#### 1700055N04Rik_ID227_5 --> 2 - 0 Original Alignment gaAACTGTGTGGTGCTGAAG-CCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG gttgagaggcacttaaaccattatgtgccggcttctgttttcttttttaggaAACTGTGTGGTGCTCAAACAGATCTGAAATTAGCAGGAACACAGAGAAGGTGTTGGCAGAGCTTCCACCTCAGTATCTAGACCAAgtaagtttattttaggtggttaatttggtaaatggtgaagagctgaatga Alignment from CESAR gaAACTGTGTGGTGCTGAAGCCA-TCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG gttgagaggcacttaaaccattatgtgccggcttctgttttcttttttaggaAACTGTGTGGTGCTCAAACAGATCTGAAATTAGCAGGAACACAGAGAAGGTGTTGGCAGAGCTTCCACCTCAGTATCTAGACCAAgtaagtttattttaggtggttaatttggtaaatggtgaagagctgaatga Alignment from Spaln_aa2Genome GAAACTGTGTGGTGCTGAAGCCA-TCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG gttgagaggcacttaaaccattatgtgccggcttctgttttcttttttagGAAACTGTGTGGTGCTCAAACAGaTCTGAAATTAGCAGGAACACAGAGAAGGTGTTGGCAGAGCTTCCACCTCAGTATCTAGACCAAgtaagtttattttaggtggttaatttggtaaatggtgaagagctgaatga Alignment from Spaln_nt2Genome GAAACTGTGTGGTGCTGAAGCC-ATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG gttgagaggcacttaaaccattatgtgccggcttctgttttcttttttagGAAACTGTGTGGTGCTCAAACAGATCTGAAATTAGCAGGAACACAGAGAAGGTGTTGGCAGAGCTTCCACCTCAGTATCTAGACCAAgtaagtttattttaggtggttaatttggtaaatggtgaagagctgaatga Alignment from Pairagon GAAACTGTGTGGTGCTGAAGC-CATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG gttgagaggcacttaaaccattatgtgccggcttctgttttcttttttagGAAACTGTGTGGTGCTCAAACAGATCTGAAATTAGCAGGAACACAGAGAAGGTGTTGGCAGAGCTTCCACCTCAGTATCTAGACCAAgtaagtttattttaggtggttaatttggtaaatggtgaagagctgaatga Alignment from Exonerate_protein2genome GAAACTGTGTGGTGCTGAAGCCA-TCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG gttgagaggcacttaaaccattatgtgccggcttctgttttcttttttagGAAACTGTGTGGTGCTCAAACAGATCTGAAATTAGCAGGAACACAGAGAAGGTGTTGGCAGAGCTTCCACCTCAGTATCTAGACCAAgtaagtttattttaggtggttaatttggtaaatggtgaagagctgaatga Alignment from Exonerate_coding2genome GAAACTGTGTGGTGCTGAAGCCA-TCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG gttgagaggcacttaaaccattatgtgccggcttctgttttcttttttagGAAACTGTGTGGTGCTCAAACAGATCTGAAATTAGCAGGAACACAGAGAAGGTGTTGGCAGAGCTTCCACCTCAGTATCTAGACCAAgtaagtttattttaggtggttaatttggtaaatggtgaagagctgaatga Alignment from GeneWise GAAACTGTGTGGTGCTGAAG-CCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG gttgagaggcacttaaaccattatgtgccggcttctgttttcttttttagGAAACTGTGTGGTGCTCAAACAGATCTGAAATTAGCAGGAACACAGAGAAGGTGTTGGCAGAGCTTCCACCTCAGTATCTAGACCAAgtaagtttattttaggtggttaatttggtaaatggtgaagagctgaatga #### 1700123I01Rik_ID1493_5 --> 2 - 0 Original Alignment ggAAACCAGCAGATGATATT-CCTCTTGAGTTG cacaggtattcctctcttgctccatctgttccctgcctgcccttctccaggtAAACCTGCTGATGACATTCCCACTTGAGTTGgtcagttttaacacctctttttatgttttcatagcaaataaaatagtata Alignment from CESAR ggAAACCAGCAGATGATATT-CCTCTTGAGTTG cacaggtattcctctcttgctccatctgttccctgcctgcccttctccaggtAAACCTGCTGATGACATTCCCACTTGAGTTGgtcagttttaacacctctttttatgttttcatagcaaataaaatagtata Alignment from Spaln_aa2Genome GGAAACCAGCAGATGATATT-CCTCTTGAGTTG cacaggtattcctctcttgctccatctgttccctgcctgcccttctccagGTAAACCTGCTGATGACATTcCCACTTGAGTTGgtcagttttaacacctctttttatgttttcatagcaaataaaatagtata Alignment from Spaln_nt2Genome GGAAACCAGCAGATGATATTCCT-CTTGAGTTG cacaggtattcctctcttgctccatctgttccctgcctgcccttctccagGTAAACCTGCTGATGACATTCCCACTTGAGTTGgtcagttttaacacctctttttatgttttcatagcaaataaaatagtata Alignment from Pairagon GGAAACCAGCAGATGATATTCCT-CTTGAGTTG cacaggtattcctctcttgctccatctgttccctgcctgcccttctccagGTAAACCTGCTGATGACATTCCCACTTGAGTTGgtcagttttaacacctctttttatgttttcatagcaaataaaatagtata Alignment from Exonerate_protein2genome GGAAACCAGCAGATGATATT-CCTCTTGAGTTG cacaggtattcctctcttgctccatctgttccctgcctgcccttctccagGTAAACCTGCTGATGACATTCCCACTTGAGTTGgtcagttttaacacctctttttatgttttcatagcaaataaaatagtata Alignment from Exonerate_coding2genome cacaggtattcctctcttgctccatctgttccctgcctgcccttctccaggtaaacctgctgatgacattcccacttgagttggtcagttttaacacctctttttatgttttcatagcaaataaaatagtata Alignment from GeneWise cacaggtattcctctcttgctccatctgttccctgcctgcccttctccaggtaaacctgctgatgacattcccacttgagttggtcagttttaacacctctttttatgttttcatagcaaataaaatagtata #### 1810009A15Rik_ID2454_3 --> 1 - 1 Original Alignment gTCCAGTGCTCGTGCCAAC-ATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAAg attataaatggctgagtgagcctttatcacaggcttctttccccgcacagg---TGCTCCCGTGCGAACCATCACACTATCTGGGAAGAAGCGTAGGAGACTATTGCAGCAGATCCGACTTGCCCAGAAACAAGAAGCAGCTATGAAAggtaggtagagagtagcattggattttccccaactttcttgtagggcttgt Alignment from CESAR gTCCAGTGCTCGTGCCAAC-ATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAAg attataaatggctgagtgagcctttatcacaggcttctttccccgcacaggTGC---TCCCGTGCGAACCATCACACTATCTGGGAAGAAGCGTAGGAGACTATTGCAGCAGATCCGACTTGCCCAGAAACAAGAAGCAGCTATGAAAggtaggtagagagtagcattggattttccccaactttcttgtagggctctg Alignment from Spaln_aa2Genome GGGCGTCCAGTGCTCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAAG attataaatggctgagtgagcctttatcacaggcttctttccccgcacagGTGCTCCCGTG------CGAACCATCACACTATCTGGGAAGAAGCGTAGGAGACTATTGCAGCAGATCCGACTTGCCCAGAAACAAGAAGCAGCTATGAAAGgtaggtagagagtagcattggattttccccaactttcttgtagggcttgt Alignment from Spaln_nt2Genome GTCCAGTGCTCGTGCCAAC-ATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAAG attataaatggctgagtgagcctttatcacaggcttctttccccgcacagGT---GCTCCCGTGCGAACCATCACACTATCTGGGAAGAAGCGTAGGAGACTATTGCAGCAGATCCGACTTGCCCAGAAACAAGAAGCAGCTATGAAAGgtaggtagagagtagcattggattttccccaactttcttgtagggcttgt Alignment from Pairagon GTCCAGTGCT--CGTGCCAA-CATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAAG attataaatggctgagtgagcctttatcacaggcttctttccccgcacag-----GTGCTCCCGTGCGAACCATCACACTATCTGGGAAGAAGCGTAGGAGACTATTGCAGCAGATCCGACTTGCCCAGAAACAAGAAGCAGCTATGAAAGgtaggtagagagtagcattggattttccccaactttcttgtagggcttgt Alignment from Exonerate_protein2genome GTCCAGTGCTCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAAG attataaatggctgagtgagcctttatcacaggcttctttccccgcacAGGTGCTCCCGTGCGAACCATCACACTATCTGGGAAGAAGCGTAGGAGACTATTGCAGCAGATCCGACTTGCCCAGAAACAAGAAGCAGCTATGAAAGgtaggtagagagtagcattggattttccccaactttcttgtagggcttgt Alignment from Exonerate_coding2genome GTCCAGTGCTCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAAG attataaatggctgagtgagcctttatcacaggcttctttccccgcacAGGTGCTCCCGTGCGAACCATCACACTATCTGGGAAGAAGCGTAGGAGACTATTGCAGCAGATCCGACTTGCCCAGAAACAAGAAGCAGCTATGAAAGgtaggtagagagtagcattggattttccccaactttcttgtagggcttgt Alignment from GeneWise GTCCAGTGCTCGTGCCAAC-ATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAAG attataaatggctgagtgagcctttatcacaggcttctttccccgcacagGTGCTCC---CGTGCGAACCATCACACTATCTGGGAAGAAGCGTAGGAGACTATTGCAGCAGATCCGACTTGCCCAGAAACAAGAAGCAGCTATGAAAGgtaggtagagagtagcattggattttccccaactttcttgtagggcttgt #### 2010012O05Rik_ID10003_2 --> 0 - 0 Original Alignment CTGCTGGGGCAGGCAGCTCGAAAC-ATGGTACTACAGGAAGATGCCATCTTACACTCGGAAGAT ccttactatctagaggcaggatcataacgtgttccctgtctaccacacagCTGCTGGGTCAGGCAGCTCGTAACCATGGTACTACAAGAAGATGCTATTTTGCGTTCTGAAGATgtaagaagctattatttcatcatatgggtcaagatcttcaggtgtgactt Alignment from CESAR CTGCTGGGGCAGGCAGCTCGAAAC-ATGGTACTACAGGAAGATGCCATCTTACACTCGGAAGAT ccttactatctagaggcaggatcataacgtgttccctgtctaccacacagCTGCTGGGTCAGGCAGCTCGTAACCATGGTACTACAAGAAGATGCTATTTTGCGTTCTGAAGATgtaagaagctattatttcatcatatgggtcaagatcttcaggtgtgactt Alignment from Spaln_aa2Genome CTGCTGGGGCAGGCAGCTCGAAAC-ATGGTACTACAGGAAGATGCCATCTTACACTCGGAAGAT ccttactatctagaggcaggatcataacgtgttccctgtctaccacacagCTGCTGGGTCAGGCAGCTCGTAACcATGGTACTACAAGAAGATGCTATTTTGCGTTCTGAAGATgtaagaagctattatttcatcatatgggtcaagatcttcaggtgtgactt Alignment from Spaln_nt2Genome CTGCTGGGGCAGGCAGCTCGA-AACATGGTACTACAGGAAGATGCCATCTTACACTCGGAAGAT ccttactatctagaggcaggatcataacgtgttccctgtctaccacacagCTGCTGGGTCAGGCAGCTCGTAACCATGGTACTACAAGAAGATGCTATTTTGCGTTCTGAAGATgtaagaagctattatttcatcatatgggtcaagatcttcaggtgtgactt Alignment from Pairagon CTGCTGGGGCAGGCAGCTCG-AAACATGGTACTACAGGAAGATGCCATCTTACACTCGGAAGAT ccttactatctagaggcaggatcataacgtgttccctgtctaccacacagCTGCTGGGTCAGGCAGCTCGTAACCATGGTACTACAAGAAGATGCTATTTTGCGTTCTGAAGATgtaagaagctattatttcatcatatgggtcaagatcttcaggtgtgactt Alignment from Exonerate_protein2genome CTGCTGGGGCAGGCAGCTCGAAAC-ATGGTACTACAGGAAGATGCCATCTTACACTCGGAAGAT ccttactatctagaggcaggatcataacgtgttccctgtctaccacacagCTGCTGGGTCAGGCAGCTCGTAACCATGGTACTACAAGAAGATGCTATTTTGCGTTCTGAAGATgtaagaagctattatttcatcatatgggtcaagatcttcaggtgtgactt Alignment from Exonerate_coding2genome CTGCTGGGGCAGGCAGCTCGAAAC-ATGGTACTACAGGAAGATGCCATCTTACACTCGGAAGAT ccttactatctagaggcaggatcataacgtgttccctgtctaccacacagCTGCTGGGTCAGGCAGCTCGTAACCATGGTACTACAAGAAGATGCTATTTTGCGTTCTGAAGATgtaagaagctattatttcatcatatgggtcaagatcttcaggtgtgactt Alignment from GeneWise ccttactatctagaggcaggatcataacgtgttccctgtctaccacacagctgctgggtcaggcagctcgtaaccatggtactacaagaagatgctattttgcgttctgaagatgtaagaagctattatttcatcatatgggtcaagatcttcaggtgtgactt #### 9130011E15Rik_ID9675_6 --> 0 - 0 Original Alignment GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAAC-AGTATATTCGAAGCAATTTTACAG aacatgttgttgtgcattgtgaaagtggcagtcccattttttccccttagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACCAGCATATTTGAAGCCATTTTACAGgtacctagtttaactgacttatgctttatgtgtaatccctcattcaaaat Alignment from CESAR GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAAC-AGTATATTCGAAGCAATTTTACAG aacatgttgttgtgcattgtgaaagtggcagtcccattttttccccttagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACCAGCATATTTGAAGCCATTTTACAGgtacctagtttaactgacttatgctttatgtgtaatccctcattcaaaat Alignment from Spaln_aa2Genome GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAAC-AGTATATTCGAAGCAATTTTACAG aacatgttgttgtgcattgtgaaagtggcagtcccattttttccccttagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACcAGCATATTTGAAGCCATTTTACAGgtacctagtttaactgacttatgctttatgtgtaatccctcattcaaaat Alignment from Spaln_nt2Genome GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAAC-AGTATATTCGAAGCAATTTTACAG aacatgttgttgtgcattgtgaaagtggcagtcccattttttccccttagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACCAGCATATTTGAAGCCATTTTACAGgtacctagtttaactgacttatgctttatgtgtaatccctcattcaaaat Alignment from Pairagon GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAA-CAGTATATTCGAAGCAATTTTACAG aacatgttgttgtgcattgtgaaagtggcagtcccattttttccccttagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACCAGCATATTTGAAGCCATTTTACAGgtacctagtttaactgacttatgctttatgtgtaatccctcattcaaaat Alignment from Exonerate_protein2genome GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAAC-AGTATATTCGAAGCAATTTTACAG aacatgttgttgtgcattgtgaaagtggcagtcccattttttccccttagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACCAGCATATTTGAAGCCATTTTACAGgtacctagtttaactgacttatgctttatgtgtaatccctcattcaaaat Alignment from Exonerate_coding2genome GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAAC-AGTATATTCGAAGCAATTTTACAG aacatgttgttgtgcattgtgaaagtggcagtcccattttttccccttagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACCAGCATATTTGAAGCCATTTTACAGgtacctagtttaactgacttatgctttatgtgtaatccctcattcaaaat Alignment from GeneWise GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAAC-AGTATATTCGAAGCAATTTTACAG aacatgttgttgtgcattgtgaaagtggcagtcccattttttccccttagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACCAGCATATTTGAAGCCATTTTACAGgtacctagtttaactgacttatgctttatgtgtaatccctcattcaaaat #### AI846148_ID2142_4 --> 2 - 1 Original Alignment ttACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAG-TCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGACCCAg tgaactctgtcaagatgtttgttcaacactttcttctccctcttcagtagttACTCCAGTTATAGAGCAGGGGAACAAAAAGCCCCGTGGCCAAAGATGGAAAGAGCTCCCTTGAGAATGAACCAGCTAGAAAGAAGAGAAGCAGGCATATGACTAAGATCTTGGACCCTGATCCAggtaagtgagcactaggggtaagaactgcaaaaatcactcaagacttaaaa Alignment from CESAR ttACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAG-TCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGACCCAg tgaactctgtcaagatgtttgttcaacactttcttctccctcttcagtagttACTCCAGTTATAGAGCAGGGGAACAAAAAGCCCCGTGGCCAAAGATGGAAAGAGCTCCCTTGAGAATGAACCAGCTAGAAAGAAGAGAAGCAGGCATATGACTAAGATCTTGGACCCTGATCCAggtaagtgagcactaggggtaagaactgcaaaaatcactcaagacttaaaa Alignment from Spaln_aa2Genome TTACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCT-GAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGACCCAG tgaactctgtcaagatgtttgttcaacactttcttctccctcttcagtagTTACTCCAGTTATAGAGCAGGGGAACAAAAAGCCCCGTGGCCAAAGATGGAAAGAGCTCCCTtGAGAATGAACCAGCTAGAAAGAAGAGAAGCAGGCATATGACTAAGATCTTGGACCCTGATCCAGgtaagtgagcactaggggtaagaactgcaaaaatcactcaagacttaaaa Alignment from Spaln_nt2Genome TTACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAG-TCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGACCCAG tgaactctgtcaagatgtttgttcaacactttcttctccctcttcagtagTTACTCCAGTTATAGAGCAGGGGAACAAAAAGCCCCGTGGCCAAAGATGGAAAGAGCTCCCTTGAGAATGAACCAGCTAGAAAGAAGAGAAGCAGGCATATGACTAAGATCTTGGACCCTGATCCAGgtaagtgagcactaggggtaagaactgcaaaaatcactcaagacttaaaa Alignment from Pairagon TTACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAG-TCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGACCCAG tgaactctgtcaagatgtttgttcaacactttcttctccctcttcagtagTTACTCCAGTTATAGAGCAGGGGAACAAAAAGCCCCGTGGCCAAAGATGGAAAGAGCTCCCTTGAGAATGAACCAGCTAGAAAGAAGAGAAGCAGGCATATGACTAAGATCTTGGACCCTGATCCAGgtaagtgagcactaggggtaagaactgcaaaaatcactcaagacttaaaa Alignment from Exonerate_protein2genome TTACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCT-GAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGACCCAG tgaactctgtcaagatgtttgttcaacactttcttctccctcttcagtagTTACTCCAGTTATAGAGCAGGGGAACAAAAAGCCCCGTGGCCAAAGATGGAAAGAGCTCCCTTGAGAATGAACCAGCTAGAAAGAAGAGAAGCAGGCATATGACTAAGATCTTGGACCCTGATCCAGgtaagtgagcactaggggtaagaactgcaaaaatcactcaagacttaaaa Alignment from Exonerate_coding2genome TTACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCT-GAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGACCCAG tgaactctgtcaagatgtttgttcaacactttcttctccctcttcagtagTTACTCCAGTTATAGAGCAGGGGAACAAAAAGCCCCGTGGCCAAAGATGGAAAGAGCTCCCTTGAGAATGAACCAGCTAGAAAGAAGAGAAGCAGGCATATGACTAAGATCTTGGACCCTGATCCAGgtaagtgagcactaggggtaagaactgcaaaaatcactcaagacttaaaa Alignment from GeneWise --GTTACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCT-GAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGACCCAG tgaactctgtcaagatgtttgttcaacactttcttctccctcttcagTAGTTACTCCAGTTATAGAGCAGGGGAACAAAAAGCCCCGTGGCCAAAGATGGAAAGAGCTCCCTTGAGAATGAACCAGCTAGAAAGAAGAGAAGCAGGCATATGACTAAGATCTTGGACCCTGATCCAGgtaagtgagcactaggggtaagaactgcaaaaatcactcaagacttaaaa #### AI846148_ID2143_3 --> 2 - 1 Original Alignment agTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCG-GATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCg gtgggagtagcaagtgctaaggactatctttaatttctgatgttttccagaaTCTGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCACGATCCAGTGAGGATGCCAGCCGAAATGATAGTGCTTTTAGATTCTCAAGGCAACCCATCTCTGCCCACAAGGCTACGGCCTAGAGGACTCCGACCT---GAACTGCCAagtgagtcatcaagtattcttgggtttggtgggacatcatatagtagggca Alignment from CESAR agTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCG-GATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCg gtgggagtagcaagtgctaaggactatctttaatttctgatgttttccagaaTCTGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCACGATCCAGTGAGGATGCCAGCCGAAATGATAGTGCTTTTAGATTCTCAAGGCAACCCATCTCTGCCCACAAGGCTACGGCCTAGAGGACTCCGACCT---GAACTGCCAagtgagtcatcaagtattcttgggtttggtgggacatcatatagtagggca Alignment from Spaln_aa2Genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCG-GATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gtgggagtagcaagtgctaaggactatctttaatttctgatgttttccagAATCTGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCAcGATCCAGTGAGGATGCCAGCCGAAATGATAGTGCTTTTAGATTCTCAAGGCAACCCATCTCTGCCCACAAGGCTACGGCCTAGAGGACTCCGACCT---GAACTGCCAAgtgagtcatcaagtattcttgggtttggtgggacatcatatagtagggca Alignment from Spaln_nt2Genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCG-GATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gtgggagtagcaagtgctaaggactatctttaatttctgatgttttccagAATCTGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCACGATCCAGTGAGGATGCCAGCCGAAATGATAGTGCTTTTAGATTCTCAAGGCAACCCATCTCTGCCCACAAGGCTACGGCCTAGAGGACTCCGACC---TGAACTGCCAAgtgagtcatcaagtattcttgggtttggtgggacatcatatagtagggca Alignment from Pairagon AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCG-GATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gtgggagtagcaagtgctaaggactatctttaatttctgatgttttccagAATCTGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCACGATCCAGTGAGGATGCCAGCCGAAATGATAGTGCTTTTAGATTCTCAAGGCAACCCATCTCTGCCCACAAGGCTACGGCCTAGAGGACTCCGACC---TGAACTGCCAAgtgagtcatcaagtattcttgggtttggtgggacatcatatagtagggca Alignment from Exonerate_protein2genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCG-GATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gtgggagtagcaagtgctaaggactatctttaatttctgatgttttccagAATCTGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCACGATCCAGTGAGGATGCCAGCCGAAATGATAGTGCTTTTAGATTCTCAAGGCAACCCATCTCTGCCCACAAGGCTACGGCCTAGAGGACTCCGACCT---GAACTGCCAAgtgagtcatcaagtattcttgggtttggtgggacatcatatagtagggca Alignment from Exonerate_coding2genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCG-GATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gtgggagtagcaagtgctaaggactatctttaatttctgatgttttccagAATCTGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCACGATCCAGTGAGGATGCCAGCCGAAATGATAGTGCTTTTAGATTCTCAAGGCAACCCATCTCTGCCCACAAGGCTACGGCCTAGAGGACTCCGACCT---GAACTGCCAAgtgagtcatcaagtattcttgggtttggtgggacatcatatagtagggca Alignment from GeneWise AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCG-GATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gtgggagtagcaagtgctaaggactatctttaatttctgatgttttccagAATCTGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCACGATCCAGTGAGGATGCCAGCCGAAATGATAGTGCTTTTAGATTCTCAAGGCAACCCATCTCTGCCCACAAGGCTACGGCCTAGAGGACTCCGACCT---GAACTGCCAAgtgagtcatcaagtattcttgggtttggtgggacatcatatagtagggca #### Abcc2_ID8821_5 --> 0 - 0 Original Alignment GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATT-GTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC gatgattgtggttgtaactatgggcctcctgtggattcctctccatgcagGATAGTAAGTCAAACATGACATACTCCTGTCTGTTCTTCATCTCCTCCAGTTTCCAGATTCGTGGCTTTGATTCTTTCAGCATTTTCAGAATCGAGTGACTCTACACATgtatccatgtaatgggtatttaaaaaagggtcattctagtgtcattcaaa Alignment from CESAR GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATT-GTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC gatgattgtggttgtaactatgggcctcctgtggattcctctccatgcagGATAGTAAGTCAAACATGACATACTCCTGTCTGTTCTTCATCTCCTCCAGTTTCCAGATTCGTGGCTTTGATTCTTTCAGCATTTTCAGAATCGAGTGACTCTACACATgtatccatgtaatgggtatttaaaaaagggtcattctagtgtcattcaaa Alignment from Spaln_aa2Genome GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATT-GTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC gatgattgtggttgtaactatgggcctcctgtggattcctctccatgcagGATAGTAAGTCAAACATGACATACTCCTGTCTGTTCTTCATCTCCTCCAGTTTCCAGATTcGTGGCTTTGATTCTTTCAGCATTTTCAGAATCGAGTGACTCTACACATgtatccatgtaatgggtatttaaaaaagggtcattctagtgtcattcaaa Alignment from Spaln_nt2Genome GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATT-GTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC gatgattgtggttgtaactatgggcctcctgtggattcctctccatgcagGATAGTAAGTCAAACATGACATACTCCTGTCTGTTCTTCATCTCCTCCAGTTTCCAGATTCGTGGCTTTGATTCTTTCAGCATTTTCAGAATCGAGTGACTCTACACATgtatccatgtaatgggtatttaaaaaagggtcattctagtgtcattcaaa Alignment from Pairagon GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATT-GTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC gatgattgtggttgtaactatgggcctcctgtggattcctctccatgcagGATAGTAAGTCAAACATGACATACTCCTGTCTGTTCTTCATCTCCTCCAGTTTCCAGATTCGTGGCTTTGATTCTTTCAGCATTTTCAGAATCGAGTGACTCTACACATgtatccatgtaatgggtatttaaaaaagggtcattctagtgtcattcaaa Alignment from Exonerate_protein2genome GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATT-GTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC gatgattgtggttgtaactatgggcctcctgtggattcctctccatgcagGATAGTAAGTCAAACATGACATACTCCTGTCTGTTCTTCATCTCCTCCAGTTTCCAGATTCGTGGCTTTGATTCTTTCAGCATTTTCAGAATCGAGTGACTCTACACATgtatccatgtaatgggtatttaaaaaagggtcattctagtgtcattcaaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATT-GTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC gatgattgtggttgtaactatgggcctcctgtggattcctctccatgcagGATAGTAAGTCAAACATGACATACTCCTGTCTGTTCTTCATCTCCTCCAGTTTCCAGATTCGTGGCTTTGATTCTTTCAGCATTTTCAGAATCGAGTGACTCTACACATgtatccatgtaatgggtatttaaaaaagggtcattctagtgtcattcaaa #### Abcc2_ID8838_22 --> 0 - 1 Original Alignment GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTCATCTTCTACGTATTGAACTATGTG-GCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAg ggggtctgttctctcattttggacctacagcttactgtatttatgcccagGTCAAGTTGTCTATTTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGTTTATTATCATCTTCTATGTACTGAACTATGTGCGCATTCATTGGCACTAATCTATGGTTGAGTGCTTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGGTATCGCACAAggtgccagtgccaagaccacaacccttaaagcgagttacatcttgttatat Alignment from CESAR GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTCATCTTCTACGTATTGAACTATGTG-GCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAg ggggtctgttctctcattttggacctacagcttactgtatttatgcccagGTCAAGTTGTCTATTTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGTTTATTATCATCTTCTATGTACTGAACTATGTGCGCATTCATTGGCACTAATCTATGGTTGAGTGCTTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGGTATCGCACAAggtgccagtgccaagaccacaacccttaaagcgagttacatcttgttatat Alignment from Spaln_aa2Genome GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTCATCTTCTACGTATTGAACTATGTG-GCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAG ggggtctgttctctcattttggacctacagcttactgtatttatgcccagGTCAAGTTGTCTATTTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGTTTATTATCATCTTCTATGTACTGAACTATGTGcGCATTCATTGGCACTAATCTATGGTTGAGTGCTTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGGTATCGCACAAGgtgccagtgccaagaccacaacccttaaagcgagttacatcttgttatat Alignment from Spaln_nt2Genome GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTCATCTTCTACGTATTGAACTATGTG-GCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAG ggggtctgttctctcattttggacctacagcttactgtatttatgcccagGTCAAGTTGTCTATTTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGTTTATTATCATCTTCTATGTACTGAACTATGTGCGCATTCATTGGCACTAATCTATGGTTGAGTGCTTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGGTATCGCACAAGgtgccagtgccaagaccacaacccttaaagcgagttacatcttgttatat Alignment from Pairagon GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTCATCTTCTACGTATTGAACTATGTG-GCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAG ggggtctgttctctcattttggacctacagcttactgtatttatgcccagGTCAAGTTGTCTATTTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGTTTATTATCATCTTCTATGTACTGAACTATGTGCGCATTCATTGGCACTAATCTATGGTTGAGTGCTTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGGTATCGCACAAGgtgccagtgccaagaccacaacccttaaagcgagttacatcttgttatat Alignment from Exonerate_protein2genome GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTCATCTTCTACGTATTGAACTATGTG-GCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAG ggggtctgttctctcattttggacctacagcttactgtatttatgcccagGTCAAGTTGTCTATTTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGTTTATTATCATCTTCTATGTACTGAACTATGTGCGCATTCATTGGCACTAATCTATGGTTGAGTGCTTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGGTATCGCACAAGgtgccagtgccaagaccacaacccttaaagcgagttacatcttgttatat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTCATCTTCTACGTATTGAACTATGTG-GCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAG ggggtctgttctctcattttggacctacagcttactgtatttatgcccagGTCAAGTTGTCTATTTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGTTTATTATCATCTTCTATGTACTGAACTATGTGCGCATTCATTGGCACTAATCTATGGTTGAGTGCTTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGGTATCGCACAAGgtgccagtgccaagaccacaacccttaaagcgagttacatcttgttatat #### Acsl5_ID11602_7 --> 0 - 0 Original Alignment AATATAGGCAAAGAGAAC-TTCAAAAAACCAGTG acatccaattataatgattctttttggtttttatgcttattccttggcagAATATAGGCAAAGAGAACCTTCAAGAAACCAGTGgtaagagtcatatgtctgctagttatgagctgcttttcacctctgtgatt Alignment from CESAR AATATAGGCAAAGAGAAC-TTCAAAAAACCAGTG acatccaattataatgattctttttggtttttatgcttattccttggcagAATATAGGCAAAGAGAACCTTCAAGAAACCAGTGgtaagagtcatatgtctgctagttatgagctgcttttcacctctgtgatt Alignment from Spaln_aa2Genome AATATAGGCAAAGAGAAC-TTCAAAAAACCAGTG acatccaattataatgattctttttggtttttatgcttattccttggcagAATATAGGCAAAGAGAACcTTCAAGAAACCAGTGgtaagagtcatatgtctgctagttatgagctgcttttcacctctgtgatt Alignment from Spaln_nt2Genome AATATAGGCAAAGAGAAC-TTCAAAAAACCAGTG acatccaattataatgattctttttggtttttatgcttattccttggcagAATATAGGCAAAGAGAACCTTCAAGAAACCAGTGgtaagagtcatatgtctgctagttatgagctgcttttcacctctgtgatt Alignment from Pairagon AATATAGGCAAAGAGAA-CTTCAAAAAACCAGTG acatccaattataatgattctttttggtttttatgcttattccttggcagAATATAGGCAAAGAGAACCTTCAAGAAACCAGTGgtaagagtcatatgtctgctagttatgagctgcttttcacctctgtgatt Alignment from Exonerate_protein2genome AATATAGGCAAAGAGAAC-TTCAAAAAACCAGTG acatccaattataatgattctttttggtttttatgcttattccttggcagAATATAGGCAAAGAGAACCTTCAAGAAACCAGTGgtaagagtcatatgtctgctagttatgagctgcttttcacctctgtgatt Alignment from Exonerate_coding2genome acatccaattataatgattctttttggtttttatgcttattccttggcagaatataggcaaagagaaccttcaagaaaccagtggtaagagtcatatgtctgctagttatgagctgcttttcacctctgtgatt Alignment from GeneWise acatccaattataatgattctttttggtttttatgcttattccttggcagaatataggcaaagagaaccttcaagaaaccagtggtaagagtcatatgtctgctagttatgagctgcttttcacctctgtgatt #### Actn3_ID691_19 --> 0 - 0 Original Alignment TGACCGG AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGT-CTCATCTCCATGGGTTACGATCTG TGACCGGgtgagggacttgacatgaatatgacattgtgttttatttctagAAGCGGAACAGGATGATGGAGCCCGATGACTTCCGAGCTTGTCCTCATCTCCATGGGTTATGATCTAgtaaggagattagccagtcctatcacaccattagcttacttatgtctttg Alignment from CESAR TGACCGG AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGT-CTCATCTCCATGGGTTACGATCTG TGACCGGgtaagtgacttgacatgaatatgacattgtgttttatttctagAAGCGGAACAGGATGATGGAGCCCGATGACTTCCGAGCTTGTCCTCATCTCCATGGGTTATGATCTAgtaaggagattagccagtcctatcacaccattagcttacttatgtctttg Alignment from Spaln_aa2Genome TGACCGG AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGT-CTCATCTCCATGGGTTACGATCTG TGACCGGgtgagggacttgacatgaatatgacattgtgttttatttctagAAGCGGAACAGGATGATGGAGCCCGATGACTTCCGAGCTTGTcCTCATCTCCATGGGTTATGATCTAgtaaggagattagccagtcctatcacaccattagcttacttatgtctttg Alignment from Spaln_nt2Genome TGACCGG AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGT-CTCATCTCCATGGGTTACGATCTG TGACCGGgtgagggacttgacatgaatatgacattgtgttttatttctagAAGCGGAACAGGATGATGGAGCCCGATGACTTCCGAGCTTGTCCTCATCTCCATGGGTTATGATCTAgtaaggagattagccagtcctatcacaccattagcttacttatgtctttg Alignment from Pairagon TGACCGG AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGT-CTCATCTCCATGGGTTACGATCTG TGACCGGgtgagggacttgacatgaatatgacattgtgttttatttctagAAGCGGAACAGGATGATGGAGCCCGATGACTTCCGAGCTTGTCCTCATCTCCATGGGTTATGATCTAgtaaggagattagccagtcctatcacaccattagcttacttatgtctttg Alignment from Exonerate_protein2genome TGACCGG AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGT-CTCATCTCCATGGGTTACGATCTG TGACCGGgtgagggacttgacatgaatatgacattgtgttttatttctagAAGCGGAACAGGATGATGGAGCCCGATGACTTCCGAGCTTGTCCTCATCTCCATGGGTTATGATCTAgtaaggagattagccagtcctatcacaccattagcttacttatgtctttg Alignment from Exonerate_coding2genome TGACCGG AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGT-CTCATCTCCATGGGTTACGATCTG TGACCGGgtgagggacttgacatgaatatgacattgtgttttatttctagAAGCGGAACAGGATGATGGAGCCCGATGACTTCCGAGCTTGTCCTCATCTCCATGGGTTATGATCTAgtaaggagattagccagtcctatcacaccattagcttacttatgtctttg Alignment from GeneWise TGACCGG AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGT-CTCATCTCCATGGGTTACGATCTG TGACCGGgtgagggacttgacatgaatatgacattgtgttttatttctagAAGCGGAACAGGATGATGGAGCCCGATGACTTCCGAGCTTGTCCTCATCTCCATGGGTTATGATCTAgtaaggagattagccagtcctatcacaccattagcttacttatgtctttg #### Actn3_ID696_14 --> 0 - 0 Original Alignment AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAG-GATGTGTGGCTC---GTGCACTCTGTGGAGGAGACCCAG taatgtctgttgtctgaatggatgcggacaaacttctgacttcaccacagAAGATGGAGAAGCTCCTGGAGACAATTGACCAGCTGCAGCTAGAACTTGCTCGTAGGGCAGCTTCCTTCAATAACTGGTTTGATGGTGCTGTTGAGGATCTGCATCGATGTGTGGCTAGTGGTTCACTCTGTGGAAGAAACAGAAgtaaccacactaggcagtaaacccttgaatgtacttgtggcctagaacat Alignment from CESAR AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAG-GATGTGTGGCTCGTG---CACTCTGTGGAGGAGACCCAG taatgtctgttgtctgaatggatgcggacaaacttctgacttcaccacagAAGATGGAGAAGCTCCTGGAGACAATTGACCAGCTGCAGCTAGAACTTGCTCGTAGGGCAGCTTCCTTCAATAACTGGTTTGATGGTGCTGTTGAGGATCTGCATCGATGTGTGGCTAGTGGTTCACTCTGTGGAAGAAACAGAAgtaaccacactaggcagtaaacccttgaatgtacttgtggcctagaacat Alignment from Spaln_aa2Genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAG-GATGTGTGGCTC---GTGCACTCTGTGGAGGAGACCCAG taatgtctgttgtctgaatggatgcggacaaacttctgacttcaccacagAAGATGGAGAAGCTCCTGGAGACAATTGACCAGCTGCAGCTAGAACTTGCTCGTAGGGCAGCTTCCTTCAATAACTGGTTTGATGGTGCTGTTGAGGATCTGCATcGATGTGTGGCTAGTGGTTCACTCTGTGGAAGAAACAGAAgtaaccacactaggcagtaaacccttgaatgtacttgtggcctagaacat Alignment from Spaln_nt2Genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAG-GATGTGTGGCTCGTG---CACTCTGTGGAGGAGACCCAG taatgtctgttgtctgaatggatgcggacaaacttctgacttcaccacagAAGATGGAGAAGCTCCTGGAGACAATTGACCAGCTGCAGCTAGAACTTGCTCGTAGGGCAGCTTCCTTCAATAACTGGTTTGATGGTGCTGTTGAGGATCTGCATCGATGTGTGGCTAGTGGTTCACTCTGTGGAAGAAACAGAAgtaaccacactaggcagtaaacccttgaatgtacttgtggcctagaacat Alignment from Pairagon AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCA-GGATGTGTGGCTCGTG---CACTCTGTGGAGGAGACCCAG taatgtctgttgtctgaatggatgcggacaaacttctgacttcaccacagAAGATGGAGAAGCTCCTGGAGACAATTGACCAGCTGCAGCTAGAACTTGCTCGTAGGGCAGCTTCCTTCAATAACTGGTTTGATGGTGCTGTTGAGGATCTGCATCGATGTGTGGCTAGTGGTTCACTCTGTGGAAGAAACAGAAgtaaccacactaggcagtaaacccttgaatgtacttgtggcctagaacat Alignment from Exonerate_protein2genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAG-GATGTGTGGCTC---GTGCACTCTGTGGAGGAGACCCAG taatgtctgttgtctgaatggatgcggacaaacttctgacttcaccacagAAGATGGAGAAGCTCCTGGAGACAATTGACCAGCTGCAGCTAGAACTTGCTCGTAGGGCAGCTTCCTTCAATAACTGGTTTGATGGTGCTGTTGAGGATCTGCATCGATGTGTGGCTAGTGGTTCACTCTGTGGAAGAAACAGAAgtaaccacactaggcagtaaacccttgaatgtacttgtggcctagaacat Alignment from Exonerate_coding2genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAG-GATGTGTGGCTC---GTGCACTCTGTGGAGGAGACCCAG taatgtctgttgtctgaatggatgcggacaaacttctgacttcaccacagAAGATGGAGAAGCTCCTGGAGACAATTGACCAGCTGCAGCTAGAACTTGCTCGTAGGGCAGCTTCCTTCAATAACTGGTTTGATGGTGCTGTTGAGGATCTGCATCGATGTGTGGCTAGTGGTTCACTCTGTGGAAGAAACAGAAgtaaccacactaggcagtaaacccttgaatgtacttgtggcctagaacat Alignment from GeneWise AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTG-CAGGATGTGTGGCTCGTG---CACTCTGTGGAGGAGACCCAG taatgtctgttgtctgaatggatgcggacaaacttctgacttcaccacagAAGATGGAGAAGCTCCTGGAGACAATTGACCAGCTGCAGCTAGAACTTGCTCGTAGGGCAGCTTCCTTCAATAACTGGTTTGATGGTGCTGTTGAGGATCTGCATCGATGTGTGGCTAGTGGTTCACTCTGTGGAAGAAACAGAAgtaaccacactaggcagtaaacccttgaatgtacttgtggcctagaacat #### Actn3_ID697_13 --> 1 - 0 Original Alignment tGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAG-TGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cataaaaccgtaacataccttgggtctgaaaatgtccctccctggttcagcGAGCTTGACTACCATGAGGCAACATCTGTGAACAGTCGGTGCCAAGCCATATCTGACCAGCTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGgtaggaggtagtccaggagggaagtaacgccagtaatgtctgttgtctga Alignment from CESAR tGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAG-TGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cataaaaccgtaacataccttgggtctgaaaatgtccctccctggttcagcGAGCTTGACTACCATGAGGCAACATCTGTGAACAGTCGGTGCCAAGCCATATCTGACCAGCTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGgtaggaggtagtccaggagggaagtaacgccagtaatgtctgttgtctga Alignment from Spaln_aa2Genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAG-TGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cataaaaccgtaacataccttgggtctgaaaatgtccctccctggttcagCGAGCTTGACTACCATGAGGCAACATCTGTGAACAGTCGGTGCCAAGCCATATCTGACCAGcTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGgtaggaggtagtccaggagggaagtaacgccagtaatgtctgttgtctga Alignment from Spaln_nt2Genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAG-TGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cataaaaccgtaacataccttgggtctgaaaatgtccctccctggttcagCGAGCTTGACTACCATGAGGCAACATCTGTGAACAGTCGGTGCCAAGCCATATCTGACCAGCTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGgtaggaggtagtccaggagggaagtaacgccagtaatgtctgttgtctga Alignment from Pairagon TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAG-TGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cataaaaccgtaacataccttgggtctgaaaatgtccctccctggttcagCGAGCTTGACTACCATGAGGCAACATCTGTGAACAGTCGGTGCCAAGCCATATCTGACCAGCTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGgtaggaggtagtccaggagggaagtaacgccagtaatgtctgttgtctga Alignment from Exonerate_protein2genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAG-TGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cataaaaccgtaacataccttgggtctgaaaatgtccctccctggttcagCGAGCTTGACTACCATGAGGCAACATCTGTGAACAGTCGGTGCCAAGCCATATCTGACCAGCTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGgtaggaggtagtccaggagggaagtaacgccagtaatgtctgttgtctga Alignment from Exonerate_coding2genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAG-TGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cataaaaccgtaacataccttgggtctgaaaatgtccctccctggttcagCGAGCTTGACTACCATGAGGCAACATCTGTGAACAGTCGGTGCCAAGCCATATCTGACCAGCTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGgtaggaggtagtccaggagggaagtaacgccagtaatgtctgttgtctga Alignment from GeneWise TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGAC-CAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cataaaaccgtaacataccttgggtctgaaaatgtccctccctggttcagCGAGCTTGACTACCATGAGGCAACATCTGTGAACAGTCGGTGCCAAGCCATATCTGACCAGCTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGgtaggaggtagtccaggagggaagtaacgccagtaatgtctgttgtctga #### Actn3_ID705_5 --> 2 - 2 Original Alignment agACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAAT-GTCAACGTACAGAACTTCCATACCag atgccagatgcctagttgagccagatcaaacctggtaaaattttttatagagGCTGCCTCCAAACAGGGCTTGTTCCTCTGGTGCCAGCGGAAAATAGCTCCATACCGTAATCGTTAATGTACAGAACTTCCATACTaggtgagtatcctgcgtattgtagttgggatctgttaaagtgaaggatgcca Alignment from CESAR agACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAAT-GTCAACGTACAGAACTTCCATACCag atgccagatgcctagttgagccagatcaaacctggtaaaattttttatagagGCTGCCTCCAAACAGGGCTTGTTCCTCTGGTGCCAGCGGAAAATAGCTCCATACCGTAATCGTTAATGTACAGAACTTCCATACTaggtgagtatcctgcgtattgtagttgggatctgttaaagtgaaggatgcca Alignment from Spaln_aa2Genome AGACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAAT-GTCAACGTACAGAACTTCCATACCAG atgccagatgcctagttgagccagatcaaacctggtaaaattttttatagAGGCTGCCTCCAAACAGGGCTTGTTCCTCTGGTGCCAGCGGAAAATAGCTCCATACCGTAATcGTTAATGTACAGAACTTCCATACTAGgtgagtatcctgcgtattgtagttgggatctgttaaagtgaaggatgcca Alignment from Spaln_nt2Genome AGACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAAT-GTCAACGTACAGAACTTCCATACCAG atgccagatgcctagttgagccagatcaaacctggtaaaattttttatagAGGCTGCCTCCAAACAGGGCTTGTTCCTCTGGTGCCAGCGGAAAATAGCTCCATACCGTAATCGTTAATGTACAGAACTTCCATACTAGgtgagtatcctgcgtattgtagttgggatctgttaaagtgaaggatgcca Alignment from Pairagon AGACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAAT-GTCAACGTACAGAACTTCCATACCAG atgccagatgcctagttgagccagatcaaacctggtaaaattttttatagAGGCTGCCTCCAAACAGGGCTTGTTCCTCTGGTGCCAGCGGAAAATAGCTCCATACCGTAATCGTTAATGTACAGAACTTCCATACTAGgtgagtatcctgcgtattgtagttgggatctgttaaagtgaaggatgcca Alignment from Exonerate_protein2genome AGACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAAT-GTCAACGTACAGAACTTCCATACCAG atgccagatgcctagttgagccagatcaaacctggtaaaattttttatagAGGCTGCCTCCAAACAGGGCTTGTTCCTCTGGTGCCAGCGGAAAATAGCTCCATACCGTAATCGTTAATGTACAGAACTTCCATACTAGgtgagtatcctgcgtattgtagttgggatctgttaaagtgaaggatgcca Alignment from Exonerate_coding2genome atgccagatgcctagttgagccagatcaaacctggtaaaattttttatagaggctgcctccaaacagggcttgttcctctggtgccagcggaaaatagctccataccgtaatcgttaatgtacagaacttccatactaggtgagtatcctgcgtattgtagttgggatctgttaaagtgaaggatgcca Alignment from GeneWise AGACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAAT-GTCAACGTACAGAACTTCCATACCAG atgccagatgcctagttgagccagatcaaacctggtaaaattttttatagAGGCTGCCTCCAAACAGGGCTTGTTCCTCTGGTGCCAGCGGAAAATAGCTCCATACCGTAATCGTTAATGTACAGAACTTCCATACTAGgtgagtatcctgcgtattgtagttgggatctgttaaagtgaaggatgcca #### Actn3_ID706_4 --> 2 - 1 Original Alignment aaATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGG-ACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAg tggtagtgcgggggaacaaaggctctcatgttcattttttatctcaatagaaATAGTTGACGGCAACCTGAAGATGACCCTTGGCATGATTGGGCACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAggtgaggtgatgccagatgcctagttgagccagatcagtgtgtcttatttt Alignment from CESAR aaATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGG-ACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAg tggtagtgcgggggaacaaaggctctcatgttcattttttatctcaatagaaATAGTTGACGGCAACCTGAAGATGACCCTTGGCATGATTGGGCACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAggtgaggtgatgccagatgcctagttgagccagatcaaacctggtaaaatt Alignment from Spaln_aa2Genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGG-ACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG tggtagtgcgggggaacaaaggctctcatgttcattttttatctcaatagAAATAGTTGACGGCAACCTGAAGATGACCCTTGGCATGATTGGGcACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgtgaggtgatgccagatgcctagttgagccagatcagtgtgtcttatttt Alignment from Spaln_nt2Genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGG-ACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG tggtagtgcgggggaacaaaggctctcatgttcattttttatctcaatagAAATAGTTGACGGCAACCTGAAGATGACCCTTGGCATGATTGGGCACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgtgaggtgatgccagatgcctagttgagccagatcagtgtgtcttatttt Alignment from Pairagon AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGG-ACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG tggtagtgcgggggaacaaaggctctcatgttcattttttatctcaatagAAATAGTTGACGGCAACCTGAAGATGACCCTTGGCATGATTGGGCACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgtgaggtgatgccagatgcctagttgagccagatcagtgtgtcttatttt Alignment from Exonerate_protein2genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATC-TGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG tggtagtgcgggggaacaaaggctctcatgttcattttttatctcaatagAAATAGTTGACGGCAACCTGAAGATGACCCTTGGCATGATTGGGCACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgtgaggtgatgccagatgcctagttgagccagatcagtgtgtcttatttt Alignment from Exonerate_coding2genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATC-TGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG tggtagtgcgggggaacaaaggctctcatgttcattttttatctcaatagAAATAGTTGACGGCAACCTGAAGATGACCCTTGGCATGATTGGGCACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgtgaggtgatgccagatgcctagttgagccagatcagtgtgtcttatttt Alignment from GeneWise AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATC-TGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG tggtagtgcgggggaacaaaggctctcatgttcattttttatctcaatagAAATAGTTGACGGCAACCTGAAGATGACCCTTGGCATGATTGGGCACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgtgaggtgatgccagatgcctagttgagccagatcagtgtgtcttatttt #### Actn3_ID707_3 --> 2 - 1 Original Alignment gaGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCC-CTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAg tggtcttcaactcatgacctttagcatgcttttgtgttgttttctcccaggtGCTAGACTGCCTAGGCCGGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACTCCTAGACTTCATAGCTACCAAAGGTGTGAAGCTAGTTGCAATTAGTGCTGAAggtgagtgagggtggttaaaggataccagttgtggcacagccagatgttat Alignment from CESAR gaGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCC-CTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAg tggtcttcaactcatgacctttagcatgcttttgtgttgttttctcccaggtGCTAGACTGCCTAGGCCGGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACTCCTAGACTTCATAGCTACCAAAGGTGTGAAGCTAGTTGCAATTAGTGCTGAAggtgagtgagggtggttaaaggataccagttgtggcacagccagatgttat Alignment from Spaln_aa2Genome GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCC-CTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG tggtcttcaactcatgacctttagcatgcttttgtgttgttttctcccagGTGCTAGACTGCCTAGGCCGGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACTcCTAGACTTCATAGCTACCAAAGGTGTGAAGCTAGTTGCAATTAGTGCTGAAGgtgagtgagggtggttaaaggataccagttgtggcacagccagatgttat Alignment from Spaln_nt2Genome GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGC-CCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG tggtcttcaactcatgacctttagcatgcttttgtgttgttttctcccagGTGCTAGACTGCCTAGGCCGGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACTCCTAGACTTCATAGCTACCAAAGGTGTGAAGCTAGTTGCAATTAGTGCTGAAGgtgagtgagggtggttaaaggataccagttgtggcacagccagatgttat Alignment from Pairagon GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAA-AGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG tggtcttcaactcatgacctttagcatgcttttgtgttgttttctcccagGTGCTAGACTGCCTAGGCCGGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACTCCTAGACTTCATAGCTACCAAAGGTGTGAAGCTAGTTGCAATTAGTGCTGAAGgtgagtgagggtggttaaaggataccagttgtggcacagccagatgttat Alignment from Exonerate_protein2genome GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCC-CTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG tggtcttcaactcatgacctttagcatgcttttgtgttgttttctcccagGTGCTAGACTGCCTAGGCCGGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACTCCTAGACTTCATAGCTACCAAAGGTGTGAAGCTAGTTGCAATTAGTGCTGAAGgtgagtgagggtggttaaaggataccagttgtggcacagccagatgttat Alignment from Exonerate_coding2genome GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCC-CTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG tggtcttcaactcatgacctttagcatgcttttgtgttgttttctcccagGTGCTAGACTGCCTAGGCCGGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACTCCTAGACTTCATAGCTACCAAAGGTGTGAAGCTAGTTGCAATTAGTGCTGAAGgtgagtgagggtggttaaaggataccagttgtggcacagccagatgttat Alignment from GeneWise GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAA-GCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG tggtcttcaactcatgacctttagcatgcttttgtgttgttttctcccagGTGCTAGACTGCCTAGGCCGGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACTCCTAGACTTCATAGCTACCAAAGGTGTGAAGCTAGTTGCAATTAGTGCTGAAGgtgagtgagggtggttaaaggataccagttgtggcacagccagatgttat #### Acy3_ID251_5 --> 2 - 0 Original Alignment gcATG------GACTTACCCGCCTTTGAG-ATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagagttatctggaacaatagtgaggagtgcctctggattctgctttcaggtATGGACTCAGACTCAGCAGCATTTGAGCATGGATATCTACAGGAACTCGGGAAGTGTGGACTTCCCCTGCACTGCTGATGGTGACCTAGCCAGCATGGTGCACCCACAAATACAAgtgctggtactactggtaatcaggtgtcccaagcagcaatgtcacaactt Alignment from CESAR gcATGGACTTA------CCCGCCTTTGAG-ATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagagttatctggaacaatagtgaggagtgcctctggattctgctttcaggtATGGACTCAGACTCAGCAGCATTTGAGCATGGATATCTACAGGAACTCGGGAAGTGTGGACTTCCCCTGCACTGCTGATGGTGACCTAGCCAGCATGGTGCACCCACAAATACAAgtgctggtactactggtaatcaggtgtcccaagcagcaatgtcacaactt Alignment from Spaln_aa2Genome GCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagagttatctggaacaatagtgaggagtgcctctggattctgctttcaggtatggactcagactcagcagCATTTGAGCATGGATATCTACAGGAACTCGGGAAGTGTGGACTTCCCCTGCACTGCTGATGGTGACCTAGCCAGCATGGTGCACCCACAAATACAAgtgctggtactactggtaatcaggtgtcccaagcagcaatgtcacaactt Alignment from Spaln_nt2Genome GCATGGACTTACCC------GCCTTTGAG-ATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagagttatctggaacaatagtgaggagtgcctctggattctgctttcagGTATGGACTCAGACTCAGCAGCATTTGAGCATGGATATCTACAGGAACTCGGGAAGTGTGGACTTCCCCTGCACTGCTGATGGTGACCTAGCCAGCATGGTGCACCCACAAATACAAgtgctggtactactggtaatcaggtgtcccaagcagcaatgtcacaactt Alignment from Pairagon GCATG------GACTTACCCGCCTTTGAG-ATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagagttatctggaacaatagtgaggagtgcctctggattctgctttcagGTATGGACTCAGACTCAGCAGCATTTGAGCATGGATATCTACAGGAACTCGGGAAGTGTGGACTTCCCCTGCACTGCTGATGGTGACCTAGCCAGCATGGTGCACCCACAAATACAAgtgctggtactactggtaatcaggtgtcccaagcagcaatgtcacaactt Alignment from Exonerate_protein2genome GCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagagttatctggaacaatagtgaggagtgcctctggattctgctttcaggtatggactcagactcagcagCATTTGAGCATGGATATCTACAGGAACTCGGGAAGTGTGGACTTCCCCTGCACTGCTGATGGTGACCTAGCCAGCATGGTGCACCCACAAATACAAgtgctggtactactggtaatcaggtgtcccaagcagcaatgtcacaactt Alignment from Exonerate_coding2genome GCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagagttatctggaacaatagtgaggagtgcctctggattctgctttcaggtatggactcagactcagcagCATTTGAGCATGGATATCTACAGGAACTCGGGAAGTGTGGACTTCCCCTGCACTGCTGATGGTGACCTAGCCAGCATGGTGCACCCACAAATACAAgtgctggtactactggtaatcaggtgtcccaagcagcaatgtcacaactt Alignment from GeneWise GCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagagttatctggaacaatagtgaggagtgcctctggattctgctttcaggtatggactcagactcagcagCATTTGAGCATGGATATCTACAGGAACTCGGGAAGTGTGGACTTCCCCTGCACTGCTGATGGTGACCTAGCCAGCATGGTGCACCCACAAATACAAgtgctggtactactggtaatcaggtgtcccaagcagcaatgtcacaactt #### Add3_ID11212_4 --> 0 - 0 Original Alignment GTACGAATAAGTAAGGAGCAA-GACCACATTATAATAATTCCCAGAGGCCTCTCTTTTTCTGAAGCGACAGCCTCCACTTTG tgatattgaggcagaagtgggtacttggcatctccattgtctgcctgcagGTCCGAATCAGTAAGGAACAACGATCACATTATAATGATTCCT---GGACTGTCTTTTTCTGAGACAACAGCGTCCTCTTCAgtaagtttatcattcccatgtaactaatctttaatactctcaataggcag Alignment from CESAR GTACGAATAAGTAAGGAGCAA-GACCACATTATAATAATTCCCAGAGGCCTCTCTTTTTCTGAAGCGACAGCCTCCACTTTG tgatattgaggcagaagtgggtacttggcatctccattgtctgcctgcagGTCCGAATCAGTAAGGAACAACGATCACATTATAATGATTCCT---GGACTGTCTTTTTCTGAGACAACAGCGTCCTCTTCAgtaagtttatcattcccatgtaactaatctttaatactctcaataggcag Alignment from Spaln_aa2Genome GTACGAATAAGTAAGGAGCAA-GACCACATTATAATAATTCCCAGAGGCCTCTCTTTTTCTGAAGCGACAGCCTCCACTTTG tgatattgaggcagaagtgggtacttggcatctccattgtctgcctgcagGTCCGAATCAGTAAGGAACAAcGATCACATTATAATGATTCCT---GGACTGTCTTTTTCTGAGACAACAGCGTCCTCTTCAgtaagtttatcattcccatgtaactaatctttaatactctcaataggcag Alignment from Spaln_nt2Genome GTACGAATAAGTAAGGAGCAA-GACCACATTATAATAATTCCCAGAGGCCTCTCTTTTTCTGAAGCGACAGCCTCCACTTTG tgatattgaggcagaagtgggtacttggcatctccattgtctgcctgcagGTCCGAATCAGTAAGGAACAACGATCACATTATAATGATTCC---TGGACTGTCTTTTTCTGAGACAACAGCGTCCTCTTCAgtaagtttatcattcccatgtaactaatctttaatactctcaataggcag Alignment from Pairagon GTACGAATAAGTAAGGAGCAA-GACCACATTATAATAATTCCCAGAGGCCTCTCTTTTTCTGAAGCGACAGCCTCCACTTTG tgatattgaggcagaagtgggtacttggcatctccattgtctgcctgcagGTCCGAATCAGTAAGGAACAACGATCACATTATAATGATTCCTGGA---CTGTCTTTTTCTGAGACAACAGCGTCCTCTTCAgtaagtttatcattcccatgtaactaatctttaatactctcaataggcag Alignment from Exonerate_protein2genome GTACGAATAAGTAAGGAGCAA-GACCACATTATAATAATTCCCAGAGGCCTCTCTTTTTCTGAAGCGACAGCCTCCACTTTG tgatattgaggcagaagtgggtacttggcatctccattgtctgcctgcagGTCCGAATCAGTAAGGAACAACGATCACATTATAATGATTCCT---GGACTGTCTTTTTCTGAGACAACAGCGTCCTCTTCAgtaagtttatcattcccatgtaactaatctttaatactctcaataggcag Alignment from Exonerate_coding2genome GTACGAATAAGTAAGGAGCAA-GACCACATTATAATAATTCCCAGAGGCCTCTCTTTTTCTGAAGCGACAGCCTCCACTTTG tgatattgaggcagaagtgggtacttggcatctccattgtctgcctgcagGTCCGAATCAGTAAGGAACAACGATCACATTATAATGATTCCT---GGACTGTCTTTTTCTGAGACAACAGCGTCCTCTTCAgtaagtttatcattcccatgtaactaatctttaatactctcaataggcag Alignment from GeneWise GAATAAGTAAGGAGCAAGACCACATTATAATAATTCCCAGAGGCCTCTCTTTTTCTGAAGCGACAGCCTCCACTTTG tgatattgaggcagaagtgggtacttggcatctccattgtctgcctgcaggtccgaatcagTA------AGGAACAACGATCACATTATAATGATTCCT---GGACTGTCTTTTTCTGAGACAACAGCGTCCTCTTCAgtaagtttatcattcccatgtaactaatctttaatactctcaataggcag #### Adrbk1_ID479_16 --> 0 - 0 Original Alignment TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGAC-ATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG tgccccctgccactctctactgcaatgatctcttctgtccccattaccagTATCCTCCCCCATTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACCATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGgtaagcaacccatgtagctcaggaccctgtttctggactctgaaactgaa Alignment from CESAR TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGAC-ATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG tgccccctgccactctctactgcaatgatctcttctgtccccattaccagTATCCTCCCCCATTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACCATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGgtaagcaacccatgtagctcaggaccctgtttctggactctgaaactgaa Alignment from Spaln_aa2Genome TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGAC-ATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG tgccccctgccactctctactgcaatgatctcttctgtccccattaccagTATCCTCCCCCATTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACcATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGgtaagcaacccatgtagctcaggaccctgtttctggactctgaaactgaa Alignment from Spaln_nt2Genome TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGA-CATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG tgccccctgccactctctactgcaatgatctcttctgtccccattaccagTATCCTCCCCCATTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACCATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGgtaagcaacccatgtagctcaggaccctgtttctggactctgaaactgaa Alignment from Pairagon TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGA-CATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG tgccccctgccactctctactgcaatgatctcttctgtccccattaccagTATCCTCCCCCATTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACCATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGgtaagcaacccatgtagctcaggaccctgtttctggactctgaaactgaa Alignment from Exonerate_protein2genome TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGAC-ATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG tgccccctgccactctctactgcaatgatctcttctgtccccattaccagTATCCTCCCCCATTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACCATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGgtaagcaacccatgtagctcaggaccctgtttctggactctgaaactgaa Alignment from Exonerate_coding2genome TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGAC-ATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG tgccccctgccactctctactgcaatgatctcttctgtccccattaccagTATCCTCCCCCATTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACCATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGgtaagcaacccatgtagctcaggaccctgtttctggactctgaaactgaa Alignment from GeneWise TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGAC-ATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG tgccccctgccactctctactgcaatgatctcttctgtccccattaccagTATCCTCCCCCATTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACCATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGgtaagcaacccatgtagctcaggaccctgtttctggactctgaaactgaa #### Adrbk1_ID483_12 --> 1 - 2 Original Alignment GTgt gGGCACACACGGGTAC-ATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGgg GGgtgtaagaacctacgcactcacttcatctggtcccttctttcactcaggGGCACACATGGGTACCATAGCTCCCAAGGTACTTCAAAAAGGTATAGCCTATGATAGCAGCGCTGACTGGTTCTCCTTGGGCTGCATGCTCTTTAAATTGTTGCGAgggtgagtcgagtcaaccatgaggggggagcccttcacagctggctgtcaga Alignment from CESAR GTgt gGGCACACACGGGTAC-ATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGgg GGgtgtaagaacctacgcactcacttcatctggtcccttctttcactcaggGGCACACATGGGTACCATAGCTCCCAAGGTACTTCAAAAAGGTATAGCCTATGATAGCAGCGCTGACTGGTTCTCCTTGGGCTGCATGCTCTTTAAATTGTTGCGAgggtgagtcgagtcaaccatgaggggggagcccttcacagctggctgtcaga Alignment from Spaln_aa2Genome GTGT GGGCACACACGGGTAC-ATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG GGGTgtaagaacctacgcactcacttcatctggtcccttctttcactcagGGGCACACATGGGTACcATAGCTCCCAAGGTACTTCAAAAAGGTATAGCCTATGATAGCAGCGCTGACTGGTTCTCCTTGGGCTGCATGCTCTTTAAATTGTTGCGAGGgtgagtcgagtcaaccatgaggggggagcccttcacagctggctgtcaga Alignment from Spaln_nt2Genome GTGT GGGCACACACGGGTAC-ATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG GGGTgtaagaacctacgcactcacttcatctggtcccttctttcactcagGGGCACACATGGGTACCATAGCTCCCAAGGTACTTCAAAAAGGTATAGCCTATGATAGCAGCGCTGACTGGTTCTCCTTGGGCTGCATGCTCTTTAAATTGTTGCGAGGgtgagtcgagtcaaccatgaggggggagcccttcacagctggctgtcaga Alignment from Pairagon GTGT GGGCACACACGGGTA-CATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG GGGTgtaagaacctacgcactcacttcatctggtcccttctttcactcagGGGCACACATGGGTACCATAGCTCCCAAGGTACTTCAAAAAGGTATAGCCTATGATAGCAGCGCTGACTGGTTCTCCTTGGGCTGCATGCTCTTTAAATTGTTGCGAGGgtgagtcgagtcaaccatgaggggggagcccttcacagctggctgtcaga Alignment from Exonerate_protein2genome GTGT GGGCACACACGGGTAC-ATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG GGGTgtaagaacctacgcactcacttcatctggtcccttctttcactcagGGGCACACATGGGTACCATAGCTCCCAAGGTACTTCAAAAAGGTATAGCCTATGATAGCAGCGCTGACTGGTTCTCCTTGGGCTGCATGCTCTTTAAATTGTTGCGAGGgtgagtcgagtcaaccatgaggggggagcccttcacagctggctgtcaga Alignment from Exonerate_coding2genome GTGT GGGCACACACGGGTAC-ATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG GGGTgtaagaacctacgcactcacttcatctggtcccttctttcactcagGGGCACACATGGGTACCATAGCTCCCAAGGTACTTCAAAAAGGTATAGCCTATGATAGCAGCGCTGACTGGTTCTCCTTGGGCTGCATGCTCTTTAAATTGTTGCGAGGgtgagtcgagtcaaccatgaggggggagcccttcacagctggctgtcaga Alignment from GeneWise GTGTG--GGCACACAC---------------------------------------------GGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG GGGTGTAAGAACCTACGCACTCACTTCATCTGGTCCCTTCTTTCACTCAGGGGCACACATGGGTACCATAGCTCCCAAGGTACTTCAAAAAGGTATAGCCTATGATAGCAGCGCTGACTGGTTCTCCTTGGGCTGCATGCTCTTTAAATTGTTGCGAGGgtgagtcgagtcaaccatgaggggggagcccttcacagctggctgtcaga #### Adrbk1_ID485_10 --> 2 - 0 Original Alignment CATGAACg gtGGGGACCTGCACTACCAC-CTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATggtgagcaagtctagagactgttgccttctgtttccttcttaggtGCAGAATTGCATTATCACCCTATCACAGCATGGAGTCTTCTCAGAAGCCGATATGTGTCTATATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATCTAAAGgtatgttagacttcctcacccctattctgctccttacaactcacagcaca Alignment from CESAR CATGAACg gtGGGGACCTGCACTACCAC-CTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATggtgtgtaagtctagagactgttgccttctgtttccttcttaggtGCAGAATTGCATTATCACCCTATCACAGCATGGAGTCTTCTCAGAAGCCGATATGTGTCTATATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATCTAAAGgtatgttagacttcctcacccctattctgctccttacaactcacagcaca Alignment from Spaln_aa2Genome CATGAACG GTGGGGACCTGCACTACCAC-CTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGgtgagcaagtctagagactgttgccttctgtttccttcttagGTGCAGAATTGCATTATCACcCTATCACAGCATGGAGTCTTCTCAGAAGCCGATATGTGTCTATATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATCTAAAGgtatgttagacttcctcacccctattctgctccttacaactcacagcaca Alignment from Spaln_nt2Genome CATGAACG GTGGGGACCTGCACTACCACC-TGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGgtgagcaagtctagagactgttgccttctgtttccttcttagGTGCAGAATTGCATTATCACCCTATCACAGCATGGAGTCTTCTCAGAAGCCGATATGTGTCTATATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATCTAAAGgtatgttagacttcctcacccctattctgctccttacaactcacagcaca Alignment from Pairagon CATGAACG GTGGGGACCTGCACTACCA-CCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGgtgagcaagtctagagactgttgccttctgtttccttcttagGTGCAGAATTGCATTATCACCCTATCACAGCATGGAGTCTTCTCAGAAGCCGATATGTGTCTATATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATCTAAAGgtatgttagacttcctcacccctattctgctccttacaactcacagcaca Alignment from Exonerate_protein2genome CATGAACG GTGGGGACCTGCACTACCAC-CTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGgtgagcaagtctagagactgttgccttctgtttccttcttagGTGCAGAATTGCATTATCACCCTATCACAGCATGGAGTCTTCTCAGAAGCCGATATGTGTCTATATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATCTAAAGgtatgttagacttcctcacccctattctgctccttacaactcacagcaca Alignment from Exonerate_coding2genome CATGAACG GTGGGGACCTGCACTACCAC-CTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGgtgagcaagtctagagactgttgccttctgtttccttcttagGTGCAGAATTGCATTATCACCCTATCACAGCATGGAGTCTTCTCAGAAGCCGATATGTGTCTATATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATCTAAAGgtatgttagacttcctcacccctattctgctccttacaactcacagcaca Alignment from GeneWise CATGAACGGTGGGGAC ---CTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGGTGAGCAAgtctagagactgttgccttctgtttccttcttaggtgcagAATTGCATTATCACCCTATCACAGCATGGAGTCTTCTCAGAAGCCGATATGTGTCTATATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATCTAAAGgtatgttagacttcctcacccctattctgctccttacaactcacagcaca #### Adrbk1_ID486_9 --> 0 - 1 Original Alignment GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATC-CTGGACCTCATGAACg gtGGGGAC tcccacttagtttgccttctacaagtcaattctgcattcactattttaagGACTGTTCCTTCACCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTTCATCCCTGGATCTTATGAATggtgtgtaagtctagagactgtgtcctgctctttggtccacaggtGCAGAA Alignment from CESAR GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATC-CTGGACCTCATGAACg gtGGGGAC tcccacttagtttgccttctacaagtcaattctgcattcactattttaagGACTGTTCCTTCACCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTTCATCCCTGGATCTTATGAATggtgtgtaagtctagagactgttgccttctgtttccttcttaggtGCAGAA Alignment from Spaln_aa2Genome GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATC-CTGGACCTCATGAACG GTGGGGAC tcccacttagtttgccttctacaagtcaattctgcattcactattttaagGACTGTTCCTTCACCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTTCATCcCTGGATCTTATGAATGgtgtgtaagtctagagactgtgtcctgctctttggtccacagGTGCAGAA Alignment from Spaln_nt2Genome GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCC-TGGACCTCATGAACG GTGGGGAC tcccacttagtttgccttctacaagtcaattctgcattcactattttaagGACTGTTCCTTCACCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTTCATCCCTGGATCTTATGAATGgtgtgtaagtctagagactgtgtcctgctctttggtccacagGTGCAGAA Alignment from Pairagon GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCAT-CCTGGACCTCATGAACG GTGGGGAC tcccacttagtttgccttctacaagtcaattctgcattcactattttaagGACTGTTCCTTCACCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTTCATCCCTGGATCTTATGAATGgtgtgtaagtctagagactgtgtcctgctctttggtccacagGTGCAGAA Alignment from Exonerate_protein2genome GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATC-CTGGACCTCATGAACG GTGGGGAC tcccacttagtttgccttctacaagtcaattctgcattcactattttaagGACTGTTCCTTCACCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTTCATCCCTGGATCTTATGAATGgtgtgtaagtctagagactgtgtcctgctctttggtccacagGTGCAGAA Alignment from Exonerate_coding2genome GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATC-CTGGACCTCATGAACG GTGGGGAC tcccacttagtttgccttctacaagtcaattctgcattcactattttaagGACTGTTCCTTCACCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTTCATCCCTGGATCTTATGAATGgtgtgtaagtctagagactgtgtcctgctctttggtccacagGTGCAGAA Alignment from GeneWise GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATC------------------------------------------CTGGACCTCATG-AACGGTGGGGAC tcccacttagtttgccttctacaagtcaattctgcattcactattttaagGACTGTTCCTTCACCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTTCATCCCTGGATCTTATGAATGGTGTGTAAGTCTAGAGACTGTGTCCTGCTCTTTGGTCCACAGGTGCAGAA #### Adrbk1_ID490_5 --> 0 - 2 Original Alignment CCATACATTGAG-GAGATTTGTCAGAACCTCCGAGGGGACGTGTTCCAGAAGTTCATAGAGag agaccaaggctagctagattggtgcacctctcctgttccttggaaagtagCCCTACATTGAGCGATATTTGCCAGAAACTCCGAAGGGATTTATTCCAAAAGTTTATAGAGaggtaagttggagggacttctttgcctctgcaaccagcatggtgatggttgg Alignment from CESAR CCATACATTGAG-GAGATTTGTCAGAACCTCCGAGGGGACGTGTTCCAGAAGTTCATAGAGag agaccaaggctagctagattggtgcacctctcctgttccttggaaagtagCCCTACATTGAGCGATATTTGCCAGAAACTCCGAAGGGATTTATTCCAAAAGTTTATAGAGaggtaagttggagggacttctttgcctctgcaaccagcatggtgatggttgg Alignment from Spaln_aa2Genome GGAGATTTGTCAGAACCTCCGAGGGGACGTGTTCCAGAAGTTCATAGAGAG agaccaaggctagctagattggtgcacctctcctgttccttggaaagtagccctacattgagCGATATTTGCCAGAAACTCCGAAGGGATTTATTCCAAAAGTTTATAGAGAGgtaagttggagggacttctttgcctctgcaaccagcatggtgatggttgg Alignment from Spaln_nt2Genome CCATACATTGAG-GAGATTTGTCAGAACCTCCGAGGGGACGTGTTCCAGAAGTTCATAGAGAG agaccaaggctagctagattggtgcacctctcctgttccttggaaagtagCCCTACATTGAGCGATATTTGCCAGAAACTCCGAAGGGATTTATTCCAAAAGTTTATAGAGAGgtaagttggagggacttctttgcctctgcaaccagcatggtgatggttgg Alignment from Pairagon CCATACATTGAG-GAGATTTGTCAGAACCTCCGAGGGGACGTGTTCCAGAAGTTCATAGAGAG agaccaaggctagctagattggtgcacctctcctgttccttggaaagtagCCCTACATTGAGCGATATTTGCCAGAAACTCCGAAGGGATTTATTCCAAAAGTTTATAGAGAGgtaagttggagggacttctttgcctctgcaaccagcatggtgatggttgg Alignment from Exonerate_protein2genome CCATACATTGAG-GAGATTTGTCAGAACCTCCGAGGGGACGTGTTCCAGAAGTTCATAGAGAG agaccaaggctagctagattggtgcacctctcctgttccttggaaagtagCCCTACATTGAGCGATATTTGCCAGAAACTCCGAAGGGATTTATTCCAAAAGTTTATAGAGAGgtaagttggagggacttctttgcctctgcaaccagcatggtgatggttgg Alignment from Exonerate_coding2genome agaccaaggctagctagattggtgcacctctcctgttccttggaaagtagccctacattgagcgatatttgccagaaactccgaagggatttattccaaaagtttatagagaggtaagttggagggacttctttgcctctgcaaccagcatggtgatggttgg Alignment from GeneWise GGAGATTTGTCAGAACCTCCGAGGGGACGTGTTCCAGAAGTTCATAGAGAG agaccaaggctagctagattggtgcacctctcctgttccttggaaagtagccctacattgagCGATATTTGCCAGAAACTCCGAAGGGATTTATTCCAAAAGTTTATAGAGAGgtaagttggagggacttctttgcctctgcaaccagcatggtgatggttgg #### Afap1l2_ID12247_16 --> 0 - 1 Original Alignment AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATG-GCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAg tgctctttaaaccacctggagccaaatcctaaccattcctgtgctctcagAGGCAGCCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCACGGAGCACTATTGTTAAGTTGCAT---GATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGATACAATGCGCTTCCACCCCCATTTCTGCAAGCGCGCCTGCGAAAGAGAAGTTAAGAGTTACTGGTGCAggtacggggactgagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from CESAR AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATG-GCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAg tgctctttaaaccacctggagccaaatcctaaccattcctgtgctctcagAGGCAGCCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCACGGAGCACTATTGTTAAGTTGCAT---GATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGATACAATGCGCTTCCACCCCCATTTCTGCAAGCGCGCCTGCGAAAGAGAAGTTAAGAGTTACTGGTGCAggtacggggactgagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from Spaln_aa2Genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATG-GCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tgctctttaaaccacctggagccaaatcctaaccattcctgtgctctcagAGGCAGCCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCACGGAGCACTATTGTTAAGTTGCAT---GATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGATACAATGcGCTTCCACCCCCATTTCTGCAAGCGCGCCTGCGAAAGAGAAGTTAAGAGTTACTGGTGCAGgtacggggactgagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from Spaln_nt2Genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATG-GCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tgctctttaaaccacctggagccaaatcctaaccattcctgtgctctcagAGGCAGCCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCACGGAGCACTATTGTTAAGTTGCA---TGATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGATACAATGCGCTTCCACCCCCATTTCTGCAAGCGCGCCTGCGAAAGAGAAGTTAAGAGTTACTGGTGCAGgtacggggactgagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from Pairagon AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATG-GCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tgctctttaaaccacctggagccaaatcctaaccattcctgtgctctcagAGGCAGCCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCACGGAGCACTATTGTTAAGTTGCA---TGATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGATACAATGCGCTTCCACCCCCATTTCTGCAAGCGCGCCTGCGAAAGAGAAGTTAAGAGTTACTGGTGCAGgtacggggactgagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from Exonerate_protein2genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATG-GCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tgctctttaaaccacctggagccaaatcctaaccattcctgtgctctcagAGGCAGCCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCACGGAGCACTATTGTTAAGTTGCAT---GATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGATACAATGCGCTTCCACCCCCATTTCTGCAAGCGCGCCTGCGAAAGAGAAGTTAAGAGTTACTGGTGCAGgtacggggactgagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from Exonerate_coding2genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATG-GCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tgctctttaaaccacctggagccaaatcctaaccattcctgtgctctcagAGGCAGCCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCACGGAGCACTATTGTTAAGTTGCAT---GATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGATACAATGCGCTTCCACCCCCATTTCTGCAAGCGCGCCTGCGAAAGAGAAGTTAAGAGTTACTGGTGCAGgtacggggactgagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from GeneWise AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATG-GCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tgctctttaaaccacctggagccaaatcctaaccattcctgtgctctcagAGGCAGCCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCACGGAGCACTATTGTTAAGTTGCAT---GATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGATACAATGCGCTTCCACCCCCATTTCTGCAAGCGCGCCTGCGAAAGAGAAGTTAAGAGTTACTGGTGCAGgtacggggactgagctttgttgctgtagtttgcttgtattgctgagttgg #### Aldh3b1_ID204_3 --> 0 - 1 Original Alignment GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCC-ATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAg atatttagagtccccctcaggaccacattgtcttgttttcttccaaacagGCTACAATGTTGGATGCCACATTCATCAGGAAGGAACCCTTTGGGCTGGTGCTAATCATTGTGCCCTGGAATTACCCCCATCAACTTGATGCTTGTGCCACTGGTGGGTGCTGTAGCTGCAggtaagtaggttttaaccttttcgctgaggcttctgcctttgtcgtgtagt Alignment from CESAR GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCC-ATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAg atatttagagtccccctcaggaccacattgtcttgttttcttccaaacagGCTACAATGTTGGATGCCACATTCATCAGGAAGGAACCCTTTGGGCTGGTGCTAATCATTGTGCCCTGGAATTACCCCCATCAACTTGATGCTTGTGCCACTGGTGGGTGCTGTAGCTGCAggtaagtaggttttaaccttttcgctgaggcttctgcctttgtcgtgtagt Alignment from Spaln_aa2Genome GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCC-ATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG atatttagagtccccctcaggaccacattgtcttgttttcttccaaacagGCTACAATGTTGGATGCCACATTCATCAGGAAGGAACCCTTTGGGCTGGTGCTAATCATTGTGCCCTGGAATTACCCCcATCAACTTGATGCTTGTGCCACTGGTGGGTGCTGTAGCTGCAGgtaagtaggttttaaccttttcgctgaggcttctgcctttgtcgtgtagt Alignment from Spaln_nt2Genome GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCC-ATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG atatttagagtccccctcaggaccacattgtcttgttttcttccaaacagGCTACAATGTTGGATGCCACATTCATCAGGAAGGAACCCTTTGGGCTGGTGCTAATCATTGTGCCCTGGAATTACCCCCATCAACTTGATGCTTGTGCCACTGGTGGGTGCTGTAGCTGCAGgtaagtaggttttaaccttttcgctgaggcttctgcctttgtcgtgtagt Alignment from Pairagon GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTA-TCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG atatttagagtccccctcaggaccacattgtcttgttttcttccaaacagGCTACAATGTTGGATGCCACATTCATCAGGAAGGAACCCTTTGGGCTGGTGCTAATCATTGTGCCCTGGAATTACCCCCATCAACTTGATGCTTGTGCCACTGGTGGGTGCTGTAGCTGCAGgtaagtaggttttaaccttttcgctgaggcttctgcctttgtcgtgtagt Alignment from Exonerate_protein2genome GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTAT-CCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG atatttagagtccccctcaggaccacattgtcttgttttcttccaaacagGCTACAATGTTGGATGCCACATTCATCAGGAAGGAACCCTTTGGGCTGGTGCTAATCATTGTGCCCTGGAATTACCCCCATCAACTTGATGCTTGTGCCACTGGTGGGTGCTGTAGCTGCAGgtaagtaggttttaaccttttcgctgaggcttctgcctttgtcgtgtagt Alignment from Exonerate_coding2genome GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTAT-CCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG atatttagagtccccctcaggaccacattgtcttgttttcttccaaacagGCTACAATGTTGGATGCCACATTCATCAGGAAGGAACCCTTTGGGCTGGTGCTAATCATTGTGCCCTGGAATTACCCCCATCAACTTGATGCTTGTGCCACTGGTGGGTGCTGTAGCTGCAGgtaagtaggttttaaccttttcgctgaggcttctgcctttgtcgtgtagt Alignment from GeneWise GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCC-ATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG atatttagagtccccctcaggaccacattgtcttgttttcttccaaacagGCTACAATGTTGGATGCCACATTCATCAGGAAGGAACCCTTTGGGCTGGTGCTAATCATTGTGCCCTGGAATTACCCCCATCAACTTGATGCTTGTGCCACTGGTGGGTGCTGTAGCTGCAGgtaagtaggttttaaccttttcgctgaggcttctgcctttgtcgtgtagt #### Aldh3b2_ID237_3 --> 0 - 0 Original Alignment TCAGGCTTCGAGTCAGACATGAGTGAGATCATCCTGTGCGAGAATGAGGTGGACCTG-GCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG tggtttctggtggtaaactgagtctgtatcttattttgccttcactctagTCTGGCTTTGAGTCAGACATGAGTGAGGTTTTTCTGTGTGAGAATGAGGTGGACTTGCGCCCTGAAGAATTTGCAGACGTGGATGAAGGATGAACCTGTACCCACAAATTTAgtgaggcctgttggtgtactgtagctgcccccattcagatcctacccttg Alignment from CESAR TCAGGCTTCGAGTCAGACATGAGTGAGATCATCCTGTGCGAGAATGAGGTGGACCTG-GCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG tggtttctggtggtaaactgagtctgtatcttattttgccttcactctagTCTGGCTTTGAGTCAGACATGAGTGAGGTTTTTCTGTGTGAGAATGAGGTGGACTTGCGCCCTGAAGAATTTGCAGACGTGGATGAAGGATGAACCTGTACCCACAAATTTAgtgaggcctgttggtgtactgtagctgcccccattcagatcctacccttg Alignment from Spaln_aa2Genome TCAGGCTTCGAGTCAGACATGAGTGAGATCATCCTGTGCGAGAATGAGGTGGACCTG-GCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG tggtttctggtggtaaactgagtctgtatcttattttgccttcactctagTCTGGCTTTGAGTCAGACATGAGTGAGGTTTTTCTGTGTGAGAATGAGGTGGACTTGcGCCCTGAAGAATTTGCAGACGTGGATGAAGGATGAACCTGTACCCACAAATTTAgtgaggcctgttggtgtactgtagctgcccccattcagatcctacccttg Alignment from Spaln_nt2Genome TCAGGCTTCGAGTCAGACATGAGTGAGATCATCCTGTGCGAGAATGAGGTGGACCTG-GCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG tggtttctggtggtaaactgagtctgtatcttattttgccttcactctagTCTGGCTTTGAGTCAGACATGAGTGAGGTTTTTCTGTGTGAGAATGAGGTGGACTTGCGCCCTGAAGAATTTGCAGACGTGGATGAAGGATGAACCTGTACCCACAAATTTAgtgaggcctgttggtgtactgtagctgcccccattcagatcctacccttg Alignment from Pairagon TCAGGCTTCGAGTCAGACATGAGTGAGATCATCCTGTGCGAGAATGAGGTGGACCTG-GCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG tggtttctggtggtaaactgagtctgtatcttattttgccttcactctagTCTGGCTTTGAGTCAGACATGAGTGAGGTTTTTCTGTGTGAGAATGAGGTGGACTTGCGCCCTGAAGAATTTGCAGACGTGGATGAAGGATGAACCTGTACCCACAAATTTAgtgaggcctgttggtgtactgtagctgcccccattcagatcctacccttg Alignment from Exonerate_protein2genome TCAGGCTTCGAGTCAGACATGAGTGAGATCATCCTGTGCGAGAATGAGGTGGACCTG-GCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG tggtttctggtggtaaactgagtctgtatcttattttgccttcactctagTCTGGCTTTGAGTCAGACATGAGTGAGGTTTTTCTGTGTGAGAATGAGGTGGACTTGCGCCCTGAAGAATTTGCAGACGTGGATGAAGGATGAACCTGTACCCACAAATTTAgtgaggcctgttggtgtactgtagctgcccccattcagatcctacccttg Alignment from Exonerate_coding2genome TCAGGCTTCGAGTCAGACATGAGTGAGATCATCCTGTGCGAGAATGAGGTGGACCTG-GCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG tggtttctggtggtaaactgagtctgtatcttattttgccttcactctagTCTGGCTTTGAGTCAGACATGAGTGAGGTTTTTCTGTGTGAGAATGAGGTGGACTTGCGCCCTGAAGAATTTGCAGACGTGGATGAAGGATGAACCTGTACCCACAAATTTAgtgaggcctgttggtgtactgtagctgcccccattcagatcctacccttg Alignment from GeneWise TCAGGCTTCGAGTCAGACATGAGTGAGATCATCCTGTGCGAGAATGAGGTGGACCTG-GCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG tggtttctggtggtaaactgagtctgtatcttattttgccttcactctagTCTGGCTTTGAGTCAGACATGAGTGAGGTTTTTCTGTGTGAGAATGAGGTGGACTTGCGCCCTGAAGAATTTGCAGACGTGGATGAAGGATGAACCTGTACCCACAAATTTAgtgaggcctgttggtgtactgtagctgcccccattcagatcctacccttg #### Aldh3b2_ID238_4 --> 0 - 1 Original Alignment CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTG---GTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATA-CCTTTAGTGGGGGCCATTGCTGCAg ttaagagtctactgttcaatttaccacattttcatttccttttctgaaagCTGACAAAGCTTAGCTCCGCTTTCATCCGAAAAGAGCCCTTTGGTCTAGTTCTTCTAATTATTGCACCTTGGAACTATCCTGTAAACTTGATGATCATCCCCTCAGGTGGGAGCCATTGCTGCAggtgagtgaaatattatggccacccatctagaagagtatgccctgagggta Alignment from CESAR CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTT---ATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTA-GTGGGGGCCATTGCTGCAg ttaagagtctactgttcaatttaccacattttcatttccttttctgaaagCTGACAAAGCTTAGCTCCGCTTTCATCCGAAAAGAGCCCTTTGGTCTAGTTCTTCTAATTATTGCACCTTGGAACTATCCTGTAAACTTGATGATCATCCCCTCAGGTGGGAGCCATTGCTGCAggtgagtgaaatattatggccacccatctagaagagtatgccctgagggta Alignment from Spaln_aa2Genome CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTG---CTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATA-CCTTTAGTGGGGGCCATTGCTGCAG ttaagagtctactgttcaatttaccacattttcatttccttttctgaaagCTGACAAAGCTTAGCTCCGCTTTCATCCGAAAAGAGCCCTTTGGTCTAGTTCTTCTAATTATTGCACCTTGGAACTATCCTGTAAACTTGATGATCATCcCCTCAGGTGGGAGCCATTGCTGCAGgtgagtgaaatattatggccacccatctagaagagtatgccctgagggta Alignment from Spaln_nt2Genome CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTT---ATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAG-TGGGGGCCATTGCTGCAG ttaagagtctactgttcaatttaccacattttcatttccttttctgaaagCTGACAAAGCTTAGCTCCGCTTTCATCCGAAAAGAGCCCTTTGGTCTAGTTCTTCTAATTATTGCACCTTGGAACTATCCTGTAAACTTGATGATCATCCCCTCAGGTGGGAGCCATTGCTGCAGgtgagtgaaatattatggccacccatctagaagagtatgccctgagggta Alignment from Pairagon CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTT---ATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTA-GTGGGGGCCATTGCTGCAG ttaagagtctactgttcaatttaccacattttcatttccttttctgaaagCTGACAAAGCTTAGCTCCGCTTTCATCCGAAAAGAGCCCTTTGGTCTAGTTCTTCTAATTATTGCACCTTGGAACTATCCTGTAAACTTGATGATCATCCCCTCAGGTGGGAGCCATTGCTGCAGgtgagtgaaatattatggccacccatctagaagagtatgccctgagggta Alignment from Exonerate_protein2genome CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTG---CTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATA-CCTTTAGTGGGGGCCATTGCTGCAG ttaagagtctactgttcaatttaccacattttcatttccttttctgaaagCTGACAAAGCTTAGCTCCGCTTTCATCCGAAAAGAGCCCTTTGGTCTAGTTCTTCTAATTATTGCACCTTGGAACTATCCTGTAAACTTGATGATCATCCCCTCAGGTGGGAGCCATTGCTGCAGgtgagtgaaatattatggccacccatctagaagagtatgccctgagggta Alignment from Exonerate_coding2genome CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTG---CTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGC---CATTGCTGCAG ttaagagtctactgttcaatttaccacattttcatttccttttctgaaagCTGACAAAGCTTAGCTCCGCTTTCATCCGAAAAGAGCCCTTTGGTCTAGTTCTTCTAATTATTGCACCTTGGAACTATCCTGTAAACTTGATGATCATCCCC--TCAGGTGGGAGCCATTGCTGCAGgtgagtgaaatattatggccacccatctagaagagtatgccctgagggta Alignment from GeneWise CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTT---ATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAG ttaagagtctactgttcaatttaccacattttcatttccttttctgaaagCTGACAAAGCTTAGCTCCGCTTTCATCCGAAAAGAGCCCTTTGGTCTAGTTCTTCTAATTATTGCACCTTGGAACTATCCTGTAAACTTGATGATCATCCCCTCAGgtgggagccattgctgcaggtgagtgaaatattatggccacccatctagaagagtatgccctgagggta #### Aldh3b2_ID239_5 --> 2 - 0 Original Alignment gaAACTGTGTGGTGCTGAAG-CCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG AGCTGCT agcatacaagccgtagctgtttttccacgtttttctttttaaacgtctaggaAATTGTGTGGTATTGAGGCCCATCTGATATTAGTAAGAACACGGAA---ATGCAGGCAGAGCTACTG---CGGCATCTCGATCAGgtagggctgattgtgcaagttcagactgtcatttgttttccagAGCTGTT Alignment from CESAR gaAACTGTGTGGTGCTGAAG-CCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG AGCTGCT agcatacaagccgtagctgtttttccacgtttttctttttaaacgtctaggaAATTGTGTGGTATTGAGGCCCATCTGATATTAGTAAGAACACGGAA---ATGCAGGCAGAGCTACTG---CGGCATCTCGATCAGgtagggctgattgtgcaagttctttttgtctctgcctctttagAGCTGTT Alignment from Spaln_aa2Genome GAAACTGTGTGGTGCTGAAG-CCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG AGCTGCT agcatacaagccgtagctgtttttccacgtttttctttttaaacgtctagGAAATTGTGTGGTATTGAGGcCCATCTGATATTAGTAAGAACACGGAA---ATGCAGGCAGAGCTACTG---CGGCATCTCGATCAGgtagggctgattgtgcaagttcagactgtcatttgttttccagAGCTGTT Alignment from Spaln_nt2Genome GAAACTGTGTGGTGCTGAAGCC-ATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG AGCTGCT agcatacaagccgtagctgtttttccacgtttttctttttaaacgtctagGAAATTGTGTGGTATTGAGGCCCATCTGATATTAGTAAGAACACGGAAA---TGCAGGCAGAGCTACTG---CGGCATCTCGATCAGgtagggctgattgtgcaagttcagactgtcatttgttttccagAGCTGTT Alignment from Pairagon GAAACTGTGTGGTGCTGAAG-CCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG AGCTGCT agcatacaagccgtagctgtttttccacgtttttctttttaaacgtctagGAAATTGTGTGGTATTGAGGCCCATCTGATATTAGTAAGAACACGGAAA---TGCAGGCAGAGCTACTG---CGGCATCTCGATCAGgtagggctgattgtgcaagttcagactgtcatttgttttccagAGCTGTT Alignment from Exonerate_protein2genome GAAACTGTGTGGTGCTGAAG-CCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG AGCTGCT agcatacaagccgtagctgtttttccacgtttttctttttaaacgtctagGAAATTGTGTGGTATTGAGGCCCATCTGATATTAGTAAGAACACGGAA---ATGCAGGCAGAGCTACTG---CGGCATCTCGATCAGgtagggctgattgtgcaagttcagactgtcatttgttttccagAGCTGTT Alignment from Exonerate_coding2genome AAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAGAGCTGCT agcatacaagccgtagctgtttttccacgtttttctttttaaacgtctaggaaattgtgtggtattgaggcccatctgatattagtaagaacacggaaatgcaggcagagctactgcggcatctcgatcaggtagGGCTGATTGTGCAAGTTCAGACTGTCATTTGTTTTCCAGAGCTGTT Alignment from GeneWise CTGCTGCCCCAGTATCTGGACCAGAGCTGCT agcatacaagccgtagctgtttttccacgtttttctttttaaacgtctaggaaattgtgtggtattgaggcccatctgatattagtaagaacacggaaatgcaggcagagctactgcggcatctcgatcaggtagggctgattgtgcaagTTCAGACTGTCATTTGTTTTCCAGAGCTGTT #### Aldh3b2_ID243_9 --> 0 - 1 Original Alignment GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTC-CTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTg cctgcaggcatctgccgggatgcctgtaccatactcggtctcaccttcagGTGGTGAATCAGATGTTGGAGCGTACAAGCAGTGGGGGTTTTGGAGGCAATGATGGCTTCCCTATACCTAACACTGCCTGCATTGCCTTTGGGAGGGGTTggtgagttcttacatcctattgccattgaagagagttaggttccaccttgg Alignment from CESAR GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTC-CTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTg cctgcaggcatctgccgggatgcctgtaccatactcggtctcaccttcagGTGGTGAATCAGATGTTGGAGCGTACAAGCAGTGGGGGTTTTGGAGGCAATGATGGCTTCCCTATACCTAACACTGCCTGCATTGCCTTTGGGAGGGGTTggtgagttcttacatcctattgccattgaagagagttaggttccaccttgg Alignment from Spaln_aa2Genome GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTC-CTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTG cctgcaggcatctgccgggatgcctgtaccatactcggtctcaccttcagGTGGTGAATCAGATGTTGGAGCGTACAAGCAGTGGGGGTTTTGGAGGCAATGATGGCTTCcCTATACCTAACACTGCCTGCATTGCCTTTGGGAGGGGTTGgtgagttcttacatcctattgccattgaagagagttaggttccaccttgg Alignment from Spaln_nt2Genome GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCC-TCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTG cctgcaggcatctgccgggatgcctgtaccatactcggtctcaccttcagGTGGTGAATCAGATGTTGGAGCGTACAAGCAGTGGGGGTTTTGGAGGCAATGATGGCTTCCCTATACCTAACACTGCCTGCATTGCCTTTGGGAGGGGTTGgtgagttcttacatcctattgccattgaagagagttaggttccaccttgg Alignment from Pairagon GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTT-CCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTG cctgcaggcatctgccgggatgcctgtaccatactcggtctcaccttcagGTGGTGAATCAGATGTTGGAGCGTACAAGCAGTGGGGGTTTTGGAGGCAATGATGGCTTCCCTATACCTAACACTGCCTGCATTGCCTTTGGGAGGGGTTGgtgagttcttacatcctattgccattgaagagagttaggttccaccttgg Alignment from Exonerate_protein2genome GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTC-CTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTG cctgcaggcatctgccgggatgcctgtaccatactcggtctcaccttcagGTGGTGAATCAGATGTTGGAGCGTACAAGCAGTGGGGGTTTTGGAGGCAATGATGGCTTCCCTATACCTAACACTGCCTGCATTGCCTTTGGGAGGGGTTGgtgagttcttacatcctattgccattgaagagagttaggttccaccttgg Alignment from Exonerate_coding2genome GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTC-CTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTG cctgcaggcatctgccgggatgcctgtaccatactcggtctcaccttcagGTGGTGAATCAGATGTTGGAGCGTACAAGCAGTGGGGGTTTTGGAGGCAATGATGGCTTCCCTATACCTAACACTGCCTGCATTGCCTTTGGGAGGGGTTGgtgagttcttacatcctattgccattgaagagagttaggttccaccttgg Alignment from GeneWise GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTC-CTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTG cctgcaggcatctgccgggatgcctgtaccatactcggtctcaccttcagGTGGTGAATCAGATGTTGGAGCGTACAAGCAGTGGGGGTTTTGGAGGCAATGATGGCTTCCCTATACCTAACACTGCCTGCATTGCCTTTGGGAGGGGTTGgtgagttcttacatcctattgccattgaagagagttaggttccaccttgg #### Ankrd13d_ID460_13 --> 2 - 0 Original Alignment gaAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAG-GATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG cccatctggctttctgtcaaacctttgtttccttttccttctacttgaagggGGCCTTTATCCTTGTGAGGTAGATTCCACGGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAACGACGATGAGCTTCTGCAGTTTGCTATCCAGCAAAGCCTCCTAGAGGCAGCAATACAGGCAGAGCAGgtaagcagtgatatagttagtatgaccttaatgcctcaggcccatgggga Alignment from CESAR gaAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAG-GATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG cccatctggctttctgtcaaacctttgtttccttttccttctacttgaagggGGCCTTTATCCTTGTGAGGTAGATTCCACGGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAACGACGATGAGCTTCTGCAGTTTGCTATCCAGCAAAGCCTCCTAGAGGCAGCAATACAGGCAGAGCAGgtaagcagtgatatagttagtatgaccttaatgcctcaggcccatgggga Alignment from Spaln_aa2Genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGAT-GAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG cccatctggctttctgtcaaacctttgtttccttttccttctacttgaagGGGGCCTTTATCCTTGTGAGGTAGATTCCACGGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATaAACGACGATGAGCTTCTGCAGTTTGCTATCCAGCAAAGCCTCCTAGAGGCAGCAATACAGGCAGAGCAGgtaagcagtgatatagttagtatgaccttaatgcctcaggcccatgggga Alignment from Spaln_nt2Genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAG-GATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG cccatctggctttctgtcaaacctttgtttccttttccttctacttgaagGGGGCCTTTATCCTTGTGAGGTAGATTCCACGGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAACGACGATGAGCTTCTGCAGTTTGCTATCCAGCAAAGCCTCCTAGAGGCAGCAATACAGGCAGAGCAGgtaagcagtgatatagttagtatgaccttaatgcctcaggcccatgggga Alignment from Pairagon GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAG-GATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG cccatctggctttctgtcaaacctttgtttccttttccttctacttgaagGGGGCCTTTATCCTTGTGAGGTAGATTCCACGGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAACGACGATGAGCTTCTGCAGTTTGCTATCCAGCAAAGCCTCCTAGAGGCAGCAATACAGGCAGAGCAGgtaagcagtgatatagttagtatgaccttaatgcctcaggcccatgggga Alignment from Exonerate_protein2genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAG-GATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG cccatctggctttctgtcaaacctttgtttccttttccttctacttgaagGGGGCCTTTATCCTTGTGAGGTAGATTCCACGGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAACGACGATGAGCTTCTGCAGTTTGCTATCCAGCAAAGCCTCCTAGAGGCAGCAATACAGGCAGAGCAGgtaagcagtgatatagttagtatgaccttaatgcctcaggcccatgggga Alignment from Exonerate_coding2genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAG-GATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG cccatctggctttctgtcaaacctttgtttccttttccttctacttgaagGGGGCCTTTATCCTTGTGAGGTAGATTCCACGGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAACGACGATGAGCTTCTGCAGTTTGCTATCCAGCAAAGCCTCCTAGAGGCAGCAATACAGGCAGAGCAGgtaagcagtgatatagttagtatgaccttaatgcctcaggcccatgggga Alignment from GeneWise GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGAT-GAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAGGTGACG-------------------------------------------- cccatctggctttctgtcaaacctttgtttccttttccttctacttgaagGGGGCCTTTATCCTTGTGAGGTAGATTCCACGGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAACGACGATGAGCTTCTGCAGTTTGCTATCCAGCAAAGCCTCCTAGAGGCAGCAATACAGGCAGAGCAGGTAAGCAGTGATATAGTTAGTATGACCTTAATGCCTCAGGCCCATGGGGA #### Ankrd13d_ID461_12 --> 2 - 1 Original Alignment agATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAG-CCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAg gtacaaaattacatgttactgggtacttaggtttttattcccttccttagaaATTGCCCTCTTCCATGTGCACAATGCCCGCACCACCTTTAGTAACCTATGCGGCTGTGATGAACCCTGTG---TCAGTGTGTGTCCCCAACTCCAGTCTGGCAATTTCTGCTTCAggtgattctatagccatatcagatattcccatctggctttctgtcaaacct Alignment from CESAR agATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAG-CCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAg gtacaaaattacatgttactgggtacttaggtttttattcccttccttagaaATTGCCCTCTTCCATGTGCACAATGCCCGCACCACCTTTAGTAACCTATGCGGCTGTGATGAACCCTGTG---TCAGTGTGTGTCCCCAACTCCAGTCTGGCAATTTCTGCTTCAggtgattctatagccatatcagatattcccatctggctttctgtcaaacct Alignment from Spaln_aa2Genome AGATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAG gtacaaaattacatgttactgggtacttaggtttttattcccttccttagAAATTGCCCTCTTCCATGTGCACAATGCCCGCACCACCTTTAGTAACCTATGCGGCTGTGATGAACCCT--GTGTCAGTGTGTGTCCCCAACTCCAGTCTGGCAATTTCTGCTTCAGgtgattctatagccatatcagatattcccatctggctttctgtcaaacct Alignment from Spaln_nt2Genome AGATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCC-TGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAG gtacaaaattacatgttactgggtacttaggtttttattcccttccttagAAATTGCCCTCTTCCATGTGCACAATGCCCGCACCACCTTTAGTAACCTATGCGGCTGTGATGAACCCTGTG---TCAGTGTGTGTCCCCAACTCCAGTCTGGCAATTTCTGCTTCAGgtgattctatagccatatcagatattcccatctggctttctgtcaaacct Alignment from Pairagon AGATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAG-CCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAG gtacaaaattacatgttactgggtacttaggtttttattcccttccttagAAATTGCCCTCTTCCATGTGCACAATGCCCGCACCACCTTTAGTAACCTATGCGGCTGTGATGAACCCTGTG---TCAGTGTGTGTCCCCAACTCCAGTCTGGCAATTTCTGCTTCAGgtgattctatagccatatcagatattcccatctggctttctgtcaaacct Alignment from Exonerate_protein2genome ATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAG-CCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAG gtacaaaattacatgttactgggtacttaggtttttattcccttccttagaaATTGCCCTCTTCCATGTGCACAATGCCCGCACCACCTTTAGTAACCTATGCGGCTGTGATGAACCCTGTG---TCAGTGTGTGTCCCCAACTCCAGTCTGGCAATTTCTGCTTCAGgtgattctatagccatatcagatattcccatctggctttctgtcaaacct Alignment from Exonerate_coding2genome ATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAG-CCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAG gtacaaaattacatgttactgggtacttaggtttttattcccttccttagaaATTGCCCTCTTCCATGTGCACAATGCCCGCACCACCTTTAGTAACCTATGCGGCTGTGATGAACCCTGTG---TCAGTGTGTGTCCCCAACTCCAGTCTGGCAATTTCTGCTTCAGgtgattctatagccatatcagatattcccatctggctttctgtcaaacct Alignment from GeneWise -------------------------------------------------GAGATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAG GTACAAAATTACATGTTACTGGGTACTTAGGTTTTTATTCCCTTCCTTAGAAATTGCCCTCTTCCATGTGCACAATGCCCGCACCACCTTTAGTAACCTATGCGGCTGTGATGAACCCTGTG--TCAGTGTGTGTCCCCAACTCCAGTCTGGCAATTTCTGCTTCAGgtgattctatagccatatcagatattcccatctggctttctgtcaaacct #### Ankrd13d_ID464_9 --> 2 - 0 Original Alignment ggGGGAAGACTCCATTC-CAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG accggcctacttacacataaatgggtcttaatctttcaaatcgtttctaggaGGAAAGACTCCATTCCCAATCCTTCTTGGGTATGGCCCAGCAACATTCGCCCCACACATTGgtaagattgagtaagctacagaccgggaaggctgggcaagtggggttgag Alignment from CESAR ggGGGAAGACTCCATTC-CAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG accggcctacttacacataaatgggtcttaatctttcaaatcgtttctaggaGGAAAGACTCCATTCCCAATCCTTCTTGGGTATGGCCCAGCAACATTCGCCCCACACATTGgtaagattgagtaagctacagaccgggaaggctgggcaagtggggttgag Alignment from Spaln_aa2Genome GGGGGAAGACTCCATTC-CAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG accggcctacttacacataaatgggtcttaatctttcaaatcgtttctagGAGGAAAGACTCCATTCcCAATCCTTCTTGGGTATGGCCCAGCAACATTCGCCCCACACATTGgtaagattgagtaagctacagaccgggaaggctgggcaagtggggttgag Alignment from Spaln_nt2Genome GGGGGAAGACTCCATTCC-AGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG accggcctacttacacataaatgggtcttaatctttcaaatcgtttctagGAGGAAAGACTCCATTCCCAATCCTTCTTGGGTATGGCCCAGCAACATTCGCCCCACACATTGgtaagattgagtaagctacagaccgggaaggctgggcaagtggggttgag Alignment from Pairagon GGGGGAAGACTCCATT-CCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG accggcctacttacacataaatgggtcttaatctttcaaatcgtttctagGAGGAAAGACTCCATTCCCAATCCTTCTTGGGTATGGCCCAGCAACATTCGCCCCACACATTGgtaagattgagtaagctacagaccgggaaggctgggcaagtggggttgag Alignment from Exonerate_protein2genome GGGGGAAGACTCCATTC-CAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG accggcctacttacacataaatgggtcttaatctttcaaatcgtttctagGAGGAAAGACTCCATTCCCAATCCTTCTTGGGTATGGCCCAGCAACATTCGCCCCACACATTGgtaagattgagtaagctacagaccgggaaggctgggcaagtggggttgag Alignment from Exonerate_coding2genome accggcctacttacacataaatgggtcttaatctttcaaatcgtttctaggaggaaagactccattcccaatccttcttgggtatggcccagcaacattcgccccacacattggtaagattgagtaagctacagaccgggaaggctgggcaagtggggttgag Alignment from GeneWise GACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG accggcctacttacacataaatgggtcttaatctttcaaatcgtttctaggaggaaagACTCCATTCCCAATCCTTCTTGGGTATGGCCCAGCAACATTCGCCCCACACATTGgtaagattgagtaagctacagaccgggaaggctgggcaagtggggttgag #### Ankrd13d_ID471_2 --> 0 - 1 Original Alignment CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACC-CCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAg ggatgggtacttttatctaacaaaccattcagtcctgtgctgtcctgcagCATGACATTGAGCAAGAGGACCCACAAGGGCAGACCCCCTTTAGAGCTTGCTGTGACTTTGGGGAATTTAGAGTCCGTACGAGTCCTCCTCAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTggtgaggtagtgctccattacccgtgaagggtggctataggtctgatatta Alignment from CESAR CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCC-CTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAg ggatgggtacttttatctaacaaaccattcagtcctgtgctgtcctgcagCATGACATTGAGCAAGAGGACCCACAAGGGCAGACCCCCTTTAGAGCTTGCTGTGACTTTGGGGAATTTAGAGTCCGTACGAGTCCTCCTCAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTggtgaggtagtgctccattacccgtgaagggtggctataggtctgatatta Alignment from Spaln_aa2Genome CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACC-CCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG ggatgggtacttttatctaacaaaccattcagtcctgtgctgtcctgcagCATGACATTGAGCAAGAGGACCCACAAGGGCAGACCcCCTTTAGAGCTTGCTGTGACTTTGGGGAATTTAGAGTCCGTACGAGTCCTCCTCAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtgaggtagtgctccattacccgtgaagggtggctataggtctgatatta Alignment from Spaln_nt2Genome CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTG-GAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG ggatgggtacttttatctaacaaaccattcagtcctgtgctgtcctgcagCATGACATTGAGCAAGAGGACCCACAAGGGCAGACCCCCTTTAGAGCTTGCTGTGACTTTGGGGAATTTAGAGTCCGTACGAGTCCTCCTCAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtgaggtagtgctccattacccgtgaagggtggctataggtctgatatta Alignment from Pairagon CACGACATTGAGCAGGAGGACCCCCAAGGGC-GAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG ggatgggtacttttatctaacaaaccattcagtcctgtgctgtcctgcagCATGACATTGAGCAAGAGGACCCACAAGGGCAGACCCCCTTTAGAGCTTGCTGTGACTTTGGGGAATTTAGAGTCCGTACGAGTCCTCCTCAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtgaggtagtgctccattacccgtgaagggtggctataggtctgatatta Alignment from Exonerate_protein2genome CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACC-CCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG ggatgggtacttttatctaacaaaccattcagtcctgtgctgtcctgcagCATGACATTGAGCAAGAGGACCCACAAGGGCAGACCCCCTTTAGAGCTTGCTGTGACTTTGGGGAATTTAGAGTCCGTACGAGTCCTCCTCAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtgaggtagtgctccattacccgtgaagggtggctataggtctgatatta Alignment from Exonerate_coding2genome AAGCACGACATTGAGCAGGAGGACCCCCAAGGGCGAACC-CCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG ggatgggtacttttatctaacaaaccattcagtcctgtgctgtcctgCAGCATGACATTGAGCAAGAGGACCCACAAGGGCAGACCCCCTTTAGAGCTTGCTGTGACTTTGGGGAATTTAGAGTCCGTACGAGTCCTCCTCAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtgaggtagtgctccattacccgtgaagggtggctataggtctgatatta Alignment from GeneWise CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCC-CTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG ggatgggtacttttatctaacaaaccattcagtcctgtgctgtcctgcagCATGACATTGAGCAAGAGGACCCACAAGGGCAGACCCCCTTTAGAGCTTGCTGTGACTTTGGGGAATTTAGAGTCCGTACGAGTCCTCCTCAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtgaggtagtgctccattacccgtgaagggtggctataggtctgatatta #### Ankrd1_ID7096_7 --> 0 - 0 Original Alignment CTTCTCAGCACAGCG-CTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAG---GACAGA gatatgtatggtgattggcctccacccacttaagtatcggtgtaccccagTTGCTCAGCTCAACACTTACATGTGGCAGTCAGGACTGACCATTATGAGTGCACTGAGCATCTCTTCACTAGCAAAACTGATCTCAATGCAAGGGACAATAGAgtaagaatgagtgtaacctgacttgaattaagcctacagatgacaacatt Alignment from CESAR CTTCTCAGCACAGCGCTG-CATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAGGAC---AGA gatatgtatggtgattggcctccacccacttaagtatcggtgtaccccagTTGCTCAGCTCAACACTTACATGTGGCAGTCAGGACTGACCATTATGAGTGCACTGAGCATCTCTTCACTAGCAAAACTGATCTCAATGCAAGGGACAATAGAgtaagaatgagtgtaacctgacttgaattaagcctacagatgacaacatt Alignment from Spaln_aa2Genome GCACAGCGCTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAGGAC---AGA gatatgtatggtgattggcctccacccacttaagtatcggtgtaccccagttgctcagCTCAACACTTACATGTGGCAGTCAGGACTGACCATTATGAGTGCACTGAGCATCTCTTCACTAGCAAAACTGATCTCAATGCAAGGGACAATAGAgtaagaatgagtgtaacctgacttgaattaagcctacagatgacaacatt Alignment from Spaln_nt2Genome CTTCTCAGCACAGCGCTG-CATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAGGACA---GA gatatgtatggtgattggcctccacccacttaagtatcggtgtaccccagTTGCTCAGCTCAACACTTACATGTGGCAGTCAGGACTGACCATTATGAGTGCACTGAGCATCTCTTCACTAGCAAAACTGATCTCAATGCAAGGGACAATAGAgtaagaatgagtgtaacctgacttgaattaagcctacagatgacaacatt Alignment from Pairagon CTTCTCAGCACAGCGC-TGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAGGAC---AGA gatatgtatggtgattggcctccacccacttaagtatcggtgtaccccagTTGCTCAGCTCAACACTTACATGTGGCAGTCAGGACTGACCATTATGAGTGCACTGAGCATCTCTTCACTAGCAAAACTGATCTCAATGCAAGGGACAATAGAgtaagaatgagtgtaacctgacttgaattaagcctacagatgacaacatt Alignment from Exonerate_protein2genome CTTCTCAGCACAGCG-CTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAGGAC---AGA gatatgtatggtgattggcctccacccacttaagtatcggtgtaccccagTTGCTCAGCTCAACACTTACATGTGGCAGTCAGGACTGACCATTATGAGTGCACTGAGCATCTCTTCACTAGCAAAACTGATCTCAATGCAAGGGACAATAGAgtaagaatgagtgtaacctgacttgaattaagcctacagatgacaacatt Alignment from Exonerate_coding2genome CTTCTCAGCACAGCG-CTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAGGAC---AGA gatatgtatggtgattggcctccacccacttaagtatcggtgtaccccagTTGCTCAGCTCAACACTTACATGTGGCAGTCAGGACTGACCATTATGAGTGCACTGAGCATCTCTTCACTAGCAAAACTGATCTCAATGCAAGGGACAATAGAgtaagaatgagtgtaacctgacttgaattaagcctacagatgacaacatt Alignment from GeneWise --ACAGCGCTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAGGACAGAGAA gatatgtatggtgattggcctccacccacttaagtatcggtgtaccccagttgctcagCTCAACACTTACATGTGGCAGTCAGGACTGACCATTATGAGTGCACTGAGCATCTCTTCACTAGCAAAACTGATCTCAATGCAAGGGACAATAGAgtaagaatgagtgtaacctgacttgaattaagcctacagatgacaacatt #### Ankrd1_ID7101_4 --> 0 - 0 Original Alignment ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAACTGCCAGTT-GTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gatggaaggataggagacaatcagtacccatttgtcctcttttattacagAGTGAGCCTGTTGATGTACCCAGGTTTCTAAAAGCTGCACTGGAGAACAAACTTCCAGTTCGTAGAAAAGTTCCTCTCAGACAAGAACAGTCCTGACGTCTGTGATGAAgtgagcagtagttctgtgcccttccattttctgccctgccatttgcctgg Alignment from CESAR ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAACTGCCAGTT-GTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gatggaaggataggagacaatcagtacccatttgtcctcttttattacagAGTGAGCCTGTTGATGTACCCAGGTTTCTAAAAGCTGCACTGGAGAACAAACTTCCAGTTCGTAGAAAAGTTCCTCTCAGACAAGAACAGTCCTGACGTCTGTGATGAAgtgagcagtagttctgtgcccttccattttctgccctgccatttgcctgg Alignment from Spaln_aa2Genome ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAACTGCCAGTT-GTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gatggaaggataggagacaatcagtacccatttgtcctcttttattacagAGTGAGCCTGTTGATGTACCCAGGTTTCTAAAAGCTGCACTGGAGAACAAACTTCCAGTTcGTAGAAAAGTTCCTCTCAGACAAGAACAGTCCTGACGTCTGTGATGAAgtgagcagtagttctgtgcccttccattttctgccctgccatttgcctgg Alignment from Spaln_nt2Genome ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAACTGCCAGTT-GTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gatggaaggataggagacaatcagtacccatttgtcctcttttattacagAGTGAGCCTGTTGATGTACCCAGGTTTCTAAAAGCTGCACTGGAGAACAAACTTCCAGTTCGTAGAAAAGTTCCTCTCAGACAAGAACAGTCCTGACGTCTGTGATGAAgtgagcagtagttctgtgcccttccattttctgccctgccatttgcctgg Alignment from Pairagon ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAACTGCCAGTT-GTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gatggaaggataggagacaatcagtacccatttgtcctcttttattacagAGTGAGCCTGTTGATGTACCCAGGTTTCTAAAAGCTGCACTGGAGAACAAACTTCCAGTTCGTAGAAAAGTTCCTCTCAGACAAGAACAGTCCTGACGTCTGTGATGAAgtgagcagtagttctgtgcccttccattttctgccctgccatttgcctgg Alignment from Exonerate_protein2genome ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAACTGCCAGTT-GTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gatggaaggataggagacaatcagtacccatttgtcctcttttattacagAGTGAGCCTGTTGATGTACCCAGGTTTCTAAAAGCTGCACTGGAGAACAAACTTCCAGTTCGTAGAAAAGTTCCTCTCAGACAAGAACAGTCCTGACGTCTGTGATGAAgtgagcagtagttctgtgcccttccattttctgccctgccatttgcctgg Alignment from Exonerate_coding2genome ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAACTGCCAGTT-GTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gatggaaggataggagacaatcagtacccatttgtcctcttttattacagAGTGAGCCTGTTGATGTACCCAGGTTTCTAAAAGCTGCACTGGAGAACAAACTTCCAGTTCGTAGAAAAGTTCCTCTCAGACAAGAACAGTCCTGACGTCTGTGATGAAgtgagcagtagttctgtgcccttccattttctgccctgccatttgcctgg Alignment from GeneWise ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAACTGCCAGTT-GTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gatggaaggataggagacaatcagtacccatttgtcctcttttattacagAGTGAGCCTGTTGATGTACCCAGGTTTCTAAAAGCTGCACTGGAGAACAAACTTCCAGTTCGTAGAAAAGTTCCTCTCAGACAAGAACAGTCCTGACGTCTGTGATGAAgtgagcagtagttctgtgcccttccattttctgccctgccatttgcctgg #### Arl2_ID1477_2 --> 1 - 2 Original Alignment tGGCTTGGACAACGCTGGCAAAACAACCATCCTCAAGAAGTTCAATGGA-GAAGACGTGGACACCATCTCCCCGACACTGGGCTTCAACATCAAGACCCTGGAGCACCGCgg gtggtaatgccatagatcttagagacctcccttttccttttaattctcagtGGTTTAGATAAGGCTACCAAAACAACCATTCTCAAAAAGTTTAATGGACGAGGATGTGGAAACCATCTCTTTGACACTAGGGATCAACATTAAA---CTGGAGCACCGTgggtgggtagggcactgactctgaggtcatggtcatggtgagatcatgctct Alignment from CESAR tGGCTTGGACAACGCTGGCAAAACAACCATCCTCAAGAAGTTCAATGGA-GAAGACGTGGACACCATCTCCCCGACACTGGGCTTCAACATCAAGACCCTGGAGCACCGCgg gtggtaatgccatagatcttagagacctcccttttccttttaattctcagtGGTTTAGATAAGGCTACCAAAACAACCATTCTCAAAAAGTTTAATGGACGAGGATGTGGAAACCATCTCTTTGACACTAGGGATCAACATTAAA---CTGGAGCACCGTgggtgggtagggcactgactctgaggtcatggtcatggtgagatccttgctc Alignment from Spaln_aa2Genome TGGCTTGGACAACGCTGGCAAAACAACCATCCTCAAGAAGTTCAATGGA-GAAGACGTGGACACCATCTCCCCGACACTGGGCTTCAACATCAAGACCCTGGAGCACCGCGG gtggtaatgccatagatcttagagacctcccttttccttttaattctcagTGGTTTAGATAAGGCTACCAAAACAACCATTCTCAAAAAGTTTAATGGAcGAGGATGTGGAAACCATCTCTTTGACACTAGGGATCAACATTAAA---CTGGAGCACCGTGGgtgggtagggcactgactctgaggtcatggtcatggtgagatcatgctct Alignment from Spaln_nt2Genome TGGCTTGGACAACGCTGGCAAAACAACCATCCTCAAGAAGTTCAATGGA-GAAGACGTGGACACCATCTCCCCGACACTGGGCTTCAACATCAAGACCCTGGAGCACCGCGG gtggtaatgccatagatcttagagacctcccttttccttttaattctcagTGGTTTAGATAAGGCTACCAAAACAACCATTCTCAAAAAGTTTAATGGACGAGGATGTGGAAACCATCTCTTTGACACTAGGGATCAACATTAA---ACTGGAGCACCGTGGgtgggtagggcactgactctgaggtcatggtcatggtgagatcatgctct Alignment from Pairagon TGGCTTGGACAACGCTGGCAAAACAACCATCCTCAAGAAGTTCAATGGA-GAAGACGTGGACACCATCTCCCCGACACTGGGCTTCAACATCAAGACCCTGGAGCACCGCGG gtggtaatgccatagatcttagagacctcccttttccttttaattctcagTGGTTTAGATAAGGCTACCAAAACAACCATTCTCAAAAAGTTTAATGGACGAGGATGTGGAAACCATCTCTTTGACACTAGGGATCAACATTAAA---CTGGAGCACCGTGGgtgggtagggcactgactctgaggtcatggtcatggtgagatcatgctct Alignment from Exonerate_protein2genome TGGCTTGGACAACGCTGGCAAAACAACCATCCTCAAGAAGTTCAATGGA-GAAGACGTGGACACCATCTCCCCGACACTGGGCTTCAACATCAAGACCCTGGAGCACCGCGG gtggtaatgccatagatcttagagacctcccttttccttttaattctcagTGGTTTAGATAAGGCTACCAAAACAACCATTCTCAAAAAGTTTAATGGACGAGGATGTGGAAACCATCTCTTTGACACTAGGGATCAACATTAAA---CTGGAGCACCGTGGgtgggtagggcactgactctgaggtcatggtcatggtgagatcatgctct Alignment from Exonerate_coding2genome TGGCTTGGACAACGCTGGCAAAACAACCATCCTCAAGAAGTTCAATGGA-GAAGACGTGGACACCATCTCCCCGACACTGGGCTTCAACATCAAGACCCTGGAGCACCGCGG gtggtaatgccatagatcttagagacctcccttttccttttaattctcagTGGTTTAGATAAGGCTACCAAAACAACCATTCTCAAAAAGTTTAATGGACGAGGATGTGGAAACCATCTCTTTGACACTAGGGATCAACATTAAA---CTGGAGCACCGTGGgtgggtagggcactgactctgaggtcatggtcatggtgagatcatgctct Alignment from GeneWise TGGCTTGGACAACGCTGGCAAAACAACCATCCTCAAGAAGTTCAATGGA-GAAGACGTGGACACCATCTCCCCGACACTGGGCTTCAACATCAAGACCCTGGAGCACCGCGG gtggtaatgccatagatcttagagacctcccttttccttttaattctcagTGGTTTAGATAAGGCTACCAAAACAACCATTCTCAAAAAGTTTAATGGACGAGGATGTGGAAACCATCTCTTTGACACTAGGGATCAACATTAAA---CTGGAGCACCGTGGgtgggtagggcactgactctgaggtcatggtcatggtgagatcatgctct #### B3gat3_ID2492_4 --> 0 - 0 Original Alignment ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCC-CAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG ttagtctcttcagactaaccttctctattcccttgcccctcccccaacagATGCGCTGGACTCGTGGTGTCTCCGTGTGGCCTGTTGGCCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATCGCCCTGCCCTTGCTATTAGCTAAACCCAATGCCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGTCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgtttggggtcagttagcagatcagaggaaatgggggactgtgggctaagc Alignment from CESAR ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCC-CAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG ttagtctcttcagactaaccttctctattcccttgcccctcccccaacagATGCGCTGGACTCGTGGTGTCTCCGTGTGGCCTGTTGGCCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATCGCCCTGCCCTTGCTATTAGCTAAACCCAATGCCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGTCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgtttggggtcagttagcagatcagaggaaatgggggactgtgggctaagc Alignment from Spaln_aa2Genome ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCC-CAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG ttagtctcttcagactaaccttctctattcccttgcccctcccccaacagATGCGCTGGACTCGTGGTGTCTCCGTGTGGCCTGTTGGCCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATCGCCCTGCCCTTGCTATTAGCTAAACCCAATGCCcCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGTCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgtttggggtcagttagcagatcagaggaaatgggggactgtgggctaagc Alignment from Spaln_nt2Genome ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATG-CCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG ttagtctcttcagactaaccttctctattcccttgcccctcccccaacagATGCGCTGGACTCGTGGTGTCTCCGTGTGGCCTGTTGGCCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATCGCCCTGCCCTTGCTATTAGCTAAACCCAATGCCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGTCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgtttggggtcagttagcagatcagaggaaatgggggactgtgggctaagc Alignment from Pairagon ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATG-CCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG ttagtctcttcagactaaccttctctattcccttgcccctcccccaacagATGCGCTGGACTCGTGGTGTCTCCGTGTGGCCTGTTGGCCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATCGCCCTGCCCTTGCTATTAGCTAAACCCAATGCCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGTCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgtttggggtcagttagcagatcagaggaaatgggggactgtgggctaagc Alignment from Exonerate_protein2genome ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCC-CAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG ttagtctcttcagactaaccttctctattcccttgcccctcccccaacagATGCGCTGGACTCGTGGTGTCTCCGTGTGGCCTGTTGGCCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATCGCCCTGCCCTTGCTATTAGCTAAACCCAATGCCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGTCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgtttggggtcagttagcagatcagaggaaatgggggactgtgggctaagc Alignment from Exonerate_coding2genome ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCC-CAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG ttagtctcttcagactaaccttctctattcccttgcccctcccccaacagATGCGCTGGACTCGTGGTGTCTCCGTGTGGCCTGTTGGCCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATCGCCCTGCCCTTGCTATTAGCTAAACCCAATGCCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGTCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgtttggggtcagttagcagatcagaggaaatgggggactgtgggctaagc Alignment from GeneWise ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCC-CAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG ttagtctcttcagactaaccttctctattcccttgcccctcccccaacagATGCGCTGGACTCGTGGTGTCTCCGTGTGGCCTGTTGGCCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATCGCCCTGCCCTTGCTATTAGCTAAACCCAATGCCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGTCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgtttggggtcagttagcagatcagaggaaatgggggactgtgggctaagc #### Bbs1_ID728_6 --> 1 - 2 Original Alignment gGAAAAGGCAGACGTGCCT-TTGTCTGTGCAGTCACTCag atggtggccctcttcctgttgttccttgtccctctctcctcaccctgcaggGAAAAGGCAGATTTACCCCTTATCTGTTCAGTCACTTaggtgagcatttattgcaaagagggtgggtcagtgtcatgtagagctaactg Alignment from CESAR gGAAAAGGCAGACGTG-CCTTTGTCTGTGCAGTCACTCag atggtggccctcttcctgttgttccttgtccctctctcctcaccctgcaggGAAAAGGCAGATTTACCCCTTATCTGTTCAGTCACTTaggtgagcatttattgcaaagagggtgggtcagtgtcatgtagagctaactg Alignment from Spaln_aa2Genome GGAAAAGGCAGACGTGCCT-TTGTCTGTGCAGTCACTCAG atggtggccctcttcctgttgttccttgtccctctctcctcaccctgcagGGAAAAGGCAGATTTACCCcTTATCTGTTCAGTCACTTAGgtgagcatttattgcaaagagggtgggtcagtgtcatgtagagctaactg Alignment from Spaln_nt2Genome GGAAAAGGCAGACGTGCCT-TTGTCTGTGCAGTCACTCAG atggtggccctcttcctgttgttccttgtccctctctcctcaccctgcagGGAAAAGGCAGATTTACCCCTTATCTGTTCAGTCACTTAGgtgagcatttattgcaaagagggtgggtcagtgtcatgtagagctaactg Alignment from Pairagon GGAAAAGGCAGACGTG-CCTTTGTCTGTGCAGTCACTCAG atggtggccctcttcctgttgttccttgtccctctctcctcaccctgcagGGAAAAGGCAGATTTACCCCTTATCTGTTCAGTCACTTAGgtgagcatttattgcaaagagggtgggtcagtgtcatgtagagctaactg Alignment from Exonerate_protein2genome GGAAAAGGCAGACGTG-CCTTTGTCTGTGCAGTCACTCAG atggtggccctcttcctgttgttccttgtccctctctcctcaccctgcagGGAAAAGGCAGATTTACCCCTTATCTGTTCAGTCACTTAGgtgagcatttattgcaaagagggtgggtcagtgtcatgtagagctaactg Alignment from Exonerate_coding2genome atggtggccctcttcctgttgttccttgtccctctctcctcaccctgcagggaaaaggcagatttaccccttatctgttcagtcacttaggtgagcatttattgcaaagagggtgggtcagtgtcatgtagagctaactg Alignment from GeneWise atggtggccctcttcctgttgttccttgtccctctctcctcaccctgcagggaaaaggcagatttaccccttatctgttcagtcacttaggtgagcatttattgcaaagagggtgggtcagtgtcatgtagagctaactg #### Bbs1_ID729_5 --> 0 - 2 Original Alignment GACCAGATTGACCCCTTA-ACCCTGAAGGAGATGCTGGAGGACATCag actactactggctgtgatccctaccacaccaggacccctctgcttcacagGATCAT---GACCCATTGCACCTTGAAAGATATGCTGGAACATATCaggtgagtgttcaattttccttcatggtggccctcttcctgttgttccttgt Alignment from CESAR GACCAGATTGACCCCTTA-ACCCTGAAGGAGATGCTGGAGGACATCag actactactggctgtgatccctaccacaccaggacccctctgcttcacagGATCAT---GACCCATTGCACCTTGAAAGATATGCTGGAACATATCaggtgagtgttcaattttccttcatggtggccctcttcctgttgttccttgt Alignment from Spaln_aa2Genome GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCAG actactactggctgtgatccctaccacaccaggacccctctgcttcacAGGATCATGACCCATTGCACCTTGAAAGATATGCTGGAACATATCAGgtgagtgttcaattttccttcatggtggccctcttcctgttgttccttgt Alignment from Spaln_nt2Genome GACCAGATTGACCCCTTA-ACCCTGAAGGAGATGCTGGAGGACATCAG actactactggctgtgatccctaccacaccaggacccctctgcttcacagGATCA---TGACCCATTGCACCTTGAAAGATATGCTGGAACATATCAGgtgagtgttcaattttccttcatggtggccctcttcctgttgttccttgt Alignment from Pairagon GACCAGATTGACCCCTTA-ACCCTGAAGGAGATGCTGGAGGACATCAG actactactggctgtgatccctaccacaccaggacccctctgcttcacagGATCA---TGACCCATTGCACCTTGAAAGATATGCTGGAACATATCAGgtgagtgttcaattttccttcatggtggccctcttcctgttgttccttgt Alignment from Exonerate_protein2genome GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCAG actactactggctgtgatccctaccacaccaggacccctctgcttcacAGGATCATGACCCATTGCACCTTGAAAGATATGCTGGAACATATCAGgtgagtgttcaattttccttcatggtggccctcttcctgttgttccttgt Alignment from Exonerate_coding2genome GACCAGATTGACCCCTTAACCCTGAA actactactggctgtgatccctaccacaccaggacccctctgcttcacaggatcatgacccattgcaccttgaaagatatgctggaacatatcaggtgagtgttcaattttccttcatgGTGGCCCTCTTCCTGTTGTTCCTTGT Alignment from GeneWise ------------------------GACCAGATTGACCCCTTAACCCTGAA actactactggctgtgatccctaccacaccaggacccctctgcttcacaggatcatgacccattgcaccttgaaagatatgctggaacatatcagGTGAGTGTTCAATTTTCCTTCATGGTGGCCCTCTTCCTGTTGTTCCTTGT #### Best1_ID2637_2 --> 1 - 1 Original Alignment aATGGTTCTCTCGAGTGAT-CAGCAGCTGTTGTTTGAGAAGCTGGCTCTGTACTGCGACAGCTACATTCAGCTCATCCCTATATCCTTCGTTCTGg tcacagtgcgagtaaaagcttagagaattttcctttcccctttatttcagaATGATTCTCTCAAGTGACCCAGCAGCTTTTGTTCAAGAAGTTGGCTCTGTACTGTGCTAGCTACATTGAGCTCATCCCAATAGCATTTGTCCTAggtgagtgcttgttgtagctctagtcctatctctacctggcttccatacat Alignment from CESAR aATGGTTCTCTCGAGTGAT-CAGCAGCTGTTGTTTGAGAAGCTGGCTCTGTACTGCGACAGCTACATTCAGCTCATCCCTATATCCTTCGTTCTGg tcacagtgcgagtaaaagcttagagaattttcctttcccctttatttcagaATGATTCTCTCAAGTGACCCAGCAGCTTTTGTTCAAGAAGTTGGCTCTGTACTGTGCTAGCTACATTGAGCTCATCCCAATAGCATTTGTCCTAggtgagtgcttgttgtagctctagtcctatctctacctggcttccatacat Alignment from Spaln_aa2Genome AATGGTTCTCTCGAGTGAT-CAGCAGCTGTTGTTTGAGAAGCTGGCTCTGTACTGCGACAGCTACATTCAGCTCATCCCTATATCCTTCGTTCTGG tcacagtgcgagtaaaagcttagagaattttcctttcccctttatttcagAATGATTCTCTCAAGTGACcCAGCAGCTTTTGTTCAAGAAGTTGGCTCTGTACTGTGCTAGCTACATTGAGCTCATCCCAATAGCATTTGTCCTAGgtgagtgcttgttgtagctctagtcctatctctacctggcttccatacat Alignment from Spaln_nt2Genome AATGGTTCTCTCGAGTGATC-AGCAGCTGTTGTTTGAGAAGCTGGCTCTGTACTGCGACAGCTACATTCAGCTCATCCCTATATCCTTCGTTCTGG tcacagtgcgagtaaaagcttagagaattttcctttcccctttatttcagAATGATTCTCTCAAGTGACCCAGCAGCTTTTGTTCAAGAAGTTGGCTCTGTACTGTGCTAGCTACATTGAGCTCATCCCAATAGCATTTGTCCTAGgtgagtgcttgttgtagctctagtcctatctctacctggcttccatacat Alignment from Pairagon AATGGTTCTCTCGAGTGA-TCAGCAGCTGTTGTTTGAGAAGCTGGCTCTGTACTGCGACAGCTACATTCAGCTCATCCCTATATCCTTCGTTCTGG tcacagtgcgagtaaaagcttagagaattttcctttcccctttatttcagAATGATTCTCTCAAGTGACCCAGCAGCTTTTGTTCAAGAAGTTGGCTCTGTACTGTGCTAGCTACATTGAGCTCATCCCAATAGCATTTGTCCTAGgtgagtgcttgttgtagctctagtcctatctctacctggcttccatacat Alignment from Exonerate_protein2genome AATGGTTCTCTCGAGTGAT-CAGCAGCTGTTGTTTGAGAAGCTGGCTCTGTACTGCGACAGCTACATTCAGCTCATCCCTATATCCTTCGTTCTGG tcacagtgcgagtaaaagcttagagaattttcctttcccctttatttcagAATGATTCTCTCAAGTGACCCAGCAGCTTTTGTTCAAGAAGTTGGCTCTGTACTGTGCTAGCTACATTGAGCTCATCCCAATAGCATTTGTCCTAGgtgagtgcttgttgtagctctagtcctatctctacctggcttccatacat Alignment from Exonerate_coding2genome AATGGTTCTCTCGAGTGAT-CAGCAGCTGTTGTTTGAGAAGCTGGCTCTGTACTGCGACAGCTACATTCAGCTCATCCCTATATCCTTCGTTCTGG tcacagtgcgagtaaaagcttagagaattttcctttcccctttatttcagAATGATTCTCTCAAGTGACCCAGCAGCTTTTGTTCAAGAAGTTGGCTCTGTACTGTGCTAGCTACATTGAGCTCATCCCAATAGCATTTGTCCTAGgtgagtgcttgttgtagctctagtcctatctctacctggcttccatacat Alignment from GeneWise CAGCTGTTGTTTGAGAAGCTGGCTCTGTACTGCGACAGCTACATTCAGCTCATCCCTATATCCTTCGTTCTGG tcacagtgcgagtaaaagcttagagaattttcctttcccctttatttcagaatgattctctcaagtgacccagCAGCTTTTGTTCAAGAAGTTGGCTCTGTACTGTGCTAGCTACATTGAGCTCATCCCAATAGCATTTGTCCTAGgtgagtgcttgttgtagctctagtcctatctctacctggcttccatacat #### Bscl2_ID2422_5 --> 0 - 0 Original Alignment GTGATGCTGCATTACCGC-TCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCG aagcactaatgctctcctcgtgcacccatcgtcccttccatctcttgcagGTAATGCTGCAATATTGCCTTACAATTGCTTCAAGTTCTTGACAAAGTGTTATTCTCCAGCCTCTTGCTCTTTGGCTTTGCAAATCAAAAGCAGCTCTTGGAAGGCATGAGACCACCATTAGAAATCTATAGTGACTAT---GACAACTCAgtaagtggacaagttgcaatgtaatcctcaatgtagccagaatcacatgt Alignment from CESAR GTGATGCTGCATTACCGC-TCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCG aagcactaatgctctcctcgtgcacccatcgtcccttccatctcttgcagGTAATGCTGCAATATTGCCTTACAATTGCTTCAAGTTCTTGACAAAGTGTTATTCTCCAGCCTCTTGCTCTTTGGCTTTGCAAATCAAAAGCAGCTCTTGGAAGGCATGAGACCACCATTAGAAATCTATAGTGACTAT---GACAACTCAgtaagtggacaagttgcaatgtaatcctcaatgtagccagaatcacatgt Alignment from Spaln_aa2Genome GTGATGCTGCATTACCGCTCG-CAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCG aagcactaatgctctcctcgtgcacccatcgtcccttccatctcttgcagGTAATGCTGCAATATTGCCTTaCAATTGCTTCAAGTTCTTGACAAAGTGTTATTCTCCAGCCTCTTGCTCTTTGGCTTTGCAAATCAAAAGCAGCTCTTGGAAGGCATGAGACCACCATTAGAAATCTATAGTGACTAT---GACAACTCAgtaagtggacaagttgcaatgtaatcctcaatgtagccagaatcacatgt Alignment from Spaln_nt2Genome GTGATGCTGCATTACCGC-TCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAAG---------------TAGAACTCTACTCTGACTATAGGGAGAATTCG aagcactaatgctctcctcgtgcacccatcgtcccttccatctcttgcagGTAATGCTGCAATATTGCCTTACAATTGCTTCAAGTTCTTGACAAAGTGTTATTCTCCAGCCTCTTGCTCTTTGGCTTTGCAAATCAAAAGCAGCTCTTGGAAGGCATGAGACCACCATTAGAAATCTATAGTGACTAT---GACAACTCAgtaagtggacaagttgcaatgtaatcctcaatgtagccagaatcacatgt Alignment from Pairagon GTGATGCTGCATTACCG-CTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAAG---------------TAGAACTCTACTCTGACTATAGGGAGAATTCG aagcactaatgctctcctcgtgcacccatcgtcccttccatctcttgcagGTAATGCTGCAATATTGCCTTACAATTGCTTCAAGTTCTTGACAAAGTGTTATTCTCCAGCCTCTTGCTCTTTGGCTTTGCAAATCAAAAGCAGCTCTTGGAAGGCATGAGACCACCATTAGAAATCTATAGTGACTAT---GACAACTCAgtaagtggacaagttgcaatgtaatcctcaatgtagccagaatcacatgt Alignment from Exonerate_protein2genome GTGATGCTGCATTAC-CGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCG aagcactaatgctctcctcgtgcacccatcgtcccttccatctcttgcagGTAATGCTGCAATATTGCCTTACAATTGCTTCAAGTTCTTGACAAAGTGTTATTCTCCAGCCTCTTGCTCTTTGGCTTTGCAAATCAAAAGCAGCTCTTGGAAGGCATGAGACCACCATTAGAAATCTATAGTGACTAT---GACAACTCAgtaagtggacaagttgcaatgtaatcctcaatgtagccagaatcacatgt Alignment from Exonerate_coding2genome GTGATGCTGCATTAC-CGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCG aagcactaatgctctcctcgtgcacccatcgtcccttccatctcttgcagGTAATGCTGCAATATTGCCTTACAATTGCTTCAAGTTCTTGACAAAGTGTTATTCTCCAGCCTCTTGCTCTTTGGCTTTGCAAATCAAAAGCAGCTCTTGGAAGGCATGAGACCACCATTAGAAATCTATAGTGACTAT---GACAACTCAgtaagtggacaagttgcaatgtaatcctcaatgtagccagaatcacatgt Alignment from GeneWise GTGATGCTGCATTAC-CGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCG aagcactaatgctctcctcgtgcacccatcgtcccttccatctcttgcagGTAATGCTGCAATATTGCCTTACAATTGCTTCAAGTTCTTGACAAAGTGTTATTCTCCAGCCTCTTGCTCTTTGGCTTTGCAAATCAAAAGCAGCTCTTGGAAGGCATGAGACCACCATTAGAAATCTATAGTGACTAT---GACAACTCAgtaagtggacaagttgcaatgtaatcctcaatgtagccagaatcacatgt #### Bscl2_ID2426_9 --> 2 - 1 Original Alignment gtCAGGAATCTACCCAGCAGTCGGATGTGACG-GAGGATGGTGAGAGCCCTGAAGATCCCTCAGGAACAg agtgttagatccttggcttgggggtagatgcctataaattaatatttcaggtCAGGAATCCACCCAGCAGTCAGATGTTATGCGAGGATGGTGAGAGCCCTGAAGATCCCTCAAGAACAggtatgatcaggctccctaacatctttattgacatagattttcagttctga Alignment from CESAR gtCAGGAATCTACCCAGCAGTCGGATGTGACG-GAGGATGGTGAGAGCCCTGAAGATCCCTCAGGAACAg agtgttagatccttggcttgggggtagatgcctataaattaatatttcaggtCAGGAATCCACCCAGCAGTCAGATGTTATGCGAGGATGGTGAGAGCCCTGAAGATCCCTCAAGAACAggtatgatcaggctccctaacatctttattgacatagattttcagttctga Alignment from Spaln_aa2Genome GTCAGGAATCTACCCAGCAGTCGGATGTGACG-GAGGATGGTGAGAGCCCTGAAGATCCCTCAGGAACAG agtgttagatccttggcttgggggtagatgcctataaattaatatttcagGTCAGGAATCCACCCAGCAGTCAGATGTTATGcGAGGATGGTGAGAGCCCTGAAGATCCCTCAAGAACAGgtatgatcaggctccctaacatctttattgacatagattttcagttctga Alignment from Spaln_nt2Genome GTCAGGAATCTACCCAGCAGTCGGATGTGACG-GAGGATGGTGAGAGCCCTGAAGATCCCTCAGGAACAG agtgttagatccttggcttgggggtagatgcctataaattaatatttcagGTCAGGAATCCACCCAGCAGTCAGATGTTATGCGAGGATGGTGAGAGCCCTGAAGATCCCTCAAGAACAGgtatgatcaggctccctaacatctttattgacatagattttcagttctga Alignment from Pairagon GTCAGGAATCTACCCAGCAGTCGGATGTGACG-GAGGATGGTGAGAGCCCTGAAGATCCCTCAGGAACAG agtgttagatccttggcttgggggtagatgcctataaattaatatttcagGTCAGGAATCCACCCAGCAGTCAGATGTTATGCGAGGATGGTGAGAGCCCTGAAGATCCCTCAAGAACAGgtatgatcaggctccctaacatctttattgacatagattttcagttctga Alignment from Exonerate_protein2genome GGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCAGGTCAGGAATCTACCCAGCAGTCGGATGTG-ACGGAGGATGGTGAGAGCCCTGAAGATCCCTCAGGAACAG AGTGTTAGATCCTTGGCTTGGGGGTAGATGCCTATAAATTAATATTTCAGGTCAGGAATCCACCCAGCAGTCAGATGTTATGCGAGGATGGTGAGAGCCCTGAAGATCCCTCAAGAACAGgtatgatcaggctccctaacatctttattgacatagattttcagttctga Alignment from Exonerate_coding2genome GGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCAGGTCAGGAATCTACCCAGCAGTCGGATGTG-ACGGAGGATGGTGAGAGCCCTGAAGATCCCTCAGGAACAG AGTGTTAGATCCTTGGCTTGGGGGTAGATGCCTATAAATTAATATTTCAGGTCAGGAATCCACCCAGCAGTCAGATGTTATGCGAGGATGGTGAGAGCCCTGAAGATCCCTCAAGAACAGgtatgatcaggctccctaacatctttattgacatagattttcagttctga Alignment from GeneWise GTCAGGAATCTACCCAGCAGTCGGATGTG-ACGGAGGATGGTGAGAGCCCTGAAGATCCCTCAGGAACAG agtgttagatccttggcttgggggtagatgcctataaattaatatttcagGTCAGGAATCCACCCAGCAGTCAGATGTTATGCGAGGATGGTGAGAGCCCTGAAGATCCCTCAAGAACAGgtatgatcaggctccctaacatctttattgacatagattttcagttctga #### Btaf1_ID7248_27 --> 0 - 2 Original Alignment GATGGTGTGAACTGG-TTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAGag gttttatcttaatttctttgccttccccgttttctctgtctcttacacagGATGGTGTGAACTGGCTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTGGGAAAAACATTACAGTCCATCTGTATTCTAGCAGGAGATCACTGTCAGaggtaccagaggcagagacttggaaatgcttgcttaaaacctgatcaatcta Alignment from CESAR GATGGTGTGAACTGG-TTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAGag gttttatcttaatttctttgccttccccgttttctctgtctcttacacagGATGGTGTGAACTGGCTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTGGGAAAAACATTACAGTCCATCTGTATTCTAGCAGGAGATCACTGTCAGaggtaccagaggcagagacttggaaatgcttgcttaaaacctgatcaatcta Alignment from Spaln_aa2Genome GATGGTGTGAACTGGTTA-GCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAGAG gttttatcttaatttctttgccttccccgttttctctgtctcttacacagGATGGTGTGAACTGGCTTaGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTGGGAAAAACATTACAGTCCATCTGTATTCTAGCAGGAGATCACTGTCAGAGgtaccagaggcagagacttggaaatgcttgcttaaaacctgatcaatcta Alignment from Spaln_nt2Genome GATGGTGTGAACTGG-TTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAGAG gttttatcttaatttctttgccttccccgttttctctgtctcttacacagGATGGTGTGAACTGGCTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTGGGAAAAACATTACAGTCCATCTGTATTCTAGCAGGAGATCACTGTCAGAGgtaccagaggcagagacttggaaatgcttgcttaaaacctgatcaatcta Alignment from Pairagon GATGGTGTGAACTGG-TTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAGAG gttttatcttaatttctttgccttccccgttttctctgtctcttacacagGATGGTGTGAACTGGCTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTGGGAAAAACATTACAGTCCATCTGTATTCTAGCAGGAGATCACTGTCAGAGgtaccagaggcagagacttggaaatgcttgcttaaaacctgatcaatcta Alignment from Exonerate_protein2genome GATGGTGTGAACTGG-TTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAGAG gttttatcttaatttctttgccttccccgttttctctgtctcttacacagGATGGTGTGAACTGGCTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTGGGAAAAACATTACAGTCCATCTGTATTCTAGCAGGAGATCACTGTCAGAGgtaccagaggcagagacttggaaatgcttgcttaaaacctgatcaatcta Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GATGGTGTGAACTGGTTA-GCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAGAG gttttatcttaatttctttgccttccccgttttctctgtctcttacacagGATGGTGTGAACTGGCTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTGGGAAAAACATTACAGTCCATCTGTATTCTAGCAGGAGATCACTGTCAGAGgtaccagaggcagagacttggaaatgcttgcttaaaacctgatcaatcta #### Btaf1_ID7253_32 --> 2 - 0 Original Alignment gtGTCCTGGCAATGGACGCTCTGCACCGCCAAGTCCTGCCGTTCCTTCTC-AGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gcagggagaatgggttcttgagtcctgattttcttcttctgtatttcaaggtGTACTAGCAATGGATGCTCTACAGCACCAAGTCTTGCCACTACTTTTGCAGAAGAATGAAAGAAGCTGTATTGCATGATCTTCCACCCAAAATTATACAAGACTATTACTGTACTCTCAGCCCTCTTCAAgtaattactgccgtcattgttagtgtgctactatttgcattaaaaacaga Alignment from CESAR gtGTCCTGGCAATGGACGCTCTGCACCGCCAAGTCCTGCCGTTCCTTCTC-AGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gcagggagaatgggttcttgagtcctgattttcttcttctgtatttcaaggtGTACTAGCAATGGATGCTCTACAGCACCAAGTCTTGCCACTACTTTTGCAGAAGAATGAAAGAAGCTGTATTGCATGATCTTCCACCCAAAATTATACAAGACTATTACTGTACTCTCAGCCCTCTTCAAgtaattactgccgtcattgttagtgtgctactatttgcattaaaaacaga Alignment from Spaln_aa2Genome GTGTCCTGGCAATGGACGCTCTGCACCGCCAAGTCCTGCCGTTCCTTCTC-AGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gcagggagaatgggttcttgagtcctgattttcttcttctgtatttcaagGTGTACTAGCAATGGATGCTCTACAGCACCAAGTCTTGCCACTACTTTTGcAGAAGAATGAAAGAAGCTGTATTGCATGATCTTCCACCCAAAATTATACAAGACTATTACTGTACTCTCAGCCCTCTTCAAgtaattactgccgtcattgttagtgtgctactatttgcattaaaaacaga Alignment from Spaln_nt2Genome GTGTCCTGGCAATGGACGCTCTGCACCGCCAAGTCCTGCCGTTCCTTCT-CAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gcagggagaatgggttcttgagtcctgattttcttcttctgtatttcaagGTGTACTAGCAATGGATGCTCTACAGCACCAAGTCTTGCCACTACTTTTGCAGAAGAATGAAAGAAGCTGTATTGCATGATCTTCCACCCAAAATTATACAAGACTATTACTGTACTCTCAGCCCTCTTCAAgtaattactgccgtcattgttagtgtgctactatttgcattaaaaacaga Alignment from Pairagon GTGTCCTGGCAATGGACGCTCTGCACCGCCAAGTCCTGCCGTTCCTTCT-CAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gcagggagaatgggttcttgagtcctgattttcttcttctgtatttcaagGTGTACTAGCAATGGATGCTCTACAGCACCAAGTCTTGCCACTACTTTTGCAGAAGAATGAAAGAAGCTGTATTGCATGATCTTCCACCCAAAATTATACAAGACTATTACTGTACTCTCAGCCCTCTTCAAgtaattactgccgtcattgttagtgtgctactatttgcattaaaaacaga Alignment from Exonerate_protein2genome GTGTCCTGGCAATGGACGCTCTGCACCGCCAAGTCCTGCCGTTCCTTCTC-AGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gcagggagaatgggttcttgagtcctgattttcttcttctgtatttcaagGTGTACTAGCAATGGATGCTCTACAGCACCAAGTCTTGCCACTACTTTTGCAGAAGAATGAAAGAAGCTGTATTGCATGATCTTCCACCCAAAATTATACAAGACTATTACTGTACTCTCAGCCCTCTTCAAgtaattactgccgtcattgttagtgtgctactatttgcattaaaaacaga Alignment from Exonerate_coding2genome GTGTCCTGGCAATGGACGCTCTGCACCGCCAAGTCCTGCCGTTCCTTCTC-AGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gcagggagaatgggttcttgagtcctgattttcttcttctgtatttcaagGTGTACTAGCAATGGATGCTCTACAGCACCAAGTCTTGCCACTACTTTTGCAGAAGAATGAAAGAAGCTGTATTGCATGATCTTCCACCCAAAATTATACAAGACTATTACTGTACTCTCAGCCCTCTTCAAgtaattactgccgtcattgttagtgtgctactatttgcattaaaaacaga Alignment from GeneWise GTGTCCTGGCAATGGACGCTCTGCACCGCCAAGTCCTGCCGTTCCTT-CTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gcagggagaatgggttcttgagtcctgattttcttcttctgtatttcaagGTGTACTAGCAATGGATGCTCTACAGCACCAAGTCTTGCCACTACTTTTGCAGAAGAATGAAAGAAGCTGTATTGCATGATCTTCCACCCAAAATTATACAAGACTATTACTGTACTCTCAGCCCTCTTCAAgtaattactgccgtcattgttagtgtgctactatttgcattaaaaacaga #### Btaf1_ID7258_37 --> 0 - 0 Original Alignment AAACGTGTGGTTAATGTCTACCGGTTGATAACCAGAGGAACACTAGAAGAAAAGATAATGGGCTTGCAGAAATTCAAGATGAACATCGCAAATACTGTTATTAGCCAAGAAAACTCTAGCTTACAGAGTATG-GGCACTGATCAACTTCTTGACCTGTTCACTCTAGATAAG taggcaccgtgagtctgacaagttcatgcaccattttctcaattccacagAAACGTGTGGTTAATGTCTACCGGTTGATAACTCGAGGAACACTAGAAGACAAGATAATGGGTTTGCAGAAGTTCAAGATGAACATTGCAAATACTGTTATTAGCCAAGAGAACTCTAGCTTACAGAGTATGCGGCACTGATCAACTTCTTGACCTATTTACCCTGGATAAAgtgtgcacagaatgagtggcattacagtgcattagtcacaggattgttgg Alignment from CESAR AAACGTGTGGTTAATGTCTACCGGTTGATAACCAGAGGAACACTAGAAGAAAAGATAATGGGCTTGCAGAAATTCAAGATGAACATCGCAAATACTGTTATTAGCCAAGAAAACTCTAGCTTACAGAGTATG-GGCACTGATCAACTTCTTGACCTGTTCACTCTAGATAAG taggcaccgtgagtctgacaagttcatgcaccattttctcaattccacagAAACGTGTGGTTAATGTCTACCGGTTGATAACTCGAGGAACACTAGAAGACAAGATAATGGGTTTGCAGAAGTTCAAGATGAACATTGCAAATACTGTTATTAGCCAAGAGAACTCTAGCTTACAGAGTATGCGGCACTGATCAACTTCTTGACCTATTTACCCTGGATAAAgtgtgcacagaatgagtggcattacagtgcattagtcacaggattgttgg Alignment from Spaln_aa2Genome AAACGTGTGGTTAATGTCTACCGGTTGATAACCAGAGGAACACTAGAAGAAAAGATAATGGGCTTGCAGAAATTCAAGATGAACATCGCAAATACTGTTATTAGCCAAGAAAACTCTAGCTTACAGAGTATG-GGCACTGATCAACTTCTTGACCTGTTCACTCTAGATAAG taggcaccgtgagtctgacaagttcatgcaccattttctcaattccacagAAACGTGTGGTTAATGTCTACCGGTTGATAACTCGAGGAACACTAGAAGACAAGATAATGGGTTTGCAGAAGTTCAAGATGAACATTGCAAATACTGTTATTAGCCAAGAGAACTCTAGCTTACAGAGTATGcGGCACTGATCAACTTCTTGACCTATTTACCCTGGATAAAgtgtgcacagaatgagtggcattacagtgcattagtcacaggattgttgg Alignment from Spaln_nt2Genome AAACGTGTGGTTAATGTCTACCGGTTGATAACCAGAGGAACACTAGAAGAAAAGATAATGGGCTTGCAGAAATTCAAGATGAACATCGCAAATACTGTTATTAGCCAAGAAAACTCTAGCTTACAGAGTATG-GGCACTGATCAACTTCTTGACCTGTTCACTCTAGATAAG taggcaccgtgagtctgacaagttcatgcaccattttctcaattccacagAAACGTGTGGTTAATGTCTACCGGTTGATAACTCGAGGAACACTAGAAGACAAGATAATGGGTTTGCAGAAGTTCAAGATGAACATTGCAAATACTGTTATTAGCCAAGAGAACTCTAGCTTACAGAGTATGCGGCACTGATCAACTTCTTGACCTATTTACCCTGGATAAAgtgtgcacagaatgagtggcattacagtgcattagtcacaggattgttgg Alignment from Pairagon AAACGTGTGGTTAATGTCTACCGGTTGATAACCAGAGGAACACTAGAAGAAAAGATAATGGGCTTGCAGAAATTCAAGATGAACATCGCAAATACTGTTATTAGCCAAGAAAACTCTAGCTTACAGAGTATG-GGCACTGATCAACTTCTTGACCTGTTCACTCTAGATAAG taggcaccgtgagtctgacaagttcatgcaccattttctcaattccacagAAACGTGTGGTTAATGTCTACCGGTTGATAACTCGAGGAACACTAGAAGACAAGATAATGGGTTTGCAGAAGTTCAAGATGAACATTGCAAATACTGTTATTAGCCAAGAGAACTCTAGCTTACAGAGTATGCGGCACTGATCAACTTCTTGACCTATTTACCCTGGATAAAgtgtgcacagaatgagtggcattacagtgcattagtcacaggattgttgg Alignment from Exonerate_protein2genome AAACGTGTGGTTAATGTCTACCGGTTGATAACCAGAGGAACACTAGAAGAAAAGATAATGGGCTTGCAGAAATTCAAGATGAACATCGCAAATACTGTTATTAGCCAAGAAAACTCTAGCTTACAGAGTATG-GGCACTGATCAACTTCTTGACCTGTTCACTCTAGATAAG taggcaccgtgagtctgacaagttcatgcaccattttctcaattccacagAAACGTGTGGTTAATGTCTACCGGTTGATAACTCGAGGAACACTAGAAGACAAGATAATGGGTTTGCAGAAGTTCAAGATGAACATTGCAAATACTGTTATTAGCCAAGAGAACTCTAGCTTACAGAGTATGCGGCACTGATCAACTTCTTGACCTATTTACCCTGGATAAAgtgtgcacagaatgagtggcattacagtgcattagtcacaggattgttgg Alignment from Exonerate_coding2genome AAACGTGTGGTTAATGTCTACCGGTTGATAACCAGAGGAACACTAGAAGAAAAGATAATGGGCTTGCAGAAATTCAAGATGAACATCGCAAATACTGTTATTAGCCAAGAAAACTCTAGCTTACAGAGTATG-GGCACTGATCAACTTCTTGACCTGTTCACTCTAGATAAG taggcaccgtgagtctgacaagttcatgcaccattttctcaattccacagAAACGTGTGGTTAATGTCTACCGGTTGATAACTCGAGGAACACTAGAAGACAAGATAATGGGTTTGCAGAAGTTCAAGATGAACATTGCAAATACTGTTATTAGCCAAGAGAACTCTAGCTTACAGAGTATGCGGCACTGATCAACTTCTTGACCTATTTACCCTGGATAAAgtgtgcacagaatgagtggcattacagtgcattagtcacaggattgttgg Alignment from GeneWise AAACGTGTGGTTAATGTCTACCGGTTGATAACCAGAGGAACACTAGAAGAAAAGATAATGGGCTTGCAGAAATTCAAGATGAACATCGCAAATACTGTTATTAGCCAAGAAAACTCTAGCTTACAGAGT-ATGGGCACTGATCAACTTCTTGACCTGTTCACTCTAGATAAG taggcaccgtgagtctgacaagttcatgcaccattttctcaattccacagAAACGTGTGGTTAATGTCTACCGGTTGATAACTCGAGGAACACTAGAAGACAAGATAATGGGTTTGCAGAAGTTCAAGATGAACATTGCAAATACTGTTATTAGCCAAGAGAACTCTAGCTTACAGAGTATGCGGCACTGATCAACTTCTTGACCTATTTACCCTGGATAAAgtgtgcacagaatgagtggcattacagtgcattagtcacaggattgttgg #### Btrc_ID9463_12 --> 1 - 2 Original Alignment gCTGTGGGACATAGAGTGTGGAGCATGCCTGCGAGTGTTGGAGGGCCATGAGGAGTTGGTA-CGCTGCATTCGATTTGATAACAAAAGGATAGTGAGCGGAGCCTATGATgg acttgttgtgaatactgtaacttactttattgagctatttcttttcaaaggCTCTGGGACATAGAGTGTGGAGCATGCCTGCAGGTATTGGAGGGCCATGAGGAGTTGGTACCGCTGCATTCGGTTTGATAACAAAAGGATCGTAAGCAGAACGTATGATgggtttgctcactggtaatgtcttttaatcagagaaagagtttgaagacaca Alignment from CESAR gCTGTGGGACATAGAGTGTGGAGCATGCCTGCGAGTGTTGGAGGGCCATGAGGAGTTGGTA-CGCTGCATTCGATTTGATAACAAAAGGATAGTGAGCGGAGCCTATGATgg acttgttgtgaatactgtaacttactttattgagctatttcttttcaaaggCTCTGGGACATAGAGTGTGGAGCATGCCTGCAGGTATTGGAGGGCCATGAGGAGTTGGTACCGCTGCATTCGGTTTGATAACAAAAGGATCGTAAGCAGAACGTATGATgggtttgctcactggtaatgtcttttaatcagagaaagagtttgaagacaca Alignment from Spaln_aa2Genome GCTGTGGGACATAGAGTGTGGAGCATGCCTGCGAGTGTTGGAGGGCCATGAGGAGTTGGTA-CGCTGCATTCGATTTGATAACAAAAGGATAGTGAGCGGAGCCTATGATGG acttgttgtgaatactgtaacttactttattgagctatttcttttcaaagGCTCTGGGACATAGAGTGTGGAGCATGCCTGCAGGTATTGGAGGGCCATGAGGAGTTGGTAcCGCTGCATTCGGTTTGATAACAAAAGGATCGTAAGCAGAACGTATGATGGgtttgctcactggtaatgtcttttaatcagagaaagagtttgaagacaca Alignment from Spaln_nt2Genome GCTGTGGGACATAGAGTGTGGAGCATGCCTGCGAGTGTTGGAGGGCCATGAGGAGTTGGTA-CGCTGCATTCGATTTGATAACAAAAGGATAGTGAGCGGAGCCTATGATGG acttgttgtgaatactgtaacttactttattgagctatttcttttcaaagGCTCTGGGACATAGAGTGTGGAGCATGCCTGCAGGTATTGGAGGGCCATGAGGAGTTGGTACCGCTGCATTCGGTTTGATAACAAAAGGATCGTAAGCAGAACGTATGATGGgtttgctcactggtaatgtcttttaatcagagaaagagtttgaagacaca Alignment from Pairagon GCTGTGGGACATAGAGTGTGGAGCATGCCTGCGAGTGTTGGAGGGCCATGAGGAGTTGGTA-CGCTGCATTCGATTTGATAACAAAAGGATAGTGAGCGGAGCCTATGATGG acttgttgtgaatactgtaacttactttattgagctatttcttttcaaagGCTCTGGGACATAGAGTGTGGAGCATGCCTGCAGGTATTGGAGGGCCATGAGGAGTTGGTACCGCTGCATTCGGTTTGATAACAAAAGGATCGTAAGCAGAACGTATGATGGgtttgctcactggtaatgtcttttaatcagagaaagagtttgaagacaca Alignment from Exonerate_protein2genome GCTGTGGGACATAGAGTGTGGAGCATGCCTGCGAGTGTTGGAGGGCCATGAGGAGTTGGTA-CGCTGCATTCGATTTGATAACAAAAGGATAGTGAGCGGAGCCTATGATGG acttgttgtgaatactgtaacttactttattgagctatttcttttcaaagGCTCTGGGACATAGAGTGTGGAGCATGCCTGCAGGTATTGGAGGGCCATGAGGAGTTGGTACCGCTGCATTCGGTTTGATAACAAAAGGATCGTAAGCAGAACGTATGATGGgtttgctcactggtaatgtcttttaatcagagaaagagtttgaagacaca Alignment from Exonerate_coding2genome GCTGTGGGACATAGAGTGTGGAGCATGCCTGCGAGTGTTGGAGGGCCATGAGGAGTTGGTA-CGCTGCATTCGATTTGATAACAAAAGGATAGTGAGCGGAGCCTATGATGG acttgttgtgaatactgtaacttactttattgagctatttcttttcaaagGCTCTGGGACATAGAGTGTGGAGCATGCCTGCAGGTATTGGAGGGCCATGAGGAGTTGGTACCGCTGCATTCGGTTTGATAACAAAAGGATCGTAAGCAGAACGTATGATGGgtttgctcactggtaatgtcttttaatcagagaaagagtttgaagacaca Alignment from GeneWise GCTGTGGGACATAGAGTGTGGAGCATGCCTGCGAGTGTTGGAGGGCCATGAGGAGTTG-GTACGCTGCATTCGATTTGATAACAAAAGGATAGTGAGCGGAGCCTATGATGG acttgttgtgaatactgtaacttactttattgagctatttcttttcaaagGCTCTGGGACATAGAGTGTGGAGCATGCCTGCAGGTATTGGAGGGCCATGAGGAGTTGGTACCGCTGCATTCGGTTTGATAACAAAAGGATCGTAAGCAGAACGTATGATGGgtttgctcactggtaatgtcttttaatcagagaaagagtttgaagacaca #### Cabp2_ID287_2 --> 0 - 0 Original Alignment GAACGCTGGCAGTGGCCTGGATCCCCCCTAGGGGGCTCCCGCCCCAGCCCTGGTCCCAGAACTGAGGAGCAGGAGGGGACACAGGGCTACTCAGTGCTCGGCAGCCTGGTGGGGCCAGCA-TGCATCTTCCTTCGACCCAGCATCGCGGCTACCCAGCTC gccatattgacacatatatgtggggattttcccttttcttcttttcccagGTCCGCTGGCAATGGCCTGGATCCCCCTTAGGGGGCTCACTTCCCAGCCCAGGTCCAAGAACTGAGGAGCAGGAGGGTTCACAGGGCTACTCAGTCCTTGGTAGCCTTGTAGGACCCGCACTGTATTTTCCTACGACCTACCATAGCTGCTACCCAGCTTgtaagcacataatcctttgcatactggcatctgaaacctggtggctttat Alignment from CESAR GAACGCTGGCAGTGGCCTGGATCCCCCCTAGGGGGCTCCCGCCCCAGCCCTGGTCCCAGAACTGAGGAGCAGGAGGGGACACAGGGCTACTCAGTGCTCGGCAGCCTGGTGGGGCCAGCA-TGCATCTTCCTTCGACCCAGCATCGCGGCTACCCAGCTC gccatattgacacatatatgtggggattttcccttttcttcttttcccagGTCCGCTGGCAATGGCCTGGATCCCCCTTAGGGGGCTCACTTCCCAGCCCAGGTCCAAGAACTGAGGAGCAGGAGGGTTCACAGGGCTACTCAGTCCTTGGTAGCCTTGTAGGACCCGCACTGTATTTTCCTACGACCTACCATAGCTGCTACCCAGCTTgtaagcacataatcctttgcatactggcatctgaaacctggtggctttat Alignment from Spaln_aa2Genome GAACGCTGGCAGTGGCCTGGATCCCCCCTAGGGGGCTCCCGCCCCAGCCCTGGTCCCAGAACTGAGGAGCAGGAGGGGACACAGGGCTACTCAGTGCTCGGCAGCCTGGTGGGGCCAGCA-TGCATCTTCCTTCGACCCAGCATCGCGGCTACCCAGCTC gccatattgacacatatatgtggggattttcccttttcttcttttcccagGTCCGCTGGCAATGGCCTGGATCCCCCTTAGGGGGCTCACTTCCCAGCCCAGGTCCAAGAACTGAGGAGCAGGAGGGTTCACAGGGCTACTCAGTCCTTGGTAGCCTTGTAGGACCCGCAcTGTATTTTCCTACGACCTACCATAGCTGCTACCCAGCTTgtaagcacataatcctttgcatactggcatctgaaacctggtggctttat Alignment from Spaln_nt2Genome GAACGCTGGCAGTGGCCTGGATCCCCCCTAGGGGGCTCCCGCCCCAGCCCTGGTCCCAGAACTGAGGAGCAGGAGGGGACACAGGGCTACTCAGTGCTCGGCAGCCTGGTGGGGCCAGCA-TGCATCTTCCTTCGACCCAGCATCGCGGCTACCCAGCTC gccatattgacacatatatgtggggattttcccttttcttcttttcccagGTCCGCTGGCAATGGCCTGGATCCCCCTTAGGGGGCTCACTTCCCAGCCCAGGTCCAAGAACTGAGGAGCAGGAGGGTTCACAGGGCTACTCAGTCCTTGGTAGCCTTGTAGGACCCGCACTGTATTTTCCTACGACCTACCATAGCTGCTACCCAGCTTgtaagcacataatcctttgcatactggcatctgaaacctggtggctttat Alignment from Pairagon GAACGCTGGCAGTGGCCTGGATCCCCCCTAGGGGGCTCCCGCCCCAGCCCTGGTCCCAGAACTGAGGAGCAGGAGGGGACACAGGGCTACTCAGTGCTCGGCAGCCTGGTGGGGCCAGCA-TGCATCTTCCTTCGACCCAGCATCGCGGCTACCCAGCTC gccatattgacacatatatgtggggattttcccttttcttcttttcccagGTCCGCTGGCAATGGCCTGGATCCCCCTTAGGGGGCTCACTTCCCAGCCCAGGTCCAAGAACTGAGGAGCAGGAGGGTTCACAGGGCTACTCAGTCCTTGGTAGCCTTGTAGGACCCGCACTGTATTTTCCTACGACCTACCATAGCTGCTACCCAGCTTgtaagcacataatcctttgcatactggcatctgaaacctggtggctttat Alignment from Exonerate_protein2genome gccatattgacacatatatgtggggattttcccttttcttcttttcccaggtccgctggcaatggcctggatcccccttagggggctcacttcccagcccaggtccaagaactgaggagcaggagggttcacagggctactcagtccttggtagccttgtaggacccgcactgtattttcctacgacctaccatagctgctacccagcttgtaagcacataatcctttgcatactggcatctgaaacctggtggctttat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GAACGCTGGCAGTGGCCTGGATCCCCCCTAGGGGGCTCCCGCCCCAGCCCTGGTCCCAGAACTGAGGAGCAGGAGGGGACACAGGGCTACTCAGTGCTCGGCAGCCTGGTGGGGCCA-GCATGCATCTTCCTTCGACCCAGCATCGCGGCTACCCAGCTC gccatattgacacatatatgtggggattttcccttttcttcttttcccagGTCCGCTGGCAATGGCCTGGATCCCCCTTAGGGGGCTCACTTCCCAGCCCAGGTCCAAGAACTGAGGAGCAGGAGGGTTCACAGGGCTACTCAGTCCTTGGTAGCCTTGTAGGACCCGCACTGTATTTTCCTACGACCTACCATAGCTGCTACCCAGCTTgtaagcacataatcctttgcatactggcatctgaaacctggtggctttat #### Cabp2_ID288_3 --> 0 - 1 Original Alignment GATCGAGAGCTG-AGACCAGAAGAGATCGAAg ttgttatactagagattgggaggcaaccttttctgtttttctatttaaagGAGCGAGAG---CAGACCAGAA------AAAggtcagctttctatagttgattctatagctgaggtacagtgtgtacccagg Alignment from CESAR GATCGAGAGCTGAGACCAGAAGAGATCGAAg ttgttatactagagattgggaggcaaccttttctgtttttctatttaaagGAGCGAGAG--CAGACCAGAA------AAAggtcagctttctatagttgattctatagctgaggtacagtgtgtacccagg Alignment from Spaln_aa2Genome GATCGAGAGCTG------AGACCAGAAGAGATCGAAG ttgttatactagagattgggaggcaaccttttctgtttttctatttaaagGAGCGAGAGCAGACCAGAAAAAGGTCAGCTTTCTATAgttgattctatagctgaggtacagtgtgtacccagg Alignment from Spaln_nt2Genome GATCGAGAGCTGAGACCAGAAGAGATCGAAG ttgttatactagagattgggaggcaaccttttctgtttttctatttaaagGAGCGAGAGC--AGACCAGAA------AAAGgtcagctttctatagttgattctatagctgaggtacagtgtgtacccagg Alignment from Pairagon GATCGAGAGCTGAGACCAGAAGAGATCGAAG ttgttatactagagattgggaggcaaccttttctgtttttctatttaaagGAGCGAGAGC--AGACCAGAA------AAAGgtcagctttctatagttgattctatagctgaggtacagtgtgtacccagg Alignment from Exonerate_protein2genome ttgttatactagagattgggaggcaaccttttctgtttttctatttaaaggagcgagagcagaccagaaaaaggtcagctttctatagttgattctatagctgaggtacagtgtgtacccagg Alignment from Exonerate_coding2genome ttgttatactagagattgggaggcaaccttttctgtttttctatttaaaggagcgagagcagaccagaaaaaggtcagctttctatagttgattctatagctgaggtacagtgtgtacccagg Alignment from GeneWise ttgttatactagagattgggaggcaaccttttctgtttttctatttaaaggagcgagagcagaccagaaaaaggtcagctttctatagttgattctatagctgaggtacagtgtgtacccagg #### Cabp2_ID291_6 --> 0 - 1 Original Alignment TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAA-CGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAg aatcgctcccatggttcagtgactgaacgttctgtgtggctttcctgcagTTCGACACTAATGGCGATGGCTGCATCAGTGTTGGGGAACTCCAAGCTGCACTTAAAGCCCTGCTGGGTGTACCGTCTCAGTCAACAAGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGGGATGGCCTGGTTGACTTCGAAggtaaggctccacctgctctgtccctttaccttgtaaaccatctcacacac Alignment from CESAR TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAA-CGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAg aatcgctcccatggttcagtgactgaacgttctgtgtggctttcctgcagTTCGACACTAATGGCGATGGCTGCATCAGTGTTGGGGAACTCCAAGCTGCACTTAAAGCCCTGCTGGGTGTACCGTCTCAGTCAACAAGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGGGATGGCCTGGTTGACTTCGAAggtaaggctccacctgctctgtccctttaccttgtaaaccatctcacacac Alignment from Spaln_aa2Genome TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAA-CGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAG aatcgctcccatggttcagtgactgaacgttctgtgtggctttcctgcagTTCGACACTAATGGCGATGGCTGCATCAGTGTTGGGGAACTCCAAGCTGCACTTAAAGCCCTGCTGGGTGTAcCGTCTCAGTCAACAAGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGGGATGGCCTGGTTGACTTCGAAGgtaaggctccacctgctctgtccctttaccttgtaaaccatctcacacac Alignment from Spaln_nt2Genome TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAAC-GCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAG aatcgctcccatggttcagtgactgaacgttctgtgtggctttcctgcagTTCGACACTAATGGCGATGGCTGCATCAGTGTTGGGGAACTCCAAGCTGCACTTAAAGCCCTGCTGGGTGTACCGTCTCAGTCAACAAGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGGGATGGCCTGGTTGACTTCGAAGgtaaggctccacctgctctgtccctttaccttgtaaaccatctcacacac Alignment from Pairagon TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGG-GGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAG aatcgctcccatggttcagtgactgaacgttctgtgtggctttcctgcagTTCGACACTAATGGCGATGGCTGCATCAGTGTTGGGGAACTCCAAGCTGCACTTAAAGCCCTGCTGGGTGTACCGTCTCAGTCAACAAGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGGGATGGCCTGGTTGACTTCGAAGgtaaggctccacctgctctgtccctttaccttgtaaaccatctcacacac Alignment from Exonerate_protein2genome TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGG-GAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAG aatcgctcccatggttcagtgactgaacgttctgtgtggctttcctgcagTTCGACACTAATGGCGATGGCTGCATCAGTGTTGGGGAACTCCAAGCTGCACTTAAAGCCCTGCTGGGTGTACCGTCTCAGTCAACAAGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGGGATGGCCTGGTTGACTTCGAAGgtaaggctccacctgctctgtccctttaccttgtaaaccatctcacacac Alignment from Exonerate_coding2genome TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGG-GAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAA aatcgctcccatggttcagtgactgaacgttctgtgtggctttcctgcagTTCGACACTAATGGCGATGGCTGCATCAGTGTTGGGGAACTCCAAGCTGCACTTAAAGCCCTGCTGGGTGTACCGTCTCAGTCAACAAGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGGGATGGCCTGGTTGACTTCGAAggtaaggctccacctgctctgtccctttaccttgtaaaccatctcacacac Alignment from GeneWise TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGG-GAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAGAATTTGTTCGGATGATGTCTCGG aatcgctcccatggttcagtgactgaacgttctgtgtggctttcctgcagTTCGACACTAATGGCGATGGCTGCATCAGTGTTGGGGAACTCCAAGCTGCACTTAAAGCCCTGCTGGGTGTACCGTCTCAGTCAACAAGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGGGATGGCCTGGTTGACTTCGAAGGTAAGGCTCCACCTGCTCTGTCCctttaccttgtaaaccatctcacacac #### Cabp4_ID342_2 --> 0 - 1 Original Alignment GATCGTGAACTGGGC-CCTGAGGAGTTGGAGg ggctctgcatggatggcagggattttggattctccgtctctttctttcagGATCGTGAGCTGGGGCCCTGAGGAGTTGGAAggtgagcgattcttgctgttgatgaaaaatctaaaggaagtttgatattat Alignment from CESAR GATCGTGAACTG-GGCCCTGAGGAGTTGGAGg ggctctgcatggatggcagggattttggattctccgtctctttctttcagGATCGTGAGCTGGGGCCCTGAGGAGTTGGAAggtgagcgattcttgctgttgatgaaaaatctaaaggaagtttgatattat Alignment from Spaln_aa2Genome GATCGTGAACTGGGC-CCTGAGGAGTTGGAGG ggctctgcatggatggcagggattttggattctccgtctctttctttcagGATCGTGAGCTGGGGcCCTGAGGAGTTGGAAGgtgagcgattcttgctgttgatgaaaaatctaaaggaagtttgatattat Alignment from Spaln_nt2Genome GATCGTGAACTGGG-CCCTGAGGAGTTGGAGG ggctctgcatggatggcagggattttggattctccgtctctttctttcagGATCGTGAGCTGGGGCCCTGAGGAGTTGGAAGgtgagcgattcttgctgttgatgaaaaatctaaaggaagtttgatattat Alignment from Pairagon GATCGTGAACT-GGGCCCTGAGGAGTTGGAGG ggctctgcatggatggcagggattttggattctccgtctctttctttcagGATCGTGAGCTGGGGCCCTGAGGAGTTGGAAGgtgagcgattcttgctgttgatgaaaaatctaaaggaagtttgatattat Alignment from Exonerate_protein2genome GATCGTGAACTG-GGCCCTGAGGAGTTGGAGG ggctctgcatggatggcagggattttggattctccgtctctttctttcagGATCGTGAGCTGGGGCCCTGAGGAGTTGGAAGgtgagcgattcttgctgttgatgaaaaatctaaaggaagtttgatattat Alignment from Exonerate_coding2genome ggctctgcatggatggcagggattttggattctccgtctctttctttcaggatcgtgagctggggccctgaggagttggaaggtgagcgattcttgctgttgatgaaaaatctaaaggaagtttgatattat Alignment from GeneWise ggctctgcatggatggcagggattttggattctccgtctctttctttcaggatcgtgagctggggccctgaggagttggaaggtgagcgattcttgctgttgatgaaaaatctaaaggaagtttgatattat #### Capn1_ID1359_17 --> 0 - 0 Original Alignment CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAAC-CGCATCCGAAATTACCTG tgatgatggatgcttaagccaaagtatttccctccctgtgtctcctccagCGAGATGGAAATGGGAAGTTAGGGCTGGTGGAATTCAATATCCTATGGAACCCATATCCGAAATTATCTGgcaagcgatgagatgttctctgacatgttccttgggagcccggagcctaa Alignment from CESAR CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAAC-CGCATCCGAAATTACCTG tgatgatggatgcttaagccaaagtatttccctccctgtgtctcctccagCGAGATGGAAATGGGAAGTTAGGGCTGGTGGAATTCAATATCCTATGGAACCCATATCCGAAATTATCTGgcaagcgatgagatgttctctgacatgttccttgggagcccggagcctaa Alignment from Spaln_aa2Genome CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAAC-CGCATCCGAAATTACCTG tgatgatggatgcttaagccaaagtatttccctccctgtgtctcctccagCGAGATGGAAATGGGAAGTTAGGGCTGGTGGAATTCAATATCCTATGGAACcCATATCCGAAATTATCTGgcaagcgatgagatgttctctgacatgttccttgggagcccggagcctaa Alignment from Spaln_nt2Genome CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGC-ATCCGAAATTACCTG tgatgatggatgcttaagccaaagtatttccctccctgtgtctcctccagCGAGATGGAAATGGGAAGTTAGGGCTGGTGGAATTCAATATCCTATGGAACCCATATCCGAAATTATCTGgcaagcgatgagatgttctctgacatgttccttgggagcccggagcctaa Alignment from Pairagon CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAA-CCGCATCCGAAATTACCTG tgatgatggatgcttaagccaaagtatttccctccctgtgtctcctccagCGAGATGGAAATGGGAAGTTAGGGCTGGTGGAATTCAATATCCTATGGAACCCATATCCGAAATTATCTGgcaagcgatgagatgttctctgacatgttccttgggagcccggagcctaa Alignment from Exonerate_protein2genome CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAAC-CGCATCCGAAATTACCTG tgatgatggatgcttaagccaaagtatttccctccctgtgtctcctccagCGAGATGGAAATGGGAAGTTAGGGCTGGTGGAATTCAATATCCTATGGAACCCATATCCGAAATTATCTGgcaagcgatgagatgttctctgacatgttccttgggagcccggagcctaa Alignment from Exonerate_coding2genome tgatgatggatgcttaagccaaagtatttccctccctgtgtctcctccagcgagatggaaatgggaagttagggctggtggaattcaatatcctatggaacccatatccgaaattatctggcaagcgatgagatgttctctgacatgttccttgggagcccggagcctaa Alignment from GeneWise CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAAC-CGCATCCGAAATTACCTG-------------- tgatgatggatgcttaagccaaagtatttccctccctgtgtctcctccagCGAGATGGAAATGGGAAGTTAGGGCTGGTGGAATTCAATATCCTATGGAACCCATATCCGAAATTATCTGGCAAGCGATGAGATgttctctgacatgttccttgggagcccggagcctaa #### Capn1_ID1368_8 --> 1 - 2 Original Alignment cTCCTATGAGTGGAACAAAGTGGACCCCTATGAACGAGAGCAGCTGAGG-GTCAAGATGGAGGATGGGGAGTTCtg agaattgcatatgtggctttgcttgtgtcccggtgcgcccttctctacagcCCGTATGAGTGGAACAAAGTAGATCCTTATGAACAAGAGCAACCAAGACGTCAAGATGGAAGATGGAGAATTTtggtaaagaattagatatccttccctggcacacccctctgtggaagttttct Alignment from CESAR cTCCTATGAGTGGAACAAAGTGGACCCCTATGAACGAGAGCAGCTGAGG-GTCAAGATGGAGGATGGGGAGTTCtg agaattgcatatgtggctttgcttgtgtcccggtgcgcccttctctacagcCCGTATGAGTGGAACAAAGTAGATCCTTATGAACAAGAGCAACCAAGACGTCAAGATGGAAGATGGAGAATTTtggtaaagaattagatatccttccctggcacacccctctgtggaagttttta Alignment from Spaln_aa2Genome CTCCTATGAGTGGAACAAAGTGGACCCCTATGAACGAGAGCAGCTGAGG-GTCAAGATGGAGGATGGGGAGTTCTG agaattgcatatgtggctttgcttgtgtcccggtgcgcccttctctacagCCCGTATGAGTGGAACAAAGTAGATCCTTATGAACAAGAGCAACCAAGAcGTCAAGATGGAAGATGGAGAATTTTGgtaaagaattagatatccttccctggcacacccctctgtggaagttttct Alignment from Spaln_nt2Genome CTCCTATGAGTGGAACAAAGTGGACCCCTATGAACGAGAGCAGCTGAGG-GTCAAGATGGAGGATGGGGAGTTCTG agaattgcatatgtggctttgcttgtgtcccggtgcgcccttctctacagCCCGTATGAGTGGAACAAAGTAGATCCTTATGAACAAGAGCAACCAAGACGTCAAGATGGAAGATGGAGAATTTTGgtaaagaattagatatccttccctggcacacccctctgtggaagttttct Alignment from Pairagon CTCCTATGAGTGGAACAAAGTGGACCCCTATGAACGAGAGCAGCTGAGG-GTCAAGATGGAGGATGGGGAGTTCTG agaattgcatatgtggctttgcttgtgtcccggtgcgcccttctctacagCCCGTATGAGTGGAACAAAGTAGATCCTTATGAACAAGAGCAACCAAGACGTCAAGATGGAAGATGGAGAATTTTGgtaaagaattagatatccttccctggcacacccctctgtggaagttttct Alignment from Exonerate_protein2genome CTCCTATGAGTGGAACAAAGTGGACCCCTATGAACGAGAGCAGCTGAGG-GTCAAGATGGAGGATGGGGAGTTCTG agaattgcatatgtggctttgcttgtgtcccggtgcgcccttctctacagCCCGTATGAGTGGAACAAAGTAGATCCTTATGAACAAGAGCAACCAAGACGTCAAGATGGAAGATGGAGAATTTTGgtaaagaattagatatccttccctggcacacccctctgtggaagttttct Alignment from Exonerate_coding2genome AGCTCCTATGAGTGGAACAAAGTGGACCCCTATGAACGAGAGCAGCTGAGG-GTCAAGATGGAGGATGGGGAGTTCTG agaattgcatatgtggctttgcttgtgtcccggtgcgcccttctctacAGCCCGTATGAGTGGAACAAAGTAGATCCTTATGAACAAGAGCAACCAAGACGTCAAGATGGAAGATGGAGAATTTTGgtaaagaattagatatccttccctggcacacccctctgtggaagttttct Alignment from GeneWise CTCCTATGAGTGGAACAAAGTGGACCCCTATGAACGAGAGCAGCTGAGG-GTCAAGATGGAGGATGGGGAGTTCTG agaattgcatatgtggctttgcttgtgtcccggtgcgcccttctctacagCCCGTATGAGTGGAACAAAGTAGATCCTTATGAACAAGAGCAACCAAGACGTCAAGATGGAAGATGGAGAATTTTGgtaaagaattagatatccttccctggcacacccctctgtggaagttttct #### Capn1_ID1369_7 --> 0 - 2 Original Alignment GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGG-GGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACag ggggagtgtgttctgtctctgatgcaacatgctcttcttgactatcacagGTAACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGCGGTCCAGTAGAGTGGAGAGGTCCTTGGAGTGACaggtaagtgaatgcaagcagtttcgtggaaatggttttatgatcagactcct Alignment from CESAR GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGG-GGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACag ggggagtgtgttctgtctctgatgcaacatgctcttcttgactatcacagGTAACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGCGGTCCAGTAGAGTGGAGAGGTCCTTGGAGTGACaggtaagtgaatgcaagcagtttcgtggaaatggttttatgatcagactcct Alignment from Spaln_aa2Genome GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGG-GGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG ggggagtgtgttctgtctctgatgcaacatgctcttcttgactatcacagGTAACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGcGGTCCAGTAGAGTGGAGAGGTCCTTGGAGTGACAGgtaagtgaatgcaagcagtttcgtggaaatggttttatgatcagactcct Alignment from Spaln_nt2Genome GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGG-GGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG ggggagtgtgttctgtctctgatgcaacatgctcttcttgactatcacagGTAACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGCGGTCCAGTAGAGTGGAGAGGTCCTTGGAGTGACAGgtaagtgaatgcaagcagtttcgtggaaatggttttatgatcagactcct Alignment from Pairagon GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGG-GGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG ggggagtgtgttctgtctctgatgcaacatgctcttcttgactatcacagGTAACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGCGGTCCAGTAGAGTGGAGAGGTCCTTGGAGTGACAGgtaagtgaatgcaagcagtttcgtggaaatggttttatgatcagactcct Alignment from Exonerate_protein2genome GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGG-GGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG ggggagtgtgttctgtctctgatgcaacatgctcttcttgactatcacagGTAACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGCGGTCCAGTAGAGTGGAGAGGTCCTTGGAGTGACAGgtaagtgaatgcaagcagtttcgtggaaatggttttatgatcagactcct Alignment from Exonerate_coding2genome ggggagtgtgttctgtctctgatgcaacatgctcttcttgactatcacaggtaacctatcagggcccacgagtgaaccttattcgtatgtggaattcctggcggtccagtagagtggagaggtccttggagtgacaggtaagtgaatgcaagcagtttcgtggaaatggttttatgatcagactcct Alignment from GeneWise GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGG-GGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG ggggagtgtgttctgtctctgatgcaacatgctcttcttgactatcacagGTAACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGCGGTCCAGTAGAGTGGAGAGGTCCTTGGAGTGACAGgtaagtgaatgcaagcagtttcgtggaaatggttttatgatcagactcct #### Carns1_ID387_5 --> 0 - 1 Original Alignment GTGGCTGTGAGGCTCAGT-GGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAg gtgtatgtgtagtggtaattgtgtagagcctgactccacctttccctcagGTGGCAGCAAGACTCAGTCGGCTGCCACTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTGGTGATGATGGTACTAGGATTATTGAAGAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTGCCCTTGCCAggtaagctgtaatgtcaactcaaagcccaaactgccttaattagatgcatt Alignment from CESAR GTGGCTGTGAGGCTCAGT-GGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAg gtgtatgtgtagtggtaattgtgtagagcctgactccacctttccctcagGTGGCAGCAAGACTCAGTCGGCTGCCACTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTGGTGATGATGGTACTAGGATTATTGAAGAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTGCCCTTGCCAggtaagctgtaatgtcaactcaaagcccaaactgccttaattagatgcatt Alignment from Spaln_aa2Genome GTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG gtgtatgtgtagtggtaattgtgtagagcctgactccacctttccctcaggtggcagCAAGACTCAGTCGGCTGCCACTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTGGTGATGATGGTACTAGGATTATTGAAGAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTGCCCTTGCCAGgtaagctgtaatgtcaactcaaagcccaaactgccttaattagatgcatt Alignment from Spaln_nt2Genome GTGGCTGTGAGGCTCAGT-GGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG gtgtatgtgtagtggtaattgtgtagagcctgactccacctttccctcagGTGGCAGCAAGACTCAGTCGGCTGCCACTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTGGTGATGATGGTACTAGGATTATTGAAGAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTGCCCTTGCCAGgtaagctgtaatgtcaactcaaagcccaaactgccttaattagatgcatt Alignment from Pairagon GTGGCTGTGAGGCTCAGT-GGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG gtgtatgtgtagtggtaattgtgtagagcctgactccacctttccctcagGTGGCAGCAAGACTCAGTCGGCTGCCACTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTGGTGATGATGGTACTAGGATTATTGAAGAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTGCCCTTGCCAGgtaagctgtaatgtcaactcaaagcccaaactgccttaattagatgcatt Alignment from Exonerate_protein2genome GTGGCTGTGAGGCTCAGT-GGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG gtgtatgtgtagtggtaattgtgtagagcctgactccacctttccctcagGTGGCAGCAAGACTCAGTCGGCTGCCACTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTGGTGATGATGGTACTAGGATTATTGAAGAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTGCCCTTGCCAGgtaagctgtaatgtcaactcaaagcccaaactgccttaattagatgcatt Alignment from Exonerate_coding2genome GTGGCTGTGAGGCTCAGT-GGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG gtgtatgtgtagtggtaattgtgtagagcctgactccacctttccctcagGTGGCAGCAAGACTCAGTCGGCTGCCACTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTGGTGATGATGGTACTAGGATTATTGAAGAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTGCCCTTGCCAGgtaagctgtaatgtcaactcaaagcccaaactgccttaattagatgcatt Alignment from GeneWise GTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG gtgtatgtgtagtggtaattgtgtagagcctgactccacctttccctcaggtggcagCAAGACTCAGTCGGCTGCCACTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTGGTGATGATGGTACTAGGATTATTGAAGAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTGCCCTTGCCAGgtaagctgtaatgtcaactcaaagcccaaactgccttaattagatgcatt #### Carns1_ID389_3 --> 2 - 1 Original Alignment gcTGCCCTGGGGCAGAGGTGACCTTGTGC-ATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTg ggagtaacagtatggaggatatgacaggtatttcctgctgtctttcataggcTGCCCTGGGGCGGAAGTCACCTTGTGTCGTTCTAGGTTCCCTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTCCAAAGCCCTggtggggtattgcttctataataccctaccttctcctacaaaattggaaca Alignment from CESAR gcTGCCCTGGGGCAGAGGTGACCTTGTGC-ATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTg ggagtaacagtatggaggatatgacaggtatttcctgctgtctttcataggcTGCCCTGGGGCGGAAGTCACCTTGTGTCGTTCTAGGTTCCCTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTCCAAAGCCCTggtggggtattgcttctataataccctaccttctcctacaaaattggaaca Alignment from Spaln_aa2Genome GCTGCCCTGGGGCAGAGGTGACCTTGTGC-ATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG ggagtaacagtatggaggatatgacaggtatttcctgctgtctttcatagGCTGCCCTGGGGCGGAAGTCACCTTGTGTcGTTCTAGGTTCCCTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTCCAAAGCCCTGgtggggtattgcttctataataccctaccttctcctacaaaattggaaca Alignment from Spaln_nt2Genome GCTGCCCTGGGGCAGAGGTGACCTTGTG-CATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG ggagtaacagtatggaggatatgacaggtatttcctgctgtctttcatagGCTGCCCTGGGGCGGAAGTCACCTTGTGTCGTTCTAGGTTCCCTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTCCAAAGCCCTGgtggggtattgcttctataataccctaccttctcctacaaaattggaaca Alignment from Pairagon GCTGCCCTGGGGCAGAGGTGACCTTGTG-CATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG ggagtaacagtatggaggatatgacaggtatttcctgctgtctttcatagGCTGCCCTGGGGCGGAAGTCACCTTGTGTCGTTCTAGGTTCCCTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTCCAAAGCCCTGgtggggtattgcttctataataccctaccttctcctacaaaattggaaca Alignment from Exonerate_protein2genome GCTGCCCTGGGGCAGAGGTGACCTTGTGC-ATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG ggagtaacagtatggaggatatgacaggtatttcctgctgtctttcatagGCTGCCCTGGGGCGGAAGTCACCTTGTGTCGTTCTAGGTTCCCTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTCCAAAGCCCTGgtggggtattgcttctataataccctaccttctcctacaaaattggaaca Alignment from Exonerate_coding2genome GCTGCCCTGGGGCAGAGGTGACCTTGTGC-ATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG ggagtaacagtatggaggatatgacaggtatttcctgctgtctttcatagGCTGCCCTGGGGCGGAAGTCACCTTGTGTCGTTCTAGGTTCCCTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTCCAAAGCCCTGgtggggtattgcttctataataccctaccttctcctacaaaattggaaca Alignment from GeneWise GCTGCCCTGGGGCAGAGGTGACCTTGTGC-ATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG ggagtaacagtatggaggatatgacaggtatttcctgctgtctttcatagGCTGCCCTGGGGCGGAAGTCACCTTGTGTCGTTCTAGGTTCCCTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTCCAAAGCCCTGgtggggtattgcttctataataccctaccttctcctacaaaattggaaca #### Catsper1_ID929_6 --> 2 - 1 Original Alignment tcCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCC-CTCATCTACATAGACAACAGGGCCCAAg gcGCCT ttggactttctcttggttatgttgaatggcttggctttcttctctttcagtcCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAATGTCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCCTTATCTACATAGAGAACAGGGCCCAAggtgggctaacctaaggctacagcagttttacgttttctgtttagctGCCT Alignment from CESAR tcCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCC-CTCATCTACATAGACAACAGGGCCCAAg gcGCCT ttggactttctcttggttatgttgaatggcttggctttcttctctttcagtcCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAATGTCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCCTTATCTACATAGAGAACAGGGCCCAAggtgggctaacctaaggctacagacttgctcctcttcttttgtagctGCCT Alignment from Spaln_aa2Genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCC-CTCATCTACATAGACAACAGGGCCCAAG GCGCCT ttggactttctcttggttatgttgaatggcttggctttcttctctttcagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAATGTCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCcCTTATCTACATAGAGAACAGGGCCCAAGgtgggctaacctaaggctacagcagttttacgttttctgtttagCTGCCT Alignment from Spaln_nt2Genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCC-TCATCTACATAGACAACAGGGCCCAAG GCGCCT ttggactttctcttggttatgttgaatggcttggctttcttctctttcagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAATGTCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCCTTATCTACATAGAGAACAGGGCCCAAGgtgggctaacctaaggctacagcagttttacgttttctgtttagCTGCCT Alignment from Pairagon TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGT-CCCTCATCTACATAGACAACAGGGCCCAAGG--------------------------------------------CGCCT ttggactttctcttggttatgttgaatggcttggctttcttctctttcagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAATGTCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCCTTATCTACATAGAGAACAGGGCCCAAGGTGGGCTAACCTAAGGCTACAGCAGTTTTACGTTTTCTGTTTAGCTGCCT Alignment from Exonerate_protein2genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCC-CTCATCTACATAGACAACAGGGCCCAAG GCGCCT ttggactttctcttggttatgttgaatggcttggctttcttctctttcagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAATGTCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCCTTATCTACATAGAGAACAGGGCCCAAGgtgggctaacctaaggctacagcagttttacgttttctgtttagCTGCCT Alignment from Exonerate_coding2genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCC-CTCATCTACATAGACAACAGGGCCCAAG GCGCCT ttggactttctcttggttatgttgaatggcttggctttcttctctttcagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAATGTCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCCTTATCTACATAGAGAACAGGGCCCAAGgtgggctaacctaaggctacagcagttttacgttttctgtttagCTGCCT Alignment from GeneWise TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAGGC---------------------------------------------------GCCT ttggactttctcttggttatgttgaatggcttggctttcttctctttcagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAATGTCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCC---CCTTATCTA---CATAGAGAACAGGGCCCAAGGTGGGCTAACCTAAGGCTACAGCAGTTTTACGTTTTCTGTTTAGCTGCCT #### Catsper1_ID931_8 --> 1 - 0 Original Alignment cCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTG-CTCAAAGGCCTAGAGAAAGTGAAGCTGGAG cattcctatactcagccccatttaggcagtcctcatgctgtgtcttgcagcCTAGTAATTGCAGCTCTAGTAGACAACTTCCTAATGGTCCTGCCTCAAAGGCCTGGAGAAAGTGAAGCTGGAAgtgagtacaatattgaagggtagataatcctgatgtgctgctcaaaggtg Alignment from CESAR cCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTG-CTCAAAGGCCTAGAGAAAGTGAAGCTGGAG cattcctatactcagccccatttaggcagtcctcatgctgtgtcttgcagcCTAGTAATTGCAGCTCTAGTAGACAACTTCCTAATGGTCCTGCCTCAAAGGCCTGGAGAAAGTGAAGCTGGAAgtgagtacaatattgaagggtagataatcctgatgtgctgctcaaaggtg Alignment from Spaln_aa2Genome CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTG-CTCAAAGGCCTAGAGAAAGTGAAGCTGGAG cattcctatactcagccccatttaggcagtcctcatgctgtgtcttgcagCCTAGTAATTGCAGCTCTAGTAGACAACTTCCTAATGGTCCTGcCTCAAAGGCCTGGAGAAAGTGAAGCTGGAAgtgagtacaatattgaagggtagataatcctgatgtgctgctcaaaggtg Alignment from Spaln_nt2Genome CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGC-TCAAAGGCCTAGAGAAAGTGAAGCTGGAG cattcctatactcagccccatttaggcagtcctcatgctgtgtcttgcagCCTAGTAATTGCAGCTCTAGTAGACAACTTCCTAATGGTCCTGCCTCAAAGGCCTGGAGAAAGTGAAGCTGGAAgtgagtacaatattgaagggtagataatcctgatgtgctgctcaaaggtg Alignment from Pairagon CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTG-CTCAAAGGCCTAGAGAAAGTGAAGCTGGAG cattcctatactcagccccatttaggcagtcctcatgctgtgtcttgcagCCTAGTAATTGCAGCTCTAGTAGACAACTTCCTAATGGTCCTGCCTCAAAGGCCTGGAGAAAGTGAAGCTGGAAgtgagtacaatattgaagggtagataatcctgatgtgctgctcaaaggtg Alignment from Exonerate_protein2genome CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTG-CTCAAAGGCCTAGAGAAAGTGAAGCTGGAG cattcctatactcagccccatttaggcagtcctcatgctgtgtcttgcagCCTAGTAATTGCAGCTCTAGTAGACAACTTCCTAATGGTCCTGCCTCAAAGGCCTGGAGAAAGTGAAGCTGGAAgtgagtacaatattgaagggtagataatcctgatgtgctgctcaaaggtg Alignment from Exonerate_coding2genome cattcctatactcagccccatttaggcagtcctcatgctgtgtcttgcagcctagtaattgcagctctagtagacaacttcctaatggtcctgcctcaaaggcctggagaaagtgaagctggaagtgagtacaatattgaagggtagataatcctgatgtgctgctcaaaggtg Alignment from GeneWise CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTG-CTCAAAGGCCTAGAGAAAGTGAAGCTGGAG cattcctatactcagccccatttaggcagtcctcatgctgtgtcttgcagCCTAGTAATTGCAGCTCTAGTAGACAACTTCCTAATGGTCCTGCCTCAAAGGCCTGGAGAAAGTGAAGCTGGAAgtgagtacaatattgaagggtagataatcctgatgtgctgctcaaaggtg #### Ccdc88b_ID1824_25 --> 2 - 1 Original Alignment ggTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGG-GCACCCAGTACCCACAGCAAAg gtcatgatgaccttgcctgatccatacattgattggcctcttctatccagggTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCTGGCGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTGTTGGACGAAGTCCAGCATCATTCAGTCCCAGC---ACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGCGCACTGAGTACCTACAGCAAAggtatatgctgttttactataatttgaatttccattgttttaagtggtcag Alignment from CESAR ggTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGG-GCACCCAGTACCCACAGCAAAg gtcatgatgaccttgcctgatccatacattgattggcctcttctatccagggTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCTGGCGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTGTTGGACGAAGTCCAGCATCATTCAGTCCCAGC---ACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGCGCACTGAGTACCTACAGCAAAggtatatgctgttttactataatttgaatttccattgttttaagtggtcag Alignment from Spaln_aa2Genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGC-CCCCTGGGGGCACCCAGTACCCACAGCAAAG gtcatgatgaccttgcctgatccatacattgattggcctcttctatccagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCTGGCGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTGTTGGACGAAGTCCAGCATCATTCAGTCCCAGC---ACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCcCCCTTGGGCGCACTGAGTACCTACAGCAAAGgtatatgctgttttactataatttgaatttccattgttttaagtggtcag Alignment from Spaln_nt2Genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGG-CCCCCTGGGGGCACCCAGTACCCACAGCAAAG gtcatgatgaccttgcctgatccatacattgattggcctcttctatccagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCTGGCGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTGTTGGACGAAGTCCAGCATCATTCAGTCCCAG---CACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGCGCACTGAGTACCTACAGCAAAGgtatatgctgttttactataatttgaatttccattgttttaagtggtcag Alignment from Pairagon GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCC-TGGGGGCACCCAGTACCCACAGCAAAG gtcatgatgaccttgcctgatccatacattgattggcctcttctatccagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCTGGCGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTGTTGGACGAAGTCCAGCATCATTCAGTCCCAG---CACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGCGCACTGAGTACCTACAGCAAAGgtatatgctgttttactataatttgaatttccattgttttaagtggtcag Alignment from Exonerate_protein2genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGC-CCCCTGGGGGCACCCAGTACCCACAGCAAAG gtcatgatgaccttgcctgatccatacattgattggcctcttctatccagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCTGGCGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTGTTGGACGAAGTCCAGCATCATTCAGTCCC---AGCACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGCGCACTGAGTACCTACAGCAAAGgtatatgctgttttactataatttgaatttccattgttttaagtggtcag Alignment from Exonerate_coding2genome gtcatgatgaccttgcctgatccatacattgattggcctcttctatccagggtcatcgtcaccagcacccatgcaccaaattgagagctccctttgcttgggagatgagaccctagctggcgggcagcgacggagtctcagttctcagttctctgttggacgaagtccagcatcattcagtcccagcacatcacggcaatggttcaaacagcaaaggccaggcccccttgggcgcactgagtacctacagcaaaggtatatgctgttttactataatttgaatttccattgttttaagtggtcag Alignment from GeneWise --TCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCA-CCCAGTACCCACAGCAAAG gtcatgatgaccttgcctgatccatacattgattggcctcttctatccagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCTGGCGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTGTTGGACGAAGTCCAGCATCATTCAGTCCC---AGCACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGCGCACTGAGTACCTACAGCAAAGgtatatgctgttttactataatttgaatttccattgttttaagtggtcag #### Ccdc88b_ID1829_20 --> 1 - 2 Original Alignment gCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAG-CGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGag ctcaaaaagctgatgcgccgatggtcagttctccttgttttacatcacagaCGTGGGCAGTTGCATGCCCAGCGGGCAAACGTTGAGGCTCAAGATGTAGCGCTGCTGGCAGAA---GAACCAATTGATGCAGGATGGGCAGTGCCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTTCATAATGAACATCAAaggtgaagttgttagctctggcctactctccccccctgccatagcattctca Alignment from CESAR gCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGag ctcaaaaagctgatgcgccgatggtcagttctccttgttttacatcacagaCGTGGGCAGTTGCATGCCCAGCGGGCAAACGTTGAGGCTCAAGATGTAGCGCTGCTGGCAG--AAGAACCAATTGATGCAGGATGGGCAGTGCCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTTCATAATGAACATCAAaggtgaagttgttagctctggcctactctccccccctgccatagcattctca Alignment from Spaln_aa2Genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagctgatgcgccgatggtcagttctccttgttttacatcacagACGTGGGCAGTTGCATGCCCAGCGGGCAAACGTTGAGGCTCAAGATGTAGCGCTGCTGGCAGAAG--AACCAATTGATGCAGGATGGGCAGTGCCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTTCATAATGAACATCAAAGgtgaagttgttagctctggcctactctccccccctgccatagcattctca Alignment from Spaln_nt2Genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagctgatgcgccgatggtcagttctccttgttttacatcacagACGTGGGCAGTTGCATGCCCAGCGGGCAAACGTTGAGGCTCAAGATGTAGCGCTGCTGGCAGA--AGAACCAATTGATGCAGGATGGGCAGTGCCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTTCATAATGAACATCAAAGgtgaagttgttagctctggcctactctccccccctgccatagcattctca Alignment from Pairagon GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCC---TGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagctgatgcgccgatggtcagttctccttgttttacatcacagACGTGGGCAGTTGCATGCCCAGCGGGCAAACGTTGAGGCTCAAGATGTAGCGCTGCTGGCAGA-----AGAACCAATTGATGCAGGATGGGCAGTGCCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTTCATAATGAACATCAAAGgtgaagttgttagctctggcctactctccccccctgccatagcattctca Alignment from Exonerate_protein2genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAG-CGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagctgatgcgccgatggtcagttctccttgttttacatcacagACGTGGGCAGTTGCATGCCCAGCGGGCAAACGTTGAGGCTCAAGATGTAGCGCTGCTGGCAGAA---GAACCAATTGATGCAGGATGGGCAGTGCCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTTCATAATGAACATCAAAGgtgaagttgttagctctggcctactctccccccctgccatagcattctca Alignment from Exonerate_coding2genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAG-CGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagctgatgcgccgatggtcagttctccttgttttacatcacagACGTGGGCAGTTGCATGCCCAGCGGGCAAACGTTGAGGCTCAAGATGTAGCGCTGCTGGCAGAA---GAACCAATTGATGCAGGATGGGCAGTGCCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTTCATAATGAACATCAAAGgtgaagttgttagctctggcctactctccccccctgccatagcattctca Alignment from GeneWise GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagctgatgcgccgatggtcagttctccttgttttacatcacagACGTGGGCAGTTGCATGCCCAGCGGGCAAACGTTGAGGCTCAAGATGTAGCGCTGCTGGCAGAAGAAC--CAATTGATGCAGGATGGGCAGTGCCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTTCATAATGAACATCAAAGgtgaagttgttagctctggcctactctccccccctgccatagcattctca #### Ccdc88b_ID1831_18 --> 0 - 0 Original Alignment AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTC-CTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gaggtaatagggctcacaacattaatataaatttccccccctctatgcagAATGCCACATTGGTGGCAGAGAAAGCGGCTCTGCAGGGACAATTGCAGCATCTTGAGGGACAGCTGGGGAGCCTACATGGCCGTGCACAGGAATTGCCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtatgtatgggttgtgttgtgcactttgagaaaatttattgatttcaatc Alignment from CESAR AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTC-CTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gaggtaatagggctcacaacattaatataaatttccccccctctatgcagAATGCCACATTGGTGGCAGAGAAAGCGGCTCTGCAGGGACAATTGCAGCATCTTGAGGGACAGCTGGGGAGCCTACATGGCCGTGCACAGGAATTGCCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtatgtatgggttgtgttgtgcactttgagaaaatttattgatttcaatc Alignment from Spaln_aa2Genome AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTC-CTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gaggtaatagggctcacaacattaatataaatttccccccctctatgcagAATGCCACATTGGTGGCAGAGAAAGCGGCTCTGCAGGGACAATTGCAGCATCTTGAGGGACAGCTGGGGAGCCTACATGGCCGTGCACAGGAATTGcCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtatgtatgggttgtgttgtgcactttgagaaaatttattgatttcaatc Alignment from Spaln_nt2Genome AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCT-CCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gaggtaatagggctcacaacattaatataaatttccccccctctatgcagAATGCCACATTGGTGGCAGAGAAAGCGGCTCTGCAGGGACAATTGCAGCATCTTGAGGGACAGCTGGGGAGCCTACATGGCCGTGCACAGGAATTGCCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtatgtatgggttgtgttgtgcactttgagaaaatttattgatttcaatc Alignment from Pairagon AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCT-CCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gaggtaatagggctcacaacattaatataaatttccccccctctatgcagAATGCCACATTGGTGGCAGAGAAAGCGGCTCTGCAGGGACAATTGCAGCATCTTGAGGGACAGCTGGGGAGCCTACATGGCCGTGCACAGGAATTGCCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtatgtatgggttgtgttgtgcactttgagaaaatttattgatttcaatc Alignment from Exonerate_protein2genome AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTC-CTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gaggtaatagggctcacaacattaatataaatttccccccctctatgcagAATGCCACATTGGTGGCAGAGAAAGCGGCTCTGCAGGGACAATTGCAGCATCTTGAGGGACAGCTGGGGAGCCTACATGGCCGTGCACAGGAATTGCCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtatgtatgggttgtgttgtgcactttgagaaaatttattgatttcaatc Alignment from Exonerate_coding2genome gaggtaatagggctcacaacattaatataaatttccccccctctatgcagaatgccacattggtggcagagaaagcggctctgcagggacaattgcagcatcttgagggacagctggggagcctacatggccgtgcacaggaattgccttctacagagtcaacgggctcaagagcacagtagttgcttgcaggtatgtatgggttgtgttgtgcactttgagaaaatttattgatttcaatc Alignment from GeneWise --------------------------------------------------AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAG-CTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG GAGGTAATAGGGCTCACAACATTAATATAAATTTCCCCCCCTCTATGCAGAATGCCACATTGGTGGCAGAGAAAGCGGCTCTGCAGGGACAATTGCAGCATCTTGAGGGACAGCTGGGGAGCCTACATGGCCGTGCACAGGAATTGCCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtatgtatgggttgtgttgtgcactttgagaaaatttattgatttcaatc #### Ccdc88b_ID1832_17 --> 0 - 0 Original Alignment CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGA---GCTGGGCCTCGGACTGTG-GAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT attgatgtggagggcaacaagctgttcctctgccttctgttctcccccagCTACATCAGTGCCCGGTG---CTT---GAAGGGGCACGGCGAGATGGACCTTGGGCTGCGCGAGACACAGAACGGGCAGCTTATTGTAGTAGAGCAAAATgtaaacaagaaggtgggggcctaccttagaggtaatagggctcacaacat Alignment from CESAR CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTG-GAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT attgatgtggagggcaacaagctgttcctctgccttctgttctcccccagCTACATCAGTGCCCGGTG---CTTGAAGGGGCACGGCGAGATGGACCTTGGGCTGCGCGAGACACAGAACGGGCAGCTTATTGTAGTAGAGCAAAATgtaaacaagaaggtgggggcctaccttagaggtaatagggctcacaacat Alignment from Spaln_aa2Genome CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTG-GAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT attgatgtggagggcaacaagctgttcctctgccttctgttctcccccagCTACATCAGTGCCCGGTG---CTTGAAGGGGCACGGCGAGATGGACCTTGGGCTGCGcGAGACACAGAACGGGCAGCTTATTGTAGTAGAGCAAAATgtaaacaagaaggtgggggcctaccttagaggtaatagggctcacaacat Alignment from Spaln_nt2Genome CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTG-GAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT attgatgtggagggcaacaagctgttcctctgccttctgttctcccccagCTACATCAGTGCCCGGTG---CTTGAAGGGGCACGGCGAGATGGACCTTGGGCTGCGCGAGACACAGAACGGGCAGCTTATTGTAGTAGAGCAAAATgtaaacaagaaggtgggggcctaccttagaggtaatagggctcacaacat Alignment from Pairagon CTGCGCCAGTACCCGGTGGACCTGGCAACT----GGGGC---GCGAGCTGGGCCTCGGACTGTG-GAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT attgatgtggagggcaacaagctgttcctctgccttctgttctcccccagCTACATCAGTGCCCGGTG----------CTTGAAGGGGCACGGCGAGATGGACCTTGGGCTGCGCGAGACACAGAACGGGCAGCTTATTGTAGTAGAGCAAAATgtaaacaagaaggtgggggcctaccttagaggtaatagggctcacaacat Alignment from Exonerate_protein2genome CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTG-GAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT attgatgtggagggcaacaagctgttcctctgccttctgttctcccccagCTACATCAGTGCCCGGTG---CTTGAAGGGGCACGGCGAGATGGACCTTGGGCTGCGCGAGACACAGAACGGGCAGCTTATTGTAGTAGAGCAAAATgtaaacaagaaggtgggggcctaccttagaggtaatagggctcacaacat Alignment from Exonerate_coding2genome attgatgtggagggcaacaagctgttcctctgccttctgttctcccccagctacatcagtgcccggtgcttgaaggggcacggcgagatggaccttgggctgcgcgagacacagaacgggcagcttattgtagtagagcaaaatgtaaacaagaaggtgggggcctaccttagaggtaatagggctcacaacat Alignment from GeneWise GCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCT---GGGCCTCGGACTGTGGAGAC attgatgtggagggcaacaagctgttcctctgccttctgttctcccccagctacatcagtgcccggtgcttgaaggggcacggcgagatggaccttgggctgcgcgagacacagaacgggcagcttattgtagTAGAGCAAAATGTAAACAAGAAGGTGGGGGCCTACCTTAGAGGTAATAGGGCTCACAACAT #### Ccdc88b_ID1833_16 --> 1 - 0 Original Alignment gTACCGG------CATCTGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAG-GCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG gagcagtaaagtctagttactacgttctaatgtgatttttgttttttcaggTATCAGTATCAGCATCTGGAGCAACGACTTGAAGCTGAGTTGCAAGCAGCATCTGCCAGTAAGGAACAGGCATTGATGGAGCTCAAGCGTGCAAGTCTTGCAGTTGGAGGAAGAGCTCATTGAGgtttgtccgcccaacttgaaagacaaccggcactggtaattcattaatca Alignment from CESAR g------TACCGGCATCTGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAG-GCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG gagcagtaaagtctagttactacgttctaatgtgatttttgttttttcaggTATCAGTATCAGCATCTGGAGCAACGACTTGAAGCTGAGTTGCAAGCAGCATCTGCCAGTAAGGAACAGGCATTGATGGAGCTCAAGCGTGCAAGTCTTGCAGTTGGAGGAAGAGCTCATTGAGgtttgtccgcccaacttgaaagacaaccggcactggtaattcattaatca Alignment from Spaln_aa2Genome G------TACCGGCATCTGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAG-GCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG gagcagtaaagtctagttactacgttctaatgtgatttttgttttttcagGTATCAGTATCAGCATCTGGAGCAACGACTTGAAGCTGAGTTGCAAGCAGCATCTGCCAGTAAGGAACAGGCATTGATGGAGCTCAAGcGTGCAAGTCTTGCAGTTGGAGGAAGAGCTCATTGAGgtttgtccgcccaacttgaaagacaaccggcactggtaattcattaatca Alignment from Spaln_nt2Genome GTACCGG------CATCTGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCT-CGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG gagcagtaaagtctagttactacgttctaatgtgatttttgttttttcagGTATCAGTATCAGCATCTGGAGCAACGACTTGAAGCTGAGTTGCAAGCAGCATCTGCCAGTAAGGAACAGGCATTGATGGAGCTCAAGCGTGCAAGTCTTGCAGTTGGAGGAAGAGCTCATTGAGgtttgtccgcccaacttgaaagacaaccggcactggtaattcattaatca Alignment from Pairagon ------GTACCGGCATCTGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAG-GCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG gagcagtaaagtctagttactacgttctaatgtgatttttgttttttcagGTATCAGTATCAGCATCTGGAGCAACGACTTGAAGCTGAGTTGCAAGCAGCATCTGCCAGTAAGGAACAGGCATTGATGGAGCTCAAGCGTGCAAGTCTTGCAGTTGGAGGAAGAGCTCATTGAGgtttgtccgcccaacttgaaagacaaccggcactggtaattcattaatca Alignment from Exonerate_protein2genome G------TACCGGCATCTGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAG-GCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG gagcagtaaagtctagttactacgttctaatgtgatttttgttttttcagGTATCAGTATCAGCATCTGGAGCAACGACTTGAAGCTGAGTTGCAAGCAGCATCTGCCAGTAAGGAACAGGCATTGATGGAGCTCAAGCGTGCAAGTCTTGCAGTTGGAGGAAGAGCTCATTGAGgtttgtccgcccaacttgaaagacaaccggcactggtaattcattaatca Alignment from Exonerate_coding2genome G------TACCGGCATCTGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAG-GCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAGCTG gagcagtaaagtctagttactacgttctaatgtgatttttgttttttcagGTATCAGTATCAGCATCTGGAGCAACGACTTGAAGCTGAGTTGCAAGCAGCATCTGCCAGTAAGGAACAGGCATTGATGGAGCTCAAGCGTGCAAGTCTTGCAGTTGGAGGAAGAGCTCATTGAGGTTtgtccgcccaacttgaaagacaaccggcactggtaattcattaatca Alignment from GeneWise ----AGGTACCGGCATCTGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAG-GCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG gagcagtaaagtctagttactacgttctaatgtgatttttgttttttcagGTATCAGTATCAGCATCTGGAGCAACGACTTGAAGCTGAGTTGCAAGCAGCATCTGCCAGTAAGGAACAGGCATTGATGGAGCTCAAGCGTGCAAGTCTTGCAGTTGGAGGAAGAGCTCATTGAGgtttgtccgcccaacttgaaagacaaccggcactggtaattcattaatca #### Ccdc88b_ID1838_11 --> 0 - 0 Original Alignment GAGGAGCGGGTCCTT-TCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taagtaccagagaggctcgacctctctagttttcttaaattattttgaagGAGAAGGAGGTCCTCCTCCCAAGCTGTAGAGGCTTCAACTGGCCTTCTTGAAGAACAGTTGGAGGTTGCACAGAAGCGTGCAGCAAGACTGCATGAGACCCAGAGAGAAAATCTCCTGGTGCGCACACGATTGGGGGAAACCCATGTGgtgacatgtaatgcaggttgcaaatggggaccatgacttaactctagttt Alignment from CESAR GAGGAGCGGGTCCTT-TCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taagtaccagagaggctcgacctctctagttttcttaaattattttgaagGAGAAGGAGGTCCTCCTCCCAAGCTGTAGAGGCTTCAACTGGCCTTCTTGAAGAACAGTTGGAGGTTGCACAGAAGCGTGCAGCAAGACTGCATGAGACCCAGAGAGAAAATCTCCTGGTGCGCACACGATTGGGGGAAACCCATGTGgtgacatgtaatgcaggttgcaaatggggaccatgacttaactctagttt Alignment from Spaln_aa2Genome GGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taagtaccagagaggctcgacctctctagttttcttaaattattttgaaggagaaggagGTCCTCCTCCCAAGCTGTAGAGGCTTCAACTGGCCTTCTTGAAGAACAGTTGGAGGTTGCACAGAAGCGTGCAGCAAGACTGCATGAGACCCAGAGAGAAAATCTCCTGGTGCGCACACGATTGGGGGAAACCCATGTGgtgacatgtaatgcaggttgcaaatggggaccatgacttaactctagttt Alignment from Spaln_nt2Genome GAGGAGCGGGTCCTT-TCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taagtaccagagaggctcgacctctctagttttcttaaattattttgaagGAGAAGGAGGTCCTCCTCCCAAGCTGTAGAGGCTTCAACTGGCCTTCTTGAAGAACAGTTGGAGGTTGCACAGAAGCGTGCAGCAAGACTGCATGAGACCCAGAGAGAAAATCTCCTGGTGCGCACACGATTGGGGGAAACCCATGTGgtgacatgtaatgcaggttgcaaatggggaccatgacttaactctagttt Alignment from Pairagon GAGGAGCGGGTCCT-TTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taagtaccagagaggctcgacctctctagttttcttaaattattttgaagGAGAAGGAGGTCCTCCTCCCAAGCTGTAGAGGCTTCAACTGGCCTTCTTGAAGAACAGTTGGAGGTTGCACAGAAGCGTGCAGCAAGACTGCATGAGACCCAGAGAGAAAATCTCCTGGTGCGCACACGATTGGGGGAAACCCATGTGgtgacatgtaatgcaggttgcaaatggggaccatgacttaactctagttt Alignment from Exonerate_protein2genome GAGGAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taagtaccagagaggctcgacctctctagttttcttaaattattttgaaggAGAAGGAGGTCCTCCTCCCAAGCTGTAGAGGCTTCAACTGGCCTTCTTGAAGAACAGTTGGAGGTTGCACAGAAGCGTGCAGCAAGACTGCATGAGACCCAGAGAGAAAATCTCCTGGTGCGCACACGATTGGGGGAAACCCATGTGgtgacatgtaatgcaggttgcaaatggggaccatgacttaactctagttt Alignment from Exonerate_coding2genome GAGGAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taagtaccagagaggctcgacctctctagttttcttaaattattttgaaggAGAAGGAGGTCCTCCTCCCAAGCTGTAGAGGCTTCAACTGGCCTTCTTGAAGAACAGTTGGAGGTTGCACAGAAGCGTGCAGCAAGACTGCATGAGACCCAGAGAGAAAATCTCCTGGTGCGCACACGATTGGGGGAAACCCATGTGgtgacatgtaatgcaggttgcaaatggggaccatgacttaactctagttt Alignment from GeneWise -CGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taagtaccagagaggctcgacctctctagttttcttaaattattttgaaggagaagGAGGTCCTCCTCCCAAGCTGTAGAGGCTTCAACTGGCCTTCTTGAAGAACAGTTGGAGGTTGCACAGAAGCGTGCAGCAAGACTGCATGAGACCCAGAGAGAAAATCTCCTGGTGCGCACACGATTGGGGGAAACCCATGTGgtgacatgtaatgcaggttgcaaatggggaccatgacttaactctagttt #### Ccdc88b_ID1839_10 --> 0 - 0 Original Alignment ACTCAGGCGCTGTCCGCACAAGCC-AAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG tctcggccctttgtcccctggttcattgtgatattctgcttttctcatagACTCAGGCGTTGTCTGCCCAAGCACAAGTGCACCGAACTCTGCTGTGAAGAAGCAGAGGCATTAGAA---GAGGCAGGTCACCTGCCCCACCTGCAGGAAGATCTCCGGCGATGTCGTGAGAAGCTTCAAGCAGCAGAAGTCTTCAAGGGTCATTTGGAAgtaggttggtccacacatgagccagagaaatgggtaacgtcaatgctgct Alignment from CESAR ACTCAGGCGCTGTCCGCACAAGCC-AAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG tctcggccctttgtcccctggttcattgtgatattctgcttttctcatagACTCAGGCGTTGTCTGCCCAAGCACAAGTGCACCGAACTCTGCTGTGAAGAAGCAGAGGCATTA---GAAGAGGCAGGTCACCTGCCCCACCTGCAGGAAGATCTCCGGCGATGTCGTGAGAAGCTTCAAGCAGCAGAAGTCTTCAAGGGTCATTTGGAAgtaggttggtccacacatgagccagagaaatgggtaacgtcaatgctgct Alignment from Spaln_aa2Genome ACTCAGGCGCTGTCCGCACAAGCC-AAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG tctcggccctttgtcccctggttcattgtgatattctgcttttctcatagACTCAGGCGTTGTCTGCCCAAGCAcAAGTGCACCGAACTCTGCTGTGAAGAAGCAGAGGCATTA---GAAGAGGCAGGTCACCTGCCCCACCTGCAGGAAGATCTCCGGCGATGTCGTGAGAAGCTTCAAGCAGCAGAAGTCTTCAAGGGTCATTTGGAAgtaggttggtccacacatgagccagagaaatgggtaacgtcaatgctgct Alignment from Spaln_nt2Genome ACTCAGGCGCTGTCCGCACAAGC-CAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG tctcggccctttgtcccctggttcattgtgatattctgcttttctcatagACTCAGGCGTTGTCTGCCCAAGCACAAGTGCACCGAACTCTGCTGTGAAGAAGCAGAGGCATT---AGAAGAGGCAGGTCACCTGCCCCACCTGCAGGAAGATCTCCGGCGATGTCGTGAGAAGCTTCAAGCAGCAGAAGTCTTCAAGGGTCATTTGGAAgtaggttggtccacacatgagccagagaaatgggtaacgtcaatgctgct Alignment from Pairagon ACTCAGGCGCTGTCCGCACAAGC-CAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG tctcggccctttgtcccctggttcattgtgatattctgcttttctcatagACTCAGGCGTTGTCTGCCCAAGCACAAGTGCACCGAACTCTGCTGTGAAGAAGCAGAGGCATT---AGAAGAGGCAGGTCACCTGCCCCACCTGCAGGAAGATCTCCGGCGATGTCGTGAGAAGCTTCAAGCAGCAGAAGTCTTCAAGGGTCATTTGGAAgtaggttggtccacacatgagccagagaaatgggtaacgtcaatgctgct Alignment from Exonerate_protein2genome ACTCAGGCGCTGTCCGCACAAGCC-AAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG tctcggccctttgtcccctggttcattgtgatattctgcttttctcatagACTCAGGCGTTGTCTGCCCAAGCACAAGTGCACCGAACTCTGCTGTGAAGAAGCAGAGGCATTA---GAAGAGGCAGGTCACCTGCCCCACCTGCAGGAAGATCTCCGGCGATGTCGTGAGAAGCTTCAAGCAGCAGAAGTCTTCAAGGGTCATTTGGAAgtaggttggtccacacatgagccagagaaatgggtaacgtcaatgctgct Alignment from Exonerate_coding2genome AGACTCAGGCGCTGTCCGCACAAGCC-AAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG tctcggccctttgtcccctggttcattgtgatattctgcttttctcatAGACTCAGGCGTTGTCTGCCCAAGCACAAGTGCACCGAACTCTGCTGTGAAGAAGCAGAGGCATTA---GAAGAGGCAGGTCACCTGCCCCACCTGCAGGAAGATCTCCGGCGATGTCGTGAGAAGCTTCAAGCAGCAGAAGTCTTCAAGGGTCATTTGGAAgtaggttggtccacacatgagccagagaaatgggtaacgtcaatgctgct Alignment from GeneWise ACTCAGGCGCTGTCCGCACAAGCCAAG-CGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG tctcggccctttgtcccctggttcattgtgatattctgcttttctcatagACTCAGGCGTTGTCTGCCCAAGCACAAGTGCACCGAACTCTGCTGTGAAGAAGCAGAGGCATTAGAAGAG---GCAGGTCACCTGCCCCACCTGCAGGAAGATCTCCGGCGATGTCGTGAGAAGCTTCAAGCAGCAGAAGTCTTCAAGGGTCATTTGGAAgtaggttggtccacacatgagccagagaaatgggtaacgtcaatgctgct #### Ccdc88b_ID1845_4 --> 0 - 1 Original Alignment GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGG-TGTGACCCCTTCTCAg acccagtggcacctagcccagacacatcgacctcggggctgtgctcgcagGAGGAGCTACAGCTTTTAATCTTATCTGCACCACCAGACCTCCAGCCTACAGGGCTGTGAACCCTTTTCAggtaagtgttctaacctcgtctaccatttgactcccatatataccctcatc Alignment from CESAR GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGG-TGTGACCCCTTCTCAg acccagtggcacctagcccagacacatcgacctcggggctgtgctcgcagGAGGAGCTACAGCTTTTAATCTTATCTGCACCACCAGACCTCCAGCCTACAGGGCTGTGAACCCTTTTCAggtaagtgttctaacctcgtctaccatttgactcccatatataccctcatc Alignment from Spaln_aa2Genome GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATG-GGGTGTGACCCCTTCTCAG acccagtggcacctagcccagacacatcgacctcggggctgtgctcgcagGAGGAGCTACAGCTTTTAATCTTATCTGCACCACCAGACCTCCAGCCTACAgGGCTGTGAACCCTTTTCAGgtaagtgttctaacctcgtctaccatttgactcccatatataccctcatc Alignment from Spaln_nt2Genome GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGG-TGTGACCCCTTCTCAG acccagtggcacctagcccagacacatcgacctcggggctgtgctcgcagGAGGAGCTACAGCTTTTAATCTTATCTGCACCACCAGACCTCCAGCCTACAGGGCTGTGAACCCTTTTCAGgtaagtgttctaacctcgtctaccatttgactcccatatataccctcatc Alignment from Pairagon GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGG-TGTGACCCCTTCTCAG acccagtggcacctagcccagacacatcgacctcggggctgtgctcgcagGAGGAGCTACAGCTTTTAATCTTATCTGCACCACCAGACCTCCAGCCTACAGGGCTGTGAACCCTTTTCAGgtaagtgttctaacctcgtctaccatttgactcccatatataccctcatc Alignment from Exonerate_protein2genome GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAG-ACAATGGGGTGTGACCCCTTCTCAG acccagtggcacctagcccagacacatcgacctcggggctgtgctcgcagGAGGAGCTACAGCTTTTAATCTTATCTGCACCACCAGACCTCCAGCCTACAGGGCTGTGAACCCTTTTCAGgtaagtgttctaacctcgtctaccatttgactcccatatataccctcatc Alignment from Exonerate_coding2genome acccagtggcacctagcccagacacatcgacctcggggctgtgctcgcaggaggagctacagcttttaatcttatctgcaccaccagacctccagcctacagggctgtgaacccttttcaggtaagtgttctaacctcgtctaccatttgactcccatatataccctcatc Alignment from GeneWise GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAG-ACAATGGGGTGTGACCCCTTCTCAG acccagtggcacctagcccagacacatcgacctcggggctgtgctcgcagGAGGAGCTACAGCTTTTAATCTTATCTGCACCACCAGACCTCCAGCCTACAGGGCTGTGAACCCTTTTCAGgtaagtgttctaacctcgtctaccatttgactcccatatataccctcatc #### Ccdc88b_ID1847_2 --> 0 - 2 Original Alignment GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAA-TCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCat ccccggtattgtgtgcttgcttccctactcacccttgactttatttttagGCTTTAGGTTTAGCTGGCCTTGTGGGGGATGCAGAAAAGCTCAGCAGGAGGAACTGAAGAGGATGAAGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGATGGAGCTTTACTTCTTCGGGTTTTGGAGATTatgtaagtgacacagtgaaatttaactatggatgtcggccaagaatggtagg Alignment from CESAR GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAA-TCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCat ccccggtattgtgtgcttgcttccctactcacccttgactttatttttagGCTTTAGGTTTAGCTGGCCTTGTGGGGGATGCAGAAAAGCTCAGCAGGAGGAACTGAAGAGGATGAAGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGATGGAGCTTTACTTCTTCGGGTTTTGGAGATTatgtaagtgacacagtgaaatttaactatggatgtcggccaagaatggtagg Alignment from Spaln_aa2Genome GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAA-TCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT ccccggtattgtgtgcttgcttccctactcacccttgactttatttttagGCTTTAGGTTTAGCTGGCCTTGTGGGGGATGCAGAAAAGcTCAGCAGGAGGAACTGAAGAGGATGAAGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGATGGAGCTTTACTTCTTCGGGTTTTGGAGATTATgtaagtgacacagtgaaatttaactatggatgtcggccaagaatggtagg Alignment from Spaln_nt2Genome GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAA-TCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT ccccggtattgtgtgcttgcttccctactcacccttgactttatttttagGCTTTAGGTTTAGCTGGCCTTGTGGGGGATGCAGAAAAGCTCAGCAGGAGGAACTGAAGAGGATGAAGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGATGGAGCTTTACTTCTTCGGGTTTTGGAGATTATgtaagtgacacagtgaaatttaactatggatgtcggccaagaatggtagg Alignment from Pairagon GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAA-TCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT ccccggtattgtgtgcttgcttccctactcacccttgactttatttttagGCTTTAGGTTTAGCTGGCCTTGTGGGGGATGCAGAAAAGCTCAGCAGGAGGAACTGAAGAGGATGAAGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGATGGAGCTTTACTTCTTCGGGTTTTGGAGATTATgtaagtgacacagtgaaatttaactatggatgtcggccaagaatggtagg Alignment from Exonerate_protein2genome GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAA-TCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT ccccggtattgtgtgcttgcttccctactcacccttgactttatttttagGCTTTAGGTTTAGCTGGCCTTGTGGGGGATGCAGAAAAGCTCAGCAGGAGGAACTGAAGAGGATGAAGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGATGGAGCTTTACTTCTTCGGGTTTTGGAGATTATgtaagtgacacagtgaaatttaactatggatgtcggccaagaatggtagg Alignment from Exonerate_coding2genome ccccggtattgtgtgcttgcttccctactcacccttgactttatttttaggctttaggtttagctggccttgtgggggatgcagaaaagctcagcaggaggaactgaagaggatgaagaggaagaggaggaagaaggagccctttgtacagaaaaaagatccctacggttgattgatggagctttacttcttcgggttttggagattatgtaagtgacacagtgaaatttaactatggatgtcggccaagaatggtagg Alignment from GeneWise GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAA-GAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT ccccggtattgtgtgcttgcttccctactcacccttgactttatttttagGCTTTAGGTTTAGCTGGCCTTGTGGGGGATGCAGAAAAGCTCAGCAGGAGGAACTGAAGAGGATGAAGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGATGGAGCTTTACTTCTTCGGGTTTTGGAGATTATgtaagtgacacagtgaaatttaactatggatgtcggccaagaatggtagg #### Ccnj_ID8043_4 --> 2 - 2 Original Alignment atTATGCCTTTCTAAATTATGCACCT-TCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGct tgcctaattaagtgttcaatactgtaggccccccttccatctccctgcagatTATGCATTTCTCAATTATGCACCCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCCAGGATTATACTTCGACTGTCTCCAACCTGGCCTACAAGACTACACTGTTTCACTGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGGAATGGTTATTGctgtgagtagagcctcataattgaaatcagactgctggaagcagctatgcag Alignment from CESAR atTATGCCTTTCTAAATTATGCA-CCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGct tgcctaattaagtgttcaatactgtaggccccccttccatctccctgcagatTATGCATTTCTCAATTATGCACCCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCCAGGATTATACTTCGACTGTCTCCAACCTGGCCTACAAGACTACACTGTTTCACTGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGGAATGGTTATTGctgtgagtagagcctcataattgaaatcagactgctggaagcagctatgcag Alignment from Spaln_aa2Genome ATTATGCCTTTCTAAATTATGCA-CCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT tgcctaattaagtgttcaatactgtaggccccccttccatctccctgcagATTATGCATTTCTCAATTATGCAcCCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCCAGGATTATACTTCGACTGTCTCCAACCTGGCCTACAAGACTACACTGTTTCACTGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGGAATGGTTATTGCTgtgagtagagcctcataattgaaatcagactgctggaagcagctatgcag Alignment from Spaln_nt2Genome ATTATGCCTTTCTAAATTATGCACCT-TCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT tgcctaattaagtgttcaatactgtaggccccccttccatctccctgcagATTATGCATTTCTCAATTATGCACCCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCCAGGATTATACTTCGACTGTCTCCAACCTGGCCTACAAGACTACACTGTTTCACTGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGGAATGGTTATTGCTgtgagtagagcctcataattgaaatcagactgctggaagcagctatgcag Alignment from Pairagon ATTATGCCTTTCTAAATTATGCA-CCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT tgcctaattaagtgttcaatactgtaggccccccttccatctccctgcagATTATGCATTTCTCAATTATGCACCCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCCAGGATTATACTTCGACTGTCTCCAACCTGGCCTACAAGACTACACTGTTTCACTGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGGAATGGTTATTGCTgtgagtagagcctcataattgaaatcagactgctggaagcagctatgcag Alignment from Exonerate_protein2genome ATTATGCCTTTCTAAATTATGCA-CCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT tgcctaattaagtgttcaatactgtaggccccccttccatctccctgcagATTATGCATTTCTCAATTATGCACCCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCCAGGATTATACTTCGACTGTCTCCAACCTGGCCTACAAGACTACACTGTTTCACTGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGGAATGGTTATTGCTgtgagtagagcctcataattgaaatcagactgctggaagcagctatgcag Alignment from Exonerate_coding2genome ATTATGCCTTTCTAAATTATGCA-CCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT tgcctaattaagtgttcaatactgtaggccccccttccatctccctgcagATTATGCATTTCTCAATTATGCACCCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCCAGGATTATACTTCGACTGTCTCCAACCTGGCCTACAAGACTACACTGTTTCACTGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGGAATGGTTATTGCTgtgagtagagcctcataattgaaatcagactgctggaagcagctatgcag Alignment from GeneWise ATTATGCCTTTCTAAATTATGCACCT-TCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT tgcctaattaagtgttcaatactgtaggccccccttccatctccctgcagATTATGCATTTCTCAATTATGCACCCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCCAGGATTATACTTCGACTGTCTCCAACCTGGCCTACAAGACTACACTGTTTCACTGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGGAATGGTTATTGCTgtgagtagagcctcataattgaaatcagactgctggaagcagctatgcag #### Cd274_ID6274_5 --> 2 - 1 Original Alignment tgAGAATGCTAGATGTGGAGAAATGTGGCGTTGAAGAT-ACAAGCTCAAAAAACCGAAATg gtttgtccttactaacattctaactcaccttttatatctgtgtattatagtgAGGATGCTGGAT---GAGAAATGCAGTGTTGAGCATCACAAGCTCAAAAAACCGGAATggtattgggatcaatgtacggaaattttggtgaccattataaaccagatta Alignment from CESAR tgAGAATGCTAGATGTGGAGAAATGTGGCGTTGAAGAT-ACAAGCTCAAAAAACCGAAATg gtttgtccttactaacattctaactcaccttttatatctgtgtattatagtgAGGATGCTGGAT---GAGAAATGCAGTGTTGAGCATCACAAGCTCAAAAAACCGGAATggtattgggatcaatgtacggaaattttggtgaccattataaaccagatta Alignment from Spaln_aa2Genome TGAGAATGCTAGATGTGGAGAAATGTGGCGTTGAAGAT-ACAAGCTCAAAAAACCGAAATG gtttgtccttactaacattctaactcaccttttatatctgtgtattatagTGAGGATGCTGGAT---GAGAAATGCAGTGTTGAGCATcACAAGCTCAAAAAACCGGAATGgtattgggatcaatgtacggaaattttggtgaccattataaaccagatta Alignment from Spaln_nt2Genome TGAGAATGCTAGATGTGGAGAAATGTGGCGTTGAAGAT-ACAAGCTCAAAAAACCGAAATG gtttgtccttactaacattctaactcaccttttatatctgtgtattatagTGAGGATGCTGGAT---GAGAAATGCAGTGTTGAGCATCACAAGCTCAAAAAACCGGAATGgtattgggatcaatgtacggaaattttggtgaccattataaaccagatta Alignment from Pairagon TGAGAATGCTAGATGTGGAGAAATGTGGCGTTGAAGAT-ACAAGCTCAAAAAACCGAAATG gtttgtccttactaacattctaactcaccttttatatctgtgtattatagTGAGGATGCTGGAT---GAGAAATGCAGTGTTGAGCATCACAAGCTCAAAAAACCGGAATGgtattgggatcaatgtacggaaattttggtgaccattataaaccagatta Alignment from Exonerate_protein2genome TGAGAATGCTAGATGTGGAGAAATGTGGCGTTGAAGAT-ACAAGCTCAAAAAACCGAAAT gtttgtccttactaacattctaactcaccttttatatctgtgtattatagTGAGGATGCTGGAT---GAGAAATGCAGTGTTGAGCATCACAAGCTCAAAAAACCGGAATggtattgggatcaatgtacggaaattttggtgaccattataaaccagatta Alignment from Exonerate_coding2genome gtttgtccttactaacattctaactcaccttttatatctgtgtattatagtgaggatgctggatgagaaatgcagtgttgagcatcacaagctcaaaaaaccggaatggtattgggatcaatgtacggaaattttggtgaccattataaaccagatta Alignment from GeneWise gtttgtccttactaacattctaactcaccttttatatctgtgtattatagtgaggatgctggatgagaaatgcagtgttgagcatcacaagctcaaaaaaccggaatggtattgggatcaatgtacggaaattttggtgaccattataaaccagatta #### Cdc42bpg_ID1576_6 --> 1 - 0 Original Alignment gGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGC-CACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaactagcttggaatcttcctggtagaGATGTGGAGCCAGACAATGTTCTA---AGCATGAATGGGCCAT---TGCTTGGCTGACTTTGGCACCTGCCTATGCCTCAACATCAATGCCAAGgtgtgaaaaccacctagaaattcgtagataagtataaagacatttagttg Alignment from CESAR gGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaactagcttggaatcttcctggtagaGATGTGGAGCCAGACAATGTT---CTAAGCATGAATGGGCCA--TTGCTTGGCTGACTTTGGCACCTGCCTATGCCTCAACATCAATGCCAAGgtgtgaaaaccacctagaaattcgtagataagtataaagacatttagttg Alignment from Spaln_aa2Genome GGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaactagcttggaatcttcctggtagAGATGTGGAGCCAGACAATGTT---CTAAGCATGAATGGGCCATTGC--TTGGCTGACTTTGGCACCTGCCTATGCCTCAACATCAATGCCAAGgtgtgaaaaccacctagaaattcgtagataagtataaagacatttagttg Alignment from Spaln_nt2Genome CATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaactagcttggaatcttcctggtagagatgtggagccagacaatgttctaagCATGAATGGGC-CAT-TGCTTGGCTGACTTTGGCACCTGCCTATGCCTCAACATCAATGCCAAGgtgtgaaaaccacctagaaattcgtagataagtataaagacatttagttg Alignment from Pairagon GGATGTGAAGCCTGACAA--------------------CATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaactagcttggaatcttcctggtagAGATGTGGAGCCAGACAATGTTCTAAGCATGAATGGGCCAT-------------------------TGCTTGGCTGACTTTGGCACCTGCCTATGCCTCAACATCAATGCCAAGgtgtgaaaaccacctagaaattcgtagataagtataaagacatttagttg Alignment from Exonerate_protein2genome GGATGTGAAGCCTGACAACATCCTGCTGGACATGAAT-GGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaactagcttggaatcttcctggtagAGATGTGGAGCCAGACAATGTT---CTAAGCATGAATGGGCCATTGC---TTGGCTGACTTTGGCACCTGCCTATGCCTCAACATCAATGCCAAGgtgtgaaaaccacctagaaattcgtagataagtataaagacatttagttg Alignment from Exonerate_coding2genome GGATGTGAAGCCTGACAACATCCTGCTGGACATGAAT-GGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaactagcttggaatcttcctggtagAGATGTGGAGCCAGACAATGTT---CTAAGCATGAATGGGCCATTGC---TTGGCTGACTTTGGCACCTGCCTATGCCTCAACATCAATGCCAAGgtgtgaaaaccacctagaaattcgtagataagtataaagacatttagttg Alignment from GeneWise ggacacacacatacttacaccaaagaactagcttggaatcttcctggtagagatgtggagccagacaatgttctaagcatgaatgggccattgcttggctgactttggcacctgcctatgcctcaacatcaatgccaaggtgtgaaaaccacctagaaattcgtagataagtataaagacatttagttg #### Cdc42bpg_ID1577_7 --> 0 - 0 Original Alignment GTGGATTCATCAGTCGCAGTTGGGACCCCG-GACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtggtacctcctctacctctctccactgactatttacttttcaccatagGTGGACTCATCCGTTCCGGTAGGAACTCCACGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTATGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGTATCTCTGGTAGAGACTTATGGGAAAATCATGAACCATGAGgtacagctggagggctcagtgaccctggtattgtgaaggtcatctttgta Alignment from CESAR GTGGATTCATCAGTCGCAGTTGGGACCCCG-GACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtggtacctcctctacctctctccactgactatttacttttcaccatagGTGGACTCATCCGTTCCGGTAGGAACTCCACGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTATGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGTATCTCTGGTAGAGACTTATGGGAAAATCATGAACCATGAGgtacagctggagggctcagtgaccctggtattgtgaaggtcatctttgta Alignment from Spaln_aa2Genome GTGGATTCATCAGTCGCAGTTGGGACCCCG-GACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtggtacctcctctacctctctccactgactatttacttttcaccatagGTGGACTCATCCGTTCCGGTAGGAACTCCAcGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTATGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGTATCTCTGGTAGAGACTTATGGGAAAATCATGAACCATGAGgtacagctggagggctcagtgaccctggtattgtgaaggtcatctttgta Alignment from Spaln_nt2Genome GTGGATTCATCAGTCGCAGTTGGGACCCCG-GACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtggtacctcctctacctctctccactgactatttacttttcaccatagGTGGACTCATCCGTTCCGGTAGGAACTCCACGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTATGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGTATCTCTGGTAGAGACTTATGGGAAAATCATGAACCATGAGgtacagctggagggctcagtgaccctggtattgtgaaggtcatctttgta Alignment from Pairagon GTGGATTCATCAGTCGCAGTTGGGACCCCG-GACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtggtacctcctctacctctctccactgactatttacttttcaccatagGTGGACTCATCCGTTCCGGTAGGAACTCCACGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTATGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGTATCTCTGGTAGAGACTTATGGGAAAATCATGAACCATGAGgtacagctggagggctcagtgaccctggtattgtgaaggtcatctttgta Alignment from Exonerate_protein2genome GTGGATTCATCAGTCGCAGTTGGGACCCCG-GACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtggtacctcctctacctctctccactgactatttacttttcaccatagGTGGACTCATCCGTTCCGGTAGGAACTCCACGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTATGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGTATCTCTGGTAGAGACTTATGGGAAAATCATGAACCATGAGgtacagctggagggctcagtgaccctggtattgtgaaggtcatctttgta Alignment from Exonerate_coding2genome GTGGATTCATCAGTCGCAGTTGGGACCCCG-GACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtggtacctcctctacctctctccactgactatttacttttcaccatagGTGGACTCATCCGTTCCGGTAGGAACTCCACGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTATGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGTATCTCTGGTAGAGACTTATGGGAAAATCATGAACCATGAGgtacagctggagggctcagtgaccctggtattgtgaaggtcatctttgta Alignment from GeneWise GTGGATTCATCAGTCGCAGTTGGGACCCCG-GACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtggtacctcctctacctctctccactgactatttacttttcaccatagGTGGACTCATCCGTTCCGGTAGGAACTCCACGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTATGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGTATCTCTGGTAGAGACTTATGGGAAAATCATGAACCATGAGgtacagctggagggctcagtgaccctggtattgtgaaggtcatctttgta #### Cdc42bpg_ID1578_8 --> 0 - 0 Original Alignment GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTT-GCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttgtagttaggtccctccattccatgctttatcttgttaaagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGAGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGGCTGGATGACTTCCACAAGCATGCTTTCTTCGAGGGGGTAGACTGGGAGAGACTCCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGATGATGACACCCTCAACCGCTCAgtgaggtgcagagactgtaattagacacattctttcacctaaaagaacac Alignment from CESAR GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTT-GCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttgtagttaggtccctccattccatgctttatcttgttaaagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGAGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGGCTGGATGACTTCCACAAGCATGCTTTCTTCGAGGGGGTAGACTGGGAGAGACTCCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGATGATGACACCCTCAACCGCTCAgtgaggtgcagagactgtaattagacacattctttcacctaaaagaacac Alignment from Spaln_aa2Genome GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTT-GCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttgtagttaggtccctccattccatgctttatcttgttaaagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGAGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGGCTGGATGACTTCCACAAGCATGCTTTCTTCGAGGGGGTAGACTGGGAGAGACTCcACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGATGATGACACCCTCAACCGCTCAgtgaggtgcagagactgtaattagacacattctttcacctaaaagaacac Alignment from Spaln_nt2Genome GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTG-CAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttgtagttaggtccctccattccatgctttatcttgttaaagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGAGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGGCTGGATGACTTCCACAAGCATGCTTTCTTCGAGGGGGTAGACTGGGAGAGACTCCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGATGATGACACCCTCAACCGCTCAgtgaggtgcagagactgtaattagacacattctttcacctaaaagaacac Alignment from Pairagon GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCT-TGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttgtagttaggtccctccattccatgctttatcttgttaaagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGAGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGGCTGGATGACTTCCACAAGCATGCTTTCTTCGAGGGGGTAGACTGGGAGAGACTCCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGATGATGACACCCTCAACCGCTCAgtgaggtgcagagactgtaattagacacattctttcacctaaaagaacac Alignment from Exonerate_protein2genome GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTT-GCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttgtagttaggtccctccattccatgctttatcttgttaaagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGAGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGGCTGGATGACTTCCACAAGCATGCTTTCTTCGAGGGGGTAGACTGGGAGAGACTCCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGATGATGACACCCTCAACCGCTCAgtgaggtgcagagactgtaattagacacattctttcacctaaaagaacac Alignment from Exonerate_coding2genome GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTT-GCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttgtagttaggtccctccattccatgctttatcttgttaaagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGAGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGGCTGGATGACTTCCACAAGCATGCTTTCTTCGAGGGGGTAGACTGGGAGAGACTCCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGATGATGACACCCTCAACCGCTCAgtgaggtgcagagactgtaattagacacattctttcacctaaaagaacac Alignment from GeneWise GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTT-GCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttgtagttaggtccctccattccatgctttatcttgttaaagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGAGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGGCTGGATGACTTCCACAAGCATGCTTTCTTCGAGGGGGTAGACTGGGAGAGACTCCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGATGATGACACCCTCAACCGCTCAgtgaggtgcagagactgtaattagacacattctttcacctaaaagaacac #### Cdc42bpg_ID1582_12 --> 2 - 0 Original Alignment agACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCA-AACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG gctgacagagtggggagtgattgcaactccacttctgtttttgttgacagagACTTTGAAAGACAGTGAGGCTTCTCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCACAACATTCAGTTACAGCAGGAGAAGGATCGCCTTCAACAGgtatggattgtgatgggaattatacagtgtgtcatttgtttatataaacc Alignment from CESAR agACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCA-AACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG gctgacagagtggggagtgattgcaactccacttctgtttttgttgacagagACTTTGAAAGACAGTGAGGCTTCTCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCACAACATTCAGTTACAGCAGGAGAAGGATCGCCTTCAACAGgtatggattgtgatgggaattatacagtgtgtcatttgtttatataaacc Alignment from Spaln_aa2Genome AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCA-AACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG gctgacagagtggggagtgattgcaactccacttctgtttttgttgacagAGACTTTGAAAGACAGTGAGGCTTCTCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCAcAACATTCAGTTACAGCAGGAGAAGGATCGCCTTCAACAGgtatggattgtgatgggaattatacagtgtgtcatttgtttatataaacc Alignment from Spaln_nt2Genome AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAA-ACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG gctgacagagtggggagtgattgcaactccacttctgtttttgttgacagAGACTTTGAAAGACAGTGAGGCTTCTCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCACAACATTCAGTTACAGCAGGAGAAGGATCGCCTTCAACAGgtatggattgtgatgggaattatacagtgtgtcatttgtttatataaacc Alignment from Pairagon AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCA-AACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG gctgacagagtggggagtgattgcaactccacttctgtttttgttgacagAGACTTTGAAAGACAGTGAGGCTTCTCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCACAACATTCAGTTACAGCAGGAGAAGGATCGCCTTCAACAGgtatggattgtgatgggaattatacagtgtgtcatttgtttatataaacc Alignment from Exonerate_protein2genome AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCA-AACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG gctgacagagtggggagtgattgcaactccacttctgtttttgttgacagAGACTTTGAAAGACAGTGAGGCTTCTCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCACAACATTCAGTTACAGCAGGAGAAGGATCGCCTTCAACAGgtatggattgtgatgggaattatacagtgtgtcatttgtttatataaacc Alignment from Exonerate_coding2genome AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCA-AACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG gctgacagagtggggagtgattgcaactccacttctgtttttgttgacagAGACTTTGAAAGACAGTGAGGCTTCTCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCACAACATTCAGTTACAGCAGGAGAAGGATCGCCTTCAACAGgtatggattgtgatgggaattatacagtgtgtcatttgtttatataaacc Alignment from GeneWise AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCA-AACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG gctgacagagtggggagtgattgcaactccacttctgtttttgttgacagAGACTTTGAAAGACAGTGAGGCTTCTCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCACAACATTCAGTTACAGCAGGAGAAGGATCGCCTTCAACAGgtatggattgtgatgggaattatacagtgtgtcatttgtttatataaacc #### Cdc42bpg_ID1584_14 --> 0 - 0 Original Alignment CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGA-CAATGTAAACAAGAATCTTCACAGGCCAAG gagctaagaaaatcatggtggtatcttctttgatcctgtctatgccctagCTTGAAGGACAGGTGACAACCCTAAGTGATGTGGTGACTCGGCTCCAGGGTCCGGTGTAAAGAAGAATCTTCA---GCAAAGgtaggtatggtgggtggtcttaatacagcagttgcctacctaaaaacctt Alignment from CESAR CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGA-CAATGTAAACAAGAATCTTCACAGGCCAAG gagctaagaaaatcatggtggtatcttctttgatcctgtctatgccctagCTTGAAGGACAGGTGACAACCCTAAGTGATGTGGTGACTCGGCTCCAGGGTCCGGTGTAAAGAAGAATCTTCA---GCAAAGgtaggtatggtgggtggtcttaatacagcagttgcctacctaaaaacctt Alignment from Spaln_aa2Genome CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAA gagctaagaaaatcatggtggtatcttctttgatcctgtctatgccctagCTTGAAGGACAGGTGACAACCCTAAGTGATGTGGTGACTCGGCTCCAGGGTCCGgtgtaaagaagaatcttcagcaaaggtaggtatggtgggtggtcttaatacagcagttgcctacctaaaaacctt Alignment from Spaln_nt2Genome CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAA-TGTAAACAAGAATCTTCACAGGCCAAG gagctaagaaaatcatggtggtatcttctttgatcctgtctatgccctagCTTGAAGGACAGGTGACAACCCTAAGTGATGTGGTGACTCGGCTCCAGGGTCCGGTGTAAAGAAGAATCTTCA---GCAAAGgtaggtatggtgggtggtcttaatacagcagttgcctacctaaaaacctt Alignment from Pairagon CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGG-ACAATGTAAACAAGAATCTTCACAGGCCAAG gagctaagaaaatcatggtggtatcttctttgatcctgtctatgccctagCTTGAAGGACAGGTGACAACCCTAAGTGATGTGGTGACTCGGCTCCAGGGTCCGGTGTAAAGAAGAATCTTCA---GCAAAGgtaggtatggtgggtggtcttaatacagcagttgcctacctaaaaacctt Alignment from Exonerate_protein2genome CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGA-CAATGTAAACAAGAATCTTCACAGGCCAAG gagctaagaaaatcatggtggtatcttctttgatcctgtctatgccctagCTTGAAGGACAGGTGACAACCCTAAGTGATGTGGTGACTCGGCTCCAGGGTCCGGTGTAAAGAAGAATCTTCA---GCAAAGgtaggtatggtgggtggtcttaatacagcagttgcctacctaaaaacctt Alignment from Exonerate_coding2genome CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGA-CAATGTAAACAAGAATCTTCACAGGCCAAG gagctaagaaaatcatggtggtatcttctttgatcctgtctatgccctagCTTGAAGGACAGGTGACAACCCTAAGTGATGTGGTGACTCGGCTCCAGGGTCCGGTGTAAAGAAGAATCTTCA---GCAAAGgtaggtatggtgggtggtcttaatacagcagttgcctacctaaaaacctt Alignment from GeneWise CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAA gagctaagaaaatcatggtggtatcttctttgatcctgtctatgccctagCTTGAAGGACAGGTGACAACCCTAAGTGATGTGGTGACTCGGCTCCAGGGTCCGgtgtaaagaagaatcttcagcaaaggtaggtatggtgggtggtcttaatacagcagttgcctacctaaaaacctt #### Cdc42bpg_ID1585_15 --> 0 - 2 Original Alignment ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAG-CTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAgg acaggcctgacttctcacaccagacccttgccgattttctctgtgtgcagACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGACTCCTGAGGGTCAGTCTCAAGAAACTCAACCTGAGGAAGGAAGTAGTAGGCCTAAGGGAGCAACTGGTGCATGCCTGCAGCCAAgggtaagtgcatggtacttgctgtcaggaattggcaaaatagaaatatcttt Alignment from CESAR ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAG-CTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAgg acaggcctgacttctcacaccagacccttgccgattttctctgtgtgcagACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGACTCCTGAGGGTCAGTCTCAAGAAACTCAACCTGAGGAAGGAAGTAGTAGGCCTAAGGGAGCAACTGGTGCATGCCTGCAGCCAAgggtaagtgcatggtacttgctgtcaggaattggcaaaatactcacaccctc Alignment from Spaln_aa2Genome ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAG-CTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG acaggcctgacttctcacaccagacccttgccgattttctctgtgtgcagACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGACTCCTGAGGGTCAGTCTCAAGAAACTCAAcCTGAGGAAGGAAGTAGTAGGCCTAAGGGAGCAACTGGTGCATGCCTGCAGCCAAGGgtaagtgcatggtacttgctgtcaggaattggcaaaatagaaatatcttt Alignment from Spaln_nt2Genome ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGC-TGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG acaggcctgacttctcacaccagacccttgccgattttctctgtgtgcagACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGACTCCTGAGGGTCAGTCTCAAGAAACTCAACCTGAGGAAGGAAGTAGTAGGCCTAAGGGAGCAACTGGTGCATGCCTGCAGCCAAGGgtaagtgcatggtacttgctgtcaggaattggcaaaatagaaatatcttt Alignment from Pairagon ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAG-CTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG acaggcctgacttctcacaccagacccttgccgattttctctgtgtgcagACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGACTCCTGAGGGTCAGTCTCAAGAAACTCAACCTGAGGAAGGAAGTAGTAGGCCTAAGGGAGCAACTGGTGCATGCCTGCAGCCAAGGgtaagtgcatggtacttgctgtcaggaattggcaaaatagaaatatcttt Alignment from Exonerate_protein2genome ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAG-CTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG acaggcctgacttctcacaccagacccttgccgattttctctgtgtgcagACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGACTCCTGAGGGTCAGTCTCAAGAAACTCAACCTGAGGAAGGAAGTAGTAGGCCTAAGGGAGCAACTGGTGCATGCCTGCAGCCAAGGgtaagtgcatggtacttgctgtcaggaattggcaaaatagaaatatcttt Alignment from Exonerate_coding2genome ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAG-CTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG acaggcctgacttctcacaccagacccttgccgattttctctgtgtgcagACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGACTCCTGAGGGTCAGTCTCAAGAAACTCAACCTGAGGAAGGAAGTAGTAGGCCTAAGGGAGCAACTGGTGCATGCCTGCAGCCAAGGgtaagtgcatggtacttgctgtcaggaattggcaaaatagaaatatcttt Alignment from GeneWise ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAG-CTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG acaggcctgacttctcacaccagacccttgccgattttctctgtgtgcagACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGACTCCTGAGGGTCAGTCTCAAGAAACTCAACCTGAGGAAGGAAGTAGTAGGCCTAAGGGAGCAACTGGTGCATGCCTGCAGCCAAGGgtaagtgcatggtacttgctgtcaggaattggcaaaatagaaatatcttt #### Cdc42bpg_ID1587_17 --> 0 - 2 Original Alignment CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACT-GAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCtg gaaaccattgggtaatgaggattaacattgtttttttctattcaatgcagTTGGCAGGTGAGCTGGAACTGGAGCTTCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTCGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGTtggtacatctacacagctgggtggcaccattgatactgtgggccccctcacc Alignment from CESAR CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACT-GAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCtg gaaaccattgggtaatgaggattaacattgtttttttctattcaatgcagTTGGCAGGTGAGCTGGAACTGGAGCTTCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTCGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGTtggtacatctacacagctgggtggcaccattgatactgtgggccctctgctt Alignment from Spaln_aa2Genome CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACT-GAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gaaaccattgggtaatgaggattaacattgtttttttctattcaatgcagTTGGCAGGTGAGCTGGAACTGGAGCTTCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTcGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGTTGgtacatctacacagctgggtggcaccattgatactgtgggccccctcacc Alignment from Spaln_nt2Genome CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACT-GAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gaaaccattgggtaatgaggattaacattgtttttttctattcaatgcagTTGGCAGGTGAGCTGGAACTGGAGCTTCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTCGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGTTGgtacatctacacagctgggtggcaccattgatactgtgggccccctcacc Alignment from Pairagon CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACT-GAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gaaaccattgggtaatgaggattaacattgtttttttctattcaatgcagTTGGCAGGTGAGCTGGAACTGGAGCTTCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTCGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGTTGgtacatctacacagctgggtggcaccattgatactgtgggccccctcacc Alignment from Exonerate_protein2genome ACGGCTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACT-GAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gaaaccattgggtaatgaggattaacattgtttttttctattcaatGCAGTTGGCAGGTGAGCTGGAACTGGAGCTTCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTCGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGTTGgtacatctacacagctgggtggcaccattgatactgtgggccccctcacc Alignment from Exonerate_coding2genome ACGGCTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACT-GAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gaaaccattgggtaatgaggattaacattgtttttttctattcaatGCAGTTGGCAGGTGAGCTGGAACTGGAGCTTCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTCGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGTTGgtacatctacacagctgggtggcaccattgatactgtgggccccctcacc Alignment from GeneWise CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAG-ACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gaaaccattgggtaatgaggattaacattgtttttttctattcaatgcagTTGGCAGGTGAGCTGGAACTGGAGCTTCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTCGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGTTGgtacatctacacagctgggtggcaccattgatactgtgggccccctcacc #### Cdc42bpg_ID1592_22 --> 0 - 0 Original Alignment AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCA-GAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGG taacacgtacgtagtggctaagtttttccaccattggaatttgctcctagAAAGACTTTGCTAAGGACCCAGGTAATTCAGCTGAGGGTCCAAGGTCTGGAGCAGAAGCACGAGCTTAGACCAGAGGGCCGGCGCAGTCTACGCATGGGTgtgaggtcataaccaactagaatagaactacaggggatttcctcattgac Alignment from CESAR AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCA-GAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGG taacacgtacgtagtggctaagtttttccaccattggaatttgctcctagAAAGACTTTGCTAAGGACCCAGGTAATTCAGCTGAGGGTCCAAGGTCTGGAGCAGAAGCACGAGCTTAGACCAGAGGGCCGGCGCAGTCTACGCATGGGTgtgaggtcataaccaactagaatagaactacaggggatttcctcattgac Alignment from Spaln_aa2Genome AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCA-GAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGG taacacgtacgtagtggctaagtttttccaccattggaatttgctcctagAAAGACTTTGCTAAGGACCCAGGTAATTCAGCTGAGGGTCCAAGGTCTGGAGCAGAAGCAcGAGCTTAGACCAGAGGGCCGGCGCAGTCTACGCATGGGTgtgaggtcataaccaactagaatagaactacaggggatttcctcattgac Alignment from Spaln_nt2Genome AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCA-GAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGG taacacgtacgtagtggctaagtttttccaccattggaatttgctcctagAAAGACTTTGCTAAGGACCCAGGTAATTCAGCTGAGGGTCCAAGGTCTGGAGCAGAAGCACGAGCTTAGACCAGAGGGCCGGCGCAGTCTACGCATGGGTgtgaggtcataaccaactagaatagaactacaggggatttcctcattgac Alignment from Pairagon AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCA-GAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGG taacacgtacgtagtggctaagtttttccaccattggaatttgctcctagAAAGACTTTGCTAAGGACCCAGGTAATTCAGCTGAGGGTCCAAGGTCTGGAGCAGAAGCACGAGCTTAGACCAGAGGGCCGGCGCAGTCTACGCATGGGTgtgaggtcataaccaactagaatagaactacaggggatttcctcattgac Alignment from Exonerate_protein2genome AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCA-GAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGG taacacgtacgtagtggctaagtttttccaccattggaatttgctcctagAAAGACTTTGCTAAGGACCCAGGTAATTCAGCTGAGGGTCCAAGGTCTGGAGCAGAAGCACGAGCTTAGACCAGAGGGCCGGCGCAGTCTACGCATGGGTgtgaggtcataaccaactagaatagaactacaggggatttcctcattgac Alignment from Exonerate_coding2genome AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCA-GAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGG taacacgtacgtagtggctaagtttttccaccattggaatttgctcctagAAAGACTTTGCTAAGGACCCAGGTAATTCAGCTGAGGGTCCAAGGTCTGGAGCAGAAGCACGAGCTTAGACCAGAGGGCCGGCGCAGTCTACGCATGGGTgtgaggtcataaccaactagaatagaactacaggggatttcctcattgac Alignment from GeneWise AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAA-GCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGG taacacgtacgtagtggctaagtttttccaccattggaatttgctcctagAAAGACTTTGCTAAGGACCCAGGTAATTCAGCTGAGGGTCCAAGGTCTGGAGCAGAAGCACGAGCTTAGACCAGAGGGCCGGCGCAGTCTACGCATGGGTgtgaggtcataaccaactagaatagaactacaggggatttcctcattgac #### Cdc42bpg_ID1595_25 --> 2 - 0 Original Alignment ccTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCA-CCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC atattatttaatgcatatacttgtgggtccttgtctgttgtacttctcagcaTGTGGTTATTTCTGTCATTCAGCCTGTGCCTCACAAACCCCTCCCTTGCCCCGTGCCCCCTGAACTCCTTCGTACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGACAGCCTATGAGGGCTTTTTGTCAgtgagttgggggggttgtttttcctccgcctttctcacagGTACGACAGC Alignment from CESAR ccTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCA-CCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC atattatttaatgcatatacttgtgggtccttgtctgttgtacttctcagcaTGTGGTTATTTCTGTCATTCAGCCTGTGCCTCACAAACCCCTCCCTTGCCCCGTGCCCCCTGAACTCCTTCGTACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGACAGCCTATGAGGGCTTTTTGTCAgtgagttgggggggttgttgccatttttgtttgtattcagGTACGACAGC Alignment from Spaln_aa2Genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCA-CCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC atattatttaatgcatatacttgtgggtccttgtctgttgtacttctcagCATGTGGTTATTTCTGTCATTCAGCCTGTGCCTCACAAACCCCTcCCTTGCCCCGTGCCCCCTGAACTCCTTCGTACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGACAGCCTATGAGGGCTTTTTGTCAgtgagttgggggggttgtttttcctccgcctttctcacagGTACGACAGC Alignment from Spaln_nt2Genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACC-TTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC atattatttaatgcatatacttgtgggtccttgtctgttgtacttctcagCATGTGGTTATTTCTGTCATTCAGCCTGTGCCTCACAAACCCCTCCCTTGCCCCGTGCCCCCTGAACTCCTTCGTACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGACAGCCTATGAGGGCTTTTTGTCAgtgagttgggggggttgtttttcctccgcctttctcacagGTACGACAGC Alignment from Pairagon CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCC-ACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC atattatttaatgcatatacttgtgggtccttgtctgttgtacttctcagCATGTGGTTATTTCTGTCATTCAGCCTGTGCCTCACAAACCCCTCCCTTGCCCCGTGCCCCCTGAACTCCTTCGTACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGACAGCCTATGAGGGCTTTTTGTCAgtgagttgggggggttgtttttcctccgcctttctcacagGTACGACAGC Alignment from Exonerate_protein2genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCA-CCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC atattatttaatgcatatacttgtgggtccttgtctgttgtacttctcagCATGTGGTTATTTCTGTCATTCAGCCTGTGCCTCACAAACCCCTCCCTTGCCCCGTGCCCCCTGAACTCCTTCGTACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGACAGCCTATGAGGGCTTTTTGTCAgtgagttgggggggttgtttttcctccgcctttctcacagGTACGACAGC Alignment from Exonerate_coding2genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCA-CCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC atattatttaatgcatatacttgtgggtccttgtctgttgtacttctcagCATGTGGTTATTTCTGTCATTCAGCCTGTGCCTCACAAACCCCTCCCTTGCCCCGTGCCCCCTGAACTCCTTCGTACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGACAGCCTATGAGGGCTTTTTGTCAgtgagttgggggggttgtttttcctccgcctttctcacagGTACGACAGC Alignment from GeneWise CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCA-CCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC atattatttaatgcatatacttgtgggtccttgtctgttgtacttctcagCATGTGGTTATTTCTGTCATTCAGCCTGTGCCTCACAAACCCCTCCCTTGCCCCGTGCCCCCTGAACTCCTTCGTACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGACAGCCTATGAGGGCTTTTTGTCAgtgagttgggggggttgtttttcctccgcctttctcacagGTACGACAGC #### Cdc42bpg_ID1596_26 --> 0 - 2 Original Alignment CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAG-GCCTTGGATCTAag CTTTTTGTCAgtgagttgggggggttgttgccatttttgtttgtattcagGTACGACAGCCATCATGTGTTCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGTAGCCTAGCAAGTGGCATCCTTCTTCAGCGCCTTAGATCTAaggtcagagcaggcccagaggacatagggagcccacagcacatcagaaccct Alignment from CESAR CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAG-GCCTTGGATCTAag CTTTTTGTCAgtgagttgggggggttgttgccatttttgtttgtattcagGTACGACAGCCATCATGTGTTCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGTAGCCTAGCAAGTGGCATCCTTCTTCAGCGCCTTAGATCTAaggtcagagcaggcccagaggacatagggagcccacagcacatcagaaccct Alignment from Spaln_aa2Genome CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAG-GCCTTGGATCTAAG CTTTTTGTCAgtgagttgggggggttgttgccatttttgtttgtattcagGTACGACAGCCATCATGTGTTCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGTAGCCTAGCAAGTGGCATCCTTCTTCAGcGCCTTAGATCTAAGgtcagagcaggcccagaggacatagggagcccacagcacatcagaaccct Alignment from Spaln_nt2Genome CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAG-GCCTTGGATCTAAG CTTTTTGTCAgtgagttgggggggttgttgccatttttgtttgtattcagGTACGACAGCCATCATGTGTTCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGTAGCCTAGCAAGTGGCATCCTTCTTCAGCGCCTTAGATCTAAGgtcagagcaggcccagaggacatagggagcccacagcacatcagaaccct Alignment from Pairagon CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAG-GCCTTGGATCTAAG CTTTTTGTCAgtgagttgggggggttgttgccatttttgtttgtattcagGTACGACAGCCATCATGTGTTCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGTAGCCTAGCAAGTGGCATCCTTCTTCAGCGCCTTAGATCTAAGgtcagagcaggcccagaggacatagggagcccacagcacatcagaaccct Alignment from Exonerate_protein2genome CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAG-GCCTTGGATCTAAG CTTTTTGTCAgtgagttgggggggttgttgccatttttgtttgtattcagGTACGACAGCCATCATGTGTTCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGTAGCCTAGCAAGTGGCATCCTTCTTCAGCGCCTTAGATCTAAGgtcagagcaggcccagaggacatagggagcccacagcacatcagaaccct Alignment from Exonerate_coding2genome CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAG-GCCTTGGATCTAAG CTTTTTGTCAgtgagttgggggggttgttgccatttttgtttgtattcagGTACGACAGCCATCATGTGTTCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGTAGCCTAGCAAGTGGCATCCTTCTTCAGCGCCTTAGATCTAAGgtcagagcaggcccagaggacatagggagcccacagcacatcagaaccct Alignment from GeneWise CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAG-GCCTTGGATCTAAG CTTTTTGTCAgtgagttgggggggttgttgccatttttgtttgtattcagGTACGACAGCCATCATGTGTTCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGTAGCCTAGCAAGTGGCATCCTTCTTCAGCGCCTTAGATCTAAGgtcagagcaggcccagaggacatagggagcccacagcacatcagaaccct #### Cdc42bpg_ID1597_27 --> 1 - 0 Original Alignment gGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCAT-GCCCAATCCAAGGACCTGCCACGTATCTTCAGG agtgatgggcgaacaaccaacagtgatcccttttgaaattactcatacaggGACCCCCAATTTTCAGTGACTCCTGACTTGGCCCCAGATGTCATTCATCGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtagagaaactaggtgatataggatatagcctccacaggcttgagcttgc Alignment from CESAR gGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCAT-GCCCAATCCAAGGACCTGCCACGTATCTTCAGG agtgatgggcgaacaaccaacagtgatcccttttgaaattactcatacaggGACCCCCAATTTTCAGTGACTCCTGACTTGGCCCCAGATGTCATTCATCGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtagagaaactaggtgatataggatatagcctccacaggcttgagcttgc Alignment from Spaln_aa2Genome GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCAT-GCCCAATCCAAGGACCTGCCACGTATCTTCAGG agtgatgggcgaacaaccaacagtgatcccttttgaaattactcatacagGGACCCCCAATTTTCAGTGACTCCTGACTTGGCCCCAGATGTCATTCATcGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtagagaaactaggtgatataggatatagcctccacaggcttgagcttgc Alignment from Spaln_nt2Genome GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCAT-GCCCAATCCAAGGACCTGCCACGTATCTTCAGG agtgatgggcgaacaaccaacagtgatcccttttgaaattactcatacagGGACCCCCAATTTTCAGTGACTCCTGACTTGGCCCCAGATGTCATTCATCGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtagagaaactaggtgatataggatatagcctccacaggcttgagcttgc Alignment from Pairagon GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCAT-GCCCAATCCAAGGACCTGCCACGTATCTTCAGG agtgatgggcgaacaaccaacagtgatcccttttgaaattactcatacagGGACCCCCAATTTTCAGTGACTCCTGACTTGGCCCCAGATGTCATTCATCGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtagagaaactaggtgatataggatatagcctccacaggcttgagcttgc Alignment from Exonerate_protein2genome GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCAT-GCCCAATCCAAGGACCTGCCACGTATCTTCAGG agtgatgggcgaacaaccaacagtgatcccttttgaaattactcatacagGGACCCCCAATTTTCAGTGACTCCTGACTTGGCCCCAGATGTCATTCATCGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtagagaaactaggtgatataggatatagcctccacaggcttgagcttgc Alignment from Exonerate_coding2genome GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCAT-GCCCAATCCAAGGACCTGCCACGTATCTTCAGG agtgatgggcgaacaaccaacagtgatcccttttgaaattactcatacagGGACCCCCAATTTTCAGTGACTCCTGACTTGGCCCCAGATGTCATTCATCGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtagagaaactaggtgatataggatatagcctccacaggcttgagcttgc Alignment from GeneWise GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCAT-GCCCAATCCAAGGACCTGCCACGTATCTTCAGG agtgatgggcgaacaaccaacagtgatcccttttgaaattactcatacagGGACCCCCAATTTTCAGTGACTCCTGACTTGGCCCCAGATGTCATTCATCGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtagagaaactaggtgatataggatatagcctccacaggcttgagcttgc #### Cdc42bpg_ID1602_32 --> 0 - 1 Original Alignment GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAG-GTCCGCCTGACCTACCTCAGGAATCCATTGGCAg tggttgtcaaattagtacattgagtggagatgcttacctacgctccacagGTGAGACCCCTCAATCCAGAAGGCTCATTATTCCTTTATGGTACTGAAAAACCTCCGCCTGACTTACCTCAGAAACCCACTGGCAagtgagtgtacacaatgccaactggctgttatagctataagtgaacagcta Alignment from CESAR GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAG-GTCCGCCTGACCTACCTCAGGAATCCATTGGCAg tggttgtcaaattagtacattgagtggagatgcttacctacgctccacagGTGAGACCCCTCAATCCAGAAGGCTCATTATTCCTTTATGGTACTGAAAAACCTCCGCCTGACTTACCTCAGAAACCCACTGGCAagtgagtgtacacaatgccaactggctgttatagctataagtgaacagcta Alignment from Spaln_aa2Genome GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAG-GTCCGCCTGACCTACCTCAGGAATCCATTGGCAG tggttgtcaaattagtacattgagtggagatgcttacctacgctccacagGTGAGACCCCTCAATCCAGAAGGCTCATTATTCCTTTATGGTACTGAAAAAcCTCCGCCTGACTTACCTCAGAAACCCACTGGCAAgtgagtgtacacaatgccaactggctgttatagctataagtgaacagcta Alignment from Spaln_nt2Genome GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGG-TCCGCCTGACCTACCTCAGGAATCCATTGGCAG tggttgtcaaattagtacattgagtggagatgcttacctacgctccacagGTGAGACCCCTCAATCCAGAAGGCTCATTATTCCTTTATGGTACTGAAAAACCTCCGCCTGACTTACCTCAGAAACCCACTGGCAAgtgagtgtacacaatgccaactggctgttatagctataagtgaacagcta Alignment from Pairagon GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAG-GTCCGCCTGACCTACCTCAGGAATCCATTGGCAG tggttgtcaaattagtacattgagtggagatgcttacctacgctccacagGTGAGACCCCTCAATCCAGAAGGCTCATTATTCCTTTATGGTACTGAAAAACCTCCGCCTGACTTACCTCAGAAACCCACTGGCAAgtgagtgtacacaatgccaactggctgttatagctataagtgaacagcta Alignment from Exonerate_protein2genome GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAG-GTCCGCCTGACCTACCTCAGGAATCCATTGGCAG tggttgtcaaattagtacattgagtggagatgcttacctacgctccacagGTGAGACCCCTCAATCCAGAAGGCTCATTATTCCTTTATGGTACTGAAAAACCTCCGCCTGACTTACCTCAGAAACCCACTGGCAAgtgagtgtacacaatgccaactggctgttatagctataagtgaacagcta Alignment from Exonerate_coding2genome GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAG-GTCCGCCTGACCTACCTCAGGAATCCATTGGCAG tggttgtcaaattagtacattgagtggagatgcttacctacgctccacagGTGAGACCCCTCAATCCAGAAGGCTCATTATTCCTTTATGGTACTGAAAAACCTCCGCCTGACTTACCTCAGAAACCCACTGGCAAgtgagtgtacacaatgccaactggctgttatagctataagtgaacagcta Alignment from GeneWise GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAG-GTCCGCCTGACCTACCTCAGGAATCCATTGGCAG tggttgtcaaattagtacattgagtggagatgcttacctacgctccacagGTGAGACCCCTCAATCCAGAAGGCTCATTATTCCTTTATGGTACTGAAAAACCTCCGCCTGACTTACCTCAGAAACCCACTGGCAAgtgagtgtacacaatgccaactggctgttatagctataagtgaacagcta #### Cdc42bpg_ID1603_33 --> 2 - 2 Original Alignment agAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGAT-GAGCTGCGACAGCAGCAGCGCag gctgttatagctataagtgaacagctacagttggttggattggatttcagaaAAAGATGAGTTTGAGATTCCTGACCTGACA---AACAGCCGGCGACAACTCTTCCGGAGCAAGAGTAAGCGCCGTTTCTTCTTCCGTGTGACTGACCGAGCTGCAACAGCAACAGCGTaggtaagatgctatattacagacctggctgatggttcaaggattttctattt Alignment from CESAR agAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGAT-GAGCTGCGACAGCAGCAGCGCag gctgttatagctataagtgaacagctacagttggttggattggatttcagaaAAAGATGAGTTTGAGATTCCTGACCTGACA---AACAGCCGGCGACAACTCTTCCGGAGCAAGAGTAAGCGCCGTTTCTTCTTCCGTGTGACTGACCGAGCTGCAACAGCAACAGCGTaggtaagatgctatattacagacctggctgatggttcaaggattttctattt Alignment from Spaln_aa2Genome AGAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGAT-GAGCTGCGACAGCAGCAGCGCAG gctgttatagctataagtgaacagctacagttggttggattggatttcagAAAAAGATGAGTTTGAGATTCCTGACCTGACA---AACAGCCGGCGACAACTCTTCCGGAGCAAGAGTAAGCGCCGTTTCTTCTTCCGTGTGACTGACcGAGCTGCAACAGCAACAGCGTAGgtaagatgctatattacagacctggctgatggttcaaggattttctattt Alignment from Spaln_nt2Genome AGAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGAT-GAGCTGCGACAGCAGCAGCGCAG gctgttatagctataagtgaacagctacagttggttggattggatttcagAAAAAGATGAGTTTGAGATTCCTGACCTGAC---AAACAGCCGGCGACAACTCTTCCGGAGCAAGAGTAAGCGCCGTTTCTTCTTCCGTGTGACTGACCGAGCTGCAACAGCAACAGCGTAGgtaagatgctatattacagacctggctgatggttcaaggattttctattt Alignment from Pairagon AGAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGA-TGAGCTGCGACAGCAGCAGCGCAG gctgttatagctataagtgaacagctacagttggttggattggatttcagAAAAAGATGAGTTTGAGATTCCTGACCTGACA---AACAGCCGGCGACAACTCTTCCGGAGCAAGAGTAAGCGCCGTTTCTTCTTCCGTGTGACTGACCGAGCTGCAACAGCAACAGCGTAGgtaagatgctatattacagacctggctgatggttcaaggattttctattt Alignment from Exonerate_protein2genome AGAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGAT-GAGCTGCGACAGCAGCAGCGCAG gctgttatagctataagtgaacagctacagttggttggattggatttcagAAAAAGATGAGTTTGAGATTCCTGACCTGACA---AACAGCCGGCGACAACTCTTCCGGAGCAAGAGTAAGCGCCGTTTCTTCTTCCGTGTGACTGACCGAGCTGCAACAGCAACAGCGTAGgtaagatgctatattacagacctggctgatggttcaaggattttctattt Alignment from Exonerate_coding2genome AGAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGAT-GAGCTGCGACAGCAGCAGCGCAG gctgttatagctataagtgaacagctacagttggttggattggatttcagAAAAAGATGAGTTTGAGATTCCTGACCTGACA---AACAGCCGGCGACAACTCTTCCGGAGCAAGAGTAAGCGCCGTTTCTTCTTCCGTGTGACTGACCGAGCTGCAACAGCAACAGCGTAGgtaagatgctatattacagacctggctgatggttcaaggattttctattt Alignment from GeneWise AGAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGAT-GAGCTGCGACAGCAGCAGCGCAG gctgttatagctataagtgaacagctacagttggttggattggatttcagAAAAAGATGAGTTTGAGATTCCTGACCTGACA---AACAGCCGGCGACAACTCTTCCGGAGCAAGAGTAAGCGCCGTTTCTTCTTCCGTGTGACTGACCGAGCTGCAACAGCAACAGCGTAGgtaagatgctatattacagacctggctgatggttcaaggattttctattt #### Cdc42bpg_ID1604_34 --> 1 - 0 Original Alignment gGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAG-GGAAGGCCCAACACCAGGGATGGGACCCGG caccaataactaattgtcagctatttatctgatgttttgtgttgttttaggGAGATGCTGAAAGACCCCTTCGTGCGGTTCAAATTCATTTCACCACCGACCAACTTAATTCACCTGGTTCATGTGGGGCATACAGAGCGGGAGGTCCAACACTAGGGATGGGACCCGTgtaaccctggagcaggagatcactagacctgtcacaaagcttcaatcatg Alignment from CESAR gGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAG-GGAAGGCCCAACACCAGGGATGGGACCCGG caccaataactaattgtcagctatttatctgatgttttgtgttgttttaggGAGATGCTGAAAGACCCCTTCGTGCGGTTCAAATTCATTTCACCACCGACCAACTTAATTCACCTGGTTCATGTGGGGCATACAGAGCGGGAGGTCCAACACTAGGGATGGGACCCGTgtaaccctggagcaggagatcactagacctgtcacaaagcttcaatcatg Alignment from Spaln_aa2Genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAG-GGAAGGCCCAACACCAGGGATGGGACCCGG caccaataactaattgtcagctatttatctgatgttttgtgttgttttagGGAGATGCTGAAAGACCCCTTCGTGCGGTTCAAATTCATTTCACCACCGACCAACTTAATTCACCTGGTTCATGTGGGGCATACAGAGcGGGAGGTCCAACACTAGGGATGGGACCCGTgtaaccctggagcaggagatcactagacctgtcacaaagcttcaatcatg Alignment from Spaln_nt2Genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAG-GGAAGGCCCAACACCAGGGATGGGACCCGG caccaataactaattgtcagctatttatctgatgttttgtgttgttttagGGAGATGCTGAAAGACCCCTTCGTGCGGTTCAAATTCATTTCACCACCGACCAACTTAATTCACCTGGTTCATGTGGGGCATACAGAGCGGGAGGTCCAACACTAGGGATGGGACCCGTgtaaccctggagcaggagatcactagacctgtcacaaagcttcaatcatg Alignment from Pairagon GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAG-GGAAGGCCCAACACCAGGGATGGGACCCGG caccaataactaattgtcagctatttatctgatgttttgtgttgttttagGGAGATGCTGAAAGACCCCTTCGTGCGGTTCAAATTCATTTCACCACCGACCAACTTAATTCACCTGGTTCATGTGGGGCATACAGAGCGGGAGGTCCAACACTAGGGATGGGACCCGTgtaaccctggagcaggagatcactagacctgtcacaaagcttcaatcatg Alignment from Exonerate_protein2genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAG-GGAAGGCCCAACACCAGGGATGGGACCCGG caccaataactaattgtcagctatttatctgatgttttgtgttgttttagGGAGATGCTGAAAGACCCCTTCGTGCGGTTCAAATTCATTTCACCACCGACCAACTTAATTCACCTGGTTCATGTGGGGCATACAGAGCGGGAGGTCCAACACTAGGGATGGGACCCGTgtaaccctggagcaggagatcactagacctgtcacaaagcttcaatcatg Alignment from Exonerate_coding2genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAG-GGAAGGCCCAACACCAGGGATGGGACCCGG caccaataactaattgtcagctatttatctgatgttttgtgttgttttagGGAGATGCTGAAAGACCCCTTCGTGCGGTTCAAATTCATTTCACCACCGACCAACTTAATTCACCTGGTTCATGTGGGGCATACAGAGCGGGAGGTCCAACACTAGGGATGGGACCCGTgtaaccctggagcaggagatcactagacctgtcacaaagcttcaatcatg Alignment from GeneWise GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACG-GAGGGAAGGCCCAACACCAGGGATGGGACCCGG caccaataactaattgtcagctatttatctgatgttttgtgttgttttagGGAGATGCTGAAAGACCCCTTCGTGCGGTTCAAATTCATTTCACCACCGACCAACTTAATTCACCTGGTTCATGTGGGGCATACAGAGCGGGAGGTCCAACACTAGGGATGGGACCCGTgtaaccctggagcaggagatcactagacctgtcacaaagcttcaatcatg #### Cdc42bpg_ID1605_35 --> 0 - 1 Original Alignment GCTCAGGAACAGAAG-AGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAt atgcaagagtttccatgcagtctgctccttcacgtgccaatctttaccagGCCCAGGAACAAAAGCAGCAGTGGTGCCTGTAGCTCTGGACCACAACGGCCTCACAGCTTCTTAAAAGCATTGCGGCGGCCAGTGTCAACAGACAGTGATCGTCCCCCAGGACAAACAGACCCTtgtgtgtattagggatagttctcagtggcaaattcctgcttgtttttcctt Alignment from CESAR GCTCAGGAACAGAAG-AGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAt atgcaagagtttccatgcagtctgctccttcacgtgccaatctttaccagGCCCAGGAACAAAAGCAGCAGTGGTGCCTGTAGCTCTGGACCACAACGGCCTCACAGCTTCTTAAAAGCATTGCGGCGGCCAGTGTCAACAGACAGTGATCGTCCCCCAGGACAAACAGACCCTtgtgtgtattagggatagttctcagtggcaaattcctgcttgtttttcctt Alignment from Spaln_aa2Genome -GAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT atgcaagagtttccatgcagtctgctccttcacgtgccaatctttaccaggcccagGAACAAAAGCAGCAGTGGTGCCTGTAGCTCTGGACCACAACGGCCTCACAGCTTCTTAAAAGCATTGCGGCGGCCAGTGTCAACAGACAGTGATCGTCCCCCAGGACAAACAGACCCTTgtgtgtattagggatagttctcagtggcaaattcctgcttgtttttcctt Alignment from Spaln_nt2Genome GCTCAGGAACAGAAG-AGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT atgcaagagtttccatgcagtctgctccttcacgtgccaatctttaccagGCCCAGGAACAAAAGCAGCAGTGGTGCCTGTAGCTCTGGACCACAACGGCCTCACAGCTTCTTAAAAGCATTGCGGCGGCCAGTGTCAACAGACAGTGATCGTCCCCCAGGACAAACAGACCCTTgtgtgtattagggatagttctcagtggcaaattcctgcttgtttttcctt Alignment from Pairagon GCTCAGGAACAGAAG-AGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT atgcaagagtttccatgcagtctgctccttcacgtgccaatctttaccagGCCCAGGAACAAAAGCAGCAGTGGTGCCTGTAGCTCTGGACCACAACGGCCTCACAGCTTCTTAAAAGCATTGCGGCGGCCAGTGTCAACAGACAGTGATCGTCCCCCAGGACAAACAGACCCTTgtgtgtattagggatagttctcagtggcaaattcctgcttgtttttcctt Alignment from Exonerate_protein2genome GCTCAGGAACAGAAG-AGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT atgcaagagtttccatgcagtctgctccttcacgtgccaatctttaccagGCCCAGGAACAAAAGCAGCAGTGGTGCCTGTAGCTCTGGACCACAACGGCCTCACAGCTTCTTAAAAGCATTGCGGCGGCCAGTGTCAACAGACAGTGATCGTCCCCCAGGACAAACAGACCCTTgtgtgtattagggatagttctcagtggcaaattcctgcttgtttttcctt Alignment from Exonerate_coding2genome GCTCAGGAACAGAAG-AGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT atgcaagagtttccatgcagtctgctccttcacgtgccaatctttaccagGCCCAGGAACAAAAGCAGCAGTGGTGCCTGTAGCTCTGGACCACAACGGCCTCACAGCTTCTTAAAAGCATTGCGGCGGCCAGTGTCAACAGACAGTGATCGTCCCCCAGGACAAACAGACCCTTgtgtgtattagggatagttctcagtggcaaattcctgcttgtttttcctt Alignment from GeneWise GCTCAGGAACAGAAGAGC-AGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT atgcaagagtttccatgcagtctgctccttcacgtgccaatctttaccagGCCCAGGAACAAAAGCAGCAGTGGTGCCTGTAGCTCTGGACCACAACGGCCTCACAGCTTCTTAAAAGCATTGCGGCGGCCAGTGTCAACAGACAGTGATCGTCCCCCAGGACAAACAGACCCTTgtgtgtattagggatagttctcagtggcaaattcctgcttgtttttcctt #### Cdk2ap2_ID298_2 --> 2 - 0 Original Alignment ccGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCC-TCCATGGGGTATGTACAG caatctaaaagtctgtgatgaacccctgaccccttgccctctgacctcagctGGTAGTGTCCCATTACCATCAGGCTCAGTACCAGGGGCTGCTGCTCCTTTCAGACCA---TTCAATGACTTTGGTCCTCCCCTCCATGGGTTATGTTCAAgtgagtttgctcaaggggttactcaaggatgtagggcccaaacccctatt Alignment from CESAR ccGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCG-CCCTCCATGGGGTATGTACAG caatctaaaagtctgtgatgaacccctgaccccttgccctctgacctcagctGGTAGTGTCCCATTACCATCAGGCTCAGTACCAGGGGCTGCTGCTCCTTTCAGACCA---TTCAATGACTTTGGTCCTCCCCTCCATGGGTTATGTTCAAgtgagtttgctcaaggggttactcaaggatgtagggcccaaacccctatt Alignment from Spaln_aa2Genome CCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCG-CCCTCCATGGGGTATGTACAG caatctaaaagtctgtgatgaacccctgaccccttgccctctgacctcagCTGGTAGTGTCCCATTACCATCAGGCTCAGTACCAGGGGCTGCTGCTCCTTTCAGACCA---TTCAATGACTTTGGTCCTcCCCTCCATGGGTTATGTTCAAgtgagtttgctcaaggggttactcaaggatgtagggcccaaacccctatt Alignment from Spaln_nt2Genome CCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCC-TCCATGGGGTATGTACAG caatctaaaagtctgtgatgaacccctgaccccttgccctctgacctcagCTGGTAGTGTCCCATTACCATCAGGCTCAGTACCAGGGGCTGCTGCTCCTTTCAGACC---ATTCAATGACTTTGGTCCTCCCCTCCATGGGTTATGTTCAAgtgagtttgctcaaggggttactcaaggatgtagggcccaaacccctatt Alignment from Pairagon CCTACAGCCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCC-GCCCTCCATGGGGTATGTACAG caatctaaaagtctgtgatgaacccctgaccccttgccctctgacctcag-------CTGGTAGTGTCCCATTACCATCAGGCTCAGTACCAGGGGCTGCTGCTCCTTTCAGACC---ATTCAATGACTTTGGTCCTCCCCTCCATGGGTTATGTTCAAgtgagtttgctcaaggggttactcaaggatgtagggcccaaacccctatt Alignment from Exonerate_protein2genome CCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCG-CCCTCCATGGGGTATGTACAG caatctaaaagtctgtgatgaacccctgaccccttgccctctgacctcagCTGGTAGTGTCCCATTACCATCAGGCTCAGTACCAGGGGCTGCTGCTCCTTTCAGACCA---TTCAATGACTTTGGTCCTCCCCTCCATGGGTTATGTTCAAgtgagtttgctcaaggggttactcaaggatgtagggcccaaacccctatt Alignment from Exonerate_coding2genome CCGGTCCCTACAGCCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCG-CCCTCCATGGGGTATGTACAG caatctaaaagtctgtgatgaacccctgaccccttgcCCTCTGACCTCAGCTGGTAGTGTCCCATTACCATCAGGCTCAGTACCAGGGGCTGCTGCTCCTTTCAGACCA---TTCAATGACTTTGGTCCTCCCCTCCATGGGTTATGTTCAAgtgagtttgctcaaggggttactcaaggatgtagggcccaaacccctatt Alignment from GeneWise CCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATG-- caatctaaaagtctgtgatgaacccctgaccccttgccctctgacctcagCTGGTAGTGTCCCATTACCATCAGGCTCAGTACCAGGGGCTGCTGCTCCTTTCAGACCA---TTCAATGACTTTGGTCCTCCCCTCCATGGgttatgttcaagtgagtttgctcaaggggttactcaaggatgtagggcccaaacccctatt #### Cep78_ID3982_4 --> 2 - 0 Original Alignment ttATTTGTCAAGGTATAAAGAACTCTGTCACTCTCAAGACCGTCAACTTTACAGGGTGTAATCTGACATGGCAAGGA-GCCTGTCATATGGCCAAGATCTTAAAG tgtcggcttgagacaaaggttgacaacttcacactctctttccttgccagttATCTGTCAAGGCATAAAAAATTCTGTTGCTCTTAAAACTGTCAATTTTACAGGGTGTAATCGAACATGGCAAGGACGCCTGTCATATGGCCAAGATCATAAAAgtaagaaatgttctaattcagtgttactgcagttcatgtactgacaagac Alignment from CESAR ttATTTGTCAAGGTATAAAGAACTCTGTCACTCTCAAGACCGTCAACTTTACAGGGTGTAATCTGACATGGCAAGGA-GCCTGTCATATGGCCAAGATCTTAAAG tgtcggcttgagacaaaggttgacaacttcacactctctttccttgccagttATCTGTCAAGGCATAAAAAATTCTGTTGCTCTTAAAACTGTCAATTTTACAGGGTGTAATCGAACATGGCAAGGACGCCTGTCATATGGCCAAGATCATAAAAgtaagaaatgttctaattcagtgttactgcagttcatgtactgacaagac Alignment from Spaln_aa2Genome TTATTTGTCAAGGTATAAAGAACTCTGTCACTCTCAAGACCGTCAACTTTACAGGGTGTAATCTGACATGGCAAGGA-GCCTGTCATATGGCCAAGATCTTAAAG tgtcggcttgagacaaaggttgacaacttcacactctctttccttgccagTTATCTGTCAAGGCATAAAAAATTCTGTTGCTCTTAAAACTGTCAATTTTACAGGGTGTAATCGAACATGGCAAGGAcGCCTGTCATATGGCCAAGATCATAAAAgtaagaaatgttctaattcagtgttactgcagttcatgtactgacaagac Alignment from Spaln_nt2Genome TTATTTGTCAAGGTATAAAGAACTCTGTCACTCTCAAGACCGTCAACTTTACAGGGTGTAATCTGACATGGCAAGGA-GCCTGTCATATGGCCAAGATCTTAAAG tgtcggcttgagacaaaggttgacaacttcacactctctttccttgccagTTATCTGTCAAGGCATAAAAAATTCTGTTGCTCTTAAAACTGTCAATTTTACAGGGTGTAATCGAACATGGCAAGGACGCCTGTCATATGGCCAAGATCATAAAAgtaagaaatgttctaattcagtgttactgcagttcatgtactgacaagac Alignment from Pairagon TTATTTGTCAAGGTATAAAGAACTCTGTCACTCTCAAGACCGTCAACTTTACAGGGTGTAATCTGACATGGCAAGGA-GCCTGTCATATGGCCAAGATCTTAAAG tgtcggcttgagacaaaggttgacaacttcacactctctttccttgccagTTATCTGTCAAGGCATAAAAAATTCTGTTGCTCTTAAAACTGTCAATTTTACAGGGTGTAATCGAACATGGCAAGGACGCCTGTCATATGGCCAAGATCATAAAAgtaagaaatgttctaattcagtgttactgcagttcatgtactgacaagac Alignment from Exonerate_protein2genome TTATTTGTCAAGGTATAAAGAACTCTGTCACTCTCAAGACCGTCAACTTTACAGGGTGTAATCTGACATGGCAAGGA-GCCTGTCATATGGCCAAGATCTTAAAG tgtcggcttgagacaaaggttgacaacttcacactctctttccttgccagTTATCTGTCAAGGCATAAAAAATTCTGTTGCTCTTAAAACTGTCAATTTTACAGGGTGTAATCGAACATGGCAAGGACGCCTGTCATATGGCCAAGATCATAAAAgtaagaaatgttctaattcagtgttactgcagttcatgtactgacaagac Alignment from Exonerate_coding2genome TTATTTGTCAAGGTATAAAGAACTCTGTCACTCTCAAGACCGTCAACTTTACAGGGTGTAATCTGACATGGCAAGGA-GCCTGTCATATGGCCAAGATCTTAAAG tgtcggcttgagacaaaggttgacaacttcacactctctttccttgccagTTATCTGTCAAGGCATAAAAAATTCTGTTGCTCTTAAAACTGTCAATTTTACAGGGTGTAATCGAACATGGCAAGGACGCCTGTCATATGGCCAAGATCATAAAAgtaagaaatgttctaattcagtgttactgcagttcatgtactgacaagac Alignment from GeneWise TTATTTGTCAAGGTATAAAGAACTCTGTCACTCTCAAGACCGTCAACTTTACAGGGTGTAATCTGACATGGCAAGGA-GCCTGTCATATGGCCAAGATCTTAAAG tgtcggcttgagacaaaggttgacaacttcacactctctttccttgccagTTATCTGTCAAGGCATAAAAAATTCTGTTGCTCTTAAAACTGTCAATTTTACAGGGTGTAATCGAACATGGCAAGGACGCCTGTCATATGGCCAAGATCATAAAAgtaagaaatgttctaattcagtgttactgcagttcatgtactgacaagac #### Chuk_ID8920_8 --> 1 - 2 Original Alignment gCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTA-CCTCAGCCAAACAGCCTTTGTag ggggtatggttcttggatgcattacgctaccctacctcttctcttcctaggCATGAGGAGATTAAGAAGAAAGATCCAAAATGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCCTCAGCCAAACAGCCTTTGTaggtgagtgatgcttagagtctttgggaatatgccccttatctattcatagt Alignment from CESAR gCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTA-CCTCAGCCAAACAGCCTTTGTag ggggtatggttcttggatgcattacgctaccctacctcttctcttcctaggCATGAGGAGATTAAGAAGAAAGATCCAAAATGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCCTCAGCCAAACAGCCTTTGTaggtgagtgatgcttagagtctttgggaatatgccccttatctattcatagt Alignment from Spaln_aa2Genome GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCT-CAGCCAAACAGCCTTTGTAG ggggtatggttcttggatgcattacgctaccctacctcttctcttcctagGCATGAGGAGATTAAGAAGAAAGATCCAAAATGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCCtCAGCCAAACAGCCTTTGTAGgtgagtgatgcttagagtctttgggaatatgccccttatctattcatagt Alignment from Spaln_nt2Genome GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTAC-CTCAGCCAAACAGCCTTTGTAG ggggtatggttcttggatgcattacgctaccctacctcttctcttcctagGCATGAGGAGATTAAGAAGAAAGATCCAAAATGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCCTCAGCCAAACAGCCTTTGTAGgtgagtgatgcttagagtctttgggaatatgccccttatctattcatagt Alignment from Pairagon GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTA-CCTCAGCCAAACAGCCTTTGTAG ggggtatggttcttggatgcattacgctaccctacctcttctcttcctagGCATGAGGAGATTAAGAAGAAAGATCCAAAATGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCCTCAGCCAAACAGCCTTTGTAGgtgagtgatgcttagagtctttgggaatatgccccttatctattcatagt Alignment from Exonerate_protein2genome GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTA-CCTCAGCCAAACAGCCTTTGTAG ggggtatggttcttggatgcattacgctaccctacctcttctcttcctagGCATGAGGAGATTAAGAAGAAAGATCCAAAATGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCCTCAGCCAAACAGCCTTTGTAGgtgagtgatgcttagagtctttgggaatatgccccttatctattcatagt Alignment from Exonerate_coding2genome GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTA-CCTCAGCCAAACAGCCTTTGTAG ggggtatggttcttggatgcattacgctaccctacctcttctcttcctagGCATGAGGAGATTAAGAAGAAAGATCCAAAATGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCCTCAGCCAAACAGCCTTTGTAGgtgagtgatgcttagagtctttgggaatatgccccttatctattcatagt Alignment from GeneWise GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCAT-TTACCTCAGCCAAACAGCCTTTGTAG ggggtatggttcttggatgcattacgctaccctacctcttctcttcctagGCATGAGGAGATTAAGAAGAAAGATCCAAAATGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCCTCAGCCAAACAGCCTTTGTAGgtgagtgatgcttagagtctttgggaatatgccccttatctattcatagt #### Chuk_ID8921_7 --> 0 - 2 Original Alignment GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCT-TTTTTGCATCATCTGCAGCCATTTACCtg ttttcaaaactctcaactttatagctccactgcaaggttccatttgttagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTGTTGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTCTTTTTGCATCATCTACAGCCATTTACCtggtatcacagtgctgttcatggttgggggaaactcccagttaaatgagata Alignment from CESAR GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCT-TTTTTGCATCATCTGCAGCCATTTACCtg ttttcaaaactctcaactttatagctccactgcaaggttccatttgttagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTGTTGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTCTTTTTGCATCATCTACAGCCATTTACCtggtatcacagtgctgttcatggttgggggaaactcccagttaaatgagata Alignment from Spaln_aa2Genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCT-TTTTTGCATCATCTGCAGCCATTTACCTG ttttcaaaactctcaactttatagctccactgcaaggttccatttgttagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTGTTGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTcTTTTTGCATCATCTACAGCCATTTACCTGgtatcacagtgctgttcatggttgggggaaactcccagttaaatgagata Alignment from Spaln_nt2Genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTT-TGCATCATCTGCAGCCATTTACCTG ttttcaaaactctcaactttatagctccactgcaaggttccatttgttagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTGTTGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTCTTTTTGCATCATCTACAGCCATTTACCTGgtatcacagtgctgttcatggttgggggaaactcccagttaaatgagata Alignment from Pairagon GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCT-TTTTTGCATCATCTGCAGCCATTTACCTG ttttcaaaactctcaactttatagctccactgcaaggttccatttgttagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTGTTGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTCTTTTTGCATCATCTACAGCCATTTACCTGgtatcacagtgctgttcatggttgggggaaactcccagttaaatgagata Alignment from Exonerate_protein2genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCT-TTTTTGCATCATCTGCAGCCATTTACCTG ttttcaaaactctcaactttatagctccactgcaaggttccatttgttagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTGTTGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTCTTTTTGCATCATCTACAGCCATTTACCTGgtatcacagtgctgttcatggttgggggaaactcccagttaaatgagata Alignment from Exonerate_coding2genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCT-TTTTTGCATCATCTGCAGCCATTTACCTG ttttcaaaactctcaactttatagctccactgcaaggttccatttgttagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTGTTGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTCTTTTTGCATCATCTACAGCCATTTACCTGgtatcacagtgctgttcatggttgggggaaactcccagttaaatgagata Alignment from GeneWise GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCT-TTTTTGCATCATCTGCAGCCATTTACCTG ttttcaaaactctcaactttatagctccactgcaaggttccatttgttagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTGTTGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTCTTTTTGCATCATCTACAGCCATTTACCTGgtatcacagtgctgttcatggttgggggaaactcccagttaaatgagata #### Chuk_ID8922_6 --> 0 - 0 Original Alignment ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACA-TCTTTTGTGGGAACATTGCAGTATTTG ccacaggttttgtggaacttgatgacatattttctcttttctttgtttagACGGTGCATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCACACTTTTGTAGGAACATTGAAATACTTGgtgagccaatagtatgttaatcttgattctgttacattcttggtatttca Alignment from CESAR ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACA-TCTTTTGTGGGAACATTGCAGTATTTG ccacaggttttgtggaacttgatgacatattttctcttttctttgtttagACGGTGCATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCACACTTTTGTAGGAACATTGAAATACTTGgtgagccaatagtatgttaatcttgattctgttacattcttggtatttca Alignment from Spaln_aa2Genome ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACA-TCTTTTGTGGGAACATTGCAGTATTTG ccacaggttttgtggaacttgatgacatattttctcttttctttgtttagACGGTGCATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCAcACTTTTGTAGGAACATTGAAATACTTGgtgagccaatagtatgttaatcttgattctgttacattcttggtatttca Alignment from Spaln_nt2Genome ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACAT-CTTTTGTGGGAACATTGCAGTATTTG ccacaggttttgtggaacttgatgacatattttctcttttctttgtttagACGGTGCATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCACACTTTTGTAGGAACATTGAAATACTTGgtgagccaatagtatgttaatcttgattctgttacattcttggtatttca Alignment from Pairagon ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACAT-CTTTTGTGGGAACATTGCAGTATTTG ccacaggttttgtggaacttgatgacatattttctcttttctttgtttagACGGTGCATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCACACTTTTGTAGGAACATTGAAATACTTGgtgagccaatagtatgttaatcttgattctgttacattcttggtatttca Alignment from Exonerate_protein2genome ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACA-TCTTTTGTGGGAACATTGCAGTATTTG ccacaggttttgtggaacttgatgacatattttctcttttctttgtttagACGGTGCATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCACACTTTTGTAGGAACATTGAAATACTTGgtgagccaatagtatgttaatcttgattctgttacattcttggtatttca Alignment from Exonerate_coding2genome ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACA-TCTTTTGTGGGAACATTGCAGTATTTG ccacaggttttgtggaacttgatgacatattttctcttttctttgtttagACGGTGCATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCACACTTTTGTAGGAACATTGAAATACTTGgtgagccaatagtatgttaatcttgattctgttacattcttggtatttca Alignment from GeneWise ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACA-TCTTTTGTGGGAACATTGCAGTATTTG ccacaggttttgtggaacttgatgacatattttctcttttctttgtttagACGGTGCATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCACACTTTTGTAGGAACATTGAAATACTTGgtgagccaatagtatgttaatcttgattctgttacattcttggtatttca #### Col17a1_ID10301_21 --> 2 - 1 Original Alignment gtATCCCTGGGCCCCTGGGCCACCCTGGCCCGGAAGGACCA-AAGGGACAAAAAGGCAGCATTg atgcaacatcgagggaaaatcagagtggttttcctctgttgctgttttaggtATCCCAGGGCCATTGGGCCACCCTGGCCCAGAAGGGCCACAAGGGACAGAAAGGCAGCATCggtaagcgttctcccatatatacatgttcatttgtgatcccttcctaaatc Alignment from CESAR gtATCCCTGGGCCCCTGGGCCACCCTGGCCCGGAAGGACCA-AAGGGACAAAAAGGCAGCATTg atgcaacatcgagggaaaatcagagtggttttcctctgttgctgttttaggtATCCCAGGGCCATTGGGCCACCCTGGCCCAGAAGGGCCACAAGGGACAGAAAGGCAGCATCggtaagcgttctcccatatatacatgttcatttgtgatcccttcctaaatc Alignment from Spaln_aa2Genome GTATCCCTGGGCCCCTGGGCCACCCTGGCCCGGAAGGACCA-AAGGGACAAAAAGGCAGCATTG atgcaacatcgagggaaaatcagagtggttttcctctgttgctgttttagGTATCCCAGGGCCATTGGGCCACCCTGGCCCAGAAGGGCCAcAAGGGACAGAAAGGCAGCATCGgtaagcgttctcccatatatacatgttcatttgtgatcccttcctaaatc Alignment from Spaln_nt2Genome GTATCCCTGGGCCCCTGGGCCACCCTGGCCCGGAAGGACCA-AAGGGACAAAAAGGCAGCATTG atgcaacatcgagggaaaatcagagtggttttcctctgttgctgttttagGTATCCCAGGGCCATTGGGCCACCCTGGCCCAGAAGGGCCACAAGGGACAGAAAGGCAGCATCGgtaagcgttctcccatatatacatgttcatttgtgatcccttcctaaatc Alignment from Pairagon GTATCCCTGGGCCCCTGGGCCACCCTGGCCCGGAAGGACCA-AAGGGACAAAAAGGCAGCATTG atgcaacatcgagggaaaatcagagtggttttcctctgttgctgttttagGTATCCCAGGGCCATTGGGCCACCCTGGCCCAGAAGGGCCACAAGGGACAGAAAGGCAGCATCGgtaagcgttctcccatatatacatgttcatttgtgatcccttcctaaatc Alignment from Exonerate_protein2genome GTATCCCTGGGCCCCTGGGCCACCCTGGCCCGGAAGGACCA-AAGGGACAAAAAGGCAGCATTG atgcaacatcgagggaaaatcagagtggttttcctctgttgctgttttagGTATCCCAGGGCCATTGGGCCACCCTGGCCCAGAAGGGCCACAAGGGACAGAAAGGCAGCATCGgtaagcgttctcccatatatacatgttcatttgtgatcccttcctaaatc Alignment from Exonerate_coding2genome atgcaacatcgagggaaaatcagagtggttttcctctgttgctgttttaggtatcccagggccattgggccaccctggcccagaagggccacaagggacagaaaggcagcatcggtaagcgttctcccatatatacatgttcatttgtgatcccttcctaaatc Alignment from GeneWise GGACCTAAAGGAGACCGAGGCCTTCCTGGGACCCCAGGTATCCCTGGGCCCCTGGGCCACCCTGGCCCGGAAGGACCA-AAGGGACAAAAAGGCAGCATTG atgcaacatcgagGGAAAATCAGAGTGGTTTTCCTCTGTTGCTGTTTTAGGTATCCCAGGGCCATTGGGCCACCCTGGCCCAGAAGGGCCACAAGGGACAGAAAGGCAGCATCGgtaagcgttctcccatatatacatgttcatttgtgatcccttcctaaatc #### Col17a1_ID10318_4 --> 2 - 1 Original Alignment gtGGAAGCATCCGAGGCAACGCTTCCACCTCCAGTTACAGGAGAACGCACTCACCGGCCTCTACCCTGCCC---AACTCTCCCGGCTCC-ACCTTTGAAAGGAAAGCTCACATGACCCGCCATGGAACTTATGAAg ggcataagctcctccccccacatggatctgacatggtcttcctggggcaggtGGCAGCACCCGAGGCAACGCTTCAACTTCCAGTTATAGACGGACACATTCCCCGGCCTCCACCCTGCCTAGCAACTCTCCTGGTTGCCAACTTTGAAAGAAAGGCTCACATGACCCGCCATGGAACTTATGAAggtaagggtgatcaacttctatagtagaatattggttctgaacttttatat Alignment from CESAR gtGGAAGCATCCGAGGCAACGCTTCCACCTCCAGTTACAGGAGAACGCACTCACCGGCCTCTACCCTGCCC---AACTCTCCCGGC-TCCACCTTTGAAAGGAAAGCTCACATGACCCGCCATGGAACTTATGAAg ggcataagctcctccccccacatggatctgacatggtcttcctggggcaggtGGCAGCACCCGAGGCAACGCTTCAACTTCCAGTTATAGACGGACACATTCCCCGGCCTCCACCCTGCCTAGCAACTCTCCTGGTTGCCAACTTTGAAAGAAAGGCTCACATGACCCGCCATGGAACTTATGAAggtaagggtgatcaacttctatagtagaatattggttctgaacttttatat Alignment from Spaln_aa2Genome GTGGAAGCATCCGAGGCAACGCTTCCACCTCCAGTTACAGGAGAACGCACTCACCGGCCTCTACCCTGCCC---AACTCTCCCGGC-TCCACCTTTGAAAGGAAAGCTCACATGACCCGCCATGGAACTTATGAAG ggcataagctcctccccccacatggatctgacatggtcttcctggggcagGTGGCAGCACCCGAGGCAACGCTTCAACTTCCAGTTATAGACGGACACATTCCCCGGCCTCCACCCTGCCTAGCAACTCTCCTGGTtGCCAACTTTGAAAGAAAGGCTCACATGACCCGCCATGGAACTTATGAAGgtaagggtgatcaacttctatagtagaatattggttctgaacttttatat Alignment from Spaln_nt2Genome GTGGAAGCATCCGAGGCAACGCTTCCACCTCCAGTTACAGGAGAACGCACTCACCGGCCTCTACCCTGCC---CAACTCTCCCGGCT-CCACCTTTGAAAGGAAAGCTCACATGACCCGCCATGGAACTTATGAAG ggcataagctcctccccccacatggatctgacatggtcttcctggggcagGTGGCAGCACCCGAGGCAACGCTTCAACTTCCAGTTATAGACGGACACATTCCCCGGCCTCCACCCTGCCTAGCAACTCTCCTGGTTGCCAACTTTGAAAGAAAGGCTCACATGACCCGCCATGGAACTTATGAAGgtaagggtgatcaacttctatagtagaatattggttctgaacttttatat Alignment from Pairagon GTGGAAGCATCCGAGGCAACGCTTCCACCTCCAGTTACAGGAGAACGCACTCACCGGCCTCTACCCTGCC---CAACTCTCCCGGCT-CCACCTTTGAAAGGAAAGCTCACATGACCCGCCATGGAACTTATGAAG ggcataagctcctccccccacatggatctgacatggtcttcctggggcagGTGGCAGCACCCGAGGCAACGCTTCAACTTCCAGTTATAGACGGACACATTCCCCGGCCTCCACCCTGCCTAGCAACTCTCCTGGTTGCCAACTTTGAAAGAAAGGCTCACATGACCCGCCATGGAACTTATGAAGgtaagggtgatcaacttctatagtagaatattggttctgaacttttatat Alignment from Exonerate_protein2genome GTGGAAGCATCCGAGGCAACGCTTCCACCTCCAGTTACAGGAGAACGCACTCACCGGCCTCTACCCTGCCC---AACTCTCCCGGC-TCCACCTTTGAAAGGAAAGCTCACATGACCCGCCATGGAACTTATGAAG ggcataagctcctccccccacatggatctgacatggtcttcctggggcagGTGGCAGCACCCGAGGCAACGCTTCAACTTCCAGTTATAGACGGACACATTCCCCGGCCTCCACCCTGCCTAGCAACTCTCCTGGTTGCCAACTTTGAAAGAAAGGCTCACATGACCCGCCATGGAACTTATGAAGgtaagggtgatcaacttctatagtagaatattggttctgaacttttatat Alignment from Exonerate_coding2genome ggcataagctcctccccccacatggatctgacatggtcttcctggggcaggtggcagcacccgaggcaacgcttcaacttccagttatagacggacacattccccggcctccaccctgcctagcaactctcctggttgccaactttgaaagaaaggctcacatgacccgccatggaacttatgaaggtaagggtgatcaacttctatagtagaatattggttctgaacttttatat Alignment from GeneWise GTGGAAGCATCCGAGGCAACGCTTCCACCTCCAGTTACAGGAGAACGCACTCACCGGCCTCTACCCTGCCC---AACTCTCCCGGC-TCCACCTTTGAAAGGAAAGCTCACATGACCCGCCATGGAACTTATGAAG ggcataagctcctccccccacatggatctgacatggtcttcctggggcagGTGGCAGCACCCGAGGCAACGCTTCAACTTCCAGTTATAGACGGACACATTCCCCGGCCTCCACCCTGCCTAGCAACTCTCCTGGTTGCCAACTTTGAAAGAAAGGCTCACATGACCCGCCATGGAACTTATGAAGgtaagggtgatcaacttctatagtagaatattggttctgaacttttatat #### Crtac1_ID8462_10 --> 2 - 0 Original Alignment ggGGCGTAGTGACCGACTTCGATGGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTC-CGGGGAAATCAG ccttcctcgcccaaatagtgatggcctgagtcttctggcttcatccccagggGGTGTGGTGACTGATTTTGATGGGGATGGGATGTTGGATCTGATCTTGTCACATGGAAGGTCCATGGCTCAGCCCTTGTCCATTTTCCTGTGGGAATCAGgtaggaaacatttttgcctctgtatgagaatacacactagattccttttt Alignment from CESAR ggGGCGTAGTGACCGACTTCGATGGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGG-GGAAATCAG ccttcctcgcccaaatagtgatggcctgagtcttctggcttcatccccagggGGTGTGGTGACTGATTTTGATGGGGATGGGATGTTGGATCTGATCTTGTCACATGGAAGGTCCATGGCTCAGCCCTTGTCCATTTTCCTGTGGGAATCAGgtaggaaacatttttgcctctgtatgagaatacacactagattccttttt Alignment from Spaln_aa2Genome GGGGCGTAGTGACCGACTTCGATGGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTC-CGGGGAAATCAG ccttcctcgcccaaatagtgatggcctgagtcttctggcttcatccccagGGGGTGTGGTGACTGATTTTGATGGGGATGGGATGTTGGATCTGATCTTGTCACATGGAAGGTCCATGGCTCAGCCCTTGTCCATTTTCcTGTGGGAATCAGgtaggaaacatttttgcctctgtatgagaatacacactagattccttttt Alignment from Spaln_nt2Genome GGGGCGTAGTGACCGACTTCGATGGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGG-GGAAATCAG ccttcctcgcccaaatagtgatggcctgagtcttctggcttcatccccagGGGGTGTGGTGACTGATTTTGATGGGGATGGGATGTTGGATCTGATCTTGTCACATGGAAGGTCCATGGCTCAGCCCTTGTCCATTTTCCTGTGGGAATCAGgtaggaaacatttttgcctctgtatgagaatacacactagattccttttt Alignment from Pairagon GGGGCGTAGTGACCGACTTCGATGGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCC-GGGGAAATCAG ccttcctcgcccaaatagtgatggcctgagtcttctggcttcatccccagGGGGTGTGGTGACTGATTTTGATGGGGATGGGATGTTGGATCTGATCTTGTCACATGGAAGGTCCATGGCTCAGCCCTTGTCCATTTTCCTGTGGGAATCAGgtaggaaacatttttgcctctgtatgagaatacacactagattccttttt Alignment from Exonerate_protein2genome GGGGCGTAGTGACCGACTTCGATGGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGG-GGAAATCAG ccttcctcgcccaaatagtgatggcctgagtcttctggcttcatccccagGGGGTGTGGTGACTGATTTTGATGGGGATGGGATGTTGGATCTGATCTTGTCACATGGAAGGTCCATGGCTCAGCCCTTGTCCATTTTCCTGTGGGAATCAGgtaggaaacatttttgcctctgtatgagaatacacactagattccttttt Alignment from Exonerate_coding2genome GGGGCGTAGTGACCGACTTCGATGGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGG-GGAAATCAG ccttcctcgcccaaatagtgatggcctgagtcttctggcttcatccccagGGGGTGTGGTGACTGATTTTGATGGGGATGGGATGTTGGATCTGATCTTGTCACATGGAAGGTCCATGGCTCAGCCCTTGTCCATTTTCCTGTGGGAATCAGgtaggaaacatttttgcctctgtatgagaatacacactagattccttttt Alignment from GeneWise GGGGCGTAGTGACCGACTTCGATGGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTC-CGGGGAAATCAG ccttcctcgcccaaatagtgatggcctgagtcttctggcttcatccccagGGGGTGTGGTGACTGATTTTGATGGGGATGGGATGTTGGATCTGATCTTGTCACATGGAAGGTCCATGGCTCAGCCCTTGTCCATTTTCCTGTGGGAATCAGgtaggaaacatttttgcctctgtatgagaatacacactagattccttttt #### Csf2ra_ID13430_10 --> 1 - 0 Original Alignment gTTCGAGGTGACG-CGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG ttaccacgtgcatactacactacctgcaagccttactttctcctcataaggTTGGAGGTGACACCGCCGTCTCTTCCCACCAATCCCAGGGATTAGGGACAAGGTGTCTGATGATGTGCGAGTGAACCCTGAGgtgaggagccataggcaattagagtttcgtatggcactgggcctgtgcta Alignment from CESAR gTTCGAGGTGACG-CGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG ttaccacgtgcatactacactacctgcaagccttactttctcctcataaggTTGGAGGTGACACCGCCGTCTCTTCCCACCAATCCCAGGGATTAGGGACAAGGTGTCTGATGATGTGCGAGTGAACCCTGAGgtgaggagccataggcaattagagtttcgtatggcactgggcctgtgcta Alignment from Spaln_aa2Genome GTTCGAGGTGACG-CGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG ttaccacgtgcatactacactacctgcaagccttactttctcctcataagGTTGGAGGTGACAcCGCCGTCTCTTCCCACCAATCCCAGGGATTAGGGACAAGGTGTCTGATGATGTGCGAGTGAACCCTGAGgtgaggagccataggcaattagagtttcgtatggcactgggcctgtgcta Alignment from Spaln_nt2Genome GTTCGAGGTGACGC-GCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG ttaccacgtgcatactacactacctgcaagccttactttctcctcataagGTTGGAGGTGACACCGCCGTCTCTTCCCACCAATCCCAGGGATTAGGGACAAGGTGTCTGATGATGTGCGAGTGAACCCTGAGgtgaggagccataggcaattagagtttcgtatggcactgggcctgtgcta Alignment from Pairagon GTTCGAGGTGACG-CGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG ttaccacgtgcatactacactacctgcaagccttactttctcctcataagGTTGGAGGTGACACCGCCGTCTCTTCCCACCAATCCCAGGGATTAGGGACAAGGTGTCTGATGATGTGCGAGTGAACCCTGAGgtgaggagccataggcaattagagtttcgtatggcactgggcctgtgcta Alignment from Exonerate_protein2genome GTTCGAGGTGACG-CGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG ttaccacgtgcatactacactacctgcaagccttactttctcctcataagGTTGGAGGTGACACCGCCGTCTCTTCCCACCAATCCCAGGGATTAGGGACAAGGTGTCTGATGATGTGCGAGTGAACCCTGAGgtgaggagccataggcaattagagtttcgtatggcactgggcctgtgcta Alignment from Exonerate_coding2genome ttaccacgtgcatactacactacctgcaagccttactttctcctcataaggttggaggtgacaccgccgtctcttcccaccaatcccagggattagggacaaggtgtctgatgatgtgcgagtgaaccctgaggtgaggagccataggcaattagagtttcgtatggcactgggcctgtgcta Alignment from GeneWise tactttggcaactagcacacacacatacaattgtatttccttcccacacag #### Csf2ra_ID13432_8 --> 0 - 1 Original Alignment GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCC-GCCCATCCTCTCg ggtccacaaagacacgttcttactcccaatgttttcctattttctgctagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGGTGACACTAGGATGAAGCACTGGGGAAAATGG------CGTGCAGCCTCTCggtgagccaactgttatgcttgattcccgccaaaaatatacctgctgtcca Alignment from CESAR GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCg ggtccacaaagacacgttcttactcccaatgttttcctattttctgctagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGGTGACACTAGGATGAAGCACTGGGGAAAATGGCGT---G--CAGCCTCTCggtgagccaactgttatgcttgattcccgccaaaaatatacctgctgtcca Alignment from Spaln_aa2Genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGA ggtccacaaagacacgttcttactcccaatgttttcctattttctgctagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGGTGACACTAGGATGAAGCACTGGGGAAAATGGCgtgcagcctctcggtgagccaactgttatgcttgattcccgccaaaaatatacctgctgtcca Alignment from Spaln_nt2Genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG ggtccacaaagacacgttcttactcccaatgttttcctattttctgctagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGGTGACACTAGGATGAAGCACTGGGGAAAATGG-----CGTGCAGCCTCTCGgtgagccaactgttatgcttgattcccgccaaaaatatacctgctgtcca Alignment from Pairagon GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG ggtccacaaagacacgttcttactcccaatgttttcctattttctgctagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGGTGACACTAGGATGAAGCACTGGGGAAAATGG-----CGTGCAGCCTCTCGgtgagccaactgttatgcttgattcccgccaaaaatatacctgctgtcca Alignment from Exonerate_protein2genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCC ggtccacaaagacacgttcttactcccaatgttttcctattttctgctagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGGTGACACTAGGATGAAGCACTGGGGAAAATGGCGTGCAGCCTCTCGgtgagccaactgttatgcttgattcccgccaaaaatatacctgctgtcca Alignment from Exonerate_coding2genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCC ggtccacaaagacacgttcttactcccaatgttttcctattttctgctagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGGTGACACTAGGATGAAGCACTGGGGAAAATGGCGTGCAGCCtctcggtgagccaactgttatgcttgattcccgccaaaaatatacctgctgtcca Alignment from GeneWise GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGA ggtccacaaagacacgttcttactcccaatgttttcctattttctgctagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGGTGACACTAGGATGAAGCACTGGGGAAAATGGCgtgcagcctctcggtgagccaactgttatgcttgattcccgccaaaaatatacctgctgtcca #### Csf2ra_ID13434_6 --> 2 - 0 Original Alignment agCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGC-ACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tacaatgtagagtgttcatgtgtttaatctgactgcctatttctgtctagagCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATTGCCACTGTGTCTTGGGCTCCACCTTCCACTTGGGCATCTCTGGCAGCACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgaagtaaggcctcttttttctgggatagcctaggggatgctgtgccta Alignment from CESAR agCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGC-ACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tacaatgtagagtgttcatgtgtttaatctgactgcctatttctgtctagagCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATTGCCACTGTGTCTTGGGCTCCACCTTCCACTTGGGCATCTCTGGCAGCACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgaagtaaggcctcttttttctgggatagcctaggggatgctgtgccta Alignment from Spaln_aa2Genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGC-ACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tacaatgtagagtgttcatgtgtttaatctgactgcctatttctgtctagAGCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATTGCcACTGTGTCTTGGGCTCCACCTTCCACTTGGGCATCTCTGGCAGCACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgaagtaaggcctcttttttctgggatagcctaggggatgctgtgccta Alignment from Spaln_nt2Genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGC-ACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tacaatgtagagtgttcatgtgtttaatctgactgcctatttctgtctagAGCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATTGCCACTGTGTCTTGGGCTCCACCTTCCACTTGGGCATCTCTGGCAGCACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgaagtaaggcctcttttttctgggatagcctaggggatgctgtgccta Alignment from Pairagon AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTG-CACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tacaatgtagagtgttcatgtgtttaatctgactgcctatttctgtctagAGCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATTGCCACTGTGTCTTGGGCTCCACCTTCCACTTGGGCATCTCTGGCAGCACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgaagtaaggcctcttttttctgggatagcctaggggatgctgtgccta Alignment from Exonerate_protein2genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGC-ACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tacaatgtagagtgttcatgtgtttaatctgactgcctatttctgtctagAGCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATTGCCACTGTGTCTTGGGCTCCACCTTCCACTTGGGCATCTCTGGCAGCACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgaagtaaggcctcttttttctgggatagcctaggggatgctgtgccta Alignment from Exonerate_coding2genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGC-ACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tacaatgtagagtgttcatgtgtttaatctgactgcctatttctgtctagAGCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATTGCCACTGTGTCTTGGGCTCCACCTTCCACTTGGGCATCTCTGGCAGCACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgaagtaaggcctcttttttctgggatagcctaggggatgctgtgccta Alignment from GeneWise AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGC-ACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tacaatgtagagtgttcatgtgtttaatctgactgcctatttctgtctagAGCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATTGCCACTGTGTCTTGGGCTCCACCTTCCACTTGGGCATCTCTGGCAGCACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgaagtaaggcctcttttttctgggatagcctaggggatgctgtgccta #### Csf2ra_ID13436_4 --> 2 - 2 Original Alignment gcGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGG-CGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCac atagaagtagtgttggattgcacccaaatgtcttgctctctgtgtttcaggcACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGATTCGAGCTTCACGCTTTCTTTCCTGTGCTTGGCCGAGAGGGGCCGGCCGCACCGGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAacgtaagttgtaaacgcccagttgtctgtccgcagagcattgctactatctt Alignment from CESAR gcGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGG-CGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCac atagaagtagtgttggattgcacccaaatgtcttgctctctgtgtttcaggcACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGATTCGAGCTTCACGCTTTCTTTCCTGTGCTTGGCCGAGAGGGGCCGGCCGCACCGGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAacgtaagttgtaaacgcccagttgtctgtccgcagagcattgctactatctt Alignment from Spaln_aa2Genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGG-CGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC atagaagtagtgttggattgcacccaaatgtcttgctctctgtgtttcagGCACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGATTCGAGCTTCACGCTTTCTTTCCTGTGCTTGGcCGAGAGGGGCCGGCCGCACCGGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAACgtaagttgtaaacgcccagttgtctgtccgcagagcattgctactatctt Alignment from Spaln_nt2Genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGG-GAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC atagaagtagtgttggattgcacccaaatgtcttgctctctgtgtttcagGCACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGATTCGAGCTTCACGCTTTCTTTCCTGTGCTTGGCCGAGAGGGGCCGGCCGCACCGGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAACgtaagttgtaaacgcccagttgtctgtccgcagagcattgctactatctt Alignment from Pairagon GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGG-CGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC atagaagtagtgttggattgcacccaaatgtcttgctctctgtgtttcagGCACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGATTCGAGCTTCACGCTTTCTTTCCTGTGCTTGGCCGAGAGGGGCCGGCCGCACCGGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAACgtaagttgtaaacgcccagttgtctgtccgcagagcattgctactatctt Alignment from Exonerate_protein2genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGG-CGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC atagaagtagtgttggattgcacccaaatgtcttgctctctgtgtttcagGCACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGATTCGAGCTTCACGCTTTCTTTCCTGTGCTTGGCCGAGAGGGGCCGGCCGCACCGGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAACgtaagttgtaaacgcccagttgtctgtccgcagagcattgctactatctt Alignment from Exonerate_coding2genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGA atagaagtagtgttggattgcacccaaatgtcttgctctctgtgtttcaggcactgcaggcactggggcagagaacctaatctgtgagattcgagcttcacgctttctttcctgtgcttggccgagaggggccggccgcaccggcagatgtccagCACTCACTGCAGGTCCTTAACTCAACGTAAGTTGTAAACGCCCAGTTGTCTGTCCGCAGAGCATTGCTACTATCTT Alignment from GeneWise GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGG-CGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC atagaagtagtgttggattgcacccaaatgtcttgctctctgtgtttcagGCACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGATTCGAGCTTCACGCTTTCTTTCCTGTGCTTGGCCGAGAGGGGCCGGCCGCACCGGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAACgtaagttgtaaacgcccagttgtctgtccgcagagcattgctactatctt #### Csf2ra_ID13438_2 --> 2 - 0 Original Alignment ctCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGC------ACCGTGACCTCG-CGGGAGGCGGGGATACACCGGCGAGTCTCG aggtcctccaccacccactaccaagacactgacatccttctttccttcagccCCAACCACTCCGTATGTTGGCTCTGCCCTCAACCTGATCTTTGATCCTTGGACCCGCATGCTGACCTGGGCTTGTGATGCTGCTGCAGACAATGTCATGGTGATGTCATGCACAGTAACTGTTACATCACTGGGAAGCATCAATACACCGGCGAGTTTCAgtgagaaagtaagatttgatactgggcctaataatcccatgaggcccaat Alignment from CESAR ctCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTGACC------TCGCGG-GAGGCGGGGATACACCGGCGAGTCTCG aggtcctccaccacccactaccaagacactgacatccttctttccttcagccCCAACCACTCCGTATGTTGGCTCTGCCCTCAACCTGATCTTTGATCCTTGGACCCGCATGCTGACCTGGGCTTGTGATGCTGCTGCAGACAATGTCATGGTGATGTCATGCACAGTAACTGTTACATCACTGGGAAGCATCAATACACCGGCGAGTTTCAgtgagaaagtaagatttgatactgggcctaataatcccatgaggcccaat Alignment from Spaln_aa2Genome CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTGACC-------TCGCGGGAGGCGGGGATACACCGGCGAGTCTCG aggtcctccaccacccactaccaagacactgacatccttctttccttcagCCCCAACCACTCCGTATGTTGGCTCTGCCCTCAACCTGATCTTTGATCCTTGGACCCGCATGCTGACCTGGGCTTGTGATGCTGCTGCAGACAATGTCATGGTGATGTCATGCACAGTAACTGTTACAtCACTGGGAAGCATCAATACACCGGCGAGTTTCAgtgagaaagtaagatttgatactgggcctaataatcccatgaggcccaat Alignment from Spaln_nt2Genome CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTGACC------TCGC-GGGAGGCGGGGATACACCGGCGAGTCTCG aggtcctccaccacccactaccaagacactgacatccttctttccttcagCCCCAACCACTCCGTATGTTGGCTCTGCCCTCAACCTGATCTTTGATCCTTGGACCCGCATGCTGACCTGGGCTTGTGATGCTGCTGCAGACAATGTCATGGTGATGTCATGCACAGTAACTGTTACATCACTGGGAAGCATCAATACACCGGCGAGTTTCAgtgagaaagtaagatttgatactgggcctaataatcccatgaggcccaat Alignment from Pairagon CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTGACCTCGCGGGAGGCGGGGA--------------------------TACACCGGCGAGTCTCG aggtcctccaccacccactaccaagacactgacatccttctttccttcagCCCCAACCACTCCGTATGTTGGCTCTGCCCTCAACCTGATCTTTGATCCTTGGACCCGCATGCTGACCTGGGCTTGTGATGCTGCTGCAGACAATGTCATGGTGATGTCATGCACAGT-------------------AACTGTTACATCACTGGGAAGCATCAATACACCGGCGAGTTTCAgtgagaaagtaagatttgatactgggcctaataatcccatgaggcccaat Alignment from Exonerate_protein2genome CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTGACC---TCGCGG----GAGGCGGGGATACACCGGCGAGTCTCG aggtcctccaccacccactaccaagacactgacatccttctttccttcagCCCCAACCACTCCGTATGTTGGCTCTGCCCTCAACCTGATCTTTGATCCTTGGACCCGCATGCTGACCTGGGCTTGTGATGCTGCTGCAGACAATGTCATGGTGATGTCATGCACAGTAACTGTTACATCACTGGGAAGCATCAATACACCGGCGAGTTTCAgtgagaaagtaagatttgatactgggcctaataatcccatgaggcccaat Alignment from Exonerate_coding2genome CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTGACC---TCGCGG----GAGGCGGGGATACACCGGCGAGTCTCG aggtcctccaccacccactaccaagacactgacatccttctttccttcagCCCCAACCACTCCGTATGTTGGCTCTGCCCTCAACCTGATCTTTGATCCTTGGACCCGCATGCTGACCTGGGCTTGTGATGCTGCTGCAGACAATGTCATGGTGATGTCATGCACAGTAACTGTTACATCACTGGGAAGCATCAATACACCGGCGAGTTTCAgtgagaaagtaagatttgatactgggcctaataatcccatgaggcccaat Alignment from GeneWise CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTGACC------TCG-CGGGAGGCGGGGATACACCGGCGAGTCTCG aggtcctccaccacccactaccaagacactgacatccttctttccttcagCCCCAACCACTCCGTATGTTGGCTCTGCCCTCAACCTGATCTTTGATCCTTGGACCCGCATGCTGACCTGGGCTTGTGATGCTGCTGCAGACAATGTCATGGTGATGTCATGCACAGTAACTGTTACATCACTGGGAAGCATCAATACACCGGCGAGTTTCAgtgagaaagtaagatttgatactgggcctaataatcccatgaggcccaat #### Ctsf_ID679_7 --> 2 - 0 Original Alignment agGAGGAATTCCACACCATCTACCTG-AATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTG------AAGAACCAG taggatggtgccctgatgcccattctggagctgtctctcttttccttcagagGAAGAAATTCATACCATTGGCCTGCATCCCTCTCTTACAGAAGCAATCTGGCAGGAAGATGAGTTCAGCGAAATCCATAACTGACCTTGCTCCACCTGAGTGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGGTGAAGAATGAAgtaagtgtaatttgaaattgggagggggttcaaggcctattagagctaac Alignment from CESAR agGAGGAATTCCACACCATCTACCTGAATCCC-CTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAA------GTGAAGAACCAG taggatggtgccctgatgcccattctggagctgtctctcttttccttcagagGAAGAAATTCATACCATTGGCCTGCATCCCTCTCTTACAGAAGCAATCTGGCAGGAAGATGAGTTCAGCGAAATCCATAACTGACCTTGCTCCACCTGAGTGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGGTGAAGAATGAAgtaagtgtaatttgaaattgggagggggttcaaggcctattagagctaac Alignment from Spaln_aa2Genome AGGAGGAATTCCACACCATCTACCTGAATCCC-CTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAG taggatggtgccctgatgcccattctggagctgtctctcttttccttcagAGGAAGAAATTCATACCATTGGCCTGCATCCCtCTCTTACAGAAGCAATCTGGCAGGAAGATGAGTTCAGCGAAATCCATAACTGACCTTGCTCCACCTGAGTGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGgtgaagaatgaagtaagtgtaatttgaaattgggagggggttcaaggcctattagagctaac Alignment from Spaln_nt2Genome AGGAGGAATTCCACACCATCTACCTGAATCCC-CTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAG taggatggtgccctgatgcccattctggagctgtctctcttttccttcagAGGAAGAAATTCATACCATTGGCCTGCATCCCTCTCTTACAGAAGCAATCTGGCAGGAAGATGAGTTCAGCGAAATCCATAACTGACCTTGCTCCACCTGAGTGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGgtgaagaatgaagtaagtgtaatttgaaattgggagggggttcaaggcctattagagctaac Alignment from Pairagon AGGAGGAATTCCACACCATCTACCTGAATCCC-CTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAA------GTGAAGAACCAG taggatggtgccctgatgcccattctggagctgtctctcttttccttcagAGGAAGAAATTCATACCATTGGCCTGCATCCCTCTCTTACAGAAGCAATCTGGCAGGAAGATGAGTTCAGCGAAATCCATAACTGACCTTGCTCCACCTGAGTGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGGTGAAGAATGAAgtaagtgtaatttgaaattgggagggggttcaaggcctattagagctaac Alignment from Exonerate_protein2genome AGGAGGAATTCCACACCATCTACCTGAAT-CCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAG taggatggtgccctgatgcccattctggagctgtctctcttttccttcagAGGAAGAAATTCATACCATTGGCCTGCATCCCTCTCTTACAGAAGCAATCTGGCAGGAAGATGAGTTCAGCGAAATCCATAACTGACCTTGCTCCACCTGAGTGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGgtgaagaatgaagtaagtgtaatttgaaattgggagggggttcaaggcctattagagctaac Alignment from Exonerate_coding2genome AGGAGGAATTCCACACCATCTACCTGAAT-CCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAG taggatggtgccctgatgcccattctggagctgtctctcttttccttcagAGGAAGAAATTCATACCATTGGCCTGCATCCCTCTCTTACAGAAGCAATCTGGCAGGAAGATGAGTTCAGCGAAATCCATAACTGACCTTGCTCCACCTGAGTGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGgtgaagaatgaagtaagtgtaatttgaaattgggagggggttcaaggcctattagagctaac Alignment from GeneWise -GAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTG------AAGAACCAG taggatggtgccctgatgcccattctggagctgtctctcttttccttcagagGAAGAAATTCATACCATTGGCCTGCATCCCTCTCTTACAGAAGCAATCTGGCAGGAAGATGAGTTCAGCGAAATCCATAACTGACCTTGCTCCACCTGAGTGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGGTGAAGAATGAAgtaagtgtaatttgaaattgggagggggttcaaggcctattagagctaac #### Ctsf_ID681_9 --> 2 - 1 Original Alignment agCTCTTGGATTGTGACAAGGTGGAC-AAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGg tcagacaaactcctccatagggttccttgtgtgggtcttgccccttgcagagCTCTCACATTGTGGCAAAGAGGATCAAAGCCTGCTTGGGCGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGggcaagttgtgctgaatccacctgtggatgatagtggctaccatggtgttg Alignment from CESAR agCTCTTGGATTGTGACAAGGTGGAC-AAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGg tcagacaaactcctccatagggttccttgtgtgggtcttgccccttgcagagCTCTCACATTGTGGCAAAGAGGATCAAAGCCTGCTTGGGCGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGggcaagttgtgctgaatccacctgtggatgatagtggctaccatggtgttg Alignment from Spaln_aa2Genome AGCTCTTGGATTGTGACAAGGTGGAC-AAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG tcagacaaactcctccatagggttccttgtgtgggtcttgccccttgcagAGCTCTCACATTGTGGCAAAGAGGATcAAAGCCTGCTTGGGCGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGgcaagttgtgctgaatccacctgtggatgatagtggctaccatggtgttg Alignment from Spaln_nt2Genome AGCTCTTGGATTGTGACAAGGTGGA-CAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG tcagacaaactcctccatagggttccttgtgtgggtcttgccccttgcagAGCTCTCACATTGTGGCAAAGAGGATCAAAGCCTGCTTGGGCGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGgcaagttgtgctgaatccacctgtggatgatagtggctaccatggtgttg Alignment from Pairagon AGCTCTTGGATTGTGACAAGGTGGA-CAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG tcagacaaactcctccatagggttccttgtgtgggtcttgccccttgcagAGCTCTCACATTGTGGCAAAGAGGATCAAAGCCTGCTTGGGCGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGgcaagttgtgctgaatccacctgtggatgatagtggctaccatggtgttg Alignment from Exonerate_protein2genome AGCTCTTGGATTGTGACAAGGTGGAC-AAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG tcagacaaactcctccatagggttccttgtgtgggtcttgccccttgcagAGCTCTCACATTGTGGCAAAGAGGATCAAAGCCTGCTTGGGCGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGgcaagttgtgctgaatccacctgtggatgatagtggctaccatggtgttg Alignment from Exonerate_coding2genome AGCTCTTGGATTGTGACAAGGTGGAC-AAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG tcagacaaactcctccatagggttccttgtgtgggtcttgccccttgcagAGCTCTCACATTGTGGCAAAGAGGATCAAAGCCTGCTTGGGCGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGgcaagttgtgctgaatccacctgtggatgatagtggctaccatggtgttg Alignment from GeneWise GCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGGGA-- tcagacaaactcctccatagggttccttgtgtgggtcttgccccttgcagagCTCTCACATTGTGGCAAAGAGGATCAAAGCCTGCTTGGGCGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGGCAAgttgtgctgaatccacctgtggatgatagtggctaccatggtgttg #### Ctsf_ID685_13 --> 2 - 0 Original Alignment gcTCTAACATTCCTTACTGG-GCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG GGTTACTACTACTTGTAC cttaagctccggtaattccttactactctaaccacatctctttcctccaggtTCTAACATTCCCTACTGGCGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGgtaatcttgtttgtttgccttcacctccacagGGGTACTATTACTTATAC Alignment from CESAR gcTCTAACATTCCTTACTGG-GCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG GGTTACTACTACTTGTAC cttaagctccggtaattccttactactctaaccacatctctttcctccaggtTCTAACATTCCCTACTGGCGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGgtaatcttgtaagaactgctgtttccctatagGGGTACTATTACTTATAC Alignment from Spaln_aa2Genome GCTCTAACATTCCTTACTGG-GCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG GGTTACTACTACTTGTAC cttaagctccggtaattccttactactctaaccacatctctttcctccagGTTCTAACATTCCCTACTGGcGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGgtaatcttgtttgtttgccttcacctccacagGGGTACTATTACTTATAC Alignment from Spaln_nt2Genome GCTCTAACATTCCTTACTGG-GCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGG--------------------------------AGGGTTACTACTACTTGTAC cttaagctccggtaattccttactactctaaccacatctctttcctccagGTTCTAACATTCCCTACTGGCGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGGTAATCTTGTTTGTTTGCCTTCACCTCCACAGGGGTACTATTACTTATAC Alignment from Pairagon GCTCTAACATTCCTTACTGG-GCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG GGTTACTACTACTTGTAC cttaagctccggtaattccttactactctaaccacatctctttcctccagGTTCTAACATTCCCTACTGGCGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGgtaatcttgtttgtttgccttcacctccacagGGGTACTATTACTTATAC Alignment from Exonerate_protein2genome GCTCTAACATTCCTTACTGG-GCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG GGTTACTACTACTTGTAC cttaagctccggtaattccttactactctaaccacatctctttcctccagGTTCTAACATTCCCTACTGGCGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGgtaatcttgtttgtttgccttcacctccacagGGGTACTATTACTTATAC Alignment from Exonerate_coding2genome GCTCTAACATTCCTTACTGG-GCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG GGTTACTACTACTTGTAC cttaagctccggtaattccttactactctaaccacatctctttcctccagGTTCTAACATTCCCTACTGGCGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGgtaatcttgtttgtttgccttcacctccacagGGGTACTATTACTTATAC Alignment from GeneWise GCTCTAACATTCCTTACTGG-GCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG GGTTACTACTACTTGTAC cttaagctccggtaattccttactactctaaccacatctctttcctccagGTTCTAACATTCCCTACTGGCGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGgtaatcttgtttgtttgccttcacctccacagGGGTACTATTACTTATAC #### Ctsw_ID1017_9 --> 0 - 0 Original Alignment CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTC------TTGCTGGTGGGCTTTGGCAAGGAGAAAGAG-GGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatacagagatctcattgcactgcttctgcaaacctctcctctagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGTTCCTGTGACCCTCGCCAAGAAGACCACCCTGTTCTGCTATTGTTGGTAGGTTTTGGTAAAAAGGAAGAGCGGCATGCAAATGGGGACAGTCTTAACACATTCACATAAGCGTTGCCATTCCTTCTCATTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAAgtatgtgtacagaaaaacaatgaagcaaagaaaagcaatggagcagagcc Alignment from CESAR CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTC------TTGCTGGTGGGCTTTGGCAAGGAGAAAGAG-GGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatacagagatctcattgcactgcttctgcaaacctctcctctagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGTTCCTGTGACCCTCGCCAAGAAGACCACCCTGTTCTGCTATTGTTGGTAGGTTTTGGTAAAAAGGAAGAGCGGCATGCAAATGGGGACAGTCTTAACACATTCACATAAGCGTTGCCATTCCTTCTCATTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAAgtatgtgtacagaaaaacaatgaagcaaagaaaagcaatggagcagagcc Alignment from Spaln_aa2Genome CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTC------TTGCTGGTGGGCTTTGGCAAGGAGAAAGAG-GGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatacagagatctcattgcactgcttctgcaaacctctcctctagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGTTCCTGTGACCCTCGCCAAGAAGACCACCCTGTTCTGCTATTGTTGGTAGGTTTTGGTAAAAAGGAAGAGcGGCATGCAAATGGGGACAGTCTTAACACATTCACATAAGCGTTGCCATTCCTTCTCATTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAAgtatgtgtacagaaaaacaatgaagcaaagaaaagcaatggagcagagcc Alignment from Spaln_nt2Genome CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTCTTGCT------GGTGGGCTTTGGCAAGGAGAAAGAG-GGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatacagagatctcattgcactgcttctgcaaacctctcctctagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGTTCCTGTGACCCTCGCCAAGAAGACCACCCTGTTCTGCTATTGTTGGTAGGTTTTGGTAAAAAGGAAGAGCGGCATGCAAATGGGGACAGTCTTAACACATTCACATAAGCGTTGCCATTCCTTCTCATTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAAgtatgtgtacagaaaaacaatgaagcaaagaaaagcaatggagcagagcc Alignment from Pairagon CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTCTTGC------TGGTGGGCTTTGGCAAGGAGAAAGAG-GGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatacagagatctcattgcactgcttctgcaaacctctcctctagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGTTCCTGTGACCCTCGCCAAGAAGACCACCCTGTTCTGCTATTGTTGGTAGGTTTTGGTAAAAAGGAAGAGCGGCATGCAAATGGGGACAGTCTTAACACATTCACATAAGCGTTGCCATTCCTTCTCATTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAAgtatgtgtacagaaaaacaatgaagcaaagaaaagcaatggagcagagcc Alignment from Exonerate_protein2genome CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTC------TTGCTGGTGGGCTTTGGCAAGGAGAAAGAG-GGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatacagagatctcattgcactgcttctgcaaacctctcctctagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGTTCCTGTGACCCTCGCCAAGAAGACCACCCTGTTCTGCTATTGTTGGTAGGTTTTGGTAAAAAGGAAGAGCGGCATGCAAATGGGGACAGTCTTAACACATTCACATAAGCGTTGCCATTCCTTCTCATTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAAgtatgtgtacagaaaaacaatgaagcaaagaaaagcaatggagcagagcc Alignment from Exonerate_coding2genome CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTC------TTGCTGGTGGGCTTTGGCAAGGAGAAAGAG-GGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatacagagatctcattgcactgcttctgcaaacctctcctctagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGTTCCTGTGACCCTCGCCAAGAAGACCACCCTGTTCTGCTATTGTTGGTAGGTTTTGGTAAAAAGGAAGAGCGGCATGCAAATGGGGACAGTCTTAACACATTCACATAAGCGTTGCCATTCCTTCTCATTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAAgtatgtgtacagaaaaacaatgaagcaaagaaaagcaatggagcagagcc Alignment from GeneWise CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTCTTGCTG------GTGGGCTTTGGCAAG-GAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatacagagatctcattgcactgcttctgcaaacctctcctctagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGTTCCTGTGACCCTCGCCAAGAAGACCACCCTGTTCTGCTATTGTTGGTAGGTTTTGGTAAAAAGGAAGAGCGGCATGCAAATGGGGACAGTCTTAACACATTCACATAAGCGTTGCCATTCCTTCTCATTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAAgtatgtgtacagaaaaacaatgaagcaaagaaaagcaatggagcagagcc #### Ctsw_ID1019_7 --> 2 - 1 Original Alignment gtGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAG-GTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGg agtgcacttgacatcaaagtttcttgcttttacacctttatgccctcaaggcGGTCTGGCCACTGAAAAGGAATTTCCATTTCAGAGGGAAAGAAAGCCTCACAGATGCCTGGCTAAAAAGTATAAGGAACGTGGCATGGATCCCA------GCCACATTGTCTAATAATGAGCAGggtgagtccagggtaagatgaggtagctctgtgactgctcacgtgacctgt Alignment from CESAR gtGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAG-GTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGg agtgcacttgacatcaaagtttcttgcttttacacctttatgccctcaaggcGGTCTGGCCACTGAAAAGGAATTTCCATTTCAGAGGGAAAGAAAGCCTCACAGATGCCTGGCTAAAAAGTATAAGGAACGTGGCATGGATCCCA------GCCACATTGTCTAATAATGAGCAGggtgagtccagggtaagatgaggtagctctgtgactgctcacgtgacctgt Alignment from Spaln_aa2Genome GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAG-AAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG agtgcacttgacatcaaagtttcttgcttttacacctttatgccctcaagGCGGTCTGGCCACTGAAAAGGAATTTCCATTTCAGAGGGAAAGAAAGCCTCACAGATGCCTGGCTAAAAAGTATAAGgAACGTGGCATGGATCCCA------GCCACATTGTCTAATAATGAGCAGGgtgagtccagggtaagatgaggtagctctgtgactgctcacgtgacctgt Alignment from Spaln_nt2Genome GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAG-AAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG agtgcacttgacatcaaagtttcttgcttttacacctttatgccctcaagGCGGTCTGGCCACTGAAAAGGAATTTCCATTTCAGAGGGAAAGAAAGCCTCACAGATGCCTGGCTAAAAAGTATAAGGAACGTGGCATGGATCCCAG------CCACATTGTCTAATAATGAGCAGGgtgagtccagggtaagatgaggtagctctgtgactgctcacgtgacctgt Alignment from Pairagon ----------------------------------------------------GGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAA-GAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG AGTGCACTTGACATCAAAGTTTCTTGCTTTTACACCTTTATGCCCTCAAGGCGGTCTGGCCACTGAAAAGGAATTTCCATTTCAGAGGGAAAGAAAGCCTCACAGATGCCTGGCTAAAAAGTATAAGGAACGTGGCATGGATCCCAG------CCACATTGTCTAATAATGAGCAGGgtgagtccagggtaagatgaggtagctctgtgactgctcacgtgacctgt Alignment from Exonerate_protein2genome GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAG-GTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG agtgcacttgacatcaaagtttcttgcttttacacctttatgccctcaagGCGGTCTGGCCACTGAAAAGGAATTTCCATTTCAGAGGGAAAGAAAGCCTCACAGATGCCTGGCTAAAAAGTATAAGGAACGTGGCATGGATCCCA------GCCACATTGTCTAATAATGAGCAGGgtgagtccagggtaagatgaggtagctctgtgactgctcacgtgacctgt Alignment from Exonerate_coding2genome GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAG-GTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG agtgcacttgacatcaaagtttcttgcttttacacctttatgccctcaagGCGGTCTGGCCACTGAAAAGGAATTTCCATTTCAGAGGGAAAGAAAGCCTCACAGATGCCTGGCTAAAAAGTATAAGGAACGTGGCATGGATCCCA------GCCACATTGTCTAATAATGAGCAGGgtgagtccagggtaagatgaggtagctctgtgactgctcacgtgacctgt Alignment from GeneWise ----------------------------------------------------GGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAG-AAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG AGTGCACTTGACATCAAAGTTTCTTGCTTTTACACCTTTATGCCCTCAAGGCGGTCTGGCCACTGAAAAGGAATTTCCATTTCAGAGGGAAAGAAAGCCTCACAGATGCCTGGCTAAAAAGTATAAGGAACGTGGCATGGATCCCA------GCCACATTGTCTAATAATGAGCAGGgtgagtccagggtaagatgaggtagctctgtgactgctcacgtgacctgt #### Ctsw_ID1020_6 --> 2 - 1 Original Alignment agCTGCTGGACTGCGAACGCTGTGGAAATGGTTGCAATGGTGGCTTCGTGTGG-GACGCATATCTAACTGTCCTCAACAACa aaagtctctgcctgcatgtgacaattaagagacttttcatcccttcacagagCTTTTGGACTGCAAACACTGTGGCAATGGCTGCAATGATGGCTTTATATGGCGATGCATATCTAACTGTCCTCAATAATagtgacctattatggctacaagcaggtgaagtgcacttgacatcaaagttt Alignment from CESAR agCTGCTGGACTGCGAACGCTGTGGAAATGGTTGCAATGGTGGCTTCGTGTGG-GACGCATATCTAACTGTCCTCAACAACa aaagtctctgcctgcatgtgacaattaagagacttttcatcccttcacagagCTTTTGGACTGCAAACACTGTGGCAATGGCTGCAATGATGGCTTTATATGGCGATGCATATCTAACTGTCCTCAATAATagtgacctattatggctacaagcaggtgaagtgcacttgacatcaaagttt Alignment from Spaln_aa2Genome AGCTGCTGGACTGCGAACGCTGTGGAAATGGTTGCAATGGTGGCTTCGTGTGG-GACGCATATCTAACTGTCCTCAACAACA aaagtctctgcctgcatgtgacaattaagagacttttcatcccttcacagAGCTTTTGGACTGCAAACACTGTGGCAATGGCTGCAATGATGGCTTTATATGGcGATGCATATCTAACTGTCCTCAATAATAgtgacctattatggctacaagcaggtgaagtgcacttgacatcaaagttt Alignment from Spaln_nt2Genome AGCTGCTGGACTGCGAACGCTGTGGAAATGGTTGCAATGGTGGCTTCGTGTGG-GACGCATATCTAACTGTCCTCAACAACA aaagtctctgcctgcatgtgacaattaagagacttttcatcccttcacagAGCTTTTGGACTGCAAACACTGTGGCAATGGCTGCAATGATGGCTTTATATGGCGATGCATATCTAACTGTCCTCAATAATAgtgacctattatggctacaagcaggtgaagtgcacttgacatcaaagttt Alignment from Pairagon AGCTGCTGGACTGCGAACGCTGTGGAAATGGTTGCAATGGTGGCTTCGTGTGG-GACGCATATCTAACTGTCCTCAACAACA aaagtctctgcctgcatgtgacaattaagagacttttcatcccttcacagAGCTTTTGGACTGCAAACACTGTGGCAATGGCTGCAATGATGGCTTTATATGGCGATGCATATCTAACTGTCCTCAATAATAgtgacctattatggctacaagcaggtgaagtgcacttgacatcaaagttt Alignment from Exonerate_protein2genome AGCTGCTGGACTGCGAACGCTGTGGAAATGGTTGCAATGGTGGCTTCGTGTGG-GACGCATATCTAACTGTCCTCAACAACA aaagtctctgcctgcatgtgacaattaagagacttttcatcccttcacagAGCTTTTGGACTGCAAACACTGTGGCAATGGCTGCAATGATGGCTTTATATGGCGATGCATATCTAACTGTCCTCAATAATAgtgacctattatggctacaagcaggtgaagtgcacttgacatcaaagttt Alignment from Exonerate_coding2genome AGCTGCTGGACTGCGAACGCTGTGGAAATGGTTGCAATGGTGGCTTCGTGTGG-GACGCATATCTAACTGTCCTCAACAACA aaagtctctgcctgcatgtgacaattaagagacttttcatcccttcacagAGCTTTTGGACTGCAAACACTGTGGCAATGGCTGCAATGATGGCTTTATATGGCGATGCATATCTAACTGTCCTCAATAATAgtgacctattatggctacaagcaggtgaagtgcacttgacatcaaagttt Alignment from GeneWise AGCTGCTGGACTGCGAACGCTGTGGAAATGGTTGCAATGGTGGCTTCGTGTGG-GACGCATATCTAACTGTCCTCAACAACAGT------------------------------------------------ aaagtctctgcctgcatgtgacaattaagagacttttcatcccttcacagAGCTTTTGGACTGCAAACACTGTGGCAATGGCTGCAATGATGGCTTTATATGGCGATGCATATCTAACTGTCCTCAATAATAGTGACCTATTATGGCTACAAGCAGGTGAAGTGCACTTGACATCAAAGTTT #### Ctsw_ID1021_5 --> 0 - 1 Original Alignment GGAAGCTGCAAA---------------------------TGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTG-GACGTCTCTGTGCAGg tggtttccatttatctaacccaaggacaacctcttcttttgttgtcacagAGAGGGTGCAACCATTTCCCTGGCCGATGGATCAGTGTGTGCTGTTGGGCAATGGCAGCTGCTGACAACATCCAGTCTTTGTGGTGCATAAAGCACCAGAAGTTTGTGCGATGTCTCAGTCCAGggttagtggggtttccatgtggttagctgtattctctctttgcataccagc Alignment from CESAR GGAAGCTGCAAA---------------------------TGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTG-GACGTCTCTGTGCAGg tggtttccatttatctaacccaaggacaacctcttcttttgttgtcacagAGAGGGTGCAACCATTTCCCTGGCCGATGGATCAGTGTGTGCTGTTGGGCAATGGCAGCTGCTGACAACATCCAGTCTTTGTGGTGCATAAAGCACCAGAAGTTTGTGCGATGTCTCAGTCCAGggttagtggggtttccatgtggttagctgtattctctctttgcataccagc Alignment from Spaln_aa2Genome TG CAAATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTG-GACGTCTCTGTGCAGG TGgtttccatttatctaacccaaggacaacctcttcttttgttgtcacagagagggtgcaaccatttccctggccgatggatcagTGTGTGCTGTTGGGCAATGGCAGCTGCTGACAACATCCAGTCTTTGTGGTGCATAAAGCACCAGAAGTTTGTGcGATGTCTCAGTCCAGGgttagtggggtttccatgtggttagctgtattctctctttgcataccagc Alignment from Spaln_nt2Genome GGAAGCTGCAAATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTG-GACGTCTCTGTGCAGG tggtttccatttatctaacccaaggacaacctcttcttttgttgtcacagagagggtgcaaccatttccctggccgatggatcagTG----TG----TGCTGTTGGGCAATGGCAGCTGCTGACAACATCCAGTCTTTGTGGTGCATAAAGCACCAGAAGTTTGTGCGATGTCTCAGTCCAGGgttagtggggtttccatgtggttagctgtattctctctttgcataccagc Alignment from Pairagon ---------------------------------------------------GAAGCTGCAA---------------------------ATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTG-GACGTCTCTGTGCAGG TGGTTTCCATTTATCTAACCCAAGGACAACCTCTTCTTTTGTTGTCACAGAGAGGGTGCAACCATTTCCCTGGCCGATGGATCAGTGTGTGCTGTTGGGCAATGGCAGCTGCTGACAACATCCAGTCTTTGTGGTGCATAAAGCACCAGAAGTTTGTGCGATGTCTCAGTCCAGGgttagtggggtttccatgtggttagctgtattctctctttgcataccagc Alignment from Exonerate_protein2genome GGAAGCTGCAAATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTG-GACGTCTCTGTGCAGG tggtttccatttatctaacccaaggacaacctcttcttttgttgtcacagagagggtgcaaccatttccctggccgaTGGATCAGTGTGTGCTGTTGGGCAATGGCAGCTGCTGACAACATCCAGTCTTTGTGGTGCATAAAGCACCAGAAGTTTGTGCGATGTCTCAGTCCAGGgttagtggggtttccatgtggttagctgtattctctctttgcataccagc Alignment from Exonerate_coding2genome GGAAGCTGCAAATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTG-GACGTCTCTGTGCAGG tggtttccatttatctaacccaaggacaacctcttcttttgttgtcacagagagggtgcaaccatttccctggccgaTGGATCAGTGTGTGCTGTTGGGCAATGGCAGCTGCTGACAACATCCAGTCTTTGTGGTGCATAAAGCACCAGAAGTTTGTGCGATGTCTCAGTCCAGGgttagtggggtttccatgtggttagctgtattctctctttgcataccagc Alignment from GeneWise TG CAAATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGAC- TGgtttccatttatctaacccaaggacaacctcttcttttgttgtcacagagagggtgcaaccatttccctggccgatggatcagTGTGTGCTGTTGGGCAATGGCAGCTGCTGACAACATCCAGTCTTTGTGGTGCATAAAGCACCAGAAGTTTGTGCGATgtctcagtccagggttagtggggtttccatgtggttagctgtattctctctttgcataccagc #### Ctsw_ID1023_3 --> 2 - 1 Original Alignment agTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAA-GACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAg tctactggccattacctgactcaaaagatgccgctgctttgggcacacagagTACACTCATCATCTGAGCATCTTTGCCCACAACCTAGCTCAGGCTCAAAGGCTACAGCAGGAACGACTTGGGTACTGCTGAGCTTGGAGAGACACCCTTCAGTGACCTCAACagtaaaagggtttgtgtggcaagacctactatactgtcctcaggccctctt Alignment from CESAR agTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAA-GACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAg tctactggccattacctgactcaaaagatgccgctgctttgggcacacagagTACACTCATCATCTGAGCATCTTTGCCCACAACCTAGCTCAGGCTCAAAGGCTACAGCAGGAACGACTTGGGTACTGCTGAGCTTGGAGAGACACCCTTCAGTGACCTCAACagtaaaagggtttgtgtggcaagacctactatactgtcctcaggccctctt Alignment from Spaln_aa2Genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAA-GACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tctactggccattacctgactcaaaagatgccgctgctttgggcacacagAGTACACTCATCATCTGAGCATCTTTGCCCACAACCTAGCTCAGGCTCAAAGGCTACAGCAGGAAcGACTTGGGTACTGCTGAGCTTGGAGAGACACCCTTCAGTGACCTCAACAgtaaaagggtttgtgtggcaagacctactatactgtcctcaggccctctt Alignment from Spaln_nt2Genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAA-GACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tctactggccattacctgactcaaaagatgccgctgctttgggcacacagAGTACACTCATCATCTGAGCATCTTTGCCCACAACCTAGCTCAGGCTCAAAGGCTACAGCAGGAACGACTTGGGTACTGCTGAGCTTGGAGAGACACCCTTCAGTGACCTCAACAgtaaaagggtttgtgtggcaagacctactatactgtcctcaggccctctt Alignment from Pairagon AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAA-GACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tctactggccattacctgactcaaaagatgccgctgctttgggcacacagAGTACACTCATCATCTGAGCATCTTTGCCCACAACCTAGCTCAGGCTCAAAGGCTACAGCAGGAACGACTTGGGTACTGCTGAGCTTGGAGAGACACCCTTCAGTGACCTCAACAgtaaaagggtttgtgtggcaagacctactatactgtcctcaggccctctt Alignment from Exonerate_protein2genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAA-GACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tctactggccattacctgactcaaaagatgccgctgctttgggcacacagAGTACACTCATCATCTGAGCATCTTTGCCCACAACCTAGCTCAGGCTCAAAGGCTACAGCAGGAACGACTTGGGTACTGCTGAGCTTGGAGAGACACCCTTCAGTGACCTCAACAgtaaaagggtttgtgtggcaagacctactatactgtcctcaggccctctt Alignment from Exonerate_coding2genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAA-GACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tctactggccattacctgactcaaaagatgccgctgctttgggcacacagAGTACACTCATCATCTGAGCATCTTTGCCCACAACCTAGCTCAGGCTCAAAGGCTACAGCAGGAACGACTTGGGTACTGCTGAGCTTGGAGAGACACCCTTCAGTGACCTCAACAgtaaaagggtttgtgtggcaagacctactatactgtcctcaggccctctt Alignment from GeneWise AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAA-GAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tctactggccattacctgactcaaaagatgccgctgctttgggcacacagAGTACACTCATCATCTGAGCATCTTTGCCCACAACCTAGCTCAGGCTCAAAGGCTACAGCAGGAACGACTTGGGTACTGCTGAGCTTGGAGAGACACCCTTCAGTGACCTCAACAgtaaaagggtttgtgtggcaagacctactatactgtcctcaggccctctt #### Cyp17a1_ID9996_4 --> 0 - 0 Original Alignment ATTTTTCCCAATAAAAACTTGGAAATGATAAAGGAACACACTAAA-ATTCGAGAAAAAACACTGGTTGAAATGTTTGAAAAATGCAAG ctactccgcctacttgtcaatgctctccgttttctttattttaattatagATTTTGCCCAATAAGAACTTGGAAATGATAAAAGAGCATACTAAGCATCCAGGATAAA------GTTGATATGTTTGAAAAATGCAAAgtaattagttagagtttcagatgttgggctgacaggattcctgagaggat Alignment from CESAR ATTTTTCCCAATAAAAACTTGGAAATGATAAAGGAACACACTAAA-ATTCGAGAAAAAACACTGGTTGAAATGTTTGAAAAATGCAAG ctactccgcctacttgtcaatgctctccgttttctttattttaattatagATTTTGCCCAATAAGAACTTGGAAATGATAAAAGAGCATACTAAGCATCCAGGATAAA------GTTGATATGTTTGAAAAATGCAAAgtaattagttagagtttcagatgttgggctgacaggattcctgagaggat Alignment from Spaln_aa2Genome ATTTTTCCCAATAAAAACTTGGAAATGATAAAGGAACACACTAAA-ATTCGAGAAAAAACACTGGTTGAAATGTTTGAAAAATGCAAG ctactccgcctacttgtcaatgctctccgttttctttattttaattatagATTTTGCCCAATAAGAACTTGGAAATGATAAAAGAGCATACTAAGcATCCAGGATAAA------GTTGATATGTTTGAAAAATGCAAAgtaattagttagagtttcagatgttgggctgacaggattcctgagaggat Alignment from Spaln_nt2Genome ATTTTTCCCAATAAAAACTTGGAAATGATAAAGGAACACACTAAAATTCGAGAAAAAACACTGGTTGAAATGTTTGAAAAATGCAAG ctactccgcctacttgtcaatgctctccgttttctttattttaattatagATTTTGCCCAATAAGAACTTGGAAATGATAAAAGAGCATACTAAGCATCCAGGATAAA-----GTTGATATGTTTGAAAAATGCAAAgtaattagttagagtttcagatgttgggctgacaggattcctgagaggat Alignment from Pairagon ATTTTTCCCAATAAAAACTTGGAAATGATAAAGGAACACACTAAAATTCGAGAAAAAACACTGGTTGAAATGTTTGAAAAATGCAAG ctactccgcctacttgtcaatgctctccgttttctttattttaattatagATTTTGCCCAATAAGAACTTGGAAATGATAAAAGAGCATACTAAGCATCCAGGATAAA-----GTTGATATGTTTGAAAAATGCAAAgtaattagttagagtttcagatgttgggctgacaggattcctgagaggat Alignment from Exonerate_protein2genome ATTTTTCCCAATAAAAACTTGGAAATGATAAAGGAACACACTAAA-ATTCGAGAAAAAACACTGGTTGAAATGTTTGAAAAATGCAAG ctactccgcctacttgtcaatgctctccgttttctttattttaattatagATTTTGCCCAATAAGAACTTGGAAATGATAAAAGAGCATACTAAGCATCCAGGATAAA------GTTGATATGTTTGAAAAATGCAAAgtaattagttagagtttcagatgttgggctgacaggattcctgagaggat Alignment from Exonerate_coding2genome ATTTTTCCCAATAAAAACTTGGAAATGATAAAGGAACACACTAAA-ATTCGAGAAAAAACACTGGTTGAAATGTTTGAAAAATGCAAG ctactccgcctacttgtcaatgctctccgttttctttattttaattatagATTTTGCCCAATAAGAACTTGGAAATGATAAAAGAGCATACTAAGCATCCAGGATAAA------GTTGATATGTTTGAAAAATGCAAAgtaattagttagagtttcagatgttgggctgacaggattcctgagaggat Alignment from GeneWise ---TTTCCCAATAAAAACTTGGAAATGATAAAGGAACACACTAAA-ATTCGAGAAAAAACACTGGTTGAAATGTTTGAAAAATGCAAG ctactccgcctacttgtcaatgctctccgttttctttattttaattatagATTTTGCCCAATAAGAACTTGGAAATGATAAAAGAGCATACTAAGCATCCAGGATAAA------GTTGATATGTTTGAAAAATGCAAAgtaattagttagagtttcagatgttgggctgacaggattcctgagaggat #### Cyp26a1_ID7414_2 --> 0 - 0 Original Alignment CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCC-AACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG ccccctgcaaaccatggccacttccatggcccacttgctctcttatgcagCGCAGGAAGTTTCTTCAGATGGAGCACAGGAAGTATGGCTTCATCTACAAGACACATCTGTTTGGCTGGCCAACGGTGCGTGTGATGGGTACAGATAATGTTCGTCGTATTTTGCTGGGGGAGCACCGGTTAGTGTCAGTTCACTGGCCTGCATCAGTACGCATCATCCTGGGTGCTGGCTGCCTTTCTCAACCTGTATGATTCCTCACATAAGAAACAAAAGAAGgtgggtactggaaggccaattaaggtaatgactggaaggccaattccaca Alignment from CESAR CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCC-AACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG ccccctgcaaaccatggccacttccatggcccacttgctctcttatgcagCGCAGGAAGTTTCTTCAGATGGAGCACAGGAAGTATGGCTTCATCTACAAGACACATCTGTTTGGCTGGCCAACGGTGCGTGTGATGGGTACAGATAATGTTCGTCGTATTTTGCTGGGGGAGCACCGGTTAGTGTCAGTTCACTGGCCTGCATCAGTACGCATCATCCTGGGTGCTGGCTGCCTTTCTCAACCTGTATGATTCCTCACATAAGAAACAAAAGAAGgtgggtactggaaggccaattaaggtaatgactggaaggccaattccaca Alignment from Spaln_aa2Genome CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCC-AACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG ccccctgcaaaccatggccacttccatggcccacttgctctcttatgcagCGCAGGAAGTTTCTTCAGATGGAGCACAGGAAGTATGGCTTCATCTACAAGACACATCTGTTTGGCTGGCCAACGGTGCGTGTGATGGGTACAGATAATGTTCGTCGTATTTTGCTGGGGGAGCACCGGTTAGTGTCAGTTCACTGGCCTGCATCAGTACGCATCATCCTGGGTGCTGGCTGCCTTTCTcAACCTGTATGATTCCTCACATAAGAAACAAAAGAAGgtgggtactggaaggccaattaaggtaatgactggaaggccaattccaca Alignment from Spaln_nt2Genome CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTC-CAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG ccccctgcaaaccatggccacttccatggcccacttgctctcttatgcagCGCAGGAAGTTTCTTCAGATGGAGCACAGGAAGTATGGCTTCATCTACAAGACACATCTGTTTGGCTGGCCAACGGTGCGTGTGATGGGTACAGATAATGTTCGTCGTATTTTGCTGGGGGAGCACCGGTTAGTGTCAGTTCACTGGCCTGCATCAGTACGCATCATCCTGGGTGCTGGCTGCCTTTCTCAACCTGTATGATTCCTCACATAAGAAACAAAAGAAGgtgggtactggaaggccaattaaggtaatgactggaaggccaattccaca Alignment from Pairagon CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTC-CAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG ccccctgcaaaccatggccacttccatggcccacttgctctcttatgcagCGCAGGAAGTTTCTTCAGATGGAGCACAGGAAGTATGGCTTCATCTACAAGACACATCTGTTTGGCTGGCCAACGGTGCGTGTGATGGGTACAGATAATGTTCGTCGTATTTTGCTGGGGGAGCACCGGTTAGTGTCAGTTCACTGGCCTGCATCAGTACGCATCATCCTGGGTGCTGGCTGCCTTTCTCAACCTGTATGATTCCTCACATAAGAAACAAAAGAAGgtgggtactggaaggccaattaaggtaatgactggaaggccaattccaca Alignment from Exonerate_protein2genome CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCC-AACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG ccccctgcaaaccatggccacttccatggcccacttgctctcttatgcagCGCAGGAAGTTTCTTCAGATGGAGCACAGGAAGTATGGCTTCATCTACAAGACACATCTGTTTGGCTGGCCAACGGTGCGTGTGATGGGTACAGATAATGTTCGTCGTATTTTGCTGGGGGAGCACCGGTTAGTGTCAGTTCACTGGCCTGCATCAGTACGCATCATCCTGGGTGCTGGCTGCCTTTCTCAACCTGTATGATTCCTCACATAAGAAACAAAAGAAGgtgggtactggaaggccaattaaggtaatgactggaaggccaattccaca Alignment from Exonerate_coding2genome CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCC-AACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG ccccctgcaaaccatggccacttccatggcccacttgctctcttatgcagCGCAGGAAGTTTCTTCAGATGGAGCACAGGAAGTATGGCTTCATCTACAAGACACATCTGTTTGGCTGGCCAACGGTGCGTGTGATGGGTACAGATAATGTTCGTCGTATTTTGCTGGGGGAGCACCGGTTAGTGTCAGTTCACTGGCCTGCATCAGTACGCATCATCCTGGGTGCTGGCTGCCTTTCTCAACCTGTATGATTCCTCACATAAGAAACAAAAGAAGgtgggtactggaaggccaattaaggtaatgactggaaggccaattccaca Alignment from GeneWise CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTC-TCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG ccccctgcaaaccatggccacttccatggcccacttgctctcttatgcagCGCAGGAAGTTTCTTCAGATGGAGCACAGGAAGTATGGCTTCATCTACAAGACACATCTGTTTGGCTGGCCAACGGTGCGTGTGATGGGTACAGATAATGTTCGTCGTATTTTGCTGGGGGAGCACCGGTTAGTGTCAGTTCACTGGCCTGCATCAGTACGCATCATCCTGGGTGCTGGCTGCCTTTCTCAACCTGTATGATTCCTCACATAAGAAACAAAAGAAGgtgggtactggaaggccaattaaggtaatgactggaaggccaattccaca #### Cyp26a1_ID7415_3 --> 0 - 0 Original Alignment GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTA-AGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACC tcgagcacaagtataggccgataaacacagccttcatcttctgcccacagGTCATAATGCATGCATTCAGCAGGGAAGCACTCCAGTGTTATGTCCCTGTTATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTACTGCTGTGGTGAACATGGTCTCCTTGCCTACCCTGAGGTGAAGCGCCTTATGTTC---ATTGCTATGCGAATCCTGCTAGGCTGTCAGCAAGGCTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCTTTTGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGTGGTCTGTACCGTgtatgacatctgacacgctggcctgtcctagGGTGTT---TCTCGTAATA Alignment from CESAR GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTA-AGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACC tcgagcacaagtataggccgataaacacagccttcatcttctgcccacagGTCATAATGCATGCATTCAGCAGGGAAGCACTCCAGTGTTATGTCCCTGTTATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTACTGCTGTGGTGAACATGGTCTCCTTGCCTACCCTGAGGTGAAGCGCCTTATGTTC---ATTGCTATGCGAATCCTGCTAGGCTGTCAGCAAGGCTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCTTTTGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGTGGTCTGTACCGTgtatgacatgacattcttctgctctgcccagGGTGTT---TCTCGTAATA Alignment from Spaln_aa2Genome GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTA-AGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACC tcgagcacaagtataggccgataaacacagccttcatcttctgcccacagGTCATAATGCATGCATTCAGCAGGGAAGCACTCCAGTGTTATGTCCCTGTTATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTAcTGCTGTGGTGAACATGGTCTCCTTGCCTACCCTGAGGTGAAGCGCCTTATGTTC---ATTGCTATGCGAATCCTGCTAGGCTGTCAGCAAGGCTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCTTTTGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGTGGTCTGTACCGTgtatgacatctgacacgctggcctgtcctagGGTGTT---TCTCGTAATA Alignment from Spaln_nt2Genome GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAA-GCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG-------------------------------GGCGTGAAGGCGCGGAACC tcgagcacaagtataggccgataaacacagccttcatcttctgcccacagGTCATAATGCATGCATTCAGCAGGGAAGCACTCCAGTGTTATGTCCCTGTTATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTACTGCTGTGGTGAACATGGTCTCCTTGCCTACCCTGAGGTGAAGCGCCTTATGTT---CATTGCTATGCGAATCCTGCTAGGCTGTCAGCAAGGCTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCTTTTGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGTGGTCTGTACCGTGTATGACATCTGACACGCTGGCCTGTCCTAGGGTGT---TTCTCGTAATA Alignment from Pairagon GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAA-GCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGGGGCGTGAAGGCGCGGAACCTT-------------------------------------------------A tcgagcacaagtataggccgataaacacagccttcatcttctgcccacagGTCATAATGCATGCATTCAGCAGGGAAGCACTCCAGTGTTATGTCCCTGTTATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTACTGCTGTGGTGAACATGGTCTCCTTGCCTACCCTGAGGTGAAGCGCCTTATGTT---CATTGCTATGCGAATCCTGCTAGGCTGTCAGCAAGGCTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCTTTTGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGTGGTCTGTACCG---------------------TGTATGACATCTGACACGCTGGCCTGTCCTAGGGTGTTTCTCGTAATATAA Alignment from Exonerate_protein2genome GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTA-AGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACC tcgagcacaagtataggccgataaacacagccttcatcttctgcccacagGTCATAATGCATGCATTCAGCAGGGAAGCACTCCAGTGTTATGTCCCTGTTATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTACTGCTGTGGTGAACATGGTCTCCTTGCCTACCCTGAGGTGAAGCGCCTTATGTTC---ATTGCTATGCGAATCCTGCTAGGCTGTCAGCAAGGCTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCTTTTGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGTGGTCTGTACCGTgtatgacatctgacacgctggcctgtcctagGGTGTT---TCTCGTAATA Alignment from Exonerate_coding2genome GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTA-AGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACC tcgagcacaagtataggccgataaacacagccttcatcttctgcccacagGTCATAATGCATGCATTCAGCAGGGAAGCACTCCAGTGTTATGTCCCTGTTATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTACTGCTGTGGTGAACATGGTCTCCTTGCCTACCCTGAGGTGAAGCGCCTTATGTTC---ATTGCTATGCGAATCCTGCTAGGCTGTCAGCAAGGCTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCTTTTGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGTGGTCTGTACCGTgtatgacatctgacacgctggcctgtcctagGGTGTT---TCTCGTAATA Alignment from GeneWise GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTA-AGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACC tcgagcacaagtataggccgataaacacagccttcatcttctgcccacagGTCATAATGCATGCATTCAGCAGGGAAGCACTCCAGTGTTATGTCCCTGTTATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTACTGCTGTGGTGAACATGGTCTCCTTGCCTACCCTGAGGTGAAGCGCCTTATGTTC---ATTGCTATGCGAATCCTGCTAGGCTGTCAGCAAGGCTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCTTTTGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGTGGTCTGTACCGTgtatgacatctgacacgctggcctgtcctagGGTGTT---TCTCGTAATA #### Cyp26a1_ID7418_6 --> 0 - 0 Original Alignment GGCTTACTTTGCAAGAGCAATCAA-GACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT tatgtttgggtttgtaatccttgtgaagttgtgttctttctccctcccagGGCTTACTTTGCAAGAGCAATCAGCGATAACAAGTTGGACATGGAAACGTTGGAACAGCTTAAATACACTGGGTGTGTAATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCTAGAGGGTTTCGGGTTGCTCTGAAGACCTTTGGGCTGAATgtaagtgcactccttctccactggacatagcccttgcccttatacactat Alignment from CESAR GGCTTACTTTGCAAGAGCAATCAA-GACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT tatgtttgggtttgtaatccttgtgaagttgtgttctttctccctcccagGGCTTACTTTGCAAGAGCAATCAGCGATAACAAGTTGGACATGGAAACGTTGGAACAGCTTAAATACACTGGGTGTGTAATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCTAGAGGGTTTCGGGTTGCTCTGAAGACCTTTGGGCTGAATgtaagtgcactccttctccactggacatagcccttgcccttatacactat Alignment from Spaln_aa2Genome GGCTTACTTTGCAAGAGCAATCAA-GACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT tatgtttgggtttgtaatccttgtgaagttgtgttctttctccctcccagGGCTTACTTTGCAAGAGCAATCAGcGATAACAAGTTGGACATGGAAACGTTGGAACAGCTTAAATACACTGGGTGTGTAATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCTAGAGGGTTTCGGGTTGCTCTGAAGACCTTTGGGCTGAATgtaagtgcactccttctccactggacatagcccttgcccttatacactat Alignment from Spaln_nt2Genome GGCTTACTTTGCAAGAGCAATCAA-GACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT tatgtttgggtttgtaatccttgtgaagttgtgttctttctccctcccagGGCTTACTTTGCAAGAGCAATCAGCGATAACAAGTTGGACATGGAAACGTTGGAACAGCTTAAATACACTGGGTGTGTAATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCTAGAGGGTTTCGGGTTGCTCTGAAGACCTTTGGGCTGAATgtaagtgcactccttctccactggacatagcccttgcccttatacactat Alignment from Pairagon GGCTTACTTTGCAAGAGCAATCAA-GACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT tatgtttgggtttgtaatccttgtgaagttgtgttctttctccctcccagGGCTTACTTTGCAAGAGCAATCAGCGATAACAAGTTGGACATGGAAACGTTGGAACAGCTTAAATACACTGGGTGTGTAATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCTAGAGGGTTTCGGGTTGCTCTGAAGACCTTTGGGCTGAATgtaagtgcactccttctccactggacatagcccttgcccttatacactat Alignment from Exonerate_protein2genome GGCTTACTTTGCAAGAGCAATCAA-GACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT tatgtttgggtttgtaatccttgtgaagttgtgttctttctccctcccagGGCTTACTTTGCAAGAGCAATCAGCGATAACAAGTTGGACATGGAAACGTTGGAACAGCTTAAATACACTGGGTGTGTAATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCTAGAGGGTTTCGGGTTGCTCTGAAGACCTTTGGGCTGAATgtaagtgcactccttctccactggacatagcccttgcccttatacactat Alignment from Exonerate_coding2genome GGCTTACTTTGCAAGAGCAATCAA-GACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT tatgtttgggtttgtaatccttgtgaagttgtgttctttctccctcccagGGCTTACTTTGCAAGAGCAATCAGCGATAACAAGTTGGACATGGAAACGTTGGAACAGCTTAAATACACTGGGTGTGTAATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCTAGAGGGTTTCGGGTTGCTCTGAAGACCTTTGGGCTGAATgtaagtgcactccttctccactggacatagcccttgcccttatacactat Alignment from GeneWise GGCTTACTTTGCAAGAGCAAT-CAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT tatgtttgggtttgtaatccttgtgaagttgtgttctttctccctcccagGGCTTACTTTGCAAGAGCAATCAGCGATAACAAGTTGGACATGGAAACGTTGGAACAGCTTAAATACACTGGGTGTGTAATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCTAGAGGGTTTCGGGTTGCTCTGAAGACCTTTGGGCTGAATgtaagtgcactccttctccactggacatagcccttgcccttatacactat #### Cyp2c50_ID7861_2 --> 0 - 1 Original Alignment TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGG-CTCCCAGTTTTTGATAAAGCTACTAATGGAATGg atatcgcatggcagtcaaatctttctagctctttttcatttttcccccagTTATCCAAAGTCTATGATGGTCCCGTGTATACTCTATATTTAGGCAAGAAACCTACTGTAGTATTACAGGGTTATGAGGCAGTGAGGGAATCATTAGTTGACCATGGGGAAGAATTTGCTGGGAGAGAAAGACCTACCTGTTTTTGATAAAGCTACCAATGGAATGggtaaggataggtttgcaataccagtgaaggaaagtgtgagtgcattgcag Alignment from CESAR TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGG-CTCCCAGTTTTTGATAAAGCTACTAATGGAATGg atatcgcatggcagtcaaatctttctagctctttttcatttttcccccagTTATCCAAAGTCTATGATGGTCCCGTGTATACTCTATATTTAGGCAAGAAACCTACTGTAGTATTACAGGGTTATGAGGCAGTGAGGGAATCATTAGTTGACCATGGGGAAGAATTTGCTGGGAGAGAAAGACCTACCTGTTTTTGATAAAGCTACCAATGGAATGggtaaggataggtttgcaataccagtgaaggaaagtgtgagtgcattgcag Alignment from Spaln_aa2Genome TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGG-CTCCCAGTTTTTGATAAAGCTACTAATGGAATGG atatcgcatggcagtcaaatctttctagctctttttcatttttcccccagTTATCCAAAGTCTATGATGGTCCCGTGTATACTCTATATTTAGGCAAGAAACCTACTGTAGTATTACAGGGTTATGAGGCAGTGAGGGAATCATTAGTTGACCATGGGGAAGAATTTGCTGGGAGAGAAAGAcCTACCTGTTTTTGATAAAGCTACCAATGGAATGGgtaaggataggtttgcaataccagtgaaggaaagtgtgagtgcattgcag Alignment from Spaln_nt2Genome TTATCAAAAGTTTATG---GCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGC-TCCCAGTTTTTGATAAAGCTACTAATGGAATGG atatcgcatggcagtcaaatctttctagctctttttcatttttcccccagTTATCCAAAGTCTATGATGGTCCCGTGTATACTCTATATTTAGGCAAGAAACCTACTGTAGTATTACAGGGTTATGAGGCAGTGAGGGAATCATTAGTTGACCATGGGGAAGAATTTGCTGGGAGAGAAAGACCTACCTGTTTTTGATAAAGCTACCAATGGAATGGgtaaggataggtttgcaataccagtgaaggaaagtgtgagtgcattgcag Alignment from Pairagon TTATCAAAAGTTT---ATGGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGG-CTCCCAGTTTTTGATAAAGCTACTAATGGAATGG atatcgcatggcagtcaaatctttctagctctttttcatttttcccccagTTATCCAAAGTCTATGATGGTCCCGTGTATACTCTATATTTAGGCAAGAAACCTACTGTAGTATTACAGGGTTATGAGGCAGTGAGGGAATCATTAGTTGACCATGGGGAAGAATTTGCTGGGAGAGAAAGACCTACCTGTTTTTGATAAAGCTACCAATGGAATGGgtaaggataggtttgcaataccagtgaaggaaagtgtgagtgcattgcag Alignment from Exonerate_protein2genome TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGG-CTCCCAGTTTTTGATAAAGCTACTAATGGAATGG atatcgcatggcagtcaaatctttctagctctttttcatttttcccccagTTATCCAAAGTCTATGATGGTCCCGTGTATACTCTATATTTAGGCAAGAAACCTACTGTAGTATTACAGGGTTATGAGGCAGTGAGGGAATCATTAGTTGACCATGGGGAAGAATTTGCTGGGAGAGAAAGACCTACCTGTTTTTGATAAAGCTACCAATGGAATGGgtaaggataggtttgcaataccagtgaaggaaagtgtgagtgcattgcag Alignment from Exonerate_coding2genome TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGG-CTCCCAGTTTTTGATAAAGCTACTAATGGAATGG atatcgcatggcagtcaaatctttctagctctttttcatttttcccccagTTATCCAAAGTCTATGATGGTCCCGTGTATACTCTATATTTAGGCAAGAAACCTACTGTAGTATTACAGGGTTATGAGGCAGTGAGGGAATCATTAGTTGACCATGGGGAAGAATTTGCTGGGAGAGAAAGACCTACCTGTTTTTGATAAAGCTACCAATGGAATGGgtaaggataggtttgcaataccagtgaaggaaagtgtgagtgcattgcag Alignment from GeneWise TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGG-CTCCCAGTTTTTGATAAAGCTACTAATGGAATGG atatcgcatggcagtcaaatctttctagctctttttcatttttcccccagTTATCCAAAGTCTATGATGGTCCCGTGTATACTCTATATTTAGGCAAGAAACCTACTGTAGTATTACAGGGTTATGAGGCAGTGAGGGAATCATTAGTTGACCATGGGGAAGAATTTGCTGGGAGAGAAAGACCTACCTGTTTTTGATAAAGCTACCAATGGAATGGgtaaggataggtttgcaataccagtgaaggaaagtgtgagtgcattgcag #### Cyp2c50_ID7863_4 --> 2 - 0 Original Alignment gcTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCTTAATTTGATG-GAAAAACTGAATGAAATAACCAAGATAATGAGCACCCCTTGGTTGCAG agtggatttgtgtaagctactatttgtctactgtagctttccctttccaggcTCACCGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAAGATCGGGATTTTCTTAATTTGATGCGAAAAGTTAAATAAAATATCTAAAATAATGAGCATGCCATGGCTT---gtagtctcaggtatttggaatgacacccatgcaaaggctgttatccttat Alignment from CESAR gcTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCTTAATTTGATG-GAAAAACTGAATGAAATAACCAAGATAATGAGCACCCCTTGGTTGCAG agtggatttgtgtaagctactatttgtctactgtagctttccctttccaggcTCACCGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAAGATCGGGATTTTCTTAATTTGATGCGAAAAGTTAAATAAAATATCTAAAATAATGAGCATGCCATGGCTT---gtagtctcaggtatttggaatgacacccatgcaaaggctgttatcct Alignment from Spaln_aa2Genome GCTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCTTAATTTGATGGAAAAA-CTGAATGAAATAACCAAGATAATGAGCACCCCTTGGTTGCAG agtggatttgtgtaagctactatttgtctactgtagctttccctttccagGCTCACCGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAAGATCGGGATTTTCTTAATTTGATGCGAAAAgTTAAATAAAATATCTAAAATAATGAGCATGCCATGGCTTGTAgtctcaggtatttggaatgacacccatgcaaaggctgttatccttat Alignment from Spaln_nt2Genome GCTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCTTAATTTGATG-GAAAAACTGAATGAAATAACCAAGATAATGAGCACCCCTTGG-TTG------CAG agtggatttgtgtaagctactatttgtctactgtagctttccctttccagGCTCACCGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAAGATCGGGATTTTCTTAATTTGATGCGAAAAGTTAAATAAAATATCTAAAATAATGAGCATGCCATGGCTTGTAGTCTCAGgtatttggaatgacacccatgcaaaggctgttatccttat Alignment from Pairagon GCTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCTTAATTTGATG-GAAAAACTGAATGAAATAACCAAGATAATGAGCACCCCTTG-------GTTGCAG agtggatttgtgtaagctactatttgtctactgtagctttccctttccagGCTCACCGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAAGATCGGGATTTTCTTAATTTGATGCGAAAAGTTAAATAAAATATCTAAAATAATGAGCATGCCATGGCTTGTAGTCTCAGgtatttggaatgacacccatgcaaaggctgttatccttat Alignment from Exonerate_protein2genome GCTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCTTAATTTGATG-GAAAAACTGAATGAAATAACCAAGATAATGAGCACCCCTTGGTTGCAG agtggatttgtgtaagctactatttgtctactgtagctttccctttccagGCTCACCGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAAGATCGGGATTTTCTTAATTTGATGCGAAAAGTTAAATAAAATATCTAAAATAATGAGCATGCCATGGCTTGTAgtctcaggtatttggaatgacacccatgcaaaggctgttatccttat Alignment from Exonerate_coding2genome GCTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCTTAATTTGATG-GAAAAACTGAATGAAATAACCAAGATAATGAGCACCCCTTGGTTGCAG agtggatttgtgtaagctactatttgtctactgtagctttccctttccagGCTCACCGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAAGATCGGGATTTTCTTAATTTGATGCGAAAAGTTAAATAAAATATCTAAAATAATGAGCATGCCATGGCTTGTAgtctcaggtatttggaatgacacccatgcaaaggctgttatccttat Alignment from GeneWise GCTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCTTAATTTGATG-GAAAAACTGAATGAAATAACCAAGATAATGAGCACCCCTTGGTTGCAG agtggatttgtgtaagctactatttgtctactgtagctttccctttccagGCTCACCGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAAGATCGGGATTTTCTTAATTTGATGCGAAAAGTTAAATAAAATATCTAAAATAATGAGCATGCCATGGCTTGTAgtctcaggtatttggaatgacacccatgcaaaggctgttatccttat #### D19Ertd737e_ID13192_2 --> 0 - 1 Original Alignment AAATTTCAAGAATTGCATAAAAAA-AATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAg atgcccatctcctgcctacatgtacacattaaatattctattccatttagAAGTTTCAAGAATTGCATAAAAAACAACTCAGAACAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCAAAAAAGggtagtagtagcttagggatgtgggcttacatctaagttaattaggccatt Alignment from CESAR AAATTTCAAGAATTGCATAAAAAA-AATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAg atgcccatctcctgcctacatgtacacattaaatattctattccatttagAAGTTTCAAGAATTGCATAAAAAACAACTCAGAACAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCAAAAAAGggtagtagtagcttagggatgtgggcttacatctaagttaattaggccatt Alignment from Spaln_aa2Genome AAATTTCAAGAATTGCATAAAAAA-AATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG atgcccatctcctgcctacatgtacacattaaatattctattccatttagAAGTTTCAAGAATTGCATAAAAAAcAACTCAGAACAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCAAAAAAGGgtagtagtagcttagggatgtgggcttacatctaagttaattaggccatt Alignment from Spaln_nt2Genome AAATTTCAAGAATTGCATAAAAAA-AATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG atgcccatctcctgcctacatgtacacattaaatattctattccatttagAAGTTTCAAGAATTGCATAAAAAACAACTCAGAACAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCAAAAAAGGgtagtagtagcttagggatgtgggcttacatctaagttaattaggccatt Alignment from Pairagon AAATTTCAAGAATTGCATAAAAAA-AATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG atgcccatctcctgcctacatgtacacattaaatattctattccatttagAAGTTTCAAGAATTGCATAAAAAACAACTCAGAACAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCAAAAAAGGgtagtagtagcttagggatgtgggcttacatctaagttaattaggccatt Alignment from Exonerate_protein2genome AAATTTCAAGAATTGCATAAAAAA-AATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG atgcccatctcctgcctacatgtacacattaaatattctattccatttagAAGTTTCAAGAATTGCATAAAAAACAACTCAGAACAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCAAAAAAGGgtagtagtagcttagggatgtgggcttacatctaagttaattaggccatt Alignment from Exonerate_coding2genome AAATTTCAAGAATTGCATAAAAAA-AATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAGGCAAATTGAAGAATGAAAAGGAATCTCACAG atgcccatctcctgcctacatgtacacattaaatattctattccatttagAAGTTTCAAGAATTGCATAAAAAACAACTCAGAACAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCAAAAAAGGGTAGTAGTAGCTTAGGGATGTGGGCTTACATctaagttaattaggccatt Alignment from GeneWise AAATTTCAAGAATTGCATAAA-AAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAGGC- atgcccatctcctgcctacatgtacacattaaatattctattccatttagAAGTTTCAAGAATTGCATAAAAAACAACTCAGAACAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCAAAAAAGGGTAgtagtagcttagggatgtgggcttacatctaagttaattaggccatt #### Dak_ID2898_15 --> 1 - 0 Original Alignment gTATGGAAAGGCTGCACCAGGA-GACAGGACAATG tgacacttgtgtcagcacttttagaggtccctctccttctgtgtttacaggTATGGAAAGGCTGCACCAGGACGACAGGACAATGgtatgtttactttcccactttgggccctcctatggtgctaagatctggtg Alignment from CESAR gTATGGAAAGGCTGCACCAGGA-GACAGGACAATG tgacacttgtgtcagcacttttagaggtccctctccttctgtgtttacaggTATGGAAAGGCTGCACCAGGACGACAGGACAATGgtatgtttactttcccactttgggccctcctatggtgctaagatctgggt Alignment from Spaln_aa2Genome GTATGGAAAGGCTGCACCAGGA-GACAGGACAATG tgacacttgtgtcagcacttttagaggtccctctccttctgtgtttacagGTATGGAAAGGCTGCACCAGGAcGACAGGACAATGgtatgtttactttcccactttgggccctcctatggtgctaagatctggtg Alignment from Spaln_nt2Genome GTATGGAAAGGCTGCACCAGGA-GACAGGACAATG tgacacttgtgtcagcacttttagaggtccctctccttctgtgtttacagGTATGGAAAGGCTGCACCAGGACGACAGGACAATGgtatgtttactttcccactttgggccctcctatggtgctaagatctggtg Alignment from Pairagon GTATGGAAAGGCTGCACCAGGA-GACAGGACAATG tgacacttgtgtcagcacttttagaggtccctctccttctgtgtttacagGTATGGAAAGGCTGCACCAGGACGACAGGACAATGgtatgtttactttcccactttgggccctcctatggtgctaagatctggtg Alignment from Exonerate_protein2genome GTATGGAAAGGCTGCACCAGGA-GACAGGACAATG tgacacttgtgtcagcacttttagaggtccctctccttctgtgtttacagGTATGGAAAGGCTGCACCAGGACGACAGGACAATGgtatgtttactttcccactttgggccctcctatggtgctaagatctggtg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise tgacacttgtgtcagcacttttagaggtccctctccttctgtgtttacaggtatggaaaggctgcaccaggacgacaggacaatggtatgtttactttcccactttgggccctcctatggtgctaagatctggtg #### Dak_ID2899_14 --> 0 - 2 Original Alignment CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTA-GAGTCCATGCAGaa ccttactacagctagtgccaattaattcaacaccaccccatgtgctccagCTATATGGATTGTTCCTCACTGCTTCAGCCCAACCTCTG------AAAACTGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTACGACTCCATGCAGaagtgagtcagtgtctttacctcccagcaaaaagtgaggttgtgccatatgc Alignment from CESAR CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTA-GAGTCCATGCAGaa ccttactacagctagtgccaattaattcaacaccaccccatgtgctccagCTATATGGATTGTTCCTCACTGCTTCAGCCCAACCTCTG------AAAACTGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTACGACTCCATGCAGaagtgagtcagtgtctttacctcccagcaaaaagtgaggttgtgccatatgc Alignment from Spaln_aa2Genome CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTA-GAGTCCATGCAGAA ccttactacagctagtgccaattaattcaacaccaccccatgtgctccagCTATATGGATTGTTCCTCACTGCTTCAGCCCAACCTCTG------AAAACTGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTAcGACTCCATGCAGAAgtgagtcagtgtctttacctcccagcaaaaagtgaggttgtgccatatgc Alignment from Spaln_nt2Genome CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTA-GAGTCCATGCAGAA ccttactacagctagtgccaattaattcaacaccaccccatgtgctccagCTATATGGATTGTTCCTCACTGCTTCAGCCCAACCTCT------GAAAACTGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTACGACTCCATGCAGAAgtgagtcagtgtctttacctcccagcaaaaagtgaggttgtgccatatgc Alignment from Pairagon CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTA-GAGTCCATGCAGAA ccttactacagctagtgccaattaattcaacaccaccccatgtgctccagCTATATGGATTGTTCCTCACTGCTTCAGCCCAACCTCT------GAAAACTGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTACGACTCCATGCAGAAgtgagtcagtgtctttacctcccagcaaaaagtgaggttgtgccatatgc Alignment from Exonerate_protein2genome CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTA-GAGTCCATGCAGAA ccttactacagctagtgccaattaattcaacaccaccccatgtgctccagCTATATGGATTGTTCCTCACTGCTTCAGCCCAACCTCTG------AAAACTGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTACGACTCCATGCAGAAgtgagtcagtgtctttacctcccagcaaaaagtgaggttgtgccatatgc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGAAGTATGGAAAGGCT------GCACCAGGAGACAGGACAATG ccttactacagctagtgccaattaattcaacaccaccccatgtgctccagCTATATGGATTGTTCCTCACTGCTTCAGCCCAACCTCTGAAA------ACTGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTACGACTCCATGCAGAAGTGAGTCAGTGTCTTTACCTCCCAGCAAAAAGTGAGGTTgtgccatatgc #### Dak_ID2900_13 --> 2 - 0 Original Alignment ccATTCAGGGCTGGCTAAAGGAA-GGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtagttcagatagccttgcctttcattccttagccATCCAGGGGTGGTTGAAGGAGCGGCCCATCACTGACCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaacagaacagttcttaggaccattgtagaaagccttactacagctag Alignment from CESAR ccATTCAGGGCTGGCTAAAGGAA-GGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtagttcagatagccttgcctttcattccttagccATCCAGGGGTGGTTGAAGGAGCGGCCCATCACTGACCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaacagaacagttcttaggaccattgtagaaagccttactacagctag Alignment from Spaln_aa2Genome CCATTCAGGGCTGGCTAAAGGAA-GGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtagttcagatagccttgcctttcattccttagCCATCCAGGGGTGGTTGAAGGAGcGGCCCATCACTGACCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaacagaacagttcttaggaccattgtagaaagccttactacagctag Alignment from Spaln_nt2Genome CCATTCAGGGCTGGCTAAAGGAA-GGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtagttcagatagccttgcctttcattccttagCCATCCAGGGGTGGTTGAAGGAGCGGCCCATCACTGACCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaacagaacagttcttaggaccattgtagaaagccttactacagctag Alignment from Pairagon CCATTCAGGGCTGGCTAAAGGAA-GGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtagttcagatagccttgcctttcattccttagCCATCCAGGGGTGGTTGAAGGAGCGGCCCATCACTGACCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaacagaacagttcttaggaccattgtagaaagccttactacagctag Alignment from Exonerate_protein2genome CCATTCAGGGCTGGCTAAAGGAA-GGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtagttcagatagccttgcctttcattccttagCCATCCAGGGGTGGTTGAAGGAGCGGCCCATCACTGACCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaacagaacagttcttaggaccattgtagaaagccttactacagctag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCATTCAGGGCTGGCTAAAG-GAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtagttcagatagccttgcctttcattccttagCCATCCAGGGGTGGTTGAAGGAGCGGCCCATCACTGACCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaacagaacagttcttaggaccattgtagaaagccttactacagctag #### Dak_ID2904_9 --> 2 - 1 Original Alignment gcTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTG-GAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGg gtttgtccaagcgtgctccaagcgtgctttttttcctgctgtttttacaggtTCTTCAGTGGTACTGATAGTGAATAATCTTGGTGGTCTGTCCTTCCGGCGAACTGGGTATCACAGCTGATGCTGCCATACGTTTGCTTggtacgtacacttcatcaggcatccatgtggagaccctttaatgcctatgc Alignment from CESAR gcTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTG-GAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGg gtttgtccaagcgtgctccaagcgtgctttttttcctgctgtttttacaggtTCTTCAGTGGTACTGATAGTGAATAATCTTGGTGGTCTGTCCTTCCGGCGAACTGGGTATCACAGCTGATGCTGCCATACGTTTGCTTggtacgtacacttcatcaggcatccatgtggagaccctttaatgcctatgc Alignment from Spaln_aa2Genome GCTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTG-GAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gtttgtccaagcgtgctccaagcgtgctttttttcctgctgtttttacagGTTCTTCAGTGGTACTGATAGTGAATAATCTTGGTGGTCTGTCCTTCCGGcGAACTGGGTATCACAGCTGATGCTGCCATACGTTTGCTTGgtacgtacacttcatcaggcatccatgtggagaccctttaatgcctatgc Alignment from Spaln_nt2Genome GCTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTG-GAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gtttgtccaagcgtgctccaagcgtgctttttttcctgctgtttttacagGTTCTTCAGTGGTACTGATAGTGAATAATCTTGGTGGTCTGTCCTTCCGGCGAACTGGGTATCACAGCTGATGCTGCCATACGTTTGCTTGgtacgtacacttcatcaggcatccatgtggagaccctttaatgcctatgc Alignment from Pairagon GCTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTG-GAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gtttgtccaagcgtgctccaagcgtgctttttttcctgctgtttttacagGTTCTTCAGTGGTACTGATAGTGAATAATCTTGGTGGTCTGTCCTTCCGGCGAACTGGGTATCACAGCTGATGCTGCCATACGTTTGCTTGgtacgtacacttcatcaggcatccatgtggagaccctttaatgcctatgc Alignment from Exonerate_protein2genome GCTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTG-GAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gtttgtccaagcgtgctccaagcgtgctttttttcctgctgtttttacagGTTCTTCAGTGGTACTGATAGTGAATAATCTTGGTGGTCTGTCCTTCCGGCGAACTGGGTATCACAGCTGATGCTGCCATACGTTTGCTTGgtacgtacacttcatcaggcatccatgtggagaccctttaatgcctatgc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GCTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTC-CTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gtttgtccaagcgtgctccaagcgtgctttttttcctgctgtttttacagGTTCTTCAGTGGTACTGATAGTGAATAATCTTGGTGGTCTGTCCTTCCGGCGAACTGGGTATCACAGCTGATGCTGCCATACGTTTGCTTGgtacgtacacttcatcaggcatccatgtggagaccctttaatgcctatgc #### Ddb1_ID2924_9 --> 0 - 0 Original Alignment CTCAATGTCGACAGCAACGAACAAGGC-TCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tatctgtttattcaagtctttagtctcaggctgccttgtttcttctgcagCTCAATGTTGATAGCAATGAACAAGGGCTCCTATGTAGTGGCAATGGAAACATTTACTAATTTGGGACCTATTATAGATATGTTTGTGGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgagcggcacccctaaagagcggaaggctaggagctgtaaacagcctta Alignment from CESAR CTCAATGTCGACAGCAACGAACAA-GGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tatctgtttattcaagtctttagtctcaggctgccttgtttcttctgcagCTCAATGTTGATAGCAATGAACAAGGGCTCCTATGTAGTGGCAATGGAAACATTTACTAATTTGGGACCTATTATAGATATGTTTGTGGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgagcggcacccctaaagagcggaaggctaggagctgtaaacagcctta Alignment from Spaln_aa2Genome CTCAATGTCGACAGCAACGAACAA-GGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tatctgtttattcaagtctttagtctcaggctgccttgtttcttctgcagCTCAATGTTGATAGCAATGAACAAgGGCTCCTATGTAGTGGCAATGGAAACATTTACTAATTTGGGACCTATTATAGATATGTTTGTGGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgagcggcacccctaaagagcggaaggctaggagctgtaaacagcctta Alignment from Spaln_nt2Genome CTCAATGTCGACAGCAACGAACAA-GGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tatctgtttattcaagtctttagtctcaggctgccttgtttcttctgcagCTCAATGTTGATAGCAATGAACAAGGGCTCCTATGTAGTGGCAATGGAAACATTTACTAATTTGGGACCTATTATAGATATGTTTGTGGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgagcggcacccctaaagagcggaaggctaggagctgtaaacagcctta Alignment from Pairagon CTCAATGTCGACAGCAACGAACAA-GGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tatctgtttattcaagtctttagtctcaggctgccttgtttcttctgcagCTCAATGTTGATAGCAATGAACAAGGGCTCCTATGTAGTGGCAATGGAAACATTTACTAATTTGGGACCTATTATAGATATGTTTGTGGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgagcggcacccctaaagagcggaaggctaggagctgtaaacagcctta Alignment from Exonerate_protein2genome CTCAATGTCGACAGCAACGAACAA-GGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tatctgtttattcaagtctttagtctcaggctgccttgtttcttctgcagCTCAATGTTGATAGCAATGAACAAGGGCTCCTATGTAGTGGCAATGGAAACATTTACTAATTTGGGACCTATTATAGATATGTTTGTGGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgagcggcacccctaaagagcggaaggctaggagctgtaaacagcctta Alignment from Exonerate_coding2genome CTCAATGTCGACAGCAACGAACAA-GGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tatctgtttattcaagtctttagtctcaggctgccttgtttcttctgcagCTCAATGTTGATAGCAATGAACAAGGGCTCCTATGTAGTGGCAATGGAAACATTTACTAATTTGGGACCTATTATAGATATGTTTGTGGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgagcggcacccctaaagagcggaaggctaggagctgtaaacagcctta Alignment from GeneWise CTCAATGTCGACAGCAACGAACAAGGC-TCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tatctgtttattcaagtctttagtctcaggctgccttgtttcttctgcagCTCAATGTTGATAGCAATGAACAAGGGCTCCTATGTAGTGGCAATGGAAACATTTACTAATTTGGGACCTATTATAGATATGTTTGTGGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgagcggcacccctaaagagcggaaggctaggagctgtaaacagcctta #### Ddb1_ID2931_16 --> 2 - 2 Original Alignment gtTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAAT-CACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACag gtaagaactgtgccctattttgcctcccagtgacttagctctccctgcaggtTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACaggtaagtttcctaggtgtcccaagtaggggtcacatatccttttctgattc Alignment from CESAR gtTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAAT-CACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACag gtaagaactgtgccctattttgcctcccagtgacttagctctccctgcaggtTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACaggtaagtttcctaggtgtcccaagtaggggtcacatatccttttctgattc Alignment from Spaln_aa2Genome GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAAT-CACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaagaactgtgccctattttgcctcccagtgacttagctctccctgcagGTTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATcCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctaggtgtcccaagtaggggtcacatatccttttctgattc Alignment from Spaln_nt2Genome GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAAT-CACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaagaactgtgccctattttgcctcccagtgacttagctctccctgcagGTTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctaggtgtcccaagtaggggtcacatatccttttctgattc Alignment from Pairagon GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAAT-CACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaagaactgtgccctattttgcctcccagtgacttagctctccctgcagGTTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctaggtgtcccaagtaggggtcacatatccttttctgattc Alignment from Exonerate_protein2genome GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAAT-CACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaagaactgtgccctattttgcctcccagtgacttagctctccctgcagGTTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctaggtgtcccaagtaggggtcacatatccttttctgattc Alignment from Exonerate_coding2genome GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAAT-CACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaagaactgtgccctattttgcctcccagtgacttagctctccctgcagGTTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctaggtgtcccaagtaggggtcacatatccttttctgattc Alignment from GeneWise GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGC-AATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaagaactgtgccctattttgcctcccagtgacttagctctccctgcagGTTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctaggtgtcccaagtaggggtcacatatccttttctgattc #### Ddb1_ID2932_17 --> 1 - 2 Original Alignment tCTGGCATTGGCCAATAACAGCACTCTCACCATT-GGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCag tattgtagcaataattggaccctggaatcgtctctttcctccctcctcagtCTGGCATTGGCCAATAACAGTACTCTCACAATTCGGTACCATTGATGAAATGCAGAAGCTCCACATCCGGACAGTCCCCCTCTATGAGTCTCCTaggtaaggttacacctgagaagtgggaatgggggagggttaatgaaggttta Alignment from CESAR tCTGGCATTGGCCAATAACAGCACTCTCACCATT-GGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCag tattgtagcaataattggaccctggaatcgtctctttcctccctcctcagtCTGGCATTGGCCAATAACAGTACTCTCACAATTCGGTACCATTGATGAAATGCAGAAGCTCCACATCCGGACAGTCCCCCTCTATGAGTCTCCTaggtaaggttacacctgagaagtgggaatgggggagggttaatgaaggttta Alignment from Spaln_aa2Genome TCTGGCATTGGCCAATAACAGCACTCTCACCATT-GGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG tattgtagcaataattggaccctggaatcgtctctttcctccctcctcagTCTGGCATTGGCCAATAACAGTACTCTCACAATTcGGTACCATTGATGAAATGCAGAAGCTCCACATCCGGACAGTCCCCCTCTATGAGTCTCCTAGgtaaggttacacctgagaagtgggaatgggggagggttaatgaaggttta Alignment from Spaln_nt2Genome TCTGGCATTGGCCAATAACAGCACTCTCACCATT-GGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG tattgtagcaataattggaccctggaatcgtctctttcctccctcctcagTCTGGCATTGGCCAATAACAGTACTCTCACAATTCGGTACCATTGATGAAATGCAGAAGCTCCACATCCGGACAGTCCCCCTCTATGAGTCTCCTAGgtaaggttacacctgagaagtgggaatgggggagggttaatgaaggttta Alignment from Pairagon TCTGGCATTGGCCAATAACAGCACTCTCACCATT-GGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG tattgtagcaataattggaccctggaatcgtctctttcctccctcctcagTCTGGCATTGGCCAATAACAGTACTCTCACAATTCGGTACCATTGATGAAATGCAGAAGCTCCACATCCGGACAGTCCCCCTCTATGAGTCTCCTAGgtaaggttacacctgagaagtgggaatgggggagggttaatgaaggttta Alignment from Exonerate_protein2genome TCTGGCATTGGCCAATAACAGCACTCTCACCATT-GGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG tattgtagcaataattggaccctggaatcgtctctttcctccctcctcagTCTGGCATTGGCCAATAACAGTACTCTCACAATTCGGTACCATTGATGAAATGCAGAAGCTCCACATCCGGACAGTCCCCCTCTATGAGTCTCCTAGgtaaggttacacctgagaagtgggaatgggggagggttaatgaaggttta Alignment from Exonerate_coding2genome TCTGGCATTGGCCAATAACAGCACTCTCACCATT-GGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG tattgtagcaataattggaccctggaatcgtctctttcctccctcctcagTCTGGCATTGGCCAATAACAGTACTCTCACAATTCGGTACCATTGATGAAATGCAGAAGCTCCACATCCGGACAGTCCCCCTCTATGAGTCTCCTAGgtaaggttacacctgagaagtgggaatgggggagggttaatgaaggttta Alignment from GeneWise TCTGGCATTGGCCAATAACAGCACTCTCACC-ATTGGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG tattgtagcaataattggaccctggaatcgtctctttcctccctcctcagTCTGGCATTGGCCAATAACAGTACTCTCACAATTCGGTACCATTGATGAAATGCAGAAGCTCCACATCCGGACAGTCCCCCTCTATGAGTCTCCTAGgtaaggttacacctgagaagtgggaatgggggagggttaatgaaggttta #### Ddb1_ID2936_21 --> 2 - 0 Original Alignment gaAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGC-ATCAATAGCACG aggcacctgaggagaagactatcaagaacatggcttccatttcatttcaggaAAGCTG---ACTGTCACTGATAAGGAAGTAAAAGGGGCAGTGTACTCGATGGTCGAGTTTAATGGGAAATTATTGGCCAGCCACCAATAGCACAgtgagcggcaagggtttataagctgaactctgatgacccacatttggagt Alignment from CESAR gaAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGC-ATCAATAGCACG aggcacctgaggagaagactatcaagaacatggcttccatttcatttcaggaAAGCTG---ACTGTCACTGATAAGGAAGTAAAAGGGGCAGTGTACTCGATGGTCGAGTTTAATGGGAAATTATTGGCCAGCCACCAATAGCACAgtgagcggcaagggtttataagctgaactctgatgacccacatttggagt Alignment from Spaln_aa2Genome GAAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTT aggcacctgaggagaagactatcaagaacatggcttccatttcatttcagGAAAGCTG---ACTGTCACTGATAAGGAAGTAAAAGGGGCAGTGTACTCGATGGTCGAGTTTAATGGGAAATTATTGgccagccaccaatagcacagtgagcggcaagggtttataagctgaactctgatgacccacatttggagt Alignment from Spaln_nt2Genome GAAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGC-ATCAATAGCACG aggcacctgaggagaagactatcaagaacatggcttccatttcatttcagGAAAGCT---GACTGTCACTGATAAGGAAGTAAAAGGGGCAGTGTACTCGATGGTCGAGTTTAATGGGAAATTATTGGCCAGCCACCAATAGCACAgtgagcggcaagggtttataagctgaactctgatgacccacatttggagt Alignment from Pairagon GAAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAG-CATCAATAGCACG aggcacctgaggagaagactatcaagaacatggcttccatttcatttcagGAAAGCT---GACTGTCACTGATAAGGAAGTAAAAGGGGCAGTGTACTCGATGGTCGAGTTTAATGGGAAATTATTGGCCAGCCACCAATAGCACAgtgagcggcaagggtttataagctgaactctgatgacccacatttggagt Alignment from Exonerate_protein2genome GAAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGC-ATCAATAGCACG aggcacctgaggagaagactatcaagaacatggcttccatttcatttcagGAAAGCTG---ACTGTCACTGATAAGGAAGTAAAAGGGGCAGTGTACTCGATGGTCGAGTTTAATGGGAAATTATTGGCCAGCCACCAATAGCACAgtgagcggcaagggtttataagctgaactctgatgacccacatttggagt Alignment from Exonerate_coding2genome GAAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGC-ATCAATAGCACG aggcacctgaggagaagactatcaagaacatggcttccatttcatttcagGAAAGCTG---ACTGTCACTGATAAGGAAGTAAAAGGGGCAGTGTACTCGATGGTCGAGTTTAATGGGAAATTATTGGCCAGCCACCAATAGCACAgtgagcggcaagggtttataagctgaactctgatgacccacatttggagt Alignment from GeneWise GAAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGC-ATCAATAGCACG aggcacctgaggagaagactatcaagaacatggcttccatttcatttcagGAAAGCTG---ACTGTCACTGATAAGGAAGTAAAAGGGGCAGTGTACTCGATGGTCGAGTTTAATGGGAAATTATTGGCCAGCCACCAATAGCACAgtgagcggcaagggtttataagctgaactctgatgacccacatttggagt #### Dkk1_ID6483_2 --> 0 - 1 Original Alignment CCCTACCCTTGCGCTGAAGAT-GAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATg cgacttgggaactcaactgatctacctgtaatgaacttttttaatatcagCCATTCCCTTGTGTTATAGATCGAGGAGTGTGGTTCTGATAAATATTGTCCCAGTCCCAGCTGTGGAGCAGCT---GTTGAT------CAGATCTGCTTGGCTTGCCGAAGACATAGGAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATcgtaactatcccccagtatctattgttgtctttggttaacaagttctatgg Alignment from CESAR CCCTACCCTTGCGCTGAAGAT-GAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATg cgacttgggaactcaactgatctacctgtaatgaacttttttaatatcagCCATTCCCTTGTGTTATAGATCGAGGAGTGTGGTTCTGATAAATATTGTCCCAGTCCCAGCTGTGGAGCAGCT---GTTGAT------CAGATCTGCTTGGCTTGCCGAAGACATAGGAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATcgtaactatcccccagtatctattgttgtctttggttaacaagttctatgg Alignment from Spaln_aa2Genome CCCTACCCTTGCGCTGAAGAT-GAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG cgacttgggaactcaactgatctacctgtaatgaacttttttaatatcagCCATTCCCTTGTGTTATAGATcGAGGAGTGTGGTTCTGATAAATATTGTCCCAGTCCCAGCTGTGGAGCAGCT---------GTTGATCAGATCTGCTTGGCTTGCCGAAGACATAGGAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATCgtaactatcccccagtatctattgttgtctttggttaacaagttctatgg Alignment from Spaln_nt2Genome CCCTACCCTTGCGCTGAAGAT-GAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG cgacttgggaactcaactgatctacctgtaatgaacttttttaatatcagCCATTCCCTTGTGTTATAGATCGAGGAGTGTGGTTCTGATAAATATTGTCCCAGTCCCAGCTGTGGAGCAGC---------TGTTGATCAGATCTGCTTGGCTTGCCGAAGACATAGGAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATCgtaactatcccccagtatctattgttgtctttggttaacaagttctatgg Alignment from Pairagon CCCTACCCTTGCGCTGAAGAT-GAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG cgacttgggaactcaactgatctacctgtaatgaacttttttaatatcagCCATTCCCTTGTGTTATAGATCGAGGAGTGTGGTTCTGATAAATATTGTCCCAGTCCCAGCTGTGGAGCAGCT---------GTTGATCAGATCTGCTTGGCTTGCCGAAGACATAGGAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATCgtaactatcccccagtatctattgttgtctttggttaacaagttctatgg Alignment from Exonerate_protein2genome CCCTACCCTTGCGCTGAAGAT-GAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG cgacttgggaactcaactgatctacctgtaatgaacttttttaatatcagCCATTCCCTTGTGTTATAGATCGAGGAGTGTGGTTCTGATAAATATTGTCCCAGTCCCAGCTGTGGAGCAGCT---------GTTGATCAGATCTGCTTGGCTTGCCGAAGACATAGGAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATCgtaactatcccccagtatctattgttgtctttggttaacaagttctatgg Alignment from Exonerate_coding2genome CCCTACCCTTGCGCTGAAGAT-GAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG cgacttgggaactcaactgatctacctgtaatgaacttttttaatatcagCCATTCCCTTGTGTTATAGATCGAGGAGTGTGGTTCTGATAAATATTGTCCCAGTCCCAGCTGTGGAGCAGCT---------GTTGATCAGATCTGCTTGGCTTGCCGAAGACATAGGAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATCgtaactatcccccagtatctattgttgtctttggttaacaagttctatgg Alignment from GeneWise GAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG cgacttgggaactcaactgatctacctgtaatgaacttttttaatatcagccattcccttgtgttatagatcgagGAGTGTGGTTCTGATAAATATTGTCCCAGTCCCAGCTGTGGAGCAGCTGTTGAT---------CAGATCTGCTTGGCTTGCCGAAGACATAGGAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATCgtaactatcccccagtatctattgttgtctttggttaacaagttctatgg #### Dnajc4_ID1965_3 --> 0 - 2 Original Alignment CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGT-AACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACag actgactgtggcagcacttgagtcatatcagtctttctttacccttgcagCTGCGCCCTGATCGGGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATGAG------CGTGTACTCAGCCATGAAGAAAGCCGTCGTCAACTATGACCACCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTATAAACAGCACACCCACaggtgagttacagaaggcacaacctgagtttgttctccccatctactcacct Alignment from CESAR CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGT-AACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACag actgactgtggcagcacttgagtcatatcagtctttctttacccttgcagCTGCGCCCTGATCGGGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATGAG------CGTGTACTCAGCCATGAAGAAAGCCGTCGTCAACTATGACCACCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTATAAACAGCACACCCACaggtgagttacagaaggcacaacctgagtttgttctccccatctactcacct Alignment from Spaln_aa2Genome CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGT-AACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACAG actgactgtggcagcacttgagtcatatcagtctttctttacccttgcagCTGCGCCCTGATCGGGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATGAG------CGTGTACTCAGCCATGAAGAAAGCCGTCGTcAACTATGACCACCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTATAAACAGCACACCCACAGgtgagttacagaaggcacaacctgagtttgttctccccatctactcacct Alignment from Spaln_nt2Genome CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGT-AACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACAG actgactgtggcagcacttgagtcatatcagtctttctttacccttgcagCTGCGCCCTGATCGGGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATGAG------CGTGTACTCAGCCATGAAGAAAGCCGTCGTCAACTATGACCACCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTATAAACAGCACACCCACAGgtgagttacagaaggcacaacctgagtttgttctccccatctactcacct Alignment from Pairagon CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGT-AACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACAG actgactgtggcagcacttgagtcatatcagtctttctttacccttgcagCTGCGCCCTGATCGGGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATGAG------CGTGTACTCAGCCATGAAGAAAGCCGTCGTCAACTATGACCACCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTATAAACAGCACACCCACAGgtgagttacagaaggcacaacctgagtttgttctccccatctactcacct Alignment from Exonerate_protein2genome CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGT-AACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACAG actgactgtggcagcacttgagtcatatcagtctttctttacccttgcagCTGCGCCCTGATCGGGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATGAG------CGTGTACTCAGCCATGAAGAAAGCCGTCGTCAACTATGACCACCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTATAAACAGCACACCCACAGgtgagttacagaaggcacaacctgagtttgttctccccatctactcacct Alignment from Exonerate_coding2genome CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGT-AACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACAG actgactgtggcagcacttgagtcatatcagtctttctttacccttgcagCTGCGCCCTGATCGGGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATGAG------CGTGTACTCAGCCATGAAGAAAGCCGTCGTCAACTATGACCACCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTATAAACAGCACACCCACAGgtgagttacagaaggcacaacctgagtttgttctccccatctactcacct Alignment from GeneWise CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGT-CGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACAG actgactgtggcagcacttgagtcatatcagtctttctttacccttgcagCTGCGCCCTGATCGGGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATGAG------CGTGTACTCAGCCATGAAGAAAGCCGTCGTCAACTATGACCACCAGCTGCATCCAGCCTCT---------------GGCAGCACTGCTGAGCCTAAGTATAAACAGCACACCCACAGgtgagttacagaaggcacaacctgagtttgttctccccatctactcacct #### Dnmbp_ID8855_11 --> 0 - 0 Original Alignment AAAGAGAGGACCGAGCGGCTCGTCATCAATCCCTTAAACCAGTTGTTGAACATGTTCACGGGGCCCTACAAGCTGGTGCAGAAGCGGTTCGACAAGCTCCTGGACTTCTACAACTGCACT---GAGCGAGCGGAGAAGCTGAAGGACAAGAAGACTCTGGAGGAGCTGCAGTCAGCCCGAAACAACTACGAGGCCCTGAACTCG-CAGCTGCTGGACGAGCTGCCCAAGTTCCAGCAGTACGCCCAGAGCCTCTTCACCAACTGCATCCACGGCTATGCCGAAGCCCACTGTGACTTCGTGCAGCAAGCCCTGGAGCAGCTGCAGCCGCTGCTGTCG caaccagctgtaccattactaaaggctatttttttttttctcctctccagAAACAACGAACAGAGCAGCTTATTATCAACCCTTTAAACCAATTGTTG------------GCACCATACAAACTGTTGCAAAGGCGTTTTGACAAACTTCTGGACTTATACAACTGCATTGAT---------------------------AAATCTTTGGAGGAACTGCAGTCAACCCGAAACAACCATGAGGCTCTTAACACTCAAGCTGCTGGATGCACTGTCCAAGTTCCAGCAGTATGACCAGAGTCTCTTTGCCAACTGTGTCTATGGATATGCTAAAGCCCATTGTGACTTTCTTCAGCAGGCATTGGAGCAGCTTCAGCCACAGTTATCAgtcaggtgttccttgccgatggcaaatgattactagtaaaggactggaac Alignment from CESAR AAAGAGAGGACCGAGCGGCTCGTCATCAATCCCTTAAACCAGTTGTTGAACATGTTCACGGGGCCCTACAAGCTGGTGCAGAAGCGGTTCGACAAGCTCCTGGACTTCTACAACTGCACTGAGCGAGCGGAGAAGCTGAAGGACAAGAAGACTCTGGAGGAGCTGCAGTCAGCCCGAAACAACTACGAGGCCCTGAACTCGCAG-CTGCTGGACGAGCTGCCCAAGTTCCAGCAGTACGCCCAGAGCCTCTTCACCAACTGCATCCACGGCTATGCCGAAGCCCACTGTGACTTCGTGCAGCAAGCCCTGGAGCAGCTGCAGCCGCTGCTGTCG caaccagctgtaccattactaaaggctatttttttttttctcctctccagAAACAACGAACAGAGCAGCTTATTATCAACCCTTTAAACCAATTGTTG------------GCACCATACAAACTGTTGCAAAGGCGTTTTGACAAACTTCTGGACTTATACAACTGCATTGAT------------------------AAATCTTTGGAGGAACTGCAGTCAACCCGAAACAACCATGAGGCTCTTAACACTCAAGCTGCTGGATGCACTGTCCAAGTTCCAGCAGTATGACCAGAGTCTCTTTGCCAACTGTGTCTATGGATATGCTAAAGCCCATTGTGACTTTCTTCAGCAGGCATTGGAGCAGCTTCAGCCACAGTTATCAgtcaggtgttccttgccgatggcaaatgattactagtaaaggactggaac Alignment from Spaln_aa2Genome AAAGAGAGGACCGAGCGGCTCGTCATCAATCCCTTAAACCAGTTGTTGAACATGTTCACGGGGCCCTACAAGCTGGTGCAGAAGCGGTTCGACAAGCTCCTGGACTTCTACAACTGCACTGAGCGAGCGGAGAAGCTGAAGGACAAGAAGACTCTGGAGGAGCTGCAGTCAGCCCGAAACAACTACGAGGCCCTGAACTCGCAG-CTGCTGGACGAGCTGCCCAAGTTCCAGCAGTACGCCCAGAGCCTCTTCACCAACTGCATCCACGGCTATGCCGAAGCCCACTGTGACTTCGTGCAGCAAGCCCTGGAGCAGCTGCAGCCGCTGCTGTCG caaccagctgtaccattactaaaggctatttttttttttctcctctccagAAACAACGAACAGAGCAGCTTATTATCAACCCTTTAAACCAATTGTTG------------GCACCATACAAACTGTTGCAAAGGCGTTTTGACAAACTTCTGGACTTATACAACTGCATTGAT------------------------AAATCTTTGGAGGAACTGCAGTCAACCCGAAACAACCATGAGGCTCTTAACACTCAAgCTGCTGGATGCACTGTCCAAGTTCCAGCAGTATGACCAGAGTCTCTTTGCCAACTGTGTCTATGGATATGCTAAAGCCCATTGTGACTTTCTTCAGCAGGCATTGGAGCAGCTTCAGCCACAGTTATCAgtcaggtgttccttgccgatggcaaatgattactagtaaaggactggaac Alignment from Spaln_nt2Genome AAAGAGAGGACCGAGCGGCTCGTCATCAATCCCTTAAACCAGTTGTTGAACATGTTCACGGGGCCCTACAAGCTGGTGCAGAAGCGGTTCGACAAGCTCCTGGACTTCTACAACTGCACTGAGCGAGCGGAGAAGCTGAAGGACAAGAAGACTCTGGAGGAGCTGCAGTCAGCCCGAAACAACTACGAGGCCCTGAACTCGCA-GCTGCTGGACGAGCTGCCCAAGTTCCAGCAGTACGCCCAGAGCCTCTTCACCAACTGCATCCACGGCTATGCCGAAGCCCACTGTGACTTCGTGCAGCAAGCCCTGGAGCAGCTGCAGCCGCTGCTGTCG caaccagctgtaccattactaaaggctatttttttttttctcctctccagAAACAACGAACAGAGCAGCTTATTATCAACCCTTTAAACCAATTGTT------------GGCACCATACAAACTGTTGCAAAGGCGTTTTGACAAACTTCTGGACTTATACAACTGCATTG------------------------ATAAATCTTTGGAGGAACTGCAGTCAACCCGAAACAACCATGAGGCTCTTAACACTCAAGCTGCTGGATGCACTGTCCAAGTTCCAGCAGTATGACCAGAGTCTCTTTGCCAACTGTGTCTATGGATATGCTAAAGCCCATTGTGACTTTCTTCAGCAGGCATTGGAGCAGCTTCAGCCACAGTTATCAgtcaggtgttccttgccgatggcaaatgattactagtaaaggactggaac Alignment from Pairagon AAAGAGAGGACCGAGCGGCTCGTCATCAATCCCTTAAACCAGTTGTTGAACATGTTCACGGGGCCCTACAAGCTGGTGCAGAAGCGGTTCGACAAGCTCCTGGACTTCTACAACTGCACTGAGCGAGCGGAGAAGCTGAAGGACAAGAAGACTCTGGAGGAGCTGCAGTCAGCCCGAAACAACTACGAGGCCCTGAACTCGC-AGCTGCTGGACGAGCTGCCCAAGTTCCAGCAGTACGCCCAGAGCCTCTTCACCAACTGCATCCACGGCTATGCCGAAGCCCACTGTGACTTCGTGCAGCAAGCCCTGGAGCAGCTGCAGCCGCTGCTGTCG caaccagctgtaccattactaaaggctatttttttttttctcctctccagAAACAACGAACAGAGCAGCTTATTATCAACCCTTTAAACCAATTGTT------------GGCACCATACAAACTGTTGCAAAGGCGTTTTGACAAACTTCTGGACTTATACAACTGCATTG------------------------ATAAATCTTTGGAGGAACTGCAGTCAACCCGAAACAACCATGAGGCTCTTAACACTCAAGCTGCTGGATGCACTGTCCAAGTTCCAGCAGTATGACCAGAGTCTCTTTGCCAACTGTGTCTATGGATATGCTAAAGCCCATTGTGACTTTCTTCAGCAGGCATTGGAGCAGCTTCAGCCACAGTTATCAgtcaggtgttccttgccgatggcaaatgattactagtaaaggactggaac Alignment from Exonerate_protein2genome AAAGAGAGGACCGAGCGGCTCGTCATCAATCCCTTAAACCAGTTGTTGAACATGTTCACGGGGCCCTACAAGCTGGTGCAGAAGCGGTTCGACAAGCTCCTGGACTTCTACAACTGCACTGAGCGAGCG caaccagctgtaccattactaaaggctatttttttttttctcctctccagAAACAACGAACAGAGCAGCTTATTATCAACCCTTTAAACCAATTGTTG------------GCACCATACAAACTGTTGCAAAGGCGTTTTGACAAACTTCTGGACTTATACAACTGCATTGATAAATCTttggaggaactgcagtcaacccgaaacaaccatgaggctcttaacactcaagctgctggatgcactgtccaagttccagcagtatgaccagagtctctttgccaactgtgtctatggatatgctaaagcccattgtgactttcttcagcaggcattggagcagcttcagccacagttatcagtcaggtgttccttgccgatggcaaatgattactagtaaaggactggaac Alignment from Exonerate_coding2genome caaccagctgtaccattactaaaggctatttttttttttctcctctccagaaacaacgaacagagcagcttattatcaaccctttaaaccaattgttggcaccatacaaactgttgcaaaggcgttttgacaaacttctggacttatacaactgcattgataaatctttggaggaactgcagtcaacccgaaacaaccatgaggctcttaacactcaagctgctggatgcactgtccaagttccagcagtatgaccagagtctctttgccaactgtgtctatggatatgctaaagcccattgtgactttcttcagcaggcattggagcagcttcagccacagttatcagtcaggtgttccttgccgatggcaaatgattactagtaaaggactggaac Alignment from GeneWise AAAGAGAGGACCGAGCGGCTCGTCATCAATCCCTTAAACCAGTTGTTGAACATGTTCACGGGGCCCTACAAGCTGGTGCAGAAGCGGTTCGACAAGCTCCTGGACTTCTACAACTGCACTGAGCGAGCGGAGAAGCTGAAGGACAAGAAGACTCTGGAGGAGCTGCAGTCAGCCCGAAACAACTACGAGGCCCTGAACTCGCAG-CTGCTGGACGAGCTGCCCAAGTTCCAGCAGTACGCCCAGAGCCTCTTCACCAACTGCATCCACGGCTATGCCGAAGCCCACTGTGACTTCGTGCAGCAAGCCCTGGAGCAGCTGCAGCCGCTGCTGTCG caaccagctgtaccattactaaaggctatttttttttttctcctctccagAAACAACGAACAGAGCAGCTTATTATCAACCCTTTAAACCAATTGTTG------------GCACCATACAAACTGTTGCAAAGGCGTTTTGACAAACTTCTGGACTTATACAACTGCATTGAT------------------------AAATCTTTGGAGGAACTGCAGTCAACCCGAAACAACCATGAGGCTCTTAACACTCAAGCTGCTGGATGCACTGTCCAAGTTCCAGCAGTATGACCAGAGTCTCTTTGCCAACTGTGTCTATGGATATGCTAAAGCCCATTGTGACTTTCTTCAGCAGGCATTGGAGCAGCTTCAGCCACAGTTATCAgtcaggtgttccttgccgatggcaaatgattactagtaaaggactggaac #### Dock8_ID5396_17 --> 1 - 0 Original Alignment gTCTCCTGACTTTTACGAAGAAGTG-AAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgtgccttagatcacaattgcttgctcttacccttatctatacacaggTCTCCTGACTTTTATGAAGAAGTGCAAAATCAAGCTACCAGCGAAGCTGACAGTGAATCATCATCTTCTCTTCACCTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtgtgttaacaagaactggtggtttcctaccttccaatttgggttcacat Alignment from CESAR gTCTCCTGACTTTTACGAAGAAGTG-AAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgtgccttagatcacaattgcttgctcttacccttatctatacacaggTCTCCTGACTTTTATGAAGAAGTGCAAAATCAAGCTACCAGCGAAGCTGACAGTGAATCATCATCTTCTCTTCACCTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtgtgttaacaagaactggtggtttcctaccttccaatttgggttcacat Alignment from Spaln_aa2Genome GTCTCCTGACTTTTACGAAGAAGTG-AAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgtgccttagatcacaattgcttgctcttacccttatctatacacagGTCTCCTGACTTTTATGAAGAAGTGcAAAATCAAGCTACCAGCGAAGCTGACAGTGAATCATCATCTTCTCTTCACCTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtgtgttaacaagaactggtggtttcctaccttccaatttgggttcacat Alignment from Spaln_nt2Genome GTCTCCTGACTTTTACGAAGAAGTG-AAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgtgccttagatcacaattgcttgctcttacccttatctatacacagGTCTCCTGACTTTTATGAAGAAGTGCAAAATCAAGCTACCAGCGAAGCTGACAGTGAATCATCATCTTCTCTTCACCTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtgtgttaacaagaactggtggtttcctaccttccaatttgggttcacat Alignment from Pairagon GTCTCCTGACTTTTACGAAGAAGTG-AAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgtgccttagatcacaattgcttgctcttacccttatctatacacagGTCTCCTGACTTTTATGAAGAAGTGCAAAATCAAGCTACCAGCGAAGCTGACAGTGAATCATCATCTTCTCTTCACCTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtgtgttaacaagaactggtggtttcctaccttccaatttgggttcacat Alignment from Exonerate_protein2genome GTCTCCTGACTTTTACGAAGAAGTG-AAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgtgccttagatcacaattgcttgctcttacccttatctatacacagGTCTCCTGACTTTTATGAAGAAGTGCAAAATCAAGCTACCAGCGAAGCTGACAGTGAATCATCATCTTCTCTTCACCTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtgtgttaacaagaactggtggtttcctaccttccaatttgggttcacat Alignment from Exonerate_coding2genome GTCTCCTGACTTTTACGAAGAAGTG-AAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgtgccttagatcacaattgcttgctcttacccttatctatacacagGTCTCCTGACTTTTATGAAGAAGTGCAAAATCAAGCTACCAGCGAAGCTGACAGTGAATCATCATCTTCTCTTCACCTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtgtgttaacaagaactggtggtttcctaccttccaatttgggttcacat Alignment from GeneWise GTCTCCTGACTTTTACGAAGAA-GTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgtgccttagatcacaattgcttgctcttacccttatctatacacagGTCTCCTGACTTTTATGAAGAAGTGCAAAATCAAGCTACCAGCGAAGCTGACAGTGAATCATCATCTTCTCTTCACCTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtgtgttaacaagaactggtggtttcctaccttccaatttgggttcacat #### Dpf2_ID1305_8 --> 2 - 1 Original Alignment ccAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTG-TCCTGTTCCGACTGTGGCCGCTCAg cgaacaaaatagtgaatgcaattaaagcattgattttgtttctaattcagccAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTTGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGCTCCTGTTCTGACTGTGGCCGCTCAggtgagaaacccactatacactccatgcaaaaggcttcactctatatcgct Alignment from CESAR ccAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTG-TCCTGTTCCGACTGTGGCCGCTCAg cgaacaaaatagtgaatgcaattaaagcattgattttgtttctaattcagccAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTTGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGCTCCTGTTCTGACTGTGGCCGCTCAggtgagaaacccactatacactccatgcaaaaggcttcactctatatcgct Alignment from Spaln_aa2Genome CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTG-TCCTGTTCCGACTGTGGCCGCTCAG cgaacaaaatagtgaatgcaattaaagcattgattttgtttctaattcagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTTGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGcTCCTGTTCTGACTGTGGCCGCTCAGgtgagaaacccactatacactccatgcaaaaggcttcactctatatcgct Alignment from Spaln_nt2Genome CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTG-TCCTGTTCCGACTGTGGCCGCTCAG cgaacaaaatagtgaatgcaattaaagcattgattttgtttctaattcagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTTGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGCTCCTGTTCTGACTGTGGCCGCTCAGgtgagaaacccactatacactccatgcaaaaggcttcactctatatcgct Alignment from Pairagon CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTG-TCCTGTTCCGACTGTGGCCGCTCAG cgaacaaaatagtgaatgcaattaaagcattgattttgtttctaattcagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTTGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGCTCCTGTTCTGACTGTGGCCGCTCAGgtgagaaacccactatacactccatgcaaaaggcttcactctatatcgct Alignment from Exonerate_protein2genome CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTG-TCCTGTTCCGACTGTGGCCGCTCAG cgaacaaaatagtgaatgcaattaaagcattgattttgtttctaattcagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTTGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGCTCCTGTTCTGACTGTGGCCGCTCAGgtgagaaacccactatacactccatgcaaaaggcttcactctatatcgct Alignment from Exonerate_coding2genome CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTG-TCCTGTTCCGACTGTGGCCGCTCAG cgaacaaaatagtgaatgcaattaaagcattgattttgtttctaattcagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTTGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGCTCCTGTTCTGACTGTGGCCGCTCAGgtgagaaacccactatacactccatgcaaaaggcttcactctatatcgct Alignment from GeneWise CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTG-TCCTGTTCCGACTGTGGCCGCTCAG cgaacaaaatagtgaatgcaattaaagcattgattttgtttctaattcagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTTGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGCTCCTGTTCTGACTGTGGCCGCTCAGgtgagaaacccactatacactccatgcaaaaggcttcactctatatcgct #### Dpp3_ID740_13 --> 0 - 2 Original Alignment ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAGTGCCGGGCCGAG-AGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGga tagggtagatggccaatctctaatttatgcctacctgcttacctgtgtagATCAAGAGCTGGTACCGGAGCGGTGAGACTTGGGACAGTGAATCTAGCACCATTGCCTCACGGTATCAAGAGTGTCATGCCGAGCAGTGTGGGCCTGTATCTCTGT---ACCCCACAAGTGTTAgagtaaggaaactctccaaattcacgggattcaggcacatgttctctcttca Alignment from CESAR ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAGTGCCGGGCCGAG-AGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGga tagggtagatggccaatctctaatttatgcctacctgcttacctgtgtagATCAAGAGCTGGTACCGGAGCGGTGAGACTTGGGACAGTGAATCTAGCACCATTGCCTCACGGTATCAAGAGTGTCATGCCGAGCAGTGTGGGCCTGTATCTCTGT---ACCCCACAAGTGTTAgagtaaggaaactctccaaattcacgggattggcactgctctttctttccca Alignment from Spaln_aa2Genome ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAGTGCCGGGCCGAG-AGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA tagggtagatggccaatctctaatttatgcctacctgcttacctgtgtagATCAAGAGCTGGTACCGGAGCGGTGAGACTTGGGACAGTGAATCTAGCACCATTGCCTCACGGTATCAAGAGTGTCATGCCGAGcAGTGTGGGCCTGTATCTCTGT---ACCCCACAAGTGTTAGAgtaaggaaactctccaaattcacgggattcaggcacatgttctctcttca Alignment from Spaln_nt2Genome ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAGTGCCGGGCCGAG-AGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA tagggtagatggccaatctctaatttatgcctacctgcttacctgtgtagATCAAGAGCTGGTACCGGAGCGGTGAGACTTGGGACAGTGAATCTAGCACCATTGCCTCACGGTATCAAGAGTGTCATGCCGAGCAGTGTGGGCCTGTATCTCTGT---ACCCCACAAGTGTTAGAgtaaggaaactctccaaattcacgggattcaggcacatgttctctcttca Alignment from Pairagon ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAGTGCCGGGCCGAG-AGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA tagggtagatggccaatctctaatttatgcctacctgcttacctgtgtagATCAAGAGCTGGTACCGGAGCGGTGAGACTTGGGACAGTGAATCTAGCACCATTGCCTCACGGTATCAAGAGTGTCATGCCGAGCAGTGTGGGCCTGTATCTCTGT---ACCCCACAAGTGTTAGAgtaaggaaactctccaaattcacgggattcaggcacatgttctctcttca Alignment from Exonerate_protein2genome ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAGTGCCGGGCCGAG-AGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA tagggtagatggccaatctctaatttatgcctacctgcttacctgtgtagATCAAGAGCTGGTACCGGAGCGGTGAGACTTGGGACAGTGAATCTAGCACCATTGCCTCACGGTATCAAGAGTGTCATGCCGAGCAGTGTGGGCCTGTATCTCTGT---ACCCCACAAGTGTTAGAgtaaggaaactctccaaattcacgggattcaggcacatgttctctcttca Alignment from Exonerate_coding2genome ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAGTGCCGGGCCGAG-AGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA tagggtagatggccaatctctaatttatgcctacctgcttacctgtgtagATCAAGAGCTGGTACCGGAGCGGTGAGACTTGGGACAGTGAATCTAGCACCATTGCCTCACGGTATCAAGAGTGTCATGCCGAGCAGTGTGGGCCTGTATCTCTGT---ACCCCACAAGTGTTAGAgtaaggaaactctccaaattcacgggattcaggcacatgttctctcttca Alignment from GeneWise ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAGTGCCGGGCCGAG-AGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA tagggtagatggccaatctctaatttatgcctacctgcttacctgtgtagATCAAGAGCTGGTACCGGAGCGGTGAGACTTGGGACAGTGAATCTAGCACCATTGCCTCACGGTATCAAGAGTGTCATGCCGAGCAGTGTGGGCCTGTATCTCTGT---ACCCCACAAGTGTTAGAgtaaggaaactctccaaattcacgggattcaggcacatgttctctcttca #### Dpp3_ID741_12 --> 0 - 0 Original Alignment GATGAGAAAGGTGCTTTCAACTTTGACAAG-GAGACTGTGATCAACCCAGAGACTGGGGAACAG gagagccatcctaatagatcaagagtgactttatcttactttgctttaagGATGAGAAAGGAGCTTTCAATTTTGACAAGCGAAACGGTAATCAACCCCGAGACCAGCGAGCAGgtgagtaaaacatttgttatgaggaaattgcaatagggtagatggccaat Alignment from CESAR GATGAGAAAGGTGCTTTCAACTTTGACAAG-GAGACTGTGATCAACCCAGAGACTGGGGAACAG gagagccatcctaatagatcaagagtgactttatcttactttgctttaagGATGAGAAAGGAGCTTTCAATTTTGACAAGCGAAACGGTAATCAACCCCGAGACCAGCGAGCAGgtgagtaaaacatttgttatgaggaaattgcaatagggtagatggccaat Alignment from Spaln_aa2Genome GATGAGAAAGGTGCTTTCAACTTTGACAAG-GAGACTGTGATCAACCCAGAGACTGGGGAACAG gagagccatcctaatagatcaagagtgactttatcttactttgctttaagGATGAGAAAGGAGCTTTCAATTTTGACAAGcGAAACGGTAATCAACCCCGAGACCAGCGAGCAGgtgagtaaaacatttgttatgaggaaattgcaatagggtagatggccaat Alignment from Spaln_nt2Genome GATGAGAAAGGTGCTTTCAACTTTGACAAG-GAGACTGTGATCAACCCAGAGACTGGGGAACAG gagagccatcctaatagatcaagagtgactttatcttactttgctttaagGATGAGAAAGGAGCTTTCAATTTTGACAAGCGAAACGGTAATCAACCCCGAGACCAGCGAGCAGgtgagtaaaacatttgttatgaggaaattgcaatagggtagatggccaat Alignment from Pairagon GATGAGAAAGGTGCTTTCAACTTTGACAAG-GAGACTGTGATCAACCCAGAGACTGGGGAACAG gagagccatcctaatagatcaagagtgactttatcttactttgctttaagGATGAGAAAGGAGCTTTCAATTTTGACAAGCGAAACGGTAATCAACCCCGAGACCAGCGAGCAGgtgagtaaaacatttgttatgaggaaattgcaatagggtagatggccaat Alignment from Exonerate_protein2genome GATGAGAAAGGTGCTTTCAACTTTGACAAG-GAGACTGTGATCAACCCAGAGACTGGGGAACAG gagagccatcctaatagatcaagagtgactttatcttactttgctttaagGATGAGAAAGGAGCTTTCAATTTTGACAAGCGAAACGGTAATCAACCCCGAGACCAGCGAGCAGgtgagtaaaacatttgttatgaggaaattgcaatagggtagatggccaat Alignment from Exonerate_coding2genome GATGAGAAAGGTGCTTTCAACTTTGACAAG-GAGACTGTGATCAACCCAGAGACTGGGGAACAG gagagccatcctaatagatcaagagtgactttatcttactttgctttaagGATGAGAAAGGAGCTTTCAATTTTGACAAGCGAAACGGTAATCAACCCCGAGACCAGCGAGCAGgtgagtaaaacatttgttatgaggaaattgcaatagggtagatggccaat Alignment from GeneWise GATGAGAAAGGTGCTTTCAACTTTGAC-AAGGAGACTGTGATCAACCCAGAGACTGGGGAACAG gagagccatcctaatagatcaagagtgactttatcttactttgctttaagGATGAGAAAGGAGCTTTCAATTTTGACAAGCGAAACGGTAATCAACCCCGAGACCAGCGAGCAGgtgagtaaaacatttgttatgaggaaattgcaatagggtagatggccaat #### Dpp3_ID746_7 --> 0 - 2 Original Alignment GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGC-TTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGag gaatgtgtggattgatcaaaatgaagatttattttgttattcttgttaagGCATATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTTGTAAAGaggtgacatgtcatccaagcctcccaatatctctttcaatacaccctctagg Alignment from CESAR GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGC-TTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGag gaatgtgtggattgatcaaaatgaagatttattttgttattcttgttaagGCATATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTTGTAAAGaggtgacatgtcatccaagcctcccaatatctctttcaatacaccctctagg Alignment from Spaln_aa2Genome GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGC-TTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gaatgtgtggattgatcaaaatgaagatttattttgttattcttgttaagGCATATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCcTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTTGTAAAGAGgtgacatgtcatccaagcctcccaatatctctttcaatacaccctctagg Alignment from Spaln_nt2Genome GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGC-TTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gaatgtgtggattgatcaaaatgaagatttattttgttattcttgttaagGCATATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTTGTAAAGAGgtgacatgtcatccaagcctcccaatatctctttcaatacaccctctagg Alignment from Pairagon GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAG-CTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gaatgtgtggattgatcaaaatgaagatttattttgttattcttgttaagGCATATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTTGTAAAGAGgtgacatgtcatccaagcctcccaatatctctttcaatacaccctctagg Alignment from Exonerate_protein2genome GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGC-TTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gaatgtgtggattgatcaaaatgaagatttattttgttattcttgttaagGCATATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTTGTAAAGAGgtgacatgtcatccaagcctcccaatatctctttcaatacaccctctagg Alignment from Exonerate_coding2genome GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGC-TTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gaatgtgtggattgatcaaaatgaagatttattttgttattcttgttaagGCATATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTTGTAAAGAGgtgacatgtcatccaagcctcccaatatctctttcaatacaccctctagg Alignment from GeneWise GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAG-AGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gaatgtgtggattgatcaaaatgaagatttattttgttattcttgttaagGCATATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTTGTAAAGAGgtgacatgtcatccaagcctcccaatatctctttcaatacaccctctagg #### Drap1_ID984_6 --> 0 - 2 Original Alignment GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGT-CACCCTCCTGCCCACTTTCAGag tggatgactgggataatgtcccaaaatcatcagctgtcttccccacacagGATAAGTCTGAGGATATGGATACTGATGGAGAGGAGGAGACACCCCAGCTTCCACCTCAGGCCAGTCCACCCCCCTGCTCACTATCAGaggtgggttttacataggaagtgtaacactttttttatcctgacactggctt Alignment from CESAR GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGT-CACCCTCCTGCCCACTTTCAGag tggatgactgggataatgtcccaaaatcatcagctgtcttccccacacagGATAAGTCTGAGGATATGGATACTGATGGAGAGGAGGAGACACCCCAGCTTCCACCTCAGGCCAGTCCACCCCCCTGCTCACTATCAGaggtgggttttacataggaagtgtaacactttttttatcctgacactggctt Alignment from Spaln_aa2Genome GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGT-CACCCTCCTGCCCACTTTCAGAG tggatgactgggataatgtcccaaaatcatcagctgtcttccccacacagGATAAGTCTGAGGATATGGATACTGATGGAGAGGAGGAGACACCCCAGCTTCCACCTCAGGCCAGTcCACCCCCCTGCTCACTATCAGAGgtgggttttacataggaagtgtaacactttttttatcctgacactggctt Alignment from Spaln_nt2Genome GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTC-ACCCTCCTGCCCACTTTCAGAG tggatgactgggataatgtcccaaaatcatcagctgtcttccccacacagGATAAGTCTGAGGATATGGATACTGATGGAGAGGAGGAGACACCCCAGCTTCCACCTCAGGCCAGTCCACCCCCCTGCTCACTATCAGAGgtgggttttacataggaagtgtaacactttttttatcctgacactggctt Alignment from Pairagon GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGT-CACCCTCCTGCCCACTTTCAGAG tggatgactgggataatgtcccaaaatcatcagctgtcttccccacacagGATAAGTCTGAGGATATGGATACTGATGGAGAGGAGGAGACACCCCAGCTTCCACCTCAGGCCAGTCCACCCCCCTGCTCACTATCAGAGgtgggttttacataggaagtgtaacactttttttatcctgacactggctt Alignment from Exonerate_protein2genome GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGT-CACCCTCCTGCCCACTTTCAGAG tggatgactgggataatgtcccaaaatcatcagctgtcttccccacacagGATAAGTCTGAGGATATGGATACTGATGGAGAGGAGGAGACACCCCAGCTTCCACCTCAGGCCAGTCCACCCCCCTGCTCACTATCAGAGgtgggttttacataggaagtgtaacactttttttatcctgacactggctt Alignment from Exonerate_coding2genome AGGATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGT-CACCCTCCTGCCCACTTTCAGAG tggatgactgggataatgtcccaaaatcatcagctgtcttccccacacAGGATAAGTCTGAGGATATGGATACTGATGGAGAGGAGGAGACACCCCAGCTTCCACCTCAGGCCAGTCCACCCCCCTGCTCACTATCAGAGgtgggttttacataggaagtgtaacactttttttatcctgacactggctt Alignment from GeneWise GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCC-AGTCACCCTCCTGCCCACTTTCAGAG tggatgactgggataatgtcccaaaatcatcagctgtcttccccacacagGATAAGTCTGAGGATATGGATACTGATGGAGAGGAGGAGACACCCCAGCTTCCACCTCAGGCCAGTCCACCCCCCTGCTCACTATCAGAGgtgggttttacataggaagtgtaacactttttttatcctgacactggctt #### Drap1_ID985_5 --> 1 - 0 Original Alignment CCTCGAag gGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAA-GACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAaggtaagtggctaggggcctgcttcttttcttgttgcttttcagaGGCTGTAAACCAGGTAGCAGTGGCAAGAAAAATGGTGGCACAGGAAGCAAGGGTAAACGATAAAAAGCTCTCTGGGACAGATTCCGAACAAGAGgtgagtgggctagtaagtgatgagttatgtctgctttttgtagccaagcc Alignment from CESAR CCTCGAag gGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAA-GACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAaggtaaagggctaggggcctgcttcttttcttgttgcttttcagaGGCTGTAAACCAGGTAGCAGTGGCAAGAAAAATGGTGGCACAGGAAGCAAGGGTAAACGATAAAAAGCTCTCTGGGACAGATTCCGAACAAGAGgtgagtgggctagtaagtgatgagttatgtctgctttttgtagccaagcc Alignment from Spaln_aa2Genome CCTCGAAG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAA-GACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAAGgtaagtggctaggggcctgcttcttttcttgttgcttttcagAGGCTGTAAACCAGGTAGCAGTGGCAAGAAAAATGGTGGCACAGGAAGCAAGGGTAAAcGATAAAAAGCTCTCTGGGACAGATTCCGAACAAGAGgtgagtgggctagtaagtgatgagttatgtctgctttttgtagccaagcc Alignment from Spaln_nt2Genome CCTCGAAG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAA-GACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAAGgtaagtggctaggggcctgcttcttttcttgttgcttttcagAGGCTGTAAACCAGGTAGCAGTGGCAAGAAAAATGGTGGCACAGGAAGCAAGGGTAAACGATAAAAAGCTCTCTGGGACAGATTCCGAACAAGAGgtgagtgggctagtaagtgatgagttatgtctgctttttgtagccaagcc Alignment from Pairagon CCTCGAAG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAA-GACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAAGgtaagtggctaggggcctgcttcttttcttgttgcttttcagAGGCTGTAAACCAGGTAGCAGTGGCAAGAAAAATGGTGGCACAGGAAGCAAGGGTAAACGATAAAAAGCTCTCTGGGACAGATTCCGAACAAGAGgtgagtgggctagtaagtgatgagttatgtctgctttttgtagccaagcc Alignment from Exonerate_protein2genome CCTCGAAG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAA-GACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAAGgtaagtggctaggggcctgcttcttttcttgttgcttttcagAGGCTGTAAACCAGGTAGCAGTGGCAAGAAAAATGGTGGCACAGGAAGCAAGGGTAAACGATAAAAAGCTCTCTGGGACAGATTCCGAACAAGAGgtgagtgggctagtaagtgatgagttatgtctgctttttgtagccaagcc Alignment from Exonerate_coding2genome CCTCGAAG CCTCGAAGgtaagtggctaggggcctgcttcttttcttgttgcttttcagaggctgtaaaccaggtagcagtggcaagaaaaatggtggcacaggaagcaagggtaaacgataaaaagctctctgggacagattccgaacaagaggtgagtgggctagtaagtgatgagttatgtctgctttttgtagccaagcc Alignment from GeneWise CCTCGAAG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGC-AAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAAGgtaagtggctaggggcctgcttcttttcttgttgcttttcagAGGCTGTAAACCAGGTAGCAGTGGCAAGAAAAATGGTGGCACAGGAAGCAAGGGTAAACGATAAAAAGCTCTCTGGGACAGATTCCGAACAAGAGgtgagtgggctagtaagtgatgagttatgtctgctttttgtagccaagcc #### Drap1_ID986_4 --> 1 - 2 Original Alignment gAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGAC-ATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAag gGGCCGGA tttcccaagtagtttagtggcagccaactctgttctctttacaatcccagaATGCAATGCATTGATGTTGAGCAGCAATTTGACTTCTTGAAAGCACTAGTAGCATCAGTACCTGACCATGCAGGGGGACAGGGAAGACAACCATGTGGATGGGGAAAAGGGACCTCGAaggtaaagggctaggggcctgcacctcggccccctccctcttagaGGCTGTA Alignment from CESAR gAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGAC-ATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAag gGGCCGGA tttcccaagtagtttagtggcagccaactctgttctctttacaatcccagaATGCAATGCATTGATGTTGAGCAGCAATTTGACTTCTTGAAAGCACTAGTAGCATCAGTACCTGACCATGCAGGGGGACAGGGAAGACAACCATGTGGATGGGGAAAAGGGACCTCGAaggtaaagggctaggggcctgcttcttttcttgttgcttttcagaGGCTGTA Alignment from Spaln_aa2Genome GAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGAC-ATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAG GGGCCGGA tttcccaagtagtttagtggcagccaactctgttctctttacaatcccagAATGCAATGCATTGATGTTGAGCAGCAATTTGACTTCTTGAAAGCACTAGTAGCATCAGTACCTGACcATGCAGGGGGACAGGGAAGACAACCATGTGGATGGGGAAAAGGGACCTCGAAGgtaaagggctaggggcctgcacctcggccccctccctcttagAGGCTGTA Alignment from Spaln_nt2Genome GAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGA-CATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAG GGGCCGGA tttcccaagtagtttagtggcagccaactctgttctctttacaatcccagAATGCAATGCATTGATGTTGAGCAGCAATTTGACTTCTTGAAAGCACTAGTAGCATCAGTACCTGACCATGCAGGGGGACAGGGAAGACAACCATGTGGATGGGGAAAAGGGACCTCGAAGgtaaagggctaggggcctgcacctcggccccctccctcttagAGGCTGTA Alignment from Pairagon GAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGA-CATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAGG------------------------------------------GGCCGGA tttcccaagtagtttagtggcagccaactctgttctctttacaatcccagAATGCAATGCATTGATGTTGAGCAGCAATTTGACTTCTTGAAAGCACTAGTAGCATCAGTACCTGACCATGCAGGGGGACAGGGAAGACAACCATGTGGATGGGGAAAAGGGACCTCGAAGGTAAAGGGCTAGGGGCCTGCACCTCGGCCCCCTCCCTCTTAGAGGCTGTA Alignment from Exonerate_protein2genome GAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGAC-ATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAG GGGCCGGA tttcccaagtagtttagtggcagccaactctgttctctttacaatcccagAATGCAATGCATTGATGTTGAGCAGCAATTTGACTTCTTGAAAGCACTAGTAGCATCAGTACCTGACCATGCAGGGGGACAGGGAAGACAACCATGTGGATGGGGAAAAGGGACCTCGAAGgtaaagggctaggggcctgcacctcggccccctccctcttagAGGCTGTA Alignment from Exonerate_coding2genome GAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGAC-ATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAGGGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCA tttcccaagtagtttagtggcagccaactctgttctctttacaatcccagAATGCAATGCATTGATGTTGAGCAGCAATTTGACTTCTTGAAAGCACTAGTAGCATCAGTACCTGACCATGCAGGGGGACAGGGAAGACAACCATGTGGATGGGGAAAAGGGACCTCGAAGGTAAAGGGCTAGGGGCCTGCACCTCGGCCCCCTCCCTCTTAGAGGCTGTA Alignment from GeneWise GAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGAC-ATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAG GGGCCGGA tttcccaagtagtttagtggcagccaactctgttctctttacaatcccagAATGCAATGCATTGATGTTGAGCAGCAATTTGACTTCTTGAAAGCACTAGTAGCATCAGTACCTGACCATGCAGGGGGACAGGGAAGACAACCATGTGGATGGGGAAAAGGGACCTCGAAGgtaaagggctaggggcctgcacctcggccccctccctcttagAGGCTGTA #### Drap1_ID987_3 --> 2 - 2 Original Alignment ccCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATG-ACCACGTCCCACct tagtctgaggtggaataataccttacacacttcacattcaaccctggcagcaCAGGCACTTGAGCTTTTCTTAGAGTCCTTGCTTAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAGACAATGCACCACCTCTCACctgtaaagtttcccaacctgccaggggtgtttaatactatggggaaagaatt Alignment from CESAR ccCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATG-ACCACGTCCCACct tagtctgaggtggaataataccttacacacttcacattcaaccctggcagcaCAGGCACTTGAGCTTTTCTTAGAGTCCTTGCTTAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAGACAATGCACCACCTCTCACctgtaaagtttcccaacctgccaggggtgtttaatactatggggaaagaatt Alignment from Spaln_aa2Genome CCCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATG-ACCACGTCCCACCT tagtctgaggtggaataataccttacacacttcacattcaaccctggcagCACAGGCACTTGAGCTTTTCTTAGAGTCCTTGCTTAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAGACAATGcACCACCTCTCACCTgtaaagtttcccaacctgccaggggtgtttaatactatggggaaagaatt Alignment from Spaln_nt2Genome CCCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATG-ACCACGTCCCACCT tagtctgaggtggaataataccttacacacttcacattcaaccctggcagCACAGGCACTTGAGCTTTTCTTAGAGTCCTTGCTTAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAGACAATGCACCACCTCTCACCTgtaaagtttcccaacctgccaggggtgtttaatactatggggaaagaatt Alignment from Pairagon CCCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATG-ACCACGTCCCACCT tagtctgaggtggaataataccttacacacttcacattcaaccctggcagCACAGGCACTTGAGCTTTTCTTAGAGTCCTTGCTTAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAGACAATGCACCACCTCTCACCTgtaaagtttcccaacctgccaggggtgtttaatactatggggaaagaatt Alignment from Exonerate_protein2genome CCCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATG-ACCACGTCCCACCT tagtctgaggtggaataataccttacacacttcacattcaaccctggcagCACAGGCACTTGAGCTTTTCTTAGAGTCCTTGCTTAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAGACAATGCACCACCTCTCACCTgtaaagtttcccaacctgccaggggtgtttaatactatggggaaagaatt Alignment from Exonerate_coding2genome CCCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATG-ACCACGTCCCACCT tagtctgaggtggaataataccttacacacttcacattcaaccctggcagCACAGGCACTTGAGCTTTTCTTAGAGTCCTTGCTTAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAGACAATGCACCACCTCTCACCTgtaaagtttcccaacctgccaggggtgtttaatactatggggaaagaatt Alignment from GeneWise CCCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACC---ACGTCCCACCTG-- tagtctgaggtggaataataccttacacacttcacattcaaccctggcagCACAGGCACTTGAGCTTTTCTTAGAGTCCTTGCTTAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAGACAATGCACCACCTCTCACCTGTAAAgtttcccaacctgccaggggtgtttaatactatggggaaagaatt #### Drap1_ID988_2 --> 0 - 1 Original Alignment GCGCGGATCAAAAAGATCATGCAG-ACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATCt atgcttcccccaggtgttgggagtgcagctggtgtcttggggatttccagACGCGGATCACAAAGATCATGCAGCACAGATGAAGAAATTGGAAAAGTCGCAGCTGCTGTGCCAGTCATCATTtgtaaatacctcaagcccagttagtctgaggtggaataataccttacactt Alignment from CESAR GCGCGGATCAAAAAGATCATGCAG-ACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATCt atgcttcccccaggtgttgggagtgcagctggtgtcttggggatttccagACGCGGATCACAAAGATCATGCAGCACAGATGAAGAAATTGGAAAAGTCGCAGCTGCTGTGCCAGTCATCATTtgtaaatacctcaagcccagttagtctgaggtggaataataccttacacac Alignment from Spaln_aa2Genome GCGCGGATCAAAAAGATCATGCAG-ACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATCT atgcttcccccaggtgttgggagtgcagctggtgtcttggggatttccagACGCGGATCACAAAGATCATGCAGcACAGATGAAGAAATTGGAAAAGTCGCAGCTGCTGTGCCAGTCATCATTTgtaaatacctcaagcccagttagtctgaggtggaataataccttacactt Alignment from Spaln_nt2Genome GCGCGGATCAAAAAGATCATGCAG-ACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATCT atgcttcccccaggtgttgggagtgcagctggtgtcttggggatttccagACGCGGATCACAAAGATCATGCAGCACAGATGAAGAAATTGGAAAAGTCGCAGCTGCTGTGCCAGTCATCATTTgtaaatacctcaagcccagttagtctgaggtggaataataccttacactt Alignment from Pairagon GCGCGGATCAAAAAGATCATGCAG-ACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATCT atgcttcccccaggtgttgggagtgcagctggtgtcttggggatttccagACGCGGATCACAAAGATCATGCAGCACAGATGAAGAAATTGGAAAAGTCGCAGCTGCTGTGCCAGTCATCATTTgtaaatacctcaagcccagttagtctgaggtggaataataccttacactt Alignment from Exonerate_protein2genome GCGCGGATCAAAAAGATCATGCAG-ACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATCT atgcttcccccaggtgttgggagtgcagctggtgtcttggggatttccagACGCGGATCACAAAGATCATGCAGCACAGATGAAGAAATTGGAAAAGTCGCAGCTGCTGTGCCAGTCATCATTTgtaaatacctcaagcccagttagtctgaggtggaataataccttacactt Alignment from Exonerate_coding2genome GGTTTCCGCCGGCGCGGATCAAAAAGATCATGCAGACGGACGAA---GAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATCT atgcttcccccaggtgttgggagtgcagctggtgtcttgGGGATTTCCAGACGCGGATCACAAAGATCATGC--AGCACAGATGAAGAAATTGGAAAAGTCGCAGCTGCTGTGCCAGTCATCATTTgtaaatacctcaagcccagttagtctgaggtggaataataccttacactt Alignment from GeneWise ----CGGATCAAAAAGATCATGCAGACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATCT atgcttcccccaggtgttgggagtgcagctggtgtcttggggatttccagACGCGGATCACAAAGATCATGCAGCACAGATGAAGAAATTGGAAAAGTCGCAGCTGCTGTGCCAGTCATCATTTgtaaatacctcaagcccagttagtctgaggtggaataataccttacactt #### Eef1g_ID2567_9 --> 2 - 0 Original Alignment ggATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTT-GCTAGTGTTATCCTCTTTGGAACCAACAACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG gaataaggataaacagagccaggagggtaattttaaccattatcttgtaggtATGTTCCAACGGCTGGACAAACTGCGGAAGAATGCCTTTCGCTAGTGTTATCCTCTTTGGAACTAATAACAGCAGTTCTATTTCTGGAGTTTGGGTCTTTCGTGGCCAGGAGCTTGCCTATCCAgtgagtcttcagtatgagagcctcatggtggggacttagaagcttggaaa Alignment from CESAR ggATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTT-GCTAGTGTTATCCTCTTTGGAACCAACAACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG gaataaggataaacagagccaggagggtaattttaaccattatcttgtaggtATGTTCCAACGGCTGGACAAACTGCGGAAGAATGCCTTTCGCTAGTGTTATCCTCTTTGGAACTAATAACAGCAGTTCTATTTCTGGAGTTTGGGTCTTTCGTGGCCAGGAGCTTGCCTATCCAgtgagtcttcagtatgagagcctcatggtggggacttagaagcttggaaa Alignment from Spaln_aa2Genome GGATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCC-TTTGCTAGTGTTATCCTCTTTGGAACCAACAACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG gaataaggataaacagagccaggagggtaattttaaccattatcttgtagGTATGTTCCAACGGCTGGACAAACTGCGGAAGAATGCCtTTCGCTAGTGTTATCCTCTTTGGAACTAATAACAGCAGTTCTATTTCTGGAGTTTGGGTCTTTCGTGGCCAGGAGCTTGCCTATCCAgtgagtcttcagtatgagagcctcatggtggggacttagaagcttggaaa Alignment from Spaln_nt2Genome GGATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCC-TTTGCTAGTGTTATCCTCTTTGGAACCAACAACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG gaataaggataaacagagccaggagggtaattttaaccattatcttgtagGTATGTTCCAACGGCTGGACAAACTGCGGAAGAATGCCTTTCGCTAGTGTTATCCTCTTTGGAACTAATAACAGCAGTTCTATTTCTGGAGTTTGGGTCTTTCGTGGCCAGGAGCTTGCCTATCCAgtgagtcttcagtatgagagcctcatggtggggacttagaagcttggaaa Alignment from Pairagon GGATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTT-GCTAGTGTTATCCTCTTTGGAACCAACAACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG gaataaggataaacagagccaggagggtaattttaaccattatcttgtagGTATGTTCCAACGGCTGGACAAACTGCGGAAGAATGCCTTTCGCTAGTGTTATCCTCTTTGGAACTAATAACAGCAGTTCTATTTCTGGAGTTTGGGTCTTTCGTGGCCAGGAGCTTGCCTATCCAgtgagtcttcagtatgagagcctcatggtggggacttagaagcttggaaa Alignment from Exonerate_protein2genome GGATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCC-TTTGCTAGTGTTATCCTCTTTGGAACCAACAACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG gaataaggataaacagagccaggagggtaattttaaccattatcttgtagGTATGTTCCAACGGCTGGACAAACTGCGGAAGAATGCCTTTCGCTAGTGTTATCCTCTTTGGAACTAATAACAGCAGTTCTATTTCTGGAGTTTGGGTCTTTCGTGGCCAGGAGCTTGCCTATCCAgtgagtcttcagtatgagagcctcatggtggggacttagaagcttggaaa Alignment from Exonerate_coding2genome GGATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCC-TTTGCTAGTGTTATCCTCTTTGGAACCAACAACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG gaataaggataaacagagccaggagggtaattttaaccattatcttgtagGTATGTTCCAACGGCTGGACAAACTGCGGAAGAATGCCTTTCGCTAGTGTTATCCTCTTTGGAACTAATAACAGCAGTTCTATTTCTGGAGTTTGGGTCTTTCGTGGCCAGGAGCTTGCCTATCCAgtgagtcttcagtatgagagcctcatggtggggacttagaagcttggaaa Alignment from GeneWise GGATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTT-GCTAGTGTTATCCTCTTTGGAACCAACAACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG gaataaggataaacagagccaggagggtaattttaaccattatcttgtagGTATGTTCCAACGGCTGGACAAACTGCGGAAGAATGCCTTTCGCTAGTGTTATCCTCTTTGGAACTAATAACAGCAGTTCTATTTCTGGAGTTTGGGTCTTTCGTGGCCAGGAGCTTGCCTATCCAgtgagtcttcagtatgagagcctcatggtggggacttagaagcttggaaa #### Efemp2_ID1032_5 --> 2 - 1 Original Alignment acATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCA-GGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGg gaaacatccaagttgtttggctgggctatctcagtctctcctgtcaccagacATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTGTGATCCTACCAGGCTCATTCCGATGCCAATGTGAGCCACGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGTGggtatgttggtgtgtcctgcaagtctctaaccttcaagtggaaccactatg Alignment from CESAR acATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCA-GGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGg gaaacatccaagttgtttggctgggctatctcagtctctcctgtcaccagacATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTGTGATCCTACCAGGCTCATTCCGATGCCAATGTGAGCCACGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGTGggtatgttggtgtgtcctgcaagtctctaaccttcaagtggaaccactatg Alignment from Spaln_aa2Genome ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCA-GGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gaaacatccaagttgtttggctgggctatctcagtctctcctgtcaccagACATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTGTGATCCTACCAGGCTCATTCCGATGCCAATGTGAGCCAcGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGTGGgtatgttggtgtgtcctgcaagtctctaaccttcaagtggaaccactatg Alignment from Spaln_nt2Genome ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCA-GGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gaaacatccaagttgtttggctgggctatctcagtctctcctgtcaccagACATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTGTGATCCTACCAGGCTCATTCCGATGCCAATGTGAGCCACGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGTGGgtatgttggtgtgtcctgcaagtctctaaccttcaagtggaaccactatg Alignment from Pairagon ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCA-GGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gaaacatccaagttgtttggctgggctatctcagtctctcctgtcaccagACATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTGTGATCCTACCAGGCTCATTCCGATGCCAATGTGAGCCACGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGTGGgtatgttggtgtgtcctgcaagtctctaaccttcaagtggaaccactatg Alignment from Exonerate_protein2genome ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCA-GGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gaaacatccaagttgtttggctgggctatctcagtctctcctgtcaccagACATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTGTGATCCTACCAGGCTCATTCCGATGCCAATGTGAGCCACGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGTGGgtatgttggtgtgtcctgcaagtctctaaccttcaagtggaaccactatg Alignment from Exonerate_coding2genome ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCA-GGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gaaacatccaagttgtttggctgggctatctcagtctctcctgtcaccagACATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTGTGATCCTACCAGGCTCATTCCGATGCCAATGTGAGCCACGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGTGGgtatgttggtgtgtcctgcaagtctctaaccttcaagtggaaccactatg Alignment from GeneWise ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCA-GGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gaaacatccaagttgtttggctgggctatctcagtctctcctgtcaccagACATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTGTGATCCTACCAGGCTCATTCCGATGCCAATGTGAGCCACGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGTGGgtatgttggtgtgtcctgcaagtctctaaccttcaagtggaaccactatg #### Efemp2_ID1033_6 --> 2 - 1 Original Alignment atGTGAATGAGTGTGAC-ATGGGAGCCCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCg gtagtccatgactttcaccttcctatctactagtgttgcatctattacagatGTGAATGAATGTGACCATGGGAGCCCCTTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTCTGTGCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTggtgcgtgtcaactgtgacatcccctttatgccatgcagcatgatttacat Alignment from CESAR atGTGAATGAGTGTGAC-ATGGGAGCCCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCg gtagtccatgactttcaccttcctatctactagtgttgcatctattacagatGTGAATGAATGTGACCATGGGAGCCCCTTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTCTGTGCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTggtgcgtgtcaactgtgacatcccctttatgccatgcagcatgatttacat Alignment from Spaln_aa2Genome ATGTGAATGAGTGTGAC-ATGGGAGCCCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG gtagtccatgactttcaccttcctatctactagtgttgcatctattacagATGTGAATGAATGTGACcATGGGAGCCCCTTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTCTGTGCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTGgtgcgtgtcaactgtgacatcccctttatgccatgcagcatgatttacat Alignment from Spaln_nt2Genome ATGTGAATGAGTGTGAC-ATGGGAGCCCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG gtagtccatgactttcaccttcctatctactagtgttgcatctattacagATGTGAATGAATGTGACCATGGGAGCCCCTTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTCTGTGCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTGgtgcgtgtcaactgtgacatcccctttatgccatgcagcatgatttacat Alignment from Pairagon ATGTGAATGAGTGTGA-CATGGGAGCCCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG gtagtccatgactttcaccttcctatctactagtgttgcatctattacagATGTGAATGAATGTGACCATGGGAGCCCCTTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTCTGTGCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTGgtgcgtgtcaactgtgacatcccctttatgccatgcagcatgatttacat Alignment from Exonerate_protein2genome ATGTGAATGAGTGTGAC-ATGGGAGCCCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG gtagtccatgactttcaccttcctatctactagtgttgcatctattacagATGTGAATGAATGTGACCATGGGAGCCCCTTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTCTGTGCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTGgtgcgtgtcaactgtgacatcccctttatgccatgcagcatgatttacat Alignment from Exonerate_coding2genome ATGTGAATGAGTGTGAC-ATGGGAGCCCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG gtagtccatgactttcaccttcctatctactagtgttgcatctattacagATGTGAATGAATGTGACCATGGGAGCCCCTTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTCTGTGCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTGgtgcgtgtcaactgtgacatcccctttatgccatgcagcatgatttacat Alignment from GeneWise ATGTGAATGAGTGTGAC-ATGGGAGCCCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG gtagtccatgactttcaccttcctatctactagtgttgcatctattacagATGTGAATGAATGTGACCATGGGAGCCCCTTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTCTGTGCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTGgtgcgtgtcaactgtgacatcccctttatgccatgcagcatgatttacat #### Efemp2_ID1034_7 --> 2 - 1 Original Alignment atATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAG-CCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAg tctcaaattttctgcatgaccaataactgtctccccactctttaacacagatATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAATGAGCCCTGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGCTGGCAACGAGGCTCTGCCAAggtgagtaggcttgggttgacaagcacagaaattccataatttaccatgag Alignment from CESAR atATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAG-CCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAg tctcaaattttctgcatgaccaataactgtctccccactctttaacacagatATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAATGAGCCCTGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGCTGGCAACGAGGCTCTGCCAAggtgagtaggcttgggttgacaagcacagaaattccataatttaccatgag Alignment from Spaln_aa2Genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAG-CCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaattttctgcatgaccaataactgtctccccactctttaacacagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAATGAGcCCTGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGCTGGCAACGAGGCTCTGCCAAGgtgagtaggcttgggttgacaagcacagaaattccataatttaccatgag Alignment from Spaln_nt2Genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCA-GGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaattttctgcatgaccaataactgtctccccactctttaacacagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAATGAGCCCTGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGCTGGCAACGAGGCTCTGCCAAGgtgagtaggcttgggttgacaagcacagaaattccataatttaccatgag Alignment from Pairagon ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCA-GGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaattttctgcatgaccaataactgtctccccactctttaacacagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAATGAGCCCTGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGCTGGCAACGAGGCTCTGCCAAGgtgagtaggcttgggttgacaagcacagaaattccataatttaccatgag Alignment from Exonerate_protein2genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAG-CCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaattttctgcatgaccaataactgtctccccactctttaacacagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAATGAGCCCTGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGCTGGCAACGAGGCTCTGCCAAGgtgagtaggcttgggttgacaagcacagaaattccataatttaccatgag Alignment from Exonerate_coding2genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAG-CCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaattttctgcatgaccaataactgtctccccactctttaacacagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAATGAGCCCTGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGCTGGCAACGAGGCTCTGCCAAGgtgagtaggcttgggttgacaagcacagaaattccataatttaccatgag Alignment from GeneWise ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAAC-GAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaattttctgcatgaccaataactgtctccccactctttaacacagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAATGAGCCCTGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGCTGGCAACGAGGCTCTGCCAAGgtgagtaggcttgggttgacaagcacagaaattccataatttaccatgag #### Efemp2_ID1035_8 --> 2 - 2 Original Alignment atATTGACGAGTGTGAAACAGGTGCACACCAATGTTCT-GAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACaa atgagtgagtatggaactaagacactccattgagtgtgttctatttacagagTTAGGAGACTGTGAGACAGGTGTCCACCAGTGTTCTCGAGGCCCAAACTTGTGTCAACTTCCATGCTGGTTACCACTGTGTCGAGATCAACCGCTGTGTAGAGCCATATGTTCATGTATCAGACaagtaagtacacctggcacttgctgacttgcataggtcaaggagatattagt Alignment from CESAR atATTGACGAGTGTGAAACAGGTGCACACCAATGTTCT-GAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACaa atgagtgagtatggaactaagacactccattgagtgtgttctatttacagagTTAGGAGACTGTGAGACAGGTGTCCACCAGTGTTCTCGAGGCCCAAACTTGTGTCAACTTCCATGCTGGTTACCACTGTGTCGAGATCAACCGCTGTGTAGAGCCATATGTTCATGTATCAGACaagtaagtacacctggcacttgctgacttgcataggtcaaggagatattagt Alignment from Spaln_aa2Genome ATATTGACGAGTGTGAAACAGGTGCACACCAATGTTCT-GAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACAA atgagtgagtatggaactaagacactccattgagtgtgttctatttacagAGTTAGGAGACTGTGAGACAGGTGTCCACCAGTGTTCTcGAGGCCCAAACTTGTGTCAACTTCCATGCTGGTTACCACTGTGTCGAGATCAACCGCTGTGTAGAGCCATATGTTCATGTATCAGACAAgtaagtacacctggcacttgctgacttgcataggtcaaggagatattagt Alignment from Spaln_nt2Genome ATATTGACGAGTGTGAAACAGGTGCACACCAATGTTCT-GAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACAA atgagtgagtatggaactaagacactccattgagtgtgttctatttacagAGTTAGGAGACTGTGAGACAGGTGTCCACCAGTGTTCTCGAGGCCCAAACTTGTGTCAACTTCCATGCTGGTTACCACTGTGTCGAGATCAACCGCTGTGTAGAGCCATATGTTCATGTATCAGACAAgtaagtacacctggcacttgctgacttgcataggtcaaggagatattagt Alignment from Pairagon ATATTGACGAGTGTGAAACAGGTGCACACCAATGTTCT-GAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACAA atgagtgagtatggaactaagacactccattgagtgtgttctatttacagAGTTAGGAGACTGTGAGACAGGTGTCCACCAGTGTTCTCGAGGCCCAAACTTGTGTCAACTTCCATGCTGGTTACCACTGTGTCGAGATCAACCGCTGTGTAGAGCCATATGTTCATGTATCAGACAAgtaagtacacctggcacttgctgacttgcataggtcaaggagatattagt Alignment from Exonerate_protein2genome ATATTGACGAGTGTGAAACAGGTGCACACCAATGTTCT-GAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACAA atgagtgagtatggaactaagacactccattgagtgtgttctatttacagAGTTAGGAGACTGTGAGACAGGTGTCCACCAGTGTTCTCGAGGCCCAAACTTGTGTCAACTTCCATGCTGGTTACCACTGTGTCGAGATCAACCGCTGTGTAGAGCCATATGTTCATGTATCAGACAAgtaagtacacctggcacttgctgacttgcataggtcaaggagatattagt Alignment from Exonerate_coding2genome ATATTGACGAGTGTGAAACAGGTGCACACCAATGTTCT-GAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACAA atgagtgagtatggaactaagacactccattgagtgtgttctatttacagAGTTAGGAGACTGTGAGACAGGTGTCCACCAGTGTTCTCGAGGCCCAAACTTGTGTCAACTTCCATGCTGGTTACCACTGTGTCGAGATCAACCGCTGTGTAGAGCCATATGTTCATGTATCAGACAAgtaagtacacctggcacttgctgacttgcataggtcaaggagatattagt Alignment from GeneWise ATATTGACGAGTGTGAAACAGGTGCACACCAATGT-TCTGAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACAA atgagtgagtatggaactaagacactccattgagtgtgttctatttacagAGTTAGGAGACTGTGAGACAGGTGTCCACCAGTGTTCTCGAGGCCCAAACTTGTGTCAACTTCCATGCTGGTTACCACTGTGTCGAGATCAACCGCTGTGTAGAGCCATATGTTCATGTATCAGACAAgtaagtacacctggcacttgctgacttgcataggtcaaggagatattagt #### Ehbp1l1_ID1227_8 --> 2 - 2 Original Alignment ctGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCT-GCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAag ggaaggcaatccgaacctgcaaaagctgcattccattaaactgtaattagctGCCAGACCCTCTAGTGCTGAAAAGACAAGTCCTGCCCCAGTAAGTGCCCCTGCGCCCCAAGTTAGAGCTATCCGGGGCCAAGGG---GATCCAACTCGCCATGACTGATGGA---GTGGGGCATGAGACCCTAGAGCCCCCAGCGACTCCACCTGAGACAaggtaagtatcatctcagcttctcaagcaagatcgcagcttctgaagcaaga Alignment from CESAR ctGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCT-GCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAag ggaaggcaatccgaacctgcaaaagctgcattccattaaactgtaattagctGCCAGACCCTCTAGTGCTGAAAAGACAAGTCCTGCCCCAGTAAGTGCCCCTGCGCCCCAAGTTAGAGCTATCCGGGGCCAAGGG---GATCCAACTCGCCATGACTGATGGA---GTGGGGCATGAGACCCTAGAGCCCCCAGCGACTCCACCTGAGACAaggtaagtatcatctcagcttctcaagcaagatcgcagcttctgaagcaaga Alignment from Spaln_aa2Genome CTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCT-GCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAAG ggaaggcaatccgaacctgcaaaagctgcattccattaaactgtaattagCTGCCAGACCCTCTAGTGCTGAAAAGACAAGTCCTGCCCCAGTAAGTGCCCCTGCGCCCCAAGTTAGAGCTATCCGGGGCCAAGGG---GATCCAACTcGCCATGACTGATGGA---GTGGGGCATGAGACCCTAGAGCCCCCAGCGACTCCACCTGAGACAAGgtaagtatcatctcagcttctcaagcaagatcgcagcttctgaagcaaga Alignment from Spaln_nt2Genome CTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCT-GCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAAG ggaaggcaatccgaacctgcaaaagctgcattccattaaactgtaattagCTGCCAGACCCTCTAGTGCTGAAAAGACAAGTCCTGCCCCAGTAAGTGCCCCTGCGCCCCAAGTTAGAGCTATCCGGGGCCAAGGG---GATCCAACTCGCCATGACTGATGG---AGTGGGGCATGAGACCCTAGAGCCCCCAGCGACTCCACCTGAGACAAGgtaagtatcatctcagcttctcaagcaagatcgcagcttctgaagcaaga Alignment from Pairagon CTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAG------------------------GTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAAG ggaaggcaatccgaacctgcaaaagctgcattccattaaactgtaattagCTGCCAGACCCTCTAGTGCTGAAAAGACAAGTCCTGCCCCAGTAAGTGCCCCTGCGCCCCAAGTTAGAGCTATCCGGGGCCAAGGG-----------------------------GATCCAACTCGCCATGACTGATGGAGTGGGGCATGAGACCCTAGAGCCCCCAGCGACTCCACCTGAGACAAGgtaagtatcatctcagcttctcaagcaagatcgcagcttctgaagcaaga Alignment from Exonerate_protein2genome ggaaggcaatccgaacctgcaaaagctgcattccattaaactgtaattagctgccagaccctctagtgctgaaaagacaagtcctgccccagtaagtgcccctgcgccccaagttagagctatccggggccaaggggatccaactcgccatgactgatggagtggggcatgagaccctagagcccccagcgactccacctgagacaaggtaagtatcatctcagcttctcaagcaagatcgcagcttctgaagcaaga Alignment from Exonerate_coding2genome ggaaggcaatccgaacctgcaaaagctgcattccattaaactgtaattagctgccagaccctctagtgctgaaaagacaagtcctgccccagtaagtgcccctgcgccccaagttagagctatccggggccaaggggatccaactcgccatgactgatggagtggggcatgagaccctagagcccccagcgactccacctgagacaaggtaagtatcatctcagcttctcaagcaagatcgcagcttctgaagcaaga Alignment from GeneWise CTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACA-- ggaaggcaatccgaacctgcaaaagctgcattccattaaactgtaattagCTGCCAGACCCTCTAGTGCTGAAAAGACAAGTCCTGCCCCAGTAAGTGCCCCTGCGCCCCAAGTTAGAGCTATCCGGGGCCAAGGGGATCCAA--CTCGCCATGACTGATGGA---GTGGGGCATGAGACCCTAGAGCCCCCAGCGACTCCACCTGAGACAAGgtaagtatcatctcagcttctcaagcaagatcgcagcttctgaagcaaga #### Ehbp1l1_ID1229_6 --> 1 - 1 Original Alignment gGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGT-GACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAg catagatgatgtgtgaagtagtctggctcccatggttgtctcatccacagaGATGATGATATGCAAAGTCTTGCCAGCCTCATGAGTGTGAAGCCTAGTCGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTTCAGACCAGGGGCCCCCAGTCTggtaatgatattgttgttcagattgctggtacctgaggtggatactagtcc Alignment from CESAR gGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGT-GACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAg catagatgatgtgtgaagtagtctggctcccatggttgtctcatccacagaGATGATGATATGCAAAGTCTTGCCAGCCTCATGAGTGTGAAGCCTAGTCGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTTCAGACCAGGGGCCCCCAGTCTggtaatgatattgttgttcagattgctggtacctgaggtggatactagtcc Alignment from Spaln_aa2Genome GGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGT-GACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAG catagatgatgtgtgaagtagtctggctcccatggttgtctcatccacagAGATGATGATATGCAAAGTCTTGCCAGCCTCATGAGTGTGAAGCCTAGTcGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTTCAGACCAGGGGCCCCCAGTCTGgtaatgatattgttgttcagattgctggtacctgaggtggatactagtcc Alignment from Spaln_nt2Genome GGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGT-GACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAG catagatgatgtgtgaagtagtctggctcccatggttgtctcatccacagAGATGATGATATGCAAAGTCTTGCCAGCCTCATGAGTGTGAAGCCTAGTCGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTTCAGACCAGGGGCCCCCAGTCTGgtaatgatattgttgttcagattgctggtacctgaggtggatactagtcc Alignment from Pairagon GGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGT-GACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAG catagatgatgtgtgaagtagtctggctcccatggttgtctcatccacagAGATGATGATATGCAAAGTCTTGCCAGCCTCATGAGTGTGAAGCCTAGTCGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTTCAGACCAGGGGCCCCCAGTCTGgtaatgatattgttgttcagattgctggtacctgaggtggatactagtcc Alignment from Exonerate_protein2genome catagatgatgtgtgaagtagtctggctcccatggttgtctcatccacagagatgatgatatgcaaagtcttgccagcctcatgagtgtgaagcctagtcgatgtgggaaacctggatgactttgctgagagtgatgaggaggaagctaatggccctggggctcctgaggttcagaccaggggcccccagtctggtaatgatattgttgttcagattgctggtacctgaggtggatactagtcc Alignment from Exonerate_coding2genome catagatgatgtgtgaagtagtctggctcccatggttgtctcatccacagagatgatgatatgcaaagtcttgccagcctcatgagtgtgaagcctagtcgatgtgggaaacctggatgactttgctgagagtgatgaggaggaagctaatggccctggggctcctgaggttcagaccaggggcccccagtctggtaatgatattgttgttcagattgctggtacctgaggtggatactagtcc Alignment from GeneWise GGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCT-AGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAG catagatgatgtgtgaagtagtctggctcccatggttgtctcatccacagAGATGATGATATGCAAAGTCTTGCCAGCCTCATGAGTGTGAAGCCTAGTCGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTTCAGACCAGGGGCCCCCAGTCTGgtaatgatattgttgttcagattgctggtacctgaggtggatactagtcc #### Eif1ad_ID949_2 --> 0 - 1 Original Alignment GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATC-TGGATCAAGAGAg acaatgcaaattctagataatgagtgattgcatgtgcactgtccatccagGTCCTCAGGACCCCAGGGAACAATTTGCATGAGGTGGAAACTGCTCAGGGGCAACGCTTCCTGGTCAGCATGCCCTCCAAATACCGTAAGAACATCCTGGATCAAGAGAggtactgtctatttgctttttgaactaccaaacatgataccactttgtccc Alignment from CESAR GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATC-TGGATCAAGAGAg acaatgcaaattctagataatgagtgattgcatgtgcactgtccatccagGTCCTCAGGACCCCAGGGAACAATTTGCATGAGGTGGAAACTGCTCAGGGGCAACGCTTCCTGGTCAGCATGCCCTCCAAATACCGTAAGAACATCCTGGATCAAGAGAggtactgtctatttgctttttgaactaccaaacatgataccactttgtccc Alignment from Spaln_aa2Genome GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATC-TGGATCAAGAGAG acaatgcaaattctagataatgagtgattgcatgtgcactgtccatccagGTCCTCAGGACCCCAGGGAACAATTTGCATGAGGTGGAAACTGCTCAGGGGCAACGCTTCCTGGTCAGCATGCCCTCCAAATACCGTAAGAACATCcTGGATCAAGAGAGgtactgtctatttgctttttgaactaccaaacatgataccactttgtccc Alignment from Spaln_nt2Genome GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATC-TGGATCAAGAGAG acaatgcaaattctagataatgagtgattgcatgtgcactgtccatccagGTCCTCAGGACCCCAGGGAACAATTTGCATGAGGTGGAAACTGCTCAGGGGCAACGCTTCCTGGTCAGCATGCCCTCCAAATACCGTAAGAACATCCTGGATCAAGAGAGgtactgtctatttgctttttgaactaccaaacatgataccactttgtccc Alignment from Pairagon GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACAT-CTGGATCAAGAGAG acaatgcaaattctagataatgagtgattgcatgtgcactgtccatccagGTCCTCAGGACCCCAGGGAACAATTTGCATGAGGTGGAAACTGCTCAGGGGCAACGCTTCCTGGTCAGCATGCCCTCCAAATACCGTAAGAACATCCTGGATCAAGAGAGgtactgtctatttgctttttgaactaccaaacatgataccactttgtccc Alignment from Exonerate_protein2genome GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATC-TGGATCAAGAGAG acaatgcaaattctagataatgagtgattgcatgtgcactgtccatccagGTCCTCAGGACCCCAGGGAACAATTTGCATGAGGTGGAAACTGCTCAGGGGCAACGCTTCCTGGTCAGCATGCCCTCCAAATACCGTAAGAACATCCTGGATCAAGAGAGgtactgtctatttgctttttgaactaccaaacatgataccactttgtccc Alignment from Exonerate_coding2genome GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATC-TGGATCAAGAGAG acaatgcaaattctagataatgagtgattgcatgtgcactgtccatccagGTCCTCAGGACCCCAGGGAACAATTTGCATGAGGTGGAAACTGCTCAGGGGCAACGCTTCCTGGTCAGCATGCCCTCCAAATACCGTAAGAACATCCTGGATCAAGAGAGgtactgtctatttgctttttgaactaccaaacatgataccactttgtccc Alignment from GeneWise GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGA------G acaatgcaaattctagataatgagtgattgcatgtgcactgtccatccagGTCCTCAGGACCCCAGGGAACAATTTGCATGAGGTGGAAACTGCTCAGGGGCAACGCTTCCTGGTCAGCATGCCCTCCAAATACCGTAAGAACATCCTGGATCAAGAGAGGTACTgtctatttgctttttgaactaccaaacatgataccactttgtccc #### Eif1ad_ID950_3 --> 2 - 2 Original Alignment ggGATTTCCTCATTGTTGACCCT-ATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACtg aataatgcctcatgctcctcaacacaatttattcttttgtttctttacagggGACTTTCTCATTGTTGAACCTCTTTGAAGGTGGTGAGAAAGTTAAGGCAGAGATCTCCTTTGTACTCTGCAAGAACCATGTTCACACCCTGCAGAAGGAGGGCCAAtggtaagccagtctctctgtgcccctgcccggcattaagggactgtttgtag Alignment from CESAR ggGATTTCCTCATTGTTGACCCTATT-GAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACtg aataatgcctcatgctcctcaacacaatttattcttttgtttctttacagggGACTTTCTCATTGTTGAACCTCTTTGAAGGTGGTGAGAAAGTTAAGGCAGAGATCTCCTTTGTACTCTGCAAGAACCATGTTCACACCCTGCAGAAGGAGGGCCAAtggtaagccagtctctctgtgcccctgcccggcattaagggactgtttgtag Alignment from Spaln_aa2Genome GGGATTTCCTCATTGTTGACCCTATT-GAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aataatgcctcatgctcctcaacacaatttattcttttgtttctttacagGGGACTTTCTCATTGTTGAACCTCTTtGAAGGTGGTGAGAAAGTTAAGGCAGAGATCTCCTTTGTACTCTGCAAGAACCATGTTCACACCCTGCAGAAGGAGGGCCAATGgtaagccagtctctctgtgcccctgcccggcattaagggactgtttgtag Alignment from Spaln_nt2Genome GGGATTTCCTCATTGTTGACCCTATT-GAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aataatgcctcatgctcctcaacacaatttattcttttgtttctttacagGGGACTTTCTCATTGTTGAACCTCTTTGAAGGTGGTGAGAAAGTTAAGGCAGAGATCTCCTTTGTACTCTGCAAGAACCATGTTCACACCCTGCAGAAGGAGGGCCAATGgtaagccagtctctctgtgcccctgcccggcattaagggactgtttgtag Alignment from Pairagon GGGATTTCCTCATTGTTGACCCTA-TTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aataatgcctcatgctcctcaacacaatttattcttttgtttctttacagGGGACTTTCTCATTGTTGAACCTCTTTGAAGGTGGTGAGAAAGTTAAGGCAGAGATCTCCTTTGTACTCTGCAAGAACCATGTTCACACCCTGCAGAAGGAGGGCCAATGgtaagccagtctctctgtgcccctgcccggcattaagggactgtttgtag Alignment from Exonerate_protein2genome GGGATTTCCTCATTGTTGACCCTATT-GAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aataatgcctcatgctcctcaacacaatttattcttttgtttctttacagGGGACTTTCTCATTGTTGAACCTCTTTGAAGGTGGTGAGAAAGTTAAGGCAGAGATCTCCTTTGTACTCTGCAAGAACCATGTTCACACCCTGCAGAAGGAGGGCCAATGgtaagccagtctctctgtgcccctgcccggcattaagggactgtttgtag Alignment from Exonerate_coding2genome GGGATTTCCTCATTGTTGACCCTATT-GAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aataatgcctcatgctcctcaacacaatttattcttttgtttctttacagGGGACTTTCTCATTGTTGAACCTCTTTGAAGGTGGTGAGAAAGTTAAGGCAGAGATCTCCTTTGTACTCTGCAAGAACCATGTTCACACCCTGCAGAAGGAGGGCCAATGgtaagccagtctctctgtgcccctgcccggcattaagggactgtttgtag Alignment from GeneWise GGGATTTCCTCATTGTTGACCCT-ATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aataatgcctcatgctcctcaacacaatttattcttttgtttctttacagGGGACTTTCTCATTGTTGAACCTCTTTGAAGGTGGTGAGAAAGTTAAGGCAGAGATCTCCTTTGTACTCTGCAAGAACCATGTTCACACCCTGCAGAAGGAGGGCCAATGgtaagccagtctctctgtgcccctgcccggcattaagggactgtttgtag #### Eml3_ID2503_3 --> 1 - 2 Original Alignment cAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATC-CTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACac gCCCCGAAGAAATTCTTCCTCCTCC tagaattagtccaatgtgttgggtaatgctggtctgctgtcccctcacagcAGCATTACAGTCCCACCAGGGCTGCCACCAATCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCTCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGCTGCCGCAGTAGTAGTGGGTCAGGTTCACCTGGGCCTCCAGGAATCCCTCAGGCCAGTGCAGCCTCTTGAGTGTTCAGACacgtatcacagagccgttccccaacaggCCCCGAAGAAATTCTTCGTCCTCA Alignment from CESAR cAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATC-CTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACac gCCCCGAAGAAATTCTTCCTCCTCC tagaattagtccaatgtgttgggtaatgctggtctgctgtcccctcacagcAGCATTACAGTCCCACCAGGGCTGCCACCAATCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCTCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGCTGCCGCAGTAGTAGTGGGTCAGGTTCACCTGGGCCTCCAGGAATCCCTCAGGCCAGTGCAGCCTCTTGAGTGTTCAGACacgtacaggcctgttcttgcttttcaggCCCCGAAGAAATTCTTCGTCCTCA Alignment from Spaln_aa2Genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATC-CTCAGGCCGGTGCAGCCTCTTCA GCGTTCTGACACGCCCCGAAGAAAT tagaattagtccaatgtgttgggtaatgctggtctgctgtcccctcacagCAGCATTACAGTCCCACCAGGGCTGCCACCAATCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCTCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGCTGCCGCAGTAGTAGTGGGTCAGGTTCACCTGGGCCTCCAGGAATCcCTCAGGCCAGTGCAGCCTCTTGAgtgttcagacacgtatcacagagccgttccccaacagG------------CCCCGAAGAAAT Alignment from Spaln_nt2Genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAAT-CCTCAGGCCGGTGCAGCCTCTTCAGC GTTCTGACACGCCCCGAAGAAATTC tagaattagtccaatgtgttgggtaatgctggtctgctgtcccctcacagCAGCATTACAGTCCCACCAGGGCTGCCACCAATCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCTCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGCTGCCGCAGTAGTAGTGGGTCAGGTTCACCTGGGCCTCCAGGAATCCCTCAGGCCAGTGCAGCCTCTTGAGTgttcagacacgtatcacagagccgttccccaacag----------GCCCCGAAGAAATTC Alignment from Pairagon CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAAT-CCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACAC-------------------------GCCCCGAAGAAATTCTTCCTCCTCC tagaattagtccaatgtgttgggtaatgctggtctgctgtcccctcacagCAGCATTACAGTCCCACCAGGGCTGCCACCAATCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCTCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGCTGCCGCAGTAGTAGTGGGTCAGGTTCACCTGGGCCTCCAGGAATCCCTCAGGCCAGTGCAGCCTCTTGAGTGTTCAGACACGTATCACAGAGCCGTTCCCCAACAGGCCCCGAAGAAATTCTTCGTCCTCA Alignment from Exonerate_protein2genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATC-CTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACAC GCCCCGAAGAAATTCTTCC tagaattagtccaatgtgttgggtaatgctggtctgctgtcccctcacagCAGCATTACAGTCCCACCAGGGCTGCCACCAATCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCTCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGCTGCCGCAGTAGTAGTGGGTCAGGTTCACCTGGGCCTCCAGGAATCCCTCAGGCCAGTGCAGCCTCTTGAGTGTTCAGACACgtatcacagagccgttccccaacaggccccgAAGAAATTCTTCGTCCTCA Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATC-CTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACACG---------------------------CCCCGAAGAAATTCTTCCTCCT tagaattagtccaatgtgttgggtaatgctggtctgctgtcccctcacagCAGCATTACAGTCCCACCAGGGCTGCCACCAATCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCTCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGCTGCCGCAGTAGTAGTGGGTCAGGTTCACCTGGGCCTCCAGGAATCCCTCAGGCCAGTGCAGCCTCTTGAGTGTTCAGACACGTATCACAGAG--CCGTTCCCCAACAGGCCCCGAAGAAATTCTTCGTCCT #### Eml3_ID2510_9 --> 0 - 0 Original Alignment CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCC-TTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagttttctgtccttctcgataatcaatttcctttctagCCCCTGCAGCCGGTGGTTCATACCTGGGACTCAGAAACACTCCTAAAACTGCAGGAAATTGGCCTGGGTGCCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtatgacagggatggggacatgtttgtgaccccattatcttgtttattaa Alignment from CESAR CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTT-GAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagttttctgtccttctcgataatcaatttcctttctagCCCCTGCAGCCGGTGGTTCATACCTGGGACTCAGAAACACTCCTAAAACTGCAGGAAATTGGCCTGGGTGCCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtatgacagggatggggacatgtttgtgaccccattatcttgtttattaa Alignment from Spaln_aa2Genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTT-GAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagttttctgtccttctcgataatcaatttcctttctagCCCCTGCAGCCGGTGGTTCATACCTGGGACTCAGAAACACTCCTAAAACTGCAGGAAATTGGCCTGGGTGCCCTCtGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtatgacagggatggggacatgtttgtgaccccattatcttgtttattaa Alignment from Spaln_nt2Genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTT-TGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagttttctgtccttctcgataatcaatttcctttctagCCCCTGCAGCCGGTGGTTCATACCTGGGACTCAGAAACACTCCTAAAACTGCAGGAAATTGGCCTGGGTGCCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtatgacagggatggggacatgtttgtgaccccattatcttgtttattaa Alignment from Pairagon CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTG-CCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagttttctgtccttctcgataatcaatttcctttctagCCCCTGCAGCCGGTGGTTCATACCTGGGACTCAGAAACACTCCTAAAACTGCAGGAAATTGGCCTGGGTGCCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtatgacagggatggggacatgtttgtgaccccattatcttgtttattaa Alignment from Exonerate_protein2genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTT-GAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagttttctgtccttctcgataatcaatttcctttctagCCCCTGCAGCCGGTGGTTCATACCTGGGACTCAGAAACACTCCTAAAACTGCAGGAAATTGGCCTGGGTGCCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtatgacagggatggggacatgtttgtgaccccattatcttgtttattaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCC-TTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagttttctgtccttctcgataatcaatttcctttctagCCCCTGCAGCCGGTGGTTCATACCTGGGACTCAGAAACACTCCTAAAACTGCAGGAAATTGGCCTGGGTGCCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtatgacagggatggggacatgtttgtgaccccattatcttgtttattaa #### Eml3_ID2514_13 --> 2 - 0 Original Alignment agACCTACACGATCGTGGCCCAGGCCCAT-GCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG ttatactccataatatagcaaatgcttggttttctttgcctgctctgcagagACCTACACAATTGTGGCCCAGTCCCATCGCTCATGAGGAGTGCTTCTTTGCACTCTGTCTTCATCAGGATGGAACAGTACTGACTGGTGGCGGGTGGCATAGACGTCTGGTGCAGTGGGGGCCTGGGCTGGTGGCACTCCAGGAGGCAGAGgtaatgcttgacctggacccggagaataggaatggatggggagacatggt Alignment from CESAR agACCTACACGATCGTGGCCCAGGCCCAT-GCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG ttatactccataatatagcaaatgcttggttttctttgcctgctctgcagagACCTACACAATTGTGGCCCAGTCCCATCGCTCATGAGGAGTGCTTCTTTGCACTCTGTCTTCATCAGGATGGAACAGTACTGACTGGTGGCGGGTGGCATAGACGTCTGGTGCAGTGGGGGCCTGGGCTGGTGGCACTCCAGGAGGCAGAGgtaatgcttgacctggacccggagaataggaatggatggggagacatggt Alignment from Spaln_aa2Genome AGACCTACACGATCGTGGCCCAGGCCCAT-GCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG ttatactccataatatagcaaatgcttggttttctttgcctgctctgcagAGACCTACACAATTGTGGCCCAGTCCCATcGCTCATGAGGAGTGCTTCTTTGCACTCTGTCTTCATCAGGATGGAACAGTACTGACTGGTGGCGGGTGGCATAGACGTCTGGTGCAGTGGGGGCCTGGGCTGGTGGCACTCCAGGAGGCAGAGgtaatgcttgacctggacccggagaataggaatggatggggagacatggt Alignment from Spaln_nt2Genome AGACCTACACGATCGTGGCCCAGGCCCAT-GCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG ttatactccataatatagcaaatgcttggttttctttgcctgctctgcagAGACCTACACAATTGTGGCCCAGTCCCATCGCTCATGAGGAGTGCTTCTTTGCACTCTGTCTTCATCAGGATGGAACAGTACTGACTGGTGGCGGGTGGCATAGACGTCTGGTGCAGTGGGGGCCTGGGCTGGTGGCACTCCAGGAGGCAGAGgtaatgcttgacctggacccggagaataggaatggatggggagacatggt Alignment from Pairagon AGACCTACACGATCGTGGCCCAGGCCCAT-GCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG ttatactccataatatagcaaatgcttggttttctttgcctgctctgcagAGACCTACACAATTGTGGCCCAGTCCCATCGCTCATGAGGAGTGCTTCTTTGCACTCTGTCTTCATCAGGATGGAACAGTACTGACTGGTGGCGGGTGGCATAGACGTCTGGTGCAGTGGGGGCCTGGGCTGGTGGCACTCCAGGAGGCAGAGgtaatgcttgacctggacccggagaataggaatggatggggagacatggt Alignment from Exonerate_protein2genome AGACCTACACGATCGTGGCCCAGGCCCAT-GCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG ttatactccataatatagcaaatgcttggttttctttgcctgctctgcagAGACCTACACAATTGTGGCCCAGTCCCATCGCTCATGAGGAGTGCTTCTTTGCACTCTGTCTTCATCAGGATGGAACAGTACTGACTGGTGGCGGGTGGCATAGACGTCTGGTGCAGTGGGGGCCTGGGCTGGTGGCACTCCAGGAGGCAGAGgtaatgcttgacctggacccggagaataggaatggatggggagacatggt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AGACCTACACGATCGTGGCCCAGGCCCAT-GCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG ttatactccataatatagcaaatgcttggttttctttgcctgctctgcagAGACCTACACAATTGTGGCCCAGTCCCATCGCTCATGAGGAGTGCTTCTTTGCACTCTGTCTTCATCAGGATGGAACAGTACTGACTGGTGGCGGGTGGCATAGACGTCTGGTGCAGTGGGGGCCTGGGCTGGTGGCACTCCAGGAGGCAGAGgtaatgcttgacctggacccggagaataggaatggatggggagacatggt #### Eno4_ID12833_5 --> 2 - 0 Original Alignment gaCGGAGGGATACGCTTTTGGAGAAACCT-GTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG ttccagttttctaccttgcaaaaagacacacgtctccactttccctgtaggaCGGAGGGATATGCTTTTGGAGAGACCTCGTGTCACCCCCAGAGCCACCCGAACCAGTTCAGCACGGTAGTATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCCATGATCCTCTCTACTCAGCCCTGGCATCACTGAAGCAAGATCAAgtaatgtaatattgtgggtgtgagtgtggaaaaagagttggtggcagtat Alignment from CESAR gaCGGAGGGATACGCTTTTGGAGAAACCT-GTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG ttccagttttctaccttgcaaaaagacacacgtctccactttccctgtaggaCGGAGGGATATGCTTTTGGAGAGACCTCGTGTCACCCCCAGAGCCACCCGAACCAGTTCAGCACGGTAGTATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCCATGATCCTCTCTACTCAGCCCTGGCATCACTGAAGCAAGATCAAgtaatgtaatattgtgggtgtgagtgtggaaaaagagttggtggcagtat Alignment from Spaln_aa2Genome GACGGAGGGATACGCTTTTGGAGAAACCT-GTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG ttccagttttctaccttgcaaaaagacacacgtctccactttccctgtagGACGGAGGGATATGCTTTTGGAGAGACCTcGTGTCACCCCCAGAGCCACCCGAACCAGTTCAGCACGGTAGTATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCCATGATCCTCTCTACTCAGCCCTGGCATCACTGAAGCAAGATCAAgtaatgtaatattgtgggtgtgagtgtggaaaaagagttggtggcagtat Alignment from Spaln_nt2Genome GACGGAGGGATACGCTTTTGGAGAAACCT-GTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG ttccagttttctaccttgcaaaaagacacacgtctccactttccctgtagGACGGAGGGATATGCTTTTGGAGAGACCTCGTGTCACCCCCAGAGCCACCCGAACCAGTTCAGCACGGTAGTATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCCATGATCCTCTCTACTCAGCCCTGGCATCACTGAAGCAAGATCAAgtaatgtaatattgtgggtgtgagtgtggaaaaagagttggtggcagtat Alignment from Pairagon GACGGAGGGATACGCTTTTGGAGAAACCT-GTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG ttccagttttctaccttgcaaaaagacacacgtctccactttccctgtagGACGGAGGGATATGCTTTTGGAGAGACCTCGTGTCACCCCCAGAGCCACCCGAACCAGTTCAGCACGGTAGTATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCCATGATCCTCTCTACTCAGCCCTGGCATCACTGAAGCAAGATCAAgtaatgtaatattgtgggtgtgagtgtggaaaaagagttggtggcagtat Alignment from Exonerate_protein2genome GACGGAGGGATACGCTTTTGGAGAAACCT-GTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG ttccagttttctaccttgcaaaaagacacacgtctccactttccctgtagGACGGAGGGATATGCTTTTGGAGAGACCTCGTGTCACCCCCAGAGCCACCCGAACCAGTTCAGCACGGTAGTATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCCATGATCCTCTCTACTCAGCCCTGGCATCACTGAAGCAAGATCAAgtaatgtaatattgtgggtgtgagtgtggaaaaagagttggtggcagtat Alignment from Exonerate_coding2genome GACGGAGGGATACGCTTTTGGAGAAACCT-GTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG ttccagttttctaccttgcaaaaagacacacgtctccactttccctgtagGACGGAGGGATATGCTTTTGGAGAGACCTCGTGTCACCCCCAGAGCCACCCGAACCAGTTCAGCACGGTAGTATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCCATGATCCTCTCTACTCAGCCCTGGCATCACTGAAGCAAGATCAAgtaatgtaatattgtgggtgtgagtgtggaaaaagagttggtggcagtat Alignment from GeneWise GACGGAGGGATACGCTTTTGGAGAAACCT-GTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG ttccagttttctaccttgcaaaaagacacacgtctccactttccctgtagGACGGAGGGATATGCTTTTGGAGAGACCTCGTGTCACCCCCAGAGCCACCCGAACCAGTTCAGCACGGTAGTATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCCATGATCCTCTCTACTCAGCCCTGGCATCACTGAAGCAAGATCAAgtaatgtaatattgtgggtgtgagtgtggaaaaagagttggtggcagtat #### Exosc1_ID8332_7 --> 0 - 1 Original Alignment ATCTCCCTAGGCGATGCACAGTCCAATTACCTGCTGACTACT---GCTGAAAACGAG-CTGGGCGTTGTGGTGGCCCACAGTGAGTCAg taatggttgtctaagaagggtcaaaaacattctttttttttccctatcagATATCGCTAGGGGCTGCACAGTCCAATTATCTGTTAACCACCGCTGCTGAAAATGAGCCTGGGTGTTGTAGTGGCCCACAGTGAGTCAggtatgctagtgactaaatttgctgtcccaggaaggtgggtaacaaaccat Alignment from CESAR ATCTCCCTAGGCGATGCACAGTCCAATTACCTGCTGACTACTGCT---GAAAACGAG-CTGGGCGTTGTGGTGGCCCACAGTGAGTCAg taatggttgtctaagaagggtcaaaaacattctttttttttccctatcagATATCGCTAGGGGCTGCACAGTCCAATTATCTGTTAACCACCGCTGCTGAAAATGAGCCTGGGTGTTGTAGTGGCCCACAGTGAGTCAggtatgctagtgactaaatttgctgtcccaggaaggtgggtaacaaaccat Alignment from Spaln_aa2Genome ATCTCCCTAGGCGATGCACAGTCCAATTACCTGCTGACTACT---GCTGAAAACGAG-CTGGGCGTTGTGGTGGCCCACAGTGAGTCAG taatggttgtctaagaagggtcaaaaacattctttttttttccctatcagATATCGCTAGGGGCTGCACAGTCCAATTATCTGTTAACCACCGCTGCTGAAAATGAGcCTGGGTGTTGTAGTGGCCCACAGTGAGTCAGgtatgctagtgactaaatttgctgtcccaggaaggtgggtaacaaaccat Alignment from Spaln_nt2Genome ATCTCCCTAGGCGATGCACAGTCCAATTACCTGCTGACTAC---TGCTGAAAACGAGC-TGGGCGTTGTGGTGGCCCACAGTGAGTCAG taatggttgtctaagaagggtcaaaaacattctttttttttccctatcagATATCGCTAGGGGCTGCACAGTCCAATTATCTGTTAACCACCGCTGCTGAAAATGAGCCTGGGTGTTGTAGTGGCCCACAGTGAGTCAGgtatgctagtgactaaatttgctgtcccaggaaggtgggtaacaaaccat Alignment from Pairagon ATCTCCCTAGGCGATGCACAGTCCAATTACCTGCTGACTA---CTGCTGAAAACGAG-CTGGGCGTTGTGGTGGCCCACAGTGAGTCAG taatggttgtctaagaagggtcaaaaacattctttttttttccctatcagATATCGCTAGGGGCTGCACAGTCCAATTATCTGTTAACCACCGCTGCTGAAAATGAGCCTGGGTGTTGTAGTGGCCCACAGTGAGTCAGgtatgctagtgactaaatttgctgtcccaggaaggtgggtaacaaaccat Alignment from Exonerate_protein2genome ATCTCCCTAGGCGATGCACAGTCCAATTACCTGCTGACTACTGCT----GAAAACGAGCTGGGCGTTGTGGTGGCCCACAGTGAGTCAG taatggttgtctaagaagggtcaaaaacattctttttttttccctatcagATATCGCTAGGGGCTGCACAGTCCAATTATCTGTTAACCACCGCTGCTGAAAATGAGCCTGGGTGTTGTAGTGGCCCACAGTGAGTCAGgtatgctagtgactaaatttgctgtcccaggaaggtgggtaacaaaccat Alignment from Exonerate_coding2genome ATCTCCCTAGGCGATGCACAGTCCAATTACCTGCTGACTACTGCT----GAAAACGAGCTGGGCGTTGTGGTGGCCCACAGTGAGTCAG taatggttgtctaagaagggtcaaaaacattctttttttttccctatcagATATCGCTAGGGGCTGCACAGTCCAATTATCTGTTAACCACCGCTGCTGAAAATGAGCCTGGGTGTTGTAGTGGCCCACAGTGAGTCAGgtatgctagtgactaaatttgctgtcccaggaaggtgggtaacaaaccat Alignment from GeneWise ATCTCCCTAGGCGATGCACAGTCCAATTACCTGCTGACTACTGCT---GAAAACGAG-CTGGGCGTTGTGGTGGCCCACAGTGAGTCA- taatggttgtctaagaagggtcaaaaacattctttttttttccctatcagATATCGCTAGGGGCTGCACAGTCCAATTATCTGTTAACCACCGCTGCTGAAAATGAGCCTGGGTGTTGTAGTGGCCCACAGTGAGTCAGgtatgctagtgactaaatttgctgtcccaggaaggtgggtaacaaaccat #### Exosc1_ID8337_2 --> 2 - 0 Original Alignment gcGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTG-GCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgaatgcgatacttgttcttgcaggtGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACACCTGGCATGGCTACATATCTTCATCATTGCGCTGGCTGTCCTATGAAGACCAGCAAGAATGGTGCAgtaagtaaggaggctccctagacggtgttcactcctccccgtgagctgta Alignment from CESAR gcGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTG-GCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgaatgcgatacttgttcttgcaggtGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACACCTGGCATGGCTACATATCTTCATCATTGCGCTGGCTGTCCTATGAAGACCAGCAAGAATGGTGCAgtaagtaaggaggctccctagacggtgttcactcctccccgtgagctgta Alignment from Spaln_aa2Genome GCGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTG-GCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgaatgcgatacttgttcttgcagGTGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACACCTGGCATGGCTACATATCTTCATCATTGcGCTGGCTGTCCTATGAAGACCAGCAAGAATGGTGCAgtaagtaaggaggctccctagacggtgttcactcctccccgtgagctgta Alignment from Spaln_nt2Genome GCGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTG-GCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgaatgcgatacttgttcttgcagGTGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACACCTGGCATGGCTACATATCTTCATCATTGCGCTGGCTGTCCTATGAAGACCAGCAAGAATGGTGCAgtaagtaaggaggctccctagacggtgttcactcctccccgtgagctgta Alignment from Pairagon GCGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTG-GCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgaatgcgatacttgttcttgcagGTGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACACCTGGCATGGCTACATATCTTCATCATTGCGCTGGCTGTCCTATGAAGACCAGCAAGAATGGTGCAgtaagtaaggaggctccctagacggtgttcactcctccccgtgagctgta Alignment from Exonerate_protein2genome GCGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTG-GCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgaatgcgatacttgttcttgcagGTGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACACCTGGCATGGCTACATATCTTCATCATTGCGCTGGCTGTCCTATGAAGACCAGCAAGAATGGTGCAgtaagtaaggaggctccctagacggtgttcactcctccccgtgagctgta Alignment from Exonerate_coding2genome ATCCCCGGCGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTG-GCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgaatgcgatacttgttCTTGCAGGTGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACACCTGGCATGGCTACATATCTTCATCATTGCGCTGGCTGTCCTATGAAGACCAGCAAGAATGGTGCAgtaagtaaggaggctccctagacggtgttcactcctccccgtgagctgta Alignment from GeneWise GCACCACCGGTGAGGTACTGCATCCCCGGCGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTG-GCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG atgtgttgcaggcaacttgaat---------GCGATACTTGTTCTTGCAGGTGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACACCTGGCATGGCTACATATCTTCATCATTGCGCTGGCTGTCCTATGAAGACCAGCAAGAATGGTGCAgtaagtaaggaggctccctagacggtgttcactcctccccgtgagctgta #### Fads1_ID2688_2 --> 0 - 0 Original Alignment GATCCTTTTGTGGCATTC-CACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT taggttctcattgccataggttctcattctctgcttcctcctccaaccagGATCCTTTTGTGGCATTCCCACTTCAACAAGGGTCTTGTGAGAAAATATATGAATTATCTT---CTTGGGGAGCTAGCTCCAGAGCAACCCAGCTTTGAACCCACCAAGAATgtaagaaaacagaccctgtaaattagggataccattgttgctctcctggt Alignment from CESAR GATCCTTTTGTGGCATTC-CACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT taggttctcattgccataggttctcattctctgcttcctcctccaaccagGATCCTTTTGTGGCATTCCCACTTCAACAAGGGTCTTGTGAGAAAATATATGAATTATCTTCTT---GGGGAGCTAGCTCCAGAGCAACCCAGCTTTGAACCCACCAAGAATgtaagaaaacagaccctgtaaattagggataccattgttgctctcctggt Alignment from Spaln_aa2Genome GATCCTTTTGTGGCATTC-CACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT taggttctcattgccataggttctcattctctgcttcctcctccaaccagGATCCTTTTGTGGCATTCcCACTTCAACAAGGGTCTTGTGAGAAAATATATGAATTATCTTCTT---GGGGAGCTAGCTCCAGAGCAACCCAGCTTTGAACCCACCAAGAATgtaagaaaacagaccctgtaaattagggataccattgttgctctcctggt Alignment from Spaln_nt2Genome GATCCTTTTGTGGCATT-CCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT taggttctcattgccataggttctcattctctgcttcctcctccaaccagGATCCTTTTGTGGCATTCCCACTTCAACAAGGGTCTTGTGAGAAAATATATGAATTA---TCTTCTTGGGGAGCTAGCTCCAGAGCAACCCAGCTTTGAACCCACCAAGAATgtaagaaaacagaccctgtaaattagggataccattgttgctctcctggt Alignment from Pairagon GATCCTTTTGTGGCATT-CCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT taggttctcattgccataggttctcattctctgcttcctcctccaaccagGATCCTTTTGTGGCATTCCCACTTCAACAAGGGTCTTGTGAGAAAATATATGAATTATCTTC---TTGGGGAGCTAGCTCCAGAGCAACCCAGCTTTGAACCCACCAAGAATgtaagaaaacagaccctgtaaattagggataccattgttgctctcctggt Alignment from Exonerate_protein2genome GATCCTTTTGTGGCATTC-CACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT taggttctcattgccataggttctcattctctgcttcctcctccaaccagGATCCTTTTGTGGCATTCCCACTTCAACAAGGGTCTTGTGAGAAAATATATGAATTATCTTCTT---GGGGAGCTAGCTCCAGAGCAACCCAGCTTTGAACCCACCAAGAATgtaagaaaacagaccctgtaaattagggataccattgttgctctcctggt Alignment from Exonerate_coding2genome GATCCTTTTGTGGCATTC-CACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT taggttctcattgccataggttctcattctctgcttcctcctccaaccagGATCCTTTTGTGGCATTCCCACTTCAACAAGGGTCTTGTGAGAAAATATATGAATTATCTTCTT---GGGGAGCTAGCTCCAGAGCAACCCAGCTTTGAACCCACCAAGAATgtaagaaaacagaccctgtaaattagggataccattgttgctctcctggt Alignment from GeneWise GATCCTTTTGTGGCA-TTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT taggttctcattgccataggttctcattctctgcttcctcctccaaccagGATCCTTTTGTGGCATTCCCACTTCAACAAGGGTCTTGTGAGAAAATATATGAATTATCTTCTT---GGGGAGCTAGCTCCAGAGCAACCCAGCTTTGAACCCACCAAGAATgtaagaaaacagaccctgtaaattagggataccattgttgctctcctggt #### Fads1_ID2697_11 --> 1 - 2 Original Alignment cCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCC-CTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTta tatgtagcagtctgtaatctcccacacaatctctctttcttttgcaacagtGTCTTCCCCTCCATACCTCACCATAATTACCATAAGGTGACACCACGTAGTACAATCTCTATGTGCCAAATATGGCATAAAGTATGAGTCTAAACCCCTACTTGCAGCTTTTGCAGACATTGTTtagtaagtatgaacaagtacctgacagtagctaagtgagtgtgtgacaagag Alignment from CESAR cCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCC-CTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTta tatgtagcagtctgtaatctcccacacaatctctctttcttttgcaacagtGTCTTCCCCTCCATACCTCACCATAATTACCATAAGGTGACACCACGTAGTACAATCTCTATGTGCCAAATATGGCATAAAGTATGAGTCTAAACCCCTACTTGCAGCTTTTGCAGACATTGTTtagtaagtatgaacaagtacctgacagtagctaagtgagtgtgtgacaagag Alignment from Spaln_aa2Genome CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCC-CTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTTA tatgtagcagtctgtaatctcccacacaatctctctttcttttgcaacagTGTCTTCCCCTCCATACCTCACCATAATTACCATAAGGTGACACCAcGTAGTACAATCTCTATGTGCCAAATATGGCATAAAGTATGAGTCTAAACCCCTACTTGCAGCTTTTGCAGACATTGTTTAgtaagtatgaacaagtacctgacagtagctaagtgagtgtgtgacaagag Alignment from Spaln_nt2Genome CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCC-TAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTTA tatgtagcagtctgtaatctcccacacaatctctctttcttttgcaacagTGTCTTCCCCTCCATACCTCACCATAATTACCATAAGGTGACACCACGTAGTACAATCTCTATGTGCCAAATATGGCATAAAGTATGAGTCTAAACCCCTACTTGCAGCTTTTGCAGACATTGTTTAgtaagtatgaacaagtacctgacagtagctaagtgagtgtgtgacaagag Alignment from Pairagon CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACC-CCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTTA tatgtagcagtctgtaatctcccacacaatctctctttcttttgcaacagTGTCTTCCCCTCCATACCTCACCATAATTACCATAAGGTGACACCACGTAGTACAATCTCTATGTGCCAAATATGGCATAAAGTATGAGTCTAAACCCCTACTTGCAGCTTTTGCAGACATTGTTTAgtaagtatgaacaagtacctgacagtagctaagtgagtgtgtgacaagag Alignment from Exonerate_protein2genome CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCC-CTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTTA tatgtagcagtctgtaatctcccacacaatctctctttcttttgcaacagTGTCTTCCCCTCCATACCTCACCATAATTACCATAAGGTGACACCACGTAGTACAATCTCTATGTGCCAAATATGGCATAAAGTATGAGTCTAAACCCCTACTTGCAGCTTTTGCAGACATTGTTTAgtaagtatgaacaagtacctgacagtagctaagtgagtgtgtgacaagag Alignment from Exonerate_coding2genome tatgtagcagtctgtaatctcccacacaatctctctttcttttgcaacagtgtcttcccctccatacctcaccataattaccataaggtgacaccacgtagtacaatctctatgtgccaaatatggcataaagtatgagtctaaacccctacttgcagcttttgcagacattgtttagtaagtatgaacaagtacctgacagtagctaagtgagtgtgtgacaagag Alignment from GeneWise CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCC-CTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTT tatgtagcagtctgtaatctcccacacaatctctctttcttttgcaacagTGTCTTCCCCTCCATACCTCACCATAATTACCATAAGGTGACACCACGTAGTACAATCTCTATGTGCCAAATATGGCATAAAGTATGAGTCTAAACCCCTACTTGCAGCTTTTGCAGACATTGTTtagtaagtatgaacaagtacctgacagtagctaagtgagtgtgtgacaagag #### Fads3_ID2663_6 --> 0 - 1 Original Alignment TATGGCAAGAAGAAACGC-AGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTGa caatctacaggaggtgtgtttcccctggtgtgtctgtgtgcgctgtacagTATGGCAAGAAGAAACAACCGATACCTGCCATACAATCATCAACATCTATACTTCTTCCTGggtaaggggtgccagcaagatttattggtggcagttggcagccctaaggga Alignment from CESAR TATGGCAAGAAGAAACGC-AGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTGa caatctacaggaggtgtgtttcccctggtgtgtctgtgtgcgctgtacagTATGGCAAGAAGAAACAACCGATACCTGCCATACAATCATCAACATCTATACTTCTTCCTGggtaaggggtgccagcaagatttattggtggcagttggcagccctaaggga Alignment from Spaln_aa2Genome TATGGCAAGAAGAAACGC-AGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTGA caatctacaggaggtgtgtttcccctggtgtgtctgtgtgcgctgtacagTATGGCAAGAAGAAACAAcCGATACCTGCCATACAATCATCAACATCTATACTTCTTCCTGGgtaaggggtgccagcaagatttattggtggcagttggcagccctaaggga Alignment from Spaln_nt2Genome TATGGCAAGAAGAAACG-CAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTGA caatctacaggaggtgtgtttcccctggtgtgtctgtgtgcgctgtacagTATGGCAAGAAGAAACAACCGATACCTGCCATACAATCATCAACATCTATACTTCTTCCTGGgtaaggggtgccagcaagatttattggtggcagttggcagccctaaggga Alignment from Pairagon TATGGCAAGAAGAAAC-GCAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTGA caatctacaggaggtgtgtttcccctggtgtgtctgtgtgcgctgtacagTATGGCAAGAAGAAACAACCGATACCTGCCATACAATCATCAACATCTATACTTCTTCCTGGgtaaggggtgccagcaagatttattggtggcagttggcagccctaaggga Alignment from Exonerate_protein2genome TATGGCAAGAAGAAACGC-AGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTGA caatctacaggaggtgtgtttcccctggtgtgtctgtgtgcgctgtacagTATGGCAAGAAGAAACAACCGATACCTGCCATACAATCATCAACATCTATACTTCTTCCTGGgtaaggggtgccagcaagatttattggtggcagttggcagccctaaggga Alignment from Exonerate_coding2genome TATGGCAAGAAGAAACGC-AGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTGA caatctacaggaggtgtgtttcccctggtgtgtctgtgtgcgctgtacagTATGGCAAGAAGAAACAACCGATACCTGCCATACAATCATCAACATCTATACTTCTTCCTGGgtaaggggtgccagcaagatttattggtggcagttggcagccctaaggga Alignment from GeneWise TATGGCAAGAAGAAA-CGCAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTGA caatctacaggaggtgtgtttcccctggtgtgtctgtgtgcgctgtacagTATGGCAAGAAGAAACAACCGATACCTGCCATACAATCATCAACATCTATACTTCTTCCTGGgtaaggggtgccagcaagatttattggtggcagttggcagccctaaggga #### Fads3_ID2665_8 --> 0 - 2 Original Alignment GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGG-ACACTGCTCCTCTTTGTTGCTGTCag tttctgggcccttaggtccccagacaacgatttacacctgttaccacaagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGGCACACTAATCCTCTTTGTCGTTGTGcggtgagttgcaacatgctgggcaccaaatctatttaagtcctttggactta Alignment from CESAR GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGG-ACACTGCTCCTCTTTGTTGCTGTCag tttctgggcccttaggtccccagacaacgatttacacctgttaccacaagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGGCACACTAATCCTCTTTGTCGTTGTGcggtgagttgcaacatgctgggcaccaaatctatttaagtcctttggactta Alignment from Spaln_aa2Genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACT-GGGACACTGCTCCTCTTTGTTGCTGTCAG tttctgggcccttaggtccccagacaacgatttacacctgttaccacaagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTgGGCACACTAATCCTCTTTGTCGTTGTGCGgtgagttgcaacatgctgggcaccaaatctatttaagtcctttggactta Alignment from Spaln_nt2Genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGG-ACACTGCTCCTCTTTGTTGCTGTCAG tttctgggcccttaggtccccagacaacgatttacacctgttaccacaagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGGCACACTAATCCTCTTTGTCGTTGTGCGgtgagttgcaacatgctgggcaccaaatctatttaagtcctttggactta Alignment from Pairagon GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGG-ACACTGCTCCTCTTTGTTGCTGTCAG tttctgggcccttaggtccccagacaacgatttacacctgttaccacaagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGGCACACTAATCCTCTTTGTCGTTGTGCGgtgagttgcaacatgctgggcaccaaatctatttaagtcctttggactta Alignment from Exonerate_protein2genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACT-GGGACACTGCTCCTCTTTGTTGCTGTCAG tttctgggcccttaggtccccagacaacgatttacacctgttaccacaagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGGCACACTAATCCTCTTTGTCGTTGTGCGgtgagttgcaacatgctgggcaccaaatctatttaagtcctttggactta Alignment from Exonerate_coding2genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACT-GGGACACTGCTCCTCTTTGTTGCTGTCAG tttctgggcccttaggtccccagacaacgatttacacctgttaccacaagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGGCACACTAATCCTCTTTGTCGTTGTGCGgtgagttgcaacatgctgggcaccaaatctatttaagtcctttggactta Alignment from GeneWise GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTT- tttctgggcccttaggtccccagacaacgatttacacctgttaccacaagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGGCACACTAATCCTCTTTgtcgttgtgcggtgagttgcaacatgctgggcaccaaatctatttaagtcctttggactta #### Fads3_ID2666_9 --> 1 - 0 Original Alignment gGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCAT-CGGGACTGGGCAAGCTCTCAG actccatagattgtatcaacgattccatacttttctgttcctggtattaggGTGTTGGAGAGCCACTGGTTTGTGTGGATCACACAAATGAACCATATCCCCAAGAAGATAGGACATGAAAAACATCCGGGACTGGGCAACCTCTCAGgtaactgctcttaagtgcatactagtggcgagagtgtctgtgcttaagcc Alignment from CESAR gGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCAT-CGGGACTGGGCAAGCTCTCAG actccatagattgtatcaacgattccatacttttctgttcctggtattaggGTGTTGGAGAGCCACTGGTTTGTGTGGATCACACAAATGAACCATATCCCCAAGAAGATAGGACATGAAAAACATCCGGGACTGGGCAACCTCTCAGgtaactgctcttaagtgcatactagtggcgagagtgtctgtgcttaagcc Alignment from Spaln_aa2Genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCAT-CGGGACTGGGCAAGCTCTCAG actccatagattgtatcaacgattccatacttttctgttcctggtattagGGTGTTGGAGAGCCACTGGTTTGTGTGGATCACACAAATGAACCATATCCCCAAGAAGATAGGACATGAAAAACATcCGGGACTGGGCAACCTCTCAGgtaactgctcttaagtgcatactagtggcgagagtgtctgtgcttaagcc Alignment from Spaln_nt2Genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCAT-CGGGACTGGGCAAGCTCTCAG actccatagattgtatcaacgattccatacttttctgttcctggtattagGGTGTTGGAGAGCCACTGGTTTGTGTGGATCACACAAATGAACCATATCCCCAAGAAGATAGGACATGAAAAACATCCGGGACTGGGCAACCTCTCAGgtaactgctcttaagtgcatactagtggcgagagtgtctgtgcttaagcc Alignment from Pairagon GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCAT-CGGGACTGGGCAAGCTCTCAG actccatagattgtatcaacgattccatacttttctgttcctggtattagGGTGTTGGAGAGCCACTGGTTTGTGTGGATCACACAAATGAACCATATCCCCAAGAAGATAGGACATGAAAAACATCCGGGACTGGGCAACCTCTCAGgtaactgctcttaagtgcatactagtggcgagagtgtctgtgcttaagcc Alignment from Exonerate_protein2genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCAT-CGGGACTGGGCAAGCTCTCAG actccatagattgtatcaacgattccatacttttctgttcctggtattagGGTGTTGGAGAGCCACTGGTTTGTGTGGATCACACAAATGAACCATATCCCCAAGAAGATAGGACATGAAAAACATCCGGGACTGGGCAACCTCTCAGgtaactgctcttaagtgcatactagtggcgagagtgtctgtgcttaagcc Alignment from Exonerate_coding2genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCAT-CGGGACTGGGCAAGCTCTCAG actccatagattgtatcaacgattccatacttttctgttcctggtattagGGTGTTGGAGAGCCACTGGTTTGTGTGGATCACACAAATGAACCATATCCCCAAGAAGATAGGACATGAAAAACATCCGGGACTGGGCAACCTCTCAGgtaactgctcttaagtgcatactagtggcgagagtgtctgtgcttaagcc Alignment from GeneWise GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCAT-CGGGACTGGGCAAGCTCTCAG actccatagattgtatcaacgattccatacttttctgttcctggtattagGGTGTTGGAGAGCCACTGGTTTGTGTGGATCACACAAATGAACCATATCCCCAAGAAGATAGGACATGAAAAACATCCGGGACTGGGCAACCTCTCAGgtaactgctcttaagtgcatactagtggcgagagtgtctgtgcttaagcc #### Fads3_ID2668_11 --> 1 - 2 Original Alignment cCTCTTCCCCACGATGCCAAGGCACAACTACCGGAGGGTGGCCCCCCTG-GTCAAGGCGTTCTGCGCCAAGCACGGCCTACACTACGAGGTGAAGCCTTTCCTCACCGCTCTGGTGGATATCATCgg caagataacatcgttatgggggattcacaccagggcctctctgtgcctagcCTTGTTCCTACTATGTCTAGGCACAACTACCGGAGAGTGGCCCCCCTTCGTCGAGGCATTCTGTGCTACACATGGACTACACCGTGAGGTAAAGCCATTTCTTATGGCATTGGTGGAGATCATTgggtctgttgatgtttggagccaagcaacctgggtccaacttggtaagtatt Alignment from CESAR cCTCTTCCCCACGATGCCAAGGCACAACTACCGGAGGGTGGCCCCCCTG-GTCAAGGCGTTCTGCGCCAAGCACGGCCTACACTACGAGGTGAAGCCTTTCCTCACCGCTCTGGTGGATATCATCgg caagataacatcgttatgggggattcacaccagggcctctctgtgcctagcCTTGTTCCTACTATGTCTAGGCACAACTACCGGAGAGTGGCCCCCCTTCGTCGAGGCATTCTGTGCTACACATGGACTACACCGTGAGGTAAAGCCATTTCTTATGGCATTGGTGGAGATCATTgggtctgttgatgtttggagccaagcaacctgggtccaacttggtaagtatt Alignment from Spaln_aa2Genome CCTCTTCCCCACGATGCCAAGGCACAACTACCGGAGGGTGGCCCCCCTGGTCAAG-GCGTTCTGCGCCAAGCACGGCCTACACTACGAGGTGAAGCCTTTCCTCACCGCTCTGGTGGATATCATCGG caagataacatcgttatgggggattcacaccagggcctctctgtgcctagCCTTGTTCCTACTATGTCTAGGCACAACTACCGGAGAGTGGCCCCCCTTCGTCGAgGCATTCTGTGCTACACATGGACTACACCGTGAGGTAAAGCCATTTCTTATGGCATTGGTGGAGATCATTGGgtctgttgatgtttggagccaagcaacctgggtccaacttggtaagtatt Alignment from Spaln_nt2Genome CCTCTTCCCCACGATGCCAAGGCACAACTACCGGAGGGTGGCCCCCCTG-GTCAAGGCGTTCTGCGCCAAGCACGGCCTACACTACGAGGTGAAGCCTTTCCTCACCGCTCTGGTGGATATCATCGG caagataacatcgttatgggggattcacaccagggcctctctgtgcctagCCTTGTTCCTACTATGTCTAGGCACAACTACCGGAGAGTGGCCCCCCTTCGTCGAGGCATTCTGTGCTACACATGGACTACACCGTGAGGTAAAGCCATTTCTTATGGCATTGGTGGAGATCATTGGgtctgttgatgtttggagccaagcaacctgggtccaacttggtaagtatt Alignment from Pairagon CCTCTTCCCCACGATGCCAAGGCACAACTACCGGAGGGTGGCCCCCC-TGGTCAAGGCGTTCTGCGCCAAGCACGGCCTACACTACGAGGTGAAGCCTTTCCTCACCGCTCTGGTGGATATCATCGGGTCC caagataacatcgttatgggggattcacaccagggcctctctgtgcctagCCTTGTTCCTACTATGTCTAGGCACAACTACCGGAGAGTGGCCCCCCTTCGTCGAGGCATTCTGTGCTACACATGGACTACACCGTGAGGTAAAGCCATTTCTTATGGCATTGGTGGAGATCATTGGGTCTgttgatgtttggagccaagcaacctgggtccaacttggtaagtatt Alignment from Exonerate_protein2genome CCTCTTCCCCACGATGCCAAGGCACAACTACCGGAGGGTGGCCCCCCTG-GTCAAGGCGTTCTGCGCCAAGCACGGCCTACACTACGAGGTGAAGCCTTTCCTCACCGCTCTGGTGGATATCATCGG caagataacatcgttatgggggattcacaccagggcctctctgtgcctagCCTTGTTCCTACTATGTCTAGGCACAACTACCGGAGAGTGGCCCCCCTTCGTCGAGGCATTCTGTGCTACACATGGACTACACCGTGAGGTAAAGCCATTTCTTATGGCATTGGTGGAGATCATTGGgtctgttgatgtttggagccaagcaacctgggtccaacttggtaagtatt Alignment from Exonerate_coding2genome CCTCTTCCCCACGATGCCAAGGCACAACTACCGGAGGGTGGCCCCCCTG-GTCAAGGCGTTCTGCGCCAAGCACGGCCTACACTACGAGGTGAAGCCTTTCCTCACCGCTCTGGTGGATATCATCGG caagataacatcgttatgggggattcacaccagggcctctctgtgcctagCCTTGTTCCTACTATGTCTAGGCACAACTACCGGAGAGTGGCCCCCCTTCGTCGAGGCATTCTGTGCTACACATGGACTACACCGTGAGGTAAAGCCATTTCTTATGGCATTGGTGGAGATCATTGGgtctgttgatgtttggagccaagcaacctgggtccaacttggtaagtatt Alignment from GeneWise CCTCTTCCCCACGATGCCAAGGCACAACTACCGGAGGGTGGCCCCCCTG-GTCAAGGCGTTCTGCGCCAAGCACGGCCTACACTACGAGGTGAAGCCTTTCCTCACCGCTCTGGTGGATATCATCGGGTCCCTGAAGAAGTCTGGCGACATCTGGCTGGATGCATACCTCCATCAA caagataacatcgttatgggggattcacaccagggcctctctgtgcctagCCTTGTTCCTACTATGTCTAGGCACAACTACCGGAGAGTGGCCCCCCTTCGTCGAGGCATTCTGTGCTACACATGGACTACACCGTGAGGTAAAGCCATTTCTTATGGCATTGGTGGAGATCATTGGGTCTGTT------------GATGTTTGGAGCCAAGCAACCTGGGTCCAAc #### Fam160b1_ID12356_7 --> 0 - 2 Original Alignment GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTG-ACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGgg gtcatttatgctaaatctgacaatctccatccttctcattgatttcacagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTGCACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTAGACCCCTTAGACATTGAAACAGTGGAGGCAGTAAACTGGgggtaagtatccatttgatagactgcttggacagtgactgcttggacagtga Alignment from CESAR GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTG-ACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGgg gtcatttatgctaaatctgacaatctccatccttctcattgatttcacagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTGCACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTAGACCCCTTAGACATTGAAACAGTGGAGGCAGTAAACTGGgggtaagtatccatttgatagactgcttggacagtgactgcttggacagtga Alignment from Spaln_aa2Genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTG-ACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG gtcatttatgctaaatctgacaatctccatccttctcattgatttcacagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTGcACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTAGACCCCTTAGACATTGAAACAGTGGAGGCAGTAAACTGGGGgtaagtatccatttgatagactgcttggacagtgactgcttggacagtga Alignment from Spaln_nt2Genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTG-ACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG gtcatttatgctaaatctgacaatctccatccttctcattgatttcacagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTGCACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTAGACCCCTTAGACATTGAAACAGTGGAGGCAGTAAACTGGGGgtaagtatccatttgatagactgcttggacagtgactgcttggacagtga Alignment from Pairagon GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTG-ACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG gtcatttatgctaaatctgacaatctccatccttctcattgatttcacagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTGCACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTAGACCCCTTAGACATTGAAACAGTGGAGGCAGTAAACTGGGGgtaagtatccatttgatagactgcttggacagtgactgcttggacagtga Alignment from Exonerate_protein2genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTG-ACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG gtcatttatgctaaatctgacaatctccatccttctcattgatttcacagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTGCACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTAGACCCCTTAGACATTGAAACAGTGGAGGCAGTAAACTGGGGgtaagtatccatttgatagactgcttggacagtgactgcttggacagtga Alignment from Exonerate_coding2genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTG-ACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG gtcatttatgctaaatctgacaatctccatccttctcattgatttcacagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTGCACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTAGACCCCTTAGACATTGAAACAGTGGAGGCAGTAAACTGGGGgtaagtatccatttgatagactgcttggacagtgactgcttggacagtga Alignment from GeneWise GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTG-CTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG gtcatttatgctaaatctgacaatctccatccttctcattgatttcacagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTGCACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTAGACCCCTTAGACATTGAAACAGTGGAGGCAGTAAACTGGGGgtaagtatccatttgatagactgcttggacagtgactgcttggacagtga #### Fas_ID6925_6 --> 2 - 1 Original Alignment gtCCCAGAAATCGCCTATGGTTGTTGACCATCCTT-GTTTTGTTAATTCCACTTg taattgaaaagccctagccatctgtccagtggccttccttctctccacaggtCCCAGAAATTGCCTGTGGTTGTTGACCATCCTTCGTTTTGCTGATTCCACTTggtaccaaaggatgttcggagattattacagtagtgttaggaagtaagccc Alignment from CESAR gtCCCAGAAATCGCCTATGGTTGTTGACCATCCTT-GTTTTGTTAATTCCACTTg taattgaaaagccctagccatctgtccagtggccttccttctctccacaggtCCCAGAAATTGCCTGTGGTTGTTGACCATCCTTCGTTTTGCTGATTCCACTTggtaccaaaggatgttcggagattattacagtagtgttaggaagtaagccc Alignment from Spaln_aa2Genome GTCCCAGAAATCGCCTATGGTTGTTGACCATCCTT-GTTTTGTTAATTCCACTTG taattgaaaagccctagccatctgtccagtggccttccttctctccacagGTCCCAGAAATTGCCTGTGGTTGTTGACCATCCTTcGTTTTGCTGATTCCACTTGgtaccaaaggatgttcggagattattacagtagtgttaggaagtaagccc Alignment from Spaln_nt2Genome GTCCCAGAAATCGCCTATGGTTGTTGACCATCCTT-GTTTTGTTAATTCCACTTG taattgaaaagccctagccatctgtccagtggccttccttctctccacagGTCCCAGAAATTGCCTGTGGTTGTTGACCATCCTTCGTTTTGCTGATTCCACTTGgtaccaaaggatgttcggagattattacagtagtgttaggaagtaagccc Alignment from Pairagon GTCCCAGAAATCGCCTATGGTTGTTGACCATCCTT-GTTTTGTTAATTCCACTTG taattgaaaagccctagccatctgtccagtggccttccttctctccacagGTCCCAGAAATTGCCTGTGGTTGTTGACCATCCTTCGTTTTGCTGATTCCACTTGgtaccaaaggatgttcggagattattacagtagtgttaggaagtaagccc Alignment from Exonerate_protein2genome GTCCCAGAAATCGCCTATGGTTGTTGACCATCCTT-GTTTTGTTAATTCCACTTG taattgaaaagccctagccatctgtccagtggccttccttctctccacagGTCCCAGAAATTGCCTGTGGTTGTTGACCATCCTTCGTTTTGCTGATTCCACTTGgtaccaaaggatgttcggagattattacagtagtgttaggaagtaagccc Alignment from Exonerate_coding2genome GTCCCAGAAATCGCCTATGGTTGTTGACCATCCTT-GTTTTGTTAATTCCACTTG taattgaaaagccctagccatctgtccagtggccttccttctctccacagGTCCCAGAAATTGCCTGTGGTTGTTGACCATCCTTCGTTTTGCTGATTCCACTTGgtaccaaaggatgttcggagattattacagtagtgttaggaagtaagccc Alignment from GeneWise GTCCCAGAAATCGCCTATGGTTGTTGACCATCCTT-GTTTTGTTAATTCCACTTG taattgaaaagccctagccatctgtccagtggccttccttctctccacagGTCCCAGAAATTGCCTGTGGTTGTTGACCATCCTTCGTTTTGCTGATTCCACTTGgtaccaaaggatgttcggagattattacagtagtgttaggaagtaagccc #### Fbxl15_ID9850_2 --> 1 - 0 Original Alignment gCTCCTGGACCTGCCCTGGGAAGACGTGCTG-CTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG tcttattggtacttgattcccttacagaatggacatccttgcccctgcagaTTCCTAGACCTGCCTTGGGAAGAATTGCTGCCTCCTTCATGTCGTAAACTGGGTCCCACTTCACCAA---CTCCGGCTGCAGCAGGTGAGTAGAACTTTTGGGGCACTTGTTCAGTTGCACTTGGCCAGGTTACGCCGCTTTGATGCTGCTCAGgtacagtggtaagcaggggtgctcttgtccttgcactgctgtgctcttgt Alignment from CESAR gCTCCTGGACCTGCCCTGGGAAGACGTGCTG-CTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG tcttattggtacttgattcccttacagaatggacatccttgcccctgcagaTTCCTAGACCTGCCTTGGGAAGAATTGCTGCCTCCTTCATGTCGTAAACTGGGTCCCACTTCACCAA---CTCCGGCTGCAGCAGGTGAGTAGAACTTTTGGGGCACTTGTTCAGTTGCACTTGGCCAGGTTACGCCGCTTTGATGCTGCTCAGgtacagtggtaagcaggggtgctcttgtccttgcactgctgtgctcttgt Alignment from Spaln_aa2Genome GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCG-CACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG tcttattggtacttgattcccttacagaatggacatccttgcccctgcagATTCCTAGACCTGCCTTGGGAAGAATTGCTGCCTCCTtCATGTCGTAAACTGGGTCCCACTTCACCAA---CTCCGGCTGCAGCAGGTGAGTAGAACTTTTGGGGCACTTGTTCAGTTGCACTTGGCCAGGTTACGCCGCTTTGATGCTGCTCAGgtacagtggtaagcaggggtgctcttgtccttgcactgctgtgctcttgt Alignment from Spaln_nt2Genome GCTCCTGGACCTGCCCTGGGAAGACGTGCTGC-TCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG tcttattggtacttgattcccttacagaatggacatccttgcccctgcagATTCCTAGACCTGCCTTGGGAAGAATTGCTGCCTCCTTCATGTCGTAAACTGGGTCCCACTTCACCA---ACTCCGGCTGCAGCAGGTGAGTAGAACTTTTGGGGCACTTGTTCAGTTGCACTTGGCCAGGTTACGCCGCTTTGATGCTGCTCAGgtacagtggtaagcaggggtgctcttgtccttgcactgctgtgctcttgt Alignment from Pairagon GCTCCTGGACCTGCCCTGGGAAGACGTGCTG-CTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAGG------- tcttattggtacttgattcccttacagaatggacatccttgcccctgcagATTCCTAGACCTGCCTTGGGAAGAATTGCTGCCTCCTTCATGTCGTAAACTGGGTCCCACTTCACCA---ACTCCGGCTGCAGCAGGTGAGTAGAACTTTTGGGGCACTTGTTCAGTTGCACTTGGCCAGGTTACGCCGCTTTGATGCTGCTCAGGTACAGTGgtaagcaggggtgctcttgtccttgcactgctgtgctcttgt Alignment from Exonerate_protein2genome GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCG-CACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG tcttattggtacttgattcccttacagaatggacatccttgcccctgcagATTCCTAGACCTGCCTTGGGAAGAATTGCTGCCTCCTTCATGTCGTAAACTGGGTCCCACTTCACCAA---CTCCGGCTGCAGCAGGTGAGTAGAACTTTTGGGGCACTTGTTCAGTTGCACTTGGCCAGGTTACGCCGCTTTGATGCTGCTCAGgtacagtggtaagcaggggtgctcttgtccttgcactgctgtgctcttgt Alignment from Exonerate_coding2genome GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCG-CACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG tcttattggtacttgattcccttacagaatggacatccttgcccctgcagATTCCTAGACCTGCCTTGGGAAGAATTGCTGCCTCCTTCATGTCGTAAACTGGGTCCCACTTCACCAA---CTCCGGCTGCAGCAGGTGAGTAGAACTTTTGGGGCACTTGTTCAGTTGCACTTGGCCAGGTTACGCCGCTTTGATGCTGCTCAGgtacagtggtaagcaggggtgctcttgtccttgcactgctgtgctcttgt Alignment from GeneWise GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTC-CCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG tcttattggtacttgattcccttacagaatggacatccttgcccctgcagATTCCTAGACCTGCCTTGGGAAGAATTGCTGCCTCCTTCATGTCGTAAACTGGGTCCCACTTCACCAACTC---CGGCTGCAGCAGGTGAGTAGAACTTTTGGGGCACTTGTTCAGTTGCACTTGGCCAGGTTACGCCGCTTTGATGCTGCTCAGgtacagtggtaagcaggggtgctcttgtccttgcactgctgtgctcttgt #### Fgf8_ID9566_3 --> 0 - 0 Original Alignment GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCC-CAGGGTGTTTCCCAACAG ggcatggcacggtcatgttgtggcatgggtttttattattttttttttagGGAGGCCCAGGAGGGGGGCCTGCGCTTGGCAGGGAGCCAACATCCCTGCTCCGAGCTGGTCGGGAACCTCCAAGGTGTTTCCCAACAAgtaagcagttggagagttggagatggtttatccatttcaggccccgggtt Alignment from CESAR GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCC-CAGGGTGTTTCCCAACAG ggcatggcacggtcatgttgtggcatgggtttttattattttttttttagGGAGGCCCAGGAGGGGGGCCTGCGCTTGGCAGGGAGCCAACATCCCTGCTCCGAGCTGGTCGGGAACCTCCAAGGTGTTTCCCAACAAgtaagcagttggagagttggagatggtttatccatttcaggccccgggtt Alignment from Spaln_aa2Genome GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCC-CAGGGTGTTTCCCAACAG ggcatggcacggtcatgttgtggcatgggtttttattattttttttttagGGAGGCCCAGGAGGGGGGCCTGCGCTTGGCAGGGAGCCAACATCCCTGCTCCGAGCTGGTCGGGAACCTcCAAGGTGTTTCCCAACAAgtaagcagttggagagttggagatggtttatccatttcaggccccgggtt Alignment from Spaln_nt2Genome GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCC-CCAGGGTGTTTCCCAACAG ggcatggcacggtcatgttgtggcatgggtttttattattttttttttagGGAGGCCCAGGAGGGGGGCCTGCGCTTGGCAGGGAGCCAACATCCCTGCTCCGAGCTGGTCGGGAACCTCCAAGGTGTTTCCCAACAAgtaagcagttggagagttggagatggtttatccatttcaggccccgggtt Alignment from Pairagon GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCC-CCAGGGTGTTTCCCAACAG ggcatggcacggtcatgttgtggcatgggtttttattattttttttttagGGAGGCCCAGGAGGGGGGCCTGCGCTTGGCAGGGAGCCAACATCCCTGCTCCGAGCTGGTCGGGAACCTCCAAGGTGTTTCCCAACAAgtaagcagttggagagttggagatggtttatccatttcaggccccgggtt Alignment from Exonerate_protein2genome GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCC-CAGGGTGTTTCCCAACAG ggcatggcacggtcatgttgtggcatgggtttttattattttttttttagGGAGGCCCAGGAGGGGGGCCTGCGCTTGGCAGGGAGCCAACATCCCTGCTCCGAGCTGGTCGGGAACCTCCAAGGTGTTTCCCAACAAgtaagcagttggagagttggagatggtttatccatttcaggccccgggtt Alignment from Exonerate_coding2genome GGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCC-CAGGGTGTTTCCCAACAG ggcatggcacggtcatgttgtggcatgggtttttattattttttttttagggaGGCCCAGGAGGGGGGCCTGCGCTTGGCAGGGAGCCAACATCCCTGCTCCGAGCTGGTCGGGAACCTCCAAGGTGTTTCCCAACAAgtaagcagttggagagttggagatggtttatccatttcaggccccgggtt Alignment from GeneWise GGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCC-CAGGGTGTTTCCCAACAG ggcatggcacggtcatgttgtggcatgggtttttattattttttttttagggaGGCCCAGGAGGGGGGCCTGCGCTTGGCAGGGAGCCAACATCCCTGCTCCGAGCTGGTCGGGAACCTCCAAGGTGTTTCCCAACAAgtaagcagttggagagttggagatggtttatccatttcaggccccgggtt #### Fgf8_ID9567_2 --> 1 - 0 Original Alignment gCTGTTGCACTTG-CTGGTTCTCTGCCTCCAAGCCCAG accgttctgctttttgggccacattttgtcatcatgatgttttctttcagaCTTTTACAATTGCTTAGTTTTTTGCCTCCAGGCACAAgtgagcattgtacttaagcaatgagtggaaatcaggtggagtcaagacag Alignment from CESAR gCTGTTGCACTTGCTG-GTTCTCTGCCTCCAAGCCCAG accgttctgctttttgggccacattttgtcatcatgatgttttctttcagaCTTTTACAATTGCTTAGTTTTTTGCCTCCAGGCACAAgtgagcattgtacttaagcaatgagtggaaatcaggtggagtcaagacag Alignment from Spaln_aa2Genome GCTGTTGCACTTGCTG-GTTCTCTGCCTCCAAGCCCAG accgttctgctttttgggccacattttgtcatcatgatgttttctttcagACTTTTACAATTGCTTaGTTTTTTGCCTCCAGGCACAAgtgagcattgtacttaagcaatgagtggaaatcaggtggagtcaagacag Alignment from Spaln_nt2Genome GCTGTTGCACTTGCTG-GTTCTCTGCCTCCAAGCCCAG accgttctgctttttgggccacattttgtcatcatgatgttttctttcagACTTTTACAATTGCTTAGTTTTTTGCCTCCAGGCACAAgtgagcattgtacttaagcaatgagtggaaatcaggtggagtcaagacag Alignment from Pairagon accgttctgctttttgggccacattttgtcatcatgatgttttctttcagacttttacaattgcttagttttttgcctccaggcacaagtgagcattgtacttaagcaatgagtggaaatcaggtggagtcaagacag Alignment from Exonerate_protein2genome GCTGTTGCACTTG-CTGGTTCTCTGCCTCCAAGCCCAG accgttctgctttttgggccacattttgtcatcatgatgttttctttcagACTTTTACAATTGCTTAGTTTTTTGCCTCCAGGCACAAgtgagcattgtacttaagcaatgagtggaaatcaggtggagtcaagacag Alignment from Exonerate_coding2genome accgttctgctttttgggccacattttgtcatcatgatgttttctttcagacttttacaattgcttagttttttgcctccaggcacaagtgagcattgtacttaagcaatgagtggaaatcaggtggagtcaagacag Alignment from GeneWise accgttctgctttttgggccacattttgtcatcatgatgttttctttcagacttttacaattgcttagttttttgcctccaggcacaagtgagcattgtacttaagcaatgagtggaaatcaggtggagtcaagacag #### Fibp_ID1008_5 --> 1 - 1 Original Alignment gGATTACGCAGCC-ATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAg ttcaagcataagagagataaagagcatagcctgctttttctctttggcagaGATTATGCAGCTCATTGTTTTCTTTGCCAATAATGACTTTGAAACTGGGAAAAAAAGGCTGCAGCACCTGAGCTTTGAGGCCTTTGCCTTCCGCGCAGAACTTATGATCCAGAATTGGACCCTTGGGGCCATTGGTGAGGCCCCAACTGATCCAggtatccaaactcctgctccataccactcatggctcttatcctgcccagtt Alignment from CESAR gGATTACGCAGCC-ATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAg ttcaagcataagagagataaagagcatagcctgctttttctctttggcagaGATTATGCAGCTCATTGTTTTCTTTGCCAATAATGACTTTGAAACTGGGAAAAAAAGGCTGCAGCACCTGAGCTTTGAGGCCTTTGCCTTCCGCGCAGAACTTATGATCCAGAATTGGACCCTTGGGGCCATTGGTGAGGCCCCAACTGATCCAggtatccaaactcctgctccataccactcatggctcttatcctgcccagtt Alignment from Spaln_aa2Genome GGATTACGCAGCC-ATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG ttcaagcataagagagataaagagcatagcctgctttttctctttggcagAGATTATGCAGCTcATTGTTTTCTTTGCCAATAATGACTTTGAAACTGGGAAAAAAAGGCTGCAGCACCTGAGCTTTGAGGCCTTTGCCTTCCGCGCAGAACTTATGATCCAGAATTGGACCCTTGGGGCCATTGGTGAGGCCCCAACTGATCCAGgtatccaaactcctgctccataccactcatggctcttatcctgcccagtt Alignment from Spaln_nt2Genome GGATTACGCAGC-CATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG ttcaagcataagagagataaagagcatagcctgctttttctctttggcagAGATTATGCAGCTCATTGTTTTCTTTGCCAATAATGACTTTGAAACTGGGAAAAAAAGGCTGCAGCACCTGAGCTTTGAGGCCTTTGCCTTCCGCGCAGAACTTATGATCCAGAATTGGACCCTTGGGGCCATTGGTGAGGCCCCAACTGATCCAGgtatccaaactcctgctccataccactcatggctcttatcctgcccagtt Alignment from Pairagon GGATTACGCAGC-CATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG ttcaagcataagagagataaagagcatagcctgctttttctctttggcagAGATTATGCAGCTCATTGTTTTCTTTGCCAATAATGACTTTGAAACTGGGAAAAAAAGGCTGCAGCACCTGAGCTTTGAGGCCTTTGCCTTCCGCGCAGAACTTATGATCCAGAATTGGACCCTTGGGGCCATTGGTGAGGCCCCAACTGATCCAGgtatccaaactcctgctccataccactcatggctcttatcctgcccagtt Alignment from Exonerate_protein2genome GGATTACGCAGCC-ATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG ttcaagcataagagagataaagagcatagcctgctttttctctttggcagAGATTATGCAGCTCATTGTTTTCTTTGCCAATAATGACTTTGAAACTGGGAAAAAAAGGCTGCAGCACCTGAGCTTTGAGGCCTTTGCCTTCCGCGCAGAACTTATGATCCAGAATTGGACCCTTGGGGCCATTGGTGAGGCCCCAACTGATCCAGgtatccaaactcctgctccataccactcatggctcttatcctgcccagtt Alignment from Exonerate_coding2genome GGATTACGCAGCC-ATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG ttcaagcataagagagataaagagcatagcctgctttttctctttggcagAGATTATGCAGCTCATTGTTTTCTTTGCCAATAATGACTTTGAAACTGGGAAAAAAAGGCTGCAGCACCTGAGCTTTGAGGCCTTTGCCTTCCGCGCAGAACTTATGATCCAGAATTGGACCCTTGGGGCCATTGGTGAGGCCCCAACTGATCCAGgtatccaaactcctgctccataccactcatggctcttatcctgcccagtt Alignment from GeneWise GGATTACGCA-GCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG ttcaagcataagagagataaagagcatagcctgctttttctctttggcagAGATTATGCAGCTCATTGTTTTCTTTGCCAATAATGACTTTGAAACTGGGAAAAAAAGGCTGCAGCACCTGAGCTTTGAGGCCTTTGCCTTCCGCGCAGAACTTATGATCCAGAATTGGACCCTTGGGGCCATTGGTGAGGCCCCAACTGATCCAGgtatccaaactcctgctccataccactcatggctcttatcctgcccagtt #### Fibp_ID1012_9 --> 0 - 2 Original Alignment TTTGTGGAACCCTGCCGC-TCTGACCACTGGCCACTGAGTGATGTGCGGCTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCcg gagtgtgttgtagtaactttttggtgaagactgtagcttttttctttcagTTCGTAGAACCATGCCGGCTCTGACCACTGGCCACTGAGTGATGTCCAGCTTTTTCTTAGCCAGTATTCAGTTTCAGTACATTCCTTGCATGGATTCcggtgagtagaaggggtagacatatttgctagcttgtttggtctagtttaat Alignment from CESAR TTTGTGGAACCCTGCCGC-TCTGACCACTGGCCACTGAGTGATGTGCGGCTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCcg gagtgtgttgtagtaactttttggtgaagactgtagcttttttctttcagTTCGTAGAACCATGCCGGCTCTGACCACTGGCCACTGAGTGATGTCCAGCTTTTTCTTAGCCAGTATTCAGTTTCAGTACATTCCTTGCATGGATTCcggtgagtagaaggggtagacatatttgctagcttgtttggtctagtttaat Alignment from Spaln_aa2Genome TTTGTGGAACCCTGCCGC-TCTGACCACTGGCCACTGAGTGATGTGCGGCTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCCG gagtgtgttgtagtaactttttggtgaagactgtagcttttttctttcagTTCGTAGAACCATGCCGGcTCTGACCACTGGCCACTGAGTGATGTCCAGCTTTTTCTTAGCCAGTATTCAGTTTCAGTACATTCCTTGCATGGATTCCGgtgagtagaaggggtagacatatttgctagcttgtttggtctagtttaat Alignment from Spaln_nt2Genome TTTGTGGAACCCTGCCG-CTCTGACCACTGGCCACTGAGTGATGTGCGGCTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCCG gagtgtgttgtagtaactttttggtgaagactgtagcttttttctttcagTTCGTAGAACCATGCCGGCTCTGACCACTGGCCACTGAGTGATGTCCAGCTTTTTCTTAGCCAGTATTCAGTTTCAGTACATTCCTTGCATGGATTCCGgtgagtagaaggggtagacatatttgctagcttgtttggtctagtttaat Alignment from Pairagon TTTGTGGAACCCTGCC-GCTCTGACCACTGGCCACTGAGTGATGTGCGGCTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCCG gagtgtgttgtagtaactttttggtgaagactgtagcttttttctttcagTTCGTAGAACCATGCCGGCTCTGACCACTGGCCACTGAGTGATGTCCAGCTTTTTCTTAGCCAGTATTCAGTTTCAGTACATTCCTTGCATGGATTCCGgtgagtagaaggggtagacatatttgctagcttgtttggtctagtttaat Alignment from Exonerate_protein2genome TTTGTGGAACCCTGCCGC-TCTGACCACTGGCCACTGAGTGATGTGCGGCTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCCG gagtgtgttgtagtaactttttggtgaagactgtagcttttttctttcagTTCGTAGAACCATGCCGGCTCTGACCACTGGCCACTGAGTGATGTCCAGCTTTTTCTTAGCCAGTATTCAGTTTCAGTACATTCCTTGCATGGATTCCGgtgagtagaaggggtagacatatttgctagcttgtttggtctagtttaat Alignment from Exonerate_coding2genome TTTGTGGAACCCTGCCGC-TCTGACCACTGGCCACTGAGTGATGTGCGGCTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCCG gagtgtgttgtagtaactttttggtgaagactgtagcttttttctttcagTTCGTAGAACCATGCCGGCTCTGACCACTGGCCACTGAGTGATGTCCAGCTTTTTCTTAGCCAGTATTCAGTTTCAGTACATTCCTTGCATGGATTCCGgtgagtagaaggggtagacatatttgctagcttgtttggtctagtttaat Alignment from GeneWise TTTGTGGAACCCTGCCGC-TCTGACCACTGGCCACTGAGTGATGTGCGGCTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCCG gagtgtgttgtagtaactttttggtgaagactgtagcttttttctttcagTTCGTAGAACCATGCCGGCTCTGACCACTGGCCACTGAGTGATGTCCAGCTTTTTCTTAGCCAGTATTCAGTTTCAGTACATTCCTTGCATGGATTCCGgtgagtagaaggggtagacatatttgctagcttgtttggtctagtttaat #### Fkbp2_ID1947_2 --> 0 - 2 Original Alignment GGAAAGCTAGAAGATGGGACGGAGTTTGACAGC-AGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGgg acaatctttcctcggcattgatggtctgatcaattgggattggtttgcagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAgggtgagtttggcatataatctaagttgcagttgaatgctatagtaaaggtg Alignment from CESAR GGAAAGCTAGAAGATGGGACGGAGTTTGACAGC-AGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGgg acaatctttcctcggcattgatggtctgatcaattgggattggtttgcagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAgggtgagtttggcatataatctaagttgcagttgaatgctatagtaaaggtg Alignment from Spaln_aa2Genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAGC-AGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG acaatctttcctcggcattgatggtctgatcaattgggattggtttgcagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCcAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAGGgtgagtttggcatataatctaagttgcagttgaatgctatagtaaaggtg Alignment from Spaln_nt2Genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAG-CAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG acaatctttcctcggcattgatggtctgatcaattgggattggtttgcagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAGGgtgagtttggcatataatctaagttgcagttgaatgctatagtaaaggtg Alignment from Pairagon GGAAAGCTAGAAGATGGGACGGAGTTTGACAG-CAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG acaatctttcctcggcattgatggtctgatcaattgggattggtttgcagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAGGgtgagtttggcatataatctaagttgcagttgaatgctatagtaaaggtg Alignment from Exonerate_protein2genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAGC-AGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG acaatctttcctcggcattgatggtctgatcaattgggattggtttgcagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAGGgtgagtttggcatataatctaagttgcagttgaatgctatagtaaaggtg Alignment from Exonerate_coding2genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAGC-AGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG acaatctttcctcggcattgatggtctgatcaattgggattggtttgcagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAGGgtgagtttggcatataatctaagttgcagttgaatgctatagtaaaggtg Alignment from GeneWise ------------AGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG acaatctttcctcggcattgatggtctgatcaattgggattggtttgcagggaaagctgggagatgggacagAGTTTGACAGCCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAGGgtgagtttggcatataatctaagttgcagttgaatgctatagtaaaggtg #### Frmd8_ID1284_4 --> 2 - 0 Original Alignment atGAGCCTTCCCTTCAGTTCCGAAGGAAT-GTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tatctttgaaggcttaggaaactatgaaatgatggccattctatcttcagatGAACCTTCCCTTCACTTCCGAAGGAACCGTCTTTTTCCCCAGACAGCGTGAGCTCCAGgtgagtcaggacttatccaaggtcacactatttaagtatgtccatatttg Alignment from CESAR atGAGCCTTCCCTTCAGTTCCGAAGGAAT-GTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tatctttgaaggcttaggaaactatgaaatgatggccattctatcttcagatGAACCTTCCCTTCACTTCCGAAGGAACCGTCTTTTTCCCCAGACAGCGTGAGCTCCAGgtgagtcaggacttatccaaggtcacactatttaagtatgtccatatttg Alignment from Spaln_aa2Genome ATGAGCCTTCCCTTCAGTTCCGAAGGAAT-GTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tatctttgaaggcttaggaaactatgaaatgatggccattctatcttcagATGAACCTTCCCTTCACTTCCGAAGGAACcGTCTTTTTCCCCAGACAGCGTGAGCTCCAGgtgagtcaggacttatccaaggtcacactatttaagtatgtccatatttg Alignment from Spaln_nt2Genome ATGAGCCTTCCCTTCAGTTCCGAAGGAAT-GTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tatctttgaaggcttaggaaactatgaaatgatggccattctatcttcagATGAACCTTCCCTTCACTTCCGAAGGAACCGTCTTTTTCCCCAGACAGCGTGAGCTCCAGgtgagtcaggacttatccaaggtcacactatttaagtatgtccatatttg Alignment from Pairagon ATGAGCCTTCCCTTCAGTTCCGAAGGAA-TGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tatctttgaaggcttaggaaactatgaaatgatggccattctatcttcagATGAACCTTCCCTTCACTTCCGAAGGAACCGTCTTTTTCCCCAGACAGCGTGAGCTCCAGgtgagtcaggacttatccaaggtcacactatttaagtatgtccatatttg Alignment from Exonerate_protein2genome ATGAGCCTTCCCTTCAGTTCCGAAGGAAT-GTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tatctttgaaggcttaggaaactatgaaatgatggccattctatcttcagATGAACCTTCCCTTCACTTCCGAAGGAACCGTCTTTTTCCCCAGACAGCGTGAGCTCCAGgtgagtcaggacttatccaaggtcacactatttaagtatgtccatatttg Alignment from Exonerate_coding2genome AGGTGCAATTGAAACCCAAGCACCAGCCCTATAAACTGGGCCGCCAGTGGCCGGAGCTGCTGCTGCGCTTCACCAACGCCTCCGA tatctttgaaggcttaggaaactatgaaatgatggccattctatcttcagatgaaccttcccttcacttccgaagGAACCGTCTTTTTCCCCAGACAGCGTGAGCTCCAGGTGAGTCAGGACTTATCCAAGGTCACACTATTTAAGTATGTCCATATTTG Alignment from GeneWise ATGAGCCTTCCCTTCAGTTCCGAAGGAAT-GTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tatctttgaaggcttaggaaactatgaaatgatggccattctatcttcagATGAACCTTCCCTTCACTTCCGAAGGAACCGTCTTTTTCCCCAGACAGCGTGAGCTCCAGgtgagtcaggacttatccaaggtcacactatttaagtatgtccatatttg #### Ganab_ID2468_7 --> 1 - 0 Original Alignment gCAAGAATCAAAAGACCCAGCTGAA-GGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtggacatcctaacttcactttaggtcggagcttcttggctctcttaggCAAGAATCAAAAGACCCTGCGGAGCGGCAATGGGGCCCAGCCCGAGGCGACACCTGGGGATGGCGACAAGgtaagttgattgagagatgattaggtctgcttaagaggattgggatttca Alignment from CESAR gCAAGAATCAAAAGACCCAGCTGAA-GGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtggacatcctaacttcactttaggtcggagcttcttggctctcttaggCAAGAATCAAAAGACCCTGCGGAGCGGCAATGGGGCCCAGCCCGAGGCGACACCTGGGGATGGCGACAAGgtaagttgattgagagatgattaggtctgcttaagaggattgggatttca Alignment from Spaln_aa2Genome GCAAGAATCAAAAGACCCAGCTGAA-GGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtggacatcctaacttcactttaggtcggagcttcttggctctcttagGCAAGAATCAAAAGACCCTGCGGAGcGGCAATGGGGCCCAGCCCGAGGCGACACCTGGGGATGGCGACAAGgtaagttgattgagagatgattaggtctgcttaagaggattgggatttca Alignment from Spaln_nt2Genome GCAAGAATCAAAAGACCCAGCTGAA-GGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtggacatcctaacttcactttaggtcggagcttcttggctctcttagGCAAGAATCAAAAGACCCTGCGGAGCGGCAATGGGGCCCAGCCCGAGGCGACACCTGGGGATGGCGACAAGgtaagttgattgagagatgattaggtctgcttaagaggattgggatttca Alignment from Pairagon GCAAGAATCAAAAGACCCAGCTGAA-GGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtggacatcctaacttcactttaggtcggagcttcttggctctcttagGCAAGAATCAAAAGACCCTGCGGAGCGGCAATGGGGCCCAGCCCGAGGCGACACCTGGGGATGGCGACAAGgtaagttgattgagagatgattaggtctgcttaagaggattgggatttca Alignment from Exonerate_protein2genome GCAAGAATCAAAAGACCCAGCTGAA-GGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtggacatcctaacttcactttaggtcggagcttcttggctctcttagGCAAGAATCAAAAGACCCTGCGGAGCGGCAATGGGGCCCAGCCCGAGGCGACACCTGGGGATGGCGACAAGgtaagttgattgagagatgattaggtctgcttaagaggattgggatttca Alignment from Exonerate_coding2genome GCAAGAATCAAAAGACCCAGCTGAA-GGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtggacatcctaacttcactttaggtcggagcttcttggctctcttagGCAAGAATCAAAAGACCCTGCGGAGCGGCAATGGGGCCCAGCCCGAGGCGACACCTGGGGATGGCGACAAGgtaagttgattgagagatgattaggtctgcttaagaggattgggatttca Alignment from GeneWise GCAAGAATCAAAAGACCCAGCT-GAAGGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtggacatcctaacttcactttaggtcggagcttcttggctctcttagGCAAGAATCAAAAGACCCTGCGGAGCGGCAATGGGGCCCAGCCCGAGGCGACACCTGGGGATGGCGACAAGgtaagttgattgagagatgattaggtctgcttaagaggattgggatttca #### Ganab_ID2470_9 --> 2 - 2 Original Alignment gcCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGA-CTGAAGGTCACTga tggaacatgcatacggccttaatactaattttccttttttctcttttcaggtCCCATGTCTGTTGGTTTAGACTTTTCTCTGCCATGGATGGAACATGCATACGGGATCCCTGAACATGCTGACAGCTTAAGACCTGAAGGTTACTgagtaagcccttgtgataacagtaacaacgaaagacctaattttcatgataa Alignment from CESAR gcCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGA-CTGAAGGTCACTga tggaacatgcatacggccttaatactaattttccttttttctcttttcaggtCCCATGTCTGTTGGTTTAGACTTTTCTCTGCCATGGATGGAACATGCATACGGGATCCCTGAACATGCTGACAGCTTAAGACCTGAAGGTTACTgagtaagcccttgtgataacagtaacaacgaaagacctaattttcatgataa Alignment from Spaln_aa2Genome GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGA-CTGAAGGTCACTGA tggaacatgcatacggccttaatactaattttccttttttctcttttcagGTCCCATGTCTGTTGGTTTAGACTTTTCTCTGCCATGGATGGAACATGCATACGGGATCCCTGAACATGCTGACAGCTTAAGAcCTGAAGGTTACTGAgtaagcccttgtgataacagtaacaacgaaagacctaattttcatgataa Alignment from Spaln_nt2Genome GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGAC-TGAAGGTCACTGA tggaacatgcatacggccttaatactaattttccttttttctcttttcagGTCCCATGTCTGTTGGTTTAGACTTTTCTCTGCCATGGATGGAACATGCATACGGGATCCCTGAACATGCTGACAGCTTAAGACCTGAAGGTTACTGAgtaagcccttgtgataacagtaacaacgaaagacctaattttcatgataa Alignment from Pairagon GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGA-CTGAAGGTCACTGA tggaacatgcatacggccttaatactaattttccttttttctcttttcagGTCCCATGTCTGTTGGTTTAGACTTTTCTCTGCCATGGATGGAACATGCATACGGGATCCCTGAACATGCTGACAGCTTAAGACCTGAAGGTTACTGAgtaagcccttgtgataacagtaacaacgaaagacctaattttcatgataa Alignment from Exonerate_protein2genome GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGA-CTGAAGGTCACTGA tggaacatgcatacggccttaatactaattttccttttttctcttttcagGTCCCATGTCTGTTGGTTTAGACTTTTCTCTGCCATGGATGGAACATGCATACGGGATCCCTGAACATGCTGACAGCTTAAGACCTGAAGGTTACTGAgtaagcccttgtgataacagtaacaacgaaagacctaattttcatgataa Alignment from Exonerate_coding2genome GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGA-CTGAAGGTCACTGA tggaacatgcatacggccttaatactaattttccttttttctcttttcagGTCCCATGTCTGTTGGTTTAGACTTTTCTCTGCCATGGATGGAACATGCATACGGGATCCCTGAACATGCTGACAGCTTAAGACCTGAAGGTTACTGAgtaagcccttgtgataacagtaacaacgaaagacctaattttcatgataa Alignment from GeneWise GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGAGG tggaacatgcatacggccttaatactaattttccttttttctcttttcagGTCCCATGTCTGTTGGTTTAGACTTTTCTCTGCCATGGATGGAACATGCATACGGGATCCCTGAACATGCTGACAGCTTAAGA---------CCTGAAGgttactgagtaagcccttgtgataacagtaacaacgaaagacctaattttcatgataa #### Ganab_ID2472_11 --> 0 - 1 Original Alignment ACCCTGTTTGGGAAGATGCTTGATTACCTGCAGGGCTCTGGGGAGACTCCACAGACAGACATTCGTTGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTT-GGCCCTTCGGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAg ttggggtctgtcttagacatcccatcataagttgcttttcttatgctcagACACTATTTGGTAAGATGCTTGATTACTTGCAAGGTTCTGGGGAGACTCCCCAGACAGATATTCGATGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTCGGTCCTCCAGTTTTTGATGTCTTTAGACAGTATGCTAGTCTCACAggttcgtatgtttttcttccttacaaattaagtaataaagtatttatactt Alignment from CESAR ACCCTGTTTGGGAAGATGCTTGATTACCTGCAGGGCTCTGGGGAGACTCCACAGACAGACATTCGTTGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTT-GGCCCTTCGGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAg ttggggtctgtcttagacatcccatcataagttgcttttcttatgctcagACACTATTTGGTAAGATGCTTGATTACTTGCAAGGTTCTGGGGAGACTCCCCAGACAGATATTCGATGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTCGGTCCTCCAGTTTTTGATGTCTTTAGACAGTATGCTAGTCTCACAggttcgtatgtttttcttccttacaaattaagtaataaagtatttatactt Alignment from Spaln_aa2Genome ACCCTGTTTGGGAAGATGCTTGATTACCTGCAGGGCTCTGGGGAGACTCCACAGACAGACATTCGTTGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTT-GGCCCTTCGGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAG ttggggtctgtcttagacatcccatcataagttgcttttcttatgctcagACACTATTTGGTAAGATGCTTGATTACTTGCAAGGTTCTGGGGAGACTCCCCAGACAGATATTCGATGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTcGGTCCTCCAGTTTTTGATGTCTTTAGACAGTATGCTAGTCTCACAGgttcgtatgtttttcttccttacaaattaagtaataaagtatttatactt Alignment from Spaln_nt2Genome ACCCTGTTTGGGAAGATGCTTGATTACCTGCAGGGCTCTGGGGAGACTCCACAGACAGACATTCGTTGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTT-GGCCCTTCGGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAG ttggggtctgtcttagacatcccatcataagttgcttttcttatgctcagACACTATTTGGTAAGATGCTTGATTACTTGCAAGGTTCTGGGGAGACTCCCCAGACAGATATTCGATGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTCGGTCCTCCAGTTTTTGATGTCTTTAGACAGTATGCTAGTCTCACAGgttcgtatgtttttcttccttacaaattaagtaataaagtatttatactt Alignment from Pairagon ACCCTGTTTGGGAAGATGCTTGATTACCTGCAGGGCTCTGGGGAGACTCCACAGACAGACATTCGTTGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTT-GGCCCTTCGGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAG ttggggtctgtcttagacatcccatcataagttgcttttcttatgctcagACACTATTTGGTAAGATGCTTGATTACTTGCAAGGTTCTGGGGAGACTCCCCAGACAGATATTCGATGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTCGGTCCTCCAGTTTTTGATGTCTTTAGACAGTATGCTAGTCTCACAGgttcgtatgtttttcttccttacaaattaagtaataaagtatttatactt Alignment from Exonerate_protein2genome GGGAAGACCCTGTTTGGGAAGATGCTTGATTACCTGCAGGGCTCTGGGGAGACTCCACAGACAGACATTCGTTGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTT-GGCCCTTCGGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAG ttggggtctgtcttagacatcccatcataagttgcttttcttatGCTCAGACACTATTTGGTAAGATGCTTGATTACTTGCAAGGTTCTGGGGAGACTCCCCAGACAGATATTCGATGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTCGGTCCTCCAGTTTTTGATGTCTTTAGACAGTATGCTAGTCTCACAGgttcgtatgtttttcttccttacaaattaagtaataaagtatttatactt Alignment from Exonerate_coding2genome GGGAAGACCCTGTTTGGGAAGATGCTTGATTACCTGCAGGGCTCTGGGGAGACTCCACAGACAGACATTCGTTGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTT-GGCCCTTCGGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAG ttggggtctgtcttagacatcccatcataagttgcttttcttatGCTCAGACACTATTTGGTAAGATGCTTGATTACTTGCAAGGTTCTGGGGAGACTCCCCAGACAGATATTCGATGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTCGGTCCTCCAGTTTTTGATGTCTTTAGACAGTATGCTAGTCTCACAGgttcgtatgtttttcttccttacaaattaagtaataaagtatttatactt Alignment from GeneWise --------------------------------------------GGGAAGACCCTGTTTGGGAAGATGCTTGATTACCTGCAGGGCTCTGGGGAGACTCCACAGACAGACATTCGTTGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATG-CTTGGCCCTTCGGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAG TTGGGGTCTGTCTTAGACATCCCATCATAAGTTGCTTTTCTTATGCTCAGACACTATTTGGTAAGATGCTTGATTACTTGCAAGGTTCTGGGGAGACTCCCCAGACAGATATTCGATGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTCGGTCCTCCAGTTTTTGATGTCTTTAGACAGTATGCTAGTCTCACAGgttcgtatgtttttcttccttacaaattaagtaataaagtatttatactt #### Ganab_ID2473_12 --> 2 - 0 Original Alignment ggACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTC-ATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG ataaagtatttatacttttaccagaccattgtttgctggcctttttcaaggcTCCCAGACATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTAGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTCATATGGCTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGACCCCACCCAATTCCCCCAGCCACTTAATATGCTTGATCACTTGACTTCAAAACGACGGAAGgtaccaggtattacagctatccatgtcttttgtccagggttggggaaggg Alignment from CESAR ggACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTC-ATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG ataaagtatttatacttttaccagaccattgtttgctggcctttttcaaggcTCCCAGACATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTAGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTCATATGGCTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGACCCCACCCAATTCCCCCAGCCACTTAATATGCTTGATCACTTGACTTCAAAACGACGGAAGgtaccaggtattacagctatccatgtcttttgtccagggttggggaaggg Alignment from Spaln_aa2Genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTC-ATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG ataaagtatttatacttttaccagaccattgtttgctggcctttttcaagGCTCCCAGACATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTAGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTcATATGGCTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGACCCCACCCAATTCCCCCAGCCACTTAATATGCTTGATCACTTGACTTCAAAACGACGGAAGgtaccaggtattacagctatccatgtcttttgtccagggttggggaaggg Alignment from Spaln_nt2Genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGT-CATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG ataaagtatttatacttttaccagaccattgtttgctggcctttttcaagGCTCCCAGACATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTAGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTCATATGGCTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGACCCCACCCAATTCCCCCAGCCACTTAATATGCTTGATCACTTGACTTCAAAACGACGGAAGgtaccaggtattacagctatccatgtcttttgtccagggttggggaaggg Alignment from Pairagon GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATG-TCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG ataaagtatttatacttttaccagaccattgtttgctggcctttttcaagGCTCCCAGACATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTAGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTCATATGGCTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGACCCCACCCAATTCCCCCAGCCACTTAATATGCTTGATCACTTGACTTCAAAACGACGGAAGgtaccaggtattacagctatccatgtcttttgtccagggttggggaaggg Alignment from Exonerate_protein2genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTC-ATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG ataaagtatttatacttttaccagaccattgtttgctggcctttttcaagGCTCCCAGACATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTAGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTCATATGGCTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGACCCCACCCAATTCCCCCAGCCACTTAATATGCTTGATCACTTGACTTCAAAACGACGGAAGgtaccaggtattacagctatccatgtcttttgtccagggttggggaaggg Alignment from Exonerate_coding2genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTC-ATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG ataaagtatttatacttttaccagaccattgtttgctggcctttttcaagGCTCCCAGACATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTAGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTCATATGGCTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGACCCCACCCAATTCCCCCAGCCACTTAATATGCTTGATCACTTGACTTCAAAACGACGGAAGgtaccaggtattacagctatccatgtcttttgtccagggttggggaaggg Alignment from GeneWise GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGAT-GTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG ataaagtatttatacttttaccagaccattgtttgctggcctttttcaagGCTCCCAGACATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTAGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTCATATGGCTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGACCCCACCCAATTCCCCCAGCCACTTAATATGCTTGATCACTTGACTTCAAAACGACGGAAGgtaccaggtattacagctatccatgtcttttgtccagggttggggaaggg #### Ganab_ID2475_14 --> 2 - 0 Original Alignment Ag gcTCAGCTAGTTACCCTGACTTCACTAATCCAAGG-ATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG AggtgagttctgtgatcaatgaagttttatatttattgctttttttctaggcTCAGCTAGTTACCCTGACTACACCAATCCAAGGCATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAGgtaggtaattggtagctagttggtagtggtaatccacataattttgctga Alignment from CESAR Ag gcTCAGCTAGTTACCCTGACTTCACTAATCCAAGG-ATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG AggtaagttctgtgatcaatgaagttttatatttattgctttttttctaggcTCAGCTAGTTACCCTGACTACACCAATCCAAGGCATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAGgtaggtaattggtagctagttggtagtggtaatccacataattttgctga Alignment from Spaln_aa2Genome AG GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGG-ATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG AGgtgagttctgtgatcaatgaagttttatatttattgctttttttctagGCTCAGCTAGTTACCCTGACTACACCAATCCAAGGcATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAGgtaggtaattggtagctagttggtagtggtaatccacataattttgctga Alignment from Spaln_nt2Genome AG GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGG-ATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG AGgtgagttctgtgatcaatgaagttttatatttattgctttttttctagGCTCAGCTAGTTACCCTGACTACACCAATCCAAGGCATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAGgtaggtaattggtagctagttggtagtggtaatccacataattttgctga Alignment from Pairagon AG GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGG-ATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG AGgtgagttctgtgatcaatgaagttttatatttattgctttttttctagGCTCAGCTAGTTACCCTGACTACACCAATCCAAGGCATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAGgtaggtaattggtagctagttggtagtggtaatccacataattttgctga Alignment from Exonerate_protein2genome AG GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGG-ATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG AGgtgagttctgtgatcaatgaagttttatatttattgctttttttctagGCTCAGCTAGTTACCCTGACTACACCAATCCAAGGCATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAGgtaggtaattggtagctagttggtagtggtaatccacataattttgctga Alignment from Exonerate_coding2genome AG GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGG-ATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG AGgtgagttctgtgatcaatgaagttttatatttattgctttttttctagGCTCAGCTAGTTACCCTGACTACACCAATCCAAGGCATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAGgtaggtaattggtagctagttggtagtggtaatccacataattttgctga Alignment from GeneWise AG GCTCAGCTAGTTACCCTGACTTCACTAATCCA-AGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG AGgtgagttctgtgatcaatgaagttttatatttattgctttttttctagGCTCAGCTAGTTACCCTGACTACACCAATCCAAGGCATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAGgtaggtaattggtagctagttggtagtggtaatccacataattttgctga #### Ganab_ID2476_15 --> 0 - 0 Original Alignment GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGAC-ATCCATAACATCTATGGCTTATATGTG tgtaatcttctttttttccccttttccatgtcttccgttcttttttaaagGGTTCAGCCCCCAATCTGTATGTATGGATAGAAATGAATGAACCTTCTGTCTTCAATGGTCCTGAGGTCACCATGTTAAAGGATGCAGTGCACTATGGAGGCTGGGAGCACCGGGATCATCCACAATTTTTATGGATTATATGTGgtaatttgggtaaatcataaggcagtcaagcaaagaggacaaaacagttg Alignment from CESAR GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGAC-ATCCATAACATCTATGGCTTATATGTG tgtaatcttctttttttccccttttccatgtcttccgttcttttttaaagGGTTCAGCCCCCAATCTGTATGTATGGATAGAAATGAATGAACCTTCTGTCTTCAATGGTCCTGAGGTCACCATGTTAAAGGATGCAGTGCACTATGGAGGCTGGGAGCACCGGGATCATCCACAATTTTTATGGATTATATGTGgtaatttgggtaaatcataaggcagtcaagcaaagaggacaaaacagttg Alignment from Spaln_aa2Genome GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGAC-ATCCATAACATCTATGGCTTATATGTG tgtaatcttctttttttccccttttccatgtcttccgttcttttttaaagGGTTCAGCCCCCAATCTGTATGTATGGATAGAAATGAATGAACCTTCTGTCTTCAATGGTCCTGAGGTCACCATGTTAAAGGATGCAGTGCACTATGGAGGCTGGGAGCACCGGGATcATCCACAATTTTTATGGATTATATGTGgtaatttgggtaaatcataaggcagtcaagcaaagaggacaaaacagttg Alignment from Spaln_nt2Genome GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGA-CATCCATAACATCTATGGCTTATATGTG tgtaatcttctttttttccccttttccatgtcttccgttcttttttaaagGGTTCAGCCCCCAATCTGTATGTATGGATAGAAATGAATGAACCTTCTGTCTTCAATGGTCCTGAGGTCACCATGTTAAAGGATGCAGTGCACTATGGAGGCTGGGAGCACCGGGATCATCCACAATTTTTATGGATTATATGTGgtaatttgggtaaatcataaggcagtcaagcaaagaggacaaaacagttg Alignment from Pairagon GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGA-CATCCATAACATCTATGGCTTATATGTG tgtaatcttctttttttccccttttccatgtcttccgttcttttttaaagGGTTCAGCCCCCAATCTGTATGTATGGATAGAAATGAATGAACCTTCTGTCTTCAATGGTCCTGAGGTCACCATGTTAAAGGATGCAGTGCACTATGGAGGCTGGGAGCACCGGGATCATCCACAATTTTTATGGATTATATGTGgtaatttgggtaaatcataaggcagtcaagcaaagaggacaaaacagttg Alignment from Exonerate_protein2genome GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGAC-ATCCATAACATCTATGGCTTATATGTG tgtaatcttctttttttccccttttccatgtcttccgttcttttttaaagGGTTCAGCCCCCAATCTGTATGTATGGATAGAAATGAATGAACCTTCTGTCTTCAATGGTCCTGAGGTCACCATGTTAAAGGATGCAGTGCACTATGGAGGCTGGGAGCACCGGGATCATCCACAATTTTTATGGATTATATGTGgtaatttgggtaaatcataaggcagtcaagcaaagaggacaaaacagttg Alignment from Exonerate_coding2genome GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGAC-ATCCATAACATCTATGGCTTATATGTG tgtaatcttctttttttccccttttccatgtcttccgttcttttttaaagGGTTCAGCCCCCAATCTGTATGTATGGATAGAAATGAATGAACCTTCTGTCTTCAATGGTCCTGAGGTCACCATGTTAAAGGATGCAGTGCACTATGGAGGCTGGGAGCACCGGGATCATCCACAATTTTTATGGATTATATGTGgtaatttgggtaaatcataaggcagtcaagcaaagaggacaaaacagttg Alignment from GeneWise GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGAC-ATCCATAACATCTATGGCTTATATGTG tgtaatcttctttttttccccttttccatgtcttccgttcttttttaaagGGTTCAGCCCCCAATCTGTATGTATGGATAGAAATGAATGAACCTTCTGTCTTCAATGGTCCTGAGGTCACCATGTTAAAGGATGCAGTGCACTATGGAGGCTGGGAGCACCGGGATCATCCACAATTTTTATGGATTATATGTGgtaatttgggtaaatcataaggcagtcaagcaaagaggacaaaacagttg #### Ganab_ID2481_20 --> 2 - 0 Original Alignment gtGATGCACTCCTTATTCACCCTGTA-TCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggatcaggctgctcagatgcgtgcaaaaactgttgccttttttttaaaaggtGACACACTCCTTATTCACCCTGTACTCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAAgtgagctgccaaatagcaaagcccaaatggcaaatacataggtgccttag Alignment from CESAR gtGATGCACTCCTTATTCACCCTGTA-TCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggatcaggctgctcagatgcgtgcaaaaactgttgccttttttttaaaaggtGACACACTCCTTATTCACCCTGTACTCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAAgtgagctgccaaatagcaaagcccaaatggcaaatacataggtgccttag Alignment from Spaln_aa2Genome GTGATGCACTCCTTATTCACCCTGTA-TCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggatcaggctgctcagatgcgtgcaaaaactgttgccttttttttaaaagGTGACACACTCCTTATTCACCCTGTAcTCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAAgtgagctgccaaatagcaaagcccaaatggcaaatacataggtgccttag Alignment from Spaln_nt2Genome GTGATGCACTCCTTATTCACCCTGTA-TCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggatcaggctgctcagatgcgtgcaaaaactgttgccttttttttaaaagGTGACACACTCCTTATTCACCCTGTACTCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAAgtgagctgccaaatagcaaagcccaaatggcaaatacataggtgccttag Alignment from Pairagon GTGATGCACTCCTTATTCACCCTGTA-TCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggatcaggctgctcagatgcgtgcaaaaactgttgccttttttttaaaagGTGACACACTCCTTATTCACCCTGTACTCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAAgtgagctgccaaatagcaaagcccaaatggcaaatacataggtgccttag Alignment from Exonerate_protein2genome GTGATGCACTCCTTATTCACCCTGTA-TCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggatcaggctgctcagatgcgtgcaaaaactgttgccttttttttaaaagGTGACACACTCCTTATTCACCCTGTACTCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAAgtgagctgccaaatagcaaagcccaaatggcaaatacataggtgccttag Alignment from Exonerate_coding2genome GTGATGCACTCCTTATTCACCCTGTA-TCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggatcaggctgctcagatgcgtgcaaaaactgttgccttttttttaaaagGTGACACACTCCTTATTCACCCTGTACTCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAAgtgagctgccaaatagcaaagcccaaatggcaaatacataggtgccttag Alignment from GeneWise GTGATGCACTCCTTATTCACCCTGTA-TCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggatcaggctgctcagatgcgtgcaaaaactgttgccttttttttaaaagGTGACACACTCCTTATTCACCCTGTACTCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAAgtgagctgccaaatagcaaagcccaaatggcaaatacataggtgccttag #### Ganab_ID2482_21 --> 0 - 0 Original Alignment GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGG-CCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT ggcaaatacataggtgccttaggagtgactctgggctttctttttcccagGTGTGGTATGATATTCAGAGCTATCAGAAACATCATGGGCCCCCAAACCTTGTATCTACCAGTAACCTTGAGCAGCgtgagaatgagatttgtcagggtatccatgttcatttgtcaggattgaaa Alignment from CESAR GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGGCCC-CAGACCTTGTATCTGCCAGTAACTTTGAGCAGT ggcaaatacataggtgccttaggagtgactctgggctttctttttcccagGTGTGGTATGATATTCAGAGCTATCAGAAACATCATGGGCCCCCAAACCTTGTATCTACCAGTAACCTTGAGCAGCgtgagaatgagatttgtcagggtatccatgttcatttgtcaggattgaaa Alignment from Spaln_aa2Genome GTGTGGTATGACATTCAGAGCTATCAGAAGCATCAT-GGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT ggcaaatacataggtgccttaggagtgactctgggctttctttttcccagGTGTGGTATGATATTCAGAGCTATCAGAAACATCATgGGCCCCCAAACCTTGTATCTACCAGTAACCTTGAGCAGCgtgagaatgagatttgtcagggtatccatgttcatttgtcaggattgaaa Alignment from Spaln_nt2Genome GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGG-CCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT ggcaaatacataggtgccttaggagtgactctgggctttctttttcccagGTGTGGTATGATATTCAGAGCTATCAGAAACATCATGGGCCCCCAAACCTTGTATCTACCAGTAACCTTGAGCAGCgtgagaatgagatttgtcagggtatccatgttcatttgtcaggattgaaa Alignment from Pairagon GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGG-CCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT ggcaaatacataggtgccttaggagtgactctgggctttctttttcccagGTGTGGTATGATATTCAGAGCTATCAGAAACATCATGGGCCCCCAAACCTTGTATCTACCAGTAACCTTGAGCAGCgtgagaatgagatttgtcagggtatccatgttcatttgtcaggattgaaa Alignment from Exonerate_protein2genome GTGTGGTATGACATTCAGAGCTATCAGAAGCATCAT-GGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT ggcaaatacataggtgccttaggagtgactctgggctttctttttcccagGTGTGGTATGATATTCAGAGCTATCAGAAACATCATGGGCCCCCAAACCTTGTATCTACCAGTAACCTTGAGCAGCgtgagaatgagatttgtcagggtatccatgttcatttgtcaggattgaaa Alignment from Exonerate_coding2genome GTGTGGTATGACATTCAGAGCTATCAGAAGCATCAT-GGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT ggcaaatacataggtgccttaggagtgactctgggctttctttttcccagGTGTGGTATGATATTCAGAGCTATCAGAAACATCATGGGCCCCCAAACCTTGTATCTACCAGTAACCTTGAGCAGCgtgagaatgagatttgtcagggtatccatgttcatttgtcaggattgaaa Alignment from GeneWise --------------------------------------------------GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGGCCC-CAGACCTTGTATCTGCCAGTAACTTTGAGCAGT GGCAAATACATAGGTGCCTTAGGAGTGACTCTGGGCTTTCTTTTTCCCAGGTGTGGTATGATATTCAGAGCTATCAGAAACATCATGGGCCCCCAAACCTTGTATCTACCAGTAACCTTGAGCAGCgtgagaatgagatttgtcagggtatccatgttcatttgtcaggattgaaa #### Gbf1_ID9795_14 --> 0 - 1 Original Alignment AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTT-GAGGCAGTGGATGGCAACCCAGAAACTAACAAGt cccacttgacagtatacaggtcacatagcagcctgttgtttattctgtagAATGCATTTCCTGTATCTGGTCAACTTGATACTACACATCTTCTGTCCCTTGATGCCCTTTTAACTTCTATTGACAGTACTGAGTTTCATTCTCAAGCCAAAGTTCTCAATGCCCTCAACCAGCAAGAGAAAAAGGAAACATCAAGGCCTGGTTTTCGAAGCAGTTGAT---AACCCAGATGCTAACAAGtgtgagtaacttaattattttattattactactctttaagtccatgctctg Alignment from CESAR AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTT-GAGGCAGTGGATGGCAACCCAGAAACTAACAAGt cccacttgacagtatacaggtcacatagcagcctgttgtttattctgtagAATGCATTTCCTGTATCTGGTCAACTTGATACTACACATCTTCTGTCCCTTGATGCCCTTTTAACTTCTATTGACAGTACTGAGTTTCATTCTCAAGCCAAAGTTCTCAATGCCCTCAACCAGCAAGAGAAAAAGGAAACATCAAGGCCTGGTTTTCGAAGCAGTTGAT---AACCCAGATGCTAACAAGtgtgagtaacttaattattttattattactactctttaagtccatgctctg Alignment from Spaln_aa2Genome AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTT-GAGGCAGTGGATGGCAACCCAGAAACTAACAAGT cccacttgacagtatacaggtcacatagcagcctgttgtttattctgtagAATGCATTTCCTGTATCTGGTCAACTTGATACTACACATCTTCTGTCCCTTGATGCCCTTTTAACTTCTATTGACAGTACTGAGTTTCATTCTCAAGCCAAAGTTCTCAATGCCCTCAACCAGCAAGAGAAAAAGGAAACATCAAGGCCTGGTTTTcGAAGCAGTTGAT---AACCCAGATGCTAACAAGTgtgagtaacttaattattttattattactactctttaagtccatgctctg Alignment from Spaln_nt2Genome AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTT-GAGGCAGTGGATGGCAACCCAGAAACTAACAAGT cccacttgacagtatacaggtcacatagcagcctgttgtttattctgtagAATGCATTTCCTGTATCTGGTCAACTTGATACTACACATCTTCTGTCCCTTGATGCCCTTTTAACTTCTATTGACAGTACTGAGTTTCATTCTCAAGCCAAAGTTCTCAATGCCCTCAACCAGCAAGAGAAAAAGGAAACATCAAGGCCTGGTTTTCGAAGCAGTTGAT---AACCCAGATGCTAACAAGTgtgagtaacttaattattttattattactactctttaagtccatgctctg Alignment from Pairagon AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTT-GAGGCAGTGGATGGCAACCCAGAAACTAACAAGT cccacttgacagtatacaggtcacatagcagcctgttgtttattctgtagAATGCATTTCCTGTATCTGGTCAACTTGATACTACACATCTTCTGTCCCTTGATGCCCTTTTAACTTCTATTGACAGTACTGAGTTTCATTCTCAAGCCAAAGTTCTCAATGCCCTCAACCAGCAAGAGAAAAAGGAAACATCAAGGCCTGGTTTTCGAAGCAGTTGAT---AACCCAGATGCTAACAAGTgtgagtaacttaattattttattattactactctttaagtccatgctctg Alignment from Exonerate_protein2genome AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGC-TTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT cccacttgacagtatacaggtcacatagcagcctgttgtttattctgtagAATGCATTTCCTGTATCTGGTCAACTTGATACTACACATCTTCTGTCCCTTGATGCCCTTTTAACTTCTATTGACAGTACTGAGTTTCATTCTCAAGCCAAAGTTCTCAATGCCCTCAACCAGCAAGAGAAAAAGGAAACATCAAGGCCTGGTTTTCGAAGCAGTTGAT---AACCCAGATGCTAACAAGTgtgagtaacttaattattttattattactactctttaagtccatgctctg Alignment from Exonerate_coding2genome AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGC-TTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT cccacttgacagtatacaggtcacatagcagcctgttgtttattctgtagAATGCATTTCCTGTATCTGGTCAACTTGATACTACACATCTTCTGTCCCTTGATGCCCTTTTAACTTCTATTGACAGTACTGAGTTTCATTCTCAAGCCAAAGTTCTCAATGCCCTCAACCAGCAAGAGAAAAAGGAAACATCAAGGCCTGGTTTTCGAAGCAGTTGAT---AACCCAGATGCTAACAAGTgtgagtaacttaattattttattattactactctttaagtccatgctctg Alignment from GeneWise AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTT-GAGGCAGTGGATGGCAACCCAGAAACTAACAAGT cccacttgacagtatacaggtcacatagcagcctgttgtttattctgtagAATGCATTTCCTGTATCTGGTCAACTTGATACTACACATCTTCTGTCCCTTGATGCCCTTTTAACTTCTATTGACAGTACTGAGTTTCATTCTCAAGCCAAAGTTCTCAATGCCCTCAACCAGCAAGAGAAAAAGGAAACATCAAGGCCTGGTTTTCGAAGCAGTTGAT---AACCCAGATGCTAACAAGTgtgagtaacttaattattttattattactactctttaagtccatgctctg #### Gbf1_ID9800_19 --> 0 - 0 Original Alignment AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAAC-ACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcatcatgaggtgttacatatgacttgtaatttctttaagAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTCTGCCCTAGCCTATGGTGCCATCATGCTGAACCACTGACCAGCATAACCACAATGTTCAAAAGCAGAATACAACCATGACTCTAGAAgtatgagcagaatagctgtctaactttagaagcctaatctcctgggatgg Alignment from CESAR AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAAC-ACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcatcatgaggtgttacatatgacttgtaatttctttaagAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTCTGCCCTAGCCTATGGTGCCATCATGCTGAACCACTGACCAGCATAACCACAATGTTCAAAAGCAGAATACAACCATGACTCTAGAAgtatgagcagaatagctgtctaactttagaagcctaatctcctgggatgg Alignment from Spaln_aa2Genome AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAAC-ACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcatcatgaggtgttacatatgacttgtaatttctttaagAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTCTGCCCTAGCCTATGGTGCCATCATGCTGAACcACTGACCAGCATAACCACAATGTTCAAAAGCAGAATACAACCATGACTCTAGAAgtatgagcagaatagctgtctaactttagaagcctaatctcctgggatgg Alignment from Spaln_nt2Genome AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAA-CACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcatcatgaggtgttacatatgacttgtaatttctttaagAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTCTGCCCTAGCCTATGGTGCCATCATGCTGAACCACTGACCAGCATAACCACAATGTTCAAAAGCAGAATACAACCATGACTCTAGAAgtatgagcagaatagctgtctaactttagaagcctaatctcctgggatgg Alignment from Pairagon AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAA-CACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcatcatgaggtgttacatatgacttgtaatttctttaagAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTCTGCCCTAGCCTATGGTGCCATCATGCTGAACCACTGACCAGCATAACCACAATGTTCAAAAGCAGAATACAACCATGACTCTAGAAgtatgagcagaatagctgtctaactttagaagcctaatctcctgggatgg Alignment from Exonerate_protein2genome AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAAC-ACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcatcatgaggtgttacatatgacttgtaatttctttaagAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTCTGCCCTAGCCTATGGTGCCATCATGCTGAACCACTGACCAGCATAACCACAATGTTCAAAAGCAGAATACAACCATGACTCTAGAAgtatgagcagaatagctgtctaactttagaagcctaatctcctgggatgg Alignment from Exonerate_coding2genome AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAAC-ACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcatcatgaggtgttacatatgacttgtaatttctttaagAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTCTGCCCTAGCCTATGGTGCCATCATGCTGAACCACTGACCAGCATAACCACAATGTTCAAAAGCAGAATACAACCATGACTCTAGAAgtatgagcagaatagctgtctaactttagaagcctaatctcctgggatgg Alignment from GeneWise AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAAC-ACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcatcatgaggtgttacatatgacttgtaatttctttaagAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTCTGCCCTAGCCTATGGTGCCATCATGCTGAACCACTGACCAGCATAACCACAATGTTCAAAAGCAGAATACAACCATGACTCTAGAAgtatgagcagaatagctgtctaactttagaagcctaatctcctgggatgg #### Gbf1_ID9803_22 --> 1 - 0 Original Alignment gAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGAT-GTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG gggcctggaaatgtgcaccaggtgtttcattttgttctattttgtgacaggAAGTGTGCCACAATCTCTGCCCACTATGGCCTCAGTGATCGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTTTAAGTAGTGAGgtatggaattaacaagtaaactagtcaggggctaatgctccacctcctcc Alignment from CESAR gAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGAT-GTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG gggcctggaaatgtgcaccaggtgtttcattttgttctattttgtgacaggAAGTGTGCCACAATCTCTGCCCACTATGGCCTCAGTGATCGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTTTAAGTAGTGAGgtatggaattaacaagtaaactagtcaggggctaatgctccacctcctcc Alignment from Spaln_aa2Genome GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGAT-GTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG gggcctggaaatgtgcaccaggtgtttcattttgttctattttgtgacagGAAGTGTGCCACAATCTCTGCCCACTATGGCCTCAGTGATcGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTTTAAGTAGTGAGgtatggaattaacaagtaaactagtcaggggctaatgctccacctcctcc Alignment from Spaln_nt2Genome GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGAT-GTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG gggcctggaaatgtgcaccaggtgtttcattttgttctattttgtgacagGAAGTGTGCCACAATCTCTGCCCACTATGGCCTCAGTGATCGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTTTAAGTAGTGAGgtatggaattaacaagtaaactagtcaggggctaatgctccacctcctcc Alignment from Pairagon GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGAT-GTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG gggcctggaaatgtgcaccaggtgtttcattttgttctattttgtgacagGAAGTGTGCCACAATCTCTGCCCACTATGGCCTCAGTGATCGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTTTAAGTAGTGAGgtatggaattaacaagtaaactagtcaggggctaatgctccacctcctcc Alignment from Exonerate_protein2genome GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGAT-GTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG gggcctggaaatgtgcaccaggtgtttcattttgttctattttgtgacagGAAGTGTGCCACAATCTCTGCCCACTATGGCCTCAGTGATCGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTTTAAGTAGTGAGgtatggaattaacaagtaaactagtcaggggctaatgctccacctcctcc Alignment from Exonerate_coding2genome GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGAT-GTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG gggcctggaaatgtgcaccaggtgtttcattttgttctattttgtgacagGAAGTGTGCCACAATCTCTGCCCACTATGGCCTCAGTGATCGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTTTAAGTAGTGAGgtatggaattaacaagtaaactagtcaggggctaatgctccacctcctcc Alignment from GeneWise GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGAT-GTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG gggcctggaaatgtgcaccaggtgtttcattttgttctattttgtgacagGAAGTGTGCCACAATCTCTGCCCACTATGGCCTCAGTGATCGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTTTAAGTAGTGAGgtatggaattaacaagtaaactagtcaggggctaatgctccacctcctcc #### Gbf1_ID9805_24 --> 0 - 2 Original Alignment GTAGAAGATTTTGTGGAT-CCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACcg gacttagcagttgttcccaggtagacgacagagcttctctttctttgcagGTAGAAGATTTTGTAGACCCCCAATGGCAAGATCTCTTTACAACATAAGGAAATACCATCAAACcagtgagttttgattaatatgtgggccagagaagcagatattatcagttcta Alignment from CESAR GTAGAAGATTTTGTGGATCCC-AATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACcg gacttagcagttgttcccaggtagacgacagagcttctctttctttgcagGTAGAAGATTTTGTAGACCCCCAATGGCAAGATCTCTTTACAACATAAGGAAATACCATCAAACcagtgagttttgattaatatgtgggccagagaagcagatattatcagttcta Alignment from Spaln_aa2Genome GTAGAAGATTTTGTGGAT-CCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACCG gacttagcagttgttcccaggtagacgacagagcttctctttctttgcagGTAGAAGATTTTGTAGACcCCCAATGGCAAGATCTCTTTACAACATAAGGAAATACCATCAAACCAgtgagttttgattaatatgtgggccagagaagcagatattatcagttcta Alignment from Spaln_nt2Genome GTAGAAGATTTTGTGGATCCC-AATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACCG gacttagcagttgttcccaggtagacgacagagcttctctttctttgcagGTAGAAGATTTTGTAGACCCCCAATGGCAAGATCTCTTTACAACATAAGGAAATACCATCAAACCAgtgagttttgattaatatgtgggccagagaagcagatattatcagttcta Alignment from Pairagon GTAGAAGATTTTGTGGA-TCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACCG gacttagcagttgttcccaggtagacgacagagcttctctttctttgcagGTAGAAGATTTTGTAGACCCCCAATGGCAAGATCTCTTTACAACATAAGGAAATACCATCAAACCAgtgagttttgattaatatgtgggccagagaagcagatattatcagttcta Alignment from Exonerate_protein2genome GTAGAAGATTTTGTGGAT-CCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACCG gacttagcagttgttcccaggtagacgacagagcttctctttctttgcagGTAGAAGATTTTGTAGACCCCCAATGGCAAGATCTCTTTACAACATAAGGAAATACCATCAAACCAgtgagttttgattaatatgtgggccagagaagcagatattatcagttcta Alignment from Exonerate_coding2genome GTAGAAGATTTTGTGGAT-CCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACCG gacttagcagttgttcccaggtagacgacagagcttctctttctttgcagGTAGAAGATTTTGTAGACCCCCAATGGCAAGATCTCTTTACAACATAAGGAAATACCATCAAACCAgtgagttttgattaatatgtgggccagagaagcagatattatcagttcta Alignment from GeneWise gacttagcagttgttcccaggtagacgacagagcttctctttctttgcaggtagaagattttgtagacccccaatggcaagatctctttacaacataaggaaataccatcaaaccagtgagttttgattaatatgtgggccagagaagcagatattatcagttcta #### Gbf1_ID9807_26 --> 0 - 0 Original Alignment CAATGTGACCCAGAAAAAATGATCACAGAAAGC-AAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgcactggactttctttgtttatcatttgcgtctcctttgttttgcagCAGTGTGACCCAGAAAAGATGATCACAGAAAGCCAAGTTCCTCCAGCTGGAATCACTGCAGGAACTCATGAAGgtctgttgtgaacaaatcatggaaagatagaattgtactggtacagtgca Alignment from CESAR CAATGTGACCCAGAAAAAATGATCACAGAAAGC-AAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgcactggactttctttgtttatcatttgcgtctcctttgttttgcagCAGTGTGACCCAGAAAAGATGATCACAGAAAGCCAAGTTCCTCCAGCTGGAATCACTGCAGGAACTCATGAAGgtctgttgtgaacaaatcatggaaagatagaattgtactggtacagtgca Alignment from Spaln_aa2Genome CAATGTGACCCAGAAAAAATGATCACAGAAAGC-AAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgcactggactttctttgtttatcatttgcgtctcctttgttttgcagCAGTGTGACCCAGAAAAGATGATCACAGAAAGCcAAGTTCCTCCAGCTGGAATCACTGCAGGAACTCATGAAGgtctgttgtgaacaaatcatggaaagatagaattgtactggtacagtgca Alignment from Spaln_nt2Genome CAATGTGACCCAGAAAAAATGATCACAG-AAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgcactggactttctttgtttatcatttgcgtctcctttgttttgcagCAGTGTGACCCAGAAAAGATGATCACAGAAAGCCAAGTTCCTCCAGCTGGAATCACTGCAGGAACTCATGAAGgtctgttgtgaacaaatcatggaaagatagaattgtactggtacagtgca Alignment from Pairagon CAATGTGACCCAGAAAAAATGATCACAGAAAG-CAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgcactggactttctttgtttatcatttgcgtctcctttgttttgcagCAGTGTGACCCAGAAAAGATGATCACAGAAAGCCAAGTTCCTCCAGCTGGAATCACTGCAGGAACTCATGAAGgtctgttgtgaacaaatcatggaaagatagaattgtactggtacagtgca Alignment from Exonerate_protein2genome CAATGTGACCCAGAAAAAATGATCACAGAAAGC-AAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgcactggactttctttgtttatcatttgcgtctcctttgttttgcagCAGTGTGACCCAGAAAAGATGATCACAGAAAGCCAAGTTCCTCCAGCTGGAATCACTGCAGGAACTCATGAAGgtctgttgtgaacaaatcatggaaagatagaattgtactggtacagtgca Alignment from Exonerate_coding2genome CAATGTGACCCAGAAAAAATGATCACAGAAAGC-AAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgcactggactttctttgtttatcatttgcgtctcctttgttttgcagCAGTGTGACCCAGAAAAGATGATCACAGAAAGCCAAGTTCCTCCAGCTGGAATCACTGCAGGAACTCATGAAGgtctgttgtgaacaaatcatggaaagatagaattgtactggtacagtgca Alignment from GeneWise CAATGTGACCCAGAAAAAATGATCACAGAA-AGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgcactggactttctttgtttatcatttgcgtctcctttgttttgcagCAGTGTGACCCAGAAAAGATGATCACAGAAAGCCAAGTTCCTCCAGCTGGAATCACTGCAGGAACTCATGAAGgtctgttgtgaacaaatcatggaaagatagaattgtactggtacagtgca #### Gbf1_ID9812_31 --> 0 - 1 Original Alignment GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTG-GGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTg tatcgcacctaacctgaaataagggcacatgttttttgttctttctgtagGTGGGGAAGGATGATATTGATAATTCTAAGCCAGGGGCAGGACTCAGTAGGCCAGGTACTTCACCACTGGTCAACCAGTATAGCCTCACAGTAGGCTTGGATCTGCGGCCCACATGACACTAAGTCCCTACTTAAGTGTGTTGAATCTCTGTCCTTCATTGTCAAAGATGCTGCCCACATCACACCTGATAATTTTGAACTGGGTGTCAAGACCCTCTGTATCTTTGTAGAGGCCAGTCTGAATGATggtactgtatcctacacaatagtgagtacatcatgagtgacgaggaggaat Alignment from CESAR GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTG-GGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTg tatcgcacctaacctgaaataagggcacatgttttttgttctttctgtagGTGGGGAAGGATGATATTGATAATTCTAAGCCAGGGGCAGGACTCAGTAGGCCAGGTACTTCACCACTGGTCAACCAGTATAGCCTCACAGTAGGCTTGGATCTGCGGCCCACATGACACTAAGTCCCTACTTAAGTGTGTTGAATCTCTGTCCTTCATTGTCAAAGATGCTGCCCACATCACACCTGATAATTTTGAACTGGGTGTCAAGACCCTCTGTATCTTTGTAGAGGCCAGTCTGAATGATggtactgtatcctacacaatagtgagtacatcatgagtgacgaggaggaat Alignment from Spaln_aa2Genome GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCA-CACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTG tatcgcacctaacctgaaataagggcacatgttttttgttctttctgtagGTGGGGAAGGATGATATTGATAATTCTAAGCCAGGGGCAGGACTCAGTAGGCCAGGTACTTCACCACTGGTCAACCAGTATAGCCTCACAGTAGGCTTGGATCTGCGGCCCaCATGACACTAAGTCCCTACTTAAGTGTGTTGAATCTCTGTCCTTCATTGTCAAAGATGCTGCCCACATCACACCTGATAATTTTGAACTGGGTGTCAAGACCCTCTGTATCTTTGTAGAGGCCAGTCTGAATGATGgtactgtatcctacacaatagtgagtacatcatgagtgacgaggaggaat Alignment from Spaln_nt2Genome GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTG-GGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTG tatcgcacctaacctgaaataagggcacatgttttttgttctttctgtagGTGGGGAAGGATGATATTGATAATTCTAAGCCAGGGGCAGGACTCAGTAGGCCAGGTACTTCACCACTGGTCAACCAGTATAGCCTCACAGTAGGCTTGGATCTGCGGCCCACATGACACTAAGTCCCTACTTAAGTGTGTTGAATCTCTGTCCTTCATTGTCAAAGATGCTGCCCACATCACACCTGATAATTTTGAACTGGGTGTCAAGACCCTCTGTATCTTTGTAGAGGCCAGTCTGAATGATGgtactgtatcctacacaatagtgagtacatcatgagtgacgaggaggaat Alignment from Pairagon GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTG-GGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTG tatcgcacctaacctgaaataagggcacatgttttttgttctttctgtagGTGGGGAAGGATGATATTGATAATTCTAAGCCAGGGGCAGGACTCAGTAGGCCAGGTACTTCACCACTGGTCAACCAGTATAGCCTCACAGTAGGCTTGGATCTGCGGCCCACATGACACTAAGTCCCTACTTAAGTGTGTTGAATCTCTGTCCTTCATTGTCAAAGATGCTGCCCACATCACACCTGATAATTTTGAACTGGGTGTCAAGACCCTCTGTATCTTTGTAGAGGCCAGTCTGAATGATGgtactgtatcctacacaatagtgagtacatcatgagtgacgaggaggaat Alignment from Exonerate_protein2genome GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTG-GGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTG tatcgcacctaacctgaaataagggcacatgttttttgttctttctgtagGTGGGGAAGGATGATATTGATAATTCTAAGCCAGGGGCAGGACTCAGTAGGCCAGGTACTTCACCACTGGTCAACCAGTATAGCCTCACAGTAGGCTTGGATCTGCGGCCCACATGACACTAAGTCCCTACTTAAGTGTGTTGAATCTCTGTCCTTCATTGTCAAAGATGCTGCCCACATCACACCTGATAATTTTGAACTGGGTGTCAAGACCCTCTGTATCTTTGTAGAGGCCAGTCTGAATGATGgtactgtatcctacacaatagtgagtacatcatgagtgacgaggaggaat Alignment from Exonerate_coding2genome GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTG-GGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTG tatcgcacctaacctgaaataagggcacatgttttttgttctttctgtagGTGGGGAAGGATGATATTGATAATTCTAAGCCAGGGGCAGGACTCAGTAGGCCAGGTACTTCACCACTGGTCAACCAGTATAGCCTCACAGTAGGCTTGGATCTGCGGCCCACATGACACTAAGTCCCTACTTAAGTGTGTTGAATCTCTGTCCTTCATTGTCAAAGATGCTGCCCACATCACACCTGATAATTTTGAACTGGGTGTCAAGACCCTCTGTATCTTTGTAGAGGCCAGTCTGAATGATGgtactgtatcctacacaatagtgagtacatcatgagtgacgaggaggaat Alignment from GeneWise GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGAT-CTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTG tatcgcacctaacctgaaataagggcacatgttttttgttctttctgtagGTGGGGAAGGATGATATTGATAATTCTAAGCCAGGGGCAGGACTCAGTAGGCCAGGTACTTCACCACTGGTCAACCAGTATAGCCTCACAGTAGGCTTGGATCTGCGGCCCACATGACACTAAGTCCCTACTTAAGTGTGTTGAATCTCTGTCCTTCATTGTCAAAGATGCTGCCCACATCACACCTGATAATTTTGAACTGGGTGTCAAGACCCTCTGTATCTTTGTAGAGGCCAGTCTGAATGATGgtactgtatcctacacaatagtgagtacatcatgagtgacgaggaggaat #### Gldc_ID6402_13 --> 1 - 0 Original Alignment cTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTG-GAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG cctgtggattagcttaactccgtgtttactttgctgtttttcccacgcagtTACCACTCAGAAACTAATCTTGTTCCTTACATGAAGAGATTGCGAGAACCAAGATATTTCCCTTCTACACAGTATGATTCCTCTAgtacaggcagcatgactggttaccatgtacattggtatgtatcaggtgtg Alignment from CESAR cTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTG-GAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG cctgtggattagcttaactccgtgtttactttgctgtttttcccacgcagtTACCACTCAGAAACTAATCTTGTTCCTTACATGAAGAGATTGCGAGAACCAAGATATTTCCCTTCTACACAGTATGATTCCTCTAgtacaggcagcatgactggttaccatgtacattggtatgtatcaggtgtg Alignment from Spaln_aa2Genome CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTG-GAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG cctgtggattagcttaactccgtgtttactttgctgtttttcccacgcagTTACCACTCAGAAACTAATCTTGTTCCTTACATGAAGAGATTGcGAGAACCAAGATATTTCCCTTCTACACAGTATGATTCCTCTAgtacaggcagcatgactggttaccatgtacattggtatgtatcaggtgtg Alignment from Spaln_nt2Genome CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTG-GAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG cctgtggattagcttaactccgtgtttactttgctgtttttcccacgcagTTACCACTCAGAAACTAATCTTGTTCCTTACATGAAGAGATTGCGAGAACCAAGATATTTCCCTTCTACACAGTATGATTCCTCTAgtacaggcagcatgactggttaccatgtacattggtatgtatcaggtgtg Alignment from Pairagon CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTG-GAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG cctgtggattagcttaactccgtgtttactttgctgtttttcccacgcagTTACCACTCAGAAACTAATCTTGTTCCTTACATGAAGAGATTGCGAGAACCAAGATATTTCCCTTCTACACAGTATGATTCCTCTAgtacaggcagcatgactggttaccatgtacattggtatgtatcaggtgtg Alignment from Exonerate_protein2genome CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTG-GAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG cctgtggattagcttaactccgtgtttactttgctgtttttcccacgcagTTACCACTCAGAAACTAATCTTGTTCCTTACATGAAGAGATTGCGAGAACCAAGATATTTCCCTTCTACACAGTATGATTCCTCTAgtacaggcagcatgactggttaccatgtacattggtatgtatcaggtgtg Alignment from Exonerate_coding2genome CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTG-GAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG cctgtggattagcttaactccgtgtttactttgctgtttttcccacgcagTTACCACTCAGAAACTAATCTTGTTCCTTACATGAAGAGATTGCGAGAACCAAGATATTTCCCTTCTACACAGTATGATTCCTCTAgtacaggcagcatgactggttaccatgtacattggtatgtatcaggtgtg Alignment from GeneWise CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAA-CTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG cctgtggattagcttaactccgtgtttactttgctgtttttcccacgcagTTACCACTCAGAAACTAATCTTGTTCCTTACATGAAGAGATTGCGAGAACCAAGATATTTCCCTTCTACACAGTATGATTCCTCTAgtacaggcagcatgactggttaccatgtacattggtatgtatcaggtgtg #### Gm815_ID5778_2 --> 0 - 1 Original Alignment TCCTTAGGAACGATGCTTCTGTGCTGCGTAGAAGCCCATGCCATGGGATTCCAGAACACTTCCTTCTCTACGTTTAGAACTGCT-TCCCATACTTTTTTCCCCCACt cagctttttttgacaccacaccattttctgttcaggcctatctcttgcagTCCTTAGGGACTATGCTTCTATGT------------------------------------------------------------CTCACAGACT------CACCACtgtaagtaaaaaagatgtacccataagcttagtaaagttgatgtggttatg Alignment from CESAR TCCTTAGGAACGATGCTTCTGTGCTGCGTAGAAGCCCATGCCATGGGATTC-CAGAACACTTCCTTCTCTACGTTTAGAACTGCTTCCCATACTTTTTTCCCCCACt cagctttttttgacaccacaccattttctgttcaggcctatctcttgcagTCCTTAGGGACTATGCTTCTATGT------------------------CTCACAG------------------------------ACTCAC------------CACtgtaagtaaaaaagatgtacccataagcttagtaaagttgatgtggttatg Alignment from Spaln_aa2Genome TCCTTAGGAACGATGCTTCTGTGCTGCGTAGAAGCCCATGC cagctttttttgacaccacaccattttctgttcaggcctatctcttgcagTCCTTAGGGACTATGCTTCTATGTCTCACAGACTCACCACTgtaagtaaaaaagatgtacccataagcttagtaaagttgatgtggttatg Alignment from Spaln_nt2Genome TCCTTAGGAACGATGCTTCTGTGCTGCGTAGAAGCCCATGCCATG cagctttttttgacaccacaccattttctgttcaggcctatctcttgcagTCCTTAGGGACTATGCTTCTATGTCTCACAGA--CTCA--CCACTgtaagtaaaaaagatgtacccataagcttagtaaagttgatgtggttatg Alignment from Pairagon TCCTTAGGAACGATGCTTCTGTGCTGCGTAGAAGCCCATGCCATGGGATTCCAGAACACTTCCTTCTCTACGTTTAGAACTGCTTCCCATACTTTTTTCCC---------CCACT cagctttttttgacaccacaccattttctgttcaggcctatctcttgcagTCCTTAGGGACTATGCTTCTATG--------------------------------------------------------------------------TCTCACAGACTCACCACTgtaagtaaaaaagatgtacccataagcttagtaaagttgatgtggttatg Alignment from Exonerate_protein2genome cagctttttttgacaccacaccattttctgttcaggcctatctcttgcagtccttagggactatgcttctatgtctcacagactcaccactgtaagtaaaaaagatgtacccataagcttagtaaagttgatgtggttatg Alignment from Exonerate_coding2genome cagctttttttgacaccacaccattttctgttcaggcctatctcttgcagtccttagggactatgcttctatgtctcacagactcaccactgtaagtaaaaaagatgtacccataagcttagtaaagttgatgtggttatg Alignment from GeneWise cagctttttttgacaccacaccattttctgttcaggcctatctcttgcagtccttagggactatgcttctatgtctcacagactcaccactgtaagtaaaaaagatgtacccataagcttagtaaagttgatgtggttatg #### Gpam_ID11539_10 --> 0 - 0 Original Alignment GGAAAGCCCAAGAAG-AACGAGAGCCTCTGGAGTGTGGCGAGAGGCGTTATCAGAATGCTGCGGAAAAACTACGGCTACGTCCGAGTGGATTTTGCACAGCCATTTTCCTTGAAG tagggatgcgaatctccagaagtaaatgctgatgctcctctcctctccagGGCAAGCCCAAGAAGCAATGAGAGCCTCTGGAGTGTAGCTAGAGGTGTTGTCAAAATGCTGCGTAAAAACTATGGTTATGTCAGAGTGGATTTTGCACAGCCATTTTCACTGAAAgtatgtatatacacaaaggtgcagactcaaacccagagcttgtttgtttt Alignment from CESAR GGAAAGCCCAAGAAG-AACGAGAGCCTCTGGAGTGTGGCGAGAGGCGTTATCAGAATGCTGCGGAAAAACTACGGCTACGTCCGAGTGGATTTTGCACAGCCATTTTCCTTGAAG tagggatgcgaatctccagaagtaaatgctgatgctcctctcctctccagGGCAAGCCCAAGAAGCAATGAGAGCCTCTGGAGTGTAGCTAGAGGTGTTGTCAAAATGCTGCGTAAAAACTATGGTTATGTCAGAGTGGATTTTGCACAGCCATTTTCACTGAAAgtatgtatatacacaaaggtgcagactcaaacccagagcttgtttgtttt Alignment from Spaln_aa2Genome GTTGGGAAAGCCCAAGAAGAACGAGAGCCTCTGGAGTGTGGCGAGAGGCGTTATCAGAATGCTGCGGAAAAACTACGGCTACGTCCGAGTGGATTTTGCACAGCCATTTTCCTTGAAG tagggatgcgaatctccagaagtaaatgctgatgctcctctcctctccagG---GCAAGCCCAAGAAGCAATGAGAGCCTCTGGAGTGTAGCTAGAGGTGTTGTCAAAATGCTGCGTAAAAACTATGGTTATGTCAGAGTGGATTTTGCACAGCCATTTTCACTGAAAgtatgtatatacacaaaggtgcagactcaaacccagagcttgtttgtttt Alignment from Spaln_nt2Genome GGAAAGCCCAAGAAG-AACGAGAGCCTCTGGAGTGTGGCGAGAGGCGTTATCAGAATGCTGCGGAAAAACTACGGCTACGTCCGAGTGGATTTTGCACAGCCATTTTCCTTGAAG tagggatgcgaatctccagaagtaaatgctgatgctcctctcctctccagGGCAAGCCCAAGAAGCAATGAGAGCCTCTGGAGTGTAGCTAGAGGTGTTGTCAAAATGCTGCGTAAAAACTATGGTTATGTCAGAGTGGATTTTGCACAGCCATTTTCACTGAAAgtatgtatatacacaaaggtgcagactcaaacccagagcttgtttgtttt Alignment from Pairagon GGAAAGCCCAAGAAG-AACGAGAGCCTCTGGAGTGTGGCGAGAGGCGTTATCAGAATGCTGCGGAAAAACTACGGCTACGTCCGAGTGGATTTTGCACAGCCATTTTCCTTGAAG tagggatgcgaatctccagaagtaaatgctgatgctcctctcctctccagGGCAAGCCCAAGAAGCAATGAGAGCCTCTGGAGTGTAGCTAGAGGTGTTGTCAAAATGCTGCGTAAAAACTATGGTTATGTCAGAGTGGATTTTGCACAGCCATTTTCACTGAAAgtatgtatatacacaaaggtgcagactcaaacccagagcttgtttgtttt Alignment from Exonerate_protein2genome GGAAAGCCCAAGAAG-AACGAGAGCCTCTGGAGTGTGGCGAGAGGCGTTATCAGAATGCTGCGGAAAAACTACGGCTACGTCCGAGTGGATTTTGCACAGCCATTTTCCTTGAAG tagggatgcgaatctccagaagtaaatgctgatgctcctctcctctccagGGCAAGCCCAAGAAGCAATGAGAGCCTCTGGAGTGTAGCTAGAGGTGTTGTCAAAATGCTGCGTAAAAACTATGGTTATGTCAGAGTGGATTTTGCACAGCCATTTTCACTGAAAgtatgtatatacacaaaggtgcagactcaaacccagagcttgtttgtttt Alignment from Exonerate_coding2genome GGAAAGCCCAAGAAG-AACGAGAGCCTCTGGAGTGTGGCGAGAGGCGTTATCAGAATGCTGCGGAAAAACTACGGCTACGTCCGAGTGGATTTTGCACAGCCATTTTCCTTGAAG tagggatgcgaatctccagaagtaaatgctgatgctcctctcctctccagGGCAAGCCCAAGAAGCAATGAGAGCCTCTGGAGTGTAGCTAGAGGTGTTGTCAAAATGCTGCGTAAAAACTATGGTTATGTCAGAGTGGATTTTGCACAGCCATTTTCACTGAAAgtatgtatatacacaaaggtgcagactcaaacccagagcttgtttgtttt Alignment from GeneWise GTTGGGAAAGCCCAAGAAGAACGAGAGCCTCTGGAGTGTGGCGAGAGGCGTTATCAGAATGCTGCGGAAAAACTACGGCTACGTCCGAGTGGATTTTGCACAGCCATTTTCCTTGAAG tagggatgcgaatctccagaagtaaatgctgatgctcctctcctctccagG---GCAAGCCCAAGAAGCAATGAGAGCCTCTGGAGTGTAGCTAGAGGTGTTGTCAAAATGCTGCGTAAAAACTATGGTTATGTCAGAGTGGATTTTGCACAGCCATTTTCACTGAAAgtatgtatatacacaaaggtgcagactcaaacccagagcttgtttgtttt #### Gpam_ID11543_6 --> 1 - 0 Original Alignment gCTGACTGGCTGGGTG-TTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG gtggccattctccggctatcatgatgcaggccttggcctctcacctctaggTTGACTGGCTGGGTACTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATCCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACCGAGgtaggatccgaatttaaaaacctaaaggaagatgtgcattactggatgtt Alignment from CESAR gCTGACTGGCTGGGTG-TTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG gtggccattctccggctatcatgatgcaggccttggcctctcacctctaggTTGACTGGCTGGGTACTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATCCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACCGAGgtaggatccgaatttaaaaacctaaaggaagatgtgcattactggatgtt Alignment from Spaln_aa2Genome GCTGACTGGCTGGGTGTTA-CTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG gtggccattctccggctatcatgatgcaggccttggcctctcacctctagGTTGACTGGCTGGGTACTTaCTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATCCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACCGAGgtaggatccgaatttaaaaacctaaaggaagatgtgcattactggatgtt Alignment from Spaln_nt2Genome GCTGACTGGCTGGGTG-TTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG gtggccattctccggctatcatgatgcaggccttggcctctcacctctagGTTGACTGGCTGGGTACTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATCCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACCGAGgtaggatccgaatttaaaaacctaaaggaagatgtgcattactggatgtt Alignment from Pairagon GCTGACTGGCTGGGTG-TTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG gtggccattctccggctatcatgatgcaggccttggcctctcacctctagGTTGACTGGCTGGGTACTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATCCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACCGAGgtaggatccgaatttaaaaacctaaaggaagatgtgcattactggatgtt Alignment from Exonerate_protein2genome GCTGACTGGCTGGGTG-TTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG gtggccattctccggctatcatgatgcaggccttggcctctcacctctagGTTGACTGGCTGGGTACTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATCCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACCGAGgtaggatccgaatttaaaaacctaaaggaagatgtgcattactggatgtt Alignment from Exonerate_coding2genome GCTGACTGGCTGGGTG-TTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG gtggccattctccggctatcatgatgcaggccttggcctctcacctctagGTTGACTGGCTGGGTACTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATCCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACCGAGgtaggatccgaatttaaaaacctaaaggaagatgtgcattactggatgtt Alignment from GeneWise GCTGACTGGCTGG-GTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG gtggccattctccggctatcatgatgcaggccttggcctctcacctctagGTTGACTGGCTGGGTACTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATCCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACCGAGgtaggatccgaatttaaaaacctaaaggaagatgtgcattactggatgtt #### Gpr137_ID1885_6 --> 0 - 2 Original Alignment AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCC-TGGGAGCATAGCCGGAGTGAGAGCACCag aggttgtagtagaagggtggaacaccagtctctaaactctgcgtttacagAGCACCAGTCAAATCCTTAATGGCCAAGTCTTTGGTTCCCGATCGTACTTCTTTGATAGGGCTGGACACTGTGAGGATGATAGCTGCTCCCGGGGAGCACAGCCAAAGCAAGAGCACTaggtaagaacccagctctttacccaaataggagaggcctaagtagaggcata Alignment from CESAR AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGG-GAGCATAGCCGGAGTGAGAGCACCag aggttgtagtagaagggtggaacaccagtctctaaactctgcgtttacagAGCACCAGTCAAATCCTTAATGGCCAAGTCTTTGGTTCCCGATCGTACTTCTTTGATAGGGCTGGACACTGTGAGGATGATAGCTGCTCCCGGGGAGCACAGCCAAAGCAAGAGCACTaggtaagaacccagctctttacccaaataggagaggcctaagtagaggcata Alignment from Spaln_aa2Genome AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGG-GAGCATAGCCGGAGTGAGAGCACCAG aggttgtagtagaagggtggaacaccagtctctaaactctgcgtttacagAGCACCAGTCAAATCCTTAATGGCCAAGTCTTTGGTTCCCGATCGTACTTCTTTGATAGGGCTGGACACTGTGAGGATGATAGCTGCTCCCGGgGAGCACAGCCAAAGCAAGAGCACTAGgtaagaacccagctctttacccaaataggagaggcctaagtagaggcata Alignment from Spaln_nt2Genome AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGG-AGCATAGCCGGAGTGAGAGCACCAG aggttgtagtagaagggtggaacaccagtctctaaactctgcgtttacagAGCACCAGTCAAATCCTTAATGGCCAAGTCTTTGGTTCCCGATCGTACTTCTTTGATAGGGCTGGACACTGTGAGGATGATAGCTGCTCCCGGGGAGCACAGCCAAAGCAAGAGCACTAGgtaagaacccagctctttacccaaataggagaggcctaagtagaggcata Alignment from Pairagon AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCT-GGGAGCATAGCCGGAGTGAGAGCACCAG aggttgtagtagaagggtggaacaccagtctctaaactctgcgtttacagAGCACCAGTCAAATCCTTAATGGCCAAGTCTTTGGTTCCCGATCGTACTTCTTTGATAGGGCTGGACACTGTGAGGATGATAGCTGCTCCCGGGGAGCACAGCCAAAGCAAGAGCACTAGgtaagaacccagctctttacccaaataggagaggcctaagtagaggcata Alignment from Exonerate_protein2genome AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCC-TGGGAGCATAGCCGGAGTGAGAGCACCAG aggttgtagtagaagggtggaacaccagtctctaaactctgcgtttacagAGCACCAGTCAAATCCTTAATGGCCAAGTCTTTGGTTCCCGATCGTACTTCTTTGATAGGGCTGGACACTGTGAGGATGATAGCTGCTCCCGGGGAGCACAGCCAAAGCAAGAGCACTAGgtaagaacccagctctttacccaaataggagaggcctaagtagaggcata Alignment from Exonerate_coding2genome AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCC-TGGGAGCATAGCCGGAGTGAGAGCACCAG aggttgtagtagaagggtggaacaccagtctctaaactctgcgtttacagAGCACCAGTCAAATCCTTAATGGCCAAGTCTTTGGTTCCCGATCGTACTTCTTTGATAGGGCTGGACACTGTGAGGATGATAGCTGCTCCCGGGGAGCACAGCCAAAGCAAGAGCACTAGgtaagaacccagctctttacccaaataggagaggcctaagtagaggcata Alignment from GeneWise AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCC-TGGGAGCATAGCCGGAGTGAGAGCACCAG aggttgtagtagaagggtggaacaccagtctctaaactctgcgtttacagAGCACCAGTCAAATCCTTAATGGCCAAGTCTTTGGTTCCCGATCGTACTTCTTTGATAGGGCTGGACACTGTGAGGATGATAGCTGCTCCCGGGGAGCACAGCCAAAGCAAGAGCACTAGgtaagaacccagctctttacccaaataggagaggcctaagtagaggcata #### Gpr137_ID1888_3 --> 1 - 0 Original Alignment gCTGGCTGTCCGAGGGGCC-TTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggctatagccactgcagtgagggtgtcctctcccctcaccccaaccctaggCTGGCCGTTCAGGGTGCCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTGAATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACAACAACCCTGGATACTTTCACTGGAACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGT------GCTCTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACCACCAGTATCTACTTAGATGCAAAGgtaggagtgccatatagatgtggcattgttggatttgtggacagagtact Alignment from CESAR gCTGGCTGTCCGAGGGGCC-TTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggctatagccactgcagtgagggtgtcctctcccctcaccccaaccctaggCTGGCCGTTCAGGGTGCCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTGAATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACAACAACCCTGGATACTTTCACTGGAACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTGCT------CTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACCACCAGTATCTACTTAGATGCAAAGgtaggagtgccatatagatgtggcattgttggatttgtggacagagtact Alignment from Spaln_aa2Genome TGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggctatagccactgcagtgagggtgtcctctcccctcaccccaaccctaggctggccgttcagGGTG------CCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTGAATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACAACAACCCTGGATACTTTCACTGGAACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTGCT------CTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACCACCAGTATCTACTTAGATGCAAAGgtaggagtgccatatagatgtggcattgttggatttgtggacagagtact Alignment from Spaln_nt2Genome GCTGGCTGTCCGAGGGGCC-TTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggctatagccactgcagtgagggtgtcctctcccctcaccccaaccctagGCTGGCCGTTCAGGGTGCCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTGAATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACAACAACCCTGGATACTTTCACTGGAACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTG------CTCTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACCACCAGTATCTACTTAGATGCAAAGgtaggagtgccatatagatgtggcattgttggatttgtggacagagtact Alignment from Pairagon GCTGGCTGTCCGAGG-GGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggctatagccactgcagtgagggtgtcctctcccctcaccccaaccctagGCTGGCCGTTCAGGGTGCCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTGAATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACAACAACCCTGGATACTTTCACTGGAACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTGCT------CTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACCACCAGTATCTACTTAGATGCAAAGgtaggagtgccatatagatgtggcattgttggatttgtggacagagtact Alignment from Exonerate_protein2genome GCTGGCTGTCCGAGGGGCC-TTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggctatagccactgcagtgagggtgtcctctcccctcaccccaaccctagGCTGGCCGTTCAGGGTGCCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTGAATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACAACAACCCTGGATACTTTCACTGGAACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTGCT------CTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACCACCAGTATCTACTTAGATGCAAAGgtaggagtgccatatagatgtggcattgttggatttgtggacagagtact Alignment from Exonerate_coding2genome GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTTGCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG gGCTATAGCCACTGCAGTGAGGGTGTCCTCTCCCCTCACCCCAACCCTAGGCTGGCCGTTCAGGGTGCCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTGAATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACAACAACCCTGGATACTTTCACTGGAACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTGCT------CTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACCACCAGTATCTACTTAGATGCAAAGgtaggagtgccatatagatgtggcattgttggatttgtggacagagtact Alignment from GeneWise TGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggctatagccactgcagtgagggtgtcctctcccctcaccccaaccctaggctggccgttcagGGTG------CCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTGAATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACAACAACCCTGGATACTTTCACTGGAACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTGCTCTT------GCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACCACCAGTATCTACTTAGATGCAAAGgtaggagtgccatatagatgtggcattgttggatttgtggacagagtact #### Hectd2_ID7146_4 --> 1 - 0 Original Alignment gGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAGACAGTA-CATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG actgccagtttgcctgcctgtatttggtatttcacctctttccactgcaggGAAGATCTAGAAAAAGCTGAAGCCACAGGGAATTGGAAAGCAGTACCATGCTTTCTATATTACAGCATTTGATTCCTTCACAGAGCTAAACACTGCATTTAAGgtacgtatgcaaaaaaaagtttcctctcactctttggtgtcaaacataaa Alignment from CESAR gGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAGACAGTA-CATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG actgccagtttgcctgcctgtatttggtatttcacctctttccactgcaggGAAGATCTAGAAAAAGCTGAAGCCACAGGGAATTGGAAAGCAGTACCATGCTTTCTATATTACAGCATTTGATTCCTTCACAGAGCTAAACACTGCATTTAAGgtacgtatgcaaaaaaaagtttcctctcactctttggtgtcaaacataaa Alignment from Spaln_aa2Genome GGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAGACAGTA-CATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG actgccagtttgcctgcctgtatttggtatttcacctctttccactgcagGGAAGATCTAGAAAAAGCTGAAGCCACAGGGAATTGGAAAGCAGTAcCATGCTTTCTATATTACAGCATTTGATTCCTTCACAGAGCTAAACACTGCATTTAAGgtacgtatgcaaaaaaaagtttcctctcactctttggtgtcaaacataaa Alignment from Spaln_nt2Genome GGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAGACAGTAC-ATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG actgccagtttgcctgcctgtatttggtatttcacctctttccactgcagGGAAGATCTAGAAAAAGCTGAAGCCACAGGGAATTGGAAAGCAGTACCATGCTTTCTATATTACAGCATTTGATTCCTTCACAGAGCTAAACACTGCATTTAAGgtacgtatgcaaaaaaaagtttcctctcactctttggtgtcaaacataaa Alignment from Pairagon GGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAGACAGTA-CATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG actgccagtttgcctgcctgtatttggtatttcacctctttccactgcagGGAAGATCTAGAAAAAGCTGAAGCCACAGGGAATTGGAAAGCAGTACCATGCTTTCTATATTACAGCATTTGATTCCTTCACAGAGCTAAACACTGCATTTAAGgtacgtatgcaaaaaaaagtttcctctcactctttggtgtcaaacataaa Alignment from Exonerate_protein2genome GGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAGACAGTA-CATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG actgccagtttgcctgcctgtatttggtatttcacctctttccactgcagGGAAGATCTAGAAAAAGCTGAAGCCACAGGGAATTGGAAAGCAGTACCATGCTTTCTATATTACAGCATTTGATTCCTTCACAGAGCTAAACACTGCATTTAAGgtacgtatgcaaaaaaaagtttcctctcactctttggtgtcaaacataaa Alignment from Exonerate_coding2genome GGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAGACAGTA-CATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAGAAAGATGCCACGGCCTCATTTAATACTATTGAGGACTCTGGGCTTAATGC actgccagtttgcctgcctgtatttggtatttcacctctttccactgcagGGAAGATCTAGAAAAAGCTGAAGCCACAGGGAATTGGAAAGCAGTACCATGCTTTCTATATTACAGCATTTGATTCCTTCACAGAGCTAAACACTGCATTTAAGGTACGTATGCAAAAAAAAGTTTCCTCT---CACTCTTTGGTGTCAAACAT Alignment from GeneWise GGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAGACA-GTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG actgccagtttgcctgcctgtatttggtatttcacctctttccactgcagGGAAGATCTAGAAAAAGCTGAAGCCACAGGGAATTGGAAAGCAGTACCATGCTTTCTATATTACAGCATTTGATTCCTTCACAGAGCTAAACACTGCATTTAAGgtacgtatgcaaaaaaaagtttcctctcactctttggtgtcaaacataaa #### Hells_ID7706_13 --> 0 - 2 Original Alignment AAGGAAACAGTTGAGCTAAGTCCTACTGGAAGA-CCAAAACGACGAAGTAGAAAGTCAATAAATTACAGCGAACTAGATCAGTTCCCTAGTGAATTAGAAAAACTAATAAGTCAAATACAGCCAGAAGTAAACAGAGAGag ccttgccatctgcgcactaagaacaaacagctattattttcttttggcagAAAGATACAGTAGAGCTTAGCCCAATTGGAAGACCCTAAAAGACGAAGTAGAAAG---ATAAATTACAGTGAACTAGATCAGTTTCCCAGTGAACTTGAGAAACTAATAAGCCAAATACAG---CAAGCTAACAGAGATaggtgagtcactataatgacctttaaactaggggaccagatctctttcccca Alignment from CESAR AAGGAAACAGTTGAGCTAAGTCCTACTGGAAGA-CCAAAACGACGAAGTAGAAAGTCAATAAATTACAGCGAACTAGATCAGTTCCCTAGTGAATTAGAAAAACTAATAAGTCAAATACAGCCAGAAGTAAACAGAGAGag ccttgccatctgcgcactaagaacaaacagctattattttcttttggcagAAAGATACAGTAGAGCTTAGCCCAATTGGAAGACCCTAAAAGACGAAGTAGAAAG---ATAAATTACAGTGAACTAGATCAGTTTCCCAGTGAACTTGAGAAACTAATAAGCCAAATACAGCAA---GCTAACAGAGATaggtgagtcactataatgacctttaaactagggctttccccacttgctttca Alignment from Spaln_aa2Genome AAGGAAACAGTTGAGCTAAGTCCTACTGGAAGACCA-AAACGACGAAGTAGAAAGTCAATAAATTACAGCGAACTAGATCAGTTCCCTAGTGAATTAGAAAAACTAATAAGTCAAATACAGCCAGAAGTAAACAGAGAGAG ccttgccatctgcgcactaagaacaaacagctattattttcttttggcagAAAGATACAGTAGAGCTTAGCCCAATTGGAAGACCCtAAAAGACGAAGTAGAAAG---ATAAATTACAGTGAACTAGATCAGTTTCCCAGTGAACTTGAGAAACTAATAAGCCAAATACAG---CAAGCTAACAGAGATAGgtgagtcactataatgacctttaaactaggggaccagatctctttcccca Alignment from Spaln_nt2Genome AAGGAAACAGTTGAGCTAAGTCCTACTGGAAGACCA-AAACGACGAAGTAGAAAGTCAATAAATTACAGCGAACTAGATCAGTTCCCTAGTGAATTAGAAAAACTAATAAGTCAAATACAGCCAGAAGTAAACAGAGAGAG ccttgccatctgcgcactaagaacaaacagctattattttcttttggcagAAAGATACAGTAGAGCTTAGCCCAATTGGAAGACCCTAAAAGACGAAGTAGAAAG---ATAAATTACAGTGAACTAGATCAGTTTCCCAGTGAACTTGAGAAACTAATAAGCCAAATACAGC---AAGCTAACAGAGATAGgtgagtcactataatgacctttaaactaggggaccagatctctttcccca Alignment from Pairagon AAGGAAACAGTTGAGCTAAGTCCTACTGGAAGACCA-AAACGACGAAGTAGAAAGTCAATAAATTACAGCGAACTAGATCAGTTCCCTAGTGAATTAGAAAAACTAATAAGTCAAATACAGCCAGAAGTAAACAGAGAGAG ccttgccatctgcgcactaagaacaaacagctattattttcttttggcagAAAGATACAGTAGAGCTTAGCCCAATTGGAAGACCCTAAAAGACGAAGTAGAAAG---ATAAATTACAGTGAACTAGATCAGTTTCCCAGTGAACTTGAGAAACTAATAAGCCAAATACAGC---AAGCTAACAGAGATAGgtgagtcactataatgacctttaaactaggggaccagatctctttcccca Alignment from Exonerate_protein2genome AAGGAAACAGTTGAGCTAAGTCCTACTGGAAGA-CCAAAACGACGAAGTAGAAAGTCAATAAATTACAGCGAACTAGATCAGTTCCCTAGTGAATTAGAAAAACTAATAAGTCAAATACAGCCAGAAGTAAACAGAGAGAG ccttgccatctgcgcactaagaacaaacagctattattttcttttggcagAAAGATACAGTAGAGCTTAGCCCAATTGGAAGACCCTAAAAGACGAAGTAGAAAG---ATAAATTACAGTGAACTAGATCAGTTTCCCAGTGAACTTGAGAAACTAATAAGCCAAATACAG---CAAGCTAACAGAGATAGgtgagtcactataatgacctttaaactaggggaccagatctctttcccca Alignment from Exonerate_coding2genome AAGGAAACAGTTGAGCTAAGTCCTACTGGAAGA-CCAAAACGACGAAGTAGAAAGTCAATAAATTACAGCGAACTAGATCAGTTCCCTAGTGAATTAGAAAAACTAATAAGTCAAATACAGCCAGAAGTAAACAGAGAGAG ccttgccatctgcgcactaagaacaaacagctattattttcttttggcagAAAGATACAGTAGAGCTTAGCCCAATTGGAAGACCCTAAAAGACGAAGTAGAAAG---ATAAATTACAGTGAACTAGATCAGTTTCCCAGTGAACTTGAGAAACTAATAAGCCAAATACAG---CAAGCTAACAGAGATAGgtgagtcactataatgacctttaaactaggggaccagatctctttcccca Alignment from GeneWise AAGGAAACAGTTGAGCTAAGTCCTACTGGAAGACCA-AAACGACGAAGTAGAAAGTCAATAAATTACAGCGAACTAGATCAGTTCCCTAGTGAATTAGAAAAACTAATAAGTCAAATACAGCCAGAAGTAAACAGAGAGAG ccttgccatctgcgcactaagaacaaacagctattattttcttttggcagAAAGATACAGTAGAGCTTAGCCCAATTGGAAGACCCTAAAAGACGAAGTAGAAAG---ATAAATTACAGTGAACTAGATCAGTTTCCCAGTGAACTTGAGAAACTAATAAGCCAAATACAG---CAAGCTAACAGAGATAGgtgagtcactataatgacctttaaactaggggaccagatctctttcccca #### Hnrnpul2_ID2399_3 --> 1 - 1 Original Alignment cTCAAAGTCCCCA-CCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACGt aagttataaattataacatgtttggcaatataacgttgacttccaaacagcTCAAGGTCCCCCCTCACCTCCAGAGGAAGAAGCTAAAGATGAGGAGGAGGCCCAGTCACTAGTGAACTTGGATACTtgtgaatggttgcatgttatggcttatctttagaaatatcgtattttcctc Alignment from CESAR cTCAAAGTCC-CCACCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACGt aagttataaattataacatgtttggcaatataacgttgacttccaaacagcTCAAGGTCCCCCCTCACCTCCAGAGGAAGAAGCTAAAGATGAGGAGGAGGCCCAGTCACTAGTGAACTTGGATACTtgtgaatggttgcatgttatggcttatctttagaaatatcgtattttcctc Alignment from Spaln_aa2Genome GCCGCTCAAAGTCCCCACCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACGT aagttataaattataacatgtttggcaatataacgttgacttccaaacagCTCAAGGT---CCCCCCTCACCTCCAGAGGAAGAAGCTAAAGATGAGGAGGAGGCCCAGTCACTAGTGAACTTGGATACTTgtgaatggttgcatgttatggcttatctttagaaatatcgtattttcctc Alignment from Spaln_nt2Genome CTCAAAGTCCCCAC-CACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACGT aagttataaattataacatgtttggcaatataacgttgacttccaaacagCTCAAGGTCCCCCCTCACCTCCAGAGGAAGAAGCTAAAGATGAGGAGGAGGCCCAGTCACTAGTGAACTTGGATACTTgtgaatggttgcatgttatggcttatctttagaaatatcgtattttcctc Alignment from Pairagon CTCAAAGTCCCCAC-CACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACGT aagttataaattataacatgtttggcaatataacgttgacttccaaacagCTCAAGGTCCCCCCTCACCTCCAGAGGAAGAAGCTAAAGATGAGGAGGAGGCCCAGTCACTAGTGAACTTGGATACTTgtgaatggttgcatgttatggcttatctttagaaatatcgtattttcctc Alignment from Exonerate_protein2genome CTCAAAGTCC-CCACCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACGT aagttataaattataacatgtttggcaatataacgttgacttccaaacagCTCAAGGTCCCCCCTCACCTCCAGAGGAAGAAGCTAAAGATGAGGAGGAGGCCCAGTCACTAGTGAACTTGGATACTTgtgaatggttgcatgttatggcttatctttagaaatatcgtattttcctc Alignment from Exonerate_coding2genome CTCAAAGTCC-CCACCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACGT aagttataaattataacatgtttggcaatataacgttgacttccaaacagCTCAAGGTCCCCCCTCACCTCCAGAGGAAGAAGCTAAAGATGAGGAGGAGGCCCAGTCACTAGTGAACTTGGATACTTgtgaatggttgcatgttatggcttatctttagaaatatcgtattttcctc Alignment from GeneWise CTCAAAGTCCCCA-CCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACGT aagttataaattataacatgtttggcaatataacgttgacttccaaacagCTCAAGGTCCCCCCTCACCTCCAGAGGAAGAAGCTAAAGATGAGGAGGAGGCCCAGTCACTAGTGAACTTGGATACTTgtgaatggttgcatgttatggcttatctttagaaatatcgtattttcctc #### Hnrnpul2_ID2408_12 --> 2 - 0 Original Alignment tgGGCGGGCAGCGCCGAGGCTACGAC-AACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG cagctgatttctttgtgaatctgcaatacaagctttctcttttcatttagtgGGTGGACAGCACCGAGGCTATGACCAACCAGGCCTATGGGCAGCAGTACTGGGGGCAGCCTGGAACCAGAGGGgtgagtgcacatccttctttactcctccttccaccctgttcctctaactg Alignment from CESAR tgGGCGGGCAGCGCCGAGGCTACGAC-AACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG cagctgatttctttgtgaatctgcaatacaagctttctcttttcatttagtgGGTGGACAGCACCGAGGCTATGACCAACCAGGCCTATGGGCAGCAGTACTGGGGGCAGCCTGGAACCAGAGGGgtgagtgcacatccttctttactcctccttccaccctgttcctctaactg Alignment from Spaln_aa2Genome TGGGCGGGCAGCGCCGAGGCTACGAC-AACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG cagctgatttctttgtgaatctgcaatacaagctttctcttttcatttagTGGGTGGACAGCACCGAGGCTATGACcAACCAGGCCTATGGGCAGCAGTACTGGGGGCAGCCTGGAACCAGAGGGgtgagtgcacatccttctttactcctccttccaccctgttcctctaactg Alignment from Spaln_nt2Genome TGGGCGGGCAGCGCCGAGGCTACGAC-AACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG cagctgatttctttgtgaatctgcaatacaagctttctcttttcatttagTGGGTGGACAGCACCGAGGCTATGACCAACCAGGCCTATGGGCAGCAGTACTGGGGGCAGCCTGGAACCAGAGGGgtgagtgcacatccttctttactcctccttccaccctgttcctctaactg Alignment from Pairagon TGGGCGGGCAGCGCCGAGGCTACGA-CAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG cagctgatttctttgtgaatctgcaatacaagctttctcttttcatttagTGGGTGGACAGCACCGAGGCTATGACCAACCAGGCCTATGGGCAGCAGTACTGGGGGCAGCCTGGAACCAGAGGGgtgagtgcacatccttctttactcctccttccaccctgttcctctaactg Alignment from Exonerate_protein2genome TGGGCGGGCAGCGCCGAGGCTACGAC-AACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG cagctgatttctttgtgaatctgcaatacaagctttctcttttcatttagTGGGTGGACAGCACCGAGGCTATGACCAACCAGGCCTATGGGCAGCAGTACTGGGGGCAGCCTGGAACCAGAGGGgtgagtgcacatccttctttactcctccttccaccctgttcctctaactg Alignment from Exonerate_coding2genome TGGGCGGGCAGCGCCGAGGCTACGAC-AACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG cagctgatttctttgtgaatctgcaatacaagctttctcttttcatttagTGGGTGGACAGCACCGAGGCTATGACCAACCAGGCCTATGGGCAGCAGTACTGGGGGCAGCCTGGAACCAGAGGGgtgagtgcacatccttctttactcctccttccaccctgttcctctaactg Alignment from GeneWise TGGGCGGGCAGCGCCGAGGCTACGAC-AACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG cagctgatttctttgtgaatctgcaatacaagctttctcttttcatttagTGGGTGGACAGCACCGAGGCTATGACCAACCAGGCCTATGGGCAGCAGTACTGGGGGCAGCCTGGAACCAGAGGGgtgagtgcacatccttctttactcctccttccaccctgttcctctaactg #### Hoga1_ID8382_5 --> 0 - 1 Original Alignment GTGACCAGGATTGGACTGATAGTTCAC---AAGACCAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGC-TTCCTCCTGGCCAGCTATGCTGTGg taaatgtaatggggagaggaggatcattctcatttctcttttttgtgaagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATTTTCAGGTACTGGCAGGGTCTGTTGGCCTCCCTTCTAGCTAGCTATTCTGTAggtaacgttgctgtcagttctaaaccaccagctccaaccaagccctgttgc Alignment from CESAR GTGACCAGGATTGGACTGATAGTT---CACAAGACCAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTC-CTCCTGGCCAGCTATGCTGTGg taaatgtaatggggagaggaggatcattctcatttctcttttttgtgaagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATTTTCAGGTACTGGCAGGGTCTGTTGGCCTCCCTTCTAGCTAGCTATTCTGTAggtaacgttgctgtcagttctaaaccaccagctccaaccaagccctgttgc Alignment from Spaln_aa2Genome GTGACCAGGATTGGACTGATAGTT---CACAAGACCAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGG taaatgtaatggggagaggaggatcattctcatttctcttttttgtgaagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATTTTCAGGTACTGGCAGGGTCTGTTGGCCTCCCTTCTAgctagctattctgtaggtaacgttgctgtcagttctaaaccaccagctccaaccaagccctgttgc Alignment from Spaln_nt2Genome GTGACCAGGATTGGACTGATAGT---TCACAAGACCAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCC-TCCTGGCCAGCTATGCTGTGG taaatgtaatggggagaggaggatcattctcatttctcttttttgtgaagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATTTTCAGGTACTGGCAGGGTCTGTTGGCCTCCCTTCTAGCTAGCTATTCTGTAGgtaacgttgctgtcagttctaaaccaccagctccaaccaagccctgttgc Alignment from Pairagon GTGACCAGGATTGGACTGATAGT---TCACAAGACCAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGG-CTTCCTCCTGGCCAGCTATGCTGTGG taaatgtaatggggagaggaggatcattctcatttctcttttttgtgaagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATTTTCAGGTACTGGCAGGGTCTGTTGGCCTCCCTTCTAGCTAGCTATTCTGTAGgtaacgttgctgtcagttctaaaccaccagctccaaccaagccctgttgc Alignment from Exonerate_protein2genome GTGACCAGGATTGGACTGATAGTT---CACAAGACCAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTC-CTCCTGGCCAGCTATGCTGTGG taaatgtaatggggagaggaggatcattctcatttctcttttttgtgaagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATTTTCAGGTACTGGCAGGGTCTGTTGGCCTCCCTTCTAGCTAGCTATTCTGTAGgtaacgttgctgtcagttctaaaccaccagctccaaccaagccctgttgc Alignment from Exonerate_coding2genome GTGACCAGGATTGGACTGATAGTT---CACAAGACCAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTC-CTCCTGGCCAGCTATGCTGTGG taaatgtaatggggagaggaggatcattctcatttctcttttttgtgaagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATTTTCAGGTACTGGCAGGGTCTGTTGGCCTCCCTTCTAGCTAGCTATTCTGTAGgtaacgttgctgtcagttctaaaccaccagctccaaccaagccctgttgc Alignment from GeneWise GTGACCAGGATTGGACTGATAGTTCAC---AAGACCAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGC-TTCCTCCTGGCCAGCTATGCTGTGG taaatgtaatggggagaggaggatcattctcatttctcttttttgtgaagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATTTTCAGGTACTGGCAGGGTCTGTTGGCCTCCCTTCTAGCTAGCTATTCTGTAGgtaacgttgctgtcagttctaaaccaccagctccaaccaagccctgttgc #### Hps1_ID8615_13 --> 1 - 2 Original Alignment gCTGCTCCAGGTCTGTGGAAAGCTGAAGCGA-CAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGaa gccaatatattttctgtggattacatcttactttgtttttatatatacaggTTCCTCCAGGTCTGTGGGAAGTTAAAGCGACCAGTTGTGTATAATGTACCAGCTCAGCTACCTGGTCACAGCACCCAGCAGAGGAGGGCCACACCTGCCCCAGCATATACAGGAC---CCCCAAAAA---ATGaagtagggggaccatgcccaaaaacttgtcaagctaggtcattatgtctgag Alignment from CESAR gCTGCTCCAGGTCTGTGGAAAGCTGAAGCGA-CAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGaa gccaatatattttctgtggattacatcttactttgtttttatatatacaggTTCCTCCAGGTCTGTGGGAAGTTAAAGCGACCAGTTGTGTATAATGTACCAGCTCAGCTACCTGGTCACAGCACCCAGCAGAGGAGGGCCACACCTGCCCCAGCATATACAGGAC---CCCCAAAAA---ATGaagtagggggaccatgcccaaaaacttgtcaagctaggtcattatgtctgag Alignment from Spaln_aa2Genome GCTGCTCCAGGTCTGTGGAAAGCTGAAGCGA-CAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGAA gccaatatattttctgtggattacatcttactttgtttttatatatacagGTTCCTCCAGGTCTGTGGGAAGTTAAAGCGAcCAGTTGTGTATAATGTACCAGCTCAGCTACCTGGTCACAGCACCCAGCAGAGGAGGGCCACACCTGCCCCAGCATATACAGGAC---CCCCAAAAA---ATGAAgtagggggaccatgcccaaaaacttgtcaagctaggtcattatgtctgag Alignment from Spaln_nt2Genome GCTGCTCCAGGTCTGTGGAAAGCTGAAGCGAC-AGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGAA gccaatatattttctgtggattacatcttactttgtttttatatatacagGTTCCTCCAGGTCTGTGGGAAGTTAAAGCGACCAGTTGTGTATAATGTACCAGCTCAGCTACCTGGTCACAGCACCCAGCAGAGGAGGGCCACACCTGCCCCAGCATATACAGGACC---CCCAAAAA---ATGAAgtagggggaccatgcccaaaaacttgtcaagctaggtcattatgtctgag Alignment from Pairagon GCTGCTCCAGGTCTGTGGAAAGCTGAAGCGA-CAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGAA gccaatatattttctgtggattacatcttactttgtttttatatatacagGTTCCTCCAGGTCTGTGGGAAGTTAAAGCGACCAGTTGTGTATAATGTACCAGCTCAGCTACCTGGTCACAGCACCCAGCAGAGGAGGGCCACACCTGCCCCAGCATATACAGGACC---CCCAAAAA---ATGAAgtagggggaccatgcccaaaaacttgtcaagctaggtcattatgtctgag Alignment from Exonerate_protein2genome GCTGCTCCAGGTCTGTGGAAAGCTGAAGCGA-CAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGAA gccaatatattttctgtggattacatcttactttgtttttatatatacagGTTCCTCCAGGTCTGTGGGAAGTTAAAGCGACCAGTTGTGTATAATGTACCAGCTCAGCTACCTGGTCACAGCACCCAGCAGAGGAGGGCCACACCTGCCCCAGCATATACAGGAC---CCCCAAAAAATGAAGTAgggggaccatgcccaaaaacttgtcaagctaggtcattatgtctgag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GCTGCTCCAGGTCTGTGGAAAGCTGAAGCGA-CAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGAA gccaatatattttctgtggattacatcttactttgtttttatatatacagGTTCCTCCAGGTCTGTGGGAAGTTAAAGCGACCAGTTGTGTATAATGTACCAGCTCAGCTACCTGGTCACAGCACCCAGCAGAGGAGGGCCACACCTGCCCCAGCATATACAGGAC---CCCCAAAAA---ATGAAgtagggggaccatgcccaaaaacttgtcaagctaggtcattatgtctgag #### Hps1_ID8616_12 --> 0 - 2 Original Alignment AACACCTGGCTGGAG-TTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGga tttgtggggaacactcccttatgcatttctgggtctatgtgtttattcagAATGCCTGGCTGGAACTTTAAGAGTAAAGTCTTTTCTAAGGGTCAGCCAGGTTCATCGTGGgagtatgcctataaagtcaaagattatatacagtcattggccttgttttccc Alignment from CESAR AACACCTGGCTGGAG-TTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGga tttgtggggaacactcccttatgcatttctgggtctatgtgtttattcagAATGCCTGGCTGGAACTTTAAGAGTAAAGTCTTTTCTAAGGGTCAGCCAGGTTCATCGTGGgagtatgcctataaagtcaaagattatatacagtcattggccttgttttccc Alignment from Spaln_aa2Genome AACACCTGGCTGGAG-TTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGGA tttgtggggaacactcccttatgcatttctgggtctatgtgtttattcagAATGCCTGGCTGGAAcTTTAAGAGTAAAGTCTTTTCTAAGGGTCAGCCAGGTTCATCGTGGGAgtatgcctataaagtcaaagattatatacagtcattggccttgttttccc Alignment from Spaln_nt2Genome AACACCTGGCTGGAG-TTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGGA tttgtggggaacactcccttatgcatttctgggtctatgtgtttattcagAATGCCTGGCTGGAACTTTAAGAGTAAAGTCTTTTCTAAGGGTCAGCCAGGTTCATCGTGGGAgtatgcctataaagtcaaagattatatacagtcattggccttgttttccc Alignment from Pairagon AACACCTGGCTGGAG-TTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGGA tttgtggggaacactcccttatgcatttctgggtctatgtgtttattcagAATGCCTGGCTGGAACTTTAAGAGTAAAGTCTTTTCTAAGGGTCAGCCAGGTTCATCGTGGGAgtatgcctataaagtcaaagattatatacagtcattggccttgttttccc Alignment from Exonerate_protein2genome AACACCTGGCTGGAG-TTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGGA tttgtggggaacactcccttatgcatttctgggtctatgtgtttattcagAATGCCTGGCTGGAACTTTAAGAGTAAAGTCTTTTCTAAGGGTCAGCCAGGTTCATCGTGGGAgtatgcctataaagtcaaagattatatacagtcattggccttgttttccc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise tttgtggggaacactcccttatgcatttctgggtctatgtgtttattcagaatgcctggctggaactttaagagtaaagtcttttctaagggtcagccaggttcatcgtgggagtatgcctataaagtcaaagattatatacagtcattggccttgttttccc #### Hps1_ID8621_7 --> 0 - 0 Original Alignment AGGAGACCCAAGAGCAGCCAAAAC-ATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tgtgctatgctattctgctccatcattaaagcgcctgttcttctccacagAGGCGTCCAAAGAGTAGCCAAAATCATACCAGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGGTTGTAAGGAGACAgtgggtcctaggctgtaagcaaaatagggtgtactctctgctgtctcatc Alignment from CESAR AGGAGACCCAAGAGCAGCCAAAAC-ATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tgtgctatgctattctgctccatcattaaagcgcctgttcttctccacagAGGCGTCCAAAGAGTAGCCAAAATCATACCAGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGGTTGTAAGGAGACAgtgggtcctaggctgtaagcaaaatagggtgtactctctgtgacactcta Alignment from Spaln_aa2Genome AGGAGACCCAAGAGCAGCCAAAAC-ATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tgtgctatgctattctgctccatcattaaagcgcctgttcttctccacagAGGCGTCCAAAGAGTAGCCAAAATcATACCAGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGGTTGTAAGGAGACAgtgggtcctaggctgtaagcaaaatagggtgtactctctgctgtctcatc Alignment from Spaln_nt2Genome AGGAGACCCAAGAGCAGCCAAAA-CATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tgtgctatgctattctgctccatcattaaagcgcctgttcttctccacagAGGCGTCCAAAGAGTAGCCAAAATCATACCAGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGGTTGTAAGGAGACAgtgggtcctaggctgtaagcaaaatagggtgtactctctgctgtctcatc Alignment from Pairagon AGGAGACCCAAGAGCAGCCAAAA-CATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACAGACACAGACAGCATCTCCCT------------------------------ tgtgctatgctattctgctccatcattaaagcgcctgttcttctccacagAGGCGTCCAAAGAGTAGCCAAAATCATACCAGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGGTTGTAAGGAGACAG------------------TGGGTCCTAGGCTGTAAGCAAAATAGGGTGT Alignment from Exonerate_protein2genome GACAGCCCTCAGAGGAGACCCAAGAGCAGCCAAAAC-ATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tgtgctatgctattctgctccatcattaaagcgcctgtTCTTCTCCACAGAGGCGTCCAAAGAGTAGCCAAAATCATACCAGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGGTTGTAAGGAGACAgtgggtcctaggctgtaagcaaaatagggtgtactctctgctgtctcatc Alignment from Exonerate_coding2genome AGGAGACCCAAGAGCAGCCAAAAC-ATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tgtgctatgctattctgctccatcattaaagcgcctgttcttctccacagAGGCGTCCAAAGAGTAGCCAAAATCATACCAGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGGTTGTAAGGAGACAgtgggtcctaggctgtaagcaaaatagggtgtactctctgctgtctcatc Alignment from GeneWise AGGAGACCCAAGAGCAGCCAAAAC-ATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tgtgctatgctattctgctccatcattaaagcgcctgttcttctccacagAGGCGTCCAAAGAGTAGCCAAAATCATACCAGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGGTTGTAAGGAGACAgtgggtcctaggctgtaagcaaaatagggtgtactctctgctgtctcatc #### Incenp_ID2608_11 --> 1 - 0 Original Alignment gAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAG-AAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAG tgagcccctcagaagttacagaggctctcataacattttcttcttgccaggAAGCGTGAAGAGCGGCTCCGCAAGGTGTTGCAAGCCCGTGAGAGGGTAGAACAAATGAAAGAGGAGAGGAAGCAAGCAGATTGAGCAGAAGTTTGCTCAAATTGATGAGAAGACAGAAAAAgtgggtctgccatataacacagtgacacagggcagtgccttcctttggat Alignment from CESAR gAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAG-AAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAG tgagcccctcagaagttacagaggctctcataacattttcttcttgccaggAAGCGTGAAGAGCGGCTCCGCAAGGTGTTGCAAGCCCGTGAGAGGGTAGAACAAATGAAAGAGGAGAGGAAGCAAGCAGATTGAGCAGAAGTTTGCTCAAATTGATGAGAAGACAGAAAAAgtgggtctgccatataacacagtgacacagggcagtgccttcctttggat Alignment from Spaln_aa2Genome GAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAG-AAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAG tgagcccctcagaagttacagaggctctcataacattttcttcttgccagGAAGCGTGAAGAGCGGCTCCGCAAGGTGTTGCAAGCCCGTGAGAGGGTAGAACAAATGAAAGAGGAGAGGAAGcAAGCAGATTGAGCAGAAGTTTGCTCAAATTGATGAGAAGACAGAAAAAgtgggtctgccatataacacagtgacacagggcagtgccttcctttggat Alignment from Spaln_nt2Genome GAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAG-AAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAG tgagcccctcagaagttacagaggctctcataacattttcttcttgccagGAAGCGTGAAGAGCGGCTCCGCAAGGTGTTGCAAGCCCGTGAGAGGGTAGAACAAATGAAAGAGGAGAGGAAGCAAGCAGATTGAGCAGAAGTTTGCTCAAATTGATGAGAAGACAGAAAAAgtgggtctgccatataacacagtgacacagggcagtgccttcctttggat Alignment from Pairagon GAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAG-AAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAG tgagcccctcagaagttacagaggctctcataacattttcttcttgccagGAAGCGTGAAGAGCGGCTCCGCAAGGTGTTGCAAGCCCGTGAGAGGGTAGAACAAATGAAAGAGGAGAGGAAGCAAGCAGATTGAGCAGAAGTTTGCTCAAATTGATGAGAAGACAGAAAAAgtgggtctgccatataacacagtgacacagggcagtgccttcctttggat Alignment from Exonerate_protein2genome GAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAG-AAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAG tgagcccctcagaagttacagaggctctcataacattttcttcttgccagGAAGCGTGAAGAGCGGCTCCGCAAGGTGTTGCAAGCCCGTGAGAGGGTAGAACAAATGAAAGAGGAGAGGAAGCAAGCAGATTGAGCAGAAGTTTGCTCAAATTGATGAGAAGACAGAAAAAgtgggtctgccatataacacagtgacacagggcagtgccttcctttggat Alignment from Exonerate_coding2genome GAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAG-AAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAG tgagcccctcagaagttacagaggctctcataacattttcttcttgccagGAAGCGTGAAGAGCGGCTCCGCAAGGTGTTGCAAGCCCGTGAGAGGGTAGAACAAATGAAAGAGGAGAGGAAGCAAGCAGATTGAGCAGAAGTTTGCTCAAATTGATGAGAAGACAGAAAAAgtgggtctgccatataacacagtgacacagggcagtgccttcctttggat Alignment from GeneWise GAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAG-AAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAG tgagcccctcagaagttacagaggctctcataacattttcttcttgccagGAAGCGTGAAGAGCGGCTCCGCAAGGTGTTGCAAGCCCGTGAGAGGGTAGAACAAATGAAAGAGGAGAGGAAGCAAGCAGATTGAGCAGAAGTTTGCTCAAATTGATGAGAAGACAGAAAAAgtgggtctgccatataacacagtgacacagggcagtgccttcctttggat #### Incenp_ID2614_5 --> 1 - 0 Original Alignment cCTGGAGCAGGAGCCTGTCGAGGTGGCCGAACCT-GAGGAGGCAGAAGAGGAGCAAGAG tggagcctctttctaccatgaagatatacttctttactatggttgcacagcCTGGAGCAGGAGCCGGTTGAGGTTACTGAGCCTCGAAGATACAGAAGAGGAGCAAGAGgtgagcgtgctcctgggccaactcttactcccctcagcttatggggcagt Alignment from CESAR cCTGGAGCAGGAGCCTGTCGAGGTGGCCGAACCT-GAGGAGGCAGAAGAGGAGCAAGAG tggagcctctttctaccatgaagatatacttctttactatggttgcacagcCTGGAGCAGGAGCCGGTTGAGGTTACTGAGCCTCGAAGATACAGAAGAGGAGCAAGAGgtgagcgtgctcctgggccaactcttactcccctcagcttatggggcagt Alignment from Spaln_aa2Genome CCTGGAGCAGGAGCCTGTCGAGGTGGCCGAACCT-GAGGAGGCAGAAGAGGAGCAAGAG tggagcctctttctaccatgaagatatacttctttactatggttgcacagCCTGGAGCAGGAGCCGGTTGAGGTTACTGAGCCTcGAAGATACAGAAGAGGAGCAAGAGgtgagcgtgctcctgggccaactcttactcccctcagcttatggggcagt Alignment from Spaln_nt2Genome CCTGGAGCAGGAGCCTGTCGAGGTGGCCGAACCT-GAGGAGGCAGAAGAGGAGCAAGAG tggagcctctttctaccatgaagatatacttctttactatggttgcacagCCTGGAGCAGGAGCCGGTTGAGGTTACTGAGCCTCGAAGATACAGAAGAGGAGCAAGAGgtgagcgtgctcctgggccaactcttactcccctcagcttatggggcagt Alignment from Pairagon CCTGGAGCAGGAGCCTGTCGAGGTGGCCGAACCT-GAGGAGGCAGAAGAGGAGCAAGAG tggagcctctttctaccatgaagatatacttctttactatggttgcacagCCTGGAGCAGGAGCCGGTTGAGGTTACTGAGCCTCGAAGATACAGAAGAGGAGCAAGAGgtgagcgtgctcctgggccaactcttactcccctcagcttatggggcagt Alignment from Exonerate_protein2genome CCTGGAGCAGGAGCCTGTCGAGGTGGCCGAACCT-GAGGAGGCAGAAGAGGAGCAAGAG tggagcctctttctaccatgaagatatacttctttactatggttgcacagCCTGGAGCAGGAGCCGGTTGAGGTTACTGAGCCTCGAAGATACAGAAGAGGAGCAAGAGgtgagcgtgctcctgggccaactcttactcccctcagcttatggggcagt Alignment from Exonerate_coding2genome CCTGGAGCAGGAGCCTGTCGAGGTGGCCGAACCT-GAGGAGGCAGAAGAGGAGCAAGAG tggagcctctttctaccatgaagatatacttctttactatggttgcacagCCTGGAGCAGGAGCCGGTTGAGGTTACTGAGCCTCGAAGATACAGAAGAGGAGCAAGAGgtgagcgtgctcctgggccaactcttactcccctcagcttatggggcagt Alignment from GeneWise CCTGGAGCAGGAGCCTGTCGAGGTGGCCGAACCT-GAGGAGGCAGAAGAGGAGCAAGAG tggagcctctttctaccatgaagatatacttctttactatggttgcacagCCTGGAGCAGGAGCCGGTTGAGGTTACTGAGCCTCGAAGATACAGAAGAGGAGCAAGAGgtgagcgtgctcctgggccaactcttactcccctcagcttatggggcagt #### Kank1_ID5464_10 --> 0 - 0 Original Alignment GATGGCAGCACC-GCTCTCTCCATAGCCCTGGAAGCTGGACACAAGGACATTGCCGTTCTTCTGTAC---------------------GCCCACCTCAACTTCTCGAAAGCCCAGTCCCCG aatatcctgggacgctttccaatcatggctctttcttccttgcctttcagGATAGTAGT---CGCCCTTTCCATTGCCCTAGAAGCAGGACATAACGACATAGCCATTCTGTTGTATGACATTGCCATCCTGCTGTATGCACACTTAAACTTCTCGAAAGCCCAGTCCCCGgcaaggcaggttatctggcaaagattgctttaaatgcagcaatctaagtg Alignment from CESAR GATGGCAGCACCGCTCTCTCCATAGCCCTGGAAGCTGGACACAAGGAC---------------------ATTGCCGTTCTTCTGTACGCCCACCTCAACTTCTCGAAAGCCCAGTCCCCG aatatcctgggacgctttccaatcatggctctttcttccttgcctttcagGATAGTAGT--CGCCCTTTCCATTGCCCTAGAAGCAGGACATAACGACATAGCCATTCTGTTGTATGACATTGCCATCCTGCTGTATGCACACTTAAACTTCTCGAAAGCCCAGTCCCCGgcaaggcaggttatctggcaaagattgctttaaatgcagcaatctaagtg Alignment from Spaln_aa2Genome GCACCGCTCTCTCCATAGCCCTGGAAGCTGGACACAAGGAC---------------------ATTGCCGTTCTTCTGTACGCCCACCTCAACTTCTCGAAAGCCCAGTCCCCG aatatcctgggacgctttccaatcatggctctttcttccttgcctttcaggatagTAGTCGCCCTTTCCATTGCCCTAGAAGCAGGACATAACGACATAGCCATTCTGTTGTATGACATTGCCATCCTGCTGTATGCACACTTAAACTTCTCGAAAGCCCAGTCCCCGgcaaggcaggttatctggcaaagattgctttaaatgcagcaatctaagtg Alignment from Spaln_nt2Genome GATGGCAGCACCGCTCTCTCCATAGCCCTGGAAGCTGGACACAAGGACATTGCCGTTCTT---------------------CTGTACGCCCACCTCAACTTCTCGAAAGCCCAGTCCCCG aatatcctgggacgctttccaatcatggctctttcttccttgcctttcagGATAGTAG--TCGCCCTTTCCATTGCCCTAGAAGCAGGACATAACGACATAGCCATTCTGTTGTATGACATTGCCATCCTGCTGTATGCACACTTAAACTTCTCGAAAGCCCAGTCCCCGgcaaggcaggttatctggcaaagattgctttaaatgcagcaatctaagtg Alignment from Pairagon GATGGCAGCACCGCTCTCTCCATAGCCCTGGAAGCTGGACACAAG---------------------GACATTGCCGTTCTTCTGTACGCCCACCTCAACTTCTCGAAAGCCCAGTCCCCG aatatcctgggacgctttccaatcatggctctttcttccttgcctttcagGATAGTAG--TCGCCCTTTCCATTGCCCTAGAAGCAGGACATAACGACATAGCCATTCTGTTGTATGACATTGCCATCCTGCTGTATGCACACTTAAACTTCTCGAAAGCCCAGTCCCCGgcaaggcaggttatctggcaaagattgctttaaatgcagcaatctaagtg Alignment from Exonerate_protein2genome TGGCAGCACCGCTCTCTCCATAGCCCTGGAAGCTGGACACAAGGACATTGCCGTTCTTCTGTAC aatatcctgggacgctttccaatcatggctctttcttccttgcctttcagGATAGTAGTCGCCCTTTCCATTGCCCTAGAAGCAGGACATAACGACATAGCCATTCTGTTGTATgacattgccatcctgctgtatgcacacttaaacttctcgaaagcccagtccccggcaaggcaggttatctggcaaagattgctttaaatgcagcaatctaagtg Alignment from Exonerate_coding2genome aatatcctgggacgctttccaatcatggctctttcttccttgcctttcaggatagtagtcgccctttccattgccctagaagcaggacataacgacatagccattctgttgtatgacattgccatcctgctgtatgcacacttaaacttctcgaaagcccagtccccggcaaggcaggttatctggcaaagattgctttaaatgcagcaatctaagtg Alignment from GeneWise GCAGCACCGCTCTCTCCATAGCCCTGGAAGCTGGACACAAG---------------------GACATTGCCGTTCTTCTGTACGCCCACCTCAACTTCTCGAAAGCCCAGTCCCCG--------- aatatcctgggacgctttccaatcatggctctttcttccttgcctttcaggatagTA---GTCGCCCTTTCCATTGCCCTAGAAGCAGGACATAACGACATAGCCATTCTGTTGTATGACATTGCCATCCTGCTGTATGCACACTTAAACTTCTCGAAAGCCCAGTCCCCGGCAAGGCAGgttatctggcaaagattgctttaaatgcagcaatctaagtg #### Kat5_ID1109_13 --> 1 - 0 Original Alignment tGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTC-ATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtggtatggtctacacagatgtaaactgccctccatatcccctctcctagtGAGATTAGTGAAATTACTAGTATTAAGAAAGAAGATGTCCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGgtaagtgggcacaattaacttgatgacaaaacttgcttatacttaaacgt Alignment from CESAR tGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTC-ATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtggtatggtctacacagatgtaaactgccctccatatcccctctcctagtGAGATTAGTGAAATTACTAGTATTAAGAAAGAAGATGTCCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGgtaagtgggcacaattaacttgatgacaaaacttgcttatacttaaacgt Alignment from Spaln_aa2Genome TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTC-ATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtggtatggtctacacagatgtaaactgccctccatatcccctctcctagTGAGATTAGTGAAATTACTAGTATTAAGAAAGAAGATGTCcATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGgtaagtgggcacaattaacttgatgacaaaacttgcttatacttaaacgt Alignment from Spaln_nt2Genome TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTC-ATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtggtatggtctacacagatgtaaactgccctccatatcccctctcctagTGAGATTAGTGAAATTACTAGTATTAAGAAAGAAGATGTCCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGgtaagtgggcacaattaacttgatgacaaaacttgcttatacttaaacgt Alignment from Pairagon TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGT-CATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtggtatggtctacacagatgtaaactgccctccatatcccctctcctagTGAGATTAGTGAAATTACTAGTATTAAGAAAGAAGATGTCCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGgtaagtgggcacaattaacttgatgacaaaacttgcttatacttaaacgt Alignment from Exonerate_protein2genome TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTC-ATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtggtatggtctacacagatgtaaactgccctccatatcccctctcctagTGAGATTAGTGAAATTACTAGTATTAAGAAAGAAGATGTCCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGgtaagtgggcacaattaacttgatgacaaaacttgcttatacttaaacgt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGAT-GTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtggtatggtctacacagatgtaaactgccctccatatcccctctcctagTGAGATTAGTGAAATTACTAGTATTAAGAAAGAAGATGTCCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGgtaagtgggcacaattaacttgatgacaaaacttgcttatacttaaacgt #### Kat5_ID1110_12 --> 2 - 2 Original Alignment gcTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCG-GAGAGCGGGGAGAGGCCACAGATCACCATCaa cctgtaccagggaagaatgtctgcagggtggatccttttccctcccataggcTATGAACTCTCAAAAGTAGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTTATGGGGCTGAAGTCACGAGAGTGGGGAGAGGCCCCAGATCACCATCaagtaagtgaaagtgctaataagcaggatgtggtatggtctacacagatgta Alignment from CESAR gcTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCG-GAGAGCGGGGAGAGGCCACAGATCACCATCaa cctgtaccagggaagaatgtctgcagggtggatccttttccctcccataggcTATGAACTCTCAAAAGTAGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTTATGGGGCTGAAGTCACGAGAGTGGGGAGAGGCCCCAGATCACCATCaagtaagtgaaagtgctaataagcaggatgtggtatggtctacacagatgta Alignment from Spaln_aa2Genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCG-GAGAGCGGGGAGAGGCCACAGATCACCATCAA cctgtaccagggaagaatgtctgcagggtggatccttttccctcccatagGCTATGAACTCTCAAAAGTAGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTTATGGGGCTGAAGTCAcGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtaagtgaaagtgctaataagcaggatgtggtatggtctacacagatgta Alignment from Spaln_nt2Genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCG-GAGAGCGGGGAGAGGCCACAGATCACCATCAA cctgtaccagggaagaatgtctgcagggtggatccttttccctcccatagGCTATGAACTCTCAAAAGTAGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTTATGGGGCTGAAGTCACGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtaagtgaaagtgctaataagcaggatgtggtatggtctacacagatgta Alignment from Pairagon GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCG-GAGAGCGGGGAGAGGCCACAGATCACCATCAA cctgtaccagggaagaatgtctgcagggtggatccttttccctcccatagGCTATGAACTCTCAAAAGTAGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTTATGGGGCTGAAGTCACGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtaagtgaaagtgctaataagcaggatgtggtatggtctacacagatgta Alignment from Exonerate_protein2genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCG-GAGAGCGGGGAGAGGCCACAGATCACCATCAA cctgtaccagggaagaatgtctgcagggtggatccttttccctcccatagGCTATGAACTCTCAAAAGTAGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTTATGGGGCTGAAGTCACGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtaagtgaaagtgctaataagcaggatgtggtatggtctacacagatgta Alignment from Exonerate_coding2genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCG-GAGAGCGGGGAGAGGCCACAGATCACCATCAA cctgtaccagggaagaatgtctgcagggtggatccttttccctcccatagGCTATGAACTCTCAAAAGTAGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTTATGGGGCTGAAGTCACGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtaagtgaaagtgctaataagcaggatgtggtatggtctacacagatgta Alignment from GeneWise GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAG-TCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA cctgtaccagggaagaatgtctgcagggtggatccttttccctcccatagGCTATGAACTCTCAAAAGTAGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTTATGGGGCTGAAGTCACGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtaagtgaaagtgctaataagcaggatgtggtatggtctacacagatgta #### Kat5_ID1115_7 --> 0 - 0 Original Alignment AATGGGTCAGCCCGTAGG---GCAGTGGCAGCCCAGCCTGGACGGAAGCGG-AAATCTAATTGCTTGGGCACTGATGAG atctcatgcatgctgtaggaccttctcaatagtttattctgtctttccagAATGGGTCAACTTGTAGAGCTGCTGTAGCAGCTCAGGCTGGGTGGAAATGTCAAATCTAACTGCTTAGGCACTGACGAGgtagagccaggcacccaagcagggctggacttaaatttaatttctgattg Alignment from CESAR AATGGGTCAGCCCGTAGGGCA---GTGGCAGCCCAGCCTGGACGGAAGCGG-AAATCTAATTGCTTGGGCACTGATGAG atctcatgcatgctgtaggaccttctcaatagtttattctgtctttccagAATGGGTCAACTTGTAGAGCTGCTGTAGCAGCTCAGGCTGGGTGGAAATGTCAAATCTAACTGCTTAGGCACTGACGAGgtagagccaggcacccaagcagggctggacttaaatttaatttctgattg Alignment from Spaln_aa2Genome AATGGGTCAGCCCGTAGG---GCAGTGGCAGCCCAGCCTGGACGGAAGCGG-AAATCTAATTGCTTGGGCACTGATGAG atctcatgcatgctgtaggaccttctcaatagtttattctgtctttccagAATGGGTCAACTTGTAGAGCTGCTGTAGCAGCTCAGGCTGGGTGGAAATGTcAAATCTAACTGCTTAGGCACTGACGAGgtagagccaggcacccaagcagggctggacttaaatttaatttctgattg Alignment from Spaln_nt2Genome AATGGGTCAGCCCGTAGGGCAG---TGGCAGCCCAGCCTGGACGGAAGCGG-AAATCTAATTGCTTGGGCACTGATGAG atctcatgcatgctgtaggaccttctcaatagtttattctgtctttccagAATGGGTCAACTTGTAGAGCTGCTGTAGCAGCTCAGGCTGGGTGGAAATGTCAAATCTAACTGCTTAGGCACTGACGAGgtagagccaggcacccaagcagggctggacttaaatttaatttctgattg Alignment from Pairagon AATGGGTCAGCCCGTAGG---GCAGTGGCAGCCCAGCCTGGACGGAAGCG-GAAATCTAATTGCTTGGGCACTGATGAG atctcatgcatgctgtaggaccttctcaatagtttattctgtctttccagAATGGGTCAACTTGTAGAGCTGCTGTAGCAGCTCAGGCTGGGTGGAAATGTCAAATCTAACTGCTTAGGCACTGACGAGgtagagccaggcacccaagcagggctggacttaaatttaatttctgattg Alignment from Exonerate_protein2genome AATGGGTCA---GCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAG-CGGAAATCTAATTGCTTGGGCACTGATGAG atctcatgcatgctgtaggaccttctcaatagtttattctgtctttccagAATGGGTCAACTTGTAGAGCTGCTGTAGCAGCTCAGGCTGGGTGGAAATGTCAAATCTAACTGCTTAGGCACTGACGAGgtagagccaggcacccaagcagggctggacttaaatttaatttctgattg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise atctcatgcatgctgtaggaccttctcaatagtttattctgtctttccagaatgggtcaacttgtagagctgctgtagcagctcaggctgggtggaaatgtcaaatctaactgcttaggcactgacgaggtagagccaggcacccaagcagggctggacttaaatttaatttctgattg #### Kat5_ID1120_2 --> 0 - 1 Original Alignment GGGGAGATAATC-GAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGc ggtaaccaagggctaccaatacacatcccttccattaccttggcccacagGGTGAGATAATTCGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATCAAGATAATGAAGATGAGTGGcgtgagggtgtcctgagggttagtctgaaggagcaaagggcaaggtcccag Alignment from CESAR GGGGAGATAATC-GAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGc ggtaaccaagggctaccaatacacatcccttccattaccttggcccacagGGTGAGATAATTCGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATCAAGATAATGAAGATGAGTGGcgtgagggtgtcctgagggttagtctgaaggagcaaagggcaaggtcccag Alignment from Spaln_aa2Genome GGGGAGATAATC-GAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC ggtaaccaagggctaccaatacacatcccttccattaccttggcccacagGGTGAGATAATTcGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATCAAGATAATGAAGATGAGTGGCgtgagggtgtcctgagggttagtctgaaggagcaaagggcaaggtcccag Alignment from Spaln_nt2Genome GGGGAGATAAT-CGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC ggtaaccaagggctaccaatacacatcccttccattaccttggcccacagGGTGAGATAATTCGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATCAAGATAATGAAGATGAGTGGCgtgagggtgtcctgagggttagtctgaaggagcaaagggcaaggtcccag Alignment from Pairagon GGGGGAGATAA-TCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC ggtaaccaagggctaccaatacacatcccttccattaccttggcccacaGGGTGAGATAATTCGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATCAAGATAATGAAGATGAGTGGCgtgagggtgtcctgagggttagtctgaaggagcaaagggcaaggtcccag Alignment from Exonerate_protein2genome ATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC ggtaaccaagggctaccaatacacatcccttccattaccttggcccacagggtgagataaTTCGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATCAAGATAATGAAGATGAGTGGCgtgagggtgtcctgagggttagtctgaaggagcaaagggcaaggtcccag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GCGGAGGTGGGGGAGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC ggtaaccaagggctaccaatacacatcccttccattaccttggcccacagggtgagataa------------------TTCGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATCAAGATAATGAAGATGAGTGGCgtgagggtgtcctgagggttagtctgaaggagcaaagggcaaggtcccag #### Kazald1_ID9301_3 --> 0 - 1 Original Alignment TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTT-GCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAg acagggttattgcccacagagttatgggtccttttggtctccaatgccagTTCAGAGGTGGACCACAAGAATTTAAAGTGACTAGTTCACTACAGATTCAGGCATTGCACCATAGTGATGAAGGCACTTACCGCTGTCTCCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCAGCAACTCTGATAGTACTTACACCAggtgagtattaattgtgggtagcagcatgtggcaggagtcatattttaaga Alignment from CESAR TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTT-GCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAg acagggttattgcccacagagttatgggtccttttggtctccaatgccagTTCAGAGGTGGACCACAAGAATTTAAAGTGACTAGTTCACTACAGATTCAGGCATTGCACCATAGTGATGAAGGCACTTACCGCTGTCTCCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCAGCAACTCTGATAGTACTTACACCAggtgagtattaattgtgggtagcagcatgtggcaggagtcatattttaaga Alignment from Spaln_aa2Genome TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTT-GCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG acagggttattgcccacagagttatgggtccttttggtctccaatgccagTTCAGAGGTGGACCACAAGAATTTAAAGTGACTAGTTCACTACAGATTCAGGCATTGCACCATAGTGATGAAGGCACTTACCGCTGTCTCcACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCAGCAACTCTGATAGTACTTACACCAGgtgagtattaattgtgggtagcagcatgtggcaggagtcatattttaaga Alignment from Spaln_nt2Genome TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTG-CCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG acagggttattgcccacagagttatgggtccttttggtctccaatgccagTTCAGAGGTGGACCACAAGAATTTAAAGTGACTAGTTCACTACAGATTCAGGCATTGCACCATAGTGATGAAGGCACTTACCGCTGTCTCCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCAGCAACTCTGATAGTACTTACACCAGgtgagtattaattgtgggtagcagcatgtggcaggagtcatattttaaga Alignment from Pairagon TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCT-TGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG acagggttattgcccacagagttatgggtccttttggtctccaatgccagTTCAGAGGTGGACCACAAGAATTTAAAGTGACTAGTTCACTACAGATTCAGGCATTGCACCATAGTGATGAAGGCACTTACCGCTGTCTCCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCAGCAACTCTGATAGTACTTACACCAGgtgagtattaattgtgggtagcagcatgtggcaggagtcatattttaaga Alignment from Exonerate_protein2genome TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTT-GCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG acagggttattgcccacagagttatgggtccttttggtctccaatgccagTTCAGAGGTGGACCACAAGAATTTAAAGTGACTAGTTCACTACAGATTCAGGCATTGCACCATAGTGATGAAGGCACTTACCGCTGTCTCCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCAGCAACTCTGATAGTACTTACACCAGgtgagtattaattgtgggtagcagcatgtggcaggagtcatattttaaga Alignment from Exonerate_coding2genome TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTT-GCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG acagggttattgcccacagagttatgggtccttttggtctccaatgccagTTCAGAGGTGGACCACAAGAATTTAAAGTGACTAGTTCACTACAGATTCAGGCATTGCACCATAGTGATGAAGGCACTTACCGCTGTCTCCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCAGCAACTCTGATAGTACTTACACCAGgtgagtattaattgtgggtagcagcatgtggcaggagtcatattttaaga Alignment from GeneWise --------------------------------------------------TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTT-GCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG ACAGGGTTATTGCCCACAGAGTTATGGGTCCTTTTGGTCTCCAATGCCAGTTCAGAGGTGGACCACAAGAATTTAAAGTGACTAGTTCACTACAGATTCAGGCATTGCACCATAGTGATGAAGGCACTTACCGCTGTCTCCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCAGCAACTCTGATAGTACTTACACCAGgtgagtattaattgtgggtagcagcatgtggcaggagtcatattttaaga #### Kcnip2_ID9606_6 --> 2 - 0 Original Alignment acTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAAC-CATGATGGCTCTGTCAGTTTTGAG gagccaagggaatgtagatatgaatccatcattttacttctgctctgcagacTCCAGCAACTATGCTACTTTCCTCTTCAATGCCTTTGACACCAACCCATGATGGCTCTGTTAGTTTTGAAgtgaggcaagaaaaaaggtgcgctaaggaaaccaaccatccccattaact Alignment from CESAR acTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAAC-CATGATGGCTCTGTCAGTTTTGAG gagccaagggaatgtagatatgaatccatcattttacttctgctctgcagacTCCAGCAACTATGCTACTTTCCTCTTCAATGCCTTTGACACCAACCCATGATGGCTCTGTTAGTTTTGAAgtgaggcaagaaaaaaggtgcgctaaggaaaccaaccatccccattaact Alignment from Spaln_aa2Genome ACTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAAC-CATGATGGCTCTGTCAGTTTTGAG gagccaagggaatgtagatatgaatccatcattttacttctgctctgcagACTCCAGCAACTATGCTACTTTCCTCTTCAATGCCTTTGACACCAACcCATGATGGCTCTGTTAGTTTTGAAgtgaggcaagaaaaaaggtgcgctaaggaaaccaaccatccccattaact Alignment from Spaln_nt2Genome ACTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACC-ATGATGGCTCTGTCAGTTTTGAG gagccaagggaatgtagatatgaatccatcattttacttctgctctgcagACTCCAGCAACTATGCTACTTTCCTCTTCAATGCCTTTGACACCAACCCATGATGGCTCTGTTAGTTTTGAAgtgaggcaagaaaaaaggtgcgctaaggaaaccaaccatccccattaact Alignment from Pairagon ACTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAA-CCATGATGGCTCTGTCAGTTTTGAG gagccaagggaatgtagatatgaatccatcattttacttctgctctgcagACTCCAGCAACTATGCTACTTTCCTCTTCAATGCCTTTGACACCAACCCATGATGGCTCTGTTAGTTTTGAAgtgaggcaagaaaaaaggtgcgctaaggaaaccaaccatccccattaact Alignment from Exonerate_protein2genome ACTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAAC-CATGATGGCTCTGTCAGTTTTGAG gagccaagggaatgtagatatgaatccatcattttacttctgctctgcagACTCCAGCAACTATGCTACTTTCCTCTTCAATGCCTTTGACACCAACCCATGATGGCTCTGTTAGTTTTGAAgtgaggcaagaaaaaaggtgcgctaaggaaaccaaccatccccattaact Alignment from Exonerate_coding2genome ACTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAAC-CATGATGGCTCTGTCAGTTTTGAG gagccaagggaatgtagatatgaatccatcattttacttctgctctgcagACTCCAGCAACTATGCTACTTTCCTCTTCAATGCCTTTGACACCAACCCATGATGGCTCTGTTAGTTTTGAAgtgaggcaagaaaaaaggtgcgctaaggaaaccaaccatccccattaact Alignment from GeneWise ACTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACC-AACCATGATGGCTCTGTCAGTTTTGAG gagccaagggaatgtagatatgaatccatcattttacttctgctctgcagACTCCAGCAACTATGCTACTTTCCTCTTCAATGCCTTTGACACCAACCCATGATGGCTCTGTTAGTTTTGAAgtgaggcaagaaaaaaggtgcgctaaggaaaccaaccatccccattaact #### Kcnip2_ID9608_4 --> 2 - 0 Original Alignment acAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAG---TTGCAGGTCCTGTACAGA-GGCTTCAAGAAC tgaagggcttgtgctggtcatgaagtatataatatccttttgcttcatagatAGTGTTGAGGATGAGTTTGAACTGTCAATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAAACACGCCAAGTTTGCACACAGAGAGTTGCTGCAGGTCTTGTATAGACGGGTTCAAGAATgtttgaggggaatgaaaccagctgtgcagtagctgaccctccaagctcct Alignment from CESAR acAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAGTTG---CAGGTCCTGTACAGA-GGCTTCAAGAAC tgaagggcttgtgctggtcatgaagtatataatatccttttgcttcatagatAGTGTTGAGGATGAGTTTGAACTGTCAATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAAACACGCCAAGTTTGCACACAGAGAGTTGCTGCAGGTCTTGTATAGACGGGTTCAAGAATgtttgaggggaatgaaaccagctgtgcagtagctgaccctccaagctcct Alignment from Spaln_aa2Genome ACAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAG---TTGCAGGTCCTGTACAGA-GGCTTCAAGAAC tgaagggcttgtgctggtcatgaagtatataatatccttttgcttcatagATAGTGTTGAGGATGAGTTTGAACTGTCAATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAAACACGCCAAGTTTGCACACAGAGAGTTGCTGCAGGTCTTGTATAGAcGGGTTCAAGAATgtttgaggggaatgaaaccagctgtgcagtagctgaccctccaagctcct Alignment from Spaln_nt2Genome ACAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAGTTGC---AGGTCCTGTACAGA-GGCTTCAAGAAC tgaagggcttgtgctggtcatgaagtatataatatccttttgcttcatagATAGTGTTGAGGATGAGTTTGAACTGTCAATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAAACACGCCAAGTTTGCACACAGAGAGTTGCTGCAGGTCTTGTATAGACGGGTTCAAGAATgtttgaggggaatgaaaccagctgtgcagtagctgaccctccaagctcct Alignment from Pairagon ACAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAGT---TGCAGGTCCTGTACAGA-GGCTTCAAGAAC tgaagggcttgtgctggtcatgaagtatataatatccttttgcttcatagATAGTGTTGAGGATGAGTTTGAACTGTCAATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAAACACGCCAAGTTTGCACACAGAGAGTTGCTGCAGGTCTTGTATAGACGGGTTCAAGAATgtttgaggggaatgaaaccagctgtgcagtagctgaccctccaagctcct Alignment from Exonerate_protein2genome ACAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAG---TTGCAGGTCCTGTACAGA-GGCTTCAAGAAC tgaagggcttgtgctggtcatgaagtatataatatccttttgcttcatagATAGTGTTGAGGATGAGTTTGAACTGTCAATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAAACACGCCAAGTTTGCACACAGAGAGTTGCTGCAGGTCTTGTATAGACGGGTTCAAGAATgtttgaggggaatgaaaccagctgtgcagtagctgaccctccaagctcct Alignment from Exonerate_coding2genome ACAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAG---TTGCAGGTCCTGTACAGA-GGCTTCAAGAAC tgaagggcttgtgctggtcatgaagtatataatatccttttgcttcatagATAGTGTTGAGGATGAGTTTGAACTGTCAATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAAACACGCCAAGTTTGCACACAGAGAGTTGCTGCAGGTCTTGTATAGACGGGTTCAAGAATgtttgaggggaatgaaaccagctgtgcagtagctgaccctccaagctcct Alignment from GeneWise ACAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAGTTG---CAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggcttgtgctggtcatgaagtatataatatccttttgcttcatagATAGTGTTGAGGATGAGTTTGAACTGTCAATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAAACACGCCAAGTTTGCACACAGAGAGTTGCTGCAGGTCTTGTATAGA---------CGGgttcaagaatgtttgaggggaatgaaaccagctgtgcagtagctgaccctccaagctcct #### Kdm2a_ID518_3 --> 2 - 2 Original Alignment atTTTAATGTAGAGTATATCCAGCGGGGTGGCTTG-AGAGACCCTCTCATTTTCAAGAATTCTGATGGACTTGGAATAaa atgatcaccgatctcacagaagtgtgttgtttctgtttttggttttcaagatTTTAATGATGAATATCTACAACAGGGTGGGCTGCAGACACCACCTTATCTTTAAGAATGCAGATGGACTTGGAATCaggtgagacccctgggccataatcctatgataagtgggatgtatgagccaca Alignment from CESAR atTTTAATGTAGAGTATATCCAGCGGGGTGGCTTG-AGAGACCCTCTCATTTTCAAGAATTCTGATGGACTTGGAATAaa atgatcaccgatctcacagaagtgtgttgtttctgtttttggttttcaagatTTTAATGATGAATATCTACAACAGGGTGGGCTGCAGACACCACCTTATCTTTAAGAATGCAGATGGACTTGGAATCaggtgagacccctgggccataatcctatgataagtgggatgtatgagccaca Alignment from Spaln_aa2Genome ATTTTAATGTAGAGTATATCCAGCGGGGTGGCTTGAGAGACCCT-CTCATTTTCAAGAATTCTGATGGACTTGGAATAAA atgatcaccgatctcacagaagtgtgttgtttctgtttttggttttcaagATTTTAATGATGAATATCTACAACAGGGTGGGCTGCAGACACCAcCTTATCTTTAAGAATGCAGATGGACTTGGAATCAGgtgagacccctgggccataatcctatgataagtgggatgtatgagccaca Alignment from Spaln_nt2Genome ATTTTAATGTAGAGTATATCCAGCGGGGTGGCTTG-AGAGACCCTCTCATTTTCAAGAATTCTGATGGACTTGGAATAAA atgatcaccgatctcacagaagtgtgttgtttctgtttttggttttcaagATTTTAATGATGAATATCTACAACAGGGTGGGCTGCAGACACCACCTTATCTTTAAGAATGCAGATGGACTTGGAATCAGgtgagacccctgggccataatcctatgataagtgggatgtatgagccaca Alignment from Pairagon ATTTTAATGTAGAGTATATCCAGCGGGGTGGCTTG-AGAGACCCTCTCATTTTCAAGAATTCTGATGGACTTGGAATAAA atgatcaccgatctcacagaagtgtgttgtttctgtttttggttttcaagATTTTAATGATGAATATCTACAACAGGGTGGGCTGCAGACACCACCTTATCTTTAAGAATGCAGATGGACTTGGAATCAGgtgagacccctgggccataatcctatgataagtgggatgtatgagccaca Alignment from Exonerate_protein2genome ATTTTAATGTAGAGTATATCCAGCGGGGTGGCTTGAGAGACCCT-CTCATTTTCAAGAATTCTGATGGACTTGGAATAAA atgatcaccgatctcacagaagtgtgttgtttctgtttttggttttcaagATTTTAATGATGAATATCTACAACAGGGTGGGCTGCAGACACCACCTTATCTTTAAGAATGCAGATGGACTTGGAATCAGgtgagacccctgggccataatcctatgataagtgggatgtatgagccaca Alignment from Exonerate_coding2genome ATTTTAATGTAGAGTATATCCAGCGGGGTGGCTTGAGAGACCCT-CTCATTTTCAAGAATTCTGATGGACTTGGAATAAA atgatcaccgatctcacagaagtgtgttgtttctgtttttggttttcaagATTTTAATGATGAATATCTACAACAGGGTGGGCTGCAGACACCACCTTATCTTTAAGAATGCAGATGGACTTGGAATCAGgtgagacccctgggccataatcctatgataagtgggatgtatgagccaca Alignment from GeneWise ATTTTAATGTAGAGTATATCCAGCGGGGTGGCTTGAGAGACCCT-CTCATTTTCAAGAATTCTGATGGACTTGGAATAAA atgatcaccgatctcacagaagtgtgttgtttctgtttttggttttcaagATTTTAATGATGAATATCTACAACAGGGTGGGCTGCAGACACCACCTTATCTTTAAGAATGCAGATGGACTTGGAATCAGgtgagacccctgggccataatcctatgataagtgggatgtatgagccaca #### Kif20b_ID6998_3 --> 0 - 0 Original Alignment GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTA---AGTGAGAAGAGCTCT-GGACAGGTGGCACAGAAATTCAGTTTTTCTAAG ctgactataaacacagtctctcactagagtccatgttcctctctgttcag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCGCAGAGTATGCTTGGTCACTTGTTGAGTCAGAAAAGCTCTCGGCCAGGTA---CAGGAATTTAGCTTTTCTAAAgtaggtgtaagtatggtggattgaccacattgaagcctctatcaagagga Alignment from CESAR GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCAC---TTAAGTGAGAAGAGCTCT-GGACAGGTGGCACAGAAATTCAGTTTTTCTAAG ctgactataaacacagtctctcactagagtccatgttcctctctgttcag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCGCAGAGTATGCTTGGTCACTTGTTGAGTCAGAAAAGCTCTCGGCCAGGTA---CAGGAATTTAGCTTTTCTAAAgtaggtgtaagtatggtggattgaccacattgaagcctctatcaagagga Alignment from Spaln_aa2Genome GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCAC---TTAAGTGAGAAGAGCTCT-GGACAGGTGGCACAGAAATTCAGTTTTTCTAAG ctgactataaacacagtctctcactagagtccatgttcctctctgttcag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCGCAGAGTATGCTTGGTCACTTGTTGAGTCAGAAAAGCTCTcGGCCAGGTA---CAGGAATTTAGCTTTTCTAAAgtaggtgtaagtatggtggattgaccacattgaagcctctatcaagagga Alignment from Spaln_nt2Genome GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTA---AGTGAGAAGAGCTCT-GGACAGGTGGCACAGAAATTCAGTTTTTCTAAG ctgactataaacacagtctctcactagagtccatgttcctctctgttcag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCGCAGAGTATGCTTGGTCACTTGTTGAGTCAGAAAAGCTCTCGGCCAGGT---ACAGGAATTTAGCTTTTCTAAAgtaggtgtaagtatggtggattgaccacattgaagcctctatcaagagga Alignment from Pairagon GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCAC---TTAAGTGAGAAGAGCTCT-GGACAGGTGGCACAGAAATTCAGTTTTTCTAAG ctgactataaacacagtctctcactagagtccatgttcctctctgttcag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCGCAGAGTATGCTTGGTCACTTGTTGAGTCAGAAAAGCTCTCGGCCAGGT---ACAGGAATTTAGCTTTTCTAAAgtaggtgtaagtatggtggattgaccacattgaagcctctatcaagagga Alignment from Exonerate_protein2genome GTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAG-GTGGCACAGAAATTCAGTTTTTCTAAG ctgactataaacacagtctctcactagagtccatgttcctctctgttcagGTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCGCAGAGTATGCTTGGTCACTTGTTGAGTCAGAAAAGCTCTCGGCCAGGTACAGGAATTTAGCTTTTCTAAAgtaggtgtaagtatggtggattgaccacattgaagcctctatcaagagga Alignment from Exonerate_coding2genome GTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAG-GTGGCACAGAAATTCAGTTTTTCTAAG ctgactataaacacagtctctcactagagtccatgttcctctctgttcagGTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCGCAGAGTATGCTTGGTCACTTGTTGAGTCAGAAAAGCTCTCGGCCAGGTACAGGAATTTAGCTTTTCTAAAgtaggtgtaagtatggtggattgaccacattgaagcctctatcaagagga Alignment from GeneWise ---CAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCAC---TTAAGTGAGAAGAGC-TCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG ctgactataaacacagtctctcactagagtccatgttcctctctgttcagGTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCGCAGAGTATGCTTGGTCACTTGTTGAGTCAGAAAAGCTCTCGGCCAGGTA---CAGGAATTTAGCTTTTCTAAAgtaggtgtaagtatggtggattgaccacattgaagcctctatcaagagga #### Kif20b_ID7003_8 --> 2 - 2 Original Alignment atCTGCAGTGGGTCCAGGTATCTGACTCTAAAGAAGCATATAGACTCTTAAAACTAGGAGTGAAGCATCAGAGCGTTGCTTTCACCAAA-CTGAACAATGCTTCTAGTAGAag ctacacgttaaattatccactgtacacaaaaccaaaagcccttgctgtagacCTGCAGTGGGTACAGGTATCTGAATCAAAGGAGGCATATAGACTCCTGAAGCTTGGGGTAAAACATAAAAGTGTTGCCTTCTCTAAACTTAAACAATGCTTCTAGCAGGaggtaagttgccttagaaattccaccctaattgatgaagacctaattgccta Alignment from CESAR atCTGCAGTGGGTCCAGGTATCTGACTCTAAAGAAGCATATAGACTCTTAAAACTAGGAGTGAAGCATCAGAGCGTTGCTTTCACCAAACTG-AACAATGCTTCTAGTAGAag ctacacgttaaattatccactgtacacaaaaccaaaagcccttgctgtagacCTGCAGTGGGTACAGGTATCTGAATCAAAGGAGGCATATAGACTCCTGAAGCTTGGGGTAAAACATAAAAGTGTTGCCTTCTCTAAACTTAAACAATGCTTCTAGCAGGaggtaagttgccttagaaattccaccctaattgatgaagacctaattgccta Alignment from Spaln_aa2Genome ATCTGCAGTGGGTCCAGGTATCTGACTCTAAAGAAGCATATAGACTCTTAAAACTAGGAGTGAAGCATCAGAGCGTTGCTTTCACCAAACTG-AACAATGCTTCTAGTAGAAG ctacacgttaaattatccactgtacacaaaaccaaaagcccttgctgtagACCTGCAGTGGGTACAGGTATCTGAATCAAAGGAGGCATATAGACTCCTGAAGCTTGGGGTAAAACATAAAAGTGTTGCCTTCTCTAAACTTaAACAATGCTTCTAGCAGGAGgtaagttgccttagaaattccaccctaattgatgaagacctaattgccta Alignment from Spaln_nt2Genome ATCTGCAGTGGGTCCAGGTATCTGACTCTAAAGAAGCATATAGACTCTTAAAACTAGGAGTGAAGCATCAGAGCGTTGCTTTCACCAAACTGAA-CAATGCTTCTAGTAGAAG ctacacgttaaattatccactgtacacaaaaccaaaagcccttgctgtagACCTGCAGTGGGTACAGGTATCTGAATCAAAGGAGGCATATAGACTCCTGAAGCTTGGGGTAAAACATAAAAGTGTTGCCTTCTCTAAACTTAAACAATGCTTCTAGCAGGAGgtaagttgccttagaaattccaccctaattgatgaagacctaattgccta Alignment from Pairagon ATCTGCAGTGGGTCCAGGTATCTGACTCTAAAGAAGCATATAGACTCTTAAAACTAGGAGTGAAGCATCAGAGCGTTGCTTTCACCAAAC-TGAACAATGCTTCTAGTAGAAG ctacacgttaaattatccactgtacacaaaaccaaaagcccttgctgtagACCTGCAGTGGGTACAGGTATCTGAATCAAAGGAGGCATATAGACTCCTGAAGCTTGGGGTAAAACATAAAAGTGTTGCCTTCTCTAAACTTAAACAATGCTTCTAGCAGGAGgtaagttgccttagaaattccaccctaattgatgaagacctaattgccta Alignment from Exonerate_protein2genome ATCTGCAGTGGGTCCAGGTATCTGACTCTAAAGAAGCATATAGACTCTTAAAACTAGGAGTGAAGCATCAGAGCGTTGCTTTCACCAAA-CTGAACAATGCTTCTAGTAGAAG ctacacgttaaattatccactgtacacaaaaccaaaagcccttgctgtagACCTGCAGTGGGTACAGGTATCTGAATCAAAGGAGGCATATAGACTCCTGAAGCTTGGGGTAAAACATAAAAGTGTTGCCTTCTCTAAACTTAAACAATGCTTCTAGCAGGAGgtaagttgccttagaaattccaccctaattgatgaagacctaattgccta Alignment from Exonerate_coding2genome ATCTGCAGTGGGTCCAGGTATCTGACTCTAAAGAAGCATATAGACTCTTAAAACTAGGAGTGAAGCATCAGAGCGTTGCTTTCACCAAA-CTGAACAATGCTTCTAGTAGAAG ctacacgttaaattatccactgtacacaaaaccaaaagcccttgctgtagACCTGCAGTGGGTACAGGTATCTGAATCAAAGGAGGCATATAGACTCCTGAAGCTTGGGGTAAAACATAAAAGTGTTGCCTTCTCTAAACTTAAACAATGCTTCTAGCAGGAGgtaagttgccttagaaattccaccctaattgatgaagacctaattgccta Alignment from GeneWise ATCTGCAGTGGGTCCAGGTATCTGACTCTAAAGAAGCATATAGACTCTTAAAACTAGGAGTGAAGCATCAGAGCGTTGCTTTCACCAAA-CTGAACAATGCTTCTAGTAGAAG ctacacgttaaattatccactgtacacaaaaccaaaagcccttgctgtagACCTGCAGTGGGTACAGGTATCTGAATCAAAGGAGGCATATAGACTCCTGAAGCTTGGGGTAAAACATAAAAGTGTTGCCTTCTCTAAACTTAAACAATGCTTCTAGCAGGAGgtaagttgccttagaaattccaccctaattgatgaagacctaattgccta #### Kif20b_ID7004_9 --> 1 - 2 Original Alignment tCACAGCATATTCACTATTAGAATATTACAGATAGAAGATTCT-GAAATACCTCGTGTAACACGAGTTAGTga ttatagttgcatggaaatcttatatttgttctgtcctcttggtcctgcagtCATAGCATATTCACTATTAGGCTATTGCAAATAGAAGATTCTCGAGATACCTCGTGTTACACGAGTTAGTgagtaggtgggttaattctgaaagctgcgggtctttttggaacaacagtctt Alignment from CESAR tCACAGCATATTCACTATTAGAATATTACAGATAGAAGATTCT-GAAATACCTCGTGTAACACGAGTTAGTga ttatagttgcatggaaatcttatatttgttctgtcctcttggtcctgcagtCATAGCATATTCACTATTAGGCTATTGCAAATAGAAGATTCTCGAGATACCTCGTGTTACACGAGTTAGTgagtaggtgggttaattctgaaagctgcgggtctttttggaacaacagtctt Alignment from Spaln_aa2Genome TCACAGCATATTCACTATTAGAATATTACAGATAGAAGATTCT-GAAATACCTCGTGTAACACGAGTTAGTGA ttatagttgcatggaaatcttatatttgttctgtcctcttggtcctgcagTCATAGCATATTCACTATTAGGCTATTGCAAATAGAAGATTCTcGAGATACCTCGTGTTACACGAGTTAGTGAgtaggtgggttaattctgaaagctgcgggtctttttggaacaacagtctt Alignment from Spaln_nt2Genome TCACAGCATATTCACTATTAGAATATTACAGATAGAAGATTCT-GAAATACCTCGTGTAACACGAGTTAGTGA ttatagttgcatggaaatcttatatttgttctgtcctcttggtcctgcagTCATAGCATATTCACTATTAGGCTATTGCAAATAGAAGATTCTCGAGATACCTCGTGTTACACGAGTTAGTGAgtaggtgggttaattctgaaagctgcgggtctttttggaacaacagtctt Alignment from Pairagon TCACAGCATATTCACTATTAGAATATTACAGATAGAAGATTCT-GAAATACCTCGTGTAACACGAGTTAGTGA ttatagttgcatggaaatcttatatttgttctgtcctcttggtcctgcagTCATAGCATATTCACTATTAGGCTATTGCAAATAGAAGATTCTCGAGATACCTCGTGTTACACGAGTTAGTGAgtaggtgggttaattctgaaagctgcgggtctttttggaacaacagtctt Alignment from Exonerate_protein2genome TCACAGCATATTCACTATTAGAATATTACAGATAGAAGATTCT-GAAATACCTCGTGTAACACGAGTTAGTGA ttatagttgcatggaaatcttatatttgttctgtcctcttggtcctgcagTCATAGCATATTCACTATTAGGCTATTGCAAATAGAAGATTCTCGAGATACCTCGTGTTACACGAGTTAGTGAgtaggtgggttaattctgaaagctgcgggtctttttggaacaacagtctt Alignment from Exonerate_coding2genome TCACAGCATATTCACTATTAGAATATTACAGATAGAAGATTCT-GAAATACCTCGTGTAACACGAGTTAGTGA ttatagttgcatggaaatcttatatttgttctgtcctcttggtcctgcagTCATAGCATATTCACTATTAGGCTATTGCAAATAGAAGATTCTCGAGATACCTCGTGTTACACGAGTTAGTGAgtaggtgggttaattctgaaagctgcgggtctttttggaacaacagtctt Alignment from GeneWise TCACAGCATATTCACTATTAGAATATTACAGATAGAAGAT-TCTGAAATACCTCGTGTAACACGAGTTAGTGA ttatagttgcatggaaatcttatatttgttctgtcctcttggtcctgcagTCATAGCATATTCACTATTAGGCTATTGCAAATAGAAGATTCTCGAGATACCTCGTGTTACACGAGTTAGTGAgtaggtgggttaattctgaaagctgcgggtctttttggaacaacagtctt #### Klc2_ID852_14 --> 1 - 0 Original Alignment gATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTGGAA-GAGCCAGTCCAG ctcccttttgcccttaggcaggagagggtctcaccgcgcgccgcccccaggATGAAGAGGGCCAGCTCTCTTAACTTTCTTAATAAGAGTGTGCGGCAAGCCT---CAGgtaagtatgggggtacccaatggcctatatctgcagatacaggccatacc Alignment from CESAR gATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTG-GAAGAGCCAGTCCAG ctcccttttgcccttaggcaggagagggtctcaccgcgcgccgcccccaggATGAAGAGGGCCAGCTCTCTTAACTTTCTTAATAAGAGTGTGCGGCAAGCCT---CAGgtaagtatgggggtacccaatggcctatatctgcagatacaggccatacc Alignment from Spaln_aa2Genome GATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTGGAAGAGCCAGTCCAG ctcccttttgcccttaggcaggagagggtctcaccgcgcgccgcccccagGATGAAGAGGGCCAGCTCTCTTAACTTTCTTAATAAGAGTGTGCGG---------CAAgcctcaggtaagtatgggggtacccaatggcctatatctgcagatacaggccatacc Alignment from Spaln_nt2Genome GATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTGGAAGAGCCAGTC-CAG ctcccttttgcccttaggcaggagagggtctcaccgcgcgccgcccccagGATGAAGAGGGCCAGCTCTCTTAACTTTCTTAATAAGAGTGTG---CGGCAAGCCTCAGgtaagtatgggggtacccaatggcctatatctgcagatacaggccatacc Alignment from Pairagon GATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTGGAAGAGCCAGTC---------CAG ctcccttttgcccttaggcaggagagggtctcaccgcgcgccgcccccagGATGAAGAGGGCCAGCTCTCTTAACTTTCTTAATAAGAGTGTG-----------CGGCAAGCCTCAGgtaagtatgggggtacccaatggcctatatctgcagatacaggccatacc Alignment from Exonerate_protein2genome GATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTGGAAGAGCCAGTCC ctcccttttgcccttaggcaggagagggtctcaccgcgcgccgcccccagGATGAAGAGGGCCAGCTCTCTTAACTTTCTTAATAAGAGTGTGCGGCAAGCCTCAGgtaagtatgggggtacccaatggcctatatctgcagatacaggccatacc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTGGAAGAGCCAGTC- ctcccttttgcccttaggcaggagagggtctcaccgcgcgccgcccccagGATGAAGAGGGCCAGCTCTCTTAACTTTCTTAATAAGAGTGTGCGGCAAGCCTCAGgtaagtatgggggtacccaatggcctatatctgcagatacaggccatacc #### Klc2_ID854_12 --> 0 - 0 Original Alignment GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGA-GGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG gccacattcttgtgtatacttttgcagggctattgcccttaaccactcagGGCCTAGACCCTGCTAGTCAGACAAAGGTCATCGAGCTGTTAAAGGATGGTAGCAGCGGACACCAGCCATTGCCGCGGTAGTAGAGATGTGATTGGGCCT---CCTGAACTAGATTTGGAAGAGTCAGAGCCGACGGCTCACTGGGGTGGTgtaagagcgtaaccaatctattttgagcctgcccctttgcattccattct Alignment from CESAR GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGA-GGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG gccacattcttgtgtatacttttgcagggctattgcccttaaccactcagGGCCTAGACCCTGCTAGTCAGACAAAGGTCATCGAGCTGTTAAAGGATGGTAGCAGCGGACACCAGCCATTGCCGCGGTAGTAGAGATGTGATTGGGCCT---CCTGAACTAGATTTGGAAGAGTCAGAGCCGACGGCTCACTGGGGTGGTgtaagagcgtaaccaatctattttgagcctgtttttctctatggcccaca Alignment from Spaln_aa2Genome GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGA-GGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG gccacattcttgtgtatacttttgcagggctattgcccttaaccactcagGGCCTAGACCCTGCTAGTCAGACAAAGGTCATCGAGCTGTTAAAGGATGGTAGCAGCGGACACcAGCCATTGCCGCGGTAGTAGAGATGTGATTGGGCCT---CCTGAACTAGATTTGGAAGAGTCAGAGCCGACGGCTCACTGGGGTGGTgtaagagcgtaaccaatctattttgagcctgcccctttgcattccattct Alignment from Spaln_nt2Genome GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAG-GACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG gccacattcttgtgtatacttttgcagggctattgcccttaaccactcagGGCCTAGACCCTGCTAGTCAGACAAAGGTCATCGAGCTGTTAAAGGATGGTAGCAGCGGACACCAGCCATTGCCGCGGTAGTAGAGATGTGATTGGGCCTC---CTGAACTAGATTTGGAAGAGTCAGAGCCGACGGCTCACTGGGGTGGTgtaagagcgtaaccaatctattttgagcctgcccctttgcattccattct Alignment from Pairagon GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACC-------GCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG gccacattcttgtgtatacttttgcagggctattgcccttaaccactcagGGCCTAGACCCTGCTAGTCAGACAAAGGTCATCGAGCTGTTAAAGGATGGTAGCAGC------GGACACCAGCCATTGCCGCGGTAGTAGAGATGTGATTGGGCCTC---CTGAACTAGATTTGGAAGAGTCAGAGCCGACGGCTCACTGGGGTGGTgtaagagcgtaaccaatctattttgagcctgcccctttgcattccattct Alignment from Exonerate_protein2genome GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGA-GGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG gccacattcttgtgtatacttttgcagggctattgcccttaaccactcagGGCCTAGACCCTGCTAGTCAGACAAAGGTCATCGAGCTGTTAAAGGATGGTAGCAGCGGACACCAGCCATTGCCGCGGTAGTAGAGATGTGATTGGGCCT---CCTGAACTAGATTTGGAAGAGTCAGAGCCGACGGCTCACTGGGGTGGTgtaagagcgtaaccaatctattttgagcctgcccctttgcattccattct Alignment from Exonerate_coding2genome gccacattcttgtgtatacttttgcagggctattgcccttaaccactcagggcctagaccctgctagtcagacaaaggtcatcgagctgttaaaggatggtagcagcggacaccagccattgccgcggtagtagagatgtgattgggcctcctgaactagatttggaagagtcagagccgacggctcactggggtggtgtaagagcgtaaccaatctattttgagcctgcccctttgcattccattct Alignment from GeneWise GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGA-GGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG gccacattcttgtgtatacttttgcagggctattgcccttaaccactcagGGCCTAGACCCTGCTAGTCAGACAAAGGTCATCGAGCTGTTAAAGGATGGTAGCAGCGGACACCAGCCATTGCCGCGGTAGTAGAGATGTGATTGGGCCTCCT---GAACTAGATTTGGAAGAGTCAGAGCCGACGGCTCACTGGGGTGGTgtaagagcgtaaccaatctattttgagcctgcccctttgcattccattct #### Klc2_ID855_11 --> 1 - 0 Original Alignment tCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCC-GCA---CACACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG cttggaggggaagccgggaattttcaatcctaaaaccctctttcctttagtCCTACGGTCAATACCAGATTGCGAAGCTGGGGTACCCTGTACTGGCATGAAGGCAAACTGGATGCTCACACAACACACACTGAAAGATTGTTCAAGCCACAGTTGCAAACAGgtgagtctttcatcactggggacagataatagggccacattcttgtgtat Alignment from CESAR tCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCC---GCA-CACACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG cttggaggggaagccgggaattttcaatcctaaaaccctctttcctttagtCCTACGGTCAATACCAGATTGCGAAGCTGGGGTACCCTGTACTGGCATGAAGGCAAACTGGATGCTCACACAACACACACTGAAAGATTGTTCAAGCCACAGTTGCAAACAGgtgagtctttcatcactggggacagataatagggccacattcttgtgtat Alignment from Spaln_aa2Genome TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCC----GCACACACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG cttggaggggaagccgggaattttcaatcctaaaaccctctttcctttagTCCTACGGTCAATACCAGATTGCGAAGCTGGGGTACCCTGTACTGGCATGAAGGCAAACTGGATGCTCACaCAACACACACTGAAAGATTGTTCAAGCCACAGTTGCAAACAGgtgagtctttcatcactggggacagataatagggccacattcttgtgtat Alignment from Spaln_nt2Genome TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGC-CGCACA---CACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG cttggaggggaagccgggaattttcaatcctaaaaccctctttcctttagTCCTACGGTCAATACCAGATTGCGAAGCTGGGGTACCCTGTACTGGCATGAAGGCAAACTGGATGCTCACACAACACACACTGAAAGATTGTTCAAGCCACAGTTGCAAACAGgtgagtctttcatcactggggacagataatagggccacattcttgtgtat Alignment from Pairagon TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCC----GCACACACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG cttggaggggaagccgggaattttcaatcctaaaaccctctttcctttagTCCTACGGTCAATACCAGATTGCGAAGCTGGGGTACCCTGTACTGGCATGAAGGCAAACTGGATGCTCACACAACACACACTGAAAGATTGTTCAAGCCACAGTTGCAAACAGgtgagtctttcatcactggggacagataatagggccacattcttgtgtat Alignment from Exonerate_protein2genome TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCC----GCACACACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG cttggaggggaagccgggaattttcaatcctaaaaccctctttcctttagTCCTACGGTCAATACCAGATTGCGAAGCTGGGGTACCCTGTACTGGCATGAAGGCAAACTGGATGCTCACACAACACACACTGAAAGATTGTTCAAGCCACAGTTGCAAACAGgtgagtctttcatcactggggacagataatagggccacattcttgtgtat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCC-GCA---CACACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG cttggaggggaagccgggaattttcaatcctaaaaccctctttcctttagTCCTACGGTCAATACCAGATTGCGAAGCTGGGGTACCCTGTACTGGCATGAAGGCAAACTGGATGCTCACACAACACACACTGAAAGATTGTTCAAGCCACAGTTGCAAACAGgtgagtctttcatcactggggacagataatagggccacattcttgtgtat #### Klc2_ID861_5 --> 1 - 0 Original Alignment gGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTG-GGCAAGGACCACCCAGCT ccatctgcgtcatgcattgttgaggggttaatcattgttattatttgtagaGACCAGAACAAATACAGGGACGCTGCTCACCTACTCAATGAAGCCCTGGCTATCCGAGAAAAGACACTGCGGCAAGGATCAGCCAGCTgtcaggtgtctaagtaatctccctgtccttgtaacaaagcttccagtccc Alignment from CESAR gGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTG-GGCAAGGACCACCCAGCT ccatctgcgtcatgcattgttgaggggttaatcattgttattatttgtagaGACCAGAACAAATACAGGGACGCTGCTCACCTACTCAATGAAGCCCTGGCTATCCGAGAAAAGACACTGCGGCAAGGATCAGCCAGCTgtcaggtgtctaagtaatctccctgtccttgtaacaaagcttccagtccc Alignment from Spaln_aa2Genome GGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCTGTGGCT ccatctgcgtcatgcattgttgaggggttaatcattgttattatttgtagAGACCAGAACAAATACAGGGACGCTGCTCACCTACTCAATGAAGCCCTGGCTATCCGAGAAAAGACACTGCGGCAAGGATCAGCCAGCTGTCAGgtgtctaagtaatctccctgtccttgtaacaaagcttccagtccc Alignment from Spaln_nt2Genome GGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTG-GGCAAGGACCACCCAGCTGTGGCTG ccatctgcgtcatgcattgttgaggggttaatcattgttattatttgtagAGACCAGAACAAATACAGGGACGCTGCTCACCTACTCAATGAAGCCCTGGCTATCCGAGAAAAGACACTGCGGCAAGGATCAGCCAGCTGT--CAGgtgtctaagtaatctccctgtccttgtaacaaagcttccagtc Alignment from Pairagon GGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTG-GGCAAGGACCACCCAGCT ccatctgcgtcatgcattgttgaggggttaatcattgttattatttgtagAGACCAGAACAAATACAGGGACGCTGCTCACCTACTCAATGAAGCCCTGGCTATCCGAGAAAAGACACTGCGGCAAGGATCAGCCAGCTgtcaggtgtctaagtaatctccctgtccttgtaacaaagcttccagtccc Alignment from Exonerate_protein2genome GGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCTGTGGCT ccatctgcgtcatgcattgttgaggggttaatcattgttattatttgtagAGACCAGAACAAATACAGGGACGCTGCTCACCTACTCAATGAAGCCCTGGCTATCCGAGAAAAGACACTGCGGCAAGGATCAGCCAGCTGTCAGgtgtctaagtaatctccctgtccttgtaacaaagcttccagtccc Alignment from Exonerate_coding2genome GGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTG-GGCAAGGACCACCCAGCTGTGGC ccatctgcgtcatgcattgttgaggggttaatcattgttattatttgtagAGACCAGAACAAATACAGGGACGCTGCTCACCTACTCAATGAAGCCCTGGCTATCCGAGAAAAGACACTGCGGCAAGGATCAGCCAGCTGTCAGgtgtctaagtaatctccctgtccttgtaacaaagcttccagtccc Alignment from GeneWise GGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCTGTGGCT ccatctgcgtcatgcattgttgaggggttaatcattgttattatttgtagAGACCAGAACAAATACAGGGACGCTGCTCACCTACTCAATGAAGCCCTGGCTATCCGAGAAAAGACACTGCGGCAAGGATCAGCCAGCTGTCAGgtgtctaagtaatctccctgtccttgtaacaaagcttccagtccc #### Ldb1_ID9693_7 --> 0 - 0 Original Alignment GTGTGTGTGGAAGGCCGG-TTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC tgcaggaaatcaccaaagcaaagggtggtcacagtctgtgtctcctgcagGTCTGTGTAGAAGGACGGCCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCAGCACAGAGAACTTATTCCAAGAAGTATCCTGGCGATGCATgtaagttggtgccagccccacctgaaccaagggctttggagtccatatct Alignment from CESAR GTGTGTGTGGAAGGCCGG-TTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC tgcaggaaatcaccaaagcaaagggtggtcacagtctgtgtctcctgcagGTCTGTGTAGAAGGACGGCCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCAGCACAGAGAACTTATTCCAAGAAGTATCCTGGCGATGCATgtaagttggtgccagccccacctgaaccaagggctttggagtccatatct Alignment from Spaln_aa2Genome GTGTGTGTGGAAGGCCGG-TTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC tgcaggaaatcaccaaagcaaagggtggtcacagtctgtgtctcctgcagGTCTGTGTAGAAGGACGGcCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCAGCACAGAGAACTTATTCCAAGAAGTATCCTGGCGATGCATgtaagttggtgccagccccacctgaaccaagggctttggagtccatatct Alignment from Spaln_nt2Genome GTGTGTGTGGAAGGCCGGT-TGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC tgcaggaaatcaccaaagcaaagggtggtcacagtctgtgtctcctgcagGTCTGTGTAGAAGGACGGCCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCAGCACAGAGAACTTATTCCAAGAAGTATCCTGGCGATGCATgtaagttggtgccagccccacctgaaccaagggctttggagtccatatct Alignment from Pairagon GTGTGTGTGGAAGGCCGG-TTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC tgcaggaaatcaccaaagcaaagggtggtcacagtctgtgtctcctgcagGTCTGTGTAGAAGGACGGCCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCAGCACAGAGAACTTATTCCAAGAAGTATCCTGGCGATGCATgtaagttggtgccagccccacctgaaccaagggctttggagtccatatct Alignment from Exonerate_protein2genome GTGTGTGTGGAAGGCCGG-TTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC tgcaggaaatcaccaaagcaaagggtggtcacagtctgtgtctcctgcagGTCTGTGTAGAAGGACGGCCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCAGCACAGAGAACTTATTCCAAGAAGTATCCTGGCGATGCATgtaagttggtgccagccccacctgaaccaagggctttggagtccatatct Alignment from Exonerate_coding2genome GTGTGTGTGGAAGGCCGG-TTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC tgcaggaaatcaccaaagcaaagggtggtcacagtctgtgtctcctgcagGTCTGTGTAGAAGGACGGCCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCAGCACAGAGAACTTATTCCAAGAAGTATCCTGGCGATGCATgtaagttggtgccagccccacctgaaccaagggctttggagtccatatct Alignment from GeneWise GTGTGTGTGGAAGGCCGG-TTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC tgcaggaaatcaccaaagcaaagggtggtcacagtctgtgtctcctgcagGTCTGTGTAGAAGGACGGCCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCAGCACAGAGAACTTATTCCAAGAAGTATCCTGGCGATGCATgtaagttggtgccagccccacctgaaccaagggctttggagtccatatct #### Ldb1_ID9695_5 --> 0 - 1 Original Alignment GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCC-ATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATa aggatgggaggttgatgggggtgtgcctttcttcatttttctctttctagGAATGTGATAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAGGATGATACCCATGCTCACTATAACCTTTTGTTTGAAGGATGGGCCAAACAGGTACagtgagttggctctgggtgagatgctttcacttagctctttctccttttac Alignment from CESAR GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCC-ATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATa aggatgggaggttgatgggggtgtgcctttcttcatttttctctttctagGAATGTGATAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAGGATGATACCCATGCTCACTATAACCTTTTGTTTGAAGGATGGGCCAAACAGGTACagtgagttggctctgggtgagatgctttcacttagctctttctccttttac Alignment from Spaln_aa2Genome GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCC-ATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATA aggatgggaggttgatgggggtgtgcctttcttcatttttctctttctagGAATGTGATAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAGGATGATACCcATGCTCACTATAACCTTTTGTTTGAAGGATGGGCCAAACAGGTACAgtgagttggctctgggtgagatgctttcacttagctctttctccttttac Alignment from Spaln_nt2Genome GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCC-ATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATA aggatgggaggttgatgggggtgtgcctttcttcatttttctctttctagGAATGTGATAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAGGATGATACCCATGCTCACTATAACCTTTTGTTTGAAGGATGGGCCAAACAGGTACAgtgagttggctctgggtgagatgctttcacttagctctttctccttttac Alignment from Pairagon GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACG-CCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATA aggatgggaggttgatgggggtgtgcctttcttcatttttctctttctagGAATGTGATAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAGGATGATACCCATGCTCACTATAACCTTTTGTTTGAAGGATGGGCCAAACAGGTACAgtgagttggctctgggtgagatgctttcacttagctctttctccttttac Alignment from Exonerate_protein2genome GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCC-ATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATA aggatgggaggttgatgggggtgtgcctttcttcatttttctctttctagGAATGTGATAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAGGATGATACCCATGCTCACTATAACCTTTTGTTTGAAGGATGGGCCAAACAGGTACAgtgagttggctctgggtgagatgctttcacttagctctttctccttttac Alignment from Exonerate_coding2genome GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCC-ATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATA aggatgggaggttgatgggggtgtgcctttcttcatttttctctttctagGAATGTGATAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAGGATGATACCCATGCTCACTATAACCTTTTGTTTGAAGGATGGGCCAAACAGGTACAgtgagttggctctgggtgagatgctttcacttagctctttctccttttac Alignment from GeneWise GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGAC-GCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATA aggatgggaggttgatgggggtgtgcctttcttcatttttctctttctagGAATGTGATAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAGGATGATACCCATGCTCACTATAACCTTTTGTTTGAAGGATGGGCCAAACAGGTACAgtgagttggctctgggtgagatgctttcacttagctctttctccttttac #### Ldb1_ID9696_4 --> 1 - 0 Original Alignment gAGGCACACACCATATGGTAAC-CAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG ggctacatatgtccacacacctatttctgttttgtctctcctaaaatcaggAGGCACAGTCCATATGGTAATCCAGACTGACTATAGGATATTTGAGCTAAACAAGCGGCTACAGAATTGGACAGAAgtgaggcaggatgggaggttgatgggggtgtgcctcggcccatgtgtgtc Alignment from CESAR gAGGCACACACCATATGGTAAC-CAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG ggctacatatgtccacacacctatttctgttttgtctctcctaaaatcaggAGGCACAGTCCATATGGTAATCCAGACTGACTATAGGATATTTGAGCTAAACAAGCGGCTACAGAATTGGACAGAAgtgaggcaggatgggaggttgatgggggtgtgcctttcttcatttttctc Alignment from Spaln_aa2Genome GAGGCACACACCATATGGTAAC-CAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG ggctacatatgtccacacacctatttctgttttgtctctcctaaaatcagGAGGCACAGTCCATATGGTAATcCAGACTGACTATAGGATATTTGAGCTAAACAAGCGGCTACAGAATTGGACAGAAgtgaggcaggatgggaggttgatgggggtgtgcctcggcccatgtgtgtc Alignment from Spaln_nt2Genome GAGGCACACACCATATGGTAA-CCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG ggctacatatgtccacacacctatttctgttttgtctctcctaaaatcagGAGGCACAGTCCATATGGTAATCCAGACTGACTATAGGATATTTGAGCTAAACAAGCGGCTACAGAATTGGACAGAAgtgaggcaggatgggaggttgatgggggtgtgcctcggcccatgtgtgtc Alignment from Pairagon GAGGCACACACCATATGGTAA-CCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG ggctacatatgtccacacacctatttctgttttgtctctcctaaaatcagGAGGCACAGTCCATATGGTAATCCAGACTGACTATAGGATATTTGAGCTAAACAAGCGGCTACAGAATTGGACAGAAgtgaggcaggatgggaggttgatgggggtgtgcctcggcccatgtgtgtc Alignment from Exonerate_protein2genome GAGGCACACACCATATGGTAAC-CAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG ggctacatatgtccacacacctatttctgttttgtctctcctaaaatcagGAGGCACAGTCCATATGGTAATCCAGACTGACTATAGGATATTTGAGCTAAACAAGCGGCTACAGAATTGGACAGAAgtgaggcaggatgggaggttgatgggggtgtgcctcggcccatgtgtgtc Alignment from Exonerate_coding2genome GAGGCACACACCATATGGTAAC-CAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG ggctacatatgtccacacacctatttctgttttgtctctcctaaaatcagGAGGCACAGTCCATATGGTAATCCAGACTGACTATAGGATATTTGAGCTAAACAAGCGGCTACAGAATTGGACAGAAgtgaggcaggatgggaggttgatgggggtgtgcctcggcccatgtgtgtc Alignment from GeneWise GAGGCACACACCATATGGTAAC-CAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG ggctacatatgtccacacacctatttctgttttgtctctcctaaaatcagGAGGCACAGTCCATATGGTAATCCAGACTGACTATAGGATATTTGAGCTAAACAAGCGGCTACAGAATTGGACAGAAgtgaggcaggatgggaggttgatgggggtgtgcctcggcccatgtgtgtc #### Ldb1_ID9697_3 --> 1 - 2 Original Alignment cCCAACTCCCATGTACCCA-CCTACATACCTGGAGCCTGGGATCgg acagtacaacagaaacaagtgcgaaactcacttcacaatgtctcttacagcCCAACTCCCATGTACCCACCCTACATACCTGGAGCCTGGGATTgggtgatcggactccactgcttaatactgttaagtcgtgcccctgcattatt Alignment from CESAR cCCAACTCCCATGTACCCA-CCTACATACCTGGAGCCTGGGATCgg acagtacaacagaaacaagtgcgaaactcacttcacaatgtctcttacagcCCAACTCCCATGTACCCACCCTACATACCTGGAGCCTGGGATTgggtgatcggactccactgcttaatactgttaagtcgtgcccctgcattatt Alignment from Spaln_aa2Genome CCCAACTCCCATGTACCCACCT-ACATACCTGGAGCCTGGGATCGG acagtacaacagaaacaagtgcgaaactcacttcacaatgtctcttacagCCCAACTCCCATGTACCCACCCtACATACCTGGAGCCTGGGATTGGgtgatcggactccactgcttaatactgttaagtcgtgcccctgcattatt Alignment from Spaln_nt2Genome CCCAACTCCCATGTA-CCCACCTACATACCTGGAGCCTGGGATCGG acagtacaacagaaacaagtgcgaaactcacttcacaatgtctcttacagCCCAACTCCCATGTACCCACCCTACATACCTGGAGCCTGGGATTGGgtgatcggactccactgcttaatactgttaagtcgtgcccctgcattatt Alignment from Pairagon CCCAACTCCCATGTACCCA-CCTACATACCTGGAGCCTGGGATCGG acagtacaacagaaacaagtgcgaaactcacttcacaatgtctcttacagCCCAACTCCCATGTACCCACCCTACATACCTGGAGCCTGGGATTGGgtgatcggactccactgcttaatactgttaagtcgtgcccctgcattatt Alignment from Exonerate_protein2genome CCCAACTCCCATGTACCCA-CCTACATACCTGGAGCCTGGGATCGG acagtacaacagaaacaagtgcgaaactcacttcacaatgtctcttacagCCCAACTCCCATGTACCCACCCTACATACCTGGAGCCTGGGATTGGgtgatcggactccactgcttaatactgttaagtcgtgcccctgcattatt Alignment from Exonerate_coding2genome CCCAACTCCCATGTACCCA-CCTACATACCTGGAGCCTGGGATCGG acagtacaacagaaacaagtgcgaaactcacttcacaatgtctcttacagCCCAACTCCCATGTACCCACCCTACATACCTGGAGCCTGGGATTGGgtgatcggactccactgcttaatactgttaagtcgtgcccctgcattatt Alignment from GeneWise CCCAACTCCCATGTACCCACCT-ACATACCTGGAGCCTGGGATCGG acagtacaacagaaacaagtgcgaaactcacttcacaatgtctcttacagCCCAACTCCCATGTACCCACCCTACATACCTGGAGCCTGGGATTGGgtgatcggactccactgcttaatactgttaagtcgtgcccctgcattatt #### Lipo1_ID6825_8 --> 0 - 0 Original Alignment GTAGGAAGAAGTGGTATACTTCAG-GCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG aagtcctaagtatgacctgtcagcctggccaaattccttttgtcttccagGTAGGTAGAAGTGGTATTCTTCAACGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACAGTTCAATCAAgtaagttcttcaaatctctttttcacacttaatgatatgatagggttcaa Alignment from CESAR GTAGGAAGAAGTGGTATACTTCAG-GCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG aagtcctaagtatgacctgtcagcctggccaaattccttttgtcttccagGTAGGTAGAAGTGGTATTCTTCAACGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACAGTTCAATCAAgtaagttcttcaaatctctttttcacacttaatgatatgatagggttcaa Alignment from Spaln_aa2Genome GTAGGAAGAAGTGGTATACTTCAG-GCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG aagtcctaagtatgacctgtcagcctggccaaattccttttgtcttccagGTAGGTAGAAGTGGTATTCTTCAAcGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACAGTTCAATCAAgtaagttcttcaaatctctttttcacacttaatgatatgatagggttcaa Alignment from Spaln_nt2Genome GTAGGAAGAAGTGGTATACTTCAG-GCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG aagtcctaagtatgacctgtcagcctggccaaattccttttgtcttccagGTAGGTAGAAGTGGTATTCTTCAACGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACAGTTCAATCAAgtaagttcttcaaatctctttttcacacttaatgatatgatagggttcaa Alignment from Pairagon GTAGGAAGAAGTGGTATACTTCAG-GCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG aagtcctaagtatgacctgtcagcctggccaaattccttttgtcttccagGTAGGTAGAAGTGGTATTCTTCAACGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACAGTTCAATCAAgtaagttcttcaaatctctttttcacacttaatgatatgatagggttcaa Alignment from Exonerate_protein2genome GTAGGAAGAAGTGGTATACTTCAG-GCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG aagtcctaagtatgacctgtcagcctggccaaattccttttgtcttccagGTAGGTAGAAGTGGTATTCTTCAACGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACAGTTCAATCAAgtaagttcttcaaatctctttttcacacttaatgatatgatagggttcaa Alignment from Exonerate_coding2genome GTAGGAAGAAGTGGTATACTTCAG-GCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG aagtcctaagtatgacctgtcagcctggccaaattccttttgtcttccagGTAGGTAGAAGTGGTATTCTTCAACGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACAGTTCAATCAAgtaagttcttcaaatctctttttcacacttaatgatatgatagggttcaa Alignment from GeneWise GTAGGAAGAAGTGGTATACTTCAG-GCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG aagtcctaagtatgacctgtcagcctggccaaattccttttgtcttccagGTAGGTAGAAGTGGTATTCTTCAACGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACAGTTCAATCAAgtaagttcttcaaatctctttttcacacttaatgatatgatagggttcaa #### Loxl4_ID8561_12 --> 2 - 0 Original Alignment gaGTGCAGCGGCGCTATGCATGTGCCAACTTT-GGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcccaggcatttctgcctctgctttgtcttctttttctcccatagggGTACAACGTCGCTATGCATATGCTAATTTCCGGAGAGCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAG---GTTCCAGGGGACTACATCTTCCAGgtactgatcaggccaggacatacactccaggttttactgtacgttgattc Alignment from CESAR gaGTGCAGCGGCGCTATGCATGTGCCAACTTT-GGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcccaggcatttctgcctctgctttgtcttctttttctcccatagggGTACAACGTCGCTATGCATATGCTAATTTCCGGAGAGCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAGGTT---CCAGGGGACTACATCTTCCAGgtactgatcaggccaggacatacactccaggttttactgtacgttgattc Alignment from Spaln_aa2Genome GAGTGCAGCGGCGCTATGCATGTGCCAACTTT-GGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcccaggcatttctgcctctgctttgtcttctttttctcccatagGGGTACAACGTCGCTATGCATATGCTAATTTCcGGAGAGCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAGGTT---CCAGGGGACTACATCTTCCAGgtactgatcaggccaggacatacactccaggttttactgtacgttgattc Alignment from Spaln_nt2Genome GAGTGCAGCGGCGCTATGCATGTGCCAACTTTGGG-GAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcccaggcatttctgcctctgctttgtcttctttttctcccatagGGGTACAACGTCGCTATGCATATGCTAATTTCCGGAGAGCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGA---GGTTCCAGGGGACTACATCTTCCAGgtactgatcaggccaggacatacactccaggttttactgtacgttgattc Alignment from Pairagon GAGTGCAGCGGCGCTATGCATGTGCCAACTT-TGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcccaggcatttctgcctctgctttgtcttctttttctcccatagGGGTACAACGTCGCTATGCATATGCTAATTTCCGGAGAGCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAGGT---TCCAGGGGACTACATCTTCCAGgtactgatcaggccaggacatacactccaggttttactgtacgttgattc Alignment from Exonerate_protein2genome GAGTGCAGCGGCGCTATGCATGTGCCAACTTT-GGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcccaggcatttctgcctctgctttgtcttctttttctcccatagGGGTACAACGTCGCTATGCATATGCTAATTTCCGGAGAGCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAGGTT---CCAGGGGACTACATCTTCCAGgtactgatcaggccaggacatacactccaggttttactgtacgttgattc Alignment from Exonerate_coding2genome aaaatgcccaggcatttctgcctctgctttgtcttctttttctcccataggggtacaacgtcgctatgcatatgctaatttccggagagcaaggggttgcagtaggttgctgggacacctatcagcatgacagtgattgtcagtgggtggatatcaaagaggttccaggggactacatcttccaggtactgatcaggccaggacatacactccaggttttactgtacgttgattc Alignment from GeneWise GAGTGCAGCGGCGCTATGCATGTGCCAACTTT-GGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcccaggcatttctgcctctgctttgtcttctttttctcccatagGGGTACAACGTCGCTATGCATATGCTAATTTCCGGAGAGCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAGGTT---CCAGGGGACTACATCTTCCAGgtactgatcaggccaggacatacactccaggttttactgtacgttgattc #### Ltbp3_ID1253_5 --> 2 - 1 Original Alignment atACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTC-AACAGCACCCACTGCCAGg tactgtgctcactctcttttttcactgtattgtttctaatttccttttagatACAGGAGTGCAAAAGCCTGGACCTGTACGAGGG---GTGGGCACTGACTGCCCCAAAGGCTATAAAAGACTTCAATAGCACCCATTCTCAGggtaggaatcaccaaagattccattaattgatatgtgaggtaggggaaaag Alignment from CESAR atACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTC-AACAGCACCCACTGCCAGg tactgtgctcactctcttttttcactgtattgtttctaatttccttttagatACAGGAGTGCAAAAGCCTGGACCTGTACGAGGG---GTGGGCACTGACTGCCCCAAAGGCTATAAAAGACTTCAATAGCACCCATTCTCAGggtaggaatcaccaaagattccattaattgatatgtgaggtaggggaaaag Alignment from Spaln_aa2Genome ATACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTC-AACAGCACCCACTGCCAGG tactgtgctcactctcttttttcactgtattgtttctaatttccttttagATACAGGAGTGCAAAAGCCTGGACCTGTACGAGGG---GTGGGCACTGACTGCCCCAAAGGCTATAAAAGACTTcAATAGCACCCATTCTCAGGgtaggaatcaccaaagattccattaattgatatgtgaggtaggggaaaag Alignment from Spaln_nt2Genome ATACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCT-CAACAGCACCCACTGCCAGG tactgtgctcactctcttttttcactgtattgtttctaatttccttttagATACAGGAGTGCAAAAGCCTGGACCTGTACGAGG---GGTGGGCACTGACTGCCCCAAAGGCTATAAAAGACTTCAATAGCACCCATTCTCAGGgtaggaatcaccaaagattccattaattgatatgtgaggtaggggaaaag Alignment from Pairagon ATACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGC-TCAACAGCACCCACTGCCAGG tactgtgctcactctcttttttcactgtattgtttctaatttccttttagATACAGGAGTGCAAAAGCCTGGACCTGTACGAGG---GGTGGGCACTGACTGCCCCAAAGGCTATAAAAGACTTCAATAGCACCCATTCTCAGGgtaggaatcaccaaagattccattaattgatatgtgaggtaggggaaaag Alignment from Exonerate_protein2genome ATACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTC-AACAGCACCCACTGCCAGG tactgtgctcactctcttttttcactgtattgtttctaatttccttttagATACAGGAGTGCAAAAGCCTGGACCTGTACGAGGG---GTGGGCACTGACTGCCCCAAAGGCTATAAAAGACTTCAATAGCACCCATTCTCAGGgtaggaatcaccaaagattccattaattgatatgtgaggtaggggaaaag Alignment from Exonerate_coding2genome ATACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTC-AACAGCACCCACTGCCAGG tactgtgctcactctcttttttcactgtattgtttctaatttccttttagATACAGGAGTGCAAAAGCCTGGACCTGTACGAGGG---GTGGGCACTGACTGCCCCAAAGGCTATAAAAGACTTCAATAGCACCCATTCTCAGGgtaggaatcaccaaagattccattaattgatatgtgaggtaggggaaaag Alignment from GeneWise ATACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGG-CTCAACAGCACCCACTGCCAGG tactgtgctcactctcttttttcactgtattgtttctaatttccttttagATACAGGAGTGCAAAAGCCTGGACCTGTACGAGGG---GTGGGCACTGACTGCCCCAAAGGCTATAAAAGACTTCAATAGCACCCATTCTCAGGgtaggaatcaccaaagattccattaattgatatgtgaggtaggggaaaag #### Ltbp3_ID1254_6 --> 2 - 1 Original Alignment atATCAACGAATGTGCG-ATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTg gctgaatcagcatttcctgcctcaagtggatgtttatgcccctttcctagacATAAATGAATGTGTGCATGCCTGGGATGTGTCGTCATGGGGATTGTCTGACCAACCCCGGCTCTTATCACTGTGTCTGCCCACCTGGTCATAGCTTAGGTCCTTTCCGCAAACAGTGTATAggtagggtcaagaacaagtttggattagctaaaggggagcagacggggaga Alignment from CESAR atATCAACGAATGTGCG-ATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTg gctgaatcagcatttcctgcctcaagtggatgtttatgcccctttcctagacATAAATGAATGTGTGCATGCCTGGGATGTGTCGTCATGGGGATTGTCTGACCAACCCCGGCTCTTATCACTGTGTCTGCCCACCTGGTCATAGCTTAGGTCCTTTCCGCAAACAGTGTATAggtagggtcaagaacaagtttggattagctaaaggggagcagacggggaga Alignment from Spaln_aa2Genome ATATCAACGAATGTGCG-ATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG gctgaatcagcatttcctgcctcaagtggatgtttatgcccctttcctagACATAAATGAATGTGTGcATGCCTGGGATGTGTCGTCATGGGGATTGTCTGACCAACCCCGGCTCTTATCACTGTGTCTGCCCACCTGGTCATAGCTTAGGTCCTTTCCGCAAACAGTGTATAGgtagggtcaagaacaagtttggattagctaaaggggagcagacggggaga Alignment from Spaln_nt2Genome ATATCAACGAATGTGCG-ATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG gctgaatcagcatttcctgcctcaagtggatgtttatgcccctttcctagACATAAATGAATGTGTGCATGCCTGGGATGTGTCGTCATGGGGATTGTCTGACCAACCCCGGCTCTTATCACTGTGTCTGCCCACCTGGTCATAGCTTAGGTCCTTTCCGCAAACAGTGTATAGgtagggtcaagaacaagtttggattagctaaaggggagcagacggggaga Alignment from Pairagon ATATCAACGAATGTGCG-ATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG gctgaatcagcatttcctgcctcaagtggatgtttatgcccctttcctagACATAAATGAATGTGTGCATGCCTGGGATGTGTCGTCATGGGGATTGTCTGACCAACCCCGGCTCTTATCACTGTGTCTGCCCACCTGGTCATAGCTTAGGTCCTTTCCGCAAACAGTGTATAGgtagggtcaagaacaagtttggattagctaaaggggagcagacggggaga Alignment from Exonerate_protein2genome ATATCAACGAATGT-GCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG gctgaatcagcatttcctgcctcaagtggatgtttatgcccctttcctagACATAAATGAATGTGTGCATGCCTGGGATGTGTCGTCATGGGGATTGTCTGACCAACCCCGGCTCTTATCACTGTGTCTGCCCACCTGGTCATAGCTTAGGTCCTTTCCGCAAACAGTGTATAGgtagggtcaagaacaagtttggattagctaaaggggagcagacggggaga Alignment from Exonerate_coding2genome ATATCAACGAATGT-GCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG gctgaatcagcatttcctgcctcaagtggatgtttatgcccctttcctagACATAAATGAATGTGTGCATGCCTGGGATGTGTCGTCATGGGGATTGTCTGACCAACCCCGGCTCTTATCACTGTGTCTGCCCACCTGGTCATAGCTTAGGTCCTTTCCGCAAACAGTGTATAGgtagggtcaagaacaagtttggattagctaaaggggagcagacggggaga Alignment from GeneWise ATATCAACGAATGT-GCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG gctgaatcagcatttcctgcctcaagtggatgtttatgcccctttcctagACATAAATGAATGTGTGCATGCCTGGGATGTGTCGTCATGGGGATTGTCTGACCAACCCCGGCTCTTATCACTGTGTCTGCCCACCTGGTCATAGCTTAGGTCCTTTCCGCAAACAGTGTATAGgtagggtcaagaacaagtttggattagctaaaggggagcagacggggaga #### Ltbp3_ID1256_8 --> 2 - 1 Original Alignment caGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTAC-CATATCCTCACCTCCCACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAg tgtagagtctcgggattgcattgttgtacctgcttccttcctctccccagctTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCCATACGCTCACCTCTCACCAAATGCTGACTATCCACGGAGAAAGTGGCTTCTCTCTATTTGTGCACCCTGACGGGCCACCCAAACCTCAGCAGCTTCCTGAAGGTCCAAGTAGGGCACCACCCCTAGAGGACACGGAGGAAGAGAGAggtaaggctacaggccataatcctatagtggaaacgataaagcgggaccct Alignment from CESAR caGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTAC-CATATCCTCACCTCCCACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAg tgtagagtctcgggattgcattgttgtacctgcttccttcctctccccagctTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCCATACGCTCACCTCTCACCAAATGCTGACTATCCACGGAGAAAGTGGCTTCTCTCTATTTGTGCACCCTGACGGGCCACCCAAACCTCAGCAGCTTCCTGAAGGTCCAAGTAGGGCACCACCCCTAGAGGACACGGAGGAAGAGAGAggtaaggctacaggccataatcctatagtggaaacgataaagcgggaccct Alignment from Spaln_aa2Genome CAGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTAC-CATATCCTCACCTCCCACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAG tgtagagtctcgggattgcattgttgtacctgcttccttcctctccccagCTTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATcCATACGCTCACCTCTCACCAAATGCTGACTATCCACGGAGAAAGTGGCTTCTCTCTATTTGTGCACCCTGACGGGCCACCCAAACCTCAGCAGCTTCCTGAAGGTCCAAGTAGGGCACCACCCCTAGAGGACACGGAGGAAGAGAGAGgtaaggctacaggccataatcctatagtggaaacgataaagcgggaccct Alignment from Spaln_nt2Genome CAGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTA-CCATATCCTCACCTCCCACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAG tgtagagtctcgggattgcattgttgtacctgcttccttcctctccccagCTTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCCATACGCTCACCTCTCACCAAATGCTGACTATCCACGGAGAAAGTGGCTTCTCTCTATTTGTGCACCCTGACGGGCCACCCAAACCTCAGCAGCTTCCTGAAGGTCCAAGTAGGGCACCACCCCTAGAGGACACGGAGGAAGAGAGAGgtaaggctacaggccataatcctatagtggaaacgataaagcgggaccct Alignment from Pairagon CAGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTA-CCATATCCTCACCTCCCACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAG tgtagagtctcgggattgcattgttgtacctgcttccttcctctccccagCTTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCCATACGCTCACCTCTCACCAAATGCTGACTATCCACGGAGAAAGTGGCTTCTCTCTATTTGTGCACCCTGACGGGCCACCCAAACCTCAGCAGCTTCCTGAAGGTCCAAGTAGGGCACCACCCCTAGAGGACACGGAGGAAGAGAGAGgtaaggctacaggccataatcctatagtggaaacgataaagcgggaccct Alignment from Exonerate_protein2genome CAGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTAC-CATATCCTCACCTCCCACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAG tgtagagtctcgggattgcattgttgtacctgcttccttcctctccccagCTTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCCATACGCTCACCTCTCACCAAATGCTGACTATCCACGGAGAAAGTGGCTTCTCTCTATTTGTGCACCCTGACGGGCCACCCAAACCTCAGCAGCTTCCTGAAGGTCCAAGTAGGGCACCACCCCTAGAGGACACGGAGGAAGAGAGAGgtaaggctacaggccataatcctatagtggaaacgataaagcgggaccct Alignment from Exonerate_coding2genome CAGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTAC-CATATCCTCACCTCCCACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAGGAGTGACCATGGATC tgtagagtctcgggattgcattgttgtacctgcttccttcctctccccagCTTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCCATACGCTCACCTCTCACCAAATGCTGACTATCCACGGAGAAAGTGGCTTCTCTCTATTTGTGCACCCTGACGGGCCACCCAAACCTCAGCAGCTTCCTGAAGGTCCAAGTAGGGCACCACCCCTAGAGGACACGGAGGAAGAGAGAGGTAAGGCTACAGGCCataatcctatagtggaaacgataaagcgggaccct Alignment from GeneWise ----------------------------------------------ACAGCAGCCTTCAAGGAGATCTGCCCGGCTGGGAAA-GGGTACCATATCCTCACCTCCCACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGA- TGTAGAGTCTCGGGATTGCATTGTTGTACCTGCTTCCTTCCTCTCCCCAGCTTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCCATACGCTCACCTCTCACCAAATGCTGACTATCCACGGAGAAAGTGGCTTCTCTCTATTTGTGCACCCTGACGGGCCACCCAAACCTCAGCAGCTTCCTGAAGGTCCAAGTAGGGCACCACCCCTAGAGGACACGGAGGAAGAGAGAGgtaaggctacaggccataatcctatagtggaaacgataaagcgggaccct #### Ltbp3_ID1261_13 --> 2 - 1 Original Alignment atGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTC-CACGTGGGTGCAGGGGGCCGCTCGTGCGTGg gatgtgactggtcaattctagccatatcaaccatatttatcttgtcccagatGTGACTGGGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGATCGTATAATTGTCATTGCAACCGGGGCTACCGCCTTCCATGTAGGTGCAGGGGGCCGCCTGTGTGTGggtaagcatacttgggtagcacacacctgtgtccatttctgaccccagacc Alignment from CESAR atGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTC-CACGTGGGTGCAGGGGGCCGCTCGTGCGTGg gatgtgactggtcaattctagccatatcaaccatatttatcttgtcccagatGTGACTGGGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGATCGTATAATTGTCATTGCAACCGGGGCTACCGCCTTCCATGTAGGTGCAGGGGGCCGCCTGTGTGTGggtaagcatacttgggtagcacacacctgtgtccatttctgaccccagacc Alignment from Spaln_aa2Genome ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTC-CACGTGGGTGCAGGGGGCCGCTCGTGCGTGG gatgtgactggtcaattctagccatatcaaccatatttatcttgtcccagATGTGACTGGGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGATCGTATAATTGTCATTGCAACCGGGGCTACCGCCTTcCATGTAGGTGCAGGGGGCCGCCTGTGTGTGGgtaagcatacttgggtagcacacacctgtgtccatttctgaccccagacc Alignment from Spaln_nt2Genome ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCT-CCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG gatgtgactggtcaattctagccatatcaaccatatttatcttgtcccagATGTGACTGGGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGATCGTATAATTGTCATTGCAACCGGGGCTACCGCCTTCCATGTAGGTGCAGGGGGCCGCCTGTGTGTGGgtaagcatacttgggtagcacacacctgtgtccatttctgaccccagacc Alignment from Pairagon ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCC-TCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG gatgtgactggtcaattctagccatatcaaccatatttatcttgtcccagATGTGACTGGGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGATCGTATAATTGTCATTGCAACCGGGGCTACCGCCTTCCATGTAGGTGCAGGGGGCCGCCTGTGTGTGGgtaagcatacttgggtagcacacacctgtgtccatttctgaccccagacc Alignment from Exonerate_protein2genome ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTC-CACGTGGGTGCAGGGGGCCGCTCGTGCGTGG gatgtgactggtcaattctagccatatcaaccatatttatcttgtcccagATGTGACTGGGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGATCGTATAATTGTCATTGCAACCGGGGCTACCGCCTTCCATGTAGGTGCAGGGGGCCGCCTGTGTGTGGgtaagcatacttgggtagcacacacctgtgtccatttctgaccccagacc Alignment from Exonerate_coding2genome gatgtgactggtcaattctagccatatcaaccatatttatcttgtcccagatgtgactgggtgtggggctgagccctgtggccctggaaaaggtatctgtatgaccactggtggatcgtataattgtcattgcaaccggggctaccgccttccatgtaggtgcagggggccgcctgtgtgtgggtaagcatacttgggtagcacacacctgtgtccatttctgaccccagacc Alignment from GeneWise ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGC-CTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG gatgtgactggtcaattctagccatatcaaccatatttatcttgtcccagATGTGACTGGGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGATCGTATAATTGTCATTGCAACCGGGGCTACCGCCTTCCATGTAGGTGCAGGGGGCCGCCTGTGTGTGGgtaagcatacttgggtagcacacacctgtgtccatttctgaccccagacc #### Ltbp3_ID1262_14 --> 2 - 1 Original Alignment acCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCG-CCCATTTGCGAAg atttctgaccccagaccctccccttcctaagatggtcatttttttttcagatCTAAATGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAACTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCCAATCTGGGAAggtaagttgtcatcctacttctcctccctggccttaggttggatgagtgca Alignment from CESAR acCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCC-ATTTGCGAAg atttctgaccccagaccctccccttcctaagatggtcatttttttttcagatCTAAATGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAACTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCCAATCTGGGAAggtaagttgtcatcctacttctcctccctggccttaggttggatgagtgca Alignment from Spaln_aa2Genome ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCC-ATTTGCGAAG atttctgaccccagaccctccccttcctaagatggtcatttttttttcagATCTAAATGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAACTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCCaATCTGGGAAGgtaagttgtcatcctacttctcctccctggccttaggttggatgagtgca Alignment from Spaln_nt2Genome ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATT-TGCGAAG atttctgaccccagaccctccccttcctaagatggtcatttttttttcagATCTAAATGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAACTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCCAATCTGGGAAGgtaagttgtcatcctacttctcctccctggccttaggttggatgagtgca Alignment from Pairagon ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCC-ATTTGCGAAG atttctgaccccagaccctccccttcctaagatggtcatttttttttcagATCTAAATGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAACTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCCAATCTGGGAAGgtaagttgtcatcctacttctcctccctggccttaggttggatgagtgca Alignment from Exonerate_protein2genome ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCG-CCCATTTGCGAAG atttctgaccccagaccctccccttcctaagatggtcatttttttttcagATCTAAATGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAACTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCCAATCTGGGAAGgtaagttgtcatcctacttctcctccctggccttaggttggatgagtgca Alignment from Exonerate_coding2genome ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCG-CCCATTTGCGAAG atttctgaccccagaccctccccttcctaagatggtcatttttttttcagATCTAAATGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAACTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCCAATCTGGGAAGgtaagttgtcatcctacttctcctccctggccttaggttggatgagtgca Alignment from GeneWise ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATT-TGCGAAG atttctgaccccagaccctccccttcctaagatggtcatttttttttcagATCTAAATGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAACTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCCAATCTGGGAAGgtaagttgtcatcctacttctcctccctggccttaggttggatgagtgca #### Ltbp3_ID1269_21 --> 2 - 1 Original Alignment ccGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATT-CCTGCCCACCGTg tgtgacatggggatataagtgatcacacgtgtgacttaacactgttgtagcaGAATTTCATAGG---TGTCCTGATGGTAAAGGCTATACACAAGACAATAACATTGTGAATTATGGCATCCCCTACCCACCGGggtatgaatgccaatttagtttttaggtttcctgatgagacatgactagca Alignment from CESAR ccGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATT-CCTGCCCACCGTg tgtgacatggggatataagtgatcacacgtgtgacttaacactgttgtagcaGAATTTCATAGG---TGTCCTGATGGTAAAGGCTATACACAAGACAATAACATTGTGAATTATGGCATCCCCTACCCACCGGggtatgaatgccaatttagtttttaggtttcctgatgagacatgactagca Alignment from Spaln_aa2Genome CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCT-GCCCACCGTG tgtgacatggggatataagtgatcacacgtgtgacttaacactgttgtagCAGAATTTCATAGG---TGTCCTGATGGTAAAGGCTATACACAAGACAATAACATTGTGAATTATGGCATCCCCtACCCACCGGGgtatgaatgccaatttagtttttaggtttcctgatgagacatgactagca Alignment from Spaln_nt2Genome CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCC-TGCCCACCGTG tgtgacatggggatataagtgatcacacgtgtgacttaacactgttgtagCAGAATTTCATAG---GTGTCCTGATGGTAAAGGCTATACACAAGACAATAACATTGTGAATTATGGCATCCCCTACCCACCGGGgtatgaatgccaatttagtttttaggtttcctgatgagacatgactagca Alignment from Pairagon CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCAT-TCCTGCCCACCGTG tgtgacatggggatataagtgatcacacgtgtgacttaacactgttgtagCAGAATTTCATAG---GTGTCCTGATGGTAAAGGCTATACACAAGACAATAACATTGTGAATTATGGCATCCCCTACCCACCGGGgtatgaatgccaatttagtttttaggtttcctgatgagacatgactagca Alignment from Exonerate_protein2genome CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATT-CCTGCCCACCGTG tgtgacatggggatataagtgatcacacgtgtgacttaacactgttgtagCAGAATTTCATAGG---TGTCCTGATGGTAAAGGCTATACACAAGACAATAACATTGTGAATTATGGCATCCCCTACCCACCGGGgtatgaatgccaatttagtttttaggtttcctgatgagacatgactagca Alignment from Exonerate_coding2genome tgtgacatggggatataagtgatcacacgtgtgacttaacactgttgtagcagaatttcataggtgtcctgatggtaaaggctatacacaagacaataacattgtgaattatggcatcccctacccaccggggtatgaatgccaatttagtttttaggtttcctgatgagacatgactagca Alignment from GeneWise CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCT------------------GCCCACCGTG tgtgacatggggatataagtgatcacacgtgtgacttaacactgttgtagCAGAATTTCATAGG---TGTCCTGATGGTAAAGGCTATACACAAGACAATAACATTGTGAATTATGGCATCCCCTACCCACCGGGGTATGAATGCCAATTTAgtttttaggtttcctgatgagacatgactagca #### Ltbp3_ID1271_23 --> 2 - 1 Original Alignment acGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCC-TGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGg ttccactcaaggaaaagagctgagtttaataataccatgccctcccacagatTTGGATGAGTGCTTAGACGAGTCTAACTGCAGAAATGGAGTCTTTGAAAATACACATGGTGGCTATCGCTGTGCACTGTACACCACCAACTGAATATAGTTCAGCACAACACCAATGTTCAAGCCCTGAGGAGATGggtaagtccttagaaaacaagtttggcaactcctgtaccttaattactgtt Alignment from CESAR acGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCC-TGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGg ttccactcaaggaaaagagctgagtttaataataccatgccctcccacagatTTGGATGAGTGCTTAGACGAGTCTAACTGCAGAAATGGAGTCTTTGAAAATACACATGGTGGCTATCGCTGTGCACTGTACACCACCAACTGAATATAGTTCAGCACAACACCAATGTTCAAGCCCTGAGGAGATGggtaagtccttagaaaacaagtttggcaactcctgtaccttaattactgtt Alignment from Spaln_aa2Genome ACGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCC-TGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGG ttccactcaaggaaaagagctgagtttaataataccatgccctcccacagATTTGGATGAGTGCTTAGACGAGTCTAACTGCAGAAATGGAGTCTTTGAAAATACACATGGTGGCTATCGCTGTGCAcTGTACACCACCAACTGAATATAGTTCAGCACAACACCAATGTTCAAGCCCTGAGGAGATGGgtaagtccttagaaaacaagtttggcaactcctgtaccttaattactgtt Alignment from Spaln_nt2Genome ACGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGC-CTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGG ttccactcaaggaaaagagctgagtttaataataccatgccctcccacagATTTGGATGAGTGCTTAGACGAGTCTAACTGCAGAAATGGAGTCTTTGAAAATACACATGGTGGCTATCGCTGTGCACTGTACACCACCAACTGAATATAGTTCAGCACAACACCAATGTTCAAGCCCTGAGGAGATGGgtaagtccttagaaaacaagtttggcaactcctgtaccttaattactgtt Alignment from Pairagon ACGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGC-CTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGG ttccactcaaggaaaagagctgagtttaataataccatgccctcccacagATTTGGATGAGTGCTTAGACGAGTCTAACTGCAGAAATGGAGTCTTTGAAAATACACATGGTGGCTATCGCTGTGCACTGTACACCACCAACTGAATATAGTTCAGCACAACACCAATGTTCAAGCCCTGAGGAGATGGgtaagtccttagaaaacaagtttggcaactcctgtaccttaattactgtt Alignment from Exonerate_protein2genome ACGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCC-TGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGG ttccactcaaggaaaagagctgagtttaataataccatgccctcccacagATTTGGATGAGTGCTTAGACGAGTCTAACTGCAGAAATGGAGTCTTTGAAAATACACATGGTGGCTATCGCTGTGCACTGTACACCACCAACTGAATATAGTTCAGCACAACACCAATGTTCAAGCCCTGAGGAGATGGgtaagtccttagaaaacaagtttggcaactcctgtaccttaattactgtt Alignment from Exonerate_coding2genome ttccactcaaggaaaagagctgagtttaataataccatgccctcccacagatttggatgagtgcttagacgagtctaactgcagaaatggagtctttgaaaatacacatggtggctatcgctgtgcactgtacaccaccaactgaatatagttcagcacaacaccaatgttcaagccctgaggagatgggtaagtccttagaaaacaagtttggcaactcctgtaccttaattactgtt Alignment from GeneWise -------------------------------------------------GACGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGT-GCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGG TTCCACTCAAGGAAAAGAGCTGAGTTTAATAATACCATGCCCTCCCACAGATTTGGATGAGTGCTTAGACGAGTCTAACTGCAGAAATGGAGTCTTTGAAAATACACATGGTGGCTATCGCTGTGCACTGTACACCACCAACTGAATATAGTTCAGCACAACACCAATGTTCAAGCCCTGAGGAGATGGgtaagtccttagaaaacaagtttggcaactcctgtaccttaattactgtt #### Ltbp3_ID1273_25 --> 2 - 1 Original Alignment ACGTGGCACCg ggTCCCAGTGCCCGACTTCACAGAGTGAGAGC---AAT-TCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAg ACGTGGTACTggtactaatttttgaaggattttaattctgttccctccagggTCCCAGTGCTCCACTTTACAGGGTGAGATGCTTAACCTCATTTTGGGATACTACCCCGGTGCTACTTGGG---------CGAggtaagacaaagctggtgattgtatgcaaagtctactataggtggcaacct Alignment from CESAR ACGTGGCACCg ggTCCCAGTGCCCGACTTCACAGAGTGAGAGC---AAT-TCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAg ACGTGGTACTggtgaggatttttgaaggattttaattctgttccctccagggTCCCAGTGCTCCACTTTACAGGGTGAGATGCTTAACCTCATTTTGGGATACTACCCCGGTGCTACTTGGG---------CGAggtaagacaaagctggtgattgtatgcaaagtctactataggtatctgtgg Alignment from Spaln_aa2Genome ACGTGGCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAG----AGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG ACGTGGTACTGgtactaatttttgaaggattttaattctgttccctccagGGTCCCAGTGCTCCACTTTACAGGGTGAGATGcTTAACCTCATTTTGGGATACTACCCCGGTGCTACTTGGG---------CGAGgtaagacaaagctggtgattgtatgcaaagtctactataggtggcaacct Alignment from Spaln_nt2Genome ACGTGGCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGA-GC---AATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG ACGTGGTACTGgtactaatttttgaaggattttaattctgttccctccagGGTCCCAGTGCTCCACTTTACAGGGTGAGATGCTTAACCTCATTTTGGGATACTACCCCGGTGCTACTTGG---------GCGAGgtaagacaaagctggtgattgtatgcaaagtctactataggtggcaacct Alignment from Pairagon ACGTGGCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAGCAAT--------TCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG ACGTGGTACTGgtactaatttttgaaggattttaattctgttccctccagGGTCCCAGTGCTCCACTTTACAGGGTGAG----ATGCTTAACCTCATTTTGGGATACTACCCCGGTGCTACTTGG---------GCGAGgtaagacaaagctggtgattgtatgcaaagtctactataggtggcaacct Alignment from Exonerate_protein2genome ACGTGGCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAGC----AATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG ACGTGGTACTGgtactaatttttgaaggattttaattctgttccctccagGGTCCCAGTGCTCCACTTTACAGGGTGAGATGCTTAACCTCATTTTGGGATACTACCCCGGTGCTACTTGGG---------CGAGgtaagacaaagctggtgattgtatgcaaagtctactataggtggcaacct Alignment from Exonerate_coding2genome acgtggtactggtactaatttttgaaggattttaattctgttccctccagggtcccagtgctccactttacagggtgagatgcttaacctcattttgggatactaccccggtgctacttgggcgaggtaagacaaagctggtgattgtatgcaaagtctactataggtggcaacct Alignment from GeneWise ACGTGGCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAGC---AAT-TCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAG- ---------- ACGTGGTACTGgtactaatttttgaaggattttaattctgttccctccagGGTCCCAGTGCTCCACTTTACAGGGTGAGATGCTTAACCTCATTTTGGGATACTACCCCGGTGCTACTTGGGCGAGgtaagacaaagctggtgattgtatgcaaagtctactatagGTGGCAACCT #### Ltbp3_ID1274_26 --> 2 - 1 Original Alignment acGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGC-TGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGg gtgattgtatgcaaagtctactataggtatctgtggcctttgctttgcagatGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACCTGTGCACCACGCCCCGGTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCCATTGGATGCCTCCCGTGCCCGACGTGTAggtaagtatgacatcagggggcggatgggggtggaagacatcgtgaactta Alignment from CESAR acGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGC-TGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGg gtgattgtatgcaaagtctactataggtatctgtggcctttgctttgcagatGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACCTGTGCACCACGCCCCGGTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCCATTGGATGCCTCCCGTGCCCGACGTGTAggtaagtatgacatcagggggcggatgggggtggaagacatcgtgaactta Alignment from Spaln_aa2Genome ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGC-TGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG gtgattgtatgcaaagtctactataggtatctgtggcctttgctttgcagATGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACcTGTGCACCACGCCCCGGTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCCATTGGATGCCTCCCGTGCCCGACGTGTAGgtaagtatgacatcagggggcggatgggggtggaagacatcgtgaactta Alignment from Spaln_nt2Genome ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGC-TGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG gtgattgtatgcaaagtctactataggtatctgtggcctttgctttgcagATGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACCTGTGCACCACGCCCCGGTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCCATTGGATGCCTCCCGTGCCCGACGTGTAGgtaagtatgacatcagggggcggatgggggtggaagacatcgtgaactta Alignment from Pairagon ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACG-CTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG gtgattgtatgcaaagtctactataggtatctgtggcctttgctttgcagATGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACCTGTGCACCACGCCCCGGTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCCATTGGATGCCTCCCGTGCCCGACGTGTAGgtaagtatgacatcagggggcggatgggggtggaagacatcgtgaactta Alignment from Exonerate_protein2genome ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGC-TGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG gtgattgtatgcaaagtctactataggtatctgtggcctttgctttgcagATGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACCTGTGCACCACGCCCCGGTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCCATTGGATGCCTCCCGTGCCCGACGTGTAGgtaagtatgacatcagggggcggatgggggtggaagacatcgtgaactta Alignment from Exonerate_coding2genome gtgattgtatgcaaagtctactataggtatctgtggcctttgctttgcagatgaagacagctcagaggaagattcagatgagtgccgttgtgtcattgggcacctgtgcaccacgccccggtggggctgtatgtgagtgtcctggcggctttccattggatgcctcccgtgcccgacgtgtaggtaagtatgacatcagggggcggatgggggtggaagacatcgtgaactta Alignment from GeneWise ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTG-AGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG gtgattgtatgcaaagtctactataggtatctgtggcctttgctttgcagATGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACCTGTGCACCACGCCCCGGTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCCATTGGATGCCTCCCGTGCCCGACGTGTAGgtaagtatgacatcagggggcggatgggggtggaagacatcgtgaactta #### Macrod1_ID2051_6 --> 2 - 0 Original Alignment atGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTG-AGCAGC---CTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG ggaagacatcattggcactcccctctttcgcccgtgtctcttcttgaaagatGTCATT------GTGGGGCTCATTGCAGTAGGG------------AGTGAGGCGGCTGAATTCCACAGCTGTTATCTGCAGCAGTCCTTTAGACCTACTGCTAGAACACAGATTATGTCCAGTTgtgagttggttgaatcaatggcaaaagctggcatttaaacactagcagaa Alignment from CESAR atGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTG-AGCAGC---CTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG ggaagacatcattggcactcccctctttcgcccgtgtctcttcttgaaagatGTCATT------GTGGGGCTCATTGCAGTAGGG------------AGTGAGGCGGCTGAATTCCACAGCTGTTATCTGCAGCAGTCCTTTAGACCTACTGCTAGAACACAGATTATGTCCAGTTgtgagttggttgaatcaatggcaaaagctggcatttaaacactagcagaa Alignment from Spaln_aa2Genome ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTG----AGCAGCCTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG ggaagacatcattggcactcccctctttcgcccgtgtctcttcttgaaagATGTCATT------GTGGGGCTCATTGCAGTAGGG------------AGTGAGGCGGCTGAATTCCACAGCTGTTATCTGCAGcAGTCCTTTAGACCTACTGCTAGAACACAGATTATGTCCAGTTgtgagttggttgaatcaatggcaaaagctggcatttaaacactagcagaa Alignment from Spaln_nt2Genome ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTG-AGCAGCC---TGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG ggaagacatcattggcactcccctctttcgcccgtgtctcttcttgaaagATGTCAT------TGTGGGGCTCATTGCAGTAGG------------GAGTGAGGCGGCTGAATTCCACAGCTGTTATCTGCAGCAGTCCTTTAGACCTACTGCTAGAACACAGATTATGTCCAGTTgtgagttggttgaatcaatggcaaaagctggcatttaaacactagcagaa Alignment from Pairagon ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTG-AGCAGCC---TGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG ggaagacatcattggcactcccctctttcgcccgtgtctcttcttgaaagATGTCATT------GTGGGGCTCATTGCAGTAGG------------GAGTGAGGCGGCTGAATTCCACAGCTGTTATCTGCAGCAGTCCTTTAGACCTACTGCTAGAACACAGATTATGTCCAGTTgtgagttggttgaatcaatggcaaaagctggcatttaaacactagcagaa Alignment from Exonerate_protein2genome ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTG----AGCAGCCTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG ggaagacatcattggcactcccctctttcgcccgtgtctcttcttgaaagATGTCATT------GTGGGGCTCATTGCAGTAGGG------------AGTGAGGCGGCTGAATTCCACAGCTGTTATCTGCAGCAGTCCTTTAGACCTACTGCTAGAACACAGATTATGTCCAGTTgtgagttggttgaatcaatggcaaaagctggcatttaaacactagcagaa Alignment from Exonerate_coding2genome ggaagacatcattggcactcccctctttcgcccgtgtctcttcttgaaagatgtcattgtggggctcattgcagtagggagtgaggcggctgaattccacagctgttatctgcagcagtcctttagacctactgctagaacacagattatgtccagttgtgagttggttgaatcaatggcaaaagctggcatttaaacactagcagaa Alignment from GeneWise ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTG-AGCAGC---CTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG ggaagacatcattggcactcccctctttcgcccgtgtctcttcttgaaagATGTCATT------GTGGGGCTCATTGCAGTAGGG------------AGTGAGGCGGCTGAATTCCACAGCTGTTATCTGCAGCAGTCCTTTAGACCTACTGCTAGAACACAGATTATGTCCAGTTgtgagttggttgaatcaatggcaaaagctggcatttaaacactagcagaa #### Macrod1_ID2052_7 --> 0 - 1 Original Alignment GCTTTCCCGTGC-ATCTCCACAGGCGTGTTTg aaataaagaaaaaccatatgcgtgtctgagcctcctctgttttcctctagACCTTTCCATGCCATCTCCACAGGGGTGATTagtaggttgaggggaacttggaacatggaataaaggaaaactgagtagaat Alignment from CESAR GCTTTCCCGTGC-ATCTCCACAGGCGTGTTTg aaataaagaaaaaccatatgcgtgtctgagcctcctctgttttcctctagACCTTTCCATGCCATCTCCACAGGGGTGATTagtaggttgaggggaacttggaacatggaataaaggaaaactgagtagaat Alignment from Spaln_aa2Genome -GCTTTCCCGTGCATCTCCACAGGCGTGTTTG aaataaagaaaaaccatatgcgtgtctgagcctcctctgttttcctctagACCTTTCCATGCCATCTCCACAGGGGTGATTAgtaggttgaggggaacttggaacatggaataaaggaaaactgagtagaat Alignment from Spaln_nt2Genome GCTTTCCCGTGC-ATCTCCACAGGCGTGTTTG aaataaagaaaaaccatatgcgtgtctgagcctcctctgttttcctctagACCTTTCCATGCCATCTCCACAGGGGTGATTAgtaggttgaggggaacttggaacatggaataaaggaaaactgagtagaat Alignment from Pairagon GCTTTCCCGTG-CATCTCCACAGGCGTGTTTG aaataaagaaaaaccatatgcgtgtctgagcctcctctgttttcctctagACCTTTCCATGCCATCTCCACAGGGGTGATTAgtaggttgaggggaacttggaacatggaataaaggaaaactgagtagaat Alignment from Exonerate_protein2genome aaataaagaaaaaccatatgcgtgtctgagcctcctctgttttcctctagacctttccatgccatctccacaggggtgattagtaggttgaggggaacttggaacatggaataaaggaaaactgagtagaat Alignment from Exonerate_coding2genome aaataaagaaaaaccatatgcgtgtctgagcctcctctgttttcctctagacctttccatgccatctccacaggggtgattagtaggttgaggggaacttggaacatggaataaaggaaaactgagtagaat Alignment from GeneWise --- aaataaagaaaaaccatatgcgtgtctgagcctcctctgttttcctctagacctttccatgccatctccacaggggtgattagtaggttgaggggaacttggaacatggaataaaggaaaactgagtagAAT #### Macrod1_ID2053_8 --> 2 - 0 Original Alignment gcTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTG-GAGCAGCACAAGGACAAG aatggggtggggcccaatatgcatttacaatgtttttctttcccccctaggcTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAATGGTTGCGAGCAACACAAGGACAAGgtcgggccaaattcacattacatgacgggagcttggttggatgaagtggt Alignment from CESAR gcTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTG-GAGCAGCACAAGGACAAG aatggggtggggcccaatatgcatttacaatgtttttctttcccccctaggcTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAATGGTTGCGAGCAACACAAGGACAAGgtcgggccaaattcacattacatgacgggagcttggttggatgaagtggt Alignment from Spaln_aa2Genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTG-GAGCAGCACAAGGACAAG aatggggtggggcccaatatgcatttacaatgtttttctttcccccctagGCTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAATGGTTGcGAGCAACACAAGGACAAGgtcgggccaaattcacattacatgacgggagcttggttggatgaagtggt Alignment from Spaln_nt2Genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTG-GAGCAGCACAAGGACAAG aatggggtggggcccaatatgcatttacaatgtttttctttcccccctagGCTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAATGGTTGCGAGCAACACAAGGACAAGgtcgggccaaattcacattacatgacgggagcttggttggatgaagtggt Alignment from Pairagon GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTG-GAGCAGCACAAGGACAAG aatggggtggggcccaatatgcatttacaatgtttttctttcccccctagGCTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAATGGTTGCGAGCAACACAAGGACAAGgtcgggccaaattcacattacatgacgggagcttggttggatgaagtggt Alignment from Exonerate_protein2genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTG-GAGCAGCACAAGGACAAG aatggggtggggcccaatatgcatttacaatgtttttctttcccccctagGCTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAATGGTTGCGAGCAACACAAGGACAAGgtcgggccaaattcacattacatgacgggagcttggttggatgaagtggt Alignment from Exonerate_coding2genome aatggggtggggcccaatatgcatttacaatgtttttctttcccccctaggctaccccaatgaggaggctgcagaggtagtgctggtttcattgcaggaatggttgcgagcaacacaaggacaaggtcgggccaaattcacattacatgacgggagcttggttggatgaagtggt Alignment from GeneWise -------------CCGTGCATCTCCACAGGCGTGTTT------------GGCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGG-CTGGAGCAGCACAAGGACAAG AATGGGGTGGGGCCCAATATGCATTTACAATGTTTTTCTTTCCCCCCTAGGCTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAATGGTTGCGAGCAACACAAGGACAAGgtcgggccaaattcacattacatgacgggagcttggttggatgaagtggt #### Macrod1_ID2054_9 --> 0 - 1 Original Alignment GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAG-CGCCTTCCCCATTATTTCCCAGTAg ttcacctgttatgttccaagtttaagtattcatctttgttttgttttcagGTGGATCGGCTCATTATCTGTGTGTGCTTGGAGAAAGAAGAGGGCATTTACAGGGAACCATCTTCCCCATTATTTCCCAGTAggtaagcacaagtggctcctatgcttgaagggacccctcacctctgcttac Alignment from CESAR GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAG-CGCCTTCCCCATTATTTCCCAGTAg ttcacctgttatgttccaagtttaagtattcatctttgttttgttttcagGTGGATCGGCTCATTATCTGTGTGTGCTTGGAGAAAGAAGAGGGCATTTACAGGGAACCATCTTCCCCATTATTTCCCAGTAggtaagcacaagtggctcctatgcttgaagggacccctgttcactcctcct Alignment from Spaln_aa2Genome GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAG-CGCCTTCCCCATTATTTCCCAGTAG ttcacctgttatgttccaagtttaagtattcatctttgttttgttttcagGTGGATCGGCTCATTATCTGTGTGTGCTTGGAGAAAGAAGAGGGCATTTACAGGGAAcCATCTTCCCCATTATTTCCCAGTAGgtaagcacaagtggctcctatgcttgaagggacccctcacctctgcttac Alignment from Spaln_nt2Genome GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGC-CTTCCCCATTATTTCCCAGTAGCC ttcacctgttatgttccaagtttaagtattcatctttgttttgttttcagGTGGATCGGCTCATTATCTGTGTGTGCTTGGAGAAAGAAGAGGGCATTTACAGGGAACCATCTTCCCCATTATTTCCCAGTAGGTaagcacaagtggctcctatgcttgaagggacccctcacctctgcttac Alignment from Pairagon GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAG-CGCCTTCCCCATTATTTCCCAGTAGCC ttcacctgttatgttccaagtttaagtattcatctttgttttgttttcagGTGGATCGGCTCATTATCTGTGTGTGCTTGGAGAAAGAAGAGGGCATTTACAGGGAACCATCTTCCCCATTATTTCCCAGTAGGTaagcacaagtggctcctatgcttgaagggacccctcacctctgcttac Alignment from Exonerate_protein2genome GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAG-CGCCTTCCCCATTATTTCCCAGTA ttcacctgttatgttccaagtttaagtattcatctttgttttgttttcagGTGGATCGGCTCATTATCTGTGTGTGCTTGGAGAAAGAAGAGGGCATTTACAGGGAACCATCTTCCCCATTATTTCCCAGTAggtaagcacaagtggctcctatgcttgaagggacccctcacctctgcttac Alignment from Exonerate_coding2genome ttcacctgttatgttccaagtttaagtattcatctttgttttgttttcaggtggatcggctcattatctgtgtgtgcttggagaaagaagagggcatttacagggaaccatcttccccattatttcccagtaggtaagcacaagtggctcctatgcttgaagggacccctcacctctgcttac Alignment from GeneWise GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAG-CGCCTTCCCCATTATTTCCCAGTAGCC ttcacctgttatgttccaagtttaagtattcatctttgttttgttttcagGTGGATCGGCTCATTATCTGTGTGTGCTTGGAGAAAGAAGAGGGCATTTACAGGGAACCATCTTCCCCATTATTTCCCAGTAGGTaagcacaagtggctcctatgcttgaagggacccctcacctctgcttac #### Map4k2_ID1622_2 --> 0 - 1 Original Alignment GCCCGTGACACCGTC-ACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGACCCAg cctagattctaatcaagtgatgtcaccttgaggtttgcctctcctttcagGCTCGTGACACCGTCCACATCTGAGCTGGCTGCAGTGAAGATTGTCAAGCTAGACCCAggtacttggataggcacagagtccttcatccagctgagtgacagggaagac Alignment from CESAR GCCCGTGACACCGTC-ACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGACCCAg cctagattctaatcaagtgatgtcaccttgaggtttgcctctcctttcagGCTCGTGACACCGTCCACATCTGAGCTGGCTGCAGTGAAGATTGTCAAGCTAGACCCAggtacttggataggcacagagtccttcatccagctgagtgacagggaagac Alignment from Spaln_aa2Genome GCCCGTGACACCGTC-ACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGACCCAG cctagattctaatcaagtgatgtcaccttgaggtttgcctctcctttcagGCTCGTGACACCGTCcACATCTGAGCTGGCTGCAGTGAAGATTGTCAAGCTAGACCCAGgtacttggataggcacagagtccttcatccagctgagtgacagggaagac Alignment from Spaln_nt2Genome GCCCGTGACACCGTC-ACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGACCCAG cctagattctaatcaagtgatgtcaccttgaggtttgcctctcctttcagGCTCGTGACACCGTCCACATCTGAGCTGGCTGCAGTGAAGATTGTCAAGCTAGACCCAGgtacttggataggcacagagtccttcatccagctgagtgacagggaagac Alignment from Pairagon ------------------------------------------------AGGCCCGTGACACCGT-CACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGACCCAG CCTAGATTCTAATCAAGTGATGTCACCTTGAGGTTTGCCTCTCCTTTCAGGCTCGTGACACCGTCCACATCTGAGCTGGCTGCAGTGAAGATTGTCAAGCTAGACCCAGgtacttggataggcacagagtccttcatccagctgagtgacagggaagac Alignment from Exonerate_protein2genome cctagattctaatcaagtgatgtcaccttgaggtttgcctctcctttcaggctcgtgacaccgtccacatctgagctggctgcagtgaagattgtcaagctagacccaggtacttggataggcacagagtccttcatccagctgagtgacagggaagac Alignment from Exonerate_coding2genome cctagattctaatcaagtgatgtcaccttgaggtttgcctctcctttcaggctcgtgacaccgtccacatctgagctggctgcagtgaagattgtcaagctagacccaggtacttggataggcacagagtccttcatccagctgagtgacagggaagac Alignment from GeneWise cctagattctaatcaagtgatgtcaccttgaggtttgcctctcctttcaggctcgtgacaccgtccacatctgagctggctgcagtgaagattgtcaagctagacccaggtacttggataggcacagagtccttcatccagctgagtgacagggaagac #### Map4k2_ID1623_3 --> 2 - 2 Original Alignment ggGACGACATCAGCTCTCTTCAGCAGGAAATCACC-ATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCag aatcattcaggaacagaacaacgcattgtcttcttgttcatcccacccagggGATGACATCAGCTCTCTTCAGCAGGAAATCACCCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGTAGCTACCTCaggtgagcctgctcagacctacatacccaggtgccttactcttaggtgttca Alignment from CESAR ggGACGACATCAGCTCTCTTCAGCAGGAAATCACC-ATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCag aatcattcaggaacagaacaacgcattgtcttcttgttcatcccacccagggGATGACATCAGCTCTCTTCAGCAGGAAATCACCCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGTAGCTACCTCaggtgagcctgctcagacctacatacccaggtgccttactcttaggtgttca Alignment from Spaln_aa2Genome GGGACGACATCAGCTCTCTTCAGCAGGAAATCACC-ATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG aatcattcaggaacagaacaacgcattgtcttcttgttcatcccacccagGGGATGACATCAGCTCTCTTCAGCAGGAAATCACCcATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGTAGCTACCTCAGgtgagcctgctcagacctacatacccaggtgccttactcttaggtgttca Alignment from Spaln_nt2Genome GGGACGACATCAGCTCTCTTCAGCAGGAAATCA-CCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG aatcattcaggaacagaacaacgcattgtcttcttgttcatcccacccagGGGATGACATCAGCTCTCTTCAGCAGGAAATCACCCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGTAGCTACCTCAGgtgagcctgctcagacctacatacccaggtgccttactcttaggtgttca Alignment from Pairagon GGGACGACATCAGCTCTCTTCAGCAGGAAATCA-CCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG aatcattcaggaacagaacaacgcattgtcttcttgttcatcccacccagGGGATGACATCAGCTCTCTTCAGCAGGAAATCACCCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGTAGCTACCTCAGgtgagcctgctcagacctacatacccaggtgccttactcttaggtgttca Alignment from Exonerate_protein2genome aatcattcaggaacagaacaacgcattgtcttcttgttcatcccacccaggggatgacatcagctctcttcagcaggaaatcacccatccttcgtgaatgccgccaccccaatgttgtggcctacatcagtagctacctcaggtgagcctgctcagacctacatacccaggtgccttactcttaggtgttca Alignment from Exonerate_coding2genome aatcattcaggaacagaacaacgcattgtcttcttgttcatcccacccaggggatgacatcagctctcttcagcaggaaatcacccatccttcgtgaatgccgccaccccaatgttgtggcctacatcagtagctacctcaggtgagcctgctcagacctacatacccaggtgccttactcttaggtgttca Alignment from GeneWise GGGACGACATCAGCTCTCTTCAGCAGGAAATCACC-ATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG aatcattcaggaacagaacaacgcattgtcttcttgttcatcccacccagGGGATGACATCAGCTCTCTTCAGCAGGAAATCACCCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGTAGCTACCTCAGgtgagcctgctcagacctacatacccaggtgccttactcttaggtgttca #### Map4k2_ID1630_9 --> 1 - 2 Original Alignment gATGGCACCAGAGGTTGCCGCTGTGGAA-CGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATGag agagcatatggaaggatgacctgatttaatacttttaaaattaatttcaggATGGCCCCAGAAGTTGCTGCTGTGGAGCTGTAAGGGAGGCTACAATGAGCTATGTGACATATGGGCATTAGGTATTACTCCAGTGGAATCAAGTGAACTCCAACATCTGTTACTCCAGCTGCACCCCATGaggtgagttcagaacttgcagtgttcttgtcccttcttattcccttgactcc Alignment from CESAR gATGGCACCAGAGGTTGCCGCTGTGGAACGC-AAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATGag agagcatatggaaggatgacctgatttaatacttttaaaattaatttcaggATGGCCCCAGAAGTTGCTGCTGTGGAGCTGTAAGGGAGGCTACAATGAGCTATGTGACATATGGGCATTAGGTATTACTCCAGTGGAATCAAGTGAACTCCAACATCTGTTACTCCAGCTGCACCCCATGaggtgagttcagaacttgcagtgttcttgtcccttcttattcccttgacctt Alignment from Spaln_aa2Genome GATGGCACCAGAGGTTGCCGCTGTGGAA-CGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATGAG agagcatatggaaggatgacctgatttaatacttttaaaattaatttcagGATGGCCCCAGAAGTTGCTGCTGTGGAGcTGTAAGGGAGGCTACAATGAGCTATGTGACATATGGGCATTAGGTATTACTCCAGTGGAATCAAGTGAACTCCAACATCTGTTACTCCAGCTGCACCCCATGAGgtgagttcagaacttgcagtgttcttgtcccttcttattcccttgactcc Alignment from Spaln_nt2Genome GATGGCACCAGAGGTTGCCGCTGTGGAAC-GCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATGAG agagcatatggaaggatgacctgatttaatacttttaaaattaatttcagGATGGCCCCAGAAGTTGCTGCTGTGGAGCTGTAAGGGAGGCTACAATGAGCTATGTGACATATGGGCATTAGGTATTACTCCAGTGGAATCAAGTGAACTCCAACATCTGTTACTCCAGCTGCACCCCATGAGgtgagttcagaacttgcagtgttcttgtcccttcttattcccttgactcc Alignment from Pairagon GATGGCACCAGAGGTTGCCGCTGTGGAAC-GCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTG---------------------------TTCCACCTGCACCCCATGAG agagcatatggaaggatgacctgatttaatacttttaaaattaatttcagGATGGCCCCAGAAGTTGCTGCTGTGGAGCTGTAAGGGAGGCTACAATGAGCTATGTGACATATGGGCATTAGGTATTACT---------------------------CCAGTGGAATCAAGTGAACTCCAACATCTGTTACTCCAGCTGCACCCCATGAGgtgagttcagaacttgcagtgttcttgtcccttcttattcccttgactcc Alignment from Exonerate_protein2genome agagcatatggaaggatgacctgatttaatacttttaaaattaatttcaggatggccccagaagttgctgctgtggagctgtaagggaggctacaatgagctatgtgacatatgggcattaggtattactccagtggaatcaagtgaactccaacatctgttactccagctgcaccccatgaggtgagttcagaacttgcagtgttcttgtcccttcttattcccttgactcc Alignment from Exonerate_coding2genome agagcatatggaaggatgacctgatttaatacttttaaaattaatttcaggatggccccagaagttgctgctgtggagctgtaagggaggctacaatgagctatgtgacatatgggcattaggtattactccagtggaatcaagtgaactccaacatctgttactccagctgcaccccatgaggtgagttcagaacttgcagtgttcttgtcccttcttattcccttgactcc Alignment from GeneWise GATGGCACCAGAGGTTGCCGCTGTGGAA-CGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATGAG agagcatatggaaggatgacctgatttaatacttttaaaattaatttcagGATGGCCCCAGAAGTTGCTGCTGTGGAGCTGTAAGGGAGGCTACAATGAGCTATGTGACATATGGGCATTAGGTATTACTCCAGTGGAATCAAGTGAACTCCAACATCTGTTACTCCAGCTGCACCCCATGAGgtgagttcagaacttgcagtgttcttgtcccttcttattcccttgactcc #### Map4k2_ID1633_12 --> 0 - 0 Original Alignment CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACC-CTCTCCCCTGAAGACAGTGAGCTGGAG gaaaaggtggaagattttgaaaaagggatgttttggggaatggggtttagCATCCTTTCACAACCCAACATCTCCCTCCAGCACTTCTTACCCAACTCCTTGACAAGACTAGTGATCCCCATTTAGGTACCCCTCTCCCCTGAAGACAGTAAGCTAAAGgtaagataggggaccaggtatagcttgcggggtaggtggtgtccacaaga Alignment from CESAR CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACC-CTCTCCCCTGAAGACAGTGAGCTGGAG gaaaaggtggaagattttgaaaaagggatgttttggggaatggggtttagCATCCTTTCACAACCCAACATCTCCCTCCAGCACTTCTTACCCAACTCCTTGACAAGACTAGTGATCCCCATTTAGGTACCCCTCTCCCCTGAAGACAGTAAGCTAAAGgtaagataggggaccaggtatagcttgcggggtaggtggtgtccacaaga Alignment from Spaln_aa2Genome CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACC-CTCTCCCCTGAAGACAGTGAGCTGGAG gaaaaggtggaagattttgaaaaagggatgttttggggaatggggtttagCATCCTTTCACAACCCAACATCTCCCTCCAGCACTTCTTACCCAACTCCTTGACAAGACTAGTGATCCCCATTTAGGTACCcCTCTCCCCTGAAGACAGTAAGCTAAAGgtaagataggggaccaggtatagcttgcggggtaggtggtgtccacaaga Alignment from Spaln_nt2Genome CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCC-TCTCCCCTGAAGACAGTGAGCTGGAG gaaaaggtggaagattttgaaaaagggatgttttggggaatggggtttagCATCCTTTCACAACCCAACATCTCCCTCCAGCACTTCTTACCCAACTCCTTGACAAGACTAGTGATCCCCATTTAGGTACCCCTCTCCCCTGAAGACAGTAAGCTAAAGgtaagataggggaccaggtatagcttgcggggtaggtggtgtccacaaga Alignment from Pairagon CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGG-AACCCTCTCCCCTGAAGACAGTGAGCTGGAG gaaaaggtggaagattttgaaaaagggatgttttggggaatggggtttagCATCCTTTCACAACCCAACATCTCCCTCCAGCACTTCTTACCCAACTCCTTGACAAGACTAGTGATCCCCATTTAGGTACCCCTCTCCCCTGAAGACAGTAAGCTAAAGgtaagataggggaccaggtatagcttgcggggtaggtggtgtccacaaga Alignment from Exonerate_protein2genome gaaaaggtggaagattttgaaaaagggatgttttggggaatggggtttagcatcctttcacaacccaacatctccctccagcacttcttacccaactccttgacaagactagtgatccccatttaggtacccctctcccctgaagacagtaagctaaaggtaagataggggaccaggtatagcttgcggggtaggtggtgtccacaaga Alignment from Exonerate_coding2genome gaaaaggtggaagattttgaaaaagggatgttttggggaatggggtttagcatcctttcacaacccaacatctccctccagcacttcttacccaactccttgacaagactagtgatccccatttaggtacccctctcccctgaagacagtaagctaaaggtaagataggggaccaggtatagcttgcggggtaggtggtgtccacaaga Alignment from GeneWise CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACC-CTCTCCCCTGAAGACAGTGAGCTGGAG gaaaaggtggaagattttgaaaaagggatgttttggggaatggggtttagCATCCTTTCACAACCCAACATCTCCCTCCAGCACTTCTTACCCAACTCCTTGACAAGACTAGTGATCCCCATTTAGGTACCCCTCTCCCCTGAAGACAGTAAGCTAAAGgtaagataggggaccaggtatagcttgcggggtaggtggtgtccacaaga #### Map4k2_ID1634_13 --> 0 - 1 Original Alignment ACCCATGACATGTTTCCAGATACCATCCATTCCCGCAGCCATCATGGTCCT-GCTGAGAGGACCCCCTCCGAGATCCAGt taagtctactggtgcatagcaagataacttcttcttccttcctgctatagACCCATGATATGTTCCCAGATACTATCCATTCCCACAGCCATCACGGTCCACGCTGAGAGGACTCCTTCAGAGATCCAAtgtattctatcaggtggtgaaaaaatcctaatgagatgaggtaactgcaga Alignment from CESAR ACCCATGACATGTTTCCAGATACCATCCATTCCCGCAGCCATCATGGTCCT-GCTGAGAGGACCCCCTCCGAGATCCAGt taagtctactggtgcatagcaagataacttcttcttccttcctgctatagACCCATGATATGTTCCCAGATACTATCCATTCCCACAGCCATCACGGTCCACGCTGAGAGGACTCCTTCAGAGATCCAAtgtattctatcaggtggtgaaaaaatcctaatgagatgaggtaactgcaga Alignment from Spaln_aa2Genome ACCCATGACATGTTTCCAGATACCATCCATTCCCGCAGCCATCATGGTCCT-GCTGAGAGGACCCCCTCCGAGATCCAGT taagtctactggtgcatagcaagataacttcttcttccttcctgctatagACCCATGATATGTTCCCAGATACTATCCATTCCCACAGCCATCACGGTCCAcGCTGAGAGGACTCCTTCAGAGATCCAATgtattctatcaggtggtgaaaaaatcctaatgagatgaggtaactgcaga Alignment from Spaln_nt2Genome ACCCATGACATGTTTCCAGATACCATCCATTCCCGCAGCCATCATGGTCCT-GCTGAGAGGACCCCCTCCGAGATCCAGT taagtctactggtgcatagcaagataacttcttcttccttcctgctatagACCCATGATATGTTCCCAGATACTATCCATTCCCACAGCCATCACGGTCCACGCTGAGAGGACTCCTTCAGAGATCCAATgtattctatcaggtggtgaaaaaatcctaatgagatgaggtaactgcaga Alignment from Pairagon ACCCATGACATGTTTCCAGATACCATCCATTCCCGCAGCCATCATGGTCC-TGCTGAGAGGACCCCCTCCGAGATCCAGT taagtctactggtgcatagcaagataacttcttcttccttcctgctatagACCCATGATATGTTCCCAGATACTATCCATTCCCACAGCCATCACGGTCCACGCTGAGAGGACTCCTTCAGAGATCCAATgtattctatcaggtggtgaaaaaatcctaatgagatgaggtaactgcaga Alignment from Exonerate_protein2genome taagtctactggtgcatagcaagataacttcttcttccttcctgctatagacccatgatatgttcccagatactatccattcccacagccatcacggtccacgctgagaggactccttcagagatccaatgtattctatcaggtggtgaaaaaatcctaatgagatgaggtaactgcaga Alignment from Exonerate_coding2genome taagtctactggtgcatagcaagataacttcttcttccttcctgctatagacccatgatatgttcccagatactatccattcccacagccatcacggtccacgctgagaggactccttcagagatccaatgtattctatcaggtggtgaaaaaatcctaatgagatgaggtaactgcaga Alignment from GeneWise ACCCATGACATGTTTCCAGATACCATCCATTCCCGCAGCCATCATGGTCCT-GCTGAGAGGACCCCCTCCGAGATCCAGT taagtctactggtgcatagcaagataacttcttcttccttcctgctatagACCCATGATATGTTCCCAGATACTATCCATTCCCACAGCCATCACGGTCCACGCTGAGAGGACTCCTTCAGAGATCCAATgtattctatcaggtggtgaaaaaatcctaatgagatgaggtaactgcaga #### Map4k2_ID1636_15 --> 0 - 2 Original Alignment TGGGAGGAGGAGTGGACGCTCCTGGGA-AAAGAGGAACTGAGTgg ctttccattgtgtgtttactttttttaacatttatttcatcttctgctagTGGGAAGAGGAGTGGACGCTCCTGGGACAAAGAAGAACTAAGTgggtaagcgatagtggttaggaaagtaagggtccagatgtaccctgttgatg Alignment from CESAR TGGGAGGAGGAGTGGACGCTCCTGGGA-AAAGAGGAACTGAGTgg ctttccattgtgtgtttactttttttaacatttatttcatcttctgctagTGGGAAGAGGAGTGGACGCTCCTGGGACAAAGAAGAACTAAGTgggtaagcgatagtggttaggaaagtaagggtccagatgtaccctgttgatg Alignment from Spaln_aa2Genome TGGGAGGAGGAGTGGACGCTCCTGGGA-AAAGAGGAACTGAGTGG ctttccattgtgtgtttactttttttaacatttatttcatcttctgctagTGGGAAGAGGAGTGGACGCTCCTGGGAcAAAGAAGAACTAAGTGGgtaagcgatagtggttaggaaagtaagggtccagatgtaccctgttgatg Alignment from Spaln_nt2Genome TGGGAGGAGGAGTGGACGCTCCTGGGA-AAAGAGGAACTGAGTGG ctttccattgtgtgtttactttttttaacatttatttcatcttctgctagTGGGAAGAGGAGTGGACGCTCCTGGGACAAAGAAGAACTAAGTGGgtaagcgatagtggttaggaaagtaagggtccagatgtaccctgttgatg Alignment from Pairagon TGGGAGGAGGAGTGGACGCTCCTGGGA-AAAGAGGAACTGAGTGG ctttccattgtgtgtttactttttttaacatttatttcatcttctgctagTGGGAAGAGGAGTGGACGCTCCTGGGACAAAGAAGAACTAAGTGGgtaagcgatagtggttaggaaagtaagggtccagatgtaccctgttgatg Alignment from Exonerate_protein2genome TGGGAGGAGGAGTGGACGCTCCTGGGA-AAAGAGGAACTGAGTGG ctttccattgtgtgtttactttttttaacatttatttcatcttctgctagTGGGAAGAGGAGTGGACGCTCCTGGGACAAAGAAGAACTAAGTGGgtaagcgatagtggttaggaaagtaagggtccagatgtaccctgttgatg Alignment from Exonerate_coding2genome ctttccattgtgtgtttactttttttaacatttatttcatcttctgctagtgggaagaggagtggacgctcctgggacaaagaagaactaagtgggtaagcgatagtggttaggaaagtaagggtccagatgtaccctgttgatg Alignment from GeneWise ctttccattgtgtgtttactttttttaacatttatttcatcttctgctagtgggaagaggagtggacgctcctgggacaaagaagaactaagtgggtaagcgatagtggttaggaaagtaagggtccagatgtaccctgttgatg #### Map4k2_ID1638_17 --> 1 - 0 Original Alignment gAGCCTGACTATCCGGCCAGCC-TTAGAACTCCAG actatcccccttgcaaatagtaataccacagctgtgcatggtctccacaggAGCCTGGCTATCCGGCCAGCCCTTAGAACTGCAGgtgagtcgtgatagtattatactaggagtggactcatagactagtggggg Alignment from CESAR gAGCCTGACTATCCGGCCAGCC-TTAGAACTCCAG actatcccccttgcaaatagtaataccacagctgtgcatggtctccacaggAGCCTGGCTATCCGGCCAGCCCTTAGAACTGCAGgtgagtcgtgatagtattatactaggagtggactcatagactagtggggg Alignment from Spaln_aa2Genome GAGCCTGACTATCCGGCCAGCCTTAGAACTCCAG actatcccccttgcaaatagtaataccacagctgtgcatggtctccacagGAGCCTGGCTATCCGGCCAGCCCTTAGA---ACTgcaggtgagtcgtgatagtattatactaggagtggactcatagactagtggggg Alignment from Spaln_nt2Genome GAGCCTGACTATCCGGCCAGCC-TTAGAACTCCAG actatcccccttgcaaatagtaataccacagctgtgcatggtctccacagGAGCCTGGCTATCCGGCCAGCCCTTAGAACTGCAGgtgagtcgtgatagtattatactaggagtggactcatagactagtggggg Alignment from Pairagon GAGCCTGACTATCCGGCCAG-CCTTAGAACTCCAG actatcccccttgcaaatagtaataccacagctgtgcatggtctccacagGAGCCTGGCTATCCGGCCAGCCCTTAGAACTGCAGgtgagtcgtgatagtattatactaggagtggactcatagactagtggggg Alignment from Exonerate_protein2genome actatcccccttgcaaatagtaataccacagctgtgcatggtctccacaggagcctggctatccggccagcccttagaactgcaggtgagtcgtgatagtattatactaggagtggactcatagactagtggggg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ---TGGACG------CTCCTGGGAA actatcccccttgcaaatagtaataccacagctgtgcatggtctccacaggagcctggctatccggccagcccttagaactgcaggtgagtcgtgatagtattatactagGAGTGGACTCATAGACTAGTGGGGG #### Map4k2_ID1643_22 --> 2 - 0 Original Alignment acCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAA-CTGCACGAGGACACAATGGAGAAG CTCATCTCCCAGCGC gttataattcagaggcgagcatgatgtgaacatggtgcttcttgtttcagacCAGTTCTTGGTAGTGGGAGCTAAGGAGGGCTTCTATACCCTCAACCTGCATAAACCTGCATGAGGATCGAATGGAAAAGgtgagtcttgttacactcatctcttgggtctccagCTGATCTCTCAGCAC Alignment from CESAR acCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAA-CTGCACGAGGACACAATGGAGAAG CTCATCTCCCAGCGC gttataattcagaggcgagcatgatgtgaacatggtgcttcttgtttcagacCAGTTCTTGGTAGTGGGAGCTAAGGAGGGCTTCTATACCCTCAACCTGCATAAACCTGCATGAGGATCGAATGGAAAAGgtgagtcttgttacaccccttgttctgtcttaaagCTGATCTCTCAGCAC Alignment from Spaln_aa2Genome ACCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCAC-GAACTGCACGAGGACACAATGGAGAAG CTCATCTCCCAGCGC gttataattcagaggcgagcatgatgtgaacatggtgcttcttgtttcagACCAGTTCTTGGTAGTGGGAGCTAAGGAGGGCTTCTATACCCTCAACCTGCATaAACCTGCATGAGGATCGAATGGAAAAGgtgagtcttgttacactcatctcttgggtctccagCTGATCTCTCAGCAC Alignment from Spaln_nt2Genome ACCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAAC-TGCACGAGGACACAATGGAGAAG CTCATCTCCCAGCGC gttataattcagaggcgagcatgatgtgaacatggtgcttcttgtttcagACCAGTTCTTGGTAGTGGGAGCTAAGGAGGGCTTCTATACCCTCAACCTGCATAAACCTGCATGAGGATCGAATGGAAAAGgtgagtcttgttacactcatctcttgggtctccagCTGATCTCTCAGCAC Alignment from Pairagon ACCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAA-CTGCACGAGGACACAATGGAGAAG CTCATCTCCCAGCGC gttataattcagaggcgagcatgatgtgaacatggtgcttcttgtttcagACCAGTTCTTGGTAGTGGGAGCTAAGGAGGGCTTCTATACCCTCAACCTGCATAAACCTGCATGAGGATCGAATGGAAAAGgtgagtcttgttacactcatctcttgggtctccagCTGATCTCTCAGCAC Alignment from Exonerate_protein2genome ACCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAA-CTGCACGAGGACACAATGGAGAAG CTCATCTCCCAGCGC gttataattcagaggcgagcatgatgtgaacatggtgcttcttgtttcagACCAGTTCTTGGTAGTGGGAGCTAAGGAGGGCTTCTATACCCTCAACCTGCATAAACCTGCATGAGGATCGAATGGAAAAGgtgagtcttgttacactcatctcttgggtctccagCTGATCTCTCAGCAC Alignment from Exonerate_coding2genome GTGACTCGAGACCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAA-CTGCACGAGGACACAATGGAGAAG CTCATCTCCCAGCGC gttataattcagaggcgagcatgatgtgaacatggtgcttCTTGTTTCAGACCAGTTCTTGGTAGTGGGAGCTAAGGAGGGCTTCTATACCCTCAACCTGCATAAACCTGCATGAGGATCGAATGGAAAAGgtgagtcttgttacactcatctcttgggtctccagCTGATCTCTCAGCAC Alignment from GeneWise ACCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCAC-GAACTGCACGAGGACACAATGGAGAAG CTCATCTCCCAGCGC gttataattcagaggcgagcatgatgtgaacatggtgcttcttgtttcagACCAGTTCTTGGTAGTGGGAGCTAAGGAGGGCTTCTATACCCTCAACCTGCATAAACCTGCATGAGGATCGAATGGAAAAGgtgagtcttgttacactcatctcttgggtctccagCTGATCTCTCAGCAC #### Map4k2_ID1647_26 --> 2 - 0 Original Alignment ttCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTG-CCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gcgggagtgccatgaagctggccccaccccctgagcaatactctctgcagtcCACAATCCTTATACTAGCAGCACATTCCTGCTGGCTGCTCTGCCCTGCAAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtgagtgacttttggactggttgtcacacaatggactggagatcagagtc Alignment from CESAR ttCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTG-CCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gcgggagtgccatgaagctggccccaccccctgagcaatactctctgcagtcCACAATCCTTATACTAGCAGCACATTCCTGCTGGCTGCTCTGCCCTGCAAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtgagtgacttttggactggttgtcacacaatggactggagatcagagtc Alignment from Spaln_aa2Genome TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTG-CCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gcgggagtgccatgaagctggccccaccccctgagcaatactctctgcagTCCACAATCCTTATACTAGCAGCACATTCCTGCTGGCTGCTCTGcCCTGCAAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtgagtgacttttggactggttgtcacacaatggactggagatcagagtc Alignment from Spaln_nt2Genome TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCC-TGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gcgggagtgccatgaagctggccccaccccctgagcaatactctctgcagTCCACAATCCTTATACTAGCAGCACATTCCTGCTGGCTGCTCTGCCCTGCAAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtgagtgacttttggactggttgtcacacaatggactggagatcagagtc Alignment from Pairagon TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTG-CCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gcgggagtgccatgaagctggccccaccccctgagcaatactctctgcagTCCACAATCCTTATACTAGCAGCACATTCCTGCTGGCTGCTCTGCCCTGCAAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtgagtgacttttggactggttgtcacacaatggactggagatcagagtc Alignment from Exonerate_protein2genome TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTG-CCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gcgggagtgccatgaagctggccccaccccctgagcaatactctctgcagTCCACAATCCTTATACTAGCAGCACATTCCTGCTGGCTGCTCTGCCCTGCAAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtgagtgacttttggactggttgtcacacaatggactggagatcagagtc Alignment from Exonerate_coding2genome TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTG-CCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gcgggagtgccatgaagctggccccaccccctgagcaatactctctgcagTCCACAATCCTTATACTAGCAGCACATTCCTGCTGGCTGCTCTGCCCTGCAAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtgagtgacttttggactggttgtcacacaatggactggagatcagagtc Alignment from GeneWise TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCT-GCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gcgggagtgccatgaagctggccccaccccctgagcaatactctctgcagTCCACAATCCTTATACTAGCAGCACATTCCTGCTGGCTGCTCTGCCCTGCAAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtgagtgacttttggactggttgtcacacaatggactggagatcagagtc #### Map4k2_ID1652_31 --> 0 - 2 Original Alignment GTGACGCAGGAGATAACAGATGAGACCAGGATCTTC-CGAGTACTGGGGGCTCACag gcttcctgaggacctacactgagaaggacctcagctttctctccttacagGTGACACAGGAGATAACAGATGATGCTAGGATATTCCCGAGTACTTGGAGCCCATaggtaaggacaacacagacctccttgatctttcaggatgtggggtgtattta Alignment from CESAR GTGACGCAGGAGATAACAGATGAGACCAGGATCTTC-CGAGTACTGGGGGCTCACag gcttcctgaggacctacactgagaaggacctcagctttctctccttacagGTGACACAGGAGATAACAGATGATGCTAGGATATTCCCGAGTACTTGGAGCCCATaggtaaggacaacacagacctccttgatctttcaggatgtggggatcctatc Alignment from Spaln_aa2Genome GTGACGCAGGAGATAACAGATGAGACCAGGATCTTC-CGAGTACTGGGGGCTCACAG gcttcctgaggacctacactgagaaggacctcagctttctctccttacagGTGACACAGGAGATAACAGATGATGCTAGGATATTCcCGAGTACTTGGAGCCCATAGgtaaggacaacacagacctccttgatctttcaggatgtggggtgtattta Alignment from Spaln_nt2Genome GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCC-GAGTACTGGGGGCTCACAG gcttcctgaggacctacactgagaaggacctcagctttctctccttacagGTGACACAGGAGATAACAGATGATGCTAGGATATTCCCGAGTACTTGGAGCCCATAGgtaaggacaacacagacctccttgatctttcaggatgtggggtgtattta Alignment from Pairagon GTGACGCAGGAGATAACAGATGAGACCAGGATCTT-CCGAGTACTGGGGGCTCACAG gcttcctgaggacctacactgagaaggacctcagctttctctccttacagGTGACACAGGAGATAACAGATGATGCTAGGATATTCCCGAGTACTTGGAGCCCATAGgtaaggacaacacagacctccttgatctttcaggatgtggggtgtattta Alignment from Exonerate_protein2genome GTGACGCAGGAGATAACAGATGAGACCAGGATCTTC-CGAGTACTGGGGGCTCACAG gcttcctgaggacctacactgagaaggacctcagctttctctccttacagGTGACACAGGAGATAACAGATGATGCTAGGATATTCCCGAGTACTTGGAGCCCATAGgtaaggacaacacagacctccttgatctttcaggatgtggggtgtattta Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GATGAGACCAGGATCTTCCGAGTACTGGGGGCT------------ gcttcctgaggacctacactgagaaggacctcagctttctctccttacaggtgacacaggagataacagatgatgctaggatattcccgagtacttggagcccataggtaagGACAACACAGACCTCCTTGATCTTTCAGGATGTGGGGTGTATTTA #### Mark2_ID2114_7 --> 0 - 0 Original Alignment ATAGTGTCTGCTGTGCAGTACTGTCAC-CAGAAGTTCATTGTTCATAGAGATCTAAAG atgctttggtgtatcaatctaatatactttttccttccccctccgtgcagATAGTGTCTGCTGTGCAATACTGTCACCCAGAAGTTCATTGTTCATAGAGATCTAAAGgtcactgatgttcctatccccatgatctgctgtgagggggccaggtggcc Alignment from CESAR ATAGTGTCTGCTGTGCAGTACTGTCAC-CAGAAGTTCATTGTTCATAGAGATCTAAAG atgctttggtgtatcaatctaatatactttttccttccccctccgtgcagATAGTGTCTGCTGTGCAATACTGTCACCCAGAAGTTCATTGTTCATAGAGATCTAAAGgtcactgatgttcctatccccatgatctgctgtgagggggccaggtggcc Alignment from Spaln_aa2Genome ATAGTGTCTGCTGTGCAGTACTGTCAC-CAGAAGTTCATTGTTCATAGAGATCTAAAG atgctttggtgtatcaatctaatatactttttccttccccctccgtgcagATAGTGTCTGCTGTGCAATACTGTCACcCAGAAGTTCATTGTTCATAGAGATCTAAAGgtcactgatgttcctatccccatgatctgctgtgagggggccaggtggcc Alignment from Spaln_nt2Genome ATAGTGTCTGCTGTGCAGTACTGTCA-CCAGAAGTTCATTGTTCATAGAGATCTAAAG atgctttggtgtatcaatctaatatactttttccttccccctccgtgcagATAGTGTCTGCTGTGCAATACTGTCACCCAGAAGTTCATTGTTCATAGAGATCTAAAGgtcactgatgttcctatccccatgatctgctgtgagggggccaggtggcc Alignment from Pairagon ATAGTGTCTGCTGTGCAGTACTGTCA-CCAGAAGTTCATTGTTCATAGAGATCTAAAG atgctttggtgtatcaatctaatatactttttccttccccctccgtgcagATAGTGTCTGCTGTGCAATACTGTCACCCAGAAGTTCATTGTTCATAGAGATCTAAAGgtcactgatgttcctatccccatgatctgctgtgagggggccaggtggcc Alignment from Exonerate_protein2genome ATAGTGTCTGCTGTGCAGTACTGTCAC-CAGAAGTTCATTGTTCATAGAGATCTAAAG atgctttggtgtatcaatctaatatactttttccttccccctccgtgcagATAGTGTCTGCTGTGCAATACTGTCACCCAGAAGTTCATTGTTCATAGAGATCTAAAGgtcactgatgttcctatccccatgatctgctgtgagggggccaggtggcc Alignment from Exonerate_coding2genome ATAGTGTCTGCTGTGCAGTACTGTCAC-CAGAAGTTCATTGTTCATAGAGATCTAAAG atgctttggtgtatcaatctaatatactttttccttccccctccgtgcagATAGTGTCTGCTGTGCAATACTGTCACCCAGAAGTTCATTGTTCATAGAGATCTAAAGgtcactgatgttcctatccccatgatctgctgtgagggggccaggtggcc Alignment from GeneWise atgctttggtgtatcaatctaatatactttttccttccccctccgtgcagatagtgtctgctgtgcaatactgtcacccagaagttcattgttcatagagatctaaaggtcactgatgttcctatccccatgatctgctgtgagggggccaggtggcc #### Mgea5_ID9593_8 --> 2 - 1 Original Alignment ctGACAGTGAAGACAGTACT-GTATCAATACAGATAAAGTTAGAAAATGAAGGCAGTGACGAAGACATTGAGACTGATGTTCTCTACAGCCCACAGATGGCTTTAAAGCTGGCTTTAACTGAGTGGCTGCAGGAGTTCGGTGTCCCTCATCAGTACAGCa cctcaggaggccccaggaggggggatcctatttcccccacctggttgaagctGACAGTGAGGATAGTACGCGTTTCAATACACATAAAGCTGGAGAATGAGGATGGTGACAAAGACATTGACACTGATGTCCTGTACAGTCCACAGATGGCCTTTAAGTTAGCCTTAACTGAGTGGTTGCAAGAGATTGGTGTCCCTCACCAATACAGCagtatgttaagctgtgagcctcccaggctacaggatttgtataagtccttc Alignment from CESAR ctGACAGTGAAGACAGTACT-GTATCAATACAGATAAAGTTAGAAAATGAAGGCAGTGACGAAGACATTGAGACTGATGTTCTCTACAGCCCACAGATGGCTTTAAAGCTGGCTTTAACTGAGTGGCTGCAGGAGTTCGGTGTCCCTCATCAGTACAGCa cctcaggaggccccaggaggggggatcctatttcccccacctggttgaagctGACAGTGAGGATAGTACGCGTTTCAATACACATAAAGCTGGAGAATGAGGATGGTGACAAAGACATTGACACTGATGTCCTGTACAGTCCACAGATGGCCTTTAAGTTAGCCTTAACTGAGTGGTTGCAAGAGATTGGTGTCCCTCACCAATACAGCagtatgttaagctgtgagcctcccaggctacaggatttgtataagtccttc Alignment from Spaln_aa2Genome CTGACAGTGAAGACAGTACT-GTATCAATACAGATAAAGTTAGAAAATGAAGGCAGTGACGAAGACATTGAGACTGATGTTCTCTACAGCCCACAGATGGCTTTAAAGCTGGCTTTAACTGAGTGGCTGCAGGAGTTCGGTGTCCCTCATCAGTACAGCA cctcaggaggccccaggaggggggatcctatttcccccacctggttgaagCTGACAGTGAGGATAGTACGcGTTTCAATACACATAAAGCTGGAGAATGAGGATGGTGACAAAGACATTGACACTGATGTCCTGTACAGTCCACAGATGGCCTTTAAGTTAGCCTTAACTGAGTGGTTGCAAGAGATTGGTGTCCCTCACCAATACAGCAgtatgttaagctgtgagcctcccaggctacaggatttgtataagtccttc Alignment from Spaln_nt2Genome CTGACAGTGAAGACAGTACT-GTATCAATACAGATAAAGTTAGAAAATGAAGGCAGTGACGAAGACATTGAGACTGATGTTCTCTACAGCCCACAGATGGCTTTAAAGCTGGCTTTAACTGAGTGGCTGCAGGAGTTCGGTGTCCCTCATCAGTACAGCA cctcaggaggccccaggaggggggatcctatttcccccacctggttgaagCTGACAGTGAGGATAGTACGCGTTTCAATACACATAAAGCTGGAGAATGAGGATGGTGACAAAGACATTGACACTGATGTCCTGTACAGTCCACAGATGGCCTTTAAGTTAGCCTTAACTGAGTGGTTGCAAGAGATTGGTGTCCCTCACCAATACAGCAgtatgttaagctgtgagcctcccaggctacaggatttgtataagtccttc Alignment from Pairagon CTGACAGTGAAGACAGTAC-TGTATCAATACAGATAAAGTTAGAAAATGAAGGCAGTGACGAAGACATTGAGACTGATGTTCTCTACAGCCCACAGATGGCTTTAAAGCTGGCTTTAACTGAGTGGCTGCAGGAGTTCGGTGTCCCTCATCAGTACAGCA cctcaggaggccccaggaggggggatcctatttcccccacctggttgaagCTGACAGTGAGGATAGTACGCGTTTCAATACACATAAAGCTGGAGAATGAGGATGGTGACAAAGACATTGACACTGATGTCCTGTACAGTCCACAGATGGCCTTTAAGTTAGCCTTAACTGAGTGGTTGCAAGAGATTGGTGTCCCTCACCAATACAGCAgtatgttaagctgtgagcctcccaggctacaggatttgtataagtccttc Alignment from Exonerate_protein2genome CTGACAGTGAAGACAGTACT-GTATCAATACAGATAAAGTTAGAAAATGAAGGCAGTGACGAAGACATTGAGACTGATGTTCTCTACAGCCCACAGATGGCTTTAAAGCTGGCTTTAACTGAGTGGCTGCAGGAGTTCGGTGTCCCTCATCAGTACAGCA cctcaggaggccccaggaggggggatcctatttcccccacctggttgaagCTGACAGTGAGGATAGTACGCGTTTCAATACACATAAAGCTGGAGAATGAGGATGGTGACAAAGACATTGACACTGATGTCCTGTACAGTCCACAGATGGCCTTTAAGTTAGCCTTAACTGAGTGGTTGCAAGAGATTGGTGTCCCTCACCAATACAGCAgtatgttaagctgtgagcctcccaggctacaggatttgtataagtccttc Alignment from Exonerate_coding2genome CTGACAGTGAAGACAGTACT-GTATCAATACAGATAAAGTTAGAAAATGAAGGCAGTGACGAAGACATTGAGACTGATGTTCTCTACAGCCCACAGATGGCTTTAAAGCTGGCTTTAACTGAGTGGCTGCAGGAGTTCGGTGTCCCTCATCAGTACAGCA cctcaggaggccccaggaggggggatcctatttcccccacctggttgaagCTGACAGTGAGGATAGTACGCGTTTCAATACACATAAAGCTGGAGAATGAGGATGGTGACAAAGACATTGACACTGATGTCCTGTACAGTCCACAGATGGCCTTTAAGTTAGCCTTAACTGAGTGGTTGCAAGAGATTGGTGTCCCTCACCAATACAGCAgtatgttaagctgtgagcctcccaggctacaggatttgtataagtccttc Alignment from GeneWise CTGACAGTGAAGACAGTACT-GTATCAATACAGATAAAGTTAGAAAATGAAGGCAGTGACGAAGACATTGAGACTGATGTTCTCTACAGCCCACAGATGGCTTTAAAGCTGGCTTTAACTGAGTGGCTGCAGGAGTTCGGTGTCCCTCATCAGTACAGCA cctcaggaggccccaggaggggggatcctatttcccccacctggttgaagCTGACAGTGAGGATAGTACGCGTTTCAATACACATAAAGCTGGAGAATGAGGATGGTGACAAAGACATTGACACTGATGTCCTGTACAGTCCACAGATGGCCTTTAAGTTAGCCTTAACTGAGTGGTTGCAAGAGATTGGTGTCCCTCACCAATACAGCAgtatgttaagctgtgagcctcccaggctacaggatttgtataagtccttc #### Mrpl11_ID768_3 --> 0 - 1 Original Alignment CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTG-AAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAg ctgactgggcaatgaactgagtatattccccctgccccccacccacccagCCTGACAGACCTCTGGAT---------------------GTCTCCTACTTGCTTCAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAggtatgtgttctggcagccatatgaggcaaggaaccaagagaccaaatggc Alignment from CESAR CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTG-AAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAg ctgactgggcaatgaactgagtatattccccctgccccccacccacccagCCTGACAGACCTCTGGAT---------------------GTCTCCTACTTGCTTCAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAggtatgtgttctggcagccatatgaggcaaggaaccaagagaccaaatggc Alignment from Spaln_aa2Genome CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTG-AAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ctgactgggcaatgaactgagtatattccccctgccccccacccacccagCCTGACAGACCTCTGGAT---------------------GTCTCCTACTTGCTTcAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAGgtatgtgttctggcagccatatgaggcaaggaaccaagagaccaaatggc Alignment from Spaln_nt2Genome GCAGCCCACTGTTTCTTACTTT-TTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ctgactgggcaatgaactgagtatattccccctgccccccacccacccagcctgacagACCTCTGGATGTCTCCTACTTGCTTCAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAGgtatgtgttctggcagccatatgaggcaaggaaccaagagaccaaatggc Alignment from Pairagon CCCGACA-------GGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTT-TTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ctgactgggcaatgaactgagtatattccccctgccccccacccacccagCCTGACAGACCTCTGGA----------------------------TGTCTCCTACTTGCTTCAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAGgtatgtgttctggcagccatatgaggcaaggaaccaagagaccaaatggc Alignment from Exonerate_protein2genome CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ctgactgggcaatgaactgagtatattccccctgccccccacCCACCCAGCCTGACAGACCTCTGGATG---TCTCCTACTTGC---------TTCAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAGgtatgtgttctggcagccatatgaggcaaggaaccaagagaccaaatggc Alignment from Exonerate_coding2genome CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ctgactgggcaatgaactgagtatattccccctgccccccacCCACCCAGCCTGACAGACCTCTGGATG---TCTCCTACTTGC---------TTCAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAGgtatgtgttctggcagccatatgaggcaaggaaccaagagaccaaatggc Alignment from GeneWise CCCGACAGGACATTTGAGCTCAAGATTGGGCAGC ctgactgggcaatgaactgagtatattccccctgccccccacccacccagcctgacagacctctggatgtctcctacttgcttcaaggcagcttctggcattgagaagggagcccggcatacaggtatgtgttctggcagCCATATGAGGCAAGGAACCAAGAGACCAAATGGC #### Ms4a10_ID3085_2 --> 0 - 0 Original Alignment GGCTTTCACATCGCCATTGCT-TTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccagacacagctcagcatcagcaagctctactttcttctcaattctagGGATTTCACATTACCATTGCCCTTTGCTCATTTAGCCTTTGGTGGGTACTTGATCTCCACAGTCAAGAATCTGCACCTTGTAGTGCTGAAATGTTGGTATCCACTTTGGGGAACTGTCTCAgttagtaagttcctatagcaaccagcgaagtgcactcaggatgtctacaa Alignment from CESAR GGCTTTCACATCGCCATTGCT-TTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccagacacagctcagcatcagcaagctctactttcttctcaattctagGGATTTCACATTACCATTGCCCTTTGCTCATTTAGCCTTTGGTGGGTACTTGATCTCCACAGTCAAGAATCTGCACCTTGTAGTGCTGAAATGTTGGTATCCACTTTGGGGAACTGTCTCAgttagtaagttcctatagcaaccagcgaagtgcactcaggatgtctacaa Alignment from Spaln_aa2Genome GGCTTTCACATCGCCATTGCT-TTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccagacacagctcagcatcagcaagctctactttcttctcaattctagGGATTTCACATTACCATTGCCcTTTGCTCATTTAGCCTTTGGTGGGTACTTGATCTCCACAGTCAAGAATCTGCACCTTGTAGTGCTGAAATGTTGGTATCCACTTTGGGGAACTGTCTCAgttagtaagttcctatagcaaccagcgaagtgcactcaggatgtctacaa Alignment from Spaln_nt2Genome GGCTTTCACATCGCCATTGCT-TTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccagacacagctcagcatcagcaagctctactttcttctcaattctagGGATTTCACATTACCATTGCCCTTTGCTCATTTAGCCTTTGGTGGGTACTTGATCTCCACAGTCAAGAATCTGCACCTTGTAGTGCTGAAATGTTGGTATCCACTTTGGGGAACTGTCTCAgttagtaagttcctatagcaaccagcgaagtgcactcaggatgtctacaa Alignment from Pairagon GGCTTTCACATCGCCATTGCT-TTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccagacacagctcagcatcagcaagctctactttcttctcaattctagGGATTTCACATTACCATTGCCCTTTGCTCATTTAGCCTTTGGTGGGTACTTGATCTCCACAGTCAAGAATCTGCACCTTGTAGTGCTGAAATGTTGGTATCCACTTTGGGGAACTGTCTCAgttagtaagttcctatagcaaccagcgaagtgcactcaggatgtctacaa Alignment from Exonerate_protein2genome GGCTTTCACATCGCCATTGCT-TTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccagacacagctcagcatcagcaagctctactttcttctcaattctagGGATTTCACATTACCATTGCCCTTTGCTCATTTAGCCTTTGGTGGGTACTTGATCTCCACAGTCAAGAATCTGCACCTTGTAGTGCTGAAATGTTGGTATCCACTTTGGGGAACTGTCTCAgttagtaagttcctatagcaaccagcgaagtgcactcaggatgtctacaa Alignment from Exonerate_coding2genome GGCTTTCACATCGCCATTGCT-TTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccagacacagctcagcatcagcaagctctactttcttctcaattctagGGATTTCACATTACCATTGCCCTTTGCTCATTTAGCCTTTGGTGGGTACTTGATCTCCACAGTCAAGAATCTGCACCTTGTAGTGCTGAAATGTTGGTATCCACTTTGGGGAACTGTCTCAgttagtaagttcctatagcaaccagcgaagtgcactcaggatgtctacaa Alignment from GeneWise GGCTTTCACATCGCCATT-GCTTTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccagacacagctcagcatcagcaagctctactttcttctcaattctagGGATTTCACATTACCATTGCCCTTTGCTCATTTAGCCTTTGGTGGGTACTTGATCTCCACAGTCAAGAATCTGCACCTTGTAGTGCTGAAATGTTGGTATCCACTTTGGGGAACTGTCTCAgttagtaagttcctatagcaaccagcgaagtgcactcaggatgtctacaa #### Mta2_ID2535_8 --> 1 - 0 Original Alignment aGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATT------CGGCAG-CCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGAT---ATCACTCTG gctaatgtggcatccaatatgaagaatcgactttttttttttctatgtagtGCTGTGAGCACTTTTGTACGAGCTCTAGATTGCAATTGCTCCATTTCTATTCAAAAGCTCCAGCTTGCATATGAGTGCA------GCTACCACAGGTATTATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from CESAR aGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGC------TCAATTCGGCAG-CCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gctaatgtggcatccaatatgaagaatcgactttttttttttctatgtagtGCTGTGAGCACTTTTGTACGAGCTCTAGATTGCAATTGCTCCATTTCTATTCAAAAGCTCCAGCTTGCATATGAGTGCAGCTACCACAGGT---ATTATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from Spaln_aa2Genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATT-------CGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gctaatgtggcatccaatatgaagaatcgactttttttttttctatgtagTGCTGTGAGCACTTTTGTACGAGCTCTAGATTGCAATTGCTCCATTTCTATTcAAAAGCTCCAGCTTGCATATGAGTGCAGCTACCACAGGTATT---ATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from Spaln_nt2Genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATT------CGGCAGC-CAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gctaatgtggcatccaatatgaagaatcgactttttttttttctatgtagTGCTGTGAGCACTTTTGTACGAGCTCTAGATTGCAATTGCTCCATTTCTATTCAAAAGCTCCAGCTTGCATATGAGTGCA---GCTACCACAGGTATTATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from Pairagon AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGA----------TATCACTCTG gctaatgtggcatccaatatgaagaatcgactttttttttttctatgtagtgctgtgagcacttttgtacgagctctagattgcaattgctccatttctattcaaaagctccag---------------------------------------------------------CTTGCATATGAGTGCAGCT-------------ACCACAGGTATTATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from Exonerate_protein2genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGT----GCAGCTGCTGCGTCCCGAGATATCACTCTG gctaatgtggcatccaatatgaagaatcgactttttttttttctatgtagTGCTGTGAGCACTTTTGTACGAGCTCTAGATTGCAATTGCTCCATTTCTATTCAAAAGCTCCAGCTTGCATATGAGTGCAGCTACCACAGGTATTATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from Exonerate_coding2genome gctaatgtggcatccaatatgaagaatcgactttttttttttctatgtagtgctgtgagcacttttgtacgagctctagattgcaattgctccatttctattcaaaagctccagcttgcatatgagtgcagctaccacaggtattatcaccctggtaagtaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from GeneWise -GCTGTGGGAACCTTCGCGAGAGCCCTAGACTGC------AGCAGCTCAATTCGGCAG-CCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gctaatgtggcatccaatatgaagaatcgactttttttttttctatgtagTGCTGTGAGCACTTTTGTACGAGCTCTAGATTGCAATTGCTCCATTTCTATTCAAAAGCTCCAGCTTGCATATGAGTGCAGCTACCACAGGTATT---ATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagagtggagta #### Mta2_ID2537_10 --> 0 - 0 Original Alignment CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACA-GACCGGTATATTCAGCAG aaaagacaagacggaccaattgaacactcggattctttttgtgtctccagCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACACGACCGGTATATTCAGCAGgtaggtggcaggataagcaaggaccagaatcaaaggcggtcatgagcctg Alignment from CESAR CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACA-GACCGGTATATTCAGCAG aaaagacaagacggaccaattgaacactcggattctttttgtgtctccagCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACACGACCGGTATATTCAGCAGgtaggtggcaggataagcaaggaccagaatcaaaggcggtcatgagcctg Alignment from Spaln_aa2Genome CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACA-GACCGGTATATTCAGCAG aaaagacaagacggaccaattgaacactcggattctttttgtgtctccagCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAcGACCGGTATATTCAGCAGgtaggtggcaggataagcaaggaccagaatcaaaggcggtcatgagcctg Alignment from Spaln_nt2Genome CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACA-GACCGGTATATTCAGCAG aaaagacaagacggaccaattgaacactcggattctttttgtgtctccagCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACACGACCGGTATATTCAGCAGgtaggtggcaggataagcaaggaccagaatcaaaggcggtcatgagcctg Alignment from Pairagon CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACA-GACCGGTATATTCAGCAG aaaagacaagacggaccaattgaacactcggattctttttgtgtctccagCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACACGACCGGTATATTCAGCAGgtaggtggcaggataagcaaggaccagaatcaaaggcggtcatgagcctg Alignment from Exonerate_protein2genome CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACA-GACCGGTATATTCAGCAG aaaagacaagacggaccaattgaacactcggattctttttgtgtctccagCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACACGACCGGTATATTCAGCAGgtaggtggcaggataagcaaggaccagaatcaaaggcggtcatgagcctg Alignment from Exonerate_coding2genome CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACA-GACCGGTATATTCAGCAG aaaagacaagacggaccaattgaacactcggattctttttgtgtctccagCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACACGACCGGTATATTCAGCAGgtaggtggcaggataagcaaggaccagaatcaaaggcggtcatgagcctg Alignment from GeneWise CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACC-ACAGACCGGTATATTCAGCAG aaaagacaagacggaccaattgaacactcggattctttttgtgtctccagCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACACGACCGGTATATTCAGCAGgtaggtggcaggataagcaaggaccagaatcaaaggcggtcatgagcctg #### Mta2_ID2543_16 --> 2 - 0 Original Alignment tgGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAAC-AGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gaaggatgacattttcaagccaggtcagagcccctttctttgtttggcaggtGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACCAGAAACCAACTGACCCAGAATCGAGGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACAgtgagctgaccagaataaaagcatactagtaattaccttacttttttaat Alignment from CESAR tgGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAAC-AGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gaaggatgacattttcaagccaggtcagagcccctttctttgtttggcaggtGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACCAGAAACCAACTGACCCAGAATCGAGGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACAgtgagctgaccagaataaaagcatactagtaattaccttacttttttaat Alignment from Spaln_aa2Genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAAC-AGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gaaggatgacattttcaagccaggtcagagcccctttctttgtttggcagGTGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACcAGAAACCAACTGACCCAGAATCGAGGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACAgtgagctgaccagaataaaagcatactagtaattaccttacttttttaat Alignment from Spaln_nt2Genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAA-CAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gaaggatgacattttcaagccaggtcagagcccctttctttgtttggcagGTGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACCAGAAACCAACTGACCCAGAATCGAGGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACAgtgagctgaccagaataaaagcatactagtaattaccttacttttttaat Alignment from Pairagon TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAA-CAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gaaggatgacattttcaagccaggtcagagcccctttctttgtttggcagGTGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACCAGAAACCAACTGACCCAGAATCGAGGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACAgtgagctgaccagaataaaagcatactagtaattaccttacttttttaat Alignment from Exonerate_protein2genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAAC-AGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gaaggatgacattttcaagccaggtcagagcccctttctttgtttggcagGTGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACCAGAAACCAACTGACCCAGAATCGAGGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACAgtgagctgaccagaataaaagcatactagtaattaccttacttttttaat Alignment from Exonerate_coding2genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAAC-AGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gaaggatgacattttcaagccaggtcagagcccctttctttgtttggcagGTGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACCAGAAACCAACTGACCCAGAATCGAGGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACAgtgagctgaccagaataaaagcatactagtaattaccttacttttttaat Alignment from GeneWise -------------------------------------------------GTGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAAC-AGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT GAAGGATGACATTTTCAAGCCAGGTCAGAGCCCCTTTCTTTGTTTGGCAGGTGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACCAGAAACCAACTGACCCAGAATCGAGGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACAgtgagctgaccagaataaaagcatactagtaattaccttacttttttaat #### Myrf_ID2714_23 --> 1 - 2 Original Alignment gCTTGGCAACTTCACCTACCAC-ATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATGaa tggggacgtgaggtgggaagagtggctgtcaatattctttttaaaaacagaCTTGGCAACTTCACATACCATCATCCCTGTAAGTAGCAGCACACCACTACACCTCAGCCTCACCCTGCAGATGaagtcagggaaagtcaattacctcacctatgaatgtaaagttgatcctaaca Alignment from CESAR gCTTGGCAACTTCACCTACCAC-ATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATGaa tggggacgtgaggtgggaagagtggctgtcaatattctttttaaaaacagaCTTGGCAACTTCACATACCATCATCCCTGTAAGTAGCAGCACACCACTACACCTCAGCCTCACCCTGCAGATGaagtcagggaaagtcaattacctcacctatgaatgtaaagttgatcctaaca Alignment from Spaln_aa2Genome GCTTGGCAACTTCACCTACCAC-ATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATGAA tggggacgtgaggtgggaagagtggctgtcaatattctttttaaaaacagACTTGGCAACTTCACATACCATcATCCCTGTAAGTAGCAGCACACCACTACACCTCAGCCTCACCCTGCAGATGAAgtcagggaaagtcaattacctcacctatgaatgtaaagttgatcctaaca Alignment from Spaln_nt2Genome GCTTGGCAACTTCACCTACCA-CATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATGAA tggggacgtgaggtgggaagagtggctgtcaatattctttttaaaaacagACTTGGCAACTTCACATACCATCATCCCTGTAAGTAGCAGCACACCACTACACCTCAGCCTCACCCTGCAGATGAAgtcagggaaagtcaattacctcacctatgaatgtaaagttgatcctaaca Alignment from Pairagon GCTTGGCAACTTCACCTACCA-CATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATGAA tggggacgtgaggtgggaagagtggctgtcaatattctttttaaaaacagACTTGGCAACTTCACATACCATCATCCCTGTAAGTAGCAGCACACCACTACACCTCAGCCTCACCCTGCAGATGAAgtcagggaaagtcaattacctcacctatgaatgtaaagttgatcctaaca Alignment from Exonerate_protein2genome GCTTGGCAACTTCACCTACCAC-ATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATGAA tggggacgtgaggtgggaagagtggctgtcaatattctttttaaaaacagACTTGGCAACTTCACATACCATCATCCCTGTAAGTAGCAGCACACCACTACACCTCAGCCTCACCCTGCAGATGAAgtcagggaaagtcaattacctcacctatgaatgtaaagttgatcctaaca Alignment from Exonerate_coding2genome tggggacgtgaggtgggaagagtggctgtcaatattctttttaaaaacagacttggcaacttcacataccatcatccctgtaagtagcagcacaccactacacctcagcctcaccctgcagatgaagtcagggaaagtcaattacctcacctatgaatgtaaagttgatcctaaca Alignment from GeneWise GCTTGGCAACTTCACCTACCAC-ATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATGAA tggggacgtgaggtgggaagagtggctgtcaatattctttttaaaaacagACTTGGCAACTTCACATACCATCATCCCTGTAAGTAGCAGCACACCACTACACCTCAGCCTCACCCTGCAGATGAAgtcagggaaagtcaattacctcacctatgaatgtaaagttgatcctaaca #### Myrf_ID2720_17 --> 0 - 2 Original Alignment TCATCGCCAGCGGTCCCA-GACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCag atgggcatcttgagtctatatagtgcaatgtaaatactgtctaattctagTCATCATCTGCAGTCCCACGACCAAGCCTGCATCAGTCAGCATTTTCTACAGGGGACAATCATAGCTCTTGTAGTAGTGATGGCCTTCaggtaagccgctttaccaagctgagtccctaaaagtgccatacaattgtgta Alignment from CESAR TCATCGCCAGCGGTCCCA-GACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCag atgggcatcttgagtctatatagtgcaatgtaaatactgtctaattctagTCATCATCTGCAGTCCCACGACCAAGCCTGCATCAGTCAGCATTTTCTACAGGGGACAATCATAGCTCTTGTAGTAGTGATGGCCTTCaggtaagccgctttaccaagctgagtccctaaaagtgccatacaattgtgta Alignment from Spaln_aa2Genome GTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAG atgggcatcttgagtctatatagtgcaatgtaaatactgtctaattctagtcatcatctgcagTCCCACGACCAAGCCTGCATCAGTCAGCATTTTCTACAGGGGACAATCATAGCTCTTGTAGTAGTGATGGCCTTCAGgtaagccgctttaccaagctgagtccctaaaagtgccatacaattgtgta Alignment from Spaln_nt2Genome TCATCGCCAGCGGTCCCA-GACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAG atgggcatcttgagtctatatagtgcaatgtaaatactgtctaattctagTCATCATCTGCAGTCCCACGACCAAGCCTGCATCAGTCAGCATTTTCTACAGGGGACAATCATAGCTCTTGTAGTAGTGATGGCCTTCAGgtaagccgctttaccaagctgagtccctaaaagtgccatacaattgtgta Alignment from Pairagon TCATCGCCAGCGGTCCCA-GACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAG atgggcatcttgagtctatatagtgcaatgtaaatactgtctaattctagTCATCATCTGCAGTCCCACGACCAAGCCTGCATCAGTCAGCATTTTCTACAGGGGACAATCATAGCTCTTGTAGTAGTGATGGCCTTCAGgtaagccgctttaccaagctgagtccctaaaagtgccatacaattgtgta Alignment from Exonerate_protein2genome TCATCGCCAGCGGTCCCA-GACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAG atgggcatcttgagtctatatagtgcaatgtaaatactgtctaattctagTCATCATCTGCAGTCCCACGACCAAGCCTGCATCAGTCAGCATTTTCTACAGGGGACAATCATAGCTCTTGTAGTAGTGATGGCCTTCAGgtaagccgctttaccaagctgagtccctaaaagtgccatacaattgtgta Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ------GACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAG atgggcatcttgagtctatatagtgcaatgtaaatactgtctaattctagtcatcatctgcagTCCCACGACCAAGCCTGCATCAGTCAGCATTTTCTACAGGGGACAATCATAGCTCTTGTAGTAGTGATGGCCTTCAGgtaagccgctttaccaagctgagtccctaaaagtgccatacaattgtgta #### Myrf_ID2722_15 --> 0 - 2 Original Alignment GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTG-GAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCag gtgggtagatacaaaatgagtagttatcagctaccttctctctgtcccagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTGAAGGAGTTATGCAAACTGAGAGACAACCTAGAGACTCGCATTGATGAGTTGCGAACGATGGAGCCACAAGTTGGCTAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCaggtgagtcgaccaagaacatgggcaggagggcaagataagaagaggaggaa Alignment from CESAR GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTG-GAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCag gtgggtagatacaaaatgagtagttatcagctaccttctctctgtcccagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTGAAGGAGTTATGCAAACTGAGAGACAACCTAGAGACTCGCATTGATGAGTTGCGAACGATGGAGCCACAAGTTGGCTAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCaggtgagtcgaccaagaacatgggcaggagggcaagataagaagaggaggaa Alignment from Spaln_aa2Genome GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTG-GAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAG gtgggtagatacaaaatgagtagttatcagctaccttctctctgtcccagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTGAAGGAGTTATGCAAACTGAGAGACAACCTAGAGACTCGCATTGATGAGTTGcGAACGATGGAGCCACAAGTTGGCTAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAGgtgagtcgaccaagaacatgggcaggagggcaagataagaagaggaggaa Alignment from Spaln_nt2Genome GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTG-GAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAG gtgggtagatacaaaatgagtagttatcagctaccttctctctgtcccagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTGAAGGAGTTATGCAAACTGAGAGACAACCTAGAGACTCGCATTGATGAGTTGCGAACGATGGAGCCACAAGTTGGCTAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAGgtgagtcgaccaagaacatgggcaggagggcaagataagaagaggaggaa Alignment from Pairagon GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTG-GAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAG gtgggtagatacaaaatgagtagttatcagctaccttctctctgtcccagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTGAAGGAGTTATGCAAACTGAGAGACAACCTAGAGACTCGCATTGATGAGTTGCGAACGATGGAGCCACAAGTTGGCTAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAGgtgagtcgaccaagaacatgggcaggagggcaagataagaagaggaggaa Alignment from Exonerate_protein2genome GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTG-GAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAG gtgggtagatacaaaatgagtagttatcagctaccttctctctgtcccagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTGAAGGAGTTATGCAAACTGAGAGACAACCTAGAGACTCGCATTGATGAGTTGCGAACGATGGAGCCACAAGTTGGCTAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAGgtgagtcgaccaagaacatgggcaggagggcaagataagaagaggaggaa Alignment from Exonerate_coding2genome GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTG-GAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAG gtgggtagatacaaaatgagtagttatcagctaccttctctctgtcccagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTGAAGGAGTTATGCAAACTGAGAGACAACCTAGAGACTCGCATTGATGAGTTGCGAACGATGGAGCCACAAGTTGGCTAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAGgtgagtcgaccaagaacatgggcaggagggcaagataagaagaggaggaa Alignment from GeneWise GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAG-TTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAG gtgggtagatacaaaatgagtagttatcagctaccttctctctgtcccagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTGAAGGAGTTATGCAAACTGAGAGACAACCTAGAGACTCGCATTGATGAGTTGCGAACGATGGAGCCACAAGTTGGCTAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAGgtgagtcgaccaagaacatgggcaggagggcaagataagaagaggaggaa #### Myrf_ID2723_14 --> 2 - 0 Original Alignment gtGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCC-AATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcttggcaaggtagagtcctggttccaaagtgttgcccttacttccgcaggtATCATTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTTTTCACACAATGGAAAAAGTATAAAGAACTTCCTAGTAGTGAACAAAgtaagtttataggatctgcaacttgggcatggaatctggaatctagctgt Alignment from CESAR gtGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCC-AATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcttggcaaggtagagtcctggttccaaagtgttgcccttacttccgcaggtATCATTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTTTTCACACAATGGAAAAAGTATAAAGAACTTCCTAGTAGTGAACAAAgtaagtttataggatctgcaacttgggcatggaatctggaatctagctgt Alignment from Spaln_aa2Genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCC-AATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcttggcaaggtagagtcctggttccaaagtgttgcccttacttccgcagGTATCATTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTTTTCACAcAATGGAAAAAGTATAAAGAACTTCCTAGTAGTGAACAAAgtaagtttataggatctgcaacttgggcatggaatctggaatctagctgt Alignment from Spaln_nt2Genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGC-CAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcttggcaaggtagagtcctggttccaaagtgttgcccttacttccgcagGTATCATTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTTTTCACACAATGGAAAAAGTATAAAGAACTTCCTAGTAGTGAACAAAgtaagtttataggatctgcaacttgggcatggaatctggaatctagctgt Alignment from Pairagon GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGC-CAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcttggcaaggtagagtcctggttccaaagtgttgcccttacttccgcagGTATCATTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTTTTCACACAATGGAAAAAGTATAAAGAACTTCCTAGTAGTGAACAAAgtaagtttataggatctgcaacttgggcatggaatctggaatctagctgt Alignment from Exonerate_protein2genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCC-AATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcttggcaaggtagagtcctggttccaaagtgttgcccttacttccgcagGTATCATTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTTTTCACACAATGGAAAAAGTATAAAGAACTTCCTAGTAGTGAACAAAgtaagtttataggatctgcaacttgggcatggaatctggaatctagctgt Alignment from Exonerate_coding2genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCC-AATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcttggcaaggtagagtcctggttccaaagtgttgcccttacttccgcagGTATCATTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTTTTCACACAATGGAAAAAGTATAAAGAACTTCCTAGTAGTGAACAAAgtaagtttataggatctgcaacttgggcatggaatctggaatctagctgt Alignment from GeneWise GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTT-GCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcttggcaaggtagagtcctggttccaaagtgttgcccttacttccgcagGTATCATTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTTTTCACACAATGGAAAAAGTATAAAGAACTTCCTAGTAGTGAACAAAgtaagtttataggatctgcaacttgggcatggaatctggaatctagctgt #### Myrf_ID2724_13 --> 0 - 1 Original Alignment GTGGACACCACCGAGCAGCTGAAGAGGATC-TCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAg cctaaggtcactgtgcctatagactaattcctgacccactccttccgcagGTTGATACCACCGAACACCTAAAGAGGATCCTCACGGACACGTCTAGTGCACTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCACCAGAGACAggtgagtatgtgtgtaagggttcctaactatgcctggcttttccttgctat Alignment from CESAR GTGGACACCACCGAGCAGCTGAAGAGGATC-TCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAg cctaaggtcactgtgcctatagactaattcctgacccactccttccgcagGTTGATACCACCGAACACCTAAAGAGGATCCTCACGGACACGTCTAGTGCACTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCACCAGAGACAggtgagtatgtgtgtaagggttcctaactatgcctggcttttccttgctat Alignment from Spaln_aa2Genome GTGGACACCACCGAGCAGCTGAAGAGGATC-TCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG cctaaggtcactgtgcctatagactaattcctgacccactccttccgcagGTTGATACCACCGAACACCTAAAGAGGATCcTCACGGACACGTCTAGTGCACTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCACCAGAGACAGgtgagtatgtgtgtaagggttcctaactatgcctggcttttccttgctat Alignment from Spaln_nt2Genome GTGGACACCACCGAGCAGCTGAAGAGGATC-TCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG cctaaggtcactgtgcctatagactaattcctgacccactccttccgcagGTTGATACCACCGAACACCTAAAGAGGATCCTCACGGACACGTCTAGTGCACTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCACCAGAGACAGgtgagtatgtgtgtaagggttcctaactatgcctggcttttccttgctat Alignment from Pairagon GTGGACACCACCGAGCAGCTGAAGAGGAT-CTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG cctaaggtcactgtgcctatagactaattcctgacccactccttccgcagGTTGATACCACCGAACACCTAAAGAGGATCCTCACGGACACGTCTAGTGCACTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCACCAGAGACAGgtgagtatgtgtgtaagggttcctaactatgcctggcttttccttgctat Alignment from Exonerate_protein2genome GTGGACACCACCGAGCAGCTGAAGAGGATC-TCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG cctaaggtcactgtgcctatagactaattcctgacccactccttccgcagGTTGATACCACCGAACACCTAAAGAGGATCCTCACGGACACGTCTAGTGCACTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCACCAGAGACAGgtgagtatgtgtgtaagggttcctaactatgcctggcttttccttgctat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTGGACACCACCGAGCAGCTGAAGAGGATC-TCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG cctaaggtcactgtgcctatagactaattcctgacccactccttccgcagGTTGATACCACCGAACACCTAAAGAGGATCCTCACGGACACGTCTAGTGCACTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCACCAGAGACAGgtgagtatgtgtgtaagggttcctaactatgcctggcttttccttgctat #### Myrf_ID2727_10 --> 1 - 2 Original Alignment gGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCC-AACCCTGACCAGag ctggtggttgcatgcaagaaaattctgcttgttgttttgttccttgcaagaGTTAATCTTCCACCTAAGCAGGTTTCCCAGGTTACTGTGGAG---CTCCATTTCACTGAGACCACTGCCAACAACATGAGCAAGAAAGGTAAGCCACAACCCTGACCAGaggtaaagaagttgtatttgccctaatatccctcacacctacagacatgcac Alignment from CESAR gGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCC-AACCCTGACCAGag ctggtggttgcatgcaagaaaattctgcttgttgttttgttccttgcaagaGTTAATCTTCCACCTAAGCAGGTTTCCCAGGTTACTGTGGAG---CTCCATTTCACTGAGACCACTGCCAACAACATGAGCAAGAAAGGTAAGCCACAACCCTGACCAGaggtaaagaagttgtatttgccctaatatccctcacacctacagacatgcac Alignment from Spaln_aa2Genome GGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCC-AACCCTGACCAGAG ctggtggttgcatgcaagaaaattctgcttgttgttttgttccttgcaagAGTTAATCTTCCACCTAAGCAGGTTTCCCAGGTTACTGTGGAG---CTCCATTTCACTGAGACCACTGCCAACAACATGAGCAAGAAAGGTAAGCCAcAACCCTGACCAGAGgtaaagaagttgtatttgccctaatatccctcacacctacagacatgcac Alignment from Spaln_nt2Genome GGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCC-CAACCCTGACCAGAG ctggtggttgcatgcaagaaaattctgcttgttgttttgttccttgcaagAGTTAATCTTCCACCTAAGCAGGTTTCCCAGGTTACTGTGG---AGCTCCATTTCACTGAGACCACTGCCAACAACATGAGCAAGAAAGGTAAGCCACAACCCTGACCAGAGgtaaagaagttgtatttgccctaatatccctcacacctacagacatgcac Alignment from Pairagon ---------------------------------------------------GTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCC-CAACCCTGACCAGAG CTGGTGGTTGCATGCAAGAAAATTCTGCTTGTTGTTTTGTTCCTTGCAAGAGTTAATCTTCCACCTAAGCAGGTTTCCCAGGTTACTGTGG---AGCTCCATTTCACTGAGACCACTGCCAACAACATGAGCAAGAAAGGTAAGCCACAACCCTGACCAGAGgtaaagaagttgtatttgccctaatatccctcacacctacagacatgcac Alignment from Exonerate_protein2genome GGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCC-AACCCTGACCAGAG ctggtggttgcatgcaagaaaattctgcttgttgttttgttccttgcaagAGTTAATCTTCCACCTAAGCAGGTTTCCCAGGTTACTGTG---GAGCTCCATTTCACTGAGACCACTGCCAACAACATGAGCAAGAAAGGTAAGCCACAACCCTGACCAGAGgtaaagaagttgtatttgccctaatatccctcacacctacagacatgcac Alignment from Exonerate_coding2genome GGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCC-AACCCTGACCAGAG ctggtggttgcatgcaagaaaattctgcttgttgttttgttccttgcaagAGTTAATCTTCCACCTAAGCAGGTTTCCCAGGTTACTGTG---GAGCTCCATTTCACTGAGACCACTGCCAACAACATGAGCAAGAAAGGTAAGCCACAACCCTGACCAGAGgtaaagaagttgtatttgccctaatatccctcacacctacagacatgcac Alignment from GeneWise ---------------------------------------------------GTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCC-AACCCTGACCAGAG CTGGTGGTTGCATGCAAGAAAATTCTGCTTGTTGTTTTGTTCCTTGCAAGAGTTAATCTTCCACCTAAGCAGGTTTCCCAGGTTACTGTG---GAGCTCCATTTCACTGAGACCACTGCCAACAACATGAGCAAGAAAGGTAAGCCACAACCCTGACCAGAGgtaaagaagttgtatttgccctaatatccctcacacctacagacatgcac #### Myrf_ID2732_6 --> 1 - 1 Original Alignment aCTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCT-GGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAg aatgaaggaccaatgtttcctgcaatccctccctacttttgttcttttagaCTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTTACAACCTTACCACTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTTTCACCTCGGTACTGGATCTTTGCCCCTCAGTACTGCCCGGGCTCAAACTCCACCTTGGCACCCACCAGGTGCACCCTCTCCTggtaaggagaccaaagtagactggataaccatgcagatttagtgctcacag Alignment from CESAR aCTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCT-GGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAg aatgaaggaccaatgtttcctgcaatccctccctacttttgttcttttagaCTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTTACAACCTTACCACTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTTTCACCTCGGTACTGGATCTTTGCCCCTCAGTACTGCCCGGGCTCAAACTCCACCTTGGCACCCACCAGGTGCACCCTCTCCTggtaaggagaccaaagtagactggataaccatgcagatttagtttcctgtt Alignment from Spaln_aa2Genome ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCT-GGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG aatgaaggaccaatgtttcctgcaatccctccctacttttgttcttttagACTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTTACAACCTTACCACTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTTTCACCTcGGTACTGGATCTTTGCCCCTCAGTACTGCCCGGGCTCAAACTCCACCTTGGCACCCACCAGGTGCACCCTCTCCTGgtaaggagaccaaagtagactggataaccatgcagatttagtgctcacag Alignment from Spaln_nt2Genome ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCT-GGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG aatgaaggaccaatgtttcctgcaatccctccctacttttgttcttttagACTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTTACAACCTTACCACTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTTTCACCTCGGTACTGGATCTTTGCCCCTCAGTACTGCCCGGGCTCAAACTCCACCTTGGCACCCACCAGGTGCACCCTCTCCTGgtaaggagaccaaagtagactggataaccatgcagatttagtgctcacag Alignment from Pairagon ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCT-GGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG aatgaaggaccaatgtttcctgcaatccctccctacttttgttcttttagACTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTTACAACCTTACCACTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTTTCACCTCGGTACTGGATCTTTGCCCCTCAGTACTGCCCGGGCTCAAACTCCACCTTGGCACCCACCAGGTGCACCCTCTCCTGgtaaggagaccaaagtagactggataaccatgcagatttagtgctcacag Alignment from Exonerate_protein2genome ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCT-GGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG aatgaaggaccaatgtttcctgcaatccctccctacttttgttcttttagACTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTTACAACCTTACCACTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTTTCACCTCGGTACTGGATCTTTGCCCCTCAGTACTGCCCGGGCTCAAACTCCACCTTGGCACCCACCAGGTGCACCCTCTCCTGgtaaggagaccaaagtagactggataaccatgcagatttagtgctcacag Alignment from Exonerate_coding2genome ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCT-GGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG aatgaaggaccaatgtttcctgcaatccctccctacttttgttcttttagACTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTTACAACCTTACCACTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTTTCACCTCGGTACTGGATCTTTGCCCCTCAGTACTGCCCGGGCTCAAACTCCACCTTGGCACCCACCAGGTGCACCCTCTCCTGgtaaggagaccaaagtagactggataaccatgcagatttagtgctcacag Alignment from GeneWise ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCT-GGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG aatgaaggaccaatgtttcctgcaatccctccctacttttgttcttttagACTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTTACAACCTTACCACTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTTTCACCTCGGTACTGGATCTTTGCCCCTCAGTACTGCCCGGGCTCAAACTCCACCTTGGCACCCACCAGGTGCACCCTCTCCTGgtaaggagaccaaagtagactggataaccatgcagatttagtgctcacag #### Naa40_ID2073_7 --> 1 - 2 Original Alignment cACACAGATGAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGCGCC-TATCAGTTCTTCCGAGAGGCACTGca gcaaagagactgaccatgtctgtgggagtggttttctctgctctgtggagcACACAGAGAAAGAAAGTTATGTTAACTGTGTTCAAACACAATCATGATGCCCTACCAGTTTTTCCATGAGACACTTcagtagcgaacagaggttcaactcagagatctcaaaatttagttaagataca Alignment from CESAR cACACAGATGAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGCGCC-TATCAGTTCTTCCGAGAGGCACTGca gcaaagagactgaccatgtctgtgggagtggttttctctgctctgtggagcACACAGAGAAAGAAAGTTATGTTAACTGTGTTCAAACACAATCATGATGCCCTACCAGTTTTTCCATGAGACACTTcagtagcgaacagaggttcaactcagagatctcaaaatttagttaagataca Alignment from Spaln_aa2Genome CACACAGATGAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGCGCC-TATCAGTTCTTCCGAGAGGCACTGCA gcaaagagactgaccatgtctgtgggagtggttttctctgctctgtggagCACACAGAGAAAGAAAGTTATGTTAACTGTGTTCAAACACAATCATGATGCCcTACCAGTTTTTCCATGAGACACTTCAgtagcgaacagaggttcaactcagagatctcaaaatttagttaagataca Alignment from Spaln_nt2Genome CACACAGATGAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGCGCC-TATCAGTTCTTCCGAGAGGCACTGCA gcaaagagactgaccatgtctgtgggagtggttttctctgctctgtggagCACACAGAGAAAGAAAGTTATGTTAACTGTGTTCAAACACAATCATGATGCCCTACCAGTTTTTCCATGAGACACTTCAgtagcgaacagaggttcaactcagagatctcaaaatttagttaagataca Alignment from Pairagon CACACAGATGAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGCG-CCTATCAGTTCTTCCGAGAGGCACTGCA gcaaagagactgaccatgtctgtgggagtggttttctctgctctgtggagCACACAGAGAAAGAAAGTTATGTTAACTGTGTTCAAACACAATCATGATGCCCTACCAGTTTTTCCATGAGACACTTCAgtagcgaacagaggttcaactcagagatctcaaaatttagttaagataca Alignment from Exonerate_protein2genome CACACAGATGAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGCGCC-TATCAGTTCTTCCGAGAGGCACTGCA gcaaagagactgaccatgtctgtgggagtggttttctctgctctgtggagCACACAGAGAAAGAAAGTTATGTTAACTGTGTTCAAACACAATCATGATGCCCTACCAGTTTTTCCATGAGACACTTCAgtagcgaacagaggttcaactcagagatctcaaaatttagttaagataca Alignment from Exonerate_coding2genome gcaaagagactgaccatgtctgtgggagtggttttctctgctctgtggagcacacagagaaagaaagttatgttaactgtgttcaaacacaatcatgatgccctaccagtttttccatgagacacttcagtagcgaacagaggttcaactcagagatctcaaaatttagttaagataca Alignment from GeneWise CACACAGATGAAGAAGGTGATGTTAACTGTTTTTAAACATAATCAT-GGCGCCTATCAGTTCTTCCGAGAGGCACTGCA gcaaagagactgaccatgtctgtgggagtggttttctctgctctgtggagCACACAGAGAAAGAAAGTTATGTTAACTGTGTTCAAACACAATCATGATGCCCTACCAGTTTTTCCATGAGACACTTCAgtagcgaacagaggttcaactcagagatctcaaaatttagttaagataca #### Naa40_ID2074_6 --> 1 - 2 Original Alignment cTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATT-CAGATCCTGCAGCTCATGGCCAACag ttacatctctccatggtgtccaggtacttcccttgtgctcactgactcagcTACGAAGTACAGCTAGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCCAGATTCTCCAGCTAATGGCCAATaggtaagcagcatcttggaagaattgacttgctggaggttggacctgagaat Alignment from CESAR cTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATT-CAGATCCTGCAGCTCATGGCCAACag ttacatctctccatggtgtccaggtacttcccttgtgctcactgactcagcTACGAAGTACAGCTAGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCCAGATTCTCCAGCTAATGGCCAATaggtaagcagcatcttggaagaattgacttgctggaggttggacctgagaat Alignment from Spaln_aa2Genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATT-CAGATCCTGCAGCTCATGGCCAACAG ttacatctctccatggtgtccaggtacttcccttgtgctcactgactcagCTACGAAGTACAGCTAGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTcCAGATTCTCCAGCTAATGGCCAATAGgtaagcagcatcttggaagaattgacttgctggaggttggacctgagaat Alignment from Spaln_nt2Genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTC-AGATCCTGCAGCTCATGGCCAACAG ttacatctctccatggtgtccaggtacttcccttgtgctcactgactcagCTACGAAGTACAGCTAGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCCAGATTCTCCAGCTAATGGCCAATAGgtaagcagcatcttggaagaattgacttgctggaggttggacctgagaat Alignment from Pairagon CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATT-CAGATCCTGCAGCTCATGGCCAACAG ttacatctctccatggtgtccaggtacttcccttgtgctcactgactcagCTACGAAGTACAGCTAGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCCAGATTCTCCAGCTAATGGCCAATAGgtaagcagcatcttggaagaattgacttgctggaggttggacctgagaat Alignment from Exonerate_protein2genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATT-CAGATCCTGCAGCTCATGGCCAACAG ttacatctctccatggtgtccaggtacttcccttgtgctcactgactcagCTACGAAGTACAGCTAGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCCAGATTCTCCAGCTAATGGCCAATAGgtaagcagcatcttggaagaattgacttgctggaggttggacctgagaat Alignment from Exonerate_coding2genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATT-CAGATCCTGCAGCTCATGGCCAACAG ttacatctctccatggtgtccaggtacttcccttgtgctcactgactcagCTACGAAGTACAGCTAGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCCAGATTCTCCAGCTAATGGCCAATAGgtaagcagcatcttggaagaattgacttgctggaggttggacctgagaat Alignment from GeneWise CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTC-ATTCAGATCCTGCAGCTCATGGCCAACAG ttacatctctccatggtgtccaggtacttcccttgtgctcactgactcagCTACGAAGTACAGCTAGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCCAGATTCTCCAGCTAATGGCCAATAGgtaagcagcatcttggaagaattgacttgctggaggttggacctgagaat #### Naa40_ID2075_5 --> 1 - 2 Original Alignment gTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGC-GGGGATGAAGTCCTGTACtg aatcagatctagggggcagtctacttatctgtaactcttgtgccttgcaggTACGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCATGCCTGGTACCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTCGGGGACGAGGTCTTATATtggtgagcgacttttgcctatggtataggaggttatgccgttggtagagtag Alignment from CESAR gTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGC-GGGGATGAAGTCCTGTACtg aatcagatctagggggcagtctacttatctgtaactcttgtgccttgcaggTACGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCATGCCTGGTACCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTCGGGGACGAGGTCTTATATtggtgagcgacttttgcctatggtataggaggttatgccgttggtagagtag Alignment from Spaln_aa2Genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGC-GGGGATGAAGTCCTGTACTG aatcagatctagggggcagtctacttatctgtaactcttgtgccttgcagGTACGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCATGCCTGGTACCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTcGGGGACGAGGTCTTATATTGgtgagcgacttttgcctatggtataggaggttatgccgttggtagagtag Alignment from Spaln_nt2Genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTG-CGGGGATGAAGTCCTGTACTG aatcagatctagggggcagtctacttatctgtaactcttgtgccttgcagGTACGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCATGCCTGGTACCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTCGGGGACGAGGTCTTATATTGgtgagcgacttttgcctatggtataggaggttatgccgttggtagagtag Alignment from Pairagon GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTG-CGGGGATGAAGTCCTGTACTG aatcagatctagggggcagtctacttatctgtaactcttgtgccttgcagGTACGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCATGCCTGGTACCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTCGGGGACGAGGTCTTATATTGgtgagcgacttttgcctatggtataggaggttatgccgttggtagagtag Alignment from Exonerate_protein2genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGC-GGGGATGAAGTCCTGTACTG aatcagatctagggggcagtctacttatctgtaactcttgtgccttgcagGTACGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCATGCCTGGTACCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTCGGGGACGAGGTCTTATATTGgtgagcgacttttgcctatggtataggaggttatgccgttggtagagtag Alignment from Exonerate_coding2genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGC-GGGGATGAAGTCCTGTACTG aatcagatctagggggcagtctacttatctgtaactcttgtgccttgcagGTACGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCATGCCTGGTACCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTCGGGGACGAGGTCTTATATTGgtgagcgacttttgcctatggtataggaggttatgccgttggtagagtag Alignment from GeneWise GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGC-GGGGATGAAGTCCTGTACTG aatcagatctagggggcagtctacttatctgtaactcttgtgccttgcagGTACGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCATGCCTGGTACCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTCGGGGACGAGGTCTTATATTGgtgagcgacttttgcctatggtataggaggttatgccgttggtagagtag #### Naaladl1_ID1452_11 --> 2 - 0 Original Alignment ccAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTA-CAAAGTGTGATCTTCTCTGCCACCAAAGAG tgtgatgtgatgtgttcacaaccaacaggtatgtttatgttgtttgaaagcaAATACTACTCTGCAGGCCCAGGGCACACCACCAGTACCAAGGTGTGCTCTTTTCTTCAGCCAAAGATgtactgcggactttccaaggggctaggctcaaccacaccttcctatctca Alignment from CESAR ccAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTA-CAAAGTGTGATCTTCTCTGCCACCAAAGAG tgtgatgtgatgtgttcacaaccaacaggtatgtttatgttgtttgaaagcaAATACTACTCTGCAGGCCCAGGGCACACCACCAGTACCAAGGTGTGCTCTTTTCTTCAGCCAAAGATgtactgcggactttccaaggggctaggctcaaccacaccttcctatctca Alignment from Spaln_aa2Genome CCAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTA-CAAAGTGTGATCTTCTCTGCCACCAAAGAG tgtgatgtgatgtgttcacaaccaacaggtatgtttatgttgtttgaaagCAAATACTACTCTGCAGGCCCAGGGCACACCACCAGTAcCAAGGTGTGCTCTTTTCTTCAGCCAAAGATgtactgcggactttccaaggggctaggctcaaccacaccttcctatctca Alignment from Spaln_nt2Genome CCAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAG-TGTGATCTTCTCTGCCACCAAAGAG tgtgatgtgatgtgttcacaaccaacaggtatgtttatgttgtttgaaagCAAATACTACTCTGCAGGCCCAGGGCACACCACCAGTACCAAGGTGTGCTCTTTTCTTCAGCCAAAGATgtactgcggactttccaaggggctaggctcaaccacaccttcctatctca Alignment from Pairagon CCAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTA-CAAAGTGTGATCTTCTCTGCCACCAAAGAG tgtgatgtgatgtgttcacaaccaacaggtatgtttatgttgtttgaaagCAAATACTACTCTGCAGGCCCAGGGCACACCACCAGTACCAAGGTGTGCTCTTTTCTTCAGCCAAAGATgtactgcggactttccaaggggctaggctcaaccacaccttcctatctca Alignment from Exonerate_protein2genome CCAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTA-CAAAGTGTGATCTTCTCTGCCACCAAAGAG tgtgatgtgatgtgttcacaaccaacaggtatgtttatgttgtttgaaagCAAATACTACTCTGCAGGCCCAGGGCACACCACCAGTACCAAGGTGTGCTCTTTTCTTCAGCCAAAGATgtactgcggactttccaaggggctaggctcaaccacaccttcctatctca Alignment from Exonerate_coding2genome tgtgatgtgatgtgttcacaaccaacaggtatgtttatgttgtttgaaagcaaatactactctgcaggcccagggcacaccaccagtaccaaggtgtgctcttttcttcagccaaagatgtactgcggactttccaaggggctaggctcaaccacaccttcctatctca Alignment from GeneWise CCAATGCTACCCTCCGGGCACAGGGAACACCTCCT-GTACAAAGTGTGATCTTCTCTGCCACCAAAGAG tgtgatgtgatgtgttcacaaccaacaggtatgtttatgttgtttgaaagCAAATACTACTCTGCAGGCCCAGGGCACACCACCAGTACCAAGGTGTGCTCTTTTCTTCAGCCAAAGATgtactgcggactttccaaggggctaggctcaaccacaccttcctatctca #### Naaladl1_ID1456_15 --> 2 - 1 Original Alignment gtTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGC-CTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGg gg atgaaggtgaaacttggatgtggcctctcctcacgcttgtgtttccctaggtTTTAGTAGCCAACAAGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGggtatgacccaacatcttgaggcagtgctccctctgttgttctggccagga Alignment from CESAR gtTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGC-CTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGg gg atgaaggtgaaacttggatgtggcctctcctcacgcttgtgtttccctaggtTTTAGTAGCCAACAAGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGggtatgacccaacatcttgaggcagtgaaactttcctcatctttttcagga Alignment from Spaln_aa2Genome GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGC-CTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG atgaaggtgaaacttggatgtggcctctcctcacgcttgtgtttccctagGTTTTAGTAGCCAACAAGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCcCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtatgacccaacatcttgaggcagtgctccctctgttgttctggccagGA Alignment from Spaln_nt2Genome GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAG-CCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG atgaaggtgaaacttggatgtggcctctcctcacgcttgtgtttccctagGTTTTAGTAGCCAACAAGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtatgacccaacatcttgaggcagtgctccctctgttgttctggccagGA Alignment from Pairagon GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAG-CCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG atgaaggtgaaacttggatgtggcctctcctcacgcttgtgtttccctagGTTTTAGTAGCCAACAAGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtatgacccaacatcttgaggcagtgctccctctgttgttctggccagGA Alignment from Exonerate_protein2genome GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGC-CTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG atgaaggtgaaacttggatgtggcctctcctcacgcttgtgtttccctagGTTTTAGTAGCCAACAAGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtatgacccaacatcttgaggcagtgctccctctgttgttctggccagGA Alignment from Exonerate_coding2genome GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGAC---AGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG atgaaggtgaaacttggatgtggcctctcctcacgcttgtgtttccctagGTTTTAGTAGCCAACAAGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTG--ATAGCCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtatgacccaacatcttgaggcagtgctccctctgttgttctggccagGA Alignment from GeneWise GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGAC-AGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTG------------------------------------------------GGG atgaaggtgaaacttggatgtggcctctcctcacgcttgtgtttccctagGTTTTAGTAGCCAACAAGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGGTATGACCCAACATCTTGAGGCAGTGCTCCCTCTGTTGTTCTGGCCAGGA #### Naaladl1_ID1457_16 --> 2 - 2 Original Alignment Gg ggCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCA-TCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTga GggtaagacccaacatcttgaggcagtgaaactttcctcatctttttcaggaCCTTTGGTAACGGCTGTAGCAAACTTTAAGGCTTCTGCTGCCCTCACTGGGAGAAGACATCCTGACCCTAGGCGAGAGCAGCCCTgagtaagggccagcagaggacatgtctcaccaggtatacacgggggaggtac Alignment from CESAR Gg ggCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCA-TCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTga GggtatgacccaacatcttgaggcagtgaaactttcctcatctttttcaggaCCTTTGGTAACGGCTGTAGCAAACTTTAAGGCTTCTGCTGCCCTCACTGGGAGAAGACATCCTGACCCTAGGCGAGAGCAGCCCTgagtaagggccagcagaggacatgtctcaccaggtatacacgggggaggtac Alignment from Spaln_aa2Genome GG GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCA-TCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGA GGgtaagacccaacatcttgaggcagtgaaactttcctcatctttttcagGACCTTTGGTAACGGCTGTAGCAAACTTTAAGGCTTCTGCTGCCcTCACTGGGAGAAGACATCCTGACCCTAGGCGAGAGCAGCCCTGAgtaagggccagcagaggacatgtctcaccaggtatacacgggggaggtac Alignment from Spaln_nt2Genome GG GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCA-TCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGA GGgtaagacccaacatcttgaggcagtgaaactttcctcatctttttcagGACCTTTGGTAACGGCTGTAGCAAACTTTAAGGCTTCTGCTGCCCTCACTGGGAGAAGACATCCTGACCCTAGGCGAGAGCAGCCCTGAgtaagggccagcagaggacatgtctcaccaggtatacacgggggaggtac Alignment from Pairagon GG GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTG-CATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGA GGgtaagacccaacatcttgaggcagtgaaactttcctcatctttttcagGACCTTTGGTAACGGCTGTAGCAAACTTTAAGGCTTCTGCTGCCCTCACTGGGAGAAGACATCCTGACCCTAGGCGAGAGCAGCCCTGAgtaagggccagcagaggacatgtctcaccaggtatacacgggggaggtac Alignment from Exonerate_protein2genome GG GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCA-TCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGA GGgtaagacccaacatcttgaggcagtgaaactttcctcatctttttcagGACCTTTGGTAACGGCTGTAGCAAACTTTAAGGCTTCTGCTGCCCTCACTGGGAGAAGACATCCTGACCCTAGGCGAGAGCAGCCCTGAgtaagggccagcagaggacatgtctcaccaggtatacacgggggaggtac Alignment from Exonerate_coding2genome gggtaagacccaacatcttgaggcagtgaaactttcctcatctttttcaggacctttggtaacggctgtagcaaactttaaggcttctgctgccctcactgggagaagacatcctgaccctaggcgagagcagccctgagtaagggccagcagaggacatgtctcaccaggtatacacgggggaggtac Alignment from GeneWise G------------------------------------------------GGGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCA-TCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGA GGGTAAGACCCAACATCTTGAGGCAGTGAAACTTTCCTCATCTTTTTCAGGACCTTTGGTAACGGCTGTAGCAAACTTTAAGGCTTCTGCTGCCCTCACTGGGAGAAGACATCCTGACCCTAGGCGAGAGCAGCCCTGAgtaagggccagcagaggacatgtctcaccaggtatacacgggggaggtac #### Naaladl1_ID1458_17 --> 1 - 2 Original Alignment tCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGG-GCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACag acctgagctaggtgccggctgtcagtgaattaactctttctgccccacagtCCTCTGCAGGTTCAGATGGTTAACGATCAACTAATGCTCTTAGAGTGTCGCATTTTTGAACCCTAGGGCGTTCCCGGAGGAGAGGCATTACaggtaagaccgtgtaaattgagttgcttagtcccaggcttagaactagagtt Alignment from CESAR tCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGG-GCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACag acctgagctaggtgccggctgtcagtgaattaactctttctgccccacagtCCTCTGCAGGTTCAGATGGTTAACGATCAACTAATGCTCTTAGAGTGTCGCATTTTTGAACCCTAGGGCGTTCCCGGAGGAGAGGCATTACaggtaagaccgtgtaaattgagttgcttagtcccaggcttagaactagagtt Alignment from Spaln_aa2Genome TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGG-GCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG acctgagctaggtgccggctgtcagtgaattaactctttctgccccacagTCCTCTGCAGGTTCAGATGGTTAACGATCAACTAATGCTCTTAGAGTGTcGCATTTTTGAACCCTAGGGCGTTCCCGGAGGAGAGGCATTACAGgtaagaccgtgtaaattgagttgcttagtcccaggcttagaactagagtt Alignment from Spaln_nt2Genome TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGG-GCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG acctgagctaggtgccggctgtcagtgaattaactctttctgccccacagTCCTCTGCAGGTTCAGATGGTTAACGATCAACTAATGCTCTTAGAGTGTCGCATTTTTGAACCCTAGGGCGTTCCCGGAGGAGAGGCATTACAGgtaagaccgtgtaaattgagttgcttagtcccaggcttagaactagagtt Alignment from Pairagon TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACG-GGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG acctgagctaggtgccggctgtcagtgaattaactctttctgccccacagTCCTCTGCAGGTTCAGATGGTTAACGATCAACTAATGCTCTTAGAGTGTCGCATTTTTGAACCCTAGGGCGTTCCCGGAGGAGAGGCATTACAGgtaagaccgtgtaaattgagttgcttagtcccaggcttagaactagagtt Alignment from Exonerate_protein2genome TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAA-CGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG acctgagctaggtgccggctgtcagtgaattaactctttctgccccacagTCCTCTGCAGGTTCAGATGGTTAACGATCAACTAATGCTCTTAGAGTGTCGCATTTTTGAACCCTAGGGCGTTCCCGGAGGAGAGGCATTACAGgtaagaccgtgtaaattgagttgcttagtcccaggcttagaactagagtt Alignment from Exonerate_coding2genome TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAA-CGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG acctgagctaggtgccggctgtcagtgaattaactctttctgccccacagTCCTCTGCAGGTTCAGATGGTTAACGATCAACTAATGCTCTTAGAGTGTCGCATTTTTGAACCCTAGGGCGTTCCCGGAGGAGAGGCATTACAGgtaagaccgtgtaaattgagttgcttagtcccaggcttagaactagagtt Alignment from GeneWise TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAA-CGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG acctgagctaggtgccggctgtcagtgaattaactctttctgccccacagTCCTCTGCAGGTTCAGATGGTTAACGATCAACTAATGCTCTTAGAGTGTCGCATTTTTGAACCCTAGGGCGTTCCCGGAGGAGAGGCATTACAGgtaagaccgtgtaaattgagttgcttagtcccaggcttagaactagagtt #### Ndufv1_ID275_7 --> 2 - 0 Original Alignment gtGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTC-GATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaacactgacaataaccactgtgtttcccgtaggtGGTGTCACAGGTGGCTGGGACAATCTGCTTGCTGTGACACCAGGTGGATCATCC---ACATTGATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTCGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTAATC---ATGGATCGTCTGgtgagtggtcataaacaccctcatacttgtcactatggagtgtgtttctc Alignment from CESAR gtGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGAC-TTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaacactgacaataaccactgtgtttcccgtaggtGGTGTCACAGGTGGCTGGGACAATCTGCTTGCTGTGACACCAGGTGGATCATCCACA---TTGATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTCGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTAATC---ATGGATCGTCTGgtgagtggtcataaacaccctcatacttgtcactatggagtgtgtttctc Alignment from Spaln_aa2Genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGAC-TTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaacactgacaataaccactgtgtttcccgtagGTGGTGTCACAGGTGGCTGGGACAATCTGCTTGCTGTGACACCAGGTGGATCATCCACA---TTGATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATtTTCGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTAATC---ATGGATCGTCTGgtgagtggtcataaacaccctcatacttgtcactatggagtgtgtttctc Alignment from Spaln_nt2Genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACT-TCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaacactgacaataaccactgtgtttcccgtagGTGGTGTCACAGGTGGCTGGGACAATCTGCTTGCTGTGACACCAGGTGGATCATCCA---CATTGATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTCGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTAA---TCATGGATCGTCTGgtgagtggtcataaacaccctcatacttgtcactatggagtgtgtttctc Alignment from Pairagon GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGA-CTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaacactgacaataaccactgtgtttcccgtagGTGGTGTCACAGGTGGCTGGGACAATCTGCTTGCTGTGACACCAGGTGGATCATCCA---CATTGATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTCGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTAA---TCATGGATCGTCTGgtgagtggtcataaacaccctcatacttgtcactatggagtgtgtttctc Alignment from Exonerate_protein2genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGAC-TTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaacactgacaataaccactgtgtttcccgtagGTGGTGTCACAGGTGGCTGGGACAATCTGCTTGCTGTGACACCAGGTGGATCATCCACA---TTGATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTCGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTAATC---ATGGATCGTCTGgtgagtggtcataaacaccctcatacttgtcactatggagtgtgtttctc Alignment from Exonerate_coding2genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGAC-TTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaacactgacaataaccactgtgtttcccgtagGTGGTGTCACAGGTGGCTGGGACAATCTGCTTGCTGTGACACCAGGTGGATCATCCACA---TTGATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTCGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTAATC---ATGGATCGTCTGgtgagtggtcataaacaccctcatacttgtcactatggagtgtgtttctc Alignment from GeneWise GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTC-GATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaacactgacaataaccactgtgtttcccgtagGTGGTGTCACAGGTGGCTGGGACAATCTGCTTGCTGTGACACCAGGTGGATCATCCACA---TTGATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTCGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTAATC---ATGGATCGTCTGgtgagtggtcataaacaccctcatacttgtcactatggagtgtgtttctc #### Ndufv1_ID276_6 --> 2 - 1 Original Alignment gaGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGC-ACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTg gacggtgcttgatcatgactcagttaatttcttttttttcccccataaaggaGTGTTTGGCTGTCCCACAACTGTGGCCAATGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCCACCTGGTTTGCTGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTggtaagacttaagccaattcaaggtcaaggcatcagaggggtgcttgcaaa Alignment from CESAR gaGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGC-ACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTg gacggtgcttgatcatgactcagttaatttcttttttttcccccataaaggaGTGTTTGGCTGTCCCACAACTGTGGCCAATGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCCACCTGGTTTGCTGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTggtaagacttaagccaattcaaggtcaaggcatcagaggggtgcttgcaaa Alignment from Spaln_aa2Genome GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGC-ACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gacggtgcttgatcatgactcagttaatttcttttttttcccccataaagGAGTGTTTGGCTGTCCCACAACTGTGGCCAATGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCcACCTGGTTTGCTGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtaagacttaagccaattcaaggtcaaggcatcagaggggtgcttgcaaa Alignment from Spaln_nt2Genome GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGT-GGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gacggtgcttgatcatgactcagttaatttcttttttttcccccataaagGAGTGTTTGGCTGTCCCACAACTGTGGCCAATGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCCACCTGGTTTGCTGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtaagacttaagccaattcaaggtcaaggcatcagaggggtgcttgcaaa Alignment from Pairagon GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGG-CACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gacggtgcttgatcatgactcagttaatttcttttttttcccccataaagGAGTGTTTGGCTGTCCCACAACTGTGGCCAATGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCCACCTGGTTTGCTGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtaagacttaagccaattcaaggtcaaggcatcagaggggtgcttgcaaa Alignment from Exonerate_protein2genome GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGC-ACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gacggtgcttgatcatgactcagttaatttcttttttttcccccataaagGAGTGTTTGGCTGTCCCACAACTGTGGCCAATGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCCACCTGGTTTGCTGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtaagacttaagccaattcaaggtcaaggcatcagaggggtgcttgcaaa Alignment from Exonerate_coding2genome GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGC-ACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gacggtgcttgatcatgactcagttaatttcttttttttcccccataaagGAGTGTTTGGCTGTCCCACAACTGTGGCCAATGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCCACCTGGTTTGCTGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtaagacttaagccaattcaaggtcaaggcatcagaggggtgcttgcaaa Alignment from GeneWise GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGC-ACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gacggtgcttgatcatgactcagttaatttcttttttttcccccataaagGAGTGTTTGGCTGTCCCACAACTGTGGCCAATGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCCACCTGGTTTGCTGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtaagacttaagccaattcaaggtcaaggcatcagaggggtgcttgcaaa #### Ndufv1_ID277_5 --> 0 - 1 Original Alignment GTAGCTATCCGAGAGGCCTATGAAGCAGGTCTGATTGGCAAGAATGCTTGTGGCTCCGACTATGATTTTGATGTGTTTGTGGTGCGT-GGGGCTGGGGCCTACATCTGTGGAGAAGAGACGGCACTTATTGAATCCATTGAAGGCAAGCAGGGAAAGCCACGCCTGAAGCCGCCCTTTCCAGCAGATGTGg ctgtaagactgagtaacgcagggctggggtaatgctgttttgcctcacagGTAGCTATCCGAGGTGCCTATGAAGCAGTTCTGATTGGCAAGAATGCTTGTGGCTCTGACTATGATTTTGATGTGTTTCTGGTACGTCGGTGCTGGTGCCTACATCTGTGGAGATGAGACAGCACTTATTGAATCAATTGAAGGCAAGCAGGGAAAGCCATGCCTGAAGCCGCCCTTCCCAGCAGATGTGggtcaggcttctggtgtcctccttctcttctgatagttcccatctatgacc Alignment from CESAR GTAGCTATCCGAGAGGCCTATGAAGCAGGTCTGATTGGCAAGAATGCTTGTGGCTCCGACTATGATTTTGATGTGTTTGTGGTGCGT-GGGGCTGGGGCCTACATCTGTGGAGAAGAGACGGCACTTATTGAATCCATTGAAGGCAAGCAGGGAAAGCCACGCCTGAAGCCGCCCTTTCCAGCAGATGTGg ctgtaagactgagtaacgcagggctggggtaatgctgttttgcctcacagGTAGCTATCCGAGGTGCCTATGAAGCAGTTCTGATTGGCAAGAATGCTTGTGGCTCTGACTATGATTTTGATGTGTTTCTGGTACGTCGGTGCTGGTGCCTACATCTGTGGAGATGAGACAGCACTTATTGAATCAATTGAAGGCAAGCAGGGAAAGCCATGCCTGAAGCCGCCCTTCCCAGCAGATGTGggtcaggcttctggtgtcctccttctcttctgatagttcccatctatgacc Alignment from Spaln_aa2Genome GTAGCTATCCGAGAGGCCTATGAAGCAGGTCTGATTGGCAAGAATGCTTGTGGCTCCGACTATGATTTTGATGTGTTTGTGGTGCGT-GGGGCTGGGGCCTACATCTGTGGAGAAGAGACGGCACTTATTGAATCCATTGAAGGCAAGCAGGGAAAGCCACGCCTGAAGCCGCCCTTTCCAGCAGATGTGG ctgtaagactgagtaacgcagggctggggtaatgctgttttgcctcacagGTAGCTATCCGAGGTGCCTATGAAGCAGTTCTGATTGGCAAGAATGCTTGTGGCTCTGACTATGATTTTGATGTGTTTCTGGTACGTcGGTGCTGGTGCCTACATCTGTGGAGATGAGACAGCACTTATTGAATCAATTGAAGGCAAGCAGGGAAAGCCATGCCTGAAGCCGCCCTTCCCAGCAGATGTGGgtcaggcttctggtgtcctccttctcttctgatagttcccatctatgacc Alignment from Spaln_nt2Genome GTAGCTATCCGAGAGGCCTATGAAGCAGGTCTGATTGGCAAGAATGCTTGTGGCTCCGACTATGATTTTGATGTGTTTGTGGTGCGT-GGGGCTGGGGCCTACATCTGTGGAGAAGAGACGGCACTTATTGAATCCATTGAAGGCAAGCAGGGAAAGCCACGCCTGAAGCCGCCCTTTCCAGCAGATGTGG ctgtaagactgagtaacgcagggctggggtaatgctgttttgcctcacagGTAGCTATCCGAGGTGCCTATGAAGCAGTTCTGATTGGCAAGAATGCTTGTGGCTCTGACTATGATTTTGATGTGTTTCTGGTACGTCGGTGCTGGTGCCTACATCTGTGGAGATGAGACAGCACTTATTGAATCAATTGAAGGCAAGCAGGGAAAGCCATGCCTGAAGCCGCCCTTCCCAGCAGATGTGGgtcaggcttctggtgtcctccttctcttctgatagttcccatctatgacc Alignment from Pairagon GTAGCTATCCGAGAGGCCTATGAAGCAGGTCTGATTGGCAAGAATGCTTGTGGCTCCGACTATGATTTTGATGTGTTTGTGGTGCGTGGG-GCTGGGGCCTACATCTGTGGAGAAGAGACGGCACTTATTGAATCCATTGAAGGCAAGCAGGGAAAGCCACGCCTGAAGCCGCCCTTTCCAGCAGATGTGG ctgtaagactgagtaacgcagggctggggtaatgctgttttgcctcacagGTAGCTATCCGAGGTGCCTATGAAGCAGTTCTGATTGGCAAGAATGCTTGTGGCTCTGACTATGATTTTGATGTGTTTCTGGTACGTCGGTGCTGGTGCCTACATCTGTGGAGATGAGACAGCACTTATTGAATCAATTGAAGGCAAGCAGGGAAAGCCATGCCTGAAGCCGCCCTTCCCAGCAGATGTGGgtcaggcttctggtgtcctccttctcttctgatagttcccatctatgacc Alignment from Exonerate_protein2genome GTAGCTATCCGAGAGGCCTATGAAGCAGGTCTGATTGGCAAGAATGCTTGTGGCTCCGACTATGATTTTGATGTGTTTGTGGTGCGT-GGGGCTGGGGCCTACATCTGTGGAGAAGAGACGGCACTTATTGAATCCATTGAAGGCAAGCAGGGAAAGCCACGCCTGAAGCCGCCCTTTCCAGCAGATGTGG ctgtaagactgagtaacgcagggctggggtaatgctgttttgcctcacagGTAGCTATCCGAGGTGCCTATGAAGCAGTTCTGATTGGCAAGAATGCTTGTGGCTCTGACTATGATTTTGATGTGTTTCTGGTACGTCGGTGCTGGTGCCTACATCTGTGGAGATGAGACAGCACTTATTGAATCAATTGAAGGCAAGCAGGGAAAGCCATGCCTGAAGCCGCCCTTCCCAGCAGATGTGGgtcaggcttctggtgtcctccttctcttctgatagttcccatctatgacc Alignment from Exonerate_coding2genome GTAGCTATCCGAGAGGCCTATGAAGCAGGTCTGATTGGCAAGAATGCTTGTGGCTCCGACTATGATTTTGATGTGTTTGTGGTGCGT-GGGGCTGGGGCCTACATCTGTGGAGAAGAGACGGCACTTATTGAATCCATTGAAGGCAAGCAGGGAAAGCCACGCCTGAAGCCGCCCTTTCCAGCAGATGTGG ctgtaagactgagtaacgcagggctggggtaatgctgttttgcctcacagGTAGCTATCCGAGGTGCCTATGAAGCAGTTCTGATTGGCAAGAATGCTTGTGGCTCTGACTATGATTTTGATGTGTTTCTGGTACGTCGGTGCTGGTGCCTACATCTGTGGAGATGAGACAGCACTTATTGAATCAATTGAAGGCAAGCAGGGAAAGCCATGCCTGAAGCCGCCCTTCCCAGCAGATGTGGgtcaggcttctggtgtcctccttctcttctgatagttcccatctatgacc Alignment from GeneWise GTAGCTATCCGAGAGGCCTATGAAGCAGGTCTGATTGGCAAGAATGCTTGTGGCTCCGACTATGATTTTGATGTGTTTGTGGTG-CGTGGGGCTGGGGCCTACATCTGTGGAGAAGAGACGGCACTTATTGAATCCATTGAAGGCAAGCAGGGAAAGCCACGCCTGAAGCCGCCCTTTCCAGCAGATGTGG ctgtaagactgagtaacgcagggctggggtaatgctgttttgcctcacagGTAGCTATCCGAGGTGCCTATGAAGCAGTTCTGATTGGCAAGAATGCTTGTGGCTCTGACTATGATTTTGATGTGTTTCTGGTACGTCGGTGCTGGTGCCTACATCTGTGGAGATGAGACAGCACTTATTGAATCAATTGAAGGCAAGCAGGGAAAGCCATGCCTGAAGCCGCCCTTCCCAGCAGATGTGGgtcaggcttctggtgtcctccttctcttctgatagttcccatctatgacc #### Nfkb2_ID9824_2 --> 0 - 1 Original Alignment GGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCC-ATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAg caccaatttatcccttaataccactaccctgcccccatctttcttaacagGGGCTAGACGGAATCCCAGATTATGAGGATTTTGAATTCAGCCCAACACATAGGAGAACCTAATGATCCAGCCCCTGAAACAggtatgggaatataaggagaaactattgtgctgtggcttttcagttgaaga Alignment from CESAR GGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCC-ATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAg caccaatttatcccttaataccactaccctgcccccatctttcttaacagGGGCTAGACGGAATCCCAGATTATGAGGATTTTGAATTCAGCCCAACACATAGGAGAACCTAATGATCCAGCCCCTGAAACAggtatgggaatataaggagaaactattgtgctgtggcttttcagttgaaga Alignment from Spaln_aa2Genome GGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCC-ATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG caccaatttatcccttaataccactaccctgcccccatctttcttaacagGGGCTAGACGGAATCCCAGATTATGAGGATTTTGAATTCAGCCCAACAcATAGGAGAACCTAATGATCCAGCCCCTGAAACAGgtatgggaatataaggagaaactattgtgctgtggcttttcagttgaaga Alignment from Spaln_nt2Genome GGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTC-CATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG caccaatttatcccttaataccactaccctgcccccatctttcttaacagGGGCTAGACGGAATCCCAGATTATGAGGATTTTGAATTCAGCCCAACACATAGGAGAACCTAATGATCCAGCCCCTGAAACAGgtatgggaatataaggagaaactattgtgctgtggcttttcagttgaaga Alignment from Pairagon GGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTC-CATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG caccaatttatcccttaataccactaccctgcccccatctttcttaacagGGGCTAGACGGAATCCCAGATTATGAGGATTTTGAATTCAGCCCAACACATAGGAGAACCTAATGATCCAGCCCCTGAAACAGgtatgggaatataaggagaaactattgtgctgtggcttttcagttgaaga Alignment from Exonerate_protein2genome GGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCC-ATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG caccaatttatcccttaataccactaccctgcccccatctttcttaacagGGGCTAGACGGAATCCCAGATTATGAGGATTTTGAATTCAGCCCAACACATAGGAGAACCTAATGATCCAGCCCCTGAAACAGgtatgggaatataaggagaaactattgtgctgtggcttttcagttgaaga Alignment from Exonerate_coding2genome GGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCC-ATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG caccaatttatcccttaataccactaccctgcccccatctttcttaacagGGGCTAGACGGAATCCCAGATTATGAGGATTTTGAATTCAGCCCAACACATAGGAGAACCTAATGATCCAGCCCCTGAAACAGgtatgggaatataaggagaaactattgtgctgtggcttttcagttgaaga Alignment from GeneWise GACAATTGCTACGATCCAGGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCC-TCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG taataccactaccctgcccccatctttcttaa---------------CAGGGGCTAGACGGAATCCCAGATTATGAGGATTTTGAATTCAGCCCAACACATAGGAGAACCTAATGATCCAGCCCCTGAAACAGgtatgggaatataaggagaaactattgtgctgtggcttttcagttgaaga #### Nfkb2_ID9825_3 --> 2 - 0 Original Alignment ctGATGGCCCCTATCTGGTGATTGTGGAA-CAGCCCAAACAG ctgctagtaggactaataaagaggggaatttcttcctctttgtgctgcagctGATGGCCCCTATCTTGTGATTGTGGAACCAGACCAAACAGgtaggtgtacaataaaacaataaaaaaatgtgtgctttagggttaggtag Alignment from CESAR ctGATGGCCCCTATCTGGTGATTGTGGAA-CAGCCCAAACAG ctgctagtaggactaataaagaggggaatttcttcctctttgtgctgcagctGATGGCCCCTATCTTGTGATTGTGGAACCAGACCAAACAGgtaggtgtacaataaaacaataaaaaaatgtgtgctttagggttaggtag Alignment from Spaln_aa2Genome CTGATGGCCCCTATCTGGTGATTGTGGAACAGCCCAAACAGCGAG ctgctagtaggactaataaagaggggaatttcttcctctttgtgctgcagCTGATGGCCCCTATCTTGTGATTGTGGAA---CCAGACCAAACAGgtaggtgtacaataaaacaataaaaaaatgtgtgctttagggttaggtag Alignment from Spaln_nt2Genome CTGATGGCCCCTATCTGGTGATTGTGGAAC-AGCCCAAACAG ctgctagtaggactaataaagaggggaatttcttcctctttgtgctgcagCTGATGGCCCCTATCTTGTGATTGTGGAACCAGACCAAACAGgtaggtgtacaataaaacaataaaaaaatgtgtgctttagggttaggtag Alignment from Pairagon CTGATGGCCCCTATCTGGTGATTGTGGAA-CAGCCCAAACAG ctgctagtaggactaataaagaggggaatttcttcctctttgtgctgcagCTGATGGCCCCTATCTTGTGATTGTGGAACCAGACCAAACAGgtaggtgtacaataaaacaataaaaaaatgtgtgctttagggttaggtag Alignment from Exonerate_protein2genome CTGATGGCCCCTATCTGGTGATTGTGGAA-CAGCCCAAACAG ctgctagtaggactaataaagaggggaatttcttcctctttgtgctgcagCTGATGGCCCCTATCTTGTGATTGTGGAACCAGACCAAACAGgtaggtgtacaataaaacaataaaaaaatgtgtgctttagggttaggtag Alignment from Exonerate_coding2genome CTGATGGCCCCTATCTGGTGATTGTGGAA-CAGCCCAAACAG ctgctagtaggactaataaagaggggaatttcttcctctttgtgctgcagCTGATGGCCCCTATCTTGTGATTGTGGAACCAGACCAAACAGgtaggtgtacaataaaacaataaaaaaatgtgtgctttagggttaggtag Alignment from GeneWise ctgctagtaggactaataaagaggggaatttcttcctctttgtgctgcagctgatggcccctatcttgtgattgtggaaccagaccaaacaggtaggtgtacaataaaacaataaaaaaatgtgtgctttagggttaggtag #### Nfkb2_ID9826_4 --> 0 - 0 Original Alignment CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGA-GGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG ggtagtttgcttctccttctcattgctggcctgtttcctccttccaccagAGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCTCCCATGGTCGGCTTGCCAGGTGCTTCCAGTGAGAAGGGCCGGAAGACCTATCCCACTGTAAAAgtaaggacaggtgccacagctgcttcatgcgtagacctggggcacacaac Alignment from CESAR CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGA-GGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG ggtagtttgcttctccttctcattgctggcctgtttcctccttccaccagAGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCTCCCATGGTCGGCTTGCCAGGTGCTTCCAGTGAGAAGGGCCGGAAGACCTATCCCACTGTAAAAgtaaggacaggtgccacagctgcttcatgcgtagacctggggcacacaac Alignment from Spaln_aa2Genome CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGA-GGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG ggtagtttgcttctccttctcattgctggcctgtttcctccttccaccagAGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCTCCCATGGTcGGCTTGCCAGGTGCTTCCAGTGAGAAGGGCCGGAAGACCTATCCCACTGTAAAAgtaaggacaggtgccacagctgcttcatgcgtagacctggggcacacaac Alignment from Spaln_nt2Genome CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGA-GGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG ggtagtttgcttctccttctcattgctggcctgtttcctccttccaccagAGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCTCCCATGGTCGGCTTGCCAGGTGCTTCCAGTGAGAAGGGCCGGAAGACCTATCCCACTGTAAAAgtaaggacaggtgccacagctgcttcatgcgtagacctggggcacacaac Alignment from Pairagon CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGG-AGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG ggtagtttgcttctccttctcattgctggcctgtttcctccttccaccagAGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCTCCCATGGTCGGCTTGCCAGGTGCTTCCAGTGAGAAGGGCCGGAAGACCTATCCCACTGTAAAAgtaaggacaggtgccacagctgcttcatgcgtagacctggggcacacaac Alignment from Exonerate_protein2genome CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGA-GGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG ggtagtttgcttctccttctcattgctggcctgtttcctccttccaccagAGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCTCCCATGGTCGGCTTGCCAGGTGCTTCCAGTGAGAAGGGCCGGAAGACCTATCCCACTGTAAAAgtaaggacaggtgccacagctgcttcatgcgtagacctggggcacacaac Alignment from Exonerate_coding2genome CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGA-GGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG ggtagtttgcttctccttctcattgctggcctgtttcctccttccaccagAGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCTCCCATGGTCGGCTTGCCAGGTGCTTCCAGTGAGAAGGGCCGGAAGACCTATCCCACTGTAAAAgtaaggacaggtgccacagctgcttcatgcgtagacctggggcacacaac Alignment from GeneWise CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGA-GGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG ggtagtttgcttctccttctcattgctggcctgtttcctccttccaccagAGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCTCCCATGGTCGGCTTGCCAGGTGCTTCCAGTGAGAAGGGCCGGAAGACCTATCCCACTGTAAAAgtaaggacaggtgccacagctgcttcatgcgtagacctggggcacacaac #### Nfkb2_ID9827_5 --> 0 - 2 Original Alignment ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCT-CGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTca tagacctggggcacacaacaatatagaacctttgtcctattcttttatagATATGTAACTATGAGGGACCCACCAAGATTGTGGTTGACCTGGCGACACACAGTGACCCACCTCCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTCGGGGTGTGTGCCATTTCTGTAGGACCCAAGGACATGACTGCTcagtaagcgacgcttttctgtcttggagttaatccaatggatatccggatat Alignment from CESAR ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCT-CGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTca tagacctggggcacacaacaatatagaacctttgtcctattcttttatagATATGTAACTATGAGGGACCCACCAAGATTGTGGTTGACCTGGCGACACACAGTGACCCACCTCCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTCGGGGTGTGTGCCATTTCTGTAGGACCCAAGGACATGACTGCTcagtaagcgacgcttttctgtcttggagttaatccaatggatatccggatat Alignment from Spaln_aa2Genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCT-CGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA tagacctggggcacacaacaatatagaacctttgtcctattcttttatagATATGTAACTATGAGGGACCCACCAAGATTGTGGTTGACCTGGCGACACACAGTGACCCACCTcCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTCGGGGTGTGTGCCATTTCTGTAGGACCCAAGGACATGACTGCTCAgtaagcgacgcttttctgtcttggagttaatccaatggatatccggatat Alignment from Spaln_nt2Genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCT-CGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA tagacctggggcacacaacaatatagaacctttgtcctattcttttatagATATGTAACTATGAGGGACCCACCAAGATTGTGGTTGACCTGGCGACACACAGTGACCCACCTCCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTCGGGGTGTGTGCCATTTCTGTAGGACCCAAGGACATGACTGCTCAgtaagcgacgcttttctgtcttggagttaatccaatggatatccggatat Alignment from Pairagon ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCT-CGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA tagacctggggcacacaacaatatagaacctttgtcctattcttttatagATATGTAACTATGAGGGACCCACCAAGATTGTGGTTGACCTGGCGACACACAGTGACCCACCTCCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTCGGGGTGTGTGCCATTTCTGTAGGACCCAAGGACATGACTGCTCAgtaagcgacgcttttctgtcttggagttaatccaatggatatccggatat Alignment from Exonerate_protein2genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCT-CGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA tagacctggggcacacaacaatatagaacctttgtcctattcttttatagATATGTAACTATGAGGGACCCACCAAGATTGTGGTTGACCTGGCGACACACAGTGACCCACCTCCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTCGGGGTGTGTGCCATTTCTGTAGGACCCAAGGACATGACTGCTCAgtaagcgacgcttttctgtcttggagttaatccaatggatatccggatat Alignment from Exonerate_coding2genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCT-CGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA tagacctggggcacacaacaatatagaacctttgtcctattcttttatagATATGTAACTATGAGGGACCCACCAAGATTGTGGTTGACCTGGCGACACACAGTGACCCACCTCCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTCGGGGTGTGTGCCATTTCTGTAGGACCCAAGGACATGACTGCTCAgtaagcgacgcttttctgtcttggagttaatccaatggatatccggatat Alignment from GeneWise ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCT-CGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA tagacctggggcacacaacaatatagaacctttgtcctattcttttatagATATGTAACTATGAGGGACCCACCAAGATTGTGGTTGACCTGGCGACACACAGTGACCCACCTCCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTCGGGGTGTGTGCCATTTCTGTAGGACCCAAGGACATGACTGCTCAgtaagcgacgcttttctgtcttggagttaatccaatggatatccggatat #### Nfkb2_ID9829_7 --> 2 - 1 Original Alignment agGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTG-CGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCa ggcaatttattgcttgcactacccatatctttttcttttcctctcctcagagGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATCTGAGCATTGTACGGCTGCCGCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAGCCAATCCATGATAGCagtgagtctgcgcaaacataagtgataagagttcaggtaagagatctgatt Alignment from CESAR agGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTG-CGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCa ggcaatttattgcttgcactacccatatctttttcttttcctctcctcagagGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATCTGAGCATTGTACGGCTGCCGCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAGCCAATCCATGATAGCagtgagtctgcgcaaacataagtgataagagttcaggtaagagatctgatt Alignment from Spaln_aa2Genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTG-CGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA ggcaatttattgcttgcactacccatatctttttcttttcctctcctcagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATCTGAGCATTGTACGGCTGcCGCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAGCCAATCCATGATAGCAgtgagtctgcgcaaacataagtgataagagttcaggtaagagatctgatt Alignment from Spaln_nt2Genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTG-CGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA ggcaatttattgcttgcactacccatatctttttcttttcctctcctcagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATCTGAGCATTGTACGGCTGCCGCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAGCCAATCCATGATAGCAgtgagtctgcgcaaacataagtgataagagttcaggtaagagatctgatt Alignment from Pairagon AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTG-CGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA ggcaatttattgcttgcactacccatatctttttcttttcctctcctcagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATCTGAGCATTGTACGGCTGCCGCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAGCCAATCCATGATAGCAgtgagtctgcgcaaacataagtgataagagttcaggtaagagatctgatt Alignment from Exonerate_protein2genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTG-CGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA ggcaatttattgcttgcactacccatatctttttcttttcctctcctcagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATCTGAGCATTGTACGGCTGCCGCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAGCCAATCCATGATAGCAgtgagtctgcgcaaacataagtgataagagttcaggtaagagatctgatt Alignment from Exonerate_coding2genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTG-CGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA ggcaatttattgcttgcactacccatatctttttcttttcctctcctcagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATCTGAGCATTGTACGGCTGCCGCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAGCCAATCCATGATAGCAgtgagtctgcgcaaacataagtgataagagttcaggtaagagatctgatt Alignment from GeneWise AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGG-CTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA ggcaatttattgcttgcactacccatatctttttcttttcctctcctcagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATCTGAGCATTGTACGGCTGCCGCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAGCCAATCCATGATAGCAgtgagtctgcgcaaacataagtgataagagttcaggtaagagatctgatt #### Nfkb2_ID9830_8 --> 2 - 1 Original Alignment agTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGAC-AAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAg atattgtcacctgtaagtcaatcgagttcaaattctttctcttcctttagaaTCTTCAGGGGCCTTGAATTTGAAGATCTCTGAGATGGATCAAGGCAGCTGGTTCAGTGCATGGGGGAGATGAGGTTTATTTGCTCTGTGAGAGGGTGCAGAGGggtgcctgcctgtctgggcaggctctattttggcaggctgtaatggtgaaa Alignment from CESAR agTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGAC-AAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAg atattgtcacctgtaagtcaatcgagttcaaattctttctcttcctttagaaTCTTCAGGGGCCTTGAATTTGAAGATCTCTGAGATGGATCAAGGCAGCTGGTTCAGTGCATGGGGGAGATGAGGTTTATTTGCTCTGTGAGAGGGTGCAGAGGggtgcctgcctgtctgggcaggctctattttggcaggctgtaatggtgaaa Alignment from Spaln_aa2Genome AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGAC-AAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG atattgtcacctgtaagtcaatcgagttcaaattctttctcttcctttagAATCTTCAGGGGCCTTGAATTTGAAGATCTCTGAGATGGATcAAGGCAGCTGGTTCAGTGCATGGGGGAGATGAGGTTTATTTGCTCTGTGAGAGGGTGCAGAGGGgtgcctgcctgtctgggcaggctctattttggcaggctgtaatggtgaaa Alignment from Spaln_nt2Genome AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGA-CAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG atattgtcacctgtaagtcaatcgagttcaaattctttctcttcctttagAATCTTCAGGGGCCTTGAATTTGAAGATCTCTGAGATGGATCAAGGCAGCTGGTTCAGTGCATGGGGGAGATGAGGTTTATTTGCTCTGTGAGAGGGTGCAGAGGGgtgcctgcctgtctgggcaggctctattttggcaggctgtaatggtgaaa Alignment from Pairagon AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGA-CAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG atattgtcacctgtaagtcaatcgagttcaaattctttctcttcctttagAATCTTCAGGGGCCTTGAATTTGAAGATCTCTGAGATGGATCAAGGCAGCTGGTTCAGTGCATGGGGGAGATGAGGTTTATTTGCTCTGTGAGAGGGTGCAGAGGGgtgcctgcctgtctgggcaggctctattttggcaggctgtaatggtgaaa Alignment from Exonerate_protein2genome AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGAC-AAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG atattgtcacctgtaagtcaatcgagttcaaattctttctcttcctttagAATCTTCAGGGGCCTTGAATTTGAAGATCTCTGAGATGGATCAAGGCAGCTGGTTCAGTGCATGGGGGAGATGAGGTTTATTTGCTCTGTGAGAGGGTGCAGAGGGgtgcctgcctgtctgggcaggctctattttggcaggctgtaatggtgaaa Alignment from Exonerate_coding2genome AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGAC-AAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG atattgtcacctgtaagtcaatcgagttcaaattctttctcttcctttagAATCTTCAGGGGCCTTGAATTTGAAGATCTCTGAGATGGATCAAGGCAGCTGGTTCAGTGCATGGGGGAGATGAGGTTTATTTGCTCTGTGAGAGGGTGCAGAGGGgtgcctgcctgtctgggcaggctctattttggcaggctgtaatggtgaaa Alignment from GeneWise AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAG-ACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG atattgtcacctgtaagtcaatcgagttcaaattctttctcttcctttagAATCTTCAGGGGCCTTGAATTTGAAGATCTCTGAGATGGATCAAGGCAGCTGGTTCAGTGCATGGGGGAGATGAGGTTTATTTGCTCTGTGAGAGGGTGCAGAGGGgtgcctgcctgtctgggcaggctctattttggcaggctgtaatggtgaaa #### Nfkb2_ID9834_12 --> 2 - 1 Original Alignment gtGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCC-TACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAg tattgcctttgtaaggaccttgataagggtgtcctttttccctgtcaaaggtGGAAGCCTTGGTTTTTTATCCCCCCCTTTGGCCCTATAATCCCTACCAACCAGGTGCTTCCCCTATGGGTTATTATCTGGGCGGGGGGGGTGGAACACAGATGGCTGGCTCTAGACGGGACACTGATGCTGGTGAAGGTGCTGAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACACTGCACCGAagtgggtgctggcagcaagtcacacgtgctattaaaagtgcaacgcagggt Alignment from CESAR gtGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCC-TACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAg tattgcctttgtaaggaccttgataagggtgtcctttttccctgtcaaaggtGGAAGCCTTGGTTTTTTATCCCCCCCTTTGGCCCTATAATCCCTACCAACCAGGTGCTTCCCCTATGGGTTATTATCTGGGCGGGGGGGGTGGAACACAGATGGCTGGCTCTAGACGGGACACTGATGCTGGTGAAGGTGCTGAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACACTGCACCGAagtgggtgctggcagcaagtcacacgtgctattaaaagtgcaacgcagggt Alignment from Spaln_aa2Genome GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCC-TACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctttgtaaggaccttgataagggtgtcctttttccctgtcaaagGTGGAAGCCTTGGTTTTTTATCCCCCCCTTTGGCCcTATAATCCCTACCAACCAGGTGCTTCCCCTATGGGTTATTATCTGGGCGGGGGGGGTGGAACACAGATGGCTGGCTCTAGACGGGACACTGATGCTGGTGAAGGTGCTGAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACACTGCACCGAAgtgggtgctggcagcaagtcacacgtgctattaaaagtgcaacgcagggt Alignment from Spaln_nt2Genome GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCC-TACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctttgtaaggaccttgataagggtgtcctttttccctgtcaaagGTGGAAGCCTTGGTTTTTTATCCCCCCCTTTGGCCCTATAATCCCTACCAACCAGGTGCTTCCCCTATGGGTTATTATCTGGGCGGGGGGGGTGGAACACAGATGGCTGGCTCTAGACGGGACACTGATGCTGGTGAAGGTGCTGAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACACTGCACCGAAgtgggtgctggcagcaagtcacacgtgctattaaaagtgcaacgcagggt Alignment from Pairagon GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGG-CCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctttgtaaggaccttgataagggtgtcctttttccctgtcaaagGTGGAAGCCTTGGTTTTTTATCCCCCCCTTTGGCCCTATAATCCCTACCAACCAGGTGCTTCCCCTATGGGTTATTATCTGGGCGGGGGGGGTGGAACACAGATGGCTGGCTCTAGACGGGACACTGATGCTGGTGAAGGTGCTGAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACACTGCACCGAAgtgggtgctggcagcaagtcacacgtgctattaaaagtgcaacgcagggt Alignment from Exonerate_protein2genome GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCC-TACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctttgtaaggaccttgataagggtgtcctttttccctgtcaaagGTGGAAGCCTTGGTTTTTTATCCCCCCCTTTGGCCCTATAATCCCTACCAACCAGGTGCTTCCCCTATGGGTTATTATCTGGGCGGGGGGGGTGGAACACAGATGGCTGGCTCTAGACGGGACACTGATGCTGGTGAAGGTGCTGAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACACTGCACCGAAgtgggtgctggcagcaagtcacacgtgctattaaaagtgcaacgcagggt Alignment from Exonerate_coding2genome GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCC-TACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctttgtaaggaccttgataagggtgtcctttttccctgtcaaagGTGGAAGCCTTGGTTTTTTATCCCCCCCTTTGGCCCTATAATCCCTACCAACCAGGTGCTTCCCCTATGGGTTATTATCTGGGCGGGGGGGGTGGAACACAGATGGCTGGCTCTAGACGGGACACTGATGCTGGTGAAGGTGCTGAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACACTGCACCGAAgtgggtgctggcagcaagtcacacgtgctattaaaagtgcaacgcagggt Alignment from GeneWise GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTG-GCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctttgtaaggaccttgataagggtgtcctttttccctgtcaaagGTGGAAGCCTTGGTTTTTTATCCCCCCCTTTGGCCCTATAATCCCTACCAACCAGGTGCTTCCCCTATGGGTTATTATCTGGGCGGGGGGGGTGGAACACAGATGGCTGGCTCTAGACGGGACACTGATGCTGGTGAAGGTGCTGAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACACTGCACCGAAgtgggtgctggcagcaagtcacacgtgctattaaaagtgcaacgcagggt #### Nfkb2_ID9837_15 --> 0 - 1 Original Alignment ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCT------------------------------------------CTCCGGGCAGGT---GCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGC-AGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGg ttgtaagcaaagagtggaaggctaaccccaccctcctgctgacctcccagACCCCGCTGCACCTTGCCTTAATCACTGGGCAGACAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTGTGGACCCCACACTTCTGGAGAGGCACGAA---TCTGCACTCCACCTGGCTCACACCTGTGAAAATTTCTTGCCATCTTGGACCTCTCAGGAGCTCAGAGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTACGCCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCCGAGTTTGAGggtaggcactcttgtccagagccaaaagccaaggcacaagaactaagggct Alignment from CESAR ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCT------------------------------------------CTCCGGGCAGGTGCTGCA---GCCCCAGAGCTGTTGCAGGCACTGTTGCGC-AGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGg ttgtaagcaaagagtggaaggctaaccccaccctcctgctgacctcccagACCCCGCTGCACCTTGCCTTAATCACTGGGCAGACAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTGTGGACCCCACACTTCTGGAGAGGCAC---GAATCTGCACTCCACCTGGCTCACACCTGTGAAAATTTCTTGCCATCTTGGACCTCTCAGGAGCTCAGAGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTACGCCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCCGAGTTTGAGggtaggcactcttgtccagagccaaaagccaaggcacaagaactaagggct Alignment from Spaln_aa2Genome ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTG GCTCTCCGGGCAGGT---GCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGC-AGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG ttgtaagcaaagagtggaaggctaaccccaccctcctgctgacctcccagACCCCGCTGCACCTTGCCTTAATCACTGGGCAGACAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTGTGGACCCCACACTTCTGGAGAGGCAC---GAATCTGCACTCCACCTGgctcacacctgtgaaaatttcttgccatcttggacctctcagGAGCTCAGAGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTACGCcAGTGAAGCCCATGCTGTACCACATATA---CATATGCCCGAGTTTGAGGgtaggcactcttgtccagagccaaaagccaaggcacaagaactaagggct Alignment from Spaln_nt2Genome ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTG GCTCTCCGGGCAGGTGCTGCAGC---CCCAGAGCTGTTGCAGGCACTGTTGCGC-AGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG ttgtaagcaaagagtggaaggctaaccccaccctcctgctgacctcccagACCCCGCTGCACCTTGCCTTAATCACTGGGCAGACAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTGTGGACCCCACACTTCTGGAGAGGCAC---GAATCTGCACTCCACCTGgctcacacctgtgaaaatttcttgccatcttggacctctcagGAGCTCAGAGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTACGCCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCCGAGTTTGAGGgtaggcactcttgtccagagccaaaagccaaggcacaagaactaagggct Alignment from Pairagon ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCT------------------------------------------CTCCGGGCAGGTGCTGCA---GCCCCAGAGCTGTTGCAGGCACTGTTGCG-CAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG ttgtaagcaaagagtggaaggctaaccccaccctcctgctgacctcccagACCCCGCTGCACCTTGCCTTAATCACTGGGCAGACAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTGTGGACCCCACACTTCTGGAGAGGCACGAA---TCTGCACTCCACCTGGCTCACACCTGTGAAAATTTCTTGCCATCTTGGACCTCTCAGGAGCTCAGAGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTACGCCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCCGAGTTTGAGGgtaggcactcttgtccagagccaaaagccaaggcacaagaactaagggct Alignment from Exonerate_protein2genome ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTG GCTCTCCGGGCAGGT---GCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGC-AGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG ttgtaagcaaagagtggaaggctaaccccaccctcctgctgacctcccagACCCCGCTGCACCTTGCCTTAATCACTGGGCAGACAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTGTGGACCCCACACTTCTGGAGAGGCAC---GAATCTGCACTCCACCTGgctcacacctgtgaaaatttcttgccatcttggacctctcagGAGCTCAGAGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTACGCCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCCGAGTTTGAGGgtaggcactcttgtccagagccaaaagccaaggcacaagaactaagggct Alignment from Exonerate_coding2genome ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCTCTCCGGGCAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAG ttgtaagcaaagagtggaaggctaaccccaccctcctgctgacctcccagACCCCGCTGCACCTTGCCTTAATCACTGGGCAGACAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTGTGGACCCCACACTTCTGGAGAGGCAC---GAATCTGCACTCCACCTGGCTCACACCTGTGAAAATTTCTTGCCATCTTGGACCTCTCAGGAGCTCAGAGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTACGCCAGtgaagcccatgctgtaccacatatacatatgcccgagtttgagggtaggcactcttgtccagagccaaaagccaaggcacaagaactaagggct Alignment from GeneWise ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCT------------------------------------------CTCCGGGCAGGTGCTGCAGCC---CCAGAGCTGTTGCAGGCACTGTTGCGCAGC-GGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG ttgtaagcaaagagtggaaggctaaccccaccctcctgctgacctcccagACCCCGCTGCACCTTGCCTTAATCACTGGGCAGACAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTGTGGACCCCACACTTCTGGAGAGGCAC---GAATCTGCACTCCACCTGGCTCACACCTGTGAAAATTTCTTGCCATCTTGGACCTCTCAGGAGCTCAGAGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTACGCCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCCGAGTTTGAGGgtaggcactcttgtccagagccaaaagccaaggcacaagaactaagggct #### Nfkb2_ID9838_16 --> 2 - 0 Original Alignment gaCTATACCCTGTACACCTGGCAGTCCATGCCCGAAGC-CCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG cagagtagccacttaggatgattaccaccaacctcctttcccattcccaggaCTATACCCTGTGCACCTAGCAGTACATGCACAAAGCCCCTAAATGTCTGGATCTTTTAGTTGATTGTGGAGCAGTTGTGGAGGCTCCAGGGAGGCAAGGGAGCCGAAATGCCCTGCACCTGGCAACAGAGATGGAAGAATTGGGGCTGGTAGCCCATTTAGTCACCAAGgtggcaattcaactgtttggactaaaaatcgtggtaagataatatatgct Alignment from CESAR gaCTATACCCTGTACACCTGGCAGTCCATGCCCGAAGC-CCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG cagagtagccacttaggatgattaccaccaacctcctttcccattcccaggaCTATACCCTGTGCACCTAGCAGTACATGCACAAAGCCCCTAAATGTCTGGATCTTTTAGTTGATTGTGGAGCAGTTGTGGAGGCTCCAGGGAGGCAAGGGAGCCGAAATGCCCTGCACCTGGCAACAGAGATGGAAGAATTGGGGCTGGTAGCCCATTTAGTCACCAAGgtggcaattcaactgtttggactaaaaatcgtggtaagataatatatgct Alignment from Spaln_aa2Genome GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCT-GAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG cagagtagccacttaggatgattaccaccaacctcctttcccattcccagGACTATACCCTGTGCACCTAGCAGTACATGCACAAAGCCCCtAAATGTCTGGATCTTTTAGTTGATTGTGGAGCAGTTGTGGAGGCTCCAGGGAGGCAAGGGAGCCGAAATGCCCTGCACCTGGCAACAGAGATGGAAGAATTGGGGCTGGTAGCCCATTTAGTCACCAAGgtggcaattcaactgtttggactaaaaatcgtggtaagataatatatgct Alignment from Spaln_nt2Genome GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCC-TGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG cagagtagccacttaggatgattaccaccaacctcctttcccattcccagGACTATACCCTGTGCACCTAGCAGTACATGCACAAAGCCCCTAAATGTCTGGATCTTTTAGTTGATTGTGGAGCAGTTGTGGAGGCTCCAGGGAGGCAAGGGAGCCGAAATGCCCTGCACCTGGCAACAGAGATGGAAGAATTGGGGCTGGTAGCCCATTTAGTCACCAAGgtggcaattcaactgtttggactaaaaatcgtggtaagataatatatgct Alignment from Pairagon GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAG-CCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG cagagtagccacttaggatgattaccaccaacctcctttcccattcccagGACTATACCCTGTGCACCTAGCAGTACATGCACAAAGCCCCTAAATGTCTGGATCTTTTAGTTGATTGTGGAGCAGTTGTGGAGGCTCCAGGGAGGCAAGGGAGCCGAAATGCCCTGCACCTGGCAACAGAGATGGAAGAATTGGGGCTGGTAGCCCATTTAGTCACCAAGgtggcaattcaactgtttggactaaaaatcgtggtaagataatatatgct Alignment from Exonerate_protein2genome GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGC-CCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG cagagtagccacttaggatgattaccaccaacctcctttcccattcccagGACTATACCCTGTGCACCTAGCAGTACATGCACAAAGCCCCTAAATGTCTGGATCTTTTAGTTGATTGTGGAGCAGTTGTGGAGGCTCCAGGGAGGCAAGGGAGCCGAAATGCCCTGCACCTGGCAACAGAGATGGAAGAATTGGGGCTGGTAGCCCATTTAGTCACCAAGgtggcaattcaactgtttggactaaaaatcgtggtaagataatatatgct Alignment from Exonerate_coding2genome GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGC-CCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG cagagtagccacttaggatgattaccaccaacctcctttcccattcccagGACTATACCCTGTGCACCTAGCAGTACATGCACAAAGCCCCTAAATGTCTGGATCTTTTAGTTGATTGTGGAGCAGTTGTGGAGGCTCCAGGGAGGCAAGGGAGCCGAAATGCCCTGCACCTGGCAACAGAGATGGAAGAATTGGGGCTGGTAGCCCATTTAGTCACCAAGgtggcaattcaactgtttggactaaaaatcgtggtaagataatatatgct Alignment from GeneWise GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCT-GAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG cagagtagccacttaggatgattaccaccaacctcctttcccattcccagGACTATACCCTGTGCACCTAGCAGTACATGCACAAAGCCCCTAAATGTCTGGATCTTTTAGTTGATTGTGGAGCAGTTGTGGAGGCTCCAGGGAGGCAAGGGAGCCGAAATGCCCTGCACCTGGCAACAGAGATGGAAGAATTGGGGCTGGTAGCCCATTTAGTCACCAAGgtggcaattcaactgtttggactaaaaatcgtggtaagataatatatgct #### Nfkb2_ID9839_17 --> 0 - 1 Original Alignment CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGC-CTCCTTCTAAAGGCTg gatttgcttgattgtggccagactttgtaacatttctacctctcttccagCTACATGCCAATGTCAATACTTGGACCTTTGCTGCAAATACACCACTCCACCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCCTCCTTCTAAAGGCTggtaaggcctgcattaacttgtgactacaaaactgaaagcttggggaggaa Alignment from CESAR CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGC-CTCCTTCTAAAGGCTg gatttgcttgattgtggccagactttgtaacatttctacctctcttccagCTACATGCCAATGTCAATACTTGGACCTTTGCTGCAAATACACCACTCCACCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCCTCCTTCTAAAGGCTggtaaggcctgcattaacttgtgactacaaaactgaaagcttggggaggaa Alignment from Spaln_aa2Genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAG- gatttgcttgattgtggccagactttgtaacatttctacctctcttccagCTACATGCCAATGTCAATACTTGGACCTTTGCTGCAAATACACCACTCCACCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCCTCCTTCTAAAGgctggtaaggcctgcattaacttgtgactacaaaactgaaagcttggggaggaa Alignment from Spaln_nt2Genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCC-TCCTTCTAAAGGCTG gatttgcttgattgtggccagactttgtaacatttctacctctcttccagCTACATGCCAATGTCAATACTTGGACCTTTGCTGCAAATACACCACTCCACCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCCTCCTTCTAAAGGCTGgtaaggcctgcattaacttgtgactacaaaactgaaagcttggggaggaa Alignment from Pairagon CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCG-CCTCCTTCTAAAGGCTG gatttgcttgattgtggccagactttgtaacatttctacctctcttccagCTACATGCCAATGTCAATACTTGGACCTTTGCTGCAAATACACCACTCCACCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCCTCCTTCTAAAGGCTGgtaaggcctgcattaacttgtgactacaaaactgaaagcttggggaggaa Alignment from Exonerate_protein2genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGC-CTCCTTCTAAAGGCTG gatttgcttgattgtggccagactttgtaacatttctacctctcttccagCTACATGCCAATGTCAATACTTGGACCTTTGCTGCAAATACACCACTCCACCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCCTCCTTCTAAAGGCTGgtaaggcctgcattaacttgtgactacaaaactgaaagcttggggaggaa Alignment from Exonerate_coding2genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGC-CTCCTTCTAAAGGCTG gatttgcttgattgtggccagactttgtaacatttctacctctcttccagCTACATGCCAATGTCAATACTTGGACCTTTGCTGCAAATACACCACTCCACCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCCTCCTTCTAAAGGCTGgtaaggcctgcattaacttgtgactacaaaactgaaagcttggggaggaa Alignment from GeneWise CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACT-CGCCTCCTTCTAAAGGCTG gatttgcttgattgtggccagactttgtaacatttctacctctcttccagCTACATGCCAATGTCAATACTTGGACCTTTGCTGCAAATACACCACTCCACCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCCTCCTTCTAAAGGCTGgtaaggcctgcattaacttgtgactacaaaactgaaagcttggggaggaa #### Nfkb2_ID9840_18 --> 2 - 0 Original Alignment gtGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCG-CTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtagtctttcaactgttttgtttccaaccatcaggcGCTGATACCCATACAGAGAATGAAGAGCCACTGTGTCCTCCTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgctactgttcagaaaggattcaagtggttgta Alignment from CESAR gtGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCG-CTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtagtctttcaactgttttgtttccaaccatcaggcGCTGATACCCATACAGAGAATGAAGAGCCACTGTGTCCTCCTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgctactgttcagaaaggattcaagtggttgta Alignment from Spaln_aa2Genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCG-CTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtagtctttcaactgttttgtttccaaccatcagGCGCTGATACCCATACAGAGAATGAAGAGCCACTGTGTCCTcCTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgctactgttcagaaaggattcaagtggttgta Alignment from Spaln_nt2Genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGC-TGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtagtctttcaactgttttgtttccaaccatcagGCGCTGATACCCATACAGAGAATGAAGAGCCACTGTGTCCTCCTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgctactgttcagaaaggattcaagtggttgta Alignment from Pairagon GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTG-CCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAGGTGAAG-------------------------------------------- cagttagagactataagtagtctttcaactgttttgtttccaaccatcagGCGCTGATACCCATACAGAGAATGAAGAGCCACTGTGTCCTCCTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGGTAAGGTACACGGAGTCTGCTACTGTTCAGAAAGGATTCAAGTGGTTGTA Alignment from Exonerate_protein2genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCG-CTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtagtctttcaactgttttgtttccaaccatcagGCGCTGATACCCATACAGAGAATGAAGAGCCACTGTGTCCTCCTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgctactgttcagaaaggattcaagtggttgta Alignment from Exonerate_coding2genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCG-CTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtagtctttcaactgttttgtttccaaccatcagGCGCTGATACCCATACAGAGAATGAAGAGCCACTGTGTCCTCCTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgctactgttcagaaaggattcaagtggttgta Alignment from GeneWise GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCG-CTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtagtctttcaactgttttgtttccaaccatcagGCGCTGATACCCATACAGAGAATGAAGAGCCACTGTGTCCTCCTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgctactgttcagaaaggattcaagtggttgta #### Noc3l_ID7658_17 --> 2 - 0 Original Alignment gtGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACT-ACCAGGATATTGATGCAT caccccttgaatacgtgaggtgatgaatcagcagctttctttctctttaggcACCACTAATGATGGCATAGAGATTGTACTCCACTGCTTGGATGTCATGGTTAGCAAATGCAGAAAGCAAGTTTCT---CAGAGGGCTATTGCCTTCATCAAGCGTCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTCTACCAACTCACAAGGGTACTGATGCATgtatatcaaagtctcaagagacttaagttgtgtgcaggtcaaacaggcta Alignment from CESAR gtGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACT-ACCAGGATATTGATGCAT caccccttgaatacgtgaggtgatgaatcagcagctttctttctctttaggcACCACTAATGATGGCATAGAGATTGTACTCCACTGCTTGGATGTCATGGTTAGCAAATGCAGAAAGCAAGTTTCT---CAGAGGGCTATTGCCTTCATCAAGCGTCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTCTACCAACTCACAAGGGTACTGATGCATgtatatcaaagtctcaagagacttaagttgtgtgcaggtcaaacaggcta Alignment from Spaln_aa2Genome GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACT-ACCAGGATATTGATGCAT caccccttgaatacgtgaggtgatgaatcagcagctttctttctctttagGCACCACTAATGATGGCATAGAGATTGTACTCCACTGCTTGGATGTCATGGTTAGCAAATGCAGAAAGCAAGTTTCT---CAGAGGGCTATTGCCTTCATCAAGCGTCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTCTACCAACTcACAAGGGTACTGATGCATgtatatcaaagtctcaagagacttaagttgtgtgcaggtcaaacaggcta Alignment from Spaln_nt2Genome GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACT-ACCAGGATATTGATGCAT caccccttgaatacgtgaggtgatgaatcagcagctttctttctctttagGCACCACTAATGATGGCATAGAGATTGTACTCCACTGCTTGGATGTCATGGTTAGCAAATGCAGAAAGCAAGTTTC---TCAGAGGGCTATTGCCTTCATCAAGCGTCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTCTACCAACTCACAAGGGTACTGATGCATgtatatcaaagtctcaagagacttaagttgtgtgcaggtcaaacaggcta Alignment from Pairagon GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACT-ACCAGGATATTGATGCAT caccccttgaatacgtgaggtgatgaatcagcagctttctttctctttagGCACCACTAATGATGGCATAGAGATTGTACTCCACTGCTTGGATGTCATGGTTAGCAAATGCAGAAAGCAAGTTTC---TCAGAGGGCTATTGCCTTCATCAAGCGTCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTCTACCAACTCACAAGGGTACTGATGCATgtatatcaaagtctcaagagacttaagttgtgtgcaggtcaaacaggcta Alignment from Exonerate_protein2genome GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACT-ACCAGGATATTGATGCAT caccccttgaatacgtgaggtgatgaatcagcagctttctttctctttagGCACCACTAATGATGGCATAGAGATTGTACTCCACTGCTTGGATGTCATGGTTAGCAAATGCAGAAAGCAAGTTTCT---CAGAGGGCTATTGCCTTCATCAAGCGTCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTCTACCAACTCACAAGGGTACTGATGCATgtatatcaaagtctcaagagacttaagttgtgtgcaggtcaaacaggcta Alignment from Exonerate_coding2genome GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACT-ACCAGGATATTGATGCAT caccccttgaatacgtgaggtgatgaatcagcagctttctttctctttagGCACCACTAATGATGGCATAGAGATTGTACTCCACTGCTTGGATGTCATGGTTAGCAAATGCAGAAAGCAAGTTTCT---CAGAGGGCTATTGCCTTCATCAAGCGTCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTCTACCAACTCACAAGGGTACTGATGCATgtatatcaaagtctcaagagacttaagttgtgtgcaggtcaaacaggcta Alignment from GeneWise GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTA-GCAACTACCAGGATATTGATGCAT caccccttgaatacgtgaggtgatgaatcagcagctttctttctctttagGCACCACTAATGATGGCATAGAGATTGTACTCCACTGCTTGGATGTCATGGTTAGCAAATGCAGAAAGCAAGTTTCT---CAGAGGGCTATTGCCTTCATCAAGCGTCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTCTACCAACTCACAAGGGTACTGATGCATgtatatcaaagtctcaagagacttaagttgtgtgcaggtcaaacaggcta #### Npas4_ID775_6 --> 2 - 2 Original Alignment tgGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCC-AATAACTACCCTATCag gtggacggcctgatagcacttgagatgtcaagtgccatttcctatttcagttGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTTGCTGCCCAATAATTATCCTAATaggtaggatgggggccaccagatgatgacaactgctgtatttggttggtaaa Alignment from CESAR tgGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCC-AATAACTACCCTATCag gtggacggcctgatagcacttgagatgtcaagtgccatttcctatttcagttGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTTGCTGCCCAATAATTATCCTAATaggtaggatgggggccaccagatgatgacaactgctgtatttggttggtaaa Alignment from Spaln_aa2Genome TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCC-AATAACTACCCTATCAG gtggacggcctgatagcacttgagatgtcaagtgccatttcctatttcagTTGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTTGCTGCCcAATAATTATCCTAATAGgtaggatgggggccaccagatgatgacaactgctgtatttggttggtaaa Alignment from Spaln_nt2Genome TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCC-AATAACTACCCTATCAG gtggacggcctgatagcacttgagatgtcaagtgccatttcctatttcagTTGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTTGCTGCCCAATAATTATCCTAATAGgtaggatgggggccaccagatgatgacaactgctgtatttggttggtaaa Alignment from Pairagon TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTG-CCAATAACTACCCTATCAG gtggacggcctgatagcacttgagatgtcaagtgccatttcctatttcagTTGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTTGCTGCCCAATAATTATCCTAATAGgtaggatgggggccaccagatgatgacaactgctgtatttggttggtaaa Alignment from Exonerate_protein2genome TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCC-AATAACTACCCTATCAG gtggacggcctgatagcacttgagatgtcaagtgccatttcctatttcagTTGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTTGCTGCCCAATAATTATCCTAATAGgtaggatgggggccaccagatgatgacaactgctgtatttggttggtaaa Alignment from Exonerate_coding2genome TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCC-AATAACTACCCTATCAG gtggacggcctgatagcacttgagatgtcaagtgccatttcctatttcagTTGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTTGCTGCCCAATAATTATCCTAATAGgtaggatgggggccaccagatgatgacaactgctgtatttggttggtaaa Alignment from GeneWise TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACT-GCCAATAACTACCCTATCAG gtggacggcctgatagcacttgagatgtcaagtgccatttcctatttcagTTGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTTGCTGCCCAATAATTATCCTAATAGgtaggatgggggccaccagatgatgacaactgctgtatttggttggtaaa #### Npm3_ID9576_4 --> 0 - 1 Original Alignment CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAG-TCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCg caataactgttgatacccattgaagtacctctcctctctgttgcttacagCTTGGTGTTGATGATCTCCAACTTCAACCACCAGTTTCCTTCCGATTGAGGCTCAGGTTCAGGTCCAGTTCGAATC---------CATCACATTggcaagtgggcagaatgtcgaggactattatgcagtgatttgccagcaaca Alignment from CESAR CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAG-TCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCg caataactgttgatacccattgaagtacctctcctctctgttgcttacagCTTGGTGTTGATGATCTCCAACTTCAACCACCAGTTTCCTTCCGATTGAGGCTCAGGTTCAGGTCCAGTTCGAATC---------CATCACATTggcaagtgggcagaatgtcgaggactattatgcagtgatttgccagcaaca Alignment from Spaln_aa2Genome CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG caataactgttgatacccattgaagtacctctcctctctgttgcttacagCTTGGTGTTGATGATCTCCAACTTCAACCACCAGTTTCCTTCCGATTGAGGCTCAGGTTCAGGTCCAGTTCGAATCCATCACATTGGCAAGTGGgcagaatgtcgaggactattatgcagtgatttgccagcaaca Alignment from Spaln_nt2Genome CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAG-TCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG caataactgttgatacccattgaagtacctctcctctctgttgcttacagCTTGGTGTTGATGATCTCCAACTTCAACCACCAGTTTCCTTCCGATTGAGGCTCAGGTTCAGGTCCAGTTCGAATC---------CATCACATTGgcaagtgggcagaatgtcgaggactattatgcagtgatttgccagcaaca Alignment from Pairagon CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAG-TCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG caataactgttgatacccattgaagtacctctcctctctgttgcttacagCTTGGTGTTGATGATCTCCAACTTCAACCACCAGTTTCCTTCCGATTGAGGCTCAGGTTCAGGTCCAGTTCGAATC---------CATCACATTGgcaagtgggcagaatgtcgaggactattatgcagtgatttgccagcaaca Alignment from Exonerate_protein2genome CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAG-TCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG caataactgttgatacccattgaagtacctctcctctctgttgcttacagCTTGGTGTTGATGATCTCCAACTTCAACCACCAGTTTCCTTCCGATTGAGGCTCAGGTTCAGGTCCAGTTCGAATC---------CATCACATTGgcaagtgggcagaatgtcgaggactattatgcagtgatttgccagcaaca Alignment from Exonerate_coding2genome TTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATC CAATAACTGTTGATACCCATTGAAGTACCTCTCCTCTCTGTTGCTTACAGCTTGgtgttgatgatctccaacttcaaccaccagtttccttccgattgaggctcaggttcaggtccagttcgaatccatcacattggcaagtgggcagaatgtcgaggactattatgcagtgatttgccagcaaca Alignment from GeneWise CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTG-AAGTCCGGTTCTGGCCCAGTTCGGATC------ACTGGCCGGCATCAGATCG caataactgttgatacccattgaagtacctctcctctctgttgcttacagCTTGGTGTTGATGATCTCCAACTTCAACCACCAGTTTCCTTCCGATTGAGGCTCAGGTTCAGGTCCAGTTCGAATCCATCACATTGGCAAGTGGGCAGAATgtcgaggactattatgcagtgatttgccagcaaca #### Npm3_ID9578_2 --> 2 - 0 Original Alignment gtTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAG-GTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggttcaggatgtacctaggaggtgggattttcccctttgttttaggtTGTGAGCTCTCTGATCACACACGTTCGTTCACTTTCAATCGTTGCAGAGGAAGATGACACAGAGCAGGTGCTTGCATTGAACATGgtaagaggtacataaagagtcagttcagcacacccctggtcttatctttc Alignment from CESAR gtTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAG-GTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggttcaggatgtacctaggaggtgggattttcccctttgttttaggtTGTGAGCTCTCTGATCACACACGTTCGTTCACTTTCAATCGTTGCAGAGGAAGATGACACAGAGCAGGTGCTTGCATTGAACATGgtaagaggtacataaagagtcagttcagcacacccctggtcttatctttc Alignment from Spaln_aa2Genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAG-GTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggttcaggatgtacctaggaggtgggattttcccctttgttttagGTTGTGAGCTCTCTGATCACACACGTTCGTTCACTTTCAATcGTTGCAGAGGAAGATGACACAGAGCAGGTGCTTGCATTGAACATGgtaagaggtacataaagagtcagttcagcacacccctggtcttatctttc Alignment from Spaln_nt2Genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAG-GTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggttcaggatgtacctaggaggtgggattttcccctttgttttagGTTGTGAGCTCTCTGATCACACACGTTCGTTCACTTTCAATCGTTGCAGAGGAAGATGACACAGAGCAGGTGCTTGCATTGAACATGgtaagaggtacataaagagtcagttcagcacacccctggtcttatctttc Alignment from Pairagon GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAA-GGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggttcaggatgtacctaggaggtgggattttcccctttgttttagGTTGTGAGCTCTCTGATCACACACGTTCGTTCACTTTCAATCGTTGCAGAGGAAGATGACACAGAGCAGGTGCTTGCATTGAACATGgtaagaggtacataaagagtcagttcagcacacccctggtcttatctttc Alignment from Exonerate_protein2genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAG-GTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggttcaggatgtacctaggaggtgggattttcccctttgttttagGTTGTGAGCTCTCTGATCACACACGTTCGTTCACTTTCAATCGTTGCAGAGGAAGATGACACAGAGCAGGTGCTTGCATTGAACATGgtaagaggtacataaagagtcagttcagcacacccctggtcttatctttc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTC-AAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggttcaggatgtacctaggaggtgggattttcccctttgttttagGTTGTGAGCTCTCTGATCACACACGTTCGTTCACTTTCAATCGTTGCAGAGGAAGATGACACAGAGCAGGTGCTTGCATTGAACATGgtaagaggtacataaagagtcagttcagcacacccctggtcttatctttc #### Nt5c2_ID10037_16 --> 1 - 0 Original Alignment gCACCTGGACAGCAGT-AGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG tccaacgaggagcgctttctcttagaccttgggttatgttttccctataggCATTTGGACAGCAGCCAGC------------AATATTAGTCCTATCCAACGGCAGATTAAGgtgactagattgcatctgagagacaagattaggtgttggtattgccaaag Alignment from CESAR gCACCTGGACAGCAGT-AGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG tccaacgaggagcgctttctcttagaccttgggttatgttttccctataggCATTTGGACAGCAGCCAGCAAT------------ATTAGTCCTATCCAACGGCAGATTAAGgtgactagattgcatctgagagacaagattaggtgttggtattgccaaag Alignment from Spaln_aa2Genome GCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG tccaacgaggagcgctttctcttagaccttgggttatgttttccctatagGCATTTGGACAGCAGCC-----------AGCAATATTAGTCCTATCCAACGGCAGATTAAGgtgactagattgcatctgagagacaagattaggtgttggtattgccaaag Alignment from Spaln_nt2Genome GCACCTGGACAGCAGT-AGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG tccaacgaggagcgctttctcttagaccttgggttatgttttccctatagGCATTTGGACAGCAGCCAGCAAT------------ATTAGTCCTATCCAACGGCAGATTAAGgtgactagattgcatctgagagacaagattaggtgttggtattgccaaag Alignment from Pairagon GCACCTGGACAGCAG-TAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG tccaacgaggagcgctttctcttagaccttgggttatgttttccctatagGCATTTGGACAGCAGCCAGCAAT------------ATTAGTCCTATCCAACGGCAGATTAAGgtgactagattgcatctgagagacaagattaggtgttggtattgccaaag Alignment from Exonerate_protein2genome GCCCGGACATTAGTTCCATCCAGAGACGGATTAAG tccaacgaggagcgctttctcttagaccttgggttatgttttccctataggcatttggacagcagCCAGCAATATTAGTCCTATCCAACGGCAGATTAAGgtgactagattgcatctgagagacaagattaggtgttggtattgccaaag Alignment from Exonerate_coding2genome GCACCTGGACAGCAGTAGCAATGAGC tccaacgaggagcgctttctcttagaccttgggttatgttttccctataggcatttggacagcagccagcaatattagtcctatccaacggcagattaaggtgactagattgcatctgagagacAAGATTAGGTGTTGGTATTGCCAAAG Alignment from GeneWise GCACCTGGACAGCAGTAGCAATG tccaacgaggagcgctttctcttagaccttgggttatgttttccctataggcatttggacagcagccagcaatattagtcctatccaacggcagattaaggtgactagattgcatctgagagacaagA---TTAGGTGTTGGTATTGCCA #### Nt5c2_ID10041_12 --> 0 - 0 Original Alignment CCCGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGACCTGATTTTGGTGGATGCTCGGAAACCACTCTTT-TTTGGAGAAGGCACAGTGCTGCGTCAGGTGGACACT agatccacctctggcttccatgagaagatctcaatggggtatctttccagCCTGGGAGCTCACACCGCCCATGGCAGTCCTACTTTGATCTGATTCTG---GATGCTCGGAAACCACTCTTTCTTTGGTGAAGGAACAGTGCTGCGTCAGGTTGACACTgtaggggtgaaacaaaatggattaaatagatatgaaccctgatcctactc Alignment from CESAR CCCGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGACCTGATTTTGGTGGATGCTCGGAAACCACTCTTT-TTTGGAGAAGGCACAGTGCTGCGTCAGGTGGACACT agatccacctctggcttccatgagaagatctcaatggggtatctttccagCCTGGGAGCTCACACCGCCCATGGCAGTCCTACTTTGATCTGATTCTG---GATGCTCGGAAACCACTCTTTCTTTGGTGAAGGAACAGTGCTGCGTCAGGTTGACACTgtaggggtgaaacaaaatggattaaatagatatgaaccctgatcctactc Alignment from Spaln_aa2Genome CCCGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGACCTGATTTTGGTGGATGCTCGGAAACCACTC-TTTTTTGGAGAAGGCACAGTGCTGCGTCAGGTGGACACT agatccacctctggcttccatgagaagatctcaatggggtatctttccagCCTGGGAGCTCACACCGCCCATGGCAGTCCTACTTTGATCTGATTCTG---GATGCTCGGAAACCACTCtTTCTTTGGTGAAGGAACAGTGCTGCGTCAGGTTGACACTgtaggggtgaaacaaaatggattaaatagatatgaaccctgatcctactc Alignment from Spaln_nt2Genome CCCGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGACCTGATTTTGGTGGATGCTCGGAAACCACTCTTTTT-TGGAGAAGGCACAGTGCTGCGTCAGGTGGACACT agatccacctctggcttccatgagaagatctcaatggggtatctttccagCCTGGGAGCTCACACCGCCCATGGCAGTCCTACTTTGATCTGATT---CTGGATGCTCGGAAACCACTCTTTCTTTGGTGAAGGAACAGTGCTGCGTCAGGTTGACACTgtaggggtgaaacaaaatggattaaatagatatgaaccctgatcctactc Alignment from Pairagon CCCGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGACCTGATTTTGGTGGATGCTCGGAAACCACTCTTT-TTTGGAGAAGGCACAGTGCTGCGTCAGGTGGACACT agatccacctctggcttccatgagaagatctcaatggggtatctttccagCCTGGGAGCTCACACCGCCCATGGCAGTCCTACTTTGATCTGATTC---TGGATGCTCGGAAACCACTCTTTCTTTGGTGAAGGAACAGTGCTGCGTCAGGTTGACACTgtaggggtgaaacaaaatggattaaatagatatgaaccctgatcctactc Alignment from Exonerate_protein2genome CCCGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGACCTGATTTTGGTGGATGCTCGGAAACCACTC-TTTTTTGGAGAAGGCACAGTGCTGCGTCAGGTGGACACT agatccacctctggcttccatgagaagatctcaatggggtatctttccagCCTGGGAGCTCACACCGCCCATGGCAGTCCTACTTTGATCTGATTCTG---GATGCTCGGAAACCACTCTTTCTTTGGTGAAGGAACAGTGCTGCGTCAGGTTGACACTgtaggggtgaaacaaaatggattaaatagatatgaaccctgatcctactc Alignment from Exonerate_coding2genome TACCTGTTTGATTTCCCGCATGGCCCCAAGCCCGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGACCTGATTTTGGTGGATGCTCGGAAACCACTCTTTTTTGGAGAAGGCACAGTGCTGCGTCAGGTGGACACT agatccacctctggcttccaTGAGAAGATCTCAATGGGGTATCTTTCCAGCCTGGGAGCTCACACCGCCCATGGCAGTCCTACTTTGATCTGATTCTGGATGCTCGGAAACCACTCT--TTCTTTGGTGAAGGAACAGTGCTGCGTCAGGTTGACACTgtaggggtgaaacaaaatggattaaatagatatgaaccctgatcctactc Alignment from GeneWise CCCGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGACCTGATTTTGGTGGATGCTCGGAAACCA-CTCTTTTTTGGAGAAGGCACAGTGCTGCGTCAGGTGGACACT agatccacctctggcttccatgagaagatctcaatggggtatctttccagCCTGGGAGCTCACACCGCCCATGGCAGTCCTACTTTGATCTGATTCTG---GATGCTCGGAAACCACTCTTTCTTTGGTGAAGGAACAGTGCTGCGTCAGGTTGACACTgtaggggtgaaacaaaatggattaaatagatatgaaccctgatcctactc #### Nxf1_ID2349_9 --> 0 - 0 Original Alignment CTATTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAAC-CTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatgtgtaataaataggttaatattttgcaccttttgctttccag---TTGTCTTTGAACTTGAGCAGCAACCGGCTATTCAAGCTGGACGACATGTCAGGTATTGTGCAAACAGCTCCAAATCATAAAAACTTTAAATCTTCCTGGAAAGGAGgtaagatggcatttaggataatcaatgatttttaattagtagtagttgaa Alignment from CESAR CTATTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAAC-CTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatgtgtaataaataggttaatattttgcaccttttgctttccag---TTGTCTTTGAACTTGAGCAGCAACCGGCTATTCAAGCTGGACGACATGTCAGGTATTGTGCAAACAGCTCCAAATCATAAAAACTTTAAATCTTCCTGGAAAGGAGgtaagatggcatttaggataatcaatgatttttaattagtagtagttgaa Alignment from Spaln_aa2Genome CTATTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAAC-CTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatgtgtaataaataggttaatattttgcaccttttgctttccag---TTGTCTTTGAACTTGAGCAGCAACCGGCTATTCAAGCTGGACGACATGTCAGGTATTGTGCAAACAGCTCCAAATcATAAAAACTTTAAATCTTCCTGGAAAGGAGgtaagatggcatttaggataatcaatgatttttaattagtagtagttgaa Alignment from Spaln_nt2Genome TTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACC-TAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatgtgtaataaataggttaatattttgcaccttttgctttccagTTGTCTTTGAACTTGAGCAGCAACCGGCTATTCAAGCTGGACGACATGTCAGGTATTGTGCAAACAGCTCCAAATCATAAAAACTTTAAATCTTCCTGGAAAGGAGgtaagatggcatttaggataatcaatgatttttaattagtagtagttgaa Alignment from Pairagon CTATTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACC-TAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatgtgtaataaataggttaatattttgcaccttttgctttccag---TTGTCTTTGAACTTGAGCAGCAACCGGCTATTCAAGCTGGACGACATGTCAGGTATTGTGCAAACAGCTCCAAATCATAAAAACTTTAAATCTTCCTGGAAAGGAGgtaagatggcatttaggataatcaatgatttttaattagtagtagttgaa Alignment from Exonerate_protein2genome TTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAAC-CTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatgtgtaataaataggttaatattttgcaccttttgctttccagTTGTCTTTGAACTTGAGCAGCAACCGGCTATTCAAGCTGGACGACATGTCAGGTATTGTGCAAACAGCTCCAAATCATAAAAACTTTAAATCTTCCTGGAAAGGAGgtaagatggcatttaggataatcaatgatttttaattagtagtagttgaa Alignment from Exonerate_coding2genome TTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAAC-CTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatgtgtaataaataggttaatattttgcaccttttgctttccagTTGTCTTTGAACTTGAGCAGCAACCGGCTATTCAAGCTGGACGACATGTCAGGTATTGTGCAAACAGCTCCAAATCATAAAAACTTTAAATCTTCCTGGAAAGGAGgtaagatggcatttaggataatcaatgatttttaattagtagtagttgaa Alignment from GeneWise ---TCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAAC-CTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatgtgtaataaataggttaatattttgcaccttttgctttccagTTGTCTTTGAACTTGAGCAGCAACCGGCTATTCAAGCTGGACGACATGTCAGGTATTGTGCAAACAGCTCCAAATCATAAAAACTTTAAATCTTCCTGGAAAGGAGgtaagatggcatttaggataatcaatgatttttaattagtagtagttgaa #### Nxf1_ID2358_18 --> 2 - 2 Original Alignment tgGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTC-ATTGCTGTTCCTGCCAGCAATTCAgg ctgtaactcttttgcacctcagggcactctgaatgtggttttcctggcagtaGATGGGAAGTCTCGAGATTCTCTACATGCCTACGCAAGGACATTCCATTGCAGTTCCTGCAAGTAATACAgggtgagtagatctgattgattaacaatgagaggagtggaggacacaacagt Alignment from CESAR tgGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTC-ATTGCTGTTCCTGCCAGCAATTCAgg ctgtaactcttttgcacctcagggcactctgaatgtggttttcctggcagtaGATGGGAAGTCTCGAGATTCTCTACATGCCTACGCAAGGACATTCCATTGCAGTTCCTGCAAGTAATACAgggtgagtagatctgattgattaacaatgagaggagtggaggacacaacagt Alignment from Spaln_aa2Genome TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTC-ATTGCTGTTCCTGCCAGCAATTCAGG ctgtaactcttttgcacctcagggcactctgaatgtggttttcctggcagTAGATGGGAAGTCTCGAGATTCTCTACATGCCTACGCAAGGACATTCcATTGCAGTTCCTGCAAGTAATACAGGgtgagtagatctgattgattaacaatgagaggagtggaggacacaacagt Alignment from Spaln_nt2Genome TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTC-ATTGCTGTTCCTGCCAGCAATTCAGG ctgtaactcttttgcacctcagggcactctgaatgtggttttcctggcagTAGATGGGAAGTCTCGAGATTCTCTACATGCCTACGCAAGGACATTCCATTGCAGTTCCTGCAAGTAATACAGGgtgagtagatctgattgattaacaatgagaggagtggaggacacaacagt Alignment from Pairagon TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTT-CATTGCTGTTCCTGCCAGCAATTCAGG ctgtaactcttttgcacctcagggcactctgaatgtggttttcctggcagTAGATGGGAAGTCTCGAGATTCTCTACATGCCTACGCAAGGACATTCCATTGCAGTTCCTGCAAGTAATACAGGgtgagtagatctgattgattaacaatgagaggagtggaggacacaacagt Alignment from Exonerate_protein2genome TTTTCTGTCAATGGAGTCTTCAAGGAAGTGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTC-ATTGCTGTTCCTGCCAGCAATTCAGG ctgtaactcttttgcacctcagGGCACTCTGAATGTGGTTTTCCTGGCAGTAGATGGGAAGTCTCGAGATTCTCTACATGCCTACGCAAGGACATTCCATTGCAGTTCCTGCAAGTAATACAGGgtgagtagatctgattgattaacaatgagaggagtggaggacacaacagt Alignment from Exonerate_coding2genome TTTTCTGTCAATGGAGTCTTCAAGGAAGTGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTC-ATTGCTGTTCCTGCCAGCAATTCAGG ctgtaactcttttgcacctcagGGCACTCTGAATGTGGTTTTCCTGGCAGTAGATGGGAAGTCTCGAGATTCTCTACATGCCTACGCAAGGACATTCCATTGCAGTTCCTGCAAGTAATACAGGgtgagtagatctgattgattaacaatgagaggagtggaggacacaacagt Alignment from GeneWise AGCACATTACTGTGTTTTTCTGTCAATGGAGTCTTCAAGGAAGTGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTC-ATTGCTGTTCCTGCCAGCAATTCAGG acctcagGGCACTCTG---------------AATGTGGTTTTCCTGGCAGTAGATGGGAAGTCTCGAGATTCTCTACATGCCTACGCAAGGACATTCCATTGCAGTTCCTGCAAGTAATACAGGgtgagtagatctgattgattaacaatgagaggagtggaggacacaacagt #### Pacs1_ID876_18 --> 2 - 2 Original Alignment agCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCT-GAAGCCATGTTGACCTGCAGGCATAAGtt ttacaggtctactggaatattactcttattctctattttcccacctccagaaCCACTAGACGTGGTGGGTCATGTGATGCTGTACATCAATGGTTCTATAACAACGCACCAGCTTCCTATCGCACGAAGCTATGCTGACCTGCAGACATAAGttgtgggcccactatgagaactttcaggaaagcagcttgcactaatagatga Alignment from CESAR agCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCT-GAAGCCATGTTGACCTGCAGGCATAAGtt ttacaggtctactggaatattactcttattctctattttcccacctccagaaCCACTAGACGTGGTGGGTCATGTGATGCTGTACATCAATGGTTCTATAACAACGCACCAGCTTCCTATCGCACGAAGCTATGCTGACCTGCAGACATAAGttgtgggcccactatgagaactttcaggaaagcagcttgcactaatagatga Alignment from Spaln_aa2Genome AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCT-GAAGCCATGTTGACCTGCAGGCATAAGTT ttacaggtctactggaatattactcttattctctattttcccacctccagAACCACTAGACGTGGTGGGTCATGTGATGCTGTACATCAATGGTTCTATAACAACGCACCAGCTTCCTATCGCAcGAAGCTATGCTGACCTGCAGACATAAGTTgtgggcccactatgagaactttcaggaaagcagcttgcactaatagatga Alignment from Spaln_nt2Genome AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCT-GAAGCCATGTTGACCTGCAGGCATAAGTT ttacaggtctactggaatattactcttattctctattttcccacctccagAACCACTAGACGTGGTGGGTCATGTGATGCTGTACATCAATGGTTCTATAACAACGCACCAGCTTCCTATCGCACGAAGCTATGCTGACCTGCAGACATAAGTTgtgggcccactatgagaactttcaggaaagcagcttgcactaatagatga Alignment from Pairagon AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGC-TGAAGCCATGTTGACCTGCAGGCATAAGTT ttacaggtctactggaatattactcttattctctattttcccacctccagAACCACTAGACGTGGTGGGTCATGTGATGCTGTACATCAATGGTTCTATAACAACGCACCAGCTTCCTATCGCACGAAGCTATGCTGACCTGCAGACATAAGTTgtgggcccactatgagaactttcaggaaagcagcttgcactaatagatga Alignment from Exonerate_protein2genome AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCT-GAAGCCATGTTGACCTGCAGGCATAAGTT ttacaggtctactggaatattactcttattctctattttcccacctccagAACCACTAGACGTGGTGGGTCATGTGATGCTGTACATCAATGGTTCTATAACAACGCACCAGCTTCCTATCGCACGAAGCTATGCTGACCTGCAGACATAAGTTgtgggcccactatgagaactttcaggaaagcagcttgcactaatagatga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTG-GCTGAAGCCATGTTGACCTGCAGGCATAAGTT ttacaggtctactggaatattactcttattctctattttcccacctccagAACCACTAGACGTGGTGGGTCATGTGATGCTGTACATCAATGGTTCTATAACAACGCACCAGCTTCCTATCGCACGAAGCTATGCTGACCTGCAGACATAAGTTgtgggcccactatgagaactttcaggaaagcagcttgcactaatagatga #### Pacs1_ID877_17 --> 2 - 1 Original Alignment gtTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGT-AGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAg gtgtgttcggaatgagtacttcgtctttctcaggcccctctgccccccaggcTCTCATCCAGTAGCCAAGTACTTAGGCTCTGTAGACAGCCAGGTATAGCAGTACATTTCTAGATCCTGCATCAAAAGATCTATTCAGCCAGTCAGAGCCCCTAGTGTCAggtgagacccaccagtagcagtttgctacctttggtactatctcccatgac Alignment from CESAR gtTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGT-AGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAg gtgtgttcggaatgagtacttcgtctttctcaggcccctctgccccccaggcTCTCATCCAGTAGCCAAGTACTTAGGCTCTGTAGACAGCCAGGTATAGCAGTACATTTCTAGATCCTGCATCAAAAGATCTATTCAGCCAGTCAGAGCCCCTAGTGTCAggtgagacccaccagtagcagtttgctacctttggtactatctcccatgac Alignment from Spaln_aa2Genome GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGT-AGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAG gtgtgttcggaatgagtacttcgtctttctcaggcccctctgccccccagGCTCTCATCCAGTAGCCAAGTACTTAGGCTCTGTAGACAGCcAGGTATAGCAGTACATTTCTAGATCCTGCATCAAAAGATCTATTCAGCCAGTCAGAGCCCCTAGTGTCAGgtgagacccaccagtagcagtttgctacctttggtactatctcccatgac Alignment from Spaln_nt2Genome GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGT-AGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAG gtgtgttcggaatgagtacttcgtctttctcaggcccctctgccccccagGCTCTCATCCAGTAGCCAAGTACTTAGGCTCTGTAGACAGCCAGGTATAGCAGTACATTTCTAGATCCTGCATCAAAAGATCTATTCAGCCAGTCAGAGCCCCTAGTGTCAGgtgagacccaccagtagcagtttgctacctttggtactatctcccatgac Alignment from Pairagon GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAG-TAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAG gtgtgttcggaatgagtacttcgtctttctcaggcccctctgccccccagGCTCTCATCCAGTAGCCAAGTACTTAGGCTCTGTAGACAGCCAGGTATAGCAGTACATTTCTAGATCCTGCATCAAAAGATCTATTCAGCCAGTCAGAGCCCCTAGTGTCAGgtgagacccaccagtagcagtttgctacctttggtactatctcccatgac Alignment from Exonerate_protein2genome GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGT-AGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAG gtgtgttcggaatgagtacttcgtctttctcaggcccctctgccccccagGCTCTCATCCAGTAGCCAAGTACTTAGGCTCTGTAGACAGCCAGGTATAGCAGTACATTTCTAGATCCTGCATCAAAAGATCTATTCAGCCAGTCAGAGCCCCTAGTGTCAGgtgagacccaccagtagcagtttgctacctttggtactatctcccatgac Alignment from Exonerate_coding2genome gtgtgttcggaatgagtacttcgtctttctcaggcccctctgccccccaggctctcatccagtagccaagtacttaggctctgtagacagccaggtatagcagtacatttctagatcctgcatcaaaagatctattcagccagtcagagcccctagtgtcaggtgagacccaccagtagcagtttgctacctttggtactatctcccatgac Alignment from GeneWise GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGAT-AGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAG gtgtgttcggaatgagtacttcgtctttctcaggcccctctgccccccagGCTCTCATCCAGTAGCCAAGTACTTAGGCTCTGTAGACAGCCAGGTATAGCAGTACATTTCTAGATCCTGCATCAAAAGATCTATTCAGCCAGTCAGAGCCCCTAGTGTCAGgtgagacccaccagtagcagtttgctacctttggtactatctcccatgac #### Pacs1_ID878_16 --> 1 - 1 Original Alignment cTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGT-TACATGCGCTTCCTCATCATTCCCCTAg tctctcacctaaaatatcaccctttccctaactaggacttattctcttagtTGCAATTGCAACTCATCTATGCCAAGGCCGGTTAAAGTAGCAGCTGTGGGTAGCCAAAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACACCAGACTGGCTTGGTCTATATGCATTTCCTCATTATTCTCTTAggtgcagtctcaccaggacttgttgagtaacatcttttaggatgatgctca Alignment from CESAR cTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGT-TACATGCGCTTCCTCATCATTCCCCTAg tctctcacctaaaatatcaccctttccctaactaggacttattctcttagtTGCAATTGCAACTCATCTATGCCAAGGCCGGTTAAAGTAGCAGCTGTGGGTAGCCAAAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACACCAGACTGGCTTGGTCTATATGCATTTCCTCATTATTCTCTTAggtgcagtctcaccaggacttgttgagtaacatcttttaggatgatgctca Alignment from Spaln_aa2Genome CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGT-TACATGCGCTTCCTCATCATTCCCCTAG tctctcacctaaaatatcaccctttccctaactaggacttattctcttagTTGCAATTGCAACTCATCTATGCCAAGGCCGGTTAAAGTAGCAGCTGTGGGTAGCCAAAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACACCAGACTGGCTTGGTcTATATGCATTTCCTCATTATTCTCTTAGgtgcagtctcaccaggacttgttgagtaacatcttttaggatgatgctca Alignment from Spaln_nt2Genome CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGT-TACATGCGCTTCCTCATCATTCCCCTAG tctctcacctaaaatatcaccctttccctaactaggacttattctcttagTTGCAATTGCAACTCATCTATGCCAAGGCCGGTTAAAGTAGCAGCTGTGGGTAGCCAAAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACACCAGACTGGCTTGGTCTATATGCATTTCCTCATTATTCTCTTAGgtgcagtctcaccaggacttgttgagtaacatcttttaggatgatgctca Alignment from Pairagon CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGT-TACATGCGCTTCCTCATCATTCCCCTAG tctctcacctaaaatatcaccctttccctaactaggacttattctcttagTTGCAATTGCAACTCATCTATGCCAAGGCCGGTTAAAGTAGCAGCTGTGGGTAGCCAAAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACACCAGACTGGCTTGGTCTATATGCATTTCCTCATTATTCTCTTAGgtgcagtctcaccaggacttgttgagtaacatcttttaggatgatgctca Alignment from Exonerate_protein2genome CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGT-TACATGCGCTTCCTCATCATTCCCCTAG tctctcacctaaaatatcaccctttccctaactaggacttattctcttagTTGCAATTGCAACTCATCTATGCCAAGGCCGGTTAAAGTAGCAGCTGTGGGTAGCCAAAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACACCAGACTGGCTTGGTCTATATGCATTTCCTCATTATTCTCTTAGgtgcagtctcaccaggacttgttgagtaacatcttttaggatgatgctca Alignment from Exonerate_coding2genome CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGT-TACATGCGCTTCCTCATCATTCCCCTAGGTTCT tctctcacctaaaatatcaccctttccctaactaggacttattctcttagTTGCAATTGCAACTCATCTATGCCAAGGCCGGTTAAAGTAGCAGCTGTGGGTAGCCAAAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACACCAGACTGGCTTGGTCTATATGCATTTCCTCATTATTCTCTTAGGTGCAgtctcaccaggacttgttgagtaacatcttttaggatgatgctca Alignment from GeneWise CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCCCCTA------G tctctcacctaaaatatcaccctttccctaactaggacttattctcttagTTGCAATTGCAACTCATCTATGCCAAGGCCGGTTAAAGTAGCAGCTGTGGGTAGCCAAAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACACCAGACTGGCTTGGTCTATATGCATTTCCTCATTATTCTCTTAGGTGCAgtctcaccaggacttgttgagtaacatcttttaggatgatgctca #### Pacs1_ID879_15 --> 0 - 2 Original Alignment TACGTGGCTGAATTGCTT-CAAGACCAGAGGAAGCCTGTGGTATGCACCTGCTCAACAGTGGAGGTCCAGGCAGTGCTGTCCGCCCTTCTCACTAGGATTCAGCGCta gtctggattttagctagctattcaagatactcttcttgcttctccggcagTATGTGGCCAAACTGCTTCCAGGATCAACGGAAGCCTGTGGTGTGTGCATGCTCGCCAGTAGAGGTCCAGGCTGTTGTCTCAGCTCTTCTCACAAGGATTCAGCGAtagtaaggggctgtgtccacataggtaatgtgcactccagcaccctgtgact Alignment from CESAR TACGTGGCTGAATTGCTT-CAAGACCAGAGGAAGCCTGTGGTATGCACCTGCTCAACAGTGGAGGTCCAGGCAGTGCTGTCCGCCCTTCTCACTAGGATTCAGCGCta gtctggattttagctagctattcaagatactcttcttgcttctccggcagTATGTGGCCAAACTGCTTCCAGGATCAACGGAAGCCTGTGGTGTGTGCATGCTCGCCAGTAGAGGTCCAGGCTGTTGTCTCAGCTCTTCTCACAAGGATTCAGCGAtagtaaggggctgtgtccacataggtaatgtgcactccagcaccctgtgact Alignment from Spaln_aa2Genome TACGTGGCTGAATTGCTT-CAAGACCAGAGGAAGCCTGTGGTATGCACCTGCTCAACAGTGGAGGTCCAGGCAGTGCTGTCCGCCCTTCTCACTAGGATTCAGCGCTA gtctggattttagctagctattcaagatactcttcttgcttctccggcagTATGTGGCCAAACTGCTTcCAGGATCAACGGAAGCCTGTGGTGTGTGCATGCTCGCCAGTAGAGGTCCAGGCTGTTGTCTCAGCTCTTCTCACAAGGATTCAGCGATAgtaaggggctgtgtccacataggtaatgtgcactccagcaccctgtgact Alignment from Spaln_nt2Genome TACGTGGCTGAATTGCTTCAAG-ACCAGAGGAAGCCTGTGGTATGCACCTGCTCAACAGTGGAGGTCCAGGCAGTGCTGTCCGCCCTTCTCACTAGGATTCAGCGCTA gtctggattttagctagctattcaagatactcttcttgcttctccggcagTATGTGGCCAAACTGCTTCCAGGATCAACGGAAGCCTGTGGTGTGTGCATGCTCGCCAGTAGAGGTCCAGGCTGTTGTCTCAGCTCTTCTCACAAGGATTCAGCGATAgtaaggggctgtgtccacataggtaatgtgcactccagcaccctgtgact Alignment from Pairagon TACGTGGCTGAATTGCTT-CAAGACCAGAGGAAGCCTGTGGTATGCACCTGCTCAACAGTGGAGGTCCAGGCAGTGCTGTCCGCCCTTCTCACTAGGATTCAGCGCTA gtctggattttagctagctattcaagatactcttcttgcttctccggcagTATGTGGCCAAACTGCTTCCAGGATCAACGGAAGCCTGTGGTGTGTGCATGCTCGCCAGTAGAGGTCCAGGCTGTTGTCTCAGCTCTTCTCACAAGGATTCAGCGATAgtaaggggctgtgtccacataggtaatgtgcactccagcaccctgtgact Alignment from Exonerate_protein2genome TACGTGGCTGAATTGCTT-CAAGACCAGAGGAAGCCTGTGGTATGCACCTGCTCAACAGTGGAGGTCCAGGCAGTGCTGTCCGCCCTTCTCACTAGGATTCAGCGCTA gtctggattttagctagctattcaagatactcttcttgcttctccggcagTATGTGGCCAAACTGCTTCCAGGATCAACGGAAGCCTGTGGTGTGTGCATGCTCGCCAGTAGAGGTCCAGGCTGTTGTCTCAGCTCTTCTCACAAGGATTCAGCGATAgtaaggggctgtgtccacataggtaatgtgcactccagcaccctgtgact Alignment from Exonerate_coding2genome TACGTGGCTGAATTGCTT-CAAGACCAGAGGAAGCCTGTGGTATGCACCTGCTCAACAGTGGAGGTCCAGGCAGTGCTGTCCGCCCTTCTCACTAGGATTCAGCGCTA gtctggattttagctagctattcaagatactcttcttgcttctccggcagTATGTGGCCAAACTGCTTCCAGGATCAACGGAAGCCTGTGGTGTGTGCATGCTCGCCAGTAGAGGTCCAGGCTGTTGTCTCAGCTCTTCTCACAAGGATTCAGCGATAgtaaggggctgtgtccacataggtaatgtgcactccagcaccctgtgact Alignment from GeneWise TACGTGGCTGAATTG-CTTCAAGACCAGAGGAAGCCTGTGGTATGCACCTGCTCAACAGTGGAGGTCCAGGCAGTGCTGTCCGCCCTTCTCACTAGGATTCAGCGCTA gtctggattttagctagctattcaagatactcttcttgcttctccggcagTATGTGGCCAAACTGCTTCCAGGATCAACGGAAGCCTGTGGTGTGTGCATGCTCGCCAGTAGAGGTCCAGGCTGTTGTCTCAGCTCTTCTCACAAGGATTCAGCGATAgtaaggggctgtgtccacataggtaatgtgcactccagcaccctgtgact #### Pacs1_ID885_9 --> 0 - 2 Original Alignment GTGGGCTTTGGGCTAGAACACGTGTCCCGGGAGCAGATTCGGGAAGTGGAGGAGGAC-TTGGATGAACTGTACGACAGTCTAGAGATGTACAACCCCAGCGACAGTGGCCCTGAGATGGAGGAAACAGAAAGCATCCTCAGCACCCCAAAGCCCAAGCTCaa ccaagtattgctggtgaggacctgtagtgtctggttttctatccaaacagGTGGGTTTTGGGTTAGAACATGTGTCCCGGGAGCAAATTCGAGAAGTGGAGGAGGACCTTAGATGAACTGTATGACAGTCTTGAGATGTACAACCCCAGTGACAGTGGTCCTGAGATGGAGGAAACAGAAAGCATTCTCAGCACTCCAAAGCCCAAACTCaagtaactcagtcctgaagcccttcccacccaacttccctaatgctgtttgg Alignment from CESAR GTGGGCTTTGGGCTAGAACACGTGTCCCGGGAGCAGATTCGGGAAGTGGAGGAGGAC-TTGGATGAACTGTACGACAGTCTAGAGATGTACAACCCCAGCGACAGTGGCCCTGAGATGGAGGAAACAGAAAGCATCCTCAGCACCCCAAAGCCCAAGCTCaa ccaagtattgctggtgaggacctgtagtgtctggttttctatccaaacagGTGGGTTTTGGGTTAGAACATGTGTCCCGGGAGCAAATTCGAGAAGTGGAGGAGGACCTTAGATGAACTGTATGACAGTCTTGAGATGTACAACCCCAGTGACAGTGGTCCTGAGATGGAGGAAACAGAAAGCATTCTCAGCACTCCAAAGCCCAAACTCaagtaactcagtcctgaagcccttcccacccaacttccctaatgctgtttgg Alignment from Spaln_aa2Genome GTGGGCTTTGGGCTAGAACACGTGTCCCGGGAGCAGATTCGGGAAGTGGAGGAGGACTTG-GATGAACTGTACGACAGTCTAGAGATGTACAACCCCAGCGACAGTGGCCCTGAGATGGAGGAAACAGAAAGCATCCTCAGCACCCCAAAGCCCAAGCTCAA ccaagtattgctggtgaggacctgtagtgtctggttttctatccaaacagGTGGGTTTTGGGTTAGAACATGTGTCCCGGGAGCAAATTCGAGAAGTGGAGGAGGACCTTaGATGAACTGTATGACAGTCTTGAGATGTACAACCCCAGTGACAGTGGTCCTGAGATGGAGGAAACAGAAAGCATTCTCAGCACTCCAAAGCCCAAACTCAAgtaactcagtcctgaagcccttcccacccaacttccctaatgctgtttgg Alignment from Spaln_nt2Genome GTGGGCTTTGGGCTAGAACACGTGTCCCGGGAGCAGATTCGGGAAGTGGAGGAGGA-CTTGGATGAACTGTACGACAGTCTAGAGATGTACAACCCCAGCGACAGTGGCCCTGAGATGGAGGAAACAGAAAGCATCCTCAGCACCCCAAAGCCCAAGCTCAA ccaagtattgctggtgaggacctgtagtgtctggttttctatccaaacagGTGGGTTTTGGGTTAGAACATGTGTCCCGGGAGCAAATTCGAGAAGTGGAGGAGGACCTTAGATGAACTGTATGACAGTCTTGAGATGTACAACCCCAGTGACAGTGGTCCTGAGATGGAGGAAACAGAAAGCATTCTCAGCACTCCAAAGCCCAAACTCAAgtaactcagtcctgaagcccttcccacccaacttccctaatgctgtttgg Alignment from Pairagon GTGGGCTTTGGGCTAGAACACGTGTCCCGGGAGCAGATTCGGGAAGTGGAGGAGGA-CTTGGATGAACTGTACGACAGTCTAGAGATGTACAACCCCAGCGACAGTGGCCCTGAGATGGAGGAAACAGAAAGCATCCTCAGCACCCCAAAGCCCAAGCTCAA ccaagtattgctggtgaggacctgtagtgtctggttttctatccaaacagGTGGGTTTTGGGTTAGAACATGTGTCCCGGGAGCAAATTCGAGAAGTGGAGGAGGACCTTAGATGAACTGTATGACAGTCTTGAGATGTACAACCCCAGTGACAGTGGTCCTGAGATGGAGGAAACAGAAAGCATTCTCAGCACTCCAAAGCCCAAACTCAAgtaactcagtcctgaagcccttcccacccaacttccctaatgctgtttgg Alignment from Exonerate_protein2genome GTGGGCTTTGGGCTAGAACACGTGTCCCGGGAGCAGATTCGGGAAGTGGAGGAGGAC-TTGGATGAACTGTACGACAGTCTAGAGATGTACAACCCCAGCGACAGTGGCCCTGAGATGGAGGAAACAGAAAGCATCCTCAGCACCCCAAAGCCCAAGCTCAA ccaagtattgctggtgaggacctgtagtgtctggttttctatccaaacagGTGGGTTTTGGGTTAGAACATGTGTCCCGGGAGCAAATTCGAGAAGTGGAGGAGGACCTTAGATGAACTGTATGACAGTCTTGAGATGTACAACCCCAGTGACAGTGGTCCTGAGATGGAGGAAACAGAAAGCATTCTCAGCACTCCAAAGCCCAAACTCAAgtaactcagtcctgaagcccttcccacccaacttccctaatgctgtttgg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTGGGCTTTGGGCTAGAACACGTGTCCCGGGAGCAGATTCGGGAAGTGGAGGAGGAC-TTGGATGAACTGTACGACAGTCTAGAGATGTACAACCCCAGCGACAGTGGCCCTGAGATGGAGGAAACAGAAAGCATCCTCAGCACCCCAAAGCCCAAGCTCAA ccaagtattgctggtgaggacctgtagtgtctggttttctatccaaacagGTGGGTTTTGGGTTAGAACATGTGTCCCGGGAGCAAATTCGAGAAGTGGAGGAGGACCTTAGATGAACTGTATGACAGTCTTGAGATGTACAACCCCAGTGACAGTGGTCCTGAGATGGAGGAAACAGAAAGCATTCTCAGCACTCCAAAGCCCAAACTCAAgtaactcagtcctgaagcccttcccacccaacttccctaatgctgtttgg #### Pcnxl3_ID1161_32 --> 0 - 2 Original Alignment GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTC-AGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGag cctaagatgtattgatgccccccctcatcttgtctactgccacttcccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGCGATCGACCACTAGGATATCCAACCTTTGTCTCACCTTTGACTACACCTTTGCCTGGGACACATCCCCAATTACAAGCACTGTGGGGTGGTCCTGTTCAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAAcggtgagttctgatagggatgggttcggttctcatagtccccaaaattgaaa Alignment from CESAR GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTC-AGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGag cctaagatgtattgatgccccccctcatcttgtctactgccacttcccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGCGATCGACCACTAGGATATCCAACCTTTGTCTCACCTTTGACTACACCTTTGCCTGGGACACATCCCCAATTACAAGCACTGTGGGGTGGTCCTGTTCAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAAcggtgagttctgatagggatgggttcggttctcatagtccccaaaattgaaa Alignment from Spaln_aa2Genome GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGT-GCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGAG cctaagatgtattgatgccccccctcatcttgtctactgccacttcccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGCGATCGACCACTAGGATATCCAACCTTTGTCTCACCTTTGACTACACCTTTGCCTGGGACACATCCCCAATTACAAGCACTGTGGGGTGGTCCTGTTCAGCTTGGGtGCCATTGCACGATGGCTTTTACATCGCTGGGAACGgtgagttctgatagggatgggttcggttctcatagtccccaaaattgaaa Alignment from Spaln_nt2Genome GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTG-TCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGAG cctaagatgtattgatgccccccctcatcttgtctactgccacttcccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGCGATCGACCACTAGGATATCCAACCTTTGTCTCACCTTTGACTACACCTTTGCCTGGGACACATCCCCAATTACAAGCACTGTGGGGTGGTCCTGTTCAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAACGgtgagttctgatagggatgggttcggttctcatagtccccaaaattgaaa Alignment from Pairagon GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTG-TCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGAG cctaagatgtattgatgccccccctcatcttgtctactgccacttcccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGCGATCGACCACTAGGATATCCAACCTTTGTCTCACCTTTGACTACACCTTTGCCTGGGACACATCCCCAATTACAAGCACTGTGGGGTGGTCCTGTTCAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAACGgtgagttctgatagggatgggttcggttctcatagtccccaaaattgaaa Alignment from Exonerate_protein2genome GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTC-AGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGAG cctaagatgtattgatgccccccctcatcttgtctactgccacttcccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGCGATCGACCACTAGGATATCCAACCTTTGTCTCACCTTTGACTACACCTTTGCCTGGGACACATCCCCAATTACAAGCACTGTGGGGTGGTCCTGTTCAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAACGgtgagttctgatagggatgggttcggttctcatagtccccaaaattgaaa Alignment from Exonerate_coding2genome cctaagatgtattgatgccccccctcatcttgtctactgccacttcccaggtaaactgggaatgtgtacgagggttgtgggctgggcagcaacaagagctagtctttctgtgcaatcgcaaccctgagcggggtagtgtccagaatgcccagcaggcaatctgcaacaagattaattcttcctgcgatcgaccactaggatatccaacctttgtctcacctttgactacacctttgcctgggacacatccccaattacaagcactgtggggtggtcctgttcagcttgggtgccattgcacgatggcttttacatcgctgggaacggtgagttctgatagggatgggttcggttctcatagtccccaaaattgaaa Alignment from GeneWise GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTC-AGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGAG cctaagatgtattgatgccccccctcatcttgtctactgccacttcccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGCGATCGACCACTAGGATATCCAACCTTTGTCTCACCTTTGACTACACCTTTGCCTGGGACACATCCCCAATTACAAGCACTGTGGGGTGGTCCTGTTCAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAACGgtgagttctgatagggatgggttcggttctcatagtccccaaaattgaaa #### Pcnxl3_ID1162_31 --> 0 - 0 Original Alignment GACCATTTCACATCT-CCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG gggcaggtgttccctttaccttagaccatttttcttcctgatttccttagGGCCATTTCACATCACCCTGATGAGTATGAGGAACTAGCAGCCCTATATGACACAATTGCT---AATGAGGAGCGACTAGTAATCTCACATGAGAGAGACCCCGCCTGGAGGAGTGCCATCCTCGGCAACACCCCCTCTCTACTGGTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCATAAAGgtatgtcaaatttgatgatgaatagcagcctaagatgtattgatgccccc Alignment from CESAR GACCATTTCACATCT-CCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG gggcaggtgttccctttaccttagaccatttttcttcctgatttccttagGGCCATTTCACATCACCCTGATGAGTATGAGGAACTAGCAGCCCTATATGACACAATT---GCTAATGAGGAGCGACTAGTAATCTCACATGAGAGAGACCCCGCCTGGAGGAGTGCCATCCTCGGCAACACCCCCTCTCTACTGGTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCATAAAGgtatgtcaaatttgatgatgaatagcagcctaagatgtattgatgccccc Alignment from Spaln_aa2Genome TATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG gggcaggtgttccctttaccttagaccatttttcttcctgatttccttagggccatttcacatcaccctgatgagTATGAGGAACTAGCAGCCCTATATGACACAATT---GCTAATGAGGAGCGACTAGTAATCTCACATGAGAGAGACCCCGCCTGGAGGAGTGCCATCCTCGGCAACACCCCCTCTCTACTGGTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCATAAAGgtatgtcaaatttgatgatgaatagcagcctaagatgtattgatgccccc Alignment from Spaln_nt2Genome GACCATTTCACATCTCC-TGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG gggcaggtgttccctttaccttagaccatttttcttcctgatttccttagGGCCATTTCACATCACCCTGATGAGTATGAGGAACTAGCAGCCCTATATGACACAAT---TGCTAATGAGGAGCGACTAGTAATCTCACATGAGAGAGACCCCGCCTGGAGGAGTGCCATCCTCGGCAACACCCCCTCTCTACTGGTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCATAAAGgtatgtcaaatttgatgatgaatagcagcctaagatgtattgatgccccc Alignment from Pairagon ------------------------------------------------AGGACCATTTCACATC-TCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG GGGCAGGTGTTCCCTTTACCTTAGACCATTTTTCTTCCTGATTTCCTTAGGGCCATTTCACATCACCCTGATGAGTATGAGGAACTAGCAGCCCTATATGACACAATT---GCTAATGAGGAGCGACTAGTAATCTCACATGAGAGAGACCCCGCCTGGAGGAGTGCCATCCTCGGCAACACCCCCTCTCTACTGGTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCATAAAGgtatgtcaaatttgatgatgaatagcagcctaagatgtattgatgccccc Alignment from Exonerate_protein2genome GACCATTTCACATCT-CCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG gggcaggtgttccctttaccttagaccatttttcttcctgatttccttagGGCCATTTCACATCACCCTGATGAGTATGAGGAACTAGCAGCCCTATATGACACAATT---GCTAATGAGGAGCGACTAGTAATCTCACATGAGAGAGACCCCGCCTGGAGGAGTGCCATCCTCGGCAACACCCCCTCTCTACTGGTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCATAAAGgtatgtcaaatttgatgatgaatagcagcctaagatgtattgatgccccc Alignment from Exonerate_coding2genome gggcaggtgttccctttaccttagaccatttttcttcctgatttccttagggccatttcacatcaccctgatgagtatgaggaactagcagccctatatgacacaattgctaatgaggagcgactagtaatctcacatgagagagaccccgcctggaggagtgccatcctcggcaacaccccctctctactggtactccgccatgacatggatgatgcctctggtgagtacaagatcatcatgctcaacaggcgccacctcagtttccgagtcataaaggtatgtcaaatttgatgatgaatagcagcctaagatgtattgatgccccc Alignment from GeneWise TATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG gggcaggtgttccctttaccttagaccatttttcttcctgatttccttagggccatttcacatcaccctgatgagTATGAGGAACTAGCAGCCCTATATGACACAATTGCT---AATGAGGAGCGACTAGTAATCTCACATGAGAGAGACCCCGCCTGGAGGAGTGCCATCCTCGGCAACACCCCCTCTCTACTGGTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCATAAAGgtatgtcaaatttgatgatgaatagcagcctaagatgtattgatgccccc #### Pcnxl3_ID1164_29 --> 0 - 2 Original Alignment CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTG-CTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCag agggatgttaccctgggctcttgagtaagttcgttcctctgtcattccagCCTGTGGACCAGGATTGGAATTCACCATTGGTTACATCATGCTTTGGCTTGTGTGTGCTTGGGTCGCCGGGCTCTGGGCACAGCAGCACACAGCATGTCAGCCaggtaagtgcctgcaggcagcaaaagaagacccaacaactcattagtagact Alignment from CESAR CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTG-CTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCag agggatgttaccctgggctcttgagtaagttcgttcctctgtcattccagCCTGTGGACCAGGATTGGAATTCACCATTGGTTACATCATGCTTTGGCTTGTGTGTGCTTGGGTCGCCGGGCTCTGGGCACAGCAGCACACAGCATGTCAGCCaggtaagtgcctgcaggcagcaaaagaagacccaacaactcattagtagact Alignment from Spaln_aa2Genome CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGT-CGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG agggatgttaccctgggctcttgagtaagttcgttcctctgtcattccagCCTGTGGACCAGGATTGGAATTCACCATTGGTTACATCATGCTTTGGCTTGTGTGTGCTTGGGtCGCCGGGCTCTGGGCACAGCAGCACACAGCATGTCAGCCAGgtaagtgcctgcaggcagcaaaagaagacccaacaactcattagtagact Alignment from Spaln_nt2Genome CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGG-GTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG agggatgttaccctgggctcttgagtaagttcgttcctctgtcattccagCCTGTGGACCAGGATTGGAATTCACCATTGGTTACATCATGCTTTGGCTTGTGTGTGCTTGGGTCGCCGGGCTCTGGGCACAGCAGCACACAGCATGTCAGCCAGgtaagtgcctgcaggcagcaaaagaagacccaacaactcattagtagact Alignment from Pairagon CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGC-TGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG agggatgttaccctgggctcttgagtaagttcgttcctctgtcattccagCCTGTGGACCAGGATTGGAATTCACCATTGGTTACATCATGCTTTGGCTTGTGTGTGCTTGGGTCGCCGGGCTCTGGGCACAGCAGCACACAGCATGTCAGCCAGgtaagtgcctgcaggcagcaaaagaagacccaacaactcattagtagact Alignment from Exonerate_protein2genome CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTG-CTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG agggatgttaccctgggctcttgagtaagttcgttcctctgtcattccagCCTGTGGACCAGGATTGGAATTCACCATTGGTTACATCATGCTTTGGCTTGTGTGTGCTTGGGTCGCCGGGCTCTGGGCACAGCAGCACACAGCATGTCAGCCAGgtaagtgcctgcaggcagcaaaagaagacccaacaactcattagtagact Alignment from Exonerate_coding2genome agggatgttaccctgggctcttgagtaagttcgttcctctgtcattccagcctgtggaccaggattggaattcaccattggttacatcatgctttggcttgtgtgtgcttgggtcgccgggctctgggcacagcagcacacagcatgtcagccaggtaagtgcctgcaggcagcaaaagaagacccaacaactcattagtagact Alignment from GeneWise CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGT-GTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG agggatgttaccctgggctcttgagtaagttcgttcctctgtcattccagCCTGTGGACCAGGATTGGAATTCACCATTGGTTACATCATGCTTTGGCTTGTGTGTGCTTGGGTCGCCGGGCTCTGGGCACAGCAGCACACAGCATGTCAGCCAGgtaagtgcctgcaggcagcaaaagaagacccaacaactcattagtagact #### Pcnxl3_ID1168_25 --> 1 - 1 Original Alignment cACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTG-GACCGGAACCCAg tcatgttcagactatgggagcagagtgatgtctcatgtctttggtcacagtACTAAACCTGTAGACCACTCTAACACTCGGCTAGTGACACAACTGCGACCGGAATCCAggtgcgttacagccagcccaggtcttcatagcaaggcaatgcacttacttc Alignment from CESAR cACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTG-GACCGGAACCCAg tcatgttcagactatgggagcagagtgatgtctcatgtctttggtcacagtACTAAACCTGTAGACCACTCTAACACTCGGCTAGTGACACAACTGCGACCGGAATCCAggtgcgttacagccagcccaggtcttcatagcaaggcaatgcacttacttc Alignment from Spaln_aa2Genome CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTG-GACCGGAACCCAG tcatgttcagactatgggagcagagtgatgtctcatgtctttggtcacagTACTAAACCTGTAGACCACTCTAACACTCGGCTAGTGACACAACTGcGACCGGAATCCAGgtgcgttacagccagcccaggtcttcatagcaaggcaatgcacttacttc Alignment from Spaln_nt2Genome CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTG-GACCGGAACCCAG tcatgttcagactatgggagcagagtgatgtctcatgtctttggtcacagTACTAAACCTGTAGACCACTCTAACACTCGGCTAGTGACACAACTGCGACCGGAATCCAGgtgcgttacagccagcccaggtcttcatagcaaggcaatgcacttacttc Alignment from Pairagon CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTG-GACCGGAACCCAG tcatgttcagactatgggagcagagtgatgtctcatgtctttggtcacagTACTAAACCTGTAGACCACTCTAACACTCGGCTAGTGACACAACTGCGACCGGAATCCAGgtgcgttacagccagcccaggtcttcatagcaaggcaatgcacttacttc Alignment from Exonerate_protein2genome CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTG-GACCGGAACCCAG tcatgttcagactatgggagcagagtgatgtctcatgtctttggtcacagTACTAAACCTGTAGACCACTCTAACACTCGGCTAGTGACACAACTGCGACCGGAATCCAGgtgcgttacagccagcccaggtcttcatagcaaggcaatgcacttacttc Alignment from Exonerate_coding2genome tcatgttcagactatgggagcagagtgatgtctcatgtctttggtcacagtactaaacctgtagaccactctaacactcggctagtgacacaactgcgaccggaatccaggtgcgttacagccagcccaggtcttcatagcaaggcaatgcacttacttc Alignment from GeneWise CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTG---------------------GACCGGAACCCAG tcatgttcagactatgggagcagagtgatgtctcatgtctttggtcacagTACTAAACCTGTAGACCACTCTAACACTCGGCTAGTGACACAACTGCGACCGGAATCCAGGTGCGTTACAGCCAGCCCAGgtcttcatagcaaggcaatgcacttacttc #### Pcnxl3_ID1174_19 --> 0 - 0 Original Alignment CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGC-ACCGTCTTCATTGCCCTGAAG atgaggcaatctggacagtcactgtcacacggctgcctatgtgattgcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCAGTCAGTGCTAGCCATTGTGTTCATTGCCTTGAAAgtgagcgcagcatggagcacctagatagatctgctgctatcctggttata Alignment from CESAR CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGC-ACCGTCTTCATTGCCCTGAAG atgaggcaatctggacagtcactgtcacacggctgcctatgtgattgcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCAGTCAGTGCTAGCCATTGTGTTCATTGCCTTGAAAgtgagcgcagcatggagcacctagatagatctgctgctatcctggttata Alignment from Spaln_aa2Genome CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCC-AGCACCGTCTTCATTGCCCTGAAG atgaggcaatctggacagtcactgtcacacggctgcctatgtgattgcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCAGTCAGTGCTaGCCATTGTGTTCATTGCCTTGAAAgtgagcgcagcatggagcacctagatagatctgctgctatcctggttata Alignment from Spaln_nt2Genome CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGC-ACCGTCTTCATTGCCCTGAAG atgaggcaatctggacagtcactgtcacacggctgcctatgtgattgcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCAGTCAGTGCTAGCCATTGTGTTCATTGCCTTGAAAgtgagcgcagcatggagcacctagatagatctgctgctatcctggttata Alignment from Pairagon CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAG-CACCGTCTTCATTGCCCTGAAG atgaggcaatctggacagtcactgtcacacggctgcctatgtgattgcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCAGTCAGTGCTAGCCATTGTGTTCATTGCCTTGAAAgtgagcgcagcatggagcacctagatagatctgctgctatcctggttata Alignment from Exonerate_protein2genome CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGC-ACCGTCTTCATTGCCCTGAAG atgaggcaatctggacagtcactgtcacacggctgcctatgtgattgcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCAGTCAGTGCTAGCCATTGTGTTCATTGCCTTGAAAgtgagcgcagcatggagcacctagatagatctgctgctatcctggttata Alignment from Exonerate_coding2genome CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGC-ACCGTCTTCATTGCCCTGAAG atgaggcaatctggacagtcactgtcacacggctgcctatgtgattgcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCAGTCAGTGCTAGCCATTGTGTTCATTGCCTTGAAAgtgagcgcagcatggagcacctagatagatctgctgctatcctggttata Alignment from GeneWise CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGC-ACCGTCTTCATTGCCCTGAAG atgaggcaatctggacagtcactgtcacacggctgcctatgtgattgcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCAGTCAGTGCTAGCCATTGTGTTCATTGCCTTGAAAgtgagcgcagcatggagcacctagatagatctgctgctatcctggttata #### Pcnxl3_ID1188_5 --> 2 - 1 Original Alignment acATCAAGGAGCTGGTACGGGAACAGGGCAGC-AACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGa gcaaaattgagagaaagccaattaggacatttgtgtctttctctacacagacATTAAAGAGCTGGTACGGGAGCAGAGCAGCCAACAATGTAATAGTTACATCTGCAGGCCGTGAAATGCTGAGGCTCAGCTCCAAGGAGAAACTCagtgagtggaaatgtggcaggctccttttaaaagtagaacatccttaaaag Alignment from CESAR acATCAAGGAGCTGGTACGGGAACAGGGCAGC-AACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGa gcaaaattgagagaaagccaattaggacatttgtgtctttctctacacagacATTAAAGAGCTGGTACGGGAGCAGAGCAGCCAACAATGTAATAGTTACATCTGCAGGCCGTGAAATGCTGAGGCTCAGCTCCAAGGAGAAACTCagtgagtggaaatgtggcaggctccttttaaaagtagaacatccttaaaag Alignment from Spaln_aa2Genome ACATCAAGGAGCTGGTACGGGAACAGGGCAGC-AACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA gcaaaattgagagaaagccaattaggacatttgtgtctttctctacacagACATTAAAGAGCTGGTACGGGAGCAGAGCAGCcAACAATGTAATAGTTACATCTGCAGGCCGTGAAATGCTGAGGCTCAGCTCCAAGGAGAAACTCAgtgagtggaaatgtggcaggctccttttaaaagtagaacatccttaaaag Alignment from Spaln_nt2Genome ACATCAAGGAGCTGGTACGGGAACAGGGCAGC-AACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA gcaaaattgagagaaagccaattaggacatttgtgtctttctctacacagACATTAAAGAGCTGGTACGGGAGCAGAGCAGCCAACAATGTAATAGTTACATCTGCAGGCCGTGAAATGCTGAGGCTCAGCTCCAAGGAGAAACTCAgtgagtggaaatgtggcaggctccttttaaaagtagaacatccttaaaag Alignment from Pairagon ACATCAAGGAGCTGGTACGGGAACAGGGCAG-CAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA gcaaaattgagagaaagccaattaggacatttgtgtctttctctacacagACATTAAAGAGCTGGTACGGGAGCAGAGCAGCCAACAATGTAATAGTTACATCTGCAGGCCGTGAAATGCTGAGGCTCAGCTCCAAGGAGAAACTCAgtgagtggaaatgtggcaggctccttttaaaagtagaacatccttaaaag Alignment from Exonerate_protein2genome ACATCAAGGAGCTGGTACGGGAACAGGGCAGC-AACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA gcaaaattgagagaaagccaattaggacatttgtgtctttctctacacagACATTAAAGAGCTGGTACGGGAGCAGAGCAGCCAACAATGTAATAGTTACATCTGCAGGCCGTGAAATGCTGAGGCTCAGCTCCAAGGAGAAACTCAgtgagtggaaatgtggcaggctccttttaaaagtagaacatccttaaaag Alignment from Exonerate_coding2genome ACATCAAGGAGCTGGTACGGGAACAGGGCAGC-AACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA gcaaaattgagagaaagccaattaggacatttgtgtctttctctacacagACATTAAAGAGCTGGTACGGGAGCAGAGCAGCCAACAATGTAATAGTTACATCTGCAGGCCGTGAAATGCTGAGGCTCAGCTCCAAGGAGAAACTCAgtgagtggaaatgtggcaggctccttttaaaagtagaacatccttaaaag Alignment from GeneWise ACATCAAGGAGCTGGTACGGGAACAG-GGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA gcaaaattgagagaaagccaattaggacatttgtgtctttctctacacagACATTAAAGAGCTGGTACGGGAGCAGAGCAGCCAACAATGTAATAGTTACATCTGCAGGCCGTGAAATGCTGAGGCTCAGCTCCAAGGAGAAACTCAgtgagtggaaatgtggcaggctccttttaaaagtagaacatccttaaaag #### Pcnxl3_ID1190_3 --> 1 - 0 Original Alignment gGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCT-GTGTTTGGCTTCAACCAGGTTTCG aagaaacatgatggaaaggataggaaccccccagttcacttgccccacaggGATCCTGGTGTGGAAACTACGGTATTTCAGAAAGTTAGTTCCTTGCCTCCTGTACACTGCAGTTTCCAGCGCTCTCGAAGTAGAATTTAACCATGTGTCAgtgtgtgggctcctactcttgctgtcatcaatgtctgccacaggtgtaag Alignment from CESAR gGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCT-GTGTTTGGCTTCAACCAGGTTTCG aagaaacatgatggaaaggataggaaccccccagttcacttgccccacaggGATCCTGGTGTGGAAACTACGGTATTTCAGAAAGTTAGTTCCTTGCCTCCTGTACACTGCAGTTTCCAGCGCTCTCGAAGTAGAATTTAACCATGTGTCAgtgtgtgggctcctactcttgctgtcatcaatgtctgccacaggtgtaag Alignment from Spaln_aa2Genome GGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCT---G aagaaacatgatggaaaggataggaaccccccagttcacttgccccacagGGATCCTGGTGTGGAAACTACGGTATTTCAGAAAGTTAGTTCCTTGCCTCCTGTACACTGCAGTTTCCAGCGCTCTCGAAgtagaatttaaccatgtgtcagtgtgtgggctcctactcttgctgtcatcaatgtctgccacaggtgtaag Alignment from Spaln_nt2Genome GGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCT-GTGTTTGGCTTCAACCAGGTTTCG aagaaacatgatggaaaggataggaaccccccagttcacttgccccacagGGATCCTGGTGTGGAAACTACGGTATTTCAGAAAGTTAGTTCCTTGCCTCCTGTACACTGCAGTTTCCAGCGCTCTCGAAGTAGAATTTAACCATGTGTCAgtgtgtgggctcctactcttgctgtcatcaatgtctgccacaggtgtaag Alignment from Pairagon GGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGC-------------TTCAACCAGGTTTCG aagaaacatgatggaaaggataggaaccccccagttcacttgccccacagGGATCCTGGTGTGGAAACTACGGTATTTCAGAAAGTTAGTTCCTTGCCTCCTGTACACTGCAGTTTCCAGC------------GCTCTCGAAGTAGAATTTAACCATGTGTCAgtgtgtgggctcctactcttgctgtcatcaatgtctgccacaggtgtaag Alignment from Exonerate_protein2genome GGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCT-GTGTTTGGCTTCAACCAGGTTTCG aagaaacatgatggaaaggataggaaccccccagttcacttgccccacagGGATCCTGGTGTGGAAACTACGGTATTTCAGAAAGTTAGTTCCTTGCCTCCTGTACACTGCAGTTTCCAGCGCTCTCGAAGTAGAATTTAACCATGTGTCAgtgtgtgggctcctactcttgctgtcatcaatgtctgccacaggtgtaag Alignment from Exonerate_coding2genome aagaaacatgatggaaaggataggaaccccccagttcacttgccccacagggatcctggtgtggaaactacggtatttcagaaagttagttccttgcctcctgtacactgcagtttccagcgctctcgaagtagaatttaaccatgtgtcagtgtgtgggctcctactcttgctgtcatcaatgtctgccacaggtgtaag Alignment from GeneWise GGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTG- aagaaacatgatggaaaggataggaaccccccagttcacttgccccacagGGATCCTGGTGTGGAAACTACGGTATTTCAGAAAGTTAGTTCCTTGCCTCCTGTACACTGCAGTTTCCAGCGCTCTCGAAgtagaatttaaccatgtgtcagtgtgtgggctcctactcttgctgtcatcaatgtctgccacaggtgtaag #### Pcx_ID553_3 --> 2 - 0 Original Alignment gtGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTC-TACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcttatccccaggggagtgggttgtttttcatcttgccctcaggcGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGCTATTCGGAACAGGATACAGGGCTAATGCACAGGCAGAAAGCAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCCAAGgtcagtactgattacctttacagggtttctgctgccttggtaggactgca Alignment from CESAR gtGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTC-TACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcttatccccaggggagtgggttgtttttcatcttgccctcaggcGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGCTATTCGGAACAGGATACAGGGCTAATGCACAGGCAGAAAGCAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCCAAGgtcagtactgattacctttacagggtttctgctgccttggtaggactgca Alignment from Spaln_aa2Genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTC-TACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcttatccccaggggagtgggttgtttttcatcttgccctcagGCGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGcTATTCGGAACAGGATACAGGGCTAATGCACAGGCAGAAAGCAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCCAAGgtcagtactgattacctttacagggtttctgctgccttggtaggactgca Alignment from Spaln_nt2Genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGT-CTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcttatccccaggggagtgggttgtttttcatcttgccctcagGCGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGCTATTCGGAACAGGATACAGGGCTAATGCACAGGCAGAAAGCAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCCAAGgtcagtactgattacctttacagggtttctgctgccttggtaggactgca Alignment from Pairagon GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGT-CTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcttatccccaggggagtgggttgtttttcatcttgccctcagGCGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGCTATTCGGAACAGGATACAGGGCTAATGCACAGGCAGAAAGCAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCCAAGgtcagtactgattacctttacagggtttctgctgccttggtaggactgca Alignment from Exonerate_protein2genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTC-TACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcttatccccaggggagtgggttgtttttcatcttgccctcagGCGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGCTATTCGGAACAGGATACAGGGCTAATGCACAGGCAGAAAGCAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCCAAGgtcagtactgattacctttacagggtttctgctgccttggtaggactgca Alignment from Exonerate_coding2genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTC-TACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcttatccccaggggagtgggttgtttttcatcttgccctcagGCGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGCTATTCGGAACAGGATACAGGGCTAATGCACAGGCAGAAAGCAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCCAAGgtcagtactgattacctttacagggtttctgctgccttggtaggactgca Alignment from GeneWise GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCT-GTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcttatccccaggggagtgggttgtttttcatcttgccctcagGCGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGCTATTCGGAACAGGATACAGGGCTAATGCACAGGCAGAAAGCAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCCAAGgtcagtactgattacctttacagggtttctgctgccttggtaggactgca #### Pcx_ID555_5 --> 2 - 0 Original Alignment gcGTTCCAGTGGTCCCCGGCACGGAC-TCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG cattgaaccaggaagtacaggtattttgcattttgcccctctacttctaggtGCTCCGGTGGTTCCTGGAACAGAGCTCCCCCATCAGCTCCTTATATGAAGCACATGAGTTCTCCAACACCTATGATCCTCCCTTTATTTTCAATGCAGCTTATGGAGATGGGGGTCATGATATGAGGGTTGTGCAGAGCTATGAGgtaagcggggcagcatagggtaaggtagtggtggcagggccagtccttat Alignment from CESAR gcGTTCCAGTGGTCCCCGGCACGGAC-TCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG cattgaaccaggaagtacaggtattttgcattttgcccctctacttctaggtGCTCCGGTGGTTCCTGGAACAGAGCTCCCCCATCAGCTCCTTATATGAAGCACATGAGTTCTCCAACACCTATGATCCTCCCTTTATTTTCAATGCAGCTTATGGAGATGGGGGTCATGATATGAGGGTTGTGCAGAGCTATGAGgtaagcggggcagcatagggtaaggtagtggtggcagggccagtccttat Alignment from Spaln_aa2Genome GCGTTCCAGTGGTCCCCGGCACGGAC-TCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG cattgaaccaggaagtacaggtattttgcattttgcccctctacttctagGTGCTCCGGTGGTTCCTGGAACAGAGcTCCCCCATCAGCTCCTTATATGAAGCACATGAGTTCTCCAACACCTATGATCCTCCCTTTATTTTCAATGCAGCTTATGGAGATGGGGGTCATGATATGAGGGTTGTGCAGAGCTATGAGgtaagcggggcagcatagggtaaggtagtggtggcagggccagtccttat Alignment from Spaln_nt2Genome GCGTTCCAGTGGTCCCCGGCACGGA-CTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG cattgaaccaggaagtacaggtattttgcattttgcccctctacttctagGTGCTCCGGTGGTTCCTGGAACAGAGCTCCCCCATCAGCTCCTTATATGAAGCACATGAGTTCTCCAACACCTATGATCCTCCCTTTATTTTCAATGCAGCTTATGGAGATGGGGGTCATGATATGAGGGTTGTGCAGAGCTATGAGgtaagcggggcagcatagggtaaggtagtggtggcagggccagtccttat Alignment from Pairagon GCGTTCCAGTGGTCCCCGGCACGGA-CTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG cattgaaccaggaagtacaggtattttgcattttgcccctctacttctagGTGCTCCGGTGGTTCCTGGAACAGAGCTCCCCCATCAGCTCCTTATATGAAGCACATGAGTTCTCCAACACCTATGATCCTCCCTTTATTTTCAATGCAGCTTATGGAGATGGGGGTCATGATATGAGGGTTGTGCAGAGCTATGAGgtaagcggggcagcatagggtaaggtagtggtggcagggccagtccttat Alignment from Exonerate_protein2genome GCGTTCCAGTGGTCCCCGGCACGGAC-TCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG cattgaaccaggaagtacaggtattttgcattttgcccctctacttctagGTGCTCCGGTGGTTCCTGGAACAGAGCTCCCCCATCAGCTCCTTATATGAAGCACATGAGTTCTCCAACACCTATGATCCTCCCTTTATTTTCAATGCAGCTTATGGAGATGGGGGTCATGATATGAGGGTTGTGCAGAGCTATGAGgtaagcggggcagcatagggtaaggtagtggtggcagggccagtccttat Alignment from Exonerate_coding2genome GCGTTCCAGTGGTCCCCGGCACGGAC-TCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG cattgaaccaggaagtacaggtattttgcattttgcccctctacttctagGTGCTCCGGTGGTTCCTGGAACAGAGCTCCCCCATCAGCTCCTTATATGAAGCACATGAGTTCTCCAACACCTATGATCCTCCCTTTATTTTCAATGCAGCTTATGGAGATGGGGGTCATGATATGAGGGTTGTGCAGAGCTATGAGgtaagcggggcagcatagggtaaggtagtggtggcagggccagtccttat Alignment from GeneWise GCGTTCCAGTGGTCCCCGGCACG-GACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG cattgaaccaggaagtacaggtattttgcattttgcccctctacttctagGTGCTCCGGTGGTTCCTGGAACAGAGCTCCCCCATCAGCTCCTTATATGAAGCACATGAGTTCTCCAACACCTATGATCCTCCCTTTATTTTCAATGCAGCTTATGGAGATGGGGGTCATGATATGAGGGTTGTGCAGAGCTATGAGgtaagcggggcagcatagggtaaggtagtggtggcagggccagtccttat #### Pcx_ID556_6 --> 0 - 1 Original Alignment GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAG-GCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAg ggtggttgtattgaaaatgcctggctgcgaatatgattattttcatacagGAGCTAGAAAAGAATTATACCCGAGCCTACTCAGAACGCCTTGGCGGCTTTTGGGAACAGAGCCCTGTTTGTTGAAAAGTTTATTGGACAGCCAAGCCATTTTGAGGTGCAGATCCTAggtcagaaaatagatggctgcaactgcccaatacttctgagagacccaata Alignment from CESAR GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAG-GCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAg ggtggttgtattgaaaatgcctggctgcgaatatgattattttcatacagGAGCTAGAAAAGAATTATACCCGAGCCTACTCAGAACGCCTTGGCGGCTTTTGGGAACAGAGCCCTGTTTGTTGAAAAGTTTATTGGACAGCCAAGCCATTTTGAGGTGCAGATCCTAggtcagaaaatagatggctgcaactgcccaatacttctgagagacccaata Alignment from Spaln_aa2Genome GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAG-GCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG ggtggttgtattgaaaatgcctggctgcgaatatgattattttcatacagGAGCTAGAAAAGAATTATACCCGAGCCTACTCAGAAcGCCTTGGCGGCTTTTGGGAACAGAGCCCTGTTTGTTGAAAAGTTTATTGGACAGCCAAGCCATTTTGAGGTGCAGATCCTAGgtcagaaaatagatggctgcaactgcccaatacttctgagagacccaata Alignment from Spaln_nt2Genome GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAG-GCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG ggtggttgtattgaaaatgcctggctgcgaatatgattattttcatacagGAGCTAGAAAAGAATTATACCCGAGCCTACTCAGAACGCCTTGGCGGCTTTTGGGAACAGAGCCCTGTTTGTTGAAAAGTTTATTGGACAGCCAAGCCATTTTGAGGTGCAGATCCTAGgtcagaaaatagatggctgcaactgcccaatacttctgagagacccaata Alignment from Pairagon GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAG-GCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG ggtggttgtattgaaaatgcctggctgcgaatatgattattttcatacagGAGCTAGAAAAGAATTATACCCGAGCCTACTCAGAACGCCTTGGCGGCTTTTGGGAACAGAGCCCTGTTTGTTGAAAAGTTTATTGGACAGCCAAGCCATTTTGAGGTGCAGATCCTAGgtcagaaaatagatggctgcaactgcccaatacttctgagagacccaata Alignment from Exonerate_protein2genome GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAG-GCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG ggtggttgtattgaaaatgcctggctgcgaatatgattattttcatacagGAGCTAGAAAAGAATTATACCCGAGCCTACTCAGAACGCCTTGGCGGCTTTTGGGAACAGAGCCCTGTTTGTTGAAAAGTTTATTGGACAGCCAAGCCATTTTGAGGTGCAGATCCTAGgtcagaaaatagatggctgcaactgcccaatacttctgagagacccaata Alignment from Exonerate_coding2genome GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAG-GCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG ggtggttgtattgaaaatgcctggctgcgaatatgattattttcatacagGAGCTAGAAAAGAATTATACCCGAGCCTACTCAGAACGCCTTGGCGGCTTTTGGGAACAGAGCCCTGTTTGTTGAAAAGTTTATTGGACAGCCAAGCCATTTTGAGGTGCAGATCCTAGgtcagaaaatagatggctgcaactgcccaatacttctgagagacccaata Alignment from GeneWise GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAG-GCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG ggtggttgtattgaaaatgcctggctgcgaatatgattattttcatacagGAGCTAGAAAAGAATTATACCCGAGCCTACTCAGAACGCCTTGGCGGCTTTTGGGAACAGAGCCCTGTTTGTTGAAAAGTTTATTGGACAGCCAAGCCATTTTGAGGTGCAGATCCTAGgtcagaaaatagatggctgcaactgcccaatacttctgagagacccaata #### Pcx_ID563_12 --> 2 - 1 Original Alignment gaCATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTC-AATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAg ctctttggaatcggggaaaccagtgagggccactccactccttattacaggaCATGTTATGGTCAATGGACCCATCTCGCCAATCCCAGTCCAATGTGACCCCCAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAggtaaggtatgatatacctttgtatcttaatgagaaggtgtgtcagatgca Alignment from CESAR gaCATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTC-AATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAg ctctttggaatcggggaaaccagtgagggccactccactccttattacaggaCATGTTATGGTCAATGGACCCATCTCGCCAATCCCAGTCCAATGTGACCCCCAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAggtaaggtatgatatacctttgtatcttaatgagaaggtgtgtcagatgca Alignment from Spaln_aa2Genome GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTC-AATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG ctctttggaatcggggaaaccagtgagggccactccactccttattacagGACATGTTATGGTCAATGGACCCATCTCGCCAATCCCAGTCcAATGTGACCCCCAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAGgtaaggtatgatatacctttgtatcttaatgagaaggtgtgtcagatgca Alignment from Spaln_nt2Genome GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTC-AATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG ctctttggaatcggggaaaccagtgagggccactccactccttattacagGACATGTTATGGTCAATGGACCCATCTCGCCAATCCCAGTCCAATGTGACCCCCAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAGgtaaggtatgatatacctttgtatcttaatgagaaggtgtgtcagatgca Alignment from Pairagon GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGT-CAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG ctctttggaatcggggaaaccagtgagggccactccactccttattacagGACATGTTATGGTCAATGGACCCATCTCGCCAATCCCAGTCCAATGTGACCCCCAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAGgtaaggtatgatatacctttgtatcttaatgagaaggtgtgtcagatgca Alignment from Exonerate_protein2genome GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTC-AATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG ctctttggaatcggggaaaccagtgagggccactccactccttattacagGACATGTTATGGTCAATGGACCCATCTCGCCAATCCCAGTCCAATGTGACCCCCAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAGgtaaggtatgatatacctttgtatcttaatgagaaggtgtgtcagatgca Alignment from Exonerate_coding2genome GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTC-AATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG ctctttggaatcggggaaaccagtgagggccactccactccttattacagGACATGTTATGGTCAATGGACCCATCTCGCCAATCCCAGTCCAATGTGACCCCCAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAGgtaaggtatgatatacctttgtatcttaatgagaaggtgtgtcagatgca Alignment from GeneWise GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCT-GTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG ctctttggaatcggggaaaccagtgagggccactccactccttattacagGACATGTTATGGTCAATGGACCCATCTCGCCAATCCCAGTCCAATGTGACCCCCAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAGgtaaggtatgatatacctttgtatcttaatgagaaggtgtgtcagatgca #### Pcx_ID566_15 --> 0 - 1 Original Alignment GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCC-ATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAg agtgtgtctcaatcttttgatcatagcttaattgtaaatatattttgcagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGTTCCCTGTGGGACCGATCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGAGCAGGTGTTGCAGCCACACTAGCTTGTTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGACTCCCTCTGAAACAggtaaggcaaaagattgactcatagtcgaatgactgatggtgctgcaataa Alignment from CESAR GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCC-ATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAg agtgtgtctcaatcttttgatcatagcttaattgtaaatatattttgcagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGTTCCCTGTGGGACCGATCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGAGCAGGTGTTGCAGCCACACTAGCTTGTTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGACTCCCTCTGAAACAggtaaggcaaaagattgactcatagtcgaatgactgatggtgctgcaataa Alignment from Spaln_aa2Genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGAC---GTGGCAGTAGACTCC-ATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG agtgtgtctcaatcttttgatcatagcttaattgtaaatatattttgcagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGTTCCCTGTGGGACCGATCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGAGCAGGTGTTGCAGCCACACTAGCTTGTTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCcATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGACTCCCTCTGAAACAGgtaaggcaaaagattgactcatagtcgaatgactgatggtgctgcaataa Alignment from Spaln_nt2Genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTGG---CAGTAGACTCC-ATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG agtgtgtctcaatcttttgatcatagcttaattgtaaatatattttgcagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGTTCCCTGTGGGACCGATCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGAGCAGGTGTTGCAGCCACACTAGCTTGTTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGACTCCCTCTGAAACAGgtaaggcaaaagattgactcatagtcgaatgactgatggtgctgcaataa Alignment from Pairagon GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGAC-TCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG agtgtgtctcaatcttttgatcatagcttaattgtaaatatattttgcagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGTTCCCTGTGGGACCGATCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGAGCAGGTGTTGCAGCCACACTAGCTTGTTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGACTCCCTCTGAAACAGgtaaggcaaaagattgactcatagtcgaatgactgatggtgctgcaataa Alignment from Exonerate_protein2genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTGGCAGTAGACTCC----ATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG agtgtgtctcaatcttttgatcatagcttaattgtaaatatattttgcagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGTTCCCTGTGGGACCGATCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGAGCAGGTGTTGCAGCCACACTAGCTTGTTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGACTCCCTCTGAAACAGgtaaggcaaaagattgactcatagtcgaatgactgatggtgctgcaataa Alignment from Exonerate_coding2genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTGGCAGTAGACTCC----ATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG agtgtgtctcaatcttttgatcatagcttaattgtaaatatattttgcagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGTTCCCTGTGGGACCGATCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGAGCAGGTGTTGCAGCCACACTAGCTTGTTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGACTCCCTCTGAAACAGgtaaggcaaaagattgactcatagtcgaatgactgatggtgctgcaataa Alignment from GeneWise GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGAC-TCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG agtgtgtctcaatcttttgatcatagcttaattgtaaatatattttgcagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGTTCCCTGTGGGACCGATCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGAGCAGGTGTTGCAGCCACACTAGCTTGTTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGACTCCCTCTGAAACAGgtaaggcaaaagattgactcatagtcgaatgactgatggtgctgcaataa #### Pcx_ID568_17 --> 0 - 0 Original Alignment GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCC-TTTCGCTCTAAG actatctatggtgcgcttgctgaagcctccttctctgactgggactacagGTGAAGCCATCTTCCAAGATCGTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGGACTGAAACAGAAGCTCAGGCAGAGGAGCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGGGGTATATTGGCATCCCACAAGGAGGTTTCCCCAAGCCACTTTCATTCTAAAgtgagataggttgatgagggtgtaaatcagtctttttcccacatccctca Alignment from CESAR GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCC-TTTCGCTCTAAG actatctatggtgcgcttgctgaagcctccttctctgactgggactacagGTGAAGCCATCTTCCAAGATCGTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGGACTGAAACAGAAGCTCAGGCAGAGGAGCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGGGGTATATTGGCATCCCACAAGGAGGTTTCCCCAAGCCACTTTCATTCTAAAgtgagataggttgatgagggtgtaaatcagtctttacccactccctctct Alignment from Spaln_aa2Genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCC-TTTCGCTCTAAG actatctatggtgcgcttgctgaagcctccttctctgactgggactacagGTGAAGCCATCTTCCAAGATCGTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGGACTGAAACAGAAGCTCAGGCAGAGGAGCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGGGGTATATTGGCATCCCACAAGGAGGTTTCCCCAAGCCAcTTTCATTCTAAAgtgagataggttgatgagggtgtaaatcagtctttttcccacatccctca Alignment from Spaln_nt2Genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCC-CTTTCGCTCTAAG actatctatggtgcgcttgctgaagcctccttctctgactgggactacagGTGAAGCCATCTTCCAAGATCGTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGGACTGAAACAGAAGCTCAGGCAGAGGAGCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGGGGTATATTGGCATCCCACAAGGAGGTTTCCCCAAGCCACTTTCATTCTAAAgtgagataggttgatgagggtgtaaatcagtctttttcccacatccctca Alignment from Pairagon GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCC-CTTTCGCTCTAAG actatctatggtgcgcttgctgaagcctccttctctgactgggactacagGTGAAGCCATCTTCCAAGATCGTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGGACTGAAACAGAAGCTCAGGCAGAGGAGCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGGGGTATATTGGCATCCCACAAGGAGGTTTCCCCAAGCCACTTTCATTCTAAAgtgagataggttgatgagggtgtaaatcagtctttttcccacatccctca Alignment from Exonerate_protein2genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCC-TTTCGCTCTAAG actatctatggtgcgcttgctgaagcctccttctctgactgggactacagGTGAAGCCATCTTCCAAGATCGTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGGACTGAAACAGAAGCTCAGGCAGAGGAGCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGGGGTATATTGGCATCCCACAAGGAGGTTTCCCCAAGCCACTTTCATTCTAAAgtgagataggttgatgagggtgtaaatcagtctttttcccacatccctca Alignment from Exonerate_coding2genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCC-TTTCGCTCTAAG actatctatggtgcgcttgctgaagcctccttctctgactgggactacagGTGAAGCCATCTTCCAAGATCGTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGGACTGAAACAGAAGCTCAGGCAGAGGAGCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGGGGTATATTGGCATCCCACAAGGAGGTTTCCCCAAGCCACTTTCATTCTAAAgtgagataggttgatgagggtgtaaatcagtctttttcccacatccctca Alignment from GeneWise GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTT-CGCTCTAAG actatctatggtgcgcttgctgaagcctccttctctgactgggactacagGTGAAGCCATCTTCCAAGATCGTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGGACTGAAACAGAAGCTCAGGCAGAGGAGCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGGGGTATATTGGCATCCCACAAGGAGGTTTCCCCAAGCCACTTTCATTCTAAAgtgagataggttgatgagggtgtaaatcagtctttttcccacatccctca #### Pcx_ID569_18 --> 0 - 0 Original Alignment GTGCTAAAGGAC-CTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttgatgagggtgtaaatcagtctttacccactccctctcttcccaagGTGCTAAAGGACCCTCCCAAGAATTGAAGGACGGCCAGGAGCCTCCTTACCTCCCTTGAACCTGGAGGAGTTGGATAAGGGCCTGATTGATAGACATGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCAGCTATGTACCCATAT------ACCCAATTCAAAGACTTCACAGCTACTTTCAGC---CTTGATAGCCTAAATACGAGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtcagtggtttctatatttatgtctacacttcccatgggcctatagtaag Alignment from CESAR GTGCTAAAGGAC-CTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttgatgagggtgtaaatcagtctttacccactccctctcttcccaagGTGCTAAAGGACCCTCCCAAGAATTGAAGGACGGCCAGGAGCCTCCTTACCTCCCTTGAACCTGGAGGAGTTGGATAAGGGCCTGATTGATAGACATGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCAGCTATGTACCCA------TATACCCAATTCAAAGACTTCACAGCTACTTTCAGC---CTTGATAGCCTAAATACGAGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtcagtggtttctatatttatgtctacacttcccatgggcctatagtaag Alignment from Spaln_aa2Genome GTGCTAAAGGAC-CTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttgatgagggtgtaaatcagtctttacccactccctctcttcccaagGTGCTAAAGGACcCTCCCAAGAATTGAAGGACGGCCAGGAGCCTCCTTACCTCCCTTGAACCTGGAGGAGTTGGATAAGGGCCTGATTGATAGACATGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCAGCTATGTACCCA------TATACCCAATTCAAAGACTTCACAGCTACTTTC---AGCCTTGATAGCCTAAATACGAGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtcagtggtttctatatttatgtctacacttcccatgggcctatagtaag Alignment from Spaln_nt2Genome GTGCTAAAGGACC-TGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttgatgagggtgtaaatcagtctttacccactccctctcttcccaagGTGCTAAAGGACCCTCCCAAGAATTGAAGGACGGCCAGGAGCCTCCTTACCTCCCTTGAACCTGGAGGAGTTGGATAAGGGCCTGATTGATAGACATGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCAGCTATGTACCC------ATATACCCAATTCAAAGACTTCACAGCTACTTTCAG---CCTTGATAGCCTAAATACGAGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtcagtggtttctatatttatgtctacacttcccatgggcctatagtaag Alignment from Pairagon GTGCTAAAGGA-CCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttgatgagggtgtaaatcagtctttacccactccctctcttcccaagGTGCTAAAGGACCCTCCCAAGAATTGAAGGACGGCCAGGAGCCTCCTTACCTCCCTTGAACCTGGAGGAGTTGGATAAGGGCCTGATTGATAGACATGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCAGCTATGTACCC------ATATACCCAATTCAAAGACTTCACAGCTACTTTCAG---CCTTGATAGCCTAAATACGAGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtcagtggtttctatatttatgtctacacttcccatgggcctatagtaag Alignment from Exonerate_protein2genome GTGCTAAAGGAC-CTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttgatgagggtgtaaatcagtctttacccactccctctcttcccaagGTGCTAAAGGACCCTCCCAAGAATTGAAGGACGGCCAGGAGCCTCCTTACCTCCCTTGAACCTGGAGGAGTTGGATAAGGGCCTGATTGATAGACATGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCAGCTATGTACCCA------TATACCCAATTCAAAGACTTCACAGCTACTTTCAGC---CTTGATAGCCTAAATACGAGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtcagtggtttctatatttatgtctacacttcccatgggcctatagtaag Alignment from Exonerate_coding2genome GTGCTAAAGGAC-CTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttgatgagggtgtaaatcagtctttacccactccctctcttcccaagGTGCTAAAGGACCCTCCCAAGAATTGAAGGACGGCCAGGAGCCTCCTTACCTCCCTTGAACCTGGAGGAGTTGGATAAGGGCCTGATTGATAGACATGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCAGCTATGTACCCA------TATACCCAATTCAAAGACTTCACAGCTACTTTCAGC---CTTGATAGCCTAAATACGAGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtcagtggtttctatatttatgtctacacttcccatgggcctatagtaag Alignment from GeneWise GTGCTAAAGGAC-CTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttgatgagggtgtaaatcagtctttacccactccctctcttcccaagGTGCTAAAGGACCCTCCCAAGAATTGAAGGACGGCCAGGAGCCTCCTTACCTCCCTTGAACCTGGAGGAGTTGGATAAGGGCCTGATTGATAGACATGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCAGCTATGTACCCA------TATACCCAATTCAAAGACTTCACAGCTACTTTCAGC---CTTGATAGCCTAAATACGAGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtcagtggtttctatatttatgtctacacttcccatgggcctatagtaag #### Pdcd11_ID10111_5 --> 0 - 1 Original Alignment CTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGCTACCTAGTGGACATTGGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAG-TACATCCGGCAGAAGAACAAAg catgtcttctgtttgaaacatgcaaaagcatgttgctgccacaaatgaagCTCCTGACAGGAACAGTTTCTAGCCTTGAAGACCATGGCTACCTTGTGGGCATTGGTGTTGGCGCGACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGAGCTACACTCGACAGAAGAACAAAggtaagtcatcgtaaccttagttattgtgtttggggttagtagttcttatt Alignment from CESAR CTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGCTACCTAGTGGACATTGGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAG-TACATCCGGCAGAAGAACAAAg catgtcttctgtttgaaacatgcaaaagcatgttgctgccacaaatgaagCTCCTGACAGGAACAGTTTCTAGCCTTGAAGACCATGGCTACCTTGTGGGCATTGGTGTTGGCGCGACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGAGCTACACTCGACAGAAGAACAAAggtaagtcatcgtaaccttagttattgtgtttggggttagtagttcttatt Alignment from Spaln_aa2Genome CTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGCTACCTAGTGGACATTGGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAG-TACATCCGGCAGAAGAACAAAG catgtcttctgtttgaaacatgcaaaagcatgttgctgccacaaatgaagCTCCTGACAGGAACAGTTTCTAGCCTTGAAGACCATGGCTACCTTGTGGGCATTGGTGTTGGCGCGACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGAGcTACACTCGACAGAAGAACAAAGgtaagtcatcgtaaccttagttattgtgtttggggttagtagttcttatt Alignment from Spaln_nt2Genome CATGCTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGCTACCTAGTGGACATTGGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAG-TACATCCGGCAGAAGAACAAAG catgtcttctgtttgaaacatgcaaaagcatgttgctgccacaaatgaag----CTCCTGACAGGAACAGTTTCTAGCCTTGAAGACCATGGCTACCTTGTGGGCATTGGTGTTGGCGCGACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGAGCTACACTCGACAGAAGAACAAAGgtaagtcatcgtaaccttagttattgtgtttggggttagtagttcttatt Alignment from Pairagon CTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGCTACCTAGTGGACATTGGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAG-TACATCCGGCAGAAGAACAAAG catgtcttctgtttgaaacatgcaaaagcatgttgctgccacaaatgaagCTCCTGACAGGAACAGTTTCTAGCCTTGAAGACCATGGCTACCTTGTGGGCATTGGTGTTGGCGCGACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGAGCTACACTCGACAGAAGAACAAAGgtaagtcatcgtaaccttagttattgtgtttggggttagtagttcttatt Alignment from Exonerate_protein2genome GGCATGCTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGCTACCTAGTGGACATTGGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAG-TACATCCGGCAGAAGAACAAAG catgtcttctgtttgaaacatgcaaaagcatgttgctgccacaaATGAAGCTCCTGACAGGAACAGTTTCTAGCCTTGAAGACCATGGCTACCTTGTGGGCATTGGTGTTGGCGCGACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGAGCTACACTCGACAGAAGAACAAAGgtaagtcatcgtaaccttagttattgtgtttggggttagtagttcttatt Alignment from Exonerate_coding2genome catgtcttctgtttgaaacatgcaaaagcatgttgctgccacaaatgaagctcctgacaggaacagtttctagccttgaagaccatggctaccttgtgggcattggtgttggcgcgactagagcctttctattactgaagaaggcacaagagctacactcgacagaagaacaaaggtaagtcatcgtaaccttagttattgtgtttggggttagtagttcttatt Alignment from GeneWise CTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGCTACCTAGTGGACATTGGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAA-GAGTACATCCGGCAGAAGAACAAAG catgtcttctgtttgaaacatgcaaaagcatgttgctgccacaaatgaagCTCCTGACAGGAACAGTTTCTAGCCTTGAAGACCATGGCTACCTTGTGGGCATTGGTGTTGGCGCGACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGAGCTACACTCGACAGAAGAACAAAGgtaagtcatcgtaaccttagttattgtgtttggggttagtagttcttatt #### Pdcd11_ID10112_6 --> 2 - 0 Original Alignment gtGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGT-CTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG agggtccgcttggcatcaggtgacaccacaccaagcccctgtcttcacaggtGCTAAGTTCAAAGTTGGCCAATACCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGCGGTGTTGTGAGTCCTCTCTGTGGATCGCTCTGAGATCTCATTAGTCTTTACAACTGAAGATCAAAGTTGGAACCTGAATAACTTACTACCAGGGTTACTAGTTAAAGCCCAGGTACAGAAGgtgagtttctcactaactaatgggaaatgggagaggagagagtggaggca Alignment from CESAR gtGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGT-CTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG agggtccgcttggcatcaggtgacaccacaccaagcccctgtcttcacaggtGCTAAGTTCAAAGTTGGCCAATACCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGCGGTGTTGTGAGTCCTCTCTGTGGATCGCTCTGAGATCTCATTAGTCTTTACAACTGAAGATCAAAGTTGGAACCTGAATAACTTACTACCAGGGTTACTAGTTAAAGCCCAGGTACAGAAGgtgagtttctcactaactaatgggaaatgggagaggagagagtggaggca Alignment from Spaln_aa2Genome GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGT-CTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG agggtccgcttggcatcaggtgacaccacaccaagcccctgtcttcacagGTGCTAAGTTCAAAGTTGGCCAATACCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGCGGTGTTGTGAGTcCTCTCTGTGGATCGCTCTGAGATCTCATTAGTCTTTACAACTGAAGATCAAAGTTGGAACCTGAATAACTTACTACCAGGGTTACTAGTTAAAGCCCAGGTACAGAAGgtgagtttctcactaactaatgggaaatgggagaggagagagtggaggca Alignment from Spaln_nt2Genome GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGTC-TCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG agggtccgcttggcatcaggtgacaccacaccaagcccctgtcttcacagGTGCTAAGTTCAAAGTTGGCCAATACCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGCGGTGTTGTGAGTCCTCTCTGTGGATCGCTCTGAGATCTCATTAGTCTTTACAACTGAAGATCAAAGTTGGAACCTGAATAACTTACTACCAGGGTTACTAGTTAAAGCCCAGGTACAGAAGgtgagtttctcactaactaatgggaaatgggagaggagagagtggaggca Alignment from Pairagon GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGT-CTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG agggtccgcttggcatcaggtgacaccacaccaagcccctgtcttcacagGTGCTAAGTTCAAAGTTGGCCAATACCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGCGGTGTTGTGAGTCCTCTCTGTGGATCGCTCTGAGATCTCATTAGTCTTTACAACTGAAGATCAAAGTTGGAACCTGAATAACTTACTACCAGGGTTACTAGTTAAAGCCCAGGTACAGAAGgtgagtttctcactaactaatgggaaatgggagaggagagagtggaggca Alignment from Exonerate_protein2genome GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGT-CTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG agggtccgcttggcatcaggtgacaccacaccaagcccctgtcttcacagGTGCTAAGTTCAAAGTTGGCCAATACCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGCGGTGTTGTGAGTCCTCTCTGTGGATCGCTCTGAGATCTCATTAGTCTTTACAACTGAAGATCAAAGTTGGAACCTGAATAACTTACTACCAGGGTTACTAGTTAAAGCCCAGGTACAGAAGgtgagtttctcactaactaatgggaaatgggagaggagagagtggaggca Alignment from Exonerate_coding2genome agggtccgcttggcatcaggtgacaccacaccaagcccctgtcttcacaggtgctaagttcaaagttggccaatacctaacttgtgtagtcaaggaggtgaagagtaatggcggtgttgtgagtcctctctgtggatcgctctgagatctcattagtctttacaactgaagatcaaagttggaacctgaataacttactaccagggttactagttaaagcccaggtacagaaggtgagtttctcactaactaatgggaaatgggagaggagagagtggaggca Alignment from GeneWise GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTG-AGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG agggtccgcttggcatcaggtgacaccacaccaagcccctgtcttcacagGTGCTAAGTTCAAAGTTGGCCAATACCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGCGGTGTTGTGAGTCCTCTCTGTGGATCGCTCTGAGATCTCATTAGTCTTTACAACTGAAGATCAAAGTTGGAACCTGAATAACTTACTACCAGGGTTACTAGTTAAAGCCCAGGTACAGAAGgtgagtttctcactaactaatgggaaatgggagaggagagagtggaggca #### Pdcd11_ID10119_13 --> 0 - 0 Original Alignment GTGGTAAAGGTGGCAGTG-CTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG acaaattgccttaaggacctgccactgacttgtcactcttatctttgtagGTGGTAAAGGTGGCTGTGCTTGAGCTGTGAGCCTTCAAAGGAAAAAATGCTCCTCTCCTTTAGATTGTTGAGTGACTCACAGCCAAAAGATCCTGGTGTTGAAACCAGTCAGAAAAAGACAGAAGGCGTGCACATTGGCCAGgtacgtaccctatgattttgactgatggtaacaccatcacagcatctgag Alignment from CESAR GTGGTAAAGGTGGCAGTG-CTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG acaaattgccttaaggacctgccactgacttgtcactcttatctttgtagGTGGTAAAGGTGGCTGTGCTTGAGCTGTGAGCCTTCAAAGGAAAAAATGCTCCTCTCCTTTAGATTGTTGAGTGACTCACAGCCAAAAGATCCTGGTGTTGAAACCAGTCAGAAAAAGACAGAAGGCGTGCACATTGGCCAGgtacgtaccctatgattttgactgatggtaacaccatcacagcatctgag Alignment from Spaln_aa2Genome AAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG acaaattgccttaaggacctgccactgacttgtcactcttatctttgtaggtggtaaagGTGGCTGTGC---TTGAGCTGTGAGCCTTCAAAGGAAAAAATGCTCCTCTCCTTTAGATTGTTGAGTGACTCACAGCCAAAAGATCCTGGTGTTGAAACCAGTCAGAAAAAGACAGAAGGCGTGCACATTGGCCAGgtacgtaccctatgattttgactgatggtaacaccatcacagcatctgag Alignment from Spaln_nt2Genome GTGGTAAAGGTGGCAGTGCT-GAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG acaaattgccttaaggacctgccactgacttgtcactcttatctttgtagGTGGTAAAGGTGGCTGTGCTTGAGCTGTGAGCCTTCAAAGGAAAAAATGCTCCTCTCCTTTAGATTGTTGAGTGACTCACAGCCAAAAGATCCTGGTGTTGAAACCAGTCAGAAAAAGACAGAAGGCGTGCACATTGGCCAGgtacgtaccctatgattttgactgatggtaacaccatcacagcatctgag Alignment from Pairagon GTGGTAAAGGTGGCAGTGC-TGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG acaaattgccttaaggacctgccactgacttgtcactcttatctttgtagGTGGTAAAGGTGGCTGTGCTTGAGCTGTGAGCCTTCAAAGGAAAAAATGCTCCTCTCCTTTAGATTGTTGAGTGACTCACAGCCAAAAGATCCTGGTGTTGAAACCAGTCAGAAAAAGACAGAAGGCGTGCACATTGGCCAGgtacgtaccctatgattttgactgatggtaacaccatcacagcatctgag Alignment from Exonerate_protein2genome CCCGGACCCAGAGACGGTCTTTTACACTGGCCAGGTGGTAAAGGTGGCAGTGCTG-AGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG acaaattgccttaaggACCTGCCACTGACTTGTCACTCTTATCTTTGTAGGTGGTAAAGGTGGCTGTGCTTGAGCTGTGAGCCTTCAAAGGAAAAAATGCTCCTCTCCTTTAGATTGTTGAGTGACTCACAGCCAAAAGATCCTGGTGTTGAAACCAGTCAGAAAAAGACAGAAGGCGTGCACATTGGCCAGgtacgtaccctatgattttgactgatggtaacaccatcacagcatctgag Alignment from Exonerate_coding2genome CTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG acaaattgccttaaggacctgccactgacttgtcactcttatctttgtaggtggtaaaggtggctgtgcTTGAGCTGTGAGCCTTCAAAGGAAAAAATGCTCCTCTCCTTTAGATTGTTGAGTGACTCACAGCCAAAAGATCCTGGTGTTGAAACCAGTCAGAAAAAGACAGAAGGCGTGCACATTGGCCAGgtacgtaccctatgattttgactgatggtaacaccatcacagcatctgag Alignment from GeneWise CTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG acaaattgccttaaggacctgccactgacttgtcactcttatctttgtaggtggtaaaggtggctgtgcttgagCTGTGAGCCTTCAAAGGAAAAAATGCTCCTCTCCTTTAGATTGTTGAGTGACTCACAGCCAAAAGATCCTGGTGTTGAAACCAGTCAGAAAAAGACAGAAGGCGTGCACATTGGCCAGgtacgtaccctatgattttgactgatggtaacaccatcacagcatctgag #### Pdcd11_ID10120_14 --> 0 - 0 Original Alignment TTGGTGGATGTGAAGGTCCTGGAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTG-CACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATT ggaggatagcctgttctttgatatgaaacaccctcaccatcttcccacagGTCGTGGATGTGAAGGTCCTACACAAAACCAAAACTGGGCTAGAGGTAGCCATTCTGCCCCATAAT------GAATTTCTTCCCACGCCCCACTTGTCTGACCATGCTACTAATGGTCCACTGCTACCACCACTGGCTTCAAGCAGGAGATACTCTTCACCAA---CTCTGCTTAAGCCAGTGTGAAAGACATATTgtaggttcacatactctgtctttggatagggccttgcatgtgtggtgatt Alignment from CESAR TTGGTGGATGTGAAGGTCCTGGAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTG-CACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATT ggaggatagcctgttctttgatatgaaacaccctcaccatcttcccacagGTCGTGGATGTGAAGGTCCTACACAAAACCAAAACTGGGCTAGAGGTAGCCATTCTGCCCCATAAT------GAATTTCTTCCCACGCCCCACTTGTCTGACCATGCTACTAATGGTCCACTGCTACCACCACTGGCTTCAAGCAGGAGATACTCTTCACCAA---CTCTGCTTAAGCCAGTGTGAAAGACATATTgtaggttcacatactctgtctttggatagggccttgcatgtgtggtgatt Alignment from Spaln_aa2Genome TTGGTGGATGTGAAGGTCCTGGAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTG-CACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATT ggaggatagcctgttctttgatatgaaacaccctcaccatcttcccacagGTCGTGGATGTGAAGGTCCTACACAAAACCAAAACTGGGCTAGAGGTAGCCATTCTGCCCCATAAT------GAATTTCTTCCCACGCCCCACTTGTCTGACCATGCTACTAATGGTCCACTGCTAcCACCACTGGCTTCAAGCAGGAGATACTCTTCACCAA---CTCTGCTTAAGCCAGTGTGAAAGACATATTgtaggttcacatactctgtctttggatagggccttgcatgtgtggtgatt Alignment from Spaln_nt2Genome TTGGTGGATGTGAAGGTCCTGGAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTG-CACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATT ggaggatagcctgttctttgatatgaaacaccctcaccatcttcccacagGTCGTGGATGTGAAGGTCCTACACAAAACCAAAACTGGGCTAGAGGTAGCCATTCTGCCCCATAA------TGAATTTCTTCCCACGCCCCACTTGTCTGACCATGCTACTAATGGTCCACTGCTACCACCACTGGCTTCAAGCAGGAGATACTCTTCACCAA---CTCTGCTTAAGCCAGTGTGAAAGACATATTgtaggttcacatactctgtctttggatagggccttgcatgtgtggtgatt Alignment from Pairagon TTGGTGGATGTGAAGGTCCTGGAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTG-CACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATT ggaggatagcctgttctttgatatgaaacaccctcaccatcttcccacagGTCGTGGATGTGAAGGTCCTACACAAAACCAAAACTGGGCTAGAGGTAGCCATTCTGCCCCATAA------TGAATTTCTTCCCACGCCCCACTTGTCTGACCATGCTACTAATGGTCCACTGCTACCACCACTGGCTTCAAGCAGGAGATACTCTTCACCAA---CTCTGCTTAAGCCAGTGTGAAAGACATATTgtaggttcacatactctgtctttggatagggccttgcatgtgtggtgatt Alignment from Exonerate_protein2genome TTGGTGGATGTGAAGGTCCTGGAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTG-CACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATT ggaggatagcctgttctttgatatgaaacaccctcaccatcttcccacagGTCGTGGATGTGAAGGTCCTACACAAAACCAAAACTGGGCTAGAGGTAGCCATTCTGCCCCATAAT------GAATTTCTTCCCACGCCCCACTTGTCTGACCATGCTACTAATGGTCCACTGCTACCACCACTGGCTTCAAGCAGGAGATACTCTTCACCAA---CTCTGCTTAAGCCAGTGTGAAAGACATATTgtaggttcacatactctgtctttggatagggccttgcatgtgtggtgatt Alignment from Exonerate_coding2genome TTGGTGGATGTGAAGGTCCTGGAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTG-CACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATT ggaggatagcctgttctttgatatgaaacaccctcaccatcttcccacagGTCGTGGATGTGAAGGTCCTACACAAAACCAAAACTGGGCTAGAGGTAGCCATTCTGCCCCATAAT------GAATTTCTTCCCACGCCCCACTTGTCTGACCATGCTACTAATGGTCCACTGCTACCACCACTGGCTTCAAGCAGGAGATACTCTTCACCAA---CTCTGCTTAAGCCAGTGTGAAAGACATATTgtaggttcacatactctgtctttggatagggccttgcatgtgtggtgatt Alignment from GeneWise TTGGTGGATGTGAAGGTCCTGGAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTG-TTGCACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATT ggaggatagcctgttctttgatatgaaacaccctcaccatcttcccacagGTCGTGGATGTGAAGGTCCTACACAAAACCAAAACTGGGCTAGAGGTAGCCATTCTGCCCCATAATGAA------TTTCTTCCCACGCCCCACTTGTCTGACCATGCTACTAATGGTCCACTGCTACCACCACTGGCTTCAAGCAGGAGATACTCTTCACCAA---CTCTGCTTAAGCCAGTGTGAAAGACATATTgtaggttcacatactctgtctttggatagggccttgcatgtgtggtgatt #### Pde6c_ID7533_3 --> 0 - 0 Original Alignment GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTG-TACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccattataacccattcttttacttcctacagGTCATCTCAAAATACCTCAGCTTTGTTGCTGTTGCACTACGGCTGAAGCACACTAGTTATTTGCTACAGTTTGGAGTCCCGGCGGAGTCAAgtatgtgaatactacaagaagtctgccatttccacaactacacgtcatta Alignment from CESAR GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTG-TACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccattataacccattcttttacttcctacagGTCATCTCAAAATACCTCAGCTTTGTTGCTGTTGCACTACGGCTGAAGCACACTAGTTATTTGCTACAGTTTGGAGTCCCGGCGGAGTCAAgtatgtgaatactacaagaagtctgccatttccacaactacacgtcatta Alignment from Spaln_aa2Genome GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTG-TACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccattataacccattcttttacttcctacagGTCATCTCAAAATACCTCAGCTTTGTTGCTGTTGCACTACGGCTGAAGCACACTAGTTATTTGcTACAGTTTGGAGTCCCGGCGGAGTCAAgtatgtgaatactacaagaagtctgccatttccacaactacacgtcatta Alignment from Spaln_nt2Genome GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTG-TACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccattataacccattcttttacttcctacagGTCATCTCAAAATACCTCAGCTTTGTTGCTGTTGCACTACGGCTGAAGCACACTAGTTATTTGCTACAGTTTGGAGTCCCGGCGGAGTCAAgtatgtgaatactacaagaagtctgccatttccacaactacacgtcatta Alignment from Pairagon GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTG-TACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccattataacccattcttttacttcctacagGTCATCTCAAAATACCTCAGCTTTGTTGCTGTTGCACTACGGCTGAAGCACACTAGTTATTTGCTACAGTTTGGAGTCCCGGCGGAGTCAAgtatgtgaatactacaagaagtctgccatttccacaactacacgtcatta Alignment from Exonerate_protein2genome GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTG-TACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccattataacccattcttttacttcctacagGTCATCTCAAAATACCTCAGCTTTGTTGCTGTTGCACTACGGCTGAAGCACACTAGTTATTTGCTACAGTTTGGAGTCCCGGCGGAGTCAAgtatgtgaatactacaagaagtctgccatttccacaactacacgtcatta Alignment from Exonerate_coding2genome GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTG-TACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccattataacccattcttttacttcctacagGTCATCTCAAAATACCTCAGCTTTGTTGCTGTTGCACTACGGCTGAAGCACACTAGTTATTTGCTACAGTTTGGAGTCCCGGCGGAGTCAAgtatgtgaatactacaagaagtctgccatttccacaactacacgtcatta Alignment from GeneWise GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTAC-CTGTACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccattataacccattcttttacttcctacagGTCATCTCAAAATACCTCAGCTTTGTTGCTGTTGCACTACGGCTGAAGCACACTAGTTATTTGCTACAGTTTGGAGTCCCGGCGGAGTCAAgtatgtgaatactacaagaagtctgccatttccacaactacacgtcatta #### Pga5_ID2970_8 --> 0 - 0 Original Alignment TACTTCCTCAAGTGTGACACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTAC-CCAGTGCCAGCCAGTGCCTACATCCGAAAG tgggcagcccactctaggcctccagctactgctgtctgcccaccctgcagTATTTCCTAAAGTGTGAT---GTCAACTGCTTGCCAGATATTGTA---------------TTTACATACCCCGGTACCAGCTAGTACCTACATTCGAAAGgtaagtcgggtaggagttattaagtaacttatattgcttaggtttctatg Alignment from CESAR TACTTCCTCAAGTGTGACACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCA-GTGCCAGCCAGTGCCTACATCCGAAAG tgggcagcccactctaggcctccagctactgctgtctgcccaccctgcagTATTTCCTAAAGTGTGAT---GTCAACTGCTTGCCAGATATTGTATTT---------------ACATACCCCGGTACCAGCTAGTACCTACATTCGAAAGgtaagtcgggtaggagttattaagtaacttatattgcttaggtttctatg Alignment from Spaln_aa2Genome TACTTCCTCAAGTGTGACACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTAC-CCAGTGCCAGCCAGTGCCTACATCCGAAAG tgggcagcccactctaggcctccagctactgctgtctgcccaccctgcagTATTTCCTAAAGTGTGAT---GTCAACTGCTTGCCAGATATTGTATTT---------------ACATACcCCGGTACCAGCTAGTACCTACATTCGAAAGgtaagtcgggtaggagttattaagtaacttatattgcttaggtttctatg Alignment from Spaln_nt2Genome TACTTCCTCAAGTGTGACACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG tgggcagcccactctaggcctccagctactgctgtctgcccaccctgcagTATTTCCTAAAGTGTGA---TGTCAACTGCTTGCCAGATATTGTATTTAC-----------ATAC---CCCGGTACCAGCTAGTACCTACATTCGAAAGgtaagtcgggtaggagttattaagtaacttatattgcttaggtttctatg Alignment from Pairagon TACTTCCTCAAGTGTGACACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTA-CCCAGTGCCAGCCAGTGCCTACATCCGAAAG tgggcagcccactctaggcctccagctactgctgtctgcccaccctgcagTATTTCCTAAAGTGTGA---TGTCAACTGCTTGCCAGATATTGTAT---------------TTACATACCCCGGTACCAGCTAGTACCTACATTCGAAAGgtaagtcgggtaggagttattaagtaacttatattgcttaggtttctatg Alignment from Exonerate_protein2genome TACTTCCTCAAGTGTGACACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCC tgggcagcccactctaggcctccagctactgctgtctgcccaccctgcagTATTTCCTAAAGTGTGAT---GTCAACTGCTTGCCAGATATTGTATTTACATACCCCGGTACCAGCTAGTACCTACATTCGAAAGGTAAGTCGGgtaggagttattaagtaacttatattgcttaggtttctatg Alignment from Exonerate_coding2genome tgggcagcccactctaggcctccagctactgctgtctgcccaccctgcagtatttcctaaagtgtgatgtcaactgcttgccagatattgtatttacataccccggtaccagctagtacctacattcgaaaggtaagtcgggtaggagttattaagtaacttatattgcttaggtttctatg Alignment from GeneWise TACTTCCTCAAGTGTGACACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCA-GTGCCAGCCAGTGCCTACATCCGAAAG tgggcagcccactctaggcctccagctactgctgtctgcccaccctgcagTATTTCCTAAAGTGTGAT---GTCAACTGCTTGCCAGATATTGTATTTACA---------------TACCCCGGTACCAGCTAGTACCTACATTCGAAAGgtaagtcgggtaggagttattaagtaacttatattgcttaggtttctatg #### Pga5_ID2971_7 --> 1 - 0 Original Alignment cATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACAGGGACC-TCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG atttagagagaattctgtgatgtggctccccctgcctcactcctccccagcAATTCCATGAATGGGGAGGCCATTGCATCAGATGGTAGCTGCCAAGGCATTATGGATACAGGGGCTCTCATTGCTGACCAGCCCTCAAAGCACCATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGATGGTCAGgtaagtgtttaaaaggttaaggtaatgggcagcccactctaggcctccag Alignment from CESAR cATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACAGGGACC-TCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG atttagagagaattctgtgatgtggctccccctgcctcactcctccccagcAATTCCATGAATGGGGAGGCCATTGCATCAGATGGTAGCTGCCAAGGCATTATGGATACAGGGGCTCTCATTGCTGACCAGCCCTCAAAGCACCATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGATGGTCAGgtaagtgtttaaaaggttaaggtaatgggcagcccactctaggcctccag Alignment from Spaln_aa2Genome CATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACAGGGACC-TCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG atttagagagaattctgtgatgtggctccccctgcctcactcctccccagCAATTCCATGAATGGGGAGGCCATTGCATCAGATGGTAGCTGCCAAGGCATTATGGATACAGGGGCTcTCATTGCTGACCAGCCCTCAAAGCACCATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGATGGTCAGgtaagtgtttaaaaggttaaggtaatgggcagcccactctaggcctccag Alignment from Spaln_nt2Genome CATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACA-GGGACCTCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG atttagagagaattctgtgatgtggctccccctgcctcactcctccccagCAATTCCATGAATGGGGAGGCCATTGCATCAGATGGTAGCTGCCAAGGCATTATGGATACAGGGGCTCTCATTGCTGACCAGCCCTCAAAGCACCATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGATGGTCAGgtaagtgtttaaaaggttaaggtaatgggcagcccactctaggcctccag Alignment from Pairagon CATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACAGGGAC-CTCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG atttagagagaattctgtgatgtggctccccctgcctcactcctccccagCAATTCCATGAATGGGGAGGCCATTGCATCAGATGGTAGCTGCCAAGGCATTATGGATACAGGGGCTCTCATTGCTGACCAGCCCTCAAAGCACCATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGATGGTCAGgtaagtgtttaaaaggttaaggtaatgggcagcccactctaggcctccag Alignment from Exonerate_protein2genome CATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACAGGGACC-TCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG atttagagagaattctgtgatgtggctccccctgcctcactcctccccagCAATTCCATGAATGGGGAGGCCATTGCATCAGATGGTAGCTGCCAAGGCATTATGGATACAGGGGCTCTCATTGCTGACCAGCCCTCAAAGCACCATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGATGGTCAGgtaagtgtttaaaaggttaaggtaatgggcagcccactctaggcctccag Alignment from Exonerate_coding2genome CATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACA--GGGACCTCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG atttagagagaattctgtgatgtggctccccctgcctcactcctccccagCAATTCCATGAATGGGGAGGCCATTGCATCAGATGGTAGCTGCCAAGGCATTATGGATACAGGGGCTCTCAT-TGCTGACCAGCCCTCAAAGCACCATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGATGGTCAGgtaagtgtttaaaaggttaaggtaatgggcagcccactctaggcctccag Alignment from GeneWise CATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACAGGG-ACCTCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG atttagagagaattctgtgatgtggctccccctgcctcactcctccccagCAATTCCATGAATGGGGAGGCCATTGCATCAGATGGTAGCTGCCAAGGCATTATGGATACAGGGGCTCTCATTGCTGACCAGCCCTCAAAGCACCATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGATGGTCAGgtaagtgtttaaaaggttaaggtaatgggcagcccactctaggcctccag #### Pitpnm1_ID312_9 --> 0 - 2 Original Alignment GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATC-CTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCaa atcaggtggggtcaacatatgctcttgtaatcttggtttcttgtttctagGGACTGGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGACCTTTTCCTCATACCTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAAGCCGACGTCCAAACTCTGAGCACTGCTTTCGAGGCTGTCTTCCGAGTCCATTCCCCCAAGGCACTTGGACATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTTATGCACTTGTCTCCaagtgagtgcagagaggaatagtaaacacacataaataaagcaaataatgat Alignment from CESAR GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATC-CTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCaa atcaggtggggtcaacatatgctcttgtaatcttggtttcttgtttctagGGACTGGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGACCTTTTCCTCATACCTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAAGCCGACGTCCAAACTCTGAGCACTGCTTTCGAGGCTGTCTTCCGAGTCCATTCCCCCAAGGCACTTGGACATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTTATGCACTTGTCTCCaagtgagtgcagagaggaatagtaaacacacataaataaagcaaataatgat Alignment from Spaln_aa2Genome GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATC-CTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA atcaggtggggtcaacatatgctcttgtaatcttggtttcttgtttctagGGACTGGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGACCTTTTCCTCATAcCTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAAGCCGACGTCCAAACTCTGAGCACTGCTTTCGAGGCTGTCTTCCGAGTCCATTCCCCCAAGGCACTTGGACATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTTATGCACTTGTCTCCAAgtgagtgcagagaggaatagtaaacacacataaataaagcaaataatgat Alignment from Spaln_nt2Genome GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCAT-CCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA atcaggtggggtcaacatatgctcttgtaatcttggtttcttgtttctagGGACTGGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGACCTTTTCCTCATACCTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAAGCCGACGTCCAAACTCTGAGCACTGCTTTCGAGGCTGTCTTCCGAGTCCATTCCCCCAAGGCACTTGGACATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTTATGCACTTGTCTCCAAgtgagtgcagagaggaatagtaaacacacataaataaagcaaataatgat Alignment from Pairagon GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCAT-CCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA atcaggtggggtcaacatatgctcttgtaatcttggtttcttgtttctagGGACTGGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGACCTTTTCCTCATACCTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAAGCCGACGTCCAAACTCTGAGCACTGCTTTCGAGGCTGTCTTCCGAGTCCATTCCCCCAAGGCACTTGGACATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTTATGCACTTGTCTCCAAgtgagtgcagagaggaatagtaaacacacataaataaagcaaataatgat Alignment from Exonerate_protein2genome GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATC-CTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA atcaggtggggtcaacatatgctcttgtaatcttggtttcttgtttctagGGACTGGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGACCTTTTCCTCATACCTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAAGCCGACGTCCAAACTCTGAGCACTGCTTTCGAGGCTGTCTTCCGAGTCCATTCCCCCAAGGCACTTGGACATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTTATGCACTTGTCTCCAAgtgagtgcagagaggaatagtaaacacacataaataaagcaaataatgat Alignment from Exonerate_coding2genome GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATC-CTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA atcaggtggggtcaacatatgctcttgtaatcttggtttcttgtttctagGGACTGGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGACCTTTTCCTCATACCTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAAGCCGACGTCCAAACTCTGAGCACTGCTTTCGAGGCTGTCTTCCGAGTCCATTCCCCCAAGGCACTTGGACATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTTATGCACTTGTCTCCAAgtgagtgcagagaggaatagtaaacacacataaataaagcaaataatgat Alignment from GeneWise GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATC-CTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA atcaggtggggtcaacatatgctcttgtaatcttggtttcttgtttctagGGACTGGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGACCTTTTCCTCATACCTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAAGCCGACGTCCAAACTCTGAGCACTGCTTTCGAGGCTGTCTTCCGAGTCCATTCCCCCAAGGCACTTGGACATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTTATGCACTTGTCTCCAAgtgagtgcagagaggaatagtaaacacacataaataaagcaaataatgat #### Pitpnm1_ID316_13 --> 1 - 1 Original Alignment cCTCCAGGTAGCCTCCACAGCTACCTCCTCTGGGGAGCCCCGCCGTGCAAGCACAGCCTCCTGTCCACCTGCCAGTTCTGAGGCTCCTGACGGCCCC-ACGAACGCTGCTCGCCTGGACTTCAAGGTCTCAGGCTTCTTCCTCTTTGGCTCCCCACTGGGCCTGGTGCTGGCTCTTCGCAAAACCGTGATGCCCGCCTTGGAGg cagtcctaaaataaaaacctgggcttatgtgaatgttttcttttgcctagcCTGCAGTTAGCAGCAACAGCAACGTCCTCTGGAGAACCATGCCATGCTAGCACATCCTCCTGTCCACCAGCAAGTTCTGAAGCTCATGATGGGCCACACAAATGCTGCTCACCTTGACTTCAGAGTGTCGGGTTTCTTCCTCTTTGGTTCCCCAGTAGGCTTAGTGCTGGCTCTTCGAAAAACTGTGATGTCTGCCTTGGAGggtgagtattaatgctcttagtcttcttatccctcatccacctctgataat Alignment from CESAR cCTCCAGGTAGCCTCCACAGCTACCTCCTCTGGGGAGCCCCGCCGTGCAAGCACAGCCTCCTGTCCACCTGCCAGTTCTGAGGCTCCTGACGGCCCC-ACGAACGCTGCTCGCCTGGACTTCAAGGTCTCAGGCTTCTTCCTCTTTGGCTCCCCACTGGGCCTGGTGCTGGCTCTTCGCAAAACCGTGATGCCCGCCTTGGAGg cagtcctaaaataaaaacctgggcttatgtgaatgttttcttttgcctagcCTGCAGTTAGCAGCAACAGCAACGTCCTCTGGAGAACCATGCCATGCTAGCACATCCTCCTGTCCACCAGCAAGTTCTGAAGCTCATGATGGGCCACACAAATGCTGCTCACCTTGACTTCAGAGTGTCGGGTTTCTTCCTCTTTGGTTCCCCAGTAGGCTTAGTGCTGGCTCTTCGAAAAACTGTGATGTCTGCCTTGGAGggtgagtattaatgctcttagtcttcttatccctcatccacctctgataat Alignment from Spaln_aa2Genome CCTCCAGGTAGCCTCCACAGCTACCTCCTCTGGGGAGCCCCGCCGTGCAAGCACAGCCTCCTGTCCACCTGCCAGTTCTGAGGCTCCTGACGGCCCC-ACGAACGCTGCTCGCCTGGACTTCAAGGTCTCAGGCTTCTTCCTCTTTGGCTCCCCACTGGGCCTGGTGCTGGCTCTTCGCAAAACCGTGATGCCCGCCTTGGAGG cagtcctaaaataaaaacctgggcttatgtgaatgttttcttttgcctagCCTGCAGTTAGCAGCAACAGCAACGTCCTCTGGAGAACCATGCCATGCTAGCACATCCTCCTGTCCACCAGCAAGTTCTGAAGCTCATGATGGGCCAcACAAATGCTGCTCACCTTGACTTCAGAGTGTCGGGTTTCTTCCTCTTTGGTTCCCCAGTAGGCTTAGTGCTGGCTCTTCGAAAAACTGTGATGTCTGCCTTGGAGGgtgagtattaatgctcttagtcttcttatccctcatccacctctgataat Alignment from Spaln_nt2Genome CCTCCAGGTAGCCTCCACAGCTACCTCCTCTGGGGAGCCCCGCCGTGCAAGCACAGCCTCCTGTCCACCTGCCAGTTCTGAGGCTCCTGAC-GGCCCCACGAACGCTGCTCGCCTGGACTTCAAGGTCTCAGGCTTCTTCCTCTTTGGCTCCCCACTGGGCCTGGTGCTGGCTCTTCGCAAAACCGTGATGCCCGCCTTGGAGG cagtcctaaaataaaaacctgggcttatgtgaatgttttcttttgcctagCCTGCAGTTAGCAGCAACAGCAACGTCCTCTGGAGAACCATGCCATGCTAGCACATCCTCCTGTCCACCAGCAAGTTCTGAAGCTCATGATGGGCCACACAAATGCTGCTCACCTTGACTTCAGAGTGTCGGGTTTCTTCCTCTTTGGTTCCCCAGTAGGCTTAGTGCTGGCTCTTCGAAAAACTGTGATGTCTGCCTTGGAGGgtgagtattaatgctcttagtcttcttatccctcatccacctctgataat Alignment from Pairagon CCTCCAGGTAGCCTCCACAGCTACCTCCTCTGGGGAGCCCCGCCGTGCAAGCACAGCCTCCTGTCCACCTGCCAGTTCTGAGGCTCCTGACGGCCC-CACGAACGCTGCTCGCCTGGACTTCAAGGTCTCAGGCTTCTTCCTCTTTGGCTCCCCACTGGGCCTGGTGCTGGCTCTTCGCAAAACCGTGATGCCCGCCTTGGAGG cagtcctaaaataaaaacctgggcttatgtgaatgttttcttttgcctagCCTGCAGTTAGCAGCAACAGCAACGTCCTCTGGAGAACCATGCCATGCTAGCACATCCTCCTGTCCACCAGCAAGTTCTGAAGCTCATGATGGGCCACACAAATGCTGCTCACCTTGACTTCAGAGTGTCGGGTTTCTTCCTCTTTGGTTCCCCAGTAGGCTTAGTGCTGGCTCTTCGAAAAACTGTGATGTCTGCCTTGGAGGgtgagtattaatgctcttagtcttcttatccctcatccacctctgataat Alignment from Exonerate_protein2genome CCTCCAGGTAGCCTCCACAGCTACCTCCTCTGGGGAGCCCCGCCGTGCAAGCACAGCCTCCTGTCCACCTGCCAGTTCTGAGGCTCCTGACGGCCCC-ACGAACGCTGCTCGCCTGGACTTCAAGGTCTCAGGCTTCTTCCTCTTTGGCTCCCCACTGGGCCTGGTGCTGGCTCTTCGCAAAACCGTGATGCCCGCCTTGGAGG cagtcctaaaataaaaacctgggcttatgtgaatgttttcttttgcctagCCTGCAGTTAGCAGCAACAGCAACGTCCTCTGGAGAACCATGCCATGCTAGCACATCCTCCTGTCCACCAGCAAGTTCTGAAGCTCATGATGGGCCACACAAATGCTGCTCACCTTGACTTCAGAGTGTCGGGTTTCTTCCTCTTTGGTTCCCCAGTAGGCTTAGTGCTGGCTCTTCGAAAAACTGTGATGTCTGCCTTGGAGGgtgagtattaatgctcttagtcttcttatccctcatccacctctgataat Alignment from Exonerate_coding2genome CCTCCAGGTAGCCTCCACAGCTACCTCCTCTGGGGAGCCCCGCCGTGCAAGCACAGCCTCCTGTCCACCTGCCAGTTCTGAGGCTCCTGACGGCCCC-ACGAACGCTGCTCGCCTGGACTTCAAGGTCTCAGGCTTCTTCCTCTTTGGCTCCCCACTGGGCCTGGTGCTGGCTCTTCGCAAAACCGTGATGCCCGCCTTGGAGG cagtcctaaaataaaaacctgggcttatgtgaatgttttcttttgcctagCCTGCAGTTAGCAGCAACAGCAACGTCCTCTGGAGAACCATGCCATGCTAGCACATCCTCCTGTCCACCAGCAAGTTCTGAAGCTCATGATGGGCCACACAAATGCTGCTCACCTTGACTTCAGAGTGTCGGGTTTCTTCCTCTTTGGTTCCCCAGTAGGCTTAGTGCTGGCTCTTCGAAAAACTGTGATGTCTGCCTTGGAGGgtgagtattaatgctcttagtcttcttatccctcatccacctctgataat Alignment from GeneWise CCTCCAGGTAGCCTCCACAGCTACCTCCTCTGGGGAGCCCCGCCGTGCAAGCACAGCCTCCTGTCCACCTGCCAGTTCTGAGGCTCCTGACGGCCCC-ACGAACGCTGCTCGCCTGGACTTCAAGGTCTCAGGCTTCTTCCTCTTTGGCTCCCCACTGGGCCTGGTGCTGGCTCTTCGCAAAACCGTGATGCCCGCCTTGGAGG cagtcctaaaataaaaacctgggcttatgtgaatgttttcttttgcctagCCTGCAGTTAGCAGCAACAGCAACGTCCTCTGGAGAACCATGCCATGCTAGCACATCCTCCTGTCCACCAGCAAGTTCTGAAGCTCATGATGGGCCACACAAATGCTGCTCACCTTGACTTCAGAGTGTCGGGTTTCTTCCTCTTTGGTTCCCCAGTAGGCTTAGTGCTGGCTCTTCGAAAAACTGTGATGTCTGCCTTGGAGGgtgagtattaatgctcttagtcttcttatccctcatccacctctgataat #### Pitpnm1_ID322_19 --> 0 - 2 Original Alignment TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTAC-CCTGTGCGCATGGTGGTCag TGTAGTTACACTCACCAGAGAAGAGgtatgtcttggttgctgttttgcagGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACAAACAGTTCTGGCCATCTTACCTTCCCAGTGTCATCAGAGCATGCACTGGGCATTGGTGTCTACCCCTTTGCACATGGTGGTCaggtaggagagttagaagttagctactaatttcactcctgtgaaatgctgac Alignment from CESAR TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTAC-CCTGTGCGCATGGTGGTCag TGTAGTTACACTCACCAGAGAAGAGgtctgacttggttgctgttttgcagGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACAAACAGTTCTGGCCATCTTACCTTCCCAGTGTCATCAGAGCATGCACTGGGCATTGGTGTCTACCCCTTTGCACATGGTGGTCaggtaggagagttagaagttagctactaatttcactcctgtgaaatgctgac Alignment from Spaln_aa2Genome TGTGGTCACGCTCACTGGAGAGAAG-------------------------GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCT-GTGCGCATGGTGGTCAG TGTAGTTACACTCACCAGAGAAGAGGTATGTCTTGGTTGCTGTTTTGCAgGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACAAACAGTTCTGGCCATCTTACCTTCCCAGTGTCATCAGAGCATGCACTGGGCATTGGTGTCTACCCCtTTGCACATGGTGGTCAGgtaggagagttagaagttagctactaatttcactcctgtgaaatgctgac Alignment from Spaln_nt2Genome TGTGGTCACGCTCACTGGAGA-------------------------GAAGGTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCC-TGTGCGCATGGTGGTCAG TGTAGTTACACTCACCAGAGAAGAGGTATGTCTTGGTTGCTGTTTTGCAGGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACAAACAGTTCTGGCCATCTTACCTTCCCAGTGTCATCAGAGCATGCACTGGGCATTGGTGTCTACCCCTTTGCACATGGTGGTCAGgtaggagagttagaagttagctactaatttcactcctgtgaaatgctgac Alignment from Pairagon TGTGGTCACGCTCACTGGAGA-------------------------GAAGGTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTA-CCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCAGAGAAGAGGTATGTCTTGGTTGCTGTTTTGCAGGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACAAACAGTTCTGGCCATCTTACCTTCCCAGTGTCATCAGAGCATGCACTGGGCATTGGTGTCTACCCCTTTGCACATGGTGGTCAGgtaggagagttagaagttagctactaatttcactcctgtgaaatgctgac Alignment from Exonerate_protein2genome TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTAC-CCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCAGAGAAGAGgtatgtcttggttgctgttttgcaggttgatGTC------TATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACAAACAGTTCTGGCCATCTTACCTTCCCAGTGTCATCAGAGCATGCACTGGGCATTGGTGTCTACCCCTTTGCACATGGTGGTCAGgtaggagagttagaagttagctactaatttcactcctgtgaaatgctgac Alignment from Exonerate_coding2genome TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTAC-CCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCAGAGAAGAGgtatgtcttggttgctgttttgcaggttgatGTC------TATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACAAACAGTTCTGGCCATCTTACCTTCCCAGTGTCATCAGAGCATGCACTGGGCATTGGTGTCTACCCCTTTGCACATGGTGGTCAGgtaggagagttagaagttagctactaatttcactcctgtgaaatgctgac Alignment from GeneWise TGGTCACGCTCACTGGAGAGAAG---------------------------GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGC---------ATGGTGGTCAG TAGTTACACTCACCA--GAGAAGAGGTATGTCTTGGTTGCTGTTTTGCAGGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACAAACAGTTCTGGCCATCTTACCTTCCCAGTGTCATCAGAGCATGCACTGGGCATTGGTGTCTACCCCTTTGCACATGGTGGTCAGGTAGGAGAgttagaagttagctactaatttcactcctgtgaaatgctgac #### Pitpnm1_ID323_20 --> 1 - 2 Original Alignment gGGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCC-CGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCag cactcctgtgaaatgctgacttactctgtcatttctcctgatttccccaggGGTGACCACACATATGCTGAATGCTGCTTAACCATTGTCTCCCAGAGGTGCTGAAGCAGTGGTTTTCAGCATTGATGGTTCTTTTACTGCAAGTGTCTCAATCATGGGTAGCGACCCCAAGGTGCGAGCTGGAGCAGTAGATGTGGTGaggtcagtccagactaccgggccatatactgatcttctgtctgtgacgtggt Alignment from CESAR gGGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCC-CGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCag cactcctgtgaaatgctgacttactctgtcatttctcctgatttccccaggGGTGACCACACATATGCTGAATGCTGCTTAACCATTGTCTCCCAGAGGTGCTGAAGCAGTGGTTTTCAGCATTGATGGTTCTTTTACTGCAAGTGTCTCAATCATGGGTAGCGACCCCAAGGTGCGAGCTGGAGCAGTAGATGTGGTGaggtcagtccagactaccgggccatatactgatcttctgtctgtgacgtggt Alignment from Spaln_aa2Genome GGGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCC-CGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCAG cactcctgtgaaatgctgacttactctgtcatttctcctgatttccccagGGGTGACCACACATATGCTGAATGCTGCTTAACCATTGTCTCCcAGAGGTGCTGAAGCAGTGGTTTTCAGCATTGATGGTTCTTTTACTGCAAGTGTCTCAATCATGGGTAGCGACCCCAAGGTGCGAGCTGGAGCAGTAGATGTGGTGAGgtcagtccagactaccgggccatatactgatcttctgtctgtgacgtggt Alignment from Spaln_nt2Genome GGGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCC-GAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCAG cactcctgtgaaatgctgacttactctgtcatttctcctgatttccccagGGGTGACCACACATATGCTGAATGCTGCTTAACCATTGTCTCCCAGAGGTGCTGAAGCAGTGGTTTTCAGCATTGATGGTTCTTTTACTGCAAGTGTCTCAATCATGGGTAGCGACCCCAAGGTGCGAGCTGGAGCAGTAGATGTGGTGAGgtcagtccagactaccgggccatatactgatcttctgtctgtgacgtggt Alignment from Pairagon GGGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCC-GAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCAG cactcctgtgaaatgctgacttactctgtcatttctcctgatttccccagGGGTGACCACACATATGCTGAATGCTGCTTAACCATTGTCTCCCAGAGGTGCTGAAGCAGTGGTTTTCAGCATTGATGGTTCTTTTACTGCAAGTGTCTCAATCATGGGTAGCGACCCCAAGGTGCGAGCTGGAGCAGTAGATGTGGTGAGgtcagtccagactaccgggccatatactgatcttctgtctgtgacgtggt Alignment from Exonerate_protein2genome cactcctgtgaaatgctgacttactctgtcatttctcctgatttccccaggggtgaccacacatatgctgaatgctgcttaaccattgtctcccagaggtgctgaagcagtggttttcagcattgatggttcttttactgcaagtgtctcaatcatgggtagcgaccccaaggtgcgagctggagcagtagatgtggtgaggtcagtccagactaccgggccatatactgatcttctgtctgtgacgtggt Alignment from Exonerate_coding2genome cactcctgtgaaatgctgacttactctgtcatttctcctgatttccccaggggtgaccacacatatgctgaatgctgcttaaccattgtctcccagaggtgctgaagcagtggttttcagcattgatggttcttttactgcaagtgtctcaatcatgggtagcgaccccaaggtgcgagctggagcagtagatgtggtgaggtcagtccagactaccgggccatatactgatcttctgtctgtgacgtggt Alignment from GeneWise GGGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTG-TCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCAG cactcctgtgaaatgctgacttactctgtcatttctcctgatttccccagGGGTGACCACACATATGCTGAATGCTGCTTAACCATTGTCTCCCAGAGGTGCTGAAGCAGTGGTTTTCAGCATTGATGGTTCTTTTACTGCAAGTGTCTCAATCATGGGTAGCGACCCCAAGGTGCGAGCTGGAGCAGTAGATGTGGTGAGgtcagtccagactaccgggccatatactgatcttctgtctgtgacgtggt #### Plcb3_ID1903_28 --> 1 - 2 Original Alignment gGAGAAGAAGGAACTCCAGAAGATCCTGGAC-AGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAG---------------gt tcggtatgactctttacacgcaatctgggattggtcttgtatctctgcaggGAGAAAAAGGAGCCTCAAAAGATCCTGGATCAGGGAGCGCAACAATAGCATTTCAGAAGCCAAGACAAGGGAGAAACATAAGAAGGAAGTGTATGGTCACTGGgtgtacagactccgagaagcaggccaatacttaagctgtttccttcatgttc Alignment from CESAR gGAGAAGAAGGAACTCCAGAAGATCCTGGAC-AGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGgt tcggtatgactctttacacgcaatctgggattggtcttgtatctctgcaggGAGAAAAAGGAGCCTCAAAAGATCCTGGATCAGGGAGCGCAACAATAGCATTTCAGAAGCCAAGACAAGGGAGAAACATAAGAAGGAAgtgtatggtcactgggtgtacagactccgagaagcaggccaatacttaagcaactgtctttcttgat Alignment from Spaln_aa2Genome GGAGAAGAAGGAACTCCAGAAGATCCTGGAC-AGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT tcggtatgactctttacacgcaatctgggattggtcttgtatctctgcagGGAGAAAAAGGAGCCTCAAAAGATCCTGGATcAGGGAGCGCAACAATAGCATTTCAGAAGCCAAGACAAGGGAGAAACATAAGAAGGAAGTgtatggtcactgggtgtacagactccgagaagcaggccaatacttaagctgtttccttcatgttc Alignment from Spaln_nt2Genome GGAGAAGAAGGAACTCCAGAAGATCCTGGA-CAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT tcggtatgactctttacacgcaatctgggattggtcttgtatctctgcagGGAGAAAAAGGAGCCTCAAAAGATCCTGGATCAGGGAGCGCAACAATAGCATTTCAGAAGCCAAGACAAGGGAGAAACATAAGAAGGAAGTgtatggtcactgggtgtacagactccgagaagcaggccaatacttaagctgtttccttcatgttc Alignment from Pairagon GGAGAAGAAGGAACTCCAGAAGATCCTGGA-CAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT tcggtatgactctttacacgcaatctgggattggtcttgtatctctgcagGGAGAAAAAGGAGCCTCAAAAGATCCTGGATCAGGGAGCGCAACAATAGCATTTCAGAAGCCAAGACAAGGGAGAAACATAAGAAGGAAGTgtatggtcactgggtgtacagactccgagaagcaggccaatacttaagctgtttccttcatgttc Alignment from Exonerate_protein2genome GGAGAAGAAGGAACTCCAGAAGATCCTGGAC-AGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT tcggtatgactctttacacgcaatctgggattggtcttgtatctctgcagGGAGAAAAAGGAGCCTCAAAAGATCCTGGATCAGGGAGCGCAACAATAGCATTTCAGAAGCCAAGACAAGGGAGAAACATAAGAAGGAAGTgtatggtcactgggtgtacagactccgagaagcaggccaatacttaagctgtttccttcatgttc Alignment from Exonerate_coding2genome GGAGAAGAAGGAACTCCAGAAGATCCTGGAC-AGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT tcggtatgactctttacacgcaatctgggattggtcttgtatctctgcagGGAGAAAAAGGAGCCTCAAAAGATCCTGGATCAGGGAGCGCAACAATAGCATTTCAGAAGCCAAGACAAGGGAGAAACATAAGAAGGAAGTgtatggtcactgggtgtacagactccgagaagcaggccaatacttaagctgtttccttcatgttc Alignment from GeneWise --GAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT tcggtatgactctttacacgcaatctgggattggtcttgtatctctgcagGGAGAAAAAGGAGCCTCAAAAGATCCTGGATCAGGGAGCGCAACAATAGCATTTCAGAAGCCAAGACAAGGGAGAAACATAAGAAGGAAGTgtatggtcactgggtgtacagactccgagaagcaggccaatacttaagctgtttccttcatgttc #### Plcb3_ID1905_26 --> 1 - 0 Original Alignment gGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGG-GAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA agaggtccagttgtatcagtcagagagtccatatccatcaccaccaccaggGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAATTGAGACGAAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGgtaggagatcagtgggggatggtgcttgatcttctccctctgcagGCGCA Alignment from CESAR gGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGG-GAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA agaggtccagttgtatcagtcagagagtccatatccatcaccaccaccaggGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAATTGAGACGAAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGgtaggagatcagtgggggatggtgtcttctcttgtctcttttaagGCGCA Alignment from Spaln_aa2Genome GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGG-GAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA agaggtccagttgtatcagtcagagagtccatatccatcaccaccaccagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAATTGAGAcGAAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGgtaggagatcagtgggggatggtgcttgatcttctccctctgcagGCGCA Alignment from Spaln_nt2Genome GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGG-GAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA agaggtccagttgtatcagtcagagagtccatatccatcaccaccaccagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAATTGAGACGAAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGgtaggagatcagtgggggatggtgcttgatcttctccctctgcagGCGCA Alignment from Pairagon GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGG-GAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA agaggtccagttgtatcagtcagagagtccatatccatcaccaccaccagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAATTGAGACGAAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGgtaggagatcagtgggggatggtgcttgatcttctccctctgcagGCGCA Alignment from Exonerate_protein2genome GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGG-GAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA agaggtccagttgtatcagtcagagagtccatatccatcaccaccaccagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAATTGAGACGAAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGgtaggagatcagtgggggatggtgcttgatcttctccctctgcagGCGCA Alignment from Exonerate_coding2genome GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGG-GAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA agaggtccagttgtatcagtcagagagtccatatccatcaccaccaccagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAATTGAGACGAAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGgtaggagatcagtgggggatggtgcttgatcttctccctctgcagGCGCA Alignment from GeneWise GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGG-GAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGA---------------------------------------------CAGGCTCA agaggtccagttgtatcagtcagagagtccatatccatcaccaccaccagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAATTGAGACGAAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGGTAGGAGATCAGTGGGGGATGGTGCTTGATCTTCTCCCTCTGCAGGCGCA #### Plcb3_ID1906_25 --> 2 - 2 Original Alignment agGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTA-CGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCct ggcatcccacaacagccacaccaatcaatttcctctcttccccattctagaaGTAATCCCCACACCCTTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCCGCAGCCGACAGTGTGACCAAGACCTACAGGAATTACATAAGAAGCACCAGCGTAAGGTTATAGCACTCACACGCCGTTTGCTGGATGGCCTGGCTCAGACAAGAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCctgtaagaacactccattacaccataacttggcagtgtgtacttgctggaat Alignment from CESAR agGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTA-CGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCct ggcatcccacaacagccacaccaatcaatttcctctcttccccattctagaaGTAATCCCCACACCCTTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCCGCAGCCGACAGTGTGACCAAGACCTACAGGAATTACATAAGAAGCACCAGCGTAAGGTTATAGCACTCACACGCCGTTTGCTGGATGGCCTGGCTCAGACAAGAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCctgtaagaacactccattacaccataacttggcagtgtgtacttgctggaat Alignment from Spaln_aa2Genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTA-CGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ggcatcccacaacagccacaccaatcaatttcctctcttccccattctagAAGTAATCCCCACACCCTTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTcCGCAGCCGACAGTGTGACCAAGACCTACAGGAATTACATAAGAAGCACCAGCGTAAGGTTATAGCACTCACACGCCGTTTGCTGGATGGCCTGGCTCAGACAAGAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCCTgtaagaacactccattacaccataacttggcagtgtgtacttgctggaat Alignment from Spaln_nt2Genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGG-AGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ggcatcccacaacagccacaccaatcaatttcctctcttccccattctagAAGTAATCCCCACACCCTTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCCGCAGCCGACAGTGTGACCAAGACCTACAGGAATTACATAAGAAGCACCAGCGTAAGGTTATAGCACTCACACGCCGTTTGCTGGATGGCCTGGCTCAGACAAGAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCCTgtaagaacactccattacaccataacttggcagtgtgtacttgctggaat Alignment from Pairagon AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGC-TACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ggcatcccacaacagccacaccaatcaatttcctctcttccccattctagAAGTAATCCCCACACCCTTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCCGCAGCCGACAGTGTGACCAAGACCTACAGGAATTACATAAGAAGCACCAGCGTAAGGTTATAGCACTCACACGCCGTTTGCTGGATGGCCTGGCTCAGACAAGAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCCTgtaagaacactccattacaccataacttggcagtgtgtacttgctggaat Alignment from Exonerate_protein2genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTA-CGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ggcatcccacaacagccacaccaatcaatttcctctcttccccattctagAAGTAATCCCCACACCCTTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCCGCAGCCGACAGTGTGACCAAGACCTACAGGAATTACATAAGAAGCACCAGCGTAAGGTTATAGCACTCACACGCCGTTTGCTGGATGGCCTGGCTCAGACAAGAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCCTgtaagaacactccattacaccataacttggcagtgtgtacttgctggaat Alignment from Exonerate_coding2genome GGCAGCGAGATGATTTGATTGCCAGCATCCTCTCTGAGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTA-CGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ggcatcccacaacaGCCACACCAATCAATTTCCTCTCTTCCCCATTCTAGAAGTAATCCCCACACCCTTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCCGCAGCCGACAGTGTGACCAAGACCTACAGGAATTACATAAGAAGCACCAGCGTAAGGTTATAGCACTCACACGCCGTTTGCTGGATGGCCTGGCTCAGACAAGAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCCTgtaagaacactccattacaccataacttggcagtgtgtacttgctggaat Alignment from GeneWise -CAGCGAGATGATTTGATTGCCAGCATCCTCTCTGAGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAG-CTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ggcatcccacaacagCCACACCAATCAATTTCCTCTCTTCCCCATTCTAGAAGTAATCCCCACACCCTTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCCGCAGCCGACAGTGTGACCAAGACCTACAGGAATTACATAAGAAGCACCAGCGTAAGGTTATAGCACTCACACGCCGTTTGCTGGATGGCCTGGCTCAGACAAGAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCCTgtaagaacactccattacaccataacttggcagtgtgtacttgctggaat #### Plcb3_ID1910_21 --> 2 - 1 Original Alignment gaTACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATC-TACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGg tgacctctaaacagttacaaaattgtgtccttcccttctgttattcccaggcTACCACTATGTGTGCTTGCGAAATGAAGCTAACCAATCTTTGTGCTTGCCTGCCCTGCTTATACTACACTGAAGCTTCCGACTACATCCCAGATGACCACCAGggtatgagagaagactggcgaaatgaagtgaaagtctcatatggtgatcag Alignment from CESAR gaTACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATC-TACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGg tgacctctaaacagttacaaaattgtgtccttcccttctgttattcccaggcTACCACTATGTGTGCTTGCGAAATGAAGCTAACCAATCTTTGTGCTTGCCTGCCCTGCTTATACTACACTGAAGCTTCCGACTACATCCCAGATGACCACCAGggtatgagagaagactggcgaaatgaagtgaaagtctcatatggtgatcag Alignment from Spaln_aa2Genome GATACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATC-TACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG tgacctctaaacagttacaaaattgtgtccttcccttctgttattcccagGCTACCACTATGTGTGCTTGCGAAATGAAGCTAACCAATCTTTGTGCTTGCCTGCCCTGCTTATAcTACACTGAAGCTTCCGACTACATCCCAGATGACCACCAGGgtatgagagaagactggcgaaatgaagtgaaagtctcatatggtgatcag Alignment from Spaln_nt2Genome GATACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTAT-CTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG tgacctctaaacagttacaaaattgtgtccttcccttctgttattcccagGCTACCACTATGTGTGCTTGCGAAATGAAGCTAACCAATCTTTGTGCTTGCCTGCCCTGCTTATACTACACTGAAGCTTCCGACTACATCCCAGATGACCACCAGGgtatgagagaagactggcgaaatgaagtgaaagtctcatatggtgatcag Alignment from Pairagon -----------------------------------------------CAGGATACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTAT-CTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG TGACCTCTAAACAGTTACAAAATTGTGTCCTTCCCTTCTGTTATTCCCAGGCTACCACTATGTGTGCTTGCGAAATGAAGCTAACCAATCTTTGTGCTTGCCTGCCCTGCTTATACTACACTGAAGCTTCCGACTACATCCCAGATGACCACCAGGgtatgagagaagactggcgaaatgaagtgaaagtctcatatggtgatcag Alignment from Exonerate_protein2genome GATACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATC-TACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG tgacctctaaacagttacaaaattgtgtccttcccttctgttattcccagGCTACCACTATGTGTGCTTGCGAAATGAAGCTAACCAATCTTTGTGCTTGCCTGCCCTGCTTATACTACACTGAAGCTTCCGACTACATCCCAGATGACCACCAGGgtatgagagaagactggcgaaatgaagtgaaagtctcatatggtgatcag Alignment from Exonerate_coding2genome GATACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATC-TACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG tgacctctaaacagttacaaaattgtgtccttcccttctgttattcccagGCTACCACTATGTGTGCTTGCGAAATGAAGCTAACCAATCTTTGTGCTTGCCTGCCCTGCTTATACTACACTGAAGCTTCCGACTACATCCCAGATGACCACCAGGgtatgagagaagactggcgaaatgaagtgaaagtctcatatggtgatcag Alignment from GeneWise GATACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTT-ATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG tgacctctaaacagttacaaaattgtgtccttcccttctgttattcccagGCTACCACTATGTGTGCTTGCGAAATGAAGCTAACCAATCTTTGTGCTTGCCTGCCCTGCTTATACTACACTGAAGCTTCCGACTACATCCCAGATGACCACCAGGgtatgagagaagactggcgaaatgaagtgaaagtctcatatggtgatcag #### Plcb3_ID1914_17 --> 1 - 1 Original Alignment aTACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGT-TGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGg cctcctggctgctggatccccaggacaattaccgttttgttcgtgcacagaTACAACAGACAACAGCTCAGCCAGATATACTCCAGGAGCAAACAGGTGGACTCTTCAAACTACATGCCTTACCTCTTTTGGAATGTGGGCCTGCCAACTTGTTGCCCTCAACTTCCAGAGTCTGggtaggtatatgtttgcttttggcctccctaataacctacatttgattttg Alignment from CESAR aTACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGT-TGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGg cctcctggctgctggatccccaggacaattaccgttttgttcgtgcacagaTACAACAGACAACAGCTCAGCCAGATATACTCCAGGAGCAAACAGGTGGACTCTTCAAACTACATGCCTTACCTCTTTTGGAATGTGGGCCTGCCAACTTGTTGCCCTCAACTTCCAGAGTCTGggtaggtatatgtttgcttttggcctccctaataacctacatttgattttg Alignment from Spaln_aa2Genome ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGT-TGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG cctcctggctgctggatccccaggacaattaccgttttgttcgtgcacagATACAACAGACAACAGCTCAGCCAGATATACTCCAGGAGCAAACAGGTGGACTCTTCAAACTACATGCCTTACCTCTTTTGGAATGTGGGCcTGCCAACTTGTTGCCCTCAACTTCCAGAGTCTGGgtaggtatatgtttgcttttggcctccctaataacctacatttgattttg Alignment from Spaln_nt2Genome ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGT-TGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG cctcctggctgctggatccccaggacaattaccgttttgttcgtgcacagATACAACAGACAACAGCTCAGCCAGATATACTCCAGGAGCAAACAGGTGGACTCTTCAAACTACATGCCTTACCTCTTTTGGAATGTGGGCCTGCCAACTTGTTGCCCTCAACTTCCAGAGTCTGGgtaggtatatgtttgcttttggcctccctaataacctacatttgattttg Alignment from Pairagon ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGG-TTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG cctcctggctgctggatccccaggacaattaccgttttgttcgtgcacagATACAACAGACAACAGCTCAGCCAGATATACTCCAGGAGCAAACAGGTGGACTCTTCAAACTACATGCCTTACCTCTTTTGGAATGTGGGCCTGCCAACTTGTTGCCCTCAACTTCCAGAGTCTGGgtaggtatatgtttgcttttggcctccctaataacctacatttgattttg Alignment from Exonerate_protein2genome ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGT-TGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG cctcctggctgctggatccccaggacaattaccgttttgttcgtgcacagATACAACAGACAACAGCTCAGCCAGATATACTCCAGGAGCAAACAGGTGGACTCTTCAAACTACATGCCTTACCTCTTTTGGAATGTGGGCCTGCCAACTTGTTGCCCTCAACTTCCAGAGTCTGGgtaggtatatgtttgcttttggcctccctaataacctacatttgattttg Alignment from Exonerate_coding2genome ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGT-TGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG cctcctggctgctggatccccaggacaattaccgttttgttcgtgcacagATACAACAGACAACAGCTCAGCCAGATATACTCCAGGAGCAAACAGGTGGACTCTTCAAACTACATGCCTTACCTCTTTTGGAATGTGGGCCTGCCAACTTGTTGCCCTCAACTTCCAGAGTCTGGgtaggtatatgtttgcttttggcctccctaataacctacatttgattttg Alignment from GeneWise ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTG-GGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG cctcctggctgctggatccccaggacaattaccgttttgttcgtgcacagATACAACAGACAACAGCTCAGCCAGATATACTCCAGGAGCAAACAGGTGGACTCTTCAAACTACATGCCTTACCTCTTTTGGAATGTGGGCCTGCCAACTTGTTGCCCTCAACTTCCAGAGTCTGGgtaggtatatgtttgcttttggcctccctaataacctacatttgattttg #### Plcb3_ID1922_9 --> 1 - 1 Original Alignment aGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAAC------CAGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAG-AAGTACGAGACGAACAAACAGTTCCTGGAGCGCg agtagtaaggagctaccatcatgagtgttcaattattttgctttatacagaGGCATGAAAGGCAAGCCTTACCTT---CTGGAGCAGCTTATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGACCCGAGACTG---------------------------TCCTCACAAGCTCGTCTACTAATAGAACGAGTATGAGACTAACAAACAGTTTCTGGAGTGTggtaaggccatacaggtaagatagtggtactagtgggatctgctttgctta Alignment from CESAR aGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAACCAG------AAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAG-AAGTACGAGACGAACAAACAGTTCCTGGAGCGCg agtagtaaggagctaccatcatgagtgttcaattattttgctttatacagaGGCATGAAAGGCAAGCCTTACCTT---CTGGAGCAGCTTATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGACCCGAGACTG---------------------------TCCTCACAAGCTCGTCTACTAATAGAACGAGTATGAGACTAACAAACAGTTTCTGGAGTGTggtaaggccatacaggtaagatagtggtactagtgggatctgctttgctta Alignment from Spaln_aa2Genome AGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAACCAG------AAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAG-TACGAGACGAACAAACAGTTCCTGGAGCGCG agtagtaaggagctaccatcatgagtgttcaattattttgctttatacagAGGCATGAAAGGCAAGCCTTACCTT---CTGGAGCAGCTTATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGACCCGAGACTG---------------------------TCCTCACAAGCTCGTCTACTAATAGAACGAgTATGAGACTAACAAACAGTTTCTGGAGTGTGgtaaggccatacaggtaagatagtggtactagtgggatctgctttgctta Alignment from Spaln_nt2Genome AGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAACCA------GAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGA-AGTACGAGACGAACAAACAGTTCCTGGAGCGCG agtagtaaggagctaccatcatgagtgttcaattattttgctttatacagAGGCATGAAAGGCAAGCCTTACCT---TCTGGAGCAGCTTATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGACCCGAGACT---------------------------GTCCTCACAAGCTCGTCTACTAATAGAACGAGTATGAGACTAACAAACAGTTTCTGGAGTGTGgtaaggccatacaggtaagatagtggtactagtgggatctgctttgctta Alignment from Pairagon AGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAACC------AGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAG-AAGTACGAGACGAACAAACAGTTCCTGGAGCGCG agtagtaaggagctaccatcatgagtgttcaattattttgctttatacagAGGCATGAAAGGCAAGCCTTACCT---TCTGGAGCAGCTTATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGACCCGAGACT---------------------------GTCCTCACAAGCTCGTCTACTAATAGAACGAGTATGAGACTAACAAACAGTTTCTGGAGTGTGgtaaggccatacaggtaagatagtggtactagtgggatctgctttgctta Alignment from Exonerate_protein2genome CCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAG-TACGAGACGAACAAACAGTTCCTGGAGCGCG agtagtaaggagctaccatcatgagtgttcaattattttgctttatacagaggcatgaaaggcaagccttaccttctggagcagcttatggactttgtgaaccaacaagagaagcagagagacCCGAGACTGTCCTCACAAGCTCGTCTACTAATAGAACGAGTATGAGACTAACAAACAGTTTCTGGAGTGTGgtaaggccatacaggtaagatagtggtactagtgggatctgctttgctta Alignment from Exonerate_coding2genome agtagtaaggagctaccatcatgagtgttcaattattttgctttatacagaggcatgaaaggcaagccttaccttctggagcagcttatggactttgtgaaccaacaagagaagcagagagacccgagactgtcctcacaagctcgtctactaatagaacgagtatgagactaacaaacagtttctggagtgtggtaaggccatacaggtaagatagtggtactagtgggatctgctttgctta Alignment from GeneWise AGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAACCAG------AAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAG-AAGTACGAGACGAACAAACAGTTCCTGGAGCGCG agtagtaaggagctaccatcatgagtgttcaattattttgctttatacagAGGCATGAAAGGCAAGCCTTACCTT---CTGGAGCAGCTTATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGACCCGAGACTG---------------------------TCCTCACAAGCTCGTCTACTAATAGAACGAGTATGAGACTAACAAACAGTTTCTGGAGTGTGgtaaggccatacaggtaagatagtggtactagtgggatctgctttgctta #### Plcb3_ID1924_7 --> 1 - 2 Original Alignment cATTCTGAAGATGTTCTCGGCGGACAAGAAGCGG-GTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAgt ttctgctgcctgtctaaccatttgaactttctgcccttatggtcccttagcATTCTGAAGATGTTCTCAGCAGATAAGAAGTGCCGTAGAGAACACGCTGGAATCCTGTGGTCTCAACTTGAACCGAgtgtaggtgtcaggaccagtgtgccagttgggtcagattggcttctgcaatc Alignment from CESAR cATTCTGAAGATGTTCTCGGCGGACAAGAAGCGG-GTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAgt ttctgctgcctgtctaaccatttgaactttctgcccttatggtcccttagcATTCTGAAGATGTTCTCAGCAGATAAGAAGTGCCGTAGAGAACACGCTGGAATCCTGTGGTCTCAACTTGAACCGAgtgtaggtgtcaggaccagtgtgccagttgggtcagattggcttctgcaatc Alignment from Spaln_aa2Genome CATTCTGAAGATGTTCTCGGCGGACAAGAAGCGG-GTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAGT ttctgctgcctgtctaaccatttgaactttctgcccttatggtcccttagCATTCTGAAGATGTTCTCAGCAGATAAGAAGTGCcGTAGAGAACACGCTGGAATCCTGTGGTCTCAACTTGAACCGAGTgtaggtgtcaggaccagtgtgccagttgggtcagattggcttctgcaatc Alignment from Spaln_nt2Genome CATTCTGAAGATGTTCTCGGCGGACAAGAAGCGG-GTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAGT ttctgctgcctgtctaaccatttgaactttctgcccttatggtcccttagCATTCTGAAGATGTTCTCAGCAGATAAGAAGTGCCGTAGAGAACACGCTGGAATCCTGTGGTCTCAACTTGAACCGAGTgtaggtgtcaggaccagtgtgccagttgggtcagattggcttctgcaatc Alignment from Pairagon CATTCTGAAGATGTTCTCGGCGGACAAGAAGCG-GGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAGT ttctgctgcctgtctaaccatttgaactttctgcccttatggtcccttagCATTCTGAAGATGTTCTCAGCAGATAAGAAGTGCCGTAGAGAACACGCTGGAATCCTGTGGTCTCAACTTGAACCGAGTgtaggtgtcaggaccagtgtgccagttgggtcagattggcttctgcaatc Alignment from Exonerate_protein2genome ttctgctgcctgtctaaccatttgaactttctgcccttatggtcccttagcattctgaagatgttctcagcagataagaagtgccgtagagaacacgctggaatcctgtggtctcaacttgaaccgagtgtaggtgtcaggaccagtgtgccagttgggtcagattggcttctgcaatc Alignment from Exonerate_coding2genome ttctgctgcctgtctaaccatttgaactttctgcccttatggtcccttagcattctgaagatgttctcagcagataagaagtgccgtagagaacacgctggaatcctgtggtctcaacttgaaccgagtgtaggtgtcaggaccagtgtgccagttgggtcagattggcttctgcaatc Alignment from GeneWise CATTCTGAAGATGTTCTCGGCGGACAAGAAG-CGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAGT ttctgctgcctgtctaaccatttgaactttctgcccttatggtcccttagCATTCTGAAGATGTTCTCAGCAGATAAGAAGTGCCGTAGAGAACACGCTGGAATCCTGTGGTCTCAACTTGAACCGAGTgtaggtgtcaggaccagtgtgccagttgggtcagattggcttctgcaatc #### Plcb3_ID1926_5 --> 0 - 2 Original Alignment GTCTGGTCAGAGGAGTTGTTTAAACTG-GCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAgc gggattaaccgcctgctccattccactaagcccttctgcttttccacaagGTATGGTCAGAGGAGTTGTTTAGATTACGCCATGAACATATTGGCCCAGAATGCATCCCAAAACACATTCTCGCGTAAAgcgtgaggctacaaccacacaggggggtggtagaatgtctcactgtgcacca Alignment from CESAR GTCTGGTCAGAGGAGTTGTTTAAACTG-GCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAgc gggattaaccgcctgctccattccactaagcccttctgcttttccacaagGTATGGTCAGAGGAGTTGTTTAGATTACGCCATGAACATATTGGCCCAGAATGCATCCCAAAACACATTCTCGCGTAAAgcgtgaggctacaaccacacaggggggtggtagaatgtctcactgtgcacca Alignment from Spaln_aa2Genome GTCTGGTCAGAGGAGTTGTTTAAACTG-GCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC gggattaaccgcctgctccattccactaagcccttctgcttttccacaagGTATGGTCAGAGGAGTTGTTTAGATTAcGCCATGAACATATTGGCCCAGAATGCATCCCAAAACACATTCTCGCGTAAAGCgtgaggctacaaccacacaggggggtggtagaatgtctcactgtgcacca Alignment from Spaln_nt2Genome GTCTGGTCAGAGGAGTTGTTTAAACTG-GCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC gggattaaccgcctgctccattccactaagcccttctgcttttccacaagGTATGGTCAGAGGAGTTGTTTAGATTACGCCATGAACATATTGGCCCAGAATGCATCCCAAAACACATTCTCGCGTAAAGCgtgaggctacaaccacacaggggggtggtagaatgtctcactgtgcacca Alignment from Pairagon GTCTGGTCAGAGGAGTTGTTTAAACTG-GCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC gggattaaccgcctgctccattccactaagcccttctgcttttccacaagGTATGGTCAGAGGAGTTGTTTAGATTACGCCATGAACATATTGGCCCAGAATGCATCCCAAAACACATTCTCGCGTAAAGCgtgaggctacaaccacacaggggggtggtagaatgtctcactgtgcacca Alignment from Exonerate_protein2genome GTCTGGTCAGAGGAGTTGTTTAAACTG-GCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC gggattaaccgcctgctccattccactaagcccttctgcttttccacaagGTATGGTCAGAGGAGTTGTTTAGATTACGCCATGAACATATTGGCCCAGAATGCATCCCAAAACACATTCTCGCGTAAAGCgtgaggctacaaccacacaggggggtggtagaatgtctcactgtgcacca Alignment from Exonerate_coding2genome gggattaaccgcctgctccattccactaagcccttctgcttttccacaaggtatggtcagaggagttgtttagattacgccatgaacatattggcccagaatgcatcccaaaacacattctcgcgtaaagcgtgaggctacaaccacacaggggggtggtagaatgtctcactgtgcacca Alignment from GeneWise GTCTGGTCAGAGGAGTTGTTTAAACTG-GCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC gggattaaccgcctgctccattccactaagcccttctgcttttccacaagGTATGGTCAGAGGAGTTGTTTAGATTACGCCATGAACATATTGGCCCAGAATGCATCCCAAAACACATTCTCGCGTAAAGCgtgaggctacaaccacacaggggggtggtagaatgtctcactgtgcacca #### Plcb3_ID1927_4 --> 0 - 0 Original Alignment GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGG-CCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG cacaccactttataggcacattttgaactttcaattttggttatttgtagGATCCTAAGATTCGGGAAGTC------TTTGGTGGCCCTGACACACGACTGGAGGAGAGATTGATG---------ACTGGGCCCGGATTTAGTAACTACCACATTCTTGAATTTCATGGCTGTGCAGGATGGTACAGTTAAGgtatgtccagcctgatctccatattgaaggcattagtacattcaaacctt Alignment from CESAR GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG cacaccactttataggcacattttgaactttcaattttggttatttgtagGATCCTAAGATTCGGGAAGTC------TTTGGTGGCCCTGACACACGACTGGAGGAGAGATTGATGA--CTG------GGCCCGGATTTAGTAACTACCACATTCTTGAATTTCATGGCTGTGCAGGATGGTACAGTTAAGgtatgtccagcctgatctccatattgaaggcattagtacattcaaacctt Alignment from Spaln_aa2Genome GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG cacaccactttataggcacattttgaactttcaattttggttatttgtagGATCCTAAGATTCGGGAAGTC------TTTGGTGGCCCTGACACACGACTGGAGGAGAGATTGATGACTG--------GGCCCGGATTTAGTAACTACCACATTCTTGAATTTCATGGCTGTGCAGGATGGTACAGTTAAGgtatgtccagcctgatctccatattgaaggcattagtacattcaaacctt Alignment from Spaln_nt2Genome GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG cacaccactttataggcacattttgaactttcaattttggttatttgtagGATCCTAAGATTCGGGAAGT------CTTTGGTGGCCCTGACACACGACTGGAGGAGAGATTGATGACTG--------GGCCCGGATTTAGTAACTACCACATTCTTGAATTTCATGGCTGTGCAGGATGGTACAGTTAAGgtatgtccagcctgatctccatattgaaggcattagtacattcaaacctt Alignment from Pairagon GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG cacaccactttataggcacattttgaactttcaattttggttatttgtagGATCCTAAGATTCGGGAAGT------CTTTGGTGGCCCTGACACACGACTGGAGGAGAGATTGATGACTG--------GGCCCGGATTTAGTAACTACCACATTCTTGAATTTCATGGCTGTGCAGGATGGTACAGTTAAGgtatgtccagcctgatctccatattgaaggcattagtacattcaaacctt Alignment from Exonerate_protein2genome GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCA-GATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG cacaccactttataggcacattttgaactttcaattttggttatttgtagGATCCTAAGATTCGGGAAGTC------TTTGGTGGCCCTGACACACGACTGGAGGAGAGATTGATGACT---------GGGCCCGGATTTAGTAACTACCACATTCTTGAATTTCATGGCTGTGCAGGATGGTACAGTTAAGgtatgtccagcctgatctccatattgaaggcattagtacattcaaacctt Alignment from Exonerate_coding2genome cacaccactttataggcacattttgaactttcaattttggttatttgtaggatcctaagattcgggaagtctttggtggccctgacacacgactggaggagagattgatgactgggcccggatttagtaactaccacattcttgaatttcatggctgtgcaggatggtacagttaaggtatgtccagcctgatctccatattgaaggcattagtacattcaaacctt Alignment from GeneWise GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG cacaccactttataggcacattttgaactttcaattttggttatttgtagGATCCTAAGATTCGGGAAGTC------TTTGGTGGCCCTGACACACGACTGGAGGAGAGATTGATGACTG--------GGCCCGGATTTAGTAACTACCACATTCTTGAATTTCATGGCTGTGCAGGATGGTACAGTTAAGgtatgtccagcctgatctccatattgaaggcattagtacattcaaacctt #### Plcb3_ID1928_3 --> 0 - 0 Original Alignment GAGGTGGACACA-CTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtgctgtggacaaccttgtaccttgaactgtctctgtgctttttaaagGAGGTGGACACACCTGGATATCAGCTCAATCAGAGATACAAGGACAGGTCGTTATGCTCACCTGCCCAAAgtgagtccaccggctttgcacatgtaaataccacaccactttataggcac Alignment from CESAR GAGGTGGACACA-CTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtgctgtggacaaccttgtaccttgaactgtctctgtgctttttaaagGAGGTGGACACACCTGGATATCAGCTCAATCAGAGATACAAGGACAGGTCGTTATGCTCACCTGCCCAAAgtgagtccaccggctttgcacatgtaaataccacaccactttataggcac Alignment from Spaln_aa2Genome GAGGTGGACACA-CTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtgctgtggacaaccttgtaccttgaactgtctctgtgctttttaaagGAGGTGGACACAcCTGGATATCAGCTCAATCAGAGATACAAGGACAGGTCGTTATGCTCACCTGCCCAAAgtgagtccaccggctttgcacatgtaaataccacaccactttataggcac Alignment from Spaln_nt2Genome GAGGTGGACACAC-TGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtgctgtggacaaccttgtaccttgaactgtctctgtgctttttaaagGAGGTGGACACACCTGGATATCAGCTCAATCAGAGATACAAGGACAGGTCGTTATGCTCACCTGCCCAAAgtgagtccaccggctttgcacatgtaaataccacaccactttataggcac Alignment from Pairagon GAGGTGGACACA-CTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtgctgtggacaaccttgtaccttgaactgtctctgtgctttttaaagGAGGTGGACACACCTGGATATCAGCTCAATCAGAGATACAAGGACAGGTCGTTATGCTCACCTGCCCAAAgtgagtccaccggctttgcacatgtaaataccacaccactttataggcac Alignment from Exonerate_protein2genome GAGGTGGACACA-CTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtgctgtggacaaccttgtaccttgaactgtctctgtgctttttaaagGAGGTGGACACACCTGGATATCAGCTCAATCAGAGATACAAGGACAGGTCGTTATGCTCACCTGCCCAAAgtgagtccaccggctttgcacatgtaaataccacaccactttataggcac Alignment from Exonerate_coding2genome tagtgctgtggacaaccttgtaccttgaactgtctctgtgctttttaaaggaggtggacacacctggatatcagctcaatcagagatacaaggacaggtcgttatgctcacctgcccaaagtgagtccaccggctttgcacatgtaaataccacaccactttataggcac Alignment from GeneWise GAGGTGGACACA-CTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtgctgtggacaaccttgtaccttgaactgtctctgtgctttttaaagGAGGTGGACACACCTGGATATCAGCTCAATCAGAGATACAAGGACAGGTCGTTATGCTCACCTGCCCAAAgtgagtccaccggctttgcacatgtaaataccacaccactttataggcac #### Pnliprp1_ID12765_2 --> 2 - 0 Original Alignment ggAAAGAGGTTTGCTATGACAACCTTGGATGCTTT-TCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG ggaaagcccagtgaccatggaccggcagtttcccatttcctttgaatcagggAAAGAATTTTGTTATCACAACCTTGGGTGCTTTCTCTGATGCGGAACCCTGGGCAGGCACAGCCAATAGACCTCTAAAACTCCTCCCTTGGAGTCCAGAGAAGATCAACACCTGCTTCTTGCTCTACACAAATGAGAACCCCATTGCTTTCCAGgtatgtactgtaggtcctagccgagagccaggtgatcctaccgctttaac Alignment from CESAR ggAAAGAGGTTTGCTATGACAACCTTGGATGCTTT-TCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG ggaaagcccagtgaccatggaccggcagtttcccatttcctttgaatcagggAAAGAATTTTGTTATCACAACCTTGGGTGCTTTCTCTGATGCGGAACCCTGGGCAGGCACAGCCAATAGACCTCTAAAACTCCTCCCTTGGAGTCCAGAGAAGATCAACACCTGCTTCTTGCTCTACACAAATGAGAACCCCATTGCTTTCCAGgtatgtactgtaggtcctagccgagagccaggtgatcctaccgctttaac Alignment from Spaln_aa2Genome GGAAAGAGGTTTGCTATGACAACCTTGGATGC-TTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG ggaaagcccagtgaccatggaccggcagtttcccatttcctttgaatcagGGAAAGAATTTTGTTATCACAACCTTGGGTGCtTTCTCTGATGCGGAACCCTGGGCAGGCACAGCCAATAGACCTCTAAAACTCCTCCCTTGGAGTCCAGAGAAGATCAACACCTGCTTCTTGCTCTACACAAATGAGAACCCCATTGCTTTCCAGgtatgtactgtaggtcctagccgagagccaggtgatcctaccgctttaac Alignment from Spaln_nt2Genome GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTT-TCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG ggaaagcccagtgaccatggaccggcagtttcccatttcctttgaatcagGGAAAGAATTTTGTTATCACAACCTTGGGTGCTTTCTCTGATGCGGAACCCTGGGCAGGCACAGCCAATAGACCTCTAAAACTCCTCCCTTGGAGTCCAGAGAAGATCAACACCTGCTTCTTGCTCTACACAAATGAGAACCCCATTGCTTTCCAGgtatgtactgtaggtcctagccgagagccaggtgatcctaccgctttaac Alignment from Pairagon GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTT-TCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG ggaaagcccagtgaccatggaccggcagtttcccatttcctttgaatcagGGAAAGAATTTTGTTATCACAACCTTGGGTGCTTTCTCTGATGCGGAACCCTGGGCAGGCACAGCCAATAGACCTCTAAAACTCCTCCCTTGGAGTCCAGAGAAGATCAACACCTGCTTCTTGCTCTACACAAATGAGAACCCCATTGCTTTCCAGgtatgtactgtaggtcctagccgagagccaggtgatcctaccgctttaac Alignment from Exonerate_protein2genome GGAAAGAGGTTTGCTATGACAACCTTGGATGC-TTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG ggaaagcccagtgaccatggaccggcagtttcccatttcctttgaatcagGGAAAGAATTTTGTTATCACAACCTTGGGTGCTTTCTCTGATGCGGAACCCTGGGCAGGCACAGCCAATAGACCTCTAAAACTCCTCCCTTGGAGTCCAGAGAAGATCAACACCTGCTTCTTGCTCTACACAAATGAGAACCCCATTGCTTTCCAGgtatgtactgtaggtcctagccgagagccaggtgatcctaccgctttaac Alignment from Exonerate_coding2genome TTCCTACTGGGAGCAGCTCAGGGGAAAGAGGTTTGCTATGACAACCTTGGATGC-TTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG ggaaagcccagtgaccatggaccggcagTTTCCCATTTCCTTTGAATCAGGGAAAGAATTTTGTTATCACAACCTTGGGTGCTTTCTCTGATGCGGAACCCTGGGCAGGCACAGCCAATAGACCTCTAAAACTCCTCCCTTGGAGTCCAGAGAAGATCAACACCTGCTTCTTGCTCTACACAAATGAGAACCCCATTGCTTTCCAGgtatgtactgtaggtcctagccgagagccaggtgatcctaccgctttaac Alignment from GeneWise GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTT-TCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG ggaaagcccagtgaccatggaccggcagtttcccatttcctttgaatcagGGAAAGAATTTTGTTATCACAACCTTGGGTGCTTTCTCTGATGCGGAACCCTGGGCAGGCACAGCCAATAGACCTCTAAAACTCCTCCCTTGGAGTCCAGAGAAGATCAACACCTGCTTCTTGCTCTACACAAATGAGAACCCCATTGCTTTCCAGgtatgtactgtaggtcctagccgagagccaggtgatcctaccgctttaac #### Pola2_ID1323_17 --> 1 - 0 Original Alignment tTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTC-TATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG ggatgggtgactgtatggtcaggagatcgccaacctttctcttcctgtagtTACTATCCACTTTATCCACCCCACGTGGACATGGCCATAGACTATAAGAATTTTCTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGgtgtgttttggattgctttctcttttgtgaacagcctgggacttctgata Alignment from CESAR tTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAAC-TTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG ggatgggtgactgtatggtcaggagatcgccaacctttctcttcctgtagtTACTATCCACTTTATCCACCCCACGTGGACATGGCCATAGACTATAAGAATTTTCTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGgtgtgttttggattgctttctcttttgtgaacagcctgggacttctgata Alignment from Spaln_aa2Genome TTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAAC-TTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG ggatgggtgactgtatggtcaggagatcgccaacctttctcttcctgtagTTACTATCCACTTTATCCACCCCACGTGGACATGGCCATAGACTATAAGAATtTTCTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGgtgtgttttggattgctttctcttttgtgaacagcctgggacttctgata Alignment from Spaln_nt2Genome TTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTT-CTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG ggatgggtgactgtatggtcaggagatcgccaacctttctcttcctgtagTTACTATCCACTTTATCCACCCCACGTGGACATGGCCATAGACTATAAGAATTTTCTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGgtgtgttttggattgctttctcttttgtgaacagcctgggacttctgata Alignment from Pairagon TTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAA-CTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG ggatgggtgactgtatggtcaggagatcgccaacctttctcttcctgtagTTACTATCCACTTTATCCACCCCACGTGGACATGGCCATAGACTATAAGAATTTTCTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGgtgtgttttggattgctttctcttttgtgaacagcctgggacttctgata Alignment from Exonerate_protein2genome TTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAAC-TTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG ggatgggtgactgtatggtcaggagatcgccaacctttctcttcctgtagTTACTATCCACTTTATCCACCCCACGTGGACATGGCCATAGACTATAAGAATTTTCTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGgtgtgttttggattgctttctcttttgtgaacagcctgggacttctgata Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAG-AACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG ggatgggtgactgtatggtcaggagatcgccaacctttctcttcctgtagTTACTATCCACTTTATCCACCCCACGTGGACATGGCCATAGACTATAAGAATTTTCTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGgtgtgttttggattgctttctcttttgtgaacagcctgggacttctgata #### Pola2_ID1324_16 --> 1 - 2 Original Alignment cTCTTCCGGGACGTCA-GACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAag tactggatcaggaacctgtcttattcccttttttatcttcattgtcttagcTCCTTGGGGACACCACGATAGATTCAGCAGAGTCCTCAAGCACATACTGACACAGAGGaggtgggcgaaatagcaaaacgaaccatatttactagcaaggagatttagac Alignment from CESAR cTCTTCCGGGACGTCA-GACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAag tactggatcaggaacctgtcttattcccttttttatcttcattgtcttagcTCCTTGGGGACACCACGATAGATTCAGCAGAGTCCTCAAGCACATACTGACACAGAGGaggtgggcgaaatagcaaaacgaaccatatttactagcaaggagatttagac Alignment from Spaln_aa2Genome CTCTTCCGGGACGTCA-GACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAAG tactggatcaggaacctgtcttattcccttttttatcttcattgtcttagCTCCTTGGGGACACCAcGATAGATTCAGCAGAGTCCTCAAGCACATACTGACACAGAGGAGgtgggcgaaatagcaaaacgaaccatatttactagcaaggagatttagac Alignment from Spaln_nt2Genome CTCTTCCGGGACGTCA-GACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAAG tactggatcaggaacctgtcttattcccttttttatcttcattgtcttagCTCCTTGGGGACACCACGATAGATTCAGCAGAGTCCTCAAGCACATACTGACACAGAGGAGgtgggcgaaatagcaaaacgaaccatatttactagcaaggagatttagac Alignment from Pairagon CTCTTCCGGGACGTCA-GACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAAG tactggatcaggaacctgtcttattcccttttttatcttcattgtcttagCTCCTTGGGGACACCACGATAGATTCAGCAGAGTCCTCAAGCACATACTGACACAGAGGAGgtgggcgaaatagcaaaacgaaccatatttactagcaaggagatttagac Alignment from Exonerate_protein2genome CTCTTCCGGGACG-TCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAAG tactggatcaggaacctgtcttattcccttttttatcttcattgtcttagCTCCTTGGGGACACCACGATAGATTCAGCAGAGTCCTCAAGCACATACTGACACAGAGGAGgtgggcgaaatagcaaaacgaaccatatttactagcaaggagatttagac Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CTCTTCCGGGACG-TCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAAG tactggatcaggaacctgtcttattcccttttttatcttcattgtcttagCTCCTTGGGGACACCACGATAGATTCAGCAGAGTCCTCAAGCACATACTGACACAGAGGAGgtgggcgaaatagcaaaacgaaccatatttactagcaaggagatttagac #### Pola2_ID1325_15 --> 0 - 2 Original Alignment CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTC-TCCATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTag agctcactgtaggttttattgcaaggagctcaccccatctgtgtcctcagCGAGTGCAGTTTGTATCGGAGCCCTGCAGCCTACCCGATAAATGGAGTAATG---TATTCAACTACTGCAGACTTACTGTATCACCTTGGGGCTGAGGAACTGTTTaggtaagtccattcaacccaataaggagagttacataacatggttcttgaag Alignment from CESAR CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTCTCC-ATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTag agctcactgtaggttttattgcaaggagctcaccccatctgtgtcctcagCGAGTGCAGTTTGTATCGGAGCCCTGCAGCCTACCCGATAAATGGAGTAATGTAT---TCAACTACTGCAGACTTACTGTATCACCTTGGGGCTGAGGAACTGTTTaggtaagtccattcaacccaataaggagagttacataacatggttcttgaag Alignment from Spaln_aa2Genome CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTCTCC-ATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTAG agctcactgtaggttttattgcaaggagctcaccccatctgtgtcctcagCGAGTGCAGTTTGTATCGGAGCCCTGCAGCCTACCCgATAAATGGAGTAATGTATTCA---ACTACTGCAGACTTACTGTATCACCTTGGGGCTGAGGAACTGTTTAGgtaagtccattcaacccaataaggagagttacataacatggttcttgaag Alignment from Spaln_nt2Genome CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTCTCC-ATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTAG agctcactgtaggttttattgcaaggagctcaccccatctgtgtcctcagCGAGTGCAGTTTGTATCGGAGCCCTGCAGCCTACCCGATAAATGGAGTAATGT---ATTCAACTACTGCAGACTTACTGTATCACCTTGGGGCTGAGGAACTGTTTAGgtaagtccattcaacccaataaggagagttacataacatggttcttgaag Alignment from Pairagon CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCT-CTCCATAAATGGAGTGATGTTTGGTTTGACATCCA-------CGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTAG agctcactgtaggttttattgcaaggagctcaccccatctgtgtcctcagCGAGTGCAGTTTGTATCGGAGCCCTGCAGCCTACCCGATAAATGGAGTAATGT----------ATTCAACTACTGCAGACTTACTGTATCACCTTGGGGCTGAGGAACTGTTTAGgtaagtccattcaacccaataaggagagttacataacatggttcttgaag Alignment from Exonerate_protein2genome CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTC-TCCATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTAG agctcactgtaggttttattgcaaggagctcaccccatctgtgtcctcagCGAGTGCAGTTTGTATCGGAGCCCTGCAGCCTACCCGATAAATGGAGTAATGTATTCA---ACTACTGCAGACTTACTGTATCACCTTGGGGCTGAGGAACTGTTTAGgtaagtccattcaacccaataaggagagttacataacatggttcttgaag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTC-TCCATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTAG agctcactgtaggttttattgcaaggagctcaccccatctgtgtcctcagCGAGTGCAGTTTGTATCGGAGCCCTGCAGCCTACCCGATAAATGGAGTAATGTATTCA---ACTACTGCAGACTTACTGTATCACCTTGGGGCTGAGGAACTGTTTAGgtaagtccattcaacccaataaggagagttacataacatggttcttgaag #### Pola2_ID1332_9 --> 0 - 0 Original Alignment GTTGTAATTATGGAAGGATTCAACACCACTGGTAGGAGACTTACT-GCCACCAAACTCTATGAG ctcaagtcacccaatctgtcctggccactccctctaacttttttctttagGTTGTAATTATGGAAGGATTCAACACTACTGGTAGAAGACTTACTCGCCACCAAACTCTATGAGgtaagtagtgagccagccttcccctactccaaaatgagtcttaagtcatt Alignment from CESAR GTTGTAATTATGGAAGGATTCAACACCACTGGTAGGAGACTTACT-GCCACCAAACTCTATGAG ctcaagtcacccaatctgtcctggccactccctctaacttttttctttagGTTGTAATTATGGAAGGATTCAACACTACTGGTAGAAGACTTACTCGCCACCAAACTCTATGAGgtaagtagtgagccagccttcccctactccaaaatgagtcttaagtcatt Alignment from Spaln_aa2Genome GTTGTAATTATGGAAGGATTCAACACCACTGGTAGGAGACTTACT-GCCACCAAACTCTATGAG ctcaagtcacccaatctgtcctggccactccctctaacttttttctttagGTTGTAATTATGGAAGGATTCAACACTACTGGTAGAAGACTTACTcGCCACCAAACTCTATGAGgtaagtagtgagccagccttcccctactccaaaatgagtcttaagtcatt Alignment from Spaln_nt2Genome GTTGTAATTATGGAAGGATTCAACACCACTGGTAGGAGACTTACT-GCCACCAAACTCTATGAG ctcaagtcacccaatctgtcctggccactccctctaacttttttctttagGTTGTAATTATGGAAGGATTCAACACTACTGGTAGAAGACTTACTCGCCACCAAACTCTATGAGgtaagtagtgagccagccttcccctactccaaaatgagtcttaagtcatt Alignment from Pairagon GTTGTAATTATGGAAGGATTCAACACCACTGGTAGGAGACTTACT-GCCACCAAACTCTATGAG ctcaagtcacccaatctgtcctggccactccctctaacttttttctttagGTTGTAATTATGGAAGGATTCAACACTACTGGTAGAAGACTTACTCGCCACCAAACTCTATGAGgtaagtagtgagccagccttcccctactccaaaatgagtcttaagtcatt Alignment from Exonerate_protein2genome GTTGTAATTATGGAAGGATTCAACACCACTGGTAGGAGACTTACT-GCCACCAAACTCTATGAG ctcaagtcacccaatctgtcctggccactccctctaacttttttctttagGTTGTAATTATGGAAGGATTCAACACTACTGGTAGAAGACTTACTCGCCACCAAACTCTATGAGgtaagtagtgagccagccttcccctactccaaaatgagtcttaagtcatt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTTGTAATTATGGAAGGATTCAACACCACTGGTAGGAGACTTACT-GCCACCAAACTCTATGAG ctcaagtcacccaatctgtcctggccactccctctaacttttttctttagGTTGTAATTATGGAAGGATTCAACACTACTGGTAGAAGACTTACTCGCCACCAAACTCTATGAGgtaagtagtgagccagccttcccctactccaaaatgagtcttaagtcatt #### Polr2g_ID2377_6 --> 0 - 0 Original Alignment GACATTGTGATTCAGCAG---GACGATGAGATACGCTTGAAGATTGTAGGCACGCGT-GTAGACAAGAATGACATT agagagggcagcaattcaggtcagggccagtgtccttctccctcccatagGGCATATTGATTCAGCTGGATGAG------ATACAGCTAAAGATAATAGGGACACATCGTAGATAAAAATGATGTTgtcagtcaagccaggcttttgttctttgtttatatcacatcatggattca Alignment from CESAR GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGT-GTAGACAAGAATGACATT agagagggcagcaattcaggtcagggccagtgtccttctccctcccatagGGCATATTGATTCAGCTG---GATGAGATACAGCTAAAGATAATAGGGACACATCGTAGATAAAAATGATGTTgtcagtcaagccaggcttttgttctttgtttatatcacatcatggattca Alignment from Spaln_aa2Genome GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGT-GTAGACAAGAATGACATT agagagggcagcaattcaggtcagggccagtgtccttctccctcccatagGGCATATTGATTCAGCTG---GATGAGATACAGCTAAAGATAATAGGGACACATcGTAGATAAAAATGATGTTgtcagtcaagccaggcttttgttctttgtttatatcacatcatggattca Alignment from Spaln_nt2Genome GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGT-GTAGACAAGAATGACATT agagagggcagcaattcaggtcagggccagtgtccttctccctcccatagGGCATATTGATTCAGCTG---GATGAGATACAGCTAAAGATAATAGGGACACATCGTAGATAAAAATGATGTTgtcagtcaagccaggcttttgttctttgtttatatcacatcatggattca Alignment from Pairagon GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATTTTTGCCATTGGCTCTCTGATGGACGACTACTTGGGGCTCGTGAGC agagagggcagcaattcaggtcagggccagtgtccttctccctcccatagGGCATATTGATTCAGCTG---GATGAGATAC-----------------------------------------------------------------------------------AGCtaaagataatagggacacatcgtagataaaaatgatgttgtcagtcaagccaggcttttgttctttgtttatatcacatcatggattca Alignment from Exonerate_protein2genome GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGT-GTAGACAAGAATGACATT agagagggcagcaattcaggtcagggccagtgtccttctccctcccatagGGCATATTGATTCAGCTG---GATGAGATACAGCTAAAGATAATAGGGACACATCGTAGATAAAAATGATGTTgtcagtcaagccaggcttttgttctttgtttatatcacatcatggattca Alignment from Exonerate_coding2genome agagagggcagcaattcaggtcagggccagtgtccttctccctcccatagggcatattgattcagctggatgagatacagctaaagataatagggacacatcgtagataaaaatgatgttgtcagtcaagccaggcttttgttctttgtttatatcacatcatggattca Alignment from GeneWise agagagggcagcaattcaggtcagggccagtgtccttctccctcccatagggcatattgattcagctggatgagatacagctaaagataatagggacacatcgtagataaaaatgatgttgtcagtcaagccaggcttttgttctttgtttatatcacatcatggattca #### Ppp1ca_ID409_3 --> 2 - 1 Original Alignment gtGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATC-AGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATC---AACCGCATTTATGGCTTCTATGATGAAt ggtaaggaatagctttactgaatattctaatttcttctttttccttccaggtGATATCCAGGGACAGCACTATGACCTACTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTCAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACTTATAGAATCCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATCATGAGTGTGCAAGCATTATCAACCGCATTTATGGGTTCTATGGTGTAtgtaagcaggattgttcttgtgatgtcttactgggccatttgatattaact Alignment from CESAR gtGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATC-AGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGC---ATCAACCGCATTTATGGCTTCTATGATGAAt ggtaaggaatagctttactgaatattctaatttcttctttttccttccaggtGATATCCAGGGACAGCACTATGACCTACTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTCAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACTTATAGAATCCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATCATGAGTGTGCAAGCATTATCAACCGCATTTATGGGTTCTATGGTGTAtgtaagcaggattgttcttgtgatgtcttactgggccatttgatattaact Alignment from Spaln_aa2Genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATC-AGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGC---ATCAACCGCATTTATGGCTTCTATGATGAAT ggtaaggaatagctttactgaatattctaatttcttctttttccttccagGTGATATCCAGGGACAGCACTATGACCTACTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTCAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACTTATAGAATCcAGATATTTAGAAAATTTCTATGTATTTCATGGAAATCATGAGTGTGCAAGCATTATCAACCGCATTTATGGGTTCTATGGTGTATgtaagcaggattgttcttgtgatgtcttactgggccatttgatattaact Alignment from Spaln_nt2Genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATC-AGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGC---CAGCATCAACCGCATTTATGGCTTCTATGATGAAT ggtaaggaatagctttactgaatattctaatttcttctttttccttccagGTGATATCCAGGGACAGCACTATGACCTACTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTCAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACTTATAGAATCCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATCATGAGTGTGCAAGCATTATCAACCGCATTTATGGGTTCTATGGTGTATgtaagcaggattgttcttgtgatgtcttactgggccatttgatattaact Alignment from Pairagon GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGAT-CAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGC---ATCAACCGCATTTATGGCTTCTATGATGAAT ggtaaggaatagctttactgaatattctaatttcttctttttccttccagGTGATATCCAGGGACAGCACTATGACCTACTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTCAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACTTATAGAATCCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATCATGAGTGTGCAAGCATTATCAACCGCATTTATGGGTTCTATGGTGTATgtaagcaggattgttcttgtgatgtcttactgggccatttgatattaact Alignment from Exonerate_protein2genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATC-AGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGC---ATCAACCGCATTTATGGCTTCTATGATGAAT ggtaaggaatagctttactgaatattctaatttcttctttttccttccagGTGATATCCAGGGACAGCACTATGACCTACTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTCAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACTTATAGAATCCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATCATGAGTGTGCAAGCATTATCAACCGCATTTATGGGTTCTATGGTGTATgtaagcaggattgttcttgtgatgtcttactgggccatttgatattaact Alignment from Exonerate_coding2genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATC-AGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGC---ATCAACCGCATTTATGGCTTCTATGATGAAT ggtaaggaatagctttactgaatattctaatttcttctttttccttccagGTGATATCCAGGGACAGCACTATGACCTACTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTCAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACTTATAGAATCCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATCATGAGTGTGCAAGCATTATCAACCGCATTTATGGGTTCTATGGTGTATgtaagcaggattgttcttgtgatgtcttactgggccatttgatattaact Alignment from GeneWise GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAG-ATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATC---AACCGCATTTATGGCTTCTATGATGAAT ggtaaggaatagctttactgaatattctaatttcttctttttccttccagGTGATATCCAGGGACAGCACTATGACCTACTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTCAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACTTATAGAATCCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATCATGAGTGTGCAAGCATTATCAACCGCATTTATGGGTTCTATGGTGTATgtaagcaggattgttcttgtgatgtcttactgggccatttgatattaact #### Ppp1ca_ID412_6 --> 0 - 0 Original Alignment GTTGTAGAAGATGGCTATGAGTTCTTT-GCCAAG---AGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCC------TTCCAG atgatctgaggtctaacttaatgatatatggatgtcttctgtttccacagGTTATT---GGTGGATATGAGTTCTTTCGCAAAAAAGAAAAAACTGGTAACATTC---TCAGCTCCTAATTACTGTGGTGAATTTGAAAACGCTGGTGCCATGACGAGTGTAGACAAGACCCTCATATGCTCCAGGGCTTTCCCTgtactaagaaggaatagccagtagggaataacatatctttggaagctgca Alignment from CESAR GTTGTAGAAGATGGCTATGAGTTCTTT-GCC---AAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCC------TTCCAG atgatctgaggtctaacttaatgatatatggatgtcttctgtttccacagGTTATT---GGTGGATATGAGTTCTTTCGCAAAAAAGAAAAAACTGGTAACA---TTCTCAGCTCCTAATTACTGTGGTGAATTTGAAAACGCTGGTGCCATGACGAGTGTAGACAAGACCCTCATATGCTCCAGGGCTTTCCCTgtactaagaaggaatagccagtagggaataacatatctttggaagctgca Alignment from Spaln_aa2Genome GTTGTAGAAGATGGCTATGAGTTCTTT-GCCAAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCC------TTCCAG atgatctgaggtctaacttaatgatatatggatgtcttctgtttccacagGTTATT---GGTGGATATGAGTTCTTTcGCAAAAAAGAAAAAACTGGTAACATTCTCAGCTCCTAATTACTGTGGTGAATTTGAAAACGCTGGTGCCATGACGAGTGTAGACAAGACCCTCATATGCTCCAGGGCTTTCCCTgtactaagaaggaatagccagtagggaataacatatctttggaagctgca Alignment from Spaln_nt2Genome GTTGTAGAAGATGGCTATGAGTTCTTTGCCAA----GAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCC------TTCCAG atgatctgaggtctaacttaatgatatatggatgtcttctgtttccacagGTTAT---TGGTGGATATGAGTTCTTTCGCAAAAAAGAAAAAACTGGTAACA---TTCTCAGCTCCTAATTACTGTGGTGAATTTGAAAACGCTGGTGCCATGACGAGTGTAGACAAGACCCTCATATGCTCCAGGGCTTTCCCTgtactaagaaggaatagccagtagggaataacatatctttggaagctgca Alignment from Pairagon GTTGTAGAAGATGGCTATGAGTTCTTTGCC----AAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTC--------------------------------------------------------------- atgatctgaggtctaacttaatgatatatggatgtcttctgtttccacagGTTAT---TGGTGGATATGAGTTCTTTCGCAAAAAAGAAAAAACTGGTAACA---TTCTCAGCTCCTAATTACTGTGGTGAATTTGAAAACGCTGGTGCCATGACGAGTGTAGACAAGACCCTCATATGCTCCAGGGCTTTCCCTGTACTAAGAAGGAATAGCCAGTAGGGAATAACATATCTTTGGAAGCTGCA Alignment from Exonerate_protein2genome GTTGTAGAAGATGGCTATGAGTTC-TTTGCCAAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCCTTCCAG atgatctgaggtctaacttaatgatatatggatgtcttctgtttccacagGTTATT---GGTGGATATGAGTTCTTTCGCAAAAAAGAAAAAACTGGTAACATTCTCAGCTCCTAATTACTGTGGTGAATTTGAAAACGCTGGTGCCATGACGAGTGTAGACAAGACCCTCATATGCTCCAGGGCTttccctgtactaagaaggaatagccagtagggaataacatatctttggaagctgca Alignment from Exonerate_coding2genome GTTGTAGAAGATGGCTATGAGTTC-TTTGCCAAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCCTTCCAG atgatctgaggtctaacttaatgatatatggatgtcttctgtttccacagGTTATT---GGTGGATATGAGTTCTTTCGCAAAAAAGAAAAAACTGGTAACATTCTCAGCTCCTAATTACTGTGGTGAATTTGAAAACGCTGGTGCCATGACGAGTGTAGACAAGACCCTCATATGCTCCAGGGCTttccctgtactaagaaggaatagccagtagggaataacatatctttggaagctgca Alignment from GeneWise GTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGACAG-TTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCC------TTCCAG atgatctgaggtctaacttaatgatatatggatgtcttctgtttccacagGTTATT---GGTGGATATGAGTTCTTTCGCAAAAAAGAAAAAACTGGTAACATTCTCAGCTCCTAATTACTGTGGTGAATTTGAAAACGCTGGTGCCATGACGAGTGTAGACAAGACCCTCATATGCTCCAGGGCTTTCCCTgtactaagaaggaatagccagtagggaataacatatctttggaagctgca #### Ppp1r14b_ID1940_3 --> 0 - 0 Original Alignment GAGCTGTTAGTT-GACTGTTACAAACCCACTGAG atgagaaaccctgagcccaagaagccatcaacttctaatccttccatcagCAACTATTAGTTCGACTGTTATAAACCCACTGAGgtgagctactgcccctccccacaggcatgaagctgttcctttggttctac Alignment from CESAR GAGCTGTTAGTT-GACTGTTACAAACCCACTGAG atgagaaaccctgagcccaagaagccatcaacttctaatccttccatcagCAACTATTAGTTCGACTGTTATAAACCCACTGAGgtgagctactgcccctccccacaggcatgaagctgttcctttggttctga Alignment from Spaln_aa2Genome GTTGACTGTTACAAACCCACTGAG atgagaaaccctgagcccaagaagccatcaacttctaatccttccatcagcaactattagTTCGACTGTTATAAACCCACTGAGgtgagctactgcccctccccacaggcatgaagctgttcctttggttctac Alignment from Spaln_nt2Genome GAGCTGTTAGTT-GACTGTTACAAACCCACTGAG atgagaaaccctgagcccaagaagccatcaacttctaatccttccatcagCAACTATTAGTTCGACTGTTATAAACCCACTGAGgtgagctactgcccctccccacaggcatgaagctgttcctttggttctac Alignment from Pairagon GAGCTGTTAGTT-GACTGTTACAAACCCACTGAG atgagaaaccctgagcccaagaagccatcaacttctaatccttccatcagCAACTATTAGTTCGACTGTTATAAACCCACTGAGgtgagctactgcccctccccacaggcatgaagctgttcctttggttctac Alignment from Exonerate_protein2genome GAGCTGTTAGTT-GACTGTTACAAACCCACTGAG atgagaaaccctgagcccaagaagccatcaacttctaatccttccatcagCAACTATTAGTTCGACTGTTATAAACCCACTGAGgtgagctactgcccctccccacaggcatgaagctgttcctttggttctac Alignment from Exonerate_coding2genome GAGCTGT atgagaaaccctgagcccaagaagccatcaacttctaatccttccatcagcaactattagttcgactgttataaacccactgaggtgagctactgcccctccccacaggcatgaagctgttcctttgGTTCTAC Alignment from GeneWise ----------------CTGTTAGTTG atgagaaaccctgagcccaagaagccatcaacttctaatccttccatcagcaactattagttcgactgttataaacccactgaggtgagctactgcccctccccacagGCATGAAGCTGTTCCTTTGGTTCTAC #### Ppp1r32_ID2841_10 --> 0 - 2 Original Alignment GAGCCCACAGGGTTCACTCTTAACAACCCCAGCTATGTTCGGAGTTCCTATGAACAGGACAGAGATCAGCGGTAC-CTGACCACCTACAACCAAgg ggtggcatcccgaattatgagataccatgagactctgttcgtcttttcagGAACCAACAGGATTTAACTTGAACAACCCCAGTTATGTTCAAACTTCTTATGAGGAAGACAGAGACCAGAGGTACCCTAAGTACCTATAATCAGgggtaagtatgtaaaaatggaatgtgggaggatattgtcacttgattatgtt Alignment from CESAR GAGCCCACAGGGTTCACTCTTAACAACCCCAGCTATGTTCGGAGTTCCTATGAACAGGACAGAGATCAGCGGTAC-CTGACCACCTACAACCAAgg ggtggcatcccgaattatgagataccatgagactctgttcgtcttttcagGAACCAACAGGATTTAACTTGAACAACCCCAGTTATGTTCAAACTTCTTATGAGGAAGACAGAGACCAGAGGTACCCTAAGTACCTATAATCAGgggtaagtatgtaaaaatggaatgtgggaggatattgtcacttgattatgtt Alignment from Spaln_aa2Genome GAGCCCACAGGGTTCACTCTTAACAACCCCAGCTATGTTCGGAGTTCCTATGAACAGGACAGAGATCAGCGGTAC-CTGACCACCTACAACCAAGG ggtggcatcccgaattatgagataccatgagactctgttcgtcttttcagGAACCAACAGGATTTAACTTGAACAACCCCAGTTATGTTCAAACTTCTTATGAGGAAGACAGAGACCAGAGGTACcCTAAGTACCTATAATCAGGGgtaagtatgtaaaaatggaatgtgggaggatattgtcacttgattatgtt Alignment from Spaln_nt2Genome GAGCCCACAGGGTTCACTCTTAACAACCCCAGCTATGTTCGGAGTTCCTATGAACAGGACAGAGATCAGCGGTACC-TGACCACCTACAACCAAGG ggtggcatcccgaattatgagataccatgagactctgttcgtcttttcagGAACCAACAGGATTTAACTTGAACAACCCCAGTTATGTTCAAACTTCTTATGAGGAAGACAGAGACCAGAGGTACCCTAAGTACCTATAATCAGGGgtaagtatgtaaaaatggaatgtgggaggatattgtcacttgattatgtt Alignment from Pairagon GAGCCCACAGGGTTCACTCTTAACAACCCCAGCTATGTTCGGAGTTCCTATGAACAGGACAGAGATCAGCGGTA-CCTGACCACCTACAACCAAGG ggtggcatcccgaattatgagataccatgagactctgttcgtcttttcagGAACCAACAGGATTTAACTTGAACAACCCCAGTTATGTTCAAACTTCTTATGAGGAAGACAGAGACCAGAGGTACCCTAAGTACCTATAATCAGGGgtaagtatgtaaaaatggaatgtgggaggatattgtcacttgattatgtt Alignment from Exonerate_protein2genome GAGCCCACAGGGTTCACTCTTAACAACCCCAGCTATGTTCGGAGTTCCTATGAACAGGACAGAGATCAGCGGTAC-CTGACCACCTACAACCAAGG ggtggcatcccgaattatgagataccatgagactctgttcgtcttttcagGAACCAACAGGATTTAACTTGAACAACCCCAGTTATGTTCAAACTTCTTATGAGGAAGACAGAGACCAGAGGTACCCTAAGTACCTATAATCAGGGgtaagtatgtaaaaatggaatgtgggaggatattgtcacttgattatgtt Alignment from Exonerate_coding2genome ggtggcatcccgaattatgagataccatgagactctgttcgtcttttcaggaaccaacaggatttaacttgaacaaccccagttatgttcaaacttcttatgaggaagacagagaccagaggtaccctaagtacctataatcaggggtaagtatgtaaaaatggaatgtgggaggatattgtcacttgattatgtt Alignment from GeneWise GAGCCCACAGGGTTCACTCTTAACAACCCCAGCTATGTTCGGAGTTCCTATGAACAGGACAGAGATCAGCGGTAC-CTGACCACCTACAACCAAGG ggtggcatcccgaattatgagataccatgagactctgttcgtcttttcagGAACCAACAGGATTTAACTTGAACAACCCCAGTTATGTTCAAACTTCTTATGAGGAAGACAGAGACCAGAGGTACCCTAAGTACCTATAATCAGGGgtaagtatgtaaaaatggaatgtgggaggatattgtcacttgattatgtt #### Ppp1r32_ID2842_9 --> 0 - 0 Original Alignment GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACA-AATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG atcgggtatctatgtccaattgtaccttcacccaaatccttgtattccagGTTCCTGCCTCAGCTCCCCAATCTGCCAGCATGAGTCACAGATTCTACCGTGCTCCCCAGCGAATGCAACAGGCTCAATGTTGCCCTGCTCGGAAGGGAGTCTGTGGGGAATAAAgtgagtcctctaacacaaatcctatggtggcatcccgaattatgagatac Alignment from CESAR GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACA-AATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG atcgggtatctatgtccaattgtaccttcacccaaatccttgtattccagGTTCCTGCCTCAGCTCCCCAATCTGCCAGCATGAGTCACAGATTCTACCGTGCTCCCCAGCGAATGCAACAGGCTCAATGTTGCCCTGCTCGGAAGGGAGTCTGTGGGGAATAAAgtgagtcctctaacacaaatcctatggtggcatcccgaattatgagatac Alignment from Spaln_aa2Genome GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACA-AATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG atcgggtatctatgtccaattgtaccttcacccaaatccttgtattccagGTTCCTGCCTCAGCTCCCCAATCTGCCAGCATGAGTCACAGATTCTACCGTGCTCCCCAGCGAATGCAACAGGCTcAATGTTGCCCTGCTCGGAAGGGAGTCTGTGGGGAATAAAgtgagtcctctaacacaaatcctatggtggcatcccgaattatgagatac Alignment from Spaln_nt2Genome GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACA-AATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG atcgggtatctatgtccaattgtaccttcacccaaatccttgtattccagGTTCCTGCCTCAGCTCCCCAATCTGCCAGCATGAGTCACAGATTCTACCGTGCTCCCCAGCGAATGCAACAGGCTCAATGTTGCCCTGCTCGGAAGGGAGTCTGTGGGGAATAAAgtgagtcctctaacacaaatcctatggtggcatcccgaattatgagatac Alignment from Pairagon GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGAC-AAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG atcgggtatctatgtccaattgtaccttcacccaaatccttgtattccagGTTCCTGCCTCAGCTCCCCAATCTGCCAGCATGAGTCACAGATTCTACCGTGCTCCCCAGCGAATGCAACAGGCTCAATGTTGCCCTGCTCGGAAGGGAGTCTGTGGGGAATAAAgtgagtcctctaacacaaatcctatggtggcatcccgaattatgagatac Alignment from Exonerate_protein2genome GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACA-AATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG atcgggtatctatgtccaattgtaccttcacccaaatccttgtattccagGTTCCTGCCTCAGCTCCCCAATCTGCCAGCATGAGTCACAGATTCTACCGTGCTCCCCAGCGAATGCAACAGGCTCAATGTTGCCCTGCTCGGAAGGGAGTCTGTGGGGAATAAAgtgagtcctctaacacaaatcctatggtggcatcccgaattatgagatac Alignment from Exonerate_coding2genome GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACA-AATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG atcgggtatctatgtccaattgtaccttcacccaaatccttgtattccagGTTCCTGCCTCAGCTCCCCAATCTGCCAGCATGAGTCACAGATTCTACCGTGCTCCCCAGCGAATGCAACAGGCTCAATGTTGCCCTGCTCGGAAGGGAGTCTGTGGGGAATAAAgtgagtcctctaacacaaatcctatggtggcatcccgaattatgagatac Alignment from GeneWise GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAG-ACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG atcgggtatctatgtccaattgtaccttcacccaaatccttgtattccagGTTCCTGCCTCAGCTCCCCAATCTGCCAGCATGAGTCACAGATTCTACCGTGCTCCCCAGCGAATGCAACAGGCTCAATGTTGCCCTGCTCGGAAGGGAGTCTGTGGGGAATAAAgtgagtcctctaacacaaatcctatggtggcatcccgaattatgagatac #### Ppp1r32_ID2843_8 --> 0 - 0 Original Alignment GGAAGTGATTTCCTCCCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTC-AGCCGAGTGAATGAAAGGACCTTGAACCCCAGA acactctgttgctccatgtggtgcaactatttccctgtttttctggtcagGGGAGTGATTTCTTGCCGGTGCTGTCCAGAGGATCTGATCGGGACACAGGATTTCAGCCGAGTAAATGAAAGAACACTAAAGCTAAGAgtaagcatgactcagggtaagacaatgtatagttgtctctgtctacaccc Alignment from CESAR GGAAGTGATTTCCTCCCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGA-TTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA acactctgttgctccatgtggtgcaactatttccctgtttttctggtcagGGGAGTGATTTCTTGCCGGTGCTGTCCAGAGGATCTGATCGGGACACAGGATTTCAGCCGAGTAAATGAAAGAACACTAAAGCTAAGAgtaagcatgactcagggtaagacaatgtatagttgtctctgtctacaccc Alignment from Spaln_aa2Genome GGAAGTGATTTCCTCCCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTC-AGCCGAGTGAATGAAAGGACCTTGAACCCCAGA acactctgttgctccatgtggtgcaactatttccctgtttttctggtcagGGGAGTGATTTCTTGCCGGTGCTGTCCAGAGGATCTGATCGGGACACAGGATTTcAGCCGAGTAAATGAAAGAACACTAAAGCTAAGAgtaagcatgactcagggtaagacaatgtatagttgtctctgtctacaccc Alignment from Spaln_nt2Genome GGAAGTGATTTCCTCCCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGAT-TCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA acactctgttgctccatgtggtgcaactatttccctgtttttctggtcagGGGAGTGATTTCTTGCCGGTGCTGTCCAGAGGATCTGATCGGGACACAGGATTTCAGCCGAGTAAATGAAAGAACACTAAAGCTAAGAgtaagcatgactcagggtaagacaatgtatagttgtctctgtctacaccc Alignment from Pairagon GGAAGTGATTTCCTCCCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGA-TTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA acactctgttgctccatgtggtgcaactatttccctgtttttctggtcagGGGAGTGATTTCTTGCCGGTGCTGTCCAGAGGATCTGATCGGGACACAGGATTTCAGCCGAGTAAATGAAAGAACACTAAAGCTAAGAgtaagcatgactcagggtaagacaatgtatagttgtctctgtctacaccc Alignment from Exonerate_protein2genome GGAAGTGATTTCCTCCCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGA-TTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA acactctgttgctccatgtggtgcaactatttccctgtttttctggtcagGGGAGTGATTTCTTGCCGGTGCTGTCCAGAGGATCTGATCGGGACACAGGATTTCAGCCGAGTAAATGAAAGAACACTAAAGCTAAGAgtaagcatgactcagggtaagacaatgtatagttgtctctgtctacaccc Alignment from Exonerate_coding2genome ACGGAGTATCACCAAGTCAGACTACCTCCCTGTAACTCACCCTCAGGGAAGTGATTTCCTCCCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGA-TTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA acacTCTGTTGCTCCATGTGGTGCAACTATTTCCCTGTTTTTCTGGTCAGGGGAGTGATTTCTTGCCGGTGCTGTCCAGAGGATCTGATCGGGACACAGGATTTCAGCCGAGTAAATGAAAGAACACTAAAGCTAAGAgtaagcatgactcagggtaagacaatgtatagttgtctctgtctacaccc Alignment from GeneWise GGAAGTGATTTCCTCCCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTC-AGCCGAGTGAATGAAAGGACCTTGAACCCCAGA acactctgttgctccatgtggtgcaactatttccctgtttttctggtcagGGGAGTGATTTCTTGCCGGTGCTGTCCAGAGGATCTGATCGGGACACAGGATTTCAGCCGAGTAAATGAAAGAACACTAAAGCTAAGAgtaagcatgactcagggtaagacaatgtatagttgtctctgtctacaccc #### Pprc1_ID9724_12 --> 0 - 2 Original Alignment GAAGAGAGAAGGGTGGTCTTCATT-GGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAgg atctgtgtctgctgtatgacaggtccaattgtcaacagctgtgggagtcatcattgatttttcttttccagGAAGAGAGACGGGTGGTCTTCATTCGGTAAAACACCTGGACGGATGACTCGGTCAGAACTTAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATCCACTTTAGGGTGCAAgggtgaggcataataattgttcttgttctca Alignment from CESAR GAAGAGAGAAGGGTGGTCTTCATT-GGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAgg atctgtgtctgctgtatgacaggtccaattgtcaacagctgtgggagtcatcattgatttttcttttccagGAAGAGAGACGGGTGGTCTTCATTCGGTAAAACACCTGGACGGATGACTCGGTCAGAACTTAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATCCACTTTAGGGTGCAAgggtgaggcataataattgttcttgttctca Alignment from Spaln_aa2Genome GAAGAGAGAAGGGTGGTCTTCATT-GGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAGG atctgtgtctgctgtatgacaggtccaattgtcaacagctgtgggagtcatcattgatttttcttttccagGAAGAGAGACGGGTGGTCTTCATTcGGTAAAACACCTGGACGGATGACTCGGTCAGAACTTAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATCCACTTTAGGGTGCAAGGgtgaggcataataattgttcttgttctca Alignment from Spaln_nt2Genome GAAGAGAGAAGGGTGGTCTTCATTGGG-AAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAGG atctgtgtctgctgtatgacaggtccaattgtcaacagctgtgggagtcatcattgatttttcttttccagGAAGAGAGACGGGTGGTCTTCATTCGGTAAAACACCTGGACGGATGACTCGGTCAGAACTTAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATCCACTTTAGGGTGCAAGGgtgaggcataataattgttcttgttctca Alignment from Pairagon GAAGAGAGAAGGGTGGTCTTCATTGGG-AAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAGG atctgtgtctgctgtatgacaggtccaattgtcaacagctgtgggagtcatcattgatttttcttttccagGAAGAGAGACGGGTGGTCTTCATTCGGTAAAACACCTGGACGGATGACTCGGTCAGAACTTAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATCCACTTTAGGGTGCAAGGgtgaggcataataattgttcttgttctca Alignment from Exonerate_protein2genome GAAGAGAGAAGGGTGGTCTTCATT-GGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAGG atctgtgtctgctgtatgacaggtccaattgtcaacagctgtgggagtcatcattgatttttcttttccagGAAGAGAGACGGGTGGTCTTCATTCGGTAAAACACCTGGACGGATGACTCGGTCAGAACTTAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATCCACTTTAGGGTGCAAGGgtgaggcataataattgttcttgttctca Alignment from Exonerate_coding2genome GAAGAGAGAAGGGTGGTCTTCATT-GGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAGG atctgtgtctgctgtatgacaggtccaattgtcaacagctgtgggagtcatcattgatttttcttttccagGAAGAGAGACGGGTGGTCTTCATTCGGTAAAACACCTGGACGGATGACTCGGTCAGAACTTAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATCCACTTTAGGGTGCAAGGgtgaggcataataattgttcttgttctca Alignment from GeneWise GAAGAGAGAAGGGTGGTCTTC-ATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAGG atctgtgtctgctgtatgacaggtccaattgtcaacagctgtgggagtcatcattgatttttcttttccagGAAGAGAGACGGGTGGTCTTCATTCGGTAAAACACCTGGACGGATGACTCGGTCAGAACTTAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATCCACTTTAGGGTGCAAGGgtgaggcataataattgttcttgttctca #### Prpf19_ID3043_2 --> 2 - 1 Original Alignment tcTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTACATTGCAGAG-AATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACATCAAAg tgctgaacttttctgtgacattcttccttaatcttatctccactgctcagtcTCCAATGAAGTGCCAGAACACCCCTGCGTGTCACCTGTCTCCAACCACGTGTATGAGCAGCGACTTATTGAGAAGTACATCGCAGAGCAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGGGCAGCTCATTGACATTAAAggtgagccccctttcacattagttgcttacctttcacactggaagtcagac Alignment from CESAR tcTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTACATTGCAGAG-AATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACATCAAAg tgctgaacttttctgtgacattcttccttaatcttatctccactgctcagtcTCCAATGAAGTGCCAGAACACCCCTGCGTGTCACCTGTCTCCAACCACGTGTATGAGCAGCGACTTATTGAGAAGTACATCGCAGAGCAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGGGCAGCTCATTGACATTAAAggtgagccccctttcacattagttgcttacctttcacactggaagtcagac Alignment from Spaln_aa2Genome TCTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTACATTGCAGAG-AATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACATCAAAG tgctgaacttttctgtgacattcttccttaatcttatctccactgctcagTCTCCAATGAAGTGCCAGAACACCCCTGCGTGTCACCTGTCTCCAACCACGTGTATGAGCAGCGACTTATTGAGAAGTACATCGCAGAGcAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGGGCAGCTCATTGACATTAAAGgtgagccccctttcacattagttgcttacctttcacactggaagtcagac Alignment from Spaln_nt2Genome TCTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTACATTGCAGAG-AATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACATCAAAG tgctgaacttttctgtgacattcttccttaatcttatctccactgctcagTCTCCAATGAAGTGCCAGAACACCCCTGCGTGTCACCTGTCTCCAACCACGTGTATGAGCAGCGACTTATTGAGAAGTACATCGCAGAGCAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGGGCAGCTCATTGACATTAAAGgtgagccccctttcacattagttgcttacctttcacactggaagtcagac Alignment from Pairagon CTGCTCGATCTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTACATTGCAGAG-AATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACATCAAAG tgctgaacttttctgtgacattcttccttaatcttatctccaCTGCTCAGTCTCCAATGAAGTGCCAGAACACCCCTGCGTGTCACCTGTCTCCAACCACGTGTATGAGCAGCGACTTATTGAGAAGTACATCGCAGAGCAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGGGCAGCTCATTGACATTAAAGgtgagccccctttcacattagttgcttacctttcacactggaagtcagac Alignment from Exonerate_protein2genome CTGATCTGCTCGATCTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTACATTGCAGAG-AATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACATCAAAG tgctgaacttttctgtgacattcttccttaatcttatCTCCACTGCTCAGTCTCCAATGAAGTGCCAGAACACCCCTGCGTGTCACCTGTCTCCAACCACGTGTATGAGCAGCGACTTATTGAGAAGTACATCGCAGAGCAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGGGCAGCTCATTGACATTAAAGgtgagccccctttcacattagttgcttacctttcacactggaagtcagac Alignment from Exonerate_coding2genome CTGATCTGCTCGATCTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTACATTGCAGAG-AATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACATCAAAG tgctgaacttttctgtgacattcttccttaatcttatCTCCACTGCTCAGTCTCCAATGAAGTGCCAGAACACCCCTGCGTGTCACCTGTCTCCAACCACGTGTATGAGCAGCGACTTATTGAGAAGTACATCGCAGAGCAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGGGCAGCTCATTGACATTAAAGgtgagccccctttcacattagttgcttacctttcacactggaagtcagac Alignment from GeneWise TCCCTGATCTGCTCGATCTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTACATTGCA-GAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACATCAAAG tgaacttttctgtgacattcttccttaatcttat---CTCCACTGCTCAGTCTCCAATGAAGTGCCAGAACACCCCTGCGTGTCACCTGTCTCCAACCACGTGTATGAGCAGCGACTTATTGAGAAGTACATCGCAGAGCAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGGGCAGCTCATTGACATTAAAGgtgagccccctttcacattagttgcttacctttcacactggaagtcagac #### Prpf19_ID3044_3 --> 2 - 0 Original Alignment ttGCTCACCCAATCCGACCC-AAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttacatgcaagcaatatgctgcactgctgccttcctgtagttGCACACCCAATTCGACCCCAAGCCTCCCTCTGCGACCAGTATTCCAGCCATCCTAAAGGCCTTGCAAGATGAGTGGgtgaggaaacttttcttctgttgatttttgcagGATGCAGTCATGCTGCA Alignment from CESAR ttGCTCACCCAATCCGA-CCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttacatgcaagcaatatgctgcactgctgccttcctgtagttGCACACCCAATTCGACCCCAAGCCTCCCTCTGCGACCAGTATTCCAGCCATCCTAAAGGCCTTGCAAGATGAGTGGgtgaggaaacttacttctctttatttgtaatagGATGCAGTCATGCTGCA Alignment from Spaln_aa2Genome TTGCTCACCCAATCCGA-CCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttacatgcaagcaatatgctgcactgctgccttcctgtagTTGCACACCCAATTCGAcCCCAAGCCTCCCTCTGCGACCAGTATTCCAGCCATCCTAAAGGCCTTGCAAGATGAGTGGgtgaggaaacttttcttctgttgatttttgcagGATGCAGTCATGCTGCA Alignment from Spaln_nt2Genome TTGCTCACCCAATCCGACCC-AAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttacatgcaagcaatatgctgcactgctgccttcctgtagTTGCACACCCAATTCGACCCCAAGCCTCCCTCTGCGACCAGTATTCCAGCCATCCTAAAGGCCTTGCAAGATGAGTGGgtgaggaaacttttcttctgttgatttttgcagGATGCAGTCATGCTGCA Alignment from Pairagon TTGCTCACCCAATCCGA-CCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttacatgcaagcaatatgctgcactgctgccttcctgtagTTGCACACCCAATTCGACCCCAAGCCTCCCTCTGCGACCAGTATTCCAGCCATCCTAAAGGCCTTGCAAGATGAGTGGgtgaggaaacttttcttctgttgatttttgcagGATGCAGTCATGCTGCA Alignment from Exonerate_protein2genome TTGCTCACCCAATCCGA-CCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttacatgcaagcaatatgctgcactgctgccttcctgtagTTGCACACCCAATTCGACCCCAAGCCTCCCTCTGCGACCAGTATTCCAGCCATCCTAAAGGCCTTGCAAGATGAGTGGgtgaggaaacttttcttctgttgatttttgcagGATGCAGTCATGCTGCA Alignment from Exonerate_coding2genome TTGCTCACCCAATCCGA-CCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttacatgcaagcaatatgctgcactgctgccttcctgtagTTGCACACCCAATTCGACCCCAAGCCTCCCTCTGCGACCAGTATTCCAGCCATCCTAAAGGCCTTGCAAGATGAGTGGgtgaggaaacttttcttctgttgatttttgcagGATGCAGTCATGCTGCA Alignment from GeneWise TTGCTCACCCAATCCGACCC-AAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttacatgcaagcaatatgctgcactgctgccttcctgtagTTGCACACCCAATTCGACCCCAAGCCTCCCTCTGCGACCAGTATTCCAGCCATCCTAAAGGCCTTGCAAGATGAGTGGgtgaggaaacttttcttctgttgatttttgcagGATGCAGTCATGCTGCA #### Prpf19_ID3045_4 --> 0 - 1 Original Alignment CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAA-CTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAg ctCTGGCTA CCTTGCAAGATGAGTGGgtaagtaaacttacttctctttatttgtaatagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAACAACCTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAggtaagtctcattccactgtaacactttccttcctatactagccTTGGCCA Alignment from CESAR CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAA-CTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAg ctCTGGCTA CCTTGCAAGATGAGTGGgtgaggaaacttacttctctttatttgtaatagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAACAACCTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAggtaagtctcattccactgtttatgtttaacttctgttttagccTTGGCCA Alignment from Spaln_aa2Genome CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAA-CTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CTCTGGCTA CCTTGCAAGATGAGTGGgtaagtaaacttacttctctttatttgtaatagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAACAAcCTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtaagtctcattccactgtaacactttccttcctatactagCCTTGGCCA Alignment from Spaln_nt2Genome CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAA-CTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CTCTGGCTA CCTTGCAAGATGAGTGGgtaagtaaacttacttctctttatttgtaatagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAACAACCTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtaagtctcattccactgtaacactttccttcctatactagCCTTGGCCA Alignment from Pairagon CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAA-CTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CTCTGGCTA CCTTGCAAGATGAGTGGgtaagtaaacttacttctctttatttgtaatagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAACAACCTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtaagtctcattccactgtaacactttccttcctatactagCCTTGGCCA Alignment from Exonerate_protein2genome CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAA-CTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CTCTGGCTA CCTTGCAAGATGAGTGGgtaagtaaacttacttctctttatttgtaatagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAACAACCTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtaagtctcattccactgtaacactttccttcctatactagCCTTGGCCA Alignment from Exonerate_coding2genome CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAA-CTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CTCTGGCTA CCTTGCAAGATGAGTGGgtaagtaaacttacttctctttatttgtaatagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAACAACCTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtaagtctcattccactgtaacactttccttcctatactagCCTTGGCCA Alignment from GeneWise CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAA-CTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CTCTGGCTA CCTTGCAAGATGAGTGGgtaagtaaacttacttctctttatttgtaatagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAACAACCTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtaagtctcattccactgtaacactttccttcctatactagCCTTGGCCA #### Prpf19_ID3049_8 --> 0 - 0 Original Alignment AGAGGAAAGACTGTCCCCGAGGAGCTGGTG-AAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG ctacttcatttgtagggacttggcctttccttaatttactgtcctcccagAGAGGAAAGACCGTCCCCAAGGAGCTGGTGCAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtatgtgctgagtgttaagtggctcccactgttctgaataacatggattg Alignment from CESAR AGAGGAAAGACTGTCCCCGAGGAGCTGGTG-AAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG ctacttcatttgtagggacttggcctttccttaatttactgtcctcccagAGAGGAAAGACCGTCCCCAAGGAGCTGGTGCAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtatgtgctgagtgttaagtggctcccactgttctgaataacatggattg Alignment from Spaln_aa2Genome AGAGGAAAGACTGTCCCCGAGGAGCTGGTG-AAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG ctacttcatttgtagggacttggcctttccttaatttactgtcctcccagAGAGGAAAGACCGTCCCCAAGGAGCTGGTGcAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtatgtgctgagtgttaagtggctcccactgttctgaataacatggattg Alignment from Spaln_nt2Genome AGAGGAAAGACTGTCCCCGAGGAGCTGGTG-AAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG ctacttcatttgtagggacttggcctttccttaatttactgtcctcccagAGAGGAAAGACCGTCCCCAAGGAGCTGGTGCAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtatgtgctgagtgttaagtggctcccactgttctgaataacatggattg Alignment from Pairagon AGAGGAAAGACTGTCCCCGAGGAGCTGGTG-AAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG ctacttcatttgtagggacttggcctttccttaatttactgtcctcccagAGAGGAAAGACCGTCCCCAAGGAGCTGGTGCAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtatgtgctgagtgttaagtggctcccactgttctgaataacatggattg Alignment from Exonerate_protein2genome AGAGGAAAGACTGTCCCCGAGGAGCTGGTG-AAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG ctacttcatttgtagggacttggcctttccttaatttactgtcctcccagAGAGGAAAGACCGTCCCCAAGGAGCTGGTGCAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtatgtgctgagtgttaagtggctcccactgttctgaataacatggattg Alignment from Exonerate_coding2genome AGAGGAAAGACTGTCCCCGAGGAGCTGGTG-AAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG ctacttcatttgtagggacttggcctttccttaatttactgtcctcccagAGAGGAAAGACCGTCCCCAAGGAGCTGGTGCAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtatgtgctgagtgttaagtggctcccactgttctgaataacatggattg Alignment from GeneWise CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGAAGAGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG ctacttcatttgtagGGACTTGGCCTTTCCTTAATTTACTGTCCTCCCAGAGAGGAAAGACCGTCC------CCAAGGAGCTGGTGCAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtatgtgctgagtgttaagtggctcccactgttctgaataacatggattg #### Prpf19_ID3054_13 --> 2 - 0 Original Alignment ctCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAG-ATCAAGATCTGGGACTTGAAG aaaaatatgatcctacatgattagcaaggcatctgccttgtctctttcagccCTTACCTGTGCACAGTTCCACCCTGATGGGCTTACCTTTGGAAGTGGGACTATGGACTCCCAACATTAGAATTTGGGACCTCAAGgtagggggatatagacatgaacaaagggaggtagtggtggggaattgatc Alignment from CESAR ctCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAG-ATCAAGATCTGGGACTTGAAG aaaaatatgatcctacatgattagcaaggcatctgccttgtctctttcagccCTTACCTGTGCACAGTTCCACCCTGATGGGCTTACCTTTGGAAGTGGGACTATGGACTCCCAACATTAGAATTTGGGACCTCAAGgtagggggatatagacatgaacaaagggaggtagtggtggggaattgatc Alignment from Spaln_aa2Genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAG-ATCAAGATCTGGGACTTGAAG aaaaatatgatcctacatgattagcaaggcatctgccttgtctctttcagCCCTTACCTGTGCACAGTTCCACCCTGATGGGCTTACCTTTGGAAGTGGGACTATGGACTCCCAAcATTAGAATTTGGGACCTCAAGgtagggggatatagacatgaacaaagggaggtagtggtggggaattgatc Alignment from Spaln_nt2Genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAG-ATCAAGATCTGGGACTTGAAG aaaaatatgatcctacatgattagcaaggcatctgccttgtctctttcagCCCTTACCTGTGCACAGTTCCACCCTGATGGGCTTACCTTTGGAAGTGGGACTATGGACTCCCAACATTAGAATTTGGGACCTCAAGgtagggggatatagacatgaacaaagggaggtagtggtggggaattgatc Alignment from Pairagon CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAG-ATCAAGATCTGGGACTTGAAG aaaaatatgatcctacatgattagcaaggcatctgccttgtctctttcagCCCTTACCTGTGCACAGTTCCACCCTGATGGGCTTACCTTTGGAAGTGGGACTATGGACTCCCAACATTAGAATTTGGGACCTCAAGgtagggggatatagacatgaacaaagggaggtagtggtggggaattgatc Alignment from Exonerate_protein2genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAG-ATCAAGATCTGGGACTTGAAG aaaaatatgatcctacatgattagcaaggcatctgccttgtctctttcagCCCTTACCTGTGCACAGTTCCACCCTGATGGGCTTACCTTTGGAAGTGGGACTATGGACTCCCAACATTAGAATTTGGGACCTCAAGgtagggggatatagacatgaacaaagggaggtagtggtggggaattgatc Alignment from Exonerate_coding2genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAG-ATCAAGATCTGGGACTTGAAG aaaaatatgatcctacatgattagcaaggcatctgccttgtctctttcagCCCTTACCTGTGCACAGTTCCACCCTGATGGGCTTACCTTTGGAAGTGGGACTATGGACTCCCAACATTAGAATTTGGGACCTCAAGgtagggggatatagacatgaacaaagggaggtagtggtggggaattgatc Alignment from GeneWise CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAG-ATCAAGATCTGGGACTTGAAG aaaaatatgatcctacatgattagcaaggcatctgccttgtctctttcagCCCTTACCTGTGCACAGTTCCACCCTGATGGGCTTACCTTTGGAAGTGGGACTATGGACTCCCAACATTAGAATTTGGGACCTCAAGgtagggggatatagacatgaacaaagggaggtagtggtggggaattgatc #### Pygm_ID1683_7 --> 2 - 0 Original Alignment tcAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTG-TACCCCAATGATAAT ggtccatctcctccagttaacactgagcatatatctttttctctttccagtcAATGTTGGAGGGTACATTCTGTCTGTGTTAGACCGAAACCTATCTGAGAACATCTCCCGTGTATTACTACCCCAATGATAATgtgagccagcctgcaccagaggaaataaacctaggaaactctgcacagtc Alignment from CESAR tcAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTG-TACCCCAATGATAAT agcccatctcctccagttaacactgagcatatatctttttctctttccagtcAATGTTGGAGGGTACATTCTGTCTGTGTTAGACCGAAACCTATCTGAGAACATCTCCCGTGTATTACTACCCCAATGATAATgtgagccagcctgcaccagaggaaataaacctaggaaactctgcacagtc Alignment from Spaln_aa2Genome TCAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTG-TACCCCAATGATAAT ggtccatctcctccagttaacactgagcatatatctttttctctttccagTCAATGTTGGAGGGTACATTCTGTCTGTGTTAGACCGAAACCTATCTGAGAACATCTCCCGTGTATTAcTACCCCAATGATAATgtgagccagcctgcaccagaggaaataaacctaggaaactctgcacagtc Alignment from Spaln_nt2Genome TCAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTG-TACCCCAATGATAAT ggtccatctcctccagttaacactgagcatatatctttttctctttccagTCAATGTTGGAGGGTACATTCTGTCTGTGTTAGACCGAAACCTATCTGAGAACATCTCCCGTGTATTACTACCCCAATGATAATgtgagccagcctgcaccagaggaaataaacctaggaaactctgcacagtc Alignment from Pairagon TCAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTG-TACCCCAATGATAAT ggtccatctcctccagttaacactgagcatatatctttttctctttccagTCAATGTTGGAGGGTACATTCTGTCTGTGTTAGACCGAAACCTATCTGAGAACATCTCCCGTGTATTACTACCCCAATGATAATgtgagccagcctgcaccagaggaaataaacctaggaaactctgcacagtc Alignment from Exonerate_protein2genome TCAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTG-TACCCCAATGATAAT ggtccatctcctccagttaacactgagcatatatctttttctctttccagTCAATGTTGGAGGGTACATTCTGTCTGTGTTAGACCGAAACCTATCTGAGAACATCTCCCGTGTATTACTACCCCAATGATAATgtgagccagcctgcaccagaggaaataaacctaggaaactctgcacagtc Alignment from Exonerate_coding2genome ggtccatctcctccagttaacactgagcatatatctttttctctttccagtcaatgttggagggtacattctgtctgtgttagaccgaaacctatctgagaacatctcccgtgtattactaccccaatgataatgtgagccagcctgcaccagaggaaataaacctaggaaactctgcacagtc Alignment from GeneWise TCAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTT-TTGTACCCCAATGATAAT ggtccatctcctccagttaacactgagcatatatctttttctctttccagTCAATGTTGGAGGGTACATTCTGTCTGTGTTAGACCGAAACCTATCTGAGAACATCTCCCGTGTATTACTACCCCAATGATAATgtgagccagcctgcaccagaggaaataaacctaggaaactctgcacagtc #### Pygm_ID1686_10 --> 0 - 0 Original Alignment GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAG-CGTTTCCTTAAC gcaaagatgggtggagggcaactaatgcagacaggtttatgtaattgcagGCCTGGGATGTTACAGTAAAGACCTGCGCCTACACTAACCACACAGTGCTGCCTGAAGCTCTTGAGCGTTGGCCTGTGCATCTCATGGAGTCACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGCTGTTTCCTGAATgtaaggataggatgatgaggaaggagcttgggtatgatgtataaatccat Alignment from CESAR GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAG-CGTTTCCTTAAC gcaaagatgggtggagggcaactaatgcagacaggtttatgtaattgcagGCCTGGGATGTTACAGTAAAGACCTGCGCCTACACTAACCACACAGTGCTGCCTGAAGCTCTTGAGCGTTGGCCTGTGCATCTCATGGAGTCACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGCTGTTTCCTGAATgtaaggataggatgatgaggaaggagcttgggtatgatgtataaatccat Alignment from Spaln_aa2Genome GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAG-CGTTTCCTTAAC gcaaagatgggtggagggcaactaatgcagacaggtttatgtaattgcagGCCTGGGATGTTACAGTAAAGACCTGCGCCTACACTAACCACACAGTGCTGCCTGAAGCTCTTGAGCGTTGGCCTGTGCATCTCATGGAGTCACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGcTGTTTCCTGAATgtaaggataggatgatgaggaaggagcttgggtatgatgtataaatccat Alignment from Spaln_nt2Genome GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGC-GTTTCCTTAAC gcaaagatgggtggagggcaactaatgcagacaggtttatgtaattgcagGCCTGGGATGTTACAGTAAAGACCTGCGCCTACACTAACCACACAGTGCTGCCTGAAGCTCTTGAGCGTTGGCCTGTGCATCTCATGGAGTCACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGCTGTTTCCTGAATgtaaggataggatgatgaggaaggagcttgggtatgatgtataaatccat Alignment from Pairagon GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGC-GTTTCCTTAAC gcaaagatgggtggagggcaactaatgcagacaggtttatgtaattgcagGCCTGGGATGTTACAGTAAAGACCTGCGCCTACACTAACCACACAGTGCTGCCTGAAGCTCTTGAGCGTTGGCCTGTGCATCTCATGGAGTCACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGCTGTTTCCTGAATgtaaggataggatgatgaggaaggagcttgggtatgatgtataaatccat Alignment from Exonerate_protein2genome GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGT-TTCCTTAAC gcaaagatgggtggagggcaactaatgcagacaggtttatgtaattgcagGCCTGGGATGTTACAGTAAAGACCTGCGCCTACACTAACCACACAGTGCTGCCTGAAGCTCTTGAGCGTTGGCCTGTGCATCTCATGGAGTCACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGCTGTTTCCTGAATgtaaggataggatgatgaggaaggagcttgggtatgatgtataaatccat Alignment from Exonerate_coding2genome GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGT-TTCCTTAAC gcaaagatgggtggagggcaactaatgcagacaggtttatgtaattgcagGCCTGGGATGTTACAGTAAAGACCTGCGCCTACACTAACCACACAGTGCTGCCTGAAGCTCTTGAGCGTTGGCCTGTGCATCTCATGGAGTCACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGCTGTTTCCTGAATgtaaggataggatgatgaggaaggagcttgggtatgatgtataaatccat Alignment from GeneWise GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCG gcaaagatgggtggagggcaactaatgcagacaggtttatgtaattgcagGCCTGGGATGTTACAGTAAAGACCTGCGCCTACACTAACCACACAGTGCTGCCTGAAGCTCTTGAGCGTTGGCCTGTGCATCTCATGGAGTCACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGCTgtttcctgaatgtaaggataggatgatgaggaaggagcttgggtatgatgtataaatccat #### Pygm_ID1687_11 --> 0 - 2 Original Alignment CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATG-GCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCat gagggggaagacttctgaaccaggggtctttttcgtatcttcaccattagCGGGTGGCAGCTGCATCCCCAGGGGATGTAGACAGGCTGTGGCGCATGTCACTTGTGGAGGATGGAGCAGTAAGGCGCATCAACATGCTCACATCTGTGCATTACAGGCTCACATGCTGTCAACAGTCTGGCCCGAATCCATTCAGAGATCCTCAAAAAGACCatgtaagtattgagattgagttaggcaacagggccacaagatagaaagctac Alignment from CESAR CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATG-GCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCat gagggggaagacttctgaaccaggggtctttttcgtatcttcaccattagCGGGTGGCAGCTGCATCCCCAGGGGATGTAGACAGGCTGTGGCGCATGTCACTTGTGGAGGATGGAGCAGTAAGGCGCATCAACATGCTCACATCTGTGCATTACAGGCTCACATGCTGTCAACAGTCTGGCCCGAATCCATTCAGAGATCCTCAAAAAGACCatgtaagtattgagattgagttaggcaacagggccacaagatagaaagctac Alignment from Spaln_aa2Genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATG-GCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gagggggaagacttctgaaccaggggtctttttcgtatcttcaccattagCGGGTGGCAGCTGCATCCCCAGGGGATGTAGACAGGCTGTGGCGCATGTCACTTGTGGAGGATGGAGCAGTAAGGCGCATCAACATGcTCACATCTGTGCATTACAGGCTCACATGCTGTCAACAGTCTGGCCCGAATCCATTCAGAGATCCTCAAAAAGACCATgtaagtattgagattgagttaggcaacagggccacaagatagaaagctac Alignment from Spaln_nt2Genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGG-CACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gagggggaagacttctgaaccaggggtctttttcgtatcttcaccattagCGGGTGGCAGCTGCATCCCCAGGGGATGTAGACAGGCTGTGGCGCATGTCACTTGTGGAGGATGGAGCAGTAAGGCGCATCAACATGCTCACATCTGTGCATTACAGGCTCACATGCTGTCAACAGTCTGGCCCGAATCCATTCAGAGATCCTCAAAAAGACCATgtaagtattgagattgagttaggcaacagggccacaagatagaaagctac Alignment from Pairagon CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGG-CACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gagggggaagacttctgaaccaggggtctttttcgtatcttcaccattagCGGGTGGCAGCTGCATCCCCAGGGGATGTAGACAGGCTGTGGCGCATGTCACTTGTGGAGGATGGAGCAGTAAGGCGCATCAACATGCTCACATCTGTGCATTACAGGCTCACATGCTGTCAACAGTCTGGCCCGAATCCATTCAGAGATCCTCAAAAAGACCATgtaagtattgagattgagttaggcaacagggccacaagatagaaagctac Alignment from Exonerate_protein2genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATG-GCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gagggggaagacttctgaaccaggggtctttttcgtatcttcaccattagCGGGTGGCAGCTGCATCCCCAGGGGATGTAGACAGGCTGTGGCGCATGTCACTTGTGGAGGATGGAGCAGTAAGGCGCATCAACATGCTCACATCTGTGCATTACAGGCTCACATGCTGTCAACAGTCTGGCCCGAATCCATTCAGAGATCCTCAAAAAGACCATgtaagtattgagattgagttaggcaacagggccacaagatagaaagctac Alignment from Exonerate_coding2genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATG-GCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gagggggaagacttctgaaccaggggtctttttcgtatcttcaccattagCGGGTGGCAGCTGCATCCCCAGGGGATGTAGACAGGCTGTGGCGCATGTCACTTGTGGAGGATGGAGCAGTAAGGCGCATCAACATGCTCACATCTGTGCATTACAGGCTCACATGCTGTCAACAGTCTGGCCCGAATCCATTCAGAGATCCTCAAAAAGACCATgtaagtattgagattgagttaggcaacagggccacaagatagaaagctac Alignment from GeneWise CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATG-GCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gagggggaagacttctgaaccaggggtctttttcgtatcttcaccattagCGGGTGGCAGCTGCATCCCCAGGGGATGTAGACAGGCTGTGGCGCATGTCACTTGTGGAGGATGGAGCAGTAAGGCGCATCAACATGCTCACATCTGTGCATTACAGGCTCACATGCTGTCAACAGTCTGGCCCGAATCCATTCAGAGATCCTCAAAAAGACCATgtaagtattgagattgagttaggcaacagggccacaagatagaaagctac #### Pygm_ID1692_16 --> 0 - 1 Original Alignment GCTGCACCCGGGTACCACATGGCTAAGATG-ATCATCAAGCTTATCACTGCCATTGGGGATGTGGTCAACCACGACCCTGCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAg ataagatgcccaaaagaagtgtacacatctttcttctcacctttatccagGCAGCACCTGGGTACCACATGGCTGAGATGCATCATCAAGATTATCACTGCAATAGGAGACGTGGTTAATCATGACCCTACAGTAGGGGATCGTCTCCAAGTGCTCTTTCTGGAGAACTATCGGGTCACACTTGCTGAGAGGggtgagtggcaccactgccaatggactactgttgctagctaagaagctatg Alignment from CESAR GCTGCACCCGGGTACCACATGGCTAAGATG-ATCATCAAGCTTATCACTGCCATTGGGGATGTGGTCAACCACGACCCTGCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAg ataagatgcccaaaagaagtgtacacatctttcttctcacctttatccagGCAGCACCTGGGTACCACATGGCTGAGATGCATCATCAAGATTATCACTGCAATAGGAGACGTGGTTAATCATGACCCTACAGTAGGGGATCGTCTCCAAGTGCTCTTTCTGGAGAACTATCGGGTCACACTTGCTGAGAGGggtgagtggcaccactgccaatggactactgttgctagctaagaagctatg Alignment from Spaln_aa2Genome GCTGCACCCGGGTACCACATGGCTAAGATG-ATCATCAAGCTTATCACTGCCATTGGGGATGTGGTCAACCACGACCCTGCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAG ataagatgcccaaaagaagtgtacacatctttcttctcacctttatccagGCAGCACCTGGGTACCACATGGCTGAGATGcATCATCAAGATTATCACTGCAATAGGAGACGTGGTTAATCATGACCCTACAGTAGGGGATCGTCTCCAAGTGCTCTTTCTGGAGAACTATCGGGTCACACTTGCTGAGAGGGgtgagtggcaccactgccaatggactactgttgctagctaagaagctatg Alignment from Spaln_nt2Genome GCTGCACCCGGGTACCACATGGCTAAGATG-ATCATCAAGCTTATCACTGCCATTGGGGATGTGGTCAACCACGACCCTGCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAG ataagatgcccaaaagaagtgtacacatctttcttctcacctttatccagGCAGCACCTGGGTACCACATGGCTGAGATGCATCATCAAGATTATCACTGCAATAGGAGACGTGGTTAATCATGACCCTACAGTAGGGGATCGTCTCCAAGTGCTCTTTCTGGAGAACTATCGGGTCACACTTGCTGAGAGGGgtgagtggcaccactgccaatggactactgttgctagctaagaagctatg Alignment from Pairagon GCTGCACCCGGGTACCACATGGCTAAGATG-ATCATCAAGCTTATCACTGCCATTGGGGATGTGGTCAACCACGACCCTGCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAG ataagatgcccaaaagaagtgtacacatctttcttctcacctttatccagGCAGCACCTGGGTACCACATGGCTGAGATGCATCATCAAGATTATCACTGCAATAGGAGACGTGGTTAATCATGACCCTACAGTAGGGGATCGTCTCCAAGTGCTCTTTCTGGAGAACTATCGGGTCACACTTGCTGAGAGGGgtgagtggcaccactgccaatggactactgttgctagctaagaagctatg Alignment from Exonerate_protein2genome GCTGCACCCGGGTACCACATGGCTAAGATG-ATCATCAAGCTTATCACTGCCATTGGGGATGTGGTCAACCACGACCCTGCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAG ataagatgcccaaaagaagtgtacacatctttcttctcacctttatccagGCAGCACCTGGGTACCACATGGCTGAGATGCATCATCAAGATTATCACTGCAATAGGAGACGTGGTTAATCATGACCCTACAGTAGGGGATCGTCTCCAAGTGCTCTTTCTGGAGAACTATCGGGTCACACTTGCTGAGAGGGgtgagtggcaccactgccaatggactactgttgctagctaagaagctatg Alignment from Exonerate_coding2genome GCTGCACCCGGGTACCACATGGCTAAGATG-ATCATCAAGCTTATCACTGCCATTGGGGATGTGGTCAACCACGACCCTGCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAG ataagatgcccaaaagaagtgtacacatctttcttctcacctttatccagGCAGCACCTGGGTACCACATGGCTGAGATGCATCATCAAGATTATCACTGCAATAGGAGACGTGGTTAATCATGACCCTACAGTAGGGGATCGTCTCCAAGTGCTCTTTCTGGAGAACTATCGGGTCACACTTGCTGAGAGGGgtgagtggcaccactgccaatggactactgttgctagctaagaagctatg Alignment from GeneWise GCTGCACCCGGGTACCACATGGCTAAGATG-ATCATCAAGCTTATCACTGCCATTGGGGATGTGGTCAACCACGACCCTGCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAG ataagatgcccaaaagaagtgtacacatctttcttctcacctttatccagGCAGCACCTGGGTACCACATGGCTGAGATGCATCATCAAGATTATCACTGCAATAGGAGACGTGGTTAATCATGACCCTACAGTAGGGGATCGTCTCCAAGTGCTCTTTCTGGAGAACTATCGGGTCACACTTGCTGAGAGGGgtgagtggcaccactgccaatggactactgttgctagctaagaagctatg #### Rasgrp2_ID1703_2 --> 2 - 2 Original Alignment atGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCT-CAGCTGGCTTCGAAACTGCTCCACtt ccgatgtcctcagcaggcttaagctccagatatcttacattctcttacagatGATTCAGGAAAGGTGCAAGATTCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGGTATATACCTTCCACTCCAGTTGGCTTCAAAACTGCTCCACttgtgagtttggtggtccataacattggaagatgttgagtgtctagtaccaa Alignment from CESAR atGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCT-CAGCTGGCTTCGAAACTGCTCCACtt ccgatgtcctcagcaggcttaagctccagatatcttacattctcttacagatGATTCAGGAAAGGTGCAAGATTCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGGTATATACCTTCCACTCCAGTTGGCTTCAAAACTGCTCCACttgtgagtttggtggtccataacattggaagatgttgagtgtctagtaccaa Alignment from Spaln_aa2Genome ATGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCT-CAGCTGGCTTCGAAACTGCTCCACTT ccgatgtcctcagcaggcttaagctccagatatcttacattctcttacagATGATTCAGGAAAGGTGCAAGATTCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGGTATATACCTTCCACTcCAGTTGGCTTCAAAACTGCTCCACTTgtgagtttggtggtccataacattggaagatgttgagtgtctagtaccaa Alignment from Spaln_nt2Genome ATGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCT-CAGCTGGCTTCGAAACTGCTCCACTT ccgatgtcctcagcaggcttaagctccagatatcttacattctcttacagATGATTCAGGAAAGGTGCAAGATTCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGGTATATACCTTCCACTCCAGTTGGCTTCAAAACTGCTCCACTTgtgagtttggtggtccataacattggaagatgttgagtgtctagtaccaa Alignment from Pairagon ATGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCT-CAGCTGGCTTCGAAACTGCTCCACTT ccgatgtcctcagcaggcttaagctccagatatcttacattctcttacagATGATTCAGGAAAGGTGCAAGATTCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGGTATATACCTTCCACTCCAGTTGGCTTCAAAACTGCTCCACTTgtgagtttggtggtccataacattggaagatgttgagtgtctagtaccaa Alignment from Exonerate_protein2genome ATGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCT-CAGCTGGCTTCGAAACTGCTCCACTT ccgatgtcctcagcaggcttaagctccagatatcttacattctcttacagATGATTCAGGAAAGGTGCAAGATTCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGGTATATACCTTCCACTCCAGTTGGCTTCAAAACTGCTCCACTTgtgagtttggtggtccataacattggaagatgttgagtgtctagtaccaa Alignment from Exonerate_coding2genome ccgatgtcctcagcaggcttaagctccagatatcttacattctcttacagatgattcaggaaaggtgcaagattcccagctagtacgtatgttcctaatgatgtatccatggtatataccttccactccagttggcttcaaaactgctccacttgtgagtttggtggtccataacattggaagatgttgagtgtctagtaccaa Alignment from GeneWise ATGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCC-TCTCAGCTGGCTTCGAAACTGCTCCACTT ccgatgtcctcagcaggcttaagctccagatatcttacattctcttacagATGATTCAGGAAAGGTGCAAGATTCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGGTATATACCTTCCACTCCAGTTGGCTTCAAAACTGCTCCACTTgtgagtttggtggtccataacattggaagatgttgagtgtctagtaccaa #### Rasgrp2_ID1704_3 --> 1 - 2 Original Alignment cTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATG-AAAACGTGTCACTTGGTCag atgcagtaagtataaagaatgcctaccttttgaaaatttttttcccatagcTATCAACAATCCCAGAAGGATAACTCTAATTCCCTACAGATGCAAAACATGTCACCTTGTCaggtgagtctggtccctaaagttaatcttggtgaaggcaaatgttagaccca Alignment from CESAR cTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATG-AAAACGTGTCACTTGGTCag atgcagtaagtataaagaatgcctaccttttgaaaatttttttcccatagcTATCAACAATCCCAGAAGGATAACTCTAATTCCCTACAGATGCAAAACATGTCACCTTGTCaggtgagtctggtccctaaagttaatcttggtgaaggcaaatgttagaccca Alignment from Spaln_aa2Genome CTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATG-AAAACGTGTCACTTGGTCAG atgcagtaagtataaagaatgcctaccttttgaaaatttttttcccatagCTATCAACAATCCCAGAAGGATAACTCTAATTCCCTACAGATGcAAAACATGTCACCTTGTCAGgtgagtctggtccctaaagttaatcttggtgaaggcaaatgttagaccca Alignment from Spaln_nt2Genome CTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATG-AAAACGTGTCACTTGGTCAG atgcagtaagtataaagaatgcctaccttttgaaaatttttttcccatagCTATCAACAATCCCAGAAGGATAACTCTAATTCCCTACAGATGCAAAACATGTCACCTTGTCAGgtgagtctggtccctaaagttaatcttggtgaaggcaaatgttagaccca Alignment from Pairagon CTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATG-AAAACGTGTCACTTGGTCAG atgcagtaagtataaagaatgcctaccttttgaaaatttttttcccatagCTATCAACAATCCCAGAAGGATAACTCTAATTCCCTACAGATGCAAAACATGTCACCTTGTCAGgtgagtctggtccctaaagttaatcttggtgaaggcaaatgttagaccca Alignment from Exonerate_protein2genome CTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATG-AAAACGTGTCACTTGGTCAG atgcagtaagtataaagaatgcctaccttttgaaaatttttttcccatagCTATCAACAATCCCAGAAGGATAACTCTAATTCCCTACAGATGCAAAACATGTCACCTTGTCAGgtgagtctggtccctaaagttaatcttggtgaaggcaaatgttagaccca Alignment from Exonerate_coding2genome CTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATG-AAAACGTGTCACTTGGTCAG atgcagtaagtataaagaatgcctaccttttgaaaatttttttcccatagCTATCAACAATCCCAGAAGGATAACTCTAATTCCCTACAGATGCAAAACATGTCACCTTGTCAGgtgagtctggtccctaaagttaatcttggtgaaggcaaatgttagaccca Alignment from GeneWise CTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATG-AAAACGTGTCACTTGGTCAG atgcagtaagtataaagaatgcctaccttttgaaaatttttttcccatagCTATCAACAATCCCAGAAGGATAACTCTAATTCCCTACAGATGCAAAACATGTCACCTTGTCAGgtgagtctggtccctaaagttaatcttggtgaaggcaaatgttagaccca #### Rasgrp2_ID1707_6 --> 0 - 0 Original Alignment TTCCAAGACTACCACAGC-TTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgaaatccactgttaacagtttcacaatagcttcattttcctctgcagTTTCATGACTATCACAGTCTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtgagtacagttctgtcgtatgagaccagatcctttgttgaatgtacaga Alignment from CESAR TTCCAAGACTACCACAGC-TTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgaaatccactgttaacagtttcacaatagcttcattttcctctgcagTTTCATGACTATCACAGTCTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtgagtacagttctgtcgtatgagaccagatcctttgttgaatgtacaga Alignment from Spaln_aa2Genome TTCCAAGACTACCACAGC-TTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgaaatccactgttaacagtttcacaatagcttcattttcctctgcagTTTCATGACTATCACAGTcTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtgagtacagttctgtcgtatgagaccagatcctttgttgaatgtacaga Alignment from Spaln_nt2Genome TTCCAAGACTACCACAG-CTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgaaatccactgttaacagtttcacaatagcttcattttcctctgcagTTTCATGACTATCACAGTCTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtgagtacagttctgtcgtatgagaccagatcctttgttgaatgtacaga Alignment from Pairagon TTCCAAGACTACCACAG-CTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgaaatccactgttaacagtttcacaatagcttcattttcctctgcagTTTCATGACTATCACAGTCTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtgagtacagttctgtcgtatgagaccagatcctttgttgaatgtacaga Alignment from Exonerate_protein2genome TTCCAAGACTACCACAGC-TTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgaaatccactgttaacagtttcacaatagcttcattttcctctgcagTTTCATGACTATCACAGTCTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtgagtacagttctgtcgtatgagaccagatcctttgttgaatgtacaga Alignment from Exonerate_coding2genome TTCCAAGACTACCACAGC-TTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgaaatccactgttaacagtttcacaatagcttcattttcctctgcagTTTCATGACTATCACAGTCTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtgagtacagttctgtcgtatgagaccagatcctttgttgaatgtacaga Alignment from GeneWise GCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgaaatccactgttaacagtttcacaatagcttcattttcctctgcagtttcatgactatcacagTCTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtgagtacagttctgtcgtatgagaccagatcctttgttgaatgtacaga #### Rasgrp2_ID1710_9 --> 0 - 0 Original Alignment GTGTCCCTGGATCAGTATCAG-ACAGAGGATGAGCTGTACCAGCTCTCACTGCAGCGAGAGCCACGCTCCAAGTCGTCG gcaaaagggaaagagcaagtggggtgcatttttttctgcatggcctgcagGTGTCTCTGGACCAGTATCAGCACAGAGGATGAGCTATACCAACTCTCATTGCAGCGGAAGCCGTGCTCCAAGTCATGGgtacgtcatatacccaccaattatatgtgaaacgaggaatacaattcatt Alignment from CESAR GTGTCCCTGGATCAGTATCAG-ACAGAGGATGAGCTGTACCAGCTCTCACTGCAGCGAGAGCCACGCTCCAAGTCGTCG gcaaaagggaaagagcaagtggggtgcatttttttctgcatggcctgcagGTGTCTCTGGACCAGTATCAGCACAGAGGATGAGCTATACCAACTCTCATTGCAGCGGAAGCCGTGCTCCAAGTCATGGgtacgtcatatacccaccaattatatgtgaaacgaggaatacaattcatt Alignment from Spaln_aa2Genome GTGTCCCTGGATCAGTATCAG-ACAGAGGATGAGCTGTACCAGCTCTCACTGCAGCGAGAGCCACGCTCCAAGTCGTCG gcaaaagggaaagagcaagtggggtgcatttttttctgcatggcctgcagGTGTCTCTGGACCAGTATCAGcACAGAGGATGAGCTATACCAACTCTCATTGCAGCGGAAGCCGTGCTCCAAGTCATGGgtacgtcatatacccaccaattatatgtgaaacgaggaatacaattcatt Alignment from Spaln_nt2Genome GTGTCCCTGGATCAGTATCAG-ACAGAGGATGAGCTGTACCAGCTCTCACTGCAGCGAGAGCCACGCTCCAAGTCGTCG gcaaaagggaaagagcaagtggggtgcatttttttctgcatggcctgcagGTGTCTCTGGACCAGTATCAGCACAGAGGATGAGCTATACCAACTCTCATTGCAGCGGAAGCCGTGCTCCAAGTCATGGgtacgtcatatacccaccaattatatgtgaaacgaggaatacaattcatt Alignment from Pairagon GTGTCCCTGGATCAGTATCAG-ACAGAGGATGAGCTGTACCAGCTCTCACTGCAGCGAGAGCCACGCTCCAAGTCGTCG gcaaaagggaaagagcaagtggggtgcatttttttctgcatggcctgcagGTGTCTCTGGACCAGTATCAGCACAGAGGATGAGCTATACCAACTCTCATTGCAGCGGAAGCCGTGCTCCAAGTCATGGgtacgtcatatacccaccaattatatgtgaaacgaggaatacaattcatt Alignment from Exonerate_protein2genome GTGTCCCTGGATCAGTATCAG-ACAGAGGATGAGCTGTACCAGCTCTCACTGCAGCGAGAGCCACGCTCCAAGTCGTCG gcaaaagggaaagagcaagtggggtgcatttttttctgcatggcctgcagGTGTCTCTGGACCAGTATCAGCACAGAGGATGAGCTATACCAACTCTCATTGCAGCGGAAGCCGTGCTCCAAGTCATGGgtacgtcatatacccaccaattatatgtgaaacgaggaatacaattcatt Alignment from Exonerate_coding2genome GTGTCCCTGGATCAGTATCAG-ACAGAGGATGAGCTGTACCAGCTCTCACTGCAGCGAGAGCCACGCTCCAAGTCGTCG gcaaaagggaaagagcaagtggggtgcatttttttctgcatggcctgcagGTGTCTCTGGACCAGTATCAGCACAGAGGATGAGCTATACCAACTCTCATTGCAGCGGAAGCCGTGCTCCAAGTCATGGgtacgtcatatacccaccaattatatgtgaaacgaggaatacaattcatt Alignment from GeneWise GACAGAGGATGAGCTGTACCAGCTCTCACTGCAGCGAGAGCCACGCTCCAAGTCGTCG gcaaaagggaaagagcaagtggggtgcatttttttctgcatggcctgcaggtgtctctggaccagtatcagCACAGAGGATGAGCTATACCAACTCTCATTGCAGCGGAAGCCGTGCTCCAAGTCATGGgtacgtcatatacccaccaattatatgtgaaacgaggaatacaattcatt #### Rasgrp2_ID1711_10 --> 0 - 0 Original Alignment CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGG-ACCTCAGTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG tgttgacttctactacaacccctcaggtctctcctctcctctctctccagCCTACCAGTCCAACAAGTTGTATGTCACCTCCTCGACCT---GTCTTTGAAGAGTGGCACATCAGCTGCTAAACCTAATCTTGATCAAGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtaagtgcatgctcatttttctgaggctctaccccacccaatggcccact Alignment from CESAR CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGG-ACCTCAGTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG tgttgacttctactacaacccctcaggtctctcctctcctctctctccagCCTACCAGTCCAACAAGTTGTATGTCACCTCCTCGA---CCTGTCTTTGAAGAGTGGCACATCAGCTGCTAAACCTAATCTTGATCAAGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtaagtgcatgctcatttttctgaggctctaccccacccaatggcccact Alignment from Spaln_aa2Genome CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGG-ACCTCAGTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG tgttgacttctactacaacccctcaggtctctcctctcctctctctccagCCTACCAGTCCAACAAGTTGTATGTCACCTCCTCGA---CCTGTCTTTGAAGAGTGGcACATCAGCTGCTAAACCTAATCTTGATCAAGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtaagtgcatgctcatttttctgaggctctaccccacccaatggcccact Alignment from Spaln_nt2Genome CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGG-ACCTCAGTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG tgttgacttctactacaacccctcaggtctctcctctcctctctctccagCCTACCAGTCCAACAAGTTGTATGTCACCTCCTCG---ACCTGTCTTTGAAGAGTGGCACATCAGCTGCTAAACCTAATCTTGATCAAGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtaagtgcatgctcatttttctgaggctctaccccacccaatggcccact Alignment from Pairagon CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGG-ACCTCAGTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG tgttgacttctactacaacccctcaggtctctcctctcctctctctccagCCTACCAGTCCAACAAGTTGTATGTCACCTCCTCGA---CCTGTCTTTGAAGAGTGGCACATCAGCTGCTAAACCTAATCTTGATCAAGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtaagtgcatgctcatttttctgaggctctaccccacccaatggcccact Alignment from Exonerate_protein2genome CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGG-ACCTCAGTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG tgttgacttctactacaacccctcaggtctctcctctcctctctctccagCCTACCAGTCCAACAAGTTGTATGTCACCTCCTCGA---CCTGTCTTTGAAGAGTGGCACATCAGCTGCTAAACCTAATCTTGATCAAGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtaagtgcatgctcatttttctgaggctctaccccacccaatggcccact Alignment from Exonerate_coding2genome CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGG-ACCTCAGTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG tgttgacttctactacaacccctcaggtctctcctctcctctctctccagCCTACCAGTCCAACAAGTTGTATGTCACCTCCTCGA---CCTGTCTTTGAAGAGTGGCACATCAGCTGCTAAACCTAATCTTGATCAAGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtaagtgcatgctcatttttctgaggctctaccccacccaatggcccact Alignment from GeneWise CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGG-ACCTCAGTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG tgttgacttctactacaacccctcaggtctctcctctcctctctctccagCCTACCAGTCCAACAAGTTGTATGTCACCTCCTCGACCT---GTCTTTGAAGAGTGGCACATCAGCTGCTAAACCTAATCTTGATCAAGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtaagtgcatgctcatttttctgaggctctaccccacccaatggcccact #### Rbp4_ID7524_3 --> 0 - 2 Original Alignment TTCTCTGGGCTCTGGTATGCC-ATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGag ctaacttagttgggaggtgaacttaggcttaaatgttcatctcaattcagTTTTCAGGGCTCTTGTATACTCATTGCA---AAGGGTCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGaggtaaatgaacctgagtgcagtactgtcactttagccaaataaggagggga Alignment from CESAR TTCTCTGGGCTCTGGTATGCC-ATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGag ctaacttagttgggaggtgaacttaggcttaaatgttcatctcaattcagTTTTCAGGGCTCTTGTATACTCATTGCA---AAGGGTCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGaggtaaatgaacctgagtgcagtactgtcactttagccaaataaggagggga Alignment from Spaln_aa2Genome TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaacttagttgggaggtgaacttaggcttaaatgttcatctcaattcagTTTTCAGGGCTCTTGTATA--CTCATTGCAAAGGGTCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGAGgtaaatgaacctgagtgcagtactgtcactttagccaaataaggagggga Alignment from Spaln_nt2Genome TTCTCTGGGCTCTGGTATGC-CATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaacttagttgggaggtgaacttaggcttaaatgttcatctcaattcagTTTTCAGGGCTCTTGTATACTCATTGC---AAAGGGTCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGAGgtaaatgaacctgagtgcagtactgtcactttagccaaataaggagggga Alignment from Pairagon TTCTCTGGGCTCTGGTATGC-CATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaacttagttgggaggtgaacttaggcttaaatgttcatctcaattcagTTTTCAGGGCTCTTGTATACTCATTGC---AAAGGGTCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGAGgtaaatgaacctgagtgcagtactgtcactttagccaaataaggagggga Alignment from Exonerate_protein2genome TTCTCTGGGCTCTGGTATGCC-ATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaacttagttgggaggtgaacttaggcttaaatgttcatctcaattcagTTTTCAGGGCTCTTGTATACTCATTGCA---AAGGGTCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGAGgtaaatgaacctgagtgcagtactgtcactttagccaaataaggagggga Alignment from Exonerate_coding2genome ATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaacttagttgggaggtgaacttaggcttaaatgttcatctcaattcagttttcagggctcttgtataCTCATTGCAAAGGGTCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGAGgtaaatgaacctgagtgcagtactgtcactttagccaaataaggagggga Alignment from GeneWise TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaacttagttgggaggtgaacttaggcttaaatgttcatctcaattcagttttcagGGCTCTTGTATACTCATTGCA---------AAGGGTCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGAGgtaaatgaacctgagtgcagtactgtcactttagccaaataaggagggga #### Rce1_ID578_4 --> 0 - 1 Original Alignment ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGAC-CTGACAGATGGGCTGAAGGTTGTCCTGg aaatgtgagaagtactgcaccttgtgctttctttttttattttaaatcagATCCTTTTCCCAGGTCCACTGACACAGCTTTCTATGGACTGTCCCTGTGACCTTGACAGATGGATTGAAAGTTGTTCTGggtaacacccacatcttgctgggagagcagaatacaaaagcagtgcaaaat Alignment from CESAR ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGAC-CTGACAGATGGGCTGAAGGTTGTCCTGg aaatgtgagaagtactgcaccttgtgctttctttttttattttaaatcagATCCTTTTCCCAGGTCCACTGACACAGCTTTCTATGGACTGTCCCTGTGACCTTGACAGATGGATTGAAAGTTGTTCTGggtaacacccacatcttgctgggagagcagaatacaaaagcagtgcaaaat Alignment from Spaln_aa2Genome ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGAC-CTGACAGATGGGCTGAAGGTTGTCCTGG aaatgtgagaagtactgcaccttgtgctttctttttttattttaaatcagATCCTTTTCCCAGGTCCACTGACACAGCTTTCTATGGACTGTCCCTGTGACcTTGACAGATGGATTGAAAGTTGTTCTGGgtaacacccacatcttgctgggagagcagaatacaaaagcagtgcaaaat Alignment from Spaln_nt2Genome ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCT-GACAGATGGGCTGAAGGTTGTCCTGG aaatgtgagaagtactgcaccttgtgctttctttttttattttaaatcagATCCTTTTCCCAGGTCCACTGACACAGCTTTCTATGGACTGTCCCTGTGACCTTGACAGATGGATTGAAAGTTGTTCTGGgtaacacccacatcttgctgggagagcagaatacaaaagcagtgcaaaat Alignment from Pairagon ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACC-TGACAGATGGGCTGAAGGTTGTCCTGG aaatgtgagaagtactgcaccttgtgctttctttttttattttaaatcagATCCTTTTCCCAGGTCCACTGACACAGCTTTCTATGGACTGTCCCTGTGACCTTGACAGATGGATTGAAAGTTGTTCTGGgtaacacccacatcttgctgggagagcagaatacaaaagcagtgcaaaat Alignment from Exonerate_protein2genome ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGAC-CTGACAGATGGGCTGAAGGTTGTCCTGG aaatgtgagaagtactgcaccttgtgctttctttttttattttaaatcagATCCTTTTCCCAGGTCCACTGACACAGCTTTCTATGGACTGTCCCTGTGACCTTGACAGATGGATTGAAAGTTGTTCTGGgtaacacccacatcttgctgggagagcagaatacaaaagcagtgcaaaat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGAC-CTGACAGATGGGCTGAAGGTTGTCCTGG aaatgtgagaagtactgcaccttgtgctttctttttttattttaaatcagATCCTTTTCCCAGGTCCACTGACACAGCTTTCTATGGACTGTCCCTGTGACCTTGACAGATGGATTGAAAGTTGTTCTGGgtaacacccacatcttgctgggagagcagaatacaaaagcagtgcaaaat #### Rce1_ID579_3 --> 0 - 0 Original Alignment CCAGGCACATCA-CTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG cataccgaggaatcttttgctcacaacatttaatgtcttttggtggacagCCTGGAACATCACCTGCTCATCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCTGCAGCATTGCTGCCACTGCTATTAACTATGgtgagtcatgcttggtatttttaccacattattgtaacaagtcacttaat Alignment from CESAR CCAGGCACATCA-CTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG cataccgaggaatcttttgctcacaacatttaatgtcttttggtggacagCCTGGAACATCACCTGCTCATCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCTGCAGCATTGCTGCCACTGCTATTAACTATGgtgagtcatgcttggtatttttaccacattattgtaacaagtcacttaat Alignment from Spaln_aa2Genome CCAGGCACATCA-CTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG cataccgaggaatcttttgctcacaacatttaatgtcttttggtggacagCCTGGAACATCAcCTGCTCATCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCTGCAGCATTGCTGCCACTGCTATTAACTATGgtgagtcatgcttggtatttttaccacattattgtaacaagtcacttaat Alignment from Spaln_nt2Genome CCAGGCACATCAC-TGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG cataccgaggaatcttttgctcacaacatttaatgtcttttggtggacagCCTGGAACATCACCTGCTCATCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCTGCAGCATTGCTGCCACTGCTATTAACTATGgtgagtcatgcttggtatttttaccacattattgtaacaagtcacttaat Alignment from Pairagon CCAGGCACATCA-CTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG cataccgaggaatcttttgctcacaacatttaatgtcttttggtggacagCCTGGAACATCACCTGCTCATCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCTGCAGCATTGCTGCCACTGCTATTAACTATGgtgagtcatgcttggtatttttaccacattattgtaacaagtcacttaat Alignment from Exonerate_protein2genome CCAGGCACATCA-CTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG cataccgaggaatcttttgctcacaacatttaatgtcttttggtggacagCCTGGAACATCACCTGCTCATCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCTGCAGCATTGCTGCCACTGCTATTAACTATGgtgagtcatgcttggtatttttaccacattattgtaacaagtcacttaat Alignment from Exonerate_coding2genome CCAGGCACATCA-CTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATGATCCTTTTCCTGGGTCCACTGATGCAGCTCTCT cataccgaggaatcttttgctcacaacatttaatgtcttttggtggacagCCTGGAACATCACCTGCTCATCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCTGCAGCATTGCTGCCACTGCTATTAACTATGGTGAGTCATGCTTGGTATTTTTACCACATTATTgtaacaagtcacttaat Alignment from GeneWise CCAGGCACA-TCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG cataccgaggaatcttttgctcacaacatttaatgtcttttggtggacagCCTGGAACATCACCTGCTCATCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCTGCAGCATTGCTGCCACTGCTATTAACTATGgtgagtcatgcttggtatttttaccacattattgtaacaagtcacttaat #### Rcor2_ID2095_6 --> 1 - 0 Original Alignment tGATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGA-GACCCCAAGCGAGAG tggataggtatgatcctcccttatctgcctcttttctctgtccatctcagtGATGAAGTAGATGAGGGGCAGCGGGCCGTCAGTGAGGGGGATCCAGATACTGGGCGATCCCAAGCAGAAGgtgaggtccatgccatattgtatcccatgccatactaaccctcttgccgg Alignment from CESAR tGATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGA-GACCCCAAGCGAGAG tggataggtatgatcctcccttatctgcctcttttctctgtccatctcagtGATGAAGTAGATGAGGGGCAGCGGGCCGTCAGTGAGGGGGATCCAGATACTGGGCGATCCCAAGCAGAAGgtgaggtccatgccatattgtatcccatgccatactaaccctcttgccgg Alignment from Spaln_aa2Genome TGATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGA------GACCCCAAGCGAGAG tggataggtatgatcctcccttatctgcctcttttctctgtccatctcagTGATGAAGTAGATGAGGGGCAGCGGGCCGTCAGTGAGGGGGATCCAGATACTGGGCGATCCCAAGCAGAAGGTGAGgtccatgccatattgtatcccatgccatactaaccctcttgccgg Alignment from Spaln_nt2Genome TGATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGA-GACCCCAAGCGAGAG tggataggtatgatcctcccttatctgcctcttttctctgtccatctcagTGATGAAGTAGATGAGGGGCAGCGGGCCGTCAGTGAGGGGGATCCAGATACTGGGCGATCCCAAGCAGAAGgtgaggtccatgccatattgtatcccatgccatactaaccctcttgccgg Alignment from Pairagon TGATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGA-GACCCCAAGCGAGAG tggataggtatgatcctcccttatctgcctcttttctctgtccatctcagTGATGAAGTAGATGAGGGGCAGCGGGCCGTCAGTGAGGGGGATCCAGATACTGGGCGATCCCAAGCAGAAGgtgaggtccatgccatattgtatcccatgccatactaaccctcttgccgg Alignment from Exonerate_protein2genome TGATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACT-GGAGACCCCAAGCGAGAG tggataggtatgatcctcccttatctgcctcttttctctgtccatctcagTGATGAAGTAGATGAGGGGCAGCGGGCCGTCAGTGAGGGGGATCCAGATACTGGGCGATCCCAAGCAGAAGgtgaggtccatgccatattgtatcccatgccatactaaccctcttgccgg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TGATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG------ tggataggtatgatcctcccttatctgcctcttttctctgtccatctcagTGATGAAGTAGATGAGGGGCAGCGGGCCGTCAGTGAGGGGGATCCAGATACTGGGCGATCCCAAGCAGAAGGTGAGgtccatgccatattgtatcccatgccatactaaccctcttgccgg #### Rcor2_ID2098_9 --> 0 - 1 Original Alignment GCTAATACCAAG-TTCAACTCCCGCTGGACCACTGATGAGCAACTTCTAGCTGTTCAAg cttctcccatttttagctttcattgatatctggtcttgcttaccttccagGCTAATACCAAACTTCAACTCCCGCTGGACCACTGATGAGGAACTTTTAGCAGTTCAAggtaacttatgctactgtgggattccaagaatctggagatgattgagaccc Alignment from CESAR GCTAATACCAAG-TTCAACTCCCGCTGGACCACTGATGAGCAACTTCTAGCTGTTCAAg cttctcccatttttagctttcattgatatctggtcttgcttaccttccagGCTAATACCAAACTTCAACTCCCGCTGGACCACTGATGAGGAACTTTTAGCAGTTCAAggtaacttatgctactgtgggattccaagaatctggagatgattgagaccc Alignment from Spaln_aa2Genome GCTAATACCAAG-TTCAACTCCCGCTGGACCACTGATGAGCAACTTCTAGCTGTTCAAG cttctcccatttttagctttcattgatatctggtcttgcttaccttccagGCTAATACCAAAcTTCAACTCCCGCTGGACCACTGATGAGGAACTTTTAGCAGTTCAAGgtaacttatgctactgtgggattccaagaatctggagatgattgagaccc Alignment from Spaln_nt2Genome GCTAATACCAAG-TTCAACTCCCGCTGGACCACTGATGAGCAACTTCTAGCTGTTCAAG cttctcccatttttagctttcattgatatctggtcttgcttaccttccagGCTAATACCAAACTTCAACTCCCGCTGGACCACTGATGAGGAACTTTTAGCAGTTCAAGgtaacttatgctactgtgggattccaagaatctggagatgattgagaccc Alignment from Pairagon GCTAATACCAAG-TTCAACTCCCGCTGGACCACTGATGAGCAACTTCTAGCTGTTCAAG cttctcccatttttagctttcattgatatctggtcttgcttaccttccagGCTAATACCAAACTTCAACTCCCGCTGGACCACTGATGAGGAACTTTTAGCAGTTCAAGgtaacttatgctactgtgggattccaagaatctggagatgattgagaccc Alignment from Exonerate_protein2genome GCTAATACCAAG-TTCAACTCCCGCTGGACCACTGATGAGCAACTTCTAGCTGTTCAAG cttctcccatttttagctttcattgatatctggtcttgcttaccttccagGCTAATACCAAACTTCAACTCCCGCTGGACCACTGATGAGGAACTTTTAGCAGTTCAAGgtaacttatgctactgtgggattccaagaatctggagatgattgagaccc Alignment from Exonerate_coding2genome CTCCGCCAAGCACTGGAGGGCGGCATTGACCCTCTCCGCCCCCCTG---AGGCTAATACCAAGTTCAACTCCCGCTGGACCACTGATGAGCAACTTCTAGCTGTTCAAG CTTCTCCCATTTTTAGCTTTCATTGATATCTGGTCTTGCTTACCTTCCAGGCTAATACCAAACTTCAACTCCCGCTGGACCACTGATGAGGAACTTTTAGCAGTTCAAGgtaacttatgctactgtgggattccaagaatctggagatgattgagaccc Alignment from GeneWise ----------AAGTTCAACTCCCGCTGGACCACTGATGAGCAACTTCTAGCTGTTCAAG cttctcccatttttagctttcattgatatctggtcttgcttaccttccagGCTAATACCAAACTTCAACTCCCGCTGGACCACTGATGAGGAACTTTTAGCAGTTCAAGgtaacttatgctactgtgggattccaagaatctggagatgattgagaccc #### Rcor2_ID2099_10 --> 2 - 0 Original Alignment ctATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTG-AAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GTCC ggaccagctgttttgtccacattcagacatagttctactctgtcctgcagccATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGCAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCTCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAGGAGGATGATAAGgtaagtgacctctctatgaaacattgtcctctttaatgttttccagGTAC Alignment from CESAR ctATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTG-AAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GTCC ggaccagctgttttgtccacattcagacatagttctactctgtcctgcagccATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGCAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCTCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAGGAGGATGATAAGgtaagtgacctctctatgaaacatctgctgctctctgtgttttcagGTAC Alignment from Spaln_aa2Genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTG-AAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GTCC ggaccagctgttttgtccacattcagacatagttctactctgtcctgcagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGcAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCTCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAGGAGGATGATAAGgtaagtgacctctctatgaaacattgtcctctttaatgttttccagGTAC Alignment from Spaln_nt2Genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTG-AAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GTCC ggaccagctgttttgtccacattcagacatagttctactctgtcctgcagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGCAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCTCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAGGAGGATGATAAGgtaagtgacctctctatgaaacattgtcctctttaatgttttccagGTAC Alignment from Pairagon CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTG-AAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GTCC ggaccagctgttttgtccacattcagacatagttctactctgtcctgcagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGCAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCTCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAGGAGGATGATAAGgtaagtgacctctctatgaaacattgtcctctttaatgttttccagGTAC Alignment from Exonerate_protein2genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTG-AAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GTCC ggaccagctgttttgtccacattcagacatagttctactctgtcctgcagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGCAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCTCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAGGAGGATGATAAGgtaagtgacctctctatgaaacattgtcctctttaatgttttccagGTAC Alignment from Exonerate_coding2genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTG---AAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GTCC ggaccagctgttttgtccacattcagacatagttctactctgtcctgcagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAG--TGCAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCTCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAGGAGGATGATAAGgtaagtgacctctctatgaaacattgtcctctttaatgttttccagGTAC Alignment from GeneWise CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAA-GTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GTCC ggaccagctgttttgtccacattcagacatagttctactctgtcctgcagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGCAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCTCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAGGAGGATGATAAGgtaagtgacctctctatgaaacattgtcctctttaatgttttccagGTAC #### Rela_ID1126_3 --> 2 - 0 Original Alignment agCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGC-TATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG ctggaggccagggcacaccgtaccgccttttgtttttgtttttctcttagaaCCAGCCCAGGCAGCTGGCCCTTATGTAGACATCATCAAACAACCAAACCAACAAGGC---CGTTTCCACCTATAAATCTGAGGGGCACTCTGAAGGTGGTATCCCTGGTGAGAGGAGCATGGATACTAAAAAAACACATCCCACTATAAAGgtatgcaataaggtccttgtatggcaaacaaggaaagaagtctcagtatc Alignment from CESAR agCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGC-TATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG ctggaggccagggcacaccgtaccgccttttgtttttgtttttctcttagaaCCAGCCCAGGCAGCTGGCCCTTATGTAGACATCATCAAACAACCAAACCAACAAGGC---CGTTTCCACCTATAAATCTGAGGGGCACTCTGAAGGTGGTATCCCTGGTGAGAGGAGCATGGATACTAAAAAAACACATCCCACTATAAAGgtatgcaataaggtccttgtatggcaaacaaggaaagaagtctcagtatc Alignment from Spaln_aa2Genome AGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGC-TATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG ctggaggccagggcacaccgtaccgccttttgtttttgtttttctcttagAACCAGCCCAGGCAGCTGGCCCTTATGTAGACATCATCAAACAACCAAACCAACAAGGC---CGTTTCCACcTATAAATCTGAGGGGCACTCTGAAGGTGGTATCCCTGGTGAGAGGAGCATGGATACTAAAAAAACACATCCCACTATAAAGgtatgcaataaggtccttgtatggcaaacaaggaaagaagtctcagtatc Alignment from Spaln_nt2Genome AGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGC-TATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG ctggaggccagggcacaccgtaccgccttttgtttttgtttttctcttagAACCAGCCCAGGCAGCTGGCCCTTATGTAGACATCATCAAACAACCAAACCAACAAGGC---CGTTTCCACCTATAAATCTGAGGGGCACTCTGAAGGTGGTATCCCTGGTGAGAGGAGCATGGATACTAAAAAAACACATCCCACTATAAAGgtatgcaataaggtccttgtatggcaaacaaggaaagaagtctcagtatc Alignment from Pairagon AGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGC-TATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG ctggaggccagggcacaccgtaccgccttttgtttttgtttttctcttagAACCAGCCCAGGCAGCTGGCCCTTATGTAGACATCATCAAACAACCAAACCAACAAGGC---CGTTTCCACCTATAAATCTGAGGGGCACTCTGAAGGTGGTATCCCTGGTGAGAGGAGCATGGATACTAAAAAAACACATCCCACTATAAAGgtatgcaataaggtccttgtatggcaaacaaggaaagaagtctcagtatc Alignment from Exonerate_protein2genome AGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGC-TATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG ctggaggccagggcacaccgtaccgccttttgtttttgtttttctcttagAACCAGCCCAGGCAGCTGGCCCTTATGTAGACATCATCAAACAACCAAACCAACAAGGC---CGTTTCCACCTATAAATCTGAGGGGCACTCTGAAGGTGGTATCCCTGGTGAGAGGAGCATGGATACTAAAAAAACACATCCCACTATAAAGgtatgcaataaggtccttgtatggcaaacaaggaaagaagtctcagtatc Alignment from Exonerate_coding2genome ctggaggccagggcacaccgtaccgccttttgtttttgtttttctcttagaaccagcccaggcagctggcccttatgtagacatcatcaaacaaccaaaccaacaaggccgtttccacctataaatctgaggggcactctgaaggtggtatccctggtgagaggagcatggatactaaaaaaacacatcccactataaaggtatgcaataaggtccttgtatggcaaacaaggaaagaagtctcagtatc Alignment from GeneWise GACGATCTGTTTCCCCTCATCTTTCCCTCAGAGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTC-CGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG agggcacaccgtaccgcct---------TTTGTTTTTGTTTTTCTCTTAGAACCAGCCCAGGCAGCTGGCCCTTATGTAGACATCATCAAACAACCAAACCAACAAGGC---CGTTTCCACCTATAAATCTGAGGGGCACTCTGAAGGTGGTATCCCTGGTGAGAGGAGCATGGATACTAAAAAAACACATCCCACTATAAAGgtatgcaataaggtccttgtatggcaaacaaggaaagaagtctcagtatc #### Rin1_ID811_6 --> 2 - 1 Original Alignment agTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATAC-ACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGg ggtagaattaactgtacacacccctcccactggcgtgcttttccaaccagagTGCTGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTCCTGAAGCCTCACCAATACCTCAGCTAAAAGCTCGCTCCCCACAGGATCTGGCCCAAGGGTCTGGAGCTGCGCTTTGCTTCTTCAACCCTCCCTTATCAGGAGATCTAGGGCCAACTAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTACTGACACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCTCCTGTCCATGTACTCCCAGGTACGTCTTCAAGCCAAACTGAACGACTACCC---CGGCAGTTGCAACAGCGAGAAGGCTCAGTGGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTCCAAGAAGTGGACTGCTGCTCTCCTAGCAGTTCAGAGGAGGAAGGCTCCTCAGGA---CCCACGACCTCACCATGTCTGAGCCGCCCGAGGCAGCGGCAGCCTCTACTCAGATCCATGAGTTCTGCTTTCTGTTCTTTGCTGATACCAGAACGGCAGGTTGATTGGGCAGCCACAACACTAATGCAAACCCGATGCCACAGTTGTGGGTCAACTGGCCCAGGACACCCTTTCACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCAGAGCTGGGGCCGGAAGAGCTACTGCTGCCAGAGTGGCTCagtaagtcactttagaagtgattccaacataaaatccactggatataacat Alignment from CESAR agTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATAC-ACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGg ggtagaattaactgtacacacccctcccactggcgtgcttttccaaccagagTGCTGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTCCTGAAGCCTCACCAATACCTCAGCTAAAAGCTCGCTCCCCACAGGATCTGGCCCAAGGGTCTGGAGCTGCGCTTTGCTTCTTCAACCCTCCCTTATCAGGAGATCTAGGGCCAACTAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTACTGACACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCTCCTGTCCATGTACTCCCAGGTACGTCTTCAAGCCAAACTGAACGACTACCC---CGGCAGTTGCAACAGCGAGAAGGCTCAGTGGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTCCAAGAAGTGGACTGCTGCTCTCCTAGCAGTTCAGAGGAGGAAGGCTCCTCAGGA---CCCACGACCTCACCATGTCTGAGCCGCCCGAGGCAGCGGCAGCCTCTACTCAGATCCATGAGTTCTGCTTTCTGTTCTTTGCTGATACCAGAACGGCAGGTTGATTGGGCAGCCACAACACTAATGCAAACCCGATGCCACAGTTGTGGGTCAACTGGCCCAGGACACCCTTTCACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCAGAGCTGGGGCCGGAAGAGCTACTGCTGCCAGAGTGGCTCagtaagtcactttagaagtgattccaacataaaatccactggacactccct Alignment from Spaln_aa2Genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATAC-ACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG ggtagaattaactgtacacacccctcccactggcgtgcttttccaaccagAGTGCTGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTCCTGAAGCCTCACCAATACCTCAGCTAAAAGCTCGCTCCCCACAGGATCTGGCCCAAGGGTCTGGAGCTGCGCTTTGCTTCTTCAACCCTCCCTTATCAGGAGATCTAGGGCCAACTAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTACTGACACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCTCCTGTCCATGTACTCCCAGGTACGTCTTCAAGCCAAACTGAACGACTA---CCCCGGCAGTTGCAACAGCGAGAAGGCTCAGTGGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTCCAAGAAGTGGACTGCTGCTCTCCTAGCAGTTCAGAGGAGGAAGGCTCCTCAGGA---CCCACGACCTCACCATGTCTGAGCCGCCCGAGGCAGCGGCAGCCTCTACTCAGATCCATGAGTTCTGCTTTCTGTTCTTTGCTGATACCAGAACGGCAGGTTGATTGGGCAGCCACAACACTAATGCAAACCCGATGCcACAGTTGTGGGTCAACTGGCCCAGGACACCCTTTCACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCAGAGCTGGGGCCGGAAGAGCTACTGCTGCCAGAGTGGCTCAgtaagtcactttagaagtgattccaacataaaatccactggatataacat Alignment from Spaln_nt2Genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATAC-ACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG ggtagaattaactgtacacacccctcccactggcgtgcttttccaaccagAGTGCTGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTCCTGAAGCCTCACCAATACCTCAGCTAAAAGCTCGCTCCCCACAGGATCTGGCCCAAGGGTCTGGAGCTGCGCTTTGCTTCTTCAACCCTCCCTTATCAGGAGATCTAGGGCCAACTAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTACTGACACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCTCCTGTCCATGTACTCCCAGGTACGTCTTCAAGCCAAACTGAACGACTACCC---CGGCAGTTGCAACAGCGAGAAGGCTCAGTGGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTCCAAGAAGTGGACTGCTGCTCTCCTAGCAGTTCAGAGGAGGAAGGCTCCTCAGGA---CCCACGACCTCACCATGTCTGAGCCGCCCGAGGCAGCGGCAGCCTCTACTCAGATCCATGAGTTCTGCTTTCTGTTCTTTGCTGATACCAGAACGGCAGGTTGATTGGGCAGCCACAACACTAATGCAAACCCGATGCCACAGTTGTGGGTCAACTGGCCCAGGACACCCTTTCACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCAGAGCTGGGGCCGGAAGAGCTACTGCTGCCAGAGTGGCTCAgtaagtcactttagaagtgattccaacataaaatccactggatataacat Alignment from Pairagon AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATA-CACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG ggtagaattaactgtacacacccctcccactggcgtgcttttccaaccagAGTGCTGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTCCTGAAGCCTCACCAATACCTCAGCTAAAAGCTCGCTCCCCACAGGATCTGGCCCAAGGGTCTGGAGCTGCGCTTTGCTTCTTCAACCCTCCCTTATCAGGAGATCTAGGGCCAACTAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTACTGACACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCTCCTGTCCATGTACTCCCAGGTACGTCTTCAAGCCAAACTGAACGACTACCC---CGGCAGTTGCAACAGCGAGAAGGCTCAGTGGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTCCAAGAAGTGGACTGCTGCTCTCCTAGCAGTTCAGAGGAGGAAGGCTCCTCAGGA---CCCACGACCTCACCATGTCTGAGCCGCCCGAGGCAGCGGCAGCCTCTACTCAGATCCATGAGTTCTGCTTTCTGTTCTTTGCTGATACCAGAACGGCAGGTTGATTGGGCAGCCACAACACTAATGCAAACCCGATGCCACAGTTGTGGGTCAACTGGCCCAGGACACCCTTTCACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCAGAGCTGGGGCCGGAAGAGCTACTGCTGCCAGAGTGGCTCAgtaagtcactttagaagtgattccaacataaaatccactggatataacat Alignment from Exonerate_protein2genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGA-TACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG ggtagaattaactgtacacacccctcccactggcgtgcttttccaaccagAGTGCTGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTCCTGAAGCCTCACCAATACCTCAGCTAAAAGCTCGCTCCCCACAGGATCTGGCCCAAGGGTCTGGAGCTGCGCTTTGCTTCTTCAACCCTCCCTTATCAGGAGATCTAGGGCCAACTAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTACTGACACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCTCCTGTCCATGTACTCCCAGGTACGTCTTCAAGCCAAACTGAACGACTA---CCCCGGCAGTTGCAACAGCGAGAAGGCTCAGTGGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTCCAAGAAGTGGACTGCTGCTCTCCTAGCAGTTCAGAGGAGGAAGGCTCCTCAGGA---CCCACGACCTCACCATGTCTGAGCCGCCCGAGGCAGCGGCAGCCTCTACTCAGATCCATGAGTTCTGCTTTCTGTTCTTTGCTGATACCAGAACGGCAGGTTGATTGGGCAGCCACAACACTAATGCAAACCCGATGCCACAGTTGTGGGTCAACTGGCCCAGGACACCCTTTCACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCAGAGCTGGGGCCGGAAGAGCTACTGCTGCCAGAGTGGCTCAgtaagtcactttagaagtgattccaacataaaatccactggatataacat Alignment from Exonerate_coding2genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGA-TACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG ggtagaattaactgtacacacccctcccactggcgtgcttttccaaccagAGTGCTGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTCCTGAAGCCTCACCAATACCTCAGCTAAAAGCTCGCTCCCCACAGGATCTGGCCCAAGGGTCTGGAGCTGCGCTTTGCTTCTTCAACCCTCCCTTATCAGGAGATCTAGGGCCAACTAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTACTGACACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCTCCTGTCCATGTACTCCCAGGTACGTCTTCAAGCCAAACTGAACGACTA---CCCCGGCAGTTGCAACAGCGAGAAGGCTCAGTGGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTCCAAGAAGTGGACTGCTGCTCTCCTAGCAGTTCAGAGGAGGAAGGCTCCTCAGGA---CCCACGACCTCACCATGTCTGAGCCGCCCGAGGCAGCGGCAGCCTCTACTCAGATCCATGAGTTCTGCTTTCTGTTCTTTGCTGATACCAGAACGGCAGGTTGATTGGGCAGCCACAACACTAATGCAAACCCGATGCCACAGTTGTGGGTCAACTGGCCCAGGACACCCTTTCACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCAGAGCTGGGGCCGGAAGAGCTACTGCTGCCAGAGTGGCTCAgtaagtcactttagaagtgattccaacataaaatccactggatataacat Alignment from GeneWise AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGA-TACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG ggtagaattaactgtacacacccctcccactggcgtgcttttccaaccagAGTGCTGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTCCTGAAGCCTCACCAATACCTCAGCTAAAAGCTCGCTCCCCACAGGATCTGGCCCAAGGGTCTGGAGCTGCGCTTTGCTTCTTCAACCCTCCCTTATCAGGAGATCTAGGGCCAACTAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTACTGACACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCTCCTGTCCATGTACTCCCAGGTACGTCTTCAAGCCAAACTGAACGACTA---CCCCGGCAGTTGCAACAGCGAGAAGGCTCAGTGGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTCCAAGAAGTGGACTGCTGCTCTCCTAGCAGTTCAGAGGAGGAAGGCTCCTCAGGA---CCCACGACCTCACCATGTCTGAGCCGCCCGAGGCAGCGGCAGCCTCTACTCAGATCCATGAGTTCTGCTTTCTGTTCTTTGCTGATACCAGAACGGCAGGTTGATTGGGCAGCCACAACACTAATGCAAACCCGATGCCACAGTTGTGGGTCAACTGGCCCAGGACACCCTTTCACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCAGAGCTGGGGCCGGAAGAGCTACTGCTGCCAGAGTGGCTCAgtaagtcactttagaagtgattccaacataaaatccactggatataacat #### Rnaseh2c_ID1104_3 --> 0 - 0 Original Alignment GACCGCCTTATCGGGGCCACC-GGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG gcacaagtgtatccaactaatgtacaaacccaggttattcttgttttcagGACCGCCTTATCGGGGCCACTCGGGAGCTTCAGCCATTTCACCTTGTGGGATCTGGAAACAGTCCCAGGTCCAGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTCGCAGCAGCAgtaagaagactgaagaaacttacctccaaggactgacaattcctttatct Alignment from CESAR GACCGCCTTATCGGGGCCACC-GGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG gcacaagtgtatccaactaatgtacaaacccaggttattcttgttttcagGACCGCCTTATCGGGGCCACTCGGGAGCTTCAGCCATTTCACCTTGTGGGATCTGGAAACAGTCCCAGGTCCAGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTCGCAGCAGCAgtaagaagactgaagaaacttacctccaaggactgacaattcctttatct Alignment from Spaln_aa2Genome GCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGACTTC---GACCGCCTTATCGGGGCCACCGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG GCACAAGTGTATCCAACTAATGTACAAACCCAGGTTATTCTTGTTTTCAGGACCGCCTTATCGGGGCCACTCGGGAGCTTCAGCCATTTCACCTTGTGGGATCTGGAAACAGTCCCAGGTCCAGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTCGCAGCAGCAgtaagaagactgaagaaacttacctccaaggactgacaattcctttatct Alignment from Spaln_nt2Genome GACTTCGACCGCCTTATCGGGGCCAC-CGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG gcacaagtgtatccaactaatgtacaaacccaggttattcttgttttcag------GACCGCCTTATCGGGGCCACTCGGGAGCTTCAGCCATTTCACCTTGTGGGATCTGGAAACAGTCCCAGGTCCAGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTCGCAGCAGCAgtaagaagactgaagaaacttacctccaaggactgacaattcctttatct Alignment from Pairagon GACCGCCTTATCGGGGCCAC-CGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG gcacaagtgtatccaactaatgtacaaacccaggttattcttgttttcagGACCGCCTTATCGGGGCCACTCGGGAGCTTCAGCCATTTCACCTTGTGGGATCTGGAAACAGTCCCAGGTCCAGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTCGCAGCAGCAgtaagaagactgaagaaacttacctccaaggactgacaattcctttatct Alignment from Exonerate_protein2genome gcacaagtgtatccaactaatgtacaaacccaggttattcttgttttcaggaccgccttatcggggccactcgggagcttcagccatttcaccttgtgggatctggaaacagtcccaggtccagatgccatagtgcatagggccctaggatggcccaccctcgcagcagcagtaagaagactgaagaaacttacctccaaggactgacaattcctttatct Alignment from Exonerate_coding2genome CTTATCGGGGCCACCGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCGATT gcacaagtgtatccaactaatgtacaaacccaggttattcttgttttcaggaccgccTTATCGGGGCCACTCGGGAGCTTCAGCCATTTCACCTTGTGGGATCTGGAAACAGTCCCAGGTCCAGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTCGCAGCAGCAGTAagaagactgaagaaacttacctccaaggactgacaattcctttatct Alignment from GeneWise ------------------GACCGCCTTATCGGGGCCACCGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCGATTCACGCCCAGGTCCCTGAGGAC gcacaagtgtatccaactaatgtacaaacccagGTTATTCTTGTTTTCAGGACCGCCTTATCGGGGCCACTCGGGAGCTTCAGCCATTTCACCTTGTGGGATCTGGAAACAGTCCCAGGTCCAGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTCGCAGCAGCAGTAAGAAGACTGAAGAAACTTACCtccaaggactgacaattcctttatct #### Rpp30_ID7088_8 --> 0 - 0 Original Alignment AATGTAATTCTGTCCAGT-GCTGCAGAAAGG tagtatgcaactggtcattgatttctctgactcgaatcttctttttacagAATGTTATTCTGTCAAGTCACAGCAGCAAGAgtgaggttagggcactggcagtggttaagacacttaacataggcaactct Alignment from CESAR AATGTAATTCTGTCCAGT-GCTGCAGAAAGG tagtatgcaactggtcattgatttctctgactcgaatcttctttttacagAATGTTATTCTGTCAAGTCACAGCAGCAAGAgtgaggttagggcactggcagtggttaagacacttaacataggcaactct Alignment from Spaln_aa2Genome AATGTAATTCTGTCCAGTGCTGCAGAAAGG------ tagtatgcaactggtcattgatttctctgactcgaatcttctttttacagAATGTTATTCTGTCAAGTCACAGCAGCAAGAGTGAGgttagggcactggcagtggttaagacacttaacataggcaactct Alignment from Spaln_nt2Genome AATGTAATTCTGTCCAGTG-CTGCAGAAAGG tagtatgcaactggtcattgatttctctgactcgaatcttctttttacagAATGTTATTCTGTCAAGTCACAGCAGCAAGAgtgaggttagggcactggcagtggttaagacacttaacataggcaactct Alignment from Pairagon AATGTAATTCTGTCCAGT-GCTGCAGAAAGG tagtatgcaactggtcattgatttctctgactcgaatcttctttttacagAATGTTATTCTGTCAAGTCACAGCAGCAAGAgtgaggttagggcactggcagtggttaagacacttaacataggcaactct Alignment from Exonerate_protein2genome AATGTAATTCTGTCCAGTGCTGCAGAAAG tagtatgcaactggtcattgatttctctgactcgaatcttctttttacagAATGTTATTCTGTCAAGTCACAGCAGCAAgagtgaggttagggcactggcagtggttaagacacttaacataggcaactct Alignment from Exonerate_coding2genome tagtatgcaactggtcattgatttctctgactcgaatcttctttttacagaatgttattctgtcaagtcacagcagcaagagtgaggttagggcactggcagtggttaagacacttaacataggcaactct Alignment from GeneWise tagtatgcaactggtcattgatttctctgactcgaatcttctttttacagaatgttattctgtcaagtcacagcagcaagagtgaggttagggcactggcagtggttaagacacttaacataggcaactct #### Rps6kb2_ID369_13 --> 0 - 0 Original Alignment CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGT-CCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG tattggggttttcagtaccccagatcattcttgtctggcttctcccttagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGCTTCATGCGACAAACTCCAGTCGGTACCCCCTGATGACACACCACTGACTGAGTGCGCCAACCAAGCCTTCTTAgtaggacgctggattatgagaaaggacggggttgtgccacctggctttac Alignment from CESAR CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGT-CCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG tattggggttttcagtaccccagatcattcttgtctggcttctcccttagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGCTTCATGCGACAAACTCCAGTCGGTACCCCCTGATGACACACCACTGACTGAGTGCGCCAACCAAGCCTTCTTAgtaggacgctggattatgagaaaggacggggttgtgccacctggctttac Alignment from Spaln_aa2Genome CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGTCCA-GATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG tattggggttttcagtaccccagatcattcttgtctggcttctcccttagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGCTTCATGCGACAAACTCCAGTCGGTACCCCCtGATGACACACCACTGACTGAGTGCGCCAACCAAGCCTTCTTAgtaggacgctggattatgagaaaggacggggttgtgccacctggctttac Alignment from Spaln_nt2Genome CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGTCCA-GATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG tattggggttttcagtaccccagatcattcttgtctggcttctcccttagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGCTTCATGCGACAAACTCCAGTCGGTACCCCCTGATGACACACCACTGACTGAGTGCGCCAACCAAGCCTTCTTAgtaggacgctggattatgagaaaggacggggttgtgccacctggctttac Alignment from Pairagon CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGTCCA-------------GATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG tattggggttttcagtaccccagatcattcttgtctggcttctcccttagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGCTTCATGCGACAAAC------------TCCAGTCGGTACCCCCTGATGACACACCACTGACTGAGTGCGCCAACCAAGCCTTCTTAgtaggacgctggattatgagaaaggacggggttgtgccacctggctttac Alignment from Exonerate_protein2genome CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGT-CCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG tattggggttttcagtaccccagatcattcttgtctggcttctcccttagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGCTTCATGCGACAAACTCCAGTCGGTACCCCCTGATGACACACCACTGACTGAGTGCGCCAACCAAGCCTTCTTAgtaggacgctggattatgagaaaggacggggttgtgccacctggctttac Alignment from Exonerate_coding2genome CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGT-CCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG tattggggttttcagtaccccagatcattcttgtctggcttctcccttagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGCTTCATGCGACAAACTCCAGTCGGTACCCCCTGATGACACACCACTGACTGAGTGCGCCAACCAAGCCTTCTTAgtaggacgctggattatgagaaaggacggggttgtgccacctggctttac Alignment from GeneWise CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGAT-AGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG tattggggttttcagtaccccagatcattcttgtctggcttctcccttagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGCTTCATGCGACAAACTCCAGTCGGTACCCCCTGATGACACACCACTGACTGAGTGCGCCAACCAAGCCTTCTTAgtaggacgctggattatgagaaaggacggggttgtgccacctggctttac #### Rps6kb2_ID370_12 --> 0 - 0 Original Alignment AGGCACCCCTTT-TTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG acaagccaagttgacatagtggcatagttcatattttttgtcccttacagCGGCACCCTTTCCTTCAGACACATCAATTGGGATGACCCCTTAGCCTGCTGTGTGGACCCTCTCTTCAGGCCAAGTCTGgtgggtacatggacattggtattcgttactcactattggggttttcagta Alignment from CESAR AGGCACCCCTTT-TTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG acaagccaagttgacatagtggcatagttcatattttttgtcccttacagCGGCACCCTTTCCTTCAGACACATCAATTGGGATGACCCCTTAGCCTGCTGTGTGGACCCTCTCTTCAGGCCAAGTCTGgtgggtacatggacattggtattcgttactcactattggggttttcagta Alignment from Spaln_aa2Genome AGGCACCCCTTT-TTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG acaagccaagttgacatagtggcatagttcatattttttgtcccttacagCGGCACCCTTTCcTTCAGACACATCAATTGGGATGACCCCTTAGCCTGCTGTGTGGACCCTCTCTTCAGGCCAAGTCTGgtgggtacatggacattggtattcgttactcactattggggttttcagta Alignment from Spaln_nt2Genome AGGCACCCCTTT-TTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG acaagccaagttgacatagtggcatagttcatattttttgtcccttacagCGGCACCCTTTCCTTCAGACACATCAATTGGGATGACCCCTTAGCCTGCTGTGTGGACCCTCTCTTCAGGCCAAGTCTGgtgggtacatggacattggtattcgttactcactattggggttttcagta Alignment from Pairagon AGGCACCCCTT-TTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG acaagccaagttgacatagtggcatagttcatattttttgtcccttacagCGGCACCCTTTCCTTCAGACACATCAATTGGGATGACCCCTTAGCCTGCTGTGTGGACCCTCTCTTCAGGCCAAGTCTGgtgggtacatggacattggtattcgttactcactattggggttttcagta Alignment from Exonerate_protein2genome AGGCACCCCTTT-TTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG acaagccaagttgacatagtggcatagttcatattttttgtcccttacagCGGCACCCTTTCCTTCAGACACATCAATTGGGATGACCCCTTAGCCTGCTGTGTGGACCCTCTCTTCAGGCCAAGTCTGgtgggtacatggacattggtattcgttactcactattggggttttcagta Alignment from Exonerate_coding2genome AGGCACCCCTTT-TTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG acaagccaagttgacatagtggcatagttcatattttttgtcccttacagCGGCACCCTTTCCTTCAGACACATCAATTGGGATGACCCCTTAGCCTGCTGTGTGGACCCTCTCTTCAGGCCAAGTCTGgtgggtacatggacattggtattcgttactcactattggggttttcagta Alignment from GeneWise AGGCACCCCTTT-TTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG acaagccaagttgacatagtggcatagttcatattttttgtcccttacagCGGCACCCTTTCCTTCAGACACATCAATTGGGATGACCCCTTAGCCTGCTGTGTGGACCCTCTCTTCAGGCCAAGTCTGgtgggtacatggacattggtattcgttactcactattggggttttcagta #### Rps6kb2_ID372_10 --> 0 - 0 Original Alignment CCGCCCTTCACT-GCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG agggcgactgcattgagctcttccttgcacttaaatttttattcttacagCCACCTTTCACTCGCTGAGAACCGGAAGAAACCAACTGATAATATGATTAAAAGTAAGTTA---CTCCCACCGGATCTTATGCCTGATGCTCGGGACCTTGCCAGAAAGgtgagatccactctcattcaaaaaattacaaacacctcctttagatttcc Alignment from CESAR CCGCCCTTCACT-GCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG agggcgactgcattgagctcttccttgcacttaaatttttattcttacagCCACCTTTCACTCGCTGAGAACCGGAAGAAACCAACTGATAATATGATTAAAAGTAAGTTA---CTCCCACCGGATCTTATGCCTGATGCTCGGGACCTTGCCAGAAAGgtgagatccactctcattcaaaaaattacaaacacctcctttagatttcc Alignment from Spaln_aa2Genome CCGCCCTTCACT-GCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG agggcgactgcattgagctcttccttgcacttaaatttttattcttacagCCACCTTTCACTcGCTGAGAACCGGAAGAAACCAACTGATAATATGATTAAAAGTAAGTTA---CTCCCACCGGATCTTATGCCTGATGCTCGGGACCTTGCCAGAAAGgtgagatccactctcattcaaaaaattacaaacacctcctttagatttcc Alignment from Spaln_nt2Genome CCGCCCTTCACT-GCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG agggcgactgcattgagctcttccttgcacttaaatttttattcttacagCCACCTTTCACTCGCTGAGAACCGGAAGAAACCAACTGATAATATGATTAAAAGTAA---GTTACTCCCACCGGATCTTATGCCTGATGCTCGGGACCTTGCCAGAAAGgtgagatccactctcattcaaaaaattacaaacacctcctttagatttcc Alignment from Pairagon CCGCCCTTCACT-GCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAG----------------------CTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG agggcgactgcattgagctcttccttgcacttaaatttttattcttacagCCACCTTTCACTCGCTGAGAACCGGAAGAAACCAACTGATAATATGATTAAAAGTAAGTTACTCCCACCGGATCTTATGCCT-------------------------GATGCTCGGGACCTTGCCAGAAAGgtgagatccactctcattcaaaaaattacaaacacctcctttagatttcc Alignment from Exonerate_protein2genome CCGCCCTTCACT-GCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG agggcgactgcattgagctcttccttgcacttaaatttttattcttacagCCACCTTTCACTCGCTGAGAACCGGAAGAAACCAACTGATAATATGATTAAAAGTAAGTTA---CTCCCACCGGATCTTATGCCTGATGCTCGGGACCTTGCCAGAAAGgtgagatccactctcattcaaaaaattacaaacacctcctttagatttcc Alignment from Exonerate_coding2genome CCGCCCTTCACT-GCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG agggcgactgcattgagctcttccttgcacttaaatttttattcttacagCCACCTTTCACTCGCTGAGAACCGGAAGAAACCAACTGATAATATGATTAAAAGTAAGTTA---CTCCCACCGGATCTTATGCCTGATGCTCGGGACCTTGCCAGAAAGgtgagatccactctcattcaaaaaattacaaacacctcctttagatttcc Alignment from GeneWise ------------------------------------------------------------ACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG AGGGCGACTGCATTGAGCTCTTCCTTGCACTTAAATTTTTATTCTTACAGCCACCTTTCACTCGCTGAGAACCGGAAGAAACCAACTGATAATATGATTAAAAGTAAGTTA---CTCCCACCGGATCTTATGCCTGATGCTCGGGACCTTGCCAGAAAGgtgagatccactctcattcaaaaaattacaaacacctcctttagatttcc #### Rps6kb2_ID375_7 --> 1 - 1 Original Alignment cTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTC-CATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGg gataccttgtgtagtaggtattaagctccttctgctttttccacatgtagtTTCTACCTTGCAGAGATCACTTTGGCACTAGGCCATCTCCCATTTCCATAGTATCATTTACCGTGATCACAAGCCAGGAAACATAATGCTCACCAGTCAGggtaggtgagatgttaacatccctgtgtgttaaacctagttttgccagtgt Alignment from CESAR cTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTC-CATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGg gataccttgtgtagtaggtattaagctccttctgctttttccacatgtagtTTCTACCTTGCAGAGATCACTTTGGCACTAGGCCATCTCCCATTTCCATAGTATCATTTACCGTGATCACAAGCCAGGAAACATAATGCTCACCAGTCAGggtaggtgagatgttaacatccctgtgtgttaaacctagttttgccagtgt Alignment from Spaln_aa2Genome CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTC-CATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGG gataccttgtgtagtaggtattaagctccttctgctttttccacatgtagTTTCTACCTTGCAGAGATCACTTTGGCACTAGGCCATCTCcCATTTCCATAGTATCATTTACCGTGATCACAAGCCAGGAAACATAATGCTCACCAGTCAGGgtaggtgagatgttaacatccctgtgtgttaaacctagttttgccagtgt Alignment from Spaln_nt2Genome CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCT-CCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGG gataccttgtgtagtaggtattaagctccttctgctttttccacatgtagTTTCTACCTTGCAGAGATCACTTTGGCACTAGGCCATCTCCCATTTCCATAGTATCATTTACCGTGATCACAAGCCAGGAAACATAATGCTCACCAGTCAGGgtaggtgagatgttaacatccctgtgtgttaaacctagttttgccagtgt Alignment from Pairagon CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCT-CCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGG gataccttgtgtagtaggtattaagctccttctgctttttccacatgtagTTTCTACCTTGCAGAGATCACTTTGGCACTAGGCCATCTCCCATTTCCATAGTATCATTTACCGTGATCACAAGCCAGGAAACATAATGCTCACCAGTCAGGgtaggtgagatgttaacatccctgtgtgttaaacctagttttgccagtgt Alignment from Exonerate_protein2genome CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTC-CATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGG gataccttgtgtagtaggtattaagctccttctgctttttccacatgtagTTTCTACCTTGCAGAGATCACTTTGGCACTAGGCCATCTCCCATTTCCATAGTATCATTTACCGTGATCACAAGCCAGGAAACATAATGCTCACCAGTCAGGgtaggtgagatgttaacatccctgtgtgttaaacctagttttgccagtgt Alignment from Exonerate_coding2genome CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTC-CATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGG gataccttgtgtagtaggtattaagctccttctgctttttccacatgtagTTTCTACCTTGCAGAGATCACTTTGGCACTAGGCCATCTCCCATTTCCATAGTATCATTTACCGTGATCACAAGCCAGGAAACATAATGCTCACCAGTCAGGgtaggtgagatgttaacatccctgtgtgttaaacctagttttgccagtgt Alignment from GeneWise CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCAT-CTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGG gataccttgtgtagtaggtattaagctccttctgctttttccacatgtagTTTCTACCTTGCAGAGATCACTTTGGCACTAGGCCATCTCCCATTTCCATAGTATCATTTACCGTGATCACAAGCCAGGAAACATAATGCTCACCAGTCAGGgtaggtgagatgttaacatccctgtgtgttaaacctagttttgccagtgt #### Rps6kb2_ID376_6 --> 2 - 2 Original Alignment gtGGTGAGCTCTTCACACATCTTGAGCGAGAA-GGCATCTTCCTGGAAGACACAGCCtg aggctaaatttgctgatgaagtcctcagcactttaaaataatctttccagttGGTGAGCTTTTCACACATCTAGAACGGGAACGGCATATTTCTGGAAGACACAGCCtggtaagtaagtctgcaggataccttgtgtagtaggtattaagctcggctct Alignment from CESAR gtGGTGAGCTCTTCACACATCTTGAGCGAGAA-GGCATCTTCCTGGAAGACACAGCCtg aggctaaatttgctgatgaagtcctcagcactttaaaataatctttccagttGGTGAGCTTTTCACACATCTAGAACGGGAACGGCATATTTCTGGAAGACACAGCCtggtaagtaagtctgcaggataccttgtgtagtaggtattaagctccttctg Alignment from Spaln_aa2Genome GTGGTGAGCTCTTCACACATCTTGAGCGAGAA-GGCATCTTCCTGGAAGACACAGCCTG aggctaaatttgctgatgaagtcctcagcactttaaaataatctttccagTTGGTGAGCTTTTCACACATCTAGAACGGGAAcGGCATATTTCTGGAAGACACAGCCTGgtaagtaagtctgcaggataccttgtgtagtaggtattaagctcggctct Alignment from Spaln_nt2Genome GTGGTGAGCTCTTCACACATCTTGAGCGAGAA-GGCATCTTCCTGGAAGACACAGCCTG aggctaaatttgctgatgaagtcctcagcactttaaaataatctttccagTTGGTGAGCTTTTCACACATCTAGAACGGGAACGGCATATTTCTGGAAGACACAGCCTGgtaagtaagtctgcaggataccttgtgtagtaggtattaagctcggctct Alignment from Pairagon GTGGTGAGCTCTTCACACATCTTGAGCGAGAA-GGCATCTTCCTGGAAGACACAGCCTG aggctaaatttgctgatgaagtcctcagcactttaaaataatctttccagTTGGTGAGCTTTTCACACATCTAGAACGGGAACGGCATATTTCTGGAAGACACAGCCTGgtaagtaagtctgcaggataccttgtgtagtaggtattaagctcggctct Alignment from Exonerate_protein2genome GTGGTGAGCTCTTCACACATCTTGAGCGAGAA-GGCATCTTCCTGGAAGACACAGCCTG aggctaaatttgctgatgaagtcctcagcactttaaaataatctttccagTTGGTGAGCTTTTCACACATCTAGAACGGGAACGGCATATTTCTGGAAGACACAGCCTGgtaagtaagtctgcaggataccttgtgtagtaggtattaagctcggctct Alignment from Exonerate_coding2genome GTGGTGAGCTCTTCACACATCTTGAGCGAGAAGGCATCTTCC aggctaaatttgctgatgaagtcctcagcactttaaaataatctttccagttggtgagcttttcacacatctagaacgggaacggcatatttctggaagacacagcctggtaagtaaGTCTGCAGGATACCTTGTGTAGTAGGTATTAAGCTCGGCTCT Alignment from GeneWise GTGGTGAGCTCTTCACACATCTTGAGCGA-GAAGGCATCTTCCTGGAAGACACAGCCTG aggctaaatttgctgatgaagtcctcagcactttaaaataatctttccagTTGGTGAGCTTTTCACACATCTAGAACGGGAACGGCATATTTCTGGAAGACACAGCCTGgtaagtaagtctgcaggataccttgtgtagtaggtattaagctcggctct #### Rps6kb2_ID379_3 --> 1 - 0 Original Alignment gACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGGGC-AAGGGGGGCTATGGCAAG gtgtgtatactcccctaaattgtctccctctttctggaaactctccacaggACAGTGGGACACTATGACGAAGTCGAATTAACAGAGAGA------AATCTTGACCCTGAACGTATTGGGCCCCACTGCTTTGAGTTACTCAGTGTCCTGGTCCAAAGGAGGTTATGGAAAGgtgagttatctcacccctcccaatgacatcagctctagtgcaagtgtaag Alignment from CESAR gACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTG-GGCAAGGGGGGCTATGGCAAG gtgtgtatactcccctaaattgtctccctctttctggaaactctccacaggACAGTGGGACACTATGACGAAGTCGAATTAACAGAGAGA------AATCTTGACCCTGAACGTATTGGGCCCCACTGCTTTGAGTTACTCAGTGTCCTGGTCCAAAGGAGGTTATGGAAAGgtgagttatctcacccctcccaatgacatcagctctagtgcaagtgtaag Alignment from Spaln_aa2Genome GACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTG-GGCAAGGGGGGCTATGGCAAG gtgtgtatactcccctaaattgtctccctctttctggaaactctccacagGACAGTGGGACACTATGACGAAGTCGAATTAACAGAGAGA------AATCTTGACCCTGAACGTATTGGGCCCCACTGCTTTGAGTTACTCAGTGTCCTGgTCCAAAGGAGGTTATGGAAAGgtgagttatctcacccctcccaatgacatcagctctagtgcaagtgtaag Alignment from Spaln_nt2Genome GACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGGGC-AAGGGGGGCTATGGCAAG gtgtgtatactcccctaaattgtctccctctttctggaaactctccacagGACAGTGGGACACTATGACGAAGTCGAATTAACAGAGAG------AAATCTTGACCCTGAACGTATTGGGCCCCACTGCTTTGAGTTACTCAGTGTCCTGGTCCAAAGGAGGTTATGGAAAGgtgagttatctcacccctcccaatgacatcagctctagtgcaagtgtaag Alignment from Pairagon GACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGG-GCAAGGGGGGCTATGGCAAG gtgtgtatactcccctaaattgtctccctctttctggaaactctccacagGACAGTGGGACACTATGACGAAGTCGAATTAACAGAGAG------AAATCTTGACCCTGAACGTATTGGGCCCCACTGCTTTGAGTTACTCAGTGTCCTGGTCCAAAGGAGGTTATGGAAAGgtgagttatctcacccctcccaatgacatcagctctagtgcaagtgtaag Alignment from Exonerate_protein2genome GACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTG-GGCAAGGGGGGCTATGGCAAG gtgtgtatactcccctaaattgtctccctctttctggaaactctccacagGACAGTGGGACACTATGACGAAGTCGAATTAACAGAGAGA------AATCTTGACCCTGAACGTATTGGGCCCCACTGCTTTGAGTTACTCAGTGTCCTGGTCCAAAGGAGGTTATGGAAAGgtgagttatctcacccctcccaatgacatcagctctagtgcaagtgtaag Alignment from Exonerate_coding2genome GCTGCTGGCCTGGAGACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTG-GGCAAGGGGGGCTATGGCAAG gtgtgtatactcccctaaattgtctccctctttctgGAAACTCTCCACAGGACAGTGGGACACTATGACGAAGTCGAATTAACAGAGAGA------AATCTTGACCCTGAACGTATTGGGCCCCACTGCTTTGAGTTACTCAGTGTCCTGGTCCAAAGGAGGTTATGGAAAGgtgagttatctcacccctcccaatgacatcagctctagtgcaagtgtaag Alignment from GeneWise GACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTG-GGCAAGGGGGGCTATGGCAAG gtgtgtatactcccctaaattgtctccctctttctggaaactctccacagGACAGTGGGACACTATGACGAAGTCGAATTAACAGAGAGA------AATCTTGACCCTGAACGTATTGGGCCCCACTGCTTTGAGTTACTCAGTGTCCTGGTCCAAAGGAGGTTATGGAAAGgtgagttatctcacccctcccaatgacatcagctctagtgcaagtgtaag #### Rrp12_ID8295_28 --> 1 - 1 Original Alignment cATTGAGGAGATTTTGGCTGACTCTGAGGATGAG-GATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTg taagttagggcagggtagcctcatattgaaaattatctaacttttcttagcATTGAGGAAATTTCAGCTGACTCAGAGGATGAGCTTTGAGGAAGAACAAAGAGGCCGAGGCAAAGAGCAA------TTGGTG------AGGAGCCGATCATGG---AAGGATGGAGGTGGT---GCACCTCTCAATTTC------CCAAAAGTAGCACATCGTGTCCAGggtaggtaggggtaaggatgccccactttgctgatggggtcatgggatagg Alignment from CESAR cATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGAT-GAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTg taagttagggcagggtagcctcatattgaaaattatctaacttttcttagcATTGAGGAAATTTCAGCTGACTCAGAGGATGAGCTTTGAGGAAGAACAAAGAGGCCGAGGCAAAGAGCAA------TTGGTG------AGGAGCCGATCATGG---AAGGATGGAGGTGGT---GCACCTCTCAATTTC------CCAAAAGTAGCACATCGTGTCCAGggtaggtaggggtaaggatgccccactttgctgatggggtcatgggatagg Alignment from Spaln_aa2Genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGAT-GAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG taagttagggcagggtagcctcatattgaaaattatctaacttttcttagCATTGAGGAAATTTCAGCTGACTCAGAGGATGAGCTTtGAGGAAGAACAAAGAGGCCGAGGCAAAGAGCAA------TTGGTG------AGGAGCCGATCATGG---AAGGATGGAGGTGGT---GCACCTCTCAATTTC------CCAAAAGTAGCACATCGTGTCCAGGgtaggtaggggtaaggatgccccactttgctgatggggtcatgggatagg Alignment from Spaln_nt2Genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGAT-GAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG taagttagggcagggtagcctcatattgaaaattatctaacttttcttagCATTGAGGAAATTTCAGCTGACTCAGAGGATGAGCTTTGAGGAAGAACAAAGAGGCCGAGGCAAAGAGC------AATTGG------TGAGGAGCCGATCATG---GAAGGATGGAGGTGG---TGCACCTCTCAATTTC------CCAAAAGTAGCACATCGTGTCCAGGgtaggtaggggtaaggatgccccactttgctgatggggtcatgggatagg Alignment from Pairagon CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGG-ATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACA-----GAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG taagttagggcagggtagcctcatattgaaaattatctaacttttcttagCATTGAGGAAATTTCAGCTGACTCAGAGGATGAGCTTTGAGGAAGAACAAAGAGGCCGAGGCAAAGAGCA-----------------ATTGGTGAGGAGCCGATCATG---GAAGGATGGAGGTGG---TGCACCTCTCAATTTC------CCAAAAGTAGCACATCGTGTCCAGGgtaggtaggggtaaggatgccccactttgctgatggggtcatgggatagg Alignment from Exonerate_protein2genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAG-GATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG taagttagggcagggtagcctcatattgaaaattatctaacttttcttagCATTGAGGAAATTTCAGCTGACTCAGAGGATGAGCTTTGAGGAAGAACAAAGAGGCCGAGGCAAAGAGCAA------------TTGGTGAGGAGCCGATCATGG---AAGGATGGAGGTGGT---GCACCTCTCAATTTC------CCAAAAGTAGCACATCGTGTCCAGGgtaggtaggggtaaggatgccccactttgctgatggggtcatgggatagg Alignment from Exonerate_coding2genome taagttagggcagggtagcctcatattgaaaattatctaacttttcttagcattgaggaaatttcagctgactcagaggatgagctttgaggaagaacaaagaggccgaggcaaagagcaattggtgaggagccgatcatggaaggatggaggtggtgcacctctcaatttcccaaaagtagcacatcgtgtccagggtaggtaggggtaaggatgccccactttgctgatggggtcatgggatagg Alignment from GeneWise CATTGAGGAGATTTTGGCTGACTCTGAGGATGAG-GATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG taagttagggcagggtagcctcatattgaaaattatctaacttttcttagCATTGAGGAAATTTCAGCTGACTCAGAGGATGAGCTTTGAGGAAGAACAAAGAGGCCGAGGCAAAGAGCAATTG------------GTGAGGAGCCGATCATGG---AAGGATGGAGGTGGT---GCACCTCTCAATTTC------CCAAAAGTAGCACATCGTGTCCAGGgtaggtaggggtaaggatgccccactttgctgatggggtcatgggatagg #### Rrp12_ID8301_22 --> 0 - 0 Original Alignment CCCCGTTTGAAGTGCCTCATACATATTGTGAAGACGCTGTCGGCTGAGCATGAGGAGTTCATA-GCTGCCCTCATCCCAGAG gaatggttagacaaacggccaggggcgctgacttgacttttgtctttcagCCC---CTAAAATGTCTCATACATATTGTGAAAACACTGTTAGCTGAACATGAAGAATTCACACGCTGCATTGATCCCTGAGgtaagttggcaggtcagactctggactcctgaagccagacctaaggaggg Alignment from CESAR CCCCGTTTGAAGTGCCTCATACATATTGTGAAGACGCTGTCGGCTGAGCATGAGGAGTTCATA-GCTGCCCTCATCCCAGAG gaatggttagacaaacggccaggggcgctgacttgacttttgtctttcagCCC---CTAAAATGTCTCATACATATTGTGAAAACACTGTTAGCTGAACATGAAGAATTCACACGCTGCATTGATCCCTGAGgtaagttggcaggtcagactctggactcctgaagccagacctaaggaggg Alignment from Spaln_aa2Genome CCCCGTTTGAAGTGCCTCATACATATTGTGAAGACGCTGTCGGCTGAGCATGAGGAGTTCATA-GCTGCCCTCATCCCAGAG gaatggttagacaaacggccaggggcgctgacttgacttttgtctttcagCCC---CTAAAATGTCTCATACATATTGTGAAAACACTGTTAGCTGAACATGAAGAATTCACAcGCTGCATTGATCCCTGAGgtaagttggcaggtcagactctggactcctgaagccagacctaaggaggg Alignment from Spaln_nt2Genome CCCCGTTTGAAGTGCCTCATACATATTGTGAAGACGCTGTCGGCTGAGCATGAGGAGTTCATA-GCTGCCCTCATCCCAGAG gaatggttagacaaacggccaggggcgctgacttgacttttgtctttcagCCCC---TAAAATGTCTCATACATATTGTGAAAACACTGTTAGCTGAACATGAAGAATTCACACGCTGCATTGATCCCTGAGgtaagttggcaggtcagactctggactcctgaagccagacctaaggaggg Alignment from Pairagon CCCCGTTTGAAGTGCCTCATACATATTGTGAAGACGCTGTCGGCTGAGCATGAGGAGTTCATA-GCTGCCCTCATCCCAGAG gaatggttagacaaacggccaggggcgctgacttgacttttgtctttcagCCCC---TAAAATGTCTCATACATATTGTGAAAACACTGTTAGCTGAACATGAAGAATTCACACGCTGCATTGATCCCTGAGgtaagttggcaggtcagactctggactcctgaagccagacctaaggaggg Alignment from Exonerate_protein2genome CCCCGTTTGAAGTGCCTCATACATATTGTGAAGACGCTGTCGGCTGAGCATGAGGAGTTCATA-GCTGCCCTCATCCCAGAG gaatggttagacaaacggccaggggcgctgacttgacttttgtctttcagCCC---CTAAAATGTCTCATACATATTGTGAAAACACTGTTAGCTGAACATGAAGAATTCACACGCTGCATTGATCCCTGAGgtaagttggcaggtcagactctggactcctgaagccagacctaaggaggg Alignment from Exonerate_coding2genome gaatggttagacaaacggccaggggcgctgacttgacttttgtctttcagcccctaaaatgtctcatacatattgtgaaaacactgttagctgaacatgaagaattcacacgctgcattgatccctgaggtaagttggcaggtcagactctggactcctgaagccagacctaaggaggg Alignment from GeneWise CCCCGTTTGAAGTGCCTCATACATATTGTGAAGACGCTGTCGGCTGAGCATGAGGAGTTC-ATAGCTGCCCTCATCCCAGAG gaatggttagacaaacggccaggggcgctgacttgacttttgtctttcagCCC---CTAAAATGTCTCATACATATTGTGAAAACACTGTTAGCTGAACATGAAGAATTCACACGCTGCATTGATCCCTGAGgtaagttggcaggtcagactctggactcctgaagccagacctaaggaggg #### Rrp12_ID8304_19 --> 0 - 2 Original Alignment TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGAT-CCTGCCAGCTCTGATTTCACCag ggaccatagttaatggatgggtcttttattctaacttccttctctggcagCTGGTGAATAGCTTCCTAGATAAAGCAATTGAAAAGGTTCTTGACCCCCCCCAGTTCAGATTTCACTaggtaaaactgctgagcttttcaggtgtcttggtatacaatgcatggtacct Alignment from CESAR TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGAT-CCTGCCAGCTCTGATTTCACCag ggaccatagttaatggatgggtcttttattctaacttccttctctggcagCTGGTGAATAGCTTCCTAGATAAAGCAATTGAAAAGGTTCTTGACCCCCCCCAGTTCAGATTTCACTaggtaaaactgctgagcttttcaggtgtcttggtatacaatgcatggtacct Alignment from Spaln_aa2Genome TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCC-AGCTCTGATTTCACCAG ggaccatagttaatggatgggtcttttattctaacttccttctctggcagCTGGTGAATAGCTTCCTAGATAAAGCAATTGAAAAGGTTCTTGACCCCCCCcAGTTCAGATTTCACTAGgtaaaactgctgagcttttcaggtgtcttggtatacaatgcatggtacct Alignment from Spaln_nt2Genome TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCC-AGCTCTGATTTCACCAG ggaccatagttaatggatgggtcttttattctaacttccttctctggcagCTGGTGAATAGCTTCCTAGATAAAGCAATTGAAAAGGTTCTTGACCCCCCCCAGTTCAGATTTCACTAGgtaaaactgctgagcttttcaggtgtcttggtatacaatgcatggtacct Alignment from Pairagon TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGA-TCCTGCCAGCTCTGATTTCACCAG ggaccatagttaatggatgggtcttttattctaacttccttctctggcagCTGGTGAATAGCTTCCTAGATAAAGCAATTGAAAAGGTTCTTGACCCCCCCCAGTTCAGATTTCACTAGgtaaaactgctgagcttttcaggtgtcttggtatacaatgcatggtacct Alignment from Exonerate_protein2genome TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAGATTGTCTGTCCTGGATCTGGTTG ggaccatagttaatggatgggtcttttattctaacttccttctctggcagCTGGTGAATAGCTTCCTAGATAAAGCAATTGAAAAGGTTCTTGACCCCCCCCAGTTCAGATTTCACTAGGTAAAACTGCTGAGCTTTTCAGgtgtcttggtatacaatgcatggtacct Alignment from Exonerate_coding2genome TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTC ggaccatagttaatggatgggtcttttattctaacttccttctctggcagCTGGTGAATAGCTTCCTAGATAAAGCAATTGAAAAGGTTCTTGACCCCCCCCAGTTCAGATTTcactaggtaaaactgctgagcttttcaggtgtcttggtatacaatgcatggtacct Alignment from GeneWise ggaccatagttaatggatgggtcttttattctaacttccttctctggcagctggtgaatagcttcctagataaagcaattgaaaaggttcttgaccccccccagttcagatttcactaggtaaaactgctgagcttttcaggtgtcttggtatacaatgcatggtacct #### Rrp12_ID8307_16 --> 2 - 0 Original Alignment caATGGACCTGGCTCAGGCAGGCAGCACA-GTGGAGTCGAAGATTTATGATACACTCCAGTGGCAG ttaataaaaagcacatggcatgacctatgcaccttttcctctcatcccagcaATGGATCTAGCTCAAGCC------ACACGTGGAGTCCAAGATT---GATACACTCCAGTGGCAAgtagaggccaattgggaactgatgagggctgagcacgtttgtgaagtatt Alignment from CESAR caATGGACCTGGCTCAGGCAGGCAGCACA-GTGGAGTCGAAGATTTATGATACACTCCAGTGGCAG ttaataaaaagcacatggcatgacctatgcaccttttcctctcatcccagcaATGGATCTAGCTCAAGCC------ACACGTGGAGTCCAAGATT---GATACACTCCAGTGGCAAgtagaggccaattgggaactgatgagggctgagcacgtttgtgaagtatt Alignment from Spaln_aa2Genome CAATGGACCTGGCTCAGGCAGGCAGCACAGTGGAGTCGAAGATTTATGATACACTCCAGTGGCAG ttaataaaaagcacatggcatgacctatgcaccttttcctctcatcccagCAATGGATCTAGCTCAAGCCA-----CACGTGGAGTCCAAGATT---GATACACTCCAGTGGCAAgtagaggccaattgggaactgatgagggctgagcacgtttgtgaagtatt Alignment from Spaln_nt2Genome CAATGGACCTGGCTCAGGCAGGCAGCACA-GTGGAGTCGAAGATTTATGATACACTCCAGTGGCAG ttaataaaaagcacatggcatgacctatgcaccttttcctctcatcccagCAATGGATCTAGCTCAAGC------CACACGTGGAGTCCAAGAT---TGATACACTCCAGTGGCAAgtagaggccaattgggaactgatgagggctgagcacgtttgtgaagtatt Alignment from Pairagon CAATGGACCTGGCTCAGGCAGGCAGCACA-GTGGAGTCGAAGATTTATGATACACTCCAGTGG----------------------------------------------------- ttaataaaaagcacatggcatgacctatgcaccttttcctctcatcccagCAATGGATCTAGCTCAAGC------CACACGTGGAGTCCAAGAT---TGATACACTCCAGTGGCAAGTAGAGGCCAATTGGGAACTGATGAGGGCTGAGCACGTTTGTGAAGTATT Alignment from Exonerate_protein2genome CAATGGACCTGGCTCAGGCAGGCAGCACAGTGGAGTCGAAGATTTATGATACACTCCAGTGGCAG ttaataaaaagcacatggcatgacctatgcaccttttcctctcatCCCAGCAATGGATCTAGCTCAAGCCACACGTGGAGTCCAAGATT---GATACACTCCAGTGGCAAgtagaggccaattgggaactgatgagggctgagcacgtttgtgaagtatt Alignment from Exonerate_coding2genome ttaataaaaagcacatggcatgacctatgcaccttttcctctcatcccagcaatggatctagctcaagccacacgtggagtccaagattgatacactccagtggcaagtagaggccaattgggaactgatgagggctgagcacgtttgtgaagtatt Alignment from GeneWise CAATGGACCTGGCTCAGGCAGGCAGCACAGTGGAGTCGAAGATTTATGATACACTCCAGTGGCAG ttaataaaaagcacatggcatgacctatgcaccttttcctctcatcccagCAATGGATCTAGCTCAAGCC---ACAC--GTGGAGTCCAAGATT---GATACACTCCAGTGGCAAgtagaggccaattgggaactgatgagggctgagcacgtttgtgaagtatt #### Rrp12_ID8308_15 --> 1 - 1 Original Alignment gGAGACTCTGGATTTCCCACGGAGCTGGCTGCTG-CCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAg ccaaaacatcgactgagctaactacacccgattcctttccttaattgcaggGAAAATTTGGACTTT---CAGAGCTGGTTGCTGCTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGCTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAggtgagcaggttttctttttataaaatacaggtcacagaaggaatatcagc Alignment from CESAR gGAGACTCTGGATTTCCCACGGAGCTGGCTGCTG-CCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAg ccaaaacatcgactgagctaactacacccgattcctttccttaattgcaggGAAAATTTGGACTTT---CAGAGCTGGTTGCTGCTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGCTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAggtgagcaggttttctttttataaaatacaggtcacagaaggaatatcagc Alignment from Spaln_aa2Genome GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTG-CCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG ccaaaacatcgactgagctaactacacccgattcctttccttaattgcagGGAAAATTTGGACTTT---CAGAGCTGGTTGCTGcTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGCTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtgagcaggttttctttttataaaatacaggtcacagaaggaatatcagc Alignment from Spaln_nt2Genome GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGC-CTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG ccaaaacatcgactgagctaactacacccgattcctttccttaattgcagGGAAAATTTGGACTT---TCAGAGCTGGTTGCTGCTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGCTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtgagcaggttttctttttataaaatacaggtcacagaaggaatatcagc Alignment from Pairagon GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGC-CTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG ccaaaacatcgactgagctaactacacccgattcctttccttaattgcagGGAAAATTTGGACTTT---CAGAGCTGGTTGCTGCTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGCTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtgagcaggttttctttttataaaatacaggtcacagaaggaatatcagc Alignment from Exonerate_protein2genome GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTG-CCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG ccaaaacatcgactgagctaactacacccgattcctttccttaattgcagGGAAAATTTGGACTTT---CAGAGCTGGTTGCTGCTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGCTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtgagcaggttttctttttataaaatacaggtcacagaaggaatatcagc Alignment from Exonerate_coding2genome GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTG-CCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAGCAATGGACCTGGCTCAGGCAGGCAGCACAGTGGAGTCGAAGATTTATGAT ccaaaacatcgactgagctaactacacccgattcctttccttaattgcagGGAAAATTTGGACTTT---CAGAGCTGGTTGCTGCTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGCTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGGTGAGCAGGTTTTCTTTTTATAAAATACAGGTCACAGAAGGAATATCAGC Alignment from GeneWise GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTG-CCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG ccaaaacatcgactgagctaactacacccgattcctttccttaattgcagGGAAAATTTGGACTTT---CAGAGCTGGTTGCTGCTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGCTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtgagcaggttttctttttataaaatacaggtcacagaaggaatatcagc #### Sart1_ID957_18 --> 0 - 0 Original Alignment GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAG-ATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG cccgcttctagggggttcatgtaccctccaagtttttactgttcccttagGCTTTCCGGCAACTGTCCCACCGGTTCCATGGAAAGGGCTCAGGCAAGCATGAAAACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCAgtaacactgaagccacgtggctagtctccattcctgtgaaatctgatatg Alignment from CESAR GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAG-ATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG cccgcttctagggggttcatgtaccctccaagtttttactgttcccttagGCTTTCCGGCAACTGTCCCACCGGTTCCATGGAAAGGGCTCAGGCAAGCATGAAAACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCAgtaacactgaagccacgtggctagtctccattcctgtgaaatctgatatg Alignment from Spaln_aa2Genome GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAG-ATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG cccgcttctagggggttcatgtaccctccaagtttttactgttcccttagGCTTTCCGGCAACTGTCCCACCGGTTCCATGGAAAGGGCTCAGGCAAGcATGAAAACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCAgtaacactgaagccacgtggctagtctccattcctgtgaaatctgatatg Alignment from Spaln_nt2Genome GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAG-ATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG cccgcttctagggggttcatgtaccctccaagtttttactgttcccttagGCTTTCCGGCAACTGTCCCACCGGTTCCATGGAAAGGGCTCAGGCAAGCATGAAAACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCAgtaacactgaagccacgtggctagtctccattcctgtgaaatctgatatg Alignment from Pairagon GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAG-ATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG cccgcttctagggggttcatgtaccctccaagtttttactgttcccttagGCTTTCCGGCAACTGTCCCACCGGTTCCATGGAAAGGGCTCAGGCAAGCATGAAAACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCAgtaacactgaagccacgtggctagtctccattcctgtgaaatctgatatg Alignment from Exonerate_protein2genome GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAG-ATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG cccgcttctagggggttcatgtaccctccaagtttttactgttcccttagGCTTTCCGGCAACTGTCCCACCGGTTCCATGGAAAGGGCTCAGGCAAGCATGAAAACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCAgtaacactgaagccacgtggctagtctccattcctgtgaaatctgatatg Alignment from Exonerate_coding2genome cccgcttctagggggttcatgtaccctccaagtttttactgttcccttaggctttccggcaactgtcccaccggttccatggaaagggctcaggcaagcatgaaaactgagcggtggatgaagaagctggatgaggaggcagtaacactgaagccacgtggctagtctccattcctgtgaaatctgatatg Alignment from GeneWise GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGC-AAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG cccgcttctagggggttcatgtaccctccaagtttttactgttcccttagGCTTTCCGGCAACTGTCCCACCGGTTCCATGGAAAGGGCTCAGGCAAGCATGAAAACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCAgtaacactgaagccacgtggctagtctccattcctgtgaaatctgatatg #### Sart1_ID961_14 --> 0 - 0 Original Alignment GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAAC-ATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tgtgagatacaggtagaatctgtgcattcttggcttttcctcccccccagGACTTTGAGAGGGATGAGGAGCACTCAGCTAATGGTGGATCTGAATCAGATGGGGAAGAGAACCATTGGCTGGAGCACAATCAACCTGGAT------GAACAGCCTCAGGATgtaaggcctcatgaccataggtgaagggcagtgggcatcccccgtaggtt Alignment from CESAR GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAAC-ATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tgtgagatacaggtagaatctgtgcattcttggcttttcctcccccccagGACTTTGAGAGGGATGAGGAGCACTCAGCTAATGGTGGATCTGAATCAGATGGGGAAGAGAACCATTGGCTGGAGCACAATCAACCTGGATGAA------CAGCCTCAGGATgtaaggcctcatgaccataggtgaagggcagtgggcatcccccgtaggtt Alignment from Spaln_aa2Genome GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAAC-ATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tgtgagatacaggtagaatctgtgcattcttggcttttcctcccccccagGACTTTGAGAGGGATGAGGAGCACTCAGCTAATGGTGGATCTGAATCAGATGGGGAAGAGAACcATTGGCTGGAGCACAATCAACCTGGATGAA------CAGCCTCAGGATgtaaggcctcatgaccataggtgaagggcagtgggcatcccccgtaggtt Alignment from Spaln_nt2Genome GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAA-CATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tgtgagatacaggtagaatctgtgcattcttggcttttcctcccccccagGACTTTGAGAGGGATGAGGAGCACTCAGCTAATGGTGGATCTGAATCAGATGGGGAAGAGAACCATTGGCTGGAGCACAATCAACCTGGATG------AACAGCCTCAGGATgtaaggcctcatgaccataggtgaagggcagtgggcatcccccgtaggtt Alignment from Pairagon GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAA-CATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tgtgagatacaggtagaatctgtgcattcttggcttttcctcccccccagGACTTTGAGAGGGATGAGGAGCACTCAGCTAATGGTGGATCTGAATCAGATGGGGAAGAGAACCATTGGCTGGAGCACAATCAACCTGGATG------AACAGCCTCAGGATgtaaggcctcatgaccataggtgaagggcagtgggcatcccccgtaggtt Alignment from Exonerate_protein2genome GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAAC-ATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tgtgagatacaggtagaatctgtgcattcttggcttttcctcccccccagGACTTTGAGAGGGATGAGGAGCACTCAGCTAATGGTGGATCTGAATCAGATGGGGAAGAGAACCATTGGCTGGAGCACAATCAACCTGGATGAA------CAGCCTCAGGATgtaaggcctcatgaccataggtgaagggcagtgggcatcccccgtaggtt Alignment from Exonerate_coding2genome tgtgagatacaggtagaatctgtgcattcttggcttttcctcccccccaggactttgagagggatgaggagcactcagctaatggtggatctgaatcagatggggaagagaaccattggctggagcacaatcaacctggatgaacagcctcaggatgtaaggcctcatgaccataggtgaagggcagtgggcatcccccgtaggtt Alignment from GeneWise GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAAC-ATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tgtgagatacaggtagaatctgtgcattcttggcttttcctcccccccagGACTTTGAGAGGGATGAGGAGCACTCAGCTAATGGTGGATCTGAATCAGATGGGGAAGAGAACCATTGGCTGGAGCACAATCAACCTGGATGAA------CAGCCTCAGGATgtaaggcctcatgaccataggtgaagggcagtgggcatcccccgtaggtt #### Sart1_ID963_12 --> 2 - 0 Original Alignment agGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTC-CGAGACAGTGGTGAGAAG cacatgtaagggtatcacatgggctgaaccatgcaactctgcctctccagaaGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAAAAGCAGCTAGAAAAGGGACGTCGGCTGCGGCAACTCCAGCAGTTACAGCAGCTCCAGAGATAGTGGGGAGAAAgtaactctcaccaaataacttacgatgagaggactgtgcactgttgaaac Alignment from CESAR agGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTC-CGAGACAGTGGTGAGAAG cacatgtaagggtatcacatgggctgaaccatgcaactctgcctctccagaaGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAAAAGCAGCTAGAAAAGGGACGTCGGCTGCGGCAACTCCAGCAGTTACAGCAGCTCCAGAGATAGTGGGGAGAAAgtaactctcaccaaataacttacgatgagaggactgtgcactgttgaaac Alignment from Spaln_aa2Genome AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTC-CGAGACAGTGGTGAGAAG cacatgtaagggtatcacatgggctgaaccatgcaactctgcctctccagAAGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAAAAGCAGCTAGAAAAGGGACGTCGGCTGCGGCAACTCCAGCAGTTACAGCAGCTCcAGAGATAGTGGGGAGAAAgtaactctcaccaaataacttacgatgagaggactgtgcactgttgaaac Alignment from Spaln_nt2Genome AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCC-GAGACAGTGGTGAGAAG cacatgtaagggtatcacatgggctgaaccatgcaactctgcctctccagAAGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAAAAGCAGCTAGAAAAGGGACGTCGGCTGCGGCAACTCCAGCAGTTACAGCAGCTCCAGAGATAGTGGGGAGAAAgtaactctcaccaaataacttacgatgagaggactgtgcactgttgaaac Alignment from Pairagon AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCC-GAGACAGTGGTGAGAAG cacatgtaagggtatcacatgggctgaaccatgcaactctgcctctccagAAGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAAAAGCAGCTAGAAAAGGGACGTCGGCTGCGGCAACTCCAGCAGTTACAGCAGCTCCAGAGATAGTGGGGAGAAAgtaactctcaccaaataacttacgatgagaggactgtgcactgttgaaac Alignment from Exonerate_protein2genome AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTC-CGAGACAGTGGTGAGAAG cacatgtaagggtatcacatgggctgaaccatgcaactctgcctctccagAAGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAAAAGCAGCTAGAAAAGGGACGTCGGCTGCGGCAACTCCAGCAGTTACAGCAGCTCCAGAGATAGTGGGGAGAAAgtaactctcaccaaataacttacgatgagaggactgtgcactgttgaaac Alignment from Exonerate_coding2genome cacatgtaagggtatcacatgggctgaaccatgcaactctgcctctccagaagatggtggggctctcccaccaggagcaccagatggactggaggaagatgaggcagaactggaattacaaaagcagctagaaaagggacgtcggctgcggcaactccagcagttacagcagctccagagatagtggggagaaagtaactctcaccaaataacttacgatgagaggactgtgcactgttgaaac Alignment from GeneWise AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAG-CTCCGAGACAGTGGTGAGAAG cacatgtaagggtatcacatgggctgaaccatgcaactctgcctctccagAAGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAAAAGCAGCTAGAAAAGGGACGTCGGCTGCGGCAACTCCAGCAGTTACAGCAGCTCCAGAGATAGTGGGGAGAAAgtaactctcaccaaataacttacgatgagaggactgtgcactgttgaaac #### Sart1_ID964_11 --> 1 - 1 Original Alignment gCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCA-TCGGATGACACT---------CGAGTAGAGAACATGGACATCAGTGATGAAg caagatggagaaattcaaagagcataataagtattgtgtctttgtcctagaCTTCGGGGACGGGGAAGGCACCAAGTTCCC------AAGGAGGAGACACTTGAGGATGAGGAGAAGGATCTTGTTGCCAAACCACCTCCACTCAGATGACACTCGAGTCATTCGAGTC------ATGGACATCAGTGATGAAggtaagctgttgaagaataggggtccagggtaaatctgcaggcaaggctaa Alignment from CESAR gCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCA-TCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGATGAAg caagatggagaaattcaaagagcataataagtattgtgtctttgtcctagaCTTCGGGGACGGGGAAGGCACCAAGTTCCC------AAGGAGGAGACACTTGAGGATGAGGAGAAGGATCTTGTTGCCAAACCACCTCCACTCAGATGACACTCGAGTCATTCGAGTCATGGACATCAGTGATGAAggtaagctgttgaagaataggggtccagggtaaatctgcaggcaaggctaa Alignment from Spaln_aa2Genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCA-TCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGATGAAG caagatggagaaattcaaagagcataataagtattgtgtctttgtcctagACTTCGGGGACGGGGA------AGGCACCAAGTTCCCAAGGAGGAGACACTTGAGGATGAGGAGAAGGATCTTGTTGCCAAACCACCTCCAcTCAGATGACACTCGAGTCATTCGAGTCATGGACATCAGTGATGAAGgtaagctgttgaagaataggggtccagggtaaatctgcaggcaaggctaa Alignment from Spaln_nt2Genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCA-TCGGATGACACTCGAGTA----GAGAACATGGACATCAGTGATGAAG caagatggagaaattcaaagagcataataagtattgtgtctttgtcctagACTTCGGGGACGGGGAAGGCACCAAGTTCC------CAAGGAGGAGACACTTGAGGATGAGGAGAAGGATCTTGTTGCCAAACCACCTCCACTCAGATGACACTCGAGTCATTCGAG-TCATGGACATCAGTGATGAAGgtaagctgttgaagaataggggtccagggtaaatctgcaggcaaggctaa Alignment from Pairagon GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCA-TCGGATGACACTCGAGT------AGAGAACATGGACATCAGTGATGAAG caagatggagaaattcaaagagcataataagtattgtgtctttgtcctagACTTCGGGGACGGGGAAGGCACCAAGTTCCC------AAGGAGGAGACACTTGAGGATGAGGAGAAGGATCTTGTTGCCAAACCACCTCCACTCAGATGACACTCGAGTCATTCGAG---TCATGGACATCAGTGATGAAGgtaagctgttgaagaataggggtccagggtaaatctgcaggcaaggctaa Alignment from Exonerate_protein2genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCA-TCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGATGAAG caagatggagaaattcaaagagcataataagtattgtgtctttgtcctagACTTCGGGGACGGGGAAGGCACCAAGTTCCC------AAGGAGGAGACACTTGAGGATGAGGAGAAGGATCTTGTTGCCAAACCACCTCCACTCAGATGACACTCGAGTCATTCGAGTCATGGACATCAGTGATGAAGgtaagctgttgaagaataggggtccagggtaaatctgcaggcaaggctaa Alignment from Exonerate_coding2genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCA-TCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGATGAA caagatggagaaattcaaagagcataataagtattgtgtctttgtcctagACTTCGGGGACGGGGAAGGCACCAAGTTCCC------AAGGAGGAGACACTTGAGGATGAGGAGAAGGATCTTGTTGCCAAACCACCTCCACTCAGATGACACTCGAGTCATTCGAGTCATGGACATCAGTGATGAAggtaagctgttgaagaataggggtccagggtaaatctgcaggcaaggctaa Alignment from GeneWise GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCA-TCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGATGAAG caagatggagaaattcaaagagcataataagtattgtgtctttgtcctagACTTCGGGGACGGGGAAGGCACCAAGTTCCCAAG------GAGGAGACACTTGAGGATGAGGAGAAGGATCTTGTTGCCAAACCACCTCCACTCAGATGACACTCGAGTCATTCGAGTCATGGACATCAGTGATGAAGgtaagctgttgaagaataggggtccagggtaaatctgcaggcaaggctaa #### Sart1_ID967_8 --> 2 - 0 Original Alignment ggGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTG-AACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccggctaccctcctcttccctcactttaggtGTACTCCAGGATGGAGAAGATGTGCTGGTGAACGTGCAATATGGTGGACAAGGAGCGCGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGATTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATCTAGCACAGgtaggtctagtaagtctgtgagaataagagcttaaggctttgttttacag Alignment from CESAR ggGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTG-AACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccggctaccctcctcttccctcactttaggtGTACTCCAGGATGGAGAAGATGTGCTGGTGAACGTGCAATATGGTGGACAAGGAGCGCGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGATTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATCTAGCACAGgtaggtctagtaagtctgtgagaataagttctacccctacccttctgcag Alignment from Spaln_aa2Genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTG-AACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccggctaccctcctcttccctcactttagGTGTACTCCAGGATGGAGAAGATGTGCTGGTGAACGTGcAATATGGTGGACAAGGAGCGCGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGATTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATCTAGCACAGgtaggtctagtaagtctgtgagaataagagcttaaggctttgttttacag Alignment from Spaln_nt2Genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTG-AACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccggctaccctcctcttccctcactttagGTGTACTCCAGGATGGAGAAGATGTGCTGGTGAACGTGCAATATGGTGGACAAGGAGCGCGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGATTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATCTAGCACAGgtaggtctagtaagtctgtgagaataagagcttaaggctttgttttacag Alignment from Pairagon GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTG-AACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccggctaccctcctcttccctcactttagGTGTACTCCAGGATGGAGAAGATGTGCTGGTGAACGTGCAATATGGTGGACAAGGAGCGCGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGATTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATCTAGCACAGgtaggtctagtaagtctgtgagaataagagcttaaggctttgttttacag Alignment from Exonerate_protein2genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTG-AACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccggctaccctcctcttccctcactttagGTGTACTCCAGGATGGAGAAGATGTGCTGGTGAACGTGCAATATGGTGGACAAGGAGCGCGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGATTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATCTAGCACAGgtaggtctagtaagtctgtgagaataagagcttaaggctttgttttacag Alignment from Exonerate_coding2genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTG-AACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccggctaccctcctcttccctcactttagGTGTACTCCAGGATGGAGAAGATGTGCTGGTGAACGTGCAATATGGTGGACAAGGAGCGCGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGATTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATCTAGCACAGgtaggtctagtaagtctgtgagaataagagcttaaggctttgttttacag Alignment from GeneWise GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAAT-GTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccggctaccctcctcttccctcactttagGTGTACTCCAGGATGGAGAAGATGTGCTGGTGAACGTGCAATATGGTGGACAAGGAGCGCGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGATTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATCTAGCACAGgtaggtctagtaagtctgtgagaataagagcttaaggctttgttttacag #### Sart1_ID969_6 --> 0 - 0 Original Alignment GCTAAGCTACTAGAGGAGATGGACCAAGAGTTTGGT-GTGAGCACTTTAGTGGAGGAGGAGTTTGAGCAGAGGCGACAG ctacctgttaagttacccaaaccttttcggtgaagatgcacttgttttagGCTAAGCTGTTGGAGGAAATGGGTCAAAAGTTCGGTCGTGAGCACATTAGTTGAGGAAGAGTTTGAGCAGAAGCGACAGgtgagcacccacttggcagaattatccggtaatgacaatttctattttga Alignment from CESAR GCTAAGCTACTAGAGGAGATGGACCAAGAGTTTGGT-GTGAGCACTTTAGTGGAGGAGGAGTTTGAGCAGAGGCGACAG ctacctgttaagttacccaaaccttttcggtgaagatgcacttgttttagGCTAAGCTGTTGGAGGAAATGGGTCAAAAGTTCGGTCGTGAGCACATTAGTTGAGGAAGAGTTTGAGCAGAAGCGACAGgtgagcacccacttggcagaattatccggtaatgacaatttctattttga Alignment from Spaln_aa2Genome GCTAAGCTACTAGAGGAGATGGACCAAGAGTTTGGT-GTGAGCACTTTAGTGGAGGAGGAGTTTGAGCAGAGGCGACAG ctacctgttaagttacccaaaccttttcggtgaagatgcacttgttttagGCTAAGCTGTTGGAGGAAATGGGTCAAAAGTTCGGTcGTGAGCACATTAGTTGAGGAAGAGTTTGAGCAGAAGCGACAGgtgagcacccacttggcagaattatccggtaatgacaatttctattttga Alignment from Spaln_nt2Genome GCTAAGCTACTAGAGGAGATGGACCAAGAGTTTGGT-GTGAGCACTTTAGTGGAGGAGGAGTTTGAGCAGAGGCGACAG ctacctgttaagttacccaaaccttttcggtgaagatgcacttgttttagGCTAAGCTGTTGGAGGAAATGGGTCAAAAGTTCGGTCGTGAGCACATTAGTTGAGGAAGAGTTTGAGCAGAAGCGACAGgtgagcacccacttggcagaattatccggtaatgacaatttctattttga Alignment from Pairagon GCTAAGCTACTAGAGGAGATGGACCAAGAGTTTGGT-GTGAGCACTTTAGTGGAGGAGGAGTTTGAGCAGAGGCGACAG ctacctgttaagttacccaaaccttttcggtgaagatgcacttgttttagGCTAAGCTGTTGGAGGAAATGGGTCAAAAGTTCGGTCGTGAGCACATTAGTTGAGGAAGAGTTTGAGCAGAAGCGACAGgtgagcacccacttggcagaattatccggtaatgacaatttctattttga Alignment from Exonerate_protein2genome GCTAAGCTACTAGAGGAGATGGACCAAGAGTTTGGT-GTGAGCACTTTAGTGGAGGAGGAGTTTGAGCAGAGGCGACAG ctacctgttaagttacccaaaccttttcggtgaagatgcacttgttttagGCTAAGCTGTTGGAGGAAATGGGTCAAAAGTTCGGTCGTGAGCACATTAGTTGAGGAAGAGTTTGAGCAGAAGCGACAGgtgagcacccacttggcagaattatccggtaatgacaatttctattttga Alignment from Exonerate_coding2genome GCTAAGCTACTAGAGGAGATGGACCAAGAGTTTGGT-GTGAGCACTTTAGTGGAGGAGGAGTTTGAGCAGAGGCGACAG ctacctgttaagttacccaaaccttttcggtgaagatgcacttgttttagGCTAAGCTGTTGGAGGAAATGGGTCAAAAGTTCGGTCGTGAGCACATTAGTTGAGGAAGAGTTTGAGCAGAAGCGACAGgtgagcacccacttggcagaattatccggtaatgacaatttctattttga Alignment from GeneWise GCTAAGCTACTAGAGGAGATGGACCAAGAGTTTGGT-GTGAGCACTTTAGTGGAGGAGGAGTTTGAGCAGAGGCGACAG ctacctgttaagttacccaaaccttttcggtgaagatgcacttgttttagGCTAAGCTGTTGGAGGAAATGGGTCAAAAGTTCGGTCGTGAGCACATTAGTTGAGGAAGAGTTTGAGCAGAAGCGACAGgtgagcacccacttggcagaattatccggtaatgacaatttctattttga #### Sec31b_ID9028_24 --> 0 - 0 Original Alignment AAAACAAAAAGGAAGCTGGAGGAGGCA-GCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ttggtagtatggcccaaaatcaggatcttaaagttaactttgtttcctagAAAACAAAAAAGGAACTAGAGGAGGCACGCACGGCACCTTGAATGCCTATATGAGAAGCTTTGTGAGGGAACAgtgagtcctttgtacagtgaacccacagttatgcctaggacagttagccc Alignment from CESAR AAAACAAAAAGGAAGCTGGAGGAGGCA-GCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ttggtagtatggcccaaaatcaggatcttaaagttaactttgtttcctagAAAACAAAAAAGGAACTAGAGGAGGCACGCACGGCACCTTGAATGCCTATATGAGAAGCTTTGTGAGGGAACAgtgagtcctttgtacagtgaacccacagttatgcctaggacagttagccc Alignment from Spaln_aa2Genome AAAACAAAAAGGAAGCTGGAGGAGGCA-GCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ttggtagtatggcccaaaatcaggatcttaaagttaactttgtttcctagAAAACAAAAAAGGAACTAGAGGAGGCAcGCACGGCACCTTGAATGCCTATATGAGAAGCTTTGTGAGGGAACAgtgagtcctttgtacagtgaacccacagttatgcctaggacagttagccc Alignment from Spaln_nt2Genome AAAACAAAAAGGAAGCTGGAGGAGGCA-GCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ttggtagtatggcccaaaatcaggatcttaaagttaactttgtttcctagAAAACAAAAAAGGAACTAGAGGAGGCACGCACGGCACCTTGAATGCCTATATGAGAAGCTTTGTGAGGGAACAgtgagtcctttgtacagtgaacccacagttatgcctaggacagttagccc Alignment from Pairagon AAAACAAAAAGGAAGCTGGAGGAGGCA-GCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ttggtagtatggcccaaaatcaggatcttaaagttaactttgtttcctagAAAACAAAAAAGGAACTAGAGGAGGCACGCACGGCACCTTGAATGCCTATATGAGAAGCTTTGTGAGGGAACAgtgagtcctttgtacagtgaacccacagttatgcctaggacagttagccc Alignment from Exonerate_protein2genome AAAACAAAAAGGAAGCTGGAGGAGGCA-GCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ttggtagtatggcccaaaatcaggatcttaaagttaactttgtttcctagAAAACAAAAAAGGAACTAGAGGAGGCACGCACGGCACCTTGAATGCCTATATGAGAAGCTTTGTGAGGGAACAgtgagtcctttgtacagtgaacccacagttatgcctaggacagttagccc Alignment from Exonerate_coding2genome AAAACAAAAAGGAAGCTGGAGGAGGCA-GCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ttggtagtatggcccaaaatcaggatcttaaagttaactttgtttcctagAAAACAAAAAAGGAACTAGAGGAGGCACGCACGGCACCTTGAATGCCTATATGAGAAGCTTTGTGAGGGAACAgtgagtcctttgtacagtgaacccacagttatgcctaggacagttagccc Alignment from GeneWise AAAACAAAAAGGAAGCTGGAGGAGGCA-GCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ttggtagtatggcccaaaatcaggatcttaaagttaactttgtttcctagAAAACAAAAAAGGAACTAGAGGAGGCACGCACGGCACCTTGAATGCCTATATGAGAAGCTTTGTGAGGGAACAgtgagtcctttgtacagtgaacccacagttatgcctaggacagttagccc #### Sec31b_ID9030_22 --> 0 - 0 Original Alignment CTGCCTGAGACA-TTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG ttatatgttgtatgatccccggtagctaatgttcatctttcctcccacagCTGCCTGAAGCACTTCATGACTCCTGCACCAACTACAGCCCCACTTAGAAGCCCTGGACCAGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCTGGAGCCCCCAGGGAATGTAGCTTGCAAgtaagcgaaagtctgcccctgccctaatttgcatttgaggtagcctgatc Alignment from CESAR CTGCCTGAGACA-TTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG ttatatgttgtatgatccccggtagctaatgttcatctttcctcccacagCTGCCTGAAGCACTTCATGACTCCTGCACCAACTACAGCCCCACTTAGAAGCCCTGGACCAGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCTGGAGCCCCCAGGGAATGTAGCTTGCAAgtaagcgaaagtctgcccctgccctaatttgcatttgaggtagcctgatc Alignment from Spaln_aa2Genome CTGCCTGAGACA-TTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG ttatatgttgtatgatccccggtagctaatgttcatctttcctcccacagCTGCCTGAAGCAcTTCATGACTCCTGCACCAACTACAGCCCCACTTAGAAGCCCTGGACCAGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCTGGAGCCCCCAGGGAATGTAGCTTGCAAgtaagcgaaagtctgcccctgccctaatttgcatttgaggtagcctgatc Alignment from Spaln_nt2Genome CTGCCTGAGACA-TTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG ttatatgttgtatgatccccggtagctaatgttcatctttcctcccacagCTGCCTGAAGCACTTCATGACTCCTGCACCAACTACAGCCCCACTTAGAAGCCCTGGACCAGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCTGGAGCCCCCAGGGAATGTAGCTTGCAAgtaagcgaaagtctgcccctgccctaatttgcatttgaggtagcctgatc Alignment from Pairagon CTGCCTGAGACA-TTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG ttatatgttgtatgatccccggtagctaatgttcatctttcctcccacagCTGCCTGAAGCACTTCATGACTCCTGCACCAACTACAGCCCCACTTAGAAGCCCTGGACCAGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCTGGAGCCCCCAGGGAATGTAGCTTGCAAgtaagcgaaagtctgcccctgccctaatttgcatttgaggtagcctgatc Alignment from Exonerate_protein2genome CTGCCTGAGACA-TTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG ttatatgttgtatgatccccggtagctaatgttcatctttcctcccacagCTGCCTGAAGCACTTCATGACTCCTGCACCAACTACAGCCCCACTTAGAAGCCCTGGACCAGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCTGGAGCCCCCAGGGAATGTAGCTTGCAAgtaagcgaaagtctgcccctgccctaatttgcatttgaggtagcctgatc Alignment from Exonerate_coding2genome CTGCCTGAGACA-TTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG ttatatgttgtatgatccccggtagctaatgttcatctttcctcccacagCTGCCTGAAGCACTTCATGACTCCTGCACCAACTACAGCCCCACTTAGAAGCCCTGGACCAGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCTGGAGCCCCCAGGGAATGTAGCTTGCAAgtaagcgaaagtctgcccctgccctaatttgcatttgaggtagcctgatc Alignment from GeneWise CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG ttatatgttgtatgatccccggtagctaatgttcatctttcctcccacagctgcctgaagCAC---------TTCATGACTCCTGCACCAACTACAGCCCCACTTAGAAGCCCTGGACCAGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCTGGAGCCCCCAGGGAATGTAGCTTGCAAgtaagcgaaagtctgcccctgccctaatttgcatttgaggtagcctgatc #### Sec31b_ID9031_21 --> 2 - 0 Original Alignment gaCCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAGGGAAACCTC-CAAAGGAAAAAG gttgtcagtgattagtaacccctgcctatgttttcctcttctggatgcagggCCCCAGGACTCATGGAAAGTTACGCCTGCCTCCGAGGGCAATCTTCCAAAGGAAGAAAgtgagtgcctttccataaccattaacctaatccatccctatgttcttaca Alignment from CESAR gaCCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAGGGAAACCTC-CAAAGGAAAAAG gttgtcagtgattagtaacccctgcctatgttttcctcttctggatgcagggCCCCAGGACTCATGGAAAGTTACGCCTGCCTCCGAGGGCAATCTTCCAAAGGAAGAAAgtgagtgcctttccataaccattaacctaatccatccctatgttcttaca Alignment from Spaln_aa2Genome GACCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAGGGAAACCTC-CAAAGGAAAAAG gttgtcagtgattagtaacccctgcctatgttttcctcttctggatgcagGGCCCCAGGACTCATGGAAAGTTACGCCTGCCTCCGAGGGCAATCTTcCAAAGGAAGAAAgtgagtgcctttccataaccattaacctaatccatccctatgttcttaca Alignment from Spaln_nt2Genome GACCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAGGGAAACCT-CCAAAGGAAAAAG gttgtcagtgattagtaacccctgcctatgttttcctcttctggatgcagGGCCCCAGGACTCATGGAAAGTTACGCCTGCCTCCGAGGGCAATCTTCCAAAGGAAGAAAgtgagtgcctttccataaccattaacctaatccatccctatgttcttaca Alignment from Pairagon GACCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAGGGAAA-CCTCCAAAGGAAAAAG gttgtcagtgattagtaacccctgcctatgttttcctcttctggatgcagGGCCCCAGGACTCATGGAAAGTTACGCCTGCCTCCGAGGGCAATCTTCCAAAGGAAGAAAgtgagtgcctttccataaccattaacctaatccatccctatgttcttaca Alignment from Exonerate_protein2genome GACCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAGGGAAACCTC-CAAAGGAAAAAG gttgtcagtgattagtaacccctgcctatgttttcctcttctggatgcagGGCCCCAGGACTCATGGAAAGTTACGCCTGCCTCCGAGGGCAATCTTCCAAAGGAAGAAAgtgagtgcctttccataaccattaacctaatccatccctatgttcttaca Alignment from Exonerate_coding2genome GACCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAGGGAAACCTC-CAAAGGAAAAAG gttgtcagtgattagtaacccctgcctatgttttcctcttctggatgcagGGCCCCAGGACTCATGGAAAGTTACGCCTGCCTCCGAGGGCAATCTTCCAAAGGAAGAAAgtgagtgcctttccataaccattaacctaatccatccctatgttcttaca Alignment from GeneWise gttgtcagtgattagtaacccctgcctatgttttcctcttctggatgcagggccccaggactcatggaaagttacgcctgcctccgagggcaatcttccaaaggaagaaagtgagtgcctttccataaccattaacctaatccatccctatgttcttaca #### Sec31b_ID9040_12 --> 0 - 0 Original Alignment GTGGACACTTGCCTGAAGAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCGGTTGACCTCAAAAGTGACAGA-GCACACAGCCCTTGCGCCCAG cacaggcaaccttggtggtccagctggtcctttctgcctttgctcttcagGTAGCCACCTGCCTAAAAAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCAGTTGACCTCAAAAGTGATAGACGCACATAGCCCTTGTGCTCAGgtaagttcaaagtcctggctacttgcctttgggggccaacatgtgcccta Alignment from CESAR GTGGACACTTGCCTGAAGAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCGGTTGACCTCAAAAGTGACAGA-GCACACAGCCCTTGCGCCCAG cacaggcaaccttggtggtccagctggtcctttctgcctttgctcttcagGTAGCCACCTGCCTAAAAAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCAGTTGACCTCAAAAGTGATAGACGCACATAGCCCTTGTGCTCAGgtaagttcaaagtcctggctacttgcctttgggggccaacatgtgcccta Alignment from Spaln_aa2Genome GTGGACACTTGCCTGAAGAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCGGTTGACCTCAAAAGTGACAGA-GCACACAGCCCTTGCGCCCAG cacaggcaaccttggtggtccagctggtcctttctgcctttgctcttcagGTAGCCACCTGCCTAAAAAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCAGTTGACCTCAAAAGTGATAGAcGCACATAGCCCTTGTGCTCAGgtaagttcaaagtcctggctacttgcctttgggggccaacatgtgcccta Alignment from Spaln_nt2Genome GTGGACACTTGCCTGAAGAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCGGTTGACCTCAAAAGTGACAGA-GCACACAGCCCTTGCGCCCAG cacaggcaaccttggtggtccagctggtcctttctgcctttgctcttcagGTAGCCACCTGCCTAAAAAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCAGTTGACCTCAAAAGTGATAGACGCACATAGCCCTTGTGCTCAGgtaagttcaaagtcctggctacttgcctttgggggccaacatgtgcccta Alignment from Pairagon GTGGACACTTGCCTGAAGAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCGGTTGACCTCAAAAGTGACAGA-GCACACAGCCCTTGCGCCCAG cacaggcaaccttggtggtccagctggtcctttctgcctttgctcttcagGTAGCCACCTGCCTAAAAAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCAGTTGACCTCAAAAGTGATAGACGCACATAGCCCTTGTGCTCAGgtaagttcaaagtcctggctacttgcctttgggggccaacatgtgcccta Alignment from Exonerate_protein2genome GTGGACACTTGCCTGAAGAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCGGTTGACCTCAAAAGTGACAGA-GCACACAGCCCTTGCGCCCAG cacaggcaaccttggtggtccagctggtcctttctgcctttgctcttcagGTAGCCACCTGCCTAAAAAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCAGTTGACCTCAAAAGTGATAGACGCACATAGCCCTTGTGCTCAGgtaagttcaaagtcctggctacttgcctttgggggccaacatgtgcccta Alignment from Exonerate_coding2genome GTGGACACTTGCCTGAAGAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCGGTTGACCTCAAAAGTGACAGA-GCACACAGCCCTTGCGCCCAG cacaggcaaccttggtggtccagctggtcctttctgcctttgctcttcagGTAGCCACCTGCCTAAAAAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCAGTTGACCTCAAAAGTGATAGACGCACATAGCCCTTGTGCTCAGgtaagttcaaagtcctggctacttgcctttgggggccaacatgtgcccta Alignment from GeneWise ACACTTGCCTGAAGAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCGGTTGACCTCAAAAGTGACAGA-GCACACAGCCCTTGCGCCCAG cacaggcaaccttggtggtccagctggtcctttctgcctttgctcttcaggtagCCACCTGCCTAAAAAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCAGTTGACCTCAAAAGTGATAGACGCACATAGCCCTTGTGCTCAGgtaagttcaaagtcctggctacttgcctttgggggccaacatgtgcccta #### Sec31b_ID9044_8 --> 0 - 0 Original Alignment GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCT-CAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG gcttagttccactggcatgtgttctcgactattttctccattatacacagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTCTATGTTCTGTGACAGGAAGGAGCTGGGAAGTGCAGCATATGAGGTCAGCTGATGAGgtacctagtggttgtattaataagcaggggacttgcaggaaatagaactt Alignment from CESAR GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCT---CAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG gcttagttccactggcatgtgttctcgactattttctccattatacacagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCCCC--AGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTCTATGTTCTGTGACAGGAAGGAGCTGGGAAGTGCAGCATATGAGGTCAGCTGATGAGgtacctagtggttgtattaataagcaggggacttgcaggaaatagaactt Alignment from Spaln_aa2Genome GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAG-AGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG gcttagttccactggcatgtgttctcgactattttctccattatacacagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCCCcAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTCTATGTTCTGTGACAGGAAGGAGCTGGGAAGTGCAGCATATGAGGTCAGCTGATGAGgtacctagtggttgtattaataagcaggggacttgcaggaaatagaactt Alignment from Spaln_nt2Genome GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAG-AGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG gcttagttccactggcatgtgttctcgactattttctccattatacacagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTCTATGTTCTGTGACAGGAAGGAGCTGGGAAGTGCAGCATATGAGGTCAGCTGATGAGgtacctagtggttgtattaataagcaggggacttgcaggaaatagaactt Alignment from Pairagon GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCT-CAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG gcttagttccactggcatgtgttctcgactattttctccattatacacagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTCTATGTTCTGTGACAGGAAGGAGCTGGGAAGTGCAGCATATGAGGTCAGCTGATGAGgtacctagtggttgtattaataagcaggggacttgcaggaaatagaactt Alignment from Exonerate_protein2genome GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCT-CAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG gcttagttccactggcatgtgttctcgactattttctccattatacacagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTCTATGTTCTGTGACAGGAAGGAGCTGGGAAGTGCAGCATATGAGGTCAGCTGATGAGgtacctagtggttgtattaataagcaggggacttgcaggaaatagaactt Alignment from Exonerate_coding2genome GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCT-CAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG gcttagttccactggcatgtgttctcgactattttctccattatacacagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTCTATGTTCTGTGACAGGAAGGAGCTGGGAAGTGCAGCATATGAGGTCAGCTGATGAGgtacctagtggttgtattaataagcaggggacttgcaggaaatagaactt Alignment from GeneWise GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCT-CAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG gcttagttccactggcatgtgttctcgactattttctccattatacacagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTCTATGTTCTGTGACAGGAAGGAGCTGGGAAGTGCAGCATATGAGGTCAGCTGATGAGgtacctagtggttgtattaataagcaggggacttgcaggaaatagaactt #### Sema4g_ID9244_2 --> 2 - 0 Original Alignment agCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAAC-TATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gtgcattaggaaattatttacctacttgccgcttctcctttactctgcagaaGTTTCACAAGTGCAACACTTTAGGGGGCAGGCCCAAATTCCATTCAACATTGCTGTTGGAGGAGGCTTCTGAAAAGCTGTCAGCAGGGGCGCGAGGTCCATTGTTCTCCCTC------AGTGAAATCAGAGAGAGAACACATAAAGAGgtaatgtgctgatattgggtttacaggaccccacatttggcttctggtcc Alignment from CESAR agCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAAC-TATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gtgcattaggaaattatttacctacttgccgcttctcctttactctgcagaaGTTTCACAAGTGCAACACTTTAGGGGGCAGGCCCAAATTCCATTCAACATTGCTGTTGGAGGAGGCTTCTGAAAAGCTGTCAGCAGGGGCGCGAGGTCCATTGTTCTCCCTCAGT------GAAATCAGAGAGAGAACACATAAAGAGgtaatgtgctgatattgggtttacaggaccccacatttggcttctggtcc Alignment from Spaln_aa2Genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAAC-TATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gtgcattaggaaattatttacctacttgccgcttctcctttactctgcagAAGTTTCACAAGTGCAACACTTTAGGGGGCAGGCCCAAATTcCATTCAACATTGCTGTTGGAGGAGGCTTCTGAAAAGCTGTCAGCAGGGGCGCGAGGTCCATTGTTCTCCCTCAGT------GAAATCAGAGAGAGAACACATAAAGAGgtaatgtgctgatattgggtttacaggaccccacatttggcttctggtcc Alignment from Spaln_nt2Genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAA-CTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gtgcattaggaaattatttacctacttgccgcttctcctttactctgcagAAGTTTCACAAGTGCAACACTTTAGGGGGCAGGCCCAAATTCCATTCAACATTGCTGTTGGAGGAGGCTTCTGAAAAGCTGTCAGCAGGGGCGCGAGGTCCATTGTTCTCCCTCA------GTGAAATCAGAGAGAGAACACATAAAGAGgtaatgtgctgatattgggtttacaggaccccacatttggcttctggtcc Alignment from Pairagon AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGA-ACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gtgcattaggaaattatttacctacttgccgcttctcctttactctgcagaagtttcacaagtgcaacactttag-------------------------GGGGCAGGCCCAAATTCCATTCAACATTGCTGTTGGAGGAGGCTTCTGAAAAGCTGTCAGCAGGGGCGCGAGGTCCATTGTTCTCCCTCA------GTGAAATCAGAGAGAGAACACATAAAGAGgtaatgtgctgatattgggtttacaggaccccacatttggcttctggtcc Alignment from Exonerate_protein2genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAG-AACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gtgcattaggaaattatttacctacttgccgcttctcctttactctgcagAAGTTTCACAAGTGCAACACTTTAGGGGGCAGGCCCAAATTCCATTCAACATTGCTGTTGGAGGAGGCTTCTGAAAAGCTGTCAGCAGGGGCGCGAGGTCCATTGTTCTCCCTCAGT------GAAATCAGAGAGAGAACACATAAAGAGgtaatgtgctgatattgggtttacaggaccccacatttggcttctggtcc Alignment from Exonerate_coding2genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAG-AACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gtgcattaggaaattatttacctacttgccgcttctcctttactctgcagAAGTTTCACAAGTGCAACACTTTAGGGGGCAGGCCCAAATTCCATTCAACATTGCTGTTGGAGGAGGCTTCTGAAAAGCTGTCAGCAGGGGCGCGAGGTCCATTGTTCTCCCTCAGT------GAAATCAGAGAGAGAACACATAAAGAGgtaatgtgctgatattgggtttacaggaccccacatttggcttctggtcc Alignment from GeneWise AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAG-AACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gtgcattaggaaattatttacctacttgccgcttctcctttactctgcagAAGTTTCACAAGTGCAACACTTTAGGGGGCAGGCCCAAATTCCATTCAACATTGCTGTTGGAGGAGGCTTCTGAAAAGCTGTCAGCAGGGGCGCGAGGTCCATTGTTCTCCCTCAGT------GAAATCAGAGAGAGAACACATAAAGAGgtaatgtgctgatattgggtttacaggaccccacatttggcttctggtcc #### Sema4g_ID9247_5 --> 0 - 1 Original Alignment GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTC-ACAGGCCTTATCATTg agtcctgaacctgctctcatctcccctgctttcacattgccctctgccagGATTCTGAAACCTTCATCTTGCCTACTAGTTTTGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCCACAGGCATTATTATTggtaccaacaatgtaaccaatccatcgacaattccaagccctgaacattgt Alignment from CESAR GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTC-ACAGGCCTTATCATTg agacctgaacctgctctcatctcccctgctttcacattgccctctgccagGATTCTGAAACCTTCATCTTGCCTACTAGTTTTGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCCACAGGCATTATTATTggtaccaacaatgtaaccaatccatcgacaattccaagccctgaacattgt Alignment from Spaln_aa2Genome GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTC-ACAGGCCTTATCATTG agtcctgaacctgctctcatctcccctgctttcacattgccctctgccagGATTCTGAAACCTTCATCTTGCCTACTAGTTTTGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCcACAGGCATTATTATTGgtaccaacaatgtaaccaatccatcgacaattccaagccctgaacattgt Alignment from Spaln_nt2Genome GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTC-ACAGGCCTTATCATTG agtcctgaacctgctctcatctcccctgctttcacattgccctctgccagGATTCTGAAACCTTCATCTTGCCTACTAGTTTTGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCCACAGGCATTATTATTGgtaccaacaatgtaaccaatccatcgacaattccaagccctgaacattgt Alignment from Pairagon GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTT-CACAGGCCTTATCATTG agtcctgaacctgctctcatctcccctgctttcacattgccctctgccagGATTCTGAAACCTTCATCTTGCCTACTAGTTTTGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCCACAGGCATTATTATTGgtaccaacaatgtaaccaatccatcgacaattccaagccctgaacattgt Alignment from Exonerate_protein2genome GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTC-ACAGGCCTTATCATTG agtcctgaacctgctctcatctcccctgctttcacattgccctctgccagGATTCTGAAACCTTCATCTTGCCTACTAGTTTTGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCCACAGGCATTATTATTGgtaccaacaatgtaaccaatccatcgacaattccaagccctgaacattgt Alignment from Exonerate_coding2genome GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTC-ACAGGCCTTATCATTG agtcctgaacctgctctcatctcccctgctttcacattgccctctgccagGATTCTGAAACCTTCATCTTGCCTACTAGTTTTGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCCACAGGCATTATTATTGgtaccaacaatgtaaccaatccatcgacaattccaagccctgaacattgt Alignment from GeneWise GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTC-ACAGGCCTTATCATTG agtcctgaacctgctctcatctcccctgctttcacattgccctctgccagGATTCTGAAACCTTCATCTTGCCTACTAGTTTTGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCCACAGGCATTATTATTGgtaccaacaatgtaaccaatccatcgacaattccaagccctgaacattgt #### Sema4g_ID9248_6 --> 2 - 1 Original Alignment atGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACT-GAGGAGGCACCCATGCACTGGCTCAATg gtctcctagtagggcatgtcctatctccaggcttttcccttgtctttcagatGGTGGCCTGTATACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATTAGACGGAGCCGACACCCACACTCTCTGAGAACTCGAGGAAGCACCGATGCACTGGCTCAATggtgagtatagggtgctttcaaggggttggtgaaggggacagctctagtgt Alignment from CESAR atGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACT-GAGGAGGCACCCATGCACTGGCTCAATg gtctcctagtagggcatgtcctatctccaggcttttcccttgtctttcagatGGTGGCCTGTATACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATTAGACGGAGCCGACACCCACACTCTCTGAGAACTCGAGGAAGCACCGATGCACTGGCTCAATggtgagtatagggtgctttcaaggggttggtgaaggggacagctctagtgt Alignment from Spaln_aa2Genome ATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACT-GAGGAGGCACCCATGCACTGGCTCAATG gtctcctagtagggcatgtcctatctccaggcttttcccttgtctttcagATGGTGGCCTGTATACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATTAGACGGAGCCGACACCCACACTCTCTGAGAACTcGAGGAAGCACCGATGCACTGGCTCAATGgtgagtatagggtgctttcaaggggttggtgaaggggacagctctagtgt Alignment from Spaln_nt2Genome ATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACT-GAGGAGGCACCCATGCACTGGCTCAATG gtctcctagtagggcatgtcctatctccaggcttttcccttgtctttcagATGGTGGCCTGTATACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATTAGACGGAGCCGACACCCACACTCTCTGAGAACTCGAGGAAGCACCGATGCACTGGCTCAATGgtgagtatagggtgctttcaaggggttggtgaaggggacagctctagtgt Alignment from Pairagon ATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACT-GAGGAGGCACCCATGCACTGGCTCAATG gtctcctagtagggcatgtcctatctccaggcttttcccttgtctttcagATGGTGGCCTGTATACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATTAGACGGAGCCGACACCCACACTCTCTGAGAACTCGAGGAAGCACCGATGCACTGGCTCAATGgtgagtatagggtgctttcaaggggttggtgaaggggacagctctagtgt Alignment from Exonerate_protein2genome ATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACT-GAGGAGGCACCCATGCACTGGCTCAATG gtctcctagtagggcatgtcctatctccaggcttttcccttgtctttcagATGGTGGCCTGTATACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATTAGACGGAGCCGACACCCACACTCTCTGAGAACTCGAGGAAGCACCGATGCACTGGCTCAATGgtgagtatagggtgctttcaaggggttggtgaaggggacagctctagtgt Alignment from Exonerate_coding2genome ATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACT-GAGGAGGCACCCATGCACTGGCTCAATG gtctcctagtagggcatgtcctatctccaggcttttcccttgtctttcagATGGTGGCCTGTATACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATTAGACGGAGCCGACACCCACACTCTCTGAGAACTCGAGGAAGCACCGATGCACTGGCTCAATGgtgagtatagggtgctttcaaggggttggtgaaggggacagctctagtgt Alignment from GeneWise ATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGA-ACTGAGGAGGCACCCATGCACTGGCTCAATG gtctcctagtagggcatgtcctatctccaggcttttcccttgtctttcagATGGTGGCCTGTATACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATTAGACGGAGCCGACACCCACACTCTCTGAGAACTCGAGGAAGCACCGATGCACTGGCTCAATGgtgagtatagggtgctttcaaggggttggtgaaggggacagctctagtgt #### Sema4g_ID9252_10 --> 0 - 1 Original Alignment TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGC-TACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAg gtcatgtggaagtatagcagcagtgtccaagcccctctgtctgcacacagTGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGATTTGCCTTCACTTGTCCTTGACTCCGTGAAGCTACATCCACCACTGATGGCACAGCCTGTAGTGCCCACACGGGGACAGCCCCTACTGCTGAAGCACAATGTACGCCTACACACATGTCACAGGTACACATGTCAGTCCACCTGCAGGACCTACCTATGAGTTGCTGTTTCTAGGCACAggtatgttatacccaccctgcacatgcctccacctagtggggatacaatgc Alignment from CESAR TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGC-TACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAg gtcatgtggaagtatagcagcagtgtccaagcccctctgtctgcacacagTGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGATTTGCCTTCACTTGTCCTTGACTCCGTGAAGCTACATCCACCACTGATGGCACAGCCTGTAGTGCCCACACGGGGACAGCCCCTACTGCTGAAGCACAATGTACGCCTACACACATGTCACAGGTACACATGTCAGTCCACCTGCAGGACCTACCTATGAGTTGCTGTTTCTAGGCACAggtatgttatacccaccctgcacatgcctccacctagtggggatacaatgc Alignment from Spaln_aa2Genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGC-TACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gtcatgtggaagtatagcagcagtgtccaagcccctctgtctgcacacagTGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGATTTGCCTTCACTTGTCCTTGACTCCGTGAAGCTACATCCACCACTGATGGCACAGCCTGTAGTGCCCACACGGGGACAGCCCCTACTGCTGAAGCACAATGTACGCcTACACACATGTCACAGGTACACATGTCAGTCCACCTGCAGGACCTACCTATGAGTTGCTGTTTCTAGGCACAGgtatgttatacccaccctgcacatgcctccacctagtggggatacaatgc Alignment from Spaln_nt2Genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCC---TGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACG-CTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gtcatgtggaagtatagcagcagtgtccaagcccctctgtctgcacacagTGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGATTTGCCTTCACTTGTCCTTGACTCCGTGAAGCTACATCCACCACTGATGGCACAGCCTGTAGTGCCCACACGGGGACAGCCCCTACTGCTGAAGCACAATGTACGCCTACACACATGTCACAGGTACACATGTCAGTCCACCTGCAGGACCTACCTATGAGTTGCTGTTTCTAGGCACAGgtatgttatacccaccctgcacatgcctccacctagtggggatacaatgc Alignment from Pairagon TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACG-CTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gtcatgtggaagtatagcagcagtgtccaagcccctctgtctgcacacagTGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGATTTGCCTTCACTTGTCCTTGACTCCGTGAAGCTACATCCACCACTGATGGCACAGCCTGTAGTGCCCACACGGGGACAGCCCCTACTGCTGAAGCACAATGTACGCCTACACACATGTCACAGGTACACATGTCAGTCCACCTGCAGGACCTACCTATGAGTTGCTGTTTCTAGGCACAGgtatgttatacccaccctgcacatgcctccacctagtggggatacaatgc Alignment from Exonerate_protein2genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGC-TACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gtcatgtggaagtatagcagcagtgtccaagcccctctgtctgcacacagTGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGATTTGCCTTCACTTGTCCTTGACTCCGTGAAGCTACATCCACCACTGATGGCACAGCCTGTAGTGCCCACACGGGGACAGCCCCTACTGCTGAAGCACAATGTACGCCTACACACATGTCACAGGTACACATGTCAGTCCACCTGCAGGACCTACCTATGAGTTGCTGTTTCTAGGCACAGgtatgttatacccaccctgcacatgcctccacctagtggggatacaatgc Alignment from Exonerate_coding2genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGC-TACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gtcatgtggaagtatagcagcagtgtccaagcccctctgtctgcacacagTGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGATTTGCCTTCACTTGTCCTTGACTCCGTGAAGCTACATCCACCACTGATGGCACAGCCTGTAGTGCCCACACGGGGACAGCCCCTACTGCTGAAGCACAATGTACGCCTACACACATGTCACAGGTACACATGTCAGTCCACCTGCAGGACCTACCTATGAGTTGCTGTTTCTAGGCACAGgtatgttatacccaccctgcacatgcctccacctagtggggatacaatgc Alignment from GeneWise TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCC---CTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTA-CGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gtcatgtggaagtatagcagcagtgtccaagcccctctgtctgcacacagTGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGATTTGCCTTCACTTGTCCTTGACTCCGTGAAGCTACATCCACCACTGATGGCACAGCCTGTAGTGCCCACACGGGGACAGCCCCTACTGCTGAAGCACAATGTACGCCTACACACATGTCACAGGTACACATGTCAGTCCACCTGCAGGACCTACCTATGAGTTGCTGTTTCTAGGCACAGgtatgttatacccaccctgcacatgcctccacctagtggggatacaatgc #### Sema4g_ID9253_11 --> 2 - 0 Original Alignment ctGATGGCTGGATCCACAAGGCCGTAGTC-CTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG acgcccaaccaccacccaatgaaagagttgtctctctgttcatgctgcagcaGATGGCTGGAATCACAAAGCTGTAGTCCCAGGGCTCTGGAATGCACATCATTGAGGAGATACAAGTGGTCAGAGAGCCCCAGTCAGTAGACAATCTACTGATCTCACCAATGCAAgtatgttagtgttactatggtaagaatccccacttatttacccacaccta Alignment from CESAR ctGATGGCTGGATCCACAAGGCCGTAGTC-CTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG acgcccaaccaccacccaatgaaagagttgtctctctgttcatgctgcagcaGATGGCTGGAATCACAAAGCTGTAGTCCCAGGGCTCTGGAATGCACATCATTGAGGAGATACAAGTGGTCAGAGAGCCCCAGTCAGTAGACAATCTACTGATCTCACCAATGCAAgtatgttagtgttactatggtaagaatccccacttatttacccacaccta Alignment from Spaln_aa2Genome CTGATGGCTGGATCCACAAGGCCGTAGTCCTG-GGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG acgcccaaccaccacccaatgaaagagttgtctctctgttcatgctgcagCAGATGGCTGGAATCACAAAGCTGTAGTCCCAgGGCTCTGGAATGCACATCATTGAGGAGATACAAGTGGTCAGAGAGCCCCAGTCAGTAGACAATCTACTGATCTCACCAATGCAAgtatgttagtgttactatggtaagaatccccacttatttacccacaccta Alignment from Spaln_nt2Genome CTGATGGCTGGATCCACAAGGCCGTAGTCCT-GGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG acgcccaaccaccacccaatgaaagagttgtctctctgttcatgctgcagCAGATGGCTGGAATCACAAAGCTGTAGTCCCAGGGCTCTGGAATGCACATCATTGAGGAGATACAAGTGGTCAGAGAGCCCCAGTCAGTAGACAATCTACTGATCTCACCAATGCAAgtatgttagtgttactatggtaagaatccccacttatttacccacaccta Alignment from Pairagon CTGATGGCTGGATCCACAAGGCCGTAGTCCT-GGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG acgcccaaccaccacccaatgaaagagttgtctctctgttcatgctgcagCAGATGGCTGGAATCACAAAGCTGTAGTCCCAGGGCTCTGGAATGCACATCATTGAGGAGATACAAGTGGTCAGAGAGCCCCAGTCAGTAGACAATCTACTGATCTCACCAATGCAAgtatgttagtgttactatggtaagaatccccacttatttacccacaccta Alignment from Exonerate_protein2genome CTGATGGCTGGATCCACAAGGCCGTAGTC-CTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG acgcccaaccaccacccaatgaaagagttgtctctctgttcatgctgcagCAGATGGCTGGAATCACAAAGCTGTAGTCCCAGGGCTCTGGAATGCACATCATTGAGGAGATACAAGTGGTCAGAGAGCCCCAGTCAGTAGACAATCTACTGATCTCACCAATGCAAgtatgttagtgttactatggtaagaatccccacttatttacccacaccta Alignment from Exonerate_coding2genome CTGATGGCTGGATCCACAAGGCCGTAGTC-CTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG acgcccaaccaccacccaatgaaagagttgtctctctgttcatgctgcagCAGATGGCTGGAATCACAAAGCTGTAGTCCCAGGGCTCTGGAATGCACATCATTGAGGAGATACAAGTGGTCAGAGAGCCCCAGTCAGTAGACAATCTACTGATCTCACCAATGCAAgtatgttagtgttactatggtaagaatccccacttatttacccacaccta Alignment from GeneWise CTGATGGCTGGATCCACAAGGCCGTAGTC-CTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG acgcccaaccaccacccaatgaaagagttgtctctctgttcatgctgcagCAGATGGCTGGAATCACAAAGCTGTAGTCCCAGGGCTCTGGAATGCACATCATTGAGGAGATACAAGTGGTCAGAGAGCCCCAGTCAGTAGACAATCTACTGATCTCACCAATGCAAgtatgttagtgttactatggtaagaatccccacttatttacccacaccta #### Sema4g_ID9254_12 --> 0 - 2 Original Alignment CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGAC-TGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACag tgggatggctggaaaaacactgcccattgtatgactttttctttttacagCACAGCCTATATGTGGGGGCTGCAAGTGGAATT---CAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACCTGCATTCTAGCACGAGACCCCTACTGTGGCTGGGATTCTAGCATCCATGTGTGCATGGTGGCCACTACAGTAGCAAACaggtaggaagacaggatataacagtgccctggtcaccaactggtagtagtat Alignment from CESAR CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGAC-TGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACag tgggatggctggaaaaacactgcccattgtatgactttttctttttacagCACAGCCTATATGTGGGGGCTGCAAGTGGAATT---CAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACCTGCATTCTAGCACGAGACCCCTACTGTGGCTGGGATTCTAGCATCCATGTGTGCATGGTGGCCACTACAGTAGCAAACaggtaggaagacaggatataacagtgccctggtcaccaactggtagtagtat Alignment from Spaln_aa2Genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGAC-TGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG tgggatggctggaaaaacactgcccattgtatgactttttctttttacagCACAGCCTATATGTGGGGGCTGCAAGTGGAATT---CAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACcTGCATTCTAGCACGAGACCCCTACTGTGGCTGGGATTCTAGCATCCATGTGTGCATGGTGGCCACTACAGTAGCAAACAGgtaggaagacaggatataacagtgccctggtcaccaactggtagtagtat Alignment from Spaln_nt2Genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGAC-TGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG tgggatggctggaaaaacactgcccattgtatgactttttctttttacagCACAGCCTATATGTGGGGGCTGCAAGTGGA---ATTCAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACCTGCATTCTAGCACGAGACCCCTACTGTGGCTGGGATTCTAGCATCCATGTGTGCATGGTGGCCACTACAGTAGCAAACAGgtaggaagacaggatataacagtgccctggtcaccaactggtagtagtat Alignment from Pairagon CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGA-CTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG tgggatggctggaaaaacactgcccattgtatgactttttctttttacagCACAGCCTATATGTGGGGGCTGCAAGTGGAA---TTCAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACCTGCATTCTAGCACGAGACCCCTACTGTGGCTGGGATTCTAGCATCCATGTGTGCATGGTGGCCACTACAGTAGCAAACAGgtaggaagacaggatataacagtgccctggtcaccaactggtagtagtat Alignment from Exonerate_protein2genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGAC-TGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG tgggatggctggaaaaacactgcccattgtatgactttttctttttacagCACAGCCTATATGTGGGGGCTGCAAGTGGAATT---CAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACCTGCATTCTAGCACGAGACCCCTACTGTGGCTGGGATTCTAGCATCCATGTGTGCATGGTGGCCACTACAGTAGCAAACAGgtaggaagacaggatataacagtgccctggtcaccaactggtagtagtat Alignment from Exonerate_coding2genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGAC-TGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG tgggatggctggaaaaacactgcccattgtatgactttttctttttacagCACAGCCTATATGTGGGGGCTGCAAGTGGAATT---CAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACCTGCATTCTAGCACGAGACCCCTACTGTGGCTGGGATTCTAGCATCCATGTGTGCATGGTGGCCACTACAGTAGCAAACAGgtaggaagacaggatataacagtgccctggtcaccaactggtagtagtat Alignment from GeneWise CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTAT-GACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG tgggatggctggaaaaacactgcccattgtatgactttttctttttacagCACAGCCTATATGTGGGGGCTGCAAGTGGAATT---CAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACCTGCATTCTAGCACGAGACCCCTACTGTGGCTGGGATTCTAGCATCCATGTGTGCATGGTGGCCACTACAGTAGCAAACAGgtaggaagacaggatataacagtgccctggtcaccaactggtagtagtat #### Sf1_ID1670_11 --> 2 - 1 Original Alignment atCAGTACCTGGGAAGTACGCCTGTGGGC-TCTGGGGTCTATCGCCTGCATCAAGGAAAAg aagtcccggatgccctcctactgatttctttgatgcgggttgttccctagacCAGTATCAAGGAAGTACACCAGTGGCCCTCTGGGGTTTATCGCCTGCATCAAGGAAAAggtaagtccattaccttttatggacatctctcatgattggggccaaatggc Alignment from CESAR atCAGTACCTGGGAAGTACGCCTGTGGGC-TCTGGGGTCTATCGCCTGCATCAAGGAAAAg aagtcccggatgccctcctactgatttctttgatgcgggttgttccctagacCAGTATCAAGGAAGTACACCAGTGGCCCTCTGGGGTTTATCGCCTGCATCAAGGAAAAggtaagtccattaccttttatggacatctctcatgattggggccaaatggc Alignment from Spaln_aa2Genome ATCAGTACCTGGGAAGTACGCCTGTGGGC-TCTGGGGTCTATCGCCTGCATCAAGGAAAAG aagtcccggatgccctcctactgatttctttgatgcgggttgttccctagACCAGTATCAAGGAAGTACACCAGTGGCCcTCTGGGGTTTATCGCCTGCATCAAGGAAAAGgtaagtccattaccttttatggacatctctcatgattggggccaaatggc Alignment from Spaln_nt2Genome ATCAGTACCTGGGAAGTACGCCTGTGGGC-TCTGGGGTCTATCGCCTGCATCAAGGAAAAG aagtcccggatgccctcctactgatttctttgatgcgggttgttccctagACCAGTATCAAGGAAGTACACCAGTGGCCCTCTGGGGTTTATCGCCTGCATCAAGGAAAAGgtaagtccattaccttttatggacatctctcatgattggggccaaatggc Alignment from Pairagon ATCAGTACCTGGGAAGTACGCCTGTGG-GCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG aagtcccggatgccctcctactgatttctttgatgcgggttgttccctagACCAGTATCAAGGAAGTACACCAGTGGCCCTCTGGGGTTTATCGCCTGCATCAAGGAAAAGgtaagtccattaccttttatggacatctctcatgattggggccaaatggc Alignment from Exonerate_protein2genome ATCAGTACCTGGGAAGTACGCCTGTGGGC-TCTGGGGTCTATCGCCTGCATCAAGGAAAAG aagtcccggatgccctcctactgatttctttgatgcgggttgttccctagACCAGTATCAAGGAAGTACACCAGTGGCCCTCTGGGGTTTATCGCCTGCATCAAGGAAAAGgtaagtccattaccttttatggacatctctcatgattggggccaaatggc Alignment from Exonerate_coding2genome ATCAGTACCTGGGAAGTACGCCTGTGGGC-TCTGGGGTCTATCGCCTGCATCAAGGAAAAG aagtcccggatgccctcctactgatttctttgatgcgggttgttccctagACCAGTATCAAGGAAGTACACCAGTGGCCCTCTGGGGTTTATCGCCTGCATCAAGGAAAAGgtaagtccattaccttttatggacatctctcatgattggggccaaatggc Alignment from GeneWise ATCAGTACCTGGGAAGTACGCCTGTG-GGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG aagtcccggatgccctcctactgatttctttgatgcgggttgttccctagACCAGTATCAAGGAAGTACACCAGTGGCCCTCTGGGGTTTATCGCCTGCATCAAGGAAAAGgtaagtccattaccttttatggacatctctcatgattggggccaaatggc #### Sf3b2_ID898_20 --> 0 - 0 Original Alignment GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCAC-GTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG tgggattgggccctgatccgtaagatttccttacttccctcataaaatagGTAATGAGCCAAAAGGGTGCCGCCCCTGAATTACAAGGTGTTGAAGTGGCATTGGCACCTGAAGAATTAGACTTGGATTCTATGGCTACAATGCAGAAGTACGAAGAACATCGTTCAGGAAAAA------CAAGTAGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtactaatgattgatgtatttggcatgggggttattctctctagtgagaa Alignment from CESAR GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCAC-GTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG tgggattgggccctgatccgtaagatttccttacttccctcataaaatagGTAATGAGCCAAAAGGGTGCCGCCCCTGAATTACAAGGTGTTGAAGTGGCATTGGCACCTGAAGAATTAGACTTGGATTCTATGGCTACAATGCAGAAGTACGAAGAACATCGTTCAGGAAAAA------CAAGTAGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtactaatgattgatgtatttggcatgggggttattctctctagtgagaa Alignment from Spaln_aa2Genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG tgggattgggccctgatccgtaagatttccttacttccctcataaaatagGTAATGAGCCAAAAGGGTGCCGCCCCTGAATTACAAGGTGTTGAAGTGGCATTGGCACCTGAAGAATTAGACTTGGATTCTATGGCTACAATGCAGAAGTACGAAGAACATC-----GTTCAGGAAAAACAAGTAGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtactaatgattgatgtatttggcatgggggttattctctctagtgagaa Alignment from Spaln_nt2Genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCA-CGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGACATG---GTGGCTGAGCATGCTGCTAAGCAGAAG tgggattgggccctgatccgtaagatttccttacttccctcataaaatagGTAATGAGCCAAAAGGGTGCCGCCCCTGAATTACAAGGTGTTGAAGTGGCATTGGCACCTGAAGAATTAGACTTGGATTCTATGGCTACAATGCAGAAGTACGAAGAACATCGTTCAGGAAAA------ACAAGTAGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtactaatgattgatgtatttggcatgggggttattctctctagtgagaa Alignment from Pairagon -------------------------------------------------GGTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCA-CGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG TGGGATTGGGCCCTGATCCGTAAGATTTCCTTACTTCCCTCATAAAATAGGTAATGAGCCAAAAGGGTGCCGCCCCTGAATTACAAGGTGTTGAAGTGGCATTGGCACCTGAAGAATTAGACTTGGATTCTATGGCTACAATGCAGAAGTACGAAGAACATCGTTCAGGAAAA------ACAAGTAGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtactaatgattgatgtatttggcatgggggttattctctctagtgagaa Alignment from Exonerate_protein2genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCAC-GTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG tgggattgggccctgatccgtaagatttccttacttccctcataaaatagGTAATGAGCCAAAAGGGTGCCGCCCCTGAATTACAAGGTGTTGAAGTGGCATTGGCACCTGAAGAATTAGACTTGGATTCTATGGCTACAATGCAGAAGTACGAAGAACATCGTTCAGGAAAAA------CAAGTAGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtactaatgattgatgtatttggcatgggggttattctctctagtgagaa Alignment from Exonerate_coding2genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCAC-GTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG tgggattgggccctgatccgtaagatttccttacttccctcataaaatagGTAATGAGCCAAAAGGGTGCCGCCCCTGAATTACAAGGTGTTGAAGTGGCATTGGCACCTGAAGAATTAGACTTGGATTCTATGGCTACAATGCAGAAGTACGAAGAACATCGTTCAGGAAAAA------CAAGTAGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtactaatgattgatgtatttggcatgggggttattctctctagtgagaa Alignment from GeneWise GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG tgggattgggccctgatccgtaagatttccttacttccctcataaaatagGTAATGAGCCAAAAGGGTGCCGCCCCTGAATTACAAGGTGTTGAAGTGGCATTGGCACCTGAAGAATTAGACTTGGATTCTATGGCTACAATGCAGAAGTACGAAGAACAT---CGTT--CAGGAAAAACAAGTAGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtactaatgattgatgtatttggcatgggggttattctctctagtgagaa #### Sf3b2_ID901_17 --> 0 - 2 Original Alignment ACCAAAACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAA-GAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACag gccagtttcagcaactcccctccctgaatgggtcctgtttgttctcgtagGCCAAAACAGAAAAGGAGGAAATTGACCAAACCCCATGGGGTGAGCTGGAACCTTCTGATGAAGAATCCTCAGAACGAGGAAGAAGAGGAGGATAGTGATGAAGATAAGCCAGATGAGACTGGCTTCATCACACCTGCAGATaggtcggtaccaggctgtcccccatcagtcacctacctggcactgtgatgat Alignment from CESAR ACCAAAACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAA-GAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACag gccagtttcagcaactcccctccctgaatgggtcctgtttgttctcgtagGCCAAAACAGAAAAGGAGGAAATTGACCAAACCCCATGGGGTGAGCTGGAACCTTCTGATGAAGAATCCTCAGAACGAGGAAGAAGAGGAGGATAGTGATGAAGATAAGCCAGATGAGACTGGCTTCATCACACCTGCAGATaggtcggtaccaggctgtcccccatcagtcacctacctggcactgtgatgat Alignment from Spaln_aa2Genome ACCAAAACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAA-GAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG gccagtttcagcaactcccctccctgaatgggtcctgtttgttctcgtagGCCAAAACAGAAAAGGAGGAAATTGACCAAACCCCATGGGGTGAGCTGGAACCTTCTGATGAAGAATCCTCAGAAcGAGGAAGAAGAGGAGGATAGTGATGAAGATAAGCCAGATGAGACTGGCTTCATCACACCTGCAGATAGgtcggtaccaggctgtcccccatcagtcacctacctggcactgtgatgat Alignment from Spaln_nt2Genome ACCAAAACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAA-GAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG gccagtttcagcaactcccctccctgaatgggtcctgtttgttctcgtagGCCAAAACAGAAAAGGAGGAAATTGACCAAACCCCATGGGGTGAGCTGGAACCTTCTGATGAAGAATCCTCAGAACGAGGAAGAAGAGGAGGATAGTGATGAAGATAAGCCAGATGAGACTGGCTTCATCACACCTGCAGATAGgtcggtaccaggctgtcccccatcagtcacctacctggcactgtgatgat Alignment from Pairagon ACCAAAACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAA-GAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG gccagtttcagcaactcccctccctgaatgggtcctgtttgttctcgtagGCCAAAACAGAAAAGGAGGAAATTGACCAAACCCCATGGGGTGAGCTGGAACCTTCTGATGAAGAATCCTCAGAACGAGGAAGAAGAGGAGGATAGTGATGAAGATAAGCCAGATGAGACTGGCTTCATCACACCTGCAGATAGgtcggtaccaggctgtcccccatcagtcacctacctggcactgtgatgat Alignment from Exonerate_protein2genome ACCAAAACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAA-GAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG gccagtttcagcaactcccctccctgaatgggtcctgtttgttctcgtagGCCAAAACAGAAAAGGAGGAAATTGACCAAACCCCATGGGGTGAGCTGGAACCTTCTGATGAAGAATCCTCAGAACGAGGAAGAAGAGGAGGATAGTGATGAAGATAAGCCAGATGAGACTGGCTTCATCACACCTGCAGATAGgtcggtaccaggctgtcccccatcagtcacctacctggcactgtgatgat Alignment from Exonerate_coding2genome ACCAAAACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAA-GAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG gccagtttcagcaactcccctccctgaatgggtcctgtttgttctcgtagGCCAAAACAGAAAAGGAGGAAATTGACCAAACCCCATGGGGTGAGCTGGAACCTTCTGATGAAGAATCCTCAGAACGAGGAAGAAGAGGAGGATAGTGATGAAGATAAGCCAGATGAGACTGGCTTCATCACACCTGCAGATAGgtcggtaccaggctgtcccccatcagtcacctacctggcactgtgatgat Alignment from GeneWise ACCAAAACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAA-GAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG gccagtttcagcaactcccctccctgaatgggtcctgtttgttctcgtagGCCAAAACAGAAAAGGAGGAAATTGACCAAACCCCATGGGGTGAGCTGGAACCTTCTGATGAAGAATCCTCAGAACGAGGAAGAAGAGGAGGATAGTGATGAAGATAAGCCAGATGAGACTGGCTTCATCACACCTGCAGATAGgtcggtaccaggctgtcccccatcagtcacctacctggcactgtgatgat #### Sf3b2_ID908_10 --> 0 - 0 Original Alignment CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAG-CTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG ggttaaggcacaaaccatattatgactggaccttgggttctgccttgcagCTAACGGATGAGGTAAGGAAAGAGAAAGAAAAGGAGCCTGAGAAGCCTTGACACAATGGAAAGTCCTACAGTCCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGCGATGATGATAGCAGTGATGATGAACAAgtatgggctatgtgattatgaattgttgatagggggtttagccgctggtg Alignment from CESAR CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAG-CTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG ggttaaggcacaaaccatattatgactggaccttgggttctgccttgcagCTAACGGATGAGGTAAGGAAAGAGAAAGAAAAGGAGCCTGAGAAGCCTTGACACAATGGAAAGTCCTACAGTCCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGCGATGATGATAGCAGTGATGATGAACAAgtatgggctatgtgattatgaattgttgatagggggtttagccgctggtg Alignment from Spaln_aa2Genome CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAG-CTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG ggttaaggcacaaaccatattatgactggaccttgggttctgccttgcagCTAACGGATGAGGTAAGGAAAGAGAAAGAAAAGGAGCCTGAGAAGcCTTGACACAATGGAAAGTCCTACAGTCCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGCGATGATGATAGCAGTGATGATGAACAAgtatgggctatgtgattatgaattgttgatagggggtttagccgctggtg Alignment from Spaln_nt2Genome CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAG-CTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG ggttaaggcacaaaccatattatgactggaccttgggttctgccttgcagCTAACGGATGAGGTAAGGAAAGAGAAAGAAAAGGAGCCTGAGAAGCCTTGACACAATGGAAAGTCCTACAGTCCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGCGATGATGATAGCAGTGATGATGAACAAgtatgggctatgtgattatgaattgttgatagggggtttagccgctggtg Alignment from Pairagon CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAG-CTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG ggttaaggcacaaaccatattatgactggaccttgggttctgccttgcagCTAACGGATGAGGTAAGGAAAGAGAAAGAAAAGGAGCCTGAGAAGCCTTGACACAATGGAAAGTCCTACAGTCCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGCGATGATGATAGCAGTGATGATGAACAAgtatgggctatgtgattatgaattgttgatagggggtttagccgctggtg Alignment from Exonerate_protein2genome CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAG-CTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG ggttaaggcacaaaccatattatgactggaccttgggttctgccttgcagCTAACGGATGAGGTAAGGAAAGAGAAAGAAAAGGAGCCTGAGAAGCCTTGACACAATGGAAAGTCCTACAGTCCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGCGATGATGATAGCAGTGATGATGAACAAgtatgggctatgtgattatgaattgttgatagggggtttagccgctggtg Alignment from Exonerate_coding2genome CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAG-CTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG ggttaaggcacaaaccatattatgactggaccttgggttctgccttgcagCTAACGGATGAGGTAAGGAAAGAGAAAGAAAAGGAGCCTGAGAAGCCTTGACACAATGGAAAGTCCTACAGTCCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGCGATGATGATAGCAGTGATGATGAACAAgtatgggctatgtgattatgaattgttgatagggggtttagccgctggtg Alignment from GeneWise CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAG-CTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG ggttaaggcacaaaccatattatgactggaccttgggttctgccttgcagCTAACGGATGAGGTAAGGAAAGAGAAAGAAAAGGAGCCTGAGAAGCCTTGACACAATGGAAAGTCCTACAGTCCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGCGATGATGATAGCAGTGATGATGAACAAgtatgggctatgtgattatgaattgttgatagggggtttagccgctggtg #### Sf3b2_ID909_9 --> 0 - 0 Original Alignment AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACC-GAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG tacacaatcccttagagtgtacagagcctgtttgtttttttcctattcagAAAAACCAACAACATCAAAATCGGAAGAAGAAAAAAAAACCAAAGCAGGTGAGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAAAAAGACTCTGGTCAATCTGAAGGGTCAGGTCCGCCGACAGGA---ATAGAGATTAAGTATGTGAGTCGAGGAGCCTGAGATCTATGAGCCCAATTTCATCTTCTTCAAGAGGGTGTATGAGGCTTTTAAGgtgagctggctcatgcctcttctgaggaccttacaggttaaggcacaaac Alignment from CESAR AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACC-GAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG tacacaatcccttagagtgtacagagcctgtttgtttttttcctattcagAAAAACCAACAACATCAAAATCGGAAGAAGAAAAAAAAACCAAAGCAGGTGAGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAAAAAGACTCTGGTCAATCTGAAGGGTCAGGTCCGCCGACAGGA---ATAGAGATTAAGTATGTGAGTCGAGGAGCCTGAGATCTATGAGCCCAATTTCATCTTCTTCAAGAGGGTGTATGAGGCTTTTAAGgtgagctggctcatgcctcttctgaggaccttacaggttaaggcacaaac Alignment from Spaln_aa2Genome AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACC-GAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG tacacaatcccttagagtgtacagagcctgtttgtttttttcctattcagAAAAACCAACAACATCAAAATCGGAAGAAGAAAAAAAAACCAAAGCAGGTGAGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAAAAAGACTCTGGTCAATCTGAAGGGTCAGGTCCGCCGACAGGA---ATAGAGATTAAGTATGTGAGTcGAGGAGCCTGAGATCTATGAGCCCAATTTCATCTTCTTCAAGAGGGTGTATGAGGCTTTTAAGgtgagctggctcatgcctcttctgaggaccttacaggttaaggcacaaac Alignment from Spaln_nt2Genome AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGAC-CGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG tacacaatcccttagagtgtacagagcctgtttgtttttttcctattcagAAAAACCAACAACATCAAAATCGGAAGAAGAAAAAAAAACCAAAGCAGGTGAGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAAAAAGACTCTGGTCAATCTGAAGGGTCAGGTCCGCCGACAG--GA-ATAGAGATTAAGTATGTGAGTCGAGGAGCCTGAGATCTATGAGCCCAATTTCATCTTCTTCAAGAGGGTGTATGAGGCTTTTAAGgtgagctggctcatgcctcttctgaggaccttacaggttaaggcacaaac Alignment from Pairagon AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTC--------------GGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTG----GAGATTGAGTATGTGA-CCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG tacacaatcccttagagtgtacagagcctgtttgtttttttcctattcagAAAAACCAACAACATCAAAATCGGAAGAAGAAAAAAAAACCAAAGCAGGTGAGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAAAAAGACTCTGGTCAATCTGAAGGGTCAGGTCC---------------------GCCGACAGGAATAGAGATTAAGTATGTGAGTCGAGGAGCCTGAGATCTATGAGCCCAATTTCATCTTCTTCAAGAGGGTGTATGAGGCTTTTAAGgtgagctggctcatgcctcttctgaggaccttacaggttaaggcacaaac Alignment from Exonerate_protein2genome AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACC-GAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG tacacaatcccttagagtgtacagagcctgtttgtttttttcctattcagAAAAACCAACAACATCAAAATCGGAAGAAGAAAAAAAAACCAAAGCAGGTGAGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAAAAAGACTCTGGTCAATCTGAAGGGTCAGGTCCGCCGACAGGA---ATAGAGATTAAGTATGTGAGTCGAGGAGCCTGAGATCTATGAGCCCAATTTCATCTTCTTCAAGAGGGTGTATGAGGCTTTTAAGgtgagctggctcatgcctcttctgaggaccttacaggttaaggcacaaac Alignment from Exonerate_coding2genome AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACC-GAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG tacacaatcccttagagtgtacagagcctgtttgtttttttcctattcagAAAAACCAACAACATCAAAATCGGAAGAAGAAAAAAAAACCAAAGCAGGTGAGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAAAAAGACTCTGGTCAATCTGAAGGGTCAGGTCCGCCGACAGGA---ATAGAGATTAAGTATGTGAGTCGAGGAGCCTGAGATCTATGAGCCCAATTTCATCTTCTTCAAGAGGGTGTATGAGGCTTTTAAGgtgagctggctcatgcctcttctgaggaccttacaggttaaggcacaaac Alignment from GeneWise AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTG-ACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG tacacaatcccttagagtgtacagagcctgtttgtttttttcctattcagAAAAACCAACAACATCAAAATCGGAAGAAGAAAAAAAAACCAAAGCAGGTGAGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAAAAAGACTCTGGTCAATCTGAAGGGTCAGGTCCGCCGACAGGA---ATAGAGATTAAGTATGTGAGTCGAGGAGCCTGAGATCTATGAGCCCAATTTCATCTTCTTCAAGAGGGTGTATGAGGCTTTTAAGgtgagctggctcatgcctcttctgaggaccttacaggttaaggcacaaac #### Sf3b2_ID911_7 --> 0 - 1 Original Alignment ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGG-CAGGAAGAGATGAACTCTCAGCAGg tttttgcaacgggataagtttcagacccctatcctatcccctgctcccagATT---GACCCCTCAGTGGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTCAGCTGAAGGAGAGTCAGCCAGCAAGAGATGAACTCTCAG---ggtgagtttgatacttcaacacacattagctgggggctgctgctttcacta Alignment from CESAR ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGG-CAGGAAGAGATGAACTCTCAGCAGg tttttgcaacgggataagtttcagacccctatcctatcccctgctcccagATT---GACCCCTCAGTGGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTCAGCTGAAGGAGAGTCAGCCAGCAAGAGATGAACTCT---CAGggtgagtttgatacttcaacacacattagctgggggctgctgctttcacta Alignment from Spaln_aa2Genome GATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGG-CAGGAAGAGATGAACTCTCAG- tttttgcaacgggataagtttcagacccctatcctatcccctgctcccagATTGACCCCTCAGTGGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTCAGCTGAAGGAGAGTCAGcCAGCAAGAGATGAACTCTCAGGgtgagtttgatacttcaacacacattagctgggggctgctgctttcacta Alignment from Spaln_nt2Genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGC-AGGAAGAGATGAACTCTCAGCAGG tttttgcaacgggataagtttcagacccctatcctatcccctgctcccagAT---TGACCCCTCAGTGGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTCAGCTGAAGGAGAGTCAGCCAGCAAGAGATGAACTCT---CAGGgtgagtttgatacttcaacacacattagctgggggctgctgctttcacta Alignment from Pairagon ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGG-CAGGAAGAGATGAACTCTCAGCAGGAGGAGGAGG tttttgcaacgggataagtttcagacccctatcctatcccctgctcccagAT---TGACCCCTCAGTGGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTCAGCTGAAGGAGAGTCAGCCAGCAAGAGATGAACTCTC------------AGGgtgagtttgatacttcaacacacattagctgggggctgctgctttcacta Alignment from Exonerate_protein2genome GATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGG-CAGGAAGAGATGAACTCTCAGC tttttgcaacgggataagtttcagacccctatcctatcccctgctcccagATTGACCCCTCAGTGGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTCAGCTGAAGGAGAGTCAGCCAGCAAGAGATGAACTCTCAGGgtgagtttgatacttcaacacacattagctgggggctgctgctttcacta Alignment from Exonerate_coding2genome GATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGG-CAGGAAGAGATGAACTCTCAGC tttttgcaacgggataagtttcagacccctatcctatcccctgctcccagATTGACCCCTCAGTGGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTCAGCTGAAGGAGAGTCAGCCAGCAAGAGATGAACTCTCAGGgtgagtttgatacttcaacacacattagctgggggctgctgctttcacta Alignment from GeneWise ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGC-CGGCAGGAAGAGATGAACTCTCAGCAGG tttttgcaacgggataagtttcagacccctatcctatcccctgctcccagATTGAC---CCCTCAGTGGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTCAGCTGAAGGAGAGTCAGCCAGCAAGAGATGAACTCT---CAGGgtgagtttgatacttcaacacacattagctgggggctgctgctttcacta #### Sf3b2_ID916_2 --> 2 - 0 Original Alignment ggAGTCGCGAGGAGTTA-GTAGAGCGGCTGCAGACCTACACCCGTCAG tgcactcttgtctattccaggaggagagtattgtctctcttcaatttcagggAGTCGTGAAGAATTACGTCGAGAGGCTGCAGACCTATACCCGTCAGgtaaccgttaccagtagactatctaatgatacttctggagtcaccaaaga Alignment from CESAR ggAGTCGCGAGGAGTTA-GTAGAGCGGCTGCAGACCTACACCCGTCAG tgcactcttgtctattccaggaggagagtattgtctctcttcaatttcagggAGTCGTGAAGAATTACGTCGAGAGGCTGCAGACCTATACCCGTCAGgtaaccgttaccagtagactatctaatgatacttctggagtcaccaaaga Alignment from Spaln_aa2Genome GGAGTCGCGAGGAGTTA-GTAGAGCGGCTGCAGACCTACACCCGTCAG tgcactcttgtctattccaggaggagagtattgtctctcttcaatttcagGGAGTCGTGAAGAATTAcGTCGAGAGGCTGCAGACCTATACCCGTCAGgtaaccgttaccagtagactatctaatgatacttctggagtcaccaaaga Alignment from Spaln_nt2Genome GGAGTCGCGAGGAGTTA-GTAGAGCGGCTGCAGACCTACACCCGTCAG tgcactcttgtctattccaggaggagagtattgtctctcttcaatttcagGGAGTCGTGAAGAATTACGTCGAGAGGCTGCAGACCTATACCCGTCAGgtaaccgttaccagtagactatctaatgatacttctggagtcaccaaaga Alignment from Pairagon GGAGTCGCGAGGAGTTA-GTAGAGCGGCTGCAGACCTACACCCGTCAG tgcactcttgtctattccaggaggagagtattgtctctcttcaatttcagGGAGTCGTGAAGAATTACGTCGAGAGGCTGCAGACCTATACCCGTCAGgtaaccgttaccagtagactatctaatgatacttctggagtcaccaaaga Alignment from Exonerate_protein2genome GGAGTCGCGAGGAGTTA-GTAGAGCGGCTGCAGACCTACACCCGTCAG tgcactcttgtctattccaggaggagagtattgtctctcttcaatttcagGGAGTCGTGAAGAATTACGTCGAGAGGCTGCAGACCTATACCCGTCAGgtaaccgttaccagtagactatctaatgatacttctggagtcaccaaaga Alignment from Exonerate_coding2genome TACACCC TGCACTCttgtctattccaggaggagagtattgtctctcttcaatttcagggagtcgtgaagaattacgtcgagaggctgcagacctatacccgtcaggtaaccgttaccagtagactatctaatgatacttctggagtcaccaaaga Alignment from GeneWise tgcactcttgtctattccaggaggagagtattgtctctcttcaatttcagggagtcgtgaagaattacgtcgagaggctgcagacctatacccgtcaggtaaccgttaccagtagactatctaatgatacttctggagtcaccaaaga #### Sfxn3_ID9286_4 --> 1 - 0 Original Alignment gCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACT-GCTCTGGGACTCAAGTCTCTCACCAAG tccagcctaaacttggtagcttcctactttttttttcttttaattaataggCCGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACGCGCTCTGGGACTAAAGTCTCTGACCAAGgtgaggtttccctccttctttctaaagttctaccttcatgaggtcaccac Alignment from CESAR gCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACT-GCTCTGGGACTCAAGTCTCTCACCAAG tccagcctaaacttggtagcttcctactttttttttcttttaattaataggCCGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACGCGCTCTGGGACTAAAGTCTCTGACCAAGgtgaggtttccctccttctttctaaagttctaccttcatgaggtcaccac Alignment from Spaln_aa2Genome GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACT-GCTCTGGGACTCAAGTCTCTCACCAAG tccagcctaaacttggtagcttcctactttttttttcttttaattaatagGCCGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACGcGCTCTGGGACTAAAGTCTCTGACCAAGgtgaggtttccctccttctttctaaagttctaccttcatgaggtcaccac Alignment from Spaln_nt2Genome GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACT-GCTCTGGGACTCAAGTCTCTCACCAAG tccagcctaaacttggtagcttcctactttttttttcttttaattaatagGCCGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACGCGCTCTGGGACTAAAGTCTCTGACCAAGgtgaggtttccctccttctttctaaagttctaccttcatgaggtcaccac Alignment from Pairagon GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTAC-TGCTCTGGGACTCAAGTCTCTCACCAAG tccagcctaaacttggtagcttcctactttttttttcttttaattaatagGCCGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACGCGCTCTGGGACTAAAGTCTCTGACCAAGgtgaggtttccctccttctttctaaagttctaccttcatgaggtcaccac Alignment from Exonerate_protein2genome GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACT-GCTCTGGGACTCAAGTCTCTCACCAAG tccagcctaaacttggtagcttcctactttttttttcttttaattaatagGCCGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACGCGCTCTGGGACTAAAGTCTCTGACCAAGgtgaggtttccctccttctttctaaagttctaccttcatgaggtcaccac Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACT-GCTCTGGGACTCAAGTCTCTCACCAAG tccagcctaaacttggtagcttcctactttttttttcttttaattaatagGCCGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACGCGCTCTGGGACTAAAGTCTCTGACCAAGgtgaggtttccctccttctttctaaagttctaccttcatgaggtcaccac #### Sfxn3_ID9291_9 --> 1 - 2 Original Alignment cTTGGTATTTGCCACACCCCTGTGCTGCGCTCTG-TTCCCTCAGAGAag agctatgctgtaatatgcttttcacgaatctgtgctccctttccttttagcCTGGTATTCGCCACCCCCCTGTGTTGTGCCTTGCTTCCCACAGAGAgcgtaagtgagtgataccaacatagttgctctgtctgaataagttgtatgtt Alignment from CESAR cTTGGTATTTGCCACACCCCTGTGCTGCGCTCTG-TTCCCTCAGAGAag agctatgctgtaatatgcttttcacgaatctgtgctccctttccttttagcCTGGTATTCGCCACCCCCCTGTGTTGTGCCTTGCTTCCCACAGAGAgcgtaagtgagtgataccaacatagttgctctgtctgaataagttgtatgtt Alignment from Spaln_aa2Genome CTTGGTATTTGCCACACCCCTGTGCTGCGCTCTGTTCCCTCAGAGAAGC-------- agctatgctgtaatatgcttttcacgaatctgtgctccctttccttttagCCTGGTATTCGCCACCCCCCTGTGTTGTGCCTTGCTTCCCACAGAGAGCGTAAGTGAgtgataccaacatagttgctctgtctgaataagttgtatgtt Alignment from Spaln_nt2Genome CTTGGTATTTGCCACACCCCTGTGCTGCGCTCTG-TTCCCTCAGAGAAG agctatgctgtaatatgcttttcacgaatctgtgctccctttccttttagCCTGGTATTCGCCACCCCCCTGTGTTGTGCCTTGCTTCCCACAGAGAGCgtaagtgagtgataccaacatagttgctctgtctgaataagttgtatgtt Alignment from Pairagon CTTGGTATTTGCCACACCCCTGTGCTGCGCTCTG-TTCCCTCAGAGAAG agctatgctgtaatatgcttttcacgaatctgtgctccctttccttttagCCTGGTATTCGCCACCCCCCTGTGTTGTGCCTTGCTTCCCACAGAGAGCgtaagtgagtgataccaacatagttgctctgtctgaataagttgtatgtt Alignment from Exonerate_protein2genome CTTGGTATTTGCCACACCCCTGTGCTGCGCTCTG-TTCCCTCAGAGAAG agctatgctgtaatatgcttttcacgaatctgtgctccctttccttttagCCTGGTATTCGCCACCCCCCTGTGTTGTGCCTTGCTTCCCACAGAGAGCgtaagtgagtgataccaacatagttgctctgtctgaataagttgtatgtt Alignment from Exonerate_coding2genome CTTGGTATTTGCCACACCCCTGTGCTGCGCTCTG-TTCCCTCAGAGAAG agctatgctgtaatatgcttttcacgaatctgtgctccctttccttttagCCTGGTATTCGCCACCCCCCTGTGTTGTGCCTTGCTTCCCACAGAGAGCgtaagtgagtgataccaacatagttgctctgtctgaataagttgtatgtt Alignment from GeneWise CTTGGTATTTGCCACACCCCTGTGCTGCGCTCTGTTCCCTCAGAGAAGC---TCC-- agctatgctgtaatatgcttttcacgaatctgtgctccctttccttttagCCTGGTATTCGCCACCCCCCTGTGTTGTGCCTTGCTTCCCACAGAGAGCGTAAGTGAgtgataccaacatagttgctctgtctgaataagttgtatgtt #### Sipa1_ID1139_13 --> 2 - 2 Original Alignment gaCAACCCATCTCAGAGAGC-GGAGACCCCAAGGAAGCTTTAAAGTGTGATTCTga ggtgatgctgttcattggacattagccattaatctcttggaatgctatagggCAATCAATCTCTGAGAGTCGGTGATCTCAAGGAGGCTTCAAAGTGTGATTCTgagtaaagcttctcttgtgatcatgttgcttgattttctgttgggtgtggca Alignment from CESAR gaCAACCCATCTCAGAGAGC-GGAGACCCCAAGGAAGCTTTAAAGTGTGATTCTga ggtgatgctgttcattggacattagccattaatctcttggaatgctatagggCAATCAATCTCTGAGAGTCGGTGATCTCAAGGAGGCTTCAAAGTGTGATTCTgagtaaagcttctcttgtgatcatgttgcttgattttctgttgggtgtggca Alignment from Spaln_aa2Genome G C---GGAGACCCCAAGGAAGCTTTAAAGTGTGATTCTGA GgtgatgctgttcattggacattagccattaatctcttggaatgctatagggcaatcaatctctgagAGTCGGTGATCTCAAGGAGGCTTCAAAGTGTGATTCTGAgtaaagcttctcttgtgatcatgttgcttgattttctgttgggtgtggca Alignment from Spaln_nt2Genome GACAACCCATCTCAGAGAG-CGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCTGA ggtgatgctgttcattggacattagccattaatctcttggaatgctatagGGCAATCAATCTCTGAGAGTCGGTGATCTCAAGGAGGCTTCAAAGTGTGATTCTGAgtaaagcttctcttgtgatcatgttgcttgattttctgttgggtgtggca Alignment from Pairagon GACAACCCATCTCAGAGAG-CGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCTGA ggtgatgctgttcattggacattagccattaatctcttggaatgctatagGGCAATCAATCTCTGAGAGTCGGTGATCTCAAGGAGGCTTCAAAGTGTGATTCTGAgtaaagcttctcttgtgatcatgttgcttgattttctgttgggtgtggca Alignment from Exonerate_protein2genome ggtgatgctgttcattggacattagccattaatctcttggaatgctatagggcaatcaatctctgagagtcggtgatctcaaggaggcttcaaagtgtgattctgagtaaagcttctcttgtgatcatgttgcttgattttctgttgggtgtggca Alignment from Exonerate_coding2genome ggtgatgctgttcattggacattagccattaatctcttggaatgctatagggcaatcaatctctgagagtcggtgatctcaaggaggcttcaaagtgtgattctgagtaaagcttctcttgtgatcatgttgcttgattttctgttgggtgtggca Alignment from GeneWise A Ggtgatgctgttcattggacattagccattaatctcttggaatgctatagggcaatcaatctctgagagtcggtgatctcaaggaggcttcaaagtgtgattctgagtaaagcttctcttgtgatcatgttgcttgattttctgttgggtgtggca #### Sipa1_ID1140_12 --> 2 - 1 Original Alignment ttATGTCGGAAGCTGGCAGTGAGACCCTG-GAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGg aggcttgacatcattgtcttcgctcttgttttttttcactttttttttagttATGCCAGAAGCTGCCACTGAAACCTTGCGAT---GAATGGCAGTCCATCTCTGCAATTTCCTCCACTTGCAACACAATCTTGGAGTCCCTGTCTCGGGAAggtaagttccctgtctcgggaaggtgatgctgttcattggacattagccat Alignment from CESAR ttATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGg aggcttgacatcattgtcttcgctcttgttttttttcactttttttttagttATGCCAGAAGCTGCCACTGAAACCTTG--CGATGAATGGCAGTCCATCTCTGCAATTTCCTCCACTTGCAACACAATCTTGGAGTCCCTGTCTCGGGAAggtaagttccctgtctcgggaaggtgatgctgttcattggacattagccat Alignment from Spaln_aa2Genome TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG aggcttgacatcattgtcttcgctcttgttttttttcactttttttttagTTATGCCAGAAGCTGCCACTGAAACCTTGC--GATGAATGGCAGTCCATCTCTGCAATTTCCTCCACTTGCAACACAATCTTGGAGTCCCTGTCTCGGGAAGgtaagttccctgtctcgggaaggtgatgctgttcattggacattagccat Alignment from Spaln_nt2Genome TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG aggcttgacatcattgtcttcgctcttgttttttttcactttttttttagTTATGCCAGAAGCTGCCACTGAAACCTTG--CGATGAATGGCAGTCCATCTCTGCAATTTCCTCCACTTGCAACACAATCTTGGAGTCCCTGTCTCGGGAAGgtaagttccctgtctcgggaaggtgatgctgttcattggacattagccat Alignment from Pairagon TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG aggcttgacatcattgtcttcgctcttgttttttttcactttttttttagTTATGCCAGAAGCTGCCACTGAAACCTTG--CGATGAATGGCAGTCCATCTCTGCAATTTCCTCCACTTGCAACACAATCTTGGAGTCCCTGTCTCGGGAAGgtaagttccctgtctcgggaaggtgatgctgttcattggacattagccat Alignment from Exonerate_protein2genome TTATGTCGGAAGCTGGCAGTGAGACCCTG-GAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG aggcttgacatcattgtcttcgctcttgttttttttcactttttttttagTTATGCCAGAAGCTGCCACTGAAACCTTGC---GATGAATGGCAGTCCATCTCTGCAATTTCCTCCACTTGCAACACAATCTTGGAGTCCCTGTCTCGGGAAGgtaagttccctgtctcgggaaggtgatgctgttcattggacattagccat Alignment from Exonerate_coding2genome aggcttgacatcattgtcttcgctcttgttttttttcactttttttttagttatgccagaagctgccactgaaaccttgcgatgaatggcagtccatctctgcaatttcctccacttgcaacacaatcttggagtccctgtctcgggaaggtaagttccctgtctcgggaaggtgatgctgttcattggacattagccat Alignment from GeneWise TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG aggcttgacatcattgtcttcgctcttgttttttttcactttttttttagTTATGCCAGAAGCTGCCACTGAAACCTTGC--GATGAATGGCAGTCCATCTCTGCAATTTCCTCCACTTGCAACACAATCTTGGAGTCCCTGTCTCGGGAAGgtaagttccctgtctcgggaaggtgatgctgttcattggacattagccat #### Sipa1_ID1141_11 --> 0 - 1 Original Alignment GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGAC-TCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGa gtcaaggtcacattgagtcccatactgttcacccaactctgctctcctagGATCAGTCAGGAAGCCCTAGTAGTCATGGGGATACCAGTGACCTCAGGTCCAGAATTAAGGGCCCCAATCCTGCCTAGAACCTTATCGGTACGGAATTCCATCAGTAAAagtgagacaggtgacaggggttaggaacagtctcctgttcatgccctgcct Alignment from CESAR GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGAC-TCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGa gtcaaggtcacattgagtcccatactgttcacccaactctgctctcctagGATCAGTCAGGAAGCCCTAGTAGTCATGGGGATACCAGTGACCTCAGGTCCAGAATTAAGGGCCCCAATCCTGCCTAGAACCTTATCGGTACGGAATTCCATCAGTAAAagtgagacaggtgacaggggttaggaacagtctcctgttcatgccctgcct Alignment from Spaln_aa2Genome GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGAC-TCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gtcaaggtcacattgagtcccatactgttcacccaactctgctctcctagGATCAGTCAGGAAGCCCTAGTAGTCATGGGGATACCAGTGACcTCAGGTCCAGAATTAAGGGCCCCAATCCTGCCTAGAACCTTATCGGTACGGAATTCCATCAGTAAAAgtgagacaggtgacaggggttaggaacagtctcctgttcatgccctgcct Alignment from Spaln_nt2Genome GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGA-CTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gtcaaggtcacattgagtcccatactgttcacccaactctgctctcctagGATCAGTCAGGAAGCCCTAGTAGTCATGGGGATACCAGTGACCTCAGGTCCAGAATTAAGGGCCCCAATCCTGCCTAGAACCTTATCGGTACGGAATTCCATCAGTAAAAgtgagacaggtgacaggggttaggaacagtctcctgttcatgccctgcct Alignment from Pairagon GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGA-CTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gtcaaggtcacattgagtcccatactgttcacccaactctgctctcctagGATCAGTCAGGAAGCCCTAGTAGTCATGGGGATACCAGTGACCTCAGGTCCAGAATTAAGGGCCCCAATCCTGCCTAGAACCTTATCGGTACGGAATTCCATCAGTAAAAgtgagacaggtgacaggggttaggaacagtctcctgttcatgccctgcct Alignment from Exonerate_protein2genome GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGAC-TCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gtcaaggtcacattgagtcccatactgttcacccaactctgctctcctagGATCAGTCAGGAAGCCCTAGTAGTCATGGGGATACCAGTGACCTCAGGTCCAGAATTAAGGGCCCCAATCCTGCCTAGAACCTTATCGGTACGGAATTCCATCAGTAAAAgtgagacaggtgacaggggttaggaacagtctcctgttcatgccctgcct Alignment from Exonerate_coding2genome gtcaaggtcacattgagtcccatactgttcacccaactctgctctcctaggatcagtcaggaagccctagtagtcatggggataccagtgacctcaggtccagaattaagggccccaatcctgcctagaaccttatcggtacggaattccatcagtaaaagtgagacaggtgacaggggttaggaacagtctcctgttcatgccctgcct Alignment from GeneWise GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGAC-TCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gtcaaggtcacattgagtcccatactgttcacccaactctgctctcctagGATCAGTCAGGAAGCCCTAGTAGTCATGGGGATACCAGTGACCTCAGGTCCAGAATTAAGGGCCCCAATCCTGCCTAGAACCTTATCGGTACGGAATTCCATCAGTAAAAgtgagacaggtgacaggggttaggaacagtctcctgttcatgccctgcct #### Sipa1_ID1142_10 --> 1 - 0 Original Alignment cTCCCTGTCCGATGAGGCTCCA-GTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG agggaggtgcttccgcaagagaataatcaatttaactctttgttttacagcTCCCTGACTGATGAGGTCCCTCGTCCTACCCAAGATTACACCAGATCTCCTACTGATTACAACAGCTAACACTTCTGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtaaggagggaggcgtaggctctattaacacatggcccactgtcaaggtc Alignment from CESAR cTCCCTGTCCGATGAGGCTCCA-GTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG agggaggtgcttccgcaagagaataatcaatttaactctttgttttacagcTCCCTGACTGATGAGGTCCCTCGTCCTACCCAAGATTACACCAGATCTCCTACTGATTACAACAGCTAACACTTCTGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtaaggagggaggcgtaggctctattaacacatggcccactgtcaaggtc Alignment from Spaln_aa2Genome CTCCCTGTCCGATGAGGCTCCA-GTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG agggaggtgcttccgcaagagaataatcaatttaactctttgttttacagCTCCCTGACTGATGAGGTCCCTcGTCCTACCCAAGATTACACCAGATCTCCTACTGATTACAACAGCTAACACTTCTGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtaaggagggaggcgtaggctctattaacacatggcccactgtcaaggtc Alignment from Spaln_nt2Genome CTCCCTGTCCGATGAGGCTCCA-GTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG agggaggtgcttccgcaagagaataatcaatttaactctttgttttacagCTCCCTGACTGATGAGGTCCCTCGTCCTACCCAAGATTACACCAGATCTCCTACTGATTACAACAGCTAACACTTCTGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtaaggagggaggcgtaggctctattaacacatggcccactgtcaaggtc Alignment from Pairagon CTCCCTGTCCGATGAGG-CTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG agggaggtgcttccgcaagagaataatcaatttaactctttgttttacagCTCCCTGACTGATGAGGTCCCTCGTCCTACCCAAGATTACACCAGATCTCCTACTGATTACAACAGCTAACACTTCTGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtaaggagggaggcgtaggctctattaacacatggcccactgtcaaggtc Alignment from Exonerate_protein2genome CTCCCTGTCCGATGAGGCTCCA-GTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG agggaggtgcttccgcaagagaataatcaatttaactctttgttttacagCTCCCTGACTGATGAGGTCCCTCGTCCTACCCAAGATTACACCAGATCTCCTACTGATTACAACAGCTAACACTTCTGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtaaggagggaggcgtaggctctattaacacatggcccactgtcaaggtc Alignment from Exonerate_coding2genome agggaggtgcttccgcaagagaataatcaatttaactctttgttttacagctccctgactgatgaggtccctcgtcctacccaagattacaccagatctcctactgattacaacagctaacacttctgcccctgatactgatagagaaacaccaccttcccaggtaaggagggaggcgtaggctctattaacacatggcccactgtcaaggtc Alignment from GeneWise CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG agggaggtgcttccgcaagagaataatcaatttaactctttgttttacagctccctgactgatgagGTCCCTC---------------GTCCTACCCAAGATTACACCAGATCTCCTACTGATTACAACAGCTAACACTTCTGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtaaggagggaggcgtaggctctattaacacatggcccactgtcaaggtc #### Sipa1_ID1146_6 --> 0 - 2 Original Alignment CTCCTGAGGAAGCGT-CATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACag ttgagcacactgaaaatcaggtatttttaatttaacaatttttctaacagCTGCTAAGGAAATGTCCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGACAGTATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACaggtatgaatttggttaagctggggtcttagggatgggtcagctgtcatggt Alignment from CESAR CTCCTGAGGAAGCGT-CATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACag ttgagcacactgaaaatcaggtatttttaatttaacaatttttctaacagCTGCTAAGGAAATGTCCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGACAGTATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACaggtatgaatttggttaagctggggtcttagggatgggtcagctgtcatggt Alignment from Spaln_aa2Genome CTCCTGAGGAAGCGT-CATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG ttgagcacactgaaaatcaggtatttttaatttaacaatttttctaacagCTGCTAAGGAAATGTcCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGACAGTATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACAGgtatgaatttggttaagctggggtcttagggatgggtcagctgtcatggt Alignment from Spaln_nt2Genome CTCCTGAGGAAGCGTC-ATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG ttgagcacactgaaaatcaggtatttttaatttaacaatttttctaacagCTGCTAAGGAAATGTCCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGACAGTATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACAGgtatgaatttggttaagctggggtcttagggatgggtcagctgtcatggt Alignment from Pairagon CTCCTGAGGAAGCGT-CATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG ttgagcacactgaaaatcaggtatttttaatttaacaatttttctaacagCTGCTAAGGAAATGTCCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGACAGTATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACAGgtatgaatttggttaagctggggtcttagggatgggtcagctgtcatggt Alignment from Exonerate_protein2genome CTCCTGAGGAAG-CGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG ttgagcacactgaaaatcaggtatttttaatttaacaatttttctaacagCTGCTAAGGAAATGTCCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGACAGTATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACAGgtatgaatttggttaagctggggtcttagggatgggtcagctgtcatggt Alignment from Exonerate_coding2genome CTCCTGAGGAAG-CGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG ttgagcacactgaaaatcaggtatttttaatttaacaatttttctaacagCTGCTAAGGAAATGTCCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGACAGTATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACAGgtatgaatttggttaagctggggtcttagggatgggtcagctgtcatggt Alignment from GeneWise CTCCTGAGGAAG-CGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG ttgagcacactgaaaatcaggtatttttaatttaacaatttttctaacagCTGCTAAGGAAATGTCCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGACAGTATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACAGgtatgaatttggttaagctggggtcttagggatgggtcagctgtcatggt #### Slc18a2_ID12936_4 --> 2 - 1 Original Alignment tgTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCT-TGCTCATCTGTGGCTg caggtttatgtaggggaccaggaaggcaaccactacccctctccctttagtgTTTGCATAT------GGTTATGCCTTCCTCCTGATCGCCAAGTCCTTGCAAGGAATAGGTTCATCTCTGCTCATCTGTTGCTggtacagctataattaatgtatgaccatggactcacaggtattgaggcagg Alignment from CESAR tgTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCT-TGCTCATCTGTGGCTg caggtttatgtaggggaccaggaaggcaaccactacccctctccctttagtgTTTGCATAT------GGTTATGCCTTCCTCCTGATCGCCAAGTCCTTGCAAGGAATAGGTTCATCTCTGCTCATCTGTTGCTggtacagctataattaatgtatgaccatggactcacaggtattgaggcagg Alignment from Spaln_aa2Genome TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCT-TGCTCATCTGTGGCTG caggtttatgtaggggaccaggaaggcaaccactacccctctccctttagTGTTTGCATAT------GGTTATGCCTTCCTCCTGATCGCCAAGTCCTTGCAAGGAATAGGTTCATCTcTGCTCATCTGTTGCTGgtacagctataattaatgtatgaccatggactcacaggtattgaggcagg Alignment from Spaln_nt2Genome TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCT-TGCTCATCTGTGGCTG caggtttatgtaggggaccaggaaggcaaccactacccctctccctttagTGTTTGCAT------ATGGTTATGCCTTCCTCCTGATCGCCAAGTCCTTGCAAGGAATAGGTTCATCTCTGCTCATCTGTTGCTGgtacagctataattaatgtatgaccatggactcacaggtattgaggcagg Alignment from Pairagon TGTTTGCCTTCTCCAGCA----GCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCT-TGCTCATCTGTGGCTG caggtttatgtaggggaccaggaaggcaaccactacccctctccctttagTGTTT----------GCATATGGTTATGCCTTCCTCCTGATCGCCAAGTCCTTGCAAGGAATAGGTTCATCTCTGCTCATCTGTTGCTGgtacagctataattaatgtatgaccatggactcacaggtattgaggcagg Alignment from Exonerate_protein2genome TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCT-TGCTCATCTGTGGCTG caggtttatgtaggggaccaggaaggcaaccactacccctctccctttagTGTTTGCATAT------GGTTATGCCTTCCTCCTGATCGCCAAGTCCTTGCAAGGAATAGGTTCATCTCTGCTCATCTGTTGCTGgtacagctataattaatgtatgaccatggactcacaggtattgaggcagg Alignment from Exonerate_coding2genome caggtttatgtaggggaccaggaaggcaaccactacccctctccctttagtgtttgcatatggttatgccttcctcctgatcgccaagtccttgcaaggaataggttcatctctgctcatctgttgctggtacagctataattaatgtatgaccatggactcacaggtattgaggcagg Alignment from GeneWise TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCT- caggtttatgtaggggaccaggaaggcaaccactacccctctccctttagTGTTTGCATATGGT------TATGCCTTCCTCCTGATCGCCAAGTCCTTGCAAGGAATAGGTTCATCTCTGCTCATCTgttgctggtacagctataattaatgtatgaccatggactcacaggtattgaggcagg #### Slc22a12_ID1789_8 --> 2 - 2 Original Alignment ggATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTG-GGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCag ctatggctggttgatacattgtgaagttctgtcctccttcgaaaacctagcaATGGGGGTCCTTCGCTCTGCTCTAGCTGTGCTACGGATTGGGCTGCCTAGGTGGTGCCTTCACGTGTATCACCATTTTCTCTAGTGAGCTCTTTCCCACTGTTATCaggtaaacgccatgaggcccctggatcacaccaccagaccattgcacataga Alignment from CESAR ggATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTG-GGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCag ctatggctggttgatacattgtgaagttctgtcctccttcgaaaacctagcaATGGGGGTCCTTCGCTCTGCTCTAGCTGTGCTACGGATTGGGCTGCCTAGGTGGTGCCTTCACGTGTATCACCATTTTCTCTAGTGAGCTCTTTCCCACTGTTATCaggtaaacgccatgaggcccctggatcacaccaccagaccattgcacataga Alignment from Spaln_aa2Genome GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTG-GGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG ctatggctggttgatacattgtgaagttctgtcctccttcgaaaacctagCAATGGGGGTCCTTCGCTCTGCTCTAGCTGTGCTAcGGATTGGGCTGCCTAGGTGGTGCCTTCACGTGTATCACCATTTTCTCTAGTGAGCTCTTTCCCACTGTTATCAGgtaaacgccatgaggcccctggatcacaccaccagaccattgcacataga Alignment from Spaln_nt2Genome GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCT-GGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG ctatggctggttgatacattgtgaagttctgtcctccttcgaaaacctagCAATGGGGGTCCTTCGCTCTGCTCTAGCTGTGCTACGGATTGGGCTGCCTAGGTGGTGCCTTCACGTGTATCACCATTTTCTCTAGTGAGCTCTTTCCCACTGTTATCAGgtaaacgccatgaggcccctggatcacaccaccagaccattgcacataga Alignment from Pairagon GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTG-GGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG ctatggctggttgatacattgtgaagttctgtcctccttcgaaaacctagCAATGGGGGTCCTTCGCTCTGCTCTAGCTGTGCTACGGATTGGGCTGCCTAGGTGGTGCCTTCACGTGTATCACCATTTTCTCTAGTGAGCTCTTTCCCACTGTTATCAGgtaaacgccatgaggcccctggatcacaccaccagaccattgcacataga Alignment from Exonerate_protein2genome GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTG-GGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG ctatggctggttgatacattgtgaagttctgtcctccttcgaaaacctagCAATGGGGGTCCTTCGCTCTGCTCTAGCTGTGCTACGGATTGGGCTGCCTAGGTGGTGCCTTCACGTGTATCACCATTTTCTCTAGTGAGCTCTTTCCCACTGTTATCAGgtaaacgccatgaggcccctggatcacaccaccagaccattgcacataga Alignment from Exonerate_coding2genome ctatggctggttgatacattgtgaagttctgtcctccttcgaaaacctagcaatgggggtccttcgctctgctctagctgtgctacggattgggctgcctaggtggtgccttcacgtgtatcaccattttctctagtgagctctttcccactgttatcaggtaaacgccatgaggcccctggatcacaccaccagaccattgcacataga Alignment from GeneWise GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTG-CTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG ctatggctggttgatacattgtgaagttctgtcctccttcgaaaacctagCAATGGGGGTCCTTCGCTCTGCTCTAGCTGTGCTACGGATTGGGCTGCCTAGGTGGTGCCTTCACGTGTATCACCATTTTCTCTAGTGAGCTCTTTCCCACTGTTATCAGgtaaacgccatgaggcccctggatcacaccaccagaccattgcacataga #### Slc22a12_ID1790_7 --> 1 - 1 Original Alignment gTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCC-CTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATg tcttggcccaggccagggctatttaaagctgcccctaacatttcccccaggTTTTCCATAGGCTTTACCTTTTATGGATTAGCACATTGAC---------CTTGGAAGCAATATATTCCTCCTCCAATCGATCATTGGGATTGTGGATTTTCCAGTAAAGACAGGTAGTTTGCTCCTGATCACACACTTGGGCCAACACCTTTGTCAGGTCAGTTTTTTGGTC---CCTGGACTATGTATACTTTCCAATGTATTGGTGCCCCATggtgtggctataatctcctactgggggatagtgttcaacagaaaagggaga Alignment from CESAR gTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCC-CTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATg tcttggcccaggccagggctatttaaagctgcccctaacatttcccccaggTTTTCCATAGGCTTTACCTTTTATGGATTAGCACATTGAC---------CTTGGAAGCAATATATTCCTCCTCCAATCGATCATTGGGATTGTGGATTTTCCAGTAAAGACAGGTAGTTTGCTCCTGATCACACACTTGGGCCAACACCTTTGTCAGGTCAGTTTTTTGGTC---CCTGGACTATGTATACTTTCCAATGTATTGGTGCCCCATggtgtggctataatctcctactgggggatagtgttcaacagaaaagggaga Alignment from Spaln_aa2Genome GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCC-CTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG tcttggcccaggccagggctatttaaagctgcccctaacatttcccccagGTTTTCCATAGGCTTTACCTTTTATGGATTAGCAcATTGAC---------CTTGGAAGCAATATATTCCTCCTCCAATCGATCATTGGGATTGTGGATTTTCCAGTAAAGACAGGTAGTTTGCTCCTGATCACACACTTGGGCCAACACCTTTGTCAGGTCAGTTTTTTGGTC---CCTGGACTATGTATACTTTCCAATGTATTGGTGCCCCATGgtgtggctataatctcctactgggggatagtgttcaacagaaaagggaga Alignment from Spaln_nt2Genome GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG tcttggcccaggccagggctatttaaagctgcccctaacatttcccccagGTTTTCCATAGGCTTTACCTTTTATGGATTAGCACAT--------TGACCTTGGAAGCAATATATTCCTCCTCCAATCGATCATTGGGATTGTGGATTTTCCAGTAAAGACAGGTAGTTTGCTCCTGATCACACACTTGGGCCAACACCTTTGTCAGGTCAGTTTTTTGG---TCCCTGGACTATGTATACTTTCCAATGTATTGGTGCCCCATGgtgtggctataatctcctactgggggatagtgttcaacagaaaagggaga Alignment from Pairagon GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGC-CCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG tcttggcccaggccagggctatttaaagctgcccctaacatttcccccagGTTTTCCATAGGCTTTACCTTTTATGGATTAGCACATTGAC---------CTTGGAAGCAATATATTCCTCCTCCAATCGATCATTGGGATTGTGGATTTTCCAGTAAAGACAGGTAGTTTGCTCCTGATCACACACTTGGGCCAACACCTTTGTCAGGTCAGTTTTTTGG---TCCCTGGACTATGTATACTTTCCAATGTATTGGTGCCCCATGgtgtggctataatctcctactgggggatagtgttcaacagaaaagggaga Alignment from Exonerate_protein2genome GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCC-CTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG tcttggcccaggccagggctatttaaagctgcccctaacatttcccccagGTTTTCCATAGGCTTTACCTTTTATGGATTAGCACATTGACCTT---------GGAAGCAATATATTCCTCCTCCAATCGATCATTGGGATTGTGGATTTTCCAGTAAAGACAGGTAGTTTGCTCCTGATCACACACTTGGGCCAACACCTTTGTCAGGTCAGTTTTTTGGTC---CCTGGACTATGTATACTTTCCAATGTATTGGTGCCCCATGgtgtggctataatctcctactgggggatagtgttcaacagaaaagggaga Alignment from Exonerate_coding2genome tcttggcccaggccagggctatttaaagctgcccctaacatttcccccaggttttccataggctttaccttttatggattagcacattgaccttggaagcaatatattcctcctccaatcgatcattgggattgtggattttccagtaaagacaggtagtttgctcctgatcacacacttgggccaacacctttgtcaggtcagttttttggtccctggactatgtatactttccaatgtattggtgccccatggtgtggctataatctcctactgggggatagtgttcaacagaaaagggaga Alignment from GeneWise GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCC-CTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG tcttggcccaggccagggctatttaaagctgcccctaacatttcccccagGTTTTCCATAGGCTTTACCTTTTATGGATTAGCACATTGACCTT---------GGAAGCAATATATTCCTCCTCCAATCGATCATTGGGATTGTGGATTTTCCAGTAAAGACAGGTAGTTTGCTCCTGATCACACACTTGGGCCAACACCTTTGTCAGGTCAGTTTTTTGGTC---CCTGGACTATGTATACTTTCCAATGTATTGGTGCCCCATGgtgtggctataatctcctactgggggatagtgttcaacagaaaagggaga #### Slc22a12_ID1791_6 --> 0 - 2 Original Alignment GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCAC-CGAACCATCATCTCCATGCTGTGCtg ctgggggagaaactcgaaatgaaaatgaaccactacccctctccctttagGTCCTATGGTCAGCTATGGACAAAGAACCAAGCAGGGACCAGGCCTGCGCCAGTCTTAGCACTTTACTCCACACACCTGGACTGCGTCACCCGTAGTATTATCTCTATGCTGTGTctgtatgatcatcactacaatggtttgcaagtaggagaagttccccagtcat Alignment from CESAR GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCAC-CGAACCATCATCTCCATGCTGTGCtg ctgggggagaaactcgaaatgaaaatgaaccactacccctctccctttagGTCCTATGGTCAGCTATGGACAAAGAACCAAGCAGGGACCAGGCCTGCGCCAGTCTTAGCACTTTACTCCACACACCTGGACTGCGTCACCCGTAGTATTATCTCTATGCTGTGTctgtatgatcatcactacaatggtttgcaagtaggagaagttccccagtcat Alignment from Spaln_aa2Genome GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCAC-CGAACCATCATCTCCATGCTGTGCTG ctgggggagaaactcgaaatgaaaatgaaccactacccctctccctttagGTCCTATGGTCAGCTATGGACAAAGAACCAAGCAGGGACCAGGCCTGCGCCAGTCTTAGCACTTTACTCCACACACCTGGACTGCGTCACcCGTAGTATTATCTCTATGCTGTGTCTgtatgatcatcactacaatggtttgcaagtaggagaagttccccagtcat Alignment from Spaln_nt2Genome GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACC-GAACCATCATCTCCATGCTGTGCTG ctgggggagaaactcgaaatgaaaatgaaccactacccctctccctttagGTCCTATGGTCAGCTATGGACAAAGAACCAAGCAGGGACCAGGCCTGCGCCAGTCTTAGCACTTTACTCCACACACCTGGACTGCGTCACCCGTAGTATTATCTCTATGCTGTGTCTgtatgatcatcactacaatggtttgcaagtaggagaagttccccagtcat Alignment from Pairagon GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACC-GAACCATCATCTCCATGCTGTGCTG ctgggggagaaactcgaaatgaaaatgaaccactacccctctccctttagGTCCTATGGTCAGCTATGGACAAAGAACCAAGCAGGGACCAGGCCTGCGCCAGTCTTAGCACTTTACTCCACACACCTGGACTGCGTCACCCGTAGTATTATCTCTATGCTGTGTCTgtatgatcatcactacaatggtttgcaagtaggagaagttccccagtcat Alignment from Exonerate_protein2genome GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCAC-CGAACCATCATCTCCATGCTGTGCTG ctgggggagaaactcgaaatgaaaatgaaccactacccctctccctttagGTCCTATGGTCAGCTATGGACAAAGAACCAAGCAGGGACCAGGCCTGCGCCAGTCTTAGCACTTTACTCCACACACCTGGACTGCGTCACCCGTAGTATTATCTCTATGCTGTGTCTgtatgatcatcactacaatggtttgcaagtaggagaagttccccagtcat Alignment from Exonerate_coding2genome ctgggggagaaactcgaaatgaaaatgaaccactacccctctccctttaggtcctatggtcagctatggacaaagaaccaagcagggaccaggcctgcgccagtcttagcactttactccacacacctggactgcgtcacccgtagtattatctctatgctgtgtctgtatgatcatcactacaatggtttgcaagtaggagaagttccccagtcat Alignment from GeneWise GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCAC-CGAACCATCATCTCCATGCTGTGCTG ctgggggagaaactcgaaatgaaaatgaaccactacccctctccctttagGTCCTATGGTCAGCTATGGACAAAGAACCAAGCAGGGACCAGGCCTGCGCCAGTCTTAGCACTTTACTCCACACACCTGGACTGCGTCACCCGTAGTATTATCTCTATGCTGTGTCTgtatgatcatcactacaatggtttgcaagtaggagaagttccccagtcat #### Slc22a20_ID1351_2 --> 0 - 2 Original Alignment TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAG-TCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACag tagtgaccacacaaccatagcgcagggaagaattgggctctgtgttccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCACTCTATCTATATGTCTGGAGTATCAGTTGGGGCTGCCTTGTTTGGTTGCGTAGCAGACaggtgagtaacttggatgggaacatctattcccttgctcttaattgtaattt Alignment from CESAR TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCT-CAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACag tagtgaccacacaaccatagcgcagggaagaattgggctctgtgttccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCACTCTATCTATATGTCTGGAGTATCAGTTGGGGCTGCCTTGTTTGGTTGCGTAGCAGACaggtgagtaacttggatgggaacatctattcccttgctcttaattgtaattt Alignment from Spaln_aa2Genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCT-CAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG tagtgaccacacaaccatagcgcagggaagaattgggctctgtgttccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCcCACTCTATCTATATGTCTGGAGTATCAGTTGGGGCTGCCTTGTTTGGTTGCGTAGCAGACAGgtgagtaacttggatgggaacatctattcccttgctcttaattgtaattt Alignment from Spaln_nt2Genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTC-AGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG tagtgaccacacaaccatagcgcagggaagaattgggctctgtgttccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCACTCTATCTATATGTCTGGAGTATCAGTTGGGGCTGCCTTGTTTGGTTGCGTAGCAGACAGgtgagtaacttggatgggaacatctattcccttgctcttaattgtaattt Alignment from Pairagon TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGG-CTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG tagtgaccacacaaccatagcgcagggaagaattgggctctgtgttccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCACTCTATCTATATGTCTGGAGTATCAGTTGGGGCTGCCTTGTTTGGTTGCGTAGCAGACAGgtgagtaacttggatgggaacatctattcccttgctcttaattgtaattt Alignment from Exonerate_protein2genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCT-CAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG tagtgaccacacaaccatagcgcagggaagaattgggctctgtgttccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCACTCTATCTATATGTCTGGAGTATCAGTTGGGGCTGCCTTGTTTGGTTGCGTAGCAGACAGgtgagtaacttggatgggaacatctattcccttgctcttaattgtaattt Alignment from Exonerate_coding2genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCT-CAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG tagtgaccacacaaccatagcgcagggaagaattgggctctgtgttccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCACTCTATCTATATGTCTGGAGTATCAGTTGGGGCTGCCTTGTTTGGTTGCGTAGCAGACAGgtgagtaacttggatgggaacatctattcccttgctcttaattgtaattt Alignment from GeneWise TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCT-CAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG tagtgaccacacaaccatagcgcagggaagaattgggctctgtgttccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCACTCTATCTATATGTCTGGAGTATCAGTTGGGGCTGCCTTGTTTGGTTGCGTAGCAGACAGgtgagtaacttggatgggaacatctattcccttgctcttaattgtaattt #### Slc22a6_ID2281_2 --> 0 - 2 Original Alignment TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGC-CAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATG---ATGTTTGGCTACCTGGCGGACag ggctactaaaattgacatatttcagagcgaccttcctgtttctcttgcagTGGAACCTT---TGCTCCCATAGAGCCTTTCACCCGATTGGCCCAGTCACTGTTCATGGTAGGAGTG---TTTGGTGCCATGATGTTGTTTGGTTACCTTTCAGATaggtgagctaacaagtattcatgcacatggaagatgaatccattttagccca Alignment from CESAR TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGC-CAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATG---TTTGGCTACCTGGCGGACag ggctactaaaattgacatatttcagagcgaccttcctgtttctcttgcagTGGAACCTT---TGCTCCCATAGAGCCTTTCACCCGATTGGCCCAGTCACTGTTCATGGTAGGAGTGTTT---GGTGCCATGATGTTGTTTGGTTACCTTTCAGATaggtgagctaacaagtattcatgcacatggaagatgaatccattttagccca Alignment from Spaln_aa2Genome TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGC-CAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATGTTTGGCTACCTGGCGGACAG ggctactaaaattgacatatttcagagcgaccttcctgtttctcttgcagTGGAACCTT---TGCTCCCATAGAGCCTTTCACcCGATTGGCCCAGTCACTGTTCATGGTAGGAGTGTTTGGTGCCATGATGTTGTTTGGTTACCTTTCAGATAGgtgagctaacaagtattcatgcacatggaagatgaatccattttagccca Alignment from Spaln_nt2Genome TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCT-GGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATGTT---TGGCTACCTGGCGGACAG ggctactaaaattgacatatttcagagcgaccttcctgtttctcttgcagTGGAACCTT---TGCTCCCATAGAGCCTTTCACCCGATTGGCCCAGTCACTGTTCATGGTAGGAGTGT---TTGGTGCCATGATGTTGTTTGGTTACCTTTCAGATAGgtgagctaacaagtattcatgcacatggaagatgaatccattttagccca Alignment from Pairagon TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAG-CTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGA---TGTTTGGCTACCTGGCGGACAG ggctactaaaattgacatatttcagagcgaccttcctgtttctcttgcagTGGAACCTT---TGCTCCCATAGAGCCTTTCACCCGATTGGCCCAGTCACTGTTCATGGTAGGAGTGT---TTGGTGCCATGATGTTGTTTGGTTACCTTTCAGATAGgtgagctaacaagtattcatgcacatggaagatgaatccattttagccca Alignment from Exonerate_protein2genome TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGC-CAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATGTTTGGCTACCTGGCGGACAG ggctactaaaattgacatatttcagagcgaccttcctgtttctcttgcagTGGAACCTT---TGCTCCCATAGAGCCTTTCACCCGATTGGCCCAGTCACTGTTCATGGTAGGAGTGTTTGGTGCCATGATGTTGTTTGGTTACCTTTCAGATAGgtgagctaacaagtattcatgcacatggaagatgaatccattttagccca Alignment from Exonerate_coding2genome ggctactaaaattgacatatttcagagcgaccttcctgtttctcttgcagtggaacctttgctcccatagagcctttcacccgattggcccagtcactgttcatggtaggagtgtttggtgccatgatgttgtttggttacctttcagataggtgagctaacaagtattcatgcacatggaagatgaatccattttagccca Alignment from GeneWise TGGAACCTTGTGTGCTCTCATCGGGCCTTC-CGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATGTTTGGCTACCTGGCGGACAG ggctactaaaattgacatatttcagagcgaccttcctgtttctcttgcagTGGAACCTT---TGCTCCCATAGAGCCTTTCACCCGATTGGCCCAGTCACTGTTCATGGTAGGAGTGTTTGGTGCCATGATGTTGTTTGGTTACCTTTCAGATAGgtgagctaacaagtattcatgcacatggaagatgaatccattttagccca #### Slc22a8_ID2275_8 --> 2 - 2 Original Alignment aaATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTC-AGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCag tgtcccttagcaaatttacatgcaaaggctaatccagttctgtgtttcagaaATGGAGATAGTGAGGACAGCGCTAGCTGTGTTTGGCATGGGATGCTTATCTGGCGCCTTTCAGCTGCCTCTTCTTTTACACTAGTGAGCTCTACCCCAGAGTTCTCaggtactgagtgtactttgggttaggagaccacttaaagagttgaattctca Alignment from CESAR aaATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCC-TTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCag tgtcccttagcaaatttacatgcaaaggctaatccagttctgtgtttcagaaATGGAGATAGTGAGGACAGCGCTAGCTGTGTTTGGCATGGGATGCTTATCTGGCGCCTTTCAGCTGCCTCTTCTTTTACACTAGTGAGCTCTACCCCAGAGTTCTCaggtactgagtgtactttgggttaggagaccacttaaagagttgaattctca Alignment from Spaln_aa2Genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCC-TTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tgtcccttagcaaatttacatgcaaaggctaatccagttctgtgtttcagAAATGGAGATAGTGAGGACAGCGCTAGCTGTGTTTGGCATGGGATGCTTATCTGGCGCCtTTCAGCTGCCTCTTCTTTTACACTAGTGAGCTCTACCCCAGAGTTCTCAGgtactgagtgtactttgggttaggagaccacttaaagagttgaattctca Alignment from Spaln_nt2Genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTT-CAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tgtcccttagcaaatttacatgcaaaggctaatccagttctgtgtttcagAAATGGAGATAGTGAGGACAGCGCTAGCTGTGTTTGGCATGGGATGCTTATCTGGCGCCTTTCAGCTGCCTCTTCTTTTACACTAGTGAGCTCTACCCCAGAGTTCTCAGgtactgagtgtactttgggttaggagaccacttaaagagttgaattctca Alignment from Pairagon AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCC-TTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tgtcccttagcaaatttacatgcaaaggctaatccagttctgtgtttcagAAATGGAGATAGTGAGGACAGCGCTAGCTGTGTTTGGCATGGGATGCTTATCTGGCGCCTTTCAGCTGCCTCTTCTTTTACACTAGTGAGCTCTACCCCAGAGTTCTCAGgtactgagtgtactttgggttaggagaccacttaaagagttgaattctca Alignment from Exonerate_protein2genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCC-TTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tgtcccttagcaaatttacatgcaaaggctaatccagttctgtgtttcagAAATGGAGATAGTGAGGACAGCGCTAGCTGTGTTTGGCATGGGATGCTTATCTGGCGCCTTTCAGCTGCCTCTTCTTTTACACTAGTGAGCTCTACCCCAGAGTTCTCAGgtactgagtgtactttgggttaggagaccacttaaagagttgaattctca Alignment from Exonerate_coding2genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCC-TTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tgtcccttagcaaatttacatgcaaaggctaatccagttctgtgtttcagAAATGGAGATAGTGAGGACAGCGCTAGCTGTGTTTGGCATGGGATGCTTATCTGGCGCCTTTCAGCTGCCTCTTCTTTTACACTAGTGAGCTCTACCCCAGAGTTCTCAGgtactgagtgtactttgggttaggagaccacttaaagagttgaattctca Alignment from GeneWise ---GTGTCTTCAGAAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGC-TCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tgtcccttagcaaatttacatgcaaaggctaatccagTTCTGTGTTTCAGAAATGGAGATAGTGAGGACAGCGCTAGCTGTGTTTGGCATGGGATGCTTATCTGGCGCCTTTCAGCTGCCTCTTCTTTTACACTAGTGAGCTCTACCCCAGAGTTCTCAGgtactgagtgtactttgggttaggagaccacttaaagagttgaattctca #### Slc22a8_ID2276_9 --> 1 - 2 Original Alignment gCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAG-CCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACtg aagttcagtatgagtggaccagactctctttggcctcgggctccgggtaggCAAACAGGCATGGGTATCAGTAATATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGTGAACTGCAGCTCCTTCACTCCTAATGTCATCTTTGGTACCATG---CTACTGGGAGGCAGTGCTGCATTCTTTCTACTTGAAACCCTAAATAGATCTCTACCAGAGACCATCAAGGACATACAAGATtggtgagttcccttagccccttaacttttgttacacacagttaacctagcag Alignment from CESAR gCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAG-CCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACtg aagttcagtatgagtggaccagactctctttggcctcgggctccgggtaggCAAACAGGCATGGGTATCAGTAATATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGTGAACTGCAGCTCCTTCACTCCTAATGTCATCTTTGGTACCATG---CTACTGGGAGGCAGTGCTGCATTCTTTCTACTTGAAACCCTAAATAGATCTCTACCAGAGACCATCAAGGACATACAAGATtggtgagttcccttagccccttaacttttgttacacacagttaacctagcag Alignment from Spaln_aa2Genome GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAG-CCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG aagttcagtatgagtggaccagactctctttggcctcgggctccgggtagGCAAACAGGCATGGGTATCAGTAATATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGTGAACTGCAGcTCCTTCACTCCTAATGTCATCTTTGGTACCATG---CTACTGGGAGGCAGTGCTGCATTCTTTCTACTTGAAACCCTAAATAGATCTCTACCAGAGACCATCAAGGACATACAAGATTGgtgagttcccttagccccttaacttttgttacacacagttaacctagcag Alignment from Spaln_nt2Genome GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGC-CCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG aagttcagtatgagtggaccagactctctttggcctcgggctccgggtagGCAAACAGGCATGGGTATCAGTAATATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGTGAACTGCAGCTCCTTCACTCCTAATGTCATCTTTGGTACCATG---CTACTGGGAGGCAGTGCTGCATTCTTTCTACTTGAAACCCTAAATAGATCTCTACCAGAGACCATCAAGGACATACAAGATTGgtgagttcccttagccccttaacttttgttacacacagttaacctagcag Alignment from Pairagon GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGC-CCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG aagttcagtatgagtggaccagactctctttggcctcgggctccgggtagGCAAACAGGCATGGGTATCAGTAATATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGTGAACTGCAGCTCCTTCACTCCTAATGTCATCTTTGGTACCATG---CTACTGGGAGGCAGTGCTGCATTCTTTCTACTTGAAACCCTAAATAGATCTCTACCAGAGACCATCAAGGACATACAAGATTGgtgagttcccttagccccttaacttttgttacacacagttaacctagcag Alignment from Exonerate_protein2genome GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAG-CCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG aagttcagtatgagtggaccagactctctttggcctcgggctccgggtagGCAAACAGGCATGGGTATCAGTAATATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGTGAACTGCAGCTCCTTCACTCCTAATGTCATCTTTGGTACCATG---CTACTGGGAGGCAGTGCTGCATTCTTTCTACTTGAAACCCTAAATAGATCTCTACCAGAGACCATCAAGGACATACAAGATTGgtgagttcccttagccccttaacttttgttacacacagttaacctagcag Alignment from Exonerate_coding2genome GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAG-CCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG aagttcagtatgagtggaccagactctctttggcctcgggctccgggtagGCAAACAGGCATGGGTATCAGTAATATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGTGAACTGCAGCTCCTTCACTCCTAATGTCATCTTTGGTACCATG---CTACTGGGAGGCAGTGCTGCATTCTTTCTACTTGAAACCCTAAATAGATCTCTACCAGAGACCATCAAGGACATACAAGATTGgtgagttcccttagccccttaacttttgttacacacagttaacctagcag Alignment from GeneWise GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAG-CCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG aagttcagtatgagtggaccagactctctttggcctcgggctccgggtagGCAAACAGGCATGGGTATCAGTAATATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGTGAACTGCAGCTCCTTCACTCCTAATGTCATCTTTGGTACCATG---CTACTGGGAGGCAGTGCTGCATTCTTTCTACTTGAAACCCTAAATAGATCTCTACCAGAGACCATCAAGGACATACAAGATTGgtgagttcccttagccccttaacttttgttacacacagttaacctagcag #### Slc25a28_ID8782_3 --> 2 - 1 Original Alignment gtGCAGCCGGATGTGTGGCGACATTACTTCAT-GATGCAGCCATGAATCCAGCGGAAg atcagtgtttagacaacatgttgtctggctgacccagacttcttttacaggtGCAGCTGGATGTGTAGCAACACTGCTGCATCGATGCTGCAATGAATCCAGCAGAAggtgggcctccacttgccgtgtcgacctgcttgtagcctctaagcctaaca Alignment from CESAR gtGCAGCCGGATGTGTGGCGACATTACTTCAT-GATGCAGCCATGAATCCAGCGGAAg atcagtgtttagacaacatgttgtctggctgacccagacttcttttacaggtGCAGCTGGATGTGTAGCAACACTGCTGCATCGATGCTGCAATGAATCCAGCAGAAggtgggcctccacttgccgtgtcgacctgcttgtagcctctaagcctaaca Alignment from Spaln_aa2Genome GTGCAGCCGGATGTGTGGCGACATTACTTCAT-GATGCAGCCATGAATCCAGCGGAAG atcagtgtttagacaacatgttgtctggctgacccagacttcttttacagGTGCAGCTGGATGTGTAGCAACACTGCTGCATcGATGCTGCAATGAATCCAGCAGAAGgtgggcctccacttgccgtgtcgacctgcttgtagcctctaagcctaaca Alignment from Spaln_nt2Genome GTGCAGCCGGATGTGTGGCGACATTACTTCAT-GATGCAGCCATGAATCCAGCGGAAG atcagtgtttagacaacatgttgtctggctgacccagacttcttttacagGTGCAGCTGGATGTGTAGCAACACTGCTGCATCGATGCTGCAATGAATCCAGCAGAAGgtgggcctccacttgccgtgtcgacctgcttgtagcctctaagcctaaca Alignment from Pairagon GTGCAGCCGGATGTGTGGCGACATTACTTCAT-GATGCAGCCATGAATCCAGCGGAAG atcagtgtttagacaacatgttgtctggctgacccagacttcttttacagGTGCAGCTGGATGTGTAGCAACACTGCTGCATCGATGCTGCAATGAATCCAGCAGAAGgtgggcctccacttgccgtgtcgacctgcttgtagcctctaagcctaaca Alignment from Exonerate_protein2genome GTGCAGCCGGATGTGTGGCGACATTACTTCAT-GATGCAGCCATGAATCCAGCGGAAG atcagtgtttagacaacatgttgtctggctgacccagacttcttttacagGTGCAGCTGGATGTGTAGCAACACTGCTGCATCGATGCTGCAATGAATCCAGCAGAAGgtgggcctccacttgccgtgtcgacctgcttgtagcctctaagcctaaca Alignment from Exonerate_coding2genome atcagtgtttagacaacatgttgtctggctgacccagacttcttttacaggtgcagctggatgtgtagcaacactgctgcatcgatgctgcaatgaatccagcagaaggtgggcctccacttgccgtgtcgacctgcttgtagcctctaagcctaaca Alignment from GeneWise GTGCAGCCGGATGTGTGGCGACATTACTTCAT-GATGCAGCCATGAATCCAGCGGAAG atcagtgtttagacaacatgttgtctggctgacccagacttcttttacagGTGCAGCTGGATGTGTAGCAACACTGCTGCATCGATGCTGCAATGAATCCAGCAGAAGgtgggcctccacttgccgtgtcgacctgcttgtagcctctaagcctaaca #### Slc25a45_ID1292_3 --> 0 - 0 Original Alignment GTGCGGTTACAGACCCAAAGCACGTACCAGGGC-ATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgacttaaccattatgggagcactgctcttatttcctcggttcttttcagGTGCGCTTACAAACCCAAAGCACATATCAGGGCCATTGTTGACTGTGTTGCTAAGACATATCGGCATCAATCAgtcagtcccatccttgctataacactatttttgcccttaagagtgtctga Alignment from CESAR GTGCGGTTACAGACCCAAAGCACGTACCAGGGC-ATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgacttaaccattatgggagcactgctcttatttcctcggttcttttcagGTGCGCTTACAAACCCAAAGCACATATCAGGGCCATTGTTGACTGTGTTGCTAAGACATATCGGCATCAATCAgtcagtcccatccttgctataacactatttttgcccttaagagtgtctga Alignment from Spaln_aa2Genome GTGCGGTTACAGACCCAAAGCACGTACCAGGGC-ATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgacttaaccattatgggagcactgctcttatttcctcggttcttttcagGTGCGCTTACAAACCCAAAGCACATATCAGGGCcATTGTTGACTGTGTTGCTAAGACATATCGGCATCAATCAgtcagtcccatccttgctataacactatttttgcccttaagagtgtctga Alignment from Spaln_nt2Genome GTGCGGTTACAGACCCAAAGCACGTACCAGGGC-ATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgacttaaccattatgggagcactgctcttatttcctcggttcttttcagGTGCGCTTACAAACCCAAAGCACATATCAGGGCCATTGTTGACTGTGTTGCTAAGACATATCGGCATCAATCAgtcagtcccatccttgctataacactatttttgcccttaagagtgtctga Alignment from Pairagon GTGCGGTTACAGACCCAAAGCACGTACCAGGG-CATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgacttaaccattatgggagcactgctcttatttcctcggttcttttcagGTGCGCTTACAAACCCAAAGCACATATCAGGGCCATTGTTGACTGTGTTGCTAAGACATATCGGCATCAATCAgtcagtcccatccttgctataacactatttttgcccttaagagtgtctga Alignment from Exonerate_protein2genome GTGCGGTTACAGACCCAAAGCACGTACCAGGGC-ATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgacttaaccattatgggagcactgctcttatttcctcggttcttttcagGTGCGCTTACAAACCCAAAGCACATATCAGGGCCATTGTTGACTGTGTTGCTAAGACATATCGGCATCAATCAgtcagtcccatccttgctataacactatttttgcccttaagagtgtctga Alignment from Exonerate_coding2genome tgacttaaccattatgggagcactgctcttatttcctcggttcttttcaggtgcgcttacaaacccaaagcacatatcagggccattgttgactgtgttgctaagacatatcggcatcaatcagtcagtcccatccttgctataacactatttttgcccttaagagtgtctga Alignment from GeneWise GTGCGGTTACAGACCCAAAGCACGTACCAGGGC-ATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgacttaaccattatgggagcactgctcttatttcctcggttcttttcagGTGCGCTTACAAACCCAAAGCACATATCAGGGCCATTGTTGACTGTGTTGCTAAGACATATCGGCATCAATCAgtcagtcccatccttgctataacactatttttgcccttaagagtgtctga #### Slc29a2_ID789_3 --> 0 - 2 Original Alignment TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGC-ACCAACCACACCAGTCCCACAGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAG---tg tgggggttactcttgagaagctccctgtgcaccccacccgtcttcctcagTATCTCCGGGGACAGTTGGCGGGTACTAACAGCAGTGCTGACACCATCAGCCAAAAACCACACCAGCCCTACTGATGCATCAAATGTCAACAATTGGGTGACACTGCTATCGCAGTTGCCTCTATTGTTGTTCACACTGCTCAACTCCTTCCTGTATCAGTGGtggtaagcaccacatagagtcaatccctcaacaaccattatcagacacctct Alignment from CESAR TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGC-ACCAACCACACCAGTCCCACAGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAG---tg tgggggttactcttgagaagctccctgtgcaccccacccgtcttcctcagTATCTCCGGGGACAGTTGGCGGGTACTAACAGCAGTGCTGACACCATCAGCCAAAAACCACACCAGCCCTACTGATGCATCAAATGTCAACAATTGGGTGACACTGCTATCGCAGTTGCCTCTATTGTTGTTCACACTGCTCAACTCCTTCCTGTATCAGTGGtggtaagcaccacatagagtcaatccctcaacaaccattatcagacacctct Alignment from Spaln_aa2Genome TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATG-GGCACCAACCACACCAGTCCCACAGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAGTG tgggggttactcttgagaagctccctgtgcaccccacccgtcttcctcagTATCTCCGGGGACAGTTGGCGGGTACTAACAGCAGTGCTGACACCATCaGCCAAAAACCACACCAGCCCTACTGATGCATCAAATGTCAACAATTGGGTGACACTGCTATCGCAGTTGCCTCTATTGTTGTTCACACTGCTCAACTCCTTCCTGTATCAGTGgtggtaagcaccacatagagtcaatccctcaacaaccattatcagacacctct Alignment from Spaln_nt2Genome TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGC-ACCAACCACACCAGTCCCACAGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAGTG tgggggttactcttgagaagctccctgtgcaccccacccgtcttcctcagTATCTCCGGGGACAGTTGGCGGGTACTAACAGCAGTGCTGACACCATCAGCCAAAAACCACACCAGCCCTACTGATGCATCAAATGTCAACAATTGGGTGACACTGCTATCGCAGTTGCCTCTATTGTTGTTCACACTGCTCAACTCCTTCCTGTATCAGTGgtggtaagcaccacatagagtcaatccctcaacaaccattatcagacacctct Alignment from Pairagon TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCAT-GGGCACCAACCACACCAGTCCCACAGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAGTG tgggggttactcttgagaagctccctgtgcaccccacccgtcttcctcagTATCTCCGGGGACAGTTGGCGGGTACTAACAGCAGTGCTGACACCATCAGCCAAAAACCACACCAGCCCTACTGATGCATCAAATGTCAACAATTGGGTGACACTGCTATCGCAGTTGCCTCTATTGTTGTTCACACTGCTCAACTCCTTCCTGTATCAGTGgtggtaagcaccacatagagtcaatccctcaacaaccattatcagacacctct Alignment from Exonerate_protein2genome TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATG-GGCACCAACCACACCAGTCCCACAGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAGTG tgggggttactcttgagaagctccctgtgcaccccacccgtcttcctcagTATCTCCGGGGACAGTTGGCGGGTACTAACAGCAGTGCTGACACCATCAGCCAAAAACCACACCAGCCCTACTGATGCATCAAATGTCAACAATTGGGTGACACTGCTATCGCAGTTGCCTCTATTGTTGTTCACACTGCTCAACTCCTTCCTGTATCAGTGgtggtaagcaccacatagagtcaatccctcaacaaccattatcagacacctct Alignment from Exonerate_coding2genome tgggggttactcttgagaagctccctgtgcaccccacccgtcttcctcagtatctccggggacagttggcgggtactaacagcagtgctgacaccatcagccaaaaaccacaccagccctactgatgcatcaaatgtcaacaattgggtgacactgctatcgcagttgcctctattgttgttcacactgctcaactccttcctgtatcagtggtggtaagcaccacatagagtcaatccctcaacaaccattatcagacacctct Alignment from GeneWise TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGC-ACCAACCACACCAGTCCCACAGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAGTG tgggggttactcttgagaagctccctgtgcaccccacccgtcttcctcagTATCTCCGGGGACAGTTGGCGGGTACTAACAGCAGTGCTGACACCATCAGCCAAAAACCACACCAGCCCTACTGATGCATCAAATGTCAACAATTGGGTGACACTGCTATCGCAGTTGCCTCTATTGTTGTTCACACTGCTCAACTCCTTCCTGTATCAGTGgtggtaagcaccacatagagtcaatccctcaacaaccattatcagacacctct #### Slc29a2_ID792_6 --> 2 - 0 Original Alignment gtGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACA-CCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacaaacaaagctggaatgggagacttaatgttttcttccttattacaggtGACGTGGATGCCCAAACCTCTGCTCTGGGATACTTCATCACACCCTTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCTTGCCACACCTGgtgagctgcttcatagtttatgttatgctatgcactgcttgaatataaaa Alignment from CESAR gtGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCC-TGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacaaacaaagctggaatgggagacttaatgttttcttccttattacaggtGACGTGGATGCCCAAACCTCTGCTCTGGGATACTTCATCACACCCTTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCTTGCCACACCTGgtgagctgcttcatagtttatgttatgctatgcactgcttgaatataaaa Alignment from Spaln_aa2Genome GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCC-TGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacaaacaaagctggaatgggagacttaatgttttcttccttattacagGTGACGTGGATGCCCAAACCTCTGCTCTGGGATACTTCATCACACCCtTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCTTGCCACACCTGgtgagctgcttcatagtttatgttatgctatgcactgcttgaatataaaa Alignment from Spaln_nt2Genome GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCC-TGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacaaacaaagctggaatgggagacttaatgttttcttccttattacagGTGACGTGGATGCCCAAACCTCTGCTCTGGGATACTTCATCACACCCTTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCTTGCCACACCTGgtgagctgcttcatagtttatgttatgctatgcactgcttgaatataaaa Alignment from Pairagon GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCC-TGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacaaacaaagctggaatgggagacttaatgttttcttccttattacagGTGACGTGGATGCCCAAACCTCTGCTCTGGGATACTTCATCACACCCTTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCTTGCCACACCTGgtgagctgcttcatagtttatgttatgctatgcactgcttgaatataaaa Alignment from Exonerate_protein2genome GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACA-CCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacaaacaaagctggaatgggagacttaatgttttcttccttattacagGTGACGTGGATGCCCAAACCTCTGCTCTGGGATACTTCATCACACCCTTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCTTGCCACACCTGgtgagctgcttcatagtttatgttatgctatgcactgcttgaatataaaa Alignment from Exonerate_coding2genome GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACA-CCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacaaacaaagctggaatgggagacttaatgttttcttccttattacagGTGACGTGGATGCCCAAACCTCTGCTCTGGGATACTTCATCACACCCTTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCTTGCCACACCTGgtgagctgcttcatagtttatgttatgctatgcactgcttgaatataaaa Alignment from GeneWise GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATC-ACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacaaacaaagctggaatgggagacttaatgttttcttccttattacagGTGACGTGGATGCCCAAACCTCTGCTCTGGGATACTTCATCACACCCTTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCTTGCCACACCTGgtgagctgcttcatagtttatgttatgctatgcactgcttgaatataaaa #### Slc29a2_ID794_8 --> 2 - 0 Original Alignment atGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACT-CTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatgaaaatctttaaagccataatgtccttttccctctcctttcccagatGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCCAGCCCAACTCCTTGAGCTGGACCCTGAAACGGAGCCAGAACCAGAGCAGCCACAGAAGCCAGGCAAACCCTCAGTCTTTGTGGTTTTCAGGAAAgtaagttatcatgtacagccaggggtgggagcagtgggttgtttgacatg Alignment from CESAR atGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACT-CTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatgaaaatctttaaagccataatgtccttttccctctcctttcccagatGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCCAGCCCAACTCCTTGAGCTGGACCCTGAAACGGAGCCAGAACCAGAGCAGCCACAGAAGCCAGGCAAACCCTCAGTCTTTGTGGTTTTCAGGAAAgtaagttatcatgtacagccaggggtgggagcagtgggttgtttgacatg Alignment from Spaln_aa2Genome ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACT-CTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatgaaaatctttaaagccataatgtccttttccctctcctttcccagATGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCCAGCCCAACTcCTTGAGCTGGACCCTGAAACGGAGCCAGAACCAGAGCAGCCACAGAAGCCAGGCAAACCCTCAGTCTTTGTGGTTTTCAGGAAAgtaagttatcatgtacagccaggggtgggagcagtgggttgtttgacatg Alignment from Spaln_nt2Genome ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTC-TGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatgaaaatctttaaagccataatgtccttttccctctcctttcccagATGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCCAGCCCAACTCCTTGAGCTGGACCCTGAAACGGAGCCAGAACCAGAGCAGCCACAGAAGCCAGGCAAACCCTCAGTCTTTGTGGTTTTCAGGAAAgtaagttatcatgtacagccaggggtgggagcagtgggttgtttgacatg Alignment from Pairagon ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACT-CTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatgaaaatctttaaagccataatgtccttttccctctcctttcccagATGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCCAGCCCAACTCCTTGAGCTGGACCCTGAAACGGAGCCAGAACCAGAGCAGCCACAGAAGCCAGGCAAACCCTCAGTCTTTGTGGTTTTCAGGAAAgtaagttatcatgtacagccaggggtgggagcagtgggttgtttgacatg Alignment from Exonerate_protein2genome ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACT-CTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatgaaaatctttaaagccataatgtccttttccctctcctttcccagATGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCCAGCCCAACTCCTTGAGCTGGACCCTGAAACGGAGCCAGAACCAGAGCAGCCACAGAAGCCAGGCAAACCCTCAGTCTTTGTGGTTTTCAGGAAAgtaagttatcatgtacagccaggggtgggagcagtgggttgtttgacatg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACT-CTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatgaaaatctttaaagccataatgtccttttccctctcctttcccagATGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCCAGCCCAACTCCTTGAGCTGGACCCTGAAACGGAGCCAGAACCAGAGCAGCCACAGAAGCCAGGCAAACCCTCAGTCTTTGTGGTTTTCAGGAAAgtaagttatcatgtacagccaggggtgggagcagtgggttgtttgacatg #### Slc29a2_ID795_9 --> 0 - 1 Original Alignment ATCTGGCTGACGGCGCTGTGCCTT-GTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGg tgacatgaatacttcagtgactatccagtcccacgtctgctctaccttagATCTGGCTGACAGCGCTGTGCCTTCGTGTTAGTCTTCACAGTTACCCTATCTGTTTTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGggtaagtactggtgatagttcacagcatggaacagaggagccagactgcat Alignment from CESAR ATCTGGCTGACGGCGCTGTGCCTT-GTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGg tgacatgaatacttcagtgactatccagtcccacgtctgctctaccttagATCTGGCTGACAGCGCTGTGCCTTCGTGTTAGTCTTCACAGTTACCCTATCTGTTTTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGggtaagtactggtgatagttcacagcatggaacagaggagccagtcttgta Alignment from Spaln_aa2Genome ATCTGGCTGACGGCGCTGTGCCTT-GTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG tgacatgaatacttcagtgactatccagtcccacgtctgctctaccttagATCTGGCTGACAGCGCTGTGCCTTcGTGTTAGTCTTCACAGTTACCCTATCTGTTTTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtaagtactggtgatagttcacagcatggaacagaggagccagactgcat Alignment from Spaln_nt2Genome ATCTGGCTGACGGCGCTGTGCCTT-GTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG tgacatgaatacttcagtgactatccagtcccacgtctgctctaccttagATCTGGCTGACAGCGCTGTGCCTTCGTGTTAGTCTTCACAGTTACCCTATCTGTTTTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtaagtactggtgatagttcacagcatggaacagaggagccagactgcat Alignment from Pairagon ATCTGGCTGACGGCGCTGTGCCTT-GTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG tgacatgaatacttcagtgactatccagtcccacgtctgctctaccttagATCTGGCTGACAGCGCTGTGCCTTCGTGTTAGTCTTCACAGTTACCCTATCTGTTTTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtaagtactggtgatagttcacagcatggaacagaggagccagactgcat Alignment from Exonerate_protein2genome ATCTGGCTGACGGCGCTGTGCCTT-GTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG tgacatgaatacttcagtgactatccagtcccacgtctgctctaccttagATCTGGCTGACAGCGCTGTGCCTTCGTGTTAGTCTTCACAGTTACCCTATCTGTTTTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtaagtactggtgatagttcacagcatggaacagaggagccagactgcat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATCTGGCTGACGGCGCTGTGCCTT-GTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG tgacatgaatacttcagtgactatccagtcccacgtctgctctaccttagATCTGGCTGACAGCGCTGTGCCTTCGTGTTAGTCTTCACAGTTACCCTATCTGTTTTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtaagtactggtgatagttcacagcatggaacagaggagccagactgcat #### Slit1_ID8232_7 --> 1 - 2 Original Alignment gACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGT-TTCAACCATATGCCCAAGCTTCGGACCtt tagccccttttaggcatgggtggccaggattttagtgctttgtttcttagtCCATTCAATAATAATAACATCAGTGCTATCCCC------CGTCTTCAATCATATCCCTAAGCTCCACACTttgtcagttgtcttgactattggtgtgtcaccttgactatggataaggcaga Alignment from CESAR gACCCTGAACAACAACAACATCACCACCATCCCT-GTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCtt tagccccttttaggcatgggtggccaggattttagtgctttgtttcttagtCCATTCAATAATAATAACATCAGTGCTATCCCCCGTC------TTCAATCATATCCCTAAGCTCCACACTttgtcagttgtcttgactattggtgtgtcaccttgactatggataaggcaga Alignment from Spaln_aa2Genome GACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCTT tagccccttttaggcatgggtggccaggattttagtgctttgtttcttagTCCATTCAATAATAATAACATCAGTGCTATCCCCC-----GTCTTCAATCATATCCCTAAGCTCCACACTTTgtcagttgtcttgactattggtgtgtcaccttgactatggataaggcaga Alignment from Spaln_nt2Genome GACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCTT tagccccttttaggcatgggtggccaggattttagtgctttgtttcttagTCCATTCAATAATAATAACATCAGTGCTATCCC-----CCGTCTTCAATCATATCCCTAAGCTCCACACTTTgtcagttgtcttgactattggtgtgtcaccttgactatggataaggcaga Alignment from Pairagon tagccccttttaggcatgggtggccaggattttagtgctttgtttcttagtccattcaataataataacatcagtgctatcccccgtcttcaatcatatccctaagctccacactttgtcagttgtcttgactattggtgtgtcaccttgactatggataaggcaga Alignment from Exonerate_protein2genome GACCCTGAACAACAACAACATCACCACCATC-CCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCTT tagccccttttaggcatgggtggccaggattttagtgctttgtttcttagTCCATTCAATAATAATAACATCAGTGCTATCCCCCGTC------TTCAATCATATCCCTAAGCTCCACACTTTgtcagttgtcttgactattggtgtgtcaccttgactatggataaggcaga Alignment from Exonerate_coding2genome tagccccttttaggcatgggtggccaggattttagtgctttgtttcttagtccattcaataataataacatcagtgctatcccccgtcttcaatcatatccctaagctccacactttgtcagttgtcttgactattggtgtgtcaccttgactatggataaggcaga Alignment from GeneWise tagccccttttaggcatgggtggccaggattttagtgctttgtttcttagtccattcaataataataacatcagtgctatcccccgtcttcaatcatatccctaagctccacactttgtcagttgtcttgactattggtgtgtcaccttgactatggataaggcaga #### Slk_ID10265_17 --> 0 - 0 Original Alignment TTTGCTGCACAAGAAGAAAAGAGACAG-AAAAATGAGAGAATGGCTCAGCATCAAAAACATGAGAGCCAAATGCGGGATCTTCAGTTGCAGTGTGAAGCCAATGTTCGGGAACTGCACCAGCTGCAG cactgtagagggaagatatgtttctgtatcttttatgtgtttccttgcagTTTGCTGCACAAGACAAAAAGCGAAAACAAAAATGAAAGGATGTCTCAACATCAAAAGCATGAAAGCCATATGCGGGATCTTCAGCTGCAATGTGAAGCTAATGTGCAGGAATTACATCAGTTGCCAgtaagatttctaaaactggagtgacaggaagtgcatttgtattgtttaga Alignment from CESAR TTTGCTGCACAAGAAGAAAAGAGACAG-AAAAATGAGAGAATGGCTCAGCATCAAAAACATGAGAGCCAAATGCGGGATCTTCAGTTGCAGTGTGAAGCCAATGTTCGGGAACTGCACCAGCTGCAG cactgtagagggaagatatgtttctgtatcttttatgtgtttccttgcagTTTGCTGCACAAGACAAAAAGCGAAAACAAAAATGAAAGGATGTCTCAACATCAAAAGCATGAAAGCCATATGCGGGATCTTCAGCTGCAATGTGAAGCTAATGTGCAGGAATTACATCAGTTGCCAgtaagatttctaaaactggagtgacaggaagtgcatttgtattgtttaga Alignment from Spaln_aa2Genome TTTGCTGCACAAGAAGAAAAGAGACAG-AAAAATGAGAGAATGGCTCAGCATCAAAAACATGAGAGCCAAATGCGGGATCTTCAGTTGCAGTGTGAAGCCAATGTTCGGGAACTGCACCAGCTGCAG cactgtagagggaagatatgtttctgtatcttttatgtgtttccttgcagTTTGCTGCACAAGACAAAAAGCGAAAAcAAAAATGAAAGGATGTCTCAACATCAAAAGCATGAAAGCCATATGCGGGATCTTCAGCTGCAATGTGAAGCTAATGTGCAGGAATTACATCAGTTGCCAgtaagatttctaaaactggagtgacaggaagtgcatttgtattgtttaga Alignment from Spaln_nt2Genome TTTGCTGCACAAGAAGAAAAGAGACAG-AAAAATGAGAGAATGGCTCAGCATCAAAAACATGAGAGCCAAATGCGGGATCTTCAGTTGCAGTGTGAAGCCAATGTTCGGGAACTGCACCAGCTGCAG cactgtagagggaagatatgtttctgtatcttttatgtgtttccttgcagTTTGCTGCACAAGACAAAAAGCGAAAACAAAAATGAAAGGATGTCTCAACATCAAAAGCATGAAAGCCATATGCGGGATCTTCAGCTGCAATGTGAAGCTAATGTGCAGGAATTACATCAGTTGCCAgtaagatttctaaaactggagtgacaggaagtgcatttgtattgtttaga Alignment from Pairagon TTTGCTGCACAAGAAGAAAAGAGACAG-AAAAATGAGAGAATGGCTCAGCATCAAAAACATGAGAGCCAAATGCGGGATCTTCAGTTGCAGTGTGAAGCCAATGTTCGGGAACTGCACCAGCTGCAG cactgtagagggaagatatgtttctgtatcttttatgtgtttccttgcagTTTGCTGCACAAGACAAAAAGCGAAAACAAAAATGAAAGGATGTCTCAACATCAAAAGCATGAAAGCCATATGCGGGATCTTCAGCTGCAATGTGAAGCTAATGTGCAGGAATTACATCAGTTGCCAgtaagatttctaaaactggagtgacaggaagtgcatttgtattgtttaga Alignment from Exonerate_protein2genome TTTGCTGCACAAGAAGAAAAGAGACAG-AAAAATGAGAGAATGGCTCAGCATCAAAAACATGAGAGCCAAATGCGGGATCTTCAGTTGCAGTGTGAAGCCAATGTTCGGGAACTGCACCAGCTGCAG cactgtagagggaagatatgtttctgtatcttttatgtgtttccttgcagTTTGCTGCACAAGACAAAAAGCGAAAACAAAAATGAAAGGATGTCTCAACATCAAAAGCATGAAAGCCATATGCGGGATCTTCAGCTGCAATGTGAAGCTAATGTGCAGGAATTACATCAGTTGCCAgtaagatttctaaaactggagtgacaggaagtgcatttgtattgtttaga Alignment from Exonerate_coding2genome TTTGCTGCACAAGAAGAAAAGAGACAG-AAAAATGAGAGAATGGCTCAGCATCAAAAACATGAGAGCCAAATGCGGGATCTTCAGTTGCAGTGTGAAGCCAATGTTCGGGAACTGCACCAGCTGCAG cactgtagagggaagatatgtttctgtatcttttatgtgtttccttgcagTTTGCTGCACAAGACAAAAAGCGAAAACAAAAATGAAAGGATGTCTCAACATCAAAAGCATGAAAGCCATATGCGGGATCTTCAGCTGCAATGTGAAGCTAATGTGCAGGAATTACATCAGTTGCCAgtaagatttctaaaactggagtgacaggaagtgcatttgtattgtttaga Alignment from GeneWise TTTGCTGCACAAGAAGAAAAGAGA-CAGAAAAATGAGAGAATGGCTCAGCATCAAAAACATGAGAGCCAAATGCGGGATCTTCAGTTGCAGTGTGAAGCCAATGTTCGGGAACTGCACCAGCTGCAG cactgtagagggaagatatgtttctgtatcttttatgtgtttccttgcagTTTGCTGCACAAGACAAAAAGCGAAAACAAAAATGAAAGGATGTCTCAACATCAAAAGCATGAAAGCCATATGCGGGATCTTCAGCTGCAATGTGAAGCTAATGTGCAGGAATTACATCAGTTGCCAgtaagatttctaaaactggagtgacaggaagtgcatttgtattgtttaga #### Smarca2_ID5734_15 --> 1 - 0 Original Alignment gACTCTGTCTAAC-TGGACATATGAATTTGACAAATGGGCTCCTTCTGTGGTGAAAATTTCTTACAAG atgtattatgtctgctagttttttaacagcttgtattgaacttgtcccaggAGCTTATTTAATCTGGACATATGAGTTTGACAGATGGGCCCCTACAGTGGTGAAAATTGCTTACAAGgtaaggatcacatgctataacacatgcgaaagagggcttgtttaggttat Alignment from CESAR gACTCTGTCTAAC-TGGACATATGAATTTGACAAATGGGCTCCTTCTGTGGTGAAAATTTCTTACAAG atgtattatgtctgctagttttttaacagcttgtattgaacttgtcccaggAGCTTATTTAATCTGGACATATGAGTTTGACAGATGGGCCCCTACAGTGGTGAAAATTGCTTACAAGgtaaggatcacatgctataacacatgcgaaagagggcttgtttaggttat Alignment from Spaln_aa2Genome CTCTGTCTAACTGGACATATGAATTTGACAAATGGGCTCCTTCTGTGGTGAAAATTTCTTACAAG atgtattatgtctgctagttttttaacagcttgtattgaacttgtcccaggagCTTATTTAATCTGGACATATGAGTTTGACAGATGGGCCCCTACAGTGGTGAAAATTGCTTACAAGgtaaggatcacatgctataacacatgcgaaagagggcttgtttaggttat Alignment from Spaln_nt2Genome GACTCTGTCTAA-CTGGACATATGAATTTGACAAATGGGCTCCTTCTGTGGTGAAAATTTCTTACAAG atgtattatgtctgctagttttttaacagcttgtattgaacttgtcccagGAGCTTATTTAATCTGGACATATGAGTTTGACAGATGGGCCCCTACAGTGGTGAAAATTGCTTACAAGgtaaggatcacatgctataacacatgcgaaagagggcttgtttaggttat Alignment from Pairagon GACTCTGTCTAA-CTGGACATATGAATTTGACAAATGGGCTCCTTCTGTGGTGAAAATTTCTTACAAG atgtattatgtctgctagttttttaacagcttgtattgaacttgtcccagGAGCTTATTTAATCTGGACATATGAGTTTGACAGATGGGCCCCTACAGTGGTGAAAATTGCTTACAAGgtaaggatcacatgctataacacatgcgaaagagggcttgtttaggttat Alignment from Exonerate_protein2genome GACTCTGTCTAAC-TGGACATATGAATTTGACAAATGGGCTCCTTCTGTGGTGAAAATTTCTTACAAG atgtattatgtctgctagttttttaacagcttgtattgaacttgtcccagGAGCTTATTTAATCTGGACATATGAGTTTGACAGATGGGCCCCTACAGTGGTGAAAATTGCTTACAAGgtaaggatcacatgctataacacatgcgaaagagggcttgtttaggttat Alignment from Exonerate_coding2genome GACTCTGTCTAAC-TGGACATATGAATTTGACAAATGGGCTCCTTCTGTGGTGAAAATTTCTTACAAG atgtattatgtctgctagttttttaacagcttgtattgaacttgtcccagGAGCTTATTTAATCTGGACATATGAGTTTGACAGATGGGCCCCTACAGTGGTGAAAATTGCTTACAAGgtaaggatcacatgctataacacatgcgaaagagggcttgtttaggttat Alignment from GeneWise -------------------------------TCGACTCTGTCTAACTGGACATATGAATTTGACAAATGGGCTCCTTCTGTGGTGAAAATTTCTTACAAG atgtattatgtctgctagTTTTTTAACAGCTTGTATTGAACTTGTCCCAGGAGCTTATTTAATCTGGACATATGAGTTTGACAGATGGGCCCCTACAGTGGTGAAAATTGCTTACAAGgtaaggatcacatgctataacacatgcgaaagagggcttgtttaggttat #### Smc3_ID11318_6 --> 0 - 2 Original Alignment ATTGATAAAGAGGAA-GTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCac aatgatcacccagaaactggggatctctcaatcttttctgctctcctaagATTGATAAAGAGGAACGTTTCACTTCGAAGAGTTATTGGTGCTAAAAAGGATCTGTATTTTCTAGATCAGAAGATGGTCacgtaagtattctttctattctttctaatcatagagtgttacagttgatcca Alignment from CESAR ATTGATAAAGAGGAA-GTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCac aatgatcacccagaaactggggatctctcaatcttttctgctctcctaagATTGATAAAGAGGAACGTTTCACTTCGAAGAGTTATTGGTGCTAAAAAGGATCTGTATTTTCTAGATCAGAAGATGGTCacgtaagtattctttctattctttctaatcatagagtgttacagttgatcca Alignment from Spaln_aa2Genome ATTGATAAAGAGGAA-GTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCAC aatgatcacccagaaactggggatctctcaatcttttctgctctcctaagATTGATAAAGAGGAAcGTTTCACTTCGAAGAGTTATTGGTGCTAAAAAGGATCTGTATTTTCTAGATCAGAAGATGGTCACgtaagtattctttctattctttctaatcatagagtgttacagttgatcca Alignment from Spaln_nt2Genome ATTGATAAAGAGGAA-GTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCAC aatgatcacccagaaactggggatctctcaatcttttctgctctcctaagATTGATAAAGAGGAACGTTTCACTTCGAAGAGTTATTGGTGCTAAAAAGGATCTGTATTTTCTAGATCAGAAGATGGTCACgtaagtattctttctattctttctaatcatagagtgttacagttgatcca Alignment from Pairagon ATTGATAAAGAGGAA-GTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCAC aatgatcacccagaaactggggatctctcaatcttttctgctctcctaagATTGATAAAGAGGAACGTTTCACTTCGAAGAGTTATTGGTGCTAAAAAGGATCTGTATTTTCTAGATCAGAAGATGGTCACgtaagtattctttctattctttctaatcatagagtgttacagttgatcca Alignment from Exonerate_protein2genome ATTGATAAAGAGGAA-GTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCAC aatgatcacccagaaactggggatctctcaatcttttctgctctcctaagATTGATAAAGAGGAACGTTTCACTTCGAAGAGTTATTGGTGCTAAAAAGGATCTGTATTTTCTAGATCAGAAGATGGTCACgtaagtattctttctattctttctaatcatagagtgttacagttgatcca Alignment from Exonerate_coding2genome TTACCAATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCAC aatgatcacccagaaactggggatctctcaatcttttctgctctcCTAAGATTGATAAAGAGGAACGTTTCACTTCGAAGAGTTATTGGTGCTAAAAAGGATCTGTATTTTCTAGATCAGAAGATGGTCACgtaagtattctttctattctttctaatcatagagtgttacagttgatcca Alignment from GeneWise -------AAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCAC aatgatcacccagaaactggggatctctcaatcttttctgctctcctaagATTGATAAAGAGGAACGTTTCACTTCGAAGAGTTATTGGTGCTAAAAAGGATCTGTATTTTCTAGATCAGAAGATGGTCACgtaagtattctttctattctttctaatcatagagtgttacagttgatcca #### Smc3_ID11323_11 --> 0 - 0 Original Alignment GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACC-AAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG ctcacttgcaactcagaagtgcactttccctccccacttgtaccctccagGATACTGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCGGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCAAAGGACACAAGTTGGAACTCAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGCgtgagtcacagtgcacagcacaaaaagaaaactgatcagatttctgtgta Alignment from CESAR GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACC-AAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG ctcacttgcaactcagaagtgcactttccctccccacttgtaccctccagGATACTGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCGGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCAAAGGACACAAGTTGGAACTCAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGCgtgagtcacagtgcacagcacaaaaagaaaactgatcagatttctgtgta Alignment from Spaln_aa2Genome GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACC-AAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG ctcacttgcaactcagaagtgcactttccctccccacttgtaccctccagGATACTGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCGGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCAAAGGACAcAAGTTGGAACTCAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGCgtgagtcacagtgcacagcacaaaaagaaaactgatcagatttctgtgta Alignment from Spaln_nt2Genome GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGAC-CAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG ctcacttgcaactcagaagtgcactttccctccccacttgtaccctccagGATACTGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCGGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCAAAGGACACAAGTTGGAACTCAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGCgtgagtcacagtgcacagcacaaaaagaaaactgatcagatttctgtgta Alignment from Pairagon GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGAC-CAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG ctcacttgcaactcagaagtgcactttccctccccacttgtaccctccagGATACTGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCGGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCAAAGGACACAAGTTGGAACTCAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGCgtgagtcacagtgcacagcacaaaaagaaaactgatcagatttctgtgta Alignment from Exonerate_protein2genome GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACC-AAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG ctcacttgcaactcagaagtgcactttccctccccacttgtaccctccagGATACTGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCGGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCAAAGGACACAAGTTGGAACTCAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGCgtgagtcacagtgcacagcacaaaaagaaaactgatcagatttctgtgta Alignment from Exonerate_coding2genome GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACC-AAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG ctcacttgcaactcagaagtgcactttccctccccacttgtaccctccagGATACTGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCGGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCAAAGGACACAAGTTGGAACTCAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGCgtgagtcacagtgcacagcacaaaaagaaaactgatcagatttctgtgta Alignment from GeneWise GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACC-AAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG ctcacttgcaactcagaagtgcactttccctccccacttgtaccctccagGATACTGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCGGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCAAAGGACACAAGTTGGAACTCAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGCgtgagtcacagtgcacagcacaaaaagaaaactgatcagatttctgtgta #### Smc3_ID11337_25 --> 0 - 0 Original Alignment TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAG-AAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaaggtctgaaacctagaattgaggcagcttgtcttctgcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGCACATATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAACTAGATAGC---CATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagtaatagtttattctagtgtgcagtatgaatggatacacaggttgc Alignment from CESAR TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAG-AAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaaggtctgaaacctagaattgaggcagcttgtcttctgcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGCACATATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAACTAGAT---AGCCATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagtaatagtttattctagtgtgcagtatgaatggatacacaggttgc Alignment from Spaln_aa2Genome TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAG-AAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaaggtctgaaacctagaattgaggcagcttgtcttctgcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGcACATATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAACTAGAT---AGCCATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagtaatagtttattctagtgtgcagtatgaatggatacacaggttgc Alignment from Spaln_nt2Genome TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAG-TACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaaggtctgaaacctagaattgaggcagcttgtcttctgcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGCACATATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAACTAGATA---GCCATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagtaatagtttattctagtgtgcagtatgaatggatacacaggttgc Alignment from Pairagon TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAG-AAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaaggtctgaaacctagaattgaggcagcttgtcttctgcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGCACATATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAACTAGATA---GCCATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagtaatagtttattctagtgtgcagtatgaatggatacacaggttgc Alignment from Exonerate_protein2genome CCCTCCCCCAGGAAGCGTTTGAGAAGTACCAGACACTGAGCCTGAAGCAGTTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAG-AAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG ATTATATTAAAGGTCTGAAACCTAGAATTGAGGCAGCTTGTCTTCTGCAGGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGCACATATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAACTAGAT---AGCCATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagtaatagtttattctagtgtgcagtatgaatggatacacaggttgc Alignment from Exonerate_coding2genome CCCTCCCCCAGGAAGCGTTTGAGAAGTACCAGACACTGAGCCTGAAGCAGTTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAG-AAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG ATTATATTAAAGGTCTGAAACCTAGAATTGAGGCAGCTTGTCTTCTGCAGGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGCACATATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAACTAGAT---AGCCATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagtaatagtttattctagtgtgcagtatgaatggatacacaggttgc Alignment from GeneWise TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAG-AAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaaggtctgaaacctagaattgaggcagcttgtcttctgcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGCACATATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAACTAGAT---AGCCATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagtaatagtttattctagtgtgcagtatgaatggatacacaggttgc #### Smc5_ID5113_20 --> 0 - 0 Original Alignment GCTTTTCAAGATCTCCCAAACACATTGGAT-GAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG catactggtatgctcatcacttactgatttctgttttctgtcttttccagGCATTTGAAGATCTCCCGAACACATTGGATCGAAATTGATGCATTATTAACTGCAGAAAGATCAAGAGCTTCATGCTTCACAGGATTAAATCCTTCAgtatgactccatatttttgctatttaccctatttccacatgactgtattc Alignment from CESAR GCTTTTCAAGATCTCCCAAACACATTGGAT-GAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG catactggtatgctcatcacttactgatttctgttttctgtcttttccagGCATTTGAAGATCTCCCGAACACATTGGATCGAAATTGATGCATTATTAACTGCAGAAAGATCAAGAGCTTCATGCTTCACAGGATTAAATCCTTCAgtatgactccatatttttgctatttaccctatttccacatgactgtattc Alignment from Spaln_aa2Genome GCTTTTCAAGATCTCCCAAACACATTGGAT-GAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG catactggtatgctcatcacttactgatttctgttttctgtcttttccagGCATTTGAAGATCTCCCGAACACATTGGATcGAAATTGATGCATTATTAACTGCAGAAAGATCAAGAGCTTCATGCTTCACAGGATTAAATCCTTCAgtatgactccatatttttgctatttaccctatttccacatgactgtattc Alignment from Spaln_nt2Genome GCTTTTCAAGATCTCCCAAACACATTGGAT-GAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG catactggtatgctcatcacttactgatttctgttttctgtcttttccagGCATTTGAAGATCTCCCGAACACATTGGATCGAAATTGATGCATTATTAACTGCAGAAAGATCAAGAGCTTCATGCTTCACAGGATTAAATCCTTCAgtatgactccatatttttgctatttaccctatttccacatgactgtattc Alignment from Pairagon GCTTTTCAAGATCTCCCAAACACATTGGAT-GAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG catactggtatgctcatcacttactgatttctgttttctgtcttttccagGCATTTGAAGATCTCCCGAACACATTGGATCGAAATTGATGCATTATTAACTGCAGAAAGATCAAGAGCTTCATGCTTCACAGGATTAAATCCTTCAgtatgactccatatttttgctatttaccctatttccacatgactgtattc Alignment from Exonerate_protein2genome GCTTTTCAAGATCTCCCAAACACATTGGAT-GAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG catactggtatgctcatcacttactgatttctgttttctgtcttttccagGCATTTGAAGATCTCCCGAACACATTGGATCGAAATTGATGCATTATTAACTGCAGAAAGATCAAGAGCTTCATGCTTCACAGGATTAAATCCTTCAgtatgactccatatttttgctatttaccctatttccacatgactgtattc Alignment from Exonerate_coding2genome GCTTTTCAAGATCTCCCAAACACATTGGAT-GAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG catactggtatgctcatcacttactgatttctgttttctgtcttttccagGCATTTGAAGATCTCCCGAACACATTGGATCGAAATTGATGCATTATTAACTGCAGAAAGATCAAGAGCTTCATGCTTCACAGGATTAAATCCTTCAgtatgactccatatttttgctatttaccctatttccacatgactgtattc Alignment from GeneWise GCTTTTCAAGATCTCCCAAACACATTGGAT-GAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG catactggtatgctcatcacttactgatttctgttttctgtcttttccagGCATTTGAAGATCTCCCGAACACATTGGATCGAAATTGATGCATTATTAACTGCAGAAAGATCAAGAGCTTCATGCTTCACAGGATTAAATCCTTCAgtatgactccatatttttgctatttaccctatttccacatgactgtattc #### Smc5_ID5118_15 --> 0 - 2 Original Alignment GAAATGAATAGACAACTGGAAGCAGTGGACTCAGGGTTGGCTGCCTTGCGTGATACGAACAGGCACCTTGAGCTCAAAGACAACGAGCTAAGGCTGAAGAAGAAGGAGCTTCTTGAAAGAAAAACCAGGAAAAGGCAGCTG-GAGCAGAAAATCAGCTCCAAGCTGGCAag attcacagttcatatactggcttaatgtgctctttctcatcttctcccagGAAACAAATAGACAACTGGAGGCGGTTGACTCAGGGTGGGTTGTACTGCGTGATGCAAACAGGCACCTCGAGCTTAAAGATAATGAGCTAAAGCTGAAGGAGAAGGAGCTCCTTGAACGAGAAACCAGAAAAAGGCAGCTGCGAGCAAAAAGTTAGCTCCAAGCCAGGGaggtaagttctactgaagatttgaggccaggaagataatgaaagttagctcc Alignment from CESAR GAAATGAATAGACAACTGGAAGCAGTGGACTCAGGGTTGGCTGCCTTGCGTGATACGAACAGGCACCTTGAGCTCAAAGACAACGAGCTAAGGCTGAAGAAGAAGGAGCTTCTTGAAAGAAAAACCAGGAAAAGGCAGCTG-GAGCAGAAAATCAGCTCCAAGCTGGCAag attcacagttcatatactggcttaatgtgctctttctcatcttctcccagGAAACAAATAGACAACTGGAGGCGGTTGACTCAGGGTGGGTTGTACTGCGTGATGCAAACAGGCACCTCGAGCTTAAAGATAATGAGCTAAAGCTGAAGGAGAAGGAGCTCCTTGAACGAGAAACCAGAAAAAGGCAGCTGCGAGCAAAAAGTTAGCTCCAAGCCAGGGaggtaagttctactgaagatttgaggccaggaagataatgaaagttagctcc Alignment from Spaln_aa2Genome GAAATGAATAGACAACTGGAAGCAGTGGACTCAGGGTTGGCTGCCTTGCGTGATACGAACAGGCACCTTGAGCTCAAAGACAACGAGCTAAGGCTGAAGAAGAAGGAGCTTCTTGAAAGAAAAACCAGGAAAAGGCAGCTGGAGCAGAAAA TCAGCTCC attcacagttcatatactggcttaatgtgctctttctcatcttctcccagGAAACAAATAGACAACTGGAGGCGGTTGACTCAGGGTGGGTTGTACTGCGTGATGCAAACAGGCACCTCGAGCTTAAAGATAATGAGCTAAAGCTGAAGGAGAAGGAGCTCCTTGAACGAGAAACCAGAAAAAGGCAGCTGCGAGCAAAAAgttagctccaagccagggaggtaagttctactgaagatttgaggccaggaagataatgaaagTTAGCTCC Alignment from Spaln_nt2Genome GAAATGAATAGACAACTGGAAGCAGTGGACTCAGGGTTGGCTGCCTTGCGTGATACGAACAGGCACCTTGAGCTCAAAGACAACGAGCTAAGGCTGAAGAAGAAGGAGCTTCTTGAAAGAAAAACCAGGAAAAGGCAGCTG-GAGCAGAAAATCAGCTCCAAGCTGGCAAG attcacagttcatatactggcttaatgtgctctttctcatcttctcccagGAAACAAATAGACAACTGGAGGCGGTTGACTCAGGGTGGGTTGTACTGCGTGATGCAAACAGGCACCTCGAGCTTAAAGATAATGAGCTAAAGCTGAAGGAGAAGGAGCTCCTTGAACGAGAAACCAGAAAAAGGCAGCTGCGAGCAAAAAGTTAGCTCCAAGCCAGGGAGgtaagttctactgaagatttgaggccaggaagataatgaaagttagctcc Alignment from Pairagon GAAATGAATAGACAACTGGAAGCAGTGGACTCAGGGTTGGCTGCCTTGCGTGATACGAACAGGCACCTTGAGCTCAAAGACAACGAGCTAAGGCTGAAGAAGAAGGAGCTTCTTGAAAGAAAAACCAGGAAAAGGCAGCTG-GAGCAGAAAATCAGCTCCAAGCTGGCAAG attcacagttcatatactggcttaatgtgctctttctcatcttctcccagGAAACAAATAGACAACTGGAGGCGGTTGACTCAGGGTGGGTTGTACTGCGTGATGCAAACAGGCACCTCGAGCTTAAAGATAATGAGCTAAAGCTGAAGGAGAAGGAGCTCCTTGAACGAGAAACCAGAAAAAGGCAGCTGCGAGCAAAAAGTTAGCTCCAAGCCAGGGAGgtaagttctactgaagatttgaggccaggaagataatgaaagttagctcc Alignment from Exonerate_protein2genome GAAATGAATAGACAACTGGAAGCAGTGGACTCAGGGTTGGCTGCCTTGCGTGATACGAACAGGCACCTTGAGCTCAAAGACAACGAGCTAAGGCTGAAGAAGAAGGAGCTTCTTGAAAGAAAAACCAGGAAAAGGCAGCTG-GAGCAGAAAATCAGCTCCAAGCTGGCAAG attcacagttcatatactggcttaatgtgctctttctcatcttctcccagGAAACAAATAGACAACTGGAGGCGGTTGACTCAGGGTGGGTTGTACTGCGTGATGCAAACAGGCACCTCGAGCTTAAAGATAATGAGCTAAAGCTGAAGGAGAAGGAGCTCCTTGAACGAGAAACCAGAAAAAGGCAGCTGCGAGCAAAAAGTTAGCTCCAAGCCAGGGAGgtaagttctactgaagatttgaggccaggaagataatgaaagttagctcc Alignment from Exonerate_coding2genome GAAATGAATAGACAACTGGAAGCAGTGGACTCAGGGTTGGCTGCCTTGCGTGATACGAACAGGCACCTTGAGCTCAAAGACAACGAGCTAAGGCTGAAGAAGAAGGAGCTTCTTGAAAGAAAAACCAGGAAAAGGCAGCTG-GAGCAGAAAATCAGCTCCAAGCTGGCAAG attcacagttcatatactggcttaatgtgctctttctcatcttctcccagGAAACAAATAGACAACTGGAGGCGGTTGACTCAGGGTGGGTTGTACTGCGTGATGCAAACAGGCACCTCGAGCTTAAAGATAATGAGCTAAAGCTGAAGGAGAAGGAGCTCCTTGAACGAGAAACCAGAAAAAGGCAGCTGCGAGCAAAAAGTTAGCTCCAAGCCAGGGAGgtaagttctactgaagatttgaggccaggaagataatgaaagttagctcc Alignment from GeneWise GAAATGAATAGACAACTGGAAGCAGTGGACTCAGGGTTGGCTGCCTTGCGTGATACGAACAGGCACCTTGAGCTCAAAGACAACGAGCTAAGGCTGAAGAAGAAGGAGCTTCTTGAAAGAAAAACCAGGAAAAGGCAG-CTGGAGCAGAAAATCAGCTCCAAGCTGGCAAG attcacagttcatatactggcttaatgtgctctttctcatcttctcccagGAAACAAATAGACAACTGGAGGCGGTTGACTCAGGGTGGGTTGTACTGCGTGATGCAAACAGGCACCTCGAGCTTAAAGATAATGAGCTAAAGCTGAAGGAGAAGGAGCTCCTTGAACGAGAAACCAGAAAAAGGCAGCTGCGAGCAAAAAGTTAGCTCCAAGCCAGGGAGgtaagttctactgaagatttgaggccaggaagataatgaaagttagctcc #### Snx15_ID1466_6 --> 2 - 1 Original Alignment tgGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGT-CCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGg atgtttccatcccccggataagtcttggttatattttttccttcccccagtaGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGAACATCTCTTCAGCTGTGACAGTACGGAGGAGGCCTCTGGTACTCTGGCTCGAGGTCCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGTGggtaagtttggatggaggggcagtcattaatgccctgaagaactccattag Alignment from CESAR tgGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGT-CCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGg atgtttccatcccccggataagtcttggttatattttttccttcccccagtaGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGAACATCTCTTCAGCTGTGACAGTACGGAGGAGGCCTCTGGTACTCTGGCTCGAGGTCCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGTGggtaagtttggatggaggggcagtcattaatgccctgaagaactccattag Alignment from Spaln_aa2Genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCC-CTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atgtttccatcccccggataagtcttggttatattttttccttcccccagTAGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGAACATCTCTTCAGCTGTGACAGTACGGAGGAGGCCTCTGGTACTCTGGCTCGAGGTCCCcCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGTGGgtaagtttggatggaggggcagtcattaatgccctgaagaactccattag Alignment from Spaln_nt2Genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGT-CCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atgtttccatcccccggataagtcttggttatattttttccttcccccagTAGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGAACATCTCTTCAGCTGTGACAGTACGGAGGAGGCCTCTGGTACTCTGGCTCGAGGTCCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGTGGgtaagtttggatggaggggcagtcattaatgccctgaagaactccattag Alignment from Pairagon TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGT-CCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atgtttccatcccccggataagtcttggttatattttttccttcccccagTAGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGAACATCTCTTCAGCTGTGACAGTACGGAGGAGGCCTCTGGTACTCTGGCTCGAGGTCCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGTGGgtaagtttggatggaggggcagtcattaatgccctgaagaactccattag Alignment from Exonerate_protein2genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGT-CCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atgtttccatcccccggataagtcttggttatattttttccttcccccagTAGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGAACATCTCTTCAGCTGTGACAGTACGGAGGAGGCCTCTGGTACTCTGGCTCGAGGTCCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGTGGgtaagtttggatggaggggcagtcattaatgccctgaagaactccattag Alignment from Exonerate_coding2genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGT-CCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atgtttccatcccccggataagtcttggttatattttttccttcccccagTAGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGAACATCTCTTCAGCTGTGACAGTACGGAGGAGGCCTCTGGTACTCTGGCTCGAGGTCCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGTGGgtaagtttggatggaggggcagtcattaatgccctgaagaactccattag Alignment from GeneWise TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCC-CTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atgtttccatcccccggataagtcttggttatattttttccttcccccagTAGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGAACATCTCTTCAGCTGTGACAGTACGGAGGAGGCCTCTGGTACTCTGGCTCGAGGTCCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGTGGgtaagtttggatggaggggcagtcattaatgccctgaagaactccattag #### Snx15_ID1467_5 --> 0 - 1 Original Alignment GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACA-CCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAg ccttgatggtcagccatattccgccctctttagctgtgctccttttacagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCTAGAGACCTGCGGATCCCACTACCTCCTCTCATTCCAACACATGCCTCCAGTTGAAGCTCGTTTATTTCAGGCTTTGCCGGCTGAAAGAAGGGGCCAGGAGGAGCTGGAAGTTCCAggtaccactggtttcaggtgatgggctgatactgccaattgtagccctttc Alignment from CESAR GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCA-CCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAg ccttgatggtcagccatattccgccctctttagctgtgctccttttacagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCTAGAGACCTGCGGATCCCACTACCTCCTCTCATTCCAACACATGCCTCCAGTTGAAGCTCGTTTATTTCAGGCTTTGCCGGCTGAAAGAAGGGGCCAGGAGGAGCTGGAAGTTCCAggtaccactggtttcaggtgatgggctgatactgccaattgtagccctttc Alignment from Spaln_aa2Genome GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCA-CCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAG ccttgatggtcagccatattccgccctctttagctgtgctccttttacagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCTAGAGACCTGCGGATCCCACTACCTCCTCTCATTCCAACACATgCCTCCAGTTGAAGCTCGTTTATTTCAGGCTTTGCCGGCTGAAAGAAGGGGCCAGGAGGAGCTGGAAGTTCCAGgtaccactggtttcaggtgatgggctgatactgccaattgtagccctttc Alignment from Spaln_nt2Genome GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCA-CCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAG ccttgatggtcagccatattccgccctctttagctgtgctccttttacagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCTAGAGACCTGCGGATCCCACTACCTCCTCTCATTCCAACACATGCCTCCAGTTGAAGCTCGTTTATTTCAGGCTTTGCCGGCTGAAAGAAGGGGCCAGGAGGAGCTGGAAGTTCCAGgtaccactggtttcaggtgatgggctgatactgccaattgtagccctttc Alignment from Pairagon GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACAC-CACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAG ccttgatggtcagccatattccgccctctttagctgtgctccttttacagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCTAGAGACCTGCGGATCCCACTACCTCCTCTCATTCCAACACATGCCTCCAGTTGAAGCTCGTTTATTTCAGGCTTTGCCGGCTGAAAGAAGGGGCCAGGAGGAGCTGGAAGTTCCAGgtaccactggtttcaggtgatgggctgatactgccaattgtagccctttc Alignment from Exonerate_protein2genome GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACA-CCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAG ccttgatggtcagccatattccgccctctttagctgtgctccttttacagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCTAGAGACCTGCGGATCCCACTACCTCCTCTCATTCCAACACATGCCTCCAGTTGAAGCTCGTTTATTTCAGGCTTTGCCGGCTGAAAGAAGGGGCCAGGAGGAGCTGGAAGTTCCAGgtaccactggtttcaggtgatgggctgatactgccaattgtagccctttc Alignment from Exonerate_coding2genome GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACA-CCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAG ccttgatggtcagccatattccgccctctttagctgtgctccttttacagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCTAGAGACCTGCGGATCCCACTACCTCCTCTCATTCCAACACATGCCTCCAGTTGAAGCTCGTTTATTTCAGGCTTTGCCGGCTGAAAGAAGGGGCCAGGAGGAGCTGGAAGTTCCAGgtaccactggtttcaggtgatgggctgatactgccaattgtagccctttc Alignment from GeneWise GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACA-CCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAG ccttgatggtcagccatattccgccctctttagctgtgctccttttacagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCTAGAGACCTGCGGATCCCACTACCTCCTCTCATTCCAACACATGCCTCCAGTTGAAGCTCGTTTATTTCAGGCTTTGCCGGCTGAAAGAAGGGGCCAGGAGGAGCTGGAAGTTCCAGgtaccactggtttcaggtgatgggctgatactgccaattgtagccctttc #### Snx15_ID1469_3 --> 0 - 1 Original Alignment GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCAC-GGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTg gttttacccagctcttgctaaggtctgcgcatcatgcctctccccatcagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATCGGTGAATTAGCCTATACTCACCGGAATCTCTTCCAGGATCTCGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGTTTggtgagttttagactctgtacctctccagcttatgacatccagaatctcca Alignment from CESAR GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCAC-GGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTg gttttacccagctcttgctaaggtctgcgcatcatgcctctccccatcagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATCGGTGAATTAGCCTATACTCACCGGAATCTCTTCCAGGATCTCGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGTTTggtgagttttagactctgtacctctccagcttatgacatccagaatctcca Alignment from Spaln_aa2Genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCAC-GGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG gttttacccagctcttgctaaggtctgcgcatcatgcctctccccatcagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATcGGTGAATTAGCCTATACTCACCGGAATCTCTTCCAGGATCTCGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGTTTGgtgagttttagactctgtacctctccagcttatgacatccagaatctcca Alignment from Spaln_nt2Genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTC-CACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG gttttacccagctcttgctaaggtctgcgcatcatgcctctccccatcagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATCGGTGAATTAGCCTATACTCACCGGAATCTCTTCCAGGATCTCGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGTTTGgtgagttttagactctgtacctctccagcttatgacatccagaatctcca Alignment from Pairagon GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCA-CGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG gttttacccagctcttgctaaggtctgcgcatcatgcctctccccatcagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATCGGTGAATTAGCCTATACTCACCGGAATCTCTTCCAGGATCTCGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGTTTGgtgagttttagactctgtacctctccagcttatgacatccagaatctcca Alignment from Exonerate_protein2genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCAC-GGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG gttttacccagctcttgctaaggtctgcgcatcatgcctctccccatcagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATCGGTGAATTAGCCTATACTCACCGGAATCTCTTCCAGGATCTCGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGTTTGgtgagttttagactctgtacctctccagcttatgacatccagaatctcca Alignment from Exonerate_coding2genome GAGGTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCAC-GGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG gttttacccagctcttgctaaggtctgcgcatcatgcctctccccatCAGGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATCGGTGAATTAGCCTATACTCACCGGAATCTCTTCCAGGATCTCGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGTTTGgtgagttttagactctgtacctctccagcttatgacatccagaatctcca Alignment from GeneWise ---TTCATCTCAAAGAAGGACCCAGAGGATATCAAAGAGGTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCAC-GGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG gttttacccagCTCTTGCTAAGGTCTGCGCATCATGCCTCTCCCCATCAGGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATCGGTGAATTAGCCTATACTCACCGGAATCTCTTCCAGGATCTCGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGTTTGgtgagttttagactctgtacctctccagcttatgacatccagaatctcca #### Snx32_ID1066_12 --> 2 - 0 Original Alignment agCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGT-AAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAG taagtcctgaaggattgcaacaatcaattcttttttccaatttgcttcagaaCTCATGGACTTCAAATCTCACAGGGTCTCCTCTTTCCGTCAAGAACCTCATTGAGTTGACTGAGCTGGAGCTCAAGCAGGCCAAGgtaagttgttactccagttacatcaaaaagaactcaatctgctcattgtt Alignment from CESAR agCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGT-AAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAG tactgcctgaaggattgcaacaatcaattcttttttccaatttgcttcagaaCTCATGGACTTCAAATCTCACAGGGTCTCCTCTTTCCGTCAAGAACCTCATTGAGTTGACTGAGCTGGAGCTCAAGCAGGCCAAGgtaagttgttactccagttacatcaaaaagaactcaatctgctcattgtt Alignment from Spaln_aa2Genome AGCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGT-AAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAG taagtcctgaaggattgcaacaatcaattcttttttccaatttgcttcagAACTCATGGACTTCAAATCTCACAGGGTCTCCTCTTTCCGTcAAGAACCTCATTGAGTTGACTGAGCTGGAGCTCAAGCAGGCCAAGgtaagttgttactccagttacatcaaaaagaactcaatctgctcattgtt Alignment from Spaln_nt2Genome AGCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGT-AAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAG taagtcctgaaggattgcaacaatcaattcttttttccaatttgcttcagAACTCATGGACTTCAAATCTCACAGGGTCTCCTCTTTCCGTCAAGAACCTCATTGAGTTGACTGAGCTGGAGCTCAAGCAGGCCAAGgtaagttgttactccagttacatcaaaaagaactcaatctgctcattgtt Alignment from Pairagon AGCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGT-AAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAG taagtcctgaaggattgcaacaatcaattcttttttccaatttgcttcagAACTCATGGACTTCAAATCTCACAGGGTCTCCTCTTTCCGTCAAGAACCTCATTGAGTTGACTGAGCTGGAGCTCAAGCAGGCCAAGgtaagttgttactccagttacatcaaaaagaactcaatctgctcattgtt Alignment from Exonerate_protein2genome AGCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGT-AAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAG taagtcctgaaggattgcaacaatcaattcttttttccaatttgcttcagAACTCATGGACTTCAAATCTCACAGGGTCTCCTCTTTCCGTCAAGAACCTCATTGAGTTGACTGAGCTGGAGCTCAAGCAGGCCAAGgtaagttgttactccagttacatcaaaaagaactcaatctgctcattgtt Alignment from Exonerate_coding2genome taagtcctgaaggattgcaacaatcaattcttttttccaatttgcttcagaactcatggacttcaaatctcacagggtctcctctttccgtcaagaacctcattgagttgactgagctggagctcaagcaggccaaggtaagttgttactccagttacatcaaaaagaactcaatctgctcattgtt Alignment from GeneWise AGCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGT-AAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAGGCCAGC---------ACCCTGCTTCTCCAGAACACCCTTGTTGCCCTTAA taagtcctgaaggattgcaacaatcaattcttttttccaatttgcttcagAACTCATGGACTTCAAATCTCACAGGGTCTCCTCTTTCCGTCAAGAACCTCATTGAGTTGACTGAGCTGGAGCTCAAGCAGGCCAAGGTAAGTTGTTACTCCAGTTACATCAAAAAGAACTCAATCTGCTCATTGTT #### Snx32_ID1067_11 --> 0 - 1 Original Alignment GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGG-CCAGCAGAGAGCCGCCAACAGCTGTGCTGC---CAGCGCTTCGAGCGCCTCTCTGACTCCGCCAAACAAg acacttctgttatctattacataaatgcccctgatgatcaaattccccagGATCTATTGTACTGCCGCCTCCGGGCACTAGCTGAGTATGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGCCCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAACAGTTTGACTGCCTCTCGGACTCTACCAAACAAggtactgcctgaaggattgcaacaatcaatttccctacttgtgacctctta Alignment from CESAR GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGG-CCAGCAGAGAGCCGCCAACAGCTGTGCTGCCAG---CGCTTCGAGCGCCTCTCTGACTCCGCCAAACAAg acacttctgttatctattacataaatgcccctgatgatcaaattccccagGATCTATTGTACTGCCGCCTCCGGGCACTAGCTGAGTATGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGCCCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAACAGTTTGACTGCCTCTCGGACTCTACCAAACAAggtactgcctgaaggattgcaacaatcaattcttttttccaatttgcttca Alignment from Spaln_aa2Genome GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGG-CCAGCAGAGAGCCGCCAACAGCTGTGCTGC---CAGCGCTTCGAGCGCCTCTCTGACTCCGCCAAACAAG acacttctgttatctattacataaatgcccctgatgatcaaattccccagGATCTATTGTACTGCCGCCTCCGGGCACTAGCTGAGTATGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGcCCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAACAGTTTGACTGCCTCTCGGACTCTACCAAACAAGgtactgcctgaaggattgcaacaatcaatttccctacttgtgacctctta Alignment from Spaln_nt2Genome GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCC-AGCAGAGAGCCGCCAACAGCTGTGCTGCCAGCGC---TTCGAGCGCCTCTCTGACTCCGCCAAACAAG acacttctgttatctattacataaatgcccctgatgatcaaattccccagGATCTATTGTACTGCCGCCTCCGGGCACTAGCTGAGTATGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGCCCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAACAGTTTGACTGCCTCTCGGACTCTACCAAACAAGgtactgcctgaaggattgcaacaatcaatttccctacttgtgacctctta Alignment from Pairagon GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGG-CCAGCAGAGAGCCGCCAACAGCTGTGCTGCCAG---CGCTTCGAGCGCCTCTCTGACTCCGCCAAACAAG acacttctgttatctattacataaatgcccctgatgatcaaattccccagGATCTATTGTACTGCCGCCTCCGGGCACTAGCTGAGTATGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGCCCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAACAGTTTGACTGCCTCTCGGACTCTACCAAACAAGgtactgcctgaaggattgcaacaatcaatttccctacttgtgacctctta Alignment from Exonerate_protein2genome GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTA-CGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGC---CAGCGCTTCGAGCGCCTCTCTGACTCCGCCAAACAAG acacttctgttatctattacataaatgcccctgatgatcaaattccccagGATCTATTGTACTGCCGCCTCCGGGCACTAGCTGAGTATGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGCCCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAACAGTTTGACTGCCTCTCGGACTCTACCAAACAAGgtactgcctgaaggattgcaacaatcaatttccctacttgtgacctctta Alignment from Exonerate_coding2genome GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGC-----CAACAGCTGTGCTGC---CAGCGCTTCGAGCGCCTCTCTGACTCCGCCAAACAAG acacttctgttatctattacataaatgcccctgatgatcaaattccccagGATCTATTGTACTGCCGCCTCCGGGCACTAGCTGAGTATGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATG----GCCCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAACAGTTTGACTGCCTCTCGGACTCTACCAAACAAGgtactgcctgaaggattgcaacaatcaatttccctacttgtgacctctta Alignment from GeneWise GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTA-CGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGCCAGCGC---TTCGAGCGCCTCTCTGACTCCGCCAAACAAG acacttctgttatctattacataaatgcccctgatgatcaaattccccagGATCTATTGTACTGCCGCCTCCGGGCACTAGCTGAGTATGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGCCCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAACAGTTTGACTGCCTCTCGGACTCTACCAAACAAGgtactgcctgaaggattgcaacaatcaatttccctacttgtgacctctta #### Snx32_ID1070_8 --> 2 - 2 Original Alignment gcCTGGCAGACAACTATATCCCTATCTCTGCTGCA-CTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGag atgtgcacataccttgaattgcaattgccttgtgttcctccttactataggcCTGGCAGACAATTATATTCCCATTTCAGCT---CGTGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTTAAAaggtaagtgtcatgcgatgttgctttgctcacccatgtaccattatcggggt Alignment from CESAR gcCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGag atgtgcacataccttgaattgcaattgccttgtgttcctccttactataggcCTGGCAGACAATTATATTCCCATTTCAGCT--CGTGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTTAAAaggtaagtgtcatgcgatgttgctttgctcacccatgtaccattatcggggt Alignment from Spaln_aa2Genome GCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG atgtgcacataccttgaattgcaattgccttgtgttcctccttactatagGCCTGGCAGACAATTATATTCCCATTTCAGCTC--GTGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTTAAAAGgtaagtgtcatgcgatgttgctttgctcacccatgtaccattatcggggt Alignment from Spaln_nt2Genome GCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG atgtgcacataccttgaattgcaattgccttgtgttcctccttactatagGCCTGGCAGACAATTATATTCCCATTTCAGCT--CGTGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTTAAAAGgtaagtgtcatgcgatgttgctttgctcacccatgtaccattatcggggt Alignment from Pairagon GCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG atgtgcacataccttgaattgcaattgccttgtgttcctccttactatagGCCTGGCAGACAATTATATTCCCATTTCAGCT--CGTGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTTAAAAGgtaagtgtcatgcgatgttgctttgctcacccatgtaccattatcggggt Alignment from Exonerate_protein2genome GCCTGGCAGACAACTATATCCCTATCTCTGCT-GCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG atgtgcacataccttgaattgcaattgccttgtgttcctccttactatagGCCTGGCAGACAATTATATTCCCATTTCAGCTC---GTGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTTAAAAGgtaagtgtcatgcgatgttgctttgctcacccatgtaccattatcggggt Alignment from Exonerate_coding2genome AATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGTGCCTGGCAGACAACTATAT--CCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG ATGTGCACATACCTTGAATTGCAATTGCCTTGTGTTCCTCCTTACTATAGGCCTGGCAGACAATTATATTCCCATTT----CAGCTCGTGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTTAAAAGgtaagtgtcatgcgatgttgctttgctcacccatgtaccattatcggggt Alignment from GeneWise GCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG atgtgcacataccttgaattgcaattgccttgtgttcctccttactatagGCCTGGCAGACAATTATATTCCCATTTCAGCTC--GTGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTTAAAAGgtaagtgtcatgcgatgttgctttgctcacccatgtaccattatcggggt #### Snx32_ID1071_7 --> 0 - 1 Original Alignment GAGGTAGATGAC-TTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGt ccaagtgtactgcccccctcaggcctggaaccttcctgctctcccaacagGAGCTAGATGATCTTTTTTGAACATGAAAGGCCTTTCCTAGTTCAATATAAAACCCGAATTCGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAAcgtaggacacctttagggctagagcactgaatgtgcacataccttgaattg Alignment from CESAR GAGGTAGATGAC-TTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGt ccaagtgtactgcccccctcaggcctggaaccttcctgctctcccaacagGAGCTAGATGATCTTTTTTGAACATGAAAGGCCTTTCCTAGTTCAATATAAAACCCGAATTCGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAAcgtaggacacctttagggctagagcactgaatgtgcacataccttgaattg Alignment from Spaln_aa2Genome GAGGTAGATGACTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGT ccaagtgtactgcccccctcaggcctggaaccttcctgctctcccaacaggagctagATGATC------TTTTTTGAACATGAAAGGCCTTTCCTAGTTCAATATAAAACCCGAATTCGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAACgtaggacacctttagggctagagcactgaatgtgcacataccttgaattg Alignment from Spaln_nt2Genome GAGGTAGATGA-CTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGT ccaagtgtactgcccccctcaggcctggaaccttcctgctctcccaacagGAGCTAGATGATCTTTTTTGAACATGAAAGGCCTTTCCTAGTTCAATATAAAACCCGAATTCGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAACgtaggacacctttagggctagagcactgaatgtgcacataccttgaattg Alignment from Pairagon GAGGTAGATGA-CTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGT ccaagtgtactgcccccctcaggcctggaaccttcctgctctcccaacagGAGCTAGATGATCTTTTTTGAACATGAAAGGCCTTTCCTAGTTCAATATAAAACCCGAATTCGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAACgtaggacacctttagggctagagcactgaatgtgcacataccttgaattg Alignment from Exonerate_protein2genome GAGGTAGATGAC-TTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGT ccaagtgtactgcccccctcaggcctggaaccttcctgctctcccaacagGAGCTAGATGATCTTTTTTGAACATGAAAGGCCTTTCCTAGTTCAATATAAAACCCGAATTCGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAACgtaggacacctttagggctagagcactgaatgtgcacataccttgaattg Alignment from Exonerate_coding2genome GAGGTAGATGACTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAG ccaagtgtactgcccccctcaggcctggaaccttcctgctctcccaacaggagctagatgatcttttttgaacatgaaaggcctttcctagttcaatataaaacccgaattcgtgacagctgccaaagagCAGACCGCATTATACACTCCCACAAACGTAGGACACCTTTAGGGCTAGAGCACTGAATGTGCACATACCTTGAATTG Alignment from GeneWise GAGGTAGATGACTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGT ccaagtgtactgcccccctcaggcctggaaccttcctgctctcccaacaggagctagATGATC------TTTTTTGAACATGAAAGGCCTTTCCTAGTTCAATATAAAACCCGAATTCGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAACgtaggacacctttagggctagagcactgaatgtgcacataccttgaattg #### Snx32_ID1073_5 --> 1 - 0 Original Alignment gGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCC-GTCTTCTTGGAATACAGCCAGGAT caagcaacatggcattccagtagaccacgcttttcctgtcaatttcccaggGAATACTTGGCCATTTTTAAGAAGACTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCCATCTTCTTGGAATATAGCCAGGATgtgagtttattgaatcattacaacaaaacgagaggctgatgggcgtgtgg Alignment from CESAR gGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCC-GTCTTCTTGGAATACAGCCAGGAT caagcaacatggcattccagtagaccacgcttttcctgtcaatttcccaggGAATACTTGGCCATTTTTAAGAAGACTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCCATCTTCTTGGAATATAGCCAGGATgtgagtttattgaatcattacaacaaaacgagaggctgatgggcgtgtgg Alignment from Spaln_aa2Genome GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCC-GTCTTCTTGGAATACAGCCAGGAT caagcaacatggcattccagtagaccacgcttttcctgtcaatttcccagGGAATACTTGGCCATTTTTAAGAAGACTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCcATCTTCTTGGAATATAGCCAGGATgtgagtttattgaatcattacaacaaaacgagaggctgatgggcgtgtgg Alignment from Spaln_nt2Genome GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCG-TCTTCTTGGAATACAGCCAGGAT caagcaacatggcattccagtagaccacgcttttcctgtcaatttcccagGGAATACTTGGCCATTTTTAAGAAGACTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCCATCTTCTTGGAATATAGCCAGGATgtgagtttattgaatcattacaacaaaacgagaggctgatgggcgtgtgg Alignment from Pairagon GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCT-CCGTCTTCTTGGAATACAGCCAGGAT caagcaacatggcattccagtagaccacgcttttcctgtcaatttcccagGGAATACTTGGCCATTTTTAAGAAGACTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCCATCTTCTTGGAATATAGCCAGGATgtgagtttattgaatcattacaacaaaacgagaggctgatgggcgtgtgg Alignment from Exonerate_protein2genome GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCC-GTCTTCTTGGAATACAGCCAGGAT caagcaacatggcattccagtagaccacgcttttcctgtcaatttcccagGGAATACTTGGCCATTTTTAAGAAGACTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCCATCTTCTTGGAATATAGCCAGGATgtgagtttattgaatcattacaacaaaacgagaggctgatgggcgtgtgg Alignment from Exonerate_coding2genome GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCC-GTCTTCTTGGAATACAGCCAGGAT caagcaacatggcattccagtagaccacgcttttcctgtcaatttcccagGGAATACTTGGCCATTTTTAAGAAGACTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCCATCTTCTTGGAATATAGCCAGGATgtgagtttattgaatcattacaacaaaacgagaggctgatgggcgtgtgg Alignment from GeneWise GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCC-GTCTTCTTGGAATACAGCCAGGAT caagcaacatggcattccagtagaccacgcttttcctgtcaatttcccagGGAATACTTGGCCATTTTTAAGAAGACTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCCATCTTCTTGGAATATAGCCAGGATgtgagtttattgaatcattacaacaaaacgagaggctgatgggcgtgtgg #### Snx32_ID1074_4 --> 0 - 2 Original Alignment ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAG-CTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAgc aactggatatgttgtgttaactattcggtaatctttttctttctttctagCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAGGCATCAAGGGAAAAACTTGCAAAGGTTAGGTGAAGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCAGAGCTAGAAgcgtaggcatttccttcaatccccctgattttagtagagctttcaaagtcac Alignment from CESAR ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAG-CTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAgc aactggatatgttgtgttaactattcggtaatctttttctttctttctagCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAGGCATCAAGGGAAAAACTTGCAAAGGTTAGGTGAAGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCAGAGCTAGAAgcgtaggcatttccttcaatccccctgattttagtagagctttcaaagtcac Alignment from Spaln_aa2Genome ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAG-CTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC aactggatatgttgtgttaactattcggtaatctttttctttctttctagCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAGGCATCAAGGGAAAAAcTTGCAAAGGTTAGGTGAAGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCAGAGCTAGAAGCgtaggcatttccttcaatccccctgattttagtagagctttcaaagtcac Alignment from Spaln_nt2Genome ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCT-GCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC aactggatatgttgtgttaactattcggtaatctttttctttctttctagCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAGGCATCAAGGGAAAAACTTGCAAAGGTTAGGTGAAGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCAGAGCTAGAAGCgtaggcatttccttcaatccccctgattttagtagagctttcaaagtcac Alignment from Pairagon GTACGCCGGCCTCATCATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGC-TGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC aactggatatgttgtgttaactattcggtaatctttttctttctttctag----------------CTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAGGCATCAAGGGAAAAACTTGCAAAGGTTAGGTGAAGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCAGAGCTAGAAGCgtaggcatttccttcaatccccctgattttagtagagctttcaaagtcac Alignment from Exonerate_protein2genome ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAG-CTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC aactggatatgttgtgttaactattcggtaatctttttctttctttctagCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAGGCATCAAGGGAAAAACTTGCAAAGGTTAGGTGAAGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCAGAGCTAGAAGCgtaggcatttccttcaatccccctgattttagtagagctttcaaagtcac Alignment from Exonerate_coding2genome ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAG-CTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC aactggatatgttgtgttaactattcggtaatctttttctttctttctagCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAGGCATCAAGGGAAAAACTTGCAAAGGTTAGGTGAAGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCAGAGCTAGAAGCgtaggcatttccttcaatccccctgattttagtagagctttcaaagtcac Alignment from GeneWise ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAG-CTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC aactggatatgttgtgttaactattcggtaatctttttctttctttctagCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAGGCATCAAGGGAAAAACTTGCAAAGGTTAGGTGAAGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCAGAGCTAGAAGCgtaggcatttccttcaatccccctgattttagtagagctttcaaagtcac #### Sptbn2_ID609_4 --> 0 - 2 Original Alignment ATCCAAGACATCAGTGTGGAGACAGAAGACAACAAGGAGAAGAAGTCAGCCAAG-GATGCCCTGCTGCTGTGGTGCCAGATGAAGACTGCAgg atggtacaaacactgtcagttcttaagagtctgttctcttttgctcttagATTCAAGACATCAGTGTGGAAACAGAAGATAATAAGGAGAAGAAGTCAACTAAACGATGTCCTGCTACTGTGGTGCCAAATGAAGACAGCTgggtcagtgacatgaccaaccagggttgggaatgcacacagatagggcctgt Alignment from CESAR ATCCAAGACATCAGTGTGGAGACAGAAGACAACAAGGAGAAGAAGTCAGCCAAG-GATGCCCTGCTGCTGTGGTGCCAGATGAAGACTGCAgg atggtacaaacactgtcagttcttaagagtctgttctcttttgctcttagATTCAAGACATCAGTGTGGAAACAGAAGATAATAAGGAGAAGAAGTCAACTAAACGATGTCCTGCTACTGTGGTGCCAAATGAAGACAGCTgggtcagtgacatgaccaaccagggttgggaatgcacacagatttttcctta Alignment from Spaln_aa2Genome ATCCAAGACATCAGTGTGGAGACAGAAGACAACAAGGAGAAGAAGTCAGCCAAG-GATGCCCTGCTGCTGTGGTGCCAGATGAAGACTGCAGG atggtacaaacactgtcagttcttaagagtctgttctcttttgctcttagATTCAAGACATCAGTGTGGAAACAGAAGATAATAAGGAGAAGAAGTCAACTAAAcGATGTCCTGCTACTGTGGTGCCAAATGAAGACAGCTGGgtcagtgacatgaccaaccagggttgggaatgcacacagatagggcctgt Alignment from Spaln_nt2Genome ATCCAAGACATCAGTGTGGAGACAGAAGACAACAAGGAGAAGAAGTCAGCCAAG-GATGCCCTGCTGCTGTGGTGCCAGATGAAGACTGCAGG atggtacaaacactgtcagttcttaagagtctgttctcttttgctcttagATTCAAGACATCAGTGTGGAAACAGAAGATAATAAGGAGAAGAAGTCAACTAAACGATGTCCTGCTACTGTGGTGCCAAATGAAGACAGCTGGgtcagtgacatgaccaaccagggttgggaatgcacacagatagggcctgt Alignment from Pairagon ATCCAAGACATCAGTGTGGAGACAGAAGACAACAAGGAGAAGAAGTCAGCCAAG-GATGCCCTGCTGCTGTGGTGCCAGATGAAGACTGCAGG atggtacaaacactgtcagttcttaagagtctgttctcttttgctcttagATTCAAGACATCAGTGTGGAAACAGAAGATAATAAGGAGAAGAAGTCAACTAAACGATGTCCTGCTACTGTGGTGCCAAATGAAGACAGCTGGgtcagtgacatgaccaaccagggttgggaatgcacacagatagggcctgt Alignment from Exonerate_protein2genome atggtacaaacactgtcagttcttaagagtctgttctcttttgctcttagattcaagacatcagtgtggaaacagaagataataaggagaagaagtcaactaaacgatgtcctgctactgtggtgccaaatgaagacagctgggtcagtgacatgaccaaccagggttgggaatgcacacagatagggcctgt Alignment from Exonerate_coding2genome atggtacaaacactgtcagttcttaagagtctgttctcttttgctcttagattcaagacatcagtgtggaaacagaagataataaggagaagaagtcaactaaacgatgtcctgctactgtggtgccaaatgaagacagctgggtcagtgacatgaccaaccagggttgggaatgcacacagatagggcctgt Alignment from GeneWise ATCCAAGACATCAGTGTGGAGACAGAAGACAACAAGGAGAAGAAGTCAGCC-AAGGATGCCCTGCTGCTGTGGTGCCAGATGAAGACTGCAGG atggtacaaacactgtcagttcttaagagtctgttctcttttgctcttagATTCAAGACATCAGTGTGGAAACAGAAGATAATAAGGAGAAGAAGTCAACTAAACGATGTCCTGCTACTGTGGTGCCAAATGAAGACAGCTGGgtcagtgacatgaccaaccagggttgggaatgcacacagatagggcctgt #### Sptbn2_ID610_5 --> 1 - 2 Original Alignment aTACCCCAATGTCAATGTGCACAACTTT-ACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACcg ccaaccagggttgggaatgcacacagatttttccttatatatttaaacaggTACCCCAATGTCAATGTGCATAACTTCCACCACCAGCTGGAGAGATGGGCTAGCCTTTAATGCCATCATACATAAACACcggtaggtgtgtgaggtcctagctcctgacttatgtatttgtacggaggtat Alignment from CESAR aTACCCCAATGTCAATGTGCACAACTTT-ACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACcg ccaaccagggttgggaatgcacacagatttttccttatatatttaaacaggTACCCCAATGTCAATGTGCATAACTTCCACCACCAGCTGGAGAGATGGGCTAGCCTTTAATGCCATCATACATAAACACcggtaggtgtgtgaggtcctagctcctgacttatgtatttgtacggaggtat Alignment from Spaln_aa2Genome ATACCCCAATGTCAATGTGCACAACTTT-ACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG ccaaccagggttgggaatgcacacagatttttccttatatatttaaacagGTACCCCAATGTCAATGTGCATAACTTCcACCACCAGCTGGAGAGATGGGCTAGCCTTTAATGCCATCATACATAAACACCGgtaggtgtgtgaggtcctagctcctgacttatgtatttgtacggaggtat Alignment from Spaln_nt2Genome ATACCCCAATGTCAATGTGCACAACTTT-ACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG ccaaccagggttgggaatgcacacagatttttccttatatatttaaacagGTACCCCAATGTCAATGTGCATAACTTCCACCACCAGCTGGAGAGATGGGCTAGCCTTTAATGCCATCATACATAAACACCGgtaggtgtgtgaggtcctagctcctgacttatgtatttgtacggaggtat Alignment from Pairagon ATACCCCAATGTCAATGTGCACAACTT-TACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG ccaaccagggttgggaatgcacacagatttttccttatatatttaaacagGTACCCCAATGTCAATGTGCATAACTTCCACCACCAGCTGGAGAGATGGGCTAGCCTTTAATGCCATCATACATAAACACCGgtaggtgtgtgaggtcctagctcctgacttatgtatttgtacggaggtat Alignment from Exonerate_protein2genome ccaaccagggttgggaatgcacacagatttttccttatatatttaaacaggtaccccaatgtcaatgtgcataacttccaccaccagctggagagatgggctagcctttaatgccatcatacataaacaccggtaggtgtgtgaggtcctagctcctgacttatgtatttgtacggaggtat Alignment from Exonerate_coding2genome ccaaccagggttgggaatgcacacagatttttccttatatatttaaacaggtaccccaatgtcaatgtgcataacttccaccaccagctggagagatgggctagcctttaatgccatcatacataaacaccggtaggtgtgtgaggtcctagctcctgacttatgtatttgtacggaggtat Alignment from GeneWise ATACCCCAATGTCAATGTGCACAACTTT-ACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG ccaaccagggttgggaatgcacacagatttttccttatatatttaaacagGTACCCCAATGTCAATGTGCATAACTTCCACCACCAGCTGGAGAGATGGGCTAGCCTTTAATGCCATCATACATAAACACCGgtaggtgtgtgaggtcctagctcctgacttatgtatttgtacggaggtat #### Sptbn2_ID638_33 --> 0 - 2 Original Alignment GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTG---CCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAA-GAGATGGAAGCCTTCAACAAGAAAGCTGCCAACag taaagcagaggagaataaaattagtagtaagaactgccttcctctcctagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACGCAAGGTCCGGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGAGAACAACGACATGGAAGCGTTGAACAAGAAAGCTGCAAATaggtaactatcgtacatactgatgccttttcctcactccccctagcctctaa Alignment from CESAR GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAA-GAGATGGAAGCCTTCAACAAGAAAGCTGCCAACag taaagcagaggagaataaaattagtagtaagaactgccttcctctcctagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACGCAAGGTCCGGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGAGAACAACGACATGGAAGCGTTGAACAAGAAAGCTGCAAATaggtaactatcgtacatactgatgccttttcctcactccccctagcctctaa Alignment from Spaln_aa2Genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAA-GAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG taaagcagaggagaataaaattagtagtaagaactgccttcctctcctagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACGCAAGGTCCGGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGAGAACAAcGACATGGAAGCGTTGAACAAGAAAGCTGCAAATAGgtaactatcgtacatactgatgccttttcctcactccccctagcctctaa Alignment from Spaln_nt2Genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTGC---CCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAA-GAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG taaagcagaggagaataaaattagtagtaagaactgccttcctctcctagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACGCAAGGTCCGGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGAGAACAACGACATGGAAGCGTTGAACAAGAAAGCTGCAAATAGgtaactatcgtacatactgatgccttttcctcactccccctagcctctaa Alignment from Pairagon GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAA-GAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG taaagcagaggagaataaaattagtagtaagaactgccttcctctcctagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACGCAAGGTCCGGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGAGAACAACGACATGGAAGCGTTGAACAAGAAAGCTGCAAATAGgtaactatcgtacatactgatgccttttcctcactccccctagcctctaa Alignment from Exonerate_protein2genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAA-GAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG taaagcagaggagaataaaattagtagtaagaactgccttcctctcctagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACGCAAGGTCCGGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGAGAACAACGACATGGAAGCGTTGAACAAGAAAGCTGCAAATAGgtaactatcgtacatactgatgccttttcctcactccccctagcctctaa Alignment from Exonerate_coding2genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAA-GAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG taaagcagaggagaataaaattagtagtaagaactgccttcctctcctagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACGCAAGGTCCGGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGAGAACAACGACATGGAAGCGTTGAACAAGAAAGCTGCAAATAGgtaactatcgtacatactgatgccttttcctcactccccctagcctctaa Alignment from GeneWise GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTG---CCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAA-GAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG taaagcagaggagaataaaattagtagtaagaactgccttcctctcctagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACGCAAGGTCCGGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGAGAACAACGACATGGAAGCGTTGAACAAGAAAGCTGCAAATAGgtaactatcgtacatactgatgccttttcctcactccccctagcctctaa #### Sptbn2_ID640_35 --> 1 - 0 Original Alignment cTTACAGGATGGCAAA-GAATACCTATTCCAGGCCAAGGACGAG gaaactgaaagagagatttgatgctgtgtcatatttaaaaccccaaccagaTTACAGGATGGTAAACGAATACCTATTCCAAGCCCAAGATGAGgtgggtcacttgctactacctgtggctttctttactaacagccagtcttc Alignment from CESAR cTTACAGGATGGCAAA-GAATACCTATTCCAGGCCAAGGACGAG gaaactgaaagagagatttgatgctgtgtcatatttaaaaccccaaccagaTTACAGGATGGTAAACGAATACCTATTCCAAGCCCAAGATGAGgtgggtcacttgctactacctgtggctttctttactaacagccagtcttc Alignment from Spaln_aa2Genome CTTACAGGATGGCAAA-GAATACCTATTCCAGGCCAAGGACGAG gaaactgaaagagagatttgatgctgtgtcatatttaaaaccccaaccagATTACAGGATGGTAAAcGAATACCTATTCCAAGCCCAAGATGAGgtgggtcacttgctactacctgtggctttctttactaacagccagtcttc Alignment from Spaln_nt2Genome CTTACAGGATGGCAAA-GAATACCTATTCCAGGCCAAGGACGAG gaaactgaaagagagatttgatgctgtgtcatatttaaaaccccaaccagATTACAGGATGGTAAACGAATACCTATTCCAAGCCCAAGATGAGgtgggtcacttgctactacctgtggctttctttactaacagccagtcttc Alignment from Pairagon CTTACAGGATGGCAAA-GAATACCTATTCCAGGCCAAGGACGAG gaaactgaaagagagatttgatgctgtgtcatatttaaaaccccaaccagATTACAGGATGGTAAACGAATACCTATTCCAAGCCCAAGATGAGgtgggtcacttgctactacctgtggctttctttactaacagccagtcttc Alignment from Exonerate_protein2genome CTTACAGGATGGCAAA-GAATACCTATTCCAGGCCAAGGACGAG gaaactgaaagagagatttgatgctgtgtcatatttaaaaccccaaccagATTACAGGATGGTAAACGAATACCTATTCCAAGCCCAAGATGAGgtgggtcacttgctactacctgtggctttctttactaacagccagtcttc Alignment from Exonerate_coding2genome gaaactgaaagagagatttgatgctgtgtcatatttaaaaccccaaccagattacaggatggtaaacgaatacctattccaagcccaagatgaggtgggtcacttgctactacctgtggctttctttactaacagccagtcttc Alignment from GeneWise -----CAGGATGGCAAAGAATACCTATTCCAGGCCAAGGACGAG gaaactgaaagagagatttgatgctgtgtcatatttaaaaccccaaccagATTACAGGATGGTAAACGAATACCTATTCCAAGCCCAAGATGAGgtgggtcacttgctactacctgtggctttctttactaacagccagtcttc #### Ssh3_ID447_9 --> 0 - 0 Original Alignment ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTT-ATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGC atctctatcagcgataatacacttagacctctgttctctgactcttccagCTCCATCGAGCCTTAGAACTACACCTTGGATGTCCTTTA------TATCGTGACTTTCATTGATAATCAGATGTTGCTTCTTATGGCCCACCAGGATCAGACATCTCGAATCTACCCACACCTCTACTTAgtaaggggtcctttattcattcttctctgggctgtgctgttttgtagGGC Alignment from CESAR ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTT-ATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGC atctctatcagcgataatacacttagacctctgttctctgactcttccagCTCCATCGAGCCTTAGAACTACACCTTGGATGTCCTTTA------TATCGTGACTTTCATTGATAATCAGATGTTGCTTCTTATGGCCCACCAGGATCAGACATCTCGAATCTACCCACACCTCTACTTAgtaaggggtcctttattcattcttcaactattatcttctccatgcagGGC Alignment from Spaln_aa2Genome ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGAC-TTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG------GGCTCTGAGTGGAATGCTGCCAACCTGGA atctctatcagcgataatacacttagacctctgttctctgactcttccagCTCCATCGAGCCTTAGAACTACACCTTGGATGTCCTTTA------TATCGTGACtTTCATTGATAATCAGATGTTGCTTCTTATGGCCCACCAGGATCAGACATCTCGAATCTACCCACACCTCTACTTAGTAAGGGGTCCTTTATTCATTCTTCTCTGGGCTGTgctgttttgtagggc Alignment from Spaln_nt2Genome ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTT-ATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGC atctctatcagcgataatacacttagacctctgttctctgactcttccagCTCCATCGAGCCTTAGAACTACACCTTGGATGTCCTTT------ATATCGTGACTTTCATTGATAATCAGATGTTGCTTCTTATGGCCCACCAGGATCAGACATCTCGAATCTACCCACACCTCTACTTAgtaaggggtcctttattcattcttctctgggctgtgctgttttgtagGGC Alignment from Pairagon ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTT-ATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGC atctctatcagcgataatacacttagacctctgttctctgactcttccagCTCCATCGAGCCTTAGAACTACACCTTGGATGTCCTTT------ATATCGTGACTTTCATTGATAATCAGATGTTGCTTCTTATGGCCCACCAGGATCAGACATCTCGAATCTACCCACACCTCTACTTAgtaaggggtcctttattcattcttctctgggctgtgctgttttgtagGGC Alignment from Exonerate_protein2genome ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGAC-TTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGC atctctatcagcgataatacacttagacctctgttctctgactcttccagCTCCATCGAGCCTTAGAACTACACCTTGGATGTCCTTTA------TATCGTGACTTTCATTGATAATCAGATGTTGCTTCTTATGGCCCACCAGGATCAGACATCTCGAATCTACCCACACCTCTACTTAgtaaggggtcctttattcattcttctctgggctgtgctgttttgtagGGC Alignment from Exonerate_coding2genome GGC atctctatcagcgataatacacttagacctctgttctctgactcttccagctccatcgagccttagaactacaccttggatgtcctttatatcgtgactttcattgataatcagatgttgcttcttatggcccaccaggatcagacatctcgaatctacccacacctctacttagtaaggggtcctttattcattcttctctgggctgtgctgttttgtagGGC Alignment from GeneWise ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTT-ATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGC atctctatcagcgataatacacttagacctctgttctctgactcttccagCTCCATCGAGCCTTAGAACTACACCTTGGATGTCCTTTA------TATCGTGACTTTCATTGATAATCAGATGTTGCTTCTTATGGCCCACCAGGATCAGACATCTCGAATCTACCCACACCTCTACTTAgtaaggggtcctttattcattcttctctgggctgtgctgttttgtagGGC #### Ssh3_ID448_8 --> 1 - 0 Original Alignment gGCTTCAGAGCAGGAAAAG-ATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG cgtgtttgctgctactaactaacaggtaactcagacttttcatgttttaggGCCTCAGAGCAGGAGAAGCACAGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTTAGATACTAGTGATCTAGAAAGTGTTACTTCCAAAGAGgtaaaaataaagcagggtagctgccaattgttcctatctgacgcccccca Alignment from CESAR gGCTTCAGAGCAGGAAAAG-ATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG cgtgtttgctgctactaactaacaggtaactcagacttttcatgttttaggGCCTCAGAGCAGGAGAAGCACAGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTTAGATACTAGTGATCTAGAAAGTGTTACTTCCAAAGAGgtaaaaataaagcagggtagctgccaattgttcctatctgacgcccccca Alignment from Spaln_aa2Genome GAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG cgtgtttgctgctactaactaacaggtaactcagacttttcatgttttagggcctcagAGCAGGAGAAGCACAGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTTAGATACTAGTGATCTAGAAAGTGTTACTTCCAAAGAGgtaaaaataaagcagggtagctgccaattgttcctatctgacgcccccca Alignment from Spaln_nt2Genome GGCTTCAGAGCAGGAAAAG-ATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG cgtgtttgctgctactaactaacaggtaactcagacttttcatgttttagGGCCTCAGAGCAGGAGAAGCACAGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTTAGATACTAGTGATCTAGAAAGTGTTACTTCCAAAGAGgtaaaaataaagcagggtagctgccaattgttcctatctgacgcccccca Alignment from Pairagon GGCTTCAGAGCAGGAAAAG-ATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG cgtgtttgctgctactaactaacaggtaactcagacttttcatgttttagGGCCTCAGAGCAGGAGAAGCACAGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTTAGATACTAGTGATCTAGAAAGTGTTACTTCCAAAGAGgtaaaaataaagcagggtagctgccaattgttcctatctgacgcccccca Alignment from Exonerate_protein2genome GGCTTCAGAGCAGGAAAAG-ATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG cgtgtttgctgctactaactaacaggtaactcagacttttcatgttttagGGCCTCAGAGCAGGAGAAGCACAGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTTAGATACTAGTGATCTAGAAAGTGTTACTTCCAAAGAGgtaaaaataaagcagggtagctgccaattgttcctatctgacgcccccca Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG cgtgtttgctgctactaactaacaggtaactcagacttttcatgttttagggcctcagagCAGGAGAAGCACAGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTTAGATACTAGTGATCTAGAAAGTGTTACTTCCAAAGAGgtaaaaataaagcagggtagctgccaattgttcctatctgacgcccccca #### Stambpl1_ID6902_9 --> 1 - 0 Original Alignment cACCGGCATTTTCAGGCTCACCAACGCT-GGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tgttcctgactggttccttctgatgtgccaacatctcgttcttttcatagcACTGGTATCTTCAGGCTCACCAACGCTCGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAAGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtgcggagacaccatgggaataggaatgggaagatgttcaatcatataaa Alignment from CESAR cACCGGCATTTTCAGGCTCACCAACGCT-GGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tgttcctgactggttccttctgatgtgccaacatctcgttcttttcatagcACTGGTATCTTCAGGCTCACCAACGCTCGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAAGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtgcggagacaccatgggaataggaatgggaagatgttcaatcatataaa Alignment from Spaln_aa2Genome CACCGGCATTTTCAGGCTCACCAACGCT-GGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tgttcctgactggttccttctgatgtgccaacatctcgttcttttcatagCACTGGTATCTTCAGGCTCACCAACGCTcGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAAGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtgcggagacaccatgggaataggaatgggaagatgttcaatcatataaa Alignment from Spaln_nt2Genome CACCGGCATTTTCAGGCTCACCAACGCT-GGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tgttcctgactggttccttctgatgtgccaacatctcgttcttttcatagCACTGGTATCTTCAGGCTCACCAACGCTCGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAAGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtgcggagacaccatgggaataggaatgggaagatgttcaatcatataaa Alignment from Pairagon CACCGGCATTTTCAGGCTCACCAACGCT-GGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tgttcctgactggttccttctgatgtgccaacatctcgttcttttcatagCACTGGTATCTTCAGGCTCACCAACGCTCGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAAGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtgcggagacaccatgggaataggaatgggaagatgttcaatcatataaa Alignment from Exonerate_protein2genome CACCGGCATTTTCAGGCTCACCAACGCT-GGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tgttcctgactggttccttctgatgtgccaacatctcgttcttttcatagCACTGGTATCTTCAGGCTCACCAACGCTCGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAAGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtgcggagacaccatgggaataggaatgggaagatgttcaatcatataaa Alignment from Exonerate_coding2genome CACCGGCATTTTCAGGCTCACCAACGCT-GGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tgttcctgactggttccttctgatgtgccaacatctcgttcttttcatagCACTGGTATCTTCAGGCTCACCAACGCTCGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAAGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtgcggagacaccatgggaataggaatgggaagatgttcaatcatataaa Alignment from GeneWise CACCGGCATTTTCAGGCTCACCAAC-GCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tgttcctgactggttccttctgatgtgccaacatctcgttcttttcatagCACTGGTATCTTCAGGCTCACCAACGCTCGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAAGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtgcggagacaccatgggaataggaatgggaagatgttcaatcatataaa #### Stip1_ID1994_7 --> 2 - 2 Original Alignment ctGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGAC-TACCGGCAGATCGCCaa gttaatttgtctggcttttttatctaactgtgttgactgggcttttctagctGTTCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAAAAGGCTATAGAGGTTGGAAGAGAGAACCGAGAGGATCTACCGGCAAATTGCTaagtgagccatcaaattcggaggcttaggcaaggcacctttcttactgccta Alignment from CESAR ctGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGAC-TACCGGCAGATCGCCaa gttaatttgtctggcttttttatctaactgtgttgactgggcttttctagctGTTCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAAAAGGCTATAGAGGTTGGAAGAGAGAACCGAGAGGATCTACCGGCAAATTGCTaagtgagccatcaaattcggaggcttaggcaaggcacctttcttactgccta Alignment from Spaln_aa2Genome CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGAC-TACCGGCAGATCGCCAA gttaatttgtctggcttttttatctaactgtgttgactgggcttttctagCTGTTCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAAAAGGCTATAGAGGTTGGAAGAGAGAACCGAGAGGATcTACCGGCAAATTGCTAAgtgagccatcaaattcggaggcttaggcaaggcacctttcttactgccta Alignment from Spaln_nt2Genome CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGA-CTACCGGCAGATCGCCAA gttaatttgtctggcttttttatctaactgtgttgactgggcttttctagCTGTTCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAAAAGGCTATAGAGGTTGGAAGAGAGAACCGAGAGGATCTACCGGCAAATTGCTAAgtgagccatcaaattcggaggcttaggcaaggcacctttcttactgccta Alignment from Pairagon CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGA-CTACCGGCAGATCGCCAA gttaatttgtctggcttttttatctaactgtgttgactgggcttttctagCTGTTCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAAAAGGCTATAGAGGTTGGAAGAGAGAACCGAGAGGATCTACCGGCAAATTGCTAAgtgagccatcaaattcggaggcttaggcaaggcacctttcttactgccta Alignment from Exonerate_protein2genome CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGAC-TACCGGCAGATCGCCAA gttaatttgtctggcttttttatctaactgtgttgactgggcttttctagCTGTTCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAAAAGGCTATAGAGGTTGGAAGAGAGAACCGAGAGGATCTACCGGCAAATTGCTAAgtgagccatcaaattcggaggcttaggcaaggcacctttcttactgccta Alignment from Exonerate_coding2genome CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGAC-TACCGGCAGATCGCCAA gttaatttgtctggcttttttatctaactgtgttgactgggcttttctagCTGTTCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAAAAGGCTATAGAGGTTGGAAGAGAGAACCGAGAGGATCTACCGGCAAATTGCTAAgtgagccatcaaattcggaggcttaggcaaggcacctttcttactgccta Alignment from GeneWise -------------------------------------------------GCTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAG-GACTACCGGCAGATCGCCAA GTTAATTTGTCTGGCTTTTTTATCTAACTGTGTTGACTGGGCTTTTCTAGCTGTTCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAAAAGGCTATAGAGGTTGGAAGAGAGAACCGAGAGGATCTACCGGCAAATTGCTAAgtgagccatcaaattcggaggcttaggcaaggcacctttcttactgccta #### Stx3_ID3299_7 --> 2 - 0 Original Alignment ctGGCAAGAAGACAACAGAT-GAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agtaaaccagactctccttcttcctaaattttgtttttatctcctttcagctGGCAAAAAGACAACAGATCGAAGAGCTAGAGGAGATGTTAGAGAGTAGTAACCCAGCCATCTTTACTTCTGGGgtaggttacatatgtgcttggttatagtccaggtatcaagtatattgcca Alignment from CESAR ctGGCAAGAAGACAACAGAT-GAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agtaaaccagactctccttcttcctaaattttgtttttatctcctttcagctGGCAAAAAGACAACAGATCGAAGAGCTAGAGGAGATGTTAGAGAGTAGTAACCCAGCCATCTTTACTTCTGGGgtaggttacatatgtgcttggttatagtccaggtatcaagtatattgcca Alignment from Spaln_aa2Genome CTGGCAAGAAGACAACAGAT-GAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agtaaaccagactctccttcttcctaaattttgtttttatctcctttcagCTGGCAAAAAGACAACAGATcGAAGAGCTAGAGGAGATGTTAGAGAGTAGTAACCCAGCCATCTTTACTTCTGGGgtaggttacatatgtgcttggttatagtccaggtatcaagtatattgcca Alignment from Spaln_nt2Genome CTGGCAAGAAGACAACAGAT-GAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agtaaaccagactctccttcttcctaaattttgtttttatctcctttcagCTGGCAAAAAGACAACAGATCGAAGAGCTAGAGGAGATGTTAGAGAGTAGTAACCCAGCCATCTTTACTTCTGGGgtaggttacatatgtgcttggttatagtccaggtatcaagtatattgcca Alignment from Pairagon CTGGCAAGAAGACAACAGAT-GAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agtaaaccagactctccttcttcctaaattttgtttttatctcctttcagCTGGCAAAAAGACAACAGATCGAAGAGCTAGAGGAGATGTTAGAGAGTAGTAACCCAGCCATCTTTACTTCTGGGgtaggttacatatgtgcttggttatagtccaggtatcaagtatattgcca Alignment from Exonerate_protein2genome CTGGCAAGAAGACAACAGAT-GAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agtaaaccagactctccttcttcctaaattttgtttttatctcctttcagCTGGCAAAAAGACAACAGATCGAAGAGCTAGAGGAGATGTTAGAGAGTAGTAACCCAGCCATCTTTACTTCTGGGgtaggttacatatgtgcttggttatagtccaggtatcaagtatattgcca Alignment from Exonerate_coding2genome CTGGCAAGAAGACAACAGAT-GAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agtaaaccagactctccttcttcctaaattttgtttttatctcctttcagCTGGCAAAAAGACAACAGATCGAAGAGCTAGAGGAGATGTTAGAGAGTAGTAACCCAGCCATCTTTACTTCTGGGgtaggttacatatgtgcttggttatagtccaggtatcaagtatattgcca Alignment from GeneWise CTGGCAAGAAGACAACAGAT-GAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agtaaaccagactctccttcttcctaaattttgtttttatctcctttcagCTGGCAAAAAGACAACAGATCGAAGAGCTAGAGGAGATGTTAGAGAGTAGTAACCCAGCCATCTTTACTTCTGGGgtaggttacatatgtgcttggttatagtccaggtatcaagtatattgcca #### Stx5a_ID2330_2 --> 0 - 2 Original Alignment AATGGAATCCAAACA-AGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCag ggggggctcaaagatgactgactatatcgatagtctttcatctcttgcagAATGGAATCCAAACACACCAAA---CCTCTTCATGCAGCCCGTCAGTGCAGTGAACTTACCCTTATGGCTaggtaagttgtaggtgtcttgatgggtggactttttgtaatatgtagagtca Alignment from CESAR AATGGAATCCAAACA-AGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCag ggggggctcaaagatgactgactatatcgatagtctttcatctcttgcagAATGGAATCCAAACACACCAAACCT---CTTCATGCAGCCCGTCAGTGCAGTGAACTTACCCTTATGGCTaggtaagttgtaggtgtcttgatgggtggactttttgtaatatgtagagtca Alignment from Spaln_aa2Genome AATGGAATCCAAACA-AGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCAG ggggggctcaaagatgactgactatatcgatagtctttcatctcttgcagAATGGAATCCAAACAcACCAAACCT---CTTCATGCAGCCCGTCAGTGCAGTGAACTTACCCTTATGGCTAGgtaagttgtaggtgtcttgatgggtggactttttgtaatatgtagagtca Alignment from Spaln_nt2Genome AATGGAATCCAAACAAGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCAG ggggggctcaaagatgactgactatatcgatagtctttcatctcttgcagAATGGAATCCAAACACACCAAAC--CTCTTCATGCAGCCCGTCAGTGCAGTGAACTTACCCTTATGGCTAGgtaagttgtaggtgtcttgatgggtggactttttgtaatatgtagagtca Alignment from Pairagon AATGGAATCCAAACA-AGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCAG ggggggctcaaagatgactgactatatcgatagtctttcatctcttgcagAATGGAATCCAAACACACCAAAC---CTCTTCATGCAGCCCGTCAGTGCAGTGAACTTACCCTTATGGCTAGgtaagttgtaggtgtcttgatgggtggactttttgtaatatgtagagtca Alignment from Exonerate_protein2genome AATGGAATCCAAACA-AGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCAG ggggggctcaaagatgactgactatatcgatagtctttcatctcttgcagAATGGAATCCAAACACACCAAACCT---CTTCATGCAGCCCGTCAGTGCAGTGAACTTACCCTTATGGCTAGgtaagttgtaggtgtcttgatgggtggactttttgtaatatgtagagtca Alignment from Exonerate_coding2genome AATGGAATCCAAACA-AGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCAG ggggggctcaaagatgactgactatatcgatagtctttcatctcttgcagAATGGAATCCAAACACACCAAACCT---CTTCATGCAGCCCGTCAGTGCAGTGAACTTACCCTTATGGCTAGgtaagttgtaggtgtcttgatgggtggactttttgtaatatgtagagtca Alignment from GeneWise AATGGAATCCAAACA-AGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCAG ggggggctcaaagatgactgactatatcgatagtctttcatctcttgcagAATGGAATCCAAACACACCAAACCT---CTTCATGCAGCCCGTCAGTGCAGTGAACTTACCCTTATGGCTAGgtaagttgtaggtgtcttgatgggtggactttttgtaatatgtagagtca #### Suv420h1_ID146_8 --> 0 - 2 Original Alignment TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAAT-GAGTTCTGCGAATGTTATACTTGTGAAag tatttggcctgcttaaagtcaatggttacctgttgttttaccttgtttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAATCGAGTTCTGTGAGTGTTATACTTGTGAAaggtgagtacctaagccctatacctaacttccatggaggagtatttattgtg Alignment from CESAR TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAAT-GAGTTCTGCGAATGTTATACTTGTGAAag tatttggcctgcttaaagtcaatggttacctgttgttttaccttgtttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAATCGAGTTCTGTGAGTGTTATACTTGTGAAaggtgagtacctaagccctatacctaacttccatggaggagtatttattgtg Alignment from Spaln_aa2Genome TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAAT-GAGTTCTGCGAATGTTATACTTGTGAAAG tatttggcctgcttaaagtcaatggttacctgttgttttaccttgtttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAATcGAGTTCTGTGAGTGTTATACTTGTGAAAGgtgagtacctaagccctatacctaacttccatggaggagtatttattgtg Alignment from Spaln_nt2Genome TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAAT-GAGTTCTGCGAATGTTATACTTGTGAAAG tatttggcctgcttaaagtcaatggttacctgttgttttaccttgtttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAATCGAGTTCTGTGAGTGTTATACTTGTGAAAGgtgagtacctaagccctatacctaacttccatggaggagtatttattgtg Alignment from Pairagon TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAAT-GAGTTCTGCGAATGTTATACTTGTGAAAG tatttggcctgcttaaagtcaatggttacctgttgttttaccttgtttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAATCGAGTTCTGTGAGTGTTATACTTGTGAAAGgtgagtacctaagccctatacctaacttccatggaggagtatttattgtg Alignment from Exonerate_protein2genome TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAAT-GAGTTCTGCGAATGTTATACTTGTGAAAG tatttggcctgcttaaagtcaatggttacctgttgttttaccttgtttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAATCGAGTTCTGTGAGTGTTATACTTGTGAAAGgtgagtacctaagccctatacctaacttccatggaggagtatttattgtg Alignment from Exonerate_coding2genome GTAAGTTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAAT-GAGTTCTGCGAATGTTATACTTGTGAAAG tatttggcctgcttaaagtcaatggttacctgttgttttaccttgTTTAGTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAATCGAGTTCTGTGAGTGTTATACTTGTGAAAGgtgagtacctaagccctatacctaacttccatggaggagtatttattgtg Alignment from GeneWise TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAAT-GAGTTCTGCGAATGTTATACTTGTGAAAG tatttggcctgcttaaagtcaatggttacctgttgttttaccttgtttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAATCGAGTTCTGTGAGTGTTATACTTGTGAAAGgtgagtacctaagccctatacctaacttccatggaggagtatttattgtg #### Syvn1_ID1383_2 --> 0 - 0 Original Alignment GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTC-CTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG agacagaaattggcagtacccttaaacgtaaagtttttttccctttgcagGTCCTGTACATACAGGCCTTTGTTCTTGTCTTCCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGCACCAGAGATGGAAgtaagaaaggtccagcagttagggcaaggcttcttaattgcaatgctggc Alignment from CESAR GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTC-CTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG agacagaaattggcagtacccttaaacgtaaagtttttttccctttgcagGTCCTGTACATACAGGCCTTTGTTCTTGTCTTCCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGCACCAGAGATGGAAgtaagaaaggtccagcagttagggcaaggcttcttaattgcaatgctggc Alignment from Spaln_aa2Genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTC-CTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG agacagaaattggcagtacccttaaacgtaaagtttttttccctttgcagGTCCTGTACATACAGGCCTTTGTTCTTGTCTTCcCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGCACCAGAGATGGAAgtaagaaaggtccagcagttagggcaaggcttcttaattgcaatgctggc Alignment from Spaln_nt2Genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCC-TCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG agacagaaattggcagtacccttaaacgtaaagtttttttccctttgcagGTCCTGTACATACAGGCCTTTGTTCTTGTCTTCCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGCACCAGAGATGGAAgtaagaaaggtccagcagttagggcaaggcttcttaattgcaatgctggc Alignment from Pairagon GTCCTGTACATCCAGGCCTTTGTCCTTGTCTT-CCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG agacagaaattggcagtacccttaaacgtaaagtttttttccctttgcagGTCCTGTACATACAGGCCTTTGTTCTTGTCTTCCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGCACCAGAGATGGAAgtaagaaaggtccagcagttagggcaaggcttcttaattgcaatgctggc Alignment from Exonerate_protein2genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTC-CTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG agacagaaattggcagtacccttaaacgtaaagtttttttccctttgcagGTCCTGTACATACAGGCCTTTGTTCTTGTCTTCCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGCACCAGAGATGGAAgtaagaaaggtccagcagttagggcaaggcttcttaattgcaatgctggc Alignment from Exonerate_coding2genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTC-CTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG agacagaaattggcagtacccttaaacgtaaagtttttttccctttgcagGTCCTGTACATACAGGCCTTTGTTCTTGTCTTCCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGCACCAGAGATGGAAgtaagaaaggtccagcagttagggcaaggcttcttaattgcaatgctggc Alignment from GeneWise GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTC-CTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG agacagaaattggcagtacccttaaacgtaaagtttttttccctttgcagGTCCTGTACATACAGGCCTTTGTTCTTGTCTTCCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGCACCAGAGATGGAAgtaagaaaggtccagcagttagggcaaggcttcttaattgcaatgctggc #### Syvn1_ID1388_7 --> 2 - 2 Original Alignment gcTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATG-TACCTGGCCATGag ggtgcatcttccaaccttgcacttggggaaatgccacctctgttttctaggcTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACTTTTCCACTGTTTGCCATTAAGCCCATGCTACCTGGCCATGaggtcagttaggcctcacatttgttagtttgtcactttgatttttgtcttcc Alignment from CESAR gcTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATG-TACCTGGCCATGag ggtgcatcttccaaccttgcacttggggaaatgccacctctgttttctaggcTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACTTTTCCACTGTTTGCCATTAAGCCCATGCTACCTGGCCATGaggtcagttaggcctcacatttgttagtttgtcactttgatttttgtcttcc Alignment from Spaln_aa2Genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATG-TACCTGGCCATGAG ggtgcatcttccaaccttgcacttggggaaatgccacctctgttttctagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACTTTTCCACTGTTTGCCATTAAGCCCATGcTACCTGGCCATGAGgtcagttaggcctcacatttgttagtttgtcactttgatttttgtcttcc Alignment from Spaln_nt2Genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATG-TACCTGGCCATGAG ggtgcatcttccaaccttgcacttggggaaatgccacctctgttttctagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACTTTTCCACTGTTTGCCATTAAGCCCATGCTACCTGGCCATGAGgtcagttaggcctcacatttgttagtttgtcactttgatttttgtcttcc Alignment from Pairagon GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATG-TACCTGGCCATGAG ggtgcatcttccaaccttgcacttggggaaatgccacctctgttttctagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACTTTTCCACTGTTTGCCATTAAGCCCATGCTACCTGGCCATGAGgtcagttaggcctcacatttgttagtttgtcactttgatttttgtcttcc Alignment from Exonerate_protein2genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATG-TACCTGGCCATGAG ggtgcatcttccaaccttgcacttggggaaatgccacctctgttttctagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACTTTTCCACTGTTTGCCATTAAGCCCATGCTACCTGGCCATGAGgtcagttaggcctcacatttgttagtttgtcactttgatttttgtcttcc Alignment from Exonerate_coding2genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATG-TACCTGGCCATGAG ggtgcatcttccaaccttgcacttggggaaatgccacctctgttttctagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACTTTTCCACTGTTTGCCATTAAGCCCATGCTACCTGGCCATGAGgtcagttaggcctcacatttgttagtttgtcactttgatttttgtcttcc Alignment from GeneWise GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATG------------------- ggtgcatcttccaaccttgcacttggggaaatgccacctctgttttctagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACTTTTCCACTGTTTGCCATTAAGCCCATGCTACCTGGCCATGAGGTCAgttaggcctcacatttgttagtttgtcactttgatttttgtcttcc #### Syvn1_ID1392_11 --> 2 - 1 Original Alignment tcCCCCAGGGCCTCCTGCCTCCTTTTCCT-CCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAg ggttgtactgacagctgtgccttgtcctctgctttcttgttcctccgtagtcCCCCAGGGCCTCCTGTCATCTTTTCCTCCCAGGCATGTTCCTGCTATGGCCCCCAATGGGTCCCTTTCCACCTGTCCCACCTCCCCCGAGCTCTGGAAAGGCTGCTGCTGCTCCACCCACAAGTACCggtatgtgtgtgtaagccagagtgattttgagagcactggacaggcacgga Alignment from CESAR tcCCCCAGGGCCTCCTGCCTCCTTTTCCT-CCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAg ggttgtactgacagctgtgccttgtcctctgctttcttgttcctccgtagtcCCCCAGGGCCTCCTGTCATCTTTTCCTCCCAGGCATGTTCCTGCTATGGCCCCCAATGGGTCCCTTTCCACCTGTCCCACCTCCCCCGAGCTCTGGAAAGGCTGCTGCTGCTCCACCCACAAGTACCggtatgtgtgtgtaagccagagtgattttgagagcactggacaggcacgga Alignment from Spaln_aa2Genome TCCCCCAGGGCCTCCTGCCTCCTTTTCCT-CCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG ggttgtactgacagctgtgccttgtcctctgctttcttgttcctccgtagTCCCCCAGGGCCTCCTGTCATCTTTTCCTcCCAGGCATGTTCCTGCTATGGCCCCCAATGGGTCCCTTTCCACCTGTCCCACCTCCCCCGAGCTCTGGAAAGGCTGCTGCTGCTCCACCCACAAGTACCGgtatgtgtgtgtaagccagagtgattttgagagcactggacaggcacgga Alignment from Spaln_nt2Genome TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCC-AGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG ggttgtactgacagctgtgccttgtcctctgctttcttgttcctccgtagTCCCCCAGGGCCTCCTGTCATCTTTTCCTCCCAGGCATGTTCCTGCTATGGCCCCCAATGGGTCCCTTTCCACCTGTCCCACCTCCCCCGAGCTCTGGAAAGGCTGCTGCTGCTCCACCCACAAGTACCGgtatgtgtgtgtaagccagagtgattttgagagcactggacaggcacgga Alignment from Pairagon TCCCCCAGGGCCTCCTGCCTCCTTTTCCT-CCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG ggttgtactgacagctgtgccttgtcctctgctttcttgttcctccgtagTCCCCCAGGGCCTCCTGTCATCTTTTCCTCCCAGGCATGTTCCTGCTATGGCCCCCAATGGGTCCCTTTCCACCTGTCCCACCTCCCCCGAGCTCTGGAAAGGCTGCTGCTGCTCCACCCACAAGTACCGgtatgtgtgtgtaagccagagtgattttgagagcactggacaggcacgga Alignment from Exonerate_protein2genome TCCCCCAGGGCCTCCTGCCTCCTTTTCCT-CCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG ggttgtactgacagctgtgccttgtcctctgctttcttgttcctccgtagTCCCCCAGGGCCTCCTGTCATCTTTTCCTCCCAGGCATGTTCCTGCTATGGCCCCCAATGGGTCCCTTTCCACCTGTCCCACCTCCCCCGAGCTCTGGAAAGGCTGCTGCTGCTCCACCCACAAGTACCGgtatgtgtgtgtaagccagagtgattttgagagcactggacaggcacgga Alignment from Exonerate_coding2genome TCCCCCAGGGCCTCCTGCCTCCTTTTCCT-CCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG ggttgtactgacagctgtgccttgtcctctgctttcttgttcctccgtagTCCCCCAGGGCCTCCTGTCATCTTTTCCTCCCAGGCATGTTCCTGCTATGGCCCCCAATGGGTCCCTTTCCACCTGTCCCACCTCCCCCGAGCTCTGGAAAGGCTGCTGCTGCTCCACCCACAAGTACCGgtatgtgtgtgtaagccagagtgattttgagagcactggacaggcacgga Alignment from GeneWise TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCA-GGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG ggttgtactgacagctgtgccttgtcctctgctttcttgttcctccgtagTCCCCCAGGGCCTCCTGTCATCTTTTCCTCCCAGGCATGTTCCTGCTATGGCCCCCAATGGGTCCCTTTCCACCTGTCCCACCTCCCCCGAGCTCTGGAAAGGCTGCTGCTGCTCCACCCACAAGTACCGgtatgtgtgtgtaagccagagtgattttgagagcactggacaggcacgga #### Syvn1_ID1393_12 --> 2 - 1 Original Alignment ccGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGC-ACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTg gaaattgactcacttccaatttaccttgcagagaaccttctgaattccagctGTCTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCTGGCCCCGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCTACCTCCACCATTTggtaagctgcctgtcaccctactctctttggaatgatgcccaatactaaac Alignment from CESAR ccGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGC-ACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTg gaaattgactcacttccaatttaccttgcagagaaccttctgaattccagctGTCTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCTGGCCCCGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCTACCTCCACCATTTggtaagctgcctgtcaccctactctctttggaatgatgcccaatactaaac Alignment from Spaln_aa2Genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCT-GGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG gaaattgactcacttccaatttaccttgcagagaaccttctgaattccagCTGTCTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCaGCCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCTGGCCCCGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCTACCTCCACCATTTGgtaagctgcctgtcaccctactctctttggaatgatgcccaatactaaac Alignment from Spaln_nt2Genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAG-TACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG gaaattgactcacttccaatttaccttgcagagaaccttctgaattccagCTGTCTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCTGGCCCCGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCTACCTCCACCATTTGgtaagctgcctgtcaccctactctctttggaatgatgcccaatactaaac Alignment from Pairagon CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGG-CACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG gaaattgactcacttccaatttaccttgcagagaaccttctgaattccagCTGTCTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCTGGCCCCGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCTACCTCCACCATTTGgtaagctgcctgtcaccctactctctttggaatgatgcccaatactaaac Alignment from Exonerate_protein2genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCT-GGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG gaaattgactcacttccaatttaccttgcagagaaccttctgaattccagCTGTCTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCTGGCCCCGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCTACCTCCACCATTTGgtaagctgcctgtcaccctactctctttggaatgatgcccaatactaaac Alignment from Exonerate_coding2genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCT-GGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG gaaattgactcacttccaatttaccttgcagagaaccttctgaattccagCTGTCTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCTGGCCCCGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCTACCTCCACCATTTGgtaagctgcctgtcaccctactctctttggaatgatgcccaatactaaac Alignment from GeneWise CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCT-GGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG gaaattgactcacttccaatttaccttgcagagaaccttctgaattccagCTGTCTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCTGGCCCCGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCTACCTCCACCATTTGgtaagctgcctgtcaccctactctctttggaatgatgcccaatactaaac #### Taf5_ID10102_10 --> 0 - 1 Original Alignment GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTG-GCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAg tattgcatgccaatacactacaaatccatggaaaaagaactttctttcagGGCCCAATTCATTCTTTGACATTTTCTCCCAATGGGAGGTTCCTACGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACATGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGAAATTTTGGCGTCAggtaagccctgtagtgacctcataacagtgcccacgaattctttgtgtctt Alignment from CESAR GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTG-GCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAg tattgcatgccaatacactacaaatccatggaaaaagaactttctttcagGGCCCAATTCATTCTTTGACATTTTCTCCCAATGGGAGGTTCCTACGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACATGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGAAATTTTGGCGTCAggtaagccctgtagtgacctcataacagtgcccaccgattctgtctgcttc Alignment from Spaln_aa2Genome GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTG-GCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG tattgcatgccaatacactacaaatccatggaaaaagaactttctttcagGGCCCAATTCATTCTTTGACATTTTCTCCCAATGGGAGGTTCCTAcGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACATGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGAAATTTTGGCGTCAGgtaagccctgtagtgacctcataacagtgcccacgaattctttgtgtctt Alignment from Spaln_nt2Genome GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTG-GCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG tattgcatgccaatacactacaaatccatggaaaaagaactttctttcagGGCCCAATTCATTCTTTGACATTTTCTCCCAATGGGAGGTTCCTACGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACATGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGAAATTTTGGCGTCAGgtaagccctgtagtgacctcataacagtgcccacgaattctttgtgtctt Alignment from Pairagon GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTG-GCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAGGT------------------------------------------------ tattgcatgccaatacactacaaatccatggaaaaagaactttctttcagGGCCCAATTCATTCTTTGACATTTTCTCCCAATGGGAGGTTCCTACGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACATGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGAAATTTTGGCGTCAGGTAAGCCCTGTAGTGACCTCATAACAGTGCCCACGAATTCTTTGTGTCTT Alignment from Exonerate_protein2genome GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTG-GCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG tattgcatgccaatacactacaaatccatggaaaaagaactttctttcagGGCCCAATTCATTCTTTGACATTTTCTCCCAATGGGAGGTTCCTACGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACATGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGAAATTTTGGCGTCAGgtaagccctgtagtgacctcataacagtgcccacgaattctttgtgtctt Alignment from Exonerate_coding2genome GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTG-GCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG tattgcatgccaatacactacaaatccatggaaaaagaactttctttcagGGCCCAATTCATTCTTTGACATTTTCTCCCAATGGGAGGTTCCTACGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACATGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGAAATTTTGGCGTCAGgtaagccctgtagtgacctcataacagtgcccacgaattctttgtgtctt Alignment from GeneWise GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTG-GCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG tattgcatgccaatacactacaaatccatggaaaaagaactttctttcagGGCCCAATTCATTCTTTGACATTTTCTCCCAATGGGAGGTTCCTACGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACATGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGAAATTTTGGCGTCAGgtaagccctgtagtgacctcataacagtgcccacgaattctttgtgtctt #### Tbc1d10c_ID398_6 --> 0 - 0 Original Alignment GAGGCCTTCTGGTGCTTGGTGCAGATCTGCGAGGTCTACCTC-CCTGGCTACTATGGGCCCCACATG cttcttagttagacttacagacacacatctccctttgtttccttccttagGAGGCCTTTTGGTGCTTAGTGCAAATCTGTGAGGTTTACCTCCCCAGGCTACTATGGGCCCCACATGgtacaggcttgggttgaagggggcactgagtctggagagcaggtgtatga Alignment from CESAR GAGGCCTTCTGGTGCTTGGTGCAGATCTGCGAGGTCTACCTC-CCTGGCTACTATGGGCCCCACATG cttcttagttagacttacagacacacatctccctttgtttccttccttagGAGGCCTTTTGGTGCTTAGTGCAAATCTGTGAGGTTTACCTCCCCAGGCTACTATGGGCCCCACATGgtacaggcttgggttgaagggggcactgagtctggagagcaggtgtatga Alignment from Spaln_aa2Genome GAGGCCTTCTGGTGCTTGGTGCAGATCTGCGAGGTCTACCTCCCT-GGCTACTATGGGCCCCACATG cttcttagttagacttacagacacacatctccctttgtttccttccttagGAGGCCTTTTGGTGCTTAGTGCAAATCTGTGAGGTTTACCTCCCCaGGCTACTATGGGCCCCACATGgtacaggcttgggttgaagggggcactgagtctggagagcaggtgtatga Alignment from Spaln_nt2Genome GAGGCCTTCTGGTGCTTGGTGCAGATCTGCGAGGTCTACCTCCCT-GGCTACTATGGGCCCCACATG cttcttagttagacttacagacacacatctccctttgtttccttccttagGAGGCCTTTTGGTGCTTAGTGCAAATCTGTGAGGTTTACCTCCCCAGGCTACTATGGGCCCCACATGgtacaggcttgggttgaagggggcactgagtctggagagcaggtgtatga Alignment from Pairagon GAGGCCTTCTGGTGCTTGGTGCAGATCTGCGAGGTCTACCTCCCT-GGCTACTATGGGCCCCACATG cttcttagttagacttacagacacacatctccctttgtttccttccttagGAGGCCTTTTGGTGCTTAGTGCAAATCTGTGAGGTTTACCTCCCCAGGCTACTATGGGCCCCACATGgtacaggcttgggttgaagggggcactgagtctggagagcaggtgtatga Alignment from Exonerate_protein2genome GAGGCCTTCTGGTGCTTGGTGCAGATCTGCGAGGTCTACCTC-CCTGGCTACTATGGGCCCCACATG cttcttagttagacttacagacacacatctccctttgtttccttccttagGAGGCCTTTTGGTGCTTAGTGCAAATCTGTGAGGTTTACCTCCCCAGGCTACTATGGGCCCCACATGgtacaggcttgggttgaagggggcactgagtctggagagcaggtgtatga Alignment from Exonerate_coding2genome GAGGCCTTCTGGTGCTTGGTGCAGATCTGCGAGGTCTACCTC-CCTGGCTACTATGGGCCCCACATG cttcttagttagacttacagacacacatctccctttgtttccttccttagGAGGCCTTTTGGTGCTTAGTGCAAATCTGTGAGGTTTACCTCCCCAGGCTACTATGGGCCCCACATGgtacaggcttgggttgaagggggcactgagtctggagagcaggtgtatga Alignment from GeneWise GAGGCCTTCTGGTGCTTGGTGCAGATCTGCGAGGTCTAC-CTCCCTGGCTACTATGGGCCCCACATG cttcttagttagacttacagacacacatctccctttgtttccttccttagGAGGCCTTTTGGTGCTTAGTGCAAATCTGTGAGGTTTACCTCCCCAGGCTACTATGGGCCCCACATGgtacaggcttgggttgaagggggcactgagtctggagagcaggtgtatga #### Tbc1d10c_ID401_3 --> 0 - 0 Original Alignment GTAAAGATCCAGTGCCGC-AAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG gctcttttttataatgtttgtttgctggcctcttttctgttatccaatagGTAAAGATACAATGTCACCAAGGGCATTCCCACTGTCTTGTGTGCGCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtaggaaggccaggaaatgcccggtgtgactttccttgtactagGAACTG Alignment from CESAR GTAAAGATCCAGTGCCGC-AAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG gctcttttttataatgtttgtttgctggcctcttttctgttatccaatagGTAAAGATACAATGTCACCAAGGGCATTCCCACTGTCTTGTGTGCGCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtaggaaggccaggaaatgccctaaaattctttcttctatatagGAACTG Alignment from Spaln_aa2Genome GTAAAGATCCAGTGCCGC-AAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG gctcttttttataatgtttgtttgctggcctcttttctgttatccaatagGTAAAGATACAATGTCACcAAGGGCATTCCCACTGTCTTGTGTGCGCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtaggaaggccaggaaatgcccggtgtgactttccttgtactagGAACTG Alignment from Spaln_nt2Genome GTAAAGATCCAGTGCCGC-AAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG gctcttttttataatgtttgtttgctggcctcttttctgttatccaatagGTAAAGATACAATGTCACCAAGGGCATTCCCACTGTCTTGTGTGCGCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtaggaaggccaggaaatgcccggtgtgactttccttgtactagGAACTG Alignment from Pairagon GTAAAGATCCAGTGCCG-CAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG gctcttttttataatgtttgtttgctggcctcttttctgttatccaatagGTAAAGATACAATGTCACCAAGGGCATTCCCACTGTCTTGTGTGCGCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtaggaaggccaggaaatgcccggtgtgactttccttgtactagGAACTG Alignment from Exonerate_protein2genome GTAAAGATCCAGTGCCGC-AAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG gctcttttttataatgtttgtttgctggcctcttttctgttatccaatagGTAAAGATACAATGTCACCAAGGGCATTCCCACTGTCTTGTGTGCGCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtaggaaggccaggaaatgcccggtgtgactttccttgtactagGAACTG Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ----CAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG gctcttttttataatgtttgtttgctggcctcttttctgttatccaataggtaaagATACAATGTCACCAAGGGCATTCCCACTGTCTTGTGTGCGCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtaggaaggccaggaaatgcccggtgtgactttccttgtactagGAACTG #### Tcirg1_ID169_18 --> 2 - 2 Original Alignment agCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGC-CTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACtg aatgtcacaggtctacaatgctcttaggaccctagcttcttgcactttagagCTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCCTTGGCATGGGCCGAGAGATTGGAGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGTTGCATtggtgagggtgatatctatatgacaggatgtgacagggaccataggttgatt Alignment from CESAR agCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGC-CTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACtg aatgtcacaggtctacaatgctcttaggaccctagcttcttgcactttagagCTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCCTTGGCATGGGCCGAGAGATTGGAGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGTTGCATtggtgagggtgatatctatatgacaggatgtgacagggaccataggttgatt Alignment from Spaln_aa2Genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGC-CTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG aatgtcacaggtctacaatgctcttaggaccctagcttcttgcactttagAGCTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCcCTTGGCATGGGCCGAGAGATTGGAGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGTTGCATTGgtgagggtgatatctatatgacaggatgtgacagggaccataggttgatt Alignment from Spaln_nt2Genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCC-TGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG aatgtcacaggtctacaatgctcttaggaccctagcttcttgcactttagAGCTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCCTTGGCATGGGCCGAGAGATTGGAGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGTTGCATTGgtgagggtgatatctatatgacaggatgtgacagggaccataggttgatt Alignment from Pairagon AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGG-CCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG aatgtcacaggtctacaatgctcttaggaccctagcttcttgcactttagAGCTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCCTTGGCATGGGCCGAGAGATTGGAGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGTTGCATTGgtgagggtgatatctatatgacaggatgtgacagggaccataggttgatt Alignment from Exonerate_protein2genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGC-CTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG aatgtcacaggtctacaatgctcttaggaccctagcttcttgcactttagAGCTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCCTTGGCATGGGCCGAGAGATTGGAGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGTTGCATTGgtgagggtgatatctatatgacaggatgtgacagggaccataggttgatt Alignment from Exonerate_coding2genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGC-CTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTGG aatgtcacaggtctacaatgctcttaggaccctagcttcttgcactttagAGCTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCCTTGGCATGGGCCGAGAGATTGGAGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGTTGCATTGGtgagggtgatatctatatgacaggatgtgacagggaccataggttgatt Alignment from GeneWise AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGC-CTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG aatgtcacaggtctacaatgctcttaggaccctagcttcttgcactttagAGCTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCCTTGGCATGGGCCGAGAGATTGGAGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGTTGCATTGgtgagggtgatatctatatgacaggatgtgacagggaccataggttgatt #### Tcirg1_ID176_11 --> 0 - 2 Original Alignment ATCTGGCAGACC-TTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAAT---GAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGag cacagctcaagaccagggagccattttccagtctctggtttcctgtgcagATCTGGCAGACACTTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCAGCTACTATTTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAACCAATCTGGCTGGctgtcagtctataacagcgggttcatgaacaggttctgatatgaagcagttc Alignment from CESAR ATCTGGCAGACC-TTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAAT---GAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGag cacagctcaagaccagggagccattttccagtctctggtttcctgtgcagATCTGGCAGACACTTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCAGCTACTATTTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAACCAATCTGGCTGGctgtcagtctataacagcgggttcatgaacaggttctgatatgaagcagttc Alignment from Spaln_aa2Genome ATCTGGCAGACC-TTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAAT---GAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGAG cacagctcaagaccagggagccattttccagtctctggtttcctgtgcagATCTGGCAGACAcTTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCAGCTACTATTTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAACCAATCTGGCTGGCTgtcagtctataacagcgggttcatgaacaggttctgatatgaagcagttc Alignment from Spaln_nt2Genome ATCTGGCAGAC-CTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCAT--CTACAA-TGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGAG cacagctcaagaccagggagccattttccagtctctggtttcctgtgcagATCTGGCAGACACTTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCAGCTACTATTTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAACCAATCTGGCTGGCTgtcagtctataacagcgggttcatgaacaggttctgatatgaagcagttc Alignment from Pairagon ATCTGGCAGAC-CTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCAT-----------------------------CTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGG---------------------------------------------------- cacagctcaagaccagggagccattttccagtctctggtttcctgtgcagATCTGGCAGACACTTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCAGCT--------------------------ACTATTTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAACCAATCTGGCTGGCTGTCAGTCTATAACAGCGGGTTCATGAACAGGTTCTGATATGAAGCAGTTC Alignment from Exonerate_protein2genome ATCTGGCAGACC-TTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAAT---GAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGAG cacagctcaagaccagggagccattttccagtctctggtttcctgtgcagATCTGGCAGACACTTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCAGCTACTATTTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAACCAATCTGGCTGGCTgtcagtctataacagcgggttcatgaacaggttctgatatgaagcagttc Alignment from Exonerate_coding2genome ATCTGGCAGACC-TTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAAT---GAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGAG cacagctcaagaccagggagccattttccagtctctggtttcctgtgcagATCTGGCAGACACTTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCAGCTACTATTTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAACCAATCTGGCTGGCTgtcagtctataacagcgggttcatgaacaggttctgatatgaagcagttc Alignment from GeneWise ATCTGGCAG-ACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAAT---GAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGAG cacagctcaagaccagggagccattttccagtctctggtttcctgtgcagATCTGGCAGACACTTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCAGCTACTATTTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAACCAATCTGGCTGGCTgtcagtctataacagcgggttcatgaacaggttctgatatgaagcagttc #### Tcirg1_ID180_7 --> 1 - 0 Original Alignment cTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAAGCC-CGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GTCCTGG tgtcaataatcctgaattcaagaccagagacaccgctcctgtgtccgcagcTTTCACTGCCATGTCTTCTCATATCTGGAACAGGAGGAAGCCCCGGTTTAGGACCTCACAGCAGTTACAGCAGCAGAGTCAGGAACTCCAAGAGgtatgttgttcatcaaggatgagtttccccttcaccttttcagGTCCTAG Alignment from CESAR cTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAAGCC-CGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GTCCTGG tgtcaataatcctgaattcaagaccagagacaccgctcctgtgtccgcagcTTTCACTGCCATGTCTTCTCATATCTGGAACAGGAGGAAGCCCCGGTTTAGGACCTCACAGCAGTTACAGCAGCAGAGTCAGGAACTCCAAGAGgtatgttgttcatcaaggatggttctttgtctttataccacagGTCCTAG Alignment from Spaln_aa2Genome CTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAAGCC-CGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GTCCTGG tgtcaataatcctgaattcaagaccagagacaccgctcctgtgtccgcagCTTTCACTGCCATGTCTTCTCATATCTGGAACAGGAGGAAGCCcCGGTTTAGGACCTCACAGCAGTTACAGCAGCAGAGTCAGGAACTCCAAGAGgtatgttgttcatcaaggatgagtttccccttcaccttttcagGTCCTAG Alignment from Spaln_nt2Genome CTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAAGCCCGGT-TCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GTCCTGG tgtcaataatcctgaattcaagaccagagacaccgctcctgtgtccgcagCTTTCACTGCCATGTCTTCTCATATCTGGAACAGGAGGAAGCCCCGGTTTAGGACCTCACAGCAGTTACAGCAGCAGAGTCAGGAACTCCAAGAGgtatgttgttcatcaaggatgagtttccccttcaccttttcagGTCCTAG Alignment from Pairagon CTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAAG-CCCGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GTCCTGG tgtcaataatcctgaattcaagaccagagacaccgctcctgtgtccgcagCTTTCACTGCCATGTCTTCTCATATCTGGAACAGGAGGAAGCCCCGGTTTAGGACCTCACAGCAGTTACAGCAGCAGAGTCAGGAACTCCAAGAGgtatgttgttcatcaaggatgagtttccccttcaccttttcagGTCCTAG Alignment from Exonerate_protein2genome CTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAAGCC-CGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GTCCTGG tgtcaataatcctgaattcaagaccagagacaccgctcctgtgtccgcagCTTTCACTGCCATGTCTTCTCATATCTGGAACAGGAGGAAGCCCCGGTTTAGGACCTCACAGCAGTTACAGCAGCAGAGTCAGGAACTCCAAGAGgtatgttgttcatcaaggatgagtttccccttcaccttttcagGTCCTAG Alignment from Exonerate_coding2genome CTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAAGCC-CGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GTCCTGG tgtcaataatcctgaattcaagaccagagacaccgctcctgtgtccgcagCTTTCACTGCCATGTCTTCTCATATCTGGAACAGGAGGAAGCCCCGGTTTAGGACCTCACAGCAGTTACAGCAGCAGAGTCAGGAACTCCAAGAGgtatgttgttcatcaaggatgagtttccccttcaccttttcagGTCCTAG Alignment from GeneWise CTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAA-GCCCGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GTCCTGG tgtcaataatcctgaattcaagaccagagacaccgctcctgtgtccgcagCTTTCACTGCCATGTCTTCTCATATCTGGAACAGGAGGAAGCCCCGGTTTAGGACCTCACAGCAGTTACAGCAGCAGAGTCAGGAACTCCAAGAGgtatgttgttcatcaaggatgagtttccccttcaccttttcagGTCCTAG #### Tcirg1_ID182_5 --> 1 - 0 Original Alignment tTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGC-TTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aggaagggggagttgaaaggagtctgcactcgcctctcctgctacttcagcTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTGCAGCCTTAGAGCGCCTGTTGTGGAGAGCATGCCGTGGCCTTTCTCATTGCTAGTTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGGCAgtatgcgtaggggcaggacacgtgtgcaaattttatttgcagGGTGAACC Alignment from CESAR tTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGC-TTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aggaagggggagttgaaaggagtctgcactcgcctctcctgctacttcagcTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTGCAGCCTTAGAGCGCCTGTTGTGGAGAGCATGCCGTGGCCTTTCTCATTGCTAGTTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGGCAgtatgcgtaggggcaggacatccccatctcctgtctctccagGGTGAACC Alignment from Spaln_aa2Genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGC-TTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aggaagggggagttgaaaggagtctgcactcgcctctcctgctacttcagCTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTGCAGCCTTAGAGCGCCTGTTGTGGAGAGCATGCCGTGGCcTTTCTCATTGCTAGTTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGGCAgtatgcgtaggggcaggacacgtgtgcaaattttatttgcagGGTGAACC Alignment from Spaln_nt2Genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGG-CTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aggaagggggagttgaaaggagtctgcactcgcctctcctgctacttcagCTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTGCAGCCTTAGAGCGCCTGTTGTGGAGAGCATGCCGTGGCCTTTCTCATTGCTAGTTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGGCAgtatgcgtaggggcaggacacgtgtgcaaattttatttgcagGGTGAACC Alignment from Pairagon TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGG-CTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aggaagggggagttgaaaggagtctgcactcgcctctcctgctacttcagCTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTGCAGCCTTAGAGCGCCTGTTGTGGAGAGCATGCCGTGGCCTTTCTCATTGCTAGTTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGGCAgtatgcgtaggggcaggacacgtgtgcaaattttatttgcagGGTGAACC Alignment from Exonerate_protein2genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGC-TTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aggaagggggagttgaaaggagtctgcactcgcctctcctgctacttcagCTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTGCAGCCTTAGAGCGCCTGTTGTGGAGAGCATGCCGTGGCCTTTCTCATTGCTAGTTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGGCAgtatgcgtaggggcaggacacgtgtgcaaattttatttgcagGGTGAACC Alignment from Exonerate_coding2genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGC-TTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aggaagggggagttgaaaggagtctgcactcgcctctcctgctacttcagCTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTGCAGCCTTAGAGCGCCTGTTGTGGAGAGCATGCCGTGGCCTTTCTCATTGCTAGTTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGGCAgtatgcgtaggggcaggacacgtgtgcaaattttatttgcagGGTGAACC Alignment from GeneWise TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGC-GGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG------------------------------------------GGTGAGCC aggaagggggagttgaaaggagtctgcactcgcctctcctgctacttcagCTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTGCAGCCTTAGAGCGCCTGTTGTGGAGAGCATGCCGTGGCCTTTCTCATTGCTAGTTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGGCAGTATGCGTAGGGGCAGGACACGTGTGCAAATTTTATTTGCAGGGTGAACC #### Tcirg1_ID184_3 --> 2 - 0 Original Alignment ccTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGAC-CTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG ttgtgtgttcgtggaatttcttctggtcgatgttgtttgtgtttctttagccTTCCTAAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCCCCACCTGAGGGTACATTACCAGCACCACCCCCAAGGGACCCTACTTCGCATCCAGGAAGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGTAATCAGGAGGCACTGCAGGCTCAGCTGCACCATTTACGGCTATACTCATCTGTGCTAGGCCAGAGCCACAGCCCACCAgtgagttcctagtcaaaaaagccctccaccagtttgttcttagttggagc Alignment from CESAR ccTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGAC-CTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG ttgtgtgttcgtggaatttcttctggtcgatgttgtttgtgtttctttagccTTCCTAAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCCCCACCTGAGGGTACATTACCAGCACCACCCCCAAGGGACCCTACTTCGCATCCAGGAAGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGTAATCAGGAGGCACTGCAGGCTCAGCTGCACCATTTACGGCTATACTCATCTGTGCTAGGCCAGAGCCACAGCCCACCAgtgagttcctagtcaaaaaagccctccaccagtttgttcttagttggagc Alignment from Spaln_aa2Genome TTTACCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGAC-CTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG tgtgttcgtggaatttcttctggtcgatgttgtttgtgtttcttta gCCTTCCTAAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCCCCACCTGAGGGTACATTACCAGCACCACCCCCAAGGGACcCTACTTCGCATCCAGGAAGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGTAATCAGGAGGCACTGCAGGCTCAGCTGCACCATTTACGGCTATACTCATCTGTGCTAGGCCAGAGCCACAGCCCACCAgtgagttcctagtcaaaaaagccctccaccagtttgttcttagttggagc Alignment from Spaln_nt2Genome CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACC-TGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG ttgtgtgttcgtggaatttcttctggtcgatgttgtttgtgtttctttagCCTTCCTAAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCCCCACCTGAGGGTACATTACCAGCACCACCCCCAAGGGACCCTACTTCGCATCCAGGAAGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGTAATCAGGAGGCACTGCAGGCTCAGCTGCACCATTTACGGCTATACTCATCTGTGCTAGGCCAGAGCCACAGCCCACCAgtgagttcctagtcaaaaaagccctccaccagtttgttcttagttggagc Alignment from Pairagon CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGA-CCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG ttgtgtgttcgtggaatttcttctggtcgatgttgtttgtgtttctttagCCTTCCTAAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCCCCACCTGAGGGTACATTACCAGCACCACCCCCAAGGGACCCTACTTCGCATCCAGGAAGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGTAATCAGGAGGCACTGCAGGCTCAGCTGCACCATTTACGGCTATACTCATCTGTGCTAGGCCAGAGCCACAGCCCACCAgtgagttcctagtcaaaaaagccctccaccagtttgttcttagttggagc Alignment from Exonerate_protein2genome CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGAC-CTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG ttgtgtgttcgtggaatttcttctggtcgatgttgtttgtgtttctttagCCTTCCTAAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCCCCACCTGAGGGTACATTACCAGCACCACCCCCAAGGGACCCTACTTCGCATCCAGGAAGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGTAATCAGGAGGCACTGCAGGCTCAGCTGCACCATTTACGGCTATACTCATCTGTGCTAGGCCAGAGCCACAGCCCACCAgtgagttcctagtcaaaaaagccctccaccagtttgttcttagttggagc Alignment from Exonerate_coding2genome CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGAC-CTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG ttgtgtgttcgtggaatttcttctggtcgatgttgtttgtgtttctttagCCTTCCTAAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCCCCACCTGAGGGTACATTACCAGCACCACCCCCAAGGGACCCTACTTCGCATCCAGGAAGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGTAATCAGGAGGCACTGCAGGCTCAGCTGCACCATTTACGGCTATACTCATCTGTGCTAGGCCAGAGCCACAGCCCACCAgtgagttcctagtcaaaaaagccctccaccagtttgttcttagttggagc Alignment from GeneWise CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGAC-CTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG ttgtgtgttcgtggaatttcttctggtcgatgttgtttgtgtttctttagCCTTCCTAAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCCCCACCTGAGGGTACATTACCAGCACCACCCCCAAGGGACCCTACTTCGCATCCAGGAAGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGTAATCAGGAGGCACTGCAGGCTCAGCTGCACCATTTACGGCTATACTCATCTGTGCTAGGCCAGAGCCACAGCCCACCAgtgagttcctagtcaaaaaagccctccaccagtttgttcttagttggagc #### Tcirg1_ID185_2 --> 0 - 1 Original Alignment CCTCGTGGAGTTCAGAGAC CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAA-CTGGAGAAGACGTTTa GCCTGTGGAGTTGAGAGATgtgaggagttactgagctgctctgcccacagTTCAATGAGTTGGTGAGTGCATTCCAGAGACGCTTTGTAGTAGATGTGCAGCACTGTGAGGAGCCTGGACAAG---ATTagtaagatgtcctcagcgtatttgagatgacagggtgtactttatttaccc Alignment from CESAR CCTCGTGGAGTTCAGAGAC CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAA-CTGGAGAAGACGTTTa GCCTGTGGAGTTGAGAGATgtaagtagttactgagctgctctgcccacagTTCAATGAGTTGGTGAGTGCATTCCAGAGACGCTTTGTAGTAGATGTGCAGCACTGTGAGGAGCCTGGACAAG---ATTagtaagatgtcctcagcgtatttgagatgacagggtgtactttatttaccc Alignment from Spaln_aa2Genome CCTCGTGGAGTTCAGAGAC CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAG- GCCTGTGGAGTTGAGAGATgtgaggagttactgagctgctctgcccacagTTCAATGAGTTGGTGAGTGCATTCCAGAGACGCTTTGTAGTAGATGTGCAGCACTGTGAGGAGCCTGGACAAGattagtaagatgtcctcagcgtatttgagatgacagggtgtactttatttaccc Alignment from Spaln_nt2Genome CCTCGTGGAGTTCAGAGAC-------------------------------CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAAC-TGGAGAAGACGTTTA GCCTGTGGAGTTGAGAGATGTGAGGAGTTACTGAGCTGCTCTGCCCACAGTTCAATGAGTTGGTGAGTGCATTCCAGAGACGCTTTGTAGTAGATGTGCAGCACTGTGAGGAGCCTGGACAAGA---TTAgtaagatgtcctcagcgtatttgagatgacagggtgtactttatttaccc Alignment from Pairagon CCTCGTGGAGTTCAGAGAC CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAA-CTGGAGAAGACGTTTA GCCTGTGGAGTTGAGAGATgtgaggagttactgagctgctctgcccacagTTCAATGAGTTGGTGAGTGCATTCCAGAGACGCTTTGTAGTAGATGTGCAGCACTGTGAGGAGCCTGGACAAGA---TTAgtaagatgtcctcagcgtatttgagatgacagggtgtactttatttaccc Alignment from Exonerate_protein2genome CCTCGTGGAGTTCAGAGAC CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTT GCCTGTGGAGTTGAGAGATgtgaggagttactgagctgctctgcccacagTTCAATGAGTTGGTGAGTGCATTCCAGAGACGCTTTGTAGTAGATGTGCAGCACTGTGAGGAGCCTGGACAAGATTAgtaagatgtcctcagcgtatttgagatgacagggtgtactttatttaccc Alignment from Exonerate_coding2genome CCTCGTGGAGTTCAGAGAC CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTT GCCTGTGGAGTTGAGAGATgtgaggagttactgagctgctctgcccacagTTCAATGAGTTGGTGAGTGCATTCCAGAGACGCTTTGTAGTAGATGTGCAGCACTGTGAGGAGCCTGGACAAGATTAgtaagatgtcctcagcgtatttgagatgacagggtgtactttatttaccc Alignment from GeneWise CCTCGTGGAGTTCAGAGAC CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCT GCCTGTGGAGTTGAGAGATgtgaggagttactgagctgctctgcccacagTTCAATGAGTTGGTGAGTGCATTCCAGAGACGCTTTGTAGTAGATGTGCAGCACTgtgaggagcctggacaagattagtaagatgtcctcagcgtatttgagatgacagggtgtactttatttaccc #### Tctn3_ID7995_6 --> 2 - 0 Original Alignment GTGCCGAGAGCAACCCTGCAg gtTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTC-TTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAGCAggtgagtttgtttggtttctatttctttaggaTTTCTAGAGACTAAGAGTATGACCTCTTCCCGTTTCCTTAAAGGACCTATCCAGTAGCTGTAGCTCTGAGCCAGCTCTGGATGCAGTTTCAGACTACAACTTTAGAGTCTTGAGGgtaggacatagccaggtttctgctgcttctgatttctcaatgctaggtgc Alignment from CESAR GTGCCGAGAGCAACCCTGCAg gtTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTC-AGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAGCAggtaatgttgtttggtttctatttctttaggaTTTCTAGAGACTAAGAGTATGACCTCTTCCCGTTTCCTTAAAGGACCTATCCAGTAGCTGTAGCTCTGAGCCAGCTCTGGATGCAGTTTCAGACTACAACTTTAGAGTCTTGAGGgtaggacatagccaggtttctgctgcttctgatttctcaatgctaggtgc Alignment from Spaln_aa2Genome GTGCCGAGAGCAACCCTGCA-----------------------------GGTTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTC-TTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAGCAGGTGAGTTTGTTTGGTTTCTATTTCTTtaGGATTTCTAGAGACTAAGAGTATGACCTCTTCCCGTTTCcTTAAAGGACCTATCCAGTAGCTGTAGCTCTGAGCCAGCTCTGGATGCAGTTTCAGACTACAACTTTAGAGTCTTGAGGgtaggacatagccaggtttctgctgcttctgatttctcaatgctaggtgc Alignment from Spaln_nt2Genome GTGCCGAGAGCAACCCT GCAGGTTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTC-TTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAgcaggtgagtttgtttggtttctatttctttag----GATTTCTAGAGACTAAGAGTATGACCTCTTCCCGTTTCCTTAAAGGACCTATCCAGTAGCTGTAGCTCTGAGCCAGCTCTGGATGCAGTTTCAGACTACAACTTTAGAGTCTTGAGGgtaggacatagccaggtttctgctgcttctgatttctcaatgctaggtgc Alignment from Pairagon GTGCCGAGAGCAACCCTGCAG-----------------------------GTTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTT-CTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAGCAGGTGAGTTTGTTTGGTTTCTATTTCTTTAGGATTTCTAGAGACTAAGAGTATGACCTCTTCCCGTTTCCTTAAAGGACCTATCCAGTAGCTGTAGCTCTGAGCCAGCTCTGGATGCAGTTTCAGACTACAACTTTAGAGTCTTGAGGgtaggacatagccaggtttctgctgcttctgatttctcaatgctaggtgc Alignment from Exonerate_protein2genome GTGCCGAGAGCAACCCTGCAG GTTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAGCAGgtgagtttgtttggtttctatttctttaggATTTCTAGAGACTAAGAGTATGACCTCTTCCCGTTTCCTTAAAGGACCTATCCAGTAGCTGTAGCTCTGAGCCAGCTCTGGATGCAGTTTCAGACTACAACTTTAGAGTCTTGAGGgtaggacatagccaggtttctgctgcttctgatttctcaatgctaggtgc Alignment from Exonerate_coding2genome GTGCCGAGAGCAACCCTGCAG GTTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAGCAGgtgagtttgtttggtttctatttctttaggATTTCTAGAGACTAAGAGTATGACCTCTTCCCGTTTCCTTAAAGGACCTATCCAGTAGCTGTAGCTCTGAGCCAGCTCTGGATGCAGTTTCAGACTACAACTTTAGAGTCTTGAGGgtaggacatagccaggtttctgctgcttctgatttctcaatgctaggtgc Alignment from GeneWise GTGCCGAGAGCAACCCTGCAG GTTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTC-TTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAGCAGgtgagtttgtttggtttctatttctttagGATTTCTAGAGACTAAGAGTATGACCTCTTCCCGTTTCCTTAAAGGACCTATCCAGTAGCTGTAGCTCTGAGCCAGCTCTGGATGCAGTTTCAGACTACAACTTTAGAGTCTTGAGGgtaggacatagccaggtttctgctgcttctgatttctcaatgctaggtgc #### Tdrd1_ID12205_6 --> 0 - 0 Original Alignment GTTGACTGTCCCCCGGGAGTTACTAAAGAAATA-ACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG caggcaagatgggtggcttcagcccaatcctgccttcttccttcctaaagGTTGACTGCCCCCCAGAAGTT---AGACAAATTCACAGTAGGCGCTGAGAGAGTTATGTTCTCTGATTTAAGAACTCTTCAGCTAATGAAAACAATGGAGATAAAAgtgagtggatttgtctcctcctttcctcccatatgtgatccccttggctc Alignment from CESAR GTTGACTGTCCCCCGGGAGTTACTAAAGAAATA-ACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG caggcaagatgggtggcttcagcccaatcctgccttcttccttcctaaagGTTGACTGCCCCCCAGAAGTT---AGACAAATTCACAGTAGGCGCTGAGAGAGTTATGTTCTCTGATTTAAGAACTCTTCAGCTAATGAAAACAATGGAGATAAAAgtgagtggatttgtctcctcctttcctcccatatgtgatccccttggctc Alignment from Spaln_aa2Genome GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG caggcaagatgggtggcttcagcccaatcctgccttcttccttcctaaagGTTGACTGCCCCCCAGAAGTTAGACAAA--TTCACAGTAGGCGCTGAGAGAGTTATGTTCTCTGATTTAAGAACTCTTCAGCTAATGAAAACAATGGAGATAAAAgtgagtggatttgtctcctcctttcctcccatatgtgatccccttggctc Alignment from Spaln_nt2Genome GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG caggcaagatgggtggcttcagcccaatcctgccttcttccttcctaaagGTTGACTGCCCCCCAGAAGTTA--GACAAATTCACAGTAGGCGCTGAGAGAGTTATGTTCTCTGATTTAAGAACTCTTCAGCTAATGAAAACAATGGAGATAAAAgtgagtggatttgtctcctcctttcctcccatatgtgatccccttggctc Alignment from Pairagon GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG caggcaagatgggtggcttcagcccaatcctgccttcttccttcctaaagGTTGACTGCCCCCCAGAAGTTA--GACAAATTCACAGTAGGCGCTGAGAGAGTTATGTTCTCTGATTTAAGAACTCTTCAGCTAATGAAAACAATGGAGATAAAAgtgagtggatttgtctcctcctttcctcccatatgtgatccccttggctc Alignment from Exonerate_protein2genome GTTGACTGTCCCCCGGGAGTTACTAAAGAAATA-ACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG caggcaagatgggtggcttcagcccaatcctgccttcttccttcctaaagGTTGACTGCCCCCCAGAAGTT---AGACAAATTCACAGTAGGCGCTGAGAGAGTTATGTTCTCTGATTTAAGAACTCTTCAGCTAATGAAAACAATGGAGATAAAAgtgagtggatttgtctcctcctttcctcccatatgtgatccccttggctc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise -GACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG caggcaagatgggtggcttcagcccaatcctgccttcttccttcctaaagGTTGACTGCCCCCCAGAAGTTAGACAAATTCACAGTAGGCGCTGAGAGAGTTATGTTCTCTGATTTAAGAACTCTTCAGCTAATGAAAACAATGGAGATAAAAgtgagtggatttgtctcctcctttcctcccatatgtgatccccttggctc #### Tdrd1_ID12222_23 --> 2 - 0 Original Alignment agATACCACACAGCAGA-GACTGCTGTTGCACAGAGTTACAGAAACAG tgtgactatagcatccacccaattccaatcagcattctctgttgtggcagagATACCTCACAGTAGGCGACTGCTGTTGCACAGAATTACAGAAACAGgtgagaatttactgctgctcaacaagctgcttcccattgacatagaactc Alignment from CESAR agATACCACACAGCAGA-GACTGCTGTTGCACAGAGTTACAGAAACAG tgtgactatagcatccacccaattccaatcagcattctctgttgtggcagagATACCTCACAGTAGGCGACTGCTGTTGCACAGAATTACAGAAACAGgtgagaatttactgctgctcaacaagctgcttcccattgacatagaactc Alignment from Spaln_aa2Genome GCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG tgtgactatagcatccacccaattccaatcagcattctctgttgtggcagagatacctcacagTAGGCGACTGCTGTTGCACAGAATTACAGAAACAGgtgagaatttactgctgctcaacaagctgcttcccattgacatagaactc Alignment from Spaln_nt2Genome AGATACCACACAGCAGA-GACTGCTGTTGCACAGAGTTACAGAAACAG tgtgactatagcatccacccaattccaatcagcattctctgttgtggcagAGATACCTCACAGTAGGCGACTGCTGTTGCACAGAATTACAGAAACAGgtgagaatttactgctgctcaacaagctgcttcccattgacatagaactc Alignment from Pairagon AGATACCACACAGCAGA-GACTGCTGTTGCACAGAGTTACAGAAACAG tgtgactatagcatccacccaattccaatcagcattctctgttgtggcagAGATACCTCACAGTAGGCGACTGCTGTTGCACAGAATTACAGAAACAGgtgagaatttactgctgctcaacaagctgcttcccattgacatagaactc Alignment from Exonerate_protein2genome AGATACCACACAGCAGA-GACTGCTGTTGCACAGAGTTACAGAAACAG tgtgactatagcatccacccaattccaatcagcattctctgttgtggcagAGATACCTCACAGTAGGCGACTGCTGTTGCACAGAATTACAGAAACAGgtgagaatttactgctgctcaacaagctgcttcccattgacatagaactc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AGATACCACACAGC-AGAGACTGCTGTTGCACAGAGTTACAGAAACAG tgtgactatagcatccacccaattccaatcagcattctctgttgtggcagAGATACCTCACAGTAGGCGACTGCTGTTGCACAGAATTACAGAAACAGgtgagaatttactgctgctcaacaagctgcttcccattgacatagaactc #### Tectb_ID11563_6 --> 1 - 2 Original Alignment gTTCAAAGTGGTCTTGAATAGCTGCTGGGCCACCCCCTCGGCTGACTTCATGTACCCC-TTACAGTGGCAGCTCATCAATAAGgg aaattcatttttgtaacagtattgttttccaccgtccctcacctccacaggTTCAAAGTGGTCTTGAATAGCTGCTGGGCGACCCCCTTGGCTGACTTCATGTACCCTCTTACAGTGGCAGCTTATCAATAAGgggtgaggaccaataacaactccacgatggtggcacgtttcttggaccccct Alignment from CESAR gTTCAAAGTGGTCTTGAATAGCTGCTGGGCCACCCCCTCGGCTGACTTCATGTACCCC-TTACAGTGGCAGCTCATCAATAAGgg aaattcatttttgtaacagtattgttttccaccgtccctcacctccacaggTTCAAAGTGGTCTTGAATAGCTGCTGGGCGACCCCCTTGGCTGACTTCATGTACCCTCTTACAGTGGCAGCTTATCAATAAGgggtgaggaccaataacaactccacgatggtggcacgtttcttggaccccct Alignment from Spaln_aa2Genome GTTCAAAGTGGTCTTGAATAGCTGCTGGGCCACCCCCTCGGCTGACTTCATGTACCCCTTA-CAGTGGCAGCTCATCAATAAGGG aaattcatttttgtaacagtattgttttccaccgtccctcacctccacagGTTCAAAGTGGTCTTGAATAGCTGCTGGGCGACCCCCTTGGCTGACTTCATGTACCCTCTTaCAGTGGCAGCTTATCAATAAGGGgtgaggaccaataacaactccacgatggtggcacgtttcttggaccccct Alignment from Spaln_nt2Genome GTTCAAAGTGGTCTTGAATAGCTGCTGGGCCACCCCCTCGGCTGACTTCATGTACCC-CTTACAGTGGCAGCTCATCAATAAGGG aaattcatttttgtaacagtattgttttccaccgtccctcacctccacagGTTCAAAGTGGTCTTGAATAGCTGCTGGGCGACCCCCTTGGCTGACTTCATGTACCCTCTTACAGTGGCAGCTTATCAATAAGGGgtgaggaccaataacaactccacgatggtggcacgtttcttggaccccct Alignment from Pairagon GTTCAAAGTGGTCTTGAATAGCTGCTGGGCCACCCCCTCGGCTGACTTCATGTACCC-CTTACAGTGGCAGCTCATCAATAAGGG aaattcatttttgtaacagtattgttttccaccgtccctcacctccacagGTTCAAAGTGGTCTTGAATAGCTGCTGGGCGACCCCCTTGGCTGACTTCATGTACCCTCTTACAGTGGCAGCTTATCAATAAGGGgtgaggaccaataacaactccacgatggtggcacgtttcttggaccccct Alignment from Exonerate_protein2genome GTTCAAAGTGGTCTTGAATAGCTGCTGGGCCACCCCCTCGGCTGACTTCATGTACCCC-TTACAGTGGCAGCTCATCAATAAGGG aaattcatttttgtaacagtattgttttccaccgtccctcacctccacagGTTCAAAGTGGTCTTGAATAGCTGCTGGGCGACCCCCTTGGCTGACTTCATGTACCCTCTTACAGTGGCAGCTTATCAATAAGGGgtgaggaccaataacaactccacgatggtggcacgtttcttggaccccct Alignment from Exonerate_coding2genome GTTCAAAGTGGTCTTGAATAGCTGCTGGGCCACCCCCTCGGCTGACTTCATGTACCCC-TTACAGTGGCAGCTCATCAATAAGGG aaattcatttttgtaacagtattgttttccaccgtccctcacctccacagGTTCAAAGTGGTCTTGAATAGCTGCTGGGCGACCCCCTTGGCTGACTTCATGTACCCTCTTACAGTGGCAGCTTATCAATAAGGGgtgaggaccaataacaactccacgatggtggcacgtttcttggaccccct Alignment from GeneWise GTTCAAAGTGGTCTTGAATAGCTGCTGGGCCACCCCCTCGGCTGACTTCATGTACCCC-TTACAGTGGCAGCTCATCAATAAGGG aaattcatttttgtaacagtattgttttccaccgtccctcacctccacagGTTCAAAGTGGTCTTGAATAGCTGCTGGGCGACCCCCTTGGCTGACTTCATGTACCCTCTTACAGTGGCAGCTTATCAATAAGGGgtgaggaccaataacaactccacgatggtggcacgtttcttggaccccct #### Tjp2_ID5273_14 --> 1 - 1 Original Alignment aGCCGAGCAAATGGCCAGTGTCCAGAATGCC-CAGCGAGAGAACGCCGGGGACAGAGCAGACTTCTGGCGGATGCGTGGCCAGAGATCCAGCGGCGGCGTCAAGAAGAAC---CTCCGCAAGAGCCGGGAAGACCTGGCGGCTGCTGTATCGGTTAGCACCAAGTTCCCTGCCTACGAGAAGGTTCTGCTTCGGGAAg gttctaggtgagcttgacagaatatgagtgatatgttgcctctttcctagaGCTGAGCAAATAGCAAGTGTCCAAAATGCTCCAACAGGAGAATCCTGGTGATCGAGCAGACTTCTGGCGAATGCATGGCCAGAGACCAAGCAGCTGCATTAAGAAGAACTTATTACATAAGAGCCGGGAGGATCTAGCAGCTGCGGTATCTGTTAGCACTCAGTACCCTGCCTATGAGGAAGTGCTCCTTCAAGAGggtaagataagtgcatatatatgggcactctggcacttcatagtcctgagg Alignment from CESAR aGCCGAGCAAATGGCCAGTGTCCAGAATGCC-CAGCGAGAGAACGCCGGGGACAGAGCAGACTTCTGGCGGATGCGTGGCCAGAGATCCAGCGGCGGCGTCAAGAAGAACCTC---CGCAAGAGCCGGGAAGACCTGGCGGCTGCTGTATCGGTTAGCACCAAGTTCCCTGCCTACGAGAAGGTTCTGCTTCGGGAAg gttctaggtgagcttgacagaatatgagtgatatgttgcctctttcctagaGCTGAGCAAATAGCAAGTGTCCAAAATGCTCCAACAGGAGAATCCTGGTGATCGAGCAGACTTCTGGCGAATGCATGGCCAGAGACCAAGCAGCTGCATTAAGAAGAACTTATTACATAAGAGCCGGGAGGATCTAGCAGCTGCGGTATCTGTTAGCACTCAGTACCCTGCCTATGAGGAAGTGCTCCTTCAAGAGggtaagataagtgcatatatatgggcactctggcacttcatagtcctgagg Alignment from Spaln_aa2Genome AGCCGAGCAAATGGCCAGTGTCCAGAATGCC-CAGCGAGAGAACGCCGGGGACAGAGCAGACTTCTGGCGGATGCGTGGCCAGAGATCCAGCGGCGGCGTCAAGAAGAAC---CTCCGCAAGAGCCGGGAAGACCTGGCGGCTGCTGTATCGGTTAGCACCAAGTTCCCTGCCTACGAGAAGGTTCTGCTTCGGGAAG gttctaggtgagcttgacagaatatgagtgatatgttgcctctttcctagAGCTGAGCAAATAGCAAGTGTCCAAAATGCTcCAACAGGAGAATCCTGGTGATCGAGCAGACTTCTGGCGAATGCATGGCCAGAGACCAAGCAGCTGCATTAAGAAGAACTTATTACATAAGAGCCGGGAGGATCTAGCAGCTGCGGTATCTGTTAGCACTCAGTACCCTGCCTATGAGGAAGTGCTCCTTCAAGAGGgtaagataagtgcatatatatgggcactctggcacttcatagtcctgagg Alignment from Spaln_nt2Genome AGCCGAGCAAATGGCCAGTGTCCAGAATGC-CCAGCGAGAGAACGCCGGGGACAGAGCAGACTTCTGGCGGATGCGTGGCCAGAGATCCAGCGGCGGCGTCAAGAAGAACCTC---CGCAAGAGCCGGGAAGACCTGGCGGCTGCTGTATCGGTTAGCACCAAGTTCCCTGCCTACGAGAAGGTTCTGCTTCGGGAAG gttctaggtgagcttgacagaatatgagtgatatgttgcctctttcctagAGCTGAGCAAATAGCAAGTGTCCAAAATGCTCCAACAGGAGAATCCTGGTGATCGAGCAGACTTCTGGCGAATGCATGGCCAGAGACCAAGCAGCTGCATTAAGAAGAACTTATTACATAAGAGCCGGGAGGATCTAGCAGCTGCGGTATCTGTTAGCACTCAGTACCCTGCCTATGAGGAAGTGCTCCTTCAAGAGGgtaagataagtgcatatatatgggcactctggcacttcatagtcctgagg Alignment from Pairagon AGCCGAGCAAATGGCCAGTGTCCAGAATGC-CCAGCGAGAGAACGCCGGGGACAGAGCAGACTTCTGGCGGATGCGTGGCCAGAGATCCAGCGGCGGCGTCAAGAAGAAC---CTCCGCAAGAGCCGGGAAGACCTGGCGGCTGCTGTATCGGTTAGCACCAAGTTCCCTGCCTACGAGAAGGTTCTGCTTCGGGAAG gttctaggtgagcttgacagaatatgagtgatatgttgcctctttcctagAGCTGAGCAAATAGCAAGTGTCCAAAATGCTCCAACAGGAGAATCCTGGTGATCGAGCAGACTTCTGGCGAATGCATGGCCAGAGACCAAGCAGCTGCATTAAGAAGAACTTATTACATAAGAGCCGGGAGGATCTAGCAGCTGCGGTATCTGTTAGCACTCAGTACCCTGCCTATGAGGAAGTGCTCCTTCAAGAGGgtaagataagtgcatatatatgggcactctggcacttcatagtcctgagg Alignment from Exonerate_protein2genome AGCCGAGCAAATGGCCAGTGTCCAGAATGCC-CAGCGAGAGAACGCCGGGGACAGAGCAGACTTCTGGCGGATGCGTGGCCAGAGATCCAGCGGCGGCGTCAAGAAGAAC---CTCCGCAAGAGCCGGGAAGACCTGGCGGCTGCTGTATCGGTTAGCACCAAGTTCCCTGCCTACGAGAAGGTTCTGCTTCGGGAAG gttctaggtgagcttgacagaatatgagtgatatgttgcctctttcctagAGCTGAGCAAATAGCAAGTGTCCAAAATGCTCCAACAGGAGAATCCTGGTGATCGAGCAGACTTCTGGCGAATGCATGGCCAGAGACCAAGCAGCTGCATTAAGAAGAACTTATTACATAAGAGCCGGGAGGATCTAGCAGCTGCGGTATCTGTTAGCACTCAGTACCCTGCCTATGAGGAAGTGCTCCTTCAAGAGGgtaagataagtgcatatatatgggcactctggcacttcatagtcctgagg Alignment from Exonerate_coding2genome AGCCGAGCAAATGGCCAGTGTCCAGAATGCC-CAGCGAGAGAACGCCGGGGACAGAGCAGACTTCTGGCGGATGCGTGGCCAGAGATCCAGCGGCGGCGTCAAGAAGAAC---CTCCGCAAGAGCCGGGAAGACCTGGCGGCTGCTGTATCGGTTAGCACCAAGTTCCCTGCCTACGAGAAGGTTCTGCTTCGGGAAG gttctaggtgagcttgacagaatatgagtgatatgttgcctctttcctagAGCTGAGCAAATAGCAAGTGTCCAAAATGCTCCAACAGGAGAATCCTGGTGATCGAGCAGACTTCTGGCGAATGCATGGCCAGAGACCAAGCAGCTGCATTAAGAAGAACTTATTACATAAGAGCCGGGAGGATCTAGCAGCTGCGGTATCTGTTAGCACTCAGTACCCTGCCTATGAGGAAGTGCTCCTTCAAGAGGgtaagataagtgcatatatatgggcactctggcacttcatagtcctgagg Alignment from GeneWise AGCCGAGCAAATGGCCAGTGTCCAGAAT-GCCCAGCGAGAGAACGCCGGGGACAGAGCAGACTTCTGGCGGATGCGTGGCCAGAGATCCAGCGGCGGCGTCAAGAAGAACCTC---CGCAAGAGCCGGGAAGACCTGGCGGCTGCTGTATCGGTTAGCACCAAGTTCCCTGCCTACGAGAAGGTTCTGCTTCGGGAAG gttctaggtgagcttgacagaatatgagtgatatgttgcctctttcctagAGCTGAGCAAATAGCAAGTGTCCAAAATGCTCCAACAGGAGAATCCTGGTGATCGAGCAGACTTCTGGCGAATGCATGGCCAGAGACCAAGCAGCTGCATTAAGAAGAACTTATTACATAAGAGCCGGGAGGATCTAGCAGCTGCGGTATCTGTTAGCACTCAGTACCCTGCCTATGAGGAAGTGCTCCTTCAAGAGGgtaagataagtgcatatatatgggcactctggcacttcatagtcctgagg #### Tjp2_ID5274_13 --> 2 - 2 Original Alignment tgTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATAAGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGC-CTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCag ggtgtagttgtctcctcgcaggtagagccctggtggggctttgtttacagctTACAGAGACATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATAAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGTCTTGGCCTTCACTAGGGGAGAGGTCTTTCGAGTGGTAGACACACTCTATGAAGACAAGTTGGGTCACTGGCTAGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCCTGATCCCCAACAAAAGCaggtaatcaccccattctgtcagaccccatcccaaaagacagcggccccgtg Alignment from CESAR tgTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATAAGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGC-CTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCag ggtgtagttgtctcctcgcaggtagagccctggtggggctttgtttacagctTACAGAGACATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATAAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGTCTTGGCCTTCACTAGGGGAGAGGTCTTTCGAGTGGTAGACACACTCTATGAAGACAAGTTGGGTCACTGGCTAGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCCTGATCCCCAACAAAAGCaggtaatcaccccattctgtcagaccccatcccaaaagacagcggccccgtg Alignment from Spaln_aa2Genome TGTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATAAGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTG-GCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCAG ggtgtagttgtctcctcgcaggtagagccctggtggggctttgtttacagCTTACAGAGACATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATAAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGTCTTgGCCTTCACTAGGGGAGAGGTCTTTCGAGTGGTAGACACACTCTATGAAGACAAGTTGGGTCACTGGCTAGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCCTGATCCCCAACAAAAGCAGgtaatcaccccattctgtcagaccccatcccaaaagacagcggccccgtg Alignment from Spaln_nt2Genome TGTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATAAGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCT-GGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCAG ggtgtagttgtctcctcgcaggtagagccctggtggggctttgtttacagCTTACAGAGACATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATAAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGTCTTGGCCTTCACTAGGGGAGAGGTCTTTCGAGTGGTAGACACACTCTATGAAGACAAGTTGGGTCACTGGCTAGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCCTGATCCCCAACAAAAGCAGgtaatcaccccattctgtcagaccccatcccaaaagacagcggccccgtg Alignment from Pairagon TGTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATAAGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAG-CCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCAG ggtgtagttgtctcctcgcaggtagagccctggtggggctttgtttacagCTTACAGAGACATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATAAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGTCTTGGCCTTCACTAGGGGAGAGGTCTTTCGAGTGGTAGACACACTCTATGAAGACAAGTTGGGTCACTGGCTAGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCCTGATCCCCAACAAAAGCAGgtaatcaccccattctgtcagaccccatcccaaaagacagcggccccgtg Alignment from Exonerate_protein2genome TGTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATAAGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGC-CTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCAG ggtgtagttgtctcctcgcaggtagagccctggtggggctttgtttacagCTTACAGAGACATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATAAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGTCTTGGCCTTCACTAGGGGAGAGGTCTTTCGAGTGGTAGACACACTCTATGAAGACAAGTTGGGTCACTGGCTAGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCCTGATCCCCAACAAAAGCAGgtaatcaccccattctgtcagaccccatcccaaaagacagcggccccgtg Alignment from Exonerate_coding2genome TGTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATAAGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGC-CTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCAG ggtgtagttgtctcctcgcaggtagagccctggtggggctttgtttacagCTTACAGAGACATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATAAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGTCTTGGCCTTCACTAGGGGAGAGGTCTTTCGAGTGGTAGACACACTCTATGAAGACAAGTTGGGTCACTGGCTAGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCCTGATCCCCAACAAAAGCAGgtaatcaccccattctgtcagaccccatcccaaaagacagcggccccgtg Alignment from GeneWise TGTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATAAGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAG-AGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCAG ggtgtagttgtctcctcgcaggtagagccctggtggggctttgtttacagCTTACAGAGACATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATAAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGTCTTGGCCTTCACTAGGGGAGAGGTCTTTCGAGTGGTAGACACACTCTATGAAGACAAGTTGGGTCACTGGCTAGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCCTGATCCCCAACAAAAGCAGgtaatcaccccattctgtcagaccccatcccaaaagacagcggccccgtg #### Tjp2_ID5277_10 --> 2 - 2 Original Alignment ttCCTCAACCCAGAACA-GCTCCAAGAGTTTTTCTTCGTCCTAGTCCCGAAGATGAAGCAATATATgg gcgtacacataggttgaacatggttgtccatgacaagatacacttaacagttCCTCAACCCAGGACACGCACCTAGAGTTTTTCTTCGTCCTAGTCCTGAGGATGAAGCCATTTATgggtgaggagcctaccttcgaaaatttgtattctgctcctcaagctatcacc Alignment from CESAR ttCCTCAACCCAGAACA-GCTCCAAGAGTTTTTCTTCGTCCTAGTCCCGAAGATGAAGCAATATATgg gcgtacacataggttgaacatggttgtccatgacaagatacacttaacagttCCTCAACCCAGGACACGCACCTAGAGTTTTTCTTCGTCCTAGTCCTGAGGATGAAGCCATTTATgggtgaggagcctaccttcgaaaatttgtattctgctcctcaagctatcacc Alignment from Spaln_aa2Genome TTCCTCAACCCAGAACA-GCTCCAAGAGTTTTTCTTCGTCCTAGTCCCGAAGATGAAGCAATATATGG gcgtacacataggttgaacatggttgtccatgacaagatacacttaacagTTCCTCAACCCAGGACAcGCACCTAGAGTTTTTCTTCGTCCTAGTCCTGAGGATGAAGCCATTTATGGgtgaggagcctaccttcgaaaatttgtattctgctcctcaagctatcacc Alignment from Spaln_nt2Genome TTCCTCAACCCAGAACA-GCTCCAAGAGTTTTTCTTCGTCCTAGTCCCGAAGATGAAGCAATATATGG gcgtacacataggttgaacatggttgtccatgacaagatacacttaacagTTCCTCAACCCAGGACACGCACCTAGAGTTTTTCTTCGTCCTAGTCCTGAGGATGAAGCCATTTATGGgtgaggagcctaccttcgaaaatttgtattctgctcctcaagctatcacc Alignment from Pairagon TTCCTCAACCCAGAACA-GCTCCAAGAGTTTTTCTTCGTCCTAGTCCCGAAGATGAAGCAATATATGG gcgtacacataggttgaacatggttgtccatgacaagatacacttaacagTTCCTCAACCCAGGACACGCACCTAGAGTTTTTCTTCGTCCTAGTCCTGAGGATGAAGCCATTTATGGgtgaggagcctaccttcgaaaatttgtattctgctcctcaagctatcacc Alignment from Exonerate_protein2genome TTCCTCAACCCAGAACA-GCTCCAAGAGTTTTTCTTCGTCCTAGTCCCGAAGATGAAGCAATATATGG gcgtacacataggttgaacatggttgtccatgacaagatacacttaacagTTCCTCAACCCAGGACACGCACCTAGAGTTTTTCTTCGTCCTAGTCCTGAGGATGAAGCCATTTATGGgtgaggagcctaccttcgaaaatttgtattctgctcctcaagctatcacc Alignment from Exonerate_coding2genome TTCCTCAACCCAGAACA-GCTCCAAGAGTTTTTCTTCGTCCTAGTCCCGAAGATGAAGCAATATATGG gcgtacacataggttgaacatggttgtccatgacaagatacacttaacagTTCCTCAACCCAGGACACGCACCTAGAGTTTTTCTTCGTCCTAGTCCTGAGGATGAAGCCATTTATGGgtgaggagcctaccttcgaaaatttgtattctgctcctcaagctatcacc Alignment from GeneWise TTCCTCAACCCAGAACA-GCTCCAAGAGTTTTTCTTCGTCCTAGTCCCGAAGATGAAGCAATATATGG gcgtacacataggttgaacatggttgtccatgacaagatacacttaacagTTCCTCAACCCAGGACACGCACCTAGAGTTTTTCTTCGTCCTAGTCCTGAGGATGAAGCCATTTATGGgtgaggagcctaccttcgaaaatttgtattctgctcctcaagctatcacc #### Tle4_ID3619_18 --> 0 - 1 Original Alignment ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGC-TGTGTGCTGTCACTCAAGTTTGCCCACTGTg tttgcttcaagagaaggtgttgtcaaccacctcatggctttggttttcagATTTTTTCATTGGGATATTGCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAGAATAGCAATGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCagtaattatactcccaacatctagcttcacttactgtgaaataaacttact Alignment from CESAR ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGC-TGTGTGCTGTCACTCAAGTTTGCCCACTGTg tttgcttcaagagaaggtgttgtcaaccacctcatggctttggttttcagATTTTTTCATTGGGATATTGCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAGAATAGCAATGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCagtaattatactcccaacatctagcttcacttactgtgaaataaacttact Alignment from Spaln_aa2Genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGC-TGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcaagagaaggtgttgtcaaccacctcatggctttggttttcagATTTTTTCATTGGGATATTGCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAGAATAGCAATGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCcTGTGTCCTGTCCCTCAAGTTTGCCCAATGCAgtaattatactcccaacatctagcttcacttactgtgaaataaacttact Alignment from Spaln_nt2Genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAG-CTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcaagagaaggtgttgtcaaccacctcatggctttggttttcagATTTTTTCATTGGGATATTGCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAGAATAGCAATGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCAgtaattatactcccaacatctagcttcacttactgtgaaataaacttact Alignment from Pairagon ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAG-CTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcaagagaaggtgttgtcaaccacctcatggctttggttttcagATTTTTTCATTGGGATATTGCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAGAATAGCAATGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCAgtaattatactcccaacatctagcttcacttactgtgaaataaacttact Alignment from Exonerate_protein2genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGC-TGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcaagagaaggtgttgtcaaccacctcatggctttggttttcagATTTTTTCATTGGGATATTGCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAGAATAGCAATGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCAgtaattatactcccaacatctagcttcacttactgtgaaataaacttact Alignment from Exonerate_coding2genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGC-TGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcaagagaaggtgttgtcaaccacctcatggctttggttttcagATTTTTTCATTGGGATATTGCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAGAATAGCAATGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCAgtaattatactcccaacatctagcttcacttactgtgaaataaacttact Alignment from GeneWise ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAG-AGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcaagagaaggtgttgtcaaccacctcatggctttggttttcagATTTTTTCATTGGGATATTGCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAGAATAGCAATGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCAgtaattatactcccaacatctagcttcacttactgtgaaataaacttact #### Tm7sf2_ID1411_9 --> 2 - 1 Original Alignment gtCTTGAGACCATCCCGACTGCCACGGGG-AGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTg gttggctaggtctttgagggcttcaatcggtaaagccttcctttcttcaggtCTAGACACCATCCCCACTGCCACGGGTCAGACATCTGCTTGTGTCTGGGTGGTGGGGCATGGTACAGCATCCCAACTACCTGGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCCTGCggtaatatgatggctacaatgtatcccaggactgagttcagtaggtggagg Alignment from CESAR gtCTTGAGACCATCCCGACTGCCACGGGG-AGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTg gttggctaggtctttgagggcttcaatcggtaaagccttcctttcttcaggtCTAGACACCATCCCCACTGCCACGGGTCAGACATCTGCTTGTGTCTGGGTGGTGGGGCATGGTACAGCATCCCAACTACCTGGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCCTGCggtaatatgatggctacaatgtatcccaggactgagttcagtaggtggagg Alignment from Spaln_aa2Genome GTCTTGAGACCATCCCGACTGCCACGGGG-AGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG gttggctaggtctttgagggcttcaatcggtaaagccttcctttcttcagGTCTAGACACCATCCCCACTGCCACGGGTcAGACATCTGCTTGTGTCTGGGTGGTGGGGCATGGTACAGCATCCCAACTACCTGGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCCTGCGgtaatatgatggctacaatgtatcccaggactgagttcagtaggtggagg Alignment from Spaln_nt2Genome GTCTTGAGACCATCCCGACTGCCACGGGG-AGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG gttggctaggtctttgagggcttcaatcggtaaagccttcctttcttcagGTCTAGACACCATCCCCACTGCCACGGGTCAGACATCTGCTTGTGTCTGGGTGGTGGGGCATGGTACAGCATCCCAACTACCTGGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCCTGCGgtaatatgatggctacaatgtatcccaggactgagttcagtaggtggagg Alignment from Pairagon GTCTTGAGACCATCCCGACTGCCACGGG-GAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG gttggctaggtctttgagggcttcaatcggtaaagccttcctttcttcagGTCTAGACACCATCCCCACTGCCACGGGTCAGACATCTGCTTGTGTCTGGGTGGTGGGGCATGGTACAGCATCCCAACTACCTGGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCCTGCGgtaatatgatggctacaatgtatcccaggactgagttcagtaggtggagg Alignment from Exonerate_protein2genome GTCTTGAGACCATCCCGACTGCCACGGGG-AGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG gttggctaggtctttgagggcttcaatcggtaaagccttcctttcttcagGTCTAGACACCATCCCCACTGCCACGGGTCAGACATCTGCTTGTGTCTGGGTGGTGGGGCATGGTACAGCATCCCAACTACCTGGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCCTGCGgtaatatgatggctacaatgtatcccaggactgagttcagtaggtggagg Alignment from Exonerate_coding2genome GTCTTGAGACCATCCCGACTGCCACGGGG-AGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG gttggctaggtctttgagggcttcaatcggtaaagccttcctttcttcagGTCTAGACACCATCCCCACTGCCACGGGTCAGACATCTGCTTGTGTCTGGGTGGTGGGGCATGGTACAGCATCCCAACTACCTGGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCCTGCGgtaatatgatggctacaatgtatcccaggactgagttcagtaggtggagg Alignment from GeneWise GTCTTGAGACCATCCCGACTGCCACGGGGAGG-CAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG gttggctaggtctttgagggcttcaatcggtaaagccttcctttcttcagGTCTAGACACCATCCCCACTGCCACGGGTCAGACATCTGCTTGTGTCTGGGTGGTGGGGCATGGTACAGCATCCCAACTACCTGGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCCTGCGgtaatatgatggctacaatgtatcccaggactgagttcagtaggtggagg #### Tm7sf2_ID1412_8 --> 2 - 1 Original Alignment ttATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCT-TCTGACCCCAGCGTGGCTg taggcttggtgttttaaccttccttctcgatgtctcttgcttgtttccagttATTGGTTATTATATCTTCCGAGGGGCGAACTCTGAGAAAAACACTTTCAGGCAGAATCCTCTCTGAGCCCAGTGCGGCAggtgagatgggttggctaggtctttgagggcttcaatccctgtgtggtgac Alignment from CESAR ttATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCT-TCTGACCCCAGCGTGGCTg taggcttggtgttttaaccttccttctcgatgtctcttgcttgtttccagttATTGGTTATTATATCTTCCGAGGGGCGAACTCTGAGAAAAACACTTTCAGGCAGAATCCTCTCTGAGCCCAGTGCGGCAggtgagatgggttggctaggtctttgagggcttcaatcggtaaagccttcc Alignment from Spaln_aa2Genome TTATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCT-TCTGACCCCAGCGTGGCTG taggcttggtgttttaaccttccttctcgatgtctcttgcttgtttccagTTATTGGTTATTATATCTTCCGAGGGGCGAACTCTGAGAAAAACACTTTCAGGCAGAATCCTcTCTGAGCCCAGTGCGGCAGgtgagatgggttggctaggtctttgagggcttcaatccctgtgtggtgac Alignment from Spaln_nt2Genome TTATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCT-TCTGACCCCAGCGTGGCTG taggcttggtgttttaaccttccttctcgatgtctcttgcttgtttccagTTATTGGTTATTATATCTTCCGAGGGGCGAACTCTGAGAAAAACACTTTCAGGCAGAATCCTCTCTGAGCCCAGTGCGGCAGgtgagatgggttggctaggtctttgagggcttcaatccctgtgtggtgac Alignment from Pairagon TTATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCT-TCTGACCCCAGCGTGGCTG taggcttggtgttttaaccttccttctcgatgtctcttgcttgtttccagTTATTGGTTATTATATCTTCCGAGGGGCGAACTCTGAGAAAAACACTTTCAGGCAGAATCCTCTCTGAGCCCAGTGCGGCAGgtgagatgggttggctaggtctttgagggcttcaatccctgtgtggtgac Alignment from Exonerate_protein2genome TTATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCT-TCTGACCCCAGCGTGGCTG taggcttggtgttttaaccttccttctcgatgtctcttgcttgtttccagTTATTGGTTATTATATCTTCCGAGGGGCGAACTCTGAGAAAAACACTTTCAGGCAGAATCCTCTCTGAGCCCAGTGCGGCAGgtgagatgggttggctaggtctttgagggcttcaatccctgtgtggtgac Alignment from Exonerate_coding2genome TTATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCT-TCTGACCCCAGCGTGGCTG taggcttggtgttttaaccttccttctcgatgtctcttgcttgtttccagTTATTGGTTATTATATCTTCCGAGGGGCGAACTCTGAGAAAAACACTTTCAGGCAGAATCCTCTCTGAGCCCAGTGCGGCAGgtgagatgggttggctaggtctttgagggcttcaatccctgtgtggtgac Alignment from GeneWise TTATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCT-TCTGACCCCAGCGTGGCTG taggcttggtgttttaaccttccttctcgatgtctcttgcttgtttccagTTATTGGTTATTATATCTTCCGAGGGGCGAACTCTGAGAAAAACACTTTCAGGCAGAATCCTCTCTGAGCCCAGTGCGGCAGgtgagatgggttggctaggtctttgagggcttcaatccctgtgtggtgac #### Tm7sf2_ID1413_7 --> 0 - 1 Original Alignment GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTG-GGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGg aatgtcaagcttgctgctgtcaagggagtgttcatttttatttcctccagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTGGCTTCATGCTTGTCTTTGGAGATTTAGCTTGGATACCACTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCACCCCCAACCACTACGGATACCCAATGGCCTTACTCATCTGCCTGCTCCGGggtgagcattagatacccaaaatgctcaaccctgcaccaccacttatgttg Alignment from CESAR GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTG-GGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGg aatgtcaagcttgctgctgtcaagggagtgttcatttttatttcctccagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTGGCTTCATGCTTGTCTTTGGAGATTTAGCTTGGATACCACTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCACCCCCAACCACTACGGATACCCAATGGCCTTACTCATCTGCCTGCTCCGGggtgagcattagatacccaaaatgctcaaccctgcaccaccacttatgttg Alignment from Spaln_aa2Genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTG-GGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aatgtcaagcttgctgctgtcaagggagtgttcatttttatttcctccagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTGGCTTCATGCTTGTCTTTGGAGATTTAGCTTGGATACCACTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCACCCCCAACCACTAcGGATACCCAATGGCCTTACTCATCTGCCTGCTCCGGGgtgagcattagatacccaaaatgctcaaccctgcaccaccacttatgttg Alignment from Spaln_nt2Genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCA-TGGCCTTGCTCATCTGCCTCCTTAAGG aatgtcaagcttgctgctgtcaagggagtgttcatttttatttcctccagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTGGCTTCATGCTTGTCTTTGGAGATTTAGCTTGGATACCACTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCACCCCCAACCACTACGGATACCCAATGGCCTTACTCATCTGCCTGCTCCGGGgtgagcattagatacccaaaatgctcaaccctgcaccaccacttatgttg Alignment from Pairagon GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCC-ATGGCCTTGCTCATCTGCCTCCTTAAGG aatgtcaagcttgctgctgtcaagggagtgttcatttttatttcctccagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTGGCTTCATGCTTGTCTTTGGAGATTTAGCTTGGATACCACTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCACCCCCAACCACTACGGATACCCAATGGCCTTACTCATCTGCCTGCTCCGGGgtgagcattagatacccaaaatgctcaaccctgcaccaccacttatgttg Alignment from Exonerate_protein2genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTG-GGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aatgtcaagcttgctgctgtcaagggagtgttcatttttatttcctccagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTGGCTTCATGCTTGTCTTTGGAGATTTAGCTTGGATACCACTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCACCCCCAACCACTACGGATACCCAATGGCCTTACTCATCTGCCTGCTCCGGGgtgagcattagatacccaaaatgctcaaccctgcaccaccacttatgttg Alignment from Exonerate_coding2genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTG-GGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aatgtcaagcttgctgctgtcaagggagtgttcatttttatttcctccagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTGGCTTCATGCTTGTCTTTGGAGATTTAGCTTGGATACCACTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCACCCCCAACCACTACGGATACCCAATGGCCTTACTCATCTGCCTGCTCCGGGgtgagcattagatacccaaaatgctcaaccctgcaccaccacttatgttg Alignment from GeneWise GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCT-CTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aatgtcaagcttgctgctgtcaagggagtgttcatttttatttcctccagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTGGCTTCATGCTTGTCTTTGGAGATTTAGCTTGGATACCACTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCACCCCCAACCACTACGGATACCCAATGGCCTTACTCATCTGCCTGCTCCGGGgtgagcattagatacccaaaatgctcaaccctgcaccaccacttatgttg #### Tm7sf2_ID1416_4 --> 2 - 1 Original Alignment gcTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTC-CTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAg ctttcctagtatgtgtactgcccctgagcattccttgttttctatttcaggtTACCAGGCTGTCGTTCTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGCTCCCCCTTGCGGGATTACCTGGAATGCTCCCTGCCACTGGCCTTGGCAACCACTCTCACCAGGTTTGTCTTCAGTCTACTACTCTACACAAAGGCTTTGGTAACACCTGCCTTAGCTCTGAACTCTGGGGGAAACTCAggtaagtagggtgccaaccaggtctcaacaggtgagggtatagagaatgtg Alignment from CESAR gcTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTC-CTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAg ctttcctagtatgtgtactgcccctgagcattccttgttttctatttcaggtTACCAGGCTGTCGTTCTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGCTCCCCCTTGCGGGATTACCTGGAATGCTCCCTGCCACTGGCCTTGGCAACCACTCTCACCAGGTTTGTCTTCAGTCTACTACTCTACACAAAGGCTTTGGTAACACCTGCCTTAGCTCTGAACTCTGGGGGAAACTCAggtaagtagggtgccaaccaggtctcaacaggtgagggtatagagaatgtg Alignment from Spaln_aa2Genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTC-CTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgcccctgagcattccttgttttctatttcagGTTACCAGGCTGTCGTTCTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGCTCCCCCTTGCGGGATTACCTGGAATGCTCcCTGCCACTGGCCTTGGCAACCACTCTCACCAGGTTTGTCTTCAGTCTACTACTCTACACAAAGGCTTTGGTAACACCTGCCTTAGCTCTGAACTCTGGGGGAAACTCAGgtaagtagggtgccaaccaggtctcaacaggtgagggtatagagaatgtg Alignment from Spaln_nt2Genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCT-CCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgcccctgagcattccttgttttctatttcagGTTACCAGGCTGTCGTTCTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGCTCCCCCTTGCGGGATTACCTGGAATGCTCCCTGCCACTGGCCTTGGCAACCACTCTCACCAGGTTTGTCTTCAGTCTACTACTCTACACAAAGGCTTTGGTAACACCTGCCTTAGCTCTGAACTCTGGGGGAAACTCAGgtaagtagggtgccaaccaggtctcaacaggtgagggtatagagaatgtg Alignment from Pairagon GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCT-CCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgcccctgagcattccttgttttctatttcagGTTACCAGGCTGTCGTTCTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGCTCCCCCTTGCGGGATTACCTGGAATGCTCCCTGCCACTGGCCTTGGCAACCACTCTCACCAGGTTTGTCTTCAGTCTACTACTCTACACAAAGGCTTTGGTAACACCTGCCTTAGCTCTGAACTCTGGGGGAAACTCAGgtaagtagggtgccaaccaggtctcaacaggtgagggtatagagaatgtg Alignment from Exonerate_protein2genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTC-CTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgcccctgagcattccttgttttctatttcagGTTACCAGGCTGTCGTTCTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGCTCCCCCTTGCGGGATTACCTGGAATGCTCCCTGCCACTGGCCTTGGCAACCACTCTCACCAGGTTTGTCTTCAGTCTACTACTCTACACAAAGGCTTTGGTAACACCTGCCTTAGCTCTGAACTCTGGGGGAAACTCAGgtaagtagggtgccaaccaggtctcaacaggtgagggtatagagaatgtg Alignment from Exonerate_coding2genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTC-CTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgcccctgagcattccttgttttctatttcagGTTACCAGGCTGTCGTTCTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGCTCCCCCTTGCGGGATTACCTGGAATGCTCCCTGCCACTGGCCTTGGCAACCACTCTCACCAGGTTTGTCTTCAGTCTACTACTCTACACAAAGGCTTTGGTAACACCTGCCTTAGCTCTGAACTCTGGGGGAAACTCAGgtaagtagggtgccaaccaggtctcaacaggtgagggtatagagaatgtg Alignment from GeneWise GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTC-CTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgcccctgagcattccttgttttctatttcagGTTACCAGGCTGTCGTTCTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGCTCCCCCTTGCGGGATTACCTGGAATGCTCCCTGCCACTGGCCTTGGCAACCACTCTCACCAGGTTTGTCTTCAGTCTACTACTCTACACAAAGGCTTTGGTAACACCTGCCTTAGCTCTGAACTCTGGGGGAAACTCAGgtaagtagggtgccaaccaggtctcaacaggtgagggtatagagaatgtg #### Tm9sf3_ID8137_13 --> 1 - 2 Original Alignment gCAGTGGACGAGTTTCCTGTCTGCGGCGTCGACCGCG-ATCTACGTTTACATGTACTCCTTTTACTACTACTTCTTCAAAACCaa agatgcccagttactttatttagcttaatctgataacttttcatctttaggCAGTGGACGAGTTTCCTGTCTGCGGCCTCAACTGCTCATCTATGTTTATATGTACTCCTTTTACTACTACTTCTTCAAAACCaagtgagtgtgcaatataagtatagagagatatccaacaaaaacagtgctag Alignment from CESAR gCAGTGGACGAGTTTCCTGTCTGCGGCGTCGACCGCG-ATCTACGTTTACATGTACTCCTTTTACTACTACTTCTTCAAAACCaa agatgcccagttactttatttagcttaatctgataacttttcatctttaggCAGTGGACGAGTTTCCTGTCTGCGGCCTCAACTGCTCATCTATGTTTATATGTACTCCTTTTACTACTACTTCTTCAAAACCaagtgagtgtgcaatataagtatagagagatatccaacaaaaacagtgctag Alignment from Spaln_aa2Genome GCAGTGGACGAGTTTCCTGTCTGCGGCGTCGACCGCG-ATCTACGTTTACATGTACTCCTTTTACTACTACTTCTTCAAAACCAA agatgcccagttactttatttagcttaatctgataacttttcatctttagGCAGTGGACGAGTTTCCTGTCTGCGGCCTCAACTGCTcATCTATGTTTATATGTACTCCTTTTACTACTACTTCTTCAAAACCAAgtgagtgtgcaatataagtatagagagatatccaacaaaaacagtgctag Alignment from Spaln_nt2Genome GCAGTGGACGAGTTTCCTGTCTGCGGCGTCGACCGCG-ATCTACGTTTACATGTACTCCTTTTACTACTACTTCTTCAAAACCAA agatgcccagttactttatttagcttaatctgataacttttcatctttagGCAGTGGACGAGTTTCCTGTCTGCGGCCTCAACTGCTCATCTATGTTTATATGTACTCCTTTTACTACTACTTCTTCAAAACCAAgtgagtgtgcaatataagtatagagagatatccaacaaaaacagtgctag Alignment from Pairagon GCAGTGGACGAGTTTCCTGTCTGCGGCGTCGACCGC-GATCTACGTTTACATGTACTCCTTTTACTACTACTTCTTCAAAACCAA agatgcccagttactttatttagcttaatctgataacttttcatctttagGCAGTGGACGAGTTTCCTGTCTGCGGCCTCAACTGCTCATCTATGTTTATATGTACTCCTTTTACTACTACTTCTTCAAAACCAAgtgagtgtgcaatataagtatagagagatatccaacaaaaacagtgctag Alignment from Exonerate_protein2genome GCAGTGGACGAGTTTCCTGTCTGCGGCGTCGACCGCG-ATCTACGTTTACATGTACTCCTTTTACTACTACTTCTTCAAAACCAA agatgcccagttactttatttagcttaatctgataacttttcatctttagGCAGTGGACGAGTTTCCTGTCTGCGGCCTCAACTGCTCATCTATGTTTATATGTACTCCTTTTACTACTACTTCTTCAAAACCAAgtgagtgtgcaatataagtatagagagatatccaacaaaaacagtgctag Alignment from Exonerate_coding2genome GCAGTGGACGAGTTTCCTGTCTGCGGCGTCGACCGCG-ATCTACGTTTACATGTACTCCTTTTACTACTACTTCTTCAAAACCAA agatgcccagttactttatttagcttaatctgataacttttcatctttagGCAGTGGACGAGTTTCCTGTCTGCGGCCTCAACTGCTCATCTATGTTTATATGTACTCCTTTTACTACTACTTCTTCAAAACCAAgtgagtgtgcaatataagtatagagagatatccaacaaaaacagtgctag Alignment from GeneWise GCAGTGGACGAGTTTCCTGTCTGCGGCGTCGACC-GCGATCTACGTTTACATGTACTCCTTTTACTACTACTTCTTCAAAACCAA agatgcccagttactttatttagcttaatctgataacttttcatctttagGCAGTGGACGAGTTTCCTGTCTGCGGCCTCAACTGCTCATCTATGTTTATATGTACTCCTTTTACTACTACTTCTTCAAAACCAAgtgagtgtgcaatataagtatagagagatatccaacaaaaacagtgctag #### Tmc1_ID4822_19 --> 0 - 1 Original Alignment CAAGCTTTGGAGAACAAAATG-CGAAACAAGAAAATGGCAGCGGCTCGAGCAg atacctgggctaaatgggccctggcctcgtaagccaagtgtttcctgtagCAGGCCTTGGAGAACAAAATACCGAAACAAGAAAATGGCTGCAGCAAGAGCAcgtgagggatgttacatcttacactaaaaactatcaattaatgaggtgcaa Alignment from CESAR CAAGCTTTGGAGAACAAAATG-CGAAACAAGAAAATGGCAGCGGCTCGAGCAg atacctgggctaaatgggccctggcctcgtaagccaagtgtttcctgtagCAGGCCTTGGAGAACAAAATACCGAAACAAGAAAATGGCTGCAGCAAGAGCAcgtgagggatgttacatcttacactaaaaactatcaattaatgaggtgcaa Alignment from Spaln_aa2Genome CAAGCTTTGGAGAACAAAATG-CGAAACAAGAAAATGGCAGCGGCTCGAGCAG atacctgggctaaatgggccctggcctcgtaagccaagtgtttcctgtagCAGGCCTTGGAGAACAAAATAcCGAAACAAGAAAATGGCTGCAGCAAGAGCACgtgagggatgttacatcttacactaaaaactatcaattaatgaggtgcaa Alignment from Spaln_nt2Genome CAAGCTTTGGAGAACAAAATGC-GAAACAAGAAAATGGCAGCGGCTCGAGCAG atacctgggctaaatgggccctggcctcgtaagccaagtgtttcctgtagCAGGCCTTGGAGAACAAAATACCGAAACAAGAAAATGGCTGCAGCAAGAGCACgtgagggatgttacatcttacactaaaaactatcaattaatgaggtgcaa Alignment from Pairagon CAAGCTTTGGAGAACAAAATG-CGAAACAAGAAAATGGCAGCGGCTCGAGCAG atacctgggctaaatgggccctggcctcgtaagccaagtgtttcctgtagCAGGCCTTGGAGAACAAAATACCGAAACAAGAAAATGGCTGCAGCAAGAGCACgtgagggatgttacatcttacactaaaaactatcaattaatgaggtgcaa Alignment from Exonerate_protein2genome CAAGCTTTGGAGAACAAAATG-CGAAACAAGAAAATGGCAGCGGCTCGAGCAG atacctgggctaaatgggccctggcctcgtaagccaagtgtttcctgtagCAGGCCTTGGAGAACAAAATACCGAAACAAGAAAATGGCTGCAGCAAGAGCACgtgagggatgttacatcttacactaaaaactatcaattaatgaggtgcaa Alignment from Exonerate_coding2genome CAAGCTTTGGAGAACAAAATG-CGAAACAAGAAAATGGCAGCGGCTCGAGCA atacctgggctaaatgggccctggcctcgtaagccaagtgtttcctgtagCAGGCCTTGGAGAACAAAATACCGAAACAAGAAAATGGCTGCAGCAAGAGCAcgtgagggatgttacatcttacactaaaaactatcaattaatgaggtgcaa Alignment from GeneWise atacctgggctaaatgggccctggcctcgtaagccaagtgtttcctgtagcaggccttggagaacaaaataccgaaacaagaaaatggctgcagcaagagcacgtgagggatgttacatcttacactaaaaactatcaattaatgaggtgcaa #### Tmem179b_ID2369_4 --> 1 - 0 Original Alignment cTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCC-AACCTACATACTGCTGAA ctacccttaccattcttattacacttatctgctctctctcccctctgcagcTGCTCTGAAGCACAGAAGACTGCTTGGACACCTTCGGGAACTGCTGTGCAGCTTTACTCCCAACCTACACACCGCCGAAgtgagatgcaggcgtccataaggagacatcaatacgcttggctctgtgct Alignment from CESAR cTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCC-AACCTACATACTGCTGAA ctacccttaccattcttattacacttatctgctctctctcccctctgcagcTGCTCTGAAGCACAGAAGACTGCTTGGACACCTTCGGGAACTGCTGTGCAGCTTTACTCCCAACCTACACACCGCCGAAgtgagatgcaggcgtccataaggagacatcaatacgcttggctctgtgct Alignment from Spaln_aa2Genome CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCC-AACCTACATACTGCTGAA ctacccttaccattcttattacacttatctgctctctctcccctctgcagCTGCTCTGAAGCACAGAAGACTGCTTGGACACCTTCGGGAACTGCTGTGCAGCTTTACTCCcAACCTACACACCGCCGAAgtgagatgcaggcgtccataaggagacatcaatacgcttggctctgtgct Alignment from Spaln_nt2Genome CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCC-AACCTACATACTGCTGAA ctacccttaccattcttattacacttatctgctctctctcccctctgcagCTGCTCTGAAGCACAGAAGACTGCTTGGACACCTTCGGGAACTGCTGTGCAGCTTTACTCCCAACCTACACACCGCCGAAgtgagatgcaggcgtccataaggagacatcaatacgcttggctctgtgct Alignment from Pairagon CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACT-CCAACCTACATACTGCTGAA ctacccttaccattcttattacacttatctgctctctctcccctctgcagCTGCTCTGAAGCACAGAAGACTGCTTGGACACCTTCGGGAACTGCTGTGCAGCTTTACTCCCAACCTACACACCGCCGAAgtgagatgcaggcgtccataaggagacatcaatacgcttggctctgtgct Alignment from Exonerate_protein2genome CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCC-AACCTACATACTGCTGAA ctacccttaccattcttattacacttatctgctctctctcccctctgcagCTGCTCTGAAGCACAGAAGACTGCTTGGACACCTTCGGGAACTGCTGTGCAGCTTTACTCCCAACCTACACACCGCCGAAgtgagatgcaggcgtccataaggagacatcaatacgcttggctctgtgct Alignment from Exonerate_coding2genome CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCC-AACCTACATACTGCTGAA ctacccttaccattcttattacacttatctgctctctctcccctctgcagCTGCTCTGAAGCACAGAAGACTGCTTGGACACCTTCGGGAACTGCTGTGCAGCTTTACTCCCAACCTACACACCGCCGAAgtgagatgcaggcgtccataaggagacatcaatacgcttggctctgtgct Alignment from GeneWise CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTAC-TCCAACCTACATACTGCTGAA ctacccttaccattcttattacacttatctgctctctctcccctctgcagCTGCTCTGAAGCACAGAAGACTGCTTGGACACCTTCGGGAACTGCTGTGCAGCTTTACTCCCAACCTACACACCGCCGAAgtgagatgcaggcgtccataaggagacatcaatacgcttggctctgtgct #### Tmem179b_ID2370_3 --> 1 - 2 Original Alignment aGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTA-GTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTag caggttcactttgtggtaggttcttaattcccccacttccacccccacagaGGCTCTATAGGGCTCCGGATTGCTCTGGCCATCTCAGCTACAGCTATCTTCCTAATTTTACGTATCTGCTTGCATAGTTCGATTTGGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTTACAATAaggtaggatgtagaataggtccactcagaggtgcaaactaaatttagttcct Alignment from CESAR aGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTA-GTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTag caggttcactttgtggtaggttcttaattcccccacttccacccccacagaGGCTCTATAGGGCTCCGGATTGCTCTGGCCATCTCAGCTACAGCTATCTTCCTAATTTTACGTATCTGCTTGCATAGTTCGATTTGGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTTACAATAaggtaggatgtagaataggtccactcagaggtgcaaactaaatttagttcct Alignment from Spaln_aa2Genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTA-GTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG caggttcactttgtggtaggttcttaattcccccacttccacccccacagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATCTCAGCTACAGCTATCTTCCTAATTTTAcGTATCTGCTTGCATAGTTCGATTTGGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTTACAATAAGgtaggatgtagaataggtccactcagaggtgcaaactaaatttagttcct Alignment from Spaln_nt2Genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTA-GTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG caggttcactttgtggtaggttcttaattcccccacttccacccccacagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATCTCAGCTACAGCTATCTTCCTAATTTTACGTATCTGCTTGCATAGTTCGATTTGGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTTACAATAAGgtaggatgtagaataggtccactcagaggtgcaaactaaatttagttcct Alignment from Pairagon AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTA-GTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG caggttcactttgtggtaggttcttaattcccccacttccacccccacagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATCTCAGCTACAGCTATCTTCCTAATTTTACGTATCTGCTTGCATAGTTCGATTTGGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTTACAATAAGgtaggatgtagaataggtccactcagaggtgcaaactaaatttagttcct Alignment from Exonerate_protein2genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTA-GTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG caggttcactttgtggtaggttcttaattcccccacttccacccccacagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATCTCAGCTACAGCTATCTTCCTAATTTTACGTATCTGCTTGCATAGTTCGATTTGGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTTACAATAAGgtaggatgtagaataggtccactcagaggtgcaaactaaatttagttcct Alignment from Exonerate_coding2genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTA-GTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG caggttcactttgtggtaggttcttaattcccccacttccacccccacagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATCTCAGCTACAGCTATCTTCCTAATTTTACGTATCTGCTTGCATAGTTCGATTTGGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTTACAATAAGgtaggatgtagaataggtccactcagaggtgcaaactaaatttagttcct Alignment from GeneWise -GGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTA-GTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG caggttcactttgtggtaggttcttaattcccccacttccacccccacagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATCTCAGCTACAGCTATCTTCCTAATTTTACGTATCTGCTTGCATAGTTCGATTTGGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTTACAATAAGgtaggatgtagaataggtccactcagaggtgcaaactaaatttagttcct #### Tmem180_ID9862_4 --> 1 - 0 Original Alignment cGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACCTTGGGCCAGTACCTCCGGCAACTGGCACGC-CACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcctgaagccagtataaacatgatgttctgtttttcctaaaaacagtGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACCTTAGGGCAGTACCTCCGCCAACAGGCACACCCACCAGAACTTCCTATGGTTTGTAGGTATGTATTTGGTGCAGgtgaatcagcctatcccttagctccctgccaggctcaattatgacctgga Alignment from CESAR cGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACCTTGGGCCAGTACCTCCGGCAACTGGCACGC-CACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcctgaagccagtataaacatgatgttctgtttttcctaaaaacagtGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACCTTAGGGCAGTACCTCCGCCAACAGGCACACCCACCAGAACTTCCTATGGTTTGTAGGTATGTATTTGGTGCAGgtgaatcagcctatcccttagctccctgccaggctcaattatgacctgga Alignment from Spaln_aa2Genome CGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACCTTGGGCCAGTACCTCCGGCAACTGGCACGC-CACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcctgaagccagtataaacatgatgttctgtttttcctaaaaacagTGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACCTTAGGGCAGTACCTCCGCCAACAGGCACACcCACCAGAACTTCCTATGGTTTGTAGGTATGTATTTGGTGCAGgtgaatcagcctatcccttagctccctgccaggctcaattatgacctgga Alignment from Spaln_nt2Genome CGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACCTTGGGCCAGTACCTCCGGCAACTGGCACGCC-ACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcctgaagccagtataaacatgatgttctgtttttcctaaaaacagTGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACCTTAGGGCAGTACCTCCGCCAACAGGCACACCCACCAGAACTTCCTATGGTTTGTAGGTATGTATTTGGTGCAGgtgaatcagcctatcccttagctccctgccaggctcaattatgacctgga Alignment from Pairagon CGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACCTTGGGCCAGTACCTCCGGCAACTGGCACG-CCACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcctgaagccagtataaacatgatgttctgtttttcctaaaaacagTGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACCTTAGGGCAGTACCTCCGCCAACAGGCACACCCACCAGAACTTCCTATGGTTTGTAGGTATGTATTTGGTGCAGgtgaatcagcctatcccttagctccctgccaggctcaattatgacctgga Alignment from Exonerate_protein2genome CGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACCTTGGGCCAGTACCTCCGGCAACTGGCACGC-CACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcctgaagccagtataaacatgatgttctgtttttcctaaaaacagTGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACCTTAGGGCAGTACCTCCGCCAACAGGCACACCCACCAGAACTTCCTATGGTTTGTAGGTATGTATTTGGTGCAGgtgaatcagcctatcccttagctccctgccaggctcaattatgacctgga Alignment from Exonerate_coding2genome CGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACCTTGGGCCAGTACCTCCGGCAACTGGCACGC-CACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcctgaagccagtataaacatgatgttctgtttttcctaaaaacagTGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACCTTAGGGCAGTACCTCCGCCAACAGGCACACCCACCAGAACTTCCTATGGTTTGTAGGTATGTATTTGGTGCAGgtgaatcagcctatcccttagctccctgccaggctcaattatgacctgga Alignment from GeneWise CGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACCTTGGGCCAGTACCTCCGGCAACTGGCA-CGCCACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcctgaagccagtataaacatgatgttctgtttttcctaaaaacagTGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACCTTAGGGCAGTACCTCCGCCAACAGGCACACCCACCAGAACTTCCTATGGTTTGTAGGTATGTATTTGGTGCAGgtgaatcagcctatcccttagctccctgccaggctcaattatgacctgga #### Trmt112_ID1862_3 --> 0 - 0 Original Alignment TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGC-TATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG tctttctagtaattatagtttaggtcttcaccttcgtcttgtctccatagTTGAACTTAGCTGCAGTGCCCCGAGAGCCAACTGAGGGCCTATGAGCATGATGAAACATTTTTGAGGGAGATGCGTCATGTACTGCTTGAGgtatgtaacctggaccaccatgcccaggtgtctatagtcgttacaagcct Alignment from CESAR TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGC-TATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG tctttctagtaattatagtttaggtcttcaccttcgtcttgtctccatagTTGAACTTAGCTGCAGTGCCCCGAGAGCCAACTGAGGGCCTATGAGCATGATGAAACATTTTTGAGGGAGATGCGTCATGTACTGCTTGAGgtatgtaacctggaccaccatgcccaggtgtctatagtcgttacaagcct Alignment from Spaln_aa2Genome TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGC-TATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG tctttctagtaattatagtttaggtcttcaccttcgtcttgtctccatagTTGAACTTAGCTGCAGTGCCCCGAGAGCCAACTGAGGGCcTATGAGCATGATGAAACATTTTTGAGGGAGATGCGTCATGTACTGCTTGAGgtatgtaacctggaccaccatgcccaggtgtctatagtcgttacaagcct Alignment from Spaln_nt2Genome TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGC-TATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG tctttctagtaattatagtttaggtcttcaccttcgtcttgtctccatagTTGAACTTAGCTGCAGTGCCCCGAGAGCCAACTGAGGGCCTATGAGCATGATGAAACATTTTTGAGGGAGATGCGTCATGTACTGCTTGAGgtatgtaacctggaccaccatgcccaggtgtctatagtcgttacaagcct Alignment from Pairagon TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGG-CTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG tctttctagtaattatagtttaggtcttcaccttcgtcttgtctccatagTTGAACTTAGCTGCAGTGCCCCGAGAGCCAACTGAGGGCCTATGAGCATGATGAAACATTTTTGAGGGAGATGCGTCATGTACTGCTTGAGgtatgtaacctggaccaccatgcccaggtgtctatagtcgttacaagcct Alignment from Exonerate_protein2genome TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGC-TATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG tctttctagtaattatagtttaggtcttcaccttcgtcttgtctccatagTTGAACTTAGCTGCAGTGCCCCGAGAGCCAACTGAGGGCCTATGAGCATGATGAAACATTTTTGAGGGAGATGCGTCATGTACTGCTTGAGgtatgtaacctggaccaccatgcccaggtgtctatagtcgttacaagcct Alignment from Exonerate_coding2genome TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGC-TATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG tctttctagtaattatagtttaggtcttcaccttcgtcttgtctccatagTTGAACTTAGCTGCAGTGCCCCGAGAGCCAACTGAGGGCCTATGAGCATGATGAAACATTTTTGAGGGAGATGCGTCATGTACTGCTTGAGgtatgtaacctggaccaccatgcccaggtgtctatagtcgttacaagcct Alignment from GeneWise TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAA-GGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAGGTT----------------------------------------------- tctttctagtaattatagtttaggtcttcaccttcgtcttgtctccatagTTGAACTTAGCTGCAGTGCCCCGAGAGCCAACTGAGGGCCTATGAGCATGATGAAACATTTTTGAGGGAGATGCGTCATGTACTGCTTGAGGTATGTAACCTGGACCACCATGCCCAGGTGTCTATAGTCGTTACAAGCCT #### Trpt1_ID1981_4 --> 0 - 1 Original Alignment GTCCCTGAGTTGGAACTG-ACGCCCCTGGAGACACCA---CAA------GCCCTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCg gaatgttagaggggaacttctctgctgctcttgttttattacgaacccagGTCCCTGAGTTGGAGCTTCACACCCCTGGACACACCACAACAAGCCCTGCCCCTGCCCCTAGCACTAGTCCATGGCACATTCTGGACAAATCACTGGCCATCCATTTTGCTCAAGGGG---TCACATCAAGGAAGGACATGCAATCATCTCGCTTCAGGATTGCCA---GACCCAGGCACCATCAGTggtaagatctaattaccctatcatgatgcatggatagacagagcctcattt Alignment from CESAR GTCCCTGAGTTGGAACTG-ACGCCCCTGGAGACACCACAA---GCCCTGCCCTTG------ACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCg gaatgttagaggggaacttctctgctgctcttgttttattacgaacccagGTCCCTGAGTTGGAGCTTCACACCCCTGGACACACCACAACAAGCCCTGCCCCTGCCCCTAGCACTAGTCCATGGCACATTCTGGACAAATCACTGGCCATCCATTTTGCTCAAGGGG---TCACATCAAGGAAGGACATGCAATCATCTCGCTTCAGGATTGCCA---GACCCAGGCACCATCAGTggtaagatctaattaccctatcatgatgcatggatagacagagcctcattt Alignment from Spaln_aa2Genome GTCCCTGAGTTGGAACTG-ACGCCCCTGGAGACACCACAA---------GCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gaatgttagaggggaacttctctgctgctcttgttttattacgaacccagGTCCCTGAGTTGGAGCTTcACACCCCTGGACACACCACAACAAGCCCTGCCCCTGCCCCTAGCACTAGTCCATGGCACATTCTGGACAAATCACTGGCCATCCATTTTGCTCAAGGGGTCACATCAAGGAAGGACATGCAATCATCTCGCTTCAGGATTGCCA---GACCCAGGCACCATCAGTGgtaagatctaattaccctatcatgatgcatggatagacagagcctcattt Alignment from Spaln_nt2Genome GTCCCTGAGTTGGAACTG-ACGCCCCTGGAGACACCACAA---GCCCTGCCCTTGAC------ACTAGTCCATGGTACATTCTGGA---AGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gaatgttagaggggaacttctctgctgctcttgttttattacgaacccagGTCCCTGAGTTGGAGCTTCACACCCCTGGACACACCACAACAAGCCCTGCCCCTGCCCCTAGCACTAGTCCATGGCACATTCTGGACAAATCACTGGCCATCCATTTTGCTCAAGGG---GTCACATCAAGGAAGGACATGCAATCATCTCGCTTCAGGATTGCC---AGACCCAGGCACCATCAGTGgtaagatctaattaccctatcatgatgcatggatagacagagcctcattt Alignment from Pairagon GTCCCTGAGTTGGAAC-TGACGCCCCTGGAGACACCACAA---------GCCCTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gaatgttagaggggaacttctctgctgctcttgttttattacgaacccagGTCCCTGAGTTGGAGCTTCACACCCCTGGACACACCACAACAAGCCCTGCCCCTGCCCCTAGCACTAGTCCATGGCACATTCTGGACAAATCACTGGCCATCCATTTTGCTCAAGGG---GTCACATCAAGGAAGGACATGCAATCATCTCGCTTCAGGATTGCC---AGACCCAGGCACCATCAGTGgtaagatctaattaccctatcatgatgcatggatagacagagcctcattt Alignment from Exonerate_protein2genome GTCCCTGAGTTGGAACTG-ACGCCCCTGGAGACACCACAA---------GCCCTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gaatgttagaggggaacttctctgctgctcttgttttattacgaacccagGTCCCTGAGTTGGAGCTTCACACCCCTGGACACACCACAACAAGCCCTGCCCCTGCCCCTAGCACTAGTCCATGGCACATTCTGGACAAATCACTGGCCATCCATTTTGCTCAAGGGG---TCACATCAAGGAAGGACATGCAATCATCTCGCTTCAGGATTGCCA---GACCCAGGCACCATCAGTGgtaagatctaattaccctatcatgatgcatggatagacagagcctcattt Alignment from Exonerate_coding2genome GTCCCTGAGTTGGAACTG-ACGCCCCTGGAGACACCACAA---------GCCCTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCGGC gaatgttagaggggaacttctctgctgctcttgttttattacgaacccagGTCCCTGAGTTGGAGCTTCACACCCCTGGACACACCACAACAAGCCCTGCCCCTGCCCCTAGCACTAGTCCATGGCACATTCTGGACAAATCACTGGCCATCCATTTTGCTCAAGGGG---TCACATCAAGGAAGGACATGCAATCATCTCGCTTCAGGATTGCCA---GACCCAGGCACCATCAGTGGTaagatctaattaccctatcatgatgcatggatagacagagcctcattt Alignment from GeneWise GTCCCTGAGTTGGAA-CTGACGCCCCTGGAGACACCACAAGCC---------CTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gaatgttagaggggaacttctctgctgctcttgttttattacgaacccagGTCCCTGAGTTGGAGCTTCACACCCCTGGACACACCACAACAAGCCCTGCCCCTGCCCCTAGCACTAGTCCATGGCACATTCTGGACAAATCACTGGCCATCCATTTTGCTCAAGGGG---TCACATCAAGGAAGGACATGCAATCATCTCGCTTCAGGATTGCCA---GACCCAGGCACCATCAGTGgtaagatctaattaccctatcatgatgcatggatagacagagcctcattt #### Trpt1_ID1983_6 --> 2 - 1 Original Alignment atGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAG-GCCCTGCAGCTTCGACCTACAc gaagaaagtgtgactatcacatgatcactgtttgttttcctctattaaagatGGAATTCCA---TTCTGCTTTGGCAACGGGGTGATTTTAACACCAGGGAATGTTGAAGGTTTTCTCCTTCCTAAATACTCTAAAGAGCGCTCTCCAGCTACGGCCTATGcgtgagtttataacctggcctgagatggcactctctataagtctgtctgaa Alignment from CESAR atGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAG-GCCCTGCAGCTTCGACCTACAc gaagaaagtgtgactatcacatgatcactgtttgttttcctctattaaagatGGAATTCCA---TTCTGCTTTGGCAACGGGGTGATTTTAACACCAGGGAATGTTGAAGGTTTTCTCCTTCCTAAATACTCTAAAGAGCGCTCTCCAGCTACGGCCTATGcgtgagtttataacctggcctgagatggcactctctataagtctgtctgaa Alignment from Spaln_aa2Genome ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAG-GCCCTGCAGCTTCGACCTACAC gaagaaagtgtgactatcacatgatcactgtttgttttcctctattaaagATGGAATTCCA---TTCTGCTTTGGCAACGGGGTGATTTTAACACCAGGGAATGTTGAAGGTTTTCTCCTTCCTAAATACTCTAAAGAGcGCTCTCCAGCTACGGCCTATGCgtgagtttataacctggcctgagatggcactctctataagtctgtctgaa Alignment from Spaln_nt2Genome ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAG-GCCCTGCAGCTTCGACCTACAC gaagaaagtgtgactatcacatgatcactgtttgttttcctctattaaagATGGAATTCC---ATTCTGCTTTGGCAACGGGGTGATTTTAACACCAGGGAATGTTGAAGGTTTTCTCCTTCCTAAATACTCTAAAGAGCGCTCTCCAGCTACGGCCTATGCgtgagtttataacctggcctgagatggcactctctataagtctgtctgaa Alignment from Pairagon ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAG-GCCCTGCAGCTTCGACCTACAC gaagaaagtgtgactatcacatgatcactgtttgttttcctctattaaagATGGAATTCC---ATTCTGCTTTGGCAACGGGGTGATTTTAACACCAGGGAATGTTGAAGGTTTTCTCCTTCCTAAATACTCTAAAGAGCGCTCTCCAGCTACGGCCTATGCgtgagtttataacctggcctgagatggcactctctataagtctgtctgaa Alignment from Exonerate_protein2genome ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAG-GCCCTGCAGCTTCGACCTACAC gaagaaagtgtgactatcacatgatcactgtttgttttcctctattaaagATGGAATTCCA---TTCTGCTTTGGCAACGGGGTGATTTTAACACCAGGGAATGTTGAAGGTTTTCTCCTTCCTAAATACTCTAAAGAGCGCTCTCCAGCTACGGCCTATGCgtgagtttataacctggcctgagatggcactctctataagtctgtctgaa Alignment from Exonerate_coding2genome gaagaaagtgtgactatcacatgatcactgtttgttttcctctattaaagatggaattccattctgctttggcaacggggtgattttaacaccagggaatgttgaaggttttctccttcctaaatactctaaagagcgctctccagctacggcctatgcgtgagtttataacctggcctgagatggcactctctataagtctgtctgaa Alignment from GeneWise ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTAC-TTCAAGGAGGCCCTGCAGCTTCGACCTACAC gaagaaagtgtgactatcacatgatcactgtttgttttcctctattaaagATGGAATTCCATTC---TGCTTTGGCAACGGGGTGATTTTAACACCAGGGAATGTTGAAGGTTTTCTCCTTCCTAAATACTCTAAAGAGCGCTCTCCAGCTACGGCCTATGCgtgagtttataacctggcctgagatggcactctctataagtctgtctgaa #### Tsga10ip_ID978_2 --> 0 - 2 Original Alignment ACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGC-ACCCCCCGGAAGCACag atttaaaacaaggacagatcttacttcactgagcctggccccgcctccagACTAATGCCTGTCTTACAGGAAATTGGCGGTTCTCCCAGGTTTTATCTGGACTAGGTGTAGATGATGATCAGCTACTAGCTGAGGCAGGCATTGCTGAAAGCCACTCCCCAGAAGCACaggtgggtgatgtaaggcactggtctactatatcaagtcacatgtcctgccc Alignment from CESAR ACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGC-ACCCCCCGGAAGCACag atttaaaacaaggacagatcttacttcactgagcctggccccgcctccagACTAATGCCTGTCTTACAGGAAATTGGCGGTTCTCCCAGGTTTTATCTGGACTAGGTGTAGATGATGATCAGCTACTAGCTGAGGCAGGCATTGCTGAAAGCCACTCCCCAGAAGCACaggtgggtgatgtaaggcactggtctactatatcaagtcacatgtcctgccc Alignment from Spaln_aa2Genome ACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGC-ACCCCCCGGAAGCACAG atttaaaacaaggacagatcttacttcactgagcctggccccgcctccagACTAATGCCTGTCTTACAGGAAATTGGCGGTTCTCCCAGGTTTTATCTGGACTAGGTGTAGATGATGATCAGCTACTAGCTGAGGCAGGCATTGCTGAAAGCcACTCCCCAGAAGCACAGgtgggtgatgtaaggcactggtctactatatcaagtcacatgtcctgccc Alignment from Spaln_nt2Genome CAGACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGC-ACCCCCCGGAAGCACAG atttaaaacaaggacagatcttacttcactgagcctggccccgcctcCAGACTAATGCCTGTCTTACAGGAAATTGGCGGTTCTCCCAGGTTTTATCTGGACTAGGTGTAGATGATGATCAGCTACTAGCTGAGGCAGGCATTGCTGAAAGCCACTCCCCAGAAGCACAGgtgggtgatgtaaggcactggtctactatatcaagtcacatgtcctgccc Alignment from Pairagon CAGACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAG-CACCCCCCGGAAGCACAG atttaaaacaaggacagatcttacttcactgagcctggccccgcctcCAGACTAATGCCTGTCTTACAGGAAATTGGCGGTTCTCCCAGGTTTTATCTGGACTAGGTGTAGATGATGATCAGCTACTAGCTGAGGCAGGCATTGCTGAAAGCCACTCCCCAGAAGCACAGgtgggtgatgtaaggcactggtctactatatcaagtcacatgtcctgccc Alignment from Exonerate_protein2genome CAGACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGC-ACCCCCCGGAAGCACAG atttaaaacaaggacagatcttacttcactgagcctggccccgcctcCAGACTAATGCCTGTCTTACAGGAAATTGGCGGTTCTCCCAGGTTTTATCTGGACTAGGTGTAGATGATGATCAGCTACTAGCTGAGGCAGGCATTGCTGAAAGCCACTCCCCAGAAGCACAGgtgggtgatgtaaggcactggtctactatatcaagtcacatgtcctgccc Alignment from Exonerate_coding2genome CAGACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGC-ACCCCCCGGAAGCACAG atttaaaacaaggacagatcttacttcactgagcctggccccgcctcCAGACTAATGCCTGTCTTACAGGAAATTGGCGGTTCTCCCAGGTTTTATCTGGACTAGGTGTAGATGATGATCAGCTACTAGCTGAGGCAGGCATTGCTGAAAGCCACTCCCCAGAAGCACAGgtgggtgatgtaaggcactggtctactatatcaagtcacatgtcctgccc Alignment from GeneWise CAGACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGC---ACCCCCCGG------------------AAGCACAG atttaaaacaaggacagatcttacttcactgagcctggccccgcctcCAGACTAATGCCTGTCTTACAGGAAATTGGCGGTTCTCCCAGGTTTTATCTGGACTAGGTGTAGATGATGATCAGCTACTAGCTGAGGCAGGCATTGCTGAAAGCCACTCCCCAGAAGCACAGGTGGGTGATGTAAGGCACTGgtctactatatcaagtcacatgtcctgccc #### Tut1_ID2551_4 --> 2 - 0 Original Alignment gcTGTGTGGTCCATCCTTTTGGCTCTACTGTAAATAGCTTTGATGTTCATGGCTGTGATCTCGACCTCTTCTTGGACATGGGTGAT-ATGGAAGAGACCGAG gcatctctggaaccatgtcacttatcctacagcttcctgcctgtacccaggcTGTGTGGTCCATCCTTTTGGATCTACTGTGAACAGCTTTGATGTTCATGGCTGTGATCTAGACCTCTTTTTGGACATGGGAGATCATGGAAGAGACTGAGgtgagggggtaaagagtgtctgccatgtaatctcagataagtaaagtatt Alignment from CESAR gcTGTGTGGTCCATCCTTTTGGCTCTACTGTAAATAGCTTTGATGTTCATGGCTGTGATCTCGACCTCTTCTTGGACATGGGTGAT-ATGGAAGAGACCGAG gcatctctggaaccatgtcacttatcctacagcttcctgcctgtacccaggcTGTGTGGTCCATCCTTTTGGATCTACTGTGAACAGCTTTGATGTTCATGGCTGTGATCTAGACCTCTTTTTGGACATGGGAGATCATGGAAGAGACTGAGgtgagggggtaaagagtgtctgccatgtaatctcagataagtaaagtatt Alignment from Spaln_aa2Genome GCTGTGTGGTCCATCCTTTTGGCTCTACTGTAAATAGCTTTGATGTTCATGGCTGTGATCTCGACCTCTTCTTGGACATGGGTGAT-ATGGAAGAGACCGAG gcatctctggaaccatgtcacttatcctacagcttcctgcctgtacccagGCTGTGTGGTCCATCCTTTTGGATCTACTGTGAACAGCTTTGATGTTCATGGCTGTGATCTAGACCTCTTTTTGGACATGGGAGATcATGGAAGAGACTGAGgtgagggggtaaagagtgtctgccatgtaatctcagataagtaaagtatt Alignment from Spaln_nt2Genome GCTGTGTGGTCCATCCTTTTGGCTCTACTGTAAATAGCTTTGATGTTCATGGCTGTGATCTCGACCTCTTCTTGGACATGGGTGAT-ATGGAAGAGACCGAG gcatctctggaaccatgtcacttatcctacagcttcctgcctgtacccagGCTGTGTGGTCCATCCTTTTGGATCTACTGTGAACAGCTTTGATGTTCATGGCTGTGATCTAGACCTCTTTTTGGACATGGGAGATCATGGAAGAGACTGAGgtgagggggtaaagagtgtctgccatgtaatctcagataagtaaagtatt Alignment from Pairagon GCTGTGTGGTCCATCCTTTTGGCTCTACTGTAAATAGCTTTGATGTTCATGGCTGTGATCTCGACCTCTTCTTGGACATGGGTGAT-ATGGAAGAGACCGAG gcatctctggaaccatgtcacttatcctacagcttcctgcctgtacccagGCTGTGTGGTCCATCCTTTTGGATCTACTGTGAACAGCTTTGATGTTCATGGCTGTGATCTAGACCTCTTTTTGGACATGGGAGATCATGGAAGAGACTGAGgtgagggggtaaagagtgtctgccatgtaatctcagataagtaaagtatt Alignment from Exonerate_protein2genome GCTGTGTGGTCCATCCTTTTGGCTCTACTGTAAATAGCTTTGATGTTCATGGCTGTGATCTCGACCTCTTCTTGGACATGGGTGAT-ATGGAAGAGACCGAG gcatctctggaaccatgtcacttatcctacagcttcctgcctgtacccagGCTGTGTGGTCCATCCTTTTGGATCTACTGTGAACAGCTTTGATGTTCATGGCTGTGATCTAGACCTCTTTTTGGACATGGGAGATCATGGAAGAGACTGAGgtgagggggtaaagagtgtctgccatgtaatctcagataagtaaagtatt Alignment from Exonerate_coding2genome GCTGTGTGGTCCATCCTTTTGGCTCTACTGTAAATAGCTTTGATGTTCATGGCTGTGATCTCGACCTCTTCTTGGACATGGGTGAT-ATGGAAGAGACCGAG gcatctctggaaccatgtcacttatcctacagcttcctgcctgtacccagGCTGTGTGGTCCATCCTTTTGGATCTACTGTGAACAGCTTTGATGTTCATGGCTGTGATCTAGACCTCTTTTTGGACATGGGAGATCATGGAAGAGACTGAGgtgagggggtaaagagtgtctgccatgtaatctcagataagtaaagtatt Alignment from GeneWise GCTGTGTGGTCCATCCTTTTGGCTCTACTGTAAATAGCTTTGATGTTCATGGCTGTGATCTCGACCTCTTCTTGGACATGGGTGAT-ATGGAAGAGACCGAG gcatctctggaaccatgtcacttatcctacagcttcctgcctgtacccagGCTGTGTGGTCCATCCTTTTGGATCTACTGTGAACAGCTTTGATGTTCATGGCTGTGATCTAGACCTCTTTTTGGACATGGGAGATCATGGAAGAGACTGAGgtgagggggtaaagagtgtctgccatgtaatctcagataagtaaagtatt #### Ubxn1_ID2442_6 --> 1 - 0 Original Alignment aCAAAGGGTTCGAGAAAAAATTGAAAGGGAC-AAAGCAGAGAGAGCCAAGAAG tttgtcttgtgtctatgtttgttttataattataactgttttacttgtagaCAGAGAACTCGTGAAAAGATTGAAAGAGACCAGAGCCGAAAGGACTAAAAAGgtatgagatcacaaaatttgtacttgcctaggagggaatctaggtaactt Alignment from CESAR aCAAAGGGTTCGAGAAAAAATTGAAAGGGAC-AAAGCAGAGAGAGCCAAGAAG tttgtcttgtgtctatgtttgttttataattataactgttttacttgtagaCAGAGAACTCGTGAAAAGATTGAAAGAGACCAGAGCCGAAAGGACTAAAAAGgtatgagatcacaaaatttgtacttgcctaggagggaatctaggtaactt Alignment from Spaln_aa2Genome ACAAAGGGTTCGAGAAAAAATTGAAAGGGAC-AAAGCAGAGAGAGCCAAGAAG tttgtcttgtgtctatgtttgttttataattataactgttttacttgtagACAGAGAACTCGTGAAAAGATTGAAAGAGACcAGAGCCGAAAGGACTAAAAAGgtatgagatcacaaaatttgtacttgcctaggagggaatctaggtaactt Alignment from Spaln_nt2Genome ACAAAGGGTTCGAGAAAAAATTGAAAGGGACAA-AGCAGAGAGAGCCAAGAAG tttgtcttgtgtctatgtttgttttataattataactgttttacttgtagACAGAGAACTCGTGAAAAGATTGAAAGAGACCAGAGCCGAAAGGACTAAAAAGgtatgagatcacaaaatttgtacttgcctaggagggaatctaggtaactt Alignment from Pairagon ACAAAGGGTTCGAGAAAAAATTGAAAGGGA-CAAAGCAGAGAGAGCCAAGAAG tttgtcttgtgtctatgtttgttttataattataactgttttacttgtagACAGAGAACTCGTGAAAAGATTGAAAGAGACCAGAGCCGAAAGGACTAAAAAGgtatgagatcacaaaatttgtacttgcctaggagggaatctaggtaactt Alignment from Exonerate_protein2genome ACAAAGGGTTCGAGAAAAAATTGAAAGGGAC-AAAGCAGAGAGAGCCAAGAAG tttgtcttgtgtctatgtttgttttataattataactgttttacttgtagACAGAGAACTCGTGAAAAGATTGAAAGAGACCAGAGCCGAAAGGACTAAAAAGgtatgagatcacaaaatttgtacttgcctaggagggaatctaggtaactt Alignment from Exonerate_coding2genome ACAAAGGGTTCGAGAAAAAATTGAAAGGGAC-AAAGCAGAGAGAGCCAAGAAG tttgtcttgtgtctatgtttgttttataattataactgttttacttgtagACAGAGAACTCGTGAAAAGATTGAAAGAGACCAGAGCCGAAAGGACTAAAAAGgtatgagatcacaaaatttgtacttgcctaggagggaatctaggtaactt Alignment from GeneWise ACAAAGGGTTCGAGAAAAAATTGAAAGGGAC-AAAGCAGAGAGAGCCAAGAAG tttgtcttgtgtctatgtttgttttataattataactgttttacttgtagACAGAGAACTCGTGAAAAGATTGAAAGAGACCAGAGCCGAAAGGACTAAAAAGgtatgagatcacaaaatttgtacttgcctaggagggaatctaggtaactt #### Unc93b1_ID214_5 --> 1 - 0 Original Alignment gATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTT-TTCCAGGCCATCTTCTATAGCTTCTTCCAC gaggaaaaaactgtcatagtgagcagcttctatctctgtttcctccacaggATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCACATGGACTACACACACCTTTTCTGCTGGTCCTTCCATACTAACTTTTACAGTTTCTTGCATgtaagagtgcttcaggaagcccttgtagtgggtgggcataagaaactggg Alignment from CESAR gATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTT-TTCCAGGCCATCTTCTATAGCTTCTTCCAC gaggaaaaaactgtcatagtgagcagcttctatctctgtttcctccacaggATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCACATGGACTACACACACCTTTTCTGCTGGTCCTTCCATACTAACTTTTACAGTTTCTTGCATgtaagagtgcttcaggaagcccttgtagtgggtgggcataagaaactggg Alignment from Spaln_aa2Genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTT-TTCCAGGCCATCTTCTATAGCTTCTTCCACTTGAGCTTCGCGTGTGCCCAGCTGCCC gaggaaaaaactgtcatagtgagcagcttctatctctgtttcctccacagGATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCACATGGACTACACACACCTTTTCTGCTGGTCcTTCCATACTAACTTTTACAGTTTCTTGCATGTAAGAGTGCTTCAGGAAGCCCTTGTAgtgggtgggcataagaaactggg Alignment from Spaln_nt2Genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTT-TTCCAGGCCATCTTCTATAGCTTCTTCCAC gaggaaaaaactgtcatagtgagcagcttctatctctgtttcctccacagGATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCACATGGACTACACACACCTTTTCTGCTGGTCCTTCCATACTAACTTTTACAGTTTCTTGCATgtaagagtgcttcaggaagcccttgtagtgggtgggcataagaaactggg Alignment from Pairagon GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGT-TTTCCAGGCCATCTTCTATAGCTTCTTCCAC gaggaaaaaactgtcatagtgagcagcttctatctctgtttcctccacagGATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCACATGGACTACACACACCTTTTCTGCTGGTCCTTCCATACTAACTTTTACAGTTTCTTGCATgtaagagtgcttcaggaagcccttgtagtgggtgggcataagaaactggg Alignment from Exonerate_protein2genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTT-TTCCAGGCCATCTTCTATAGCTTCTTCCACTTGAGCTTCGCGTGTGCCCAGCTGCCC gaggaaaaaactgtcatagtgagcagcttctatctctgtttcctccacagGATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCACATGGACTACACACACCTTTTCTGCTGGTCCTTCCATACTAACTTTTACAGTTTCTTGCATGTAAGAGTGCTTCAGGAAGCCCTTGTAgtgggtgggcataagaaactggg Alignment from Exonerate_coding2genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTT-TTCCAGGCCATCTTCTATAGCTTCTTCCACTTGAGCTTCGCGTGTGCCCAGCTGCCC gaggaaaaaactgtcatagtgagcagcttctatctctgtttcctccacagGATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCACATGGACTACACACACCTTTTCTGCTGGTCCTTCCATACTAACTTTTACAGTTTCTTGCATGTAAGAGTGCTTCAGGAAGCCCTTGTAgtgggtgggcataagaaactggg Alignment from GeneWise GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTG-GTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC gaggaaaaaactgtcatagtgagcagcttctatctctgtttcctccacagGATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCACATGGACTACACACACCTTTTCTGCTGGTCCTTCCATACTAACTTTTACAGTTTCTTGCATgtaagagtgcttcaggaagcccttgtagtgggtgggcataagaaactggg #### Vegfb_ID1955_5 --> 1 - 2 Original Alignment aCCAAAAAAAAAGGAGAGTGCT-GTGAAGCCAGACag agctatgacctaacagctggaatttgactgttcatgtgctcttctttcagaCCTAAAAAGAAGGAGTCTACTCGTTCGGCCTGACcagtgaggctattctgtcctgcaccttttagtgcatcggggggggtataaaa Alignment from CESAR aCCAAAAAAAAAGGAGAGTGCT-GTGAAGCCAGACag agctatgacctaacagctggaatttgactgttcatgtgctcttctttcagaCCTAAAAAGAAGGAGTCTACTCGTTCGGCCTGACcagtgaggctattctgtcctgcaccttttagtgcatcggggggggtataaaa Alignment from Spaln_aa2Genome ACCAAAAAAAAAGGAGAGTGCT-GTGAAGCCAGACAG agctatgacctaacagctggaatttgactgttcatgtgctcttctttcagACCTAAAAAGAAGGAGTCTACTcGTTCGGCCTGACCAgtgaggctattctgtcctgcaccttttagtgcatcggggggggtataaaa Alignment from Spaln_nt2Genome ACCAAAAAAAAAGGAGAGTGCT-GTGAAGCCAGACAG agctatgacctaacagctggaatttgactgttcatgtgctcttctttcagACCTAAAAAGAAGGAGTCTACTCGTTCGGCCTGACCAgtgaggctattctgtcctgcaccttttagtgcatcggggggggtataaaa Alignment from Pairagon ACCAAAAAAAAAGGA agctatgacctaacagctggaatttgactgttcatgtgctcttctttcagACCTAAAAAGAAGGAgtctactcgttcggcctgaccagtgaggctattctgtcctgcaccttttagtgcatcggggggggtataaaa Alignment from Exonerate_protein2genome ACCAAAAAAAAAGGAGAGTGCT-GTGAAGCCAGACAG agctatgacctaacagctggaatttgactgttcatgtgctcttctttcagACCTAAAAAGAAGGAGTCTACTCGTTCGGCCTGACCAgtgaggctattctgtcctgcaccttttagtgcatcggggggggtataaaa Alignment from Exonerate_coding2genome agctatgacctaacagctggaatttgactgttcatgtgctcttctttcagacctaaaaagaaggagtctactcgttcggcctgaccagtgaggctattctgtcctgcaccttttagtgcatcggggggggtataaaa Alignment from GeneWise agctatgacctaacagctggaatttgactgttcatgtgctcttctttcagacctaaaaagaaggagtctactcgttcggcctgaccagtgaggctattctgtcctgcaccttttagtgcatcggggggggtataaaa #### Vegfb_ID1957_3 --> 2 - 0 Original Alignment tgGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGT---GTGACTGTG-CAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaaggtttttggaaattattgatggttatttcagtgGTACCATGGATCGATGTCTATGCACGTGCTGTATGCCAACCAAGGGAGGTGGCAGCTCCACTGAGTATGAAACTTATGGGTAATATAGTCAAACAGCTGGTGCCAAGCTGTGTTGGAACTGTGCCAGCGCTGTAGTGGGTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTGCGAATGCAAgtaattgacaaatttgtatgtaagtacttggtagtatcagtctgatactt Alignment from CESAR tgGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTG---ACTGTG-CAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaaggtttttggaaattattgatggttatttcagtgGTACCATGGATCGATGTCTATGCACGTGCTGTATGCCAACCAAGGGAGGTGGCAGCTCCACTGAGTATGAAACTTATGGGTAATATAGTCAAACAGCTGGTGCCAAGCTGTGTTGGAACTGTGCCAGCGCTGTAGTGGGTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTGCGAATGCAAgtaattgacaaatttgtatgtaagtacttggtagtatcagtctgatactt Alignment from Spaln_aa2Genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTGACTGTG----CAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaaggtttttggaaattattgatggttatttcagTGGTACCATGGATCGATGTCTATGCACGTGCTGTATGCCAACCAAGGGAGGTGGCAGCTCCACTGAGTATGAAACTTATGGGTAATATAGTCAAACAGCTGGTGCCAAGCTGTGTTGGAACTGTGcCAGCGCTGTAGTGGGTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTGCGAATGCAAgtaattgacaaatttgtatgtaagtacttggtagtatcagtctgatactt Alignment from Spaln_nt2Genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTG---ACTGTGC-AGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaaggtttttggaaattattgatggttatttcagTGGTACCATGGATCGATGTCTATGCACGTGCTGTATGCCAACCAAGGGAGGTGGCAGCTCCACTGAGTATGAAACTTATGGGTAATATAGTCAAACAGCTGGTGCCAAGCTGTGTTGGAACTGTGCCAGCGCTGTAGTGGGTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTGCGAATGCAAgtaattgacaaatttgtatgtaagtacttggtagtatcagtctgatactt Alignment from Pairagon TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGT---GACTGTG-CAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaaggtttttggaaattattgatggttatttcagTGGTACCATGGATCGATGTCTATGCACGTGCTGTATGCCAACCAAGGGAGGTGGCAGCTCCACTGAGTATGAAACTTATGGGTAATATAGTCAAACAGCTGGTGCCAAGCTGTGTTGGAACTGTGCCAGCGCTGTAGTGGGTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTGCGAATGCAAgtaattgacaaatttgtatgtaagtacttggtagtatcagtctgatactt Alignment from Exonerate_protein2genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTG----ACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaaggtttttggaaattattgatggttatttcagTGGTACCATGGATCGATGTCTATGCACGTGCTGTATGCCAACCAAGGGAGGTGGCAGCTCCACTGAGTATGAAACTTATGGGTAATATAGTCAAACAGCTGGTGCCAAGCTGTGTTGGAACTGTGCCAGCGCTGTAGTGGGTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTGCGAATGCAAgtaattgacaaatttgtatgtaagtacttggtagtatcagtctgatactt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTG---ACT-GTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaaggtttttggaaattattgatggttatttcagTGGTACCATGGATCGATGTCTATGCACGTGCTGTATGCCAACCAAGGGAGGTGGCAGCTCCACTGAGTATGAAACTTATGGGTAATATAGTCAAACAGCTGGTGCCAAGCTGTGTTGGAACTGTGCCAGCGCTGTAGTGGGTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTGCGAATGCAAgtaattgacaaatttgtatgtaagtacttggtagtatcagtctgatactt #### Vldlr_ID5810_9 --> 2 - 1 Original Alignment atATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAA-GGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAg aaatggatatagaaaacaaggaattggggagcctctctatgtgcctgcagacATTGATGAATGCCAAAACCCAGGTATCTGTGGCCAGATCTGTATCAACTTAAAACGGCGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAggtaaaaaagtagctgagcaatgatacgaggttcggagtgtaacttactgt Alignment from CESAR atATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAA-GGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAg aaatggatatagaaaacaaggaattggggagcctctctatgtgcctgcagacATTGATGAATGCCAAAACCCAGGTATCTGTGGCCAGATCTGTATCAACTTAAAACGGCGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAggtaaaaaagtagctgagcaatgatacgaggttcggagtgtaacttactgt Alignment from Spaln_aa2Genome ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAA-GGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aaatggatatagaaaacaaggaattggggagcctctctatgtgcctgcagACATTGATGAATGCCAAAACCCAGGTATCTGTGGCCAGATCTGTATCAACTTAAAAcGGCGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAGgtaaaaaagtagctgagcaatgatacgaggttcggagtgtaacttactgt Alignment from Spaln_nt2Genome ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTT-AAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aaatggatatagaaaacaaggaattggggagcctctctatgtgcctgcagACATTGATGAATGCCAAAACCCAGGTATCTGTGGCCAGATCTGTATCAACTTAAAACGGCGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAGgtaaaaaagtagctgagcaatgatacgaggttcggagtgtaacttactgt Alignment from Pairagon ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAA-GGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aaatggatatagaaaacaaggaattggggagcctctctatgtgcctgcagACATTGATGAATGCCAAAACCCAGGTATCTGTGGCCAGATCTGTATCAACTTAAAACGGCGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAGgtaaaaaagtagctgagcaatgatacgaggttcggagtgtaacttactgt Alignment from Exonerate_protein2genome ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAA-GGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aaatggatatagaaaacaaggaattggggagcctctctatgtgcctgcagACATTGATGAATGCCAAAACCCAGGTATCTGTGGCCAGATCTGTATCAACTTAAAACGGCGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAGgtaaaaaagtagctgagcaatgatacgaggttcggagtgtaacttactgt Alignment from Exonerate_coding2genome ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAA-GGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aaatggatatagaaaacaaggaattggggagcctctctatgtgcctgcagACATTGATGAATGCCAAAACCCAGGTATCTGTGGCCAGATCTGTATCAACTTAAAACGGCGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAGgtaaaaaagtagctgagcaatgatacgaggttcggagtgtaacttactgt Alignment from GeneWise ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTA-AAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAGGCAAAGAG aaatggatatagaaaacaaggaattggggagcctctctatgtgcctgcagACATTGATGAATGCCAAAACCCAGGTATCTGTGGCCAGATCTGTATCAACTTAAAACGGCGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAGGTAAAAAAgtagctgagcaatgatacgaggttcggagtgtaacttactgt #### Vldlr_ID5814_13 --> 2 - 0 Original Alignment acCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATA-GTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG ctctatgaagtcaagatactggttctctagaaatgtttttttgttcctagacCTGGTCAAAAGCCGTCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAAGATCGTAGGATTCGTGCTCAAGTCACTAAAGTTCCTAGCTCATCCTCTTGCCCTCTCTATATTTGAGgtaacttatatgccatatgaccttgtatcaatgagtatagtaaaaagagt Alignment from CESAR acCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATA-GTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG ctctatgaagtcaagatactggttctctagaaatgtttttttgttcctagacCTGGTCAAAAGCCGTCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAAGATCGTAGGATTCGTGCTCAAGTCACTAAAGTTCCTAGCTCATCCTCTTGCCCTCTCTATATTTGAGgtaacttatatgccatatgaccttgtatcaatgagtatagtaaaaagagt Alignment from Spaln_aa2Genome CTCGACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATA-GTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG tatgaagtcaagatactggttctctagaaatgtttttttgttccta gACCTGGTCAAAAGCCGTCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAAGATCGTAGGATTcGTGCTCAAGTCACTAAAGTTCCTAGCTCATCCTCTTGCCCTCTCTATATTTGAGgtaacttatatgccatatgaccttgtatcaatgagtatagtaaaaagagt Alignment from Spaln_nt2Genome ACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATA-GTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG ctctatgaagtcaagatactggttctctagaaatgtttttttgttcctagACCTGGTCAAAAGCCGTCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAAGATCGTAGGATTCGTGCTCAAGTCACTAAAGTTCCTAGCTCATCCTCTTGCCCTCTCTATATTTGAGgtaacttatatgccatatgaccttgtatcaatgagtatagtaaaaagagt Alignment from Pairagon ACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGA-TAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG ctctatgaagtcaagatactggttctctagaaatgtttttttgttcctagACCTGGTCAAAAGCCGTCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAAGATCGTAGGATTCGTGCTCAAGTCACTAAAGTTCCTAGCTCATCCTCTTGCCCTCTCTATATTTGAGgtaacttatatgccatatgaccttgtatcaatgagtatagtaaaaagagt Alignment from Exonerate_protein2genome ACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATA-GTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG ctctatgaagtcaagatactggttctctagaaatgtttttttgttcctagACCTGGTCAAAAGCCGTCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAAGATCGTAGGATTCGTGCTCAAGTCACTAAAGTTCCTAGCTCATCCTCTTGCCCTCTCTATATTTGAGgtaacttatatgccatatgaccttgtatcaatgagtatagtaaaaagagt Alignment from Exonerate_coding2genome ACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATA-GTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG ctctatgaagtcaagatactggttctctagaaatgtttttttgttcctagACCTGGTCAAAAGCCGTCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAAGATCGTAGGATTCGTGCTCAAGTCACTAAAGTTCCTAGCTCATCCTCTTGCCCTCTCTATATTTGAGgtaacttatatgccatatgaccttgtatcaatgagtatagtaaaaagagt Alignment from GeneWise TCGACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATA-GTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG ctctatgaagtcaagatactggttctctagaaatgtttttttgttcctagAC---CTGGTCAAAAGCCGTCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAAGATCGTAGGATTCGTGCTCAAGTCACTAAAGTTCCTAGCTCATCCTCTTGCCCTCTCTATATTTGAGgtaacttatatgccatatgaccttgtatcaatgagtatagtaaaaagagt #### Vldlr_ID5817_16 --> 2 - 1 Original Alignment gtACTTCAACTCCTGTGACTTACAGTGAGACAAAAGATATC-AACACAACAGACATTCTACGAACTAGTGGACTGGTTCCTGGAg ttcagattgtgcattttaatctgacatactgtgttccattttctccacaggtACTCTAACTCCCGTGACCTATAGTGAAACAAAAGACATCCAACACAGCAGTCATTCTTCAAACTAGTGGACTCGTCCCTGGAggtaagtcatagaaaactttattgtgtagctaggccatacatgagtcctca Alignment from CESAR gtACTTCAACTCCTGTGACTTACAGTGAGACAAAAGATATC-AACACAACAGACATTCTACGAACTAGTGGACTGGTTCCTGGAg ttcagattgtgcattttaatctgacatactgtgttccattttctccacaggtACTCTAACTCCCGTGACCTATAGTGAAACAAAAGACATCCAACACAGCAGTCATTCTTCAAACTAGTGGACTCGTCCCTGGAggtaagtcatagaaaactttattgtgtagctaggccatacatgagtcctca Alignment from Spaln_aa2Genome GTACTTCAACTCCTGTGACTTACAGTGAGACAAAAGATATC-AACACAACAGACATTCTACGAACTAGTGGACTGGTTCCTGGAG ttcagattgtgcattttaatctgacatactgtgttccattttctccacagGTACTCTAACTCCCGTGACCTATAGTGAAACAAAAGACATCcAACACAGCAGTCATTCTTCAAACTAGTGGACTCGTCCCTGGAGgtaagtcatagaaaactttattgtgtagctaggccatacatgagtcctca Alignment from Spaln_nt2Genome GTACTTCAACTCCTGTGACTTACAGTGAGACAAAAGATATC-AACACAACAGACATTCTACGAACTAGTGGACTGGTTCCTGGAG ttcagattgtgcattttaatctgacatactgtgttccattttctccacagGTACTCTAACTCCCGTGACCTATAGTGAAACAAAAGACATCCAACACAGCAGTCATTCTTCAAACTAGTGGACTCGTCCCTGGAGgtaagtcatagaaaactttattgtgtagctaggccatacatgagtcctca Alignment from Pairagon GTACTTCAACTCCTGTGACTTACAGTGAGACAAAAGATAT-CAACACAACAGACATTCTACGAACTAGTGGACTGGTTCCTGGAG ttcagattgtgcattttaatctgacatactgtgttccattttctccacagGTACTCTAACTCCCGTGACCTATAGTGAAACAAAAGACATCCAACACAGCAGTCATTCTTCAAACTAGTGGACTCGTCCCTGGAGgtaagtcatagaaaactttattgtgtagctaggccatacatgagtcctca Alignment from Exonerate_protein2genome GTACTTCAACTCCTGTGACTTACAGTGAGACAAAAGATATC-AACACAACAGACATTCTACGAACTAGTGGACTGGTTCCTGGAG ttcagattgtgcattttaatctgacatactgtgttccattttctccacagGTACTCTAACTCCCGTGACCTATAGTGAAACAAAAGACATCCAACACAGCAGTCATTCTTCAAACTAGTGGACTCGTCCCTGGAGgtaagtcatagaaaactttattgtgtagctaggccatacatgagtcctca Alignment from Exonerate_coding2genome GTACTTCAACTCCTGTGACTTACAGTGAGACAAAAGATATC-AACACAACAGACATTCTACGAACTAGTGGACTGGTTCCTGGAG ttcagattgtgcattttaatctgacatactgtgttccattttctccacagGTACTCTAACTCCCGTGACCTATAGTGAAACAAAAGACATCCAACACAGCAGTCATTCTTCAAACTAGTGGACTCGTCCCTGGAGgtaagtcatagaaaactttattgtgtagctaggccatacatgagtcctca Alignment from GeneWise GTACTTCAACTCCTGTGACTTACAGTGAGACAAAAGAT-ATCAACACAACAGACATTCTACGAACTAGTGGACTGGTTCCTGGAG ttcagattgtgcattttaatctgacatactgtgttccattttctccacagGTACTCTAACTCCCGTGACCTATAGTGAAACAAAAGACATCCAACACAGCAGTCATTCTTCAAACTAGTGGACTCGTCCCTGGAGgtaagtcatagaaaactttattgtgtagctaggccatacatgagtcctca #### Vps13a_ID4053_70 --> 1 - 0 Original Alignment tGGCGTGTTGTTCGTAACAAAGGGAACATTTGGACAGCTTACATGTGAGTGGCAG-TACACTTTTGATGAATTCACCAAAGAGCCGTTCATTGTCCATGGGAGAAGACTGCGCATTGAAGCCAAG ttagagtttgatttattcacaaagtccaaccaggccttctctctctgtagtGGGGTACTGTTTGTAATAGAGGGAGCATTCAGACAACTTACATGTGAGTGGCAACTACACTTAC---GAGTTTACTAAAGAGCCATTCATTGTCCGTGGGAGAAGACTGCGTATTGAGGCTAAAgtgagtgcacttagttctatatttcaattttcgcatagatctcgcacatg Alignment from CESAR tGGCGTGTTGTTCGTAACAAAGGGAACATTTGGACAGCTTACATGTGAGTGGCAG-TACACTTTTGATGAATTCACCAAAGAGCCGTTCATTGTCCATGGGAGAAGACTGCGCATTGAAGCCAAG ttagagtttgatttattcacaaagtccaaccaggccttctctctctgtagtGGGGTACTGTTTGTAATAGAGGGAGCATTCAGACAACTTACATGTGAGTGGCAACTACACTTAC---GAGTTTACTAAAGAGCCATTCATTGTCCGTGGGAGAAGACTGCGTATTGAGGCTAAAgtgagtgcacttagttctatatttcaattttcgcatagatctcgcacatg Alignment from Spaln_aa2Genome TGGCGTGTTGTTCGTAACAAAGGGAACATTTGGACAGCTTACATGTGAGTGGCAG-TACACTTTTGATGAATTCACCAAAGAGCCGTTCATTGTCCATGGGAGAAGACTGCGCATTGAAGCCAAG ttagagtttgatttattcacaaagtccaaccaggccttctctctctgtagTGGGGTACTGTTTGTAATAGAGGGAGCATTCAGACAACTTACATGTGAGTGGCAAcTACACTTAC---GAGTTTACTAAAGAGCCATTCATTGTCCGTGGGAGAAGACTGCGTATTGAGGCTAAAgtgagtgcacttagttctatatttcaattttcgcatagatctcgcacatg Alignment from Spaln_nt2Genome TGGCGTGTTGTTCGTAACAAAGGGAACATTTGGACAGCTTACATGTGAGTGGCAG-TACACTTTTGATGAATTCACCAAAGAGCCGTTCATTGTCCATGGGAGAAGACTGCGCATTGAAGCCAAG ttagagtttgatttattcacaaagtccaaccaggccttctctctctgtagTGGGGTACTGTTTGTAATAGAGGGAGCATTCAGACAACTTACATGTGAGTGGCAACTACACTT---ACGAGTTTACTAAAGAGCCATTCATTGTCCGTGGGAGAAGACTGCGTATTGAGGCTAAAgtgagtgcacttagttctatatttcaattttcgcatagatctcgcacatg Alignment from Pairagon TGGCGTGTTGTTCGTAACAAAGGGAACATTTGGACAGCTTACATGTGAGTGGCAG-TACACTTTTGATGAATTCACCAAAGAGCCGTTCATTGTCCATGGGAGAAGACTGCGCATTGAAGCCAAG ttagagtttgatttattcacaaagtccaaccaggccttctctctctgtagTGGGGTACTGTTTGTAATAGAGGGAGCATTCAGACAACTTACATGTGAGTGGCAACTACACTT---ACGAGTTTACTAAAGAGCCATTCATTGTCCGTGGGAGAAGACTGCGTATTGAGGCTAAAgtgagtgcacttagttctatatttcaattttcgcatagatctcgcacatg Alignment from Exonerate_protein2genome TGGCGTGTTGTTCGTAACAAAGGGAACATTTGGACAGCTTACATGTGAGTGGCAG-TACACTTTTGATGAATTCACCAAAGAGCCGTTCATTGTCCATGGGAGAAGACTGCGCATTGAAGCCAAG ttagagtttgatttattcacaaagtccaaccaggccttctctctctgtagTGGGGTACTGTTTGTAATAGAGGGAGCATTCAGACAACTTACATGTGAGTGGCAACTACACTTAC---GAGTTTACTAAAGAGCCATTCATTGTCCGTGGGAGAAGACTGCGTATTGAGGCTAAAgtgagtgcacttagttctatatttcaattttcgcatagatctcgcacatg Alignment from Exonerate_coding2genome TGGCGTGTTGTTCGTAACAAAGGGAACATTTGGACAGCTTACATGTGAGTGGCAG-TACACTTTTGATGAATTCACCAAAGAGCCGTTCATTGTCCATGGGAGAAGACTGCGCATTGAAGCCAAG ttagagtttgatttattcacaaagtccaaccaggccttctctctctgtagTGGGGTACTGTTTGTAATAGAGGGAGCATTCAGACAACTTACATGTGAGTGGCAACTACACTTAC---GAGTTTACTAAAGAGCCATTCATTGTCCGTGGGAGAAGACTGCGTATTGAGGCTAAAgtgagtgcacttagttctatatttcaattttcgcatagatctcgcacatg Alignment from GeneWise TGGCGTGTTGTTCGTAACAAAGGGAACATTTGGACAGCTTACATGTGAGTGG-CAGTACACTTTTGATGAATTCACCAAAGAGCCGTTCATTGTCCATGGGAGAAGACTGCGCATTGAAGCCAAG ttagagtttgatttattcacaaagtccaaccaggccttctctctctgtagTGGGGTACTGTTTGTAATAGAGGGAGCATTCAGACAACTTACATGTGAGTGGCAACTACACTTAC---GAGTTTACTAAAGAGCCATTCATTGTCCGTGGGAGAAGACTGCGTATTGAGGCTAAAgtgagtgcacttagttctatatttcaattttcgcatagatctcgcacatg #### Vps13a_ID4057_66 --> 0 - 1 Original Alignment GGTTTTGTAAGTGGCATT-ACAGGGATTGTTACAAAGCCAATTAAAg aaaaggtgggctgttataattctataatgaacatccttcatcttttccagGGTTTTGTAAGTGGTATTCACTGGCATTGTTTCAGAACCAATAAAAggtaagtcctggtatatctcttgcttatatcattcctatttgggcatggtt Alignment from CESAR GGTTTTGTAAGTGGCATT-ACAGGGATTGTTACAAAGCCAATTAAAg aaaaggtgggctgttataattctataatgaacatccttcatcttttccagGGTTTTGTAAGTGGTATTCACTGGCATTGTTTCAGAACCAATAAAAggtaagtcctggtatatctcttgcttatatcattcctatttgggcatggtt Alignment from Spaln_aa2Genome GGTTTTGTAAGTGGCATT-ACAGGGATTGTTACAAAGCCAATTAAAG aaaaggtgggctgttataattctataatgaacatccttcatcttttccagGGTTTTGTAAGTGGTATTcACTGGCATTGTTTCAGAACCAATAAAAGgtaagtcctggtatatctcttgcttatatcattcctatttgggcatggtt Alignment from Spaln_nt2Genome GGTTTTGTAAGTGGCATT-ACAGGGATTGTTACAAAGCCAATTAAAG aaaaggtgggctgttataattctataatgaacatccttcatcttttccagGGTTTTGTAAGTGGTATTCACTGGCATTGTTTCAGAACCAATAAAAGgtaagtcctggtatatctcttgcttatatcattcctatttgggcatggtt Alignment from Pairagon GGTTTTGTAAGTGGCATT-ACAGGGATTGTTACAAAGCCAATTAAAG aaaaggtgggctgttataattctataatgaacatccttcatcttttccagGGTTTTGTAAGTGGTATTCACTGGCATTGTTTCAGAACCAATAAAAGgtaagtcctggtatatctcttgcttatatcattcctatttgggcatggtt Alignment from Exonerate_protein2genome GGTTTTGTAAGTGGCATT-ACAGGGATTGTTACAAAGCCAATTAAAG aaaaggtgggctgttataattctataatgaacatccttcatcttttccagGGTTTTGTAAGTGGTATTCACTGGCATTGTTTCAGAACCAATAAAAGgtaagtcctggtatatctcttgcttatatcattcctatttgggcatggtt Alignment from Exonerate_coding2genome aaaaggtgggctgttataattctataatgaacatccttcatcttttccagggttttgtaagtggtattcactggcattgtttcagaaccaataaaaggtaagtcctggtatatctcttgcttatatcattcctatttgggcatggtt Alignment from GeneWise ---------------------GGTTTTGTAAGTGGCATTACAGGG----- aaaaggtgggctgttataattctataatgaacatccttcatcttttccagggttttgtaagtggtattcactggcattgtttcagaaccaataaaagGTAAGTCCTGGTATATCTCTTGCTTATATCATTCCTATTTGGGCATGGTT #### Vps13a_ID4058_65 --> 2 - 0 Original Alignment gtGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCT-GCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtggggaaaaggttgtatctgaataactttttcttctttattaggtGGGCTAGCTAGTGCTGCCTCCAAACTTACTAGCGCTATGTCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTCGCTGGACTAAGAGAGGGCATCACCCGAGGGGGGAAAGGTTTGGTCTCTgttaggcctctctatgtctcagattacatagaaggactgtttcattcata Alignment from CESAR gtGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCT-GCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtggggaaaaggttgtatctgaataactttttcttctttattaggtGGGCTAGCTAGTGCTGCCTCCAAACTTACTAGCGCTATGTCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTCGCTGGACTAAGAGAGGGCATCACCCGAGGGGGGAAAGGTTTGGTCTCTgttaggcctctctatgtctcagattacatagaaggactgtttcattcata Alignment from Spaln_aa2Genome GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCT-GCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtggggaaaaggttgtatctgaataactttttcttctttattagGTGGGCTAGCTAGTGCTGCCTCCAAACTTACTAGCGCTATGTCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTcGCTGGACTAAGAGAGGGCATCACCCGAGGGGGGAAAGGTTTGGTCTCTgttaggcctctctatgtctcagattacatagaaggactgtttcattcata Alignment from Spaln_nt2Genome GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCT-GCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtggggaaaaggttgtatctgaataactttttcttctttattagGTGGGCTAGCTAGTGCTGCCTCCAAACTTACTAGCGCTATGTCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTCGCTGGACTAAGAGAGGGCATCACCCGAGGGGGGAAAGGTTTGGTCTCTgttaggcctctctatgtctcagattacatagaaggactgtttcattcata Alignment from Pairagon GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCT-GCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtggggaaaaggttgtatctgaataactttttcttctttattagGTGGGCTAGCTAGTGCTGCCTCCAAACTTACTAGCGCTATGTCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTCGCTGGACTAAGAGAGGGCATCACCCGAGGGGGGAAAGGTTTGGTCTCTgttaggcctctctatgtctcagattacatagaaggactgtttcattcata Alignment from Exonerate_protein2genome GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCT-GCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtggggaaaaggttgtatctgaataactttttcttctttattagGTGGGCTAGCTAGTGCTGCCTCCAAACTTACTAGCGCTATGTCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTCGCTGGACTAAGAGAGGGCATCACCCGAGGGGGGAAAGGTTTGGTCTCTgttaggcctctctatgtctcagattacatagaaggactgtttcattcata Alignment from Exonerate_coding2genome GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCT-GCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtggggaaaaggttgtatctgaataactttttcttctttattagGTGGGCTAGCTAGTGCTGCCTCCAAACTTACTAGCGCTATGTCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTCGCTGGACTAAGAGAGGGCATCACCCGAGGGGGGAAAGGTTTGGTCTCTgttaggcctctctatgtctcagattacatagaaggactgtttcattcata Alignment from GeneWise GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCT-GCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtggggaaaaggttgtatctgaataactttttcttctttattagGTGGGCTAGCTAGTGCTGCCTCCAAACTTACTAGCGCTATGTCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTCGCTGGACTAAGAGAGGGCATCACCCGAGGGGGGAAAGGTTTGGTCTCTgttaggcctctctatgtctcagattacatagaaggactgtttcattcata #### Vps13a_ID4059_64 --> 0 - 1 Original Alignment GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTA-GTTGGTGGAGCCGTTg gacagtgatgtcacctcaggttttcatctagcctgttccttcttttctagGGGGCTATCCAAGGTCCTGAAGAATTTGTAGCAGGAATGGCATTAGGATTAAAAGCACTGCATTGGTGGAGCTGTTggtagtttgtaacaggactagtgatgcaagtaacaagtaacaccagtgggg Alignment from CESAR GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTA-GTTGGTGGAGCCGTTg gacagtgatgtcacctcaggttttcatctagcctgttccttcttttctagGGGGCTATCCAAGGTCCTGAAGAATTTGTAGCAGGAATGGCATTAGGATTAAAAGCACTGCATTGGTGGAGCTGTTggtagtttgtaacaggactagtgatgcaagtaacaagtaacaccagtgggg Alignment from Spaln_aa2Genome GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCC- gacagtgatgtcacctcaggttttcatctagcctgttccttcttttctagGGGGCTATCCAAGGTCCTGAAGAATTTGTAGCAGGAATGGCATTAGGATTAAAAGCACTGCATTGGTGGAGCTgttggtagtttgtaacaggactagtgatgcaagtaacaagtaacaccagtgggg Alignment from Spaln_nt2Genome GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAG-TTGGTGGAGCCGTTG gacagtgatgtcacctcaggttttcatctagcctgttccttcttttctagGGGGCTATCCAAGGTCCTGAAGAATTTGTAGCAGGAATGGCATTAGGATTAAAAGCACTGCATTGGTGGAGCTGTTGgtagtttgtaacaggactagtgatgcaagtaacaagtaacaccagtgggg Alignment from Pairagon GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTA-GTTGGTGGAGCCGTTG gacagtgatgtcacctcaggttttcatctagcctgttccttcttttctagGGGGCTATCCAAGGTCCTGAAGAATTTGTAGCAGGAATGGCATTAGGATTAAAAGCACTGCATTGGTGGAGCTGTTGgtagtttgtaacaggactagtgatgcaagtaacaagtaacaccagtgggg Alignment from Exonerate_protein2genome GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTA-GTTGGTGGAGCCGTTG gacagtgatgtcacctcaggttttcatctagcctgttccttcttttctagGGGGCTATCCAAGGTCCTGAAGAATTTGTAGCAGGAATGGCATTAGGATTAAAAGCACTGCATTGGTGGAGCTGTTGgtagtttgtaacaggactagtgatgcaagtaacaagtaacaccagtgggg Alignment from Exonerate_coding2genome GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTA-GTTGGTGGAGCCGTTG gacagtgatgtcacctcaggttttcatctagcctgttccttcttttctagGGGGCTATCCAAGGTCCTGAAGAATTTGTAGCAGGAATGGCATTAGGATTAAAAGCACTGCATTGGTGGAGCTGTTGgtagtttgtaacaggactagtgatgcaagtaacaagtaacaccagtgggg Alignment from GeneWise GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCG gacagtgatgtcacctcaggttttcatctagcctgttccttcttttctagGGGGCTATCCAAGGTCCTGAAGAATTTGTAGCAGGAATGGCATTAGGATTAAAAGCACTGCATTGGTGGAGCTgttggtagtttgtaacaggactagtgatgcaagtaacaagtaacaccagtgggg #### Vps37c_ID2983_3 --> 2 - 0 Original Alignment agAAATTTTCCTCGGCACTGCAG-CCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG taggttctcagctttaattaaggcaatgtcttcctctctctttaacacagagAAATTTTCCTCAGCCCTGCAGCCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGTATGAAGATTGAGGAGGAGTCAGAGgtaggttaagcatcgctccttgctttggcttattccattaaactgtactg Alignment from CESAR agAAATTTTCCTCGGCACTGCAG-CCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG taggttctcagctttaattaaggcaatgtcttcctctctctttaacacagagAAATTTTCCTCAGCCCTGCAGCCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGTATGAAGATTGAGGAGGAGTCAGAGgtaggttaagcatcgctccttgctttggcttattccattaaactgtactg Alignment from Spaln_aa2Genome AGAAATTTTCCTCGGCACTGCAG-CCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG taggttctcagctttaattaaggcaatgtcttcctctctctttaacacagAGAAATTTTCCTCAGCCCTGCAGcCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGTATGAAGATTGAGGAGGAGTCAGAGgtaggttaagcatcgctccttgctttggcttattccattaaactgtactg Alignment from Spaln_nt2Genome AGAAATTTTCCTCGGCACTGCAGCC-TGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG taggttctcagctttaattaaggcaatgtcttcctctctctttaacacagAGAAATTTTCCTCAGCCCTGCAGCCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGTATGAAGATTGAGGAGGAGTCAGAGgtaggttaagcatcgctccttgctttggcttattccattaaactgtactg Alignment from Pairagon AGAAATTTTCCTCGGCACTGCAG-CCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG taggttctcagctttaattaaggcaatgtcttcctctctctttaacacagAGAAATTTTCCTCAGCCCTGCAGCCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGTATGAAGATTGAGGAGGAGTCAGAGgtaggttaagcatcgctccttgctttggcttattccattaaactgtactg Alignment from Exonerate_protein2genome AGAAATTTTCCTCGGCACTGCAG-CCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG taggttctcagctttaattaaggcaatgtcttcctctctctttaacacagAGAAATTTTCCTCAGCCCTGCAGCCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGTATGAAGATTGAGGAGGAGTCAGAGgtaggttaagcatcgctccttgctttggcttattccattaaactgtactg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise -AAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG taggttctcagctttaattaaggcaatgtcttcctctctctttaacacagagAAATTTTCCTCAGCCCTGCAGCCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGTATGAAGATTGAGGAGGAGTCAGAGgtaggttaagcatcgctccttgctttggcttattccattaaactgtactg #### Vwce_ID2948_3 --> 2 - 1 Original Alignment ccCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAG-CAAGGGGCCACTTGCCCAg atcctcatttatctctgcaaccaggcattgttgattgaacttttaaacagccCTCTGTTCCTTTGGCTGTGGAAGTGGCATCTGCATAACTCCTAATGTTTGCTCATGCCAGGATGGAGAACCAAGGTGCCACATGCCCAggtgagtggtgtgaaataagaaggtcttcataataaagtttcttgcgctgg Alignment from CESAR ccCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAG-CAAGGGGCCACTTGCCCAg atcctcatttatctctgcaaccaggcattgttgattgaacttttaaacagccCTCTGTTCCTTTGGCTGTGGAAGTGGCATCTGCATAACTCCTAATGTTTGCTCATGCCAGGATGGAGAACCAAGGTGCCACATGCCCAggtgagtggtgtgaaataagaaggtcttcataataaagtttcttgcgctgg Alignment from Spaln_aa2Genome CTGCCCCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAG-CAAGGGGCCACTTGCCCAG ctcatttatctctgcaaccaggcattgttgattgaacttttaaaca gCCCTCTGTTCCTTTGGCTGTGGAAGTGGCATCTGCATAACTCCTAATGTTTGCTCATGCCAGGATGGAGAAcCAAGGTGCCACATGCCCAGgtgagtggtgtgaaataagaaggtcttcataataaagtttcttgcgctgg Alignment from Spaln_nt2Genome TGCCCCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGC-AAGGGGCCACTTGCCCAG atcctcatttatctctgcaaccaggcattgttgattgaacttttaaacag---CCCTCTGTTCCTTTGGCTGTGGAAGTGGCATCTGCATAACTCCTAATGTTTGCTCATGCCAGGATGGAGAACCAAGGTGCCACATGCCCAGgtgagtggtgtgaaataagaaggtcttcataataaagtttcttgcgctgg Alignment from Pairagon ------------CCCTGC--------------------------------CCCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAG-CAAGGGGCCACTTGCCCAG ATCCTCATTTATCTCTGCAACCAGGCATTGTTGATTGAACTTTTAAACAGCCCTCTGTTCCTTTGGCTGTGGAAGTGGCATCTGCATAACTCCTAATGTTTGCTCATGCCAGGATGGAGAACCAAGGTGCCACATGCCCAGgtgagtggtgtgaaataagaaggtcttcataataaagtttcttgcgctgg Alignment from Exonerate_protein2genome CCCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAG-CAAGGGGCCACTTGCCCAG atcctcatttatctctgcaaccaggcattgttgattgaacttttaaacagCCCTCTGTTCCTTTGGCTGTGGAAGTGGCATCTGCATAACTCCTAATGTTTGCTCATGCCAGGATGGAGAACCAAGGTGCCACATGCCCAGgtgagtggtgtgaaataagaaggtcttcataataaagtttcttgcgctgg Alignment from Exonerate_coding2genome CCCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAG-CAAGGGGCCACTTGCCCAG atcctcatttatctctgcaaccaggcattgttgattgaacttttaaacagCCCTCTGTTCCTTTGGCTGTGGAAGTGGCATCTGCATAACTCCTAATGTTTGCTCATGCCAGGATGGAGAACCAAGGTGCCACATGCCCAGgtgagtggtgtgaaataagaaggtcttcataataaagtttcttgcgctgg Alignment from GeneWise TGCCCCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAA-- atcctcatttatctctgcaaccaggcattgttgattgaacttttaaacagCC---CTCTGTTCCTTTGGCTGTGGAAGTGGCATCTGCATAACTCCTAATGTTTGCTCATGCCAGGATGGAGAACCAAGgtgccacatgcccaggtgagtggtgtgaaataagaaggtcttcataataaagtttcttgcgctgg #### Vwce_ID2964_18 --> 2 - 0 Original Alignment acTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGAT-GATGAGCCCTGTACCCGGTGCATCTGCCAG attacttcccagactcccctgcccttgcagcttctcacttcctttcacagacTGTAACTTTGAAGGGAGAAAGGTAGTCAATGGTCAGGTTTTCACCTTAGATCGATGAGCCCTGTACCCGGTGCATCTGCCAGgtaagtgggatagagaacctggagctaacggtttgccctcatggaaactt Alignment from CESAR acTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGAT-GATGAGCCCTGTACCCGGTGCATCTGCCAG attacttcccagactcccctgcccttgcagcttctcacttcctttcacagacTGTAACTTTGAAGGGAGAAAGGTAGTCAATGGTCAGGTTTTCACCTTAGATCGATGAGCCCTGTACCCGGTGCATCTGCCAGgtaagtgggatagagaacctggagctaacggtttgccctcatggaaactt Alignment from Spaln_aa2Genome ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGAT-GATGAGCCCTGTACCCGGTGCATCTGCCAG attacttcccagactcccctgcccttgcagcttctcacttcctttcacagACTGTAACTTTGAAGGGAGAAAGGTAGTCAATGGTCAGGTTTTCACCTTAGATcGATGAGCCCTGTACCCGGTGCATCTGCCAGgtaagtgggatagagaacctggagctaacggtttgccctcatggaaactt Alignment from Spaln_nt2Genome ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGAT-GATGAGCCCTGTACCCGGTGCATCTGCCAG attacttcccagactcccctgcccttgcagcttctcacttcctttcacagACTGTAACTTTGAAGGGAGAAAGGTAGTCAATGGTCAGGTTTTCACCTTAGATCGATGAGCCCTGTACCCGGTGCATCTGCCAGgtaagtgggatagagaacctggagctaacggtttgccctcatggaaactt Alignment from Pairagon ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGAT-GATGAGCCCTGTACCCGGTGCATCTGCCAG attacttcccagactcccctgcccttgcagcttctcacttcctttcacagACTGTAACTTTGAAGGGAGAAAGGTAGTCAATGGTCAGGTTTTCACCTTAGATCGATGAGCCCTGTACCCGGTGCATCTGCCAGgtaagtgggatagagaacctggagctaacggtttgccctcatggaaactt Alignment from Exonerate_protein2genome ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGAT-GATGAGCCCTGTACCCGGTGCATCTGCCAG attacttcccagactcccctgcccttgcagcttctcacttcctttcacagACTGTAACTTTGAAGGGAGAAAGGTAGTCAATGGTCAGGTTTTCACCTTAGATCGATGAGCCCTGTACCCGGTGCATCTGCCAGgtaagtgggatagagaacctggagctaacggtttgccctcatggaaactt Alignment from Exonerate_coding2genome attacttcccagactcccctgcccttgcagcttctcacttcctttcacagactgtaactttgaagggagaaaggtagtcaatggtcaggttttcaccttagatcgatgagccctgtacccggtgcatctgccaggtaagtgggatagagaacctggagctaacggtttgccctcatggaaactt Alignment from GeneWise ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGAT-GATGAGCCCTGTACCCGGTGCATCTGCCAG attacttcccagactcccctgcccttgcagcttctcacttcctttcacagACTGTAACTTTGAAGGGAGAAAGGTAGTCAATGGTCAGGTTTTCACCTTAGATCGATGAGCCCTGTACCCGGTGCATCTGCCAGgtaagtgggatagagaacctggagctaacggtttgccctcatggaaactt #### Wdr74_ID2319_9 --> 2 - 0 Original Alignment ggCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGG-ATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtattccgccaaacactggttttgtttgttcttaggcAGGCTAGTCGGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGTTGCATTGCCATCCTTCAAAGCCCCTATTGGCTTCATGTGGCCTGGACAGAATACTGAGGCATGCACAGGATACGCAACCCTTGCGGTGTGGAGCACAAGgtgacttcgagcaaacgttacttagtagttctagtagtagggctatgaca Alignment from CESAR ggCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGG-ATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtattccgccaaacactggttttgtttgttcttaggcAGGCTAGTCGGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGTTGCATTGCCATCCTTCAAAGCCCCTATTGGCTTCATGTGGCCTGGACAGAATACTGAGGCATGCACAGGATACGCAACCCTTGCGGTGTGGAGCACAAGgtgacttcgagcaaacgttacttagtagttctagtagtagggctatgaca Alignment from Spaln_aa2Genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGG-ATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtattccgccaaacactggttttgtttgttcttagGCAGGCTAGTCGGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGTTGCATTGCCATCCTTCAAAGCCCCTATTGGCTTCATGTGGCCTGGACAGAATACTGAGGcATGCACAGGATACGCAACCCTTGCGGTGTGGAGCACAAGgtgacttcgagcaaacgttacttagtagttctagtagtagggctatgaca Alignment from Spaln_nt2Genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGG-ATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtattccgccaaacactggttttgtttgttcttagGCAGGCTAGTCGGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGTTGCATTGCCATCCTTCAAAGCCCCTATTGGCTTCATGTGGCCTGGACAGAATACTGAGGCATGCACAGGATACGCAACCCTTGCGGTGTGGAGCACAAGgtgacttcgagcaaacgttacttagtagttctagtagtagggctatgaca Alignment from Pairagon GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGG-ATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtattccgccaaacactggttttgtttgttcttagGCAGGCTAGTCGGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGTTGCATTGCCATCCTTCAAAGCCCCTATTGGCTTCATGTGGCCTGGACAGAATACTGAGGCATGCACAGGATACGCAACCCTTGCGGTGTGGAGCACAAGgtgacttcgagcaaacgttacttagtagttctagtagtagggctatgaca Alignment from Exonerate_protein2genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGG-ATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtattccgccaaacactggttttgtttgttcttagGCAGGCTAGTCGGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGTTGCATTGCCATCCTTCAAAGCCCCTATTGGCTTCATGTGGCCTGGACAGAATACTGAGGCATGCACAGGATACGCAACCCTTGCGGTGTGGAGCACAAGgtgacttcgagcaaacgttacttagtagttctagtagtagggctatgaca Alignment from Exonerate_coding2genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGG-ATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtattccgccaaacactggttttgtttgttcttagGCAGGCTAGTCGGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGTTGCATTGCCATCCTTCAAAGCCCCTATTGGCTTCATGTGGCCTGGACAGAATACTGAGGCATGCACAGGATACGCAACCCTTGCGGTGTGGAGCACAAGgtgacttcgagcaaacgttacttagtagttctagtagtagggctatgaca Alignment from GeneWise GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGG-ATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtattccgccaaacactggttttgtttgttcttagGCAGGCTAGTCGGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGTTGCATTGCCATCCTTCAAAGCCCCTATTGGCTTCATGTGGCCTGGACAGAATACTGAGGCATGCACAGGATACGCAACCCTTGCGGTGTGGAGCACAAGgtgacttcgagcaaacgttacttagtagttctagtagtagggctatgaca #### Wdr74_ID2320_10 --> 0 - 0 Original Alignment GTTTATCTCAAGTCTCAACTGAACTGCCTTCTC-CTGTCAGGCCGGGATAACTGGGAG ctatgacagtcttaagctttacacacccgtgtatgtgtgtgtgtgcacagGTTTATCTTAAGTGTCAACTTAATTGTCTGCTCCCTGTCTGGTCGGGATAACTGGGAGgtgagtaaggaattaataaataaaataaagagcagaatcatgtgcttatt Alignment from CESAR GTTTATCTCAAGTCTCAACTGAACTGCCTTCTC-CTGTCAGGCCGGGATAACTGGGAG ctatgacagtcttaagctttacacacccgtgtatgtgtgtgtgtgcacagGTTTATCTTAAGTGTCAACTTAATTGTCTGCTCCCTGTCTGGTCGGGATAACTGGGAGgtgagtaaggaattaataaataaaataaagagcagaatcatgtgcttatt Alignment from Spaln_aa2Genome GTTTATCTCAAGTCTCAACTGAACTGCCTTCTC-CTGTCAGGCCGGGATAACTGGGAG ctatgacagtcttaagctttacacacccgtgtatgtgtgtgtgtgcacagGTTTATCTTAAGTGTCAACTTAATTGTCTGCTCcCTGTCTGGTCGGGATAACTGGGAGgtgagtaaggaattaataaataaaataaagagcagaatcatgtgcttatt Alignment from Spaln_nt2Genome GTTTATCTCAAGTCTCAACTGAACTGCCTTCTCC-TGTCAGGCCGGGATAACTGGGAG ctatgacagtcttaagctttacacacccgtgtatgtgtgtgtgtgcacagGTTTATCTTAAGTGTCAACTTAATTGTCTGCTCCCTGTCTGGTCGGGATAACTGGGAGgtgagtaaggaattaataaataaaataaagagcagaatcatgtgcttatt Alignment from Pairagon GTTTATCTCAAGTCTCAACTGAACTGCCTTCT-CCTGTCAGGCCGGGATAACTGGGAG ctatgacagtcttaagctttacacacccgtgtatgtgtgtgtgtgcacagGTTTATCTTAAGTGTCAACTTAATTGTCTGCTCCCTGTCTGGTCGGGATAACTGGGAGgtgagtaaggaattaataaataaaataaagagcagaatcatgtgcttatt Alignment from Exonerate_protein2genome GTTTATCTCAAGTCTCAACTGAACTGCCTTCTC-CTGTCAGGCCGGGATAACTGGGAG ctatgacagtcttaagctttacacacccgtgtatgtgtgtgtgtgcacagGTTTATCTTAAGTGTCAACTTAATTGTCTGCTCCCTGTCTGGTCGGGATAACTGGGAGgtgagtaaggaattaataaataaaataaagagcagaatcatgtgcttatt Alignment from Exonerate_coding2genome GTTTATCTCAAGTCTCAACTGAACTGCCTTCTC-CTGTCAGGCCGGGATAACTGGGAG ctatgacagtcttaagctttacacacccgtgtatgtgtgtgtgtgcacagGTTTATCTTAAGTGTCAACTTAATTGTCTGCTCCCTGTCTGGTCGGGATAACTGGGAGgtgagtaaggaattaataaataaaataaagagcagaatcatgtgcttatt Alignment from GeneWise GTTTATCTCAAGTCTCAACTGAACTGCCTTCTC-CTGTCAGGCCGGGATAACTGGGAG ctatgacagtcttaagctttacacacccgtgtatgtgtgtgtgtgcacagGTTTATCTTAAGTGTCAACTTAATTGTCTGCTCCCTGTCTGGTCGGGATAACTGGGAGgtgagtaaggaattaataaataaaataaagagcagaatcatgtgcttatt #### Wnt8b_ID9022_5 --> 2 - 0 Original Alignment ggGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAG-TTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggattcccatggcttatatacaacattgctgactgctttccagggGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAACTTTGTTGATGTTCTCAAGTCAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCACAAGgtatggccaataatggttgatggcatgcatcatgagacctgttaatgtag Alignment from CESAR ggGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAG-TTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggattcccatggcttatatacaacattgctgactgctttccagggGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAACTTTGTTGATGTTCTCAAGTCAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCACAAGgtatggccaataatggttgatggcatgcatcatgagacctgttaatgtag Alignment from Spaln_aa2Genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAG-TTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggattcccatggcttatatacaacattgctgactgctttccagGGGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAAcTTTGTTGATGTTCTCAAGTCAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCACAAGgtatggccaataatggttgatggcatgcatcatgagacctgttaatgtag Alignment from Spaln_nt2Genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAG-TTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggattcccatggcttatatacaacattgctgactgctttccagGGGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAACTTTGTTGATGTTCTCAAGTCAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCACAAGgtatggccaataatggttgatggcatgcatcatgagacctgttaatgtag Alignment from Pairagon GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAG-TTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggattcccatggcttatatacaacattgctgactgctttccagGGGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAACTTTGTTGATGTTCTCAAGTCAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCACAAGgtatggccaataatggttgatggcatgcatcatgagacctgttaatgtag Alignment from Exonerate_protein2genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAG-TTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggattcccatggcttatatacaacattgctgactgctttccagGGGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAACTTTGTTGATGTTCTCAAGTCAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCACAAGgtatggccaataatggttgatggcatgcatcatgagacctgttaatgtag Alignment from Exonerate_coding2genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAG-TTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggattcccatggcttatatacaacattgctgactgctttccagGGGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAACTTTGTTGATGTTCTCAAGTCAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCACAAGgtatggccaataatggttgatggcatgcatcatgagacctgttaatgtag Alignment from GeneWise GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAG-CAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggattcccatggcttatatacaacattgctgactgctttccagGGGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAACTTTGTTGATGTTCTCAAGTCAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCACAAGgtatggccaataatggttgatggcatgcatcatgagacctgttaatgtag #### Yif1a_ID831_3 --> 0 - 0 Original Alignment AGGACATAGTGCACAAAGAG CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTA-TTGGTCTTCCCATACACACATCAG AGGACATTGTGCACAAAGAGgtaagttgtctcaccatctcccgtccacagCTACACCGTTTTGTGTCTGTAAATAAACTCAAATATTTCTTTGCTGTGGACACAGCCTATGTCGCTAAAAAGCTCGGACTCCTTAGTCTTCCCATACACACATCAAgtaagactgtctgaagtgtaggacccttacatatgacctgcatccctctc Alignment from CESAR AGGACATAGTGCACAAAGAG CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTA-TTGGTCTTCCCATACACACATCAG AGGACATTGTGCACAAAGAGgtgagctgtctcaccatctcccgtccacagCTACACCGTTTTGTGTCTGTAAATAAACTCAAATATTTCTTTGCTGTGGACACAGCCTATGTCGCTAAAAAGCTCGGACTCCTTAGTCTTCCCATACACACATCAAgtaagactgtctgaagtgtaggacccttacatatgacctgcatccctctc Alignment from Spaln_aa2Genome AGGACATAGTGCACAAAGAG------------------------------CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTATTG-GTCTTCCCATACACACATCAG AGGACATTGTGCACAAAGAGGTAAGTTGTCTCACCATCTCCCGTCCACAGCTACACCGTTTTGTGTCTGTAAATAAACTCAAATATTTCTTTGCTGTGGACACAGCCTATGTCGCTAAAAAGCTCGGACTCCTTaGTCTTCCCATACACACATCAAgtaagactgtctgaagtgtaggacccttacatatgacctgcatccctctc Alignment from Spaln_nt2Genome AGGACATAGTGCACAAAG------------------------------AGCTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTA-TTGGTCTTCCCATACACACATCAG AGGACATTGTGCACAAAGAGGTAAGTTGTCTCACCATCTCCCGTCCACAGCTACACCGTTTTGTGTCTGTAAATAAACTCAAATATTTCTTTGCTGTGGACACAGCCTATGTCGCTAAAAAGCTCGGACTCCTTAGTCTTCCCATACACACATCAAgtaagactgtctgaagtgtaggacccttacatatgacctgcatccctctc Alignment from Pairagon AGGACATAGTGCACAAAGAG CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCT-ATTGGTCTTCCCATACACACATCAG AGGACATTGTGCACAAAGAGgtaagttgtctcaccatctcccgtccacagCTACACCGTTTTGTGTCTGTAAATAAACTCAAATATTTCTTTGCTGTGGACACAGCCTATGTCGCTAAAAAGCTCGGACTCCTTAGTCTTCCCATACACACATCAAgtaagactgtctgaagtgtaggacccttacatatgacctgcatccctctc Alignment from Exonerate_protein2genome AGGACATAGTGCACAAAGAG CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTA-TTGGTCTTCCCATACACACATCAG AGGACATTGTGCACAAAGAGgtaagttgtctcaccatctcccgtccacagCTACACCGTTTTGTGTCTGTAAATAAACTCAAATATTTCTTTGCTGTGGACACAGCCTATGTCGCTAAAAAGCTCGGACTCCTTAGTCTTCCCATACACACATCAAgtaagactgtctgaagtgtaggacccttacatatgacctgcatccctctc Alignment from Exonerate_coding2genome AGGACATAGTGCACAAAGAG CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTA-TTGGTCTTCCCATACACACATCAG AGGACATTGTGCACAAAGAGgtaagttgtctcaccatctcccgtccacagCTACACCGTTTTGTGTCTGTAAATAAACTCAAATATTTCTTTGCTGTGGACACAGCCTATGTCGCTAAAAAGCTCGGACTCCTTAGTCTTCCCATACACACATCAAgtaagactgtctgaagtgtaggacccttacatatgacctgcatccctctc Alignment from GeneWise AGGACATAGTGCACAAAGAG------------------------------CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTATTG-GTCTTCCCATACACACATCAG AGGACATTGTGCACAAAGAGGTAAGTTGTCTCACCATCTCCCGTCCACAGCTACACCGTTTTGTGTCTGTAAATAAACTCAAATATTTCTTTGCTGTGGACACAGCCTATGTCGCTAAAAAGCTCGGACTCCTTAGTCTTCCCATACACACATCAAgtaagactgtctgaagtgtaggacccttacatatgacctgcatccctctc #### Zdhhc16_ID8345_2 --> 0 - 0 Original Alignment GTGTTTGTGGTGCTGGTGATCGTGCTG-ACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatatacctactctgacaactgtccaaacactggctgatttttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTCCTCCTTCGAACTTACTCAGTACCCCAACTCTGCTGGCATTTTCTTTATAGTCACTGGAATCTCATTCTCATTGTCTCCCACTATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaagaactccacagtgcaagtttcaatagagacaatgctttcttgctgt Alignment from CESAR GTGTTTGTGGTGCTGGTGATCGTGCTGACC-GGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatatacctactctgacaactgtccaaacactggctgatttttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTCCTCCTTCGAACTTACTCAGTACCCCAACTCTGCTGGCATTTTCTTTATAGTCACTGGAATCTCATTCTCATTGTCTCCCACTATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaagaactccacagtgcaagtttcaatagagacaatgctttcttgctgt Alignment from Spaln_aa2Genome GTGTTTGTGGTGCTGGTGATCGTGCTGACC-GGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatatacctactctgacaactgtccaaacactggctgatttttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCCtGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTCCTCCTTCGAACTTACTCAGTACCCCAACTCTGCTGGCATTTTCTTTATAGTCACTGGAATCTCATTCTCATTGTCTCCCACTATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaagaactccacagtgcaagtttcaatagagacaatgctttcttgctgt Alignment from Spaln_nt2Genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCA-TCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatatacctactctgacaactgtccaaacactggctgatttttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTCCTCCTTCGAACTTACTCAGTACCCCAACTCTGCTGGCATTTTCTTTATAGTCACTGGAATCTCATTCTCATTGTCTCCCACTATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaagaactccacagtgcaagtttcaatagagacaatgctttcttgctgt Alignment from Pairagon GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCC-ATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatatacctactctgacaactgtccaaacactggctgatttttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTCCTCCTTCGAACTTACTCAGTACCCCAACTCTGCTGGCATTTTCTTTATAGTCACTGGAATCTCATTCTCATTGTCTCCCACTATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaagaactccacagtgcaagtttcaatagagacaatgctttcttgctgt Alignment from Exonerate_protein2genome GTGTTTGTGGTGCTGGTGATCGTGCTG-ACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatatacctactctgacaactgtccaaacactggctgatttttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTCCTCCTTCGAACTTACTCAGTACCCCAACTCTGCTGGCATTTTCTTTATAGTCACTGGAATCTCATTCTCATTGTCTCCCACTATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaagaactccacagtgcaagtttcaatagagacaatgctttcttgctgt Alignment from Exonerate_coding2genome GTGTTTGTGGTGCTGGTGATCGTGCTG-ACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatatacctactctgacaactgtccaaacactggctgatttttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTCCTCCTTCGAACTTACTCAGTACCCCAACTCTGCTGGCATTTTCTTTATAGTCACTGGAATCTCATTCTCATTGTCTCCCACTATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaagaactccacagtgcaagtttcaatagagacaatgctttcttgctgt Alignment from GeneWise GTGTTTGTGGTGCTGGTGATCGTGCTG-ACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatatacctactctgacaactgtccaaacactggctgatttttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTCCTCCTTCGAACTTACTCAGTACCCCAACTCTGCTGGCATTTTCTTTATAGTCACTGGAATCTCATTCTCATTGTCTCCCACTATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaagaactccacagtgcaagtttcaatagagacaatgctttcttgctgt #### Zdhhc6_ID11621_8 --> 0 - 2 Original Alignment GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGTGAGAACCTTCTTTACGAGCCCCTGCACTGAG-GAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGcg tggggtgtcaaaggggtccaccatggtgagaacaccttatttcactgcagGTTCACTATAAGTTTATAGATGACTACAATGGTGCTAGCTGCCCATTGAATAGAGGAGTGAGAACCTTCTTTACAAGCCCCTGTACA---CGAGCCCCGAGTCCGGCTACAGCAAGGTGAATTCATACTAGCAATGAGGGGGTTGaggtacgaggagggggttctttatcaagaaactgaaacttcctgtcctctct Alignment from CESAR GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGcg tggggtgtcaaaggggtccaccatggtgagaacaccttatttcactgcagGTTCACTATAAGTTTATAGATGACTACAATGGTGCTAGCTGCCCATTGAATAGAGGAGTGAGAACCTTCTTTACAAGCCCCTGTACA--CGAGCCCCGAGTCCGGCTACAGCAAGGTGAATTCATACTAGCAATGAGGGGGTTGaggtacgaggagggggttctttatcaagaaactgaaactttgtgcttttgtt Alignment from Spaln_aa2Genome GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGCG tggggtgtcaaaggggtccaccatggtgagaacaccttatttcactgcagGTTCACTATAAGTTTATAGATGACTACAATGGTGCTAGCTGCCCATTGAATAGAGGAGTGAGAACCTTCTTTACAAGCCCCTGTACAC--GAGCCCCGAGTCCGGCTACAGCAAGGTGAATTCATACTAGCAATGAGGGGGTTGAGgtacgaggagggggttctttatcaagaaactgaaacttcctgtcctctct Alignment from Spaln_nt2Genome GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGCG tggggtgtcaaaggggtccaccatggtgagaacaccttatttcactgcagGTTCACTATAAGTTTATAGATGACTACAATGGTGCTAGCTGCCCATTGAATAGAGGAGTGAGAACCTTCTTTACAAGCCCCTGTAC--ACGAGCCCCGAGTCCGGCTACAGCAAGGTGAATTCATACTAGCAATGAGGGGGTTGAGgtacgaggagggggttctttatcaagaaactgaaacttcctgtcctctct Alignment from Pairagon GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGCG tggggtgtcaaaggggtccaccatggtgagaacaccttatttcactgcagGTTCACTATAAGTTTATAGATGACTACAATGGTGCTAGCTGCCCATTGAATAGAGGAGTGAGAACCTTCTTTACAAGCCCCTGTAC--ACGAGCCCCGAGTCCGGCTACAGCAAGGTGAATTCATACTAGCAATGAGGGGGTTGAGgtacgaggagggggttctttatcaagaaactgaaacttcctgtcctctct Alignment from Exonerate_protein2genome GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGTGAGAACCTTCTTTACGAGCCCCTGCACT-GAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGCG tggggtgtcaaaggggtccaccatggtgagaacaccttatttcactgcagGTTCACTATAAGTTTATAGATGACTACAATGGTGCTAGCTGCCCATTGAATAGAGGAGTGAGAACCTTCTTTACAAGCCCCTGTACAC---GAGCCCCGAGTCCGGCTACAGCAAGGTGAATTCATACTAGCAATGAGGGGGTTGAGgtacgaggagggggttctttatcaagaaactgaaacttcctgtcctctct Alignment from Exonerate_coding2genome tggggtgtcaaaggggtccaccatggtgagaacaccttatttcactgcaggttcactataagtttatagatgactacaatggtgctagctgcccattgaatagaggagtgagaaccttctttacaagcccctgtacacgagccccgagtccggctacagcaaggtgaattcatactagcaatgagggggttgaggtacgaggagggggttctttatcaagaaactgaaacttcctgtcctctct Alignment from GeneWise GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTG---------------------------------------------------- tggggtgtcaaaggggtccaccatggtgagaacaccttatttcactgcagGTTCACTATAAGTTTATAGATGACTACAATGGTGCTAGCTGCCCATTGAATAGAGGAGTGAGAACCTTCTTTACAAGCCCCTGTACAC--GAGCCCCGAGTCCGGCTACAGCAAGGTGAATTCATACTAGCAATGAGGGGGTTGAGGTACGAGGAGGGGGTTCTTTATCAAGAAACTGAAACTTCCTGTCCTCTCT #### Zfp91_ID3462_4 --> 2 - 2 Original Alignment atGTTCCAGAAGAACAT-CAGTCTCCCGGTGGCATTag atagaggttgaatttttggcagtgtatggatgtcttgatgccccctgtagacGTTCCTGAAGAGCAACCGAACCCCTGGTGGGATCaggtaagaggttgctcgctatacacccaatgtttcatattgcagagtgttac Alignment from CESAR atGTTCCAGAAGAACAT-CAGTCTCCCGGTGGCATTag atagaggttgaatttttggcagtgtatggatgtcttgatgccccctgtagacGTTCCTGAAGAGCAACCGAACCCCTGGTGGGATCaggtaagaggttgctcgctatacacccaatgtttcatattgcagagtgttac Alignment from Spaln_aa2Genome ATGTTCCAGAAGAACAT-CAGTCTCCCGGTGGCATTAG atagaggttgaatttttggcagtgtatggatgtcttgatgccccctgtagACGTTCCTGAAGAGCAAcCGAACCCCTGGTGGGATCAGgtaagaggttgctcgctatacacccaatgtttcatattgcagagtgttac Alignment from Spaln_nt2Genome ATGTTCCAGAAGAACATCAGTCTCCC-GGTGGCATTAG atagaggttgaatttttggcagtgtatggatgtcttgatgccccctgtagACGTTCCTGAAGAGCAACCGAACCCCTGGTGGGATCAGgtaagaggttgctcgctatacacccaatgtttcatattgcagagtgttac Alignment from Pairagon ATGTTCCAGAAGAACATCAG-TCTCCCGGTGGCATTAG atagaggttgaatttttggcagtgtatggatgtcttgatgccccctgtagACGTTCCTGAAGAGCAACCGAACCCCTGGTGGGATCAGgtaagaggttgctcgctatacacccaatgtttcatattgcagagtgttac Alignment from Exonerate_protein2genome atagaggttgaatttttggcagtgtatggatgtcttgatgccccctgtagacgttcctgaagagcaaccgaacccctggtgggatcaggtaagaggttgctcgctatacacccaatgtttcatattgcagagtgttac Alignment from Exonerate_coding2genome atagaggttgaatttttggcagtgtatggatgtcttgatgccccctgtagacgttcctgaagagcaaccgaacccctggtgggatcaggtaagaggttgctcgctatacacccaatgtttcatattgcagagtgttac Alignment from GeneWise atagaggttgaatttttggcagtgtatggatgtcttgatgccccctgtagacgttcctgaagagcaaccgaacccctggtgggatcaggtaagaggttgctcgctatacacccaatgtttcatattgcagagtgttac #### Zp1_ID3061_11 --> 2 - 1 Original Alignment ggCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTG-GATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAg attttgatgccctccatgggccttgttaactggtatcttctgtttaacagagCGTCGACGGTTCCCAGGGCATCACAACATCACTCTCCGAGCCCTGCGAAATTGTAAGCTCCCCAGGCACAGTGGACTTTGAGGATGCAGCCACACTTAAGCCTTTAggtgagtatgtgtcagtgttctttatgggggagagctcaggtcaaccagga Alignment from CESAR ggCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTG-GATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAg attttgatgccctccatgggccttgttaactggtatcttctgtttaacagagCGTCGACGGTTCCCAGGGCATCACAACATCACTCTCCGAGCCCTGCGAAATTGTAAGCTCCCCAGGCACAGTGGACTTTGAGGATGCAGCCACACTTAAGCCTTTAggtgagtatgtgtcagtgttctttatgggggagagctcaggtcaaccagga Alignment from Spaln_aa2Genome GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTG-GATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG attttgatgccctccatgggccttgttaactggtatcttctgtttaacagAGCGTCGACGGTTCCCAGGGCATCACAACATCACTCTCCGAGCCCTGcGAAATTGTAAGCTCCCCAGGCACAGTGGACTTTGAGGATGCAGCCACACTTAAGCCTTTAGgtgagtatgtgtcagtgttctttatgggggagagctcaggtcaaccagga Alignment from Spaln_nt2Genome GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTG-GATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG attttgatgccctccatgggccttgttaactggtatcttctgtttaacagAGCGTCGACGGTTCCCAGGGCATCACAACATCACTCTCCGAGCCCTGCGAAATTGTAAGCTCCCCAGGCACAGTGGACTTTGAGGATGCAGCCACACTTAAGCCTTTAGgtgagtatgtgtcagtgttctttatgggggagagctcaggtcaaccagga Alignment from Pairagon GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTG-GATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG attttgatgccctccatgggccttgttaactggtatcttctgtttaacagAGCGTCGACGGTTCCCAGGGCATCACAACATCACTCTCCGAGCCCTGCGAAATTGTAAGCTCCCCAGGCACAGTGGACTTTGAGGATGCAGCCACACTTAAGCCTTTAGgtgagtatgtgtcagtgttctttatgggggagagctcaggtcaaccagga Alignment from Exonerate_protein2genome GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTG-GATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG attttgatgccctccatgggccttgttaactggtatcttctgtttaacagAGCGTCGACGGTTCCCAGGGCATCACAACATCACTCTCCGAGCCCTGCGAAATTGTAAGCTCCCCAGGCACAGTGGACTTTGAGGATGCAGCCACACTTAAGCCTTTAGgtgagtatgtgtcagtgttctttatgggggagagctcaggtcaaccagga Alignment from Exonerate_coding2genome GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTG-GATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG attttgatgccctccatgggccttgttaactggtatcttctgtttaacagAGCGTCGACGGTTCCCAGGGCATCACAACATCACTCTCCGAGCCCTGCGAAATTGTAAGCTCCCCAGGCACAGTGGACTTTGAGGATGCAGCCACACTTAAGCCTTTAGgtgagtatgtgtcagtgttctttatgggggagagctcaggtcaaccagga Alignment from GeneWise GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTG-GATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG attttgatgccctccatgggccttgttaactggtatcttctgtttaacagAGCGTCGACGGTTCCCAGGGCATCACAACATCACTCTCCGAGCCCTGCGAAATTGTAAGCTCCCCAGGCACAGTGGACTTTGAGGATGCAGCCACACTTAAGCCTTTAGgtgagtatgtgtcagtgttctttatgggggagagctcaggtcaaccagga #### Zp1_ID3065_7 --> 1 - 1 Original Alignment gCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAA-TCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGg ggtgcatgcaaaacagaatgactgaaaatcttctccctgtctccctacagaCTTCATGTTCACTGCATCTTCAATTCTACTGATTTCCTCCCACTACAAGCATCTATCTCT---CCTGACCCACCTGCCCCTGTAGCACAACTCTGGAGCCCTTAGGCTGCAATTGAAGATTGCCATGggtgagtggctccagtttggacggtgctttccaaccttgccgcttgaaatg Alignment from CESAR gCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAA-TCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGg ggtgcatgcaaaacagaatgactgaaaatcttctccctgtctccctacagaCTTCATGTTCACTGCATCTTCAATTCTACTGATTTCCTCCCACTACAAGCATCTATC---TCTCCTGACCCACCTGCCCCTGTAGCACAACTCTGGAGCCCTTAGGCTGCAATTGAAGATTGCCATGggtgagtggctccagtttggacggtgctttccaaccttgccgcttgaaatg Alignment from Spaln_aa2Genome GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAA-TCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGG ggtgcatgcaaaacagaatgactgaaaatcttctccctgtctccctacagACTTCATGTTCACTGCATCTTCAATTCTACTGATTTCCTCCCACTACAAGCATCTATC---TCTCCTGACCCACCTGCCCCTGTAGCACAAcTCTGGAGCCCTTAGGCTGCAATTGAAGATTGCCATGGgtgagtggctccagtttggacggtgctttccaaccttgccgcttgaaatg Alignment from Spaln_nt2Genome GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAA-TCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGG ggtgcatgcaaaacagaatgactgaaaatcttctccctgtctccctacagACTTCATGTTCACTGCATCTTCAATTCTACTGATTTCCTCCCACTACAAGCATCTA---TCTCTCCTGACCCACCTGCCCCTGTAGCACAACTCTGGAGCCCTTAGGCTGCAATTGAAGATTGCCATGGgtgagtggctccagtttggacggtgctttccaaccttgccgcttgaaatg Alignment from Pairagon GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAA-TCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGG ggtgcatgcaaaacagaatgactgaaaatcttctccctgtctccctacagACTTCATGTTCACTGCATCTTCAATTCTACTGATTTCCTCCCACTACAAGCATCTA---TCTCTCCTGACCCACCTGCCCCTGTAGCACAACTCTGGAGCCCTTAGGCTGCAATTGAAGATTGCCATGGgtgagtggctccagtttggacggtgctttccaaccttgccgcttgaaatg Alignment from Exonerate_protein2genome GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAA-TCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGG ggtgcatgcaaaacagaatgactgaaaatcttctccctgtctccctacagACTTCATGTTCACTGCATCTTCAATTCTACTGATTTCCTCCCACTACAAGCATCTATC---TCTCCTGACCCACCTGCCCCTGTAGCACAACTCTGGAGCCCTTAGGCTGCAATTGAAGATTGCCATGGgtgagtggctccagtttggacggtgctttccaaccttgccgcttgaaatg Alignment from Exonerate_coding2genome GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAA-TCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGG ggtgcatgcaaaacagaatgactgaaaatcttctccctgtctccctacagACTTCATGTTCACTGCATCTTCAATTCTACTGATTTCCTCCCACTACAAGCATCTATC---TCTCCTGACCCACCTGCCCCTGTAGCACAACTCTGGAGCCCTTAGGCTGCAATTGAAGATTGCCATGGgtgagtggctccagtttggacggtgctttccaaccttgccgcttgaaatg Alignment from GeneWise GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAA-TCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACG--------------------------------------------------- ggtgcatgcaaaacagaatgactgaaaatcttctccctgtctccctacagACTTCATGTTCACTGCATCTTCAATTCTACTGATTTCCTCCCACTACAAGCATCTATC---TCTCCTGACCCACCTGCCCCTGTAGCACAACTCTGGAGCCCTTAGGCTGCAATTGAAGATTGCCATGGGTGAGTGGCTCCAGTTTGGACGGTGCTTTCCAACCTTGCCGCTTGAAATG #### Zp1_ID3067_5 --> 2 - 0 Original Alignment tcACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTC-CTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG acaccctaaggcagggagacttgattaaccctgtccccacactgccctagtcACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACTCAAGGTGTCCCTGTTAGACAAT------GTGGCCTATATACCCAACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTCGCTTTCCATGTCCCTCTTGCCCTTTGTGGGACAGCAATCCAGgtacagatgtcctcttgttagtgtacagcattaccaaggtcctaagactt Alignment from CESAR tcACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTC-CTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG acaccctaaggcagggagacttgattaaccctgtccccacactgccctagtcACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACTCAAGGTGTCCCTGTTAGACAATGTG------GCCTATATACCCAACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTCGCTTTCCATGTCCCTCTTGCCCTTTGTGGGACAGCAATCCAGgtacagatgtcctcttgttagtgtacagcattaccaaggtcctaagactt Alignment from Spaln_aa2Genome TCACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTC-CTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG acaccctaaggcagggagacttgattaaccctgtccccacactgccctagTCACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACTCAAGGTGTCcCTGTTAGACAATGTG------GCCTATATACCCAACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTCGCTTTCCATGTCCCTCTTGCCCTTTGTGGGACAGCAATCCAGgtacagatgtcctcttgttagtgtacagcattaccaaggtcctaagactt Alignment from Spaln_nt2Genome TCACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCC-TGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG acaccctaaggcagggagacttgattaaccctgtccccacactgccctagTCACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACTCAAGGTGTCCCTGTTAGACAATG------TGGCCTATATACCCAACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTCGCTTTCCATGTCCCTCTTGCCCTTTGTGGGACAGCAATCCAGgtacagatgtcctcttgttagtgtacagcattaccaaggtcctaagactt Alignment from Pairagon TCACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGT-CCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG acaccctaaggcagggagacttgattaaccctgtccccacactgccctagTCACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACTCAAGGTGTCCCTGTTAGACAATG------TGGCCTATATACCCAACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTCGCTTTCCATGTCCCTCTTGCCCTTTGTGGGACAGCAATCCAGgtacagatgtcctcttgttagtgtacagcattaccaaggtcctaagactt Alignment from Exonerate_protein2genome TCACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTC-CTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG acaccctaaggcagggagacttgattaaccctgtccccacactgccctagTCACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACTCAAGGTGTCCCTGTTAGACAATGTG------GCCTATATACCCAACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTCGCTTTCCATGTCCCTCTTGCCCTTTGTGGGACAGCAATCCAGgtacagatgtcctcttgttagtgtacagcattaccaaggtcctaagactt Alignment from Exonerate_coding2genome TCACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTC-CTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG acaccctaaggcagggagacttgattaaccctgtccccacactgccctagTCACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACTCAAGGTGTCCCTGTTAGACAATGTG------GCCTATATACCCAACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTCGCTTTCCATGTCCCTCTTGCCCTTTGTGGGACAGCAATCCAGgtacagatgtcctcttgttagtgtacagcattaccaaggtcctaagactt Alignment from GeneWise TCACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGA-GTCCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG acaccctaaggcagggagacttgattaaccctgtccccacactgccctagTCACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACTCAAGGTGTCCCTGTTAGACAATGTG------GCCTATATACCCAACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTCGCTTTCCATGTCCCTCTTGCCCTTTGTGGGACAGCAATCCAGgtacagatgtcctcttgttagtgtacagcattaccaaggtcctaagactt ####