactatgtactgaccatgactccttctgtgccgcagATGCAGTCAACTCTACATCCTCCAAGGTCTACACCTCCATA-TCCAAACATCTTCAGGACTAATCCTAACATATCTCTGTTGCTGAGATCAGACAGCAGTAACTACAGAgtaagttgctactacatgattatatcacaatgaggaaagttgggacagca Alignment from Spaln_aa2Genome ATGCAGTCCACC-TATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ttttagggctctactactatgtactgaccatgactccttctgtgccgcagATGCAGTCAACTcTACATCCTCCAAGGTCTACACCTCCATAT-CCAAACATCTTCAGGACTAATCCTAACATATCTCTGTTGCTGAGATCAGACAGCAGTAACTACAGAgtaagttgctactacatgattatatcacaatgaggaaagttgggacagca Alignment from Spaln_nt2Genome ATGCAGTCCAC-CTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ttttagggctctactactatgtactgaccatgactccttctgtgccgcagATGCAGTCAACTCTACATCCTCCAAGGTCTACACCTCCATAT-CCAAACATCTTCAGGACTAATCCTAACATATCTCTGTTGCTGAGATCAGACAGCAGTAACTACAGAgtaagttgctactacatgattatatcacaatgaggaaagttgggacagca Alignment from Pairagon ATGCAGTCCAC-CTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ttttagggctctactactatgtactgaccatgactccttctgtgccgcagATGCAGTCAACTCTACATCCTCCAAGGTCTACACCTCCATAT-CCAAACATCTTCAGGACTAATCCTAACATATCTCTGTTGCTGAGATCAGACAGCAGTAACTACAGAgtaagttgctactacatgattatatcacaatgaggaaagttgggacagca Alignment from Exonerate_protein2genome ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ttttagggctctactactatgtactgaccatgactccttctgtgccgcagATGCAGTCAACTCTACATCCTCCAAGGTCTACACCTCCATATCCAAACATCTTCAGGACTAATCCTAACATATCTCTGTTGCTGAGATCAGACAGCAGTAACTACAGAgtaagttgctactacatgattatatcacaatgaggaaagttgggacagca Alignment from Exonerate_coding2genome ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ttttagggctctactactatgtactgaccatgactccttctgtgccgcagATGCAGTCAACTCTACATCCTCCAAGGTCTACACCTCCATATCCAAACATCTTCAGGACTAATCCTAACATATCTCTGTTGCTGAGATCAGACAGCAGTAACTACAGAgtaagttgctactacatgattatatcacaatgaggaaagttgggacagca Alignment from GeneWise ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ttttagggctctactactatgtactgaccatgactccttctgtgccgcagATGCAGTCAACTCTACATCCTCCAAGGTCTACACCTCCATATCCAAACATCTTCAGGACTAATCCTAACATATCTCTGTTGCTGAGATCAGACAGCAGTAACTACAGAgtaagttgctactacatgattatatcacaatgaggaaagttgggacagca #### Slc18a2_ID12936_4 --> 2 - 1 Original Alignment tgTTTGCCTTCTCCAGCAGCTATGCCTTC-CTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTg caggtttatgtaggggaccaggaaggcattttctctgtccttgttcccagtgTTCGCATACTCTAGTGGTTATGCCTTTCCTCCTGATCGCCAAGTCCTTGCAGGGAATAGGTT-ATCTTGCTCATCTGTGGCTggtaacactaaaattaatgtatgtaccatggactcacatgtattgaggcag Alignment from CESAR tgTTTGCCTTCTCCAGCAGCTATGCC-TTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTg caggtttatgtaggggaccaggaaggcattttctctgtccttgttcccagtgTTCGCATACTCTAGTGGTTATGCCTTTCCTCCTGATCGCCAAGTCCTTGCAGGGAATAGGT-TATCTTGCTCATCTGTGGCTggtaacactaaaattaatgtatgtaccatggactcacatgtattgaggcag Alignment from Spaln_aa2Genome TGTTTGCCTTCTCCAGCAGCTATGCCTTC-CTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG caggtttatgtaggggaccaggaaggcattttctctgtccttgttcccagTGTTCGCATACTCTAGTGGTTATGCCTTTcCTCCTGATCGCCAAGTCCTTGCAGGGAATAGGTTA-TCTTGCTCATCTGTGGCTGgtaacactaaaattaatgtatgtaccatggactcacatgtattgaggcag Alignment from Spaln_nt2Genome TGTTTGCCTTCTCCAGCAGCTATGCCTT-CCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG caggtttatgtaggggaccaggaaggcattttctctgtccttgttcccagTGTTCGCATACTCTAGTGGTTATGCCTTTCCTCCTGATCGCCAAGTCCTTGCAGGGAATAGG-TTATCTTGCTCATCTGTGGCTGgtaacactaaaattaatgtatgtaccatggactcacatgtattgaggcag Alignment from Pairagon TGTTTGCCTTCTCCAGCAGCTATGCC-TTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG caggtttatgtaggggaccaggaaggcattttctctgtccttgttcccagTGTTCGCATACTCTAGTGGTTATGCCTTTCCTCCTGATCGCCAAGTCCTTGCAGGGAATAGG-TTATCTTGCTCATCTGTGGCTGgtaacactaaaattaatgtatgtaccatggactcacatgtattgaggcag Alignment from Exonerate_protein2genome TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG caggtttatgtaggggaccaggaaggcattttctctgtccttgttcccagTGTTCGCATACTCTAGTGGTTATGCCTTTCCTCCTGATCGCCAAGTCCTTGCAGGGAATAGGTTATCTTGCTCATCTGTGGCTGgtaacactaaaattaatgtatgtaccatggactcacatgtattgaggcag Alignment from Exonerate_coding2genome TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG caggtttatgtaggggaccaggaaggcattttctctgtccttgttcccagTGTTCGCATACTCTAGTGGTTATGCCTTTCCTCCTGATCGCCAAGTCCTTGCAGGGAATAGGTTATCTTGCTCATCTGTGGCTGgtaacactaaaattaatgtatgtaccatggactcacatgtattgaggcag Alignment from GeneWise TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG caggtttatgtaggggaccaggaaggcattttctctgtccttgttcccagTGTTCGCATACTCTAGTGGTTATGCCTTTCCTCCTGATCGCCAAGTCCTTGCAGGGAATAGGTTATCTTGCTCATCTGTGGCTGgtaacactaaaattaatgtatgtaccatggactcacatgtattgaggcag #### Slc22a12_ID1789_8 --> 2 - 2 Original Alignment ggATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGC-CTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCag ctatggctggttgatacattgcgaattgctttgtctattcatacttcaagcaATGGGGGTCCTTCGCTCTGCTCTGGCTGTGCTAGGATTGGGCTGCCCTAGGTGGTGCCTTCACGTGCATCACCATTTTCTCTA-CGAGCTCTTTCCCACTGTTATCaggtagcagcaattagtccatggatcacaccaccagaccattgcccatagat Alignment from CESAR ggATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGC-CTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCag ctatggctggttgatacattgcgaattgctttgtctattcatacttcaagcaATGGGGGTCCTTCGCTCTGCTCTGGCTGTGCTAGGATTGGGCTGCCCTAGGTGGTGCCTTCACGTGCATCACCATTTTCTCT-ACGAGCTCTTTCCCACTGTTATCaggtagcagcaattagtccatggatcacaccaccagaccattgcccatagat Alignment from Spaln_aa2Genome GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGC-CTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG ctatggctggttgatacattgcgaattgctttgtctattcatacttcaagCAATGGGGGTCCTTCGCTCTGCTCTGGCTGTGCTAGGATTGGGCTGCcCTAGGTGGTGCCTTCACGTGCATCACCATTTTCTCTAC-GAGCTCTTTCCCACTGTTATCAGgtagcagcaattagtccatggatcacaccaccagaccattgcccatagat Alignment from Spaln_nt2Genome GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCC-TGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG ctatggctggttgatacattgcgaattgctttgtctattcatacttcaagCAATGGGGGTCCTTCGCTCTGCTCTGGCTGTGCTAGGATTGGGCTGCCCTAGGTGGTGCCTTCACGTGCATCACCATTTTCTCTA-CGAGCTCTTTCCCACTGTTATCAGgtagcagcaattagtccatggatcacaccaccagaccattgcccatagat Alignment from Pairagon GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTG-CCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG ctatggctggttgatacattgcgaattgctttgtctattcatacttcaagCAATGGGGGTCCTTCGCTCTGCTCTGGCTGTGCTAGGATTGGGCTGCCCTAGGTGGTGCCTTCACGTGCATCACCATTTTCTCTA-CGAGCTCTTTCCCACTGTTATCAGgtagcagcaattagtccatggatcacaccaccagaccattgcccatagat Alignment from Exonerate_protein2genome GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGC-CTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCC--AGTGAGCTCTTCCCCACTGTGATCAG ctatggctggttgatacattgcgaattgctttgtctattcatacttcaagCAATGGGGGTCCTTCGCTCTGCTCTGGCTGTGCTAGGATTGGGCTGCCCTAGGTGGTGCCTTCACGTGCATCACCATTTTCTCTAC---GAGCTCTTTCCCACTGTTATCAGgtagcagcaattagtccatggatcacaccaccagaccattgcccatagat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG ctatggctggttgatacattgcgaattgctttgtctattcatacttcaagCAATGGGGGTCCTTCGCTCTGCTCTGGCTGTGCTAGGATTGGGCTGCCCTAGGTGGTGCCTTCACGTGCATCACCATTTTCTCTACGAGCTCTTTCCCACTGTTATCAGgtagcagcaattagtccatggatcacaccaccagaccattgcccatagat #### Slc22a12_ID1790_7 --> 1 - 1 Original Alignment gTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGC-CGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATg tggcatgggccaagagacaaaggatctttggaccactcctctccccacagtTTTTCCATAGGCTTTACCTTTTATGGATTAGCGATTGAC---------CTTGGGAGCAATATATTCCTCCTCCAGTCGATCATTGGGATAGTGGATTTTCCAGTAAAGACGGGTAGTTTGCTCTTGATCACACCGCTTGGGCCAACACCTATGTCAGGTCAGTTTTC-GGTC---CCTGGACTATGTATACTTTCCAATATATTGGTGCCCCATggtaagtcaataatctcctactgggggtgagtgttcaacagaaaactagaa Alignment from CESAR gTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGC-CGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATg tggcatgggccaagagacaaaggatctttggaccactcctctccccacagtTTTTCCATAGGCTTTACCTTTTATGGATTAGCGATTGAC---------CTTGGGAGCAATATATTCCTCCTCCAGTCGATCATTGGGATAGTGGATTTTCCAGTAAAGACGGGTAGTTTGCTCTTGATCACACCGCTTGGGCCAACACCTATGTCAGGTCAGTTTT-CGGTC---CCTGGACTATGTATACTTTCCAATATATTGGTGCCCCATggtaagtcaataatctcctactgggggtgagtgttcaacagaaaactagaa Alignment from Spaln_aa2Genome GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG tggcatgggccaagagacaaaggatctttggaccactcctctccccacagTTTTTCCATAGGCTTTACCTTTTATGGATTAGCGATTGAC---------CTTGGGAGCAATATATTCCTCCTCCAGTCGATCATTGGGATAGTGGATTTTCCAGTAAAGACGGGTAGTTTGCTCTTGATCACACCGCTTGGGCCAACACCTATGTCAGGTCAGTTTTCGGTC---CCTGGACTATGTATACTTTCCAATATATTGGTGCCCCATGgtaagtcaataatctcctactgggggtgagtgttcaacagaaaactagaa Alignment from Spaln_nt2Genome GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAG-CCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG tggcatgggccaagagacaaaggatctttggaccactcctctccccacagTTTTTCCATAGGCTTTACCTTTTATGGATTAGCGATTGA---------CCTTGGGAGCAATATATTCCTCCTCCAGTCGATCATTGGGATAGTGGATTTTCCAGTAAAGACGGGTAGTTTGCTCTTGATCACACCGCTTGGGCCAACACCTATGTCAGGTCAGTTTTC----GGTCCCTGGACTATGTATACTTTCCAATATATTGGTGCCCCATGgtaagtcaataatctcctactgggggtgagtgttcaacagaaaactagaa Alignment from Pairagon GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCA-GCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG tggcatgggccaagagacaaaggatctttggaccactcctctccccacagTTTTTCCATAGGCTTTACCTTTTATGGATTAGCGATTGA---------CCTTGGGAGCAATATATTCCTCCTCCAGTCGATCATTGGGATAGTGGATTTTCCAGTAAAGACGGGTAGTTTGCTCTTGATCACACCGCTTGGGCCAACACCTATGTCAGGTCAGTTTTC----GGTCCCTGGACTATGTATACTTTCCAATATATTGGTGCCCCATGgtaagtcaataatctcctactgggggtgagtgttcaacagaaaactagaa Alignment from Exonerate_protein2genome GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG tggcatgggccaagagacaaaggatctttggaccactcctctccccacagTTTTTCCATAGGCTTTACCTTTTATGGATTAGCGATTGAC---------CTTGGGAGCAATATATTCCTCCTCCAGTCGATCATTGGGATAGTGGATTTTCCAGTAAAGACGGGTAGTTTGCTCTTGATCACACCGCTTGGGCCAACACCTATGTCAGGTCAGTTTTCGGTC---CCTGGACTATGTATACTTTCCAATATATTGGTGCCCCATGgtaagtcaataatctcctactgggggtgagtgttcaacagaaaactagaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG tggcatgggccaagagacaaaggatctttggaccactcctctccccacagTTTTTCCATAGGCTTTACCTTTTATGGATTAGCGATTGACCTT---------GGGAGCAATATATTCCTCCTCCAGTCGATCATTGGGATAGTGGATTTTCCAGTAAAGACGGGTAGTTTGCTCTTGATCACACCGCTTGGGCCAACACCTATGTCAGGTCAGTTTTCGGTC---CCTGGACTATGTATACTTTCCAATATATTGGTGCCCCATGgtaagtcaataatctcctactgggggtgagtgttcaacagaaaactagaa #### Slc22a12_ID1794_3 --> 1 - 1 Original Alignment gTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATG-CCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCt tagccacacagagctattgttgctcctcttatcttctggtctctccgtaggTTCGGTTGCAGAAGGGTCCTGACCTGGAGCTATCTCTTGGTGTCTGTGTCTGTCACAGGTGCTGCTTTCATGCCCCACCTTCCCACTGCATTGTCTGTTTTCCTTCCTGCTGG-ATCCTCAGTGGCCGGTATCATGATGAATACAGCCAGTCTTtgtgagtaccactcctagtgtgacggttgcaaggctactgcggggtacttt Alignment from CESAR gTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCC-ACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCt tagccacacagagctattgttgctcctcttatcttctggtctctccgtaggTTCGGTTGCAGAAGGGTCCTGACCTGGAGCTATCTCTTGGTGTCTGTGTCTGTCACAGGTGCTGCTTTCATGCCCCACCTTCCCACTGCATTGTCTGTTTTCCTTCCTGCTG-GATCCTCAGTGGCCGGTATCATGATGAATACAGCCAGTCTTtgtgagtaccactcctagtgtgacggttgcaaggctactgcggtcccctct Alignment from Spaln_aa2Genome GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT tagccacacagagctattgttgctcctcttatcttctggtctctccgtagGTTCGGTTGCAGAAGGGTCCTGACCTGGAGCTATCTCTTGGTGTCTGTGTCTGTCACAGGTGCTGCTTTCATGCCCCACCTTCCCACTGCATTGTCTGTTTTCCTTCCTGCTGGATCCTCAGTGGCCGGTATCATGATGAATACAGCCAGTCTTTgtgagtaccactcctagtgtgacggttgcaaggctactgcggggtacttt Alignment from Spaln_nt2Genome GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCC-CACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT tagccacacagagctattgttgctcctcttatcttctggtctctccgtagGTTCGGTTGCAGAAGGGTCCTGACCTGGAGCTATCTCTTGGTGTCTGTGTCTGTCACAGGTGCTGCTTTCATGCCCCACCTTCCCACTGCATTGTCTGTTTTCCTTCCTGCTGG-ATCCTCAGTGGCCGGTATCATGATGAATACAGCCAGTCTTTgtgagtaccactcctagtgtgacggttgcaaggctactgcggggtacttt Alignment from Pairagon GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATG-CCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT tagccacacagagctattgttgctcctcttatcttctggtctctccgtagGTTCGGTTGCAGAAGGGTCCTGACCTGGAGCTATCTCTTGGTGTCTGTGTCTGTCACAGGTGCTGCTTTCATGCCCCACCTTCCCACTGCATTGTCTGTTTTCCTTCCTGCTGGATCCT-CAGTGGCCGGTATCATGATGAATACAGCCAGTCTTTgtgagtaccactcctagtgtgacggttgcaaggctactgcggggtacttt Alignment from Exonerate_protein2genome GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT tagccacacagagctattgttgctcctcttatcttctggtctctccgtagGTTCGGTTGCAGAAGGGTCCTGACCTGGAGCTATCTCTTGGTGTCTGTGTCTGTCACAGGTGCTGCTTTCATGCCCCACCTTCCCACTGCATTGTCTGTTTTCCTTCCTGCTGGATCCTCAGTGGCCGGTATCATGATGAATACAGCCAGTCTTTgtgagtaccactcctagtgtgacggttgcaaggctactgcggggtacttt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT tagccacacagagctattgttgctcctcttatcttctggtctctccgtagGTTCGGTTGCAGAAGGGTCCTGACCTGGAGCTATCTCTTGGTGTCTGTGTCTGTCACAGGTGCTGCTTTCATGCCCCACCTTCCCACTGCATTGTCTGTTTTCCTTCCTGCTGGATCCTCAGTGGCCGGTATCATGATGAATACAGCCAGTCTTTgtgagtaccactcctagtgtgacggttgcaaggctactgcggggtacttt #### Slc22a20_ID1344_9 --> 1 - 2 Original Alignment gCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATC-AGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGAcg tgatcatctctggaccaggcccatctccatcgctcttcccgctcttccaggCAAATGGGTATGGAGTTTGCTTCTGTCAATGCT---ATTGGAGGTTTGGTGGCCCCATTGATCACATCACTAGGCGAAATCCAGCCCAGTCCTGCCACCAGTATCCTCTGGTGCTACATCTGTTC-GGCTGGCATGGCTGTGGCTTGCTTCCTAACTGAGACCCGTAATGTGCCACTAGTTGAAATTATTGCTGCAATGGAGAGAcggtgagtatacccttatcgctacaactggtaatgaacccttaaaccaggaa Alignment from CESAR gCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATC-AGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGAcg tgatcatctctggaccaggcccatctccatcgctcttcccgctcttccaggCAAATGGGTATGGAGTTTGCTTCTGTCAATGCT---ATTGGAGGTTTGGTGGCCCCATTGATCACATCACTAGGCGAAATCCAGCCCAGTCCTGCCACCAGTATCCTCTGGTGCTACATCTGTT-CGGCTGGCATGGCTGTGGCTTGCTTCCTAACTGAGACCCGTAATGTGCCACTAGTTGAAATTATTGCTGCAATGGAGAGAcggtgagtatacccttatcgctacaactggtaatgaacccttaaaccaggaa Alignment from Spaln_aa2Genome GCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGACG tgatcatctctggaccaggcccatctccatcgctcttcccgctcttccagGCAAATGGGTATGGAGTTTGCTTCTGTCAATGCT---ATTGGAGGTTTGGTGGCCCCATTGATCACATCACTAGGCGAAATCCAGCCCAGTCCTGCCACCAGTATCCTCTGGTGCTACATCTGTTCGGCTGGCATGGCTGTGGCTTGCTTCCTAACTGAGACCCGTAATGTGCCACTAGTTGAAATTATTGCTGCAATGGAGAGACGgtgagtatacccttatcgctacaactggtaatgaacccttaaaccaggaa Alignment from Spaln_nt2Genome GCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATC-AGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGACG tgatcatctctggaccaggcccatctccatcgctcttcccgctcttccagGCAAATGGGTATGGAGTTTGCTTCTGTCAATGC---TATTGGAGGTTTGGTGGCCCCATTGATCACATCACTAGGCGAAATCCAGCCCAGTCCTGCCACCAGTATCCTCTGGTGCTACATCTGT-TCGGCTGGCATGGCTGTGGCTTGCTTCCTAACTGAGACCCGTAATGTGCCACTAGTTGAAATTATTGCTGCAATGGAGAGACGgtgagtatacccttatcgctacaactggtaatgaacccttaaaccaggaa Alignment from Pairagon GCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGAT-CAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGACG tgatcatctctggaccaggcccatctccatcgctcttcccgctcttccagGCAAATGGGTATGGAGTTTGCTTCTGTCAATGC---TATTGGAGGTTTGGTGGCCCCATTGATCACATCACTAGGCGAAATCCAGCCCAGTCCTGCCACCAGTATCCTCTGGTGCTACATCTGT-TCGGCTGGCATGGCTGTGGCTTGCTTCCTAACTGAGACCCGTAATGTGCCACTAGTTGAAATTATTGCTGCAATGGAGAGACGgtgagtatacccttatcgctacaactggtaatgaacccttaaaccaggaa Alignment from Exonerate_protein2genome GCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATC-AGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTC--TTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGACG tgatcatctctggaccaggcccatctccatcgctcttcccgctcttccagGCAAATGGGTATGGAGTTTGCTTCTGTCAATGCT---ATTGGAGGTTTGGTGGCCCCATTGATCACATCACTAGGCGAAATCCAGCCCAGTCCTGCCACCAGTATCCTCTGGTGCTACATCTGTTCG---GCTGGCATGGCTGTGGCTTGCTTCCTAACTGAGACCCGTAATGTGCCACTAGTTGAAATTATTGCTGCAATGGAGAGACGgtgagtatacccttatcgctacaactggtaatgaacccttaaaccaggaa Alignment from Exonerate_coding2genome tgatcatctctggaccaggcccatctccatcgctcttcccgctcttccaggcaaatgggtatggagtttgcttctgtcaatgctattggaggtttggtggccccattgatcacatcactaggcgaaatccagcccagtcctgccaccagtatcctctggtgctacatctgttcggctggcatggctgtggcttgcttcctaactgagacccgtaatgtgccactagttgaaattattgctgcaatggagagacggtgagtatacccttatcgctacaactggtaatgaacccttaaaccaggaa Alignment from GeneWise GCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGACG tgatcatctctggaccaggcccatctccatcgctcttcccgctcttccagGCAAATGGGTATGGAGTTTGCTTCTGTCAATGCT---ATTGGAGGTTTGGTGGCCCCATTGATCACATCACTAGGCGAAATCCAGCCCAGTCCTGCCACCAGTATCCTCTGGTGCTACATCTGTTCGGCTGGCATGGCTGTGGCTTGCTTCCTAACTGAGACCCGTAATGTGCCACTAGTTGAAATTATTGCTGCAATGGAGAGACGgtgagtatacccttatcgctacaactggtaatgaacccttaaaccaggaa #### Slc22a20_ID1345_8 --> 2 - 2 Original Alignment atCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGC-AAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCag ttaccagtacatgcaggtccagctcagatggttctctcctctcttcccaggtCAGCAGATGTTGCGAACTGTACCGGCTGAACTAGGGCAAGGGCTGTCTGGCGAGCTCGTTCGTCTGTGTGTACCTTT-TATGGGGGGACTGTATCCA------ATCaggtaattatgggaggatgccaccatagctaagctgcaatttaggttaccac Alignment from CESAR atCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTG-GGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCag ttaccagtacatgcaggtccagctcagatggttctctcctctcttcccaggtCAGCAGATGTTGCGAACTGTACCGGCTGAACTAGGGCAAGGGCTGTCTGGCGAGCTCGTTCGTCTGTGTGTACC-TTTTATGGGGGGACTGTATCCA------ATCaggtaattatgggaggatgccaccatagctaagctgcaatttaggttaccac Alignment from Spaln_aa2Genome ATCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTG-GGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCAG ttaccagtacatgcaggtccagctcagatggttctctcctctcttcccagGTCAGCAGATGTTGCGAACTGTACCGGCTGAACTAgGGCAAGGGCTGTCTGGCGAGCTCGTTCGTCTGTGTGTACCT-TTTATGGGGGGACTGTATCCA------ATCAGgtaattatgggaggatgccaccatagctaagctgcaatttaggttaccac Alignment from Spaln_nt2Genome ATCTGCAGACCTTGCGGACAGTGCAGGCAGCGCT-GGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCAG ttaccagtacatgcaggtccagctcagatggttctctcctctcttcccagGTCAGCAGATGTTGCGAACTGTACCGGCTGAACTAGGGCAAGGGCTGTCTGGCGAGCTCGTTCGTCTGTGTGTACCT-TTTATGGGGGGACTGTATCC------AATCAGgtaattatgggaggatgccaccatagctaagctgcaatttaggttaccac Alignment from Pairagon ATCTGCAGACCTTGCGGACAGTGCAGGCAGCGCT-GGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCAG ttaccagtacatgcaggtccagctcagatggttctctcctctcttcccagGTCAGCAGATGTTGCGAACTGTACCGGCTGAACTAGGGCAAGGGCTGTCTGGCGAGCTCGTTCGTCTGTGTGTACCT-TTTATGGGGGGACTGTATCC------AATCAGgtaattatgggaggatgccaccatagctaagctgcaatttaggttaccac Alignment from Exonerate_protein2genome ATCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTG-GGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAAC ttaccagtacatgcaggtccagctcagatggttctctcctctcttcccagGTCAGCAGATGTTGCGAACTGTACCGGCTGAACTAGGGCAAGGGCTGTCTGGCGAGCTCGTTCGTCTGTGTGTACCTTTTATGGGGGGACTgtatccaatcaggtaattatgggaggatgccaccatagctaagctgcaatttaggttaccac Alignment from Exonerate_coding2genome ttaccagtacatgcaggtccagctcagatggttctctcctctcttcccaggtcagcagatgttgcgaactgtaccggctgaactagggcaagggctgtctggcgagctcgttcgtctgtgtgtaccttttatggggggactgtatccaatcaggtaattatgggaggatgccaccatagctaagctgcaatttaggttaccac Alignment from GeneWise ATCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACA-- ttaccagtacatgcaggtccagctcagatggttctctcctctcttcccagGTCAGCAGATGTTGCGAACTGTACCGGCTGAACTAGGGCAAGGGCTGTCTGGCGAGCTCGTTCGTCTGTGTGTACCTTTTATGGGGGGACTGTATCCAATCAGgtaattatgggaggatgccaccatagctaagctgcaatttaggttaccac #### Slc22a20_ID1351_2 --> 0 - 2 Original Alignment TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCC-ATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACag ggcatagtaaccgcacaatcatagcccagagactccactttgtcaattagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCAATCTCATCTATATGTCTGGAGTATCAGTTGGGG-TGCCTTGTTTGGTTGCCTAGCAGACaggtgagttgcttggatggcaacatctattcccttactctttattgtaattt Alignment from CESAR TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCC-ATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACag ggcatagtaaccgcacaatcatagcccagagactccactttgtcaattagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCAATCTCATCTATATGTCTGGAGTATCAGTTGGG-GTGCCTTGTTTGGTTGCCTAGCAGACaggtgagttgcttggatggcaacatctattcccttactctttattgtaattt Alignment from Spaln_aa2Genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG ggcatagtaaccgcacaatcatagcccagagactccactttgtcaattagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCAATCTCATCTATATGTCTGGAGTATCAGTTGGGGTGCCTTGTTTGGTTGCCTAGCAGACAGgtgagttgcttggatggcaacatctattcccttactctttattgtaattt Alignment from Spaln_nt2Genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTC-CATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG ggcatagtaaccgcacaatcatagcccagagactccactttgtcaattagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCAATCTCATCTATATGTCTGGAGTATCAGTTGG-GGTGCCTTGTTTGGTTGCCTAGCAGACAGgtgagttgcttggatggcaacatctattcccttactctttattgtaattt Alignment from Pairagon TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTC-CATCTACATGTCCGGGGT----GTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG ggcatagtaaccgcacaatcatagcccagagactccactttgtcaattagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCAATCTCATCTATATGTCTGGAGTATCAGTTGG-----GGTGCCTTGTTTGGTTGCCTAGCAGACAGgtgagttgcttggatggcaacatctattcccttactctttattgtaattt Alignment from Exonerate_protein2genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG ggcatagtaaccgcacaatcatagcccagagactccactttgtcaattagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCAATCTCATCTATATGTCTGGAGTATCAGTTGGGGTGCCTTGTTTGGTTGCCTAGCAGACAGgtgagttgcttggatggcaacatctattcccttactctttattgtaattt Alignment from Exonerate_coding2genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG ggcatagtaaccgcacaatcatagcccagagactccactttgtcaattagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCAATCTCATCTATATGTCTGGAGTATCAGTTGGGGTGCCTTGTTTGGTTGCCTAGCAGACAGgtgagttgcttggatggcaacatctattcccttactctttattgtaattt Alignment from GeneWise TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCC---ATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG ggcatagtaaccgcacaatcatagcccagagactccactttgtcaattagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCAATCTCATCTATATGTCTGGAGTATCAGTTGGGGTGCC---TTGTTTGGTTGCCTAGCAGACAGgtgagttgcttggatggcaacatctattcccttactctttattgtaattt #### Slc22a26_ID2221_4 --> 2 - 2 Original Alignment tgTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCAT-TTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAag cacagttcttgcaattttatgtgctaaaccgcactgtttcctctccacagtgTTAGAATGGACAAGCCCTAAAACCCAAGCATTGGTGACCACGCTGTCAACAAGCCCTCATCATCTTTGGAGGCCTTATTCTGGCAGGATTGGCATTTGCGTTTC-AAACTGGCACCACCTTCAGCTAGCTGTATCTGTGCCAATTTTCGTTTTGCTTATACCAACAaggtgggtcacaagaattcttatacaccattctgtccaatggtacatttgag Alignment from CESAR tgTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCAT-TTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAag cacagttcttgcaattttatgtgctaaaccgcactgtttcctctccacagtgTTAGAATGGACAAGCCCTAAAACCCAAGCATTGGTGACCACGCTGTCAACAAGCCCTCATCATCTTTGGAGGCCTTATTCTGGCAGGATTGGCATTTGCGTTTC-AAACTGGCACCACCTTCAGCTAGCTGTATCTGTGCCAATTTTCGTTTTGCTTATACCAACAaggtgggtcacaagaattcttatacaccattctgtccaatggtacatttgag Alignment from Spaln_aa2Genome TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCAT-TTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAAG cacagttcttgcaattttatgtgctaaaccgcactgtttcctctccacagTGTTAGAATGGACAAGCCCTAAAACCCAAGCATTGGTGACCACGCTGTCAACAAGCCCTCATCATcTTTGGAGGCCTTATTCTGGCAGGATTGGCATTTGCGTTTCA-AACTGGCACCACCTTCAGCTAGCTGTATCTGTGCCAATTTTCGTTTTGCTTATACCAACAAGgtgggtcacaagaattcttatacaccattctgtccaatggtacatttgag Alignment from Spaln_nt2Genome TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCAT-TTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAAG cacagttcttgcaattttatgtgctaaaccgcactgtttcctctccacagTGTTAGAATGGACAAGCCCTAAAACCCAAGCATTGGTGACCACGCTGTCAACAAGCCCTCATCATCTTTGGAGGCCTTATTCTGGCAGGATTGGCATTTGCGTTTC-AAACTGGCACCACCTTCAGCTAGCTGTATCTGTGCCAATTTTCGTTTTGCTTATACCAACAAGgtgggtcacaagaattcttatacaccattctgtccaatggtacatttgag Alignment from Pairagon TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCAT-TTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAAG cacagttcttgcaattttatgtgctaaaccgcactgtttcctctccacagTGTTAGAATGGACAAGCCCTAAAACCCAAGCATTGGTGACCACGCTGTCAACAAGCCCTCATCATCTTTGGAGGCCTTATTCTGGCAGGATTGGCATTTGCGTTTC-AAACTGGCACCACCTTCAGCTAGCTGTATCTGTGCCAATTTTCGTTTTGCTTATACCAACAAGgtgggtcacaagaattcttatacaccattctgtccaatggtacatttgag Alignment from Exonerate_protein2genome TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCAT-TTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTT--CAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAAG cacagttcttgcaattttatgtgctaaaccgcactgtttcctctccacagTGTTAGAATGGACAAGCCCTAAAACCCAAGCATTGGTGACCACGCTGTCAACAAGCCCTCATCATCTTTGGAGGCCTTATTCTGGCAGGATTGGCATTTGCGTTTCA---AACTGGCACCACCTTCAGCTAGCTGTATCTGTGCCAATTTTCGTTTTGCTTATACCAACAAGgtgggtcacaagaattcttatacaccattctgtccaatggtacatttgag Alignment from Exonerate_coding2genome TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCAT-TTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTT--CAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAAG cacagttcttgcaattttatgtgctaaaccgcactgtttcctctccacagTGTTAGAATGGACAAGCCCTAAAACCCAAGCATTGGTGACCACGCTGTCAACAAGCCCTCATCATCTTTGGAGGCCTTATTCTGGCAGGATTGGCATTTGCGTTTCA---AACTGGCACCACCTTCAGCTAGCTGTATCTGTGCCAATTTTCGTTTTGCTTATACCAACAAGgtgggtcacaagaattcttatacaccattctgtccaatggtacatttgag Alignment from GeneWise TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAAG cacagttcttgcaattttatgtgctaaaccgcactgtttcctctccacagTGTTAGAATGGACAAGCCCTAAAACCCAAGCATTGGTGACCACGCTGTCAACAAGCCCTCATCATCTTTGGAGGCCTTATTCTGGCAGGATTGGCATTTGCGTTTCAAACTGGCACCACCTTCAGCTAGCTGTATCTGTGCCAATTTTCGTTTTGCTTATACCAACAAGgtgggtcacaagaattcttatacaccattctgtccaatggtacatttgag #### Slc22a6_ID2281_2 --> 0 - 2 Original Alignment TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCC-CAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATG---ATGTTTGGCTACCTGGCGGACag ggctactaaaattgacatatttcagatcggcacggttgctctctccacagTGGAACCTT---TGCTCACATAGAGCCTTTCACCGATTGGCCCCAGTCACTATTCATGGTAGGAGTG---TTTG-TGCCATGATGTTGTTTGGTTACCTTTCAGATaggtaggacatcagtactgaaaatgccatatttgtacctaatagttttaagg Alignment from CESAR TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCC-CAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATGTTTGGCTACCTGGCGGACag ggctactaaaattgacatatttcagatcggcacggttgctctctccacagTGGAACCTT---TGCTCACATAGAGCCTTTCACCGATTGGCCCCAGTCACTATTCATGGTAGGAGTGTTTGTG-CCATGATGTTGTTTGGTTACCTTTCAGATaggtaggacatcagtactgaaaatgccatatttgtacctaatagttttaagg Alignment from Spaln_aa2Genome TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATGTTTGGCTACCTGGCGGACAG ggctactaaaattgacatatttcagatcggcacggttgctctctccacagTGGAACCTT---TGCTCACATAGAGCCTTTCACCGATTGGCCCCAGTCACTATTCATGGTAGGAGTGTTTGTGCCATGATGTTGTTTGGTTACCTTTCAGATAGgtaggacatcagtactgaaaatgccatatttgtacctaatagttttaagg Alignment from Spaln_nt2Genome TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCC-AGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATGTTTGGCTACCTGGCGGACAG ggctactaaaattgacatatttcagatcggcacggttgctctctccacagTGGAACCTT---TGCTCACATAGAGCCTTTCACCGATTGGCCCCAGTCACTATTCATGGTAGGAGTGTTTGTGCCA-TGATGTTGTTTGGTTACCTTTCAGATAGgtaggacatcagtactgaaaatgccatatttgtacctaatagttttaagg Alignment from Pairagon TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGG-CCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGA---TGTTTGGCTACCTGGCGGACAG ggctactaaaattgacatatttcagatcggcacggttgctctctccacagTGGAACCTT---TGCTCACATAGAGCCTTTCACCGATTGGCCCCAGTCACTATTCATGGTAGGAGTGTTTGT----GCCATGATGTTGTTTGGTTACCTTTCAGATAGgtaggacatcagtactgaaaatgccatatttgtacctaatagttttaagg Alignment from Exonerate_protein2genome TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATGTTTGGCTACCTGGCGGACAG ggctactaaaattgacatatttcagatcggcacggttgctctctccacagTGGAACCTT---TGCTCACATAGAGCCTTTCACCGATTGGCCCCAGTCACTATTCATGGTAGGAGTGTTTGTGCCATGATGTTGTTTGGTTACCTTTCAGATAGgtaggacatcagtactgaaaatgccatatttgtacctaatagttttaagg Alignment from Exonerate_coding2genome ggctactaaaattgacatatttcagatcggcacggttgctctctccacagtggaacctttgctcacatagagcctttcaccgattggccccagtcactattcatggtaggagtgtttgtgccatgatgttgtttggttacctttcagataggtaggacatcagtactgaaaatgccatatttgtacctaatagttttaagg Alignment from GeneWise TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATGTTTGGCTACCTGGCGGACAG ggctactaaaattgacatatttcagatcggcacggttgctctctccacagTGGAACCTT---TGCTCACATAGAGCCTTTCACCGATTGGCCCCAGTCACTATTCATGGTAGGAGTGTTTGTGCCATGATGTTGTTTGGTTACCTTTCAGATAGgtaggacatcagtactgaaaatgccatatttgtacctaatagttttaagg #### Slc22a6_ID2284_5 --> 1 - 0 Original Alignment gTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGG-CTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaacttaatgagtaactatatccatctcctgttgtctgcctcctttacaggTTCTTCATTGAGTCAACGCGGTGGTACTCATCATCTGGTAGGCCTGGACTTCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTA-CAATGCAAAACAAGAGGAAGGGCCTAAACTGTGCATTGAGgtacgttctatttattcctagacactgcctgtaatcttactctggttcat Alignment from CESAR gTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGG-CTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaacttaatgagtaactatatccatctcctgttgtctgcctcctttacaggTTCTTCATTGAGTCAACGCGGTGGTACTCATCATCTGGTAGGCCTGGACTTCACCCTCCGAGCTTTGCAGAGAGTGGCTTGT-ACAATGCAAAACAAGAGGAAGGGCCTAAACTGTGCATTGAGgtacgttctatttattcctagacactgcctgtaatcttactctggttcat Alignment from Spaln_aa2Genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaacttaatgagtaactatatccatctcctgttgtctgcctcctttacagGTTCTTCATTGAGTCAACGCGGTGGTACTCATCATCTGGTAGGCCTGGACTTCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTACAATGCAAAACAAGAGGAAGGGCCTAAACTGTGCATTGAGgtacgttctatttattcctagacactgcctgtaatcttactctggttcat Alignment from Spaln_nt2Genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGC-TGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaacttaatgagtaactatatccatctcctgttgtctgcctcctttacagGTTCTTCATTGAGTCAACGCGGTGGTACTCATCATCTGGTAGGCCTGGACTTCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTA-CAATGCAAAACAAGAGGAAGGGCCTAAACTGTGCATTGAGgtacgttctatttattcctagacactgcctgtaatcttactctggttcat Alignment from Pairagon GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGG-CTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaacttaatgagtaactatatccatctcctgttgtctgcctcctttacagGTTCTTCATTGAGTCAACGCGGTGGTACTCATCATCTGGTAGGCCTGGACTTCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTA-CAATGCAAAACAAGAGGAAGGGCCTAAACTGTGCATTGAGgtacgttctatttattcctagacactgcctgtaatcttactctggttcat Alignment from Exonerate_protein2genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaacttaatgagtaactatatccatctcctgttgtctgcctcctttacagGTTCTTCATTGAGTCAACGCGGTGGTACTCATCATCTGGTAGGCCTGGACTTCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTACAATGCAAAACAAGAGGAAGGGCCTAAACTGTGCATTGAGgtacgttctatttattcctagacactgcctgtaatcttactctggttcat Alignment from Exonerate_coding2genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaacttaatgagtaactatatccatctcctgttgtctgcctcctttacagGTTCTTCATTGAGTCAACGCGGTGGTACTCATCATCTGGTAGGCCTGGACTTCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTACAATGCAAAACAAGAGGAAGGGCCTAAACTGTGCATTGAGgtacgttctatttattcctagacactgcctgtaatcttactctggttcat Alignment from GeneWise GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaacttaatgagtaactatatccatctcctgttgtctgcctcctttacagGTTCTTCATTGAGTCAACGCGGTGGTACTCATCATCTGGTAGGCCTGGACTTCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTACAATGCAAAACAAGAGGAAGGGCCTAAACTGTGCATTGAGgtacgttctatttattcctagacactgcctgtaatcttactctggttcat #### Slc22a8_ID2275_8 --> 2 - 2 Original Alignment aaATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGC-CTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCag tgtcccctagcaaatttacatgcaaaggagagtgtctcactttactttagaaATGGAGATAGTGAGGACAGCACTGGCTGTGTTTGGCATGGGATGCCTTATCTGGCTCCTTCAGCTGCCTCTTCTTTT-CACTAGTGAGCTCTACCCCAGAGTCCTCaggtaagaagtgtacttgggtcaggagaccacttaaagagttgaattctcaa Alignment from CESAR aaATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTG-TCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCag tgtcccctagcaaatttacatgcaaaggagagtgtctcactttactttagaaATGGAGATAGTGAGGACAGCACTGGCTGTGTTTGGCATGGGATGCCTTATCTGGCTCCTTCAGCTGCCTCT-TCTTTTCACTAGTGAGCTCTACCCCAGAGTCCTCaggtaagaagtgtacttgggtcaggagaccacttaaagagttgaattctcaa Alignment from Spaln_aa2Genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tgtcccctagcaaatttacatgcaaaggagagtgtctcactttactttagAAATGGAGATAGTGAGGACAGCACTGGCTGTGTTTGGCATGGGATGCCTTATCTGGCTCCTTCAGCTGCCTCTTCTTTTCACTAGTGAGCTCTACCCCAGAGTCCTCAGgtaagaagtgtacttgggtcaggagaccacttaaagagttgaattctcaa Alignment from Spaln_nt2Genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTG-TCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tgtcccctagcaaatttacatgcaaaggagagtgtctcactttactttagAAATGGAGATAGTGAGGACAGCACTGGCTGTGTTTGGCATGGGATGCCTTATCTGGCTCCTTCAGCTGCCTCTT-CTTTTCACTAGTGAGCTCTACCCCAGAGTCCTCAGgtaagaagtgtacttgggtcaggagaccacttaaagagttgaattctcaa Alignment from Pairagon AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCC-TGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tgtcccctagcaaatttacatgcaaaggagagtgtctcactttactttagAAATGGAGATAGTGAGGACAGCACTGGCTGTGTTTGGCATGGGATGCCTTATCTGGCTCCTTCAGCTGCCTCTTCTTTT-CACTAGTGAGCTCTACCCCAGAGTCCTCAGgtaagaagtgtacttgggtcaggagaccacttaaagagttgaattctcaa Alignment from Exonerate_protein2genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tgtcccctagcaaatttacatgcaaaggagagtgtctcactttactttagAAATGGAGATAGTGAGGACAGCACTGGCTGTGTTTGGCATGGGATGCCTTATCTGGCTCCTTCAGCTGCCTCTTCTTTTCACTAGTGAGCTCTACCCCAGAGTCCTCAGgtaagaagtgtacttgggtcaggagaccacttaaagagttgaattctcaa Alignment from Exonerate_coding2genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tgtcccctagcaaatttacatgcaaaggagagtgtctcactttactttagAAATGGAGATAGTGAGGACAGCACTGGCTGTGTTTGGCATGGGATGCCTTATCTGGCTCCTTCAGCTGCCTCTTCTTTTCACTAGTGAGCTCTACCCCAGAGTCCTCAGgtaagaagtgtacttgggtcaggagaccacttaaagagttgaattctcaa Alignment from GeneWise AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tgtcccctagcaaatttacatgcaaaggagagtgtctcactttactttagAAATGGAGATAGTGAGGACAGCACTGGCTGTGTTTGGCATGGGATGCCTTATCTGGCTCCTTCAGCTGCCTCTTCTTTTCACTAGTGAGCTCTACCCCAGAGTCCTCAGgtaagaagtgtacttgggtcaggagaccacttaaagagttgaattctcaa #### Slc29a2_ID788_2 --> 1 - 0 Original Alignment cTACCACCTGGTT-GGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG tgattgatgtcctgcagtaggaaaggtgtttttaaaaaatgtctttatagcTACCACCTGGCTCGGCATCAGCTTTTTCATTCTGGGACTAGGCACCCTTC-CCCCTGGAATTTCTTCATTACTGCGATCCCAgtaagttagtgcattataaatgctatgaaccaattcccctatcacacttc Alignment from CESAR cTACCACCTGGTT-GGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG tgattgatgtcctgcagtaggaaaggtgtttttaaaaaatgtctttatagcTACCACCTGGCTCGGCATCAGCTTTTTCATTCTGGGACTAGGCACCCTT-CCCCCTGGAATTTCTTCATTACTGCGATCCCAgtaagttagtgcattataaatgctatgaaccaattcccctatcacacttc Alignment from Spaln_aa2Genome CTACCACCTGGTT-GGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG tgattgatgtcctgcagtaggaaaggtgtttttaaaaaatgtctttatagCTACCACCTGGCTcGGCATCAGCTTTTTCATTCTGGGACTAGGCACCCTTCCCCC-TGGAATTTCTTCATTACTGCGATCCCAgtaagttagtgcattataaatgctatgaaccaattcccctatcacacttc Alignment from Spaln_nt2Genome CTACCACCTGGTTGGG-ATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG tgattgatgtcctgcagtaggaaaggtgtttttaaaaaatgtctttatagCTACCACCTGGCTCGGCATCAGCTTTTTCATTCTGGGACTAGGCACCCTTC-CCCCTGGAATTTCTTCATTACTGCGATCCCAgtaagttagtgcattataaatgctatgaaccaattcccctatcacacttc Alignment from Pairagon CTACCACCTGG-TTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG tgattgatgtcctgcagtaggaaaggtgtttttaaaaaatgtctttatagCTACCACCTGGCTCGGCATCAGCTTTTTCATTCTGGGACTAGGCACCCTTC-CCCCTGGAATTTCTTCATTACTGCGATCCCAgtaagttagtgcattataaatgctatgaaccaattcccctatcacacttc Alignment from Exonerate_protein2genome CTACCACCTGGTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG tgattgatgtcctgcagtaggaaaggtgtttttaaaaaatgtctttatagCTACCACCTGGCTCGGCATCAGCTTTTTCATTCTGGGACTAGGCACCCTTCCCCCTGGAATTTCTTCATTACTGCGATCCCAgtaagttagtgcattataaatgctatgaaccaattcccctatcacacttc Alignment from Exonerate_coding2genome CAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG tgattgatgtcctgcagtaggaaaggtgtttttaaaaaatgtctttatagctaccacctggctcggcatCAGCTTTTTCATTCTGGGACTAGGCACCCTTCC-CCCTGGAATTTCTTCATTACTGCGATCCCAgtaagttagtgcattataaatgctatgaaccaattcccctatcacacttc Alignment from GeneWise GTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG tgattgatgtcctgcagtaggaaaggtgtttttaaaaaatgtctttatagctaccacctggCTCGGCATCAGCTTTTTCATTCTGGGACTAGGCACCCTTCC-CCCTGGAATTTCTTCATTACTGCGATCCCAgtaagttagtgcattataaatgctatgaaccaattcccctatcacacttc #### Slc29a2_ID789_3 --> 0 - 2 Original Alignment TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGCACCAACCACACCAGT-CCCACAGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAG---tg tgggggttacttttgagaagctccctgtgacttctttttttaatttctagTACCTCCGGGGACAGTTGGCAGGTACTAACAGCAGTGCTGAGACCATCAGCACAAACCACACCAGCCCCCACCGATGCATCGAATGTCAACAATTGGG-GACACTGCTATCGCAGTTGCCTCTATTGTTGTTCACACTGCTCAACTCCTTCCTGTATCAGTGGtggtaagtaccgcatacagccaatccctcaacaatcattatcaggcacctca Alignment from CESAR TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGCACCAACCACACCAGTCCC-ACAGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAG---tg tgggggttacttttgagaagctccctgtgacttctttttttaatttctagTACCTCCGGGGACAGTTGGCAGGTACTAACAGCAGTGCTGAGACCATCAGCACAAACCACACCAGCCCCCACCGATGCATCGAATGTCAACAATTGG-GGACACTGCTATCGCAGTTGCCTCTATTGTTGTTCACACTGCTCAACTCCTTCCTGTATCAGTGGtggtaagtaccgcatacagccaatccctcaacaatcattatcaggcacctca Alignment from Spaln_aa2Genome TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGCACCAACCACACCAGTCCCACAGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAGTG tgggggttacttttgagaagctccctgtgacttctttttttaatttctagTACCTCCGGGGACAGTTGGCAGGTACTAACAGCAGTGCTGAGACCATCAGCACAAACCACACCAGCCCCCACCGATGCATCGAATGTCAACAATTGGGGACACTGCTATCGCAGTTGCCTCTATTGTTGTTCACACTGCTCAACTCCTTCCTGTATCAGTGgtggtaagtaccgcatacagccaatccctcaacaatcattatcaggcacctca Alignment from Spaln_nt2Genome TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGCACCAACCACACCAGTCCC-ACAGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAGTG--- tgggggttacttttgagaagctccctgtgacttctttttttaatttctagTACCTCCGGGGACAGTTGGCAGGTACTAACAGCAGTGCTGAGACCATCAGCACAAACCACACCAGCCCCCACCGATGCATCGAATGTCAACAATTGGG-GACACTGCTATCGCAGTTGCCTCTATTGTTGTTCACACTGCTCAACTCCTTCCTGTATCAGTGGTGgtaagtaccgcatacagccaatccctcaacaatcattatcaggcacctca Alignment from Pairagon TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGCACCAACCACACCAG-TCCCACAGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAGTG tgggggttacttttgagaagctccctgtgacttctttttttaatttctagTACCTCCGGGGACAGTTGGCAGGTACTAACAGCAGTGCTGAGACCATCAGCACAAACCACACCAGCCCCCACCGATGCATCGAATGTCAACAATTGGG-GACACTGCTATCGCAGTTGCCTCTATTGTTGTTCACACTGCTCAACTCCTTCCTGTATCAGTGgtggtaagtaccgcatacagccaatccctcaacaatcattatcaggcacctca Alignment from Exonerate_protein2genome TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGCACCAACCACACCAGTCCCACAGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAGTG tgggggttacttttgagaagctccctgtgacttctttttttaatttctagTACCTCCGGGGACAGTTGGCAGGTACTAACAGCAGTGCTGAGACCATCAGCACAAACCACACCAGCCCCCACCGATGCATCGAATGTCAACAATTGGGGACACTGCTATCGCAGTTGCCTCTATTGTTGTTCACACTGCTCAACTCCTTCCTGTATCAGTGgtggtaagtaccgcatacagccaatccctcaacaatcattatcaggcacctca Alignment from Exonerate_coding2genome TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGCACCAACCACACCAGTCCCACAGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAGTG tgggggttacttttgagaagctccctgtgacttctttttttaatttctagTACCTCCGGGGACAGTTGGCAGGTACTAACAGCAGTGCTGAGACCATCAGCACAAACCACACCAGCCCCCACCGATGCATCGAATGTCAACAATTGGGGACACTGCTATCGCAGTTGCCTCTATTGTTGTTCACACTGCTCAACTCCTTCCTGTATCAGTGgtggtaagtaccgcatacagccaatccctcaacaatcattatcaggcacctca Alignment from GeneWise TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGCACCAACCACACCAGTCCCACAGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAGTG tgggggttacttttgagaagctccctgtgacttctttttttaatttctagTACCTCCGGGGACAGTTGGCAGGTACTAACAGCAGTGCTGAGACCATCAGCACAAACCACACCAGCCCCCACCGATGCATCGAATGTCAACAATTGGGGACACTGCTATCGCAGTTGCCTCTATTGTTGTTCACACTGCTCAACTCCTTCCTGTATCAGTGgtggtaagtaccgcatacagccaatccctcaacaatcattatcaggcacctca #### Slc29a2_ID793_7 --> 0 - 1 Original Alignment AAGTTTGCCCGTTACTACCTGACC-GAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAAGCTg catttggagttaactgtatcaagatgttccatccacccctctctttccagAAGTTTTCCCGTTACTACCTAACCCAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTG-GAATAAAGCTGAACTCCTTCAAGCAggtataaatcaggattaattggctctgttggaggcttaactcttttttctc Alignment from CESAR AAGTTTGCCCGTTACTACCTGACC-GAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAAGCTg catttggagttaactgtatcaagatgttccatccacccctctctttccagAAGTTTTCCCGTTACTACCTAACCCAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTT-GGAATAAAGCTGAACTCCTTCAAGCAggtataaatcaggattaattggctctgttggaggcttaactcttttttctc Alignment from Spaln_aa2Genome AAGTTTGCCCGTTACTACCTGACCGAG-AAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAAGCTG catttggagttaactgtatcaagatgttccatccacccctctctttccagAAGTTTTCCCGTTACTACCTAACCCAAgAAGCTATCTCAAGCTCCAACTCAGGAGCTTGG-AATAAAGCTGAACTCCTTCAAGCAGgtataaatcaggattaattggctctgttggaggcttaactcttttttctc Alignment from Spaln_nt2Genome AAGTTTGCCCGTTACTACCTGA-CCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAAGCTG catttggagttaactgtatcaagatgttccatccacccctctctttccagAAGTTTTCCCGTTACTACCTAACCCAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTG-GAATAAAGCTGAACTCCTTCAAGCAGgtataaatcaggattaattggctctgttggaggcttaactcttttttctc Alignment from Pairagon AAGTTTGCCCGTTACTACCTGA-CCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAAGCTG catttggagttaactgtatcaagatgttccatccacccctctctttccagAAGTTTTCCCGTTACTACCTAACCCAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTG-GAATAAAGCTGAACTCCTTCAAGCAGgtataaatcaggattaattggctctgttggaggcttaactcttttttctc Alignment from Exonerate_protein2genome AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAAGCTG catttggagttaactgtatcaagatgttccatccacccctctctttccagAAGTTTTCCCGTTACTACCTAACCCAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGGAATAAAGCTGAACTCCTTCAAGCAGgtataaatcaggattaattggctctgttggaggcttaactcttttttctc Alignment from Exonerate_coding2genome AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAAGCTG catttggagttaactgtatcaagatgttccatccacccctctctttccagAAGTTTTCCCGTTACTACCTAACCCAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGGAATAAAGCTGAACTCCTTCAAGCAGgtataaatcaggattaattggctctgttggaggcttaactcttttttctc Alignment from GeneWise AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAAGCTG catttggagttaactgtatcaagatgttccatccacccctctctttccagAAGTTTTCCCGTTACTACCTAACCCAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGGAATAAAGCTGAACTCCTTCAAGCAGgtataaatcaggattaattggctctgttggaggcttaactcttttttctc #### Slc29a2_ID795_9 --> 0 - 1 Original Alignment ATCTGGCTGACG-GCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGg tgtaatgaatacttccatggctatccagatattttcttctccacttttagATCTGGCTGACACGCACTGTGCCTTGTGTTAGTCTTCACAGTAACCCTATCTG-TTTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGggtaagcactggtgatagttcacagcatggaacaggggagccagttctttc Alignment from CESAR ATCTGGCTGACG-GCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGg tgtaatgaatacttccatggctatccagatattttcttctccacttttagATCTGGCTGACACGCACTGTGCCTTGTGTTAGTCTTCACAGTAACCCTATCTG-TTTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGggtaagcactggtgatagttcacagcatggaacaggggagccagagggctt Alignment from Spaln_aa2Genome ATCTGGCTGACG-GCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG tgtaatgaatacttccatggctatccagatattttcttctccacttttagATCTGGCTGACAcGCACTGTGCCTTGTGTTAGTCTTCACAGTAACCCTATCTGT-TTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtaagcactggtgatagttcacagcatggaacaggggagccagttctttc Alignment from Spaln_nt2Genome ATCTGGCTGACG-GCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG tgtaatgaatacttccatggctatccagatattttcttctccacttttagATCTGGCTGACACGCACTGTGCCTTGTGTTAGTCTTCACAGTAACCCTATCTGT-TTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtaagcactggtgatagttcacagcatggaacaggggagccagttctttc Alignment from Pairagon ATCTGGCTGACG-GCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG tgtaatgaatacttccatggctatccagatattttcttctccacttttagATCTGGCTGACACGCACTGTGCCTTGTGTTAGTCTTCACAGTAACCCTATCTGT-TTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtaagcactggtgatagttcacagcatggaacaggggagccagttctttc Alignment from Exonerate_protein2genome ATCTGGCTGACG-GCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCG--GTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG tgtaatgaatacttccatggctatccagatattttcttctccacttttagATCTGGCTGACACGCACTGTGCCTTGTGTTAGTCTTCACAGTAACCCTATCTGT---TTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtaagcactggtgatagttcacagcatggaacaggggagccagttctttc Alignment from Exonerate_coding2genome ATCTGGCTGACG-GCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCG--GTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG tgtaatgaatacttccatggctatccagatattttcttctccacttttagATCTGGCTGACACGCACTGTGCCTTGTGTTAGTCTTCACAGTAACCCTATCTGT---TTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtaagcactggtgatagttcacagcatggaacaggggagccagttctttc Alignment from GeneWise ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG tgtaatgaatacttccatggctatccagatattttcttctccacttttagATCTGGCTGACACGCACTGTGCCTTGTGTTAGTCTTCACAGTAACCCTATCTGTTTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtaagcactggtgatagttcacagcatggaacaggggagccagttctttc #### Slc29a2_ID796_10 --> 2 - 0 Original Alignment gtCTGTTCTTCAACCCTATCTGTTGCTTT-CTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG agttcacagcatggaacaggggagccagagggcttgcctcttatgtgcaggtCTGTTCTTCAACCCTATCTGCTGCTTTCCCGCTCTTCAACGTCATGGATTGGTTGGGCC-GAGCCTGACCTCCTACTTCCTGTGGgtaagtgtctgggccagagtagcattacttaaaggactagataaccagaa Alignment from CESAR gtCTGTTCTTCAACCCTATCTGTTGCTTT-CTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG agttcacagcatggaacaggggagccagagggcttgcctcttatgtgcaggtCTGTTCTTCAACCCTATCTGCTGCTTTCCCGCTCTTCAACGTCATGGATTGGTTGGGCC-GAGCCTGACCTCCTACTTCCTGTGGgtaagtgtctgggccagagtagcattacttaaaggactagataaccagaa Alignment from Spaln_aa2Genome GTCTGTTCTTCAACCCTATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG agttcacagcatggaacaggggagccagagggcttgcctcttatgtgcagGTCTGTTCTTCAACCCTATCTGCTGCTTTCCCGCTCTTCAACGTCATGGATTGGTTGGGCCGAGCCTGACCTCCTACTTCCTGTGGgtaagtgtctgggccagagtagcattacttaaaggactagataaccagaa Alignment from Spaln_nt2Genome GTCTGTTCTTCAACCCTATCTGTTGCTTTCT-GCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG agttcacagcatggaacaggggagccagagggcttgcctcttatgtgcagGTCTGTTCTTCAACCCTATCTGCTGCTTTCCCGCTCTTCAACGTCATGGATTGGTTGGGCC-GAGCCTGACCTCCTACTTCCTGTGGgtaagtgtctgggccagagtagcattacttaaaggactagataaccagaa Alignment from Pairagon GTCTGTTCTTCAACCCTATCTGTTGCTTT-CTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG agttcacagcatggaacaggggagccagagggcttgcctcttatgtgcagGTCTGTTCTTCAACCCTATCTGCTGCTTTCCCGCTCTTCAACGTCATGGATTGGTTGGGCC-GAGCCTGACCTCCTACTTCCTGTGGgtaagtgtctgggccagagtagcattacttaaaggactagataaccagaa Alignment from Exonerate_protein2genome GTCTGTTCTTCAACCCTATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG agttcacagcatggaacaggggagccagagggcttgcctcttatgtgcagGTCTGTTCTTCAACCCTATCTGCTGCTTTCCCGCTCTTCAACGTCATGGATTGGTTGGGCCGAGCCTGACCTCCTACTTCCTGTGGgtaagtgtctgggccagagtagcattacttaaaggactagataaccagaa Alignment from Exonerate_coding2genome GTCTGTTCTTCAACCCTATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG agttcacagcatggaacaggggagccagagggcttgcctcttatgtgcagGTCTGTTCTTCAACCCTATCTGCTGCTTTCCCGCTCTTCAACGTCATGGATTGGTTGGGCCGAGCCTGACCTCCTACTTCCTGTGGgtaagtgtctgggccagagtagcattacttaaaggactagataaccagaa Alignment from GeneWise GTCTGTTCTTCAACCCTATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG agttcacagcatggaacaggggagccagagggcttgcctcttatgtgcagGTCTGTTCTTCAACCCTATCTGCTGCTTTCCCGCTCTTCAACGTCATGGATTGGTTGGGCCGAGCCTGACCTCCTACTTCCTGTGGgtaagtgtctgggccagagtagcattacttaaaggactagataaccagaa #### Slc3a2_ID2301_8 --> 0 - 0 Original Alignment GTGTCGCAAGCA-GGACTCCTCGCAGACTTTATACCGGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTGCCAGGGACTCCTGTTTTTAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAG tgaacatgtgggtcggaggggcaagtgttttttctggtttgtgtgatcagGTGTCACAGGCACGGACTTCTTGCAGACTTCATACCAGACCATCTCCTCCGACTCT-CCAGCTGCTGCTCTTCACCCTTCCAGGGACTCCCGTTTTCAGCTATGGGGATGAACTTGGCCTTCAGGGTGCCCTTCCTGGACAAgtgagtgcccactcattgtgttgcatggaaacagtgtgttatgctatgcg Alignment from CESAR GTGTCGCAAGCA-GGACTCCTCGCAGACTTTATACCGGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTGCCAGGGACTCCTGTTTTTAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAG tgaacatgtgggtcggaggggcaagtgttttttctggtttgtgtgatcagGTGTCACAGGCACGGACTTCTTGCAGACTTCATACCAGACCATCTCCTCCGACTC-TCCAGCTGCTGCTCTTCACCCTTCCAGGGACTCCCGTTTTCAGCTATGGGGATGAACTTGGCCTTCAGGGTGCCCTTCCTGGACAAgtgagtgcccactcattgtgttgcatggaaacagtgtgttatgctatgcg Alignment from Spaln_aa2Genome ACTTTATACCGGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTGCCAGGGACTCCTGTTTTTAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAG tgaacatgtgggtcggaggggcaagtgttttttctggtttgtgtgatcaggtgtcacaggcacggacttcttgcagACTTCATACCAGACCATCTCCTCCGACTCTC-CAGCTGCTGCTCTTCACCCTTCCAGGGACTCCCGTTTTCAGCTATGGGGATGAACTTGGCCTTCAGGGTGCCCTTCCTGGACAAgtgagtgcccactcattgtgttgcatggaaacagtgtgttatgctatgcg Alignment from Spaln_nt2Genome GTGTCGCAAGCA-GGACTCCTCGCAGACTTTATACCGGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTGCCAGGGACTCCTGTTTTTAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAG tgaacatgtgggtcggaggggcaagtgttttttctggtttgtgtgatcagGTGTCACAGGCACGGACTTCTTGCAGACTTCATACCAGACCATCTCCTCCGACTCT-CCAGCTGCTGCTCTTCACCCTTCCAGGGACTCCCGTTTTCAGCTATGGGGATGAACTTGGCCTTCAGGGTGCCCTTCCTGGACAAgtgagtgcccactcattgtgttgcatggaaacagtgtgttatgctatgcg Alignment from Pairagon GTGTCGCAAGCA-GGACTCCTCGCAGACTTTATACCGGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTGCCAGGGACTCCTGTTTTTAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAG tgaacatgtgggtcggaggggcaagtgttttttctggtttgtgtgatcagGTGTCACAGGCACGGACTTCTTGCAGACTTCATACCAGACCATCTCCTCCGACTCT-CCAGCTGCTGCTCTTCACCCTTCCAGGGACTCCCGTTTTCAGCTATGGGGATGAACTTGGCCTTCAGGGTGCCCTTCCTGGACAAgtgagtgcccactcattgtgttgcatggaaacagtgtgttatgctatgcg Alignment from Exonerate_protein2genome GTGTCGCAAGCA-GGACTCCTCGCAGACTTTATACCGGACCATCTTCTCCGA--CTCTACCAGCTGCTGCTCTTCACTCTGCCAGGGACTCCTGTTTTTAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAG tgaacatgtgggtcggaggggcaagtgttttttctggtttgtgtgatcagGTGTCACAGGCACGGACTTCTTGCAGACTTCATACCAGACCATCTCCTCCGACTCTC---CAGCTGCTGCTCTTCACCCTTCCAGGGACTCCCGTTTTCAGCTATGGGGATGAACTTGGCCTTCAGGGTGCCCTTCCTGGACAAgtgagtgcccactcattgtgttgcatggaaacagtgtgttatgctatgcg Alignment from Exonerate_coding2genome GTGTCGCAAGCA-GGACTCCTCGCAGACTTTATACCGGACCATCTTCTCCGA--CTCTACCAGCTGCTGCTCTTCACTCTGCCAGGGACTCCTGTTTTTAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAG tgaacatgtgggtcggaggggcaagtgttttttctggtttgtgtgatcagGTGTCACAGGCACGGACTTCTTGCAGACTTCATACCAGACCATCTCCTCCGACTCTC---CAGCTGCTGCTCTTCACCCTTCCAGGGACTCCCGTTTTCAGCTATGGGGATGAACTTGGCCTTCAGGGTGCCCTTCCTGGACAAgtgagtgcccactcattgtgttgcatggaaacagtgtgttatgctatgcg Alignment from GeneWise -----CA AGCAGGACTCCTCGCAGACTTTATACCGGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTGCCAGGGACTCCTGTTTTTAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAG TGAACATgtgggtcggaggggcaagtgttttttctggtttgtgtgatcaggtgtcacagGCACGGACTTCTTGCAGACTTCATACCAGACCATCTCCTCCGACTCTC-CAGCTGCTGCTCTTCACCCTTCCAGGGACTCCCGTTTTCAGCTATGGGGATGAACTTGGCCTTCAGGGTGCCCTTCCTGGACAAgtgagtgcccactcattgtgttgcatggaaacagtgtgttatgctatgcg #### Slc3a2_ID2306_3 --> 2 - 1 Original Alignment gtCTGAAGAGCCAT---CTGGAGTACTTGAGCACC-CTGAAGGTGAAGGGCCTGGTGTTAGGC------CCAATTCACAAGAACCAGAAGGATGAAATCAATGAAACCGACCTGAAACAGATTAATCCCACTTTGGGCTCCCAGGAAGATTTTAAAGACCTTCTACAAAGTGCCAAGAAAAAGa ggttgcagctatttttaactgcgtattatgatcattttgttttcccgtaggtCTGAAGAGCCATCTTCTAGAGTTCTTGAGCATGCTTGAAGGTGAAGGGCCTTGTGTCAGGCCCGTCCC-CATTCACAAGAACCAAAAAGATGAGATCAATGAGACAGACCTGAAACAGATTAATCCCACTCAGGGCTCTCAGAAAGATTTTAAGGACCTTTTACAGAGCACCAAAATAAGGagtactgccctgaatgggtctcaaatggtctattttagttcagctaacact Alignment from CESAR gtCTGAAGAGCCAT---CTGGAGTACTTGAGCACC-CTGAAGGTGAAGGGCCTGGTGTTAGGC-----CCAATTCACAAGAACCAGAAGGATGAAATCAATGAAACCGACCTGAAACAGATTAATCCCACTTTGGGCTCCCAGGAAGATTTTAAAGACCTTCTACAAAGTGCCAAGAAAAAGa ggttgcagctatttttaactgcgtattatgatcattttgttttcccgtaggtCTGAAGAGCCATCTTCTAGAGTTCTTGAGCATGCTTGAAGGTGAAGGGCCTTGTGTCAGGCCCGTCCCCATTCACAAGAACCAAAAAGATGAGATCAATGAGACAGACCTGAAACAGATTAATCCCACTCAGGGCTCTCAGAAAGATTTTAAGGACCTTTTACAGAGCACCAAAATAAGGagtactgccctgaatgggtctcaaatggtctattttagttcagctaacact Alignment from Spaln_aa2Genome GTCTGAAGAGCCAT---CTGGAGTACTTGAGCACC-CTGAAGGTGAAGGGCCTGGTGTTAGGCCCA-----ATTCACAAGAACCAGAAGGATGAAATCAATGAAACCGACCTGAAACAGATTAATCCCACTTTGGGCTCCCAGGAAGATTTTAAAGACCTTCTACAAAGTGCCAAGAAAAAGA ggttgcagctatttttaactgcgtattatgatcattttgttttcccgtagGTCTGAAGAGCCATCTTCTAGAGTTCTTGAGCATGcTTGAAGGTGAAGGGCCTTGTGTCAGGCCCGTCCccATTCACAAGAACCAAAAAGATGAGATCAATGAGACAGACCTGAAACAGATTAATCCCACTCAGGGCTCTCAGAAAGATTTTAAGGACCTTTTACAGAGCACCAAAATAAGGAgtactgccctgaatgggtctcaaatggtctattttagttcagctaacact Alignment from Spaln_nt2Genome GTCTGAAGAGCCATCTG---GAGTACTTGAGCACCCT-GAAGGTGAAGGGCCTGGTGTTAGGCCCA-----ATTCACAAGAACCAGAAGGATGAAATCAATGAAACCGACCTGAAACAGATTAATCCCACTTTGGGCTCCCAGGAAGATTTTAAAGACCTTCTACAAAGTGCCAAGAAAAAGA ggttgcagctatttttaactgcgtattatgatcattttgttttcccgtagGTCTGAAGAGCCATCTTCTAGAGTTCTTGAGCATGCTTGAAGGTGAAGGGCCTTGTGTCAGGCCCGTCCCCATTCACAAGAACCAAAAAGATGAGATCAATGAGACAGACCTGAAACAGATTAATCCCACTCAGGGCTCTCAGAAAGATTTTAAGGACCTTTTACAGAGCACCAAAATAAGGAgtactgccctgaatgggtctcaaatggtctattttagttcagctaacact Alignment from Pairagon GTCTGAAGAGCCA---TCTGGAGTACTTGAGCAC-CCTGAAGGTGAAGGGCCTGGTGTTAGGCCCA-----ATTCACAAGAACCAGAAGGATGAAATCAATGAAACCGACCTGAAACAGATTAATCCCACTTTGGGCTCCCAGGAAGATTTTAAAGACCTTCTACAAAGTGCCAAGAAAAAGA ggttgcagctatttttaactgcgtattatgatcattttgttttcccgtagGTCTGAAGAGCCATCTTCTAGAGTTCTTGAGCATGCTTGAAGGTGAAGGGCCTTGTGTCAGGCCCGTCCCCATTCACAAGAACCAAAAAGATGAGATCAATGAGACAGACCTGAAACAGATTAATCCCACTCAGGGCTCTCAGAAAGATTTTAAGGACCTTTTACAGAGCACCAAAATAAGGAgtactgccctgaatgggtctcaaatggtctattttagttcagctaacact Alignment from Exonerate_protein2genome GTCTGAAGAGCCAT---CTGGAGTACTTGAGC-ACCCTGAAGGTGAAGGGCCTGGTGTTAGGC-----CCAATTCACAAGAACCAGAAGGATGAAATCAATGAAACCGACCTGAAACAGATTAATCCCACTTTGGGCTCCCAGGAAGATTTTAAAGACCTTCTACAAAGTGCCAAGAAAAAGA ggttgcagctatttttaactgcgtattatgatcattttgttttcccgtagGTCTGAAGAGCCATCTTCTAGAGTTCTTGAGCATGCTTGAAGGTGAAGGGCCTTGTGTCAGGCCCGTCCCCATTCACAAGAACCAAAAAGATGAGATCAATGAGACAGACCTGAAACAGATTAATCCCACTCAGGGCTCTCAGAAAGATTTTAAGGACCTTTTACAGAGCACCAAAATAAGGAgtactgccctgaatgggtctcaaatggtctattttagttcagctaacact Alignment from Exonerate_coding2genome GTCTGAAGAGCCAT---CTGGAGTACTTGAGC-ACCCTGAAGGTGAAGGGCCTGGTGTTAGGC-----CCAATTCACAAGAACCAGAAGGATGAAATCAATGAAACCGACCTGAAACAGATTAATCCCACTTTGGGCTCCCAGGAAGATTTTAAAGACCTTCTACAAAGTGCCAAGAAAAAGA ggttgcagctatttttaactgcgtattatgatcattttgttttcccgtagGTCTGAAGAGCCATCTTCTAGAGTTCTTGAGCATGCTTGAAGGTGAAGGGCCTTGTGTCAGGCCCGTCCCCATTCACAAGAACCAAAAAGATGAGATCAATGAGACAGACCTGAAACAGATTAATCCCACTCAGGGCTCTCAGAAAGATTTTAAGGACCTTTTACAGAGCACCAAAATAAGGAgtactgccctgaatgggtctcaaatggtctattttagttcagctaacact Alignment from GeneWise GTCTGAAGAGCCATCTG---GAGTACTTGAGCACCCTGAAGGTGAAGGGCCTGGTGTTAGGCCCA------ATTCACAAGAACCAGAAGGATGAAATCAATGAAACCGACCTGAAACAGATTAATCCCACTTTGGGCTCCCAGGAAGATTTTAAAGACCTTCTACAAAGTGCCAAGAAAAAGA ggttgcagctatttttaactgcgtattatgatcattttgttttcccgtagGTCTGAAGAGCCATCTTCTAGAGTTCTTGAGCATGCTTGAAGGTGAAGGGCCTTGTGTCAGGCCCGTCCCCATTCACAAGAACCAAAAAGATGAGATCAATGAGACAGACCTGAAACAGATTAATCCCACTCAGGGCTCTCAGAAAGATTTTAAGGACCTTTTACAGAGCACCAAAATAAGGAgtactgccctgaatgggtctcaaatggtctattttagttcagctaacact #### Slit1_ID8230_9 --> 2 - 2 Original Alignment gcCAGGGGGAGGCTGCGGGAGCACCTGCCTGCACCCTCTCGTCCGGTTCCTGCCCAGCCATGTGCAGCTGT-AGCAGCGGCATCGTGGACTGCCGTGGCAAGGGCCTCACTGCCATCCCTGCTAACCTTCCAGAGACCATGACAGAGat ctagtttgagagtctctgagtactcctctactaaattgaatgttttgtaggcCAGGGGAGGGCGGCAGGAGCACCTACTTGCACCCTCTCATCAGGTTCCTGCCCAACCATGTGTAGCTGCCAGCAGCAGCATTTTGGACTGTCGTGGCAAGGGCCTTACTG-CATCCCTGCCAACCTTCCGGAGACTATGACAGAGgtgtgggtaaaaagccaggcaagctattctagtcagtggcaaaccaatattg Alignment from CESAR gcCAGGGGGAGGCTGCGGGAGCACCTGCCTGCACCCTCTCGTCCGGTTCCTGCCCAGCCATGTGCAGCTGT-AGCAGCGGCATCGTGGACTGCCGTGGCAAGGGCCTCACTGCCATCCCTGCTAACCTTCCAGAGACCATGACAGAGat ctagtttgagagtctctgagtactcctctactaaattgaatgttttgtaggcCAGGGGAGGGCGGCAGGAGCACCTACTTGCACCCTCTCATCAGGTTCCTGCCCAACCATGTGTAGCTGCCAGCAGCAGCATTTTGGACTGTCGTGGCAAGGGCCTTACTG-CATCCCTGCCAACCTTCCGGAGACTATGACAGAGgtgtgggtaaaaagccaggcaagctattctagtcagtggcaaaccaatattg Alignment from Spaln_aa2Genome GCCAGGGGGAGGCTGCGGGAGCACCTGCCTGCACCCTCTCGTCCGGTTCCTGCCCAGCCATGTGCAGCTGTAGCAGCGGCATCGTGGACTGCCGTGGCAAGGGCCTCACTGCCATCCCTGCTAACCTTCCAGAGACCATGACAGAGAT ctagtttgagagtctctgagtactcctctactaaattgaatgttttgtagGCCAGGGGAGGGCGGCAGGAGCACCTACTTGCACCCTCTCATCAGGTTCCTGCCCAACCATGTGTAGCTGCCAGCAGCAGCATTTTGGACTGTCGTGGCAAGGGCCTTACTGCATCCCTGCCAACCTTCCGGAGACTATGACAGAGGTgtgggtaaaaagccaggcaagctattctagtcagtggcaaaccaatattg Alignment from Spaln_nt2Genome GCCAGGGGGAGGCTGCGGGAGCACCTGCCTGCACCCTCTCGTCCGGTTCCTGCCCAGCCATGTGCAGCTGT-AGCAGCGGCATCGTGGACTGCCGTGGCAAGGGCCTCACTGCCATCCCTGCTAACCTTCCAGAGACCATGACAGAGAT ctagtttgagagtctctgagtactcctctactaaattgaatgttttgtagGCCAGGGGAGGGCGGCAGGAGCACCTACTTGCACCCTCTCATCAGGTTCCTGCCCAACCATGTGTAGCTGCCAGCAGCAGCATTTTGGACTGTCGTGGCAAGGGCCTTACTG-CATCCCTGCCAACCTTCCGGAGACTATGACAGAGGTgtgggtaaaaagccaggcaagctattctagtcagtggcaaaccaatattg Alignment from Pairagon GCCAGGGGGAGGCTGCGGGAGCACCTGCCTGCACCCTCTCGTCCGGTTCCTGCCCAGCCATGTGCAGCTG-TAGCAGCGGCATCGTGGACTGCCGTGGCAAGGGCCTCACTGCCATCCCTGCTAACCTTCCAGAGACCATGACAGAGAT ctagtttgagagtctctgagtactcctctactaaattgaatgttttgtagGCCAGGGGAGGGCGGCAGGAGCACCTACTTGCACCCTCTCATCAGGTTCCTGCCCAACCATGTGTAGCTGCCAGCAGCAGCATTTTGGACTGTCGTGGCAAGGGCCTTACTG-CATCCCTGCCAACCTTCCGGAGACTATGACAGAGGTgtgggtaaaaagccaggcaagctattctagtcagtggcaaaccaatattg Alignment from Exonerate_protein2genome GCCAGGGGGAGGCTGCGGGAGCACCTGCCTGCACCCTCTCGTCCGGTTCCTGCCCAGCCATGTGCAGCTGTAGCAGCGGCATCGTGGACTGCCGTGGCAAGGGCCTCACTGCCATCCCTGCTAACCTTCCAGAGACCATGACAGAGAT ctagtttgagagtctctgagtactcctctactaaattgaatgttttgtagGCCAGGGGAGGGCGGCAGGAGCACCTACTTGCACCCTCTCATCAGGTTCCTGCCCAACCATGTGTAGCTGCCAGCAGCAGCATTTTGGACTGTCGTGGCAAGGGCCTTACTGCATCCCTGCCAACCTTCCGGAGACTATGACAGAGGTgtgggtaaaaagccaggcaagctattctagtcagtggcaaaccaatattg Alignment from Exonerate_coding2genome GCCAGGGGGAGGCTGCGGGAGCACCTGCCTGCACCCTCTCGTCCGGTTCCTGCCCAGCCATGTGCAGCTGTAGCAGCGGCATCGTGGACTGCCGTGGCAAGGGCCTCACTGCCATCCCTGCTAACCTTCCAGAGACCATGACAGAGAT ctagtttgagagtctctgagtactcctctactaaattgaatgttttgtagGCCAGGGGAGGGCGGCAGGAGCACCTACTTGCACCCTCTCATCAGGTTCCTGCCCAACCATGTGTAGCTGCCAGCAGCAGCATTTTGGACTGTCGTGGCAAGGGCCTTACTGCATCCCTGCCAACCTTCCGGAGACTATGACAGAGGTgtgggtaaaaagccaggcaagctattctagtcagtggcaaaccaatattg Alignment from GeneWise GCCAGGGGGAGGCTGCGGGAGCACCTGCCTGCACCCTCTCGTCCGGTTCCTGCCCAGCCATGTGCAGCTGTAGCAGCGGCATCGTGGACTGCCGTGGCAAGGGCCTCACTGCCATCCCTGCTAACCTTCCAGAGACCATGACAGAGAT ctagtttgagagtctctgagtactcctctactaaattgaatgttttgtagGCCAGGGGAGGGCGGCAGGAGCACCTACTTGCACCCTCTCATCAGGTTCCTGCCCAACCATGTGTAGCTGCCAGCAGCAGCATTTTGGACTGTCGTGGCAAGGGCCTTACTGCATCCCTGCCAACCTTCCGGAGACTATGACAGAGGTgtgggtaaaaagccaggcaagctattctagtcagtggcaaaccaatattg #### Slit1_ID8231_8 --> 1 - 1 Original Alignment cCGGCTGCACTCCAACCACCTGTTCTGTGACTGCCAC-CTGGCCTGGCTCTCTCAGTGGCTGAGACAGAGGCCCACCATCGGACTCTTCACCCAGTGCTCTGGGCCCGCCAGCCTTCGGGGCCTCAACGTGGCAGAGGTGCAAAAGGGCGAGTTCAGCTGCTCAg aaagttcctctatgtgggccccaagaatcttaccttcgacccctttgcagtCGGCTGCACACCAACCAACTGTCCTGTGACTGTCATCCTCGCCTGGCTCTCTCACTGGCTGAGACAGAGGCCTA-TGTTGGCCTATTTACCCAATGCTCAGGGCCAGTTAGCCTTCGGGGCCTCAATGTGACAGAAGTTCAAAAGGGTGAATTTAGCTGCTCAggtacaggcttgtgtcatctggcttccctcattgagtttttcctttccagt Alignment from CESAR cCGGCTGCACTCCAACCACCTGTTCTGTGACTGCCAC-CTGGCCTGGCTCTCTCAGTGGCTGAGACAGAGGCCCACCATCGGACTCTTCACCCAGTGCTCTGGGCCCGCCAGCCTTCGGGGCCTCAACGTGGCAGAGGTGCAAAAGGGCGAGTTCAGCTGCTCAg aaagttcctctatgtgggccccaagaatcttaccttcgacccctttgcagtCGGCTGCACACCAACCAACTGTCCTGTGACTGTCATCCTCGCCTGGCTCTCTCACTGGCTGAGACAGAGGCCT-ATGTTGGCCTATTTACCCAATGCTCAGGGCCAGTTAGCCTTCGGGGCCTCAATGTGACAGAAGTTCAAAAGGGTGAATTTAGCTGCTCAggtacaggcttgtgtcatctggcttccctcattgagtttttcctttccagt Alignment from Spaln_aa2Genome CCGGCTGCACTCCAACCACCTGTTCTGTGACTGCCACCTGGCCTGGCTCTCTCAGTGGCTGAGACAGAGGCCCACCATCGGACTCTTCACCCAGTGCTCTGGGCCCGCCAGCCTTCGGGGCCTCAACGTGGCAGAGGTGCAAAAGGGCGAGTTCAGCTGCTCAG aaagttcctctatgtgggccccaagaatcttaccttcgacccctttgcagTCGGCTGCACACCAACCAACTGTCCTGTGACTGTCATCCTCGCCTGGCTCTCTCACTGGCTGAGACAGAGGCCTATGTTGGCCTATTTACCCAATGCTCAGGGCCAGTTAGCCTTCGGGGCCTCAATGTGACAGAAGTTCAAAAGGGTGAATTTAGCTGCTCAGgtacaggcttgtgtcatctggcttccctcattgagtttttcctttccagt Alignment from Spaln_nt2Genome CCGGCTGCACTCCAACCACCTGTTCTGTGACTGCCA-CCTGGCCTGGCTCTCTCAGTGGCTGAGACAGAGGCCCACCATCGGACTCTTCACCCAGTGCTCTGGGCCCGCCAGCCTTCGGGGCCTCAACGTGGCAGAGGTGCAAAAGGGCGAGTTCAGCTGCTCAG aaagttcctctatgtgggccccaagaatcttaccttcgacccctttgcagTCGGCTGCACACCAACCAACTGTCCTGTGACTGTCATCCTCGCCTGGCTCTCTCACTGGCTGAGACAGAGGCCTA-TGTTGGCCTATTTACCCAATGCTCAGGGCCAGTTAGCCTTCGGGGCCTCAATGTGACAGAAGTTCAAAAGGGTGAATTTAGCTGCTCAGgtacaggcttgtgtcatctggcttccctcattgagtttttcctttccagt Alignment from Pairagon CCGGCTGCACTCCAACCACCTGTTCTGTGACTGCCA-CCTGGCCTGGCTCTCTCAGTGGCTGAGACAGAGGCCCACCATCGGACTCTTCACCCAGTGCTCTGGGCCCGCCAGCCTTCGGGGCCTCAACGTGGCAGAGGTGCAAAAGGGCGAGTTCAGCTGCTCAG aaagttcctctatgtgggccccaagaatcttaccttcgacccctttgcagTCGGCTGCACACCAACCAACTGTCCTGTGACTGTCATCCTCGCCTGGCTCTCTCACTGGCTGAGACAGAGGCCTA-TGTTGGCCTATTTACCCAATGCTCAGGGCCAGTTAGCCTTCGGGGCCTCAATGTGACAGAAGTTCAAAAGGGTGAATTTAGCTGCTCAGgtacaggcttgtgtcatctggcttccctcattgagtttttcctttccagt Alignment from Exonerate_protein2genome CCGGCTGCACTCCAACCACCTGTTCTGTGACTGCCAC-CTGGCCTGGCTCTCTCAGTGGCTGAGACAGAGGCCC--ACCATCGGACTCTTCACCCAGTGCTCTGGGCCCGCCAGCCTTCGGGGCCTCAACGTGGCAGAGGTGCAAAAGGGCGAGTTCAGCTGCTCAG aaagttcctctatgtgggccccaagaatcttaccttcgacccctttgcagTCGGCTGCACACCAACCAACTGTCCTGTGACTGTCATCCTCGCCTGGCTCTCTCACTGGCTGAGACAGAGGCCTAT---GTTGGCCTATTTACCCAATGCTCAGGGCCAGTTAGCCTTCGGGGCCTCAATGTGACAGAAGTTCAAAAGGGTGAATTTAGCTGCTCAGgtacaggcttgtgtcatctggcttccctcattgagtttttcctttccagt Alignment from Exonerate_coding2genome CGGCTGCACTCCAACCACCTGTTCTGTGACTGCCAC-CTGGCCTGGCTCTCTCAGTGGCTGAGACAGAGGCCC--ACCATCGGACTCTTCACCCAGTGCTCTGGGCCCGCCAGCCTTCGGGGCCTCAACGTGGCAGAGGTGCAAAAGGGCGAGTTCAGCTGCTCAG aaagttcctctatgtgggccccaagaatcttaccttcgacccctttgcagtCGGCTGCACACCAACCAACTGTCCTGTGACTGTCATCCTCGCCTGGCTCTCTCACTGGCTGAGACAGAGGCCTAT---GTTGGCCTATTTACCCAATGCTCAGGGCCAGTTAGCCTTCGGGGCCTCAATGTGACAGAAGTTCAAAAGGGTGAATTTAGCTGCTCAGgtacaggcttgtgtcatctggcttccctcattgagtttttcctttccagt Alignment from GeneWise CCGGCTGCACTCCAACCACCTGTTCTGTGACTGCCACCTGGCCTGGCTCTCTCAGTGGCTGAGACAGAGGCCCACCATCGGACTCTTCACCCAGTGCTCTGGGCCCGCCAGCCTTCGGGGCCTCAACGTGGCAGAGGTGCAAAAGGGCGAGTTCAGCTGCTCAG aaagttcctctatgtgggccccaagaatcttaccttcgacccctttgcagTCGGCTGCACACCAACCAACTGTCCTGTGACTGTCATCCTCGCCTGGCTCTCTCACTGGCTGAGACAGAGGCCTATGTTGGCCTATTTACCCAATGCTCAGGGCCAGTTAGCCTTCGGGGCCTCAATGTGACAGAAGTTCAAAAGGGTGAATTTAGCTGCTCAGgtacaggcttgtgtcatctggcttccctcattgagtttttcctttccagt #### Slit1_ID8232_7 --> 1 - 2 Original Alignment gACCCTGAACAACAACAAC-ATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCtt cggtcccttttaggcatgggtggccaggatacatcactgtcttgttctagtCCACTCAATAATAATAACCATCAGTGCTATCCCC------CGTTTCAATC-TATCCCTAAGCTCCACACTttgtaaggcgtcttggctattggtgcatcaccttgactgtggataaagtgta Alignment from CESAR gACCCTGAACAACAACAAC-ATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCtt cggtcccttttaggcatgggtggccaggatacatcactgtcttgttctagtCCACTCAATAATAATAACCATCAGTGCTATCCCC------CGTTTCAAT-CTATCCCTAAGCTCCACACTttgtaaggcgtcttggctattggtgcatcaccttgactgtggataaagtgta Alignment from Spaln_aa2Genome GACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCTT cggtcccttttaggcatgggtggccaggatacatcactgtcttgttctagTCCACTCAATAATAATAACCATCAGTGCTATCCC------CCGTTTCAATCTATCCCTAAGCTCCACACTTTgtaaggcgtcttggctattggtgcatcaccttgactgtggataaagtgta Alignment from Spaln_nt2Genome GACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCTT cggtcccttttaggcatgggtggccaggatacatcactgtcttgttctagTCCACTCAATAATA-----ATAACCATCAGTGCTATCCCCCGTTTCAATC-TATCCCTAAGCTCCACACTTTgtaaggcgtcttggctattggtgcatcaccttgactgtggataaagtgta Alignment from Pairagon cggtcccttttaggcatgggtggccaggatacatcactgtcttgttctagtccactcaataataataaccatcagtgctatcccccgtttcaatctatccctaagctccacactttgtaaggcgtcttggctattggtgcatcaccttgactgtggataaagtgta Alignment from Exonerate_protein2genome cggtcccttttaggcatgggtggccaggatacatcactgtcttgttctagtccactcaataataataaccatcagtgctatcccccgtttcaatctatccctaagctccacactttgtaaggcgtcttggctattggtgcatcaccttgactgtggataaagtgta Alignment from Exonerate_coding2genome cggtcccttttaggcatgggtggccaggatacatcactgtcttgttctagtccactcaataataataaccatcagtgctatcccccgtttcaatctatccctaagctccacactttgtaaggcgtcttggctattggtgcatcaccttgactgtggataaagtgta Alignment from GeneWise GACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCTT cggtcccttttaggcatgggtggccaggatacatcactgtcttgttctagTCCACTCAATAATAATAACCATCAGTGCTATCCC------CCGTTTCAATCTATCCCTAAGCTCCACACTTTgtaaggcgtcttggctattggtgcatcaccttgactgtggataaagtgta #### Smc3_ID11322_10 --> 0 - 0 Original Alignment CTTTCTGCTAAGCGAGAAACGAGTGGA-GAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG gtttttatccaatgtttaaagtggatagatgcgttttgtatcctgcttagCTTTCAGCTAAGCAGGAAACAAGTGGACGAGAAATCAAGACAACTAAGGGATGCAC-GCAGGATACAAGAGATAAAATGGAGgtaggttgatacctaaggtcatacctagcttccaatgttacttgtaccga Alignment from CESAR CTTTCTGCTAAGCGAGAAACGAGTGGA-GAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG gtttttatccaatgtttaaagtggatagatgcgttttgtatcctgcttagCTTTCAGCTAAGCAGGAAACAAGTGGACGAGAAATCAAGACAACTAAGGGATGCA-CGCAGGATACAAGAGATAAAATGGAGgtaggttgatacctaaggtcatacctagcttccaatgttacttgtaccga Alignment from Spaln_aa2Genome CTTTCTGCTAAGCGAGAAACGAGTGGAGAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG gtttttatccaatgtttaaagtggatagatgcgttttgtatcctgcttagCTTTCAGCTAAGCAGGAAACAAGTGGACGAGAAATCAAGACAACTAAGGGATGCACGCAGGATACAAGAGATAAAATGGAGgtaggttgatacctaaggtcatacctagcttccaatgttacttgtaccga Alignment from Spaln_nt2Genome CTTTCTGCTAAGCGAGAAACGAGTGGA-GAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG gtttttatccaatgtttaaagtggatagatgcgttttgtatcctgcttagCTTTCAGCTAAGCAGGAAACAAGTGGACGAGAAATCAAGACAACTAAGGGATGCAC-GCAGGATACAAGAGATAAAATGGAGgtaggttgatacctaaggtcatacctagcttccaatgttacttgtaccga Alignment from Pairagon CTTTCTGCTAAGCGAGAAACGAGTGGA-GAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG gtttttatccaatgtttaaagtggatagatgcgttttgtatcctgcttagCTTTCAGCTAAGCAGGAAACAAGTGGACGAGAAATCAAGACAACTAAGGGATGCAC-GCAGGATACAAGAGATAAAATGGAGgtaggttgatacctaaggtcatacctagcttccaatgttacttgtaccga Alignment from Exonerate_protein2genome CTTTCTGCTAAGCGAGAAACGAGTGGAGAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG gtttttatccaatgtttaaagtggatagatgcgttttgtatcctgcttagCTTTCAGCTAAGCAGGAAACAAGTGGACGAGAAATCAAGACAACTAAGGGATGCACGCAGGATACAAGAGATAAAATGGAGgtaggttgatacctaaggtcatacctagcttccaatgttacttgtaccga Alignment from Exonerate_coding2genome gtttttatccaatgtttaaagtggatagatgcgttttgtatcctgcttagctttcagctaagcaggaaacaagtggacgagaaatcaagacaactaagggatgcacgcaggatacaagagataaaatggaggtaggttgatacctaaggtcatacctagcttccaatgttacttgtaccga Alignment from GeneWise CTTTCTGCTAAGCGAGAAACGAGTGGAGAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG gtttttatccaatgtttaaagtggatagatgcgttttgtatcctgcttagCTTTCAGCTAAGCAGGAAACAAGTGGACGAGAAATCAAGACAACTAAGGGATGCACGCAGGATACAAGAGATAAAATGGAGgtaggttgatacctaaggtcatacctagcttccaatgttacttgtaccga #### Smc3_ID11323_11 --> 0 - 0 Original Alignment GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAG-CAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG tgtgatcccacaatccatgcattatactttctttttcccacactacttagGATACGGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCCAAAGGACAAAGTTGGAACTCAAGGCCAAAGATTTACATG-TGAGCTGGCTGGGAACAGTGAACAGCGCgtgagacaaaaagaaaactgatcagatttcagtgtagtggagaagacact Alignment from CESAR GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAG-CAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG tgtgatcccacaatccatgcattatactttctttttcccacactacttagGATACGGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCCAAAGGACAAAGTTGGAACTCAAGGCCAAAGATTTACAT-GTGAGCTGGCTGGGAACAGTGAACAGCGCgtgagacaaaaagaaaactgatcagatttcagtgtagtggagaagacact Alignment from Spaln_aa2Genome GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG tgtgatcccacaatccatgcattatactttctttttcccacactacttagGATACGGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCCAAAGGACAAAGTTGGAACTCAAGGCCAAAGATTTACATGTGAGCTGGCTGGGAACAGTGAACAGCGCgtgagacaaaaagaaaactgatcagatttcagtgtagtggagaagacact Alignment from Spaln_nt2Genome GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAG-CAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG tgtgatcccacaatccatgcattatactttctttttcccacactacttagGATACGGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCCAAAGGACAAAGTTGGAACTCAAGGCCAAAGATTTACATG-TGAGCTGGCTGGGAACAGTGAACAGCGCgtgagacaaaaagaaaactgatcagatttcagtgtagtggagaagacact Alignment from Pairagon GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAG-CAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG tgtgatcccacaatccatgcattatactttctttttcccacactacttagGATACGGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCCAAAGGACAAAGTTGGAACTCAAGGCCAAAGATTTACATG-TGAGCTGGCTGGGAACAGTGAACAGCGCgtgagacaaaaagaaaactgatcagatttcagtgtagtggagaagacact Alignment from Exonerate_protein2genome GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG tgtgatcccacaatccatgcattatactttctttttcccacactacttagGATACGGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCCAAAGGACAAAGTTGGAACTCAAGGCCAAAGATTTACATGTGAGCTGGCTGGGAACAGTGAACAGCGCgtgagacaaaaagaaaactgatcagatttcagtgtagtggagaagacact Alignment from Exonerate_coding2genome GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG tgtgatcccacaatccatgcattatactttctttttcccacactacttagGATACGGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCCAAAGGACAAAGTTGGAACTCAAGGCCAAAGATTTACATGTGAGCTGGCTGGGAACAGTGAACAGCGCgtgagacaaaaagaaaactgatcagatttcagtgtagtggagaagacact Alignment from GeneWise GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG tgtgatcccacaatccatgcattatactttctttttcccacactacttagGATACGGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCCAAAGGACAAAGTTGGAACTCAAGGCCAAAGATTTACATGTGAGCTGGCTGGGAACAGTGAACAGCGCgtgagacaaaaagaaaactgatcagatttcagtgtagtggagaagacact #### Smc3_ID11337_25 --> 0 - 0 Original Alignment TTGTTTCGAAAACTGGAGCAATGCAACACAGAG-TTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attaaaggtccaagacctcccagtaaatgcgtctctgatcctatcccaagGTATTCCAAAAACTGGAGCAATGCAACACAGAACTTGAAGAAATATGGCCGTGTGAACAAAAAGGCACTAGATC-GCTGGTAAACTTTTCTGAGAAGAAGGAAAAGTTGATAAAATGGCAGGAGGAACTGGATAGC---TATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagaaataagttattctagtgtgcagaatgaatggatatgtgtaaaat Alignment from CESAR TTGTTTCGAAAACTGGAGCAATGCAACACAGAG-TTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attaaaggtccaagacctcccagtaaatgcgtctctgatcctatcccaagGTATTCCAAAAACTGGAGCAATGCAACACAGAACTTGAAGAAATATGGCCGTGTGAACAAAAAGGCACTAGAT-CGCTGGTAAACTTTTCTGAGAAGAAGGAAAAGTTGATAAAATGGCAGGAGGAACTGGAT---AGCTATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagaaataagttattctagtgtgcagaatgaatggatatgtgtaaaat Alignment from Spaln_aa2Genome TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attaaaggtccaagacctcccagtaaatgcgtctctgatcctatcccaagGTATTCCAAAAACTGGAGCAATGCAACACAGAACTTGAAGAAATATGGCCGTGTGAACAAAAAGGCACTAGATCGCTGGTAAACTTTTCTGAGAAGAAGGAAAAGTTGATAAAATGGCAGGAGGAACTGGAT---AGCTATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagaaataagttattctagtgtgcagaatgaatggatatgtgtaaaat Alignment from Spaln_nt2Genome TTGTTTCGAAAACTGGAGCAATGCAACACAGAG-TTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attaaaggtccaagacctcccagtaaatgcgtctctgatcctatcccaagGTATTCCAAAAACTGGAGCAATGCAACACAGAACTTGAAGAAATATGGCCGTGTGAACAAAAAGGCACTAGATC-GCTGGTAAACTTTTCTGAGAAGAAGGAAAAGTTGATAAAATGGCAGGAGGAACTGGATA---GCTATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagaaataagttattctagtgtgcagaatgaatggatatgtgtaaaat Alignment from Pairagon TTGTTTCGAAAACTGGAGCAATGCAACACAGAG-TTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attaaaggtccaagacctcccagtaaatgcgtctctgatcctatcccaagGTATTCCAAAAACTGGAGCAATGCAACACAGAACTTGAAGAAATATGGCCGTGTGAACAAAAAGGCACTAGATC-GCTGGTAAACTTTTCTGAGAAGAAGGAAAAGTTGATAAAATGGCAGGAGGAACTGGATA---GCTATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagaaataagttattctagtgtgcagaatgaatggatatgtgtaaaat Alignment from Exonerate_protein2genome TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attaaaggtccaagacctcccagtaaatgcgtctctgatcctatcccaagGTATTCCAAAAACTGGAGCAATGCAACACAGAACTTGAAGAAATATGGCCGTGTGAACAAAAAGGCACTAGATCGCTGGTAAACTTTTCTGAGAAGAAGGAAAAGTTGATAAAATGGCAGGAGGAACTGGAT---AGCTATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagaaataagttattctagtgtgcagaatgaatggatatgtgtaaaat Alignment from Exonerate_coding2genome TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attaaaggtccaagacctcccagtaaatgcgtctctgatcctatcccaagGTATTCCAAAAACTGGAGCAATGCAACACAGAACTTGAAGAAATATGGCCGTGTGAACAAAAAGGCACTAGATCGCTGGTAAACTTTTCTGAGAAGAAGGAAAAGTTGATAAAATGGCAGGAGGAACTGGAT---AGCTATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagaaataagttattctagtgtgcagaatgaatggatatgtgtaaaat Alignment from GeneWise TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attaaaggtccaagacctcccagtaaatgcgtctctgatcctatcccaagGTATTCCAAAAACTGGAGCAATGCAACACAGAACTTGAAGAAATATGGCCGTGTGAACAAAAAGGCACTAGATCGCTGGTAAACTTTTCTGAGAAGAAGGAAAAGTTGATAAAATGGCAGGAGGAACTGGAT---AGCTATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagaaataagttattctagtgtgcagaatgaatggatatgtgtaaaat #### Smc5_ID5118_15 --> 0 - 2 Original Alignment GAAATGAATAGACAACTGGAAGCAGTGGACTCAGGGTTGGCTGCCTTGCGTGATACGAACAGGCACCTTGAGCTCAAAGACAACGAGCTAAGGCTGAAGAAGAAGGAGCTTCTTGAA-AGAAAAACCAGGAAAAGGCAGCTGGAGCAGAAAATCAGCTCCAAGCTGGCAag attcacagtttctatactggcttaatgctcttaattactaattactgcagGAAACAAATAGGCAACTGGAGGCAGTTGACTCAGGGTTGGTTGTACTGCGTGATGCAAACAGGCACCTCGAGCTTAAAGATAATGAGCTAAAGCTGAAGGAGAAGGAGCTTCTTGAACCGAGAAACCAGAAAAAGGCAGCTGGAGCAAAAAGTCA-CTCCAAGCCAGGGaggtaccatgtattgaggatgtgaggccagggagataacgcaataatttgtg Alignment from CESAR GAAATGAATAGACAACTGGAAGCAGTGGACTCAGGGTTGGCTGCCTTGCGTGATACGAACAGGCACCTTGAGCTCAAAGACAACGAGCTAAGGCTGAAGAAGAAGGAGCTTCTTGAA-AGAAAAACCAGGAAAAGGCAGCTGGAGCAGAAAATCAGCTCCAAGCTGGCAag attcacagtttctatactggcttaatgctcttaattactaattactgcagGAAACAAATAGGCAACTGGAGGCAGTTGACTCAGGGTTGGTTGTACTGCGTGATGCAAACAGGCACCTCGAGCTTAAAGATAATGAGCTAAAGCTGAAGGAGAAGGAGCTTCTTGAACCGAGAAACCAGAAAAAGGCAGCTGGAGCAAAAAGTCA-CTCCAAGCCAGGGaggtaccatgtattgaggatgtgaggccagggagataacgcaataatttgtg Alignment from Spaln_aa2Genome GAAATGAATAGACAACTGGAAGCAGTGGACTCAGGGTTGGCTGCCTTGCGTGATACGAACAGGCACCTTGAGCTCAAAGACAACGAGCTAAGGCTGAAGAAGAAGGAGCTTCTTGAAAGAAAA-ACCAGGAAAAGGCAGCTGGAGCAGAAAATCAGCTCCAAGCTGGCAAGT----- attcacagtttctatactggcttaatgctcttaattactaattactgcagGAAACAAATAGGCAACTGGAGGCAGTTGACTCAGGGTTGGTTGTACTGCGTGATGCAAACAGGCACCTCGAGCTTAAAGATAATGAGCTAAAGCTGAAGGAGAAGGAGCTTCTTGAACCGAGAaACCAGAAAAAGGCAGCTGGAGCAAAAAGTCACTCCAAGCCAGGGAGGTACCATgtattgaggatgtgaggccagggagataacgcaataatttgtg Alignment from Spaln_nt2Genome GAAATGAATAGACAACTGGAAGCAGTGGACTCAGGGTTGGCTGCCTTGCGTGATACGAACAGGCACCTTGAGCTCAAAGACAACGAGCTAAGGCTGAAGAAGAAGGAGCTTCTTGAAA-GAAAAACCAGGAAAAGGCAGCTGGAGCAGAAAATCAGCTCCAAGCTGGCAAG attcacagtttctatactggcttaatgctcttaattactaattactgcagGAAACAAATAGGCAACTGGAGGCAGTTGACTCAGGGTTGGTTGTACTGCGTGATGCAAACAGGCACCTCGAGCTTAAAGATAATGAGCTAAAGCTGAAGGAGAAGGAGCTTCTTGAACCGAGAAACCAGAAAAAGGCAGCTGGAGCAAAAAGTCA-CTCCAAGCCAGGGAGgtaccatgtattgaggatgtgaggccagggagataacgcaataatttgtg Alignment from Pairagon GAAATGAATAGACAACTGGAAGCAGTGGACTCAGGGTTGGCTGCCTTGCGTGATACGAACAGGCACCTTGAGCTCAAAGACAACGAGCTAAGGCTGAAGAAGAAGGAGCTTCTTGAA-AGAAAAACCAGGAAAAGGCAGCTGGAGCAGAAAATCAGCTCCAAGCTGGCAAG attcacagtttctatactggcttaatgctcttaattactaattactgcagGAAACAAATAGGCAACTGGAGGCAGTTGACTCAGGGTTGGTTGTACTGCGTGATGCAAACAGGCACCTCGAGCTTAAAGATAATGAGCTAAAGCTGAAGGAGAAGGAGCTTCTTGAACCGAGAAACCAGAAAAAGGCAGCTGGAGCAAAAAGTCA-CTCCAAGCCAGGGAGgtaccatgtattgaggatgtgaggccagggagataacgcaataatttgtg Alignment from Exonerate_protein2genome GAAATGAATAGACAACTGGAAGCAGTGGACTCAGGGTTGGCTGCCTTGCGTGATACGAACAGGCACCTTGAGCTCAAAGACAACGAGCTAAGGCTGAAGAAGAAGGAGCTTCTTGAAAGAAAAACCAGGAAAAGGCAGCTGGAGCAGAAAATCAGCTCCAAGCTGGCAAG attcacagtttctatactggcttaatgctcttaattactaattactgcagGAAACAAATAGGCAACTGGAGGCAGTTGACTCAGGGTTGGTTGTACTGCGTGATGCAAACAGGCACCTCGAGCTTAAAGATAATGAGCTAAAGCTGAAGGAGAAGGAGCTTCTTGAACCGAGAAACCAGAAAAAGGCAGCTGGAGCAAAAAGTCACTCCAAGCCAGGGAGgtaccatgtattgaggatgtgaggccagggagataacgcaataatttgtg Alignment from Exonerate_coding2genome GAAATGAATAGACAACTGGAAGCAGTGGACTCAGGGTTGGCTGCCTTGCGTGATACGAACAGGCACCTTGAGCTCAAAGACAACGAGCTAAGGCTGAAGAAGAAGGAGCTTCTTGAAAGAAAAACCAGGAAAAGGCAGCTGGAGCAGAAAATCAGCTCCAAGCTGGCAAG attcacagtttctatactggcttaatgctcttaattactaattactgcagGAAACAAATAGGCAACTGGAGGCAGTTGACTCAGGGTTGGTTGTACTGCGTGATGCAAACAGGCACCTCGAGCTTAAAGATAATGAGCTAAAGCTGAAGGAGAAGGAGCTTCTTGAACCGAGAAACCAGAAAAAGGCAGCTGGAGCAAAAAGTCACTCCAAGCCAGGGAGgtaccatgtattgaggatgtgaggccagggagataacgcaataatttgtg Alignment from GeneWise GAAATGAATAGACAACTGGAAGCAGTGGACTCAGGGTTGGCTGCCTTGCGTGATACGAACAGGCACCTTGAGCTCAAAGACAACGAGCTAAGGCTGAAGAAGAAGGAGCTTCTTGAAAGAAAAACCAGGAAAAGGCAGCTGGAGCAGAAAATCAGCTCCAAGCTGGCAAG attcacagtttctatactggcttaatgctcttaattactaattactgcagGAAACAAATAGGCAACTGGAGGCAGTTGACTCAGGGTTGGTTGTACTGCGTGATGCAAACAGGCACCTCGAGCTTAAAGATAATGAGCTAAAGCTGAAGGAGAAGGAGCTTCTTGAACCGAGAAACCAGAAAAAGGCAGCTGGAGCAAAAAGTCACTCCAAGCCAGGGAGgtaccatgtattgaggatgtgaggccagggagataacgcaataatttgtg #### Snx15_ID1465_7 --> 2 - 1 Original Alignment aaAGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGAT-GGAGAGCCT------GCCCCAGCTTACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGGGTGTCTCAg agcaatggataaataggtccccaagaggttatgaacctttggtgttgcagcaAGTACAGGCCCCAGCCCAACCCATCCTGGTGAGTTAACTGCGATTGAGGTAGGGGCTAAGAAGCTGGATCATGAACCCTGGGAACCAGGTGGACAACAGCAGGAGGAAGCTGAGGATCGGCGAGCCTGCTCCAGGTCCACCTTATCTTG-CCAGGCAGCAGAGCTTATCACTCAAACTGTGAGAAATAAAAAGGCAGGCACCTACACTGCTGCCCTCCAAGGCTACCAAGACGGGGTTCACATCCTTTTGCAGGGTGTTTCTggtgaggagtaaggtggttaagcagaacacaaaaatcccaataatgtaatc Alignment from CESAR aaAGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGAT-GGAGAGCCTGCC------CCAGCTTACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGGGTGTCTCAg agcaatggataaataggtccccaagaggttatgaacctttggtgttgcagcaAGTACAGGCCCCAGCCCAACCCATCCTGGTGAGTTAACTGCGATTGAGGTAGGGGCTAAGAAGCTGGATCATGAACCCTGGGAACCAGGTGGACAACAGCAGGAGGAAGCTGAGGATCGGCGAGCCTGCTCCAGGTCCACCTTATCTTG-CCAGGCAGCAGAGCTTATCACTCAAACTGTGAGAAATAAAAAGGCAGGCACCTACACTGCTGCCCTCCAAGGCTACCAAGACGGGGTTCACATCCTTTTGCAGGGTGTTTCTggtgaggagtaaggtggttaagcagaacacaaaaatcccaataatgtaatc Alignment from Spaln_aa2Genome AAAGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGA------CAGGAGGAGGAAGAAGCTGAGGATGGAGAGCCTGCCCCAGCTTACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGGGTGTCTCAG agcaatggataaataggtccccaagaggttatgaacctttggtgttgcagCAAGTACAGGCCCCAGCCCAACCCATCCTGGTGAGTTAACTGCGATTGAGGTAGGGGCTAAGAAGCTGGATCATGAACCCTGGGAACCAGGTGGACAACAGCAGGAGGAAGCTGAGGATCGGCGAGCCTGCTCCAGGTCCACCTTATCTTGCCAGGCAGCAGAGCTTATCACTCAAACTGTGAGAAATAAAAAGGCAGGCACCTACACTGCTGCCCTCCAAGGCTACCAAGACGGGGTTCACATCCTTTTGCAGGGTGTTTCTGgtgaggagtaaggtggttaagcagaacacaaaaatcccaataatgtaatc Alignment from Spaln_nt2Genome AAAGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGAT-GGAGAGCCTGCCCCAG------CTTACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGGGTGTCTCAG agcaatggataaataggtccccaagaggttatgaacctttggtgttgcagCAAGTACAGGCCCCAGCCCAACCCATCCTGGTGAGTTAACTGCGATTGAGGTAGGGGCTAAGAAGCTGGATCATGAACCCTGGGAACCAGGTGGACAACAGCAGGAGGAAGCTGAGGATCGGCGAGCCTGCTCCAGGTCCACCTTATCTT-GCCAGGCAGCAGAGCTTATCACTCAAACTGTGAGAAATAAAAAGGCAGGCACCTACACTGCTGCCCTCCAAGGCTACCAAGACGGGGTTCACATCCTTTTGCAGGGTGTTTCTGgtgaggagtaaggtggttaagcagaacacaaaaatcccaataatgtaatc Alignment from Pairagon AAAGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGAT-GGAGAGCCTGCCCCAG------CTTACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGGGTGTCTCAG agcaatggataaataggtccccaagaggttatgaacctttggtgttgcagCAAGTACAGGCCCCAGCCCAACCCATCCTGGTGAGTTAACTGCGATTGAGGTAGGGGCTAAGAAGCTGGATCATGAACCCTGGGAACCAGGTGGACAACAGCAGGAGGAAGCTGAGGATCGGCGAGCCTGCTCCAGGTCCACCTTATCTT-GCCAGGCAGCAGAGCTTATCACTCAAACTGTGAGAAATAAAAAGGCAGGCACCTACACTGCTGCCCTCCAAGGCTACCAAGACGGGGTTCACATCCTTTTGCAGGGTGTTTCTGgtgaggagtaaggtggttaagcagaacacaaaaatcccaataatgtaatc Alignment from Exonerate_protein2genome AAAGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGAT-GGAGAGCCTGCCCCA-----GCTTACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGGGTGTCTCAG agcaatggataaataggtccccaagaggttatgaacctttggtgttgcagCAAGTACAGGCCCCAGCCCAACCCATCCTGGTGAGTTAACTGCGATTGAGGTAGGGGCTAAGAAGCTGGATCATGAACCCTGGGAACCAGGTGGACAACAGCAGGAGGAAGCTGAGGATCGGCGAGCCTGCTCCAGGTCCACCTTATCTTGCCAGGCAGCAGAGCTTATCACTCAAACTGTGAGAAATAAAAAGGCAGGCACCTACACTGCTGCCCTCCAAGGCTACCAAGACGGGGTTCACATCCTTTTGCAGGGTGTTTCTGgtgaggagtaaggtggttaagcagaacacaaaaatcccaataatgtaatc Alignment from Exonerate_coding2genome AAAGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGAT-GGAGAGCCTGCCCCA-----GCTTACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGGGTGTCTCAG agcaatggataaataggtccccaagaggttatgaacctttggtgttgcagCAAGTACAGGCCCCAGCCCAACCCATCCTGGTGAGTTAACTGCGATTGAGGTAGGGGCTAAGAAGCTGGATCATGAACCCTGGGAACCAGGTGGACAACAGCAGGAGGAAGCTGAGGATCGGCGAGCCTGCTCCAGGTCCACCTTATCTTGCCAGGCAGCAGAGCTTATCACTCAAACTGTGAGAAATAAAAAGGCAGGCACCTACACTGCTGCCCTCCAAGGCTACCAAGACGGGGTTCACATCCTTTTGCAGGGTGTTTCTGgtgaggagtaaggtggttaagcagaacacaaaaatcccaataatgtaatc Alignment from GeneWise AAAGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGATGGAGAGCCTGCCCCA------GCTTACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGGGTGTCTCAG agcaatggataaataggtccccaagaggttatgaacctttggtgttgcagCAAGTACAGGCCCCAGCCCAACCCATCCTGGTGAGTTAACTGCGATTGAGGTAGGGGCTAAGAAGCTGGATCATGAACCCTGGGAACCAGGTGGACAACAGCAGGAGGAAGCTGAGGATCGGCGAGCCTGCTCCAGGTCCACCTTATCTTGCCAGGCAGCAGAGCTTATCACTCAAACTGTGAGAAATAAAAAGGCAGGCACCTACACTGCTGCCCTCCAAGGCTACCAAGACGGGGTTCACATCCTTTTGCAGGGTGTTTCTGgtgaggagtaaggtggttaagcagaacacaaaaatcccaataatgtaatc #### Snx15_ID1466_6 --> 2 - 1 Original Alignment tgGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGT-GACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGg atgtttccacccccagggtaagtctcaatgacctccatttctgtgctcagtaGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGATCATCTCTTCAGCTGTCGACAGTACGGAGGAGGCTTCTGGTACTCTGG-TCGAGGTCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGAGggtgagactggatggaggggcagtcctaaaggccttgaagaactccatcag Alignment from CESAR tgGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGT-GACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGg atgtttccacccccagggtaagtctcaatgacctccatttctgtgctcagtaGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGATCATCTCTTCAGCTGTCGACAGTACGGAGGAGGCTTCTGGTACTCTG-GTCGAGGTCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGAGggtgagactggatggaggggcagtcctaaaggccttgaagaactccatcag Alignment from Spaln_aa2Genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atgtttccacccccagggtaagtctcaatgacctccatttctgtgctcagTAGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGATCATCTCTTCAGCTGTCGACAGTACGGAGGAGGCTTCTGGTACTCTGGTCGAGGTCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGAGGgtgagactggatggaggggcagtcctaaaggccttgaagaactccatcag Alignment from Spaln_nt2Genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGT-GACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atgtttccacccccagggtaagtctcaatgacctccatttctgtgctcagTAGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGATCATCTCTTCAGCTGTCGACAGTACGGAGGAGGCTTCTGGTACTCTGG-TCGAGGTCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGAGGgtgagactggatggaggggcagtcctaaaggccttgaagaactccatcag Alignment from Pairagon TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGT-GACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atgtttccacccccagggtaagtctcaatgacctccatttctgtgctcagTAGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGATCATCTCTTCAGCTGTCGACAGTACGGAGGAGGCTTCTGGTACTCTGG-TCGAGGTCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGAGGgtgagactggatggaggggcagtcctaaaggccttgaagaactccatcag Alignment from Exonerate_protein2genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atgtttccacccccagggtaagtctcaatgacctccatttctgtgctcagTAGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGATCATCTCTTCAGCTGTCGACAGTACGGAGGAGGCTTCTGGTACTCTGGTCGAGGTCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGAGGgtgagactggatggaggggcagtcctaaaggccttgaagaactccatcag Alignment from Exonerate_coding2genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atgtttccacccccagggtaagtctcaatgacctccatttctgtgctcagTAGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGATCATCTCTTCAGCTGTCGACAGTACGGAGGAGGCTTCTGGTACTCTGGTCGAGGTCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGAGGgtgagactggatggaggggcagtcctaaaggccttgaagaactccatcag Alignment from GeneWise TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atgtttccacccccagggtaagtctcaatgacctccatttctgtgctcagTAGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGATCATCTCTTCAGCTGTCGACAGTACGGAGGAGGCTTCTGGTACTCTGGTCGAGGTCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGAGGgtgagactggatggaggggcagtcctaaaggccttgaagaactccatcag #### Snx15_ID1467_5 --> 0 - 1 Original Alignment GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTG-CGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAg cctctctggtcagccatattcccccctctcctgggctcttctacctttagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCCAGAGACCTGCCGGATCCCACTACCTCCTCTCATTCCAACAATGC-TCCAGTAGAGGCTCGTTTACTTCAGGCTTTGCCGGCTGAAAGAAGGGGCCAGGAGGAGCTGGAAGTTCCAggtaggtctggtttcaggcaatgggctgatactgccaattgtagccctttc Alignment from CESAR GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTG-CGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAg cctctctggtcagccatattcccccctctcctgggctcttctacctttagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCCAGAGACCTGCCGGATCCCACTACCTCCTCTCATTCCAACA-ATGCTCCAGTAGAGGCTCGTTTACTTCAGGCTTTGCCGGCTGAAAGAAGGGGCCAGGAGGAGCTGGAAGTTCCAggtaggtctggtttcaggcaatgggctgatactgccaattgtagccctttc Alignment from Spaln_aa2Genome GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAG cctctctggtcagccatattcccccctctcctgggctcttctacctttagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCCAGAGACCTGCCGGATCCCACTACCTCCTCTCATTCCAACAATGCTCCAGTAGAGGCTCGTTTACTTCAGGCTTTGCCGGCTGAAAGAAGGGGCCAGGAGGAGCTGGAAGTTCCAGgtaggtctggtttcaggcaatgggctgatactgccaattgtagccctttc Alignment from Spaln_nt2Genome GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGC-GAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAG cctctctggtcagccatattcccccctctcctgggctcttctacctttagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCCAGAGACCTGCCGGATCCCACTACCTCCTCTCATTCCAACA-ATGCTCCAGTAGAGGCTCGTTTACTTCAGGCTTTGCCGGCTGAAAGAAGGGGCCAGGAGGAGCTGGAAGTTCCAGgtaggtctggtttcaggcaatgggctgatactgccaattgtagccctttc Alignment from Pairagon GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTG-CGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGAT---------GAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAG cctctctggtcagccatattcccccctctcctgggctcttctacctttagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCCAGAGACCTGCCGGATCCCACTACCTCCTCTCATTCCAACA----------ATGCTCCAGTAGAGGCTCGTTTACTTCAGGCTTTGCCGGCTGAAAGAAGGGGCCAGGAGGAGCTGGAAGTTCCAGgtaggtctggtttcaggcaatgggctgatactgccaattgtagccctttc Alignment from Exonerate_protein2genome GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAG cctctctggtcagccatattcccccctctcctgggctcttctacctttagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCCAGAGACCTGCCGGATCCCACTACCTCCTCTCATTCCAACAATGCTCCAGTAGAGGCTCGTTTACTTCAGGCTTTGCCGGCTGAAAGAAGGGGCCAGGAGGAGCTGGAAGTTCCAGgtaggtctggtttcaggcaatgggctgatactgccaattgtagccctttc Alignment from Exonerate_coding2genome GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAG cctctctggtcagccatattcccccctctcctgggctcttctacctttagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCCAGAGACCTGCCGGATCCCACTACCTCCTCTCATTCCAACAATGCTCCAGTAGAGGCTCGTTTACTTCAGGCTTTGCCGGCTGAAAGAAGGGGCCAGGAGGAGCTGGAAGTTCCAGgtaggtctggtttcaggcaatgggctgatactgccaattgtagccctttc Alignment from GeneWise GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAG cctctctggtcagccatattcccccctctcctgggctcttctacctttagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCCAGAGACCTGCCGGATCCCACTACCTCCTCTCATTCCAACAATGCTCCAGTAGAGGCTCGTTTACTTCAGGCTTTGCCGGCTGAAAGAAGGGGCCAGGAGGAGCTGGAAGTTCCAGgtaggtctggtttcaggcaatgggctgatactgccaattgtagccctttc #### Snx15_ID1468_4 --> 2 - 0 Original Alignment ggCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGC-TTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG caccaacactgaaacattcatgctgccacttgtgtctattttaaaaataggaCGATTTGAAGCTTCTGTTATTGAGGAGCATCGGAAAGGTGCAGATGACCTGCTGCGCCTTTACAGTGCCAATCCCAGCCCTCAACAACAGCCCTCAAG-TAAGGAATTTTTCCGAgtaagcgcctgtactgacagggtccccttctagtcaaaccacctggcctc Alignment from CESAR ggCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGC-TTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG caccaacactgaaacattcatgctgccacttgtgtctattttaaaaataggaCGATTTGAAGCTTCTGTTATTGAGGAGCATCGGAAAGGTGCAGATGACCTGCTGCGCCTTTACAGTGCCAATCCCAGCCCTCAACAACAGCCCTCAA-GTAAGGAATTTTTCCGAgtaagcgcctgtactgacagggtccccttctagtcaaaccacctggcctc Alignment from Spaln_aa2Genome GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGC-TTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG caccaacactgaaacattcatgctgccacttgtgtctattttaaaaatagGACGATTTGAAGCTTCTGTTATTGAGGAGCATCGGAAAGGTGCAGATGACCTGCTGCGCcTTTACAGTGCCAATCCCAGCCCTCAACAACAGCCCTCAAGT-AAGGAATTTTTCCGAgtaagcgcctgtactgacagggtccccttctagtcaaaccacctggcctc Alignment from Spaln_nt2Genome GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGC-TTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG caccaacactgaaacattcatgctgccacttgtgtctattttaaaaatagGACGATTTGAAGCTTCTGTTATTGAGGAGCATCGGAAAGGTGCAGATGACCTGCTGCGCCTTTACAGTGCCAATCCCAGCCCTCAACAACAGCCCTCAAGT-AAGGAATTTTTCCGAgtaagcgcctgtactgacagggtccccttctagtcaaaccacctggcctc Alignment from Pairagon GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGC-TTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG caccaacactgaaacattcatgctgccacttgtgtctattttaaaaatagGACGATTTGAAGCTTCTGTTATTGAGGAGCATCGGAAAGGTGCAGATGACCTGCTGCGCCTTTACAGTGCCAATCCCAGCCCTCAACAACAGCCCTCAAGT-AAGGAATTTTTCCGAgtaagcgcctgtactgacagggtccccttctagtcaaaccacctggcctc Alignment from Exonerate_protein2genome GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGC-TTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAA caccaacactgaaacattcatgctgccacttgtgtctattttaaaaatagGACGATTTGAAGCTTCTGTTATTGAGGAGCATCGGAAAGGTGCAGATGACCTGCTGCGCCTTTACAGTGCCAATCCCAGCCCTCAACAACAGCCCTCAAgtaaggaatttttccgagtaagcgcctgtactgacagggtccccttctagtcaaaccacctggcctc Alignment from Exonerate_coding2genome GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGC-TTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAA caccaacactgaaacattcatgctgccacttgtgtctattttaaaaatagGACGATTTGAAGCTTCTGTTATTGAGGAGCATCGGAAAGGTGCAGATGACCTGCTGCGCCTTTACAGTGCCAATCCCAGCCCTCAACAACAGCCCTCAAgtaaggaatttttccgagtaagcgcctgtactgacagggtccccttctagtcaaaccacctggcctc Alignment from GeneWise GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG caccaacactgaaacattcatgctgccacttgtgtctattttaaaaatagGACGATTTGAAGCTTCTGTTATTGAGGAGCATCGGAAAGGTGCAGATGACCTGCTGCGCCTTTACAGTGCCAATCCCAGCCCTCAACAACAGCCCTCAAGTAAGGAATTTTTCCGAgtaagcgcctgtactgacagggtccccttctagtcaaaccacctggcctc #### Snx32_ID1067_11 --> 0 - 1 Original Alignment GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGG-CCAGCAGAGAGCCGCCAACAGCTGTGCTGC---CAGCGCTTCGAGCGCCTCTCTGACTCCGCCAAACAAg agtgataacacttccatgacataattgcaattggttttcttctcctctagGATCTATTGTACCGCCGGCTCCGGGCACTAGCTGAGTATGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGCTCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAGC-GTTTGACTGCCTCTCTGACTCTGCCAAACAAggtgaggcctgaaggattgcaacaatcaatattgagccattttatcatgta Alignment from CESAR GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGG-CCAGCAGAGAGCCGCCAACAGCTGTGCTGCCAGCGC--TTCGAGCGCCTCTCTGACTCCGCCAAACAAg agtgataacacttccatgacataattgcaattggttttcttctcctctagGATCTATTGTACCGCCGGCTCCGGGCACTAGCTGAGTATGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGCTCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAGCGTTTGACTGCCTCTCTGACTCTGCCAAACAAggtgaggcctgaaggattgcaacaatcaattgtccatttctgtttgccata Alignment from Spaln_aa2Genome GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCA---GAGAGCCGCCAACAGCTGTGCTGCCAGCGCTTCGAGCGCCTCTCTGACTCCGCCAAACAAG agtgataacacttccatgacataattgcaattggttttcttctcctctagGATCTATTGTACCGCCGGCTCCGGGCACTAGCTGAGTATGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGCTCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAGCGTTTGACTGCCTCTCTGACTCTGCCAAACAAGgtgaggcctgaaggattgcaacaatcaatattgagccattttatcatgta Alignment from Spaln_nt2Genome GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGC-CAGCAGAGAGCCGCCAACAGCTGTGCTGCCAGC-GC-TTCGAGCGCCTCTCTGACTCCGCCAAACAAG agtgataacacttccatgacataattgcaattggttttcttctcctctagGATCTATTGTACCGCCGGCTCCGGGCACTAGCTGAGTATGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGCTCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAGCGTTTGACTGCCTCTCTGACTCTGCCAAACAAGgtgaggcctgaaggattgcaacaatcaatattgagccattttatcatgta Alignment from Pairagon GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGC-CAGCAGAGAGCCGCCAACAGCTGTGCTGCCAGCGCTTCGAGC--------GCCTCTCTGACTCCGCCAAACAAG agtgataacacttccatgacataattgcaattggttttcttctcctctagGATCTATTGTACCGCCGGCTCCGGGCACTAGCTGAGTATGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGCTCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGC------AGCGTTTGACTGCCTCTCTGACTCTGCCAAACAAGgtgaggcctgaaggattgcaacaatcaatattgagccattttatcatgta Alignment from Exonerate_protein2genome GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTA-CGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGCCAGCGC--TTCGAGCGCCTCTCTGACTCCGCCAAACAAG agtgataacacttccatgacataattgcaattggttttcttctcctctagGATCTATTGTACCGCCGGCTCCGGGCACTAGCTGAGTATGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGCTCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAGCGTTTGACTGCCTCTCTGACTCTGCCAAACAAGgtgaggcctgaaggattgcaacaatcaatattgagccattttatcatgta Alignment from Exonerate_coding2genome GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTA-CGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGCCAGCGC--TTCGAGCGCCTCTCTGACTCCGCCAAACAAG agtgataacacttccatgacataattgcaattggttttcttctcctctagGATCTATTGTACCGCCGGCTCCGGGCACTAGCTGAGTATGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGCTCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAGCGTTTGACTGCCTCTCTGACTCTGCCAAACAAGgtgaggcctgaaggattgcaacaatcaatattgagccattttatcatgta Alignment from GeneWise GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTA---CGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGCCAGCGCTTCGAGCGCCTCTCTGACTCCGCCAAACAAG agtgataacacttccatgacataattgcaattggttttcttctcctctagGATCTATTGTACCGCCGGCTCCGGGCACTAGCTGAGTATGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGCTCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAGCGTTTGACTGCCTCTCTGACTCTGCCAAACAAGgtgaggcctgaaggattgcaacaatcaatattgagccattttatcatgta #### Snx32_ID1070_8 --> 2 - 2 Original Alignment gcCTGGCAGACAACTATATCCCT-ATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGag gcgcacatacctccaattacaattgcccagagcagacacgcacctttcaggcCTGGCAGACAACTATATTCCCCATTTCAGCT---GTGAGCAGTCTTGGAACCCAGG-AGTGAACCAACTTAAAaggtaagggtcatgcgatgctgctttgctcacccatgtaccattactggggt Alignment from CESAR gcCTGGCAGACAACTATATCCCT-ATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGag gcgcacatacctccaattacaattgcccagagcagacacgcacctttcaggcCTGGCAGACAACTATATTCCCCATTTCAGCTGTG---AGCAGTCTTGGAACCCAGG-AGTGAACCAACTTAAAaggtaagggtcatgcgatgctgctttgctcacccatgtaccattactggggt Alignment from Spaln_aa2Genome GCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG gcgcacatacctccaattacaattgcccagagcagacacgcacctttcagGCCTGGCAGACAACTATATTCCCC--ATTTCAGCTGTGAGCAGTCTTGGAACCCAGGAGTG-AACCAACTTAAAAGgtaagggtcatgcgatgctgctttgctcacccatgtaccattactggggt Alignment from Spaln_nt2Genome GCCTGGCAGACAACTATAT-CCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG gcgcacatacctccaattacaattgcccagagcagacacgcacctttcagGCCTGGCAGACAACTATATTCCCCATTTCAGCTG---TGAGCAGTCTTGGAACCCAGG-AGTGAACCAACTTAAAAGgtaagggtcatgcgatgctgctttgctcacccatgtaccattactggggt Alignment from Pairagon GCCTGGCAGACAACTATA-TCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG gcgcacatacctccaattacaattgcccagagcagacacgcacctttcagGCCTGGCAGACAACTATATTCCCCATTTCAGCTG---TGAGCAGTCTTGGAACCCAGG-AGTGAACCAACTTAAAAGgtaagggtcatgcgatgctgctttgctcacccatgtaccattactggggt Alignment from Exonerate_protein2genome GCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG gcgcacatacctccaattacaattgcccagagcagacacgcacctttcagGCCTGGCAGACAACTATATTCCCCATTTCAGCTGTGAGCAGTCT---TGGAACCCAGGAGTGAACCAACTTAAAAGgtaagggtcatgcgatgctgctttgctcacccatgtaccattactggggt Alignment from Exonerate_coding2genome gcgcacatacctccaattacaattgcccagagcagacacgcacctttcaggcctggcagacaactatattccccatttcagctgtgagcagtcttggaacccaggagtgaaccaacttaaaaggtaagggtcatgcgatgctgctttgctcacccatgtaccattactggggt Alignment from GeneWise GCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG gcgcacatacctccaattacaattgcccagagcagacacgcacctttcagGCCTGGCAGACAACTATATTCCCCATTTCAGCTGTGAGCAGTCTTGG---AACCCAGGAGTGAACCAACTTAAAAGgtaagggtcatgcgatgctgctttgctcacccatgtaccattactggggt #### Sptbn2_ID611_6 --> 1 - 1 Original Alignment gCCAGACCTGTTGGATTTTGAGTCCCTGAAGAAGTGTAATGCA-CACTACAATCTGCAGAATGCTTTCAATCTGGCTGAAAAGGAACTTGGCCTGACGAAGCTCCTGGATCCTGAAg tcaaaatggcaatggcacaacaggacattaatctgtgatctttcttacaggCCAGATCTGTTGGATTTTGAGTCCCTGAAAAAGTGTAATGTCCCACTACAATTTGCAGAATGCTTTCAATCTTG-TGAAAAGGAACTTGGCCTTAGAAGAATCCTGGATTCTGAGggtaagatggattaataagccagttgataacaagacagagactactatcaa Alignment from CESAR gCCAGACCTGTTGGATTTTGAGTCCCTGAAGAAGTGTAAT-GCACACTACAATCTGCAGAATGCTTTCAATCTGGCTGAAAAGGAACTTGGCCTGACGAAGCTCCTGGATCCTGAAg tcaaaatggcaatggcacaacaggacattaatctgtgatctttcttacaggCCAGATCTGTTGGATTTTGAGTCCCTGAAAAAGTGTAATGTCCCACTACAATTTGCAGAATGCTTTCAATCTTG-TGAAAAGGAACTTGGCCTTAGAAGAATCCTGGATTCTGAGggtaagatggattaataagccagttgataacaagacagagactactatcaa Alignment from Spaln_aa2Genome GCCAGACCTGTTGGATTTTGAGTCCCTGAAGAAGTGTAATGCACACTACAATCTGCAGAATGCTTTCAATCTGGCTGAAAAGGAACTTGGCCTGACGAAGCTCCTGGATCCTGAAG tcaaaatggcaatggcacaacaggacattaatctgtgatctttcttacagGCCAGATCTGTTGGATTTTGAGTCCCTGAAAAAGTGTAATGTCCCACTACAATTTGCAGAATGCTTTCAATCTTGTGAAAAGGAACTTGGCCTTAGAAGAATCCTGGATTCTGAGGgtaagatggattaataagccagttgataacaagacagagactactatcaa Alignment from Spaln_nt2Genome GCCAGACCTGTTGGATTTTGAGTCCCTGAAGAAGTGTAATG-CACACTACAATCTGCAGAATGCTTTCAATCTGGCTGAAAAGGAACTTGGCCTGACGAAGCTCCTGGATCCTGAAG tcaaaatggcaatggcacaacaggacattaatctgtgatctttcttacagGCCAGATCTGTTGGATTTTGAGTCCCTGAAAAAGTGTAATGTCCCACTACAATTTGCAGAATGCTTTCAATCTTG-TGAAAAGGAACTTGGCCTTAGAAGAATCCTGGATTCTGAGGgtaagatggattaataagccagttgataacaagacagagactactatcaa Alignment from Pairagon GCCAGACCTGTTGGATTTTGAGTCCCTGAAGAAGTGTAATG-CACACTACAATCTGCAGAATGCTTTCAATCTGGCTGAAAAGGAACTTGGCCTGACGAAGCTCCTGGATCCTGAAG tcaaaatggcaatggcacaacaggacattaatctgtgatctttcttacagGCCAGATCTGTTGGATTTTGAGTCCCTGAAAAAGTGTAATGTCCCACTACAATTTGCAGAATGCTTTCAATCTTG-TGAAAAGGAACTTGGCCTTAGAAGAATCCTGGATTCTGAGGgtaagatggattaataagccagttgataacaagacagagactactatcaa Alignment from Exonerate_protein2genome tcaaaatggcaatggcacaacaggacattaatctgtgatctttcttacaggccagatctgttggattttgagtccctgaaaaagtgtaatgtcccactacaatttgcagaatgctttcaatcttgtgaaaaggaacttggccttagaagaatcctggattctgagggtaagatggattaataagccagttgataacaagacagagactactatcaa Alignment from Exonerate_coding2genome tcaaaatggcaatggcacaacaggacattaatctgtgatctttcttacaggccagatctgttggattttgagtccctgaaaaagtgtaatgtcccactacaatttgcagaatgctttcaatcttgtgaaaaggaacttggccttagaagaatcctggattctgagggtaagatggattaataagccagttgataacaagacagagactactatcaa Alignment from GeneWise GCCAGACCTGTTGGATTTTGAGTCCCTGAAGAAGTGTAATGCACACTACAATCTGCAGAATGCTTTCAATCTGGCTGAAAAGGAACTTGGCCTGACGAAGCTCCTGGATCCTGAAG tcaaaatggcaatggcacaacaggacattaatctgtgatctttcttacagGCCAGATCTGTTGGATTTTGAGTCCCTGAAAAAGTGTAATGTCCCACTACAATTTGCAGAATGCTTTCAATCTTGTGAAAAGGAACTTGGCCTTAGAAGAATCCTGGATTCTGAGGgtaagatggattaataagccagttgataacaagacagagactactatcaa #### Sptbn2_ID612_7 --> 2 - 0 Original Alignment atGTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTACGTGGCC-ACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaatttattgctaaaatgtgtttgctttctagatGTGAATGTAGATCAGCCAGATGAGCAGTCTGTCATTACCTATGTGTCCCACCTACTACCACTACTTCTCCAGGATGAAGGCTCTGTCAGTGG-AGGCAAAAGAACTGGGAAGgtagggtctccattagacaccatctgaaatttctagtaaagaccagataa Alignment from CESAR atGTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTACGTGGCC-ACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaatttattgctaaaatgtgtttgctttctagatGTGAATGTAGATCAGCCAGATGAGCAGTCTGTCATTACCTATGTGTCCCACCTACTACCACTACTTCTCCAGGATGAAGGCTCTGTCAGTGG-AGGCAAAAGAACTGGGAAGgtagggtctccattagacaccatctgaaatttctagtaaagaccagataa Alignment from Spaln_aa2Genome ATGTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTACGTGGCC-ACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaatttattgctaaaatgtgtttgctttctagATGTGAATGTAGATCAGCCAGATGAGCAGTCTGTCATTACCTATGTGTCCcACCTACTACCACTACTTCTCCAGGATGAAGGCTCTGTCAGTGGA-GGCAAAAGAACTGGGAAGgtagggtctccattagacaccatctgaaatttctagtaaagaccagataa Alignment from Spaln_nt2Genome ATGTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTACGTGG-CCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaatttattgctaaaatgtgtttgctttctagATGTGAATGTAGATCAGCCAGATGAGCAGTCTGTCATTACCTATGTGTCCCACCTACTACCACTACTTCTCCAGGATGAAGGCTCTGTCAGTGG-AGGCAAAAGAACTGGGAAGgtagggtctccattagacaccatctgaaatttctagtaaagaccagataa Alignment from Pairagon ATGTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTACGTG-GCCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaatttattgctaaaatgtgtttgctttctagATGTGAATGTAGATCAGCCAGATGAGCAGTCTGTCATTACCTATGTGTCCCACCTACTACCACTACTTCTCCAGGATGAAGGCTCTGTCAGTGG-AGGCAAAAGAACTGGGAAGgtagggtctccattagacaccatctgaaatttctagtaaagaccagataa Alignment from Exonerate_protein2genome agggacatggggggaacacaatttattgctaaaatgtgtttgctttctagatgtgaatgtagatcagccagatgagcagtctgtcattacctatgtgtcccacctactaccactacttctccaggatgaaggctctgtcagtggaggcaaaagaactgggaaggtagggtctccattagacaccatctgaaatttctagtaaagaccagataa Alignment from Exonerate_coding2genome agggacatggggggaacacaatttattgctaaaatgtgtttgctttctagatgtgaatgtagatcagccagatgagcagtctgtcattacctatgtgtcccacctactaccactacttctccaggatgaaggctctgtcagtggaggcaaaagaactgggaaggtagggtctccattagacaccatctgaaatttctagtaaagaccagataa Alignment from GeneWise ATGTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTACGTG-GCCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGC-- agggacatggggggaacacaatttattgctaaaatgtgtttgctttctagATGTGAATGTAGATCAGCCAGATGAGCAGTCTGTCATTACCTATGTGTCCCACCTACTACCACTACTTCTCCAGGATGAAGGCTCTGTCAGTGGAGGCAAAAGAACTGGGAAGgtagggtctccattagacaccatctgaaatttctagtaaagaccagataa #### Sptbn2_ID629_24 --> 1 - 0 Original Alignment g cACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAG-CTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT ggtgagcgcatatagttatctttagctggtgccgtttctgtcctctgcagcACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGTTGGCAGGAGAGCGGCATCAACGTCTGCAGGAGCACCTCCGGCCATGCCAACCTCCGAAGAGAGCTAGACGATCTAGAACAATGGATACAGGAGC-TGAGGTCGTTGCAGCCTCCCATGAGTTGGGCCAAGACTATGAACATGTGACTgtgatgctacagttttgcaaccaggaccaaaatatgtggggtaacaaagg Alignment from CESAR g cACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAG-CTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT ggtaagggcatatagttatctttagctggtgccgtttctgtcctctgcagcACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGTTGGCAGGAGAGCGGCATCAACGTCTGCAGGAGCACCTCCGGCCATGCCAACCTCCGAAGAGAGCTAGACGATCTAGAACAATGGATACAGGAG-CTGAGGTCGTTGCAGCCTCCCATGAGTTGGGCCAAGACTATGAACATGTGACTgtgatgctacagttttgcaaccaggaccaaaatatgtggggtaacaaagg Alignment from Spaln_aa2Genome G CACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAG-CTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT GgtgagcgcatatagttatctttagctggtgccgtttctgtcctctgcagCACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGTTGGCAGGAGAGCGGCATCAACGTCTGCAGGAGCACCTCCGGCCATGCCAAcCTCCGAAGAGAGCTAGACGATCTAGAACAATGGATACAGGAGCT-GAGGTCGTTGCAGCCTCCCATGAGTTGGGCCAAGACTATGAACATGTGACTgtgatgctacagttttgcaaccaggaccaaaatatgtggggtaacaaagg Alignment from Spaln_nt2Genome G CACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGC-TCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT GgtgagcgcatatagttatctttagctggtgccgtttctgtcctctgcagCACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGTTGGCAGGAGAGCGGCATCAACGTCTGCAGGAGCACCTCCGGCCATGCCAACCTCCGAAGAGAGCTAGACGATCTAGAACAATGGATACAGGAGC-TGAGGTCGTTGCAGCCTCCCATGAGTTGGGCCAAGACTATGAACATGTGACTgtgatgctacagttttgcaaccaggaccaaaatatgtggggtaacaaagg Alignment from Pairagon G CACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAG-CTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT GgtgagcgcatatagttatctttagctggtgccgtttctgtcctctgcagCACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGTTGGCAGGAGAGCGGCATCAACGTCTGCAGGAGCACCTCCGGCCATGCCAACCTCCGAAGAGAGCTAGACGATCTAGAACAATGGATACAGGAGC-TGAGGTCGTTGCAGCCTCCCATGAGTTGGGCCAAGACTATGAACATGTGACTgtgatgctacagttttgcaaccaggaccaaaatatgtggggtaacaaagg Alignment from Exonerate_protein2genome G CACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAG-CTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAG--CGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT GgtgagcgcatatagttatctttagctggtgccgtttctgtcctctgcagCACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGTTGGCAGGAGAGCGGCATCAACGTCTGCAGGAGCACCTCCGGCCATGCCAACCTCCGAAGAGAGCTAGACGATCTAGAACAATGGATACAGGAGCT---GAGGTCGTTGCAGCCTCCCATGAGTTGGGCCAAGACTATGAACATGTGACTgtgatgctacagttttgcaaccaggaccaaaatatgtggggtaacaaagg Alignment from Exonerate_coding2genome G CACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAG-CTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAG--CGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT GgtgagcgcatatagttatctttagctggtgccgtttctgtcctctgcagCACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGTTGGCAGGAGAGCGGCATCAACGTCTGCAGGAGCACCTCCGGCCATGCCAACCTCCGAAGAGAGCTAGACGATCTAGAACAATGGATACAGGAGCT---GAGGTCGTTGCAGCCTCCCATGAGTTGGGCCAAGACTATGAACATGTGACTgtgatgctacagttttgcaaccaggaccaaaatatgtggggtaacaaagg Alignment from GeneWise G CACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAG-CTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT GgtgagcgcatatagttatctttagctggtgccgtttctgtcctctgcagCACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGTTGGCAGGAGAGCGGCATCAACGTCTGCAGGAGCACCTCCGGCCATGCCAACCTCCGAAGAGAGCTAGACGATCTAGAACAATGGATACAGGAGCT-GAGGTCGTTGCAGCCTCCCATGAGTTGGGCCAAGACTATGAACATGTGACTgtgatgctacagttttgcaaccaggaccaaaatatgtggggtaacaaagg #### Sptbn2_ID631_26 --> 0 - 2 Original Alignment GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCT-GTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCcg tctgtgatctaccatctcttcctgtcctcgccttgctgcttgtcttatagGTCCAGCAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATTGGTCGTCATATGCAGGCAGTAGCTGAGGCCTGGGCCCAGCTCCAAGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTGATACAACGGATAAATTTCGATTCTTTAAGGCTCGTCCGAGAGTTAATGCTATGGATGGATGGGATTA-CCTGCAGATGGATGCTCAGGAGCAACCCcggtactactcatggtggctggttttctccaagtgctactaagttgggtggg Alignment from CESAR GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCT-GTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCcg tctgtgatctaccatctcttcctgtcctcgccttgctgcttgtcttatagGTCCAGCAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATTGGTCGTCATATGCAGGCAGTAGCTGAGGCCTGGGCCCAGCTCCAAGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTGATACAACGGATAAATTTCGATTCTTTAAGGCTCGTCCGAGAGTTAATGCTATGGATGGATGGGATT-ACCTGCAGATGGATGCTCAGGAGCAACCCcggtactactcatggtggctggttttctccaagtgctactaagttgggtggg Alignment from Spaln_aa2Genome GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCG tctgtgatctaccatctcttcctgtcctcgccttgctgcttgtcttatagGTCCAGCAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATTGGTCGTCATATGCAGGCAGTAGCTGAGGCCTGGGCCCAGCTCCAAGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTGATACAACGGATAAATTTCGATTCTTTAAGGCTCGTCCGAGAGTTAATGCTATGGATGGATGGGATTACCTGCAGATGGATGCTCAGGAGCAACCCCGgtactactcatggtggctggttttctccaagtgctactaagttgggtggg Alignment from Spaln_nt2Genome GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCT-GTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCG tctgtgatctaccatctcttcctgtcctcgccttgctgcttgtcttatagGTCCAGCAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATTGGTCGTCATATGCAGGCAGTAGCTGAGGCCTGGGCCCAGCTCCAAGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTGATACAACGGATAAATTTCGATTCTTTAAGGCTCGTCCGAGAGTTAATGCTATGGATGGATGGGATTAC-CTGCAGATGGATGCTCAGGAGCAACCCCGgtactactcatggtggctggttttctccaagtgctactaagttgggtggg Alignment from Pairagon GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCT-GTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCG tctgtgatctaccatctcttcctgtcctcgccttgctgcttgtcttatagGTCCAGCAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATTGGTCGTCATATGCAGGCAGTAGCTGAGGCCTGGGCCCAGCTCCAAGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTGATACAACGGATAAATTTCGATTCTTTAAGGCTCGTCCGAGAGTTAATGCTATGGATGGATGGGATT-ACCTGCAGATGGATGCTCAGGAGCAACCCCGgtactactcatggtggctggttttctccaagtgctactaagttgggtggg Alignment from Exonerate_protein2genome GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCT-GTCCGAGAGTTGATGCTGTGGATGGATGGGATT--AACCTGCAGATGGATGCCCAGGAGCGGCCCCG tctgtgatctaccatctcttcctgtcctcgccttgctgcttgtcttatagGTCCAGCAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATTGGTCGTCATATGCAGGCAGTAGCTGAGGCCTGGGCCCAGCTCCAAGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTGATACAACGGATAAATTTCGATTCTTTAAGGCTCGTCCGAGAGTTAATGCTATGGATGGATGGGATTAC---CTGCAGATGGATGCTCAGGAGCAACCCCGgtactactcatggtggctggttttctccaagtgctactaagttgggtggg Alignment from Exonerate_coding2genome GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCT-GTCCGAGAGTTGATGCTGTGGATGGATGGGATT--AACCTGCAGATGGATGCCCAGGAGCGGCCCCG tctgtgatctaccatctcttcctgtcctcgccttgctgcttgtcttatagGTCCAGCAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATTGGTCGTCATATGCAGGCAGTAGCTGAGGCCTGGGCCCAGCTCCAAGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTGATACAACGGATAAATTTCGATTCTTTAAGGCTCGTCCGAGAGTTAATGCTATGGATGGATGGGATTAC---CTGCAGATGGATGCTCAGGAGCAACCCCGgtactactcatggtggctggttttctccaagtgctactaagttgggtggg Alignment from GeneWise GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAAC---CTGCAGATGGATGCCCAGGAGCGGCCCCG tctgtgatctaccatctcttcctgtcctcgccttgctgcttgtcttatagGTCCAGCAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATTGGTCGTCATATGCAGGCAGTAGCTGAGGCCTGGGCCCAGCTCCAAGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTGATACAACGGATAAATTTCGATTCTTTAAGGCT---CGTCCGAGAGTTAATGCTATGGATGGATGGGATTACCTGCAGATGGATGCTCAGGAGCAACCCCGgtactactcatggtggctggttttctccaagtgctactaagttgggtggg #### Sptbn2_ID635_30 --> 0 - 2 Original Alignment CTGGAAGAGCGGGAAAATGAGCGG-AAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATgg atattctactctcattggttcccactcttgctcccactcactgtgtgcagCTGGAAGAGAGGGAAATTGAACGACAAAAGGAAGAGGGAGGGGGAGGAACAGAGGAAAC-ACCTTCCACTTCAGAGCCCATGGCTAGTCAGCTAGAAGGGAGTCTAGTGGATGGCCAAAGAGTTCTGGACACTGCTTGGGATgggtaagtattgatagtaaagcaaatgatgctaacactggtaaatgaccctc Alignment from CESAR CTGGAAGAGCGGGAAAATGAGCGG-AAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATgg atattctactctcattggttcccactcttgctcccactcactgtgtgcagCTGGAAGAGAGGGAAATTGAACGACAAAAGGAAGAGGGAGGGGGAGGAACAGAGGAAAC-ACCTTCCACTTCAGAGCCCATGGCTAGTCAGCTAGAAGGGAGTCTAGTGGATGGCCAAAGAGTTCTGGACACTGCTTGGGATgggtaagtattgatagtaaagcaaatgatgctaacactggtaaatgaccctg Alignment from Spaln_aa2Genome CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG atattctactctcattggttcccactcttgctcccactcactgtgtgcagCTGGAAGAGAGGGAAATTGAACGACAAAAGGAAGAGGGAGGGGGAGGAACAGAGGAAACACCTTCCACTTCAGAGCCCATGGCTAGTCAGCTAGAAGGGAGTCTAGTGGATGGCCAAAGAGTTCTGGACACTGCTTGGGATGGgtaagtattgatagtaaagcaaatgatgctaacactggtaaatgaccctc Alignment from Spaln_nt2Genome CTGGAAGAGCGGGAAAATGAGCGG-AAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG atattctactctcattggttcccactcttgctcccactcactgtgtgcagCTGGAAGAGAGGGAAATTGAACGACAAAAGGAAGAGGGAGGGGGAGGAACAGAGGAAACA-CCTTCCACTTCAGAGCCCATGGCTAGTCAGCTAGAAGGGAGTCTAGTGGATGGCCAAAGAGTTCTGGACACTGCTTGGGATGGgtaagtattgatagtaaagcaaatgatgctaacactggtaaatgaccctc Alignment from Pairagon CTGGAAGAGCGGGAAAATGAGCGG-AAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG atattctactctcattggttcccactcttgctcccactcactgtgtgcagCTGGAAGAGAGGGAAATTGAACGACAAAAGGAAGAGGGAGGGGGAGGAACAGAGGAAACA-CCTTCCACTTCAGAGCCCATGGCTAGTCAGCTAGAAGGGAGTCTAGTGGATGGCCAAAGAGTTCTGGACACTGCTTGGGATGGgtaagtattgatagtaaagcaaatgatgctaacactggtaaatgaccctc Alignment from Exonerate_protein2genome CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG atattctactctcattggttcccactcttgctcccactcactgtgtgcagCTGGAAGAGAGGGAAATTGAACGACAAAAGGAAGAGGGAGGGGGAGGAACAGAGGAAACACCTTCCACTTCAGAGCCCATGGCTAGTCAGCTAGAAGGGAGTCTAGTGGATGGCCAAAGAGTTCTGGACACTGCTTGGGATGGgtaagtattgatagtaaagcaaatgatgctaacactggtaaatgaccctc Alignment from Exonerate_coding2genome CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG atattctactctcattggttcccactcttgctcccactcactgtgtgcagCTGGAAGAGAGGGAAATTGAACGACAAAAGGAAGAGGGAGGGGGAGGAACAGAGGAAACACCTTCCACTTCAGAGCCCATGGCTAGTCAGCTAGAAGGGAGTCTAGTGGATGGCCAAAGAGTTCTGGACACTGCTTGGGATGGgtaagtattgatagtaaagcaaatgatgctaacactggtaaatgaccctc Alignment from GeneWise CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG atattctactctcattggttcccactcttgctcccactcactgtgtgcagCTGGAAGAGAGGGAAATTGAACGACAAAAGGAAGAGGGAGGGGGAGGAACAGAGGAAACACCTTCCACTTCAGAGCCCATGGCTAGTCAGCTAGAAGGGAGTCTAGTGGATGGCCAAAGAGTTCTGGACACTGCTTGGGATGGgtaagtattgatagtaaagcaaatgatgctaacactggtaaatgaccctc #### Sptbn2_ID638_33 --> 0 - 2 Original Alignment GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTG---CCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTG-CCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACag aaggagaatacaattagtagtactgtttgctgtgttttcctcccccacagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCCTACACGAGGTCCAGAGCTCTCTGCACAGGAAC-GATGGAAGGGATGCTGTGCCGCGAACAAGACATGGAAGCGTTGAACAAGAAAGCTGCAAATaggtatgcatcgtgcctactgatgcctttgcctcgctgcccctagcctctga Alignment from CESAR GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCC-ACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACag aaggagaatacaattagtagtactgtttgctgtgttttcctcccccacagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCCTACACGAGGTCCAGAGCTCTCTGCACAGGAA-CGATGGAAGGGATGCTGTGCCGCGAACAAGACATGGAAGCGTTGAACAAGAAAGCTGCAAATaggtatgcatcgtgcctactgatgcctttgcctcgctgcccctagcctctga Alignment from Spaln_aa2Genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG aaggagaatacaattagtagtactgtttgctgtgttttcctcccccacagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCCTACACGAGGTCCAGAGCTCTCTGCACAGGAACGATGGAAGGGATGCTGTGCCGCGAACAAGACATGGAAGCGTTGAACAAGAAAGCTGCAAATAGgtatgcatcgtgcctactgatgcctttgcctcgctgcccctagcctctga Alignment from Spaln_nt2Genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTGC---CCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCC-ACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG aaggagaatacaattagtagtactgtttgctgtgttttcctcccccacagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCCTACACGAGGTCCAGAGCTCTCTGCACAGGAAC-GATGGAAGGGATGCTGTGCCGCGAACAAGACATGGAAGCGTTGAACAAGAAAGCTGCAAATAGgtatgcatcgtgcctactgatgcctttgcctcgctgcccctagcctctga Alignment from Pairagon GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCC-ACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG aaggagaatacaattagtagtactgtttgctgtgttttcctcccccacagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCCTACACGAGGTCCAGAGCTCTCTGCACAGGAAC-GATGGAAGGGATGCTGTGCCGCGAACAAGACATGGAAGCGTTGAACAAGAAAGCTGCAAATAGgtatgcatcgtgcctactgatgcctttgcctcgctgcccctagcctctga Alignment from Exonerate_protein2genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG aaggagaatacaattagtagtactgtttgctgtgttttcctcccccacagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCCTACACGAGGTCCAGAGCTCTCTGCACAGGAACGATGGAAGGGATGCTGTGCCGCGAACAAGACATGGAAGCGTTGAACAAGAAAGCTGCAAATAGgtatgcatcgtgcctactgatgcctttgcctcgctgcccctagcctctga Alignment from Exonerate_coding2genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG aaggagaatacaattagtagtactgtttgctgtgttttcctcccccacagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCCTACACGAGGTCCAGAGCTCTCTGCACAGGAACGATGGAAGGGATGCTGTGCCGCGAACAAGACATGGAAGCGTTGAACAAGAAAGCTGCAAATAGgtatgcatcgtgcctactgatgcctttgcctcgctgcccctagcctctga Alignment from GeneWise GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTG---CCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG aaggagaatacaattagtagtactgtttgctgtgttttcctcccccacagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCCTACACGAGGTCCAGAGCTCTCTGCACAGGAACGATGGAAGGGATGCTGTGCCGCGAACAAGACATGGAAGCGTTGAACAAGAAAGCTGCAAATAGgtatgcatcgtgcctactgatgcctttgcctcgctgcccctagcctctga #### Ssh3_ID443_13 --> 1 - 0 Original Alignment cCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCA-GAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagtcaattgtcgtagcactaagggttatcctcccatgtctcctgtacagcCAACAGAGCCGTGTTTGGGAGCAAAAAGTAGGTGGTGTA---CCAGAGGAACCTCTAGCACCTGAAGTTTCCACACCGTTGCCACCTTTTCCACCTCGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGTC-GGAAGGAAGCCAAGAAATGCCAAAAGAAGATCTAGGACTGCAGCCCAGAATCAACCTTCGGGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGCAGAGAGTACCCCAGAGGCAGGGGGTCTGCCAGAGgtaggttcagaccggaggtgtctgtcaatccagtaaccaccttgtcaccc Alignment from CESAR cCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCA-GAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagtcaattgtcgtagcactaagggttatcctcccatgtctcctgtacagcCAACAGAGCCGTGTTTGGGAGCAAAAAGTAGGTGGTGTA---CCAGAGGAACCTCTAGCACCTGAAGTTTCCACACCGTTGCCACCTTTTCCACCTCGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGT-CGGAAGGAAGCCAAGAAATGCCAAAAGAAGATCTAGGACTGCAGCCCAGAATCAACCTTCGGGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGCAGAGAGTACCCCAGAGGCAGGGGGTCTGCCAGAGgtaggttcagaccggaggtgtctgtcaatccagtaaccaccttgtcaccc Alignment from Spaln_aa2Genome CCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagtcaattgtcgtagcactaagggttatcctcccatgtctcctgtacagCCAACAGAGCCGTGTTTGGGAGCAAAAAGTAGGTGGTGTA---CCAGAGGAACCTCTAGCACCTGAAGTTTCCACACCGTTGCCACCTTTTCCACCTCGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGTCGGAAGGAAGCCAAGAAATGCCAAAAGAAGATCTAGGACTGCAGCCCAGAATCAACCTTCGGGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGCAGAGAGTACCCCAGAGGCAGGGGGTCTGCCAGAGgtaggttcagaccggaggtgtctgtcaatccagtaaccaccttgtcaccc Alignment from Spaln_nt2Genome CCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCA-GAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagtcaattgtcgtagcactaagggttatcctcccatgtctcctgtacagCCAACAGAGCCGTGTTTGGGAGCAAAAAGTAGGTGGTGT---ACCAGAGGAACCTCTAGCACCTGAAGTTTCCACACCGTTGCCACCTTTTCCACCTCGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGTC-GGAAGGAAGCCAAGAAATGCCAAAAGAAGATCTAGGACTGCAGCCCAGAATCAACCTTCGGGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGCAGAGAGTACCCCAGAGGCAGGGGGTCTGCCAGAGgtaggttcagaccggaggtgtctgtcaatccagtaaccaccttgtcaccc Alignment from Pairagon CCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACC-AGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagtcaattgtcgtagcactaagggttatcctcccatgtctcctgtacagCCAACAGAGCCGTGTTTGGGAGCAAAAAGTAGGTGGTGT---ACCAGAGGAACCTCTAGCACCTGAAGTTTCCACACCGTTGCCACCTTTTCCACCTCGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGTC-GGAAGGAAGCCAAGAAATGCCAAAAGAAGATCTAGGACTGCAGCCCAGAATCAACCTTCGGGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGCAGAGAGTACCCCAGAGGCAGGGGGTCTGCCAGAGgtaggttcagaccggaggtgtctgtcaatccagtaaccaccttgtcaccc Alignment from Exonerate_protein2genome CCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagtcaattgtcgtagcactaagggttatcctcccatgtctcctgtacagCCAACAGAGCCGTGTTTGGGAGCAAAAAGTAGGTGGTGTA---CCAGAGGAACCTCTAGCACCTGAAGTTTCCACACCGTTGCCACCTTTTCCACCTCGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGTCGGAAGGAAGCCAAGAAATGCCAAAAGAAGATCTAGGACTGCAGCCCAGAATCAACCTTCGGGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGCAGAGAGTACCCCAGAGGCAGGGGGTCTGCCAGAGgtaggttcagaccggaggtgtctgtcaatccagtaaccaccttgtcaccc Alignment from Exonerate_coding2genome CCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagtcaattgtcgtagcactaagggttatcctcccatgtctcctgtacagCCAACAGAGCCGTGTTTGGGAGCAAAAAGTAGGTGGTGTA---CCAGAGGAACCTCTAGCACCTGAAGTTTCCACACCGTTGCCACCTTTTCCACCTCGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGTCGGAAGGAAGCCAAGAAATGCCAAAAGAAGATCTAGGACTGCAGCCCAGAATCAACCTTCGGGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGCAGAGAGTACCCCAGAGGCAGGGGGTCTGCCAGAGgtaggttcagaccggaggtgtctgtcaatccagtaaccaccttgtcaccc Alignment from GeneWise CCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagtcaattgtcgtagcactaagggttatcctcccatgtctcctgtacagCCAACAGAGCCGTGTTTGGGAGCAAAAAGTAGGTGGTGTA---CCAGAGGAACCTCTAGCACCTGAAGTTTCCACACCGTTGCCACCTTTTCCACCTCGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGTCGGAAGGAAGCCAAGAAATGCCAAAAGAAGATCTAGGACTGCAGCCCAGAATCAACCTTCGGGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGCAGAGAGTACCCCAGAGGCAGGGGGTCTGCCAGAGgtaggttcagaccggaggtgtctgtcaatccagtaaccaccttgtcaccc #### Ssh3_ID448_8 --> 1 - 0 Original Alignment gGCTTCAGAGCAGGAAAAGATG-GAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG catgtttgttgctactaactaacaggtaatatatatttgttctctttcaggGCCTCAGAGCAGGAGAAGACACGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGT-AGATACTAGTGATCTAGAGAGTGTTACTTCCAAAGAGgtagagaatcaagcaggctagctgccaattgttcctttctgactccccct Alignment from CESAR gGCTTCAGAGCAGGAAAAGATG-GAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG catgtttgttgctactaactaacaggtaatatatatttgttctctttcaggGCCTCAGAGCAGGAGAAGACACGAGCAGGCAATTCTGATAGAATTGTGGCAAGTG-TAGATACTAGTGATCTAGAGAGTGTTACTTCCAAAGAGgtagagaatcaagcaggctagctgccaattgttcctttctgactccccct Alignment from Spaln_aa2Genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG catgtttgttgctactaactaacaggtaatatatatttgttctctttcagGGCCTCAGAGCAGGAGAAGACACGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTAGATACTAGTGATCTAGAGAGTGTTACTTCCAAAGAGgtagagaatcaagcaggctagctgccaattgttcctttctgactccccct Alignment from Spaln_nt2Genome GGCTTCAGAGCAGGAAAAGATG-GAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG catgtttgttgctactaactaacaggtaatatatatttgttctctttcagGGCCTCAGAGCAGGAGAAGACACGAGCAGGCAATTCTGATAGAATTGTGGCAAGTG-TAGATACTAGTGATCTAGAGAGTGTTACTTCCAAAGAGgtagagaatcaagcaggctagctgccaattgttcctttctgactccccct Alignment from Pairagon GGCTTCAGAGCAGGAAAAGATG-GAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG catgtttgttgctactaactaacaggtaatatatatttgttctctttcagGGCCTCAGAGCAGGAGAAGACACGAGCAGGCAATTCTGATAGAATTGTGGCAAGTG-TAGATACTAGTGATCTAGAGAGTGTTACTTCCAAAGAGgtagagaatcaagcaggctagctgccaattgttcctttctgactccccct Alignment from Exonerate_protein2genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG catgtttgttgctactaactaacaggtaatatatatttgttctctttcagGGCCTCAGAGCAGGAGAAGACACGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTAGATACTAGTGATCTAGAGAGTGTTACTTCCAAAGAGgtagagaatcaagcaggctagctgccaattgttcctttctgactccccct Alignment from Exonerate_coding2genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG catgtttgttgctactaactaacaggtaatatatatttgttctctttcagGGCCTCAGAGCAGGAGAAGACACGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTAGATACTAGTGATCTAGAGAGTGTTACTTCCAAAGAGgtagagaatcaagcaggctagctgccaattgttcctttctgactccccct Alignment from GeneWise GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG catgtttgttgctactaactaacaggtaatatatatttgttctctttcagGGCCTCAGAGCAGGAGAAGACACGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTAGATACTAGTGATCTAGAGAGTGTTACTTCCAAAGAGgtagagaatcaagcaggctagctgccaattgttcctttctgactccccct #### Ssh3_ID449_7 --> 1 - 2 Original Alignment gGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCC-TGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGAca tacctggttgaccatctaggcccaaggcctctgactcttcttcctttcaggGCCACATTGCAAGTATTGCACCAGGCCTGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGAAGTGCTCTAGCACTGGGCTACTTACTACCAGGTGAAGCTTA-CTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCCGACCTGGAGTCATTTCGACCACCCAATGCAGAGCCCACAcagtaagtggcgggacaggatgaagcagaaaaattatgtggaacatgtttgt Alignment from CESAR gGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCC-TGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGAca tacctggttgaccatctaggcccaaggcctctgactcttcttcctttcaggGCCACATTGCAAGTATTGCACCAGGCCTGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGAAGTGCTCTAGCACTGGGCTACTTACTACCAGGTGAAGCTT-ACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCCGACCTGGAGTCATTTCGACCACCCAATGCAGAGCCCACAcagtaagtggcgggacaggatgaagcagaaaaattatgtggaacatgtttgt Alignment from Spaln_aa2Genome GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA tacctggttgaccatctaggcccaaggcctctgactcttcttcctttcagGGCCACATTGCAAGTATTGCACCAGGCCTGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGAAGTGCTCTAGCACTGGGCTACTTACTACCAGGTGAAGCTTACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCCGACCTGGAGTCATTTCGACCACCCAATGCAGAGCCCACACAgtaagtggcgggacaggatgaagcagaaaaattatgtggaacatgtttgt Alignment from Spaln_nt2Genome GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGC-CTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA tacctggttgaccatctaggcccaaggcctctgactcttcttcctttcagGGCCACATTGCAAGTATTGCACCAGGCCTGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGAAGTGCTCTAGCACTGGGCTACTTACTACCAGGTGAAGCT-TACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCCGACCTGGAGTCATTTCGACCACCCAATGCAGAGCCCACACAgtaagtggcgggacaggatgaagcagaaaaattatgtggaacatgtttgt Alignment from Pairagon GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGC-CTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA tacctggttgaccatctaggcccaaggcctctgactcttcttcctttcagGGCCACATTGCAAGTATTGCACCAGGCCTGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGAAGTGCTCTAGCACTGGGCTACTTACTACCAGGTGAAGCTT-ACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCCGACCTGGAGTCATTTCGACCACCCAATGCAGAGCCCACACAgtaagtggcgggacaggatgaagcagaaaaattatgtggaacatgtttgt Alignment from Exonerate_protein2genome GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA tacctggttgaccatctaggcccaaggcctctgactcttcttcctttcagGGCCACATTGCAAGTATTGCACCAGGCCTGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGAAGTGCTCTAGCACTGGGCTACTTACTACCAGGTGAAGCTTACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCCGACCTGGAGTCATTTCGACCACCCAATGCAGAGCCCACACAgtaagtggcgggacaggatgaagcagaaaaattatgtggaacatgtttgt Alignment from Exonerate_coding2genome GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA tacctggttgaccatctaggcccaaggcctctgactcttcttcctttcagGGCCACATTGCAAGTATTGCACCAGGCCTGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGAAGTGCTCTAGCACTGGGCTACTTACTACCAGGTGAAGCTTACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCCGACCTGGAGTCATTTCGACCACCCAATGCAGAGCCCACACAgtaagtggcgggacaggatgaagcagaaaaattatgtggaacatgtttgt Alignment from GeneWise GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA tacctggttgaccatctaggcccaaggcctctgactcttcttcctttcagGGCCACATTGCAAGTATTGCACCAGGCCTGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGAAGTGCTCTAGCACTGGGCTACTTACTACCAGGTGAAGCTTACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCCGACCTGGAGTCATTTCGACCACCCAATGCAGAGCCCACACAgtaagtggcgggacaggatgaagcagaaaaattatgtggaacatgtttgt #### Ssh3_ID450_6 --> 1 - 2 Original Alignment gGGCTTCAGTGTG-ACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGtg ccccactgatcacctgctctcaaagtctaccagtacccatccttttgcagcAGCTTAAGTGTGCACGTCTGGTGGCGAAAGCCGAATCTTCA-GCCTCTCTCTATCCAGACTATGtggtgagtggtgcaagcaataaggttcccgagcatacttggttgaccatcca Alignment from CESAR gGGCTTCAGTGTG-ACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGtg ccccactgatcacctgctctcaaagtctaccagtacccatccttttgcagcAGCTTAAGTGTGCACGTCTGGTGGCGAAAGCCGAATCT-TCAGCCTCTCTCTATCCAGACTATGtggtgagtggtgcaagcaataaggttcccgagcatacttggttgaccatcca Alignment from Spaln_aa2Genome GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGTG ccccactgatcacctgctctcaaagtctaccagtacccatccttttgcagCAGCTTAAGTGTGCACGTCTGGTGGCGAAAGCCGAATCTTCAGCCTCTCTCTATCCAGACTATGTGgtgagtggtgcaagcaataaggttcccgagcatacttggttgaccatcca Alignment from Spaln_nt2Genome GGGCTTCAGTGTG-ACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGTG ccccactgatcacctgctctcaaagtctaccagtacccatccttttgcagCAGCTTAAGTGTGCACGTCTGGTGGCGAAAGCCGAATCTTC-AGCCTCTCTCTATCCAGACTATGTGgtgagtggtgcaagcaataaggttcccgagcatacttggttgaccatcca Alignment from Pairagon GGGCTTCAGTGTG-ACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGTG ccccactgatcacctgctctcaaagtctaccagtacccatccttttgcagCAGCTTAAGTGTGCACGTCTGGTGGCGAAAGCCGAATCTTC-AGCCTCTCTCTATCCAGACTATGTGgtgagtggtgcaagcaataaggttcccgagcatacttggttgaccatcca Alignment from Exonerate_protein2genome GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGTG ccccactgatcacctgctctcaaagtctaccagtacccatccttttgcagCAGCTTAAGTGTGCACGTCTGGTGGCGAAAGCCGAATCTTCAGCCTCTCTCTATCCAGACTATGTGgtgagtggtgcaagcaataaggttcccgagcatacttggttgaccatcca Alignment from Exonerate_coding2genome GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGTG ccccactgatcacctgctctcaaagtctaccagtacccatccttttgcagCAGCTTAAGTGTGCACGTCTGGTGGCGAAAGCCGAATCTTCAGCCTCTCTCTATCCAGACTATGTGgtgagtggtgcaagcaataaggttcccgagcatacttggttgaccatcca Alignment from GeneWise ccccactgatcacctgctctcaaagtctaccagtacccatccttttgcagcagcttaagtgtgcacgtctggtggcgaaagccgaatcttcagcctctctctatccagactatgtggtgagtggtgcaagcaataaggttcccgagcatacttggttgaccatcca #### Stip1_ID1988_13 --> 0 - 2 Original Alignment GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCT------------GAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCA-GCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCga aaacacatatatagtattgatgtgctccgcgccttctctcaacgccacagCAAGCAGCAGATGGATACCAACGGTGCATGATGGCACAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAAGTGACA------------------CCTGAGGTTCAGCAAATAATGAGTGACCCACGCCATGAGACTCATACTGGAGCAAATGCAAAAAG-CCCCCAGGCTTTGAGTgagtatgttacacagagatggaagaatgggagagaaatttttatttgcatgc Alignment from CESAR GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGC------------CCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCA-GCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCga aaacacatatatagtattgatgtgctccgcgccttctctcaacgccacagCAAGCAGCAGATGGATACCAACGGTGCATGATGGCACAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAAGTGACA------------------CCTGAGGTTCAGCAAATAATGAGTGACCCACGCCATGAGACTCATACTGGAGCAAATGCAAAAA-GCCCCCAGGCTTTGAGTgagtatgttacacagagatggaagaatgggagagaaatttttatttgcatgc Alignment from Spaln_aa2Genome GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCA-GCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGA aaacacatatatagtattgatgtgctccgcgccttctctcaacgccacagCAAGCAGCAGATGGATACCAACGGTGCATGATGGCACAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAAGTGACA------CCTGAGGTTCAGCAAATAATGAGTGACCCAcGCCATGAGACTCATACTGGAGCAAATGCAAAAAGC-CCCCAGGCTTTGAGTGAgtatgttacacagagatggaagaatgggagagaaatttttatttgcatgc Alignment from Spaln_nt2Genome GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGAC-CCTGAGGTGCAGCAGATAATGAGTGACCCA-GCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGA aaacacatatatagtattgatgtgctccgcgccttctctcaacgccacagCAAGCAGCAGATGGATACCAACGGTGCATGATGGCACAGTACAACAGACATGACAGCCCACATGA----CAGCCCTGAGGAA---GTGACACCTGAGGTTCAGCAAATAATGAGTGACCCACGCCATGAGACTCATACTGGAGCAAATGCAAAAAG-CCCCCAGGCTTTGAGTGAgtatgttacacagagatggaagaatgggagagaaatttttatttgcatgc Alignment from Pairagon GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAG------------ACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCA-GCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGA aaacacatatatagtattgatgtgctccgcgccttctctcaacgccacagCAAGCAGCAGATGGATACCAACGGTGCATGATGGCACAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAAGTGACA------------------CCTGAGGTTCAGCAAATAATGAGTGACCCACGCCATGAGACTCATACTGGAGCAAATGCAAAAAG-CCCCCAGGCTTTGAGTGAgtatgttacacagagatggaagaatgggagagaaatttttatttgcatgc Alignment from Exonerate_protein2genome GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGA aaacacatatatagtattgatgtgctccgcgccttctctcaacgccacagCAAGCAGCAGATGGATACCAACGGTGCATGATGGCACAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAA------GTGACACCTGAGGTTCAGCAAATAATGAGTGACCCACGCCATGAGACTCATACTGGAGCAAATGCAAAAAGCCCCCAGGCTTTGAGTGAgtatgttacacagagatggaagaatgggagagaaatttttatttgcatgc Alignment from Exonerate_coding2genome GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGA aaacacatatatagtattgatgtgctccgcgccttctctcaacgccacagCAAGCAGCAGATGGATACCAACGGTGCATGATGGCACAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAA------GTGACACCTGAGGTTCAGCAAATAATGAGTGACCCACGCCATGAGACTCATACTGGAGCAAATGCAAAAAGCCCCCAGGCTTTGAGTGAgtatgttacacagagatggaagaatgggagagaaatttttatttgcatgc Alignment from GeneWise GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGA aaacacatatatagtattgatgtgctccgcgccttctctcaacgccacagCAAGCAGCAGATGGATACCAACGGTGCATGATGGCACAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAAGTGACA------CCTGAGGTTCAGCAAATAATGAGTGACCCACGCCATGAGACTCATACTGGAGCAAATGCAAAAAGCCCCCAGGCTTTGAGTGAgtatgttacacagagatggaagaatgggagagaaatttttatttgcatgc #### Stip1_ID1989_12 --> 2 - 0 Original Alignment tcAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGAC-TATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG atagagtgagagaagtgtagtggaaacaaaccacttctgctccactctagacAAAGGTTATACCCGACAAGCAGCTGCTTTAGAAGCCATGAAGGATCTATACAAAAGCGATGCAT------CAAAAGGCAT-AGACCTGGACTCCTGTTGCAAGgtaagttactgctagcttgtatacagatgcgtgtttatgtgacctagggt Alignment from CESAR tcAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGAC-TATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG atagagtgagagaagtgtagtggaaacaaaccacttctgctccactctagacAAAGGTTATACCCGACAAGCAGCTGCTTTAGAAGCCATGAAGGATCTATACAAAAGCGATG------CATCAAAAGG-CATAGACCTGGACTCCTGTTGCAAGgtaagttactgctagcttgtatacagatgcgtgtttatgtgacctagggt Alignment from Spaln_aa2Genome TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG atagagtgagagaagtgtagtggaaacaaaccacttctgctccactctagACAAAGGTTATACCCGACAAGCAGCTGCTTTAGAAGCCATGAAGGATCTATACAAAAGC---GATGCA---TCAAAAGGCATAGACCTGGACTCCTGTTGCAAGgtaagttactgctagcttgtatacagatgcgtgtttatgtgacctagggt Alignment from Spaln_nt2Genome TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGA-CTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG atagagtgagagaagtgtagtggaaacaaaccacttctgctccactctagACAAAGGTTATACCCGACAAGCAGCTGCTTTAGAAGCCATGAAGGATCTATACAAAAGCGATGCAT------CAAAAGGC-ATAGACCTGGACTCCTGTTGCAAGgtaagttactgctagcttgtatacagatgcgtgtttatgtgacctagggt Alignment from Pairagon TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGA-CTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG atagagtgagagaagtgtagtggaaacaaaccacttctgctccactctagACAAAGGTTATACCCGACAAGCAGCTGCTTTAGAAGCCATGAAGGATCTATACAAAAGCGATGCAT-------CAAAAGGCATAGACCTGGACTCCTGTTGCAAGgtaagttactgctagcttgtatacagatgcgtgtttatgtgacctagggt Alignment from Exonerate_protein2genome TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG atagagtgagagaagtgtagtggaaacaaaccacttctgctccactctagACAAAGGTTATACCCGACAAGCAGCTGCTTTAGAAGCCATGAAGGATCTATACAAAAGC---GATGCA---TCAAAAGGCATAGACCTGGACTCCTGTTGCAAGgtaagttactgctagcttgtatacagatgcgtgtttatgtgacctagggt Alignment from Exonerate_coding2genome TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG atagagtgagagaagtgtagtggaaacaaaccacttctgctccactctagACAAAGGTTATACCCGACAAGCAGCTGCTTTAGAAGCCATGAAGGATCTATACAAAAGC---GATGCA---TCAAAAGGCATAGACCTGGACTCCTGTTGCAAGgtaagttactgctagcttgtatacagatgcgtgtttatgtgacctagggt Alignment from GeneWise TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG atagagtgagagaagtgtagtggaaacaaaccacttctgctccactctagACAAAGGTTATACCCGACAAGCAGCTGCTTTAGAAGCCATGAAGGATCTATACAAAAGC---GATGCA---TCAAAAGGCATAGACCTGGACTCCTGTTGCAAGgtaagttactgctagcttgtatacagatgcgtgtttatgtgacctagggt #### Stip1_ID1994_7 --> 2 - 2 Original Alignment ctGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAG-AAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCaa gttgatttgtctggcttttttatctaactgctccttgacagtgtgcgcagctGTGCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAACAAGGCTATAGAGGTTGGAAGAGAGAACC-AGAGGACTACCGGCAAATTGCTaagtttgccatcaaattcagaggcttaggcaaggcacctttcttgctgccta Alignment from CESAR ctGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAG-AAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCaa gttgatttgtctggcttttttatctaactgctccttgacagtgtgcgcagctGTGCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAACAAGGCTATAGAGGTTGGAAGAGAGAACC-AGAGGACTACCGGCAAATTGCTaagtttgccatcaaattcagaggcttaggcaaggcacctttcttgctgccta Alignment from Spaln_aa2Genome CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCAA gttgatttgtctggcttttttatctaactgctccttgacagtgtgcgcagCTGTGCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAACAAGGCTATAGAGGTTGGAAGAGAGAACCAGAGGACTACCGGCAAATTGCTAAgtttgccatcaaattcagaggcttaggcaaggcacctttcttgctgccta Alignment from Spaln_nt2Genome CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAG-AAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCAA gttgatttgtctggcttttttatctaactgctccttgacagtgtgcgcagCTGTGCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAACAAGGCTATAGAGGTTGGAAGAGAGAACC-AGAGGACTACCGGCAAATTGCTAAgtttgccatcaaattcagaggcttaggcaaggcacctttcttgctgccta Alignment from Pairagon CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAG-AAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCAA gttgatttgtctggcttttttatctaactgctccttgacagtgtgcgcagCTGTGCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAACAAGGCTATAGAGGTTGGAAGAGAGAACC-AGAGGACTACCGGCAAATTGCTAAgtttgccatcaaattcagaggcttaggcaaggcacctttcttgctgccta Alignment from Exonerate_protein2genome CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCAA gttgatttgtctggcttttttatctaactgctccttgacagtgtgcgcagCTGTGCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAACAAGGCTATAGAGGTTGGAAGAGAGAACCAGAGGACTACCGGCAAATTGCTAAgtttgccatcaaattcagaggcttaggcaaggcacctttcttgctgccta Alignment from Exonerate_coding2genome CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCAA gttgatttgtctggcttttttatctaactgctccttgacagtgtgcgcagCTGTGCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAACAAGGCTATAGAGGTTGGAAGAGAGAACCAGAGGACTACCGGCAAATTGCTAAgtttgccatcaaattcagaggcttaggcaaggcacctttcttgctgccta Alignment from GeneWise ----------------------------------------------GCAGCTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCAA GTTGATTTGTCTGGCTTTTTTATCTAACTGCTCCTTGACAGTGTGCGCAGCTGTGCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAACAAGGCTATAGAGGTTGGAAGAGAGAACCAGAGGACTACCGGCAAATTGCTAAgtttgccatcaaattcagaggcttaggcaaggcacctttcttgctgccta #### Stx5a_ID2330_2 --> 0 - 2 Original Alignment AATGGAATCCAAACAAGC-AAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCag gggggctcaaaggtgactgactatatcatgacgtcttcgttcctccttagAATGGAATCCAAACAACCCAAACCAGCTCTTCATGCAGCCCGTCAGT-CAGTGAACTTACCCTTATGGCTaggtgagttgtaggggtcttggtgggtggaatgctttttgaaatttgtagag Alignment from CESAR AATGGAATCCAAACAAGC-AAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCag gggggctcaaaggtgactgactatatcatgacgtcttcgttcctccttagAATGGAATCCAAACAACCCAAACCAGCTCTTCATGCAGCCCGTCAG-TCAGTGAACTTACCCTTATGGCTaggtgagttgtaggggtcttggtgggtggaatgctttttgaaatttgtagag Alignment from Spaln_aa2Genome AATGGAATCCAAACA-AGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCAG gggggctcaaaggtgactgactatatcatgacgtcttcgttcctccttagAATGGAATCCAAACAaCCCAAACCAGCTCTTCATGCAGCCCGTCAGTC-AGTGAACTTACCCTTATGGCTAGgtgagttgtaggggtcttggtgggtggaatgctttttgaaatttgtagag Alignment from Spaln_nt2Genome AATGGAATCCAAACAAGC-AAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCAG gggggctcaaaggtgactgactatatcatgacgtcttcgttcctccttagAATGGAATCCAAACAACCCAAACCAGCTCTTCATGCAGCCCGTCAGT-CAGTGAACTTACCCTTATGGCTAGgtgagttgtaggggtcttggtgggtggaatgctttttgaaatttgtagag Alignment from Pairagon AATGGAATCCAAACAA-GCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCAG gggggctcaaaggtgactgactatatcatgacgtcttcgttcctccttagAATGGAATCCAAACAACCCAAACCAGCTCTTCATGCAGCCCGTCAGT-CAGTGAACTTACCCTTATGGCTAGgtgagttgtaggggtcttggtgggtggaatgctttttgaaatttgtagag Alignment from Exonerate_protein2genome AATGGAATCCAAACAAGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCAG gggggctcaaaggtgactgactatatcatgacgtcttcgttcctccttagAATGGAATCCAAACAACCCAAACCAGCTCTTCATGCAGCCCGTCAGTCAGTGAACTTACCCTTATGGCTAGgtgagttgtaggggtcttggtgggtggaatgctttttgaaatttgtagag Alignment from Exonerate_coding2genome AATGGAATCCAAACAAGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCAG gggggctcaaaggtgactgactatatcatgacgtcttcgttcctccttagAATGGAATCCAAACAACCCAAACCAGCTCTTCATGCAGCCCGTCAGTCAGTGAACTTACCCTTATGGCTAGgtgagttgtaggggtcttggtgggtggaatgctttttgaaatttgtagag Alignment from GeneWise AATGGAATCCAAACAAGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCAG gggggctcaaaggtgactgactatatcatgacgtcttcgttcctccttagAATGGAATCCAAACAACCCAAACCAGCTCTTCATGCAGCCCGTCAGTCAGTGAACTTACCCTTATGGCTAGgtgagttgtaggggtcttggtgggtggaatgctttttgaaatttgtagag #### Stx5a_ID2335_7 --> 0 - 1 Original Alignment AATCTGAAACAGCAGAGGAACCGTCGGGAA-CAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTg ccacgcacgaatgttcccagggccttgggcattccctgtctgtcctttagAATTTGAAACAGCAGAGGAATCGA---GCCCCAGCTATCCAGGGCCCCAGTGTCTGCCTTTCCATTAG-ACCCAACAACCTTggtatccttgccttatctttgtataggggatgtgatctgacctgctttcaa Alignment from CESAR AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTg ccacgcacgaatgttcccagggccttgggcattccctgtctgtcctttagAATTTGAAACAGCAGAGGAATCGAGCC--CCAGCTATCCAGGGCCCCAGTGTCTGCCTTTCCATTA-GACCCAACAACCTTggtatccttgccttatctttgtataggggatgtgatctgacctgctttcaa Alignment from Spaln_aa2Genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTG ccacgcacgaatgttcccagggccttgggcattccctgtctgtcctttagAATTTGAAACAGCAGAGGAATCGAGCCC--CAGCTATCCAGGGCCCCAGTGTCTGCCTTTCCATTAGA-CCCAACAACCTTGgtatccttgccttatctttgtataggggatgtgatctgacctgctttcaa Alignment from Spaln_nt2Genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTG ccacgcacgaatgttcccagggccttgggcattccctgtctgtcctttagAATTTGAAACAGCAGAGGAATCG--AGCCCCAGCTATCCAGGGCCCCAGTGTCTGCCTTTCC-ATTAGACCCAACAACCTTGgtatccttgccttatctttgtataggggatgtgatctgacctgctttcaa Alignment from Pairagon AATCTGAAACAGCAGAGGAA------CCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCC-----------CCCAACAACCTTG ccacgcacgaatgttcccagggccttgggcattccctgtctgtcctttagAATTTGAAACAGCAGAGGAATCGAGCCC--------CAGCTATCCAGGGCCCCAGTGTC------------TGCCTTTCCATTAGACCCAACAACCTTGgtatccttgccttatctttgtataggggatgtgatctgacctgctttcaa Alignment from Exonerate_protein2genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTG ccacgcacgaatgttcccagggccttgggcattccctgtctgtcctttagAATTTGAAACAGCAGAGGAATCGAGCCCCAGCTATC---CAGGGCCCCAGTGTCTGCCTTTCCATTAGACCCAACAACCTTGgtatccttgccttatctttgtataggggatgtgatctgacctgctttcaa Alignment from Exonerate_coding2genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTG ccacgcacgaatgttcccagggccttgggcattccctgtctgtcctttagAATTTGAAACAGCAGAGGAATCGAGCCCCAGCTATC---CAGGGCCCCAGTGTCTGCCTTTCCATTAGACCCAACAACCTTGgtatccttgccttatctttgtataggggatgtgatctgacctgctttcaa Alignment from GeneWise AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTT- ccacgcacgaatgttcccagggccttgggcattccctgtctgtcctttagAATTTGAAACAGCAGAGGAATCGAGCCCCAGCTATC---CAGGGCCCCAGTGTCTGCCTTTCCATTAGACCCAACAACCTTGgtatccttgccttatctttgtataggggatgtgatctgacctgctttcaa #### Stx5a_ID2336_8 --> 2 - 0 Original Alignment gaGGTGGTCCCATAATTTTGGGA-GCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGACATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aacgttgaacttccaccaagcacctgaatttctttctctctccattgcaggaGGGGGTACCATAATCTTGGGACGCAGAATCACAAGCTTCCAGAGATGTAGCAA-TGACATGATGGACCCTAGAACAAGCCAACAGCTGCAGGTCATTGATGAACAGgtgagctataccacattgtgtgaagctgacctttaaaaaccagggttccc Alignment from CESAR gaGGTGGTCCCATAATTTTGGGA-GCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGACATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aacgttgaacttccaccaagcacctgaatttctttctctctccattgcaggaGGGGGTACCATAATCTTGGGACGCAGAATCACAAGCTTCCAGAGATGTAGCAA-TGACATGATGGACCCTAGAACAAGCCAACAGCTGCAGGTCATTGATGAACAGgtgagctataccacattgtgtgaagctgacctttaaaaaccagggttccc Alignment from Spaln_aa2Genome GAGGTGGTCCCATAATTTTGGGAGCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGACATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aacgttgaacttccaccaagcacctgaatttctttctctctccattgcagGAGGGGGTACCATAATCTTGGGACGCAGAATCACAAGCTTCCAGAGATGTAGCAATGACATGATGGACCCTAGAACAAGCCAACAGCTGCAGGTCATTGATGAACAGgtgagctataccacattgtgtgaagctgacctttaaaaaccagggttccc Alignment from Spaln_nt2Genome GAGGTGGTCCCATAATTTTGGGA-GCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGACATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aacgttgaacttccaccaagcacctgaatttctttctctctccattgcagGAGGGGGTACCATAATCTTGGGACGCAGAATCACAAGCTTCCAGAGATGTAGC-AATGACATGATGGACCCTAGAACAAGCCAACAGCTGCAGGTCATTGATGAACAGgtgagctataccacattgtgtgaagctgacctttaaaaaccagggttccc Alignment from Pairagon GAGGTGGTCCCATAATTTTGGGA-GCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGACATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aacgttgaacttccaccaagcacctgaatttctttctctctccattgcagGAGGGGGTACCATAATCTTGGGACGCAGAATCACAAGCTTCCAGAGATGTAGC-AATGACATGATGGACCCTAGAACAAGCCAACAGCTGCAGGTCATTGATGAACAGgtgagctataccacattgtgtgaagctgacctttaaaaaccagggttccc Alignment from Exonerate_protein2genome GAGGTGGTCCCATAATTTTGGGAGCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGACATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aacgttgaacttccaccaagcacctgaatttctttctctctccattgcagGAGGGGGTACCATAATCTTGGGACGCAGAATCACAAGCTTCCAGAGATGTAGCAATGACATGATGGACCCTAGAACAAGCCAACAGCTGCAGGTCATTGATGAACAGgtgagctataccacattgtgtgaagctgacctttaaaaaccagggttccc Alignment from Exonerate_coding2genome GAGGTGGTCCCATAATTTTGGGAGCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGACATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aacgttgaacttccaccaagcacctgaatttctttctctctccattgcagGAGGGGGTACCATAATCTTGGGACGCAGAATCACAAGCTTCCAGAGATGTAGCAATGACATGATGGACCCTAGAACAAGCCAACAGCTGCAGGTCATTGATGAACAGgtgagctataccacattgtgtgaagctgacctttaaaaaccagggttccc Alignment from GeneWise GAGGTGGTCCCATAATTTTGGGAGCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGACATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aacgttgaacttccaccaagcacctgaatttctttctctctccattgcagGAGGGGGTACCATAATCTTGGGACGCAGAATCACAAGCTTCCAGAGATGTAGCAATGACATGATGGACCCTAGAACAAGCCAACAGCTGCAGGTCATTGATGAACAGgtgagctataccacattgtgtgaagctgacctttaaaaaccagggttccc #### Suv420h1_ID146_8 --> 0 - 2 Original Alignment TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGT-TACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAag tatttggcttgcttaatgtcaggtgttaggactttgttttttggttttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTCTATTATGGAGATGGGTTTTTTGGAGAAA-TAATGAGTTCTGTGAGTGTTATACTTGTGAAaggtatttacccaagccctctacctatcttccatggaggagtattgttgtga Alignment from CESAR TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGT-TACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAag tatttggcttgcttaatgtcaggtgttaggactttgttttttggttttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTCTATTATGGAGATGGGTTTTTTGGAG-AAATAATGAGTTCTGTGAGTGTTATACTTGTGAAaggtatttacccaagccctctacctatcttccatggaggagtattgttgtga Alignment from Spaln_aa2Genome TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAG tatttggcttgcttaatgtcaggtgttaggactttgttttttggttttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTCTATTATGGAGATGGGTTTTTTGGAGAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAAGgtatttacccaagccctctacctatcttccatggaggagtattgttgtga Alignment from Spaln_nt2Genome TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGT-TACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAG tatttggcttgcttaatgtcaggtgttaggactttgttttttggttttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTCTATTATGGAGATGGGTTTTTTGGAG-AAATAATGAGTTCTGTGAGTGTTATACTTGTGAAAGgtatttacccaagccctctacctatcttccatggaggagtattgttgtga Alignment from Pairagon TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGT-TACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAG tatttggcttgcttaatgtcaggtgttaggactttgttttttggttttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTCTATTATGGAGATGGGTTTTTTGGAG-AAATAATGAGTTCTGTGAGTGTTATACTTGTGAAAGgtatttacccaagccctctacctatcttccatggaggagtattgttgtga Alignment from Exonerate_protein2genome TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAG tatttggcttgcttaatgtcaggtgttaggactttgttttttggttttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTCTATTATGGAGATGGGTTTTTTGGAGAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAAGgtatttacccaagccctctacctatcttccatggaggagtattgttgtga Alignment from Exonerate_coding2genome ATTGCAGACCTAACTGTAAGTTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAG tatttggcttgcttaatgtcaggtgttaggACTTTGTTTTTTGGTTTTAGTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTCTATTATGGAGATGGGTTTTTTGGAGAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAAGgtatttacccaagccctctacctatcttccatggaggagtattgttgtga Alignment from GeneWise TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAG tatttggcttgcttaatgtcaggtgttaggactttgttttttggttttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTCTATTATGGAGATGGGTTTTTTGGAGAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAAGgtatttacccaagccctctacctatcttccatggaggagtattgttgtga #### Syvn1_ID1383_2 --> 0 - 0 Original Alignment GTCCTGTACATCCAGGCCTTTGTC-CTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG cagacagaaattggcagtaaccttaaatatgatttgtattttctcaacagGTCCTGTACATACAGGCCTTTGTCCCTTGTCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCT-TGGGCAGCTGAGGGCACCAGAGATGGAAgtaagttagggccaggagtcagggcaaggtctcttaatatcaatgctgtt Alignment from CESAR GTCCTGTACATCCAGGCCTTTGTC-CTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG cagacagaaattggcagtaaccttaaatatgatttgtattttctcaacagGTCCTGTACATACAGGCCTTTGTCCCTTGTCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTC-TTGGGCAGCTGAGGGCACCAGAGATGGAAgtaagttagggccaggagtcagggcaaggtctcttaatatcaatgctgtt Alignment from Spaln_aa2Genome GTCCTGTACATCCAGGCCTTTGTC-CTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG cagacagaaattggcagtaaccttaaatatgatttgtattttctcaacagGTCCTGTACATACAGGCCTTTGTCcCTTGTCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTT-GGGCAGCTGAGGGCACCAGAGATGGAAgtaagttagggccaggagtcagggcaaggtctcttaatatcaatgctgtt Alignment from Spaln_nt2Genome GTCCTGTACATCCAGGCCTTTGT-CCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG cagacagaaattggcagtaaccttaaatatgatttgtattttctcaacagGTCCTGTACATACAGGCCTTTGTCCCTTGTCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTGGG-CAGCTGAGGGCACCAGAGATGGAAgtaagttagggccaggagtcagggcaaggtctcttaatatcaatgctgtt Alignment from Pairagon GTCCTGTACATCCAGGCCTTTGT-CCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG cagacagaaattggcagtaaccttaaatatgatttgtattttctcaacagGTCCTGTACATACAGGCCTTTGTCCCTTGTCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTT-GGGCAGCTGAGGGCACCAGAGATGGAAgtaagttagggccaggagtcagggcaaggtctcttaatatcaatgctgtt Alignment from Exonerate_protein2genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG cagacagaaattggcagtaaccttaaatatgatttgtattttctcaacagGTCCTGTACATACAGGCCTTTGTCCCTTGTCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTGGGCAGCTGAGGGCACCAGAGATGGAAgtaagttagggccaggagtcagggcaaggtctcttaatatcaatgctgtt Alignment from Exonerate_coding2genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG cagacagaaattggcagtaaccttaaatatgatttgtattttctcaacagGTCCTGTACATACAGGCCTTTGTCCCTTGTCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTGGGCAGCTGAGGGCACCAGAGATGGAAgtaagttagggccaggagtcagggcaaggtctcttaatatcaatgctgtt Alignment from GeneWise GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG cagacagaaattggcagtaaccttaaatatgatttgtattttctcaacagGTCCTGTACATACAGGCCTTTGTCCCTTGTCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTGGGCAGCTGAGGGCACCAGAGATGGAAgtaagttagggccaggagtcagggcaaggtctcttaatatcaatgctgtt #### Syvn1_ID1384_3 --> 0 - 0 Original Alignment CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGAC-TTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT cttaatatcaatgctgtttcatagattcccctgttatatttcgcctttagCACCTCCTGGAACGGTCCTGGTATGCTGTCACAGAAATCTGTTTGACCTTTACTGTTATTGGAGATGACCTCAAGTCCCCAATTTGTGGCACTCTTTATGCTTCTTCTCT-CCTCAAGTGCTTCCAGTGGTTAGCTGAAGATCATGTGGATTTTgtgagtttaaatctcctgatgaatatgtaggtgtctcttttcatgatcta Alignment from CESAR CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTC-AGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT cttaatatcaatgctgtttcatagattcccctgttatatttcgcctttagCACCTCCTGGAACGGTCCTGGTATGCTGTCACAGAAATCTGTTTGACCTTTACTGTTATTGGAGATGACCTCAAGTCCCCAATTTGTGGCACTCTTTATGCTTCTTC-TCTCCTCAAGTGCTTCCAGTGGTTAGCTGAAGATCATGTGGATTTTgtgagtttaaatctcctgatgaatatgtaggtgtctctctgattctgctt Alignment from Spaln_aa2Genome CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT cttaatatcaatgctgtttcatagattcccctgttatatttcgcctttagCACCTCCTGGAACGGTCCTGGTATGCTGTCACAGAAATCTGTTTGACCTTTACTGTTATTGGAGATGACCTCAAGTCCCCAATTTGTGGCACTCTTTATGCTTCTTCTCTCCTCAAGTGCTTCCAGTGGTTAGCTGAAGATCATGTGGATTTTgtgagtttaaatctcctgatgaatatgtaggtgtctcttttcatgatcta Alignment from Spaln_nt2Genome CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCA-GCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT cttaatatcaatgctgtttcatagattcccctgttatatttcgcctttagCACCTCCTGGAACGGTCCTGGTATGCTGTCACAGAAATCTGTTTGACCTTTACTGTTATTGGAGATGACCTCAAGTCCCCAATTTGTGGCACTCTTTATGCTTCTTCTCTC-CTCAAGTGCTTCCAGTGGTTAGCTGAAGATCATGTGGATTTTgtgagtttaaatctcctgatgaatatgtaggtgtctcttttcatgatcta Alignment from Pairagon CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTC-AGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT cttaatatcaatgctgtttcatagattcccctgttatatttcgcctttagCACCTCCTGGAACGGTCCTGGTATGCTGTCACAGAAATCTGTTTGACCTTTACTGTTATTGGAGATGACCTCAAGTCCCCAATTTGTGGCACTCTTTATGCTTCTTCTC-TCCTCAAGTGCTTCCAGTGGTTAGCTGAAGATCATGTGGATTTTgtgagtttaaatctcctgatgaatatgtaggtgtctcttttcatgatcta Alignment from Exonerate_protein2genome CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT cttaatatcaatgctgtttcatagattcccctgttatatttcgcctttagCACCTCCTGGAACGGTCCTGGTATGCTGTCACAGAAATCTGTTTGACCTTTACTGTTATTGGAGATGACCTCAAGTCCCCAATTTGTGGCACTCTTTATGCTTCTTCTCTCCTCAAGTGCTTCCAGTGGTTAGCTGAAGATCATGTGGATTTTgtgagtttaaatctcctgatgaatatgtaggtgtctcttttcatgatcta Alignment from Exonerate_coding2genome CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT cttaatatcaatgctgtttcatagattcccctgttatatttcgcctttagCACCTCCTGGAACGGTCCTGGTATGCTGTCACAGAAATCTGTTTGACCTTTACTGTTATTGGAGATGACCTCAAGTCCCCAATTTGTGGCACTCTTTATGCTTCTTCTCTCCTCAAGTGCTTCCAGTGGTTAGCTGAAGATCATGTGGATTTTgtgagtttaaatctcctgatgaatatgtaggtgtctcttttcatgatcta Alignment from GeneWise CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT cttaatatcaatgctgtttcatagattcccctgttatatttcgcctttagCACCTCCTGGAACGGTCCTGGTATGCTGTCACAGAAATCTGTTTGACCTTTACTGTTATTGGAGATGACCTCAAGTCCCCAATTTGTGGCACTCTTTATGCTTCTTCTCTCCTCAAGTGCTTCCAGTGGTTAGCTGAAGATCATGTGGATTTTgtgagtttaaatctcctgatgaatatgtaggtgtctcttttcatgatcta #### Syvn1_ID1391_10 --> 1 - 1 Original Alignment cTGCCTGCGCTCCTGGTTCCAG-AGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATt ggggattggctaacaatgacgtactgacgctgagttgtgtatccttgcagcTGCTTGCACTCCTGGTTCCATCAGACAGCAGACCTGTCTGACATGTCATATGGATGTTT-GCGGGCATCATTGCCAGCCCAGTTACCACCACCTCCCGAGCCTGCTGAGCAAGGACCCCCCCCAGCACCTCAGCCCCAACCACTCCTGCCA---CCGCCTAATagtgagtgatgtctcatagtacagggccaacagacaagaaacttttgccta Alignment from CESAR cTGCCTGCGCTCCTGGTTCCAG-AGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATt ggggattggctaacaatgacgtactgacgctgagttgtgtatccttgcagcTGCTTGCACTCCTGGTTCCATCAGACAGCAGACCTGTCTGACATGTCATATGGATG-TTTGCGGGCATCATTGCCAGCCCAGTTACCACCACCTCCCGAGCCTGCTGAGCAAGGACCCCCCCCAGCACCTCAGCCCCAACCACTCCTGCCA---CCGCCTAATagtgagtgatgtctcatagtacagggccaacagacaagaaacttttgccta Alignment from Spaln_aa2Genome CTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATT ggggattggctaacaatgacgtactgacgctgagttgtgtatccttgcagCTGCTTGCACTCCTGGTTCCATCAGACAGCAGACCTGTCTGACATGTCATATGGATGTTTGCGGGCATCATTGCCAGCCCAGTTACCACCACCTCCCGAGCCTGCTGAGCAAGGACCCCCCCCAGCACCTCAGCCCCAACCACTCCTGCCA---CCGCCTAATAgtgagtgatgtctcatagtacagggccaacagacaagaaacttttgccta Alignment from Spaln_nt2Genome CTGCCTGCGCTCCTGGTTCCAG-AGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATT ggggattggctaacaatgacgtactgacgctgagttgtgtatccttgcagCTGCTTGCACTCCTGGTTCCATCAGACAGCAGACCTGTCTGACATGTCATATGGATGT-TTGCGGGCATCATTGCCAGCCCAGTTACCACCACCTCCCGAGCCTGCTGAGCAAGGACCCCCCCCAGCACCTCAGCCCCAACCACTCCTGCCA---CCGCCTAATAgtgagtgatgtctcatagtacagggccaacagacaagaaacttttgccta Alignment from Pairagon CTGCCTGCGCTCCTGGTTCCA-GAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATT ggggattggctaacaatgacgtactgacgctgagttgtgtatccttgcagCTGCTTGCACTCCTGGTTCCATCAGACAGCAGACCTGTCTGACATGTCATATGGATGT-TTGCGGGCATCATTGCCAGCCCAGTTACCACCACCTCCCGAGCCTGCTGAGCAAGGACCCCCCCCAGCACCTCAGCCCCAACCACTCCTGCCA---CCGCCTAATAgtgagtgatgtctcatagtacagggccaacagacaagaaacttttgccta Alignment from Exonerate_protein2genome CTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATT ggggattggctaacaatgacgtactgacgctgagttgtgtatccttgcagCTGCTTGCACTCCTGGTTCCATCAGACAGCAGACCTGTCTGACATGTCATATGGATGTTTGCGGGCATCATTGCCAGCCCAGTTACCACCACCTCCCGAGCCTGCTGAGCAAGGACCCCCCCCAGCACCTCAGCCCCAACCACTCCTGCCA---CCGCCTAATAgtgagtgatgtctcatagtacagggccaacagacaagaaacttttgccta Alignment from Exonerate_coding2genome CTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATT ggggattggctaacaatgacgtactgacgctgagttgtgtatccttgcagCTGCTTGCACTCCTGGTTCCATCAGACAGCAGACCTGTCTGACATGTCATATGGATGTTTGCGGGCATCATTGCCAGCCCAGTTACCACCACCTCCCGAGCCTGCTGAGCAAGGACCCCCCCCAGCACCTCAGCCCCAACCACTCCTGCCA---CCGCCTAATAgtgagtgatgtctcatagtacagggccaacagacaagaaacttttgccta Alignment from GeneWise CTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATT ggggattggctaacaatgacgtactgacgctgagttgtgtatccttgcagCTGCTTGCACTCCTGGTTCCATCAGACAGCAGACCTGTCTGACATGTCATATGGATGTTTGCGGGCATCATTGCCAGCCCAGTTACCACCACCTCCCGAGCCTGCTGAGCAAGGACCCCCCCCAGCACCTCAGCCCCAACCACTCCTGCCA---CCGCCTAATAgtgagtgatgtctcatagtacagggccaacagacaagaaacttttgccta #### Syvn1_ID1392_11 --> 2 - 1 Original Alignment tcCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTT-CCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAg ggtcgtactgacagctgagtcttgtcctgccccgtgggctccccttgcagtcCCCCAGGGCCTCCTGTCATCTTTTCCTCCAGGCATGTTCCTACTATGGCCCCCAATGGGTCCCTTTCCCACCTGTCCCACCTCCCCCGAGCTCTGGAAAGG-TGCTGCTGCTCCACCCACAAGTACAggtgagtgtgtgtaagccagagtgattttgagagcagtggacaggcaggga Alignment from CESAR tcCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTT-CCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAg ggtcgtactgacagctgagtcttgtcctgccccgtgggctccccttgcagtcCCCCAGGGCCTCCTGTCATCTTTTCCTCCAGGCATGTTCCTACTATGGCCCCCAATGGGTCCCTTTCCCACCTGTCCCACCTCCCCCGAGCTCTGGAAAGG-TGCTGCTGCTCCACCCACAAGTACAggtgagtgtgtgtaagccagagtgattttgagagcagtggacaggcaggga Alignment from Spaln_aa2Genome TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGT-CCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG ggtcgtactgacagctgagtcttgtcctgccccgtgggctccccttgcagTCCCCCAGGGCCTCCTGTCATCTTTTCCTCCAGGCATGTTCCTACTATGGCCCCCAATGGGTcCCTTTCCCACCTGTCCCACCTCCCCCGAGCTCTGGAAAGGT-GCTGCTGCTCCACCCACAAGTACAGgtgagtgtgtgtaagccagagtgattttgagagcagtggacaggcaggga Alignment from Spaln_nt2Genome TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTC-CACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG ggtcgtactgacagctgagtcttgtcctgccccgtgggctccccttgcagTCCCCCAGGGCCTCCTGTCATCTTTTCCTCCAGGCATGTTCCTACTATGGCCCCCAATGGGTCCCTTTCCCACCTGTCCCACCTCCCCCGAGCTCTGGAAAGG-TGCTGCTGCTCCACCCACAAGTACAGgtgagtgtgtgtaagccagagtgattttgagagcagtggacaggcaggga Alignment from Pairagon TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTT-CCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG ggtcgtactgacagctgagtcttgtcctgccccgtgggctccccttgcagTCCCCCAGGGCCTCCTGTCATCTTTTCCTCCAGGCATGTTCCTACTATGGCCCCCAATGGGTCCCTTTCCCACCTGTCCCACCTCCCCCGAGCTCTGGAAAGG-TGCTGCTGCTCCACCCACAAGTACAGgtgagtgtgtgtaagccagagtgattttgagagcagtggacaggcaggga Alignment from Exonerate_protein2genome TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG ggtcgtactgacagctgagtcttgtcctgccccgtgggctccccttgcagTCCCCCAGGGCCTCCTGTCATCTTTTCCTCCAGGCATGTTCCTACTATGGCCCCCAATGGGTCCCTTTCCCACCTGTCCCACCTCCCCCGAGCTCTGGAAAGGTGCTGCTGCTCCACCCACAAGTACAGgtgagtgtgtgtaagccagagtgattttgagagcagtggacaggcaggga Alignment from Exonerate_coding2genome TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG ggtcgtactgacagctgagtcttgtcctgccccgtgggctccccttgcagTCCCCCAGGGCCTCCTGTCATCTTTTCCTCCAGGCATGTTCCTACTATGGCCCCCAATGGGTCCCTTTCCCACCTGTCCCACCTCCCCCGAGCTCTGGAAAGGTGCTGCTGCTCCACCCACAAGTACAGgtgagtgtgtgtaagccagagtgattttgagagcagtggacaggcaggga Alignment from GeneWise TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG ggtcgtactgacagctgagtcttgtcctgccccgtgggctccccttgcagTCCCCCAGGGCCTCCTGTCATCTTTTCCTCCAGGCATGTTCCTACTATGGCCCCCAATGGGTCCCTTTCCCACCTGTCCCACCTCCCCCGAGCTCTGGAAAGGTGCTGCTGCTCCACCCACAAGTACAGgtgagtgtgtgtaagccagagtgattttgagagcagtggacaggcaggga #### Syvn1_ID1393_12 --> 2 - 1 Original Alignment ccGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGT-CCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTg gtaattgactcacttccaatttaccttatcgctccccttgccttctgcagctGTCTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCCTGCCCCCGATTTCCCTTTCCCCCCTCCCT-GATGGGGATGCCTCTACCTCCACCATTTggtaagttgcccatcaccctactctctttggcatgatgtcaaatactaagc Alignment from CESAR ccGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTg gtaattgactcacttccaatttaccttatcgctccccttgccttctgcagctGTCTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCCTGCCCCCGATTTCCCTTTCCCCCCTCCCTGATGGGGATGCCTCTACCTCCACCATTTggtaagttgcccatcaccctactctctttggcatgatgtcaaatactaagc Alignment from Spaln_aa2Genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG gtaattgactcacttccaatttaccttatcgctccccttgccttctgcagCTGTCTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCCTGCCCCCGATTTCCCTTTCCCCCCTCCCTGATGGGGATGCCTCTACCTCCACCATTTGgtaagttgcccatcaccctactctctttggcatgatgtcaaatactaagc Alignment from Spaln_nt2Genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTC-CTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG gtaattgactcacttccaatttaccttatcgctccccttgccttctgcagCTGTCTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCCTGCCCCCGATTTCCCTTTCCCCCCTCCCT-GATGGGGATGCCTCTACCTCCACCATTTGgtaagttgcccatcaccctactctctttggcatgatgtcaaatactaagc Alignment from Pairagon CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGT-CCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG gtaattgactcacttccaatttaccttatcgctccccttgccttctgcagCTGTCTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCCTGCCCCCGATTTCCCTTTCCCCCCTCCCT-GATGGGGATGCCTCTACCTCCACCATTTGgtaagttgcccatcaccctactctctttggcatgatgtcaaatactaagc Alignment from Exonerate_protein2genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG gtaattgactcacttccaatttaccttatcgctccccttgccttctgcagCTGTCTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCCTGCCCCCGATTTCCCTTTCCCCCCTCCCTGATGGGGATGCCTCTACCTCCACCATTTGgtaagttgcccatcaccctactctctttggcatgatgtcaaatactaagc Alignment from Exonerate_coding2genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG gtaattgactcacttccaatttaccttatcgctccccttgccttctgcagCTGTCTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCCTGCCCCCGATTTCCCTTTCCCCCCTCCCTGATGGGGATGCCTCTACCTCCACCATTTGgtaagttgcccatcaccctactctctttggcatgatgtcaaatactaagc Alignment from GeneWise CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG gtaattgactcacttccaatttaccttatcgctccccttgccttctgcagCTGTCTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCCTGCCCCCGATTTCCCTTTCCCCCCTCCCTGATGGGGATGCCTCTACCTCCACCATTTGgtaagttgcccatcaccctactctctttggcatgatgtcaaatactaagc #### Syvn1_ID1394_13 --> 2 - 2 Original Alignment ccTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTG-CGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGgg caaatactaagccggtagctaggcctgaagattcactctgccatttgcagccTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACTCCAGAGGAGTTGTGTGCACTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTCTGCAGAGTCTGCTGCAACATACACACACTACTGGATGCTGCGATGCTTCAAATCA-CCAATACCTCACTGTGCTGGCCTCCCTGgggtatgtacgcatgttcaattgcacatttccctgtagacagacctcctatt Alignment from CESAR ccTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTG-CGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGgg caaatactaagccggtagctaggcctgaagattcactctgccatttgcagccTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACTCCAGAGGAGTTGTGTGCACTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTCTGCAGAGTCTGCTGCAACATACACACACTACTGGATGCTGCGATGCTTCAAA-TCACCAATACCTCACTGTGCTGGCCTCCCTGgggtatgtacgcatgttcaattgcacatttccctgtagacagacctcctatt Alignment from Spaln_aa2Genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTG-CGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG caaatactaagccggtagctaggcctgaagattcactctgccatttgcagCCTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACTCCAGAGGAGTTGTGTGCACTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTCTGCAGAGTCTGcTGCAACATACACACACTACTGGATGCTGCGATGCTTCAAATCAC-CAATACCTCACTGTGCTGGCCTCCCTGGGgtatgtacgcatgttcaattgcacatttccctgtagacagacctcctatt Alignment from Spaln_nt2Genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGC-GCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG caaatactaagccggtagctaggcctgaagattcactctgccatttgcagCCTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACTCCAGAGGAGTTGTGTGCACTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTCTGCAGAGTCTGCTGCAACATACACACACTACTGGATGCTGCGATGCTTCAAATCA-CCAATACCTCACTGTGCTGGCCTCCCTGGGgtatgtacgcatgttcaattgcacatttccctgtagacagacctcctatt Alignment from Pairagon CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGC-GCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG caaatactaagccggtagctaggcctgaagattcactctgccatttgcagCCTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACTCCAGAGGAGTTGTGTGCACTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTCTGCAGAGTCTGCTGCAACATACACACACTACTGGATGCTGCGATGCTTCAAATC-ACCAATACCTCACTGTGCTGGCCTCCCTGGGgtatgtacgcatgttcaattgcacatttccctgtagacagacctcctatt Alignment from Exonerate_protein2genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGC-AACATACACACACTACTGGATGCTGCCATGCTTCAAATC--AACCAGTACCTCACTGTGCTGGCTTCCCTGGG caaatactaagccggtagctaggcctgaagattcactctgccatttgcagCCTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACTCCAGAGGAGTTGTGTGCACTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTCTGCAGAGTCTGCTGCAACATACACACACTACTGGATGCTGCGATGCTTCAAATCAC---CAATACCTCACTGTGCTGGCCTCCCTGGGgtatgtacgcatgttcaattgcacatttccctgtagacagacctcctatt Alignment from Exonerate_coding2genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCG---CAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG caaatactaagccggtagctaggcctgaagattcactctgccatttgcagCCTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACTCCAGAGGAGTTGTGTGCACTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTCTGCAGAGTCTG--CTGCAACATACACACACTACTGGATGCTGCGATGCTTCAAAT-CACCAATACCTCACTGTGCTGGCCTCCCTGGGgtatgtacgcatgttcaattgcacatttccctgtagacagacctcctatt Alignment from GeneWise CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTG-CGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG caaatactaagccggtagctaggcctgaagattcactctgccatttgcagCCTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACTCCAGAGGAGTTGTGTGCACTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTCTGCAGAGTCTGCTGCAACATACACACACTACTGGATGCTGCGATGCTTCAAATCAC-CAATACCTCACTGTGCTGGCCTCCCTGGGgtatgtacgcatgttcaattgcacatttccctgtagacagacctcctatt #### Syvn1_ID1395_14 --> 1 - 1 Original Alignment gCCCCCCAGGCCAGCTACTTCAGTGAACCCCACTGAAGAGACTGCCTCT-ACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCTTCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTg gtgcagcaattccaggccaaatgttggagtgctacacattgtttcctcagaCCCCCAAGGCCAGCAACCTCTGTTAACCACACTGAGGAAACTGCATCTCACTGTTGTATTTGCTGCACCTTCCAGTA-TGCTCCAAGCTCCGAGGCTCCAACTCCTTCCCCAGGGGCATCCCCCCCGATTCTTGAAGCAGAAAAGCCTCCTggtatgataggaaaagaataggccagcagaatctaggtggtatggcttgaa Alignment from CESAR gCCCCCCAGGCCAGCTACTTCAGTGAACCCCACTGAAGAGACTGCCTCT-ACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCTTCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTg gtgcagcaattccaggccaaatgttggagtgctacacattgtttcctcagaCCCCCAAGGCCAGCAACCTCTGTTAACCACACTGAGGAAACTGCATCTCACTGTTGTATTTGCTGCACCTTCCAGT-ATGCTCCAAGCTCCGAGGCTCCAACTCCTTCCCCAGGGGCATCCCCCCCGATTCTTGAAGCAGAAAAGCCTCCTggtatgataggaaaagaataggccagcagaatctaggtggtatggcttgaa Alignment from Spaln_aa2Genome GCCCCCCAGGCCAGCTACTTCAGTGAACCCCACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCTTCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTG gtgcagcaattccaggccaaatgttggagtgctacacattgtttcctcagACCCCCAAGGCCAGCAACCTCTGTTAACCACACTGAGGAAACTGCATCTCACTGTTGTATTTGCTGCACCTTCCAGTATGCTCCAAGCTCCGAGGCTCCAACTCCTTCCCCAGGGGCATCCCCCCCGATTCTTGAAGCAGAAAAGCCTCCTGgtatgataggaaaagaataggccagcagaatctaggtggtatggcttgaa Alignment from Spaln_nt2Genome GCCCCCCAGGCCAGCTACTTCAGTGAACCCCACTGAAGAGACTGCCTCT-ACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCTTCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTG gtgcagcaattccaggccaaatgttggagtgctacacattgtttcctcagACCCCCAAGGCCAGCAACCTCTGTTAACCACACTGAGGAAACTGCATCTCACTGTTGTATTTGCTGCACCTTCCAGTA-TGCTCCAAGCTCCGAGGCTCCAACTCCTTCCCCAGGGGCATCCCCCCCGATTCTTGAAGCAGAAAAGCCTCCTGgtatgataggaaaagaataggccagcagaatctaggtggtatggcttgaa Alignment from Pairagon GCCCCCCAGGCCAGCTACTTCAGTGAACCCCACTGAAGAGACTGCCTCT-ACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCTTCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTG gtgcagcaattccaggccaaatgttggagtgctacacattgtttcctcagACCCCCAAGGCCAGCAACCTCTGTTAACCACACTGAGGAAACTGCATCTCACTGTTGTATTTGCTGCACCTTCCAGTA-TGCTCCAAGCTCCGAGGCTCCAACTCCTTCCCCAGGGGCATCCCCCCCGATTCTTGAAGCAGAAAAGCCTCCTGgtatgataggaaaagaataggccagcagaatctaggtggtatggcttgaa Alignment from Exonerate_protein2genome GCCCCCCAGGCCAGCTACTTCAGTGAACCCCACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCTTCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTG gtgcagcaattccaggccaaatgttggagtgctacacattgtttcctcagACCCCCAAGGCCAGCAACCTCTGTTAACCACACTGAGGAAACTGCATCTCACTGTTGTATTTGCTGCACCTTCCAGTATGCTCCAAGCTCCGAGGCTCCAACTCCTTCCCCAGGGGCATCCCCCCCGATTCTTGAAGCAGAAAAGCCTCCTGgtatgataggaaaagaataggccagcagaatctaggtggtatggcttgaa Alignment from Exonerate_coding2genome GCCCCCCAGGCCAGCTACTTCAGTGAACCCCACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCTTCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTG gtgcagcaattccaggccaaatgttggagtgctacacattgtttcctcagACCCCCAAGGCCAGCAACCTCTGTTAACCACACTGAGGAAACTGCATCTCACTGTTGTATTTGCTGCACCTTCCAGTATGCTCCAAGCTCCGAGGCTCCAACTCCTTCCCCAGGGGCATCCCCCCCGATTCTTGAAGCAGAAAAGCCTCCTGgtatgataggaaaagaataggccagcagaatctaggtggtatggcttgaa Alignment from GeneWise GCCCCCCAGGCCAGCTACTTCAGTGAACCCCACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCTTCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTG gtgcagcaattccaggccaaatgttggagtgctacacattgtttcctcagACCCCCAAGGCCAGCAACCTCTGTTAACCACACTGAGGAAACTGCATCTCACTGTTGTATTTGCTGCACCTTCCAGTATGCTCCAAGCTCCGAGGCTCCAACTCCTTCCCCAGGGGCATCCCCCCCGATTCTTGAAGCAGAAAAGCCTCCTGgtatgataggaaaagaataggccagcagaatctaggtggtatggcttgaa #### Taf5_ID10097_5 --> 1 - 0 Original Alignment aATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTC-GGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gatacaagattccacacaatggactgtccacccgaacatatttttcctagaATTCCTCTCCCGGAACTAAAGGATTCAGACAAACTAGACAAAATAATGAATATGAAAGAAACTACCAAACGGGTGCGCCTTCGGGCCAGACTGTTTACCTTCAATTTGTTATT-TACCTTTGTTAATGCTTACCAGgtgagtaagaaaccaggcagtgctatgtcacacaagtggtcacagctgca Alignment from CESAR aATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTC-GGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gatacaagattccacacaatggactgtccacccgaacatatttttcctagaATTCCTCTCCCGGAACTAAAGGATTCAGACAAACTAGACAAAATAATGAATATGAAAGAAACTACCAAACGGGTGCGCCTTCGGGCCAGACTGTTTACCTTCAATTTGTT-ATTTACCTTTGTTAATGCTTACCAGgtgagtaagaaaccaggcagtgctatgtcacacaagtggtcacagctgca Alignment from Spaln_aa2Genome AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTC-GGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gatacaagattccacacaatggactgtccacccgaacatatttttcctagAATTCCTCTCCCGGAACTAAAGGATTCAGACAAACTAGACAAAATAATGAATATGAAAGAAACTACCAAACGGGTGCGCCTTcGGGCCAGACTGTTTACCTTCAATTTGTTA-TTTACCTTTGTTAATGCTTACCAGgtgagtaagaaaccaggcagtgctatgtcacacaagtggtcacagctgca Alignment from Spaln_nt2Genome AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCC-TCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gatacaagattccacacaatggactgtccacccgaacatatttttcctagAATTCCTCTCCCGGAACTAAAGGATTCAGACAAACTAGACAAAATAATGAATATGAAAGAAACTACCAAACGGGTGCGCCTTCGGGCCAGACTGTTTACCTTCAATTTG-TTATTTACCTTTGTTAATGCTTACCAGgtgagtaagaaaccaggcagtgctatgtcacacaagtggtcacagctgca Alignment from Pairagon AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCC-TCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gatacaagattccacacaatggactgtccacccgaacatatttttcctagAATTCCTCTCCCGGAACTAAAGGATTCAGACAAACTAGACAAAATAATGAATATGAAAGAAACTACCAAACGGGTGCGCCTTCGGGCCAGACTGTTTACCTTCAATTTGTTATT-TACCTTTGTTAATGCTTACCAGgtgagtaagaaaccaggcagtgctatgtcacacaagtggtcacagctgca Alignment from Exonerate_protein2genome AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gatacaagattccacacaatggactgtccacccgaacatatttttcctagAATTCCTCTCCCGGAACTAAAGGATTCAGACAAACTAGACAAAATAATGAATATGAAAGAAACTACCAAACGGGTGCGCCTTCGGGCCAGACTGTTTACCTTCAATTTGTTATTTACCTTTGTTAATGCTTACCAGgtgagtaagaaaccaggcagtgctatgtcacacaagtggtcacagctgca Alignment from Exonerate_coding2genome AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gatacaagattccacacaatggactgtccacccgaacatatttttcctagAATTCCTCTCCCGGAACTAAAGGATTCAGACAAACTAGACAAAATAATGAATATGAAAGAAACTACCAAACGGGTGCGCCTTCGGGCCAGACTGTTTACCTTCAATTTGTTATTTACCTTTGTTAATGCTTACCAGgtgagtaagaaaccaggcagtgctatgtcacacaagtggtcacagctgca Alignment from GeneWise AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gatacaagattccacacaatggactgtccacccgaacatatttttcctagAATTCCTCTCCCGGAACTAAAGGATTCAGACAAACTAGACAAAATAATGAATATGAAAGAAACTACCAAACGGGTGCGCCTTCGGGCCAGACTGTTTACCTTCAATTTGTTATTTACCTTTGTTAATGCTTACCAGgtgagtaagaaaccaggcagtgctatgtcacacaagtggtcacagctgca #### Taf5_ID10102_10 --> 0 - 1 Original Alignment GGACCAATTCATTCCTTGACATTT-TCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAg tggtccatgccaatacactacaattccatgaattgcaaccttgttttcagGGCCCAATTCATTCTTTGACATTTCTCTCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAG-TGGCAGAGTACTTCTTTGGGATATTGGACATGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGAAATTTTGGCGTCAggtgaggcctgtagtgacctcataacagtgcccaccctccaatattctctg Alignment from CESAR GGACCAATTCATTCCTTGACATTT-TCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAg tggtccatgccaatacactacaattccatgaattgcaaccttgttttcagGGCCCAATTCATTCTTTGACATTTCTCTCCCAATGGGAGGTTCCTAGCTACAGGAGCAACA-GTGGCAGAGTACTTCTTTGGGATATTGGACATGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGAAATTTTGGCGTCAggtgaggcctgtagtgacctcataacagtgcccacgctaatattcttcttt Alignment from Spaln_aa2Genome GGACCAATTCATTCCTTGACA-TTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG tggtccatgccaatacactacaattccatgaattgcaaccttgttttcagGGCCCAATTCATTCTTTGACAtTTCTCTCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGT-GGCAGAGTACTTCTTTGGGATATTGGACATGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGAAATTTTGGCGTCAGgtgaggcctgtagtgacctcataacagtgcccaccctccaatattctctg Alignment from Spaln_nt2Genome GGACCAATTCATTCCTTGACA-TTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG tggtccatgccaatacactacaattccatgaattgcaaccttgttttcagGGCCCAATTCATTCTTTGACATTTCTCTCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAG-TGGCAGAGTACTTCTTTGGGATATTGGACATGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGAAATTTTGGCGTCAGgtgaggcctgtagtgacctcataacagtgcccaccctccaatattctctg Alignment from Pairagon GGACCAATTCATTCCTTGACATTT-TCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG tggtccatgccaatacactacaattccatgaattgcaaccttgttttcagGGCCCAATTCATTCTTTGACATTTCTCTCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAG-TGGCAGAGTACTTCTTTGGGATATTGGACATGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGAAATTTTGGCGTCAGgtgaggcctgtagtgacctcataacagtgcccaccctccaatattctctg Alignment from Exonerate_protein2genome GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG tggtccatgccaatacactacaattccatgaattgcaaccttgttttcagGGCCCAATTCATTCTTTGACATTTCTCTCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGTGGCAGAGTACTTCTTTGGGATATTGGACATGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGAAATTTTGGCGTCAGgtgaggcctgtagtgacctcataacagtgcccaccctccaatattctctg Alignment from Exonerate_coding2genome GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG tggtccatgccaatacactacaattccatgaattgcaaccttgttttcagGGCCCAATTCATTCTTTGACATTTCTCTCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGTGGCAGAGTACTTCTTTGGGATATTGGACATGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGAAATTTTGGCGTCAGgtgaggcctgtagtgacctcataacagtgcccaccctccaatattctctg Alignment from GeneWise GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG tggtccatgccaatacactacaattccatgaattgcaaccttgttttcagGGCCCAATTCATTCTTTGACATTTCTCTCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGTGGCAGAGTACTTCTTTGGGATATTGGACATGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGAAATTTTGGCGTCAGgtgaggcctgtagtgacctcataacagtgcccaccctccaatattctctg #### Tbc1d10c_ID399_5 --> 1 - 0 Original Alignment gCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTAC-ACCCTGTACCGGCCAGAGCAGGGATAC------TGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG gaagggaataggggggaatatatgggagttgtttcttaaaatgtttatagaCAGCAAGGGCATCTACAGGTTATGAAAGCCTACCAACCTGCACCACCCAGAACAAGGATATTGTC-CTGTCAGGCACAGGGACCTGTAGCTGCTGTACTTCTCATGCATCTACCTCCAGAGgtaagcgacctagatagaccctccatccctaataagacccaacctgcaac Alignment from CESAR gCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTAC-ACCCTGTACCGGCCAGAGCAGGGATACTGC-----CAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG gaagggaataggggggaatatatgggagttgtttcttaaaatgtttatagaCAGCAAGGGCATCTACAGGTTATGAAAGCCTACCAACCTGCACCACCCAGAACAAGGATATTGTCCTGTCAGGCACAGGGACCTGTAGCTGCTGTACTTCTCATGCATCTACCTCCAGAGgtaagcgacctagatagaccctccatccctaataagacccaacctgcaac Alignment from Spaln_aa2Genome GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGA------TACTGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG gaagggaataggggggaatatatgggagttgtttcttaaaatgtttatagACAGCAAGGGCATCTACAGGTTATGAAAGCCTACCAACCTGCACCACCCAGAACAAGGATATTGTCCTGTCAGGCACAGGGACCTGTAGCTGCTGTACTTCTCATGCATCTACCTCCAGAGgtaagcgacctagatagaccctccatccctaataagacccaacctgcaac Alignment from Spaln_nt2Genome GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTAC-ACCCTGTACCGGCCAGAGCAGGGATA-----CTGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG gaagggaataggggggaatatatgggagttgtttcttaaaatgtttatagACAGCAAGGGCATCTACAGGTTATGAAAGCCTACCAACCTGCACCACCCAGAACAAGGATATTGTCCTGTCAGGCACAGGGACCTGTAGCTGCTGTACTTCTCATGCATCTACCTCCAGAGgtaagcgacctagatagaccctccatccctaataagacccaacctgcaac Alignment from Pairagon GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTA-CACCCTGTACCGGCCAGAGCAGGGATA-----CTGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG gaagggaataggggggaatatatgggagttgtttcttaaaatgtttatagACAGCAAGGGCATCTACAGGTTATGAAAGCCTACCAACCTGCACCACCCAGAACAAGGATATTGTCCTGTCAGGCACAGGGACCTGTAGCTGCTGTACTTCTCATGCATCTACCTCCAGAGgtaagcgacctagatagaccctccatccctaataagacccaacctgcaac Alignment from Exonerate_protein2genome GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTAC-ACCCTGTACCGGCCAGAGCAGGGATAC-----TGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG gaagggaataggggggaatatatgggagttgtttcttaaaatgtttatagACAGCAAGGGCATCTACAGGTTATGAAAGCCTACCAACCTGCACCACCCAGAACAAGGATATTGTCCTGTCAGGCACAGGGACCTGTAGCTGCTGTACTTCTCATGCATCTACCTCCAGAGgtaagcgacctagatagaccctccatccctaataagacccaacctgcaac Alignment from Exonerate_coding2genome GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTAC-ACCCTGTACCGGCCAGAGCAGGGATAC-----TGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG gaagggaataggggggaatatatgggagttgtttcttaaaatgtttatagACAGCAAGGGCATCTACAGGTTATGAAAGCCTACCAACCTGCACCACCCAGAACAAGGATATTGTCCTGTCAGGCACAGGGACCTGTAGCTGCTGTACTTCTCATGCATCTACCTCCAGAGgtaagcgacctagatagaccctccatccctaataagacccaacctgcaac Alignment from GeneWise GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATAC------TGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG gaagggaataggggggaatatatgggagttgtttcttaaaatgtttatagACAGCAAGGGCATCTACAGGTTATGAAAGCCTACCAACCTGCACCACCCAGAACAAGGATATTGTCCTGTCAGGCACAGGGACCTGTAGCTGCTGTACTTCTCATGCATCTACCTCCAGAGgtaagcgacctagatagaccctccatccctaataagacccaacctgcaac #### Tbc1d10c_ID400_4 --> 0 - 2 Original Alignment TACCAG GAGCTGGCAGCAGCCCCCGGG-GACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACgg TATCAGgtatgtaggctaggaagtgccctacattctgtccattgctccagGAACTGGCATCAGCCCCTGGGCGACCCTCAGTGGATGGAAGCCACTGGCAGGG-CTTACACCAACAGTTTCCTTTGCATGAGATGTTTGTCCTGCCTCAAGGACATgggtaaatgttgaggaaatagcgtattcaaacaatgatctccgttgtccaca Alignment from CESAR TACCAG GAGCTGGCAGCAGCCCCCGGG-GACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACgg TATCAGgtaggaaggctaggaagtgccctacattctgtccattgctccagGAACTGGCATCAGCCCCTGGGCGACCCTCAGTGGATGGAAGCCACTGGCAGG-GCTTACACCAACAGTTTCCTTTGCATGAGATGTTTGTCCTGCCTCAAGGACATgggtaaatgttgaggaaatagcgtattcaaacaatgatctccgttgtccaca Alignment from Spaln_aa2Genome TACCAG GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG TATCAGgtatgtaggctaggaagtgccctacattctgtccattgctccagGAACTGGCATCAGCCCCTGGGCGACCCTCAGTGGATGGAAGCCACTGGCAGGGCTTACACCAACAGTTTCCTTTGCATGAGATGTTTGTCCTGCCTCAAGGACATGGgtaaatgttgaggaaatagcgtattcaaacaatgatctccgttgtccaca Alignment from Spaln_nt2Genome TACCAG GAGCTGGCAGCAGCCCCCGGG-GACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG TATCAGgtatgtaggctaggaagtgccctacattctgtccattgctccagGAACTGGCATCAGCCCCTGGGCGACCCTCAGTGGATGGAAGCCACTGGCAG-GGCTTACACCAACAGTTTCCTTTGCATGAGATGTTTGTCCTGCCTCAAGGACATGGgtaaatgttgaggaaatagcgtattcaaacaatgatctccgttgtccaca Alignment from Pairagon TACCAG GAGCTGGCAGCAGCCCCCGGG-GACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG TATCAGgtatgtaggctaggaagtgccctacattctgtccattgctccagGAACTGGCATCAGCCCCTGGGCGACCCTCAGTGGATGGAAGCCACTGGCAG-GGCTTACACCAACAGTTTCCTTTGCATGAGATGTTTGTCCTGCCTCAAGGACATGGgtaaatgttgaggaaatagcgtattcaaacaatgatctccgttgtccaca Alignment from Exonerate_protein2genome TACCAG GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG TATCAGgtatgtaggctaggaagtgccctacattctgtccattgctccagGAACTGGCATCAGCCCCTGGGCGACCCTCAGTGGATGGAAGCCACTGGCAGGGCTTACACCAACAGTTTCCTTTGCATGAGATGTTTGTCCTGCCTCAAGGACATGGgtaaatgttgaggaaatagcgtattcaaacaatgatctccgttgtccaca Alignment from Exonerate_coding2genome TACCAG GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG TATCAGgtatgtaggctaggaagtgccctacattctgtccattgctccagGAACTGGCATCAGCCCCTGGGCGACCCTCAGTGGATGGAAGCCACTGGCAGGGCTTACACCAACAGTTTCCTTTGCATGAGATGTTTGTCCTGCCTCAAGGACATGGgtaaatgttgaggaaatagcgtattcaaacaatgatctccgttgtccaca Alignment from GeneWise TACCAG------GAGCTGGCAGCAGCC------------------------------------CCC---GGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG TATCAGGTATGTAGGCTAGGAAGTGCCCTACATTCTGTCCATTGCTCCAGGAACTGGCATCAGCCCCTGGGCGACCCTCAGTGGATGGAAGCCACTGGCAGGGC-TTACACCAACAGTTTCCTTTGCATGAGATGTTTGTCCTGCCTCAAGGACATGGgtaaatgttgaggaaatagcgtattcaaacaatgatctccgttgtccaca #### Tbc1d10c_ID401_3 --> 0 - 0 Original Alignment GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTG-CGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG gctcttttttataatgtttgtttgctggctgtcccttctctgccccacagGTAAAGATACAATGTCACAAGGGCATTCCCACTGTCTTGCCGTGCCCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGT-TCAGAAGAATAACCCTGGTACATATCAGgtaggaaggctaggaagtgcccgctcccctgttacaccctgcagGAACTG Alignment from CESAR GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTG-CGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG gctcttttttataatgtttgtttgctggctgtcccttctctgccccacagGTAAAGATACAATGTCACAAGGGCATTCCCACTGTCTTGCCGTGCCCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATG-TTCAGAAGAATAACCCTGGTACATATCAGgtaggaaggctaggaagtgccctacattctgtccattgctccagGAACTG Alignment from Spaln_aa2Genome GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTG-CGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG gctcttttttataatgtttgtttgctggctgtcccttctctgccccacagGTAAAGATACAATGTCACAAGGGCATTCCCACTGTCTTGcCGTGCCCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGTT-CAGAAGAATAACCCTGGTACATATCAGgtaggaaggctaggaagtgcccgctcccctgttacaccctgcagGAACTG Alignment from Spaln_nt2Genome GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGC-GTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG gctcttttttataatgtttgtttgctggctgtcccttctctgccccacagGTAAAGATACAATGTCACAAGGGCATTCCCACTGTCTTGCCGTGCCCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGT-TCAGAAGAATAACCCTGGTACATATCAGgtaggaaggctaggaagtgcccgctcccctgttacaccctgcagGAACTG Alignment from Pairagon GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTG-CGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG gctcttttttataatgtttgtttgctggctgtcccttctctgccccacagGTAAAGATACAATGTCACAAGGGCATTCCCACTGTCTTGCCGTGCCCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGT-TCAGAAGAATAACCCTGGTACATATCAGgtaggaaggctaggaagtgcccgctcccctgttacaccctgcagGAACTG Alignment from Exonerate_protein2genome GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTG-CGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATG--TGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG gctcttttttataatgtttgtttgctggctgtcccttctctgccccacagGTAAAGATACAATGTCACAAGGGCATTCCCACTGTCTTGCCGTGCCCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGTT---CAGAAGAATAACCCTGGTACATATCAGgtaggaaggctaggaagtgcccgctcccctgttacaccctgcagGAACTG Alignment from Exonerate_coding2genome GTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAGGAGCTG gctcttttttataatgtttgtttgctggctgtcccttctctgccccacaggtaaagatacaatgtcacaagggcattcccactgtcttgccgtgcccggtgctggcccctcctatgtggtgcccggatgttcagaagaataaccctggtacatatcagGTAGGAAGGCTAGGAAGTGCCCGCTCCCCTGTTACACCCTGCAGGAACTG Alignment from GeneWise GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCC-CTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG gctcttttttataatgtttgtttgctggctgtcccttctctgccccacagGTAAAGATACAATGTCACAAGGGCATTCCCACTGTCTTGCCGTGCCCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGTT-CAGAAGAATAACCCTGGTACATATCAGgtaggaaggctaggaagtgcccgctcccctgttacaccctgcagGAACTG #### Tcirg1_ID169_18 --> 2 - 2 Original Alignment agCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTG-CTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACtg catgtcacaggtttacaatgctcttaggccccatgtcctttaatctatagagCTGTCGGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGGGTCGCAGCTGTAGTACTTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTTGCAA-TCTGTTAGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGTTACATtggtgagagtgatatctatttgatgggatttggcagggaccataggttgatt Alignment from CESAR agCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTG-CTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACtg catgtcacaggtttacaatgctcttaggccccatgtcctttaatctatagagCTGTCGGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGGGTCGCAGCTGTAGTACTTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTTGCAA-TCTGTTAGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGTTACATtggtgagagtgatatctatttgatgggatttggcagggaccataggttgatt Alignment from Spaln_aa2Genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG catgtcacaggtttacaatgctcttaggccccatgtcctttaatctatagAGCTGTCGGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGGGTCGCAGCTGTAGTACTTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTTGCAATCTGTTAGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGTTACATTGgtgagagtgatatctatttgatgggatttggcagggaccataggttgatt Alignment from Spaln_nt2Genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCT-GGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG catgtcacaggtttacaatgctcttaggccccatgtcctttaatctatagAGCTGTCGGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGGGTCGCAGCTGTAGTACTTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTTGCAATC-TGTTAGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGTTACATTGgtgagagtgatatctatttgatgggatttggcagggaccataggttgatt Alignment from Pairagon AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGC-TGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG catgtcacaggtttacaatgctcttaggccccatgtcctttaatctatagAGCTGTCGGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGGGTCGCAGCTGTAGTACTTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTTGCAAT-CTGTTAGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGTTACATTGgtgagagtgatatctatttgatgggatttggcagggaccataggttgatt Alignment from Exonerate_protein2genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG catgtcacaggtttacaatgctcttaggccccatgtcctttaatctatagAGCTGTCGGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGGGTCGCAGCTGTAGTACTTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTTGCAATCTGTTAGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGTTACATTGgtgagagtgatatctatttgatgggatttggcagggaccataggttgatt Alignment from Exonerate_coding2genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTGGGTGGAG catgtcacaggtttacaatgctcttaggccccatgtcctttaatctatagAGCTGTCGGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGGGTCGCAGCTGTAGTACTTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTTGCAATCTGTTAGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGTTACATTGGTGAGAGtgatatctatttgatgggatttggcagggaccataggttgatt Alignment from GeneWise AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG catgtcacaggtttacaatgctcttaggccccatgtcctttaatctatagAGCTGTCGGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGGGTCGCAGCTGTAGTACTTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTTGCAATCTGTTAGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGTTACATTGgtgagagtgatatctatttgatgggatttggcagggaccataggttgatt #### Tcirg1_ID170_17 --> 0 - 1 Original Alignment TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGC-CTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCc gtggacagatgttcaacttgttagcttctgcagtaatttcacctttgcagTTTGTCCCATCTGAGATTTTCATGCACCGAGCAATCCACATCATTGAGTTCTGTCCTTGGTTGCATCTCAAACACAGCCTCTTACCTGCGTCTTTGGG-TTTGAGCCTGGCCCATGCAcgttggtgatgttcattgtgtgatgatatgataaaatcccaatgggtagca Alignment from CESAR TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGC-CTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCc gtggacagatgttcaacttgttagcttctgcagtaatttcacctttgcagTTTGTCCCATCTGAGATTTTCATGCACCGAGCAATCCACATCATTGAGTTCTGTCCTTGGTTGCATCTCAAACACAGCCTCTTACCTGCGTCTTTGG-GTTTGAGCCTGGCCCATGCAcgttggtgatgttcattgtgtgatgatatgataaaatcccaatgggtagca Alignment from Spaln_aa2Genome TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGC-CTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC gtggacagatgttcaacttgttagcttctgcagtaatttcacctttgcagTTTGTCCCATCTGAGATTTTCATGCACCGAGCAATCCACATCATTGAGTTCTGTcCTTGGTTGCATCTCAAACACAGCCTCTTACCTGCGTCTTTGGGT-TTGAGCCTGGCCCATGCACgttggtgatgttcattgtgtgatgatatgataaaatcccaatgggtagca Alignment from Spaln_nt2Genome TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTG-CCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC gtggacagatgttcaacttgttagcttctgcagtaatttcacctttgcagTTTGTCCCATCTGAGATTTTCATGCACCGAGCAATCCACATCATTGAGTTCTGTCCTTGGTTGCATCTCAAACACAGCCTCTTACCTGCGTCTTTGGG-TTTGAGCCTGGCCCATGCACgttggtgatgttcattgtgtgatgatatgataaaatcccaatgggtagca Alignment from Pairagon TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTG-CCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC gtggacagatgttcaacttgttagcttctgcagtaatttcacctttgcagTTTGTCCCATCTGAGATTTTCATGCACCGAGCAATCCACATCATTGAGTTCTGTCCTTGGTTGCATCTCAAACACAGCCTCTTACCTGCGTCTTTGGG-TTTGAGCCTGGCCCATGCACgttggtgatgttcattgtgtgatgatatgataaaatcccaatgggtagca Alignment from Exonerate_protein2genome TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGC-CTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTG---GCCCATGCCC gtggacagatgttcaacttgttagcttctgcagtaatttcacctttgcagTTTGTCCCATCTGAGATTTTCATGCACCGAGCAATCCACATCATTGAGTTCTGTCCTTGGTTGCATCTCAAACACAGCCTCTTACCTGCGTCTTTGGGTTTGAGCCTGGCCCATGCACGTTGgtgatgttcattgtgtgatgatatgataaaatcccaatgggtagca Alignment from Exonerate_coding2genome TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGC-CTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTG---GCCCATGCCC gtggacagatgttcaacttgttagcttctgcagtaatttcacctttgcagTTTGTCCCATCTGAGATTTTCATGCACCGAGCAATCCACATCATTGAGTTCTGTCCTTGGTTGCATCTCAAACACAGCCTCTTACCTGCGTCTTTGGGTTTGAGCCTGGCCCATGCACGTTGgtgatgttcattgtgtgatgatatgataaaatcccaatgggtagca Alignment from GeneWise TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGC-CTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC gtggacagatgttcaacttgttagcttctgcagtaatttcacctttgcagTTTGTCCCATCTGAGATTTTCATGCACCGAGCAATCCACATCATTGAGTTCTGTCCTTGGTTGCATCTCAAACACAGCCTCTTACCTGCGTCTTTGGGT-TTGAGCCTGGCCCATGCACgttggtgatgttcattgtgtgatgatatgataaaatcccaatgggtagca #### Tcirg1_ID172_15 --> 0 - 0 Original Alignment GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCT-ACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG agataatgtaactccaattcaacatgcagatttttaaaattaatttttagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTCACTGTCCCTATTCTGCTGCTGGGCACACCATTATACCTCCTAC-TGAGCACCAGCACAGAAGAAACTCCCAAAGACGA---GCAGGCCAACAGgtgaggacatagtgtttgggctaagtgctgacacatgtaacctcttcttc Alignment from CESAR GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCT-ACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG agataatgtaactccaattcaacatgcagatttttaaaattaatttttagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTCACTGTCCCTATTCTGCTGCTGGGCACACCATTATACCTCCTA-CTGAGCACCAGCACAGAAGAAACTCCCAAAGACGA---GCAGGCCAACAGgtgaggacatagtgtttgggctaagtgctgacacatgtaacctcttcttc Alignment from Spaln_aa2Genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCT-ACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG agataatgtaactccaattcaacatgcagatttttaaaattaatttttagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTcACTGTCCCTATTCTGCTGCTGGGCACACCATTATACCTCCTACT-GAGCACCAGCACAGAAGAAACTCCCAAAGACGA---GCAGGCCAACAGgtgaggacatagtgtttgggctaagtgctgacacatgtaacctcttcttc Alignment from Spaln_nt2Genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCT-ACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG agataatgtaactccaattcaacatgcagatttttaaaattaatttttagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTCACTGTCCCTATTCTGCTGCTGGGCACACCATTATACCTCCTAC-TGAGCACCAGCACAGAAGAAACTCCCA---AAGACGAGCAGGCCAACAGgtgaggacatagtgtttgggctaagtgctgacacatgtaacctcttcttc Alignment from Pairagon GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCT-ACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG agataatgtaactccaattcaacatgcagatttttaaaattaatttttagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTCACTGTCCCTATTCTGCTGCTGGGCACACCATTATACCTCCTAC-TGAGCACCAGCACAGAAGAAACTCCCA---AAGACGAGCAGGCCAACAGgtgaggacatagtgtttgggctaagtgctgacacatgtaacctcttcttc Alignment from Exonerate_protein2genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG agataatgtaactccaattcaacatgcagatttttaaaattaatttttagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTCACTGTCCCTATTCTGCTGCTGGGCACACCATTATACCTCCTACTGAGCACCAGCACAGAAGAAACTCCCAAAGACGA---GCAGGCCAACAGgtgaggacatagtgtttgggctaagtgctgacacatgtaacctcttcttc Alignment from Exonerate_coding2genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG agataatgtaactccaattcaacatgcagatttttaaaattaatttttagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTCACTGTCCCTATTCTGCTGCTGGGCACACCATTATACCTCCTACTGAGCACCAGCACAGAAGAAACTCCCAAAGACGA---GCAGGCCAACAGgtgaggacatagtgtttgggctaagtgctgacacatgtaacctcttcttc Alignment from GeneWise GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG agataatgtaactccaattcaacatgcagatttttaaaattaatttttagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTCACTGTCCCTATTCTGCTGCTGGGCACACCATTATACCTCCTACTGAGCACCAGCACAGAAGAAACTCCCAAAGACGA---GCAGGCCAACAGgtgaggacatagtgtttgggctaagtgctgacacatgtaacctcttcttc #### Tcirg1_ID173_14 --> 1 - 0 Original Alignment gCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCT-GAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG agtcttgcctcatcctgatgggaataattcagtgccctcttgttttgcaggCACTTTGGCCAGGCCCACAGGCTGCTGCTTGGGACGTTGTCACGAGCTCATCTTCCTCCTGGGCCTC------TATCTGGTGC-CCTGATTGTCTACAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCC------ATTATCCACTTCATCAAT---TTCCTCTTCTCCCAGAACCCC---AATCATCTGCTGTTCCATGGGCAGgtgagaagtgcgtgaccctgtcatcagggttgttctagtgtcatatagca Alignment from CESAR gCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCT-GAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG agtcttgcctcatcctgatgggaataattcagtgccctcttgttttgcaggCACTTTGGCCAGGCCCACAGGCTGCTGCTTGGGACGTTGTCACGAGCTCATCTTCCTCCTGGGCCTC------TATCTGGTG-CCCTGATTGTCTACAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCC------ATTATCCACTTCATCAAT---TTCCTCTTCTCCCAGAACCCC---AATCATCTGCTGTTCCATGGGCAGgtgagaagtgcgtgaccctgtcatcagggttgttctagtgtcatatagca Alignment from Spaln_aa2Genome GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCT-GAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG agtcttgcctcatcctgatgggaataattcagtgccctcttgttttgcagGCACTTTGGCCAGGCCCACAGGCTGCTGCTTGGGACGTTGTCAcGAGCTCATCTTCCTCCTGGGCCTC------TATCTGGTGCC-CTGATTGTCTACAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCC------ATTATCCACTTCATCAAT---TTCCTCTTCTCCCAGAACCCC---AATCATCTGCTGTTCCATGGGCAGgtgagaagtgcgtgaccctgtcatcagggttgttctagtgtcatatagca Alignment from Spaln_nt2Genome GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCT-GAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG agtcttgcctcatcctgatgggaataattcagtgccctcttgttttgcagGCACTTTGGCCAGGCCCACAGGCTGCTGCTTGGGACGTTGTCACGAGCTCATCTTCCTCCTGGGCCT------CTATCTGGTG-CCCTGATTGTCTACAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCCATTATC------CACTTCATCAAT---TTCCTCTTCTCCCAGAACC---CCAATCATCTGCTGTTCCATGGGCAGgtgagaagtgcgtgaccctgtcatcagggttgttctagtgtcatatagca Alignment from Pairagon GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCC-TGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG agtcttgcctcatcctgatgggaataattcagtgccctcttgttttgcagGCACTTTGGCCAGGCCCACAGGCTGCTGCTTGGGACGTTGTCACGAGCTCATCTTCCTCCTGGGCCT------CTATCTGGTG-CCCTGATTGTCTACAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCCATTATC------CACTTCATCAAT---TTCCTCTTCTCCCAGAACC---CCAATCATCTGCTGTTCCATGGGCAGgtgagaagtgcgtgaccctgtcatcagggttgttctagtgtcatatagca Alignment from Exonerate_protein2genome GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG agtcttgcctcatcctgatgggaataattcagtgccctcttgttttgcagGCACTTTGGCCAGGCCCACAGGCTGCTGCTTGGGACGTTGTCACGAGCTCATCTTCCTCCTGGGCCTCTATCTGGTGCC------CTGATTGTCTACAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCC------ATTATCCACTTCATCAAT---TTCCTCTTCTCCCAGAACCCC---AATCATCTGCTGTTCCATGGGCAGgtgagaagtgcgtgaccctgtcatcagggttgttctagtgtcatatagca Alignment from Exonerate_coding2genome GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG agtcttgcctcatcctgatgggaataattcagtgccctcttgttttgcagGCACTTTGGCCAGGCCCACAGGCTGCTGCTTGGGACGTTGTCACGAGCTCATCTTCCTCCTGGGCCTCTATCTGGTGCC------CTGATTGTCTACAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCC------ATTATCCACTTCATCAAT---TTCCTCTTCTCCCAGAACCCC---AATCATCTGCTGTTCCATGGGCAGgtgagaagtgcgtgaccctgtcatcagggttgttctagtgtcatatagca Alignment from GeneWise GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG agtcttgcctcatcctgatgggaataattcagtgccctcttgttttgcagGCACTTTGGCCAGGCCCACAGGCTGCTGCTTGGGACGTTGTCACGAGCTCATCTTCCTCCTGGGCCTCTATCTGGTGCC------CTGATTGTCTACAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCC------ATTATCCACTTCATCAAT---TTCCTCTTCTCCCAGAACCCC---AATCATCTGCTGTTCCATGGGCAGgtgagaagtgcgtgaccctgtcatcagggttgttctagtgtcatatagca #### Tcirg1_ID174_13 --> 0 - 2 Original Alignment ATCTGGAGCCTGGCCACGAACCACCTG-AGCTTTCTCAACTCCTTCAAGATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACgt gccaccagagtgcatgttgcaaagtgttccggtctctctccacttctcagCTCTGCAGTCTGGCCACAAACCACCTGCAGCTTTCTCAACTCTTTCAAGATGAAGACATCAGTCATCC-AGGAGTCACACACATGGCATTTGGGGTCTTCCTCAGCATCTTCAATCAGgtgtaggttaactgatttatgcatgggtggtatgtgcccagtcttgcctcat Alignment from CESAR ATCTGGAGCCTGGCCACGAACCACCTG-AGCTTTCTCAACTCCTTCAAGATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACgt gccaccagagtgcatgttgcaaagtgttccggtctctctccacttctcagCTCTGCAGTCTGGCCACAAACCACCTGCAGCTTTCTCAACTCTTTCAAGATGAAGACATCAGTCATC-CAGGAGTCACACACATGGCATTTGGGGTCTTCCTCAGCATCTTCAATCAGgtgtaggttaactgatttatgcatgggtggtatgtgcccagtcttgcctcat Alignment from Spaln_aa2Genome ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACGT gccaccagagtgcatgttgcaaagtgttccggtctctctccacttctcagCTCTGCAGTCTGGCCACAAACCACCTGCAGCTTTCTCAACTCTTTCAAGATGAAGACATCAGTCATCCAGGAGTCACACACATGGCATTTGGGGTCTTCCTCAGCATCTTCAATCAGGTgtaggttaactgatttatgcatgggtggtatgtgcccagtcttgcctcat Alignment from Spaln_nt2Genome ATCTGGAGCCTGGCCACGAACCACCTG-AGCTTTCTCAACTCCTTCAAGATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACGT gccaccagagtgcatgttgcaaagtgttccggtctctctccacttctcagCTCTGCAGTCTGGCCACAAACCACCTGCAGCTTTCTCAACTCTTTCAAGATGAAGACATCAGTCATCC-AGGAGTCACACACATGGCATTTGGGGTCTTCCTCAGCATCTTCAATCAGGTgtaggttaactgatttatgcatgggtggtatgtgcccagtcttgcctcat Alignment from Pairagon ATCTGGAGCCTGGCCACGAACCACCTG-AGCTTTCTCAACTCCTTCAAGATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACGT gccaccagagtgcatgttgcaaagtgttccggtctctctccacttctcagCTCTGCAGTCTGGCCACAAACCACCTGCAGCTTTCTCAACTCTTTCAAGATGAAGACATCAGTCATCC-AGGAGTCACACACATGGCATTTGGGGTCTTCCTCAGCATCTTCAATCAGGTgtaggttaactgatttatgcatgggtggtatgtgcccagtcttgcctcat Alignment from Exonerate_protein2genome ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACGT gccaccagagtgcatgttgcaaagtgttccggtctctctccacttctcagCTCTGCAGTCTGGCCACAAACCACCTGCAGCTTTCTCAACTCTTTCAAGATGAAGACATCAGTCATCCAGGAGTCACACACATGGCATTTGGGGTCTTCCTCAGCATCTTCAATCAGGTgtaggttaactgatttatgcatgggtggtatgtgcccagtcttgcctcat Alignment from Exonerate_coding2genome ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACGT gccaccagagtgcatgttgcaaagtgttccggtctctctccacttctcagCTCTGCAGTCTGGCCACAAACCACCTGCAGCTTTCTCAACTCTTTCAAGATGAAGACATCAGTCATCCAGGAGTCACACACATGGCATTTGGGGTCTTCCTCAGCATCTTCAATCAGGTgtaggttaactgatttatgcatgggtggtatgtgcccagtcttgcctcat Alignment from GeneWise ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACGT gccaccagagtgcatgttgcaaagtgttccggtctctctccacttctcagCTCTGCAGTCTGGCCACAAACCACCTGCAGCTTTCTCAACTCTTTCAAGATGAAGACATCAGTCATCCAGGAGTCACACACATGGCATTTGGGGTCTTCCTCAGCATCTTCAATCAGGTgtaggttaactgatttatgcatgggtggtatgtgcccagtcttgcctcat #### Tcirg1_ID179_8 --> 0 - 0 Original Alignment AGCTTCAGGAA GTCCTGGGGGAGACAGACCGGTTCCTG-AGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTCTGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA AACTTCAAGAGgtgaggtcctcaaggattcattctttcctgtgatcccagGTCCTAGGGGAGACAGACCGGTTCTTACAGTCAAGTGCTTGGGCGAGTGCAGCAATTACTTCCCC-ATGGCAGGTGCAGATCCATAAGATGAAAGCTGTCTACCTAACCCTCAATTCTTGCAGTGTTAACACCACACACAAGTGCCTCATTACAGAGGTGTGGTCTGCTGCACGAGACCTACCTACAGTGCAACAGGCCTTACAAAGTGGCTCAgtaagtgtccagggccttattgaagtacccattaagcaagagaggatcca Alignment from CESAR AGCTTCAGGAA GTCCTGGGGGAGACAGACCGGTTCCTG-AGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTCTGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA AACTTCAAGAGgtaggttcctcaaggattcattctttcctgtgatcccagGTCCTAGGGGAGACAGACCGGTTCTTACAGTCAAGTGCTTGGGCGAGTGCAGCAATTACTTC-CCCATGGCAGGTGCAGATCCATAAGATGAAAGCTGTCTACCTAACCCTCAATTCTTGCAGTGTTAACACCACACACAAGTGCCTCATTACAGAGGTGTGGTCTGCTGCACGAGACCTACCTACAGTGCAACAGGCCTTACAAAGTGGCTCAgtaagtgtccagggccttattgaagtacccattaagcaagagaggatcca Alignment from Spaln_aa2Genome AGCTTCAGGAA GTCCTGGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTCTGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA AACTTCAAGAGgtgaggtcctcaaggattcattctttcctgtgatcccagGTCCTAGGGGAGACAGACCGGTTCTTACAGTCAAGTGCTTGGGCGAGTGCAGCAATTACTTCCCCATGGCAGGTGCAGATCCATAAGATGAAAGCTGTCTACCTAACCCTCAATTCTTGCAGTGTTAACACCACACACAAGTGCCTCATTACAGAGGTGTGGTCTGCTGCACGAGACCTACCTACAGTGCAACAGGCCTTACAAAGTGGCTCAgtaagtgtccagggccttattgaagtacccattaagcaagagaggatcca Alignment from Spaln_nt2Genome AGCTTCAGGAA GTCCTGGGGGAGACAGACCGGTTCCTG-AGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTCTGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA AACTTCAAGAGgtgaggtcctcaaggattcattctttcctgtgatcccagGTCCTAGGGGAGACAGACCGGTTCTTACAGTCAAGTGCTTGGGCGAGTGCAGCAATTACT-TCCCCATGGCAGGTGCAGATCCATAAGATGAAAGCTGTCTACCTAACCCTCAATTCTTGCAGTGTTAACACCACACACAAGTGCCTCATTACAGAGGTGTGGTCTGCTGCACGAGACCTACCTACAGTGCAACAGGCCTTACAAAGTGGCTCAgtaagtgtccagggccttattgaagtacccattaagcaagagaggatcca Alignment from Pairagon AGCTTCAGGAA GTCCTGGGGGAGACAGACCGGTTCCTG-AGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTCTGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA AACTTCAAGAGgtgaggtcctcaaggattcattctttcctgtgatcccagGTCCTAGGGGAGACAGACCGGTTCTTACAGTCAAGTGCTTGGGCGAGTGCAGCAATTACT-TCCCCATGGCAGGTGCAGATCCATAAGATGAAAGCTGTCTACCTAACCCTCAATTCTTGCAGTGTTAACACCACACACAAGTGCCTCATTACAGAGGTGTGGTCTGCTGCACGAGACCTACCTACAGTGCAACAGGCCTTACAAAGTGGCTCAgtaagtgtccagggccttattgaagtacccattaagcaagagaggatcca Alignment from Exonerate_protein2genome AGCTTCAGGAA GTCCTGGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTCTGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA AACTTCAAGAGgtgaggtcctcaaggattcattctttcctgtgatcccagGTCCTAGGGGAGACAGACCGGTTCTTACAGTCAAGTGCTTGGGCGAGTGCAGCAATTACTTCCCCATGGCAGGTGCAGATCCATAAGATGAAAGCTGTCTACCTAACCCTCAATTCTTGCAGTGTTAACACCACACACAAGTGCCTCATTACAGAGGTGTGGTCTGCTGCACGAGACCTACCTACAGTGCAACAGGCCTTACAAAGTGGCTCAgtaagtgtccagggccttattgaagtacccattaagcaagagaggatcca Alignment from Exonerate_coding2genome AGCTTCAGGAA GTCCTGGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTCTGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA AACTTCAAGAGgtgaggtcctcaaggattcattctttcctgtgatcccagGTCCTAGGGGAGACAGACCGGTTCTTACAGTCAAGTGCTTGGGCGAGTGCAGCAATTACTTCCCCATGGCAGGTGCAGATCCATAAGATGAAAGCTGTCTACCTAACCCTCAATTCTTGCAGTGTTAACACCACACACAAGTGCCTCATTACAGAGGTGTGGTCTGCTGCACGAGACCTACCTACAGTGCAACAGGCCTTACAAAGTGGCTCAgtaagtgtccagggccttattgaagtacccattaagcaagagaggatcca Alignment from GeneWise AGCTTCAGGAA GTCCTGGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTCTGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA AACTTCAAGAGgtgaggtcctcaaggattcattctttcctgtgatcccagGTCCTAGGGGAGACAGACCGGTTCTTACAGTCAAGTGCTTGGGCGAGTGCAGCAATTACTTCCCCATGGCAGGTGCAGATCCATAAGATGAAAGCTGTCTACCTAACCCTCAATTCTTGCAGTGTTAACACCACACACAAGTGCCTCATTACAGAGGTGTGGTCTGCTGCACGAGACCTACCTACAGTGCAACAGGCCTTACAAAGTGGCTCAgtaagtgtccagggccttattgaagtacccattaagcaagagaggatcca #### Tcirg1_ID180_7 --> 1 - 0 Original Alignment cTTCCACTGTCATGTC-TTCCCATACCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GTCCTGGGGGA gtccataatcctgaacttcaataccagactttgtcttcccctaaactcagcTTTCACTGCCATGTCCTTCTCATATCTGGAACAGGAGGAAGCCC-GTTTAGGACCTCACAGCAGTTACAGCAGCAGAGCCAGGAACTTCAAGAGgtaggttcctcaaggattgcctttccctctcctcattagGTCCTAGGGGA Alignment from CESAR cTTCCACTGTCATGTC-TTCCCATACCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GTCCTGGGGGA gtccataatcctgaacttcaataccagactttgtcttcccctaaactcagcTTTCACTGCCATGTCCTTCTCATATCTGGAACAGGAGGAAGCCC-GTTTAGGACCTCACAGCAGTTACAGCAGCAGAGCCAGGAACTTCAAGAGgtaggttcctcaaggattcattctttcctgtgatcccagGTCCTAGGGGA Alignment from Spaln_aa2Genome CTTCCACTGTCATGTC-TTCCCATACCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GTCCTGGGGGA gtccataatcctgaacttcaataccagactttgtcttcccctaaactcagCTTTCACTGCCATGTCcTTCTCATATCTGGAACAGGAGGAAGCCCG-TTTAGGACCTCACAGCAGTTACAGCAGCAGAGCCAGGAACTTCAAGAGgtaggttcctcaaggattgcctttccctctcctcattagGTCCTAGGGGA Alignment from Spaln_nt2Genome CTTCCACTGTCATGTC-TTCCCATACCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GTCCTGGGGGA gtccataatcctgaacttcaataccagactttgtcttcccctaaactcagCTTTCACTGCCATGTCCTTCTCATATCTGGAACAGGAGGAAGCCC-GTTTAGGACCTCACAGCAGTTACAGCAGCAGAGCCAGGAACTTCAAGAGgtaggttcctcaaggattgcctttccctctcctcattagGTCCTAGGGGA Alignment from Pairagon CTTCCACTGTCATGT-CTTCCCATACCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GTCCTGGGGGA gtccataatcctgaacttcaataccagactttgtcttcccctaaactcagCTTTCACTGCCATGTCCTTCTCATATCTGGAACAGGAGGAAGCCC-GTTTAGGACCTCACAGCAGTTACAGCAGCAGAGCCAGGAACTTCAAGAGgtaggttcctcaaggattgcctttccctctcctcattagGTCCTAGGGGA Alignment from Exonerate_protein2genome CTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GTCCTGGGGGA gtccataatcctgaacttcaataccagactttgtcttcccctaaactcagCTTTCACTGCCATGTCCTTCTCATATCTGGAACAGGAGGAAGCCCGTTTAGGACCTCACAGCAGTTACAGCAGCAGAGCCAGGAACTTCAAGAGgtaggttcctcaaggattgcctttccctctcctcattagGTCCTAGGGGA Alignment from Exonerate_coding2genome CTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GTCCTGGGGGA gtccataatcctgaacttcaataccagactttgtcttcccctaaactcagCTTTCACTGCCATGTCCTTCTCATATCTGGAACAGGAGGAAGCCCGTTTAGGACCTCACAGCAGTTACAGCAGCAGAGCCAGGAACTTCAAGAGgtaggttcctcaaggattgcctttccctctcctcattagGTCCTAGGGGA Alignment from GeneWise CTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GTCCTGGGGGA gtccataatcctgaacttcaataccagactttgtcttcccctaaactcagCTTTCACTGCCATGTCCTTCTCATATCTGGAACAGGAGGAAGCCCGTTTAGGACCTCACAGCAGTTACAGCAGCAGAGCCAGGAACTTCAAGAGgtaggttcctcaaggattgcctttccctctcctcattagGTCCTAGGGGA #### Tcirg1_ID182_5 --> 1 - 0 Original Alignment tTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTG-GAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aggaagggagagttgaaaggagtctgcatctttggaccacccctctacagcTTTGTGGCAGGTGCAGTGGAGCCCTACAAGGCAGCAGCCTTACGAGCGCCTGTTGTGGAGAGCGTGCCGTGGCTTTC-CATTGCTAGCTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGGCAgtaagtgtaaaggcaggactcttctctttcttcctccctcagGGTGAACC Alignment from CESAR tTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTG-GAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aggaagggagagttgaaaggagtctgcatctttggaccacccctctacagcTTTGTGGCAGGTGCAGTGGAGCCCTACAAGGCAGCAGCCTTACGAGCGCCTGTTGTGGAGAGCGTGCCGTGGCTTT-CCATTGCTAGCTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGGCAgtaagtgtaaaggcaggactagtgtctccctctcttccctagGGTGAACC Alignment from Spaln_aa2Genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aggaagggagagttgaaaggagtctgcatctttggaccacccctctacagCTTTGTGGCAGGTGCAGTGGAGCCCTACAAGGCAGCAGCCTTACGAGCGCCTGTTGTGGAGAGCGTGCCGTGGCTTTCCATTGCTAGCTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGGCAgtaagtgtaaaggcaggactcttctctttcttcctccctcagGGTGAACC Alignment from Spaln_nt2Genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTG-GAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aggaagggagagttgaaaggagtctgcatctttggaccacccctctacagCTTTGTGGCAGGTGCAGTGGAGCCCTACAAGGCAGCAGCCTTACGAGCGCCTGTTGTGGAGAGCGTGCCGTGGCTTTC-CATTGCTAGCTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGGCAgtaagtgtaaaggcaggactcttctctttcttcctccctcagGGTGAACC Alignment from Pairagon TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTG-GAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aggaagggagagttgaaaggagtctgcatctttggaccacccctctacagCTTTGTGGCAGGTGCAGTGGAGCCCTACAAGGCAGCAGCCTTACGAGCGCCTGTTGTGGAGAGCGTGCCGTGGCTTTC-CATTGCTAGCTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGGCAgtaagtgtaaaggcaggactcttctctttcttcctccctcagGGTGAACC Alignment from Exonerate_protein2genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTG-GAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTC--CTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aggaagggagagttgaaaggagtctgcatctttggaccacccctctacagCTTTGTGGCAGGTGCAGTGGAGCCCTACAAGGCAGCAGCCTTACGAGCGCCTGTTGTGGAGAGCGTGCCGTGGCTTTCC---ATTGCTAGCTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGGCAgtaagtgtaaaggcaggactcttctctttcttcctccctcagGGTGAACC Alignment from Exonerate_coding2genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTG-GAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTC--CTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aggaagggagagttgaaaggagtctgcatctttggaccacccctctacagCTTTGTGGCAGGTGCAGTGGAGCCCTACAAGGCAGCAGCCTTACGAGCGCCTGTTGTGGAGAGCGTGCCGTGGCTTTCC---ATTGCTAGCTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGGCAgtaagtgtaaaggcaggactcttctctttcttcctccctcagGGTGAACC Alignment from GeneWise TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG------------------------------------------GGTGAGCC aggaagggagagttgaaaggagtctgcatctttggaccacccctctacagCTTTGTGGCAGGTGCAGTGGAGCCCTACAAGGCAGCAGCCTTACGAGCGCCTGTTGTGGAGAGCGTGCCGTGGCTTTCCATTGCTAGCTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGGCAGTAAGTGTAAAGGCAGGACTCTTCTCTTTCTTCCTCCCTCAGGGTGAACC #### Tcirg1_ID183_4 --> 0 - 2 Original Alignment GTGGCAGCTGACCATACTGAAGGACCCTTC-TCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCaa catacaacctcactgtgtacatgtcggttggtcatttttgtttttttcagGTGGCAGCTGACCATACTGAAGGTCCTCTCCTCAGAGACAACACCCCTTCTTCCAGGCACACGGGGTCCACATT-TGACCTGAAAGTTaagtaacttgaggcatccaagctttcttggcattctcacattcacactctgt Alignment from CESAR GTGGCAGCTGACCATACTGAAGGACCCTTC-TCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCaa catacaacctcactgtgtacatgtcggttggtcatttttgtttttttcagGTGGCAGCTGACCATACTGAAGGTCCTCTCCTCAGAGACAACACCCCTTCTTCCAGGCACACGGGGTCCACAT-TTGACCTGAAAGTTaagtaacttgaggcatccaagctttcttggcattctcacattcacactctgt Alignment from Spaln_aa2Genome GTGGCAGCTGACCATACTGAAGGACCCTTC-TCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA catacaacctcactgtgtacatgtcggttggtcatttttgtttttttcagGTGGCAGCTGACCATACTGAAGGTCCTCTCcTCAGAGACAACACCCCTTCTTCCAGGCACACGGGGTCCACATTT-GACCTGAAAGTTAAgtaacttgaggcatccaagctttcttggcattctcacattcacactctgt Alignment from Spaln_nt2Genome GTGGCAGCTGACCATACTGAAGGACC-CTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA catacaacctcactgtgtacatgtcggttggtcatttttgtttttttcagGTGGCAGCTGACCATACTGAAGGTCCTCTCCTCAGAGACAACACCCCTTCTTCCAGGCACACGGGGTCCACATT-TGACCTGAAAGTTAAgtaacttgaggcatccaagctttcttggcattctcacattcacactctgt Alignment from Pairagon GTGGCAGCTGACCATACTGAAGGACC-CTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA catacaacctcactgtgtacatgtcggttggtcatttttgtttttttcagGTGGCAGCTGACCATACTGAAGGTCCTCTCCTCAGAGACAACACCCCTTCTTCCAGGCACACGGGGTCCACATTT-GACCTGAAAGTTAAgtaacttgaggcatccaagctttcttggcattctcacattcacactctgt Alignment from Exonerate_protein2genome GTGGCAGCTGACCATACTGAAGGACCCTTC-TCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCA catacaacctcactgtgtacatgtcggttggtcatttttgtttttttcagGTGGCAGCTGACCATACTGAAGGTCCTCTCCTCAGAGACAACACCCCTTCTTCCAGGCACACGGGGTCCACATTTGACCTGAAAGTTAAgtaacttgaggcatccaagctttcttggcattctcacattcacactctgt Alignment from Exonerate_coding2genome GTGGCAGCTGACCATACTGAAGGACCCTTC-TCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCA catacaacctcactgtgtacatgtcggttggtcatttttgtttttttcagGTGGCAGCTGACCATACTGAAGGTCCTCTCCTCAGAGACAACACCCCTTCTTCCAGGCACACGGGGTCCACATTTGACCTGAAAGTTAAgtaacttgaggcatccaagctttcttggcattctcacattcacactctgt Alignment from GeneWise GTGGCAGCTGACCATACTGAAGGACCC-TTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA catacaacctcactgtgtacatgtcggttggtcatttttgtttttttcagGTGGCAGCTGACCATACTGAAGGTCCTCTCCTCAGAGACAACACCCCTTCTTCCAGGCACACGGGGTCCACATTT-GACCTGAAAGTTAAgtaacttgaggcatccaagctttcttggcattctcacattcacactctgt #### Tcirg1_ID184_3 --> 2 - 0 Original Alignment ccTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAG-CAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG gcttgaccatgtggaatttcttctggtccatattaacaatttcactacagccTTCTTGAAAGAGGAAGTGCCCTGGGCTAGTCTAACCCTTGCCCCACCTGAGGGTACATTACCAGCACCACCTCCAAGGGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGTAATCAGCGAGGCACTGCAGGCTCAGCTGCACCATTTACGACTATATTCAT-TGTGCTAGGCCAGAGCCACAGCCCACCAgtaagctcctagtcaaaagagccccagtccaccagtttgctcttagttgg Alignment from CESAR ccTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAG-CAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG gcttgaccatgtggaatttcttctggtccatattaacaatttcactacagccTTCTTGAAAGAGGAAGTGCCCTGGGCTAGTCTAACCCTTGCCCCACCTGAGGGTACATTACCAGCACCACCTCCAAGGGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGTAATCAGCGAGGCACTGCAGGCTCAGCTGCACCATTTACGACTATATTCA-TTGTGCTAGGCCAGAGCCACAGCCCACCAgtaagctcctagtcaaaagagccccagtccaccagtttgctcttagttgg Alignment from Spaln_aa2Genome CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG gcttgaccatgtggaatttcttctggtccatattaacaatttcactacagCCTTCTTGAAAGAGGAAGTGCCCTGGGCTAGTCTAACCCTTGCCCCACCTGAGGGTACATTACCAGCACCACCTCCAAGGGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGTAATCAGCGAGGCACTGCAGGCTCAGCTGCACCATTTACGACTATATTCATTGTGCTAGGCCAGAGCCACAGCCCACCAgtaagctcctagtcaaaagagccccagtccaccagtttgctcttagttgg Alignment from Spaln_nt2Genome CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGC-AGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG gcttgaccatgtggaatttcttctggtccatattaacaatttcactacagCCTTCTTGAAAGAGGAAGTGCCCTGGGCTAGTCTAACCCTTGCCCCACCTGAGGGTACATTACCAGCACCACCTCCAAGGGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGTAATCAGCGAGGCACTGCAGGCTCAGCTGCACCATTTACGACTATATTC-ATTGTGCTAGGCCAGAGCCACAGCCCACCAgtaagctcctagtcaaaagagccccagtccaccagtttgctcttagttgg Alignment from Pairagon CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGC-AGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCT-----------------GTGCTGGGCCAGAGCCACAGCCCGCCG gcttgaccatgtggaatttcttctggtccatattaacaatttcactacagCCTTCTTGAAAGAGGAAGTGCCCTGGGCTAGTCTAACCCTTGCCCCACCTGAGGGTACATTACCAGCACCACCTCCAAGGGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGTAATCAGCGAGGCACTGCAGGCTCAGCTGCACCA------------------TTTACGACTATATTCATTGTGCTAGGCCAGAGCCACAGCCCACCAgtaagctcctagtcaaaagagccccagtccaccagtttgctcttagttgg Alignment from Exonerate_protein2genome CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG gcttgaccatgtggaatttcttctggtccatattaacaatttcactacagCCTTCTTGAAAGAGGAAGTGCCCTGGGCTAGTCTAACCCTTGCCCCACCTGAGGGTACATTACCAGCACCACCTCCAAGGGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGTAATCAGCGAGGCACTGCAGGCTCAGCTGCACCATTTACGACTATATTCATTGTGCTAGGCCAGAGCCACAGCCCACCAgtaagctcctagtcaaaagagccccagtccaccagtttgctcttagttgg Alignment from Exonerate_coding2genome CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG gcttgaccatgtggaatttcttctggtccatattaacaatttcactacagCCTTCTTGAAAGAGGAAGTGCCCTGGGCTAGTCTAACCCTTGCCCCACCTGAGGGTACATTACCAGCACCACCTCCAAGGGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGTAATCAGCGAGGCACTGCAGGCTCAGCTGCACCATTTACGACTATATTCATTGTGCTAGGCCAGAGCCACAGCCCACCAgtaagctcctagtcaaaagagccccagtccaccagtttgctcttagttgg Alignment from GeneWise CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG gcttgaccatgtggaatttcttctggtccatattaacaatttcactacagCCTTCTTGAAAGAGGAAGTGCCCTGGGCTAGTCTAACCCTTGCCCCACCTGAGGGTACATTACCAGCACCACCTCCAAGGGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGTAATCAGCGAGGCACTGCAGGCTCAGCTGCACCATTTACGACTATATTCATTGTGCTAGGCCAGAGCCACAGCCCACCAgtaagctcctagtcaaaagagccccagtccaccagtttgctcttagttgg #### Tcirg1_ID185_2 --> 0 - 1 Original Alignment CTCAACGAATCCGTG-AGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTa agaaggtaccaggcactgccacagtggttgtcaatcttttcaaactgtagTTCAATGAGTCTGTACAGTGCATTCCAGAGACGCTTTGTGGTAGATGTGCAGCACT-TGAGGAGCTGGACAAGACATTTagtgagatgtcctcagcggatttgggatgacagagtgtactttgtttgccc Alignment from CESAR CTCAACGAATCCGTG-AGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTa agaaggtaccaggcactgccacagtggttgtcaatcttttcaaactgtagTTCAATGAGTCTGTACAGTGCATTCCAGAGACGCTTTGTGGTAGATGTGCAGCAC-TTGAGGAGCTGGACAAGACATTTagtgagatgtcctcagcggatttgggatgacagagtgtactttgtttgccc Alignment from Spaln_aa2Genome CTCAACGAATCCGTG-AGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTA agaaggtaccaggcactgccacagtggttgtcaatcttttcaaactgtagTTCAATGAGTCTGTAcAGTGCATTCCAGAGACGCTTTGTGGTAGATGTGCAGCACTT-GAGGAGCTGGACAAGACATTTAgtgagatgtcctcagcggatttgggatgacagagtgtactttgtttgccc Alignment from Spaln_nt2Genome CTCAACGAATCCGTG-AGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTA agaaggtaccaggcactgccacagtggttgtcaatcttttcaaactgtagTTCAATGAGTCTGTACAGTGCATTCCAGAGACGCTTTGTGGTAGATGTGCAGCACT-TGAGGAGCTGGACAAGACATTTAgtgagatgtcctcagcggatttgggatgacagagtgtactttgtttgccc Alignment from Pairagon CTCAACGAATCCGTG-AGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTA agaaggtaccaggcactgccacagtggttgtcaatcttttcaaactgtagTTCAATGAGTCTGTACAGTGCATTCCAGAGACGCTTTGTGGTAGATGTGCAGCACT-TGAGGAGCTGGACAAGACATTTAgtgagatgtcctcagcggatttgggatgacagagtgtactttgtttgccc Alignment from Exonerate_protein2genome CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTA agaaggtaccaggcactgccacagtggttgtcaatcttttcaaactgtagTTCAATGAGTCTGTACAGTGCATTCCAGAGACGCTTTGTGGTAGATGTGCAGCACTTGAGGAGCTGGACAAGACATTTAgtgagatgtcctcagcggatttgggatgacagagtgtactttgtttgccc Alignment from Exonerate_coding2genome CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTA agaaggtaccaggcactgccacagtggttgtcaatcttttcaaactgtagTTCAATGAGTCTGTACAGTGCATTCCAGAGACGCTTTGTGGTAGATGTGCAGCACTTGAGGAGCTGGACAAGACATTTAgtgagatgtcctcagcggatttgggatgacagagtgtactttgtttgccc Alignment from GeneWise agaaggtaccaggcactgccacagtggttgtcaatcttttcaaactgtagttcaatgagtctgtacagtgcattccagagacgctttgtggtagatgtgcagcacttgaggagctggacaagacatttagtgagatgtcctcagcggatttgggatgacagagtgtactttgtttgccc #### Tctn3_ID7992_9 --> 0 - 0 Original Alignment GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAA-GTCTCTGTCAGCTTCCGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG caggtgcccatgctctctttgttaaggagtatttttttttcctgcttcagGTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATACAGAAACGTCTCTGTCAGCTTCCGACAGACAAACCTGACAG-CAAGCCAGGGGTCTCCTTACAGCAAGACTTCATTGTTCACTTCAGAgtaagtactcctctctttgggatggaaccaagatccagtgcacaaaatga Alignment from CESAR GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAA-GTCTCTGTCAGCTTCCGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG caggtgcccatgctctctttgttaaggagtatttttttttcctgcttcagGTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATACAGAAACGTCTCTGTCAGCTTCCGACAGACAAACCTGACA-GCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATTGTTCACTTCAGAgtaagtactcctctctttgggatggaaccaagatccagtgcacaaaatga Alignment from Spaln_aa2Genome GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAAGTCTCTGTCAGCTTCCGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG caggtgcccatgctctctttgttaaggagtatttttttttcctgcttcagGTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATACAGAAACGTCTCTGTCAGCTTCCGACAGACAAACCTGACAGCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATTGTTCACTTCAGAgtaagtactcctctctttgggatggaaccaagatccagtgcacaaaatga Alignment from Spaln_nt2Genome GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAA-GTCTCTGTCAGCTTCCGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG caggtgcccatgctctctttgttaaggagtatttttttttcctgcttcagGTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATACAGAAACGTCTCTGTCAGCTTCCGACAGACAAACCTGACAG-CAAGCCAGGGGTCTCCTTACAGCAAGACTTCATTGTTCACTTCAGAgtaagtactcctctctttgggatggaaccaagatccagtgcacaaaatga Alignment from Pairagon GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAA-GTCTCTGTCAGCTTCCGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG caggtgcccatgctctctttgttaaggagtatttttttttcctgcttcagGTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATACAGAAACGTCTCTGTCAGCTTCCGACAGACAAACCTGACAG-CAAGCCAGGGGTCTCCTTACAGCAAGACTTCATTGTTCACTTCAGAgtaagtactcctctctttgggatggaaccaagatccagtgcacaaaatga Alignment from Exonerate_protein2genome GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAAGTCTCTGTCAGCTTCCGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG caggtgcccatgctctctttgttaaggagtatttttttttcctgcttcagGTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATACAGAAACGTCTCTGTCAGCTTCCGACAGACAAACCTGACAGCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATTGTTCACTTCAGAgtaagtactcctctctttgggatggaaccaagatccagtgcacaaaatga Alignment from Exonerate_coding2genome GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAAGTCTCTGTCAGCTTCCGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG caggtgcccatgctctctttgttaaggagtatttttttttcctgcttcagGTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATACAGAAACGTCTCTGTCAGCTTCCGACAGACAAACCTGACAGCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATTGTTCACTTCAGAgtaagtactcctctctttgggatggaaccaagatccagtgcacaaaatga Alignment from GeneWise ---GTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAAGTCTCTGTCAGCTTCCGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG caggtgcccatgctctctttgttaaggagtatttttttttcctgcttcagGTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATACAGAAACGTCTCTGTCAGCTTCCGACAGACAAACCTGACAGCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATTGTTCACTTCAGAgtaagtactcctctctttgggatggaaccaagatccagtgcacaaaatga #### Tctn3_ID7996_5 --> 0 - 1 Original Alignment GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTG-AGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAg gccgcttaaagataccattttttctgttcagcctgttgtttattctgtagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTGCAGCTTACTAAGACAACCTGCAGCTGTAGGAG-TGGCGGACTTTGTGCAGAGAGCAACCCAGCAggtaatttatgtgtatgctggctcttgtatcctctagcgatgttttctcag Alignment from CESAR GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTG-AGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAg gccgcttaaagataccattttttctgttcagcctgttgtttattctgtagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTGCAGCTTACTAAGACAACCTGCAGCTGTAGGAG-TGGCGGACTTTGTGCAGAGAGCAACCCAGCAggtaatttatgtgtatgctggctcttgtatcctctagcgatgttttctcag Alignment from Spaln_aa2Genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAG gccgcttaaagataccattttttctgttcagcctgttgtttattctgtagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTGCAGCTTACTAAGACAACCTGCAGCTGTAGGAGTGGCGGACTTTGTGCAGAGAGCAACCCAGCAGgtaatttatgtgtatgctggctcttgtatcctctagcgatgttttctcag Alignment from Spaln_nt2Genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTG-AGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAG gccgcttaaagataccattttttctgttcagcctgttgtttattctgtagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTGCAGCTTACTAAGACAACCTGCAGCTGTAGGAG-TGGCGGACTTTGTGCAGAGAGCAACCCAGCAGgtaatttatgtgtatgctggctcttgtatcctctagcgatgttttctcag Alignment from Pairagon GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTG-AGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAG gccgcttaaagataccattttttctgttcagcctgttgtttattctgtagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTGCAGCTTACTAAGACAACCTGCAGCTGTAGGAG-TGGCGGACTTTGTGCAGAGAGCAACCCAGCAGgtaatttatgtgtatgctggctcttgtatcctctagcgatgttttctcag Alignment from Exonerate_protein2genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAG gccgcttaaagataccattttttctgttcagcctgttgtttattctgtagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTGCAGCTTACTAAGACAACCTGCAGCTGTAGGAGTGGCGGACTTTGTGCAGAGAGCAACCCAGCAGgtaatttatgtgtatgctggctcttgtatcctctagcgatgttttctcag Alignment from Exonerate_coding2genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAG gccgcttaaagataccattttttctgttcagcctgttgtttattctgtagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTGCAGCTTACTAAGACAACCTGCAGCTGTAGGAGTGGCGGACTTTGTGCAGAGAGCAACCCAGCAGgtaatttatgtgtatgctggctcttgtatcctctagcgatgttttctcag Alignment from GeneWise GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAG gccgcttaaagataccattttttctgttcagcctgttgtttattctgtagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTGCAGCTTACTAAGACAACCTGCAGCTGTAGGAGTGGCGGACTTTGTGCAGAGAGCAACCCAGCAGgtaatttatgtgtatgctggctcttgtatcctctagcgatgttttctcag #### Tjp2_ID5278_9 --> 1 - 1 Original Alignment cTCAAGAGAGGAGACCTCAGGCAGACTA-TCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAg gttattcagtaaagcattggccatggatactaggattctatcccttctagcTCTAAAGAAGAGACATCAGGCAGACTACTCAAGAATGGGTGCCATGCCCACACCGTTCA-ATACACAGGTGACCTCACAGCTGCTGGAGTTATG---GCCAGTAAGGAGCCAAGGTACCAGCAAAAAGGCCCAggtgagttgttatgctattcttttccatgtatcttacgcataggcaggcta Alignment from CESAR cTCAAGAGAGGAGACCTCAGGCAGACTA-TCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAg gttattcagtaaagcattggccatggatactaggattctatcccttctagcTCTAAAGAAGAGACATCAGGCAGACTACTCAAGAATGGGTGCCATGCCCACACCGTTCAATA-CACAGGTGACCTCACAGCTGCTGGAGTTATG---GCCAGTAAGGAGCCAAGGTACCAGCAAAAAGGCCCAggtgagttgttatgctattcttttccatgtatcttacgcataggcaggcta Alignment from Spaln_aa2Genome CTCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAG gttattcagtaaagcattggccatggatactaggattctatcccttctagCTCTAAAGAAGAGACATCAGGCAGACTACTCAAGAATGGGTGCCATGCCCACACCGTTCAATACACAGGTGACCTCACAGCTGCTGGAGTTATG---GCCAGTAAGGAGCCAAGGTACCAGCAAAAAGGCCCAGgtgagttgttatgctattcttttccatgtatcttacgcataggcaggcta Alignment from Spaln_nt2Genome CTCAAGAGAGGAGACCTCAGGCAGACTA-TCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAG gttattcagtaaagcattggccatggatactaggattctatcccttctagCTCTAAAGAAGAGACATCAGGCAGACTACTCAAGAATGGGTGCCATGCCCACACCGTTCAA-TACACAGGTGACCTCACAGCTGCTGGAGTTA---TGGCCAGTAAGGAGCCAAGGTACCAGCAAAAAGGCCCAGgtgagttgttatgctattcttttccatgtatcttacgcataggcaggcta Alignment from Pairagon CTCAAGAGAGGAGACCTCAGGCAGACTA-TCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAG gttattcagtaaagcattggccatggatactaggattctatcccttctagCTCTAAAGAAGAGACATCAGGCAGACTACTCAAGAATGGGTGCCATGCCCACACCGTTCAA-TACACAGGTGACCTCACAGCTGCTGGAGTTAT---GGCCAGTAAGGAGCCAAGGTACCAGCAAAAAGGCCCAGgtgagttgttatgctattcttttccatgtatcttacgcataggcaggcta Alignment from Exonerate_protein2genome CTCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAG gttattcagtaaagcattggccatggatactaggattctatcccttctagCTCTAAAGAAGAGACATCAGGCAGACTACTCAAGAATGGGTGCCATGCCCACACCGTTCAATACACAGGTGACCTCACAGCTGCTGGAGTTATG---GCCAGTAAGGAGCCAAGGTACCAGCAAAAAGGCCCAGgtgagttgttatgctattcttttccatgtatcttacgcataggcaggcta Alignment from Exonerate_coding2genome CTCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAG gttattcagtaaagcattggccatggatactaggattctatcccttctagCTCTAAAGAAGAGACATCAGGCAGACTACTCAAGAATGGGTGCCATGCCCACACCGTTCAATACACAGGTGACCTCACAGCTGCTGGAGTTATG---GCCAGTAAGGAGCCAAGGTACCAGCAAAAAGGCCCAGgtgagttgttatgctattcttttccatgtatcttacgcataggcaggcta Alignment from GeneWise CTCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAG gttattcagtaaagcattggccatggatactaggattctatcccttctagCTCTAAAGAAGAGACATCAGGCAGACTACTCAAGAATGGGTGCCATGCCCACACCGTTCAATACACAGGTGACCTCACAGCTGCTGGAGTTATG---GCCAGTAAGGAGCCAAGGTACCAGCAAAAAGGCCCAGgtgagttgttatgctattcttttccatgtatcttacgcataggcaggcta #### Tle4_ID3619_18 --> 0 - 1 Original Alignment ATCTTTTCATTGGGCTAT-TGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTg tttgcttcaaggggaagtgttgtcaaccttgtactgtgtcccatctccagATTTTTTCATTGGGATACCTGCCCAACTGGAAAGTGGCTTGCAGTGGGGATGGAGA-TAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCagtaaccgtactcccagtgtctagcttcaaatactgtgaagttgcttggtt Alignment from CESAR ATCTTTTCATTGGGCTAT-TGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTg tttgcttcaaggggaagtgttgtcaaccttgtactgtgtcccatctccagATTTTTTCATTGGGATACCTGCCCAACTGGAAAGTGGCTTGCAGTGGGGATGG-AGATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCagtaaccgtactcccagtgtctagcttcaaatactgtgaagttgcttggtt Alignment from Spaln_aa2Genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcaaggggaagtgttgtcaaccttgtactgtgtcccatctccagATTTTTTCATTGGGATACCTGCCCAACTGGAAAGTGGCTTGCAGTGGGGATGGAGATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCAgtaaccgtactcccagtgtctagcttcaaatactgtgaagttgcttggtt Alignment from Spaln_nt2Genome ATCTTTTCATTGGGCTAT-TGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcaaggggaagtgttgtcaaccttgtactgtgtcccatctccagATTTTTTCATTGGGATACCTGCCCAACTGGAAAGTGGCTTGCAGTGGGGATGGAG-ATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCAgtaaccgtactcccagtgtctagcttcaaatactgtgaagttgcttggtt Alignment from Pairagon ATCTTTTCATTGGGCTA-TTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcaaggggaagtgttgtcaaccttgtactgtgtcccatctccagATTTTTTCATTGGGATACCTGCCCAACTGGAAAGTGGCTTGCAGTGGGGATGGAG-ATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCAgtaaccgtactcccagtgtctagcttcaaatactgtgaagttgcttggtt Alignment from Exonerate_protein2genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcaaggggaagtgttgtcaaccttgtactgtgtcccatctccagATTTTTTCATTGGGATACCTGCCCAACTGGAAAGTGGCTTGCAGTGGGGATGGAGATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCAgtaaccgtactcccagtgtctagcttcaaatactgtgaagttgcttggtt Alignment from Exonerate_coding2genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcaaggggaagtgttgtcaaccttgtactgtgtcccatctccagATTTTTTCATTGGGATACCTGCCCAACTGGAAAGTGGCTTGCAGTGGGGATGGAGATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCAgtaaccgtactcccagtgtctagcttcaaatactgtgaagttgcttggtt Alignment from GeneWise ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcaaggggaagtgttgtcaaccttgtactgtgtcccatctccagATTTTTTCATTGGGATACCTGCCCAACTGGAAAGTGGCTTGCAGTGGGGATGGAGATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCAgtaaccgtactcccagtgtctagcttcaaatactgtgaagttgcttggtt #### Tle4_ID3625_13 --> 2 - 0 Original Alignment caTCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATC-GTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG atttgtagactaaggcaggtgtgactgtcgttctgcatgtgacccttcagctTCCAGCCTAAGGACTCCAGTAGCAGTACCTTGTCCATACCCAACACCATTTGGAATTCGTGCCACATGCAGGAATGAATGGAGAGCTAACCAGCC-TGGGGCTGCTTATGGTGGGCTCCACAATGTCTCCCCCCAGATGAGTGCTTCTACTGCTGCTGCCACAGCAGCAGCGGCTTATGGAAGATCACCTGTGgtaagtcttgcatacatataagtgtgttaaagtgcaaagtgattacattt Alignment from CESAR caTCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATC-GTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG atttgtagactaaggcaggtgtgactgtcgttctgcatgtgacccttcagctTCCAGCCTAAGGACTCCAGTAGCAGTACCTTGTCCATACCCAACACCATTTGGAATTCGTGCCACATGCAGGAATGAATGGAGAGCTAACCA-GCCTGGGGCTGCTTATGGTGGGCTCCACAATGTCTCCCCCCAGATGAGTGCTTCTACTGCTGCTGCCACAGCAGCAGCGGCTTATGGAAGATCACCTGTGgtaagtcttgcatacatataagtgtgttaaagtgcaaagtgattacattt Alignment from Spaln_aa2Genome CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATC-GTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG atttgtagactaaggcaggtgtgactgtcgttctgcatgtgacccttcagCTTCCAGCCTAAGGACTCCAGTAGCAGTACCTTGTCCATACCCAACACCATTTGGAATTcGTGCCACATGCAGGAATGAATGGAGAGCTAACCAGCCTGGG-GCTGCTTATGGTGGGCTCCACAATGTCTCCCCCCAGATGAGTGCTTCTACTGCTGCTGCCACAGCAGCAGCGGCTTATGGAAGATCACCTGTGgtaagtcttgcatacatataagtgtgttaaagtgcaaagtgattacattt Alignment from Spaln_nt2Genome CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGA-TCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG atttgtagactaaggcaggtgtgactgtcgttctgcatgtgacccttcagCTTCCAGCCTAAGGACTCCAGTAGCAGTACCTTGTCCATACCCAACACCATTTGGAATTCGTGCCACATGCAGGAATGAATGGAGAGCTAACCAG-CCTGGGGCTGCTTATGGTGGGCTCCACAATGTCTCCCCCCAGATGAGTGCTTCTACTGCTGCTGCCACAGCAGCAGCGGCTTATGGAAGATCACCTGTGgtaagtcttgcatacatataagtgtgttaaagtgcaaagtgattacattt Alignment from Pairagon CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGA-TCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG atttgtagactaaggcaggtgtgactgtcgttctgcatgtgacccttcagCTTCCAGCCTAAGGACTCCAGTAGCAGTACCTTGTCCATACCCAACACCATTTGGAATTCGTGCCACATGCAGGAATGAATGGAGAGCTAACCAG-CCTGGGGCTGCTTATGGTGGGCTCCACAATGTCTCCCCCCAGATGAGTGCTTCTACTGCTGCTGCCACAGCAGCAGCGGCTTATGGAAGATCACCTGTGgtaagtcttgcatacatataagtgtgttaaagtgcaaagtgattacattt Alignment from Exonerate_protein2genome CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG atttgtagactaaggcaggtgtgactgtcgttctgcatgtgacccttcagCTTCCAGCCTAAGGACTCCAGTAGCAGTACCTTGTCCATACCCAACACCATTTGGAATTCGTGCCACATGCAGGAATGAATGGAGAGCTAACCAGCCTGGGGCTGCTTATGGTGGGCTCCACAATGTCTCCCCCCAGATGAGTGCTTCTACTGCTGCTGCCACAGCAGCAGCGGCTTATGGAAGATCACCTGTGgtaagtcttgcatacatataagtgtgttaaagtgcaaagtgattacattt Alignment from Exonerate_coding2genome CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG atttgtagactaaggcaggtgtgactgtcgttctgcatgtgacccttcagCTTCCAGCCTAAGGACTCCAGTAGCAGTACCTTGTCCATACCCAACACCATTTGGAATTCGTGCCACATGCAGGAATGAATGGAGAGCTAACCAGCCTGGGGCTGCTTATGGTGGGCTCCACAATGTCTCCCCCCAGATGAGTGCTTCTACTGCTGCTGCCACAGCAGCAGCGGCTTATGGAAGATCACCTGTGgtaagtcttgcatacatataagtgtgttaaagtgcaaagtgattacattt Alignment from GeneWise CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG atttgtagactaaggcaggtgtgactgtcgttctgcatgtgacccttcagCTTCCAGCCTAAGGACTCCAGTAGCAGTACCTTGTCCATACCCAACACCATTTGGAATTCGTGCCACATGCAGGAATGAATGGAGAGCTAACCAGCCTGGGGCTGCTTATGGTGGGCTCCACAATGTCTCCCCCCAGATGAGTGCTTCTACTGCTGCTGCCACAGCAGCAGCGGCTTATGGAAGATCACCTGTGgtaagtcttgcatacatataagtgtgttaaagtgcaaagtgattacattt #### Tm7sf2_ID1411_9 --> 2 - 1 Original Alignment gtCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCT-GGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTg tgcctagttgaacctgagggcttcaatctccctcttgtttctcccatcaggtCTAGACACCATCCCCACTGCCACGGGTAGACATCTGCTAGTGTCCCGGGTGGTGGGGTATGGTACAGCATCCCAACTACC-AGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCCTGTggtactatgatggggagagcaaggaccatatacctgctacaatgtatccca Alignment from CESAR gtCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCT-GGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTg tgcctagttgaacctgagggcttcaatctccctcttgtttctcccatcaggtCTAGACACCATCCCCACTGCCACGGGTAGACATCTGCTAGTGTCCCGGGTGGTGGGGTATGGTACAGCATCCCAACTAC-CAGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCCTGTggtactatgatggggagagcaaggaccatatacctgctacaatgtatccca Alignment from Spaln_aa2Genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG tgcctagttgaacctgagggcttcaatctccctcttgtttctcccatcagGTCTAGACACCATCCCCACTGCCACGGGTAGACATCTGCTAGTGTCCCGGGTGGTGGGGTATGGTACAGCATCCCAACTACCAGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCCTGTGgtactatgatggggagagcaaggaccatatacctgctacaatgtatccca Alignment from Spaln_nt2Genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCT-GGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG tgcctagttgaacctgagggcttcaatctccctcttgtttctcccatcagGTCTAGACACCATCCCCACTGCCACGGGTAGACATCTGCTAGTGTCCCGGGTGGTGGGGTATGGTACAGCATCCCAACTACCA-GGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCCTGTGgtactatgatggggagagcaaggaccatatacctgctacaatgtatccca Alignment from Pairagon GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGT-CTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG tgcctagttgaacctgagggcttcaatctccctcttgtttctcccatcagGTCTAGACACCATCCCCACTGCCACGGGTAGACATCTGCTAGTGTCCCGGGTGGTGGGGTATGGTACAGCATCCCAACTACC-AGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCCTGTGgtactatgatggggagagcaaggaccatatacctgctacaatgtatccca Alignment from Exonerate_protein2genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCT-GGGTGGTGGGGTATGGTTCGACACCCCAACTAC--CTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG tgcctagttgaacctgagggcttcaatctccctcttgtttctcccatcagGTCTAGACACCATCCCCACTGCCACGGGTAGACATCTGCTAGTGTCCCGGGTGGTGGGGTATGGTACAGCATCCCAACTACCA---GGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCCTGTGgtactatgatggggagagcaaggaccatatacctgctacaatgtatccca Alignment from Exonerate_coding2genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCT-GGGTGGTGGGGTATGGTTCGACACCCCAACTAC--CTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG tgcctagttgaacctgagggcttcaatctccctcttgtttctcccatcagGTCTAGACACCATCCCCACTGCCACGGGTAGACATCTGCTAGTGTCCCGGGTGGTGGGGTATGGTACAGCATCCCAACTACCA---GGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCCTGTGgtactatgatggggagagcaaggaccatatacctgctacaatgtatccca Alignment from GeneWise GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTG-TCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG tgcctagttgaacctgagggcttcaatctccctcttgtttctcccatcagGTCTAGACACCATCCCCACTGCCACGGGTAGACATCTGCTAGTGTCCCGGGTGGTGGGGTATGGTACAGCATCCCAACTACCA-GGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCCTGTGgtactatgatggggagagcaaggaccatatacctgctacaatgtatccca #### Tm7sf2_ID1413_7 --> 0 - 1 Original Alignment GAGTCTGTCCTCACCACCATGGACATAATACAT-GATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGg aatgtcaagcccgctgctgttaagagagtgaccctctttccttcccacagGAGTCTATCCTCACCACCATGGACATTATACATCGATGGGTTTGGCTTCATGCTTGTCTTTGGAG-TTTAGCTTGGATACCACTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCACCCCCAACCACTAGGGTACCCAATGGCCTTACTCATCTGCCTGCTCCGGggtaattattagaaacccaaaatgcccaatcctgcaccatcacttatgttg Alignment from CESAR GAGTCTGTCCTCACCACCATGGACATAATACAT-GATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGg aatgtcaagcccgctgctgttaagagagtgaccctctttccttcccacagGAGTCTATCCTCACCACCATGGACATTATACATCGATGGGTTTGGCTTCATGCTTGTCTTTGGA-GTTTAGCTTGGATACCACTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCACCCCCAACCACTAGGGTACCCAATGGCCTTACTCATCTGCCTGCTCCGGggtaattattagaaacccaaaatgcccaatcctgcaccatcacttatgttg Alignment from Spaln_aa2Genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aatgtcaagcccgctgctgttaagagagtgaccctctttccttcccacagGAGTCTATCCTCACCACCATGGACATTATACATCGATGGGTTTGGCTTCATGCTTGTCTTTGGAGTTTAGCTTGGATACCACTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCACCCCCAACCACTAGGGTACCCAATGGCCTTACTCATCTGCCTGCTCCGGGgtaattattagaaacccaaaatgcccaatcctgcaccatcacttatgttg Alignment from Spaln_nt2Genome GAGTCTGTCCTCACCACCATGGACATAATACAT-GATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aatgtcaagcccgctgctgttaagagagtgaccctctttccttcccacagGAGTCTATCCTCACCACCATGGACATTATACATCGATGGGTTTGGCTTCATGCTTGTCTTTGGAG-TTTAGCTTGGATACCACTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCACCCCCAACCACTAGGGTACCCAATGGCCTTACTCATCTGCCTGCTCCGGGgtaattattagaaacccaaaatgcccaatcctgcaccatcacttatgttg Alignment from Pairagon GAGTCTGTCCTCACCACCATGGACATAATACAT-GATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aatgtcaagcccgctgctgttaagagagtgaccctctttccttcccacagGAGTCTATCCTCACCACCATGGACATTATACATCGATGGGTTTGGCTTCATGCTTGTCTTTGGAG-TTTAGCTTGGATACCACTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCACCCCCAACCACTAGGGTACCCAATGGCCTTACTCATCTGCCTGCTCCGGGgtaattattagaaacccaaaatgcccaatcctgcaccatcacttatgttg Alignment from Exonerate_protein2genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aatgtcaagcccgctgctgttaagagagtgaccctctttccttcccacagGAGTCTATCCTCACCACCATGGACATTATACATCGATGGGTTTGGCTTCATGCTTGTCTTTGGAGTTTAGCTTGGATACCACTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCACCCCCAACCACTAGGGTACCCAATGGCCTTACTCATCTGCCTGCTCCGGGgtaattattagaaacccaaaatgcccaatcctgcaccatcacttatgttg Alignment from Exonerate_coding2genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aatgtcaagcccgctgctgttaagagagtgaccctctttccttcccacagGAGTCTATCCTCACCACCATGGACATTATACATCGATGGGTTTGGCTTCATGCTTGTCTTTGGAGTTTAGCTTGGATACCACTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCACCCCCAACCACTAGGGTACCCAATGGCCTTACTCATCTGCCTGCTCCGGGgtaattattagaaacccaaaatgcccaatcctgcaccatcacttatgttg Alignment from GeneWise GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aatgtcaagcccgctgctgttaagagagtgaccctctttccttcccacagGAGTCTATCCTCACCACCATGGACATTATACATCGATGGGTTTGGCTTCATGCTTGTCTTTGGAGTTTAGCTTGGATACCACTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCACCCCCAACCACTAGGGTACCCAATGGCCTTACTCATCTGCCTGCTCCGGGgtaattattagaaacccaaaatgcccaatcctgcaccatcacttatgttg #### Tm7sf2_ID1416_4 --> 2 - 1 Original Alignment gcTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTC-CTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAg ctttcctagtatgtgtactgaccctgagctctcatgtgcttctctttcaggtTACCAGGCTGTGGTTCTATCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGCTCCCCCTTGGGGGACTACCTGGAATGCTTCTGCCACTGGCCTTTGCAACCACTCTCACCAGGTTTGTCTTCAGTCTCCCTACTCTACACAAAGGCTTTGGTAACACCTGCCT-AGCTCTGAATTCTGGGGGAAACTCAggtgagtagggtcccaaccaggtctcaacaggtgagggtgtagaaaggatg Alignment from CESAR gcTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTC-CTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAg ctttcctagtatgtgtactgaccctgagctctcatgtgcttctctttcaggtTACCAGGCTGTGGTTCTATCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGCTCCCCCTTGGGGGACTACCTGGAATGCTTCTGCCACTGGCCTTTGCAACCACTCTCACCAGGTTTGTCTTCAGTCTCCCTACTCTACACAAAGGCTTTGGTAACACCTGCC-TAGCTCTGAATTCTGGGGGAAACTCAggtgagtagggtcccaaccaggtctcaacaggtgagggtgtagaaaggatg Alignment from Spaln_aa2Genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgaccctgagctctcatgtgcttctctttcagGTTACCAGGCTGTGGTTCTATCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGCTCCCCCTTGGGGGACTACCTGGAATGCTTCTGCCACTGGCCTTTGCAACCACTCTCACCAGGTTTGTCTTCAGTCTCCCTACTCTACACAAAGGCTTTGGTAACACCTGCCTAGCTCTGAATTCTGGGGGAAACTCAGgtgagtagggtcccaaccaggtctcaacaggtgagggtgtagaaaggatg Alignment from Spaln_nt2Genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCC-TCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgaccctgagctctcatgtgcttctctttcagGTTACCAGGCTGTGGTTCTATCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGCTCCCCCTTGGGGGACTACCTGGAATGCTTCTGCCACTGGCCTTTGCAACCACTCTCACCAGGTTTGTCTTCAGTCTCCCTACTCTACACAAAGGCTTTGGTAACACCTGCCT-AGCTCTGAATTCTGGGGGAAACTCAGgtgagtagggtcccaaccaggtctcaacaggtgagggtgtagaaaggatg Alignment from Pairagon GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCT-CCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgaccctgagctctcatgtgcttctctttcagGTTACCAGGCTGTGGTTCTATCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGCTCCCCCTTGGGGGACTACCTGGAATGCTTCTGCCACTGGCCTTTGCAACCACTCTCACCAGGTTTGTCTTCAGTCTCCCTACTCTACACAAAGGCTTTGGTAACACCTGCCT-AGCTCTGAATTCTGGGGGAAACTCAGgtgagtagggtcccaaccaggtctcaacaggtgagggtgtagaaaggatg Alignment from Exonerate_protein2genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgaccctgagctctcatgtgcttctctttcagGTTACCAGGCTGTGGTTCTATCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGCTCCCCCTTGGGGGACTACCTGGAATGCTTCTGCCACTGGCCTTTGCAACCACTCTCACCAGGTTTGTCTTCAGTCTCCCTACTCTACACAAAGGCTTTGGTAACACCTGCCTAGCTCTGAATTCTGGGGGAAACTCAGgtgagtagggtcccaaccaggtctcaacaggtgagggtgtagaaaggatg Alignment from Exonerate_coding2genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgaccctgagctctcatgtgcttctctttcagGTTACCAGGCTGTGGTTCTATCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGCTCCCCCTTGGGGGACTACCTGGAATGCTTCTGCCACTGGCCTTTGCAACCACTCTCACCAGGTTTGTCTTCAGTCTCCCTACTCTACACAAAGGCTTTGGTAACACCTGCCTAGCTCTGAATTCTGGGGGAAACTCAGgtgagtagggtcccaaccaggtctcaacaggtgagggtgtagaaaggatg Alignment from GeneWise GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgaccctgagctctcatgtgcttctctttcagGTTACCAGGCTGTGGTTCTATCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGCTCCCCCTTGGGGGACTACCTGGAATGCTTCTGCCACTGGCCTTTGCAACCACTCTCACCAGGTTTGTCTTCAGTCTCCCTACTCTACACAAAGGCTTTGGTAACACCTGCCTAGCTCTGAATTCTGGGGGAAACTCAGgtgagtagggtcccaaccaggtctcaacaggtgagggtgtagaaaggatg #### Tm7sf2_ID1418_2 --> 2 - 0 Original Alignment gcGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTG-CTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG caaagcaatgtgttgaatgagacagatctcttcttctgtccctcctgcaggtGTTGCAGCTTTGTTGATACTGCTGCCGGCCACCATGTCTCACTTCCTCCTTGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCAGCTTACCTACCTGGCCTGGAGGAGCTATGGAGCCCATGGGCCCTGCTTCCTCCTGTTCATCTGGCTTGGTCTGCAGGTGG-ACTCTATTTGCTGCCTGCATGCAGGgtgagtgatctcccgcatcataggggacatatgctgtgatatgacccatg Alignment from CESAR gcGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTG-CTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG caaagcaatgtgttgaatgagacagatctcttcttctgtccctcctgcaggtGTTGCAGCTTTGTTGATACTGCTGCCGGCCACCATGTCTCACTTCCTCCTTGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCAGCTTACCTACCTGGCCTGGAGGAGCTATGGAGCCCATGGGCCCTGCTTCCTCCTGTTCATCTGGCTTGGTCTGCAGGTG-GACTCTATTTGCTGCCTGCATGCAGGgtgagtgatctcccgcatcataggggacatatgctgtgatatgacccatg Alignment from Spaln_aa2Genome GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG caaagcaatgtgttgaatgagacagatctcttcttctgtccctcctgcagGTGTTGCAGCTTTGTTGATACTGCTGCCGGCCACCATGTCTCACTTCCTCCTTGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCAGCTTACCTACCTGGCCTGGAGGAGCTATGGAGCCCATGGGCCCTGCTTCCTCCTGTTCATCTGGCTTGGTCTGCAGGTGGACTCTATTTGCTGCCTGCATGCAGGgtgagtgatctcccgcatcataggggacatatgctgtgatatgacccatg Alignment from Spaln_nt2Genome GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGC-TATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG caaagcaatgtgttgaatgagacagatctcttcttctgtccctcctgcagGTGTTGCAGCTTTGTTGATACTGCTGCCGGCCACCATGTCTCACTTCCTCCTTGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCAGCTTACCTACCTGGCCTGGAGGAGCTATGGAGCCCATGGGCCCTGCTTCCTCCTGTTCATCTGGCTTGGTCTGCAGGTGG-ACTCTATTTGCTGCCTGCATGCAGGgtgagtgatctcccgcatcataggggacatatgctgtgatatgacccatg Alignment from Pairagon GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGC-TGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG caaagcaatgtgttgaatgagacagatctcttcttctgtccctcctgcagGTGTTGCAGCTTTGTTGATACTGCTGCCGGCCACCATGTCTCACTTCCTCCTTGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCAGCTTACCTACCTGGCCTGGAGGAGCTATGGAGCCCATGGGCCCTGCTTCCTCCTGTTCATCTGGCTTGGTCTGCAGGTGG-ACTCTATTTGCTGCCTGCATGCAGGgtgagtgatctcccgcatcataggggacatatgctgtgatatgacccatg Alignment from Exonerate_protein2genome GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG caaagcaatgtgttgaatgagacagatctcttcttctgtccctcctgcagGTGTTGCAGCTTTGTTGATACTGCTGCCGGCCACCATGTCTCACTTCCTCCTTGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCAGCTTACCTACCTGGCCTGGAGGAGCTATGGAGCCCATGGGCCCTGCTTCCTCCTGTTCATCTGGCTTGGTCTGCAGGTGGACTCTATTTGCTGCCTGCATGCAGGgtgagtgatctcccgcatcataggggacatatgctgtgatatgacccatg Alignment from Exonerate_coding2genome GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG caaagcaatgtgttgaatgagacagatctcttcttctgtccctcctgcagGTGTTGCAGCTTTGTTGATACTGCTGCCGGCCACCATGTCTCACTTCCTCCTTGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCAGCTTACCTACCTGGCCTGGAGGAGCTATGGAGCCCATGGGCCCTGCTTCCTCCTGTTCATCTGGCTTGGTCTGCAGGTGGACTCTATTTGCTGCCTGCATGCAGGgtgagtgatctcccgcatcataggggacatatgctgtgatatgacccatg Alignment from GeneWise GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG caaagcaatgtgttgaatgagacagatctcttcttctgtccctcctgcagGTGTTGCAGCTTTGTTGATACTGCTGCCGGCCACCATGTCTCACTTCCTCCTTGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCAGCTTACCTACCTGGCCTGGAGGAGCTATGGAGCCCATGGGCCCTGCTTCCTCCTGTTCATCTGGCTTGGTCTGCAGGTGGACTCTATTTGCTGCCTGCATGCAGGgtgagtgatctcccgcatcataggggacatatgctgtgatatgacccatg #### Tmem179b_ID2369_4 --> 1 - 0 Original Alignment cTGCTCTGAAGCCCAG-AAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA acccacccctgccattcttattacgctttctttttgtttcttatccttagcTGCTCTGAAGCACAGCAAGACTGCTTGGACACCTTCAGGAACTGCTGTGCAGCTTT-CTCCAACCTACACACTGCTGAAgtaagttgcaggtatccataaagagaaatcaataagcttgactctgtgct Alignment from CESAR cTGCTCTGAAGCCCAG-AAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA acccacccctgccattcttattacgctttctttttgtttcttatccttagcTGCTCTGAAGCACAGCAAGACTGCTTGGACACCTTCAGGAACTGCTGTGCAGC-TTTCTCCAACCTACACACTGCTGAAgtaagttgcaggtatccataaagagaaatcaataagcttgactctgtgct Alignment from Spaln_aa2Genome CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA acccacccctgccattcttattacgctttctttttgtttcttatccttagCTGCTCTGAAGCACAGCAAGACTGCTTGGACACCTTCAGGAACTGCTGTGCAGCTTTCTCCAACCTACACACTGCTGAAgtaagttgcaggtatccataaagagaaatcaataagcttgactctgtgct Alignment from Spaln_nt2Genome CTGCTCTGAAGCCCAGAAAACCT-CATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA acccacccctgccattcttattacgctttctttttgtttcttatccttagCTGCTCTGAAGCACAGCAAGACTGCTTGGACACCTTCAGGAACTGCTGTGCAGC-TTTCTCCAACCTACACACTGCTGAAgtaagttgcaggtatccataaagagaaatcaataagcttgactctgtgct Alignment from Pairagon CTGCTCTGAAGCCCAG-AAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA acccacccctgccattcttattacgctttctttttgtttcttatccttagCTGCTCTGAAGCACAGCAAGACTGCTTGGACACCTTCAGGAACTGCTGTGCAGCTTT-CTCCAACCTACACACTGCTGAAgtaagttgcaggtatccataaagagaaatcaataagcttgactctgtgct Alignment from Exonerate_protein2genome CTGCTCTGAAGCCCAG-AAAACCTCATGGACACCTTCAGGAACTGCTGTGCAG--TTTTACTCCAACCTACATACTGCTGAA acccacccctgccattcttattacgctttctttttgtttcttatccttagCTGCTCTGAAGCACAGCAAGACTGCTTGGACACCTTCAGGAACTGCTGTGCAGCTTTC---TCCAACCTACACACTGCTGAAgtaagttgcaggtatccataaagagaaatcaataagcttgactctgtgct Alignment from Exonerate_coding2genome CTGCTCTGAAGCCCAG-AAAACCTCATGGACACCTTCAGGAACTGCTGTGCAG--TTTTACTCCAACCTACATACTGCTGAA acccacccctgccattcttattacgctttctttttgtttcttatccttagCTGCTCTGAAGCACAGCAAGACTGCTTGGACACCTTCAGGAACTGCTGTGCAGCTTTC---TCCAACCTACACACTGCTGAAgtaagttgcaggtatccataaagagaaatcaataagcttgactctgtgct Alignment from GeneWise CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA acccacccctgccattcttattacgctttctttttgtttcttatccttagCTGCTCTGAAGCACAGCAAGACTGCTTGGACACCTTCAGGAACTGCTGTGCAGCTTTCTCCAACCTACACACTGCTGAAgtaagttgcaggtatccataaagagaaatcaataagcttgactctgtgct #### Tmem179b_ID2370_3 --> 1 - 2 Original Alignment aGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATC-TTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTag ctttgtggtaggttctacccagactaattgatgtgtgccttggtttctagaGGCTCTATAGGGCTTCGGATTGCTCTGGCCATCTCAGCTACAGCTATCCTTCCTAATTTTAGTATCCGCTTGCATAGTTCGATTTG-CACAAATTCTTTCTGTAACTCCATCATCTCTCTGAATCTTACAATAaggtaatgtgtgggacaggtccactcagaggtgcaaactaaatttagttcct Alignment from CESAR aGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATC-TTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTag ctttgtggtaggttctacccagactaattgatgtgtgccttggtttctagaGGCTCTATAGGGCTTCGGATTGCTCTGGCCATCTCAGCTACAGCTATCCTTCCTAATTTTAGTATCCGCTTGCATAGTTCGATTT-GCACAAATTCTTTCTGTAACTCCATCATCTCTCTGAATCTTACAATAaggtaatgtgtgggacaggtccactcagaggtgcaaactaaatttagttcct Alignment from Spaln_aa2Genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG ctttgtggtaggttctacccagactaattgatgtgtgccttggtttctagAGGCTCTATAGGGCTTCGGATTGCTCTGGCCATCTCAGCTACAGCTATCCTTCCTAATTTTAGTATCCGCTTGCATAGTTCGATTTGCACAAATTCTTTCTGTAACTCCATCATCTCTCTGAATCTTACAATAAGgtaatgtgtgggacaggtccactcagaggtgcaaactaaatttagttcct Alignment from Spaln_nt2Genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATC-TTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG ctttgtggtaggttctacccagactaattgatgtgtgccttggtttctagAGGCTCTATAGGGCTTCGGATTGCTCTGGCCATCTCAGCTACAGCTATCCTTCCTAATTTTAGTATCCGCTTGCATAGTTCGATTT-GCACAAATTCTTTCTGTAACTCCATCATCTCTCTGAATCTTACAATAAGgtaatgtgtgggacaggtccactcagaggtgcaaactaaatttagttcct Alignment from Pairagon AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCAT-CTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG ctttgtggtaggttctacccagactaattgatgtgtgccttggtttctagAGGCTCTATAGGGCTTCGGATTGCTCTGGCCATCTCAGCTACAGCTATCCTTCCTAATTTTAGTATCCGCTTGCATAGTTCGATTT-GCACAAATTCTTTCTGTAACTCCATCATCTCTCTGAATCTTACAATAAGgtaatgtgtgggacaggtccactcagaggtgcaaactaaatttagttcct Alignment from Exonerate_protein2genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATC-TTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTT--GGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG ctttgtggtaggttctacccagactaattgatgtgtgccttggtttctagAGGCTCTATAGGGCTTCGGATTGCTCTGGCCATCTCAGCTACAGCTATCCTTCCTAATTTTAGTATCCGCTTGCATAGTTCGATTTGC---ACAAATTCTTTCTGTAACTCCATCATCTCTCTGAATCTTACAATAAGgtaatgtgtgggacaggtccactcagaggtgcaaactaaatttagttcct Alignment from Exonerate_coding2genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATC-TTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTT--GGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG ctttgtggtaggttctacccagactaattgatgtgtgccttggtttctagAGGCTCTATAGGGCTTCGGATTGCTCTGGCCATCTCAGCTACAGCTATCCTTCCTAATTTTAGTATCCGCTTGCATAGTTCGATTTGC---ACAAATTCTTTCTGTAACTCCATCATCTCTCTGAATCTTACAATAAGgtaatgtgtgggacaggtccactcagaggtgcaaactaaatttagttcct Alignment from GeneWise AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG ctttgtggtaggttctacccagactaattgatgtgtgccttggtttctagAGGCTCTATAGGGCTTCGGATTGCTCTGGCCATCTCAGCTACAGCTATCCTTCCTAATTTTAGTATCCGCTTGCATAGTTCGATTTGCACAAATTCTTTCTGTAACTCCATCATCTCTCTGAATCTTACAATAAGgtaatgtgtgggacaggtccactcagaggtgcaaactaaatttagttcct #### Trpt1_ID1981_4 --> 0 - 1 Original Alignment GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCA----CAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCg gaatgttagaagggaacttctctgctgctattcttcatgtctctttctagGTCCCTGAGTTGGAGCTGACACCCCTGGACACACCACAACCAAGCCCTGCCTCTAGCACTAGTCCACGGCA-ATTCTGGACAAATCACTGGCCATCCATTTTGCTCAAGGGG---TCACATCAAGGAAGGACATGCAATCATCTCGCTTCAGGATTGCCA---GACCCAGGCACCATCAGTggtaggttctaattaacctatcatgatgcagggagagacagagcctcattc Alignment from CESAR GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAA----GCCCTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCg gaatgttagaagggaacttctctgctgctattcttcatgtctctttctagGTCCCTGAGTTGGAGCTGACACCCCTGGACACACCACAACCAAGCCCTGCCTCTAGCACTAGTCCACGGC-AATTCTGGACAAATCACTGGCCATCCATTTTGCTCAAGGGG---TCACATCAAGGAAGGACATGCAATCATCTCGCTTCAGGATTGCCA---GACCCAGGCACCATCAGTggtaggttctaattaacctatcatgatgcagggagagacagagcctcattc Alignment from Spaln_aa2Genome GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTC---CATGGTACATTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gaatgttagaagggaacttctctgctgctattcttcatgtctctttctagGTCCCTGAGTTGGAGCTGACACCCCTGGACACACCACAACCAAGCCCTGCCTCTAGCACTAGTCCACGGCAATTCTGGACAAATCACTGGCCATCCATTTTGCTCAAGGGG---TCACATCAAGGAAGGACATGCAATCATCTCGCTTCAGGATTGCCA---GACCCAGGCACCATCAGTGgtaggttctaattaacctatcatgatgcagggagagacagagcctcattc Alignment from Spaln_nt2Genome GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAA----GCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGA---AGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gaatgttagaagggaacttctctgctgctattcttcatgtctctttctagGTCCCTGAGTTGGAGCTGACACCCCTGGACACACCACAACCAAGCCCTGCCTCTAGCACTAGTCCACGGCA-ATTCTGGACAAATCACTGGCCATCCATTTTGCTCAAGGG---GTCACATCAAGGAAGGACATGCAATCATCTCGCTTCAGGATTGCC---AGACCCAGGCACCATCAGTGgtaggttctaattaacctatcatgatgcagggagagacagagcctcattc Alignment from Pairagon GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCA----CAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gaatgttagaagggaacttctctgctgctattcttcatgtctctttctagGTCCCTGAGTTGGAGCTGACACCCCTGGACACACCACAACCAAGCCCTGCCTCTAGCACTAGTCCACGGCA-ATTCTGGACAAATCACTGGCCATCCATTTTGCTCAAGGG---GTCACATCAAGGAAGGACATGCAATCATCTCGCTTCAGGATTGCC---AGACCCAGGCACCATCAGTGgtaggttctaattaacctatcatgatgcagggagagacagagcctcattc Alignment from Exonerate_protein2genome GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCA----CAAGCCCTGCCCTTGACACTAGTCCATGGTACA--TTCTGGAAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gaatgttagaagggaacttctctgctgctattcttcatgtctctttctagGTCCCTGAGTTGGAGCTGACACCCCTGGACACACCACAACCAAGCCCTGCCTCTAGCACTAGTCCACGGCAATTCTGGACAAATCACTGGCCATCCATTTTGCTCAAGGGG---TCACATCAAGGAAGGACATGCAATCATCTCGCTTCAGGATTGCCA---GACCCAGGCACCATCAGTGgtaggttctaattaacctatcatgatgcagggagagacagagcctcattc Alignment from Exonerate_coding2genome GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCA----CAAGCCCTGCCCTTGACACTAGTCCATGGTACA--TTCTGGAAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCGGC gaatgttagaagggaacttctctgctgctattcttcatgtctctttctagGTCCCTGAGTTGGAGCTGACACCCCTGGACACACCACAACCAAGCCCTGCCTCTAGCACTAGTCCACGGCAATTCTGGACAAATCACTGGCCATCCATTTTGCTCAAGGGG---TCACATCAAGGAAGGACATGCAATCATCTCGCTTCAGGATTGCCA---GACCCAGGCACCATCAGTGGTaggttctaattaacctatcatgatgcagggagagacagagcctcattc Alignment from GeneWise GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACA---TTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gaatgttagaagggaacttctctgctgctattcttcatgtctctttctagGTCCCTGAGTTGGAGCTGACACCCCTGGACACACCACAACCAAGCCCTGCCTCTAGCACTAGTCCACGGCAATTCTGGACAAATCACTGGCCATCCATTTTGCTCAAGGGG---TCACATCAAGGAAGGACATGCAATCATCTCGCTTCAGGATTGCCA---GACCCAGGCACCATCAGTGgtaggttctaattaacctatcatgatgcagggagagacagagcctcattc #### Trpt1_ID1983_6 --> 2 - 1 Original Alignment atGGAATCCCTTTCTTCTGC-TCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACAc gaagaaagtgtgactatcacatgatcacctcagtgtctctgcttcttcagatGGAATTCCG---TTCTGCCTTTGGCAACGGGGTGATTTTGACACCAGGGAATG-TGAAGGTTTCCTCCTTCCCAAGTACTCTAAAGAGGCTCTCCAGCTACGGCCTATGcgtggttttataacctggcctgagatgacactctctataagtctgtgtgaa Alignment from CESAR atGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACAc gaagaaagtgtgactatcacatgatcacctcagtgtctctgcttcttcagatGGAATTCCGTTC--TGCCTTTGGCAACGGGGTGATTTTGACACCAGGGAATG-TGAAGGTTTCCTCCTTCCCAAGTACTCTAAAGAGGCTCTCCAGCTACGGCCTATGcgtggttttataacctggcctgagatgacactctctataagtctgtgtgaa Alignment from Spaln_aa2Genome ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACAC gaagaaagtgtgactatcacatgatcacctcagtgtctctgcttcttcagATGGAATTCCGTTCT--GCCTTTGGCAACGGGGTGATTTTGACACCAGGGAATGT-GAAGGTTTCCTCCTTCCCAAGTACTCTAAAGAGGCTCTCCAGCTACGGCCTATGCgtggttttataacctggcctgagatgacactctctataagtctgtgtgaa Alignment from Spaln_nt2Genome ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACAC gaagaaagtgtgactatcacatgatcacctcagtgtctctgcttcttcagATGGAATTCCGTTCTGC--CTTTGGCAACGGGGTGATTTTGACACCAGGGAATG-TGAAGGTTTCCTCCTTCCCAAGTACTCTAAAGAGGCTCTCCAGCTACGGCCTATGCgtggttttataacctggcctgagatgacactctctataagtctgtgtgaa Alignment from Pairagon ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACAC gaagaaagtgtgactatcacatgatcacctcagtgtctctgcttcttcagATGGAATTCCGTTCTGC--CTTTGGCAACGGGGTGATTTTGACACCAGGGAATG-TGAAGGTTTCCTCCTTCCCAAGTACTCTAAAGAGGCTCTCCAGCTACGGCCTATGCgtggttttataacctggcctgagatgacactctctataagtctgtgtgaa Alignment from Exonerate_protein2genome ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACAC gaagaaagtgtgactatcacatgatcacctcagtgtctctgcttcttcagATGGAATTCCGTTCTGCCTTTGGCAACGGGGTGATTTTGACACC---AGGGAATGTGAAGGTTTCCTCCTTCCCAAGTACTCTAAAGAGGCTCTCCAGCTACGGCCTATGCgtggttttataacctggcctgagatgacactctctataagtctgtgtgaa Alignment from Exonerate_coding2genome gaagaaagtgtgactatcacatgatcacctcagtgtctctgcttcttcagatggaattccgttctgcctttggcaacggggtgattttgacaccagggaatgtgaaggtttcctccttcccaagtactctaaagaggctctccagctacggcctatgcgtggttttataacctggcctgagatgacactctctataagtctgtgtgaa Alignment from GeneWise ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACACGA- gaagaaagtgtgactatcacatgatcacctcagtgtctctgcttcttcagATGGAATTCCGTTCTGCCTTTGGCAACGGGGTGATTTTGACACCAGG---GAATGTGAAGGTTTCCTCCTTCCCAAGTACTCTAAAGAGGCTCTCCAGCTACGGCCTATGCGTGgttttataacctggcctgagatgacactctctataagtctgtgtgaa #### Tsga10ip_ID978_2 --> 0 - 2 Original Alignment ACCAACGCCAGACTCACTGCAAATCGG-CGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACag atttagaacaaggacggatctcacttcctgacttcatcacctgcccacagACTAATGCCTGTCTTACAGGAAATTGGCCGGTTCTCCCAGGTTTTATCTGGACTAG-GGTAGATGATGATCAGCTACTAGCTGAGGCAGGCATTGCTGAAAGCACTCCCCGGAAGCACaggtaatggatgcaaggaactggtctactatatcaagacacatgtcctgccc Alignment from CESAR ACCAACGCCAGACTCACTGCAAATCGG-CGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACag atttagaacaaggacggatctcacttcctgacttcatcacctgcccacagACTAATGCCTGTCTTACAGGAAATTGGCCGGTTCTCCCAGGTTTTATCTGGACTAG-GGTAGATGATGATCAGCTACTAGCTGAGGCAGGCATTGCTGAAAGCACTCCCCGGAAGCACaggtaatggatgcaaggaactggtctactatatcaagacacatgtcctgccc Alignment from Spaln_aa2Genome CAGACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG atttagaacaaggacggatctcacttcctgacttcatcacctgcccacagactaATGCCTGTC------TTACAGGAAATTGGCCGGTTCTCCCAGGTTTTATCTGGACTAGGGTA-GATGATGATCAGCTACTAGCTGAGGCAGGCATTGCTGAAAGCACTCCCCGGAAGCACAGgtaatggatgcaaggaactggtctactatatcaagacacatgtcctgccc Alignment from Spaln_nt2Genome ACCAACGCCAGACTCACTGCAAATCGGC-GCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG atttagaacaaggacggatctcacttcctgacttcatcacctgcccacagACTAATGCCTGTCTTACAGGAAATTGGCCGGTTCTCCCAGGTTTTATCTGGACT-AGGGTAGATGATGATCAGCTACTAGCTGAGGCAGGCATTGCTGAAAGCACTCCCCGGAAGCACAGgtaatggatgcaaggaactggtctactatatcaagacacatgtcctgccc Alignment from Pairagon CAGACCAACGCCAGACTCACTGCAAATCGG-CGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG atttagaacaaggacggatctcacttcctgacttcatcacctgcccaCAGACTAATGCCTGTCTTACAGGAAATTGGCCGGTTCTCCCAGGTTTTATCTGGACT-AGGGTAGATGATGATCAGCTACTAGCTGAGGCAGGCATTGCTGAAAGCACTCCCCGGAAGCACAGgtaatggatgcaaggaactggtctactatatcaagacacatgtcctgccc Alignment from Exonerate_protein2genome CAGACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG atttagaacaaggacggatctcacttcctgacttcatcacctgcccaCAGACTAATGCCTGTCTTACAGGAAATTGGCCGGTTCTCCCAGGTTTTATCTGGACTAGGGTAGATGATGATCAGCTACTAGCTGAGGCAGGCATTGCTGAAAGCACTCCCCGGAAGCACAGgtaatggatgcaaggaactggtctactatatcaagacacatgtcctgccc Alignment from Exonerate_coding2genome CAGACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG atttagaacaaggacggatctcacttcctgacttcatcacctgcccaCAGACTAATGCCTGTCTTACAGGAAATTGGCCGGTTCTCCCAGGTTTTATCTGGACTAGGGTAGATGATGATCAGCTACTAGCTGAGGCAGGCATTGCTGAAAGCACTCCCCGGAAGCACAGgtaatggatgcaaggaactggtctactatatcaagacacatgtcctgccc Alignment from GeneWise CAGACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG atttagaacaaggacggatctcacttcctgacttcatcacctgcccaCAGACTAATGCCTGTCTTACAGGAAATTGGCCGGTTCTCCCAGGTTTTATCTGGACTAGGGTAGATGATGATCAGCTACTAGCTGAGGCAGGCATTGCTGAAAGCACTCCCCGGAAGCACAGgtaatggatgcaaggaactggtctactatatcaagacacatgtcctgccc #### Uhrf2_ID6376_7 --> 1 - 0 Original Alignment gTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCT-GGAGAGAGACTCAAGCTGAGTAAGAAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG tcattgttcttactagttttaataaagtcttgtgtgccttacatccttaggTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTAGTAAAGGCTCGGAGAGAGGCTCAAGCTGACCAAGAAAAAAT-GAAGATGCCCTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaagcgaatcctaacactattatcaccattttgtcagcagttgaaaaga Alignment from CESAR gTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCT-GGAGAGAGACTCAAGCTGAGTAAGAAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG tcattgttcttactagttttaataaagtcttgtgtgccttacatccttaggTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTAGTAAAGGCTCGGAGAGAGGCTCAAGCTGACCAAGAAAAAA-TGAAGATGCCCTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaagcgaatcctaacactattatcaccattttgtcagcagttgaaaaga Alignment from Spaln_aa2Genome GTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCTGGAGAGAGACTCAAGCTGAGTAAGAAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG tcattgttcttactagttttaataaagtcttgtgtgccttacatccttagGTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTAGTAAAGGCTCGGAGAGAGGCTCAAGCTGACCAAGAAAAAATGAAGATGCCCTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaagcgaatcctaacactattatcaccattttgtcagcagttgaaaaga Alignment from Spaln_nt2Genome GTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCT-GGAGAGAGACTCAAGCTGAGTAAGAAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG tcattgttcttactagttttaataaagtcttgtgtgccttacatccttagGTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTAGTAAAGGCTCGGAGAGAGGCTCAAGCTGACCAAGAA-AAAATGAAGATGCCCTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaagcgaatcctaacactattatcaccattttgtcagcagttgaaaaga Alignment from Pairagon GTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCT-GGAGAGAGACTCAAGCTGAGTAAGAAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG tcattgttcttactagttttaataaagtcttgtgtgccttacatccttagGTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTAGTAAAGGCTCGGAGAGAGGCTCAAGCTGACCAAGAA-AAAATGAAGATGCCCTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaagcgaatcctaacactattatcaccattttgtcagcagttgaaaaga Alignment from Exonerate_protein2genome GTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCTGGAGAGAGACTCAAGCTGAGTAAGAAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG tcattgttcttactagttttaataaagtcttgtgtgccttacatccttagGTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTAGTAAAGGCTCGGAGAGAGGCTCAAGCTGACCAAGAAAAAATGAAGATGCCCTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaagcgaatcctaacactattatcaccattttgtcagcagttgaaaaga Alignment from Exonerate_coding2genome GTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCTGGAGAGAGACTCAAGCTGAGTAAGAAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG tcattgttcttactagttttaataaagtcttgtgtgccttacatccttagGTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTAGTAAAGGCTCGGAGAGAGGCTCAAGCTGACCAAGAAAAAATGAAGATGCCCTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaagcgaatcctaacactattatcaccattttgtcagcagttgaaaaga Alignment from GeneWise GTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCTGGAGAGAGACTCAAGCTGAGTAAGAAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG tcattgttcttactagttttaataaagtcttgtgtgccttacatccttagGTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTAGTAAAGGCTCGGAGAGAGGCTCAAGCTGACCAAGAAAAAATGAAGATGCCCTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaagcgaatcctaacactattatcaccattttgtcagcagttgaaaaga #### Unc93b1_ID214_5 --> 1 - 0 Original Alignment gATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCA-CCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC gaggaaaaaactgtcatagtaggcagctttttttttttttaccattccaggATGTCCCAGAAGTACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCCACGTGGACCACACACACCTTTTCTGCTGGTTTTCC-TACTAACTTTTATAGTTTCTTGCATgtacgtgtgcttcaggaagcccttgtagggggtgggcataagaaactggg Alignment from CESAR gATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCA-CCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC gaggaaaaaactgtcatagtaggcagctttttttttttttaccattccaggATGTCCCAGAAGTACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCCACGTGGACCACACACACCTTTTCTGCTGGTTTTC-CTACTAACTTTTATAGTTTCTTGCATgtacgtgtgcttcaggaagcccttgtagggggtgggcataagaaactggg Alignment from Spaln_aa2Genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC gaggaaaaaactgtcatagtaggcagctttttttttttttaccattccagGATGTCCCAGAAGTACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCCACGTGGACCACACACACCTTTTCTGCTGGTTTTCCTACTAACTTTTATAGTTTCTTGCATgtacgtgtgcttcaggaagcccttgtagggggtgggcataagaaactggg Alignment from Spaln_nt2Genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACC-ACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC gaggaaaaaactgtcatagtaggcagctttttttttttttaccattccagGATGTCCCAGAAGTACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCCACGTGGACCACACACACCTTTTCTGCTGGTTTTCC-TACTAACTTTTATAGTTTCTTGCATgtacgtgtgcttcaggaagcccttgtagggggtgggcataagaaactggg Alignment from Pairagon GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCA-CCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC gaggaaaaaactgtcatagtaggcagctttttttttttttaccattccagGATGTCCCAGAAGTACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCCACGTGGACCACACACACCTTTTCTGCTGGTTTTCC-TACTAACTTTTATAGTTTCTTGCATgtacgtgtgcttcaggaagcccttgtagggggtgggcataagaaactggg Alignment from Exonerate_protein2genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC gaggaaaaaactgtcatagtaggcagctttttttttttttaccattccagGATGTCCCAGAAGTACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCCACGTGGACCACACACACCTTTTCTGCTGGTTTTCCTACTAACTTTTATAGTTTCTTGCATgtacgtgtgcttcaggaagcccttgtagggggtgggcataagaaactggg Alignment from Exonerate_coding2genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC gaggaaaaaactgtcatagtaggcagctttttttttttttaccattccagGATGTCCCAGAAGTACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCCACGTGGACCACACACACCTTTTCTGCTGGTTTTCCTACTAACTTTTATAGTTTCTTGCATgtacgtgtgcttcaggaagcccttgtagggggtgggcataagaaactggg Alignment from GeneWise GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC gaggaaaaaactgtcatagtaggcagctttttttttttttaccattccagGATGTCCCAGAAGTACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCCACGTGGACCACACACACCTTTTCTGCTGGTTTTCCTACTAACTTTTATAGTTTCTTGCATgtacgtgtgcttcaggaagcccttgtagggggtgggcataagaaactggg #### Unc93b1_ID215_6 --> 0 - 1 Original Alignment TTGAGCTTCGCG-TGTGCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCg cctgctgcaatgacagacctctctaatagttgaatgtgctcttttgttagTTGAGCTTCACACTTTGCTCAGTTGCCAATGATTTACTTCCTCAACAATTATTTGT-TGACCTAAACCATACACTTATCAATGTACAGATATGTggtaagtttgtgagaacctggtaagtttgtctttgttccatatacagtcaa Alignment from CESAR TTGAGCTTCGCG-TGTGCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCg cctgctgcaatgacagacctctctaatagttgaatgtgctcttttgttagTTGAGCTTCACACTTTGCTCAGTTGCCAATGATTTACTTCCTCAACAATTATTTG-TTGACCTAAACCATACACTTATCAATGTACAGATATGTggtaagtttgtgagaacctggtaagtttgtctttgttccatatacagtcaa Alignment from Spaln_aa2Genome TTGAGCTTCGCG-TGTGCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG cctgctgcaatgacagacctctctaatagttgaatgtgctcttttgttagTTGAGCTTCACAcTTTGCTCAGTTGCCAATGATTTACTTCCTCAACAATTATTTGTT-GACCTAAACCATACACTTATCAATGTACAGATATGTGgtaagtttgtgagaacctggtaagtttgtctttgttccatatacagtcaa Alignment from Spaln_nt2Genome TTGAGCTTCGCG-TGTGCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG cctgctgcaatgacagacctctctaatagttgaatgtgctcttttgttagTTGAGCTTCACACTTTGCTCAGTTGCCAATGATTTACTTCCTCAACAATTATTTGT-TGACCTAAACCATACACTTATCAATGTACAGATATGTGgtaagtttgtgagaacctggtaagtttgtctttgttccatatacagtcaa Alignment from Pairagon TTGAGCTTCGCG-TGTGCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG cctgctgcaatgacagacctctctaatagttgaatgtgctcttttgttagTTGAGCTTCACACTTTGCTCAGTTGCCAATGATTTACTTCCTCAACAATTATTTGT-TGACCTAAACCATACACTTATCAATGTACAGATATGTGgtaagtttgtgagaacctggtaagtttgtctttgttccatatacagtcaa Alignment from Exonerate_protein2genome TTGAGCTTCGCGTGT-GCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTG--TATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG cctgctgcaatgacagacctctctaatagttgaatgtgctcttttgttagTTGAGCTTCACACTTTGCTCAGTTGCCAATGATTTACTTCCTCAACAATTATTTGTT---GACCTAAACCATACACTTATCAATGTACAGATATGTGgtaagtttgtgagaacctggtaagtttgtctttgttccatatacagtcaa Alignment from Exonerate_coding2genome TTGAGCTTCGCGTGT-GCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTG--TATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG cctgctgcaatgacagacctctctaatagttgaatgtgctcttttgttagTTGAGCTTCACACTTTGCTCAGTTGCCAATGATTTACTTCCTCAACAATTATTTGTT---GACCTAAACCATACACTTATCAATGTACAGATATGTGgtaagtttgtgagaacctggtaagtttgtctttgttccatatacagtcaa Alignment from GeneWise ---CCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG cctgctgcaatgacagacctctctaatagttgaatgtgctcttttgttagttgagcttcacactttgctcagTTGCCAATGATTTACTTCCTCAACAATTATTTGTT-GACCTAAACCATACACTTATCAATGTACAGATATGTGgtaagtttgtgagaacctggtaagtttgtctttgttccatatacagtcaa #### Vegfb_ID1956_4 --> 0 - 2 Original Alignment ATCCTCATGATCCAG-TACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCag aagtttatctcttagcctcttagaaacactagctcctttcctggccacagATCCTCATGATCCAGCTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACA-CCAATGTGAATGCaggtacccgacagtctcagtatccaaggtctagcatgtgttggggctgtttg Alignment from CESAR ATCCTCATGATCCAG-TACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCag aagtttatctcttagcctcttagaaacactagctcctttcctggccacagATCCTCATGATCCAGCTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACA-CCAATGTGAATGCaggtacccgacagtctcagtatccaaggtctagcatgtgttggggctgtttg Alignment from Spaln_aa2Genome ATCCTCATGATCCAG-TACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG aagtttatctcttagcctcttagaaacactagctcctttcctggccacagATCCTCATGATCCAGcTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAC-CAATGTGAATGCAGgtacccgacagtctcagtatccaaggtctagcatgtgttggggctgtttg Alignment from Spaln_nt2Genome ATCCTCATGATCCAG-TACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG aagtttatctcttagcctcttagaaacactagctcctttcctggccacagATCCTCATGATCCAGCTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACA-CCAATGTGAATGCAGgtacccgacagtctcagtatccaaggtctagcatgtgttggggctgtttg Alignment from Pairagon ATCCTCATGATCCAG-TACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG aagtttatctcttagcctcttagaaacactagctcctttcctggccacagATCCTCATGATCCAGCTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACA-CCAATGTGAATGCAGgtacccgacagtctcagtatccaaggtctagcatgtgttggggctgtttg Alignment from Exonerate_protein2genome ATCCTCATGATCCAG-TACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAA--CACAGCCAATGTGAATGCAG aagtttatctcttagcctcttagaaacactagctcctttcctggccacagATCCTCATGATCCAGCTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAC---CAATGTGAATGCAGgtacccgacagtctcagtatccaaggtctagcatgtgttggggctgtttg Alignment from Exonerate_coding2genome ATCCTCATGATCCAG-TACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAA--CACAGCCAATGTGAATGCAG aagtttatctcttagcctcttagaaacactagctcctttcctggccacagATCCTCATGATCCAGCTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAC---CAATGTGAATGCAGgtacccgacagtctcagtatccaaggtctagcatgtgttggggctgtttg Alignment from GeneWise GTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCA aagtttatctcttagcctcttagaaacactagctcctttcctggccacagatcctcatgatccagCTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACACCAATGTGAATGCAGgtacccgacagtctcagtatccaaggtctagcatgtgttggggctgtttg #### Vegfb_ID1957_3 --> 2 - 0 Original Alignment tgGTGCCATGGATAGACGTTTATGCACGTGCCACA-TGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGT---GTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaaggtttctggtttatcccccttatctcataagtgGTGCCATGGATAGATGTCTATGCACGTGCTGCACTGCCAGCCAAGGGAGGTGGTGGCTCCACTGAGTATGAAAC-TATGGGTAATATAGTCAAACAGCTGGTGCCAAGTTGTGTTGTAACTGTGCAGCGCTGTAGTGGGTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgtaagtgacaaatttgaatgcaagtacttggaagtatcagtctggtactt Alignment from CESAR tgGTGCCATGGATAGACGTTTATGCACGTGCCACA-TGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGT---GTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaaggtttctggtttatcccccttatctcataagtgGTGCCATGGATAGATGTCTATGCACGTGCTGCACTGCCAGCCAAGGGAGGTGGTGGCTCCACTGAGTATGAAAC-TATGGGTAATATAGTCAAACAGCTGGTGCCAAGTTGTGTTGTAACTGTGCAGCGCTGTAGTGGGTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgtaagtgacaaatttgaatgcaagtacttggaagtatcagtctggtactt Alignment from Spaln_aa2Genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGT---GTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaaggtttctggtttatcccccttatctcataagTGGTGCCATGGATAGATGTCTATGCACGTGCTGCACTGCCAGCCAAGGGAGGTGGTGGCTCCACTGAGTATGAAACTATGGGTAATATAGTCAAACAGCTGGTGCCAAGTTGTGTTGTAACTGTGCAGCGCTGTAGTGGGTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgtaagtgacaaatttgaatgcaagtacttggaagtatcagtctggtactt Alignment from Spaln_nt2Genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACA-TGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTG---ACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaaggtttctggtttatcccccttatctcataagTGGTGCCATGGATAGATGTCTATGCACGTGCTGCACTGCCAGCCAAGGGAGGTGGTGGCTCCACTGAGTATGAAACT-ATGGGTAATATAGTCAAACAGCTGGTGCCAAGTTGTGTTGTAACTGTGCAGCGCTGTAGTGGGTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgtaagtgacaaatttgaatgcaagtacttggaagtatcagtctggtactt Alignment from Pairagon TGGTGCCATGGATAGACGTTTATGCACGTGCCACA-TGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGT---GACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaaggtttctggtttatcccccttatctcataagTGGTGCCATGGATAGATGTCTATGCACGTGCTGCACTGCCAGCCAAGGGAGGTGGTGGCTCCACTGAGTATGAAACT-ATGGGTAATATAGTCAAACAGCTGGTGCCAAGTTGTGTTGTAACTGTGCAGCGCTGTAGTGGGTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgtaagtgacaaatttgaatgcaagtacttggaagtatcagtctggtactt Alignment from Exonerate_protein2genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGT---GTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaaggtttctggtttatcccccttatctcataagTGGTGCCATGGATAGATGTCTATGCACGTGCTGCACTGCCAGCCAAGGGAGGTGGTGGCTCCACTGAGTATGAAACTATGGGTAATATAGTCAAACAGCTGGTGCCAAGTTGTGTTGTAACTGTGCAGCGCTGTAGTGGGTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgtaagtgacaaatttgaatgcaagtacttggaagtatcagtctggtactt Alignment from Exonerate_coding2genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGT---GTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaaggtttctggtttatcccccttatctcataagTGGTGCCATGGATAGATGTCTATGCACGTGCTGCACTGCCAGCCAAGGGAGGTGGTGGCTCCACTGAGTATGAAACTATGGGTAATATAGTCAAACAGCTGGTGCCAAGTTGTGTTGTAACTGTGCAGCGCTGTAGTGGGTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgtaagtgacaaatttgaatgcaagtacttggaagtatcagtctggtactt Alignment from GeneWise TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTG---ACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaaggtttctggtttatcccccttatctcataagTGGTGCCATGGATAGATGTCTATGCACGTGCTGCACTGCCAGCCAAGGGAGGTGGTGGCTCCACTGAGTATGAAACTATGGGTAATATAGTCAAACAGCTGGTGCCAAGTTGTGTTGTAACTGTGCAGCGCTGTAGTGGGTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgtaagtgacaaatttgaatgcaagtacttggaagtatcagtctggtactt #### Vldlr_ID5810_9 --> 2 - 1 Original Alignment atATTGATGAATGCCAAAACCCGGGGATCTGC-AGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAg aatgggatatagagaacaaggaattgagccatactccctgctctcctcagacATTGATGAATGCCAAAACCCAGGTATCTGCCGGCCAGATTTGTATCAACTTAAAAGGCGGTT-CAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAggtaagaaagtaactgaccaatgatacaaggttcggagtgtagcttactgt Alignment from CESAR atATTGATGAATGCCAAAACCCGGGGATCTGC-AGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAg aatgggatatagagaacaaggaattgagccatactccctgctctcctcagacATTGATGAATGCCAAAACCCAGGTATCTGCCGGCCAGATTTGTATCAACTTAAAAGGCG-GTTCAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAggtaagaaagtaactgaccaatgatacaaggttcggagtgtagcttactgt Alignment from Spaln_aa2Genome ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aatgggatatagagaacaaggaattgagccatactccctgctctcctcagACATTGATGAATGCCAAAACCCAGGTATCTGCCGGCCAGATTTGTATCAACTTAAAAGGCGGTTCAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAGgtaagaaagtaactgaccaatgatacaaggttcggagtgtagcttactgt Alignment from Spaln_nt2Genome ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAA-ATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aatgggatatagagaacaaggaattgagccatactccctgctctcctcagACATTGATGAATGCCAAAACCCAGGTATCTGCCGGCCAGATTTGTATCAACTTAAAAGGCGGTT-CAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAGgtaagaaagtaactgaccaatgatacaaggttcggagtgtagcttactgt Alignment from Pairagon ATATTGATGAATGCCAAAACCCGGGGATCTG-CAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aatgggatatagagaacaaggaattgagccatactccctgctctcctcagACATTGATGAATGCCAAAACCCAGGTATCTGCCGGCCAGATTTGTATCAACTTAAAAGGCGGTT-CAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAGgtaagaaagtaactgaccaatgatacaaggttcggagtgtagcttactgt Alignment from Exonerate_protein2genome ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aatgggatatagagaacaaggaattgagccatactccctgctctcctcagACATTGATGAATGCCAAAACCCAGGTATCTGCCGGCCAGATTTGTATCAACTTAAAAGGCGGTTCAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAGgtaagaaagtaactgaccaatgatacaaggttcggagtgtagcttactgt Alignment from Exonerate_coding2genome ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aatgggatatagagaacaaggaattgagccatactccctgctctcctcagACATTGATGAATGCCAAAACCCAGGTATCTGCCGGCCAGATTTGTATCAACTTAAAAGGCGGTTCAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAGgtaagaaagtaactgaccaatgatacaaggttcggagtgtagcttactgt Alignment from GeneWise ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAGGCAAAGAG aatgggatatagagaacaaggaattgagccatactccctgctctcctcagACATTGATGAATGCCAAAACCCAGGTATCTGCCGGCCAGATTTGTATCAACTTAAAAGGCGGTTCAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAGGTAAGAAAgtaactgaccaatgatacaaggttcggagtgtagcttactgt #### Vldlr_ID5811_10 --> 2 - 2 Original Alignment gcAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTA-GAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCag atagcacttttcaagcgagtaagtttttttggtctatttctttcccataggcAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCTTACGAAAGAAAAGAGTATATCCAACTTGTAGATCAATTGA-AAACACAGTAGCTCTTGATGCAGACATCGCAGCTCAGAAGCTCTTTTGGGCTGATTTTAGCCAGAAGGCTATTTTTaggtgagataaacctgcctcacagatgtctgggaagtgtattaaatggtatg Alignment from CESAR gcAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTA-GAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCag atagcacttttcaagcgagtaagtttttttggtctatttctttcccataggcAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCTTACGAAAGAAAAGAGTATATCCAACTTGTAGATCAATTGA-AAACACAGTAGCTCTTGATGCAGACATCGCAGCTCAGAAGCTCTTTTGGGCTGATTTTAGCCAGAAGGCTATTTTTaggtgagataaacctgcctcacagatgtctgggaagtgtattaaatggtatg Alignment from Spaln_aa2Genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTA-GAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG atagcacttttcaagcgagtaagtttttttggtctatttctttcccatagGCAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCTTAcGAAAGAAAAGAGTATATCCAACTTGTAGATCAATTGAA-AACACAGTAGCTCTTGATGCAGACATCGCAGCTCAGAAGCTCTTTTGGGCTGATTTTAGCCAGAAGGCTATTTTTAGgtgagataaacctgcctcacagatgtctgggaagtgtattaaatggtatg Alignment from Spaln_nt2Genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTA-GAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG atagcacttttcaagcgagtaagtttttttggtctatttctttcccatagGCAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCTTACGAAAGAAAAGAGTATATCCAACTTGTAGATCAATTGA-AAACACAGTAGCTCTTGATGCAGACATCGCAGCTCAGAAGCTCTTTTGGGCTGATTTTAGCCAGAAGGCTATTTTTAGgtgagataaacctgcctcacagatgtctgggaagtgtattaaatggtatg Alignment from Pairagon GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTA-GAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG atagcacttttcaagcgagtaagtttttttggtctatttctttcccatagGCAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCTTACGAAAGAAAAGAGTATATCCAACTTGTAGATCAATTGA-AAACACAGTAGCTCTTGATGCAGACATCGCAGCTCAGAAGCTCTTTTGGGCTGATTTTAGCCAGAAGGCTATTTTTAGgtgagataaacctgcctcacagatgtctgggaagtgtattaaatggtatg Alignment from Exonerate_protein2genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG atagcacttttcaagcgagtaagtttttttggtctatttctttcccatagGCAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCTTACGAAAGAAAAGAGTATATCCAACTTGTAGATCAATTGAAAACACAGTAGCTCTTGATGCAGACATCGCAGCTCAGAAGCTCTTTTGGGCTGATTTTAGCCAGAAGGCTATTTTTAGgtgagataaacctgcctcacagatgtctgggaagtgtattaaatggtatg Alignment from Exonerate_coding2genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG atagcacttttcaagcgagtaagtttttttggtctatttctttcccatagGCAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCTTACGAAAGAAAAGAGTATATCCAACTTGTAGATCAATTGAAAACACAGTAGCTCTTGATGCAGACATCGCAGCTCAGAAGCTCTTTTGGGCTGATTTTAGCCAGAAGGCTATTTTTAGgtgagataaacctgcctcacagatgtctgggaagtgtattaaatggtatg Alignment from GeneWise GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG atagcacttttcaagcgagtaagtttttttggtctatttctttcccatagGCAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCTTACGAAAGAAAAGAGTATATCCAACTTGTAGATCAATTGAAAACACAGTAGCTCTTGATGCAGACATCGCAGCTCAGAAGCTCTTTTGGGCTGATTTTAGCCAGAAGGCTATTTTTAGgtgagataaacctgcctcacagatgtctgggaagtgtattaaatggtatg #### Vldlr_ID5814_13 --> 2 - 0 Original Alignment acCTTGTCAAAAGCCGC-CTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG ccgttatgaaatcaatatactggttcttcctggggttgtcccggatctagacCTGGTCAAAAGCCGTCCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTA-TGTTGACCTTAATGGTCAAGATCGCAGGATTGTGCTCAAGTCCCTAAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGgtaagttatatgcaatatgtgcttatatcactaagtatagtaaaaagagc Alignment from CESAR acCTTGTCAAAAGCCGC-CTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG ccgttatgaaatcaatatactggttcttcctggggttgtcccggatctagacCTGGTCAAAAGCCGTCCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCT-ATGTTGACCTTAATGGTCAAGATCGCAGGATTGTGCTCAAGTCCCTAAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGgtaagttatatgcaatatgtgcttatatcactaagtatagtaaaaagagc Alignment from Spaln_aa2Genome CTCGACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG ttatgaaatcaatatactggttcttcctggggttgtcccggatcta gACCTGGTCAAAAGCCGTCCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTATGTTGACCTTAATGGTCAAGATCGCAGGATTGTGCTCAAGTCCCTAAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGgtaagttatatgcaatatgtgcttatatcactaagtatagtaaaaagagc Alignment from Spaln_nt2Genome ACCTTGTCAAAAGCCG-CCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG ccgttatgaaatcaatatactggttcttcctggggttgtcccggatctagACCTGGTCAAAAGCCGTCCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTA-TGTTGACCTTAATGGTCAAGATCGCAGGATTGTGCTCAAGTCCCTAAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGgtaagttatatgcaatatgtgcttatatcactaagtatagtaaaaagagc Alignment from Pairagon ACCTTGTCAAAAGCCG-CCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG ccgttatgaaatcaatatactggttcttcctggggttgtcccggatctagACCTGGTCAAAAGCCGTCCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTA-TGTTGACCTTAATGGTCAAGATCGCAGGATTGTGCTCAAGTCCCTAAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGgtaagttatatgcaatatgtgcttatatcactaagtatagtaaaaagagc Alignment from Exonerate_protein2genome ACCTTGTCAAAAGCCGC-CTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCT--AGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG ccgttatgaaatcaatatactggttcttcctggggttgtcccggatctagACCTGGTCAAAAGCCGTCCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAT---GTTGACCTTAATGGTCAAGATCGCAGGATTGTGCTCAAGTCCCTAAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGgtaagttatatgcaatatgtgcttatatcactaagtatagtaaaaagagc Alignment from Exonerate_coding2genome ACCTTGTCAAAAGCCGC-CTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCT--AGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG ccgttatgaaatcaatatactggttcttcctggggttgtcccggatctagACCTGGTCAAAAGCCGTCCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAT---GTTGACCTTAATGGTCAAGATCGCAGGATTGTGCTCAAGTCCCTAAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGgtaagttatatgcaatatgtgcttatatcactaagtatagtaaaaagagc Alignment from GeneWise ------GTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG ccgttatgaaatcaatatactggttcttcctggggttgtcccggatctagACCTGGTCAAAAGCCGTCCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAT-GTTGACCTTAATGGTCAAGATCGCAGGATTGTGCTCAAGTCCCTAAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGgtaagttatatgcaatatgtgcttatatcactaagtatagtaaaaagagc #### Vps13a_ID4058_65 --> 2 - 0 Original Alignment gtGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATG-GCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtggggaaaaggctgtatctgagttaactttattaatactctaggtGGGCTAGCTAGTGCTGCCTCCAAACTTACTAGCGCTATGCTCCAAAGGAGTAGCAGCCATGACCATGG-TGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTGCTGGACTAAGAGAGGGCATCACCCGAGGGGGAAAAGGTTTGGTCTCTgtgagtcctctctgagtctgagattacatagaagaactgtttcactcaca Alignment from CESAR gtGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATG-GCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtggggaaaaggctgtatctgagttaactttattaatactctaggtGGGCTAGCTAGTGCTGCCTCCAAACTTACTAGCGCTATGCTCCAAAGGAGTAGCAGCCATGACCATG-GTGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTGCTGGACTAAGAGAGGGCATCACCCGAGGGGGAAAAGGTTTGGTCTCTgtgagtcctctctgagtctgagattacatagaagaactgtttcactcaca Alignment from Spaln_aa2Genome GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtggggaaaaggctgtatctgagttaactttattaatactctagGTGGGCTAGCTAGTGCTGCCTCCAAACTTACTAGCGCTATGCTCCAAAGGAGTAGCAGCCATGACCATGGTGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTGCTGGACTAAGAGAGGGCATCACCCGAGGGGGAAAAGGTTTGGTCTCTgtgagtcctctctgagtctgagattacatagaagaactgtttcactcaca Alignment from Spaln_nt2Genome GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGG-CTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtggggaaaaggctgtatctgagttaactttattaatactctagGTGGGCTAGCTAGTGCTGCCTCCAAACTTACTAGCGCTATGCTCCAAAGGAGTAGCAGCCATGACCATGG-TGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTGCTGGACTAAGAGAGGGCATCACCCGAGGGGGAAAAGGTTTGGTCTCTgtgagtcctctctgagtctgagattacatagaagaactgtttcactcaca Alignment from Pairagon GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGG-CTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtggggaaaaggctgtatctgagttaactttattaatactctagGTGGGCTAGCTAGTGCTGCCTCCAAACTTACTAGCGCTATGCTCCAAAGGAGTAGCAGCCATGACCATGG-TGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTGCTGGACTAAGAGAGGGCATCACCCGAGGGGGAAAAGGTTTGGTCTCTgtgagtcctctctgagtctgagattacatagaagaactgtttcactcaca Alignment from Exonerate_protein2genome GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtggggaaaaggctgtatctgagttaactttattaatactctagGTGGGCTAGCTAGTGCTGCCTCCAAACTTACTAGCGCTATGCTCCAAAGGAGTAGCAGCCATGACCATGGTGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTGCTGGACTAAGAGAGGGCATCACCCGAGGGGGAAAAGGTTTGGTCTCTgtgagtcctctctgagtctgagattacatagaagaactgtttcactcaca Alignment from Exonerate_coding2genome GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtggggaaaaggctgtatctgagttaactttattaatactctagGTGGGCTAGCTAGTGCTGCCTCCAAACTTACTAGCGCTATGCTCCAAAGGAGTAGCAGCCATGACCATGGTGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTGCTGGACTAAGAGAGGGCATCACCCGAGGGGGAAAAGGTTTGGTCTCTgtgagtcctctctgagtctgagattacatagaagaactgtttcactcaca Alignment from GeneWise GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtggggaaaaggctgtatctgagttaactttattaatactctagGTGGGCTAGCTAGTGCTGCCTCCAAACTTACTAGCGCTATGCTCCAAAGGAGTAGCAGCCATGACCATGGTGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTGCTGGACTAAGAGAGGGCATCACCCGAGGGGGAAAAGGTTTGGTCTCTgtgagtcctctctgagtctgagattacatagaagaactgtttcactcaca #### Vps13a_ID4067_56 --> 0 - 0 Original Alignment GTT---------CGTTTAACACCTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGA-AATTACCTGCCAGCACTAAAAGTAGAATATAACACATCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG caaaaacacacaacaactaaattgccacctaatgtgggggtttggggcagGTTCATGTAACACGTCTAACCCCTAGTGGCAATGATATGAGAATTTTGCAAACTCGCCTGATACCTGTACGTAGACAACTATCTTCCAGCACTAAAGATAGCATACAATACAA-AGTACATCAGTGGACGTTTCGGATTCAGATTTATAGGATTCAGgtaggattgagaatggaaggaggacaagaatgaccccatgagtccttatc Alignment from CESAR GTT---------CGTTTAACACCTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGA-AATTACCTGCCAGCACTAAAAGTAGAATATAACACATCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG caaaaacacacaacaactaaattgccacctaatgtgggggtttggggcagGTTCATGTAACACGTCTAACCCCTAGTGGCAATGATATGAGAATTTTGCAAACTCGCCTGATACCTGTACGTAGACAACTATCTTCCAGCACTAAAGATAGCATACAATACA-AAGTACATCAGTGGACGTTTCGGATTCAGATTTATAGGATTCAGgtaggattgagaatggaaggaggacaagaatgaccccatgagtccttatc Alignment from Spaln_aa2Genome GTTCGTTTAACACCT---------AGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAAGTAGAATATAACACATCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG caaaaacacacaacaactaaattgccacctaatgtgggggtttggggcagGTTCATGTAACACGTCTAACCCCTAGTGGCAATGATATGAGAATTTTGCAAACTCGCCTGATACCTGTACGTAGACAACTATCTTCCAGCACTAAAGATAGCATACAATACAAAGTACATCAGTGGACGTTTCGGATTCAGATTTATAGGATTCAGgtaggattgagaatggaaggaggacaagaatgaccccatgagtccttatc Alignment from Spaln_nt2Genome GTTCGTTTAACAC---------CTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGA-AATTACCTGCCAGCACTAAAAGTAGAATATAACACATCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG caaaaacacacaacaactaaattgccacctaatgtgggggtttggggcagGTTCATGTAACACGTCTAACCCCTAGTGGCAATGATATGAGAATTTTGCAAACTCGCCTGATACCTGTACGTAGACAACTATCTTCCAGCACTAAAGATAGCATACAATACA-AAGTACATCAGTGGACGTTTCGGATTCAGATTTATAGGATTCAGgtaggattgagaatggaaggaggacaagaatgaccccatgagtccttatc Alignment from Pairagon GTT---------CGTTTAACACCTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGA-AATTACCTGCCAGCACTAAAAGTAGAATATAACACATCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG caaaaacacacaacaactaaattgccacctaatgtgggggtttggggcagGTTCATGTAACACGTCTAACCCCTAGTGGCAATGATATGAGAATTTTGCAAACTCGCCTGATACCTGTACGTAGACAACTATCTTCCAGCACTAAAGATAGCATACAATACA-AAGTACATCAGTGGACGTTTCGGATTCAGATTTATAGGATTCAGgtaggattgagaatggaaggaggacaagaatgaccccatgagtccttatc Alignment from Exonerate_protein2genome TTCGTTTAACACCTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAAGTAGAATATAACACATCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG caaaaacacacaacaactaaattgccacctaatgtgggggtttggggcaggttcatgtaaCACGTCTAACCCCTAGTGGCAATGATATGAGAATTTTGCAAACTCGCCTGATACCTGTACGTAGACAACTATCTTCCAGCACTAAAGATAGCATACAATACAAAGTACATCAGTGGACGTTTCGGATTCAGATTTATAGGATTCAGgtaggattgagaatggaaggaggacaagaatgaccccatgagtccttatc Alignment from Exonerate_coding2genome TTCGTTTAACACCTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAAGTAGAATATAACACATCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG caaaaacacacaacaactaaattgccacctaatgtgggggtttggggcaggttcatgtaaCACGTCTAACCCCTAGTGGCAATGATATGAGAATTTTGCAAACTCGCCTGATACCTGTACGTAGACAACTATCTTCCAGCACTAAAGATAGCATACAATACAAAGTACATCAGTGGACGTTTCGGATTCAGATTTATAGGATTCAGgtaggattgagaatggaaggaggacaagaatgaccccatgagtccttatc Alignment from GeneWise ---------GTTCGTTTAACACCTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAAGTAGAATATAACACATCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG caaaaacacacaacaactaaattgccacctaatgtgggggtttggggcagGTTCATGTAACACGTCTAACCCCTAGTGGCAATGATATGAGAATTTTGCAAACTCGCCTGATACCTGTACGTAGACAACTATCTTCCAGCACTAAAGATAGCATACAATACAAAGTACATCAGTGGACGTTTCGGATTCAGATTTATAGGATTCAGgtaggattgagaatggaaggaggacaagaatgaccccatgagtccttatc #### Vps13a_ID4068_55 --> 1 - 0 Original Alignment tTCTGATGTGGTTTGG-GAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG aagtagcagtgaaagtctattgagcttcgcctcttttcttcctctcatagtACTGATGTGGTTTGGCGAGGCAAAACCAAAGGAGAAGACCAGGTGGA-ACCCATG---ATTAAGCACACAGTCAAGCTAGAGAAGGGGTTTAGGGCATACACGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtactctctatcttgtgctgcctgtgtgcaatacttgagaaatgattttc Alignment from CESAR tTCTGATGTGGTTTGG-GAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG aagtagcagtgaaagtctattgagcttcgcctcttttcttcctctcatagtACTGATGTGGTTTGGCGAGGCAAAACCAAAGGAGAAGACCAGGTGG-AACCCATG---ATTAAGCACACAGTCAAGCTAGAGAAGGGGTTTAGGGCATACACGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtactctctatcttgtgctgcctgtgtgcaatacttgagaaatgattttc Alignment from Spaln_aa2Genome TTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG aagtagcagtgaaagtctattgagcttcgcctcttttcttcctctcatagTACTGATGTGGTTTGGCGAGGCAAAACCAAAGGAGAAGACCAGGTGGAACCCATG---ATTAAGCACACAGTCAAGCTAGAGAAGGGGTTTAGGGCATACACGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtactctctatcttgtgctgcctgtgtgcaatacttgagaaatgattttc Alignment from Spaln_nt2Genome TTCTGATGTGGTTTGG-GAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG aagtagcagtgaaagtctattgagcttcgcctcttttcttcctctcatagTACTGATGTGGTTTGGCGAGGCAAAACCAAAGGAGAAGACCAGGTGGAA-CCCATGA---TTAAGCACACAGTCAAGCTAGAGAAGGGGTTTAGGGCATACACGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtactctctatcttgtgctgcctgtgtgcaatacttgagaaatgattttc Alignment from Pairagon TTCTGATGTGGTTTGG-GAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG aagtagcagtgaaagtctattgagcttcgcctcttttcttcctctcatagTACTGATGTGGTTTGGCGAGGCAAAACCAAAGGAGAAGACCAGGTGGAA-CCCATGA---TTAAGCACACAGTCAAGCTAGAGAAGGGGTTTAGGGCATACACGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtactctctatcttgtgctgcctgtgtgcaatacttgagaaatgattttc Alignment from Exonerate_protein2genome TTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG aagtagcagtgaaagtctattgagcttcgcctcttttcttcctctcatagTACTGATGTGGTTTGGCGAGGCAAAACCAAAGGAGAAGACCAGGTGGAACCCATG---ATTAAGCACACAGTCAAGCTAGAGAAGGGGTTTAGGGCATACACGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtactctctatcttgtgctgcctgtgtgcaatacttgagaaatgattttc Alignment from Exonerate_coding2genome TTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG aagtagcagtgaaagtctattgagcttcgcctcttttcttcctctcatagTACTGATGTGGTTTGGCGAGGCAAAACCAAAGGAGAAGACCAGGTGGAACCCATG---ATTAAGCACACAGTCAAGCTAGAGAAGGGGTTTAGGGCATACACGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtactctctatcttgtgctgcctgtgtgcaatacttgagaaatgattttc Alignment from GeneWise TTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG aagtagcagtgaaagtctattgagcttcgcctcttttcttcctctcatagTACTGATGTGGTTTGGCGAGGCAAAACCAAAGGAGAAGACCAGGTGGAACCCATG---ATTAAGCACACAGTCAAGCTAGAGAAGGGGTTTAGGGCATACACGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtactctctatcttgtgctgcctgtgtgcaatacttgagaaatgattttc #### Vps13a_ID4093_30 --> 2 - 1 Original Alignment ctTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAG-CTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAg gtcatctgttagtaaatctcctgataccctcgcatttatgcttattttagctTTAAAGCTACCTATAAATGAAGACATTATTACATTGCAGCCTCGTGGCAGAACTATCATGTTTAAAAATTC-CATCCAGGATCAGAAACAGAACGTATCAGAAATCAAAATTGAAggtaaatatatctatttcctgttaggattgactaaattcataaggcagcat Alignment from CESAR ctTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAG-CTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAg gtcatctgttagtaaatctcctgataccctcgcatttatgcttattttagctTTAAAGCTACCTATAAATGAAGACATTATTACATTGCAGCCTCGTGGCAGAACTATCATGTTTAAAAATT-CCATCCAGGATCAGAAACAGAACGTATCAGAAATCAAAATTGAAggtaaatatatctatttcctgttaggattgactaaattcataaggcagcat Alignment from Spaln_aa2Genome CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG gtcatctgttagtaaatctcctgataccctcgcatttatgcttattttagCTTTAAAGCTACCTATAAATGAAGACATTATTACATTGCAGCCTCGTGGCAGAACTATCATGTTTAAAAATTCCATCCAGGATCAGAAACAGAACGTATCAGAAATCAAAATTGAAGgtaaatatatctatttcctgttaggattgactaaattcataaggcagcat Alignment from Spaln_nt2Genome CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTT-TGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG gtcatctgttagtaaatctcctgataccctcgcatttatgcttattttagCTTTAAAGCTACCTATAAATGAAGACATTATTACATTGCAGCCTCGTGGCAGAACTATCATGTTTA-AAAATTCCATCCAGGATCAGAAACAGAACGTATCAGAAATCAAAATTGAAGgtaaatatatctatttcctgttaggattgactaaattcataaggcagcat Alignment from Pairagon CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTT-TGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG gtcatctgttagtaaatctcctgataccctcgcatttatgcttattttagCTTTAAAGCTACCTATAAATGAAGACATTATTACATTGCAGCCTCGTGGCAGAACTATCATGTTTAAAAA-TTCCATCCAGGATCAGAAACAGAACGTATCAGAAATCAAAATTGAAGgtaaatatatctatttcctgttaggattgactaaattcataaggcagcat Alignment from Exonerate_protein2genome CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG gtcatctgttagtaaatctcctgataccctcgcatttatgcttattttagCTTTAAAGCTACCTATAAATGAAGACATTATTACATTGCAGCCTCGTGGCAGAACTATCATGTTTAAAAATTCCATCCAGGATCAGAAACAGAACGTATCAGAAATCAAAATTGAAGgtaaatatatctatttcctgttaggattgactaaattcataaggcagcat Alignment from Exonerate_coding2genome CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG gtcatctgttagtaaatctcctgataccctcgcatttatgcttattttagCTTTAAAGCTACCTATAAATGAAGACATTATTACATTGCAGCCTCGTGGCAGAACTATCATGTTTAAAAATTCCATCCAGGATCAGAAACAGAACGTATCAGAAATCAAAATTGAAGgtaaatatatctatttcctgttaggattgactaaattcataaggcagcat Alignment from GeneWise CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAA--------------------------------------------------- gtcatctgttagtaaatctcctgataccctcgcatttatgcttattttagCTTTAAAGCTACCTATAAATGAAGACATTATTACATTGCAGCCTCGTGGCAGAACTATCATGTTTAAAAATTCCATCCAGGATCAGAAACAGAACGTATCAGAAATCAAAATTGAAGGTAAATATATCTATTTCCTGTTAGGATTGACTAAATTCATAAGGCAGCAT #### Vps13a_ID4119_4 --> 2 - 1 Original Alignment gtAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACT-CAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTa tgagtccctactccctgcataaaaaccccgcttcttgctttgcattgcaggtAGCCTTAAACTTAAAATCCCATGGAAAAACCTTTATACTCCAACCTGTTGGAGCAGTTCTGGAAGAAATCTTTTTACTCA-AGTACCTTCTTCTagtaaatcacttaaagtaggtcatatagctttttcccaggtgtaaagcctg Alignment from CESAR gtAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACT-CAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTa tgagtccctactccctgcataaaaaccccgcttcttgctttgcattgcaggtAGCCTTAAACTTAAAATCCCATGGAAAAACCTTTATACTCCAACCTGTTGGAGCAGTTCTGGAAGAAATCTTTTTACTC-AAGTACCTTCTTCTagtaaatcacttaaagtaggtcatatagctttttcccaggtgtaaagcctg Alignment from Spaln_aa2Genome GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACT-CAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA tgagtccctactccctgcataaaaaccccgcttcttgctttgcattgcagGTAGCCTTAAACTTAAAATCCCATGGAAAAACCTTTATACTcCAACCTGTTGGAGCAGTTCTGGAAGAAATCTTTTTACTCAA-GTACCTTCTTCTAgtaaatcacttaaagtaggtcatatagctttttcccaggtgtaaagcctg Alignment from Spaln_nt2Genome GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACT-CAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA tgagtccctactccctgcataaaaaccccgcttcttgctttgcattgcagGTAGCCTTAAACTTAAAATCCCATGGAAAAACCTTTATACTCCAACCTGTTGGAGCAGTTCTGGAAGAAATCTTTTTACTCA-AGTACCTTCTTCTAgtaaatcacttaaagtaggtcatatagctttttcccaggtgtaaagcctg Alignment from Pairagon GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACT-CAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA tgagtccctactccctgcataaaaaccccgcttcttgctttgcattgcagGTAGCCTTAAACTTAAAATCCCATGGAAAAACCTTTATACTCCAACCTGTTGGAGCAGTTCTGGAAGAAATCTTTTTACTCA-AGTACCTTCTTCTAgtaaatcacttaaagtaggtcatatagctttttcccaggtgtaaagcctg Alignment from Exonerate_protein2genome GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA tgagtccctactccctgcataaaaaccccgcttcttgctttgcattgcagGTAGCCTTAAACTTAAAATCCCATGGAAAAACCTTTATACTCCAACCTGTTGGAGCAGTTCTGGAAGAAATCTTTTTACTCAAGTACCTTCTTCTAgtaaatcacttaaagtaggtcatatagctttttcccaggtgtaaagcctg Alignment from Exonerate_coding2genome GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA tgagtccctactccctgcataaaaaccccgcttcttgctttgcattgcagGTAGCCTTAAACTTAAAATCCCATGGAAAAACCTTTATACTCCAACCTGTTGGAGCAGTTCTGGAAGAAATCTTTTTACTCAAGTACCTTCTTCTAgtaaatcacttaaagtaggtcatatagctttttcccaggtgtaaagcctg Alignment from GeneWise GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA tgagtccctactccctgcataaaaaccccgcttcttgctttgcattgcagGTAGCCTTAAACTTAAAATCCCATGGAAAAACCTTTATACTCCAACCTGTTGGAGCAGTTCTGGAAGAAATCTTTTTACTCAAGTACCTTCTTCTAgtaaatcacttaaagtaggtcatatagctttttcccaggtgtaaagcctg #### Wdr74_ID2312_2 --> 2 - 0 Original Alignment ggGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCG-TCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttggtgtatttagccacctcagtattcccatgttttccttcttgcagggGTGAACCTTCAGCGTAAACATACAGCCAATTTTGCTCCACTTGGGACAACCACGGAGGGAGCAGGCAGTGAATGCTCTGT-CTGGGGTACTGGCAGTGAGACCCAAgtgagtaggctacagcttggtcaaagtcacaagagctgtagaattcctga Alignment from CESAR ggGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCG-TCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttggtgtatttagccacctcagtattcccatgttttccttcttgcagggGTGAACCTTCAGCGTAAACATACAGCCAATTTTGCTCCACTTGGGACAACCACGGAGGGAGCAGGCAGTGAATGCTCTG-TCTGGGGTACTGGCAGTGAGACCCAAgtgagtaggctacagcttggtcaaagtcacaagagctgtagaattcctga Alignment from Spaln_aa2Genome GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttggtgtatttagccacctcagtattcccatgttttccttcttgcagGGGTGAACCTTCAGCGTAAACATACAGCCAATTTTGCTCCACTTGGGACAACCACGGAGGGAGCAGGCAGTGAATGCTCTGTCTGGGGTACTGGCAGTGAGACCCAAgtgagtaggctacagcttggtcaaagtcacaagagctgtagaattcctga Alignment from Spaln_nt2Genome GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCG-TCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttggtgtatttagccacctcagtattcccatgttttccttcttgcagGGGTGAACCTTCAGCGTAAACATACAGCCAATTTTGCTCCACTTGGGACAACCACGGAGGGAGCAGGCAGTGAATGCTCTGT-CTGGGGTACTGGCAGTGAGACCCAAgtgagtaggctacagcttggtcaaagtcacaagagctgtagaattcctga Alignment from Pairagon GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCC-----GGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttggtgtatttagccacctcagtattcccatgttttccttcttgcagGGGTGAACCTTCAGCGTAAACATACAGCCAATTTTGC----TCCACTTGGGACAACCACGGAGGGAGCAGGCAGTGAATGCTCTGT-CTGGGGTACTGGCAGTGAGACCCAAgtgagtaggctacagcttggtcaaagtcacaagagctgtagaattcctga Alignment from Exonerate_protein2genome GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttggtgtatttagccacctcagtattcccatgttttccttcttgcagGGGTGAACCTTCAGCGTAAACATACAGCCAATTTTGCTCCACTTGGGACAACCACGGAGGGAGCAGGCAGTGAATGCTCTGTCTGGGGTACTGGCAGTGAGACCCAAgtgagtaggctacagcttggtcaaagtcacaagagctgtagaattcctga Alignment from Exonerate_coding2genome ATCCTGAAAGGGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttggtgtatttagccacctcagtattcccatgttttcCTTCTTGCAGGGGTGAACCTTCAGCGTAAACATACAGCCAATTTTGCTCCACTTGGGACAACCACGGAGGGAGCAGGCAGTGAATGCTCTGTCTGGGGTACTGGCAGTGAGACCCAAgtgagtaggctacagcttggtcaaagtcacaagagctgtagaattcctga Alignment from GeneWise GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttggtgtatttagccacctcagtattcccatgttttccttcttgcagGGGTGAACCTTCAGCGTAAACATACAGCCAATTTTGCTCCACTTGGGACAACCACGGAGGGAGCAGGCAGTGAATGCTCTGTCTGGGGTACTGGCAGTGAGACCCAAgtgagtaggctacagcttggtcaaagtcacaagagctgtagaattcctga #### Wdr74_ID2319_9 --> 2 - 0 Original Alignment ggCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGAC-AGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtaatctgccaaattctcctgctccgggcgttcaggcAGGCTAGTTGGCTGTCTGAAGGGCCTTGCAGGTGGCGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCTTCATGTGGCCTGGACCAGAATACTGAGGATGCACAGGATACGCAACC-TTGTGGTCTGGAGCATAAGgtaagttccagcaaatgtaacttagtagtcttagtagtagggctatgaca Alignment from CESAR ggCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGAC-AGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtaatctgccaaattctcctgctccgggcgttcaggcAGGCTAGTTGGCTGTCTGAAGGGCCTTGCAGGTGGCGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCTTCATGTGGCCTGGACCAGAATACTGAGGATGCACAGGATACGCA-ACCTTGTGGTCTGGAGCATAAGgtaagttccagcaaatgtaacttagtagtcttagtagtagggctatgaca Alignment from Spaln_aa2Genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGAC-AGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtaatctgccaaattctcctgctccgggcgttcagGCAGGCTAGTTGGCTGTCTGAAGGGCCTTGCAGGTGGCGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCTTCATGTGGCCTGGACcAGAATACTGAGGATGCACAGGATACGCAA-CCTTGTGGTCTGGAGCATAAGgtaagttccagcaaatgtaacttagtagtcttagtagtagggctatgaca Alignment from Spaln_nt2Genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGAC-AGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtaatctgccaaattctcctgctccgggcgttcagGCAGGCTAGTTGGCTGTCTGAAGGGCCTTGCAGGTGGCGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCTTCATGTGGCCTGGACCAGAATACTGAGGATGCACAGGATACGCAA-CCTTGTGGTCTGGAGCATAAGgtaagttccagcaaatgtaacttagtagtcttagtagtagggctatgaca Alignment from Pairagon GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGAC-AGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtaatctgccaaattctcctgctccgggcgttcagGCAGGCTAGTTGGCTGTCTGAAGGGCCTTGCAGGTGGCGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCTTCATGTGGCCTGGACCAGAATACTGAGGATGCACAGGATACGCAA-CCTTGTGGTCTGGAGCATAAGgtaagttccagcaaatgtaacttagtagtcttagtagtagggctatgaca Alignment from Exonerate_protein2genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtaatctgccaaattctcctgctccgggcgttcagGCAGGCTAGTTGGCTGTCTGAAGGGCCTTGCAGGTGGCGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCTTCATGTGGCCTGGACCAGAATACTGAGGATGCACAGGATACGCAACCTTGTGGTCTGGAGCATAAGgtaagttccagcaaatgtaacttagtagtcttagtagtagggctatgaca Alignment from Exonerate_coding2genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtaatctgccaaattctcctgctccgggcgttcagGCAGGCTAGTTGGCTGTCTGAAGGGCCTTGCAGGTGGCGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCTTCATGTGGCCTGGACCAGAATACTGAGGATGCACAGGATACGCAACCTTGTGGTCTGGAGCATAAGgtaagttccagcaaatgtaacttagtagtcttagtagtagggctatgaca Alignment from GeneWise GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtaatctgccaaattctcctgctccgggcgttcagGCAGGCTAGTTGGCTGTCTGAAGGGCCTTGCAGGTGGCGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCTTCATGTGGCCTGGACCAGAATACTGAGGATGCACAGGATACGCAACCTTGTGGTCTGGAGCATAAGgtaagttccagcaaatgtaacttagtagtcttagtagtagggctatgaca #### Wdr96_ID10335_36 --> 0 - 0 Original Alignment TACCTAAACGAA-CCAAACTACGAGAATGTGATTGCCATTCAGATTGGAATAATGGAGCAAACGATTAGTGTTATAGATAAG gtacttttagcaaaatcaacaattgaatcactgtttcgcattgcttgtagTACCTAAATGAACCCAAACTACAGGAATGTAATCACTATACTGATTGGAATAA-GGAGCAGACAATTGGTGTTGTAGATAAGgtaactgctaagcttataaactaatcaagtcaaagtccactataatgctg Alignment from CESAR TACCTAAACGAA-CCAAACTACGAGAATGTGATTGCCATTCAGATTGGAATAATGGAGCAAACGATTAGTGTTATAGATAAG gtacttttagcaaaatcaacaattgaatcactgtttcgcattgcttgtagTACCTAAATGAACCCAAACTACAGGAATGTAATCACTATACTGATTGGAATA-AGGAGCAGACAATTGGTGTTGTAGATAAGgtaactgctaagcttataaactaatcaagtcaaagtccactataatgctg Alignment from Spaln_aa2Genome TACCTAAACGAACCAAACTACGAGAATGTGATTGCCATTCAGATTGGAATAATGGAGCAAACGATTAGTGTTATAGATAAG gtacttttagcaaaatcaacaattgaatcactgtttcgcattgcttgtagTACCTAAATGAACCCAAACTACAGGAATGTAATCACTATACTGATTGGAATAAGGAGCAGACAATTGGTGTTGTAGATAAGgtaactgctaagcttataaactaatcaagtcaaagtccactataatgctg Alignment from Spaln_nt2Genome TACCTAAACGAACC-AAACTACGAGAATGTGATTGCCATTCAGATTGGAATAATGGAGCAAACGATTAGTGTTATAGATAAG gtacttttagcaaaatcaacaattgaatcactgtttcgcattgcttgtagTACCTAAATGAACCCAAACTACAGGAATGTAATCACTATACTGATTGGAATAA-GGAGCAGACAATTGGTGTTGTAGATAAGgtaactgctaagcttataaactaatcaagtcaaagtccactataatgctg Alignment from Pairagon TACCTAAACGAA-CCAAACTACGAGAATGTGATTGCCATTCAGATTGGAATAATGGAGCAAACGATTAGTGTTATAGATAAG gtacttttagcaaaatcaacaattgaatcactgtttcgcattgcttgtagTACCTAAATGAACCCAAACTACAGGAATGTAATCACTATACTGATTGGAATAA-GGAGCAGACAATTGGTGTTGTAGATAAGgtaactgctaagcttataaactaatcaagtcaaagtccactataatgctg Alignment from Exonerate_protein2genome TACCTAAACGAACCAAACTACGAGAATGTGATTGCCATTCAGATTGGAATAATGGAGCAAACGATTAGTGTTATAGATAAG gtacttttagcaaaatcaacaattgaatcactgtttcgcattgcttgtagTACCTAAATGAACCCAAACTACAGGAATGTAATCACTATACTGATTGGAATAAGGAGCAGACAATTGGTGTTGTAGATAAGgtaactgctaagcttataaactaatcaagtcaaagtccactataatgctg Alignment from Exonerate_coding2genome TACCTAAACGAACCAAACTACGAGAATGTGATTGCCATTCAGATTGGAATAATGGAGCAAACGATTAGTGTTATAGATAAG gtacttttagcaaaatcaacaattgaatcactgtttcgcattgcttgtagTACCTAAATGAACCCAAACTACAGGAATGTAATCACTATACTGATTGGAATAAGGAGCAGACAATTGGTGTTGTAGATAAGgtaactgctaagcttataaactaatcaagtcaaagtccactataatgctg Alignment from GeneWise TACCTAAACGAACCAAACTACGAGAATGTGATTGCCATTCAGATTGGAATAATGGAGCAAACGATTAGTGTTATAGATAAG gtacttttagcaaaatcaacaattgaatcactgtttcgcattgcttgtagTACCTAAATGAACCCAAACTACAGGAATGTAATCACTATACTGATTGGAATAAGGAGCAGACAATTGGTGTTGTAGATAAGgtaactgctaagcttataaactaatcaagtcaaagtccactataatgctg #### Yif1a_ID832_4 --> 0 - 1 Original Alignment AACTGGAAAATGCAATACAGCCATGAT-GTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCa gaggcaagttattttattgctcatattgacctcctcttgtcttcctccagAACTGGAAAATGCAGTATAGCCATGATCGTGCCTCTACCCCCTCGGAAAGATCTGAATACCC-TGACCTTTATATCCCAagtaagttggtgacgcacagttaagctccacctctgtgcttagcaacaatg Alignment from CESAR AACTGGAAAATGCAATACAGCCATGAT-GTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCa gaggcaagttattttattgctcatattgacctcctcttgtcttcctccagAACTGGAAAATGCAGTATAGCCATGATCGTGCCTCTACCCCCTCGGAAAGATCTGAATA-CCCTGACCTTTATATCCCAagtaagttggtgacgcacagttaagctccacctctgtgcttagcaacaatg Alignment from Spaln_aa2Genome AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA gaggcaagttattttattgctcatattgacctcctcttgtcttcctccagAACTGGAAAATGCAGTATAGCCATGATCGTGCCTCTACCCCCTCGGAAAGATCTGAATACCCTGACCTTTATATCCCAAgtaagttggtgacgcacagttaagctccacctctgtgcttagcaacaatg Alignment from Spaln_nt2Genome AACTGGAAAATGCAATACAGCCATGAT-GTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA gaggcaagttattttattgctcatattgacctcctcttgtcttcctccagAACTGGAAAATGCAGTATAGCCATGATCGTGCCTCTACCCCCTCGGAAAGATCTGAAT-ACCCTGACCTTTATATCCCAAgtaagttggtgacgcacagttaagctccacctctgtgcttagcaacaatg Alignment from Pairagon AACTGGAAAATGCAATACAGCCATGAT-GTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA gaggcaagttattttattgctcatattgacctcctcttgtcttcctccagAACTGGAAAATGCAGTATAGCCATGATCGTGCCTCTACCCCCTCGGAAAGATCTGAATA-CCCTGACCTTTATATCCCAAgtaagttggtgacgcacagttaagctccacctctgtgcttagcaacaatg Alignment from Exonerate_protein2genome AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA gaggcaagttattttattgctcatattgacctcctcttgtcttcctccagAACTGGAAAATGCAGTATAGCCATGATCGTGCCTCTACCCCCTCGGAAAGATCTGAATACCCTGACCTTTATATCCCAAgtaagttggtgacgcacagttaagctccacctctgtgcttagcaacaatg Alignment from Exonerate_coding2genome AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA gaggcaagttattttattgctcatattgacctcctcttgtcttcctccagAACTGGAAAATGCAGTATAGCCATGATCGTGCCTCTACCCCCTCGGAAAGATCTGAATACCCTGACCTTTATATCCCAAgtaagttggtgacgcacagttaagctccacctctgtgcttagcaacaatg Alignment from GeneWise AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA gaggcaagttattttattgctcatattgacctcctcttgtcttcctccagAACTGGAAAATGCAGTATAGCCATGATCGTGCCTCTACCCCCTCGGAAAGATCTGAATACCCTGACCTTTATATCCCAAgtaagttggtgacgcacagttaagctccacctctgtgcttagcaacaatg #### Zdhhc16_ID8345_2 --> 0 - 0 Original Alignment GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATC-GTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatgtacctactctgacggctgtcctatctgccacccccacctcagGTGTTTGTAGTGCTAGTGATTGTGCTGCCTGGTTCGATTCGTAGCCATTGCTTATCTGTGTGTTCTGCCAC-CATCCTTCGAACTTACTCAGTACCTCAACTCTGCTGGCATTTTCTCTATAGTCACTGGAATCTCATTCTCATTGTCTTCCACTATTATCAAGCCATTGCTACTCCCCACGAATATCCACCTCAGgtaagcactccacagtgcaagtttcactagagacaatgctttcttgctgt Alignment from CESAR GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATC-GTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatgtacctactctgacggctgtcctatctgccacccccacctcagGTGTTTGTAGTGCTAGTGATTGTGCTGCCTGGTTCGATTCGTAGCCATTGCTTATCTGTGTGTTCTGCCA-CCATCCTTCGAACTTACTCAGTACCTCAACTCTGCTGGCATTTTCTCTATAGTCACTGGAATCTCATTCTCATTGTCTTCCACTATTATCAAGCCATTGCTACTCCCCACGAATATCCACCTCAGgtaagcactccacagtgcaagtttcactagagacaatgctttcttgctgt Alignment from Spaln_aa2Genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatgtacctactctgacggctgtcctatctgccacccccacctcagGTGTTTGTAGTGCTAGTGATTGTGCTGCCTGGTTCGATTCGTAGCCATTGCTTATCTGTGTGTTCTGCCACCATCCTTCGAACTTACTCAGTACCTCAACTCTGCTGGCATTTTCTCTATAGTCACTGGAATCTCATTCTCATTGTCTTCCACTATTATCAAGCCATTGCTACTCCCCACGAATATCCACCTCAGgtaagcactccacagtgcaagtttcactagagacaatgctttcttgctgt Alignment from Spaln_nt2Genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCAT-CGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatgtacctactctgacggctgtcctatctgccacccccacctcagGTGTTTGTAGTGCTAGTGATTGTGCTGCCTGGTTCGATTCGTAGCCATTGCTTATCTGTGTGTTCTGCCAC-CATCCTTCGAACTTACTCAGTACCTCAACTCTGCTGGCATTTTCTCTATAGTCACTGGAATCTCATTCTCATTGTCTTCCACTATTATCAAGCCATTGCTACTCCCCACGAATATCCACCTCAGgtaagcactccacagtgcaagtttcactagagacaatgctttcttgctgt Alignment from Pairagon GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCA-TCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatgtacctactctgacggctgtcctatctgccacccccacctcagGTGTTTGTAGTGCTAGTGATTGTGCTGCCTGGTTCGATTCGTAGCCATTGCTTATCTGTGTGTTCTGCCAC-CATCCTTCGAACTTACTCAGTACCTCAACTCTGCTGGCATTTTCTCTATAGTCACTGGAATCTCATTCTCATTGTCTTCCACTATTATCAAGCCATTGCTACTCCCCACGAATATCCACCTCAGgtaagcactccacagtgcaagtttcactagagacaatgctttcttgctgt Alignment from Exonerate_protein2genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatgtacctactctgacggctgtcctatctgccacccccacctcagGTGTTTGTAGTGCTAGTGATTGTGCTGCCTGGTTCGATTCGTAGCCATTGCTTATCTGTGTGTTCTGCCACCATCCTTCGAACTTACTCAGTACCTCAACTCTGCTGGCATTTTCTCTATAGTCACTGGAATCTCATTCTCATTGTCTTCCACTATTATCAAGCCATTGCTACTCCCCACGAATATCCACCTCAGgtaagcactccacagtgcaagtttcactagagacaatgctttcttgctgt Alignment from Exonerate_coding2genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatgtacctactctgacggctgtcctatctgccacccccacctcagGTGTTTGTAGTGCTAGTGATTGTGCTGCCTGGTTCGATTCGTAGCCATTGCTTATCTGTGTGTTCTGCCACCATCCTTCGAACTTACTCAGTACCTCAACTCTGCTGGCATTTTCTCTATAGTCACTGGAATCTCATTCTCATTGTCTTCCACTATTATCAAGCCATTGCTACTCCCCACGAATATCCACCTCAGgtaagcactccacagtgcaagtttcactagagacaatgctttcttgctgt Alignment from GeneWise GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatgtacctactctgacggctgtcctatctgccacccccacctcagGTGTTTGTAGTGCTAGTGATTGTGCTGCCTGGTTCGATTCGTAGCCATTGCTTATCTGTGTGTTCTGCCACCATCCTTCGAACTTACTCAGTACCTCAACTCTGCTGGCATTTTCTCTATAGTCACTGGAATCTCATTCTCATTGTCTTCCACTATTATCAAGCCATTGCTACTCCCCACGAATATCCACCTCAGgtaagcactccacagtgcaagtttcactagagacaatgctttcttgctgt #### Zdhhc16_ID8346_3 --> 0 - 2 Original Alignment GGCAGGAATGACATTGCTACTGTCTCCATCTGT-AAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATag ctcggatgggacaataacacatcttccagatgactttcattttctcctagGGCAGGAATGAAATTAGCACAGTATCAATCTGCCAAGAAATGCATTTATCCCAAGCCAGCTTGCACAC-CCACTGTAGCATCTGTAAGaggtaagtctggttctgtccttcactttacttaaggcacattgagttttgag Alignment from CESAR GGCAGGAATGACATTGCTACTGTCTCCATCTGT-AAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATag ctcggatgggacaataacacatcttccagatgactttcattttctcctagGGCAGGAATGAAATTAGCACAGTATCAATCTGCCAAGAAATGCATTTATCCCAAGCCAGCTTGCACA-CCCACTGTAGCATCTGTAAGaggtaagtctggttctgtccttcactttacttaaggcacattgagttttgag Alignment from Spaln_aa2Genome GGCAGGAATGACATTGCTACTGTCTCCATCTGT-AAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATAG ctcggatgggacaataacacatcttccagatgactttcattttctcctagGGCAGGAATGAAATTAGCACAGTATCAATCTGCcAAGAAATGCATTTATCCCAAGCCAGCTTGCACACC-CACTGTAGCATCTGTAAGAGgtaagtctggttctgtccttcactttacttaaggcacattgagttttgag Alignment from Spaln_nt2Genome GGCAGGAATGACATTGCTACTGTCTCCATCTGT-AAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATAG ctcggatgggacaataacacatcttccagatgactttcattttctcctagGGCAGGAATGAAATTAGCACAGTATCAATCTGCCAAGAAATGCATTTATCCCAAGCCAGCTTGCACAC-CCACTGTAGCATCTGTAAGAGgtaagtctggttctgtccttcactttacttaaggcacattgagttttgag Alignment from Pairagon GGCAGGAATGACATTGCTACTGTCTCCATCTG-TAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATAG ctcggatgggacaataacacatcttccagatgactttcattttctcctagGGCAGGAATGAAATTAGCACAGTATCAATCTGCCAAGAAATGCATTTATCCCAAGCCAGCTTGCACAC-CCACTGTAGCATCTGTAAGAGgtaagtctggttctgtccttcactttacttaaggcacattgagttttgag Alignment from Exonerate_protein2genome GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATAG ctcggatgggacaataacacatcttccagatgactttcattttctcctagGGCAGGAATGAAATTAGCACAGTATCAATCTGCCAAGAAATGCATTTATCCCAAGCCAGCTTGCACACCCACTGTAGCATCTGTAAGAGgtaagtctggttctgtccttcactttacttaaggcacattgagttttgag Alignment from Exonerate_coding2genome GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATAG ctcggatgggacaataacacatcttccagatgactttcattttctcctagGGCAGGAATGAAATTAGCACAGTATCAATCTGCCAAGAAATGCATTTATCCCAAGCCAGCTTGCACACCCACTGTAGCATCTGTAAGAGgtaagtctggttctgtccttcactttacttaaggcacattgagttttgag Alignment from GeneWise GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATAG ctcggatgggacaataacacatcttccagatgactttcattttctcctagGGCAGGAATGAAATTAGCACAGTATCAATCTGCCAAGAAATGCATTTATCCCAAGCCAGCTTGCACACCCACTGTAGCATCTGTAAGAGgtaagtctggttctgtccttcactttacttaaggcacattgagttttgag #### Zdhhc16_ID8350_7 --> 1 - 0 Original Alignment tTCTGTGGCCCTGGCC-CTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG gcaatcaaagccccaggagtttcaggttagtgtgtatgttctatccccagtTCTGTGGCCCTGGCTCCTGGGCGCCCTTACCATGTGGCACGCTGTCC-GATTAGTCGGGGTAAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGgtaacggttggacgtaccgcttgattatgtggaaaaatgaccgtgcatat Alignment from CESAR tTCTGTGGCCCTGGCC-CTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG gcaatcaaagccccaggagtttcaggttagtgtgtatgttctatccccagtTCTGTGGCCCTGGCTCCTGGGCGCCCTTACCATGTGGCACGCTGTC-CGATTAGTCGGGGTAAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGgtaacggttggacgtaccgcttgattatgtggaaaaatgaccgtgcatat Alignment from Spaln_aa2Genome TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG gcaatcaaagccccaggagtttcaggttagtgtgtatgttctatccccagTTCTGTGGCCCTGGCTCCTGGGCGCCCTTACCATGTGGCACGCTGTCCGATTAGTCGGGGTAAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGgtaacggttggacgtaccgcttgattatgtggaaaaatgaccgtgcatat Alignment from Spaln_nt2Genome TTCTGTGGCCCTGGCC-CTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG gcaatcaaagccccaggagtttcaggttagtgtgtatgttctatccccagTTCTGTGGCCCTGGCTCCTGGGCGCCCTTACCATGTGGCACGCTG-TCCGATTAGTCGGGGTAAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGgtaacggttggacgtaccgcttgattatgtggaaaaatgaccgtgcatat Alignment from Pairagon TTCTGTGGCCCTGGC-CCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG gcaatcaaagccccaggagtttcaggttagtgtgtatgttctatccccagTTCTGTGGCCCTGGCTCCTGGGCGCCCTTACCATGTGGCACGCTG-TCCGATTAGTCGGGGTAAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGgtaacggttggacgtaccgcttgattatgtggaaaaatgaccgtgcatat Alignment from Exonerate_protein2genome TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG gcaatcaaagccccaggagtttcaggttagtgtgtatgttctatccccagTTCTGTGGCCCTGGCTCCTGGGCGCCCTTACCATGTGGCACGCTGTCCGATTAGTCGGGGTAAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGgtaacggttggacgtaccgcttgattatgtggaaaaatgaccgtgcatat Alignment from Exonerate_coding2genome TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG gcaatcaaagccccaggagtttcaggttagtgtgtatgttctatccccagTTCTGTGGCCCTGGCTCCTGGGCGCCCTTACCATGTGGCACGCTGTCCGATTAGTCGGGGTAAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGgtaacggttggacgtaccgcttgattatgtggaaaaatgaccgtgcatat Alignment from GeneWise TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG gcaatcaaagccccaggagtttcaggttagtgtgtatgttctatccccagTTCTGTGGCCCTGGCTCCTGGGCGCCCTTACCATGTGGCACGCTGTCCGATTAGTCGGGGTAAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGgtaacggttggacgtaccgcttgattatgtggaaaaatgaccgtgcatat #### Zdhhc6_ID11621_8 --> 0 - 2 Original Alignment GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGA-GGAGTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGcg acaaattagacaggggtccgtcgtagctcatgccctgatgtcacccatagGTTCACTATAAGTTTATAGATGACTACAATGGTGCCAGCTGCCCATTGAATAGACGGAGTAAGAACCTTCTTTACAAGCCCCTGTACG---GAGCCCC-AATCCGGCTACAACAAGGTGAGTTCATACTAGCAATGAGGGGGCTGaggtaagcggagggggttctttatcgagaaactgaaagcttctggtcaatat Alignment from CESAR GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGA-GGAGTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGcg acaaattagacaggggtccgtcgtagctcatgccctgatgtcacccatagGTTCACTATAAGTTTATAGATGACTACAATGGTGCCAGCTGCCCATTGAATAGACGGAGTAAGAACCTTCTTTACAAGCCCCTGTACGGAG-CCCCA---ATCCGGCTACAACAAGGTGAGTTCATACTAGCAATGAGGGGGCTGaggtaagcggagggggttctttatcgagaaactgaaaaccacactctggttt Alignment from Spaln_aa2Genome GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGA-GGAGTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGCG acaaattagacaggggtccgtcgtagctcatgccctgatgtcacccatagGTTCACTATAAGTTTATAGATGACTACAATGGTGCCAGCTGCCCATTGAATAGAcGGAGTAAGAACCTTCTTTACAAGCCCCTGTACGGAGCC----CCAATCCGGCTACAACAAGGTGAGTTCATACTAGCAATGAGGGGGCTGAGgtaagcggagggggttctttatcgagaaactgaaagcttctggtcaatat Alignment from Spaln_nt2Genome GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAG-GAGTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGCG acaaattagacaggggtccgtcgtagctcatgccctgatgtcacccatagGTTCACTATAAGTTTATAGATGACTACAATGGTGCCAGCTGCCCATTGAATAGACGGAGTAAGAACCTTCTTTACAAGCCCCTGTAC---GGAGCC-CCAATCCGGCTACAACAAGGTGAGTTCATACTAGCAATGAGGGGGCTGAGgtaagcggagggggttctttatcgagaaactgaaagcttctggtcaatat Alignment from Pairagon GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGA-GGAGTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGCG acaaattagacaggggtccgtcgtagctcatgccctgatgtcacccatagGTTCACTATAAGTTTATAGATGACTACAATGGTGCCAGCTGCCCATTGAATAGACGGAGTAAGAACCTTCTTTACAAGCCCCTGTACGGAG----CCCCAATCCGGCTACAACAAGGTGAGTTCATACTAGCAATGAGGGGGCTGAGgtaagcggagggggttctttatcgagaaactgaaagcttctggtcaatat Alignment from Exonerate_protein2genome GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGCG acaaattagacaggggtccgtcgtagctcatgccctgatgtcacccatagGTTCACTATAAGTTTATAGATGACTACAATGGTGCCAGCTGCCCATTGAATAGACGGAGTAAGAACCTTCTTTACAAGCCCCTGTACGGAGCCCCA---ATCCGGCTACAACAAGGTGAGTTCATACTAGCAATGAGGGGGCTGAGgtaagcggagggggttctttatcgagaaactgaaagcttctggtcaatat Alignment from Exonerate_coding2genome ATAGAACAGTTGAAGCAAAAGGCAGACAAGAGAGTCAGAAGT----GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGCG acaaATTAGACAGGGGTCCGTCGTAGCTCATGCCCTGATGTCACCCATAGGTTCACTATAAGTTTATAGATGACTACAATGGTGCCAGCTGCCCATTGAATAGACGGAGTAAGAACCTTCTTTACAAGCCCCTGTACGGAGCCCCA---ATCCGGCTACAACAAGGTGAGTTCATACTAGCAATGAGGGGGCTGAGgtaagcggagggggttctttatcgagaaactgaaagcttctggtcaatat Alignment from GeneWise GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGCG acaaattagacaggggtccgtcgtagctcatgccctgatgtcacccatagGTTCACTATAAGTTTATAGATGACTACAATGGTGCCAGCTGCCCATTGAATAGACGGAGTAAGAACCTTCTTTACAAGCCCCTGTACGGAGCCCCA---ATCCGGCTACAACAAGGTGAGTTCATACTAGCAATGAGGGGGCTGAGgtaagcggagggggttctttatcgagaaactgaaagcttctggtcaatat #### Zfyve27_ID8429_11 --> 0 - 1 Original Alignment CGGAGCTGCAGCAACTGTGGGAACAGCTTC-TGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAg atatatacggtccaaaggtcacactccttcgtctctgctttttctcctagCGAAGCTGCACCAACTGTGCAAACAGCTTCCTGCTCTCATTGCTGCTCATTCAAGGTACCCCGCTCCT-CATGGGCGCCACAggtgctgggggagaattgtagataggctcagacaaagaaagctcctaggac Alignment from CESAR CGGAGCTGCAGCAACTGTGGGAACAGCTTC-TGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAg atatatacggtccaaaggtcacactccttcgtctctgctttttctcctagCGAAGCTGCACCAACTGTGCAAACAGCTTCCTGCTCTCATTGCTGCTCATTCAAGGTACCCCGCTCCT-CATGGGCGCCACAggtgctgggggagaattgtagataggctcagacaaagaaagctcctaggac Alignment from Spaln_aa2Genome CGGAGCTGCAGCAACTGTGGGAACAGCTTC-TGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG atatatacggtccaaaggtcacactccttcgtctctgctttttctcctagCGAAGCTGCACCAACTGTGCAAACAGCTTCcTGCTCTCATTGCTGCTCATTCAAGGTACCCCGCTCCTC-ATGGGCGCCACAGgtgctgggggagaattgtagataggctcagacaaagaaagctcctaggac Alignment from Spaln_nt2Genome CGGAGCTGCAGCAACTGTGGGAACAGCTTC-TGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG atatatacggtccaaaggtcacactccttcgtctctgctttttctcctagCGAAGCTGCACCAACTGTGCAAACAGCTTCCTGCTCTCATTGCTGCTCATTCAAGGTACCCCGCTCCTC-ATGGGCGCCACAGgtgctgggggagaattgtagataggctcagacaaagaaagctcctaggac Alignment from Pairagon CGGAGCTGCAGCAACTGTGGGAACAGCTT-CTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG atatatacggtccaaaggtcacactccttcgtctctgctttttctcctagCGAAGCTGCACCAACTGTGCAAACAGCTTCCTGCTCTCATTGCTGCTCATTCAAGGTACCCCGCTCCTC-ATGGGCGCCACAGgtgctgggggagaattgtagataggctcagacaaagaaagctcctaggac Alignment from Exonerate_protein2genome CGGAGCTGCAGCAACTGTGGGAACAGCTTC-TGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACA atatatacggtccaaaggtcacactccttcgtctctgctttttctcctagCGAAGCTGCACCAACTGTGCAAACAGCTTCCTGCTCTCATTGCTGCTCATTCAAGGTACCCCGCTCCTCATGGGCGCCACAGgtgctgggggagaattgtagataggctcagacaaagaaagctcctaggac Alignment from Exonerate_coding2genome CGGAGCTGCAGCAACTGTGGGAACAGCTTC-TGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG atatatacggtccaaaggtcacactccttcgtctctgctttttctcctagCGAAGCTGCACCAACTGTGCAAACAGCTTCCTGCTCTCATTGCTGCTCATTCAAGGTACCCCGCTCCTCA-TGGGCGCCACAGgtgctgggggagaattgtagataggctcagacaaagaaagctcctaggac Alignment from GeneWise CGGAGCTGCAGCAACTGTGGGAACAGC-TTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCT---------------ATGGGAGCCACAG atatatacggtccaaaggtcacactccttcgtctctgctttttctcctagCGAAGCTGCACCAACTGTGCAAACAGCTTCCTGCTCTCATTGCTGCTCATTCAAGGTACCCCGCTCCTCATGGGCGCCACAGGTGCTGGGGGAGAATTgtagataggctcagacaaagaaagctcctaggac #### Zp1_ID3061_11 --> 2 - 1 Original Alignment ggCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGAT-ATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAg gttttgttgccctccacgggccttgttagtccttcccgtcctgttctcagagCGTCGACGGTTCCCAGGACATCACAACATCACTCTCCGAGCCCTGGAACATTGTAAGCTCTCCAGGCACAGTGGACTTTG-GGATGCAGCCACACTTAAGCCTTCAggtaaaggtgtgtcggtgttctttatgggggagagctcagttccaccagga Alignment from CESAR ggCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGAT-ATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAg gttttgttgccctccacgggccttgttagtccttcccgtcctgttctcagagCGTCGACGGTTCCCAGGACATCACAACATCACTCTCCGAGCCCTGGAACATTGTAAGCTCTCCAGGCACAGTGGACTTT-GGGATGCAGCCACACTTAAGCCTTCAggtaaaggtgtgtcggtgttctttatgggggagagctcagttccaccagga Alignment from Spaln_aa2Genome GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG gttttgttgccctccacgggccttgttagtccttcccgtcctgttctcagAGCGTCGACGGTTCCCAGGACATCACAACATCACTCTCCGAGCCCTGGAACATTGTAAGCTCTCCAGGCACAGTGGACTTTGGGATGCAGCCACACTTAAGCCTTCAGgtaaaggtgtgtcggtgttctttatgggggagagctcagttccaccagga Alignment from Spaln_nt2Genome GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGAT-ATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG gttttgttgccctccacgggccttgttagtccttcccgtcctgttctcagAGCGTCGACGGTTCCCAGGACATCACAACATCACTCTCCGAGCCCTGGAACATTGTAAGCTCTCCAGGCACAGTGGACTTTG-GGATGCAGCCACACTTAAGCCTTCAGgtaaaggtgtgtcggtgttctttatgggggagagctcagttccaccagga Alignment from Pairagon GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGG-ATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG gttttgttgccctccacgggccttgttagtccttcccgtcctgttctcagAGCGTCGACGGTTCCCAGGACATCACAACATCACTCTCCGAGCCCTGGAACATTGTAAGCTCTCCAGGCACAGTGGACTTTG-GGATGCAGCCACACTTAAGCCTTCAGgtaaaggtgtgtcggtgttctttatgggggagagctcagttccaccagga Alignment from Exonerate_protein2genome GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG gttttgttgccctccacgggccttgttagtccttcccgtcctgttctcagAGCGTCGACGGTTCCCAGGACATCACAACATCACTCTCCGAGCCCTGGAACATTGTAAGCTCTCCAGGCACAGTGGACTTTGGGATGCAGCCACACTTAAGCCTTCAGgtaaaggtgtgtcggtgttctttatgggggagagctcagttccaccagga Alignment from Exonerate_coding2genome GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG gttttgttgccctccacgggccttgttagtccttcccgtcctgttctcagAGCGTCGACGGTTCCCAGGACATCACAACATCACTCTCCGAGCCCTGGAACATTGTAAGCTCTCCAGGCACAGTGGACTTTGGGATGCAGCCACACTTAAGCCTTCAGgtaaaggtgtgtcggtgttctttatgggggagagctcagttccaccagga Alignment from GeneWise GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG gttttgttgccctccacgggccttgttagtccttcccgtcctgttctcagAGCGTCGACGGTTCCCAGGACATCACAACATCACTCTCCGAGCCCTGGAACATTGTAAGCTCTCCAGGCACAGTGGACTTTGGGATGCAGCCACACTTAAGCCTTCAGgtaaaggtgtgtcggtgttctttatgggggagagctcagttccaccagga #### Zp1_ID3064_8 --> 2 - 2 Original Alignment atAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTC-CGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATgg gcagcttgaaatacagcctggcatcagtcccccccccccttgtcctgcagatAAAACTTTCAGCTCCTTCTATCAAGGAGGTGAATACCCCCTTTTAAGACTGCTGCCAGAAACCAGCCTATGTTCAGGTGCGGCTCCTGC-GAAAACT---GCTGGCCTGGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAGC---TTTGATCAGCCCCAGTGGCCAATTCTGTCAGATgcgtgaggcataaaaggagaatgtcccacatacagggtatgcatgctttcta Alignment from CESAR atAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAA-CCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATgg gcagcttgaaatacagcctggcatcagtcccccccccccttgtcctgcagatAAAACTTTCAGCTCCTTCTATCAAGGAGGTGAATACCCCCTTTTAAGACTGCTGCCAGAAACCAGCCTATGTTCAGGTGCGGCTCCTG-CGAAAACT---GCTGGCCTGGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAGC---TTTGATCAGCCCCAGTGGCCAATTCTGTCAGATgcgtgaggcataaaaggagaatgtcccacatacagggtatgcatgctttcta Alignment from Spaln_aa2Genome ATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAA-CCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG gcagcttgaaatacagcctggcatcagtcccccccccccttgtcctgcagATAAAACTTTCAGCTCCTTCTATCAAGGAGGTGAATACCCCCTTTTAAGACTGCTGCCAGAAaCCAGCCTATGTTCAGGTGCGGCTCCTGCGAAAACT----GCTGGCCTGGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAGC---TTTGATCAGCCCCAGTGGCCAATTCTGTCAGATGCgtgaggcataaaaggagaatgtcccacatacagggtatgcatgctttcta Alignment from Spaln_nt2Genome ATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCT-CCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG gcagcttgaaatacagcctggcatcagtcccccccccccttgtcctgcagATAAAACTTTCAGCTCCTTCTATCAAGGAGGTGAATACCCCCTTTTAAGACTGCTGCCAGAAACCAGCCTATGTTCAGGTGCGGCTCCTGC-GAAAACTG---CTGGCCTGGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAG---CTTTGATCAGCCCCAGTGGCCAATTCTGTCAGATGCgtgaggcataaaaggagaatgtcccacatacagggtatgcatgctttcta Alignment from Pairagon ATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCT-CCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG gcagcttgaaatacagcctggcatcagtcccccccccccttgtcctgcagATAAAACTTTCAGCTCCTTCTATCAAGGAGGTGAATACCCCCTTTTAAGACTGCTGCCAGAAACCAGCCTATGTTCAGGTGCGGCTCCTGC-GAAAACTG---CTGGCCTGGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAG---CTTTGATCAGCCCCAGTGGCCAATTCTGTCAGATGCgtgaggcataaaaggagaatgtcccacatacagggtatgcatgctttcta Alignment from Exonerate_protein2genome ATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG gcagcttgaaatacagcctggcatcagtcccccccccccttgtcctgcagATAAAACTTTCAGCTCCTTCTATCAAGGAGGTGAATACCCCCTTTTAAGACTGCTGCCAGAAACCAGCCTATGTTCAGGTGCGGCTCCTGCGAAAACT---GCTGGCCTGGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAGC---TTTGATCAGCCCCAGTGGCCAATTCTGTCAGATGCgtgaggcataaaaggagaatgtcccacatacagggtatgcatgctttcta Alignment from Exonerate_coding2genome ATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG gcagcttgaaatacagcctggcatcagtcccccccccccttgtcctgcagATAAAACTTTCAGCTCCTTCTATCAAGGAGGTGAATACCCCCTTTTAAGACTGCTGCCAGAAACCAGCCTATGTTCAGGTGCGGCTCCTGCGAAAACT---GCTGGCCTGGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAGC---TTTGATCAGCCCCAGTGGCCAATTCTGTCAGATGCgtgaggcataaaaggagaatgtcccacatacagggtatgcatgctttcta Alignment from GeneWise ----------------------------------------------ACGGATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG GCAGCTTGAAATACAGCCTGGCATCAGTCCCCCCCCCCCTTGTCCTGCAGATAAAACTTTCAGCTCCTTCTATCAAGGAGGTGAATACCCCCTTTTAAGACTGCTGCCAGAAACCAGCCTATGTTCAGGTGCGGCTCCTGCGAAAACT---GCTGGCCTGGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAGC---TTTGATCAGCCCCAGTGGCCAATTCTGTCAGATGCgtgaggcataaaaggagaatgtcccacatacagggtatgcatgctttcta #### Zp1_ID3065_7 --> 1 - 1 Original Alignment gCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCC-CAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGg ggtgcatgcaaaacagaataactgaaaattcttgtctgtctgtgtttcaggCTTCATGTTCGCTGCATCTTCAATTCTAGTGATTTCCTCCCCCTACAGGCATCTATCTCT---CCCCCACCCACCTGCCCCTGTAACACAATCTGGAGCAC-TAGGCTGCAATTGAAGATTGCCATGggtaagtggctccagtttgggcggtactttccaacctcgcagcttgaaata Alignment from CESAR gCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGg ggtgcatgcaaaacagaataactgaaaattcttgtctgtctgtgtttcaggCTTCATGTTCGCTGCATCTTCAATTCTAGTGATTTCCTCCCCCTACAGGCATCTATCTCT--CCCCCACCCACCTGCCCCTGTAACACAATCTGGAGCAC-TAGGCTGCAATTGAAGATTGCCATGggtaagtggctccagtttgggcggtactttccaacctcgcagcttgaaata Alignment from Spaln_aa2Genome GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGG ggtgcatgcaaaacagaataactgaaaattcttgtctgtctgtgtttcagGCTTCATGTTCGCTGCATCTTCAATTCTAGTGATTTCCTCCCCCTACAGGCATCTATCTCTC--CCCCACCCACCTGCCCCTGTAACACAATCTGGAGCACT-AGGCTGCAATTGAAGATTGCCATGGgtaagtggctccagtttgggcggtactttccaacctcgcagcttgaaata Alignment from Spaln_nt2Genome GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGG ggtgcatgcaaaacagaataactgaaaattcttgtctgtctgtgtttcagGCTTCATGTTCGCTGCATCTTCAATTCTAGTGATTTCCTCCCCCTACAGGCATCTATC-TCTC-CCCCACCCACCTGCCCCTGTAACACAATCTGGAGCACT-AGGCTGCAATTGAAGATTGCCATGGgtaagtggctccagtttgggcggtactttccaacctcgcagcttgaaata Alignment from Pairagon GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGG ggtgcatgcaaaacagaataactgaaaattcttgtctgtctgtgtttcagGCTTCATGTTCGCTGCATCTTCAATTCTAGTGATTTCCTCCCCCTACAGGCATCTATC-TCTC-CCCCACCCACCTGCCCCTGTAACACAATCTGGAGCACT-AGGCTGCAATTGAAGATTGCCATGGgtaagtggctccagtttgggcggtactttccaacctcgcagcttgaaata Alignment from Exonerate_protein2genome GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGG ggtgcatgcaaaacagaataactgaaaattcttgtctgtctgtgtttcagGCTTCATGTTCGCTGCATCTTCAATTCTAGTGATTTCCTCCCCCTACAGGCATCTATC---TCTCCCCCACCCACCTGCCCCTGTAACACAATCTGGAGCACTAGGCTGCAATTGAAGATTGCCATGGgtaagtggctccagtttgggcggtactttccaacctcgcagcttgaaata Alignment from Exonerate_coding2genome GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGG ggtgcatgcaaaacagaataactgaaaattcttgtctgtctgtgtttcagGCTTCATGTTCGCTGCATCTTCAATTCTAGTGATTTCCTCCCCCTACAGGCATCTATC---TCTCCCCCACCCACCTGCCCCTGTAACACAATCTGGAGCACTAGGCTGCAATTGAAGATTGCCATGGgtaagtggctccagtttgggcggtactttccaacctcgcagcttgaaata Alignment from GeneWise GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCC------------------------------------------------------ ggtgcatgcaaaacagaataactgaaaattcttgtctgtctgtgtttcagGCTTCATGTTCGCTGCATCTTCAATTCTAGTGATTTCCTCCCCCTACAGGCATCTATC---TCTCCCCCACCCACCTGCCCCTGTAACACAATCTGGAGCACTAGGCTGCAATTGAAGATTGCCATGGGTAAGTGGCTCCAGTTTGGGCGGTACTTTCCAACCTCGCAGCTTGAAATA #### Zp1_ID3067_5 --> 2 - 0 Original Alignment tcACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTA-GACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG cagggagactttgatgacataacgtcaactacaaatgttaactttaccagtcACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACACAAGGTGTCCTGTTACGACAAT------GTGGCCTATGTACCCA-CACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTGGCTTTCCATGTCCCTCTTACCCTTTGTGGAACAGCAATCCAAgtaagtatatcctcttgttagtgtccagcattagcaaggtcctaagactt Alignment from CESAR tcACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTA-GACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG cagggagactttgatgacataacgtcaactacaaatgttaactttaccagtcACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACACAAGGTGTCCTGTTACGACAATGTG------GCCTATGTACCCACA-CCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTGGCTTTCCATGTCCCTCTTACCCTTTGTGGAACAGCAATCCAAgtaagtatatcctcttgttagtgtccagcattagcaaggtcctaagactt Alignment from Spaln_aa2Genome TCACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG cagggagactttgatgacataacgtcaactacaaatgttaactttaccagTCACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACACAAGGTGTCCTGTTACGACAATGTGGCCTA------TGTACCCACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTGGCTTTCCATGTCCCTCTTACCCTTTGTGGAACAGCAATCCAAgtaagtatatcctcttgttagtgtccagcattagcaaggtcctaagactt Alignment from Spaln_nt2Genome TCACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTA-GACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG cagggagactttgatgacataacgtcaactacaaatgttaactttaccagTCACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACACAAGGTGTCCTGTTACGACAATG------TGGCCTATGTACCC-ACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTGGCTTTCCATGTCCCTCTTACCCTTTGTGGAACAGCAATCCAAgtaagtatatcctcttgttagtgtccagcattagcaaggtcctaagactt Alignment from Pairagon TCACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTA-GACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG cagggagactttgatgacataacgtcaactacaaatgttaactttaccagTCACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACACAAGGTGTCCTGTTACGACAATGT------GGCCTATGTACCC-ACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTGGCTTTCCATGTCCCTCTTACCCTTTGTGGAACAGCAATCCAAgtaagtatatcctcttgttagtgtccagcattagcaaggtcctaagactt Alignment from Exonerate_protein2genome TCACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG cagggagactttgatgacataacgtcaactacaaatgttaactttaccagTCACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACACAAGGTGTCCTGTTACGACAATGTGGCCTA------TGTACCCACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTGGCTTTCCATGTCCCTCTTACCCTTTGTGGAACAGCAATCCAAgtaagtatatcctcttgttagtgtccagcattagcaaggtcctaagactt Alignment from Exonerate_coding2genome TCACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG cagggagactttgatgacataacgtcaactacaaatgttaactttaccagTCACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACACAAGGTGTCCTGTTACGACAATGTGGCCTA------TGTACCCACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTGGCTTTCCATGTCCCTCTTACCCTTTGTGGAACAGCAATCCAAgtaagtatatcctcttgttagtgtccagcattagcaaggtcctaagactt Alignment from GeneWise TCACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG cagggagactttgatgacataacgtcaactacaaatgttaactttaccagTCACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACACAAGGTGTCCTGTTACGACAATGTGGCCTATGT------ACCCACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTGGCTTTCCATGTCCCTCTTACCCTTTGTGGAACAGCAATCCAAgtaagtatatcctcttgttagtgtccagcattagcaaggtcctaagactt #### Zp1_ID3068_4 --> 2 - 1 Original Alignment gtACCCATCTGCCCCAGGAGCGGTGCCAGGTAGCCTCCGGGCACATCCCATGCATG-GTAAATGGAAGTTCCAAGGAAACCTGTCAGCAGGCTGGCTGCTGCTATGACAGTACCAAAGAAGAGCCCTGTTACTATGGCAACACAg ctgagttttatggccctgtgatcatctcagcgtcttttaattttctacagggACTCATCTGACCCACGAGTGGTGCCAAGCAGCTTCTGGACACGTACCATGCATGCGTGAATGGAAGTCCAAGAGAT------CAGCAGGCTGGTT-TTGTTATGACAGCACCAAAGAAGAGCCCTGCTACTATGGCAACACCagtgagcctatctatgccaggcctgaagtgtggctggctagacacagccaa Alignment from CESAR gtACCCATCTGCCCCAGGAGCGGTGCCAGGTAGCCTCCGGGCACATCCCATGCATG-GTAAATGGAAGTTCCAAGGAAACCTGTCAGCAGGCTGGCTGCTGCTATGACAGTACCAAAGAAGAGCCCTGTTACTATGGCAACACAg ctgagttttatggccctgtgatcatctcagcgtcttttaattttctacagggACTCATCTGACCCACGAGTGGTGCCAAGCAGCTTCTGGACACGTACCATGCATGCGTGAATGGAAGTCCAAGAGAT------CAGCAGGCTGGT-TTTGTTATGACAGCACCAAAGAAGAGCCCTGCTACTATGGCAACACCagtgagcctatctatgccaggcctgaagtgtggctggctagacacagccaa Alignment from Spaln_aa2Genome GTACCCATCTGCCCCAGGAGCGGTGCCAGGTAGCCTCCGGGCACATCCCATGCATGGTAAATGGAAGTTCCAAGGAAACCTGTCAGCAGGCTGGCTGCTGCTATGACAGTACCAAAGAAGAGCCCTGTTACTATGGCAACACAG ctgagttttatggccctgtgatcatctcagcgtcttttaattttctacagGGACTCATCTGACCCACGAGTGGTGCCAAGCAGCTTCTGGACACGTACCATGCATGCGTGAATGGAAGTCCAAGAGATCAGCA------GGCTGGTTTTGTTATGACAGCACCAAAGAAGAGCCCTGCTACTATGGCAACACCAgtgagcctatctatgccaggcctgaagtgtggctggctagacacagccaa Alignment from Spaln_nt2Genome GTACCCATCTGCCCCAGGAGCGGTGCCAGGTAGCCTCCGGGCACATCCCATGCATG-GTAAATGGAAGTTCCAAGGAAACCTGTCAGCAGGCTGGCTGCTGCTATGACAGTACCAAAGAAGAGCCCTGTTACTATGGCAACACAG ctgagttttatggccctgtgatcatctcagcgtcttttaattttctacagGGACTCATCTGACCCACGAGTGGTGCCAAGCAGCTTCTGGACACGTACCATGCATGCGTGAATGGAAG-TCCAAGAGA-----TCAGCAGGCTGG-TTTTGTTATGACAGCACCAAAGAAGAGCCCTGCTACTATGGCAACACCAgtgagcctatctatgccaggcctgaagtgtggctggctagacacagccaa Alignment from Pairagon GTACCCATCTGCCCCAGGAGCGGTGCCAGGTAGCCTCCGGGCACATCCCATGCATG-GTAAATGGAAGTTCCAAGGAAACCTGTCAGCAGGCTGGCTGCTGCTATGACAGTACCAAAGAAGAGCCCTGTTACTATGGCAACACAG ctgagttttatggccctgtgatcatctcagcgtcttttaattttctacagGGACTCATCTGACCCACGAGTGGTGCCAAGCAGCTTCTGGACACGTACCATGCATGCGTGAATGGAAGTCCAAGAGA------TCAGCAGGCTGGTT-TTGTTATGACAGCACCAAAGAAGAGCCCTGCTACTATGGCAACACCAgtgagcctatctatgccaggcctgaagtgtggctggctagacacagccaa Alignment from Exonerate_protein2genome GTACCCATCTGCCCCAGGAGCGGTGCCAGGTAGCCTCCGGGCACATCCCATGCATGGTAAATGGAAGTTCCAAGGAAACCTGTCAGCAGGCTGGCTGCTGCTATGACAGTACCAAAGAAGAGCCCTGTTACTATGGCAACACAG ctgagttttatggccctgtgatcatctcagcgtcttttaattttctacagGGACTCATCTGACCCACGAGTGGTGCCAAGCAGCTTCTGGACACGTACCATGCATGCGTGAATGGAAGTCCAAGAGATCAGCA------GGCTGGTTTTGTTATGACAGCACCAAAGAAGAGCCCTGCTACTATGGCAACACCAgtgagcctatctatgccaggcctgaagtgtggctggctagacacagccaa Alignment from Exonerate_coding2genome GTACCCATCTGCCCCAGGAGCGGTGCCAGGTAGCCTCCGGGCACATCCCATGCATGGTAAATGGAAGTTCCAAGGAAACCTGTCAGCAGGCTGGCTGCTGCTATGACAGTACCAAAGAAGAGCCCTGTTACTATGGCAACACAG ctgagttttatggccctgtgatcatctcagcgtcttttaattttctacagGGACTCATCTGACCCACGAGTGGTGCCAAGCAGCTTCTGGACACGTACCATGCATGCGTGAATGGAAGTCCAAGAGATCAGCA------GGCTGGTTTTGTTATGACAGCACCAAAGAAGAGCCCTGCTACTATGGCAACACCAgtgagcctatctatgccaggcctgaagtgtggctggctagacacagccaa Alignment from GeneWise GTACCCATCTGCCCCAGGAGCGGTGCCAGGTAGCCTCCGGGCACATCCCATGCATGGTAAATGGAAGTTCCAAGGAAACCTGTCAGCAGGCTGGCTGCTGCTATGACAGTACCAAAGAAGAGCCCTGTTACTATGGCAACACAG ctgagttttatggccctgtgatcatctcagcgtcttttaattttctacagGGACTCATCTGACCCACGAGTGGTGCCAAGCAGCTTCTGGACACGTACCATGCATGCGTGAATGGAAGTCCAAGAGATCAGCA------GGCTGGTTTTGTTATGACAGCACCAAAGAAGAGCCCTGCTACTATGGCAACACCAgtgagcctatctatgccaggcctgaagtgtggctggctagacacagccaa #### Zp1_ID3069_3 --> 0 - 1 Original Alignment GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCAT-CCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAg tgctcagcagaagccttatccagcagattctttctctcccctgtctttagGATGGACGTTTCCACCTGAGAGTTTTTGTACAAGCTGTCTTGACAAATAGCCCTGTAGACATAGCACAAGATGTCACACTGATCTGCCCTAAACCAGATCACACCGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTCCACCCTATCCCTGAG---------GCTGGGTCTGGACAT------ATTACTATGTTGTACCCAGAACAAAGCTTCAAGCATCCCAACTCCTGCGCCACCCTCACTAGGACTTGGGCCTACAG-ATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGCTGACTGAGTTAGACTCTGTGggtgaggcaatctaaattttgtatagactgagttttatggccctgtgatca Alignment from CESAR GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCAT-CCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAg tgctcagcagaagccttatccagcagattctttctctcccctgtctttagGATGGACGTTTCCACCTGAGAGTTTTTGTACAAGCTGTCTTGACAAATAGCCCTGTAGACATAGCACAAGATGTCACACTGATCTGCCCTAAACCAGATCACACCGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTCCACCCTATCCCTGAG---------GCTGGGTCTGGACAT------ATTACTATGTTGTACCCAGAACAAAGCTTCAAGCATCCCAACTCCTGCGCCACCCTCACTAGGACTTGGGCCTACA-GATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGCTGACTGAGTTAGACTCTGTGggtgaggcaatctaaattttgtatagactgagttttatggccctgtgatca Alignment from Spaln_aa2Genome GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG tgctcagcagaagccttatccagcagattctttctctcccctgtctttagGATGGACGTTTCCACCTGAGAGTTTTTGTACAAGCTGTCTTGACAAATAGCCCTGTAGACATAGCACAAGATGTCACACTGATCTGCCCTAAACCAGATCACACCGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTCCACCCTATCCCTGAG---------GCTGGGTCTGGACAT------ATTACTATGTTGTACCCAGAACAAAGCTTCAAGCATCCCAACTCCTGCGCCACCCTCACTAGGACTTGGGCCTACAGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGCTGACTGAGTTAGACTCTGTGGgtgaggcaatctaaattttgtatagactgagttttatggccctgtgatca Alignment from Spaln_nt2Genome GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCA-ACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG tgctcagcagaagccttatccagcagattctttctctcccctgtctttagGATGGACGTTTCCACCTGAGAGTTTTTGTACAAGCTGTCTTGACAAATAGCCCTGTAGACATAGCACAAGATGTCACACTGATCTGCCCTAAACCAGATCACACCGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTCCACCCTATCCCTGA---------GGCTGGGTCTGGACA------TATTACTATGTTGTACCCAGAACAAAGCTTCAAGCATCCCAACTCCTGCGCCACCCTCACTAGGACTTGGGCCTACA-GATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGCTGACTGAGTTAGACTCTGTGGgtgaggcaatctaaattttgtatagactgagttttatggccctgtgatca Alignment from Pairagon GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCAT-CCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG tgctcagcagaagccttatccagcagattctttctctcccctgtctttagGATGGACGTTTCCACCTGAGAGTTTTTGTACAAGCTGTCTTGACAAATAGCCCTGTAGACATAGCACAAGATGTCACACTGATCTGCCCTAAACCAGATCACACCGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTCCACCCTATCCCTGA---------GGCTGGGTCTGGACATA------TTACTATGTTGTACCCAGAACAAAGCTTCAAGCATCCCAACTCCTGCGCCACCCTCACTAGGACTTGGGCCTAC-AGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGCTGACTGAGTTAGACTCTGTGGgtgaggcaatctaaattttgtatagactgagttttatggccctgtgatca Alignment from Exonerate_protein2genome GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG tgctcagcagaagccttatccagcagattctttctctcccctgtctttagGATGGACGTTTCCACCTGAGAGTTTTTGTACAAGCTGTCTTGACAAATAGCCCTGTAGACATAGCACAAGATGTCACACTGATCTGCCCTAAACCAGATCACACCGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTCCACCCTATCCCTGAG---------GCTGGGTCTGGACAT------ATTACTATGTTGTACCCAGAACAAAGCTTCAAGCATCCCAACTCCTGCGCCACCCTCACTAGGACTTGGGCCTACAGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGCTGACTGAGTTAGACTCTGTGGgtgaggcaatctaaattttgtatagactgagttttatggccctgtgatca Alignment from Exonerate_coding2genome GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG tgctcagcagaagccttatccagcagattctttctctcccctgtctttagGATGGACGTTTCCACCTGAGAGTTTTTGTACAAGCTGTCTTGACAAATAGCCCTGTAGACATAGCACAAGATGTCACACTGATCTGCCCTAAACCAGATCACACCGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTCCACCCTATCCCTGAG---------GCTGGGTCTGGACAT------ATTACTATGTTGTACCCAGAACAAAGCTTCAAGCATCCCAACTCCTGCGCCACCCTCACTAGGACTTGGGCCTACAGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGCTGACTGAGTTAGACTCTGTGGgtgaggcaatctaaattttgtatagactgagttttatggccctgtgatca Alignment from GeneWise GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG tgctcagcagaagccttatccagcagattctttctctcccctgtctttagGATGGACGTTTCCACCTGAGAGTTTTTGTACAAGCTGTCTTGACAAATAGCCCTGTAGACATAGCACAAGATGTCACACTGATCTGCCCTAAACCAGATCACACCGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTCCACCCTATCCCTGAG---------GCTGGGTCTGGACAT------ATTACTATGTTGTACCCAGAACAAAGCTTCAAGCATCCCAACTCCTGCGCCACCCTCACTAGGACTTGGGCCTACAGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGCTGACTGAGTTAGACTCTGTGGgtgaggcaatctaaattttgtatagactgagttttatggccctgtgatca ####