#### 1700055N04Rik_ID226_4 --> 0 - 1 Original Alignment CTCACCAAGCTGAGCACAGCTTTCATC-CGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg cagtctgtctcctgcaaaactttgtgatttcctgcttccatcatacccagCTCACCAAACTGAGCACAGCCTTCATTCTGGAAAGAATCCTTTGGCCTGGTGCTTATCATCGCACCAT-GAATTCTCATGTTAACCTG---ATCATACCCTCGGTGGGGGTCATTGCTATGggtgagtggtgcctcatgcaacaatcctgatcatccctattttaccatctg Alignment from CESAR CTCACCAAGCTGAGCACAGCTTTCATCCGG-AAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg cagtctgtctcctgcaaaactttgtgatttcctgcttccatcatacccagCTCACCAAACTGAGCACAGCCTTCATTCTGGAAAGAATCCTTTGGCCTGGTGCTTATCATCGCACCA-TGAATTCTCATGTTAACCTG---ATCATACCCTCGGTGGGGGTCATTGCTATGggtgagtggtgcctcatgcaacaatcctgatcatccctattttaccatctg Alignment from Spaln_aa2Genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG cagtctgtctcctgcaaaactttgtgatttcctgcttccatcatacccagCTCACCAAACTGAGCACAGCCTTCATTCTGGAAAGAATCCTTTGGCCTGGTGCTTATCATCGCACCATGAATTCTCATGTTAACCTG---ATCATACCCTCGGTGGGGGTCATTGCTATGGgtgagtggtgcctcatgcaacaatcctgatcatccctattttaccatctg Alignment from Spaln_nt2Genome CTCACCAAGCTGAGCACAGCTTTCATCC-GGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG cagtctgtctcctgcaaaactttgtgatttcctgcttccatcatacccagCTCACCAAACTGAGCACAGCCTTCATTCTGGAAAGAATCCTTTGGCCTGGTGCTTATCATCGCACCAT-GAATTCTCATGTTAAC---CTGATCATACCCTCGGTGGGGGTCATTGCTATGGgtgagtggtgcctcatgcaacaatcctgatcatccctattttaccatctg Alignment from Pairagon CTCACCAAGCTGAGCACAGCTTTCA-TCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG cagtctgtctcctgcaaaactttgtgatttcctgcttccatcatacccagCTCACCAAACTGAGCACAGCCTTCATTCTGGAAAGAATCCTTTGGCCTGGTGCTTATCATCGCACCAT-GAATTCTCATGTTAACC---TGATCATACCCTCGGTGGGGGTCATTGCTATGGgtgagtggtgcctcatgcaacaatcctgatcatccctattttaccatctg Alignment from Exonerate_protein2genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG cagtctgtctcctgcaaaactttgtgatttcctgcttccatcatacccagCTCACCAAACTGAGCACAGCCTTCATTCTGGAAAGAATCCTTTGGCCTGGTGCTTATCATCGCACCATGAATTCTCATGTTAACCTG---ATCATACCCTCGGTGGGGGTCATTGCTATGGgtgagtggtgcctcatgcaacaatcctgatcatccctattttaccatctg Alignment from Exonerate_coding2genome CTCACCAAGCTGAGCACAGCTTTCATCCG---GAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG cagtctgtctcctgcaaaactttgtgatttcctgcttccatcatacccagCTCACCAAACTGAGCACAGCCTTCATT--CTGGAAAGAATCCTTTGGCCTGGTGCTTATCATCGCACCATGAATTCTCATGTTAACCTG----ATCATACCCTCGGTGGGGGTCATTGCTATGGgtgagtggtgcctcatgcaacaatcctgatcatccctattttaccatctg Alignment from GeneWise CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG cagtctgtctcctgcaaaactttgtgatttcctgcttccatcatacccagCTCACCAAACTGAGCACAGCCTTCATTCTGGAAAGAATCCTTTGGCCTGGTGCTTATCATCGCACCATGAATTCTCATGTTAACCTG---ATCATACCCTCGGTGGGGGTCATTGCTATGGgtgagtggtgcctcatgcaacaatcctgatcatccctattttaccatctg #### 9130011E15Rik_ID9675_6 --> 0 - 0 Original Alignment GTCACAGATAAT-ATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aacatgttgctctgcattgtaaaagtggttatttgtgttttgcttcaaagGTCACAGATAATCATCAGCCAGAACACTATCCTGGAATATGTAATGA-CAACAGCATATTTGAAGCCATTTTACAGgtacttggttcaactgtcattcaaaattttgcaatacccagaagcaaaag Alignment from CESAR GTCACAGATAAT-ATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aacatgttgctctgcattgtaaaagtggttatttgtgttttgcttcaaagGTCACAGATAATCATCAGCCAGAACACTATCCTGGAATATGTAATG-ACAACAGCATATTTGAAGCCATTTTACAGgtacttggttcaactgtcattcaaaattttgcaatacccagaagcaaaag Alignment from Spaln_aa2Genome GATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aacatgttgctctgcattgtaaaagtggttatttgtgttttgcttcaaaggtcacagATAATCATCAGCCAGAACACTATCCTGGAATATGTAATGAC-AACAGCATATTTGAAGCCATTTTACAGgtacttggttcaactgtcattcaaaattttgcaatacccagaagcaaaag Alignment from Spaln_nt2Genome GTCACAGATAAT-ATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aacatgttgctctgcattgtaaaagtggttatttgtgttttgcttcaaagGTCACAGATAATCATCAGCCAGAACACTATCCTGGAATATGTAATGA-CAACAGCATATTTGAAGCCATTTTACAGgtacttggttcaactgtcattcaaaattttgcaatacccagaagcaaaag Alignment from Pairagon GTCACAGATAAT-ATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aacatgttgctctgcattgtaaaagtggttatttgtgttttgcttcaaagGTCACAGATAATCATCAGCCAGAACACTATCCTGGAATATGTAATGA-CAACAGCATATTTGAAGCCATTTTACAGgtacttggttcaactgtcattcaaaattttgcaatacccagaagcaaaag Alignment from Exonerate_protein2genome GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aacatgttgctctgcattgtaaaagtggttatttgtgttttgcttcaaagGTCACAGATAATCATCAGCCAGAACACTATCCTGGAATATGTAATGACAACAGCATATTTGAAGCCATTTTACAGgtacttggttcaactgtcattcaaaattttgcaatacccagaagcaaaag Alignment from Exonerate_coding2genome GTCACAGATAATAT---CAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aacatgttgctctgcattgtaaaagtggttatttgtgttttgcttcaaagGTCACAGATAAT--CATCAGCCAGAACACTATCCTGGAATATGTAATGAC-AACAGCATATTTGAAGCCATTTTACAGgtacttggttcaactgtcattcaaaattttgcaatacccagaagcaaaag Alignment from GeneWise ---------GATAATATCAGCCAGAACACTATCCTGGAATATGTAATGAT aacatgttgctctgcattgtaaaagtggttatttgtgttttgcttcaaaggtcacagataatcatcagccagaacactatcctggaatatgtaatgacaacagcatatttgaagccattttacagGTACTTGGTTCAACTGTCATTCAAAATTTTGCAATACCCAGAAGCAAAAG #### AI846148_ID2143_3 --> 2 - 1 Original Alignment agTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATA-GTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCg gtgggggtagcaagtgctaaggactatctcctgattctcggctgccgcagaaTCGGGCCAGGATGGACAGTCGGATCCCGTCTCTAACCCAGATCCAGTGAGGATGCCAGCTGAAATGCATAGTGCTTTTAGATTCTCAAGGCAACCCAT-TCTCCCCACAAGGCTACGGCCTAGAGGACTCCGACCT---GAGTTGCCAagtagggcatccagtattcttggcttcggtgggacatcataaagtagggca Alignment from CESAR agTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATA-GTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCg gtgggggtagcaagtgctaaggactatctcctgattctcggctgccgcagaaTCGGGCCAGGATGGACAGTCGGATCCCGTCTCTAACCCAGATCCAGTGAGGATGCCAGCTGAAATGCATAGTGCTTTTAGATTCTCAAGGCAACCCA-TTCTCCCCACAAGGCTACGGCCTAGAGGACTCCGACCT---GAGTTGCCAagtagggcatccagtattcttggcttcggtgggacatcataaagtagggca Alignment from Spaln_aa2Genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gtgggggtagcaagtgctaaggactatctcctgattctcggctgccgcagAATCGGGCCAGGATGGACAGTCGGATCCCGTCTCTAACCCAGATCCAGTGAGGATGCCAGCTGAAATGCATAGTGCTTTTAGATTCTCAAGGCAACCCATTCTCCCCACAAGGCTACGGCCTAGAGGACTCCGACCT---GAGTTGCCAAgtagggcatccagtattcttggcttcggtgggacatcataaagtagggca Alignment from Spaln_nt2Genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAG-TGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gtgggggtagcaagtgctaaggactatctcctgattctcggctgccgcagAATCGGGCCAGGATGGACAGTCGGATCCCGTCTCTAACCCAGATCCAGTGAGGATGCCAGCTGAAATGCATAGTGCTTTTAGATTCTCAAGGCAACCCAT-TCTCCCCACAAGGCTACGGCCTAGAGGACTCCGACC---TGAGTTGCCAAgtagggcatccagtattcttggcttcggtgggacatcataaagtagggca Alignment from Pairagon AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAG----ATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gtgggggtagcaagtgctaaggactatctcctgattctcggctgccgcagAATCGGGCCAGGATGGACAGTCGGATCCCGTCTCTAACCCAGATCCAGTGAGGATGCCAGCTGAAATGCATAGTG---CTTTTAGATTCTCAAGGCAACCCAT-TCTCCCCACAAGGCTACGGCCTAGAGGACTCCGACC---TGAGTTGCCAAgtagggcatccagtattcttggcttcggtgggacatcataaagtagggca Alignment from Exonerate_protein2genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gtgggggtagcaagtgctaaggactatctcctgattctcggctgccgcagAATCGGGCCAGGATGGACAGTCGGATCCCGTCTCTAACCCAGATCCAGTGAGGATGCCAGCTGAAATGCATAGTGCTTTTAGATTCTCAAGGCAACCCATTCTCCCCACAAGGCTACGGCCTAGAGGACTCCGACCT---GAGTTGCCAAgtagggcatccagtattcttggcttcggtgggacatcataaagtagggca Alignment from Exonerate_coding2genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gtgggggtagcaagtgctaaggactatctcctgattctcggctgccgcagAATCGGGCCAGGATGGACAGTCGGATCCCGTCTCTAACCCAGATCCAGTGAGGATGCCAGCTGAAATGCATAGTGCTTTTAGATTCTCAAGGCAACCCATTCTCCCCACAAGGCTACGGCCTAGAGGACTCCGACCT---GAGTTGCCAAgtagggcatccagtattcttggcttcggtgggacatcataaagtagggca Alignment from GeneWise AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gtgggggtagcaagtgctaaggactatctcctgattctcggctgccgcagAATCGGGCCAGGATGGACAGTCGGATCCCGTCTCTAACCCAGATCCAGTGAGGATGCCAGCTGAAATGCATAGTGCTTTTAGATTCTCAAGGCAACCCATTCTCCCCACAAGGCTACGGCCTAGAGGACTCCGACCT---GAGTTGCCAAgtagggcatccagtattcttggcttcggtgggacatcataaagtagggca #### Abcc2_ID8844_28 --> 0 - 0 Original Alignment GCGCCGTGGGTGACCGACAAGAAGCCTCCGGCAGATTGGCCCAAAAAAGGTGAGATCCAGTTCAACAACTATCAAGTGCGG-TATCGGCCGGAGCTGGATCTGGTCCTGAAAGGGATTACTTGTAACATCAAGAGCACCGAGAAG aatgcaagaaggaagaggtggtcactgttatgggatttacttttttgtagGCGCCATGGGTAAATGATAAGGCTCCTCCAGGAGACTGGCCTGAAAAAGGTGAGATCCAGTTCAATAACTATCAAGTACAACTACCGTCCCGAGCTAGATCTGGTCCTGAAGGGAATCA-CTGTAACATCAAAAGCACTGAGAAGgtaagaagtacaaaccatctgagtaaactaaaaggtgccgaatagtggga Alignment from CESAR GCGCCGTGGGTGACCGACAAGAAGCCTCCGGCAGATTGGCCCAAAAAAGGTGAGATCCAGTTCAACAACTATCAAGTGCGG-TATCGGCCGGAGCTGGATCTGGTCCTGAAAGGGATTACTTGTAACATCAAGAGCACCGAGAAG aatgcaagaaggaagaggtggtcactgttatgggatttacttttttgtagGCGCCATGGGTAAATGATAAGGCTCCTCCAGGAGACTGGCCTGAAAAAGGTGAGATCCAGTTCAATAACTATCAAGTACAACTACCGTCCCGAGCTAGATCTGGTCCTGAAGGGAATCA-CTGTAACATCAAAAGCACTGAGAAGgtaagaagtacaaaccatctgagtaaactaaaaggtgccgaatagtggga Alignment from Spaln_aa2Genome GCGCCGTGGGTGACCGACAAGAAGCCTCCGGCAGATTGGCCCAAAAAAGGTGAGATCCAGTTCAACAACTATCAAGTGCGG-TATCGGCCGGAGCTGGATCTGGTCCTGAAAGGGATTACTTGTAACATCAAGAGCACCGAGAAG aatgcaagaaggaagaggtggtcactgttatgggatttacttttttgtagGCGCCATGGGTAAATGATAAGGCTCCTCCAGGAGACTGGCCTGAAAAAGGTGAGATCCAGTTCAATAACTATCAAGTACAAcTACCGTCCCGAGCTAGATCTGGTCCTGAAGGGAATCAC-TGTAACATCAAAAGCACTGAGAAGgtaagaagtacaaaccatctgagtaaactaaaaggtgccgaatagtggga Alignment from Spaln_nt2Genome GCGCCGTGGGTGACCGACAAGAAGCCTCCGGCAGATTGGCCCAAAAAAGGTGAGATCCAGTTCAACAACTATCAAGTGCGG-TATCGGCCGGAGCTGGATCTGGTCCTGAAAGGGATTACTTGTAACATCAAGAGCACCGAGAAG aatgcaagaaggaagaggtggtcactgttatgggatttacttttttgtagGCGCCATGGGTAAATGATAAGGCTCCTCCAGGAGACTGGCCTGAAAAAGGTGAGATCCAGTTCAATAACTATCAAGTACAACTACCGTCCCGAGCTAGATCTGGTCCTGAAGGGA-ATCACTGTAACATCAAAAGCACTGAGAAGgtaagaagtacaaaccatctgagtaaactaaaaggtgccgaatagtggga Alignment from Pairagon GCGCCGTGGGTGACCGACAAGAAGCCTCCGGCAGATTGGCCCAAAAAAGGTGAGATCCAGTTCAACAACTATCAAGTGCGG-TATCGGCCGGAGCTGGATCTGGTCCTGAAAGGGATTACTTGTAACATCAAGAGCACCGAGAAG aatgcaagaaggaagaggtggtcactgttatgggatttacttttttgtagGCGCCATGGGTAAATGATAAGGCTCCTCCAGGAGACTGGCCTGAAAAAGGTGAGATCCAGTTCAATAACTATCAAGTACAACTACCGTCCCGAGCTAGATCTGGTCCTGAAGGGAATCAC-TGTAACATCAAAAGCACTGAGAAGgtaagaagtacaaaccatctgagtaaactaaaaggtgccgaatagtggga Alignment from Exonerate_protein2genome GCGCCGTGGGTGACCGACAAGAAGCCTCCGGCAGATTGGCCCAAAAAAGGTGAGATCCAGTTCAACAACTATCAAGTGCGGTATCGGCCGGAGCTGGATCTGGTCCTGAAAGGGATTACTTGTAACATCAAGAGCACCGAGAAG aatgcaagaaggaagaggtggtcactgttatgggatttacttttttgtagGCGCCATGGGTAAATGATAAGGCTCCTCCAGGAGACTGGCCTGAAAAAGGTGAGATCCAGTTCAATAACTATCAAGTACAACTACCGTCCCGAGCTAGATCTGGTCCTGAAGGGAATCACTGTAACATCAAAAGCACTGAGAAGgtaagaagtacaaaccatctgagtaaactaaaaggtgccgaatagtggga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GCGCCGTGGGTGACCGACAAGAAGCCTCCGGCAGATTGGCCCAAAAAAGGTGAGATCCAGTTCAACAACTATCAAGTGCGGTATCGGCCGGAGCTGGATCTGGTCCTGAAAGGGATTACTTGTAACATCAAGAGCACCGAGAAG aatgcaagaaggaagaggtggtcactgttatgggatttacttttttgtagGCGCCATGGGTAAATGATAAGGCTCCTCCAGGAGACTGGCCTGAAAAAGGTGAGATCCAGTTCAATAACTATCAAGTACAACTACCGTCCCGAGCTAGATCTGGTCCTGAAGGGAATCACTGTAACATCAAAAGCACTGAGAAGgtaagaagtacaaaccatctgagtaaactaaaaggtgccgaatagtggga #### Acsl5_ID11611_16 --> 0 - 0 Original Alignment ATCTGCATCAAAGGTAAC-AATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA aagtaaatgtatgatatgcaggatatattttttttcttttttgactctagATCTGCATTAAAAGCAACCAATGCATTCAAAGGTTACCTAAGGGGTGCGGAAAAAACAC-AAAAGTAATTGACAAGGATGGGTGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCAgtgagcagctctcaacagtcagtggagccctatatacagtaacggaggat Alignment from CESAR ATCTGCATCAAAGGTAAC-AATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA aagtaaatgtatgatatgcaggatatattttttttcttttttgactctagATCTGCATTAAAAGCAACCAATGCATTCAAAGGTTACCTAAGGGGTGCGGAAAAAACACAA-AAGTAATTGACAAGGATGGGTGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCAgtgagcagctctcaacagtcagtggagccctatatacagtaacggaggat Alignment from Spaln_aa2Genome ATCTGCATCAAAGGTAAC-AATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA aagtaaatgtatgatatgcaggatatattttttttcttttttgactctagATCTGCATTAAAAGCAACcAATGCATTCAAAGGTTACCTAAGGGGTGCGGAAAAAACACAAAA-GTAATTGACAAGGATGGGTGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCAgtgagcagctctcaacagtcagtggagccctatatacagtaacggaggat Alignment from Spaln_nt2Genome ATCTGCATCAAAGGTAAC-AATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA aagtaaatgtatgatatgcaggatatattttttttcttttttgactctagATCTGCATTAAAAGCAACCAATGCATTCAAAGGTTACCTAAGGGGTGCGGAAAAAACACA-AAAGTAATTGACAAGGATGGGTGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCAgtgagcagctctcaacagtcagtggagccctatatacagtaacggaggat Alignment from Pairagon ATCTGCATCAAAGGTAA-CAATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA aagtaaatgtatgatatgcaggatatattttttttcttttttgactctagATCTGCATTAAAAGCAACCAATGCATTCAAAGGTTACCTAAGGGGTGCGGAAAAAACACA-AAAGTAATTGACAAGGATGGGTGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCAgtgagcagctctcaacagtcagtggagccctatatacagtaacggaggat Alignment from Exonerate_protein2genome ATCTGCATCAAAGGTAACAATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA aagtaaatgtatgatatgcaggatatattttttttcttttttgactctagATCTGCATTAAAAGCAACCAATGCATTCAAAGGTTACCTAAGGGGTGCGGAAAAAACACAAAAGTAATTGACAAGGATGGGTGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCAgtgagcagctctcaacagtcagtggagccctatatacagtaacggaggat Alignment from Exonerate_coding2genome ATCTGCATCAAAGGTAACAATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA aagtaaatgtatgatatgcaggatatattttttttcttttttgactctagATCTGCATTAAAAGCAACCAATGCATTCAAAGGTTACCTAAGGGGTGCGGAAAAAACACAAAAGTAATTGACAAGGATGGGTGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCAgtgagcagctctcaacagtcagtggagccctatatacagtaacggaggat Alignment from GeneWise ATCTGCATCAAAGGTAACAATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA aagtaaatgtatgatatgcaggatatattttttttcttttttgactctagATCTGCATTAAAAGCAACCAATGCATTCAAAGGTTACCTAAGGGGTGCGGAAAAAACACAAAAGTAATTGACAAGGATGGGTGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCAgtgagcagctctcaacagtcagtggagccctatatacagtaacggaggat #### Acsl5_ID11614_19 --> 0 - 0 Original Alignment TGTGTAAAGGAAGCCATT-TTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctgcatgccctgggtattctcatctgctgtccctggcagTTTGTAAAAGAGGCCATTCCTGGAGGACTTGCAGAAAATTGGGAAAGAGGGTGGTTTGA-ATCCCTTGAGCAGgtaatgatgtggtatgttttccctagttgatgcagtaaatcaatttacag Alignment from CESAR TGTGTAAAGGAAGCCATT-TTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctgcatgccctgggtattctcatctgctgtccctggcagTTTGTAAAAGAGGCCATTCCTGGAGGACTTGCAGAAAATTGGGAAAGAGGGTGGTT-TGAATCCCTTGAGCAGgtaatgatgtggtatgttttccctagttgatgcagtaaatcaatttacag Alignment from Spaln_aa2Genome TGTGTAAAGGAAGCCATT-TTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctgcatgccctgggtattctcatctgctgtccctggcagTTTGTAAAAGAGGCCATTcCTGGAGGACTTGCAGAAAATTGGGAAAGAGGGTGGTTTGAA-TCCCTTGAGCAGgtaatgatgtggtatgttttccctagttgatgcagtaaatcaatttacag Alignment from Spaln_nt2Genome TGTGTAAAGGAAGCCATTT-TAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctgcatgccctgggtattctcatctgctgtccctggcagTTTGTAAAAGAGGCCATTCCTGGAGGACTTGCAGAAAATTGGGAAAGAGGGTGGTTTG-AATCCCTTGAGCAGgtaatgatgtggtatgttttccctagttgatgcagtaaatcaatttacag Alignment from Pairagon TGTGTAAAGGAAGCCATT-TTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctgcatgccctgggtattctcatctgctgtccctggcagTTTGTAAAAGAGGCCATTCCTGGAGGACTTGCAGAAAATTGGGAAAGAGGGTGGTTTG-AATCCCTTGAGCAGgtaatgatgtggtatgttttccctagttgatgcagtaaatcaatttacag Alignment from Exonerate_protein2genome TGTGTAAAGGAAGCCATT-TTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctgcatgccctgggtattctcatctgctgtccctggcagTTTGTAAAAGAGGCCATTCCTGGAGGACTTGCAGAAAATTGGGAAAGAGGGTGGTTTGAATCCCTTGAGCAGGtaatgatgtggtatgttttccctagttgatgcagtaaatcaatttacag Alignment from Exonerate_coding2genome TGTGTAAAGGAAGCCATT-TTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctgcatgccctgggtattctcatctgctgtccctggcagTTTGTAAAAGAGGCCATTCCTGGAGGACTTGCAGAAAATTGGGAAAGAGGGTGGTTTGAATCCCTTGAGCAGGtaatgatgtggtatgttttccctagttgatgcagtaaatcaatttacag Alignment from GeneWise aggcctttaagctgcatgccctgggtattctcatctgctgtccctggcagtttgtaaaagaggccattcctggaggacttgcagaaaattgggaaagagggtggtttgaatcccttgagcaggtaatgatgtggtatgttttccctagttgatgcagtaaatcaatttacag #### Actn3_ID693_17 --> 0 - 0 Original Alignment GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAG-CAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gggcaaaatggtgagtcttgggactctactcccagatccttcccttctagGAAGTAGGACGACTAGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGTCAGCCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACT-GCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTTTTTGACAACAAGCACACAGTCTACAGCATGGAGgtaagtacctaatggccaccagatagttgcagtttatgtcagctgactca Alignment from CESAR GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAG-CAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gggcaaaatggtgagtcttgggactctactcccagatccttcccttctagGAAGTAGGACGACTAGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGTCAGCCAGGAACAGAATATCATCAATTACAAGAGCAACATCGAC-TGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTTTTTGACAACAAGCACACAGTCTACAGCATGGAGgtaagtacctaatggccaccagatagttgcagtttatgtcagctgactca Alignment from Spaln_aa2Genome GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAG-CAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gggcaaaatggtgagtcttgggactctactcccagatccttcccttctagGAAGTAGGACGACTAGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGTCAGcCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACTG-CTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTTTTTGACAACAAGCACACAGTCTACAGCATGGAGgtaagtacctaatggccaccagatagttgcagtttatgtcagctgactca Alignment from Spaln_nt2Genome GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAG-CAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gggcaaaatggtgagtcttgggactctactcccagatccttcccttctagGAAGTAGGACGACTAGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGTCAGCCAGGAACAGAATATCATCAATTACAAGAGCAACATCGA-CTGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTTTTTGACAACAAGCACACAGTCTACAGCATGGAGgtaagtacctaatggccaccagatagttgcagtttatgtcagctgactca Alignment from Pairagon GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAG-CAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gggcaaaatggtgagtcttgggactctactcccagatccttcccttctagGAAGTAGGACGACTAGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGTCAGCCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACT-GCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTTTTTGACAACAAGCACACAGTCTACAGCATGGAGgtaagtacctaatggccaccagatagttgcagtttatgtcagctgactca Alignment from Exonerate_protein2genome GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAG-CAGGAACAGAACATCATCAATTACAAGAGCAACATCGAC--CGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gggcaaaatggtgagtcttgggactctactcccagatccttcccttctagGAAGTAGGACGACTAGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGTCAGCCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACTG---CTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTTTTTGACAACAAGCACACAGTCTACAGCATGGAGgtaagtacctaatggccaccagatagttgcagtttatgtcagctgactca Alignment from Exonerate_coding2genome gggcaaaatggtgagtcttgggactctactcccagatccttcccttctaggaagtaggacgactagcagcagggctagctggctctctggaggagcagatggcaggtctgcgtcagccaggaacagaatatcatcaattacaagagcaacatcgactgctagagggtgaccaccagttgctgcaggagagcctagtttttgacaacaagcacacagtctacagcatggaggtaagtacctaatggccaccagatagttgcagtttatgtcagctgactca Alignment from GeneWise GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gggcaaaatggtgagtcttgggactctactcccagatccttcccttctagGAAGTAGGACGACTAGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGTCAGCCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACTGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTTTTTGACAACAAGCACACAGTCTACAGCATGGAGgtaagtacctaatggccaccagatagttgcagtttatgtcagctgactca #### Actn3_ID695_15 --> 0 - 0 Original Alignment AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTA-CGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacctacaggcaaatatggataatgcatcacctttcctttgtctccagAGCCTACTAACAGCACATGAACAATTCAAAGCAACTTTACCTGAAGCTGATCGAGAGCCAGGGGCTGTCCCAGGCATCCAAGGAAAGATTTCAAAGATCTGCCAAACATATGGGTCACCGCCCGAAATTTGGAAACCCCTACATTACCCTCAGTATGAGGG-CATCAATAATAAGTGGGATACTgtgagctacctggctttatgctaagtgagagttctattgtggcaatacta Alignment from CESAR AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTA-CGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacctacaggcaaatatggataatgcatcacctttcctttgtctccagAGCCTACTAACAGCACATGAACAATTCAAAGCAACTTTACCTGAAGCTGATCGAGAGCCAGGGGCTGTCCCAGGCATCCAAGGAAAGATTTCAAAGATCTGCCAAACATATGGGTCACCGCCCGAAATTTGGAAACCCCTACATTACCCTCAGT-ATGAGGGCATCAATAATAAGTGGGATACTgtgagctacctggctttatgctaagtgagagttctattgtggcaatacta Alignment from Spaln_aa2Genome AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacctacaggcaaatatggataatgcatcacctttcctttgtctccagAGCCTACTAACAGCACATGAACAATTCAAAGCAACTTTACCTGAAGCTGATCGAGAGCCAGGGGCTGTCCCAGGCATCCAAGGAAAGATTTCAAAGATCTGCCAAACATATGGGTCACCGCCCGAAATTTGGAAACCCCTACATTACCCTCAGTATGAGGGCATCAATAATAAGTGGGATACTgtgagctacctggctttatgctaagtgagagttctattgtggcaatacta Alignment from Spaln_nt2Genome AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCA-AAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacctacaggcaaatatggataatgcatcacctttcctttgtctccagAGCCTACTAACAGCACATGAACAATTCAAAGCAACTTTACCTGAAGCTGATCGAGAGCCAGGGGCTGTCCCAGGCATCCAAGGAAAGATTTCAAAGATCTGCCAAACATATGGGTCACCGCCCGAAATTTGGAAACCCCTACATTACCCTCAGTATG-AGGGCATCAATAATAAGTGGGATACTgtgagctacctggctttatgctaagtgagagttctattgtggcaatacta Alignment from Pairagon AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTA-CGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacctacaggcaaatatggataatgcatcacctttcctttgtctccagAGCCTACTAACAGCACATGAACAATTCAAAGCAACTTTACCTGAAGCTGATCGAGAGCCAGGGGCTGTCCCAGGCATCCAAGGAAAGATTTCAAAGATCTGCCAAACATATGGGTCACCGCCCGAAATTTGGAAACCCCTACATTACCCTCAGTATG-AGGGCATCAATAATAAGTGGGATACTgtgagctacctggctttatgctaagtgagagttctattgtggcaatacta Alignment from Exonerate_protein2genome AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacctacaggcaaatatggataatgcatcacctttcctttgtctccagAGCCTACTAACAGCACATGAACAATTCAAAGCAACTTTACCTGAAGCTGATCGAGAGCCAGGGGCTGTCCCAGGCATCCAAGGAAAGATTTCAAAGATCTGCCAAACATATGGGTCACCGCCCGAAATTTGGAAACCCCTACATTACCCTCAGTATGAGGGCATCAATAATAAGTGGGATACTgtgagctacctggctttatgctaagtgagagttctattgtggcaatacta Alignment from Exonerate_coding2genome AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACAGTCAGAAAGCTG catacctacaggcaaatatggataatgcatcacctttcctttgtctccagAGCCTACTAACAGCACATGAACAATTCAAAGCAACTTTACCTGAAGCTGATCGAGAGCCAGGGGCTGTCCCAGGCATCCAAGGAAAGATTTCAAAGATCTGCCAAACATATGGGTCACCGCCCGAAATTTGGAAACCCCTACATTACCCTCAGTATGAGGGCATCAATAATAAGTGGGATACTGTGAGCTACCTGgctttatgctaagtgagagttctattgtggcaatacta Alignment from GeneWise AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacctacaggcaaatatggataatgcatcacctttcctttgtctccagAGCCTACTAACAGCACATGAACAATTCAAAGCAACTTTACCTGAAGCTGATCGAGAGCCAGGGGCTGTCCCAGGCATCCAAGGAAAGATTTCAAAGATCTGCCAAACATATGGGTCACCGCCCGAAATTTGGAAACCCCTACATTACCCTCAGTATGAGGGCATCAATAATAAGTGGGATACTgtgagctacctggctttatgctaagtgagagttctattgtggcaatacta #### Actn3_ID696_14 --> 0 - 0 Original Alignment AGGATGGAGAAGCTCCTGGAGACCATTGAC-CAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTC---GTGCACTCTGTGGAGGAGACCCAG taatatttgctctctgaatggattttgagcgtctggtttttgtgtaacagAAGATGGAGAAACTCCTGGAGACAATTGACCCAGCTGCAGCTAGAACTTGCTCGCAGGGCAGCTTCCTTCA-TAACTGGTTTGATGGAGCTGTTGAGGATCTGCATGATGTGTGGCTAGTGGTACACTCTGTGGAAGAAACAGAAgtaagtacgctaggcagtaaggcctcgaatgtgcttggggcctagaacag Alignment from CESAR AGGATGGAGAAGCTCCTGGAGACCATTGAC-CAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTG---CACTCTGTGGAGGAGACCCAG taatatttgctctctgaatggattttgagcgtctggtttttgtgtaacagAAGATGGAGAAACTCCTGGAGACAATTGACCCAGCTGCAGCTAGAACTTGCTCGCAGGGCAGCTTCCTTC-ATAACTGGTTTGATGGAGCTGTTGAGGATCTGCATGATGTGTGGCTAGTGGTACACTCTGTGGAAGAAACAGAAgtaagtacgctaggcagtaaggcctcgaatgtgcttggggcctagaacag Alignment from Spaln_aa2Genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTC---GTGCACTCTGTGGAGGAGACCCAG taatatttgctctctgaatggattttgagcgtctggtttttgtgtaacagAAGATGGAGAAACTCCTGGAGACAATTGACCCAGCTGCAGCTAGAACTTGCTCGCAGGGCAGCTTCCTTCATAACTGGTTTGATGGAGCTGTTGAGGATCTGCATGATGTGTGGCTAGTGGTACACTCTGTGGAAGAAACAGAAgtaagtacgctaggcagtaaggcctcgaatgtgcttggggcctagaacag Alignment from Spaln_nt2Genome AGGATGGAGAAGCTCCTGGAGACCATTGA-CCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTG---CACTCTGTGGAGGAGACCCAG taatatttgctctctgaatggattttgagcgtctggtttttgtgtaacagAAGATGGAGAAACTCCTGGAGACAATTGACCCAGCTGCAGCTAGAACTTGCTCGCAGGGCAGCTTCCTTC-ATAACTGGTTTGATGGAGCTGTTGAGGATCTGCATGATGTGTGGCTAGTGGTACACTCTGTGGAAGAAACAGAAgtaagtacgctaggcagtaaggcctcgaatgtgcttggggcctagaacag Alignment from Pairagon AGGATGGAGAAGCTCCTGGAGACCATTGA-CCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTG---CACTCTGTGGAGGAGACCCAG taatatttgctctctgaatggattttgagcgtctggtttttgtgtaacagAAGATGGAGAAACTCCTGGAGACAATTGACCCAGCTGCAGCTAGAACTTGCTCGCAGGGCAGCTTCCTTC-ATAACTGGTTTGATGGAGCTGTTGAGGATCTGCATGATGTGTGGCTAGTGGTACACTCTGTGGAAGAAACAGAAgtaagtacgctaggcagtaaggcctcgaatgtgcttggggcctagaacag Alignment from Exonerate_protein2genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTC---GTGCACTCTGTGGAGGAGACCCAG taatatttgctctctgaatggattttgagcgtctggtttttgtgtaacagAAGATGGAGAAACTCCTGGAGACAATTGACCCAGCTGCAGCTAGAACTTGCTCGCAGGGCAGCTTCCTTCATAACTGGTTTGATGGAGCTGTTGAGGATCTGCATGATGTGTGGCTAGTGGTACACTCTGTGGAAGAAACAGAAgtaagtacgctaggcagtaaggcctcgaatgtgcttggggcctagaacag Alignment from Exonerate_coding2genome taatatttgctctctgaatggattttgagcgtctggtttttgtgtaacagaagatggagaaactcctggagacaattgacccagctgcagctagaacttgctcgcagggcagcttccttcataactggtttgatggagctgttgaggatctgcatgatgtgtggctagtggtacactctgtggaagaaacagaagtaagtacgctaggcagtaaggcctcgaatgtgcttggggcctagaacag Alignment from GeneWise AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTG---CACTCTGTGGAGGAGACCCAG taatatttgctctctgaatggattttgagcgtctggtttttgtgtaacagAAGATGGAGAAACTCCTGGAGACAATTGACCCAGCTGCAGCTAGAACTTGCTCGCAGGGCAGCTTCCTTCATAACTGGTTTGATGGAGCTGTTGAGGATCTGCATGATGTGTGGCTAGTGGTACACTCTGTGGAAGAAACAGAAgtaagtacgctaggcagtaaggcctcgaatgtgcttggggcctagaacag #### Actn3_ID700_10 --> 0 - 0 Original Alignment CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGA-CGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG acgtcacctgttgcccattctgcccctaatgttgtctccctttggtgcagCTGTTAGAGTGGAATTGCCGCACCTTA------------AACCATGTAGCTGAATCTAGCATG------------CAG---CTGGAGGACTTCCAAGACTATCAACCACCTACGAAAGCCACCCTGTTTCCAAGAGACATGCCAGC-AGAGATCAACTTTAACATGCTGCAGGCTAAGTTGCGTCTGAGTCACCAACCTGCCTTCATGCCCTCTGAAGGCAAC------TCAgtaaggaggtattctgcaagttccaactctgcctacatgcctacaaccct Alignment from CESAR CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGA-CGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG acgtcacctgttgcccattctgcccctaatgttgtctccctttggtgcagCTGTTAGAGTGGAATTGCCGCACCTTA------------AACCATGTAGCTGAATCTAGCATG---------------CAGCTGGAGGACTTCCAAGACTATCAACCACCTACGAAAGCCACCCTGTTTCCAAGAGACATGCCAG-CAGAGATCAACTTTAACATGCTGCAGGCTAAGTTGCGTCTGAGTCACCAACCTGCCTTCATGCCCTCTGAAGGCAAC------TCAgtaaggaggtattctgcaagttccaactctgcctacatgcctacaaccct Alignment from Spaln_aa2Genome CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG acgtcacctgttgcccattctgcccctaatgttgtctccctttggtgcagCTGTTAGAGTGGAATTGCCGCACCTTA------------AACCATGTAGCTGAATCTAGCATG---------------CAGCTGGAGGACTTCCAAGACTATCAACCACCTACGAAAGCCACCCTGTTTCCAAGAGACATGCCAGCAGAGATCAACTTTAACATGCTGCAGGCTAAGTTGCGTCTGAGTCACCAACCTGCCTTCATGCCCTCTGAAGGCAAC------TCAgtaaggaggtattctgcaagttccaactctgcctacatgcctacaaccct Alignment from Spaln_nt2Genome CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACG-CCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTG acgtcacctgttgcccattctgcccctaatgttgtctccctttggtgcagCTGTTAGAGTGGAATTGCCGCACCTT------------AAACCATGTAGCTGAATCTAGCATG---------------CAGCTGGAGGACTTCCAAGACTATCAACCACCTACGAAAGCCACCCTGTTTCCAAGAGACATGCCAGC-AGAGATCAACTTTAACATGCTGCAGGCTAAGTTGCGTCTGAGTCACCAACCTGCCTTCATGCCCTCTGAAGGCAACTCAgtaaggaggtattctgcaagttccaactctgcctacatgcctacaaccct Alignment from Pairagon CTGTTGGAGTGGATCCGCCGCAC--------------------------TGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGA-CGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG acgtcacctgttgcccattctgcccctaatgttgtctccctttggtgcagCTGTTAGAGTGGAATTGCCGCACCTTAAACCATGTAGCTGAATCTAGCATGC-----------------------------------------------------AGCTGGAGGACTTCCAAGACTATCAACCACCTACGAAAGCCACCCTGTTTCCAAGAGACATGCCAGC-AGAGATCAACTTTAACATGCTGCAGGCTAAGTTGCGTCTGAGTCACCAACCTGCCTTCATGCCCTCTGAAGGCAA------CTCAgtaaggaggtattctgcaagttccaactctgcctacatgcctacaaccct Alignment from Exonerate_protein2genome CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAA acgtcacctgttgcccattctgcccctaaTGTTGTCTCCCTTTGGTGCAGCTGTTAGAGTGGAATTGCCGCACCTTAAACCATGTAGCTGAATCTAGCATGCAG------CTGGAGGACTTCCAAGACTATCAACCACCTACGAAAGCCACCCTGTTTCCAAGAGACATGCCAGCAGAGATCAACTTTAACATGCTGCAGGCTAAGTTGCGTCTGAGTCACCAACCTGCCTTCATGCCCTCTGAAGGCAActcagtaaggaggtattctgcaagttccaactctgcctacatgcctacaaccct Alignment from Exonerate_coding2genome CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAA acgtcacctgttgcccattctgcccctaaTGTTGTCTCCCTTTGGTGCAGCTGTTAGAGTGGAATTGCCGCACCTTAAACCATGTAGCTGAATCTAGCATGCAG------CTGGAGGACTTCCAAGACTATCAACCACCTACGAAAGCCACCCTGTTTCCAAGAGACATGCCAGCAGAGATCAACTTTAACATGCTGCAGGCTAAGTTGCGTCTGAGTCACCAACCTGCCTTCATGCCCTCTGAAGGCAActcagtaaggaggtattctgcaagttccaactctgcctacatgcctacaaccct Alignment from GeneWise CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG acgtcacctgttgcccattctgcccctaatgttgtctccctttggtgcagCTGTTAGAGTGGAATTGCCGCACCTTA------------AACCATGTAGCTGAATCTAGCATG---------------CAGCTGGAGGACTTCCAAGACTATCAACCACCTACGAAAGCCACCCTGTTTCCAAGAGACATGCCAGCAGAGATCAACTTTAACATGCTGCAGGCTAAGTTGCGTCTGAGTCACCAACCTGCCTTCATGCCCTCTGAAGGCAAC------TCAgtaaggaggtattctgcaagttccaactctgcctacatgcctacaaccct #### Actn3_ID701_9 --> 0 - 0 Original Alignment GCAGAGACTGCTGCC-AACAGGATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG aggtccctcctagctttctgggtatagtcccttccccactgggcctccagGCAGAGACTGCTGCCCAACAGAATCTGCAAGGTATTACCAGTGAACCAGGAAAATG-GGAGCTGATGGAGAAATATGCAAAACTGGCTAGCGAGgtaagtttacaccatcgcccaagaaatccctcccagtacttcttcagtgt Alignment from CESAR GCAGAGACTGCTGCC-AACAGGATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG aggtccctcctagctttctgggtatagtcccttccccactgggcctccagGCAGAGACTGCTGCCCAACAGAATCTGCAAGGTATTACCAGTGAACCAGGAAAAT-GGGAGCTGATGGAGAAATATGCAAAACTGGCTAGCGAGgtaagtttacaccatcgcccaagaaatccctcccagtacttcttcagtgt Alignment from Spaln_aa2Genome GCAGAGACTGCTGCCAACAGGATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG aggtccctcctagctttctgggtatagtcccttccccactgggcctccaggcag---AGACTGCTGCCCAACAGAATCTGCAAGGTATTACCAGTGAACCAGGAAAATGG-GAGCTGATGGAGAAATATGCAAAACTGGCTAGCGAGgtaagtttacaccatcgcccaagaaatccctcccagtacttcttcagtgt Alignment from Spaln_nt2Genome GCAGAGACTGCTG-CCAACAGGATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG aggtccctcctagctttctgggtatagtcccttccccactgggcctccagGCAGAGACTGCTGCCCAACAGAATCTGCAAGGTATTACCAGTGAACCAGGAAAATG-GGAGCTGATGGAGAAATATGCAAAACTGGCTAGCGAGgtaagtttacaccatcgcccaagaaatccctcccagtacttcttcagtgt Alignment from Pairagon GCAGAGACTGCTG-CCAACAGGATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG aggtccctcctagctttctgggtatagtcccttccccactgggcctccagGCAGAGACTGCTGCCCAACAGAATCTGCAAGGTATTACCAGTGAACCAGGAAAATG-GGAGCTGATGGAGAAATATGCAAAACTGGCTAGCGAGgtaagtttacaccatcgcccaagaaatccctcccagtacttcttcagtgt Alignment from Exonerate_protein2genome GCAGAGACTGCTGCC-AACAGGATCTGCAAGGTCTTAGCTGTGAACCAGGAAAAT--GAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG aggtccctcctagctttctgggtatagtcccttccccactgggcctccagGCAGAGACTGCTGCCCAACAGAATCTGCAAGGTATTACCAGTGAACCAGGAAAATGGGAG---CTGATGGAGAAATATGCAAAACTGGCTAGCGAGgtaagtttacaccatcgcccaagaaatccctcccagtacttcttcagtgt Alignment from Exonerate_coding2genome GCAGAGACTGCTGCC-AACAGGATCTGCAAGGTCTTAGCTGTGAACCAGGAAAAT--GAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG aggtccctcctagctttctgggtatagtcccttccccactgggcctccagGCAGAGACTGCTGCCCAACAGAATCTGCAAGGTATTACCAGTGAACCAGGAAAATGGGAG---CTGATGGAGAAATATGCAAAACTGGCTAGCGAGgtaagtttacaccatcgcccaagaaatccctcccagtacttcttcagtgt Alignment from GeneWise GCAGAGACTGCTGCCAACAGGATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG aggtccctcctagctttctgggtatagtcccttccccactgggcctccagGCAGAGACTGCTGCCCAACAGAATCTGCAAGGTATTACCAGTGAACCAGGAAAATGGGAGCTGATGGAGAAATATGCAAAACTGGCTAGCGAGgtaagtttacaccatcgcccaagaaatccctcccagtacttcttcagtgt #### Actn3_ID702_8 --> 2 - 0 Original Alignment atATCGTGAACACCCCCAAACCAGATGAGAAA-GCCATCATGACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG tccatcagtgcccatggaatcctccatcatggttttcctttcccttctagatATTGGCAACACACCCAGACCAGATGAGAAACGCCATCATAACTTACCTTTCCTGTTTTTACGATGCATTTG-TGGGGCTGAGCAGgtgagagagctgttgtaaacatgacatcatacagtatgtcctggcagttg Alignment from CESAR atATCGTGAACACCCCCAAACCAGATGAGAAA-GCCATCATGACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG tccatcagtgcccatggaatcctccatcatggttttcctttcccttctagatATTGGCAACACACCCAGACCAGATGAGAAACGCCATCATAACTTACCTTTCCTGTTTTTACGATGCATTTG-TGGGGCTGAGCAGgtgagagagctgttgtaaacatgacatcatacagtatgtcctggcagttg Alignment from Spaln_aa2Genome ATATCGTGAACACCCCCAAACCAGATGAGAAA-GCCATCATGACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG tccatcagtgcccatggaatcctccatcatggttttcctttcccttctagATATTGGCAACACACCCAGACCAGATGAGAAAcGCCATCATAACTTACCTTTCCTGTTTTTACGATGCATTTGT-GGGGCTGAGCAGgtgagagagctgttgtaaacatgacatcatacagtatgtcctggcagttg Alignment from Spaln_nt2Genome ATATCGTGAACACCCCCAAACCAGATGAGAAA-GCCATCATGACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG tccatcagtgcccatggaatcctccatcatggttttcctttcccttctagATATTGGCAACACACCCAGACCAGATGAGAAACGCCATCATAACTTACCTTTCCTGTTTTTACGATGCATTTG-TGGGGCTGAGCAGgtgagagagctgttgtaaacatgacatcatacagtatgtcctggcagttg Alignment from Pairagon ATATCGTGAACACCCCCAAACCAGATGAGAAA-GCCATCATGACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG tccatcagtgcccatggaatcctccatcatggttttcctttcccttctagATATTGGCAACACACCCAGACCAGATGAGAAACGCCATCATAACTTACCTTTCCTGTTTTTACGATGCATTTG-TGGGGCTGAGCAGgtgagagagctgttgtaaacatgacatcatacagtatgtcctggcagttg Alignment from Exonerate_protein2genome ATATCGTGAACACCCCCAAACCAGATGAGAAA-GCCATCATGACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCA tccatcagtgcccatggaatcctccatcatggttttcctttcccttctagATATTGGCAACACACCCAGACCAGATGAGAAACGCCATCATAACTTACCTTTCCTGTTTTTACGATGCATTTGTGGGGCTGAGCAGgtgagagagctgttgtaaacatgacatcatacagtatgtcctggcagttg Alignment from Exonerate_coding2genome ATATCGTGAACACCCCCAAACCAGATGAGAAA-GCCATCATGACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCA tccatcagtgcccatggaatcctccatcatggttttcctttcccttctagATATTGGCAACACACCCAGACCAGATGAGAAACGCCATCATAACTTACCTTTCCTGTTTTTACGATGCATTTGTGGGGCTGAGCAGgtgagagagctgttgtaaacatgacatcatacagtatgtcctggcagttg Alignment from GeneWise ATATCGTGAACACCCCCAAACCAGATGAGAAAGCCATCATGACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG tccatcagtgcccatggaatcctccatcatggttttcctttcccttctagATATTGGCAACACACCCAGACCAGATGAGAAACGCCATCATAACTTACCTTTCCTGTTTTTACGATGCATTTGTGGGGCTGAGCAGgtgagagagctgttgtaaacatgacatcatacagtatgtcctggcagttg #### Actn3_ID706_4 --> 2 - 1 Original Alignment aaATTGTTGACGGGAACCTGAAG-ATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAg acataacgcgggggaaaaaatactctcatgaatccatccattttctgtagaaATAGTTGATGGCAACCTGAAGCATGACCCTTGGCATGATTGGGACAATCATCCTCCGTT-TGCCATTCAGGACATCTCTGTAGAAggtaggttgatgccagatgccgagccaagccatgtcagtcccaccttctct Alignment from CESAR aaATTGTTGACGGGAACCTGAAG-ATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAg acataacgcgggggaaaaaatactctcatgaatccatccattttctgtagaaATAGTTGATGGCAACCTGAAGCATGACCCTTGGCATGATTGGGACAATCATCCTCC-GTTTGCCATTCAGGACATCTCTGTAGAAggtaggttgatgccagatgccgagccaagccatgtcagacactcatgtttt Alignment from Spaln_aa2Genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG acataacgcgggggaaaaaatactctcatgaatccatccattttctgtagAAATAGTTGATGGCAACCTGAAGCATGACCCTTGGCATGATTGGGACAATCATCCTCCGTTTGCCATTCAGGACATCTCTGTAGAAGgtaggttgatgccagatgccgagccaagccatgtcagtcccaccttctct Alignment from Spaln_nt2Genome AAATTGTTGACGGGAACCTGAAG-ATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG acataacgcgggggaaaaaatactctcatgaatccatccattttctgtagAAATAGTTGATGGCAACCTGAAGCATGACCCTTGGCATGATTGGGACAATCATCCTCCG-TTTGCCATTCAGGACATCTCTGTAGAAGgtaggttgatgccagatgccgagccaagccatgtcagtcccaccttctct Alignment from Pairagon AAATTGTTGACGGGAACCTGAAG-ATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG acataacgcgggggaaaaaatactctcatgaatccatccattttctgtagAAATAGTTGATGGCAACCTGAAGCATGACCCTTGGCATGATTGGGACAATCATCCTCCG-TTTGCCATTCAGGACATCTCTGTAGAAGgtaggttgatgccagatgccgagccaagccatgtcagtcccaccttctct Alignment from Exonerate_protein2genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG acataacgcgggggaaaaaatactctcatgaatccatccattttctgtagAAATAGTTGATGGCAACCTGAAGCATGACCCTTGGCATGATTGGGACAATCATCCTCCGTTTGCCATTCAGGACATCTCTGTAGAAGgtaggttgatgccagatgccgagccaagccatgtcagtcccaccttctct Alignment from Exonerate_coding2genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG acataacgcgggggaaaaaatactctcatgaatccatccattttctgtagAAATAGTTGATGGCAACCTGAAGCATGACCCTTGGCATGATTGGGACAATCATCCTCCGTTTGCCATTCAGGACATCTCTGTAGAAGgtaggttgatgccagatgccgagccaagccatgtcagtcccaccttctct Alignment from GeneWise AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG acataacgcgggggaaaaaatactctcatgaatccatccattttctgtagAAATAGTTGATGGCAACCTGAAGCATGACCCTTGGCATGATTGGGACAATCATCCTCCGTTTGCCATTCAGGACATCTCTGTAGAAGgtaggttgatgccagatgccgagccaagccatgtcagtcccaccttctct #### Actr1a_ID9877_3 --> 1 - 0 Original Alignment tGTGGGCAGACCCAAA-CATGTTCGTGTCATGGCAGGAGCCCTGGAAGGTGACATCTTCATTGGCCCCAAAGCGGAG tgatgttctcctacacgacatgaagattccatgtgtgttctctcttgtagtGTAGGAAGGCCCAAACCATGTTCATGCAATGGCAGGGGCCCTGGAAGGTG-CCTCTTCATTGGCTCCAAAGCAGAGgtaaagtttgtcctacaagaaaaagttggtataaggagctccccccacat Alignment from CESAR tGTGGGCAGACCCAAA-CATGTTCGTGTCATGGCAGGAGCCCTGGAAGGTGACATCTTCATTGGCCCCAAAGCGGAG tgatgttctcctacacgacatgaagattccatgtgtgttctctcttgtagtGTAGGAAGGCCCAAACCATGTTCATGCAATGGCAGGGGCCCTGGAAGGT-GCCTCTTCATTGGCTCCAAAGCAGAGgtaaagtttgtcctacaagaaaaagttggtataaggagctccccccacat Alignment from Spaln_aa2Genome TGTGGGCAGACCCAAACATGTTCGTGTCATGGCAGGAGCCCTGGAAGGTGACATCTTCATTGGCCCCAAAGCGGAG tgatgttctcctacacgacatgaagattccatgtgtgttctctcttgtagTGTAGGAAGGCCCAAACCATGTTCATGCAATGGCAGGGGCCCTGGAAGGTGCCTCTTCATTGGCTCCAAAGCAGAGgtaaagtttgtcctacaagaaaaagttggtataaggagctccccccacat Alignment from Spaln_nt2Genome TGTGGGCAGACCCAAAC-ATGTTCGTGTCATGGCAGGAGCCCTGGAAGGTGACATCTTCATTGGCCCCAAAGCGGAG tgatgttctcctacacgacatgaagattccatgtgtgttctctcttgtagTGTAGGAAGGCCCAAACCATGTTCATGCAATGGCAGGGGCCCTGGAAGGTGCC-TCTTCATTGGCTCCAAAGCAGAGgtaaagtttgtcctacaagaaaaagttggtataaggagctccccccacat Alignment from Pairagon TGTGGGCAGACCCAAA-CATGTTCGTGTCATGGCAGGAGCCCTGGAAGGTGACATCTTCATTGGCCCCAAAGCGGAG tgatgttctcctacacgacatgaagattccatgtgtgttctctcttgtagTGTAGGAAGGCCCAAACCATGTTCATGCAATGGCAGGGGCCCTGGAAGGTG-CCTCTTCATTGGCTCCAAAGCAGAGgtaaagtttgtcctacaagaaaaagttggtataaggagctccccccacat Alignment from Exonerate_protein2genome TGTGGGCAGACCCAAACATGTTCGTGTCATGGCAGGAGCCCTGGAAGGTGACATCTTCATTGGCCCCAAAGCGGAG tgatgttctcctacacgacatgaagattccatgtgtgttctctcttgtagTGTAGGAAGGCCCAAACCATGTTCATGCAATGGCAGGGGCCCTGGAAGGTGCCTCTTCATTGGCTCCAAAGCAGAGgtaaagtttgtcctacaagaaaaagttggtataaggagctccccccacat Alignment from Exonerate_coding2genome TGTGGGCAGACCCAAACATGTTCGTGTCATGGCAGGAGCCCTGGAAGGTGACATCTTCATTGGCCCCAAAGCGGAG tgatgttctcctacacgacatgaagattccatgtgtgttctctcttgtagTGTAGGAAGGCCCAAACCATGTTCATGCAATGGCAGGGGCCCTGGAAGGTGCCTCTTCATTGGCTCCAAAGCAGAGgtaaagtttgtcctacaagaaaaagttggtataaggagctccccccacat Alignment from GeneWise tgatgttctcctacacgacatgaagattccatgtgtgttctctcttgtagtgtaggaaggcccaaaccatgttcatgcaatggcaggggccctggaaggtgcctcttcattggctccaaagcagaggtaaagtttgtcctacaagaaaaagttggtataaggagctccccccacat #### Acy3_ID251_5 --> 2 - 0 Original Alignment gcATG------GACTTACCCGCCTTTGAGATGGATATC-TACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagtgttatctggaacaatagtgacaagtgtgtcccctacccttctgcaggtATGGACTCAGACTCTGCAGCATTTGAGATGGATATTCTACTGGAACTTGGGAAGTGTAGACTTCT-CTGCACTGCTGATGGTGATCTAGCCAGCATGGTGCACCCACAAATTCAAgtgtgcatactactggtaatcaggtgtgtcccaagcagtaatgtcacaac Alignment from CESAR gcATGGACTTA------CCCGCCTTTGAGATGGATATC-TACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagtgttatctggaacaatagtgacaagtgtgtcccctacccttctgcaggtATGGACTCAGACTCTGCAGCATTTGAGATGGATATTCTACTGGAACTTGGGAAGTGTAGACTTCTCT-GCACTGCTGATGGTGATCTAGCCAGCATGGTGCACCCACAAATTCAAgtgtgcatactactggtaatcaggtgtgtcccaagcagtaatgtcacaac Alignment from Spaln_aa2Genome GCATG------GACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagtgttatctggaacaatagtgacaagtgtgtcccctacccttctgcagGTATGGACTCAGACTCTGCAGCATTTGAGATGGATATTCTACTGGAACTTGGGAAGTGTAGACTTCTCTGCACTGCTGATGGTGATCTAGCCAGCATGGTGCACCCACAAATTCAAgtgtgcatactactggtaatcaggtgtgtcccaagcagtaatgtcacaac Alignment from Spaln_nt2Genome GCATGGACTTACCC------GCCTTTGAGATGGATAT-CTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagtgttatctggaacaatagtgacaagtgtgtcccctacccttctgcagGTATGGACTCAGACTCTGCAGCATTTGAGATGGATATTCTACTGGAACTTGGGAAGTGTAGACTTCTC-TGCACTGCTGATGGTGATCTAGCCAGCATGGTGCACCCACAAATTCAAgtgtgcatactactggtaatcaggtgtgtcccaagcagtaatgtcacaac Alignment from Pairagon GCATGGACTTA------CCCGCCTTTGAGATGGATA-TCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagtgttatctggaacaatagtgacaagtgtgtcccctacccttctgcagGTATGGACTCAGACTCTGCAGCATTTGAGATGGATATTCTACTGGAACTTGGGAAGTGTAGACTTCTC-TGCACTGCTGATGGTGATCTAGCCAGCATGGTGCACCCACAAATTCAAgtgtgcatactactggtaatcaggtgtgtcccaagcagtaatgtcacaac Alignment from Exonerate_protein2genome GCATG------GACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagtgttatctggaacaatagtgacaagtgtgtcccctacccttctgcagGTATGGACTCAGACTCTGCAGCATTTGAGATGGATATTCTACTGGAACTTGGGAAGTGTAGACTTCTCTGCACTGCTGATGGTGATCTAGCCAGCATGGTGCACCCACAAATTCAAgtgtgcatactactggtaatcaggtgtgtcccaagcagtaatgtcacaac Alignment from Exonerate_coding2genome GCATG------GACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagtgttatctggaacaatagtgacaagtgtgtcccctacccttctgcagGTATGGACTCAGACTCTGCAGCATTTGAGATGGATATTCTACTGGAACTTGGGAAGTGTAGACTTCTCTGCACTGCTGATGGTGATCTAGCCAGCATGGTGCACCCACAAATTCAAgtgtgcatactactggtaatcaggtgtgtcccaagcagtaatgtcacaac Alignment from GeneWise -------------------------------------------------------------GACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG GAGTGTTATCTGGAACAATAGTGACAAGTGTGTCCCCTACCCTTCTGCAGGTATGGACTCAGACTCTGCAGCATTTGAGATGGATATTCTACTGGAACTTGGGAAGTGTAGACTTCTCTGCACTGCTGATGGTGATCTAGCCAGCATGGTGCACCCACAAATTCAAgtgtgcatactactggtaatcaggtgtgtcccaagcagtaatgtcacaac #### Add3_ID11212_4 --> 0 - 0 Original Alignment GTACGAATAAGTAAGGAGCAAGACCAC-ATTATAATAATTCCCAGAGGCCTCTCTTTTTCTGAAGCGACAGCCTCCACTTTG atcccatccagagcaggtcatggttcatttatgtgttattttatatttagGTCCGAATCAGTAAGGAACAAGACCACCATTATAATGATTCCT---GGACTGTCTTTTT-TGAAACAACCGCATCCTCTTCAgtaagtttgtcaatcccatgtaactaatctttaatactctcaaaaggcag Alignment from CESAR GTACGAATAAGTAAGGAGCAAGACCAC-ATTATAATAATTCCCAGAGGCCTCTCTTTTTCTGAAGCGACAGCCTCCACTTTG atcccatccagagcaggtcatggttcatttatgtgttattttatatttagGTCCGAATCAGTAAGGAACAAGACCACCATTATAATGATTCCT---GGACTGTCTTTT-TTGAAACAACCGCATCCTCTTCAgtaagtttgtcaatcccatgtaactaatctttaatactctcaaaaggcag Alignment from Spaln_aa2Genome GTACGAATAAGTAAGGAGCAAGACCACATTATAATAATTCCCAGAGGCCTCTCTTTTTCTGAAGCGACAGCCTCCACTTTG atcccatccagagcaggtcatggttcatttatgtgttattttatatttagGTCCGAATCAGTAAGGAACAAGACCACCATTATAATGATTCCTGGACTGTC---TTTTTTGAAACAACCGCATCCTCTTCAgtaagtttgtcaatcccatgtaactaatctttaatactctcaaaaggcag Alignment from Spaln_nt2Genome GTACGAATAAGTAAGGAGCAAGACCAC-ATTATAATAATTCCCAGAGGCCTCTCTTTTTCTGAAGCGACAGCCTCCACTTTG atcccatccagagcaggtcatggttcatttatgtgttattttatatttagGTCCGAATCAGTAAGGAACAAGACCACCATTATAATGATTCC---TGGACTGTCTTTTT-TGAAACAACCGCATCCTCTTCAgtaagtttgtcaatcccatgtaactaatctttaatactctcaaaaggcag Alignment from Pairagon GTACGAATAAGTAAGGAGCAAGACCA-CATTATAATAATTCCCAGAGGCCTCTCTTTTTCTGAAGCGACAGCCTCCACTTTG atcccatccagagcaggtcatggttcatttatgtgttattttatatttagGTCCGAATCAGTAAGGAACAAGACCACCATTATAATGATTCCTGGA---CTGTCTTTTT-TGAAACAACCGCATCCTCTTCAgtaagtttgtcaatcccatgtaactaatctttaatactctcaaaaggcag Alignment from Exonerate_protein2genome GTACGAATAAGTAAGGAGCAAGACCACATTATAATAATTCCCAGAGGCCTCTCTTTTTCTGAAGCGACAGCCTCCACTTTG atcccatccagagcaggtcatggttcatttatgtgttattttatatttagGTCCGAATCAGTAAGGAACAAGACCAC---CATTATAATGATTCCTGGACTGTCTTTTTTGAAACAACCGCATCCTCTTCAgtaagtttgtcaatcccatgtaactaatctttaatactctcaaaaggcag Alignment from Exonerate_coding2genome GTACGAATAAGTAAGGAGCAAGACCACATTATAATAATTCCCAGAGGCCTCTCTTTTTCTGAAGCGACAGCCTCCACTTTG atcccatccagagcaggtcatggttcatttatgtgttattttatatttagGTCCGAATCAGTAAGGAACAAGACCAC---CATTATAATGATTCCTGGACTGTCTTTTTTGAAACAACCGCATCCTCTTCAgtaagtttgtcaatcccatgtaactaatctttaatactctcaaaaggcag Alignment from GeneWise GTACGAATAAGTAAGGAGCAAGACCACATTATAATAATTCCCAGAGGCCTCTCTTTTTCTGAAGCGACAGCCTCCACTTTG atcccatccagagcaggtcatggttcatttatgtgttattttatatttagGTCCGAATCAGTAAGGAACAAGACCACCATTATAAT---GATTCCTGGACTGTCTTTTTTGAAACAACCGCATCCTCTTCAgtaagtttgtcaatcccatgtaactaatctttaatactctcaaaaggcag #### Adrbk1_ID484_11 --> 0 - 2 Original Alignment CCAGCCAACATTCTC-CTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTgt gGGC cacaaggcaaccagcatgatgatgacatactctgtcactcattaccccagCCAGCTAACATTCTCCCTAGAA---CATGGCCATGTGAGAATTTCTG-TTTTAGCCTAGTATGTGACTTCTCCAAGAAGAGACCCCCTGCCGGGgtgtaggaacctacagactcacttcatgcccacatccttctgttgcaggGGC Alignment from CESAR CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTgt gGGC cacaaggcaaccagcatgatgatgacatactctgtcactcattaccccagCCAGCTAACATTCTCCCT--AGAACATGGCCATGTGAGAATTTCT-GTTTTAGCCTAGTATGTGACTTCTCCAAGAAGAGACCCCCTGCCGGGgtgtaggaacctacagactcacttcaccttgcctgtcctctctttcaggGGC Alignment from Spaln_aa2Genome CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTGT GGGC cacaaggcaaccagcatgatgatgacatactctgtcactcattaccccagccagCTAACATTCTCCCTA------GAACATGGCCATGTGAGAATTTCTGT-TTTAGCCTAGTATGTGACTTCTCCAAGAAGAGACCCCCTGCCGGGGTgtaggaacctacagactcacttcatgcccacatccttctgttgcagGGGC Alignment from Spaln_nt2Genome CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTGT GGGC cacaaggcaaccagcatgatgatgacatactctgtcactcattaccccagCCAGCTAACATTCTCC--CTAGAACATGGCCATGTGAGAATTTCTG-TTTTAGCCTAGTATGTGACTTCTCCAAGAAGAGACCCCCTGCCGGGGTgtaggaacctacagactcacttcatgcccacatccttctgttgcagGGGC Alignment from Pairagon CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTG----GGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTGT GGGC cacaaggcaaccagcatgatgatgacatactctgtcactcattaccccagCCAGCTAACATTCTCCCTA--GAACATGGCCATGTGAGAATTT-----CTGTTTTAGCCTAGTATGTGACTTCTCCAAGAAGAGACCCCCTGCCGGGGTgtaggaacctacagactcacttcatgcccacatccttctgttgcagGGGC Alignment from Exonerate_protein2genome CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTGT GGGC cacaaggcaaccagcatgatgatgacatactctgtcactcattaccccagCCAGCTAACATT---CTCCCTAGAACATGGCCATGTGAGAATTTCTGTTTTAGCCTAGTATGTGACTTCTCCAAGAAGAGACCCCCTGCCGGGGTgtaggaacctacagactcacttcatgcccacatccttctgttgcagGGGC Alignment from Exonerate_coding2genome CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTGT GGGC cacaaggcaaccagcatgatgatgacatactctgtcactcattaccccagCCAGCTAACATTCTCCCTAGA--ACATGGCCATGTGAGAATTTC-TGTTTTAGCCTAGTATGTGACTTCTCCAAGAAGAGACCCCCTGCCGGGGTgtaggaacctacagactcacttcatgcccacatccttctgttgcagGGGC Alignment from GeneWise CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTGT GGGC cacaaggcaaccagcatgatgatgacatactctgtcactcattaccccagCCAGCTAACATTCTCCCTAGAACATGGCCATGTGAGAATTTCTGT---TTTAGCCTAGTATGTGACTTCTCCAAGAAGAGACCCCCTGCCGGGGTgtaggaacctacagactcacttcatgcccacatccttctgttgcagGGGC #### Adrbk1_ID485_10 --> 2 - 0 Original Alignment CATGAACg gtGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAG-ATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATggtaagtaagtctcgagactgggtctctgcttgttcctctcagggGTAGAGTTGCATTATCACCTCTCACAGCATGGAGTCTTCTCAGAAGCTGATATGTGCCTATACGCTGCTGATCATCATC------------CACATGCACAATCACTTTGTAG-TTTCAGGGATCTAAAGgtaagttagactcacccctattcttctccttacaactcacagcacaccat Alignment from CESAR CATGAACg gtGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATggtactcaagtctcgagactgggtctctgcttgttcctctcagggGTAGAGTTGCATTATCACCTCTCACAGCATGGAGTCTTCTCAGAAGCTGATATGTGCCTATACGCTGCTG--ATCATCATC---------CACATGCACAATCACTTTGTAG-TTTCAGGGATCTAAAGgtaagttagactcacccctattcttctccttacaactcacagcacaccat Alignment from Spaln_aa2Genome CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGC---TTTGTAGTCTACAGGGACCTGAAG TATGAATGgtaagtaagtctcgagactgggtctctgcttgttcctctcagGGGTAGAGTTGCATTATCACCTCTCACAGCATGGAGTCTTCTCAGAAGCTGATATGTGCCTATACGCTGCTGAT---------------CATCATCCACATGCACAATCACTTTGTAGTTTCAGGGATCTAAAGgtaagttagactcacccctattcttctccttacaactcacagcacaccat Alignment from Spaln_nt2Genome CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGgtaagtaagtctcgagactgggtctctgcttgttcctctcagGGGTAGAGTTGCATTATCACCTCTCACAGCATGGAGTCTTCTCAGAAGCTGATATGTGCCTATACGCTGCT--GATCATCAT---------CCACATGCACAATCACTTTGTAGT-TTCAGGGATCTAAAGgtaagttagactcacccctattcttctccttacaactcacagcacaccat Alignment from Pairagon CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGA-GATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGgtaagtaagtctcgagactgggtctctgcttgttcctctcagGGGTAGAGTTGCATTATCACCTCTCACAGCATGGAGTCTTCTCAGAAGCTGATATGTGCCTATACGCTGCTGATCATCATC------------CACATGCACAATCACTTTGTAGTTT-CAGGGATCTAAAGgtaagttagactcacccctattcttctccttacaactcacagcacaccat Alignment from Exonerate_protein2genome CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTAC--AGGGACCTGAAG TATGAATGgtaagtaagtctcgagactgggtctctgcttGTTCCTCTCAGGGGTAGAGTTGCATTATCACCTCTCACAGCATGGAGTCTTCTCAGAAGCTGATATGTGCCTATACGCTGCTGATCATCATCCACATGCACAATCACTTTGTAGTT---TCAGGGATCTAAAGgtaagttagactcacccctattcttctccttacaactcacagcacaccat Alignment from Exonerate_coding2genome CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTAC--AGGGACCTGAAG TATGAATGgtaagtaagtctcgagactgggtctctgcttGTTCCTCTCAGGGGTAGAGTTGCATTATCACCTCTCACAGCATGGAGTCTTCTCAGAAGCTGATATGTGCCTATACGCTGCTGATCATCATCCACATGCACAATCACTTTGTAGTT---TCAGGGATCTAAAGgtaagttagactcacccctattcttctccttacaactcacagcacaccat Alignment from GeneWise CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTC---TACAGGGACCTGAAG TATGAATGgtaagtaagtctcgagactgggtctctgcttgttcctctcagGGGTAGAGTTGCATTATCACCTCTCACAGCATGGAGTCTTCTCAGAAGCTGATATGTGCCTATACGCTGCTGAT---------------CATCATCCACATGCACAATCACTTTGTAGTTTCAGGGATCTAAAGgtaagttagactcacccctattcttctccttacaactcacagcacaccat #### Adrbk1_ID486_9 --> 0 - 1 Original Alignment GACTGCCCCTTCATC-GTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACg gtGGGGAC ccccactcagttcgccttctataagacagttccttcatatcttcttccagGACTGCTCCTTCACTCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCT-TATCCTGGATCTTATGAATggtactcaagtctcgagactgtttgcttaacttttacttctagggGTAGAG Alignment from CESAR GACTGCCCCTTC-ATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACg gtGGGGAC ccccactcagttcgccttctataagacagttccttcatatcttcttccagGACTGCTCCTTCACTCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGC-TTATCCTGGATCTTATGAATggtactcaagtctcgagactgggtctctgcttgttcctctcagggGTAGAG Alignment from Spaln_aa2Genome -GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGGGAC ccccactcagttcgccttctataagacagttccttcatatcttcttccagGACTGCTCCTTCACTCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTT-ATCCTGGATCTTATGAATGgtactcaagtctcgagactgtttgcttaacttttacttctagGGGTAGAG Alignment from Spaln_nt2Genome GACTGCCCCTTCA-TCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGGGAC ccccactcagttcgccttctataagacagttccttcatatcttcttccagGACTGCTCCTTCACTCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTT-ATCCTGGATCTTATGAATGgtactcaagtctcgagactgtttgcttaacttttacttctagGGGTAGAG Alignment from Pairagon GACTGCCCCTTCA-TCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACGGT------------------------------------------GGGGAC ccccactcagttcgccttctataagacagttccttcatatcttcttccagGACTGCTCCTTCACTCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTT-ATCCTGGATCTTATGAATGGTACTCAAGTCTCGAGACTGTTTGCTTAACTTTTACTTCTAGGGGTAGAG Alignment from Exonerate_protein2genome GACTGC-CCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGC--TTCATCCTGGACCTCATGAACG GTGGGGAC ccccactcagttcgccttctataagacagttccttcatatcttcttccagGACTGCTCCTTCACTCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTT---ATCCTGGATCTTATGAATGgtactcaagtctcgagactgtttgcttaacttttacttctagGGGTAGAG Alignment from Exonerate_coding2genome CGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGGGAC ccccactcagttcgccttctataagacagttccttcatatcttcttccaggactgctccttcactCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTT-ATCCTGGATCTTATGAATGgtactcaagtctcgagactgtttgcttaacttttacttctagGGGTAGAG Alignment from GeneWise -GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACGGTGGGGAC ccccactcagttcgccttctataagacagttccttcatatcttcttccagGACTGCTCCTTCACTCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTT-ATCCTGGATCTTATGAATGGTACTCAAgtctcgagactgtttgcttaacttttacttctaggggtagag #### Adrbk1_ID491_4 --> 0 - 0 Original Alignment CCCTTTTCAAAGAATGCT-ACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG acattccattttgcttgttcttgttcatcacgagtgtctcctccttgcagCCCTTCTCCCAAAATGCTCGCAGAGCATGTGCAGGCTCACCTTGTGAAGAAGCAGGTCC-TCCAGATCTGTTTCAAgtgggcttaggatggttatcacggtattagacattggtaagaggttgttt Alignment from CESAR CCCTTTTCAAAGAATGCT-ACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG acattccattttgcttgttcttgttcatcacgagtgtctcctccttgcagCCCTTCTCCCAAAATGCTCGCAGAGCATGTGCAGGCTCACCTTGTGAAGAAGCAGG-TCCTCCAGATCTGTTTCAAgtgggcttaggatggttatcacggtattagacattggtaagaggttgttt Alignment from Spaln_aa2Genome CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG acattccattttgcttgttcttgttcatcacgagtgtctcctccttgcagCCCTTCTCCCAAAATGCTCGCAGAGCATGTGCAGGCTCACCTTGTGAAGAAGCAGGTCCTCCAGATCTGTTTCAAgtgggcttaggatggttatcacggtattagacattggtaagaggttgttt Alignment from Spaln_nt2Genome CCCTTTTCAAAGAATGCTA-CGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG acattccattttgcttgttcttgttcatcacgagtgtctcctccttgcagCCCTTCTCCCAAAATGCTCGCAGAGCATGTGCAGGCTCACCTTGTGAAGAAGCAGGT-CCTCCAGATCTGTTTCAAgtgggcttaggatggttatcacggtattagacattggtaagaggttgttt Alignment from Pairagon CCCTTTTCAAAGAATGCT-ACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG acattccattttgcttgttcttgttcatcacgagtgtctcctccttgcagCCCTTCTCCCAAAATGCTCGCAGAGCATGTGCAGGCTCACCTTGTGAAGAAGCAGGT-CCTCCAGATCTGTTTCAAgtgggcttaggatggttatcacggtattagacattggtaagaggttgttt Alignment from Exonerate_protein2genome CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG acattccattttgcttgttcttgttcatcacgagtgtctcctccttgcagCCCTTCTCCCAAAATGCTCGCAGAGCATGTGCAGGCTCACCTTGTGAAGAAGCAGGTCCTCCAGATCTGTTTCAAgtgggcttaggatggttatcacggtattagacattggtaagaggttgttt Alignment from Exonerate_coding2genome acattccattttgcttgttcttgttcatcacgagtgtctcctccttgcagcccttctcccaaaatgctcgcagagcatgtgcaggctcaccttgtgaagaagcaggtcctccagatctgtttcaagtgggcttaggatggttatcacggtattagacattggtaagaggttgttt Alignment from GeneWise CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG acattccattttgcttgttcttgttcatcacgagtgtctcctccttgcagCCCTTCTCCCAAAATGCTCGCAGAGCATGTGCAGGCTCACCTTGTGAAGAAGCAGGTCCTCCAGATCTGTTTCAAgtgggcttaggatggttatcacggtattagacattggtaagaggttgttt #### Adrbk1_ID492_3 --> 0 - 0 Original Alignment ATCAAGAAATATGAGAAGCTGGAG-ACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccccacacagccagcctcatacagtgaccatgatgtcatcttcccaacagATTAAAAAATATGCAAAGCTGGAGCACAGAGGAGGAGTGTGTTGTCCGCAGCCGAG-GATCTTTGAGTCCTACATTATGAAAGAGCTACTTGCATGCTCACATgtaggtgctgaatctatccagtgctcctagacatgtgggcttactcttta Alignment from CESAR ATCAAGAAATATGAGAAGCTGGAG-ACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccccacacagccagcctcatacagtgaccatgatgtcatcttcccaacagATTAAAAAATATGCAAAGCTGGAGCACAGAGGAGGAGTGTGTTGTCCGCAGCCGA-GGATCTTTGAGTCCTACATTATGAAAGAGCTACTTGCATGCTCACATgtaggtgctgaatctatccagtgctcctagacatgtgggcttactcttta Alignment from Spaln_aa2Genome ATCAAGAAATATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccccacacagccagcctcatacagtgaccatgatgtcatcttcccaacagATTAAAAAATATGCAAAGCTGGAGCACAGAGGAGGAGTGTGTTGTCCGCAGCCGAGGATCTTTGAGTCCTACATTATGAAAGAGCTACTTGCATGCTCACATgtaggtgctgaatctatccagtgctcctagacatgtgggcttactcttta Alignment from Spaln_nt2Genome ATCAAGAAATATGAGAAGCTGGAG-ACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccccacacagccagcctcatacagtgaccatgatgtcatcttcccaacagATTAAAAAATATGCAAAGCTGGAGCACAGAGGAGGAGTGTGTTGTCCGCAGCCGAG-GATCTTTGAGTCCTACATTATGAAAGAGCTACTTGCATGCTCACATgtaggtgctgaatctatccagtgctcctagacatgtgggcttactcttta Alignment from Pairagon ATCAAGAAATATGAGAAGCTGGAG-ACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccccacacagccagcctcatacagtgaccatgatgtcatcttcccaacagATTAAAAAATATGCAAAGCTGGAGCACAGAGGAGGAGTGTGTTGTCCGCAGCCGAG-GATCTTTGAGTCCTACATTATGAAAGAGCTACTTGCATGCTCACATgtaggtgctgaatctatccagtgctcctagacatgtgggcttactcttta Alignment from Exonerate_protein2genome ATCAAGAAATATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccccacacagccagcctcatacagtgaccatgatgtcatcttcccaacagATTAAAAAATATGCAAAGCTGGAGCACAGAGGAGGAGTGTGTTGTCCGCAGCCGAGGATCTTTGAGTCCTACATTATGAAAGAGCTACTTGCATGCTCACATgtaggtgctgaatctatccagtgctcctagacatgtgggcttactcttta Alignment from Exonerate_coding2genome ccccacacagccagcctcatacagtgaccatgatgtcatcttcccaacagattaaaaaatatgcaaagctggagcacagaggaggagtgtgttgtccgcagccgaggatctttgagtcctacattatgaaagagctacttgcatgctcacatgtaggtgctgaatctatccagtgctcctagacatgtgggcttactcttta Alignment from GeneWise ATCAAGAAATATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccccacacagccagcctcatacagtgaccatgatgtcatcttcccaacagATTAAAAAATATGCAAAGCTGGAGCACAGAGGAGGAGTGTGTTGTCCGCAGCCGAGGATCTTTGAGTCCTACATTATGAAAGAGCTACTTGCATGCTCACATgtaggtgctgaatctatccagtgctcctagacatgtgggcttactcttta #### Afap1l2_ID12248_15 --> 0 - 0 Original Alignment GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGT-GAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG agcagacaaaccctagcaacttcagagatgacccttccctccctccacagGTGGAACCTGCTGAAGAAGAGGCT---ACTGTCGACACGAACAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGACGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGG-TGACATAGCTGAGACACTTACAGTAGATCCAGAGTCCATCACTACCCAAGAGGAGGCCCATACA---GCACCAGGAGATCCTGAGTTGCAGCAGgtaaataagtggtcagctacctaactacattacctgctcttcaaaccacc Alignment from CESAR GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGC-AGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG agcagacaaaccctagcaacttcagagatgacccttccctccctccacagGTGGAACCTGCTGAAGAAGAGGCT---ACTGTCGACACGAACAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGACGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAG-GTGACATAGCTGAGACACTTACAGTAGATCCAGAGTCCATCACTACCCAAGAGGAGGCCCATACA---GCACCAGGAGATCCTGAGTTGCAGCAGgtaaataagtggtcagctacctaactacattacctgctcttcaaaccacc Alignment from Spaln_aa2Genome GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG agcagacaaaccctagcaacttcagagatgacccttccctccctccacagGTGGAACCTGCTGAAGAAGAGGCT---ACTGTCGACACGAACAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGACGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGTGACATAGCTGAGACACTTACAGTAGATCCAGAGTCCATCACTACCCAAGAGGAGGCCCATACA---GCACCAGGAGATCCTGAGTTGCAGCAGgtaaataagtggtcagctacctaactacattacctgctcttcaaaccacc Alignment from Spaln_nt2Genome GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGT-GAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG agcagacaaaccctagcaacttcagagatgacccttccctccctccacagGTGGAACCTGCTGAAGAAGAGG---CTACTGTCGACACGAACAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGACGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGG-TGACATAGCTGAGACACTTACAGTAGATCCAGAGTCCATCACTACCCAAGAGGAGGCCCATACAG---CACCAGGAGATCCTGAGTTGCAGCAGgtaaataagtggtcagctacctaactacattacctgctcttcaaaccacc Alignment from Pairagon GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAG-TGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG agcagacaaaccctagcaacttcagagatgacccttccctccctccacagGTGGAACCTGCTGAAGAAGAGG---CTACTGTCGACACGAACAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGACGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGG-TGACATAGCTGAGACACTTACAGTAGATCCAGAGTCCATCACTACCCAAGAGGAGGCCCATACAG---CACCAGGAGATCCTGAGTTGCAGCAGgtaaataagtggtcagctacctaactacattacctgctcttcaaaccacc Alignment from Exonerate_protein2genome GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG agcagacaaaccctagcaacttcagagatgacccttccctccctccacagGTGGAACCTGCTGAAGAAGAGGCT---ACTGTCGACACGAACAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGACGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGTGACATAGCTGAGACACTTACAGTAGATCCAGAGTCCATCACTACCCAAGAGGAGGCCCATACA---GCACCAGGAGATCCTGAGTTGCAGCAGgtaaataagtggtcagctacctaactacattacctgctcttcaaaccacc Alignment from Exonerate_coding2genome GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG agcagacaaaccctagcaacttcagagatgacccttccctccctccacagGTGGAACCTGCTGAAGAAGAGGCT---ACTGTCGACACGAACAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGACGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGTGACATAGCTGAGACACTTACAGTAGATCCAGAGTCCATCACTACCCAAGAGGAGGCCCATACA---GCACCAGGAGATCCTGAGTTGCAGCAGgtaaataagtggtcagctacctaactacattacctgctcttcaaaccacc Alignment from GeneWise GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG agcagacaaaccctagcaacttcagagatgacccttccctccctccacagGTGGAACCTGCTGAAGAAGAGGCT---ACTGTCGACACGAACAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGACGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGTGACATAGCTGAGACACTTACAGTAGATCCAGAGTCCATCACTACCCAAGAGGAGGCCCATACA---GCACCAGGAGATCCTGAGTTGCAGCAGgtaaataagtggtcagctacctaactacattacctgctcttcaaaccacc #### Aldh3b1_ID204_3 --> 0 - 1 Original Alignment GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCC-TGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAg acgcagcagagcagggatctgaccacattgatgcgggtctgctttttcagTCTACAATGTTGGATGCTACATTCATCAGGAAGGAACCCTTTGGGCTGGTGCTAATCATTGTGCCCCTGGAATTACCCCATAAACTTGATGCTTGTGCCACTGGTGG-TGCTGTAGCTGCTggtatgctggttttaaccttttcactggggcttctgcctttgtcatttagt Alignment from CESAR GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCC-TGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAg acgcagcagagcagggatctgaccacattgatgcgggtctgctttttcagTCTACAATGTTGGATGCTACATTCATCAGGAAGGAACCCTTTGGGCTGGTGCTAATCATTGTGCCCCTGGAATTACCCCATAAACTTGATGCTTGTGCCACTGG-TGGTGCTGTAGCTGCTggtatgctggttttaaccttttcactggggcttctgcctttgtcatttagt Alignment from Spaln_aa2Genome GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCC-TGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG acgcagcagagcagggatctgaccacattgatgcgggtctgctttttcagTCTACAATGTTGGATGCTACATTCATCAGGAAGGAACCCTTTGGGCTGGTGCTAATCATTGTGCCCcTGGAATTACCCCATAAACTTGATGCTTGTGCCACTGGT-GGTGCTGTAGCTGCTGgtatgctggttttaaccttttcactggggcttctgcctttgtcatttagt Alignment from Spaln_nt2Genome GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTG-CCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG acgcagcagagcagggatctgaccacattgatgcgggtctgctttttcagTCTACAATGTTGGATGCTACATTCATCAGGAAGGAACCCTTTGGGCTGGTGCTAATCATTGTGCCCCTGGAATTACCCCATAAACTTGATGCTTGTGCCACTGGT-GGTGCTGTAGCTGCTGgtatgctggttttaaccttttcactggggcttctgcctttgtcatttagt Alignment from Pairagon GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTG-CCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG acgcagcagagcagggatctgaccacattgatgcgggtctgctttttcagTCTACAATGTTGGATGCTACATTCATCAGGAAGGAACCCTTTGGGCTGGTGCTAATCATTGTGCCCCTGGAATTACCCCATAAACTTGATGCTTGTGCCACTGGT-GGTGCTGTAGCTGCTGgtatgctggttttaaccttttcactggggcttctgcctttgtcatttagt Alignment from Exonerate_protein2genome GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG acgcagcagagcagggatctgaccacattgatgcgggtctgctttttcagTCTACAATGTTGGATGCTACATTCATCAGGAAGGAACCCTTTGGGCTGGTGCTAATCATTGTGCCCCTGGAATTACCCCATAAACTTGATGCTTGTGCCACTGGTGGTGCTGTAGCTGCTGgtatgctggttttaaccttttcactggggcttctgcctttgtcatttagt Alignment from Exonerate_coding2genome acgcagcagagcagggatctgaccacattgatgcgggtctgctttttcagtctacaatgttggatgctacattcatcaggaaggaaccctttgggctggtgctaatcattgtgcccctggaattaccccataaacttgatgcttgtgccactggtggtgctgtagctgctggtatgctggttttaaccttttcactggggcttctgcctttgtcatttagt Alignment from GeneWise GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG acgcagcagagcagggatctgaccacattgatgcgggtctgctttttcagTCTACAATGTTGGATGCTACATTCATCAGGAAGGAACCCTTTGGGCTGGTGCTAATCATTGTGCCCCTGGAATTACCCCATAAACTTGATGCTTGTGCCACTGGTGGTGCTGTAGCTGCTGgtatgctggttttaaccttttcactggggcttctgcctttgtcatttagt #### Aldh3b2_ID237_3 --> 0 - 0 Original Alignment TCAGGCTTCGAGTCAGACATGAGTGAGATCATCCTGTGCGAGAATGAG-GTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG aatggtttgttagtaaactgagtctgtcttttattgtcctttcttcacagTCTGGCTTTGAGTCAGACATGAGTGAGGTTTTTCTGTGTGAAAATGAGCGTGGACTTGGCCCTGAAGAATTTGCAGA-GTGGATGAAGGATGAACCTGTACCCACAAATTTAgtgagacctgttggtgtactgtagctgcccccattcagaccctacccttg Alignment from CESAR TCAGGCTTCGAGTCAGACATGAGTGAGATCATCCTGTGCGAGAATGAG-GTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG aatggtttgttagtaaactgagtctgtcttttattgtcctttcttcacagTCTGGCTTTGAGTCAGACATGAGTGAGGTTTTTCTGTGTGAAAATGAGCGTGGACTTGGCCCTGAAGAATTTGCAG-AGTGGATGAAGGATGAACCTGTACCCACAAATTTAgtgagacctgttggtgtactgtagctgcccccattcagaccctacccttg Alignment from Spaln_aa2Genome TCAGGCTTCGAGTCAGACATGAGTGAGATCATCCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG aatggtttgttagtaaactgagtctgtcttttattgtcctttcttcacagTCTGGCTTTGAGTCAGACATGAGTGAGGTTTTTCTGTGTGAAAATGAGCGTGGACTTGGCCCTGAAGAATTTGCAGAGTGGATGAAGGATGAACCTGTACCCACAAATTTAgtgagacctgttggtgtactgtagctgcccccattcagaccctacccttg Alignment from Spaln_nt2Genome TCAGGCTTCGAGTCAGACATGAGTGAGATCATCCTGTGCGAGAATGAG-GTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG aatggtttgttagtaaactgagtctgtcttttattgtcctttcttcacagTCTGGCTTTGAGTCAGACATGAGTGAGGTTTTTCTGTGTGAAAATGAGCGTGGACTTGGCCCTGAAGAATTTGCAGA-GTGGATGAAGGATGAACCTGTACCCACAAATTTAgtgagacctgttggtgtactgtagctgcccccattcagaccctacccttg Alignment from Pairagon TCAGGCTTCGAGTCAGACATGAGTGAGATCATCCTGTGCGAGAATGAG-GTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG aatggtttgttagtaaactgagtctgtcttttattgtcctttcttcacagTCTGGCTTTGAGTCAGACATGAGTGAGGTTTTTCTGTGTGAAAATGAGCGTGGACTTGGCCCTGAAGAATTTGCAGA-GTGGATGAAGGATGAACCTGTACCCACAAATTTAgtgagacctgttggtgtactgtagctgcccccattcagaccctacccttg Alignment from Exonerate_protein2genome TCAGGCTTCGAGTCAGACATGAGTGAGATCATCCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG aatggtttgttagtaaactgagtctgtcttttattgtcctttcttcacagTCTGGCTTTGAGTCAGACATGAGTGAGGTTTTTCTGTGTGAAAATGAGCGTGGACTTGGCCCTGAAGAATTTGCAGAGTGGATGAAGGATGAACCTGTACCCACAAATTTAgtgagacctgttggtgtactgtagctgcccccattcagaccctacccttg Alignment from Exonerate_coding2genome aatggtttgttagtaaactgagtctgtcttttattgtcctttcttcacagtctggctttgagtcagacatgagtgaggtttttctgtgtgaaaatgagcgtggacttggccctgaagaatttgcagagtggatgaaggatgaacctgtacccacaaatttagtgagacctgttggtgtactgtagctgcccccattcagaccctacccttg Alignment from GeneWise TCAGGCTTCGAGTCAGACATGAGTGAGATCATCCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG aatggtttgttagtaaactgagtctgtcttttattgtcctttcttcacagTCTGGCTTTGAGTCAGACATGAGTGAGGTTTTTCTGTGTGAAAATGAGCGTGGACTTGGCCCTGAAGAATTTGCAGAGTGGATGAAGGATGAACCTGTACCCACAAATTTAgtgagacctgttggtgtactgtagctgcccccattcagaccctacccttg #### Aldh3b2_ID238_4 --> 0 - 1 Original Alignment CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAA-GAGCCCTTTGGCCTG---GTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg tttaccacagtattgtgaatttaccacatctttcttctctctttttatagCTGACAAAGCTTAGCTCCACATTCATCCGAAAACGAGCCCTTTGGTCTAGTTTTTCTGATCATTGCAC-TTGGAACTATCCTGTAAACTTGATGATCATCCCTCAGGTGGGGGCCATTGCTGCAggtgagagaagtattatggccacctacatagaagagtatgccctgagggta Alignment from CESAR CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAA-GAGCCCTTTGGCCTGGTG---CTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg tttaccacagtattgtgaatttaccacatctttcttctctctttttatagCTGACAAAGCTTAGCTCCACATTCATCCGAAAACGAGCCCTTTGGTCTAGTTTTTCTGATCATTGCA-CTTGGAACTATCCTGTAAACTTGATGATCATCCCTCAGGTGGGGGCCATTGCTGCAggtgagagaagtattatggccacctacatagaagagtatgccctgagggta Alignment from Spaln_aa2Genome CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAA-GAGCCCTTTGGCCTGGTGCTTATCATTGCACCC--TGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG tttaccacagtattgtgaatttaccacatctttcttctctctttttatagCTGACAAAGCTTAGCTCCACATTCATCCGAAAAcGAGCCCTTTGGTCTAGTTTTTCTGATCATTGCActTGGAACTATCCTGTAAACTTGATGATCATCCCTCAGGTGGGGGCCATTGCTGCAGgtgagagaagtattatggccacctacatagaagagtatgccctgagggta Alignment from Spaln_nt2Genome CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAA-GAGCCCTTTGGCCTGGTGCTT---ATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG tttaccacagtattgtgaatttaccacatctttcttctctctttttatagCTGACAAAGCTTAGCTCCACATTCATCCGAAAACGAGCCCTTTGGTCTAGTTTTTCTGATCATTGCA-CTTGGAACTATCCTGTAAACTTGATGATCATCCCTCAGGTGGGGGCCATTGCTGCAGgtgagagaagtattatggccacctacatagaagagtatgccctgagggta Alignment from Pairagon CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAA-GAGCCCTTTGGCCTGGTGCTT---ATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG tttaccacagtattgtgaatttaccacatctttcttctctctttttatagCTGACAAAGCTTAGCTCCACATTCATCCGAAAACGAGCCCTTTGGTCTAGTTTTTCTGATCATTGCA-CTTGGAACTATCCTGTAAACTTGATGATCATCCCTCAGGTGGGGGCCATTGCTGCAGgtgagagaagtattatggccacctacatagaagagtatgccctgagggta Alignment from Exonerate_protein2genome CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAA-GAGCCCTTTGGCCTGGTGCTTATCATT--GCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG tttaccacagtattgtgaatttaccacatctttcttctctctttttatagCTGACAAAGCTTAGCTCCACATTCATCCGAAAACGAGCCCTTTGGTCTAGTTTTTCTGATCATTGCACTTGGAACTATCCTGTAAACTTGATGATCATCCCTCAGGTGGGGGCCATTGCTGCAGgtgagagaagtattatggccacctacatagaagagtatgccctgagggta Alignment from Exonerate_coding2genome CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAA-GAGCCCTTTGGCCTGGTGCTTATCATT--GCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAGGAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAG tttaccacagtattgtgaatttaccacatctttcttctctctttttatagCTGACAAAGCTTAGCTCCACATTCATCCGAAAACGAGCCCTTTGGTCTAGTTTTTCTGATCATTGCACTTGGAACTATCCTGTAAACTTGATGATCATCCCTCAGGTGGGGGCCATTGCTGCAGGTGAGAGAAGTATTATG---GCCACCTACATAGAAGAGTATGCCCTGAGG Alignment from GeneWise CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCC---TTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG tttaccacagtattgtgaatttaccacatctttcttctctctttttatagCTGACAAAGCTTAGCTCCACATTCATCCGAAAACGAGCCCTTTGGTCTAGTTTTTCTGATCATTGCACTTGGAACTATCCTGTAAACTTGATGATCATCCCTCAGGTGGGGGCCATTGCTGCAGgtgagagaagtattatggccacctacatagaagagtatgccctgagggta #### Aldh3b2_ID241_7 --> 2 - 1 Original Alignment gaAGTCCTCGGGTAGGCAAGATCGTCATGACTGCTGCTGCCAAACACCTG-ACACCCATCACCCTGGAGCTGGGGGGTAAGAACCCCTGCTATGTGGATGACAACTGCGACCCCCAGACAGTGGCCAACCGTGTGGCCTGGTTCCGCTATTTCAATGCCGGCCAGACCTGTGTGGCCCCCGATTATATCCTGTGTAGCCAGGAGATGCAGGAGCGGTTGGTGCCTGCCCTGCAGAATTCCATCACGCGTTTCTATGGAGATAACCCACAGACCTCCCCCAACCTGGGCAGAATCATCAACCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGCTGTGGCCGTGTGGCCATCGGTGGCCAGAGTGATGAGGGAGAGCGCTACATTg taaatggcttactaggtgagtaggtgcccatgtctgcccctggcccgcaggaAGCCCTCGAGTAGGCAAGATGGTGATGACAGCTATGGCCAACCACCTGCACTCCCACTTCCCTGCAACTAGGAGGCA-GAACCCCTGCTAT---GATGATAACTGTGACCCACAGACAGTGACCAACAGAGTGGCCTGGTTCCACTATTTCAATGCTGGGCAAACCTGTGTTGCACCAGAATACATCTTATGTAGCCAAGAAATGCAGGAACAGTTGGTT------TTGCAAAATTCTATCACTCGTTTT------TACAATCCACAGACCCCACCTAACCTAGGAAGGATGATTAATCAGAAGCATTTCAAGAGGCTTCCAGGACTGCTGGGGTGTGGCCGTGTGGCCATCGGTCTGCAGAGTGATGAGGGAGGGTGTTGCATTggtaagaccttgctatttctgctggcccatcagagggaccatgccatctgc Alignment from CESAR gaAGTCCTCGGGTAGGCAAGATCGTCATGACTGCTGCTGCCAAACACCTG-ACACCCATCACCCTGGAGCTGGGGGGTAAGAACCCCTGCTATGTGGATGACAACTGCGACCCCCAGACAGTGGCCAACCGTGTGGCCTGGTTCCGCTATTTCAATGCCGGCCAGACCTGTGTGGCCCCCGATTATATCCTGTGTAGCCAGGAGATGCAGGAGCGGTTGGTGCCTGCCCTGCAGAATTCCATCACGCGTTTCTATGGAGATAACCCACAGACCTCCCCCAACCTGGGCAGAATCATCAACCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGCTGTGGCCGTGTGGCCATCGGTGGCCAGAGTGATGAGGGAGAGCGCTACATTg taaatggcttactaggtgagtaggtgcccatgtctgcccctggcccgcaggaAGCCCTCGAGTAGGCAAGATGGTGATGACAGCTATGGCCAACCACCTGCACTCCCACTTCCCTGCAACTAGGAG-GCAGAACCCCTGCTAT---GATGATAACTGTGACCCACAGACAGTGACCAACAGAGTGGCCTGGTTCCACTATTTCAATGCTGGGCAAACCTGTGTTGCACCAGAATACATCTTATGTAGCCAAGAAATGCAGGAACAGTTGGTT------TTGCAAAATTCTATCACTCGTTTTTAC------AATCCACAGACCCCACCTAACCTAGGAAGGATGATTAATCAGAAGCATTTCAAGAGGCTTCCAGGACTGCTGGGGTGTGGCCGTGTGGCCATCGGTCTGCAGAGTGATGAGGGAGGGTGTTGCATTggtaagaccttgctatttctgctggcccatcagagggaccatgccatctgc Alignment from Spaln_aa2Genome GAAGTCCTCGGGTAGGCAAGATCGTCATGACTGCTGCTGCCAAACACCTGACACCCATCACCCTGGAGCTGGGGGGTAAGAACCCCTGCTATGTGGATGACAACTGCGACCCCCAGACAGTGGCCAACCGTGTGGCCTGGTTCCGCTATTTCAATGCCGGCCAGACCTGTGTGGCCCCCGATTATATCCTGTGTAGCCAGGAGATGCAGGAGCGGTTGGTGCCTGCCCTGCAGAATTCCATCACGCGTTTCTATGGAGATAACCCACAGACCTCCCCCAACCTGGGCAGAATCATCAACCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGCTGTGGCCGTGTGGCCATCGGTGGCCAGAGTGATGAGGGAGAGCGCTACATTG taaatggcttactaggtgagtaggtgcccatgtctgcccctggcccgcagGAAGCCCTCGAGTAGGCAAGATGGTGATGACAGCTATGGCCAACCACCTGCACTCCCACTTCCCTGCAACTAGGAGGCAGAACCCCTGCTAT---GATGATAACTGTGACCCACAGACAGTGACCAACAGAGTGGCCTGGTTCCACTATTTCAATGCTGGGCAAACCTGTGTTGCACCAGAATACATCTTATGTAGCCAAGAAATGCAGGAACAGTTGGTT------TTGCAAAATTCTATCACTCGTTTTTAC------AATCCACAGACCCCACCTAACCTAGGAAGGATGATTAATCAGAAGCATTTCAAGAGGCTTCCAGGACTGCTGGGGTGTGGCCGTGTGGCCATCGGTCTGCAGAGTGATGAGGGAGGGTGTTGCATTGgtaagaccttgctatttctgctggcccatcagagggaccatgccatctgc Alignment from Spaln_nt2Genome GAAGTCCTCGGGTAGGCAAGATCGTCATGACTGCTGCTGCCAAACACCTG-ACACCCATCACCCTGGAGCTGGGGGGTAAGAACCCCTGCTATGTGGATGACAACTGCGACCCCCAGACAGTGGCCAACCGTGTGGCCTGGTTCCGCTATTTCAATGCCGGCCAGACCTGTGTGGCCCCCGATTATATCCTGTGTAGCCAGGAGATGCAGGAGCGGTTGGTGCCTGCCCTGCAGAATTCCATCACGCGTTTCTATGGAGATAACCCACAGACCTCCCCCAACCTGGGCAGAATCATCAACCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGCTGTGGCCGTGTGGCCATCGGTGGCCAGAGTGATGAGGGAGAGCGCTACATTG taaatggcttactaggtgagtaggtgcccatgtctgcccctggcccgcagGAAGCCCTCGAGTAGGCAAGATGGTGATGACAGCTATGGCCAACCACCTGCACTCCCACTTCCCTGCAACTAGGAGG-CAGAACCCCTGCTAT---GATGATAACTGTGACCCACAGACAGTGACCAACAGAGTGGCCTGGTTCCACTATTTCAATGCTGGGCAAACCTGTGTTGCACCAGAATACATCTTATGTAGCCAAGAAATGCAGGAACAGTTGGT------TTTGCAAAATTCTATCACTCGTTTTT------ACAATCCACAGACCCCACCTAACCTAGGAAGGATGATTAATCAGAAGCATTTCAAGAGGCTTCCAGGACTGCTGGGGTGTGGCCGTGTGGCCATCGGTCTGCAGAGTGATGAGGGAGGGTGTTGCATTGgtaagaccttgctatttctgctggcccatcagagggaccatgccatctgc Alignment from Pairagon GAAGTCCTCGGGTAGGCAAGATCGTCATGACTGCTGCTGCCAAACACCTG-ACACCCATCACCCTGGAGCTGGGGGGTAAGAACCCCTGCTATGTGGATGACAACTGCGACCCCCAGACAGTGGCCAACCGTGTGGCCTGGTTCCGCTATTTCAATGCCGGCCAGACCTGTGTGGCCCCCGATTATATCCTGTGTAGCCAGGAGATGCAGGAGCGGTTGGTGCCTGCCCTGCAGAATTCCATCACGCGTTTCTATGGAGATAACCCACAGACCTCCCCCAACCTGGGCAGAATCATCAACCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGCTGTGGCCGTGTGGCCATCGGTGGCCAGAGTGATGAGGGAGAGCGCTACATTG taaatggcttactaggtgagtaggtgcccatgtctgcccctggcccgcagGAAGCCCTCGAGTAGGCAAGATGGTGATGACAGCTATGGCCAACCACCTGCACTCCCACTTCCCTGCAACTAGGAGGC-AGAACCCCTGCTAT---GATGATAACTGTGACCCACAGACAGTGACCAACAGAGTGGCCTGGTTCCACTATTTCAATGCTGGGCAAACCTGTGTTGCACCAGAATACATCTTATGTAGCCAAGAAATGCAGGAACAGTTGGT------TTTGCAAAATTCTATCACTCGTTTTT------ACAATCCACAGACCCCACCTAACCTAGGAAGGATGATTAATCAGAAGCATTTCAAGAGGCTTCCAGGACTGCTGGGGTGTGGCCGTGTGGCCATCGGTCTGCAGAGTGATGAGGGAGGGTGTTGCATTGgtaagaccttgctatttctgctggcccatcagagggaccatgccatctgc Alignment from Exonerate_protein2genome GAAGTCCTCGGGTAGGCAAGATCGTCATGACTGCTGCTGCCAAACACCTGACACCCATCACCCTGGAGCTGGGGGGTAAGAACCCCTGCTATGTGGATGACAACTGCGACCCCCAGACAGTGGCCAACCGTGTGGCCTGGTTCCGCTATTTCAATGCCGGCCAGACCTGTGTGGCCCCCGATTATATCCTGTGTAGCCAGGAGATGCAGGAGCGGTTGGTGCCTGCCCTGCAGAATTCCATCACGCGTTTCTATGGAGATAACCCACAGACCTCCCCCAACCTGGGCAGAATCATCAACCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGCTGTGGCCGTGTGGCCATCGGTGGCCAGAGTGATGAGGGAGAGCGCTACATTG taaatggcttactaggtgagtaggtgcccatgtctgcccctggcccgcagGAAGCCCTCGAGTAGGCAAGATGGTGATGACAGCTATGGCCAACCACCTGCACTCCCACTTCCCTGCAACTAGGAGGCAGAACCCCTGCTAT---GATGATAACTGTGACCCACAGACAGTGACCAACAGAGTGGCCTGGTTCCACTATTTCAATGCTGGGCAAACCTGTGTTGCACCAGAATACATCTTATGTAGCCAAGAAATGCAGGAACAGTTGGTT------TTGCAAAATTCTATCACTCGTTTTTAC------AATCCACAGACCCCACCTAACCTAGGAAGGATGATTAATCAGAAGCATTTCAAGAGGCTTCCAGGACTGCTGGGGTGTGGCCGTGTGGCCATCGGTCTGCAGAGTGATGAGGGAGGGTGTTGCATTGgtaagaccttgctatttctgctggcccatcagagggaccatgccatctgc Alignment from Exonerate_coding2genome GAAGTCCTCGGGTAGGCAAGATCGTCATGACTGCTGCTGCCAAACACCTGACACCCATCACCCTGGAGCTGGGGGGTAAGAACCCCTGCTATGTGGATGACAACTGCGACCCCCAGACAGTGGCCAACCGTGTGGCCTGGTTCCGCTATTTCAATGCCGGCCAGACCTGTGTGGCCCCCGATTATATCCTGTGTAGCCAGGAGATGCAGGAGCGGTTGGTGCCTGCCCTGCAGAATTCCATCACGCGTTTCTATGGAGATAACCCACAGACCTCCCCCAACCTGGGCAGAATCATCAACCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGCTGTGGCCGTGTGGCCATCGGTGGCCAGAGTGATGAGGGAGAGCGCTACATTG taaatggcttactaggtgagtaggtgcccatgtctgcccctggcccgcagGAAGCCCTCGAGTAGGCAAGATGGTGATGACAGCTATGGCCAACCACCTGCACTCCCACTTCCCTGCAACTAGGAGGCAGAACCCCTGCTAT---GATGATAACTGTGACCCACAGACAGTGACCAACAGAGTGGCCTGGTTCCACTATTTCAATGCTGGGCAAACCTGTGTTGCACCAGAATACATCTTATGTAGCCAAGAAATGCAGGAACAGTTGGTT------TTGCAAAATTCTATCACTCGTTTTTAC------AATCCACAGACCCCACCTAACCTAGGAAGGATGATTAATCAGAAGCATTTCAAGAGGCTTCCAGGACTGCTGGGGTGTGGCCGTGTGGCCATCGGTCTGCAGAGTGATGAGGGAGGGTGTTGCATTGgtaagaccttgctatttctgctggcccatcagagggaccatgccatctgc Alignment from GeneWise TCCTCGGGTAGGCAAGATCGTCATGACTGCTGCTGCCAAACACCTGACACCCATCACCCTGGAGCTGGGGGGTAAGAACCCCTGCTATGTGGATGACAACTGCGACCCCCAGACAGTGGCCAACCGTGTGGCCTGGTTCCGCTATTTCAATGCCGGCCAGACCTGTGTGGCCCCCGATTATATCCTGTGTAGCCAGGAGATGCAGGAGCGGTTGGTGCCTGCCCTGCAGAATTCCATCACGCGTTTCTATGGAGATAACCCACAGACCTCCCCCAACCTGGGCAGAATCATCAACCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGCTGTGGCCGTGTGGCCATCGGTGGCCAGAGTGATGAGGGAGAGCGCTACATTG taaatggcttactaggtgagtaggtgcccatgtctgcccctggcccgcaggaagCCCTCGAGTAGGCAAGATGGTGATGACAGCTATGGCCAACCACCTGCACTCCCACTTCCCTGCAACTAGGAGGCAGAACCCCTGCTAT---GATGATAACTGTGACCCACAGACAGTGACCAACAGAGTGGCCTGGTTCCACTATTTCAATGCTGGGCAAACCTGTGTTGCACCAGAATACATCTTATGTAGCCAAGAAATGCAGGAACAGTTGGTT------TTGCAAAATTCTATCACTCGTTTTTAC------AATCCACAGACCCCACCTAACCTAGGAAGGATGATTAATCAGAAGCATTTCAAGAGGCTTCCAGGACTGCTGGGGTGTGGCCGTGTGGCCATCGGTCTGCAGAGTGATGAGGGAGGGTGTTGCATTGgtaagaccttgctatttctgctggcccatcagagggaccatgccatctgc #### Aldh3b2_ID242_8 --> 2 - 0 Original Alignment ccCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGG-CCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcctctgtacagtgctcgttgcattgactttctcttttaaagccCCGACAGATCTAGTAGATGTCCATGCAACAGAACCCCTTATGCAAGAGGAAATATTTGGGCCCCATCCTTCCTTTAGTGACTGTAAGAAGTT-GGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCCCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgaggtggtggtgagacaagttaaatgcagccagactggtcagaccttt Alignment from CESAR ccCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGG-CCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcctctgtacagtgctcgttgcattgactttctcttttaaagccCCGACAGATCTAGTAGATGTCCATGCAACAGAACCCCTTATGCAAGAGGAAATATTTGGGCCCCATCCTTCCTTTAGTGACTGTAAGAA-GTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCCCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgaggtggtggtgagacaagttaaatgcagccagactggtcagaccttt Alignment from Spaln_aa2Genome CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcctctgtacagtgctcgttgcattgactttctcttttaaagCCCCGACAGATCTAGTAGATGTCCATGCAACAGAACCCCTTATGCAAGAGGAAATATTTGGGCCCCATCCTTCCTTTAGTGACTGTAAGAAGTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCCCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgaggtggtggtgagacaagttaaatgcagccagactggtcagaccttt Alignment from Spaln_nt2Genome CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCC-ATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcctctgtacagtgctcgttgcattgactttctcttttaaagCCCCGACAGATCTAGTAGATGTCCATGCAACAGAACCCCTTATGCAAGAGGAAATATTTGGGCCCCATCCTTCCTTTAGTGACTGTAAGAAG-TTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCCCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgaggtggtggtgagacaagttaaatgcagccagactggtcagaccttt Alignment from Pairagon CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGG-CCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcctctgtacagtgctcgttgcattgactttctcttttaaagCCCCGACAGATCTAGTAGATGTCCATGCAACAGAACCCCTTATGCAAGAGGAAATATTTGGGCCCCATCCTTCCTTTAGTGACTGTAAGAAG-TTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCCCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgaggtggtggtgagacaagttaaatgcagccagactggtcagaccttt Alignment from Exonerate_protein2genome CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcctctgtacagtgctcgttgcattgactttctcttttaaagCCCCGACAGATCTAGTAGATGTCCATGCAACAGAACCCCTTATGCAAGAGGAAATATTTGGGCCCCATCCTTCCTTTAGTGACTGTAAGAAGTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCCCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgaggtggtggtgagacaagttaaatgcagccagactggtcagaccttt Alignment from Exonerate_coding2genome CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcctctgtacagtgctcgttgcattgactttctcttttaaagCCCCGACAGATCTAGTAGATGTCCATGCAACAGAACCCCTTATGCAAGAGGAAATATTTGGGCCCCATCCTTCCTTTAGTGACTGTAAGAAGTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCCCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgaggtggtggtgagacaagttaaatgcagccagactggtcagaccttt Alignment from GeneWise CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcctctgtacagtgctcgttgcattgactttctcttttaaagCCCCGACAGATCTAGTAGATGTCCATGCAACAGAACCCCTTATGCAAGAGGAAATATTTGGGCCCCATCCTTCCTTTAGTGACTGTAAGAAGTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCCCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgaggtggtggtgagacaagttaaatgcagccagactggtcagaccttt #### Ankrd13d_ID460_13 --> 2 - 0 Original Alignment gaAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGAC-CTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG gccatctggatttctgtcaaatctttgttgcatctgtttgttttgaacagggGGCCTTTATCCTTGTGAGGTAGATTCCACAGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAGGATGATGAGCCTTCTGCAGTTTGCTATCCAACAAAGCCTCTTGG-GGCAGCAATACAGGCAGAGCAGgtaactagtgatacagttagctaatgcttcaggcccatggggacaggctg Alignment from CESAR gaAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGAC-CTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG gccatctggatttctgtcaaatctttgttgcatctgtttgttttgaacagggGGCCTTTATCCTTGTGAGGTAGATTCCACAGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAGGATGATGAGCCTTCTGCAGTTTGCTATCCAACAAAGCC-TCTTGGGGCAGCAATACAGGCAGAGCAGgtaactagtgatacagttagctaatgcttcaggcccatggggacagttgg Alignment from Spaln_aa2Genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGAC-CTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG gccatctggatttctgtcaaatctttgttgcatctgtttgttttgaacagGGGGCCTTTATCCTTGTGAGGTAGATTCCACAGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAGGATGATGAGcCTTCTGCAGTTTGCTATCCAACAAAGCCTCTTGGG-GCAGCAATACAGGCAGAGCAGgtaactagtgatacagttagctaatgcttcaggcccatggggacaggctg Alignment from Spaln_nt2Genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGA-CCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG gccatctggatttctgtcaaatctttgttgcatctgtttgttttgaacagGGGGCCTTTATCCTTGTGAGGTAGATTCCACAGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAGGATGATGAGCCTTCTGCAGTTTGCTATCCAACAAAGCCT-CTTGGGGCAGCAATACAGGCAGAGCAGgtaactagtgatacagttagctaatgcttcaggcccatggggacaggctg Alignment from Pairagon -----------------------------------------------CAGGAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGA-CCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG GCCATCTGGATTTCTGTCAAATCTTTGTTGCATCTGTTTGTTTTGAACAGGGGGCCTTTATCCTTGTGAGGTAGATTCCACAGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAGGATGATGAGCCTTCTGCAGTTTGCTATCCAACAAAGCCT-CTTGGGGCAGCAATACAGGCAGAGCAGgtaactagtgatacagttagctaatgcttcaggcccatggggacaggctg Alignment from Exonerate_protein2genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG gccatctggatttctgtcaaatctttgttgcatctgtttgttttgaacagGGGGCCTTTATCCTTGTGAGGTAGATTCCACAGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAGGATGATGAGCCTTCTGCAGTTTGCTATCCAACAAAGCCTCTTGGGGCAGCAATACAGGCAGAGCAGgtaactagtgatacagttagctaatgcttcaggcccatggggacaggctg Alignment from Exonerate_coding2genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG gccatctggatttctgtcaaatctttgttgcatctgtttgttttgaacagGGGGCCTTTATCCTTGTGAGGTAGATTCCACAGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAGGATGATGAGCCTTCTGCAGTTTGCTATCCAACAAAGCCTCTTGGGGCAGCAATACAGGCAGAGCAGgtaactagtgatacagttagctaatgcttcaggcccatggggacaggctg Alignment from GeneWise GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAGGTGACGG gccatctggatttctgtcaaatctttgttgcatctgtttgttttgaacagGGGGCCTTTATCCTTGTGAGGTAGATTCCACAGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAGGATGATGAGCCTTCTGCAGTTTGCTATCCAACAAAGCCTCTTGGGGCAGCAATACAGGCAGAGCAGGTAACTAgtgatacagttagctaatgcttcaggcccatggggacaggctg #### Ankrd13d_ID465_8 --> 0 - 1 Original Alignment GTGTACAGTGCCACCAATGTGGAG-CTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAg cttacatcactctgctgtccactcagtcttaattcttctcatttatgcagGTATACAGTGCTACGAATGTTGAGCCTGGTGACACGCACGAGAACAGAACATCTCTCTG-CCAGGACAAGTTAAGGAACAAAggtgagtactcttgctgcagggttctggttgagcccctcaggcaatgtacc Alignment from CESAR GTGTACAGTGCCACCAATGTGGAG-CTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAg cttacatcactctgctgtccactcagtcttaattcttctcatttatgcagGTATACAGTGCTACGAATGTTGAGCCTGGTGACACGCACGAGAACAGAACATCTCTCT-GCCAGGACAAGTTAAGGAACAAAggtgagtactcttgctgcagggttctggttgagcccctcaggcaatgtacc Alignment from Spaln_aa2Genome GTGTACAGTGCCACCAATGTGGAG-CTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG cttacatcactctgctgtccactcagtcttaattcttctcatttatgcagGTATACAGTGCTACGAATGTTGAGcCTGGTGACACGCACGAGAACAGAACATCTCTCTGC-CAGGACAAGTTAAGGAACAAAGgtgagtactcttgctgcagggttctggttgagcccctcaggcaatgtacc Alignment from Spaln_nt2Genome GTGTACAGTGCCACCAATGTGGAGC-TGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG cttacatcactctgctgtccactcagtcttaattcttctcatttatgcagGTATACAGTGCTACGAATGTTGAGCCTGGTGACACGCACGAGAACAGAACATCTCTCTGC-CAGGACAAGTTAAGGAACAAAGgtgagtactcttgctgcagggttctggttgagcccctcaggcaatgtacc Alignment from Pairagon GTGTACAGTGCCACCAATGTGGAG-CTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG cttacatcactctgctgtccactcagtcttaattcttctcatttatgcagGTATACAGTGCTACGAATGTTGAGCCTGGTGACACGCACGAGAACAGAACATCTCTCTG-CCAGGACAAGTTAAGGAACAAAGgtgagtactcttgctgcagggttctggttgagcccctcaggcaatgtacc Alignment from Exonerate_protein2genome GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG cttacatcactctgctgtccactcagtcttaattcttctcatttatgcagGTATACAGTGCTACGAATGTTGAGCCTGGTGACACGCACGAGAACAGAACATCTCTCTGCCAGGACAAGTTAAGGAACAAAGgtgagtactcttgctgcagggttctggttgagcccctcaggcaatgtacc Alignment from Exonerate_coding2genome GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG cttacatcactctgctgtccactcagtcttaattcttctcatttatgcagGTATACAGTGCTACGAATGTTGAGCCTGGTGACACGCACGAGAACAGAACATCTCTCTGCCAGGACAAGTTAAGGAACAAAGgtgagtactcttgctgcagggttctggttgagcccctcaggcaatgtacc Alignment from GeneWise GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG cttacatcactctgctgtccactcagtcttaattcttctcatttatgcagGTATACAGTGCTACGAATGTTGAGCCTGGTGACACGCACGAGAACAGAACATCTCTCTGCCAGGACAAGTTAAGGAACAAAGgtgagtactcttgctgcagggttctggttgagcccctcaggcaatgtacc #### Ankrd13d_ID471_2 --> 0 - 1 Original Alignment CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAG-CTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAg ttggatgggtactattatttaaaaccattgtttgtttttttccttttcagCATGACATTGAGCAAGAGGACCCACAGGGGCAGACCCCTTTAGAACCTTGCTGTGACTTTGGGGAATTTAGAGTCTGTACGAGTCC-CCTTAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTggtaagttagtgctccattacacgtgaagggcgcctagaggtctaatacta Alignment from CESAR CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAG-CTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAg ttggatgggtactattatttaaaaccattgtttgtttttttccttttcagCATGACATTGAGCAAGAGGACCCACAGGGGCAGACCCCTTTAGAACCTTGCTGTGACTTTGGGGAATTTAGAGTCTGTACGAGTC-CCCTTAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTggtaagttagtgctccattacacgtgaagggcgcctagaggtctaatacta Alignment from Spaln_aa2Genome CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG ttggatgggtactattatttaaaaccattgtttgtttttttccttttcagCATGACATTGAGCAAGAGGACCCACAGGGGCAGACCCCTTTAGAACCTTGCTGTGACTTTGGGGAATTTAGAGTCTGTACGAGTCCCCTTAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtaagttagtgctccattacacgtgaagggcgcctagaggtctaatacta Alignment from Spaln_nt2Genome CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGC-TTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG ttggatgggtactattatttaaaaccattgtttgtttttttccttttcagCATGACATTGAGCAAGAGGACCCACAGGGGCAGACCCCTTTAGAACCTTGCTGTGACTTTGGGGAATTTAGAGTCTGTACGAGTCC-CCTTAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtaagttagtgctccattacacgtgaagggcgcctagaggtctaatacta Alignment from Pairagon CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAG-CTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG ttggatgggtactattatttaaaaccattgtttgtttttttccttttcagCATGACATTGAGCAAGAGGACCCACAGGGGCAGACCCCTTTAGAACCTTGCTGTGACTTTGGGGAATTTAGAGTCTGTACGAGTCC-CCTTAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtaagttagtgctccattacacgtgaagggcgcctagaggtctaatacta Alignment from Exonerate_protein2genome CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG ttggatgggtactattatttaaaaccattgtttgtttttttccttttcagCATGACATTGAGCAAGAGGACCCACAGGGGCAGACCCCTTTAGAACCTTGCTGTGACTTTGGGGAATTTAGAGTCTGTACGAGTCCCCTTAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtaagttagtgctccattacacgtgaagggcgcctagaggtctaatacta Alignment from Exonerate_coding2genome AAGCACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG ttggatgggtactattatttaaaaccattgtttgtttttttccttttCAGCATGACATTGAGCAAGAGGACCCACAGGGGCAGACCCCTTTAGAACCTTGCTGTGACTTTGGGGAATTTAGAGTCTGTACGAGTCCCCTTAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtaagttagtgctccattacacgtgaagggcgcctagaggtctaatacta Alignment from GeneWise CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG ttggatgggtactattatttaaaaccattgtttgtttttttccttttcagCATGACATTGAGCAAGAGGACCCACAGGGGCAGACCCCTTTAGAACCTTGCTGTGACTTTGGGGAATTTAGAGTCTGTACGAGTCCCCTTAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtaagttagtgctccattacacgtgaagggcgcctagaggtctaatacta #### Ankrd1_ID7095_8 --> 0 - 0 Original Alignment GAAGGAGACACCCCACTGCATGATGCTGTGAGGCTGAACCGCTATAAG-ATGATTCGACTCTTGATGACCTTCGGTGCGGACCTCAAGGTCAAGAACTGT tctttcaaggctcaaggtcccctggtttggtcttgtgaatcatttcctagGAGGAGGCCACACCATTGCATGATGCAGTGAGATTAAACCGTTAT---CATGATT---CTCTTGATGGCATTTGGTGCAGACC-GAAGGTGAAGAACTGTgtagatcagcagatcaataagggcggggttagatacatctccagcaaggg Alignment from CESAR GAAGGAGACACCCCACTGCATGATGCTGTGAGGCTGAACCGCTATAAGATGATTCGACTCTTGATGACCTTCGGTGCGGACCTCAAGGTCAAGAACTGT tctttcaaggctcaaggtcccctggtttggtcttgtgaatcatttcctagGAGGAGGCCACACCATTGCATGATGCAGTGAGATTAAACCGTTAT--CATGATT---CTCTTGATGGCATTTGGTGCAGAC-CGAAGGTGAAGAACTGTgtagatcagcagatcaataagggcggggttagatacatctccagcaaggg Alignment from Spaln_aa2Genome GAAGGAGACACCCCACTGCATGATGCTGTGAGGCTGAACCGCTATAAGATGATTCGACTCTTGATGACCTTCGGTGCGGACCTCAAGGTCAAGAACTGT tctttcaaggctcaaggtcccctggtttggtcttgtgaatcatttcctagGAGGAGGCCACACCATTGCATGATGCAGTGAGATTAAACCGTTATCAT------GATTCTCTTGATGGCATTTGGTGCAGACCGAAGGTGAAGAACTGTgtagatcagcagatcaataagggcggggttagatacatctccagcaaggg Alignment from Spaln_nt2Genome GAAGGAGACACCCCACTGCATGATGCTGTGAGGCTGAACCGCTATAAGATGATTCGACTCTTGATGACCTTCGGTGCGGACCTCAAGGTCAAGAACTGT tctttcaaggctcaaggtcccctggtttggtcttgtgaatcatttcctagGAGGAGGCCACACCATTGCATGATGCAGTGAGATTAAACCGTTAT--CATGATT---CTCTTGATGGCATTTGGTGCAGACC-GAAGGTGAAGAACTGTgtagatcagcagatcaataagggcggggttagatacatctccagcaaggg Alignment from Pairagon GAAGGAGACACCCCACTGCATGATGCTGTGAGGCTGAACCGCTATAAGATGATTCGACTCTTGATGACCTTCGGTGCGGACCTCAAGGTCAAGAACTGT tctttcaaggctcaaggtcccctggtttggtcttgtgaatcatttcctagGAGGAGGCCACACCATTGCATGATGCAGTGAGATTAAACCGTTATC--ATGATT---CTCTTGATGGCATTTGGTGCAGACC-GAAGGTGAAGAACTGTgtagatcagcagatcaataagggcggggttagatacatctccagcaaggg Alignment from Exonerate_protein2genome GGAGACACCCCACTGCATGATGCTGTGAGGCTGAACCGCTATAAGATGATTCGACTCTTGATGACCTTCGGTGCGGACCTCAAGGTCAAGAACTGT tctttcaaggctcaaggtcccctggtttggtcttgtgaatcatttcctaggagGAGGCCACACCATTGCATGATGCAGTGAGATTAAACCGTTATCAT------GATTCTCTTGATGGCATTTGGTGCAGACCGAAGGTGAAGAACTGTgtagatcagcagatcaataagggcggggttagatacatctccagcaaggg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ---GGAGACACCCCACTGCATGATGCTGTGAGGCTGAACCGCTATAAGATGATTCGACTCTTGATGACCTTCGGTGCGGACCTCAAGGTCAAGAACTGT tctttcaaggctcaaggtcccctggtttggtcttgtgaatcatttcctagGAGGAGGCCACACCATTGCATGATGCAGTGAGATTAAACCGTTATCAT------GATTCTCTTGATGGCATTTGGTGCAGACCGAAGGTGAAGAACTGTgtagatcagcagatcaataagggcggggttagatacatctccagcaaggg #### Ankrd1_ID7101_4 --> 0 - 0 Original Alignment ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAA-CTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG ggatggaaggataggaaaacaatcagtacattcggttgcattcccaacagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATAACAAACCTTCCAGTTGTAGAAAAGTTCCTCTCAGAGAAGA-CAGTCCTGATGTCTGTGATGAAgtaaggagtagtactgtgccctgccactttctggcctgccatttgcctgg Alignment from CESAR ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAA-CTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG ggatggaaggataggaaaacaatcagtacattcggttgcattcccaacagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATAACAAACCTTCCAGTTGTAGAAAAGTTCCTCTCAGAGA-AGACAGTCCTGATGTCTGTGATGAAgtaaggagtagtactgtgccctgccactttctggcctgccatttgcctgg Alignment from Spaln_aa2Genome ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAACTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG ggatggaaggataggaaaacaatcagtacattcggttgcattcccaacagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATAACAAACCTTCCAGTTGTAGAAAAGTTCCTCTCAGAGAAGACAGTCCTGATGTCTGTGATGAAgtaaggagtagtactgtgccctgccactttctggcctgccatttgcctgg Alignment from Spaln_nt2Genome ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAA-CTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG ggatggaaggataggaaaacaatcagtacattcggttgcattcccaacagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATAACAAACCTTCCAGTTGTAGAAAAGTTCCTCTCAGAGAAG-ACAGTCCTGATGTCTGTGATGAAgtaaggagtagtactgtgccctgccactttctggcctgccatttgcctgg Alignment from Pairagon ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAA-CTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG ggatggaaggataggaaaacaatcagtacattcggttgcattcccaacagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATAACAAACCTTCCAGTTGTAGAAAAGTTCCTCTCAGAGAAG-ACAGTCCTGATGTCTGTGATGAAgtaaggagtagtactgtgccctgccactttctggcctgccatttgcctgg Alignment from Exonerate_protein2genome ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAACTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG ggatggaaggataggaaaacaatcagtacattcggttgcattcccaacagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATAACAAACCTTCCAGTTGTAGAAAAGTTCCTCTCAGAGAAGACAGTCCTGATGTCTGTGATGAAgtaaggagtagtactgtgccctgccactttctggcctgccatttgcctgg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAACTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG ggatggaaggataggaaaacaatcagtacattcggttgcattcccaacagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATAACAAACCTTCCAGTTGTAGAAAAGTTCCTCTCAGAGAAGACAGTCCTGATGTCTGTGATGAAgtaaggagtagtactgtgccctgccactttctggcctgccatttgcctgg #### Asah2_ID6669_5 --> 0 - 2 Original Alignment AGCATTGATATAGCTCACACAAATCTTAAACCAGGCAAAATCTTTATCAACAAAGGAAAT-GTTGCTAATGTGCAGATCAACCGAAGCCCCTCCTCTTACCTTCTGAATCCACAGTCAGAGAGAGCAag agaacctcttagcttgctaaatgcatacaatattcatgtattcatttcagAGCATTGATGTTGCCCACACAAATCTCCAACCTGGCAAAATCTTTATCAATAAGGAAAATCGTAGCCAATCTGCAGATCAATCGAAGC---GCAT-TTACCTGCTAAATCCACAAGCAAAGAGAGCAaggtaagctattccttatagtattagaagtatatacctcaggttacaaaaga Alignment from CESAR AGCATTGATATAGCTCACACAAATCTTAAACCAGGCAAAATCTTTATCAACAAAGGAAAT-GTTGCTAATGTGCAGATCAACCGAAGCCCCTCCTCTTACCTTCTGAATCCACAGTCAGAGAGAGCAag agaacctcttagcttgctaaatgcatacaatattcatgtattcatttcagAGCATTGATGTTGCCCACACAAATCTCCAACCTGGCAAAATCTTTATCAATAAGGAAAATCGTAGCCAATCTGCAGATCAATCGAAGC---GCA-TTTACCTGCTAAATCCACAAGCAAAGAGAGCAaggtaagctattccttatagtattagaagtatatacctcaggttacaaaaga Alignment from Spaln_aa2Genome AGCATTGATATAGCTCACACAAATCTTAAACCAGGCAAAATCTTTATCAACAAAGGAAAT-GTTGCTAATGTGCAGATCAACCGAAGCCCCTCCTCTTACCTTCTGAATCCACAGTCAGAGAGAGCAAG agaacctcttagcttgctaaatgcatacaatattcatgtattcatttcagAGCATTGATGTTGCCCACACAAATCTCCAACCTGGCAAAATCTTTATCAATAAGGAAAATcGTAGCCAATCTGCAGATCAATCGAAGCGCATT----TACCTGCTAAATCCACAAGCAAAGAGAGCAAGgtaagctattccttatagtattagaagtatatacctcaggttacaaaaga Alignment from Spaln_nt2Genome AGCATTGATATAGCTCACACAAATCTTAAACCAGGCAAAATCTTTATCAACAAAGGAAAT-GTTGCTAATGTGCAGATCAACCGAAGCCCCTCCTCTTACCTTCTGAATCCACAGTCAGAGAGAGCAAG agaacctcttagcttgctaaatgcatacaatattcatgtattcatttcagAGCATTGATGTTGCCCACACAAATCTCCAACCTGGCAAAATCTTTATCAATAAGGAAAATCGTAGCCAATCTGCAGATCAATCGAAGCGCAT----TTACCTGCTAAATCCACAAGCAAAGAGAGCAAGgtaagctattccttatagtattagaagtatatacctcaggttacaaaaga Alignment from Pairagon AGCATTGATATAGCTCACACAAATCTTAAACCAGGCAAAATCTTTATCAACAAAGGAAAT-GTTGCTAATGTGCAGATCAACCGAAGCCCCTCCTCTTACCTTCTGAATCCACAGTCAGAGAGAGCAAG agaacctcttagcttgctaaatgcatacaatattcatgtattcatttcagAGCATTGATGTTGCCCACACAAATCTCCAACCTGGCAAAATCTTTATCAATAAGGAAAATCGTAGCCAATCTGCAGATCAATCGAAGCGCAT----TTACCTGCTAAATCCACAAGCAAAGAGAGCAAGgtaagctattccttatagtattagaagtatatacctcaggttacaaaaga Alignment from Exonerate_protein2genome AGCATTGATATAGCTCACACAAATCTTAAACCAGGCAAAATCTTTATCAACAAAGGAAATGTTGCTAATGTGCAGATCAACCGAAGCCCCTCCTCTTACCTTCTGAATCCACAGTCAGAGAGAGCAAG agaacctcttagcttgctaaatgcatacaatattcatgtattcatttcagAGCATTGATGTTGCCCACACAAATCTCCAACCTGGCAAAATCTTTATCAATAAGGAAAAT---CGTAGCCAATCTGCAGATCAATCGAAGCGCATTTACCTGCTAAATCCACAAGCAAAGAGAGCAAGgtaagctattccttatagtattagaagtatatacctcaggttacaaaaga Alignment from Exonerate_coding2genome AGCATTGATATAGCTCACACAAATCTTAAACCAGGCAAAATCTTTATCAACAAAGGAAATGTTGCTAATGTGCAGATCAACCGAAGCCCCTCCTCTTACCTTCTGAATCCACAGTCAGAGAGAGCAAG agaacctcttagcttgctaaatgcatacaatattcatgtattcatttcagAGCATTGATGTTGCCCACACAAATCTCCAACCTGGCAAAATCTTTATCAATAAGGAAAAT---CGTAGCCAATCTGCAGATCAATCGAAGCGCATTTACCTGCTAAATCCACAAGCAAAGAGAGCAAGgtaagctattccttatagtattagaagtatatacctcaggttacaaaaga Alignment from GeneWise AGCATTGATATAGCTCACACAAATCTTAAACCAGGCAAAATCTTTATCAACAAAGGAAATGTTGCTAATGTGCAGATCAACCGAAGCCCCTCCTCTTACCTTCTGAATCCACAGTCAGAGAGAGCAAG agaacctcttagcttgctaaatgcatacaatattcatgtattcatttcagAGCATTGATGTTGCCCACACAAATCTCCAACCTGGCAAAATCTTTATCAATAAGGAAAATCGTAGCCAA---TCTGCAGATCAATCGAAGCGCATTTACCTGCTAAATCCACAAGCAAAGAGAGCAAGgtaagctattccttatagtattagaagtatatacctcaggttacaaaaga #### BC048609_ID1423_2 --> 0 - 1 Original Alignment TTCTCCCAGGTGATCAGCATCGGC-TGGGCTGCCATGGGGTCACTCTACGCAGAGATGACCGGTGACAAGTTTCTTAGATGCTTTGCTTTGACCATTCTGa tgcaatgattgtgcacccatcaggtatctaaattgtgcttttaaattcagTTCTCTCAAGTAATCAGTATTGGTCTGGGCTACCATGGGACCACTGTACCAGGAGATGACTG-TGACAAGTTTCTTAGATGCTTTGCACTGACCATCCTCagtgtgtgggggcaggagcatgaagggggggcatttttccctacctctaga Alignment from CESAR TTCTCCCAGGTGATCAGCATCGGC-TGGGCTGCCATGGGGTCACTCTACGCAGAGATGACCGGTGACAAGTTTCTTAGATGCTTTGCTTTGACCATTCTGa tgcaatgattgtgcacccatcaggtatctaaattgtgcttttaaattcagTTCTCTCAAGTAATCAGTATTGGTCTGGGCTACCATGGGACCACTGTACCAGGAGATGACT-GTGACAAGTTTCTTAGATGCTTTGCACTGACCATCCTCagtgtgtgggggcaggagcatgaagggggggcatttttccctacctctaga Alignment from Spaln_aa2Genome TTCTCCCAGGTGATCAGCATCGGCTGGGCTGCCATGGGGTCACTCTACGCAGAGATGACCGGTGACAAGTTTCTTAGATGCTTTGCTTTGACCATTCTGA tgcaatgattgtgcacccatcaggtatctaaattgtgcttttaaattcagTTCTCTCAAGTAATCAGTATTGGTCTGGGCTACCATGGGACCACTGTACCAGGAGATGACTGTGACAAGTTTCTTAGATGCTTTGCACTGACCATCCTCAgtgtgtgggggcaggagcatgaagggggggcatttttccctacctctaga Alignment from Spaln_nt2Genome TTCTCCCAGGTGATCAGCATCGG-CTGGGCTGCCATGGGGTCACTCTACGCAGAGATGACCGGTGACAAGTTTCTTAGATGCTTTGCTTTGACCATTCTGA tgcaatgattgtgcacccatcaggtatctaaattgtgcttttaaattcagTTCTCTCAAGTAATCAGTATTGGTCTGGGCTACCATGGGACCACTGTACCAGGAGATGA-CTGTGACAAGTTTCTTAGATGCTTTGCACTGACCATCCTCAgtgtgtgggggcaggagcatgaagggggggcatttttccctacctctaga Alignment from Pairagon TTCTCCCAGGTGATCAGCATCGG-CTGGGCTGCCATGGGGTCACTCTACGCAGAGATGACCGGTGACAAGTTTCTTAGATGCTTTGCTTTGACCATTCTGA tgcaatgattgtgcacccatcaggtatctaaattgtgcttttaaattcagTTCTCTCAAGTAATCAGTATTGGTCTGGGCTACCATGGGACCACTGTACCAGGAGATGACT-GTGACAAGTTTCTTAGATGCTTTGCACTGACCATCCTCAgtgtgtgggggcaggagcatgaagggggggcatttttccctacctctaga Alignment from Exonerate_protein2genome TTCTCCCAGGTGATCAGCATCGGCTGGGCTGCCATGGGGTCACTCTACGCAGAGATGACCGGTGACAAGTTTCTTAGATGCTTTGCTTTGACCATTCTGA tgcaatgattgtgcacccatcaggtatctaaattgtgcttttaaattcagTTCTCTCAAGTAATCAGTATTGGTCTGGGCTACCATGGGACCACTGTACCAGGAGATGACTGTGACAAGTTTCTTAGATGCTTTGCACTGACCATCCTCAgtgtgtgggggcaggagcatgaagggggggcatttttccctacctctaga Alignment from Exonerate_coding2genome TTCTCCCAGGTGATCAGCATCGGCTGGGCTGCCATGGGGTCACTCTACGCAGAGATGACCGGTGACAAGTTTCTTAGATGCTTTGCTTTGACCATTCTGA tgcaatgattgtgcacccatcaggtatctaaattgtgcttttaaattcagTTCTCTCAAGTAATCAGTATTGGTCTGGGCTACCATGGGACCACTGTACCAGGAGATGACTGTGACAAGTTTCTTAGATGCTTTGCACTGACCATCCTCAgtgtgtgggggcaggagcatgaagggggggcatttttccctacctctaga Alignment from GeneWise TTCTCCCAGGTGATCAGCATCGGCTGGGCTGCCATGGGGTCACTCTACGCAGAGATGACCGGTGACAAGTTTCTTAGATGCTTTGCTTTGACCATTCTGA tgcaatgattgtgcacccatcaggtatctaaattgtgcttttaaattcagTTCTCTCAAGTAATCAGTATTGGTCTGGGCTACCATGGGACCACTGTACCAGGAGATGACTGTGACAAGTTTCTTAGATGCTTTGCACTGACCATCCTCAgtgtgtgggggcaggagcatgaagggggggcatttttccctacctctaga #### Bscl2_ID2422_5 --> 0 - 0 Original Alignment GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTT-GGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCG aggcagtgatgacccccttgtgcacctaaccggacaagaacctttctcagGTAATGCTGCAATATTGCTTACAATTGCTTCAAGTTCTTGACAAAGTGTTATTCTCCAGCCTCTTGCTCTTTCGGCTTTGCAAATCAAAAGCAGCTCTTGGAAGGCATGAGACCAC-ATTAGAAATCTATAGTGACTAT---GACAACTCAgtaagtggacaagttgcaatataatcctcaatgtagccagaatcacatgt Alignment from CESAR GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTT-GGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCG aggcagtgatgacccccttgtgcacctaaccggacaagaacctttctcagGTAATGCTGCAATATTGCTTACAATTGCTTCAAGTTCTTGACAAAGTGTTATTCTCCAGCCTCTTGCTCTTTCGGCTTTGCAAATCAAAAGCAGCTCTTGGAAGGCATGAGACCACAT-TAGAAATCTATAGTGACTAT---GACAACTCAgtaagtggacaagttgcaatataatcctcaatgtagccagaatcacatgt Alignment from Spaln_aa2Genome GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCG aggcagtgatgacccccttgtgcacctaaccggacaagaacctttctcagGTAATGCTGCAATATTGCTTACAATTGCTTCAAGTTCTTGACAAAGTGTTATTCTCCAGCCTCTTGCTCTTTCGGCTTTGCAAATCAAAAGCAGCTCTTGGAAGGCATGAGACCACATTAGAAATCTATAGTGACTAT---GACAACTCAgtaagtggacaagttgcaatataatcctcaatgtagccagaatcacatgt Alignment from Spaln_nt2Genome GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTT-GGCTTCGCTGAACAGAAGCAGCTCCTGGAAG--------------TAGAACTCTACTCTGACTATAGGGAGAATTCG aggcagtgatgacccccttgtgcacctaaccggacaagaacctttctcagGTAATGCTGCAATATTGCTTACAATTGCTTCAAGTTCTTGACAAAGTGTTATTCTCCAGCCTCTTGCTCTTTCGGCTTTGCAAATCAAAAGCAGCTCTTGGAAGGCATGAGACCACATTAGAAATCTATAGTGACTAT---GACAACTCAgtaagtggacaagttgcaatataatcctcaatgtagccagaatcacatgt Alignment from Pairagon GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTT-GGCTTCGCTGAACAGAAGCAGCTCCTGGAAG--------------TAGAACTCTACTCTGACTATAGGGAGAATTCG aggcagtgatgacccccttgtgcacctaaccggacaagaacctttctcagGTAATGCTGCAATATTGCTTACAATTGCTTCAAGTTCTTGACAAAGTGTTATTCTCCAGCCTCTTGCTCTTTCGGCTTTGCAAATCAAAAGCAGCTCTTGGAAGGCATGAGACCACATTAGAAATCTATAGTGACTAT---GACAACTCAgtaagtggacaagttgcaatataatcctcaatgtagccagaatcacatgt Alignment from Exonerate_protein2genome GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGG AAGTAGAACT aggcagtgatgacccccttgtgcacctaaccggacaagaacctttctcagGTAATGCTGCAATATTGCTTACAATTGCTTCAAGTTCTTGACAAAGTGTTATTCTCCAGCCTCTTGCTCTTTCGGCTTTGCAAATCAAAAGCAGCTCTTGgaaggcatgagaccacattagaaatctatagtgactatgacaactcagtaagtggacaagttgcaatataatcctcaatgtagccagAATCACATGT Alignment from Exonerate_coding2genome GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGG AAGTAGAACT aggcagtgatgacccccttgtgcacctaaccggacaagaacctttctcagGTAATGCTGCAATATTGCTTACAATTGCTTCAAGTTCTTGACAAAGTGTTATTCTCCAGCCTCTTGCTCTTTCGGCTTTGCAAATCAAAAGCAGCTCTTGgaaggcatgagaccacattagaaatctatagtgactatgacaactcagtaagtggacaagttgcaatataatcctcaatgtagccagAATCACATGT Alignment from GeneWise GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTG---------------GAAGTAGAACTCTACTCTGACTATAGGGAGAATTCG aggcagtgatgacccccttgtgcacctaaccggacaagaacctttctcagGTAATGCTGCAATATTGCTTACAATTGCTTCAAGTTCTTGACAAAGTGTTATTCTCCAGCCTCTTGCTCTTTCGGCTTTGCAAATCAAAAGCAGCTCTTGGAAGGCATGAGACCACATTAGAAATCTATAGTGACTAT---GACAACTCAgtaagtggacaagttgcaatataatcctcaatgtagccagaatcacatgt #### Bscl2_ID2424_7 --> 1 - 0 Original Alignment gTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTC-AGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctaacagccatgtgtttctttttcccccctaccccacaggTACCTGCTTTACAATTTTCCTATGACTTGTGCCTTTGTGGGTGTAGCAAGCAACTTCACATTTCTCCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCAT-GGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaaatgttcttgggctcattttctctcactagacaaaggaacctatatc Alignment from CESAR gTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTC-AGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctaacagccatgtgtttctttttcccccctaccccacaggTACCTGCTTTACAATTTTCCTATGACTTGTGCCTTTGTGGGTGTAGCAAGCAACTTCACATTTCTCCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCAT-GGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaaatgttcttgggctcattttctctcactagacaaaggaacctatatc Alignment from Spaln_aa2Genome GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctaacagccatgtgtttctttttcccccctaccccacagGTACCTGCTTTACAATTTTCCTATGACTTGTGCCTTTGTGGGTGTAGCAAGCAACTTCACATTTCTCCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaaatgttcttgggctcattttctctcactagacaaaggaacctatatc Alignment from Spaln_nt2Genome GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCT-CAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctaacagccatgtgtttctttttcccccctaccccacagGTACCTGCTTTACAATTTTCCTATGACTTGTGCCTTTGTGGGTGTAGCAAGCAACTTCACATTTCTCCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCAT-GGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaaatgttcttgggctcattttctctcactagacaaaggaacctatatc Alignment from Pairagon GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCT-CAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctaacagccatgtgtttctttttcccccctaccccacagGTACCTGCTTTACAATTTTCCTATGACTTGTGCCTTTGTGGGTGTAGCAAGCAACTTCACATTTCTCCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCAT-GGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaaatgttcttgggctcattttctctcactagacaaaggaacctatatc Alignment from Exonerate_protein2genome GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctaacagccatgtgtttctttttcccccctaccccacagGTACCTGCTTTACAATTTTCCTATGACTTGTGCCTTTGTGGGTGTAGCAAGCAACTTCACATTTCTCCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaaatgttcttgggctcattttctctcactagacaaaggaacctatatc Alignment from Exonerate_coding2genome GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAGGTTAATATCCGACAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGAT ccaacttaactctaacagccatgtgtttctttttcccccctaccccacagGTACCTGCTTTACAATTTTCCTATGACTTGTGCCTTTGTGGGTGTAGCAAGCAACTTCACATTTCTCCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGCAGGTAAATGTTCTTGGGCTCATTTTCTCTCACTAGACAAAGGAACCTATATC Alignment from GeneWise GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctaacagccatgtgtttctttttcccccctaccccacagGTACCTGCTTTACAATTTTCCTATGACTTGTGCCTTTGTGGGTGTAGCAAGCAACTTCACATTTCTCCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaaatgttcttgggctcattttctctcactagacaaaggaacctatatc #### Btaf1_ID7227_10 --> 0 - 0 Original Alignment ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATT-AGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTCGTTTCTGATGAA tctttctctagtacagagttaacattggaacatcaatttgattccttcagATCATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTCAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAG-CTTTGTTTCTGATGAAgtaagtgcaggttaaagctatggatgtacatacccactccatataaagtt Alignment from CESAR ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATT-AGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTCGTTTCTGATGAA tctttctctagtacagagttaacattggaacatcaatttgattccttcagATCATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTCAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGA-GCTTTGTTTCTGATGAAgtaagtgcaggttaaagctatggatgtacatacccactccatatacttcc Alignment from Spaln_aa2Genome GATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTCGTTTCTGATGA tctttctctagtacagagttaacattggaacatcaatttgattccttcagATCATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTCAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGCTTTGTTTCTGATGAAgtaagtgcaggttaaagctatggatgtacatacccactccatataaagtt Alignment from Spaln_nt2Genome ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATT-AGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTCGTTTCTGATGAA tctttctctagtacagagttaacattggaacatcaatttgattccttcagATCATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTCAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAG-CTTTGTTTCTGATGAAgtaagtgcaggttaaagctatggatgtacatacccactccatataaagtt Alignment from Pairagon ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATT-AGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTCGTTTCTGATGAA tctttctctagtacagagttaacattggaacatcaatttgattccttcagATCATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTCAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAG-CTTTGTTTCTGATGAAgtaagtgcaggttaaagctatggatgtacatacccactccatataaagtt Alignment from Exonerate_protein2genome ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTCGTTTCTGATGAA tctttctctagtacagagttaacattggaacatcaatttgattccttcagATCATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTCAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGCTTTGTTTCTGATGAAgtaagtgcaggttaaagctatggatgtacatacccactccatataaagtt Alignment from Exonerate_coding2genome ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTCGTTTCTGATGAA tctttctctagtacagagttaacattggaacatcaatttgattccttcagATCATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTCAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGCTTTGTTTCTGATGAAgtaagtgcaggttaaagctatggatgtacatacccactccatataaagtt Alignment from GeneWise ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTCGTTTCTGATGAA tctttctctagtacagagttaacattggaacatcaatttgattccttcagATCATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTCAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGCTTTGTTTCTGATGAAgtaagtgcaggttaaagctatggatgtacatacccactccatataaagtt #### Btaf1_ID7253_32 --> 2 - 0 Original Alignment gtGTCCTGGCAATGGACGCTCTGCACCGCCAAGTCCTGCCGTTC-CTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gataatataatggcttcttgagtcctgattagatggcctgtcatccacaggtGTACTAGCAATGGATGCTCTACAGCACCAGGTCCTGCCACTACCTTTTGAGAAGAATGAAAGAAGCTGTATTGCATG-TCTTCCACCCAAAATTATACAAGACTACTATTGTACTCTCAGTCCTCTTCAAgtatttattgccttcatggctagtgtggtactatttgtattgaggactga Alignment from CESAR gtGTCCTGGCAATGGACGCTCTGCACCGCCAAGTCCTGCCG-TTCCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gataatataatggcttcttgagtcctgattagatggcctgtcatccacaggtGTACTAGCAATGGATGCTCTACAGCACCAGGTCCTGCCACTACCTTTTGAGAAGAATGAAAGAAGCTGTATTGCAT-GTCTTCCACCCAAAATTATACAAGACTACTATTGTACTCTCAGTCCTCTTCAAgtatttattgccttcatggctagtgtggtactatttgtattgaggactga Alignment from Spaln_aa2Genome GGTGTCCTGGCAATGGACGCTCTGCACCGCCAAGTCCTGCCGTTCCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCA gataatataatggcttcttgagtcctgattagatggcctgtcatccacagGTGTACTAGCAATGGATGCTCTACAGCACCAGGTCCTGCCACTACCTTTTGAGAAGAATGAAAGAAGCTGTATTGCATGTCTTCCACCCAAAATTATACAAGACTACTATTGTACTCTCAGTCCTCTTCAAgtatttattgccttcatggctagtgtggtactatttgtattgaggactga Alignment from Spaln_nt2Genome GTGTCCTGGCAATGGACGCTCTGCACCGCCAAGTCCTGCCGTT-CCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gataatataatggcttcttgagtcctgattagatggcctgtcatccacagGTGTACTAGCAATGGATGCTCTACAGCACCAGGTCCTGCCACTACCTTTTGAGAAGAATGAAAGAAGCTGTATTGCATG-TCTTCCACCCAAAATTATACAAGACTACTATTGTACTCTCAGTCCTCTTCAAgtatttattgccttcatggctagtgtggtactatttgtattgaggactga Alignment from Pairagon GTGTCCTGGCAATGGACGCTCTGCACCGCCAAGTCCTGCCGTT-CCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gataatataatggcttcttgagtcctgattagatggcctgtcatccacagGTGTACTAGCAATGGATGCTCTACAGCACCAGGTCCTGCCACTACCTTTTGAGAAGAATGAAAGAAGCTGTATTGCATG-TCTTCCACCCAAAATTATACAAGACTACTATTGTACTCTCAGTCCTCTTCAAgtatttattgccttcatggctagtgtggtactatttgtattgaggactga Alignment from Exonerate_protein2genome GTGTCCTGGCAATGGACGCTCTGCACCGCCAAGTCCTGCCGTTCCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gataatataatggcttcttgagtcctgattagatggcctgtcatccacagGTGTACTAGCAATGGATGCTCTACAGCACCAGGTCCTGCCACTACCTTTTGAGAAGAATGAAAGAAGCTGTATTGCATGTCTTCCACCCAAAATTATACAAGACTACTATTGTACTCTCAGTCCTCTTCAAgtatttattgccttcatggctagtgtggtactatttgtattgaggactga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTGTCCTGGCAATGGACGCTCTGCACCGCCAAGTCCTGCCGTTCCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gataatataatggcttcttgagtcctgattagatggcctgtcatccacagGTGTACTAGCAATGGATGCTCTACAGCACCAGGTCCTGCCACTACCTTTTGAGAAGAATGAAAGAAGCTGTATTGCATGTCTTCCACCCAAAATTATACAAGACTACTATTGTACTCTCAGTCCTCTTCAAgtatttattgccttcatggctagtgtggtactatttgtattgaggactga #### C030046E11Rik_ID6307_21 --> 0 - 2 Original Alignment GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGT-AAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAag caaagagctagcttctttggttgcacttctcagcctctgtcttccctcagGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCCCCTGGCCAAATTCGGATTACAAAAAACATTAAGTATACCAA-TGGTCCGTCTGGGAAGcggtaagtaaccagattttaagcagtaatgtaaaatatttattgtctgggag Alignment from CESAR GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGT-AAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAag caaagagctagcttctttggttgcacttctcagcctctgtcttccctcagGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCCCCTGGCCAAATTCGGATTACAAAAAACATTAAGTATAC-CAATGGTCCGTCTGGGAAGcggtaagtaaccagattttaagcagtaatgtaaaatatttattgtctgggag Alignment from Spaln_aa2Genome GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGT-AAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG caaagagctagcttctttggttgcacttctcagcctctgtcttccctcagGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCCCCTGGCcAAATTCGGATTACAAAAAACATTAAGTATACCAAT-GGTCCGTCTGGGAAGCGgtaagtaaccagattttaagcagtaatgtaaaatatttattgtctgggag Alignment from Spaln_nt2Genome GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGT-AAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG caaagagctagcttctttggttgcacttctcagcctctgtcttccctcagGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCCCCTGGCCAAATTCGGATTACAAAAAACATTAAGTATACCAA-TGGTCCGTCTGGGAAGCGgtaagtaaccagattttaagcagtaatgtaaaatatttattgtctgggag Alignment from Pairagon GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGG-TAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG caaagagctagcttctttggttgcacttctcagcctctgtcttccctcagGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCCCCTGGCCAAATTCGGATTACAAAAAACATTAAGTATACCAA-TGGTCCGTCTGGGAAGCGgtaagtaaccagattttaagcagtaatgtaaaatatttattgtctgggag Alignment from Exonerate_protein2genome GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG caaagagctagcttctttggttgcacttctcagcctctgtcttccctcagGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCCCCTGGCCAAATTCGGATTACAAAAAACATTAAGTATACCAATGGTCCGTCTGGGAAGCGgtaagtaaccagattttaagcagtaatgtaaaatatttattgtctgggag Alignment from Exonerate_coding2genome GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG caaagagctagcttctttggttgcacttctcagcctctgtcttccctcagGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCCCCTGGCCAAATTCGGATTACAAAAAACATTAAGTATACCAATGGTCCGTCTGGGAAGCGgtaagtaaccagattttaagcagtaatgtaaaatatttattgtctgggag Alignment from GeneWise GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG caaagagctagcttctttggttgcacttctcagcctctgtcttccctcagGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCCCCTGGCCAAATTCGGATTACAAAAAACATTAAGTATACCAATGGTCCGTCTGGGAAGCGgtaagtaaccagattttaagcagtaatgtaaaatatttattgtctgggag #### C030046E11Rik_ID6311_25 --> 1 - 2 Original Alignment cTATTTGCTGCACATTTTCATGGAGGCGGGA-TGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTG---CAAGCAGTGGACCGCTGGGCCTCTACAGACtg tgaccctcttcatattcttttggatcctgctgctatgccatctgggccagcTATTTGATTCACATTTACATG---GCTGGGCTGTCTGGACTGGTGTGTTGTCATTGGCCTGATTCTTC-AGAGGCACCAGTAGTCCTTCACCTTCTTGGACTCAGCCAGGCACCTGGAATGGATGGGGAAATGTTGCAAAATATAAAATCAGGACTAGAACAGGCAGTTGATCGCTGGGGCTCAACTGACtggtgagtggatgatacaccggtcccttagtaaattgttagttaccttattt Alignment from CESAR cTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTG---CAAGCAGTGGACCGCTGGGCCTCTACAGACtg tgaccctcttcatattcttttggatcctgctgctatgccatctgggccagcTATTTGATTCACATTTACATG--GCTGGGCTGTCTGGACTGGTGTGTTGTCATTGGCCTGATTCTTC-AGAGGCACCAGTAGTCCTTCACCTTCTTGGACTCAGCCAGGCACCTGGAATGGATGGGGAAATGTTGCAAAATATAAAATCAGGACTAGAACAGGCAGTTGATCGCTGGGGCTCAACTGACtggtgagtggatgatacaccggtcccttagtaaattgttagttaccttattt Alignment from Spaln_aa2Genome CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTG---CAAGCAGTGGACCGCTGGGCCTCTACAGACTG tgaccctcttcatattcttttggatcctgctgctatgccatctgggccagCTATTTGATTCACATTTACATGGCTG--GGCTGTCTGGACTGGTGTGTTGTCATTGGCCTGATTCTTCA-GAGGCACCAGTAGTCCTTCACCTTCTTGGACTCAGCCAGGCACCTGGAATGGATGGGGAAATGTTGCAAAATATAAAATCAGGACTAGAACAGGCAGTTGATCGCTGGGGCTCAACTGACTGgtgagtggatgatacaccggtcccttagtaaattgttagttaccttattt Alignment from Spaln_nt2Genome CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTGCAA---GCAGTGGACCGCTGGGCCTCTACAGACTG tgaccctcttcatattcttttggatcctgctgctatgccatctgggccagCTATTTGATTCACATTTACATG--GCTGGGCTGTCTGGACTGGTGTGTTGTCATTGGCCTGATTCT-TCAGAGGCACCAGTAGTCCTTCACCTTCTTGGACTCAGCCAGGCACCTGGAATGGATGGGGAAATGTTGCAAAATATAAAATCAGGACTAGAACAGGCAGTTGATCGCTGGGGCTCAACTGACTGgtgagtggatgatacaccggtcccttagtaaattgttagttaccttattt Alignment from Pairagon CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAG---------------------------------------------ATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCT---GCAAGCAGTGGACCGCTGGGCCTCTACAGACTG tgaccctcttcatattcttttggatcctgctgctatgccatctgggccagCTATTTGATTCACATTTACATGGC--TGGGCTGTCTGGACTGGTGTGTTGTCATTGGCCTGAT----------------------------------------------TCTTCAGAGGCACCAGTAGTCCTTCACCTTCTTGGACTCAGCCAGGCACCTGGAATGGATGGGGAAATGTTGCAAAATATAAAATCAGGACTAGAACAGGCAGTTGATCGCTGGGGCTCAACTGACTGgtgagtggatgatacaccggtcccttagtaaattgttagttaccttattt Alignment from Exonerate_protein2genome CTATTTGCTGCACATTTTCATGGAGGCG-GGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTC--AGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTG---CAAGCAGTGGACCGCTGGGCCTCTACAGACTG tgaccctcttcatattcttttggatcctgctgctatgccatctgggccagCTATTTGATTCACATTTACATG---GCTGGGCTGTCTGGACTGGTGTGTTGTCATTGGCCTGATTCTTCA---GAGGCACCAGTAGTCCTTCACCTTCTTGGACTCAGCCAGGCACCTGGAATGGATGGGGAAATGTTGCAAAATATAAAATCAGGACTAGAACAGGCAGTTGATCGCTGGGGCTCAACTGACTGgtgagtggatgatacaccggtcccttagtaaattgttagttaccttattt Alignment from Exonerate_coding2genome CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTG---CAAGCAGTGGACCGCTGGGCCTCTACAGACTG tgaccctcttcatattcttttggatcctgctgctatgccatctgggccagCTATTTGATTCACATTTACATG--GCTGGGCTGTCTGGACTGGTGTGTTGTCATTGGCCTGATTCTTCA-GAGGCACCAGTAGTCCTTCACCTTCTTGGACTCAGCCAGGCACCTGGAATGGATGGGGAAATGTTGCAAAATATAAAATCAGGACTAGAACAGGCAGTTGATCGCTGGGGCTCAACTGACTGgtgagtggatgatacaccggtcccttagtaaattgttagttaccttattt Alignment from GeneWise CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTG---CAAGCAGTGGACCGCTGGGCCTCTACAGACTG tgaccctcttcatattcttttggatcctgctgctatgccatctgggccagCTATTTGATTCACATTTACATGGCTG--GGCTGTCTGGACTGGTGTGTTGTCATTGGCCTGATTCTTCA-GAGGCACCAGTAGTCCTTCACCTTCTTGGACTCAGCCAGGCACCTGGAATGGATGGGGAAATGTTGCAAAATATAAAATCAGGACTAGAACAGGCAGTTGATCGCTGGGGCTCAACTGACTGgtgagtggatgatacaccggtcccttagtaaattgttagttaccttattt #### Cabp2_ID289_4 --> 2 - 1 Original Alignment agCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCC-TGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCa tcacccccttataacagctagggtggaatttttcattgtttttccattagagCTGCAGATAGGCTTCCAGGAGTTTGACCGAGACAGGGACGGCTACATCGGGTACCGAGAGCTGGGTGACCTGCATGCAGACACTGGGATACATGCCCACAG-GATGGCGCTCATAGAGATATCACAACAGGTTagtaattgtgattcttgtggccagtgcacatagccccctggcacatgggtg Alignment from CESAR agCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGT-GCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCa tcacccccttataacagctagggtggaatttttcattgtttttccattagagCTGCAGATAGGCTTCCAGGAGTTTGACCGAGACAGGGACGGCTACATCGGGTACCGAGAGCTGGGTGACCTGCATGCAGACACTGGGATACATGCCCACA-GGATGGCGCTCATAGAGATATCACAACAGGTTagtaattgtgattcttgtggccagtgcacatagccccctggcacatgggtg Alignment from Spaln_aa2Genome ATCGAAGAGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA ccttataacagctagggtggaatttttcattgtttttccatta gAGCTGCAGATAGGCTTCCAGGAGTTTGACCGAGACAGGGACGGCTACATCGGGTACCGAGAGCTGGGTGACCTGCATGCAGACACTGGGATACATGCCCACAGGATGGCGCTCATAGAGATATCACAACAGGTTAgtaattgtgattcttgtggccagtgcacatagccccctggcacatgggtg Alignment from Spaln_nt2Genome AGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTG-CCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAG tcacccccttataacagctagggtggaatttttcattgtttttccattagAGCTGCAGATAGGCTTCCAGGAGTTTGACCGAGACAGGGACGGCTACATCGGGTACCGAGAGCTGGGTGACCTGCATGCAGACACTGGGATACATGCCCACAG-GATGGCGCTCATAGAGATATCACAACAGgttagtaattgtgattcttgtggccagtgcacatagccccctggcacatgggtg Alignment from Pairagon AGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTG-CCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA tcacccccttataacagctagggtggaatttttcattgtttttccattagAGCTGCAGATAGGCTTCCAGGAGTTTGACCGAGACAGGGACGGCTACATCGGGTACCGAGAGCTGGGTGACCTGCATGCAGACACTGGGATACATGCCCACAG-GATGGCGCTCATAGAGATATCACAACAGGTTAgtaattgtgattcttgtggccagtgcacatagccccctggcacatgggtg Alignment from Exonerate_protein2genome AGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA tcacccccttataacagctagggtggaatttttcattgtttttccattagAGCTGCAGATAGGCTTCCAGGAGTTTGACCGAGACAGGGACGGCTACATCGGGTACCGAGAGCTGGGTGACCTGCATGCAGACACTGGGATACATGCCCACAGGATGGCGCTCATAGAGATATCACAACAGGTTAgtaattgtgattcttgtggccagtgcacatagccccctggcacatgggtg Alignment from Exonerate_coding2genome AGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA tcacccccttataacagctagggtggaatttttcattgtttttccattagAGCTGCAGATAGGCTTCCAGGAGTTTGACCGAGACAGGGACGGCTACATCGGGTACCGAGAGCTGGGTGACCTGCATGCAGACACTGGGATACATGCCCACAGGATGGCGCTCATAGAGATATCACAACAGGTTAgtaattgtgattcttgtggccagtgcacatagccccctggcacatgggtg Alignment from GeneWise CTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA tcacccccttataacagctagggtggaatttttcattgtttttccattagagCTGCAGATAGGCTTCCAGGAGTTTGACCGAGACAGGGACGGCTACATCGGGTACCGAGAGCTGGGTGACCTGCATGCAGACACTGGGATACATGCCCACAGGATGGCGCTCATAGAGATATCACAACAGGTTAgtaattgtgattcttgtggccagtgcacatagccccctggcacatgggtg #### Cabp2_ID290_5 --> 2 - 0 Original Alignment gtGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTG-GCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG caacaccctgcactaacctaagccctcaaagcctttttcttcctttgcaggtGGGGGGAAGGTTCACTTTGAAATCTTCATAGAGCTGATGGGTCCCAAGCTACTACGTAGAGACAGTGGGCATGATTGGGGAAAGAG-ACTTAAAGACACTTTTAGGGAGgtaagccttaggtgctgggtggcagtagcaattcagtgtgtttttggaca Alignment from CESAR gtGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTG-GCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG caacaccctgcactaacctaagccctcaaagcctttttcttcctttgcaggtGGGGGGAAGGTTCACTTTGAAATCTTCATAGAGCTGATGGGTCCCAAGCTACTACGTAGAGACAGTGGGCATGATTGGGGAAAGAG-ACTTAAAGACACTTTTAGGGAGgtaagccttaggtgctgggtggcagtagcaattcagtgtgtttttggaca Alignment from Spaln_aa2Genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG caacaccctgcactaacctaagccctcaaagcctttttcttcctttgcagGTGGGGGGAAGGTTCACTTTGAAATCTTCATAGAGCTGATGGGTCCCAAGCTACTACGTAGAGACAGTGGGCATGATTGGGGAAAGAGACTTAAAGACACTTTTAGGGAGgtaagccttaggtgctgggtggcagtagcaattcagtgtgtttttggaca Alignment from Spaln_nt2Genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTG-GCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG caacaccctgcactaacctaagccctcaaagcctttttcttcctttgcagGTGGGGGGAAGGTTCACTTTGAAATCTTCATAGAGCTGATGGGTCCCAAGCTACTACGTAGAGACAGTGGGCATGATTGGGGAAAGAGA-CTTAAAGACACTTTTAGGGAGgtaagccttaggtgctgggtggcagtagcaattcagtgtgtttttggaca Alignment from Pairagon GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTG-GCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG caacaccctgcactaacctaagccctcaaagcctttttcttcctttgcagGTGGGGGGAAGGTTCACTTTGAAATCTTCATAGAGCTGATGGGTCCCAAGCTACTACGTAGAGACAGTGGGCATGATTGGGGAAAGAGA-CTTAAAGACACTTTTAGGGAGgtaagccttaggtgctgggtggcagtagcaattcagtgtgtttttggaca Alignment from Exonerate_protein2genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG caacaccctgcactaacctaagccctcaaagcctttttcttcctttgcagGTGGGGGGAAGGTTCACTTTGAAATCTTCATAGAGCTGATGGGTCCCAAGCTACTACGTAGAGACAGTGGGCATGATTGGGGAAAGAGACTTAAAGACACTTTTAGGGAGgtaagccttaggtgctgggtggcagtagcaattcagtgtgtttttggaca Alignment from Exonerate_coding2genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG caacaccctgcactaacctaagccctcaaagcctttttcttcctttgcagGTGGGGGGAAGGTTCACTTTGAAATCTTCATAGAGCTGATGGGTCCCAAGCTACTACGTAGAGACAGTGGGCATGATTGGGGAAAGAGACTTAAAGACACTTTTAGGGAGgtaagccttaggtgctgggtggcagtagcaattcagtgtgtttttggaca Alignment from GeneWise GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG caacaccctgcactaacctaagccctcaaagcctttttcttcctttgcagGTGGGGGGAAGGTTCACTTTGAAATCTTCATAGAGCTGATGGGTCCCAAGCTACTACGTAGAGACAGTGGGCATGATTGGGGAAAGAGACTTAAAGACACTTTTAGGGAGgtaagccttaggtgctgggtggcagtagcaattcagtgtgtttttggaca #### Cabp2_ID291_6 --> 0 - 1 Original Alignment TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTC-AAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAg aactgaaccatagacaccatgactgaacatgtgccatctctgctgcccagTTTGACACTAATGGTGATGGCTGCATCAGTGTTGGAGAACTCCAAGCCGCACTTCAAAGCCCTGCTGGGTGTACATCTCAGTCAACAAG-AGTAGATGAAATACTCCAAGACATTGACCTAAATGGGGATGGCCTGGTTGACTTCGAAggtgagcctctacctgctctgtccctttaccttgtaagccatctcacacac Alignment from CESAR TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTC-AAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAg aactgaaccatagacaccatgactgaacatgtgccatctctgctgcccagTTTGACACTAATGGTGATGGCTGCATCAGTGTTGGAGAACTCCAAGCCGCACTTCAAAGCCCTGCTGGGTGTACATCTCAGTCAACAAG-AGTAGATGAAATACTCCAAGACATTGACCTAAATGGGGATGGCCTGGTTGACTTCGAAggtgagcctctacctgctctgtccctttaccttgtaagccatctcacacac Alignment from Spaln_aa2Genome TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAG aactgaaccatagacaccatgactgaacatgtgccatctctgctgcccagTTTGACACTAATGGTGATGGCTGCATCAGTGTTGGAGAACTCCAAGCCGCACTTCAAAGCCCTGCTGGGTGTACATCTCAGTCAACAAGAGTAGATGAAATACTCCAAGACATTGACCTAAATGGGGATGGCCTGGTTGACTTCGAAGgtgagcctctacctgctctgtccctttaccttgtaagccatctcacacac Alignment from Spaln_nt2Genome TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCT-CAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAG aactgaaccatagacaccatgactgaacatgtgccatctctgctgcccagTTTGACACTAATGGTGATGGCTGCATCAGTGTTGGAGAACTCCAAGCCGCACTTCAAAGCCCTGCTGGGTGTACATCTCAGTCAACAAG-AGTAGATGAAATACTCCAAGACATTGACCTAAATGGGGATGGCCTGGTTGACTTCGAAGgtgagcctctacctgctctgtccctttaccttgtaagccatctcacacac Alignment from Pairagon TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGC-CCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAG aactgaaccatagacaccatgactgaacatgtgccatctctgctgcccagTTTGACACTAATGGTGATGGCTGCATCAGTGTTGGAGAACTCCAAGCCGCACTTCAAAGCCCTGCTGGGTGTACATCTCAGTCAACAAG-AGTAGATGAAATACTCCAAGACATTGACCTAAATGGGGATGGCCTGGTTGACTTCGAAGgtgagcctctacctgctctgtccctttaccttgtaagccatctcacacac Alignment from Exonerate_protein2genome TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAG aactgaaccatagacaccatgactgaacatgtgccatctctgctgcccagTTTGACACTAATGGTGATGGCTGCATCAGTGTTGGAGAACTCCAAGCCGCACTTCAAAGCCCTGCTGGGTGTACATCTCAGTCAACAAGAGTAGATGAAATACTCCAAGACATTGACCTAAATGGGGATGGCCTGGTTGACTTCGAAGgtgagcctctacctgctctgtccctttaccttgtaagccatctcacacac Alignment from Exonerate_coding2genome TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAA aactgaaccatagacaccatgactgaacatgtgccatctctgctgcccagTTTGACACTAATGGTGATGGCTGCATCAGTGTTGGAGAACTCCAAGCCGCACTTCAAAGCCCTGCTGGGTGTACATCTCAGTCAACAAGAGTAGATGAAATACTCCAAGACATTGACCTAAATGGGGATGGCCTGGTTGACTTCGAAggtgagcctctacctgctctgtccctttaccttgtaagccatctcacacac Alignment from GeneWise TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAA---GAATTTGTTCGGATGATGTCTCGG aactgaaccatagacaccatgactgaacatgtgccatctctgctgcccagTTTGACACTAATGGTGATGGCTGCATCAGTGTTGGAGAACTCCAAGCCGCACTTCAAAGCCCTGCTGGGTGTACATCTCAGTCAACAAGAGTAGATGAAATACTCCAAGACATTGACCTAAATGGGGATGGCCTGGTTGACTTCGAAGGTGAGCCTCTACCTGCTCTGTCCCTTtaccttgtaagccatctcacacac #### Capn1_ID1359_17 --> 0 - 0 Original Alignment CGAGATGGCAAC-GGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG tgatgatgaatgctgaagccaaagtattatttttctttattctctgacagCGAGATGGAAATCGGGAAGTTAGGGCTGGTGGTATTCAATATCCTATGGAACC-TATCCGTAATTATCTGgtaggcgatgagatattctctgccatgttccttgggagcccagagcccaa Alignment from CESAR CGAGATGGCAAC-GGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG tgatgatgaatgctgaagccaaagtattatttttctttattctctgacagCGAGATGGAAATCGGGAAGTTAGGGCTGGTGGTATTCAATATCCTATGGAAC-CTATCCGTAATTATCTGgtaggcgatgagatattctctgccatgttccttgggagcccagagcccaa Alignment from Spaln_aa2Genome CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG tgatgatgaatgctgaagccaaagtattatttttctttattctctgacagcgagATGGAA---ATCGGGAAGTTAGGGCTGGTGGTATTCAATATCCTATGGAACCT-ATCCGTAATTATCTGgtaggcgatgagatattctctgccatgttccttgggagcccagagcccaa Alignment from Spaln_nt2Genome CGAGATGGCAA-CGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG tgatgatgaatgctgaagccaaagtattatttttctttattctctgacagCGAGATGGAAATCGGGAAGTTAGGGCTGGTGGTATTCAATATCCTATGGAACC-TATCCGTAATTATCTGgtaggcgatgagatattctctgccatgttccttgggagcccagagcccaa Alignment from Pairagon CGAGATGGCAA-CGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG tgatgatgaatgctgaagccaaagtattatttttctttattctctgacagCGAGATGGAAATCGGGAAGTTAGGGCTGGTGGTATTCAATATCCTATGGAACC-TATCCGTAATTATCTGgtaggcgatgagatattctctgccatgttccttgggagcccagagcccaa Alignment from Exonerate_protein2genome CGAGATGGCAAC-GGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAAC--CGCATCCGAAATTACCTG tgatgatgaatgctgaagccaaagtattatttttctttattctctgacagCGAGATGGAAATCGGGAAGTTAGGGCTGGTGGTATTCAATATCCTATGGAACCT---ATCCGTAATTATCTGgtaggcgatgagatattctctgccatgttccttgggagcccagagcccaa Alignment from Exonerate_coding2genome tgatgatgaatgctgaagccaaagtattatttttctttattctctgacagcgagatggaaatcgggaagttagggctggtggtattcaatatcctatggaacctatccgtaattatctggtaggcgatgagatattctctgccatgttccttgggagcccagagcccaa Alignment from GeneWise CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG tgatgatgaatgctgaagccaaagtattatttttctttattctctgacagcgagATGGAA---ATCGGGAAGTTAGGGCTGGTGGTATTCAATATCCTATGGAACCT-ATCCGTAATTATCTGgtaggcgatgagatattctctgccatgttccttgggagcccagagcccaa #### Capn1_ID1369_7 --> 0 - 2 Original Alignment GTAACTTACCAGGGC-CAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACag aggggagtgtgttctgtctctggtgcaaaaacagtctctgctattttcagGTAACCTATCAGGGCCCCGCGAGTGAACATTATTCGTATGTGGAATTCCTGGGGTC-AGTTGAGTGGAGAGGTCCTTGGAGTGACaggtaagcgaatgtaagcactttcatggagatggttttatgatcagactcct Alignment from CESAR GTAACTTACCAGGGCCAG-CGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACag aggggagtgtgttctgtctctggtgcaaaaacagtctctgctattttcagGTAACCTATCAGGGCCCCGCGAGTGAACATTATTCGTATGTGGAATTCCTGGGGTC-AGTTGAGTGGAGAGGTCCTTGGAGTGACaggtaagcgaatgtaagcactttcatggagatggttttatgatcagactcct Alignment from Spaln_aa2Genome GTAACTTACCAGGGC-CAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG aggggagtgtgttctgtctctggtgcaaaaacagtctctgctattttcagGTAACCTATCAGGGCcCCGCGAGTGAACATTATTCGTATGTGGAATTCCTGGGGTCA-GTTGAGTGGAGAGGTCCTTGGAGTGACAGgtaagcgaatgtaagcactttcatggagatggttttatgatcagactcct Alignment from Spaln_nt2Genome GTAACTTACCAGGGCCA-GCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG aggggagtgtgttctgtctctggtgcaaaaacagtctctgctattttcagGTAACCTATCAGGGCCCCGCGAGTGAACATTATTCGTATGTGGAATTCCTGGGGT-CAGTTGAGTGGAGAGGTCCTTGGAGTGACAGgtaagcgaatgtaagcactttcatggagatggttttatgatcagactcct Alignment from Pairagon GTAACTTACCAGGG-CCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG aggggagtgtgttctgtctctggtgcaaaaacagtctctgctattttcagGTAACCTATCAGGGCCCCGCGAGTGAACATTATTCGTATGTGGAATTCCTGGGGT-CAGTTGAGTGGAGAGGTCCTTGGAGTGACAGgtaagcgaatgtaagcactttcatggagatggttttatgatcagactcct Alignment from Exonerate_protein2genome GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG aggggagtgtgttctgtctctggtgcaaaaacagtctctgctattttcagGTAACCTATCAGGGCCCCGCGAGTGAACATTATTCGTATGTGGAATTCCTGGGGTCAGTTGAGTGGAGAGGTCCTTGGAGTGACAGgtaagcgaatgtaagcactttcatggagatggttttatgatcagactcct Alignment from Exonerate_coding2genome aggggagtgtgttctgtctctggtgcaaaaacagtctctgctattttcaggtaacctatcagggccccgcgagtgaacattattcgtatgtggaattcctggggtcagttgagtggagaggtccttggagtgacaggtaagcgaatgtaagcactttcatggagatggttttatgatcagactcct Alignment from GeneWise GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG aggggagtgtgttctgtctctggtgcaaaaacagtctctgctattttcagGTAACCTATCAGGGCCCCGCGAGTGAACATTATTCGTATGTGGAATTCCTGGGGTCAGTTGAGTGGAGAGGTCCTTGGAGTGACAGgtaagcgaatgtaagcactttcatggagatggttttatgatcagactcct #### Capn1_ID1376_2 --> 0 - 1 Original Alignment GAACTGATGTCAAAC-CCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGg ggcagatcaagcgtggctggggcccatgtttcttggttccttcctttcagGAATTGATGTCAAATCCCCCAATTCATTGTAGACGGAGCCACCCGAA-AGACATCTGCCAAGGAGCACTAggtaagtaaatacctctaggcatgggctgctgtgtgacttgagctctgttt Alignment from CESAR GAACTGATGTCAAACCCC-CAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGg ggcagatcaagcgtggctggggcccatgtttcttggttccttcctttcagGAATTGATGTCAAATCCCCCAATTCATTGTAGACGGAGCCACCCGA-AAGACATCTGCCAAGGAGCACTAggtaagtaaatacctctaggcatgggctgctgtgtgacttgagctctgttt Alignment from Spaln_aa2Genome GAACTGATGTCAAACCCC-CAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG ggcagatcaagcgtggctggggcccatgtttcttggttccttcctttcagGAATTGATGTCAAATCCCcCAATTCATTGTAGACGGAGCCACCCGAAA-GACATCTGCCAAGGAGCACTAGgtaagtaaatacctctaggcatgggctgctgtgtgacttgagctctgttt Alignment from Spaln_nt2Genome GAACTGATGTCAAA-CCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG ggcagatcaagcgtggctggggcccatgtttcttggttccttcctttcagGAATTGATGTCAAATCCCCCAATTCATTGTAGACGGAGCCACCCGA-AAGACATCTGCCAAGGAGCACTAGgtaagtaaatacctctaggcatgggctgctgtgtgacttgagctctgttt Alignment from Pairagon GAACTGATGTCAAA-CCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG ggcagatcaagcgtggctggggcccatgtttcttggttccttcctttcagGAATTGATGTCAAATCCCCCAATTCATTGTAGACGGAGCCACCCGAA-AGACATCTGCCAAGGAGCACTAGgtaagtaaatacctctaggcatgggctgctgtgtgacttgagctctgttt Alignment from Exonerate_protein2genome GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG ggcagatcaagcgtggctggggcccatgtttcttggttccttcctttcagGAATTGATGTCAAATCCCCCAATTCATTGTAGACGGAGCCACCCGAAAGACATCTGCCAAGGAGCACTAGgtaagtaaatacctctaggcatgggctgctgtgtgacttgagctctgttt Alignment from Exonerate_coding2genome GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG ggcagatcaagcgtggctggggcccatgtttcttggttccttcctttcagGAATTGATGTCAAATCCCCCAATTCATTGTAGACGGAGCCACCCGAAAGACATCTGCCAAGGAGCACTAGgtaagtaaatacctctaggcatgggctgctgtgtgacttgagctctgttt Alignment from GeneWise GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG ggcagatcaagcgtggctggggcccatgtttcttggttccttcctttcagGAATTGATGTCAAATCCCCCAATTCATTGTAGACGGAGCCACCCGAAAGACATCTGCCAAGGAGCACTAGgtaagtaaatacctctaggcatgggctgctgtgtgacttgagctctgttt #### Carns1_ID387_5 --> 0 - 1 Original Alignment GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGA-CAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAg tctaccatcgagtggtaattttgtaaagctccctttgtttctgcctgtagGTGGCAGCAAGACTCAGTGGCTGCCATTGGCATGGTCCAGCAGGCATTGCCTTTACATCTGCAGG-AAAGCCATCCACAGTAGTGATGATGGTACTAGGATTATTGAAAAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTGCCCTTGCCAggtaaaatttaatgttgactcgcaagcccaaacggccttaatgagatgcat Alignment from CESAR GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGA-CAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAg tctaccatcgagtggtaattttgtaaagctccctttgtttctgcctgtagGTGGCAGCAAGACTCAGTGGCTGCCATTGGCATGGTCCAGCAGGCATTGCCTTTACATCTGCAG-GAAAGCCATCCACAGTAGTGATGATGGTACTAGGATTATTGAAAAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTGCCCTTGCCAggtaaaatttaatgttgactcgcaagcccaaacggccttaatgagatgcat Alignment from Spaln_aa2Genome GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG tctaccatcgagtggtaattttgtaaagctccctttgtttctgcctgtagGTGGCAGCAAGACTCAGTGGCTGCCATTGGCATGGTCCAGCAGGCATTGCCTTTACATCTGCAGGAAAGCCATCCACAGTAGTGATGATGGTACTAGGATTATTGAAAAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTGCCCTTGCCAGgtaaaatttaatgttgactcgcaagcccaaacggccttaatgagatgcat Alignment from Spaln_nt2Genome GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGAC-AGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG tctaccatcgagtggtaattttgtaaagctccctttgtttctgcctgtagGTGGCAGCAAGACTCAGTGGCTGCCATTGGCATGGTCCAGCAGGCATTGCCTTTACATCTGCAGG-AAAGCCATCCACAGTAGTGATGATGGTACTAGGATTATTGAAAAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTGCCCTTGCCAGgtaaaatttaatgttgactcgcaagcccaaacggccttaatgagatgcat Alignment from Pairagon GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGG-ACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG tctaccatcgagtggtaattttgtaaagctccctttgtttctgcctgtagGTGGCAGCAAGACTCAGTGGCTGCCATTGGCATGGTCCAGCAGGCATTGCCTTTACATCTGCAGG-AAAGCCATCCACAGTAGTGATGATGGTACTAGGATTATTGAAAAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTGCCCTTGCCAGgtaaaatttaatgttgactcgcaagcccaaacggccttaatgagatgcat Alignment from Exonerate_protein2genome GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG tctaccatcgagtggtaattttgtaaagctccctttgtttctgcctgtagGTGGCAGCAAGACTCAGTGGCTGCCATTGGCATGGTCCAGCAGGCATTGCCTTTACATCTGCAGGAAAGCCATCCACAGTAGTGATGATGGTACTAGGATTATTGAAAAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTGCCCTTGCCAGgtaaaatttaatgttgactcgcaagcccaaacggccttaatgagatgcat Alignment from Exonerate_coding2genome GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG tctaccatcgagtggtaattttgtaaagctccctttgtttctgcctgtagGTGGCAGCAAGACTCAGTGGCTGCCATTGGCATGGTCCAGCAGGCATTGCCTTTACATCTGCAGGAAAGCCATCCACAGTAGTGATGATGGTACTAGGATTATTGAAAAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTGCCCTTGCCAGgtaaaatttaatgttgactcgcaagcccaaacggccttaatgagatgcat Alignment from GeneWise GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG tctaccatcgagtggtaattttgtaaagctccctttgtttctgcctgtagGTGGCAGCAAGACTCAGTGGCTGCCATTGGCATGGTCCAGCAGGCATTGCCTTTACATCTGCAGGAAAGCCATCCACAGTAGTGATGATGGTACTAGGATTATTGAAAAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTGCCCTTGCCAGgtaaaatttaatgttgactcgcaagcccaaacggccttaatgagatgcat #### Carns1_ID388_4 --> 2 - 0 Original Alignment gaAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGG-CCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG cgtgttgtcaatttcattgccttgcctgcatgacaagcccttctccctaggaAATATGCTCCTCTGCCTGTCT---GCCTGGTTAATGAAAGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTACTGGTTTCTCAAGTTGTGAGTTTCTATCCAGGTGGTTTGACGTTCCTGGATGACTTTGTTCCACCTCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGC-GGCCCGAAATCTTACTTGCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCCTCACGGgtacctatacatctctgcatgtattcctaaatgtgtatgccctttcatgt Alignment from CESAR gaAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGG-CCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG cgtgttgtcaatttcattgccttgcctgcatgacaagcccttctccctaggaAATATGCTCCTCTGCCTGTCT---GCCTGGTTAATGAAAGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTACTGGTTTCTCAAGTTGTGAGTTTCTATCCAGGTGGTTTGACGTTCCTGGATGACTTTGTTCCACCTCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAG-CGGCCCGAAATCTTACTTGCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCCTCACGGgtacctatacatctctgcatgtattcctaaatgtgtatgccctttcatgt Alignment from Spaln_aa2Genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG cgtgttgtcaatttcattgccttgcctgcatgacaagcccttctccctagGAAATATGCTCCTCTGCCTGTCT---GCCTGGTTAATGAAAGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTACTGGTTTCTCAAGTTGTGAGTTTCTATCCAGGTGGTTTGACGTTCCTGGATGACTTTGTTCCACCTCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCGGCCCGAAATCTTACTTGCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCCTCACGGgtacctatacatctctgcatgtattcctaaatgtgtatgccctttcatgt Alignment from Spaln_nt2Genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCT-GGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG cgtgttgtcaatttcattgccttgcctgcatgacaagcccttctccctagGAAATATGCTCCTCTGCCTGT---CTGCCTGGTTAATGAAAGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTACTGGTTTCTCAAGTTGTGAGTTTCTATCCAGGTGGTTTGACGTTCCTGGATGACTTTGTTCCACCTCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGC-GGCCCGAAATCTTACTTGCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCCTCACGGgtacctatacatctctgcatgtattcctaaatgtgtatgccctttcatgt Alignment from Pairagon GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGG-CCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG cgtgttgtcaatttcattgccttgcctgcatgacaagcccttctccctagGAAATATGCTCCTCTGCCTGT---CTGCCTGGTTAATGAAAGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTACTGGTTTCTCAAGTTGTGAGTTTCTATCCAGGTGGTTTGACGTTCCTGGATGACTTTGTTCCACCTCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGC-GGCCCGAAATCTTACTTGCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCCTCACGGgtacctatacatctctgcatgtattcctaaatgtgtatgccctttcatgt Alignment from Exonerate_protein2genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG cgtgttgtcaatttcattgccttgcctgcatgacaagcccttctccctagGAAATATGCTCCTCTGCCTGTCT---GCCTGGTTAATGAAAGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTACTGGTTTCTCAAGTTGTGAGTTTCTATCCAGGTGGTTTGACGTTCCTGGATGACTTTGTTCCACCTCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCGGCCCGAAATCTTACTTGCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCCTCACGGgtacctatacatctctgcatgtattcctaaatgtgtatgccctttcatgt Alignment from Exonerate_coding2genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG cgtgttgtcaatttcattgccttgcctgcatgacaagcccttctccctagGAAATATGCTCCTCTGCCTGTCT---GCCTGGTTAATGAAAGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTACTGGTTTCTCAAGTTGTGAGTTTCTATCCAGGTGGTTTGACGTTCCTGGATGACTTTGTTCCACCTCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCGGCCCGAAATCTTACTTGCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCCTCACGGgtacctatacatctctgcatgtattcctaaatgtgtatgccctttcatgt Alignment from GeneWise GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG cgtgttgtcaatttcattgccttgcctgcatgacaagcccttctccctagGAAATATGCTCCTCTGCCTGTCT---GCCTGGTTAATGAAAGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTACTGGTTTCTCAAGTTGTGAGTTTCTATCCAGGTGGTTTGACGTTCCTGGATGACTTTGTTCCACCTCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCGGCCCGAAATCTTACTTGCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCCTCACGGgtacctatacatctctgcatgtattcctaaatgtgtatgccctttcatgt #### Carns1_ID389_3 --> 2 - 1 Original Alignment gcTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGT-TCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTg gcaaggagtaacaatatggaggatatgatcagttccacttccttccccaggcTTCCCTGGGGCAGAAGTCACCTTGTGTGTTCTAGGGCTCACTCAGCACCTTCCTATCACTGTTGCTGGAGGGTG-GGTCCAAAGCCCTggtgtgatattgcttccaaatgcccccttgtcctacaaaattggaacatgg Alignment from CESAR gcTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTG-GGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTg gcaaggagtaacaatatggaggatatgatcagttccacttccttccccaggcTTCCCTGGGGCAGAAGTCACCTTGTGTGTTCTAGGGCTCACTCAGCACCTTCCTATCACTGTTGCTGGAGGGTG-GGTCCAAAGCCCTggtgtgatattgcttccaaatgcccccttgtcctacaaaattggaacatgg Alignment from Spaln_aa2Genome GCTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGT-TCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGG gcaaggagtaacaatatggaggatatgatcagttccacttccttccccagGCTTCCCTGGGGCAGAAGTCACCTTGTGTGTTCTAGGGcTCACTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGgtccaaagccctggtgtgatattgcttccaaatgcccccttgtcctacaaaattggaacatgg Alignment from Spaln_nt2Genome GCTGCCCTGGGGCAGAGGTGACCTTGTGCATTCT-GGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG gcaaggagtaacaatatggaggatatgatcagttccacttccttccccagGCTTCCCTGGGGCAGAAGTCACCTTGTGTGTTCTAGGGCTCACTCAGCACCTTCCTATCACTGTTGCTGGAGGGT-GGGTCCAAAGCCCTGgtgtgatattgcttccaaatgcccccttgtcctacaaaattggaacatgg Alignment from Pairagon GCTGCCCTGGGGCAGAGGTGACCTTGTGCATTCT-GGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG gcaaggagtaacaatatggaggatatgatcagttccacttccttccccagGCTTCCCTGGGGCAGAAGTCACCTTGTGTGTTCTAGGGCTCACTCAGCACCTTCCTATCACTGTTGCTGGAGGGT-GGGTCCAAAGCCCTGgtgtgatattgcttccaaatgcccccttgtcctacaaaattggaacatgg Alignment from Exonerate_protein2genome GCTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG gcaaggagtaacaatatggaggatatgatcagttccacttccttccccagGCTTCCCTGGGGCAGAAGTCACCTTGTGTGTTCTAGGGCTCACTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGTCCAAAGCCCTGgtgtgatattgcttccaaatgcccccttgtcctacaaaattggaacatgg Alignment from Exonerate_coding2genome GCTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG gcaaggagtaacaatatggaggatatgatcagttccacttccttccccagGCTTCCCTGGGGCAGAAGTCACCTTGTGTGTTCTAGGGCTCACTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGTCCAAAGCCCTGgtgtgatattgcttccaaatgcccccttgtcctacaaaattggaacatgg Alignment from GeneWise GCTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCT- gcaaggagtaacaatatggaggatatgatcagttccacttccttccccagGCTTCCCTGGGGCAGAAGTCACCTTGTGTGTTCTAGGGCTCACTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGTCCAAAGCCCTGgtgtgatattgcttccaaatgcccccttgtcctacaaaattggaacatgg #### Catsper1_ID926_3 --> 2 - 1 Original Alignment aaTGGTACTTCATGGTCTTGGAC-TCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGg gcggtgtagccccagcctgtcccactgttaaacttacttttttctttcagaaTGGTACTTCATGATCCTAGACCTCCATCTTCCTCACCATCTTTGTACTAGAGGCAGTC---A-ACTTATTGCTTTGGGCTTAGAGTATTTCTATGACCCGTCAAATAATCTGggtaagacaatacagctggttcataatggagtatttctatgacctatcaaa Alignment from CESAR aaTGGTACTTCATGGTCTTGGAC-TCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGg gcggtgtagccccagcctgtcccactgttaaacttacttttttctttcagaaTGGTACTTCATGATCCTAGACCTCCATCTTCCTCACCATCTTTGTACTAGAGGCAGTC----AACTTATTGCTTTGGGCTTAGAGTATTTCTATGACCCGTCAAATAATCTGggtaagacaatacagctggttcataatggagtatttctatgacctatcaaa Alignment from Spaln_aa2Genome AATGGTACTTCATGGTCTTGGAC-TCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG gcggtgtagccccagcctgtcccactgttaaacttacttttttctttcagAATGGTACTTCATGATCCTAGACcTCCATCTTCCTCACCATCTTTGTACTAGAGGCAGTCAA----CTTATTGCTTTGGGCTTAGAGTATTTCTATGACCCGTCAAATAATCTGGgtaagacaatacagctggttcataatggagtatttctatgacctatcaaa Alignment from Spaln_nt2Genome AATGGTACTTCATGGTCTTGGAC-TCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG gcggtgtagccccagcctgtcccactgttaaacttacttttttctttcagAATGGTACTTCATGATCCTAGACCTCCATCTTCCTCACCATCTTTGTACTAGAGGCAGTC----AACTTATTGCTTTGGGCTTAGAGTATTTCTATGACCCGTCAAATAATCTGGgtaagacaatacagctggttcataatggagtatttctatgacctatcaaa Alignment from Pairagon AATGGTACTTCATGGTCTTGGA-CTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG gcggtgtagccccagcctgtcccactgttaaacttacttttttctttcagAATGGTACTTCATGATCCTAGACCTCCATCTTCCTCACCATCTTTGTACTAGAGGCAGTC----AACTTATTGCTTTGGGCTTAGAGTATTTCTATGACCCGTCAAATAATCTGGgtaagacaatacagctggttcataatggagtatttctatgacctatcaaa Alignment from Exonerate_protein2genome AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG gcggtgtagccccagcctgtcccactgttaaacttacttttttctttcagAATGGTACTTCATGATCCTAGAC---CTCCATCTTCCTCACCATCTTTGTACTAGAGGCAGTCAACTTATTGCTTTGGGCTTAGAGTATTTCTATGACCCGTCAAATAATCTGGgtaagacaatacagctggttcataatggagtatttctatgacctatcaaa Alignment from Exonerate_coding2genome AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG gcggtgtagccccagcctgtcccactgttaaacttacttttttctttcagAATGGTACTTCATGATCCTAGAC---CTCCATCTTCCTCACCATCTTTGTACTAGAGGCAGTCAACTTATTGCTTTGGGCTTAGAGTATTTCTATGACCCGTCAAATAATCTGGgtaagacaatacagctggttcataatggagtatttctatgacctatcaaa Alignment from GeneWise AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG gcggtgtagccccagcctgtcccactgttaaacttacttttttctttcagAATGGTACTTCATGATCCTAGAC---CTCCATCTTCCTCACCATCTTTGTACTAGAGGCAGTCAACTTATTGCTTTGGGCTTAGAGTATTTCTATGACCCGTCAAATAATCTGGgtaagacaatacagctggttcataatggagtatttctatgacctatcaaa #### Catsper1_ID928_5 --> 1 - 1 Original Alignment cATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGT-GGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTACCTGCCTCt ccatttgcttcaatgataacttaactttgatgtctttatctcccacctagtATTTTGACTAGAGTCCAGGAAGTAGCT---GCCCTTAGTCGGATCTTTACCCTCAATCACAGCCATCCTCA-CCTCATGTTTACCTGCCACtgtaagatgcacaatggaagttggatacaattattctaaataggttaggtg Alignment from CESAR cATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGT-GGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTACCTGCCTCt ccatttgcttcaatgataacttaactttgatgtctttatctcccacctagtATTTTGACTAGAGTCCAGGAAGTAGCT---GCCCTTAGTCGGATCTTTACCCTCAATCACAGCCATCCTCA-CCTCATGTTTACCTGCCACtgtaagatgcacaatggaagttggatacaattattctaaataggttaggtg Alignment from Spaln_aa2Genome CATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGTGGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTACCTGCCTCT ccatttgcttcaatgataacttaactttgatgtctttatctcccacctagTATTTTGACTAGAGTCCAGGAAGTAGCTG--CCCTTAGTCGGATCTTTACCCTCAATCACAGCCATCCTCAC-CTCATGTTTACCTGCCACTgtaagatgcacaatggaagttggatacaattattctaaataggttaggtg Alignment from Spaln_nt2Genome CATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGT-GGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTACCTGCCTCT ccatttgcttcaatgataacttaactttgatgtctttatctcccacctagTATTTTGACTAGAGTCCAGGAAGTAGCTG---CCCTTAGTCGGATCTTTACCCTCAATCACAGCCATCCTCA-CCTCATGTTTACCTGCCACTgtaagatgcacaatggaagttggatacaattattctaaataggttaggtg Alignment from Pairagon CATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGT-GGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTACCTGCCTCT ccatttgcttcaatgataacttaactttgatgtctttatctcccacctagTATTTTGACTAGAGTCCAGGAAGTAGCTG---CCCTTAGTCGGATCTTTACCCTCAATCACAGCCATCCTCA-CCTCATGTTTACCTGCCACTgtaagatgcacaatggaagttggatacaattattctaaataggttaggtg Alignment from Exonerate_protein2genome CATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGT-GGATCTTTACCATCCATCACGGCCATC ccatttgcttcaatgataacttaactttgatgtctttatctcccacctagTATTTTGACTAGAGTCCAGGAAGTAGCT---GCCCTTAGTCGGATCTTTACCCTCAATCACAGCCATCctcacctcatgtttacctgccactgtaagatgcacaatggaagttggatacaattattctaaataggttaggtg Alignment from Exonerate_coding2genome CATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGTGGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTACCTGCCTCT ccatttgcttcaatgataacttaactttgatgtctttatctcccacctagTATTTTGACTAGAGTCCAGGAAGTAGCTGCCCTT--AGTCGGATCTTTACCCTCAATCACAGCCATCCTCAC-CTCATGTTTACCTGCCACTgtaagatgcacaatggaagttggatacaattattctaaataggttaggtg Alignment from GeneWise CATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGTGGATCTTTACCATCCATCACGGCCATCCTCACCCTCATG------------ ccatttgcttcaatgataacttaactttgatgtctttatctcccacctagTATTTTGACTAGAGTCCAGGAAGTAGCTGCCC--TTAGTCGGATCTTTACCCTCAATCACAGCCATCCTCACCTCATGTTTACCTGCCACTgtaagatgcacaatggaagttggatacaattattctaaataggttaggtg #### Catsper1_ID929_6 --> 2 - 1 Original Alignment tcCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAAC-ATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAg gcGCCT ttggactttcccttcgctatgttagatgttctttttttttctctctctagtcCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATCCAGATCCCAAGCGTTTCCAGAATCGTCTTTACAACACTCTTCACCCTTTTCATGATGC-TAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAAGGCCCAGggtgagatagcctaagtctccagccttcaatgctttattttctagctGCCT Alignment from CESAR tcCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAAC-ATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAg gcGCCT ttggactttcccttcgctatgttagatgttctttttttttctctctctagtcCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATCCAGATCCCAAGCGTTTCCAGAATCGTCTTTACAACACTCTTCACCCTTTTCATGATGCTAG-CCTGGATGACTGGTCCCTTATCTACATAGAGAACAAGGCCCAGggtgagatagcctaagtctccaggccaatgtctcttgcttttcagctGCCT Alignment from Spaln_aa2Genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGCCT ttggactttcccttcgctatgttagatgttctttttttttctctctctagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATCCAGATCCCAAGCGTTTCCAGAATCGTCTTTACAACACTCTTCACCCTTTTCATGATGCTAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAAGGCCCAGGgtgagatagcctaagtctccagccttcaatgctttattttctagCTGCCT Alignment from Spaln_nt2Genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAA-CATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGCCT ttggactttcccttcgctatgttagatgttctttttttttctctctctagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATCCAGATCCCAAGCGTTTCCAGAATCGTCTTTACAACACTCTTCACCCTTTTCATGATGCT-AGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAAGGCCCAGGgtgagatagcctaagtctccagccttcaatgctttattttctagCTGCCT Alignment from Pairagon TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAA-CATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGCCT ttggactttcccttcgctatgttagatgttctttttttttctctctctagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATCCAGATCCCAAGCGTTTCCAGAATCGTCTTTACAACACTCTTCACCCTTTTCATGATGCT-AGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAAGGCCCAGGgtgagatagcctaagtctccagccttcaatgctttattttctagCTGCCT Alignment from Exonerate_protein2genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGCCT ttggactttcccttcgctatgttagatgttctttttttttctctctctagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATCCAGATCCCAAGCGTTTCCAGAATCGTCTTTACAACACTCTTCACCCTTTTCATGATGCTAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAAGGCCCAGGgtgagatagcctaagtctccagccttcaatgctttattttctagCTGCCT Alignment from Exonerate_coding2genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGCCT ttggactttcccttcgctatgttagatgttctttttttttctctctctagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATCCAGATCCCAAGCGTTTCCAGAATCGTCTTTACAACACTCTTCACCCTTTTCATGATGCTAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAAGGCCCAGGgtgagatagcctaagtctccagccttcaatgctttattttctagCTGCCT Alignment from GeneWise TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGCCT ttggactttcccttcgctatgttagatgttctttttttttctctctctagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATCCAGATCCCAAGCGTTTCCAGAATCGTCTTTACAACACTCTTCACCCTTTTCATGATGCTAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAAGGCCCAGGgtgagatagcctaagtctccagccttcaatgctttattttctagCTGCCT #### Catsper1_ID931_8 --> 1 - 0 Original Alignment cCTGGTGATTGCT-GTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG atcctcattcctaagccccatttatgcaattgtgttgcctgtcattacagtCTAGTAATTGCACGCTCTAGTAGACAACTTCCTAATGGTCCTGCTCAAAGGCCTGG-GAAAGTGAAGCTGGAAgtacttacgatgtagaagggtagataatccagatgtgctgtgcaaaggtg Alignment from CESAR cCTGGTGATTGCT-GTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG atcctcattcctaagccccatttatgcaattgtgttgcctgtcattacagtCTAGTAATTGCACGCTCTAGTAGACAACTTCCTAATGGTCCTGCTCAAAGGCCTG-GGAAAGTGAAGCTGGAAgtacttacgatgtagaagggtagataatccagatgtgctgtgcaaaggtg Alignment from Spaln_aa2Genome CCTGGTGATTGCT-GTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAG GCC atcctcattcctaagccccatttatgcaattgtgttgcctgtcattacagTCTAGTAATTGCAcGCTCTAGTAGACAACTTCCTAATGGTCCTGCTCAAAGgcctgggaaagtgaagctggaagtacttacgatgtagaagggtagataatccagatgtgctgtgcaaagGTG Alignment from Spaln_nt2Genome CCTGGTGATTGCTGTC-CTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG atcctcattcctaagccccatttatgcaattgtgttgcctgtcattacagTCTAGTAATTGCACGCTCTAGTAGACAACTTCCTAATGGTCCTGCTCAAAGGCCT-GGGAAAGTGAAGCTGGAAgtacttacgatgtagaagggtagataatccagatgtgctgtgcaaaggtg Alignment from Pairagon CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG atcctcattcctaagccccatttatgcaattgtgttgcctgtcattacagtctagtaattgcacgctctag--------------------TAGACAACTTCCTAATGGTCCTGCTCAAAGGCCT-GGGAAAGTGAAGCTGGAAgtacttacgatgtagaagggtagataatccagatgtgctgtgcaaaggtg Alignment from Exonerate_protein2genome CCTGGTGATTGCT-GTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAG atcctcattcctaagccccatttatgcaattgtgttgcctgtcattacagTCTAGTAATTGCACGCTCTAGTAGACAACTTCCTAATGGTCCTGCTCAAAGGCCTGGgaaagtgaagctggaagtacttacgatgtagaagggtagataatccagatgtgctgtgcaaaggtg Alignment from Exonerate_coding2genome CCTGGTGATTGCT-GTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAG atcctcattcctaagccccatttatgcaattgtgttgcctgtcattacagTCTAGTAATTGCACGCTCTAGTAGACAACTTCCTAATGGTCCTGCTCAAAGGCCTGGgaaagtgaagctggaagtacttacgatgtagaagggtagataatccagatgtgctgtgcaaaggtg Alignment from GeneWise CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG atcctcattcctaagccccatttatgcaattgtgttgcctgtcattacagTCTAGTAATTGCACGCTCTAGTAGACAACTTCCTAATGGTCCTGCTCAAAGGCCTGGGAAAGTGAAGCTGGAAgtacttacgatgtagaagggtagataatccagatgtgctgtgcaaaggtg #### Ccdc88b_ID1824_25 --> 2 - 1 Original Alignment ggTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGAC-ACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAg tgtcatgatgacctgcctgatccatacactgccagcctcctcccttctagggTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCCGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTATTGGACGAAGTCCAGCTTCATTCAGTCCCAGC---CACCTCACAGCAATGGTTCAAACAGCAGAGGC-AGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAggtaataggtgttttactataatttcaatttcgatagttttaagttgtcaa Alignment from CESAR ggTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAg tgtcatgatgacctgcctgatccatacactgccagcctcctcccttctagggTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCCGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTATTGGACGAAGTCCAGCTTCATTCAGTCCCAGC--CACCTCACAGCAATGGTTCAAACAGCAGAGG-CAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAggtaataggtgttttactataatttcaatttcgatagttttaagttgtcaa Alignment from Spaln_aa2Genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG tgtcatgatgacctgcctgatccatacactgccagcctcctcccttctagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCCGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTATTGGACGAAGTCCAGCTTCATTCAGTCCCAGCCACCTCACA---GCAATGGTTCAAACAGCAGAGGCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtaataggtgttttactataatttcaatttcgatagttttaagttgtcaa Alignment from Spaln_nt2Genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG tgtcatgatgacctgcctgatccatacactgccagcctcctcccttctagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCCGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTATTGGACGAAGTCCAGCTTCATTCAGTCC--CAGCCACCTCACAGCAATGGTTCAAACAGCAGAG-GCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtaataggtgttttactataatttcaatttcgatagttttaagttgtcaa Alignment from Pairagon GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG tgtcatgatgacctgcctgatccatacactgccagcctcctcccttctagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCCGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTATTGGACGAAGTCCAGCTTCATTCAGTCCC--AGCCACCTCACAGCAATGGTTCAAACAGCAGAG-GCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtaataggtgttttactataatttcaatttcgatagttttaagttgtcaa Alignment from Exonerate_protein2genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG tgtcatgatgacctgcctgatccatacactgccagcctcctcccttctagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCCGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTATTGGACGAAGTCCAGCTTCATTCAGTCCCAGCCACCTCACAGCAATG---GTTCAAACAGCAGAGGCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtaataggtgttttactataatttcaatttcgatagttttaagttgtcaa Alignment from Exonerate_coding2genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG tgtcatgatgacctgcctgatccatacactgccagcctcctcccttctagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCCGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTATTGGACGAAGTCCAGCTTCATTCAGTCCCAGCCACCTCACAGCAATG---GTTCAAACAGCAGAGGCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtaataggtgttttactataatttcaatttcgatagttttaagttgtcaa Alignment from GeneWise GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG tgtcatgatgacctgcctgatccatacactgccagcctcctcccttctagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCCGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTATTGGACGAAGTCCAGCTTCATTCAGTCCCAGCCACCTCACAGCAATG---GTTCAAACAGCAGAGGCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtaataggtgttttactataatttcaatttcgatagttttaagttgtcaa #### Ccdc88b_ID1825_24 --> 1 - 1 Original Alignment gAAGGGCAGCTGG-CTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGCAGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAg tcttaactgcccctttgtatggagcttcaaatgtccctttttctctctaggAGGGGCAGCTGGCCTAGCAGAAAAGGTCAGGAGGCTCATTCGAC-CCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTTGGGGCTGATGGGGCTGGCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGATTGAATTGCCAGAAGGCAGGGAGGTTGATGGGACAggtaaggaaaaccatctaacaggtagagtacccctggttgaaatttaatgg Alignment from CESAR gAAGGGCAGCTGG-CTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGCAGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAg tcttaactgcccctttgtatggagcttcaaatgtccctttttctctctaggAGGGGCAGCTGGCCTAGCAGAAAAGGTCAGGAGGCTCATTCGAC-CCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTTGGGGCTGATGGGGCTGGCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGATTGAATTGCCAGAAGGCAGGGAGGTTGATGGGACAggtaaggaaaaccatctaacaggtagagtacccctggttgaaatttaatgg Alignment from Spaln_aa2Genome GAAGGGCAGCTGG-CTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGCAGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAG tcttaactgcccctttgtatggagcttcaaatgtccctttttctctctagGAGGGGCAGCTGGcCTAGCAGAAAAGGTCAGGAGGCTCATTCGACC-CGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTTGGGGCTGATGGGGCTGGCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGATTGAATTGCCAGAAGGCAGGGAGGTTGATGGGACAGgtaaggaaaaccatctaacaggtagagtacccctggttgaaatttaatgg Alignment from Spaln_nt2Genome GAAGGGCAGCTGGC-TGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGCAGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAG tcttaactgcccctttgtatggagcttcaaatgtccctttttctctctagGAGGGGCAGCTGGCCTAGCAGAAAAGGTCAGGAGGCTCATTC-GACCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTTGGGGCTGATGGGGCTGGCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGATTGAATTGCCAGAAGGCAGGGAGGTTGATGGGACAGgtaaggaaaaccatctaacaggtagagtacccctggttgaaatttaatgg Alignment from Pairagon GAAGGGCAGCTGG-CTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGCAGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAG tcttaactgcccctttgtatggagcttcaaatgtccctttttctctctagGAGGGGCAGCTGGCCTAGCAGAAAAGGTCAGGAGGCTCATTCGA-CCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTTGGGGCTGATGGGGCTGGCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGATTGAATTGCCAGAAGGCAGGGAGGTTGATGGGACAGgtaaggaaaaccatctaacaggtagagtacccctggttgaaatttaatgg Alignment from Exonerate_protein2genome GAAGGGCAGCTGGCTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGCAGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAG tcttaactgcccctttgtatggagcttcaaatgtccctttttctctctagGAGGGGCAGCTGGCCTAGCAGAAAAGGTCAGGAGGCTCATTCGACCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTTGGGGCTGATGGGGCTGGCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGATTGAATTGCCAGAAGGCAGGGAGGTTGATGGGACAGgtaaggaaaaccatctaacaggtagagtacccctggttgaaatttaatgg Alignment from Exonerate_coding2genome GAAGGGCAGCTGGCTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGCAGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAG tcttaactgcccctttgtatggagcttcaaatgtccctttttctctctagGAGGGGCAGCTGGCCTAGCAGAAAAGGTCAGGAGGCTCATTCGACCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTTGGGGCTGATGGGGCTGGCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGATTGAATTGCCAGAAGGCAGGGAGGTTGATGGGACAGgtaaggaaaaccatctaacaggtagagtacccctggttgaaatttaatgg Alignment from GeneWise GAAGGGCAGCTGGCTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGCAGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAG tcttaactgcccctttgtatggagcttcaaatgtccctttttctctctagGAGGGGCAGCTGGCCTAGCAGAAAAGGTCAGGAGGCTCATTCGACCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTTGGGGCTGATGGGGCTGGCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGATTGAATTGCCAGAAGGCAGGGAGGTTGATGGGACAGgtaaggaaaaccatctaacaggtagagtacccctggttgaaatttaatgg #### Ccdc88b_ID1826_23 --> 1 - 2 Original Alignment gGACCAGCTTAATGCCTTG-CGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCaa gcccacttaaggtcagattgatgttacctatgtcttgttctgttttccaggGACCAACTCAATGGGTTGCCGCCAACAGAAACAGAAGCTGTTGGAT---ATCATGGACC-ATACCGGGTAGTACAGCCTGGGCCACTCCCCCATGCTaagtgggttagcaccttatttttcatgttagtattttgctttattccacagc Alignment from CESAR gGACCAGCTTAATGCCTTG-CGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCaa gcccacttaaggtcagattgatgttacctatgtcttgttctgttttccaggGACCAACTCAATGGGTTGCCGCCAACAGAAACAGAAGCTGTTGGAT---ATCATGGACC-ATACCGGGTAGTACAGCCTGGGCCACTCCCCCATGCTaagtgggttagcaccttatttttcatgttagtattttgctttattccacagc Alignment from Spaln_aa2Genome GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA gcccacttaaggtcagattgatgttacctatgtcttgttctgttttccagGGACCAACTCAATGGGTTGCCGCCAACAGAAACAGAAGCTGTTGGA---TATCATGGACCATACCGGGTAGTACAGCCTGGGCCACTCCCCCATGCTAAgtgggttagcaccttatttttcatgttagtattttgctttattccacagc Alignment from Spaln_nt2Genome GGACCAGCTTAATGCCTTGC-GCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA gcccacttaaggtcagattgatgttacctatgtcttgttctgttttccagGGACCAACTCAATGGGTTGCCGCCAACAGAAACAGAAGCTGTTGG---ATATCATGGACCA-TACCGGGTAGTACAGCCTGGGCCACTCCCCCATGCTAAgtgggttagcaccttatttttcatgttagtattttgctttattccacagc Alignment from Pairagon GGACCAGCTTAATGCCTTG-CGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA gcccacttaaggtcagattgatgttacctatgtcttgttctgttttccagGGACCAACTCAATGGGTTGCCGCCAACAGAAACAGAAGCTGTTGG---ATATCATGGACCA-TACCGGGTAGTACAGCCTGGGCCACTCCCCCATGCTAAgtgggttagcaccttatttttcatgttagtattttgctttattccacagc Alignment from Exonerate_protein2genome GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA gcccacttaaggtcagattgatgttacctatgtcttgttctgttttccagGGACCAACTCAATGGGTTGCCGCCAACAGAAACAGAAGCTGTT---GGATATCATGGACCATACCGGGTAGTACAGCCTGGGCCACTCCCCCATGCTAAgtgggttagcaccttatttttcatgttagtattttgctttattccacagc Alignment from Exonerate_coding2genome gcccacttaaggtcagattgatgttacctatgtcttgttctgttttccagggaccaactcaatgggttgccgccaacagaaacagaagctgttggatatcatggaccataccgggtagtacagcctgggccactcccccatgctaagtgggttagcaccttatttttcatgttagtattttgctttattccacagc Alignment from GeneWise GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA gcccacttaaggtcagattgatgttacctatgtcttgttctgttttccagGGACCAACTCAATGGGTTGCCGCCAACAGAAACAGAAGCTGTTGGA---TATCATGGACCATACCGGGTAGTACAGCCTGGGCCACTCCCCCATGCTAAgtgggttagcaccttatttttcatgttagtattttgctttattccacagc #### Ccdc88b_ID1827_22 --> 0 - 2 Original Alignment CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTC-CAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACct cttcaatggataggtctactaataaattcacccctcctcctcgcccccagCTCTTAACACAGCTTCATACAGTACAAAAAGAGGAGAATAGGCAGCTTTTAGTAGAGGTGCAAGGCTTCAAGCCGTACAAACAGGGAGTTGCAGGAGCGTA-TTTGGAGAGT---GACCCTGTGCATTGTGAGCAGCCAGAATACctgtaagcccacttaaggtcagattgatgttaccttctcttccgtccccacc Alignment from CESAR CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAG-GCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACct cttcaatggataggtctactaataaattcacccctcctcctcgcccccagCTCTTAACACAGCTTCATACAGTACAAAAAGAGGAGAATAGGCAGCTTTTAGTAGAGGTGCAAGGCTTCAAGCCGTACAAACAGGGAGTTGCAGGAGCGT-ATTTGGAGAGT---GACCCTGTGCATTGTGAGCAGCCAGAATACctgtaagcccacttaaggtcagattgatgttacctatgtcttgttctgtttt Alignment from Spaln_aa2Genome CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACCT cttcaatggataggtctactaataaattcacccctcctcctcgcccccagCTCTTAACACAGCTTCATACAGTACAAAAAGAGGAGAATAGGCAGCTTTTAGTAGAGGTGCAAGGCTTCAAGCCGTACAAACAGGGAGTTGCAGGAGCGTATTTGGAGAGT---GACCCTGTGCATTGTGAGCAGCCAGAATACCTgtaagcccacttaaggtcagattgatgttaccttctcttccgtccccacc Alignment from Spaln_nt2Genome CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGA-GCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACCT cttcaatggataggtctactaataaattcacccctcctcctcgcccccagCTCTTAACACAGCTTCATACAGTACAAAAAGAGGAGAATAGGCAGCTTTTAGTAGAGGTGCAAGGCTTCAAGCCGTACAAACAGGGAGTTGCAGGAGCGTA-TTTGGAGA---GTGACCCTGTGCATTGTGAGCAGCCAGAATACCTgtaagcccacttaaggtcagattgatgttaccttctcttccgtccccacc Alignment from Pairagon CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAG---------------AACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACCT cttcaatggataggtctactaataaattcacccctcctcctcgcccccagCTCTTAACACAGCTTCATACAGTACAAAAAGAGGAGAATAGGCAGCTTTTAGTAGAGGTGCA--------------AGGCTTCAAGCCGTACAAACAGGGAGTTGCAGGAGCGTA-TTTGGAGA---GTGACCCTGTGCATTGTGAGCAGCCAGAATACCTgtaagcccacttaaggtcagattgatgttaccttctcttccgtccccacc Alignment from Exonerate_protein2genome cttcaatggataggtctactaataaattcacccctcctcctcgcccccagctcttaacacagcttcatacagtacaaaaagaggagaataggcagcttttagtagaggtgcaaggcttcaagccgtacaaacagggagttgcaggagcgtatttggagagtgaccctgtgcattgtgagcagccagaatacctgtaagcccacttaaggtcagattgatgttaccttctcttccgtccccacc Alignment from Exonerate_coding2genome cttcaatggataggtctactaataaattcacccctcctcctcgcccccagctcttaacacagcttcatacagtacaaaaagaggagaataggcagcttttagtagaggtgcaaggcttcaagccgtacaaacagggagttgcaggagcgtatttggagagtgaccctgtgcattgtgagcagccagaatacctgtaagcccacttaaggtcagattgatgttaccttctcttccgtccccacc Alignment from GeneWise CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACCT cttcaatggataggtctactaataaattcacccctcctcctcgcccccagCTCTTAACACAGCTTCATACAGTACAAAAAGAGGAGAATAGGCAGCTTTTAGTAGAGGTGCAAGGCTTCAAGCCGTACAAACAGGGAGTTGCAGGAGCGTATTTGGAGAGT---GACCCTGTGCATTGTGAGCAGCCAGAATACCTgtaagcccacttaaggtcagattgatgttaccttctcttccgtccccacc #### Ccdc88b_ID1828_21 --> 1 - 0 Original Alignment aGCTCAGATGCTACTGGCCGAGGTGTCCCGG-GAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGT------GAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG cttaatctcaggtgactgaatatctaagaggttgctactatctactgcagaGCCCAAATGTTACTGACTGAGGTGACACGACGGGTGTGGAGAGATCCAGGGAGAATGTGGGG-GCTGTGGGGATGTCTATCAAGAATAGAACTAGAGCGGGCACAACTTGAAATCCAGAGCCAGCAGCTGTGTGTGTGGGAGTCCAACCAGCAATTGGATTTGAGTGCATGTCACCTGACGCCACAATGTGAAgtggaggacaacaatgggtatataagccttcatacactaatagtcacaaa Alignment from CESAR aGCTCAGATGCTACTGGCCGAGGTGTCCCGG-GAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGT------GAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG cttaatctcaggtgactgaatatctaagaggttgctactatctactgcagaGCCCAAATGTTACTGACTGAGGTGACACGACGGGTGTGGAGAGATCCAGGGAGAATGTGGG-GGCTGTGGGGATGTCTATCAAGAATAGAACTAGAGCGGGCACAACTTGAAATCCAGAGCCAGCAGCTGTGTGTGTGGGAGTCCAACCAGCAATTGGATTTGAGTGCATGTCACCTGACGCCACAATGTGAAgtggaggacaacaatgggtatataagccttcatacactaatagtcacaaa Alignment from Spaln_aa2Genome AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTG------CGTGAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG cttaatctcaggtgactgaatatctaagaggttgctactatctactgcagAGCCCAAATGTTACTGACTGAGGTGACACGACGGGTGTGGAGAGATCCAGGGAGAATGTGGGGGCTGTGGGGATGTCTATCAAGAATAGAACTAGAGCGGGCACAACTTGAAATCCAGAGCCAGCAGCTGTGTGTGTGGGAGTCCAACCAGCAATTGGATTTGAGTGCATGTCACCTGACGCCACAATGTGAAgtggaggacaacaatgggtatataagccttcatacactaatagtcacaaa Alignment from Spaln_nt2Genome AGCTCAGATGCTACTGGCCGAGGTGTCCCGG-GAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGTGA------GTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG cttaatctcaggtgactgaatatctaagaggttgctactatctactgcagAGCCCAAATGTTACTGACTGAGGTGACACGACGGGTGTGGAGAGATCCAGGGAGAATGTGGGG-GCTGTGGGGATGTCTATCAAGAATAGAACTAGAGCGGGCACAACTTGAAATCCAGAGCCAGCAGCTGTGTGTGTGGGAGTCCAACCAGCAATTGGATTTGAGTGCATGTCACCTGACGCCACAATGTGAAgtggaggacaacaatgggtatataagccttcatacactaatagtcacaaa Alignment from Pairagon AGCTCAGATGCTACTGGCCGAGGTGTCCCGG-GAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTG---------------------GAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGT------GAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG cttaatctcaggtgactgaatatctaagaggttgctactatctactgcagAGCCCAAATGTTACTGACTGAGGTGACACGACGGGTGTGGAGAGATCCAGGGAGAATGTGGG----------------------GGCTGTGGGGATGTCTATCAAGAATAGAACTAGAGCGGGCACAACTTGAAATCCAGAGCCAGCAGCTGTGTGTGTGGGAGTCCAACCAGCAATTGGATTTGAGTGCATGTCACCTGACGCCACAATGTGAAgtggaggacaacaatgggtatataagccttcatacactaatagtcacaaa Alignment from Exonerate_protein2genome AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTG------CGTGAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG cttaatctcaggtgactgaatatctaagaggttgctactatctactgcagAGCCCAAATGTTACTGACTGAGGTGACACGACGGGTGTGGAGAGATCCAGGGAGAATGTGGGGGCTGTGGGGATGTCTATCAAGAATAGAACTAGAGCGGGCACAACTTGAAATCCAGAGCCAGCAGCTGTGTGTGTGGGAGTCCAACCAGCAATTGGATTTGAGTGCATGTCACCTGACGCCACAATGTGAAgtggaggacaacaatgggtatataagccttcatacactaatagtcacaaa Alignment from Exonerate_coding2genome AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTG------CGTGAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAGC cttaatctcaggtgactgaatatctaagaggttgctactatctactgcagAGCCCAAATGTTACTGACTGAGGTGACACGACGGGTGTGGAGAGATCCAGGGAGAATGTGGGGGCTGTGGGGATGTCTATCAAGAATAGAACTAGAGCGGGCACAACTTGAAATCCAGAGCCAGCAGCTGTGTGTGTGGGAGTCCAACCAGCAATTGGATTTGAGTGCATGTCACCTGACGCCACAATGTGAAGtggaggacaacaatgggtatataagccttcatacactaatagtcacaaa Alignment from GeneWise AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGT------GAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG cttaatctcaggtgactgaatatctaagaggttgctactatctactgcagAGCCCAAATGTTACTGACTGAGGTGACACGACGGGTGTGGAGAGATCCAGGGAGAATGTGGGGGCTGTGGGGATGTCTATCAAGAATAGAACTAGAGCGGGCACAACTTGAAATCCAGAGCCAGCAGCTGTGTGTGTGGGAGTCCAACCAGCAATTGGATTTGAGTGCATGTCACCTGACGCCACAATGTGAAgtggaggacaacaatgggtatataagccttcatacactaatagtcacaaa #### Ccdc88b_ID1831_18 --> 0 - 0 Original Alignment AATGCCACACTGGTGGCTGAGAAG-GCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gagctaatagggctcacaacattaatatagaaataacatatcattttcagAATGCCACATTGGTGGCAGAGAAACGTGGCTCTGCAGGGACAATTGCAGCATCTCGAGGGCCAGC-GGGGAGCCTACATGGTCGTGCACAGGAATTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtactgttgggtgattgaatgggttgggtcatgcaccttgaaacaatgta Alignment from CESAR AATGCCACACTGGTGGCTGAGAAG-GCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gagctaatagggctcacaacattaatatagaaataacatatcattttcagAATGCCACATTGGTGGCAGAGAAACGTGGCTCTGCAGGGACAATTGCAGCATCTCGAGGGCCAG-CGGGGAGCCTACATGGTCGTGCACAGGAATTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtactgttgggtgattgaatgggttgggtcatgcaccttgaaacaatgta Alignment from Spaln_aa2Genome AATGCCACACTGGTGGCTGAGAAG-GCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gagctaatagggctcacaacattaatatagaaataacatatcattttcagAATGCCACATTGGTGGCAGAGAAAcGTGGCTCTGCAGGGACAATTGCAGCATCTCGAGGGCCAGCGGGG-AGCCTACATGGTCGTGCACAGGAATTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtactgttgggtgattgaatgggttgggtcatgcaccttgaaacaatgta Alignment from Spaln_nt2Genome AATGCCACACTGGTGGCTGAGAAG-GCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gagctaatagggctcacaacattaatatagaaataacatatcattttcagAATGCCACATTGGTGGCAGAGAAACGTGGCTCTGCAGGGACAATTGCAGCATCTCGAGGGCCAGC-GGGGAGCCTACATGGTCGTGCACAGGAATTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtactgttgggtgattgaatgggttgggtcatgcaccttgaaacaatgta Alignment from Pairagon AATGCCACACTGGTGGCTGAGAAG-GCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gagctaatagggctcacaacattaatatagaaataacatatcattttcagAATGCCACATTGGTGGCAGAGAAACGTGGCTCTGCAGGGACAATTGCAGCATCTCGAGGGCCAGC-GGGGAGCCTACATGGTCGTGCACAGGAATTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtactgttgggtgattgaatgggttgggtcatgcaccttgaaacaatgta Alignment from Exonerate_protein2genome GGACTGTGGAGACCCAGAATGGACGGCTC---ATCGAAGTGGAGCGAAATAATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG GAGCTAATAGGGCTCACAACATTAATATAGAAATAACATATCATTTTCAGAATGCCACATTGGTGGCAGAGAAACGTGGCTCTGCAGGGACAATTGCAGCATCTCGAGGGCCAGCGGGGAGCCTACATGGTCGTGCACAGGAATTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtactgttgggtgattgaatgggttgggtcatgcaccttgaaacaatgta Alignment from Exonerate_coding2genome gagctaatagggctcacaacattaatatagaaataacatatcattttcagaatgccacattggtggcagagaaacgtggctctgcagggacaattgcagcatctcgagggccagcggggagcctacatggtcgtgcacaggaattgcttctacagagtcaacgggctcaagagcacagtagttgcttgcaggtactgttgggtgattgaatgggttgggtcatgcaccttgaaacaatgta Alignment from GeneWise --------------------------------------------------AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG GAGCTAATAGGGCTCACAACATTAATATAGAAATAACATATCATTTTCAGAATGCCACATTGGTGGCAGAGAAACGTGGCTCTGCAGGGACAATTGCAGCATCTCGAGGGCCAGCGGGGAGCCTACATGGTCGTGCACAGGAATTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtactgttgggtgattgaatgggttgggtcatgcaccttgaaacaatgta #### Ccdc88b_ID1836_13 --> 2 - 0 Original Alignment ccTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTG-GAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggcaacatgaccagacagaatctgttttgtttttctttaaagcgTCCCTTCCTGGCCCAGCACCCTCACTGCAGGATGAGGTGAGGAAAGTAGAGGGTGGCCGTCTTAGGGCAGTGCGATCGGGAAAATCGGGAGCTTCGAGGTCAA---C-TATG------GCACAGCTTGGGAGCCAGgtaattcctctgttgtttcatctctgagtaatccagttccttgtggatac Alignment from CESAR ccTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTG-GAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggcaacatgaccagacagaatctgttttgtttttctttaaagcgTCCCTTCCTGGCCCAGCACCCTCACTGCAGGATGAGGTGAGGAAAGTAGAGGGTGGCCGTCTTAGGGCAGTGCGATCGGGAAAATCGGGAGCTTCGAGGTCAACTA----------TGGCACAGCTTGGGAGCCAGgtaattcctctgttgtttcatctctgagtaatccagttccttgtggatac Alignment from Spaln_aa2Genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTG-GAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggcaacatgaccagacagaatctgttttgtttttctttaaagCGTCCCTTCCTGGCCCAGCACCCTCACTGCAGGATGAGGTGAGGAAAGTAGAGGGTGGCCGTCTTAGGGCAGTGcGATCGGGAAAATCGGGAGCTTCGAGGTCAACTATG----------GCACAGCTTGGGAGCCAGgtaattcctctgttgtttcatctctgagtaatccagttccttgtggatac Alignment from Spaln_nt2Genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTG-GAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggcaacatgaccagacagaatctgttttgtttttctttaaagCGTCCCTTCCTGGCCCAGCACCCTCACTGCAGGATGAGGTGAGGAAAGTAGAGGGTGGCCGTCTTAGGGCAGTGCGATCGGGAAAATCGGGAGCTTCGAGGTCAACTA----------TGGCACAGCTTGGGAGCCAGgtaattcctctgttgtttcatctctgagtaatccagttccttgtggatac Alignment from Pairagon CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTG-GAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggcaacatgaccagacagaatctgttttgtttttctttaaagCGTCCCTTCCTGGCCCAGCACCCTCACTGCAGGATGAGGTGAGGAAAGTAGAGGGTGGCCGTCTTAGGGCAGTGCGATCGGGAAAATCGGGAGCTTCGAGGTCAACTAT----------GGCACAGCTTGGGAGCCAGgtaattcctctgttgtttcatctctgagtaatccagttccttgtggatac Alignment from Exonerate_protein2genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTG-GAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCT ttgagtagggcaacatgaccagacagaatctgttttgtttttctttaaagCGTCCCTTCCTGGCCCAGCACCCTCACTGCAGGATGAGGTGAGGAAAGTAGAGGGTGGCCGTCTTAGGGCAGTGCGATCGGGAAAATCGGGAGCTTCGAGGTCAACTATGGCACAGCTTGGGAGCCAGgtaattcctctgttgtttcatctctgagtaatccagttccttgtggatac Alignment from Exonerate_coding2genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTG-GAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCT ttgagtagggcaacatgaccagacagaatctgttttgtttttctttaaagCGTCCCTTCCTGGCCCAGCACCCTCACTGCAGGATGAGGTGAGGAAAGTAGAGGGTGGCCGTCTTAGGGCAGTGCGATCGGGAAAATCGGGAGCTTCGAGGTCAACTATGGCACAGCTTGGGAGCCAGgtaattcctctgttgtttcatctctgagtaatccagttccttgtggatac Alignment from GeneWise CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggcaacatgaccagacagaatctgttttgtttttctttaaagCGTCCCTTCCTGGCCCAGCACCCTCACTGCAGGATGAGGTGAGGAAAGTAGAGGGTGGCCGTCTTAGGGCAGTG---CGATCGGGAAAATCG------GGAGCTTCGAGGTCAACTATGGCACAGCTTGGGAGCCAGgtaattcctctgttgtttcatctctgagtaatccagttccttgtggatac #### Ccdc88b_ID1837_12 --> 0 - 1 Original Alignment GACCTGGACTCTCTGCGGCATCAGCTGGAGCAG-CTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGg aggcctaatggacagacagctctggcacaattccatcatttgtttcttagGACCTGGACTCACTGCGGCATCAGTTGGAACAGCTTAGTGGAAGAGAATGTAGAGCTAGAGTTGGAACTAC-AAGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGggtactgtgtagcagacaggatttggcaaggaacctttagtcttaagaaga Alignment from CESAR GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTG-GTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGg aggcctaatggacagacagctctggcacaattccatcatttgtttcttagGACCTGGACTCACTGCGGCATCAGTTGGAACAGCTTAGTGGAAGAGAATGTAGAGCTAGAGTTGGAACTAC-AAGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGggtactgtgtagcagacaggatttggcaaggaacctttagtcttaagaaga Alignment from Spaln_aa2Genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAG-CTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG aggcctaatggacagacagctctggcacaattccatcatttgtttcttagGACCTGGACTCACTGCGGCATCAGTTGGAACAGcTTAGTGGAAGAGAATGTAGAGCTAGAGTTGGAACTACA-AGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGGgtactgtgtagcagacaggatttggcaaggaacctttagtcttaagaaga Alignment from Spaln_nt2Genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTG-GTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG aggcctaatggacagacagctctggcacaattccatcatttgtttcttagGACCTGGACTCACTGCGGCATCAGTTGGAACAGCTTAGTGGAAGAGAATGTAGAGCTAGAGTTGGAACTACA-AGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGGgtactgtgtagcagacaggatttggcaaggaacctttagtcttaagaaga Alignment from Pairagon GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGC-TGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG aggcctaatggacagacagctctggcacaattccatcatttgtttcttagGACCTGGACTCACTGCGGCATCAGTTGGAACAGCTTAGTGGAAGAGAATGTAGAGCTAGAGTTGGAACTACA-AGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGGgtactgtgtagcagacaggatttggcaaggaacctttagtcttaagaaga Alignment from Exonerate_protein2genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG aggcctaatggacagacagctctggcacaattccatcatttgtttcttagGACCTGGACTCACTGCGGCATCAGTTGGAACAGCTTAGTGGAAGAGAATGTAGAGCTAGAGTTGGAACTACAAGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGGgtactgtgtagcagacaggatttggcaaggaacctttagtcttaagaaga Alignment from Exonerate_coding2genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG aggcctaatggacagacagctctggcacaattccatcatttgtttcttagGACCTGGACTCACTGCGGCATCAGTTGGAACAGCTTAGTGGAAGAGAATGTAGAGCTAGAGTTGGAACTACAAGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGGgtactgtgtagcagacaggatttggcaaggaacctttagtcttaagaaga Alignment from GeneWise GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG aggcctaatggacagacagctctggcacaattccatcatttgtttcttagGACCTGGACTCACTGCGGCATCAGTTGGAACAGCTTAGTGGAAGAGAATGTAGAGCTAGAGTTGGAACTACAAGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGGgtactgtgtagcagacaggatttggcaaggaacctttagtcttaagaaga #### Ccdc88b_ID1839_10 --> 0 - 0 Original Alignment ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCA-GAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG tatcagccctctgtccactggttcattggctcatcattttgccattacagACTCAGGCATTGTCTGCCCAAGCGAAGTGCACCGAACTCTGCTGTGAAGAAGCACGAGGCATTAGAA---GAGGCAGGTCACCTGCCCCACCTGC-GGAAGATCTCCGAAGATGTCGTGAGAAGCTTCAAGCTGCGGAAGTCTTCAAGGGACATTTGGAAgtgagattatgcacatatgagccagagcaatgggtagcgtcaatgctgct Alignment from CESAR ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCA-GAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG tatcagccctctgtccactggttcattggctcatcattttgccattacagACTCAGGCATTGTCTGCCCAAGCGAAGTGCACCGAACTCTGCTGTGAAGAAGCACGAGGCATTA---GAAGAGGCAGGTCACCTGCCCCACCTG-CGGAAGATCTCCGAAGATGTCGTGAGAAGCTTCAAGCTGCGGAAGTCTTCAAGGGACATTTGGAAgtgagattatgcacatatgagccagagcaatgggtagcgtcaatgctgct Alignment from Spaln_aa2Genome ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG tatcagccctctgtccactggttcattggctcatcattttgccattacagACTCAGGCATTGTCTGCCCAAGCGAAGTGCACCGAACTCTGCTGTGAAGAAGCACGAGGCATTAGA---AGAGGCAGGTCACCTGCCCCACCTGCGGAAGATCTCCGAAGATGTCGTGAGAAGCTTCAAGCTGCGGAAGTCTTCAAGGGACATTTGGAAgtgagattatgcacatatgagccagagcaatgggtagcgtcaatgctgct Alignment from Spaln_nt2Genome ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCA-GAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG tatcagccctctgtccactggttcattggctcatcattttgccattacagACTCAGGCATTGTCTGCCCAAGCGAAGTGCACCGAACTCTGCTGTGAAGAAGCACGAGGCATT---AGAAGAGGCAGGTCACCTGCCCCACCTGC-GGAAGATCTCCGAAGATGTCGTGAGAAGCTTCAAGCTGCGGAAGTCTTCAAGGGACATTTGGAAgtgagattatgcacatatgagccagagcaatgggtagcgtcaatgctgct Alignment from Pairagon ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGC-------------AGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG tatcagccctctgtccactggttcattggctcatcattttgccattacagACTCAGGCATTGTCTGCCCAAGCGAAGTGCACCGAACTCTGCTGTGAAGAAGCACGAGGCATTAGAAGAGGCA---------------GGTCACCTGCCCCACCTGC-GGAAGATCTCCGAAGATGTCGTGAGAAGCTTCAAGCTGCGGAAGTCTTCAAGGGACATTTGGAAgtgagattatgcacatatgagccagagcaatgggtagcgtcaatgctgct Alignment from Exonerate_protein2genome ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG tatcagccctctgtccactggttcattggctcatcattttgccattacagACTCAGGCATTGTCTGCCCAAGCGAAGTGCACCGAACTCTGCTGTGAAGAAGCACGAGGCATTAGAAGAGGCAGGTCACCTGCCCCACCT---GCGGAAGATCTCCGAAGATGTCGTGAGAAGCTTCAAGCTGCGGAAGTCTTCAAGGGACATTTGGAAgtgagattatgcacatatgagccagagcaatgggtagcgtcaatgctgct Alignment from Exonerate_coding2genome tatcagccctctgtccactggttcattggctcatcattttgccattacagactcaggcattgtctgcccaagcgaagtgcaccgaactctgctgtgaagaagcacgaggcattagaagaggcaggtcacctgccccacctgcggaagatctccgaagatgtcgtgagaagcttcaagctgcggaagtcttcaagggacatttggaagtgagattatgcacatatgagccagagcaatgggtagcgtcaatgctgct Alignment from GeneWise ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG tatcagccctctgtccactggttcattggctcatcattttgccattacagACTCAGGCATTGTCTGCCCAAGCGAAGTGCACCGAACTCTGCTGTGAAGAAGCACGAGGCATTAGAAGAGGCAGGTCACCTGCCCCACCTGCG---GAAGATCTCCGAAGATGTCGTGAGAAGCTTCAAGCTGCGGAAGTCTTCAAGGGACATTTGGAAgtgagattatgcacatatgagccagagcaatgggtagcgtcaatgctgct #### Ccdc88b_ID1841_8 --> 0 - 2 Original Alignment CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAG-GCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGgt tcagtgtaggagataatcatgtgttttgatctttgtttttctctccacagCGGCTGGTTGAACTGTTACTTGAGAGGGAGCCAGACCACCCACTGCTACCTGGGCGCTCCTGCCAAAGCA------GAGGGTGTGT-CCACCATCTAGATCTGCAGTTAACCAATGCTAAGGCTCAGCTGAGATGCCTCAGGAGGGAAttgtgagtcaaccttgccacgaaagcctatcgattcttaagcctttggggat Alignment from CESAR CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAG-GCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGgt tcagtgtaggagataatcatgtgttttgatctttgtttttctctccacagCGGCTGGTTGAACTGTTACTTGAGAGGGAGCCAGACCACCCACTGCTACCTGGGCGCTCCTGCCAAA------GCAGAGGGTGTGT-CCACCATCTAGATCTGCAGTTAACCAATGCTAAGGCTCAGCTGAGATGCCTCAGGAGGGAAttgtgagtcaaccttgccacgaaagcctatcgattcttaagcctttggggat Alignment from Spaln_aa2Genome CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGT tcagtgtaggagataatcatgtgttttgatctttgtttttctctccacagCGGCTGGTTGAACTGTTACTTGAGAGGGAGCCAGACCACCCACTGCTACCTGGGCGCTCCTGCCAAAGCAGA------GGGTGTGTCCACCATCTAGATCTGCAGTTAACCAATGCTAAGGCTCAGCTGAGATGCCTCAGGAGGGAATTgtgagtcaaccttgccacgaaagcctatcgattcttaagcctttggggat Alignment from Spaln_nt2Genome CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAG-GCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGT tcagtgtaggagataatcatgtgttttgatctttgtttttctctccacagCGGCTGGTTGAACTGTTACTTGAGAGGGAGCCAGACCACCCACTGCTACCTGGGCGCTCCTGCCAA------AGCAGAGGGTGTGTC-CACCATCTAGATCTGCAGTTAACCAATGCTAAGGCTCAGCTGAGATGCCTCAGGAGGGAATTgtgagtcaaccttgccacgaaagcctatcgattcttaagcctttggggat Alignment from Pairagon CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAG-GCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGT tcagtgtaggagataatcatgtgttttgatctttgtttttctctccacagCGGCTGGTTGAACTGTTACTTGAGAGGGAGCCAGACCACCCACTGCTACCTGGGCGCTCCTGCCAA------AGCAGAGGGTGTGTC-CACCATCTAGATCTGCAGTTAACCAATGCTAAGGCTCAGCTGAGATGCCTCAGGAGGGAATTgtgagtcaaccttgccacgaaagcctatcgattcttaagcctttggggat Alignment from Exonerate_protein2genome CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGT tcagtgtaggagataatcatgtgttttgatctttgtttttctctccacagCGGCTGGTTGAACTGTTACTTGAGAGGGAGCCAGACCACCCACTGCTACCT------GGGCGCTCCTGCCAAAGCAGAGGGTGTGTCCACCATCTAGATCTGCAGTTAACCAATGCTAAGGCTCAGCTGAGATGCCTCAGGAGGGAATTgtgagtcaaccttgccacgaaagcctatcgattcttaagcctttggggat Alignment from Exonerate_coding2genome tcagtgtaggagataatcatgtgttttgatctttgtttttctctccacagcggctggttgaactgttacttgagagggagccagaccacccactgctacctgggcgctcctgccaaagcagagggtgtgtccaccatctagatctgcagttaaccaatgctaaggctcagctgagatgcctcaggagggaattgtgagtcaaccttgccacgaaagcctatcgattcttaagcctttggggat Alignment from GeneWise CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGT tcagtgtaggagataatcatgtgttttgatctttgtttttctctccacagCGGCTGGTTGAACTGTTACTTGAGAGGGAGCCAGACCACCCACTGCTACCTGGGCGC------TCCTGCCAAAGCAGAGGGTGTGTCCACCATCTAGATCTGCAGTTAACCAATGCTAAGGCTCAGCTGAGATGCCTCAGGAGGGAATTgtgagtcaaccttgccacgaaagcctatcgattcttaagcctttggggat #### Ccdc88b_ID1845_4 --> 0 - 1 Original Alignment GAGGAGCTACAGCTG-CTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAg ggacccaggcacctagcccagacacatcgctttttacattcctctctcagGAGGAGCTACAGCTTCTTAATCTTATCTACATCACCAGACCTCCAGCCTACGGGGT-TGAACCCTTTTCAggtaagagttctaacctcgtctatcacttgactaccatgtataccctcatc Alignment from CESAR GAGGAGCTACAGCTGCTG-ATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAg ggacccaggcacctagcccagacacatcgctttttacattcctctctcagGAGGAGCTACAGCTTCTTAATCTTATCTACATCACCAGACCTCCAGCCTACGGGG-TTGAACCCTTTTCAggtaagagttctaacctcgtctatcacttgactaccatgtataccctcatc Alignment from Spaln_aa2Genome GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG ggacccaggcacctagcccagacacatcgctttttacattcctctctcagGAGGAGCTACAGCTTCTTAATCTTATCTACATCACCAGACCTCCAGCCTACGGGGTTGAACCCTTTTCAGgtaagagttctaacctcgtctatcacttgactaccatgtataccctcatc Alignment from Spaln_nt2Genome GAGGAGCTACAGCTGCTGA-TCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG ggacccaggcacctagcccagacacatcgctttttacattcctctctcagGAGGAGCTACAGCTTCTTAATCTTATCTACATCACCAGACCTCCAGCCTACGGGGT-TGAACCCTTTTCAGgtaagagttctaacctcgtctatcacttgactaccatgtataccctcatc Alignment from Pairagon GAGGAGCTACAGCTGC-TGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG ggacccaggcacctagcccagacacatcgctttttacattcctctctcagGAGGAGCTACAGCTTCTTAATCTTATCTACATCACCAGACCTCCAGCCTACGGGGT-TGAACCCTTTTCAGgtaagagttctaacctcgtctatcacttgactaccatgtataccctcatc Alignment from Exonerate_protein2genome GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG ggacccaggcacctagcccagacacatcgctttttacattcctctctcagGAGGAGCTACAGCTTCTTAATCTTATCTACATCACCAGACCTCCAGCCTACGGGGTTGAACCCTTTTCAGgtaagagttctaacctcgtctatcacttgactaccatgtataccctcatc Alignment from Exonerate_coding2genome ggacccaggcacctagcccagacacatcgctttttacattcctctctcaggaggagctacagcttcttaatcttatctacatcaccagacctccagcctacggggttgaacccttttcaggtaagagttctaacctcgtctatcacttgactaccatgtataccctcatc Alignment from GeneWise -CTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAGAAGAG ggacccaggcacctagcccagacacatcgctttttacattcctctctcaggaggagctacagCTTCTTAATCTTATCTACATCACCAGACCTCCAGCCTACGGGGTTGAACCCTTTTCAGGTAAGAgttctaacctcgtctatcacttgactaccatgtataccctcatc #### Ccdc88b_ID1846_3 --> 1 - 0 Original Alignment tGCTCCCAGTTCCCGAGGAGGACTTCGA-ATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttattattaacagaactctgagtatttccttctctctccttggaaaagtTCTCCAAGTTCTCAAGGGGGAGTTCGTCATGGTCAGGGGACGCGATGGTACAGCTGCTTGTC-GATGTGGACTCTCTGTCATCTATGGGGGCAGTTGAGAGACTTTTATCAGgtaggcccagtatggtgaaatccaggacccaggcacctagcccagacaca Alignment from CESAR tGCTCCCAGTTCCCGAGGAGGACTTCGA-ATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttattattaacagaactctgagtatttccttctctctccttggaaaagtTCTCCAAGTTCTCAAGGGGGAGTTCGTCATGGTCAGGGGACGCGATGGTACAGCTGCTTGTC-GATGTGGACTCTCTGTCATCTATGGGGGCAGTTGAGAGACTTTTATCAGgtaggcccagtatggtgaaatccaggacccaggcacctagcccagacaca Alignment from Spaln_aa2Genome TGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttattattaacagaactctgagtatttccttctctctccttggaaaagTTCTCCAAGTTCTCAAGGGGGAGTTCGTCATGGTCAGGGGACGCGATGGTACAGCTGCTTGTCGATGTGGACTCTCTGTCATCTATGGGGGCAGTTGAGAGACTTTTATCAGgtaggcccagtatggtgaaatccaggacccaggcacctagcccagacaca Alignment from Spaln_nt2Genome TGCTCCCAGTTCCCGAGGAGGACTTCGA-ATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttattattaacagaactctgagtatttccttctctctccttggaaaagTTCTCCAAGTTCTCAAGGGGGAGTTCGTCATGGTCAGGGGACGCGATGGTACAGCTGCTTGTC-GATGTGGACTCTCTGTCATCTATGGGGGCAGTTGAGAGACTTTTATCAGgtaggcccagtatggtgaaatccaggacccaggcacctagcccagacaca Alignment from Pairagon TGCTCCCAGTTCCCGAGGAGGACTTCG-AATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttattattaacagaactctgagtatttccttctctctccttggaaaagTTCTCCAAGTTCTCAAGGGGGAGTTCGTCATGGTCAGGGGACGCGATGGTACAGCTGCTTGTC-GATGTGGACTCTCTGTCATCTATGGGGGCAGTTGAGAGACTTTTATCAGgtaggcccagtatggtgaaatccaggacccaggcacctagcccagacaca Alignment from Exonerate_protein2genome TGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttattattaacagaactctgagtatttccttctctctccttggaaaagTTCTCCAAGTTCTCAAGGGGGAGTTCGTCATGGTCAGGGGACGCGATGGTACAGCTGCTTGTCGATGTGGACTCTCTGTCATCTATGGGGGCAGTTGAGAGACTTTTATCAGgtaggcccagtatggtgaaatccaggacccaggcacctagcccagacaca Alignment from Exonerate_coding2genome ctttattattaacagaactctgagtatttccttctctctccttggaaaagttctccaagttctcaagggggagttcgtcatggtcaggggacgcgatggtacagctgcttgtcgatgtggactctctgtcatctatgggggcagttgagagacttttatcaggtaggcccagtatggtgaaatccaggacccaggcacctagcccagacaca Alignment from GeneWise TGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttattattaacagaactctgagtatttccttctctctccttggaaaagTTCTCCAAGTTCTCAAGGGGGAGTTCGTCATGGTCAGGGGACGCGATGGTACAGCTGCTTGTCGATGTGGACTCTCTGTCATCTATGGGGGCAGTTGAGAGACTTTTATCAGgtaggcccagtatggtgaaatccaggacccaggcacctagcccagacaca #### Ccnj_ID8043_4 --> 2 - 2 Original Alignment atTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGT-CTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGct ggcctaattaagcattctatactgtaggtcttttgtttttctgtttttagatTATGCCTTTCTCAATTATGCACCCTCCTTAATAGCGGCCGCGTGTGTGGCCTTTTCCAGGATTATACTCCAACTGTCTCCAACCTGGCCTACAAGACTACACTGTCTTCACGGCATACTCCTGGGCCTTCTTGGTTC-GTGTATGGAATGGTTATTGctgtgcgtagagccacacaattgaaatcagactgccagaagcagttctgcag Alignment from CESAR atTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTC-ACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGct ggcctaattaagcattctatactgtaggtcttttgtttttctgtttttagatTATGCCTTTCTCAATTATGCACCCTCCTTAATAGCGGCCGCGTGTGTGGCCTTTTCCAGGATTATACTCCAACTGTCTCCAACCTGGCCTACAAGACTACACTGTCTTCACGGCATACTCCTGGGCCTTCTTGGTT-CGTGTATGGAATGGTTATTGctgtgcgtagagccacacaattgaaatcagactgccagaagcagttctgcag Alignment from Spaln_aa2Genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT ggcctaattaagcattctatactgtaggtcttttgtttttctgtttttagATTATGCCTTTCTCAATTATGCACCCTCCTTAATAGCGGCCGCGTGTGTGGCCTTTTCCAGGATTATACTCCAACTGTCTCCAACCTGGCCTACAAGACTACACTGTCTTCACGGCATACTCCTGGGCCTTCTTGGTTCGTGTATGGAATGGTTATTGCTgtgcgtagagccacacaattgaaatcagactgccagaagcagttctgcag Alignment from Spaln_nt2Genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTC-TCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT ggcctaattaagcattctatactgtaggtcttttgtttttctgtttttagATTATGCCTTTCTCAATTATGCACCCTCCTTAATAGCGGCCGCGTGTGTGGCCTTTTCCAGGATTATACTCCAACTGTCTCCAACCTGGCCTACAAGACTACACTGTCTTCACGGCATACTCCTGGGCCTTCTTGGTTC-GTGTATGGAATGGTTATTGCTgtgcgtagagccacacaattgaaatcagactgccagaagcagttctgcag Alignment from Pairagon ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTC-TCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT ggcctaattaagcattctatactgtaggtcttttgtttttctgtttttagATTATGCCTTTCTCAATTATGCACCCTCCTTAATAGCGGCCGCGTGTGTGGCCTTTTCCAGGATTATACTCCAACTGTCTCCAACCTGGCCTACAAGACTACACTGTCTTCACGGCATACTCCTGGGCCTTCTTGGTTC-GTGTATGGAATGGTTATTGCTgtgcgtagagccacacaattgaaatcagactgccagaagcagttctgcag Alignment from Exonerate_protein2genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT ggcctaattaagcattctatactgtaggtcttttgtttttctgtttttagATTATGCCTTTCTCAATTATGCACCCTCCTTAATAGCGGCCGCGTGTGTGGCCTTTTCCAGGATTATACTCCAACTGTCTCCAACCTGGCCTACAAGACTACACTGTCTTCACGGCATACTCCTGGGCCTTCTTGGTTCGTGTATGGAATGGTTATTGCTgtgcgtagagccacacaattgaaatcagactgccagaagcagttctgcag Alignment from Exonerate_coding2genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT ggcctaattaagcattctatactgtaggtcttttgtttttctgtttttagATTATGCCTTTCTCAATTATGCACCCTCCTTAATAGCGGCCGCGTGTGTGGCCTTTTCCAGGATTATACTCCAACTGTCTCCAACCTGGCCTACAAGACTACACTGTCTTCACGGCATACTCCTGGGCCTTCTTGGTTCGTGTATGGAATGGTTATTGCTgtgcgtagagccacacaattgaaatcagactgccagaagcagttctgcag Alignment from GeneWise ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT ggcctaattaagcattctatactgtaggtcttttgtttttctgtttttagATTATGCCTTTCTCAATTATGCACCCTCCTTAATAGCGGCCGCGTGTGTGGCCTTTTCCAGGATTATACTCCAACTGTCTCCAACCTGGCCTACAAGACTACACTGTCTTCACGGCATACTCCTGGGCCTTCTTGGTTCGTGTATGGAATGGTTATTGCTgtgcgtagagccacacaattgaaatcagactgccagaagcagttctgcag #### Ccs_ID661_7 --> 0 - 2 Original Alignment GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGAT-GACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGag gTTGGCCT gcacatatgcagggcagatgaagctgaccatgttgtctgtccgttctcagGTTTGGGATGTGATTGCCCGCACCCTGGTTATTGATGAGGGAGAAGATCGATGTGGGCTGGGGGGGCCACCCTTTATCCAAGA-TACTGGGAATTTGGAGAAAaggtgagtcatataacaatcaagaacattgcctgctgctctcagaCTCTCAT Alignment from CESAR GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGAT-GACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGag gTTGGCCT gcacatatgcagggcagatgaagctgaccatgttgtctgtccgttctcagGTTTGGGATGTGATTGCCCGCACCCTGGTTATTGATGAGGGAGAAGATCGATGTGGGCTGGGGGGGCCACCCTTTATCCAAGA-TACTGGGAATTTGGAGAAAaggtgagtcatataacaatcaaccccatttcccgctctccacagaCTCTCAT Alignment from Spaln_aa2Genome GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG GTTGGCCT gcacatatgcagggcagatgaagctgaccatgttgtctgtccgttctcagGTTTGGGATGTGATTGCCCGCACCCTGGTTATTGATGAGGGAGAAGATCGATGTGGGCTGGGGGGGCCACCCTTTATCCAAGATACTGGGAATTTGGAGAAAAGgtgagtcatataacaatcaagaacattgcctgctgctctcagACTCTCAT Alignment from Spaln_nt2Genome GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGAT-GACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG GTTGGCCT gcacatatgcagggcagatgaagctgaccatgttgtctgtccgttctcagGTTTGGGATGTGATTGCCCGCACCCTGGTTATTGATGAGGGAGAAGATCGATGTGGGCTGGGGGGGCCACCCTTTATCCAAGAT-ACTGGGAATTTGGAGAAAAGgtgagtcatataacaatcaagaacattgcctgctgctctcagACTCTCAT Alignment from Pairagon ------------------------------------------------AGGTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGAT-GACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAGGTTGGCC------------------------------------------T GCACATATGCAGGGCAGATGAAGCTGACCATGTTGTCTGTCCGTTCTCAGGTTTGGGATGTGATTGCCCGCACCCTGGTTATTGATGAGGGAGAAGATCGATGTGGGCTGGGGGGGCCACCCTTTATCCAAGAT-ACTGGGAATTTGGAGAAAAGGTGAGTCATATAACAATCAAGAACATTGCCTGCTGCTCTCAGACTCTCAT Alignment from Exonerate_protein2genome GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG GTTGGCCT gcacatatgcagggcagatgaagctgaccatgttgtctgtccgttctcagGTTTGGGATGTGATTGCCCGCACCCTGGTTATTGATGAGGGAGAAGATCGATGTGGGCTGGGGGGGCCACCCTTTATCCAAGATACTGGGAATTTGGAGAAAAGgtgagtcatataacaatcaagaacattgcctgctgctctcagACTCTCAT Alignment from Exonerate_coding2genome gcacatatgcagggcagatgaagctgaccatgttgtctgtccgttctcaggtttgggatgtgattgcccgcaccctggttattgatgagggagaagatcgatgtgggctgggggggccaccctttatccaagatactgggaatttggagaaaaggtgagtcatataacaatcaagaacattgcctgctgctctcagactctcat Alignment from GeneWise GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG GTTGGCCT gcacatatgcagggcagatgaagctgaccatgttgtctgtccgttctcagGTTTGGGATGTGATTGCCCGCACCCTGGTTATTGATGAGGGAGAAGATCGATGTGGGCTGGGGGGGCCACCCTTTATCCAAGATACTGGGAATTTGGAGAAAAGgtgagtcatataacaatcaagaacattgcctgctgctctcagACTCTCAT #### Cdc42bpg_ID1573_3 --> 0 - 0 Original Alignment GTTGCCGTGGTGAGGCAGAGGGGC-AGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttgatccttctgtgagtccagtcacatttcatgctgtaaatcccatatagGTTATTGTGGTGAGGCAGAGAGGACAGTGGCCAGATCTTTGCAATGAATATGT-TCATAAGTGGGAAATGTTGAAGAGGGCTGAGgtaagttggcacaaatgtaaaatctatccctacatgtttgcttgtataca Alignment from CESAR GTTGCCGTGGTGAGGCAGAGGGGC-AGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttgatccttctgtgagtccagtcacatttcatgctgtaaatcccatatagGTTATTGTGGTGAGGCAGAGAGGACAGTGGCCAGATCTTTGCAATGAATATG-TTCATAAGTGGGAAATGTTGAAGAGGGCTGAGgtaagttggcacaaatgtaaaatctatccctacatgtttgcttgtataca Alignment from Spaln_aa2Genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttgatccttctgtgagtccagtcacatttcatgctgtaaatcccatatagGTTATTGTGGTGAGGCAGAGAGGACAGTGGCCAGATCTTTGCAATGAATATGTTCATAAGTGGGAAATGTTGAAGAGGGCTGAGgtaagttggcacaaatgtaaaatctatccctacatgtttgcttgtataca Alignment from Spaln_nt2Genome GTTGCCGTGGTGAGGCAGAGGGG-CAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttgatccttctgtgagtccagtcacatttcatgctgtaaatcccatatagGTTATTGTGGTGAGGCAGAGAGGACAGTGGCCAGATCTTTGCAATGAATATG-TTCATAAGTGGGAAATGTTGAAGAGGGCTGAGgtaagttggcacaaatgtaaaatctatccctacatgtttgcttgtataca Alignment from Pairagon GTTGCCGTGGTGAGGCAGAG-GGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttgatccttctgtgagtccagtcacatttcatgctgtaaatcccatatagGTTATTGTGGTGAGGCAGAGAGGACAGTGGCCAGATCTTTGCAATGAATATGTT-CATAAGTGGGAAATGTTGAAGAGGGCTGAGgtaagttggcacaaatgtaaaatctatccctacatgtttgcttgtataca Alignment from Exonerate_protein2genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttgatccttctgtgagtccagtcacatttcatgctgtaaatcccatatagGTTATTGTGGTGAGGCAGAGAGGACAGTGGCCAGATCTTTGCAATGAATATGTTCATAAGTGGGAAATGTTGAAGAGGGCTGAGgtaagttggcacaaatgtaaaatctatccctacatgtttgcttgtataca Alignment from Exonerate_coding2genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttgatccttctgtgagtccagtcacatttcatgctgtaaatcccatatagGTTATTGTGGTGAGGCAGAGAGGACAGTGGCCAGATCTTTGCAATGAATATGTTCATAAGTGGGAAATGTTGAAGAGGGCTGAGgtaagttggcacaaatgtaaaatctatccctacatgtttgcttgtataca Alignment from GeneWise GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttgatccttctgtgagtccagtcacatttcatgctgtaaatcccatatagGTTATTGTGGTGAGGCAGAGAGGACAGTGGCCAGATCTTTGCAATGAATATGTTCATAAGTGGGAAATGTTGAAGAGGGCTGAGgtaagttggcacaaatgtaaaatctatccctacatgtttgcttgtataca #### Cdc42bpg_ID1574_4 --> 0 - 0 Original Alignment ACGGCCTGTTTCCGGGAG-GAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG tacatgtttgcttgtatacagacaacctgttctttccctactccctgcagACAACCTGTCTCCGCGAGCGAGCGAGATGTTCTAGTGAAGGAAGACCATTGTTGGG-GACAGTTTTACATTACTCATTCCAGGATGAGGAGTTCTTAgtaaaatgccctatgtcacaagggagccaccctgacagtactgtcttttt Alignment from CESAR ACGGCCTGTTTCCGGGAG-GAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG tacatgtttgcttgtatacagacaacctgttctttccctactccctgcagACAACCTGTCTCCGCGAGCGAGCGAGATGTTCTAGTGAAGGAAGACCATTGTTGG-GGACAGTTTTACATTACTCATTCCAGGATGAGGAGTTCTTAgtaaaatgccctatgtcacaagggagccaccctgacagtactgtcttttt Alignment from Spaln_aa2Genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG tacatgtttgcttgtatacagacaacctgttctttccctactccctgcagACAACCTGTCTCCGCGAGCGAGCGAGATGTTCTAGTGAAGGAAGACCATTGTTGGGGACAGTTTTACATTACTCATTCCAGGATGAGGAGTTCTTAgtaaaatgccctatgtcacaagggagccaccctgacagtactgtcttttt Alignment from Spaln_nt2Genome ACGGCCTGTTTCCGGGAG-GAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG tacatgtttgcttgtatacagacaacctgttctttccctactccctgcagACAACCTGTCTCCGCGAGCGAGCGAGATGTTCTAGTGAAGGAAGACCATTGTTGGG-GACAGTTTTACATTACTCATTCCAGGATGAGGAGTTCTTAgtaaaatgccctatgtcacaagggagccaccctgacagtactgtcttttt Alignment from Pairagon ACGGCCTGTTTCCGGGAG-GAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG tacatgtttgcttgtatacagacaacctgttctttccctactccctgcagACAACCTGTCTCCGCGAGCGAGCGAGATGTTCTAGTGAAGGAAGACCATTGTTGGG-GACAGTTTTACATTACTCATTCCAGGATGAGGAGTTCTTAgtaaaatgccctatgtcacaagggagccaccctgacagtactgtcttttt Alignment from Exonerate_protein2genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG tacatgtttgcttgtatacagacaacctgttctttccctactccctgcagACAACCTGTCTCCGCGAGCGAGCGAGATGTTCTAGTGAAGGAAGACCATTGTTGGGGACAGTTTTACATTACTCATTCCAGGATGAGGAGTTCTTAgtaaaatgccctatgtcacaagggagccaccctgacagtactgtcttttt Alignment from Exonerate_coding2genome tacatgtttgcttgtatacagacaacctgttctttccctactccctgcagacaacctgtctccgcgagcgagcgagatgttctagtgaaggaagaccattgttggggacagttttacattactcattccaggatgaggagttcttagtaaaatgccctatgtcacaagggagccaccctgacagtactgtcttttt Alignment from GeneWise ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG tacatgtttgcttgtatacagacaacctgttctttccctactccctgcagACAACCTGTCTCCGCGAGCGAGCGAGATGTTCTAGTGAAGGAAGACCATTGTTGGGGACAGTTTTACATTACTCATTCCAGGATGAGGAGTTCTTAgtaaaatgccctatgtcacaagggagccaccctgacagtactgtcttttt #### Cdc42bpg_ID1576_6 --> 1 - 0 Original Alignment gGATGTGAAGCCTGAC-AACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaacgcttgtattgaacttgtcccagaGATGTGGAGCCAGACCAATGTTCTA---AGCATGAATGGGCAT---TGCT-AGCTGATTTTGGCACCTGCCTATGCCTCAACATCAACACCAAGgtaagtaaaccacctagaaattcatagataagtataaagacatttagtta Alignment from CESAR gGATGTGAAGCCTGAC-AACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaacgcttgtattgaacttgtcccagaGATGTGGAGCCAGACCAATGTT---CTAAGCATGAATGGGCAT----TGCTAGCTGATTTTGGCACCTGCCTATGCCTCAACATCAACACCAAGgtaagtaaaccacctagaaattcatagataagtataaagacatttagtta Alignment from Spaln_aa2Genome TGACAACATCCTGCTGGACATGAATGGCCAC------ATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaacgcttgtattgaacttgtcccagAGATGTGGAGCCAGACCAATGTTCTAAGCATGAATGGGCATTGCTAGCTGATTTTGGCACCTGCCTATGCCTCAACATCAACACCAAGgtaagtaaaccacctagaaattcatagataagtataaagacatttagtta Alignment from Spaln_nt2Genome GGGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaacgcttgtattgaacttgtcccag-AGATGTGGAGCCAGAC--CAATGTTCTAAGCATGAATGGGCA----TTGCTAGCTGATTTTGGCACCTGCCTATGCCTCAACATCAACACCAAGgtaagtaaaccacctagaaattcatagataagtataaagacatttagtta Alignment from Pairagon GGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGAC------------------------------------TTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaacgcttgtattgaacttgtcccagAGATGTGGAGC------------------------------------------CAGACCAATGTTCTAAGCATGAATGGGCATTGCTAGCTGATTTTGGCACCTGCCTATGCCTCAACATCAACACCAAGgtaagtaaaccacctagaaattcatagataagtataaagacatttagtta Alignment from Exonerate_protein2genome GGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaacgcttgtattgaacttgtcccagAGATGTGGAGCCAGACCAA------TGTTCTAAGCATGAATGGGCATTGCTAGCTGATTTTGGCACCTGCCTATGCCTCAACATCAACACCAAGgtaagtaaaccacctagaaattcatagataagtataaagacatttagtta Alignment from Exonerate_coding2genome ggacacacacatacttacaccaaagaacgcttgtattgaacttgtcccagagatgtggagccagaccaatgttctaagcatgaatgggcattgctagctgattttggcacctgcctatgcctcaacatcaacaccaaggtaagtaaaccacctagaaattcatagataagtataaagacatttagtta Alignment from GeneWise GGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaacgcttgtattgaacttgtcccagAGATGTGGAGCCAGACCAATGT------TCTAAGCATGAATGGGCATTGCTAGCTGATTTTGGCACCTGCCTATGCCTCAACATCAACACCAAGgtaagtaaaccacctagaaattcatagataagtataaagacatttagtta #### Cdc42bpg_ID1578_8 --> 0 - 0 Original Alignment GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAG-CTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttatagttaggtccctccatgtagctcattttgatgtcacagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGACTGGATGACTTCCACAAGCATGCGTTCTTTGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCCTTCGAGGCCCAATGGACACTTCCAACT-TGATGTGGACGATGACACCCTCAACCGCTCAgtgagttgcagagactattaagacacatttgtccaaaaatgtactgagct Alignment from CESAR GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAG-CTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttatagttaggtccctccatgtagctcattttgatgtcacagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGACTGGATGACTTCCACAAGCATGCGTTCTTTGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCCTTCGAGGCCCAATGGACACTTCCAAC-TTGATGTGGACGATGACACCCTCAACCGCTCAgtgagttgcagagactattaagacacatttgtccaaaaatgtactgagct Alignment from Spaln_aa2Genome GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttatagttaggtccctccatgtagctcattttgatgtcacagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGACTGGATGACTTCCACAAGCATGCGTTCTTTGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCCTTCGAGGCCCAATGGACACTTCCAACTTGATGTGGACGATGACACCCTCAACCGCTCAgtgagttgcagagactattaagacacatttgtccaaaaatgtactgagct Alignment from Spaln_nt2Genome GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAG-CTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttatagttaggtccctccatgtagctcattttgatgtcacagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGACTGGATGACTTCCACAAGCATGCGTTCTTTGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCCTTCGAGGCCCAATGGACACTTCCAACTT-GATGTGGACGATGACACCCTCAACCGCTCAgtgagttgcagagactattaagacacatttgtccaaaaatgtactgagct Alignment from Pairagon GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAG-CTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttatagttaggtccctccatgtagctcattttgatgtcacagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGACTGGATGACTTCCACAAGCATGCGTTCTTTGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCCTTCGAGGCCCAATGGACACTTCCAACTT-GATGTGGACGATGACACCCTCAACCGCTCAgtgagttgcagagactattaagacacatttgtccaaaaatgtactgagct Alignment from Exonerate_protein2genome GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttatagttaggtccctccatgtagctcattttgatgtcacagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGACTGGATGACTTCCACAAGCATGCGTTCTTTGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCCTTCGAGGCCCAATGGACACTTCCAACTTGATGTGGACGATGACACCCTCAACCGCTCAgtgagttgcagagactattaagacacatttgtccaaaaatgtactgagct Alignment from Exonerate_coding2genome ggtcatctttatagttaggtccctccatgtagctcattttgatgtcacaggaccatctccagtttcctgctgccgtcacagatgtgcctgctagtgcccgtgatctgatctgccagctgttatgccgtcaagaggagcagctaagccgtggtggactggatgacttccacaagcatgcgttctttgagggggtagactgggagagactcacaaccagcacagcaccatacatccctgagccttcgaggcccaatggacacttccaacttgatgtggacgatgacaccctcaaccgctcagtgagttgcagagactattaagacacatttgtccaaaaatgtactgagct Alignment from GeneWise GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttatagttaggtccctccatgtagctcattttgatgtcacagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGACTGGATGACTTCCACAAGCATGCGTTCTTTGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCCTTCGAGGCCCAATGGACACTTCCAACTTGATGTGGACGATGACACCCTCAACCGCTCAgtgagttgcagagactattaagacacatttgtccaaaaatgtactgagct #### Cdc42bpg_ID1583_13 --> 0 - 0 Original Alignment GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGC-CAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCC---CTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG atcagacagcccatctgaattcattccacccccgccctttctcttttcagGAGCTGCCTCAGGCTCAGGTAGCACTGCAAGTGCAAGATGCTGAATTATGCCCAAGCA---AACCGACAAGAAGAAGTCCTGCAGA-GTTGTGGGAAGCACAGGATAGGGAATCTGCTGCAGCAGGACAGCTTCAGAGCCTAATAAACACTCAGCTCCAAGAAGCATGGGTGGTCCGCAGAGAGgtaagtaaaaggcagcgacacttccatagatgtctttaaatccatgtagc Alignment from CESAR GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGC-CAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTG---AACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG atcagacagcccatctgaattcattccacccccgccctttctcttttcagGAGCTGCCTCAGGCTCAGGTAGCACTGCAAGTGCAAGATGCTGAATTATGCCCAAGCA---AACCGACAAGAAGAAGTCCTGCAG-AGTTGTGGGAAGCACAGGATAGGGAATCTGCTGCAGCAGGACAGCTTCAGAGCCTAATAAACACTCAGCTCCAAGAAGCATGGGTGGTCCGCAGAGAGgtaagtaaaaggcagcgacacttccatagatgtctttaaatccatgtagc Alignment from Spaln_aa2Genome GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG atcagacagcccatctgaattcattccacccccgccctttctcttttcagGAGCTGCCTCAGGCTCAGGTAGCACTGCAAGTGCAAGATGCTGAATTATGCCCAAGCAAACCGACAAGAAGAAGTCCTGCAGAGTTGTGGGAAGCACAGGATAGGGAATCTGCTGCAGCAGGACAGCTTCAGAGCCTAATAAACACTCAGCTCCAAGAAGCATGGGTGGTCCGCAGAGAGgtaagtaaaaggcagcgacacttccatagatgtctttaaatccatgtagc Alignment from Spaln_nt2Genome GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGA---ACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG atcagacagcccatctgaattcattccacccccgccctttctcttttcagGAGCTGCCTCAGGCTCAGGTAGCACTGCAAGTGCAAGATGCTGAATTATGCCCA-AGCA-AACCGACAAGAAGAAGTCCTGCAGA-GTTGTGGGAAGCACAGGATAGGGAATCTGCTGCAGCAGGACAGCTTCAGAGCCTAATAAACACTCAGCTCCAAGAAGCATGGGTGGTCCGCAGAGAGgtaagtaaaaggcagcgacacttccatagatgtctttaaatccatgtagc Alignment from Pairagon GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTG-CCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCC---TGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG atcagacagcccatctgaattcattccacccccgccctttctcttttcagGAGCTGCCTCAGGCTCAGGTAGCACTGCAAGTGCAAGATGCTGAATTATGCCCAAGC---AAACCGACAAGAAGAAGTCCTGCAGA-GTTGTGGGAAGCACAGGATAGGGAATCTGCTGCAGCAGGACAGCTTCAGAGCCTAATAAACACTCAGCTCCAAGAAGCATGGGTGGTCCGCAGAGAGgtaagtaaaaggcagcgacacttccatagatgtctttaaatccatgtagc Alignment from Exonerate_protein2genome GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTG---AACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG atcagacagcccatctgaattcattccacccccgccctttctcttttcagGAGCTGCCTCAGGCTCAGGTAGCACTGCAAGTGCAAGATGCTGAATTATGCCCAAGCAAACCGACAAGAAGAAGTCCTGCAGAG---TTGTGGGAAGCACAGGATAGGGAATCTGCTGCAGCAGGACAGCTTCAGAGCCTAATAAACACTCAGCTCCAAGAAGCATGGGTGGTCCGCAGAGAGgtaagtaaaaggcagcgacacttccatagatgtctttaaatccatgtagc Alignment from Exonerate_coding2genome GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTG---AACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG atcagacagcccatctgaattcattccacccccgccctttctcttttcagGAGCTGCCTCAGGCTCAGGTAGCACTGCAAGTGCAAGATGCTGAATTATGCCCAAGCAAACCGACAAGAAGAAGTCCTGCAGAG---TTGTGGGAAGCACAGGATAGGGAATCTGCTGCAGCAGGACAGCTTCAGAGCCTAATAAACACTCAGCTCCAAGAAGCATGGGTGGTCCGCAGAGAGgtaagtaaaaggcagcgacacttccatagatgtctttaaatccatgtagc Alignment from GeneWise GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTG---AACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG atcagacagcccatctgaattcattccacccccgccctttctcttttcagGAGCTGCCTCAGGCTCAGGTAGCACTGCAAGTGCAAGATGCTGAATTATGCCCAAGCAAACCGACAAGAAGAAGTCCTGCAGAG---TTGTGGGAAGCACAGGATAGGGAATCTGCTGCAGCAGGACAGCTTCAGAGCCTAATAAACACTCAGCTCCAAGAAGCATGGGTGGTCCGCAGAGAGgtaagtaaaaggcagcgacacttccatagatgtctttaaatccatgtagc #### Cdc42bpg_ID1586_16 --> 1 - 0 Original Alignment gATCAGTGTTGGG-AAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG gcacttgctgtctggaattggcaaaatattttttccctccactttttaaggATCAGTGTTGGTCAAAATGGAGGTTCTATGCCATCTACAGGCAGTGA-CCAGCAGCTGAGTCGAGAACAGGAGTGGgtaagtatcaagtatgacaaagccagggttgccaccactggcttgtgggt Alignment from CESAR gATCAGTGTTGGG-AAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG gcacttgctgtctggaattggcaaaatattttttccctccactttttaaggATCAGTGTTGGTCAAAATGGAGGTTCTATGCCATCTACAGGCA-GTGACCAGCAGCTGAGTCGAGAACAGGAGTGGgtaagtatcaagtatgacaaagccagggttgccaccactggcttgtgggt Alignment from Spaln_aa2Genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG gcacttgctgtctggaattggcaaaatattttttccctccactttttaagGATCAGTGTTGGTCAAAATGGAGGTTCTATGCCATCTACAGGCAGTGACCAGCAGCTGAGTCGAGAACAGGAGTGGgtaagtatcaagtatgacaaagccagggttgccaccactggcttgtgggt Alignment from Spaln_nt2Genome GATCAGTGTTGGGAAAGA-GGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG gcacttgctgtctggaattggcaaaatattttttccctccactttttaagGATCAGTGTTGGTCAAAATGGAGGTTCTATGCCATCTACAGGCAG-TGACCAGCAGCTGAGTCGAGAACAGGAGTGGgtaagtatcaagtatgacaaagccagggttgccaccactggcttgtgggt Alignment from Pairagon GATCAGTGTTGGGAAAGA-GGAGGTTCTGTGCC-------------GATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG gcacttgctgtctggaattggcaaaatattttttccctccactttttaagGATCAGTGTTGGTCAAAATGGAGGTTCTATGCCATCTACAGGCAGTG--------------ACCAGCAGCTGAGTCGAGAACAGGAGTGGgtaagtatcaagtatgacaaagccagggttgccaccactggcttgtgggt Alignment from Exonerate_protein2genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG gcacttgctgtctggaattggcaaaatattttttccctccactttttaagGATCAGTGTTGGTCAAAATGGAGGTTCTATGCCATCTACAGGCAGTGACCAGCAGCTGAGTCGAGAACAGGAGTGGgtaagtatcaagtatgacaaagccagggttgccaccactggcttgtgggt Alignment from Exonerate_coding2genome gcacttgctgtctggaattggcaaaatattttttccctccactttttaaggatcagtgttggtcaaaatggaggttctatgccatctacaggcagtgaccagcagctgagtcgagaacaggagtgggtaagtatcaagtatgacaaagccagggttgccaccactggcttgtgggt Alignment from GeneWise GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG gcacttgctgtctggaattggcaaaatattttttccctccactttttaagGATCAGTGTTGGTCAAAATGGAGGTTCTATGCCATCTACAGGCAGTGACCAGCAGCTGAGTCGAGAACAGGAGTGGgtaagtatcaagtatgacaaagccagggttgccaccactggcttgtgggt #### Cdc42bpg_ID1595_25 --> 2 - 0 Original Alignment ccTGTGGCTACTTCTGTCACTCAGCT-TGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC acattatttaatgcacatatgtgtgtgttgactattatttatctttgcagcaTGTGGTTATTTCTGT------GCCCTGTGCCTCGCAAACCCCTCCTTGCCCTGTGC-CCCTGAACTTCTTCGCACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGTCAGCCTATGAGGGGTTTTTGTCAgtgagttgggggggttgttcttctcctcactcccccgcagGTACGACAGC Alignment from CESAR ccTGTGGCTACTTCTGTCACTCAGCT-TGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC acattatttaatgcacatatgtgtgtgttgactattatttatctttgcagcaTGTGGTTATTTCTGT------GCCCTGTGCCTCGCAAACCCCTCCTTGCCCTGTGC-CCCTGAACTTCTTCGCACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGTCAGCCTATGAGGGGTTTTTGTCAgtgagttgggggggttgttgtggtaacatggtttttgtagGTACGACAGC Alignment from Spaln_aa2Genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC acattatttaatgcacatatgtgtgtgttgactattatttatctttgcagCATGTGGTTATTTCTGTGCCCTGTGCCTCGCAAACCCCTCCTTGCCCTGT------GCCCCTGAACTTCTTCGCACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGTCAGCCTATGAGGGGTTTTTGTCAgtgagttgggggggttgttcttctcctcactcccccgcagGTACGACAGC Alignment from Spaln_nt2Genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC acattatttaatgcacatatgtgtgtgttgactattatttatctttgcagCATGTGGTTATTTCTGT-----GCCCTGTGCCTCGCAAACCCCTCCTTGCCCTGTG-CCCCTGAACTTCTTCGCACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGTCAGCCTATGAGGGGTTTTTGTCAgtgagttgggggggttgttcttctcctcactcccccgcagGTACGACAGC Alignment from Pairagon CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC acattatttaatgcacatatgtgtgtgttgactattatttatctttgcagCATGTGGTTATTTCTGTGC-----CCTGTGCCTCGCAAACCCCTCCTTGCCCTGTG-CCCCTGAACTTCTTCGCACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGTCAGCCTATGAGGGGTTTTTGTCAgtgagttgggggggttgttcttctcctcactcccccgcagGTACGACAGC Alignment from Exonerate_protein2genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC acattatttaatgcacatatgtgtgtgttgactattatttatctttgcagCATGTGGTTATTTCTGTGCCCTGTGCCTCGCAAACCCCTCCTTGCCCTGT------GCCCCTGAACTTCTTCGCACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGTCAGCCTATGAGGGGTTTTTGTCAgtgagttgggggggttgttcttctcctcactcccccgcagGTACGACAGC Alignment from Exonerate_coding2genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC acattatttaatgcacatatgtgtgtgttgactattatttatctttgcagCATGTGGTTATTTCTGT-----GCCCTGTGCCTCGCAAACCCCTCCTTGCCCTGTGCC-CCTGAACTTCTTCGCACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGTCAGCCTATGAGGGGTTTTTGTCAgtgagttgggggggttgttcttctcctcactcccccgcagGTACGACAGC Alignment from GeneWise CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC acattatttaatgcacatatgtgtgtgttgactattatttatctttgcagCATGTGGTTATTTCTGTGCCCTGTGCCTCGCAAACCCCTCCTTGCCCTGT------GCCCCTGAACTTCTTCGCACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGTCAGCCTATGAGGGGTTTTTGTCAgtgagttgggggggttgttcttctcctcactcccccgcagGTACGACAGC #### Cdc42bpg_ID1597_27 --> 1 - 0 Original Alignment gGACCCCCAGTTCTCAGCCACCCCTGTC-TTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG actgatgcgtgaacaaccaacatggatccatgggatcttctctggctcaggGATCCCCAGTTTTCAGTGACCCCTGACCTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACC-GCCACGCATCTTCAGGgtaaaaaaactaggtgatataggatttagcctccacaggctccggccagc Alignment from CESAR gGACCCCCAGTTCTCAGCCACCCCT-GTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG actgatgcgtgaacaaccaacatggatccatgggatcttctctggctcaggGATCCCCAGTTTTCAGTGACCCCTGACCTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGAC-CGCCACGCATCTTCAGGgtaaaaaaactaggtgatataggatttagcctccacaggctccggccagc Alignment from Spaln_aa2Genome GGACCCCCAGTTCTCAGCCACCCCT-GTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG actgatgcgtgaacaaccaacatggatccatgggatcttctctggctcagGGATCCCCAGTTTTCAGTGACCCCTgACCTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCG-CCACGCATCTTCAGGgtaaaaaaactaggtgatataggatttagcctccacaggctccggccagc Alignment from Spaln_nt2Genome GGACCCCCAGTTCTCAGCCACCCCTGTC-TTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG actgatgcgtgaacaaccaacatggatccatgggatcttctctggctcagGGATCCCCAGTTTTCAGTGACCCCTGACCTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACC-GCCACGCATCTTCAGGgtaaaaaaactaggtgatataggatttagcctccacaggctccggccagc Alignment from Pairagon GGACCCCCAGTTCTCAGCCACCCCTG-TCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG actgatgcgtgaacaaccaacatggatccatgggatcttctctggctcagGGATCCCCAGTTTTCAGTGACCCCTGACCTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACC-GCCACGCATCTTCAGGgtaaaaaaactaggtgatataggatttagcctccacaggctccggccagc Alignment from Exonerate_protein2genome GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG actgatgcgtgaacaaccaacatggatccatgggatcttctctggctcagGGATCCCCAGTTTTCAGTGACCCCTGACCTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCGCCACGCATCTTCAGGgtaaaaaaactaggtgatataggatttagcctccacaggctccggccagc Alignment from Exonerate_coding2genome GGACCCCCAGTTCTCAGCCACCCCTGT---CTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG actgatgcgtgaacaaccaacatggatccatgggatcttctctggctcagGGATCCCCAGTTTTCAGTGACCCCT--GACCTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCG-CCACGCATCTTCAGGgtaaaaaaactaggtgatataggatttagcctccacaggctccggccagc Alignment from GeneWise GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG actgatgcgtgaacaaccaacatggatccatgggatcttctctggctcagGGATCCCCAGTTTTCAGTGACCCCTGACCTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCGCCACGCATCTTCAGGgtaaaaaaactaggtgatataggatttagcctccacaggctccggccagc #### Cdc42bpg_ID1604_34 --> 1 - 0 Original Alignment gGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTC-AACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG caccaataactaattgtcagctatttatgtattttttttttctcttgtaggGAGATGCTGAAAGACCCCTTTGTGCGGTTCAAATTCATTTCACCACCAACCAACTTACATTCACCTGGTTCATGTGGGGCATACAG-GGGGAGGTCCAACACTAGGGATGGGACGCGTgtgagtctggagtaggagatcaccagacctgtcacaaagcttcaatcatg Alignment from CESAR gGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAAC-TTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG caccaataactaattgtcagctatttatgtattttttttttctcttgtaggGAGATGCTGAAAGACCCCTTTGTGCGGTTCAAATTCATTTCACCACCAACCAACTTACATTCACCTGGTTCATGTGGGGCATACA-GGGGGAGGTCCAACACTAGGGATGGGACGCGTgtgagtctggagtaggagatcaccagacctgtcacaaagcttcaatcatg Alignment from Spaln_aa2Genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG caccaataactaattgtcagctatttatgtattttttttttctcttgtagGGAGATGCTGAAAGACCCCTTTGTGCGGTTCAAATTCATTTCACCACCAACCAACTTACATTCACCTGGTTCATGTGGGGCATACAGGGGGAGGTCCAACACTAGGGATGGGACGCGTgtgagtctggagtaggagatcaccagacctgtcacaaagcttcaatcatg Alignment from Spaln_nt2Genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTT-CAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG caccaataactaattgtcagctatttatgtattttttttttctcttgtagGGAGATGCTGAAAGACCCCTTTGTGCGGTTCAAATTCATTTCACCACCAACCAACTTACATTCACCTGGTTCATGTGGGGCATACAG-GGGGAGGTCCAACACTAGGGATGGGACGCGTgtgagtctggagtaggagatcaccagacctgtcacaaagcttcaatcatg Alignment from Pairagon GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTT-CAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG caccaataactaattgtcagctatttatgtattttttttttctcttgtagGGAGATGCTGAAAGACCCCTTTGTGCGGTTCAAATTCATTTCACCACCAACCAACTTACATTCACCTGGTTCATGTGGGGCATACAG-GGGGAGGTCCAACACTAGGGATGGGACGCGTgtgagtctggagtaggagatcaccagacctgtcacaaagcttcaatcatg Alignment from Exonerate_protein2genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG caccaataactaattgtcagctatttatgtattttttttttctcttgtagGGAGATGCTGAAAGACCCCTTTGTGCGGTTCAAATTCATTTCACCACCAACCAACTTACATTCACCTGGTTCATGTGGGGCATACAGGGGGAGGTCCAACACTAGGGATGGGACGCGTgtgagtctggagtaggagatcaccagacctgtcacaaagcttcaatcatg Alignment from Exonerate_coding2genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG caccaataactaattgtcagctatttatgtattttttttttctcttgtagGGAGATGCTGAAAGACCCCTTTGTGCGGTTCAAATTCATTTCACCACCAACCAACTTACATTCACCTGGTTCATGTGGGGCATACAGGGGGAGGTCCAACACTAGGGATGGGACGCGTgtgagtctggagtaggagatcaccagacctgtcacaaagcttcaatcatg Alignment from GeneWise GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG caccaataactaattgtcagctatttatgtattttttttttctcttgtagGGAGATGCTGAAAGACCCCTTTGTGCGGTTCAAATTCATTTCACCACCAACCAACTTACATTCACCTGGTTCATGTGGGGCATACAGGGGGAGGTCCAACACTAGGGATGGGACGCGTgtgagtctggagtaggagatcaccagacctgtcacaaagcttcaatcatg #### Cdc42bpg_ID1605_35 --> 0 - 1 Original Alignment GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGG-CCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAt aatgcaagagtttcatgcagtctgctcttgtcatcttctaccacctgcagGCCCAGGAACAAAAGAGCAGTGGTGCCTGTAGCTCTGGACCCACAACGGCCTCACAGCTTCTTAAAGGCAT-GCAGCGGCCAGTGTCAACAGACAGTGATCGTCCCCCAGGACAAACAGACCCTtgttagtattcgggatagttctcagtgagaaattcccgcttttttccttta Alignment from CESAR GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGG-CCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAt aatgcaagagtttcatgcagtctgctcttgtcatcttctaccacctgcagGCCCAGGAACAAAAGAGCAGTGGTGCCTGTAGCTCTGGACCCACAACGGCCTCACAGCTTCTTAAAGGCA-TGCAGCGGCCAGTGTCAACAGACAGTGATCGTCCCCCAGGACAAACAGACCCTtgttagtattcgggatagttctcagtgagaaattcccgcttttttccttta Alignment from Spaln_aa2Genome GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT aatgcaagagtttcatgcagtctgctcttgtcatcttctaccacctgcagGCCCAGGAACAAAAGAGCAGTGGTGCCTGTAGCTCTGGACCCACAACGGCCTCACAGCTTCTTAAAGGCATGCAGCGGCCAGTGTCAACAGACAGTGATCGTCCCCCAGGACAAACAGACCCTTgttagtattcgggatagttctcagtgagaaattcccgcttttttccttta Alignment from Spaln_nt2Genome GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCG-CAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT aatgcaagagtttcatgcagtctgctcttgtcatcttctaccacctgcagGCCCAGGAACAAAAGAGCAGTGGTGCCTGTAGCTCTGGACCCACAACGGCCTCACAGCTTCTTAAAGGCA-TGCAGCGGCCAGTGTCAACAGACAGTGATCGTCCCCCAGGACAAACAGACCCTTgttagtattcgggatagttctcagtgagaaattcccgcttttttccttta Alignment from Pairagon GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGG-CCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT aatgcaagagtttcatgcagtctgctcttgtcatcttctaccacctgcagGCCCAGGAACAAAAGAGCAGTGGTGCCTGTAGCTCTGGACCCACAACGGCCTCACAGCTTCTTAAAGGCA-TGCAGCGGCCAGTGTCAACAGACAGTGATCGTCCCCCAGGACAAACAGACCCTTgttagtattcgggatagttctcagtgagaaattcccgcttttttccttta Alignment from Exonerate_protein2genome GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT aatgcaagagtttcatgcagtctgctcttgtcatcttctaccacctgcagGCCCAGGAACAAAAGAGCAGTGGTGCCTGTAGCTCTGGACCCACAACGGCCTCACAGCTTCTTAAAGGCATGCAGCGGCCAGTGTCAACAGACAGTGATCGTCCCCCAGGACAAACAGACCCTTgttagtattcgggatagttctcagtgagaaattcccgcttttttccttta Alignment from Exonerate_coding2genome GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT aatgcaagagtttcatgcagtctgctcttgtcatcttctaccacctgcagGCCCAGGAACAAAAGAGCAGTGGTGCCTGTAGCTCTGGACCCACAACGGCCTCACAGCTTCTTAAAGGCATGCAGCGGCCAGTGTCAACAGACAGTGATCGTCCCCCAGGACAAACAGACCCTTgttagtattcgggatagttctcagtgagaaattcccgcttttttccttta Alignment from GeneWise GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT aatgcaagagtttcatgcagtctgctcttgtcatcttctaccacctgcagGCCCAGGAACAAAAGAGCAGTGGTGCCTGTAGCTCTGGACCCACAACGGCCTCACAGCTTCTTAAAGGCATGCAGCGGCCAGTGTCAACAGACAGTGATCGTCCCCCAGGACAAACAGACCCTTgttagtattcgggatagttctcagtgagaaattcccgcttttttccttta #### Cdca5_ID1428_2 --> 2 - 0 Original Alignment ggCCCAGGACTTCACTTACTAAGCCTTCGAAGTCG-TCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG ccatgtacctggtgatgggttatttgacctttattaccgttatgttgtaggaCCAAGGACTTTACTAACTCAGCCTTCAGAGTCACCTAAAACACAAGTCATGTTCAGACCTCACAAACT-ATTTTCTGAAACCTGGCAACGGgtgagtactgacctccctggtctgaaagcagctgcatacaccacaatttc Alignment from CESAR ggCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCC-AAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG ccatgtacctggtgatgggttatttgacctttattaccgttatgttgtaggaCCAAGGACTTTACTAACTCAGCCTTCAGAGTCACCTAAAACACAAGTCATGTTCAGACCTCACAAAC-TATTTTCTGAAACCTGGCAACGGgtgagtactgacctccctggtctgaaagcagctgcatacaccacaatttc Alignment from Spaln_aa2Genome GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG ccatgtacctggtgatgggttatttgacctttattaccgttatgttgtagGACCAAGGACTTTACTAACTCAGCCTTCAGAGTCACCTAAAACACAAGTCATGTTCAGACCTCACAAACTATTTTCTGAAACCTGGCAACGGgtgagtactgacctccctggtctgaaagcagctgcatacaccacaatttc Alignment from Spaln_nt2Genome GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAG-CGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG ccatgtacctggtgatgggttatttgacctttattaccgttatgttgtagGACCAAGGACTTTACTAACTCAGCCTTCAGAGTCACCTAAAACACAAGTCATGTTCAGACCTCACAAACT-ATTTTCTGAAACCTGGCAACGGgtgagtactgacctccctggtctgaaagcagctgcatacaccacaatttc Alignment from Pairagon GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTC------------------GTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG ccatgtacctggtgatgggttatttgacctttattaccgttatgttgtagGACCAAGGACTTTACTAACTCAGCCTTCAGAGTCACCTAAAACACAAGTCATGT-----------------TCAGACCTCACAAACT-ATTTTCTGAAACCTGGCAACGGgtgagtactgacctccctggtctgaaagcagctgcatacaccacaatttc Alignment from Exonerate_protein2genome ccatgtacctggtgatgggttatttgacctttattaccgttatgttgtaggaccaaggactttactaactcagccttcagagtcacctaaaacacaagtcatgttcagacctcacaaactattttctgaaacctggcaacgggtgagtactgacctccctggtctgaaagcagctgcatacaccacaatttc Alignment from Exonerate_coding2genome ccatgtacctggtgatgggttatttgacctttattaccgttatgttgtaggaccaaggactttactaactcagccttcagagtcacctaaaacacaagtcatgttcagacctcacaaactattttctgaaacctggcaacgggtgagtactgacctccctggtctgaaagcagctgcatacaccacaatttc Alignment from GeneWise ccatgtacctggtgatgggttatttgacctttattaccgttatgttgtaggaccaaggactttactaactcagccttcagagtcacctaaaacacaagtcatgttcagacctcacaaactattttctgaaacctggcaacgggtgagtactgacctccctggtctgaaagcagctgcatacaccacaatttc #### Cdk2ap2_ID299_3 --> 0 - 1 Original Alignment GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACG-GACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAg gcccaaacccctattgggggtatttgagaaacttcttgttcatgtcacagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCACCTTCACCCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAGGAAATCC-ACCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAggtgagtgcatccaagggtaagctatgacaggacagcataattggaaaagt Alignment from CESAR GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACG-GACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAg gcccaaacccctattgggggtatttgagaaacttcttgttcatgtcacagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCACCTTCACCCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAGGAAATC-CACCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAggtgagtgcatccaagggtaagctatgacaggacagcataattggaaaagt Alignment from Spaln_aa2Genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACG-GACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gcccaaacccctattgggggtatttgagaaacttcttgttcatgtcacagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCACCTTCACCcGACCTGCTGTCTGTTATAGAGGAGATGGGCAAGGAAATCCACCC-ACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAGgtgagtgcatccaagggtaagctatgacaggacagcataattggaaaagt Alignment from Spaln_nt2Genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACG-GACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gcccaaacccctattgggggtatttgagaaacttcttgttcatgtcacagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCACCTTCACCCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAGGAAATCC-ACCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAGgtgagtgcatccaagggtaagctatgacaggacagcataattggaaaagt Alignment from Pairagon ----------------------------------------------ACAGGCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACA-CGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG GCCCAAACCCCTATTGGGGGTATTTGAGAAACTTCTTGTTCATGTCACAGGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCACCTTCACCCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAGGAAATCC-ACCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAGgtgagtgcatccaagggtaagctatgacaggacagcataattggaaaagt Alignment from Exonerate_protein2genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACG-GACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATC--CGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gcccaaacccctattgggggtatttgagaaacttcttgttcatgtcacagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCACCTTCACCCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAGGAAATCCA---CCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAGgtgagtgcatccaagggtaagctatgacaggacagcataattggaaaagt Alignment from Exonerate_coding2genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACG-GACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gcccaaacccctattgggggtatttgagaaacttcttgttcatgtcacagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCACCTTCACCCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAGGAAATCCAC-CCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAGgtgagtgcatccaagggtaagctatgacaggacagcataattggaaaagt Alignment from GeneWise GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gcccaaacccctattgggggtatttgagaaacttcttgttcatgtcacagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCACCTTCACCCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAGGAAATCCACCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAGgtgagtgcatccaagggtaagctatgacaggacagcataattggaaaagt #### Cep78_ID3983_3 --> 0 - 1 Original Alignment GGACTGAGTAAA-TCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAa ttggccatctcaataggtagatacccgagtgtcctctctctctgccctagGGATTGAGCAAACTCAACCTCTCTGGTGCACTTGTCTCTTGCAAATT-CCCAATTGGAGATGGAGGGTTAGAAagtgagttaatatattttataaccattcttggtgcctctcatatgcaccca Alignment from CESAR GGACTGAGTAAA-TCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAa ttggccatctcaataggtagatacccgagtgtcctctctctctgccctagGGATTGAGCAAACTCAACCTCTCTGGTGCACTTGTCTCTTGCAAAT-TCCCAATTGGAGATGGAGGGTTAGAAagtgagttaatatattttataaccattcttggtgcctctcatatgcaccca Alignment from Spaln_aa2Genome GTAAATCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAA ttggccatctcaataggtagatacccgagtgtcctctctctctgccctagggattgagCAAACTCAACCTCTCTGGTGCACTTGTCTCTTGCAAATTC-CCAATTGGAGATGGAGGGTTAGAAAgtgagttaatatattttataaccattcttggtgcctctcatatgcaccca Alignment from Spaln_nt2Genome GGACTGAGTAAA-TCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAA ttggccatctcaataggtagatacccgagtgtcctctctctctgccctagGGATTGAGCAAACTCAACCTCTCTGGTGCACTTGTCTCTTGCAAATT-CCCAATTGGAGATGGAGGGTTAGAAAgtgagttaatatattttataaccattcttggtgcctctcatatgcaccca Alignment from Pairagon GGACTGAGTAAA-TCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAA ttggccatctcaataggtagatacccgagtgtcctctctctctgccctagGGATTGAGCAAACTCAACCTCTCTGGTGCACTTGTCTCTTGCAAATT-CCCAATTGGAGATGGAGGGTTAGAAAgtgagttaatatattttataaccattcttggtgcctctcatatgcaccca Alignment from Exonerate_protein2genome GGACTGAGTAAATCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAA ttggccatctcaataggtagatacccgagtgtcctctctctctgccctagGGATTGAGCAAACTCAACCTCTCTGGTGCACTTGTCTCTTGCAAATTCCCAATTGGAGATGGAGGGTTAGAAAgtgagttaatatattttataaccattcttggtgcctctcatatgcaccca Alignment from Exonerate_coding2genome GGACTGAGTAAATCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAA ttggccatctcaataggtagatacccgagtgtcctctctctctgccctagGGATTGAGCAAACTCAACCTCTCTGGTGCACTTGTCTCTTGCAAATTCCCAATTGGAGATGGAGGGTTAGAAAgtgagttaatatattttataaccattcttggtgcctctcatatgcaccca Alignment from GeneWise GGACTGAGTAAATCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAA ttggccatctcaataggtagatacccgagtgtcctctctctctgccctagGGATTGAGCAAACTCAACCTCTCTGGTGCACTTGTCTCTTGCAAATTCCCAATTGGAGATGGAGGGTTAGAAAgtgagttaatatattttataaccattcttggtgcctctcatatgcaccca #### Col17a1_ID10275_47 --> 2 - 1 Original Alignment ccGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGT-CCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAa cattcatgtcctgcctaatgctgtttcttcatgttttcatctcattttagccACAAGTTTGTCGTCCACCCCAGGCCCTGCAGGTCCATCAGGGCCACCAGCTCCCCCGAGGGCCCCCTGGGGTTTCAACTGCCT-CTCTACATATGCTGCAGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACGagtaagtatcgtagtcattagcatgtttggccagacacaagtgaaactact Alignment from CESAR ccGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCT-CGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAa cattcatgtcctgcctaatgctgtttcttcatgttttcatctcattttagccACAAGTTTGTCGTCCACCCCAGGCCCTGCAGGTCCATCAGGGCCACCAGCTCCCCCGAGGGCCCCCTGGGGTTTCAACTG-CCTCTCTACATATGCTGCAGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACGagtaagtatcgtagtcattagcatgtttggccagacacaagtgaaactact Alignment from Spaln_aa2Genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA cattcatgtcctgcctaatgctgtttcttcatgttttcatctcattttagCCACAAGTTTGTCGTCCACCCCAGGCCCTGCAGGTCCATCAGGGCCACCAGCTCCCCCGAGGGCCCCCTGGGGTTTCAACTGCCTCTCTACATATGCTGCAGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACGAgtaagtatcgtagtcattagcatgtttggccagacacaagtgaaactact Alignment from Spaln_nt2Genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTC-GAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA cattcatgtcctgcctaatgctgtttcttcatgttttcatctcattttagCCACAAGTTTGTCGTCCACCCCAGGCCCTGCAGGTCCATCAGGGCCACCAGCTCCCCCGAGGGCCCCCTGGGGTTTCAACTGC-CTCTCTACATATGCTGCAGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACGAgtaagtatcgtagtcattagcatgtttggccagacacaagtgaaactact Alignment from Pairagon CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGT-CCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA cattcatgtcctgcctaatgctgtttcttcatgttttcatctcattttagCCACAAGTTTGTCGTCCACCCCAGGCCCTGCAGGTCCATCAGGGCCACCAGCTCCCCCGAGGGCCCCCTGGGGTTTCAACTGC-CTCTCTACATATGCTGCAGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACGAgtaagtatcgtagtcattagcatgtttggccagacacaagtgaaactact Alignment from Exonerate_protein2genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA cattcatgtcctgcctaatgctgtttcttcatgttttcatctcattttagCCACAAGTTTGTCGTCCACCCCAGGCCCTGCAGGTCCATCAGGGCCACCAGCTCCCCCGAGGGCCCCCTGGGGTTTCAACTGCCTCTCTACATATGCTGCAGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACGAgtaagtatcgtagtcattagcatgtttggccagacacaagtgaaactact Alignment from Exonerate_coding2genome cattcatgtcctgcctaatgctgtttcttcatgttttcatctcattttagccacaagtttgtcgtccaccccaggccctgcaggtccatcagggccaccagctcccccgagggccccctggggtttcaactgcctctctacatatgctgcagaaaacagtgataacttccgatgtgagctgattagttacctcacgagtaagtatcgtagtcattagcatgtttggccagacacaagtgaaactact Alignment from GeneWise CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA cattcatgtcctgcctaatgctgtttcttcatgttttcatctcattttagCCACAAGTTTGTCGTCCACCCCAGGCCCTGCAGGTCCATCAGGGCCACCAGCTCCCCCGAGGGCCCCCTGGGGTTTCAACTGCCTCTCTACATATGCTGCAGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACGAgtaagtatcgtagtcattagcatgtttggccagacacaagtgaaactact #### Col17a1_ID10276_46 --> 2 - 1 Original Alignment gtTCTGGGATCAGCTTT-GGGCATCCTGGC---CCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAg tactctagcaggctcaaaattctcctgcctgatctctttccccctatcaggtGCTGGACTTAGCTTTCGGACATCCAGGCCCATCACCT---------------GCTGGAA-TTCTTATGAAAAGTTACTGTCCATGCTTAAAggtacaccacaacccagaattgtccataaactcagaatggtgcaaggggtg Alignment from CESAR gtTCTGGGATCAGCTTT-GGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAg tactctagcaggctcaaaattctcctgcctgatctctttccccctatcaggtGCTGGACTTAGCTTTCGGACATCCAGGCCCATCA---CCTGCT---------GGA-ATTCTTATGAAAAGTTACTGTCCATGCTTAAAggtacaccacaacccagaattgtccataaactcagaatggtgcaaggggtg Alignment from Spaln_aa2Genome GTTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAG tactctagcaggctcaaaattctcctgcctgatctctttccccctatcagGTGCTGGACTTAGCTTTCGGACATCCAGGCCCATCACC------------TGCTGGAATTCTTATGAAAAGTTACTGTCCATGCTTAAAGgtacaccacaacccagaattgtccataaactcagaatggtgcaaggggtg Alignment from Spaln_nt2Genome GTTCTGGGATCAGCTTTGGG-CATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAG tactctagcaggctcaaaattctcctgcctgatctctttccccctatcagGTGCTGGACTTAGCTTTCGGACATCCAGGCCCATC---ACCTGCTGG----------AATTCTTATGAAAAGTTACTGTCCATGCTTAAAGgtacaccacaacccagaattgtccataaactcagaatggtgcaaggggtg Alignment from Pairagon tactctagcaggctcaaaattctcctgcctgatctctttccccctatcaggtgctggacttagctttcggacatccaggcccatcacctgctggaattcttatgaaaagttactgtccatgcttaaaggtacaccacaacccagaattgtccataaactcagaatggtgcaaggggtg Alignment from Exonerate_protein2genome GCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAG tactctagcaggctcaaaattctcctgcctgatctctttccccctatcagGTGCTGGACTTAGCTTTCGGACATCCAGGCCCATCACCTGCTGGAATTCTTATGAAAAGTTACTGTCCATGCTTAAAGgtacaccacaacccagaattgtccataaactcagaatggtgcaaggggtg Alignment from Exonerate_coding2genome tactctagcaggctcaaaattctcctgcctgatctctttccccctatcaggtgctggacttagctttcggacatccaggcccatcacctgctggaattcttatgaaaagttactgtccatgcttaaaggtacaccacaacccagaattgtccataaactcagaatggtgcaaggggtg Alignment from GeneWise tactctagcaggctcaaaattctcctgcctgatctctttccccctatcaggtgctggacttagctttcggacatccaggcccatcacctgctggaattcttatgaaaagttactgtccatgcttaaaggtacaccacaacccagaattgtccataaactcagaatggtgcaaggggtg #### Col17a1_ID10279_43 --> 2 - 1 Original Alignment gtGACAACATCAGGACTTATCTCTCAGGGGTT-CAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGt agtctgaaactgtctctgtccagcatgtctttcctcctcttcctctccaggtGGTAACATCAGGACAGATCTGCTAGGAGTTCCAGGGGCCCCCTGGT------------CCTGGATCTGTGATCA-TATTAAGGGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACAAtgtaagtttctgtggttttcacttcctcagtttgtgttgttctctgtatgg Alignment from CESAR gtGACAACATCAGGACTTATCTCTCAGGGGTT-CAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGt agtctgaaactgtctctgtccagcatgtctttcctcctcttcctctccaggtGGTAACATCAGGACAGATCTGCTAGGAGTTCCAGGGGCCCCCTGGT------------CCTGGATCTGTGATC-ATATTAAGGGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACAAtgtaagtttctgtggttttcacttcctcagtttgtgttgttctctgtatgg Alignment from Spaln_aa2Genome GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT agtctgaaactgtctctgtccagcatgtctttcctcctcttcctctccagGTGGTAACATCAGGACAGATCTGCTAGGAGTTCCAGGGGCCCCCTGG------------TCCTGGATCTGTGATCATATTAAGGGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACAATgtaagtttctgtggttttcacttcctcagtttgtgttgttctctgtatgg Alignment from Spaln_nt2Genome GTGACAACATCAGGACTTATCTCTCAGGGGTTC-AGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT agtctgaaactgtctctgtccagcatgtctttcctcctcttcctctccagGTGGTAACATCAGGACAGATCTGCTAGGAGTTCCAGGGGCCCCCTGG------------TCCTGGATCTGTGATCA-TATTAAGGGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACAATgtaagtttctgtggttttcacttcctcagtttgtgttgttctctgtatgg Alignment from Pairagon GTGACAACATCAGGACTTATCTCTCAGGGGTT-CAGGGTCCCCC-------------------------AGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT agtctgaaactgtctctgtccagcatgtctttcctcctcttcctctccagGTGGTAACATCAGGACAGATCTGCTAGGAGTTCCAGGGGCCCCCTGGTCCTGGATCTGTGATCATATTAAG--------------------------------------GGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACAATgtaagtttctgtggttttcacttcctcagtttgtgttgttctctgtatgg Alignment from Exonerate_protein2genome TATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACC-----ATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT agtctgaaactgtctctgtccagcatgtctttcctcctcttcctctccagGTGGTAACATCAGGACAGATCTGCTAGGAGTTCCAGGGGCCCCCTGGTCCTGGATCTGTGATCATATTAAGGGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACAATgtaagtttctgtggttttcacttcctcagtttgtgttgttctctgtatgg Alignment from Exonerate_coding2genome agtctgaaactgtctctgtccagcatgtctttcctcctcttcctctccaggtggtaacatcaggacagatctgctaggagttccaggggccccctggtcctggatctgtgatcatattaagggagagacttttgattactctcaactggcaagtcatgaagttagctacctacaatgtaagtttctgtggttttcacttcctcagtttgtgttgttctctgtatgg Alignment from GeneWise GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACC------ATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT agtctgaaactgtctctgtccagcatgtctttcctcctcttcctctccagGTGGTAACATCAGGACAGATCTGCTAGGAGTT------------------CCAGGGGCCCCCTGGTCCTGGATCTGTGATCATATTAAGGGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACAATgtaagtttctgtggttttcacttcctcagtttgtgttgttctctgtatgg #### Col17a1_ID10288_34 --> 2 - 1 Original Alignment agGGATCATCAACAATCACT-GTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAg tagttgaggatagtgtaacatggcatatgcatttatttttcttcctttagaaGGATCCTCAACCATCACTCGTCCCTGGGACTCCCGGACCTTCAGGTGCCA-GGATCCTCCTGGGCCTCCAGGGACACTTagtaaacctattctactttttgccaacaaatcaacaatgatttacataaat Alignment from CESAR agGGATCATCAACAATCACT-GTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAg tagttgaggatagtgtaacatggcatatgcatttatttttcttcctttagaaGGATCCTCAACCATCACTCGTCCCTGGGACTCCCGGACCTTCAGGTGCC-AGGATCCTCCTGGGCCTCCAGGGACACTTagtaaacctattctactttttgccaacaaatcaacaatgatttacataaat Alignment from Spaln_aa2Genome AGGGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAG tagttgaggatagtgtaacatggcatatgcatttatttttcttcctttagAAGGATCCTCAACCATCACTCGTCCCTGGGACTCCCGGACCTTCAGGTGCCAGGATCCTCCTGGGCCTCCAGGGACACTTAgtaaacctattctactttttgccaacaaatcaacaatgatttacataaat Alignment from Spaln_nt2Genome AGGGATCATCAACAATCACT-GTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAG tagttgaggatagtgtaacatggcatatgcatttatttttcttcctttagAAGGATCCTCAACCATCACTCGTCCCTGGGACTCCCGGACCTTCAGGTGCCA-GGATCCTCCTGGGCCTCCAGGGACACTTAgtaaacctattctactttttgccaacaaatcaacaatgatttacataaat Alignment from Pairagon AGGGATCATCAACAATCACT-GTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAG tagttgaggatagtgtaacatggcatatgcatttatttttcttcctttagAAGGATCCTCAACCATCACTCGTCCCTGGGACTCCCGGACCTTCAGGTGCCA-GGATCCTCCTGGGCCTCCAGGGACACTTAgtaaacctattctactttttgccaacaaatcaacaatgatttacataaat Alignment from Exonerate_protein2genome AGGGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAG tagttgaggatagtgtaacatggcatatgcatttatttttcttcctttagAAGGATCCTCAACCATCACTCGTCCCTGGGACTCCCGGACCTTCAGGTGCCAGGATCCTCCTGGGCCTCCAGGGACACTTAgtaaacctattctactttttgccaacaaatcaacaatgatttacataaat Alignment from Exonerate_coding2genome AGGGATCATCAACAATCACT-GTGCCCGGACCTCCCGGACCTCCTGGTGCCATG tagttgaggatagtgtaacatggcatatgcatttatttttcttcctttagAAGGATCCTCAACCATCACTCGTCCCTGGGACTCCCGGACCTTCAGGTGCCAGGatcctcctgggcctccagggacacttagtaaacctattctactttttgccaacaaatcaacaatgatttacataaat Alignment from GeneWise AGGGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAG tagttgaggatagtgtaacatggcatatgcatttatttttcttcctttagAAGGATCCTCAACCATCACTCGTCCCTGGGACTCCCGGACCTTCAGGTGCCAGGATCCTCCTGGGCCTCCAGGGACACTTAgtaaacctattctactttttgccaacaaatcaacaatgatttacataaat #### Coro1b_ID352_2 --> 0 - 0 Original Alignment ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCAC-ACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG ctagatgagccaaaacgcttaagatgagtctcatcctggttatctcctagACTGGCCATGTGGACAAGGCATTCCCAACAGTCTGTGGACACCACAGGGTCTGTTCTAGATATAGACTGGTGTC-GCACAATGATGAAGTCATTGCCAGCGGAGCAGAAGATTGTACTGTTACAgtaaaaaaaacctgttcagtttttattgtttcaagtgcaccaacttctag Alignment from CESAR ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCAC-ACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG ctagatgagccaaaacgcttaagatgagtctcatcctggttatctcctagACTGGCCATGTGGACAAGGCATTCCCAACAGTCTGTGGACACCACAGGGTCTGTTCTAGATATAGACTGGTGT-CGCACAATGATGAAGTCATTGCCAGCGGAGCAGAAGATTGTACTGTTACAgtaaaaaaaacctgttcagtttttattgtttcaagtgcaccaacttctag Alignment from Spaln_aa2Genome ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG ctagatgagccaaaacgcttaagatgagtctcatcctggttatctcctagACTGGCCATGTGGACAAGGCATTCCCAACAGTCTGTGGACACCACAGGGTCTGTTCTAGATATAGACTGGTGTCGCACAATGATGAAGTCATTGCCAGCGGAGCAGAAGATTGTACTGTTACAgtaaaaaaaacctgttcagtttttattgtttcaagtgcaccaacttctag Alignment from Spaln_nt2Genome ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCAC-ACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG ctagatgagccaaaacgcttaagatgagtctcatcctggttatctcctagACTGGCCATGTGGACAAGGCATTCCCAACAGTCTGTGGACACCACAGGGTCTGTTCTAGATATAGACTGGTGT-CGCACAATGATGAAGTCATTGCCAGCGGAGCAGAAGATTGTACTGTTACAgtaaaaaaaacctgttcagtttttattgtttcaagtgcaccaacttctag Alignment from Pairagon ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCA-CACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG ctagatgagccaaaacgcttaagatgagtctcatcctggttatctcctagACTGGCCATGTGGACAAGGCATTCCCAACAGTCTGTGGACACCACAGGGTCTGTTCTAGATATAGACTGGTGT-CGCACAATGATGAAGTCATTGCCAGCGGAGCAGAAGATTGTACTGTTACAgtaaaaaaaacctgttcagtttttattgtttcaagtgcaccaacttctag Alignment from Exonerate_protein2genome ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG ctagatgagccaaaacgcttaagatgagtctcatcctggttatctcctagACTGGCCATGTGGACAAGGCATTCCCAACAGTCTGTGGACACCACAGGGTCTGTTCTAGATATAGACTGGTGTCGCACAATGATGAAGTCATTGCCAGCGGAGCAGAAGATTGTACTGTTACAgtaaaaaaaacctgttcagtttttattgtttcaagtgcaccaacttctag Alignment from Exonerate_coding2genome ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG ctagatgagccaaaacgcttaagatgagtctcatcctggttatctcctagACTGGCCATGTGGACAAGGCATTCCCAACAGTCTGTGGACACCACAGGGTCTGTTCTAGATATAGACTGGTGTCGCACAATGATGAAGTCATTGCCAGCGGAGCAGAAGATTGTACTGTTACAgtaaaaaaaacctgttcagtttttattgtttcaagtgcaccaacttctag Alignment from GeneWise ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG ctagatgagccaaaacgcttaagatgagtctcatcctggttatctcctagACTGGCCATGTGGACAAGGCATTCCCAACAGTCTGTGGACACCACAGGGTCTGTTCTAGATATAGACTGGTGTCGCACAATGATGAAGTCATTGCCAGCGGAGCAGAAGATTGTACTGTTACAgtaaaaaaaacctgttcagtttttattgtttcaagtgcaccaacttctag #### Coro1b_ID353_3 --> 0 - 1 Original Alignment GTATGGCAGATTCCAGAA-AATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC------AAGCGCGTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAg aatgataccctctcttgatgattgacccgttttttacattttctccctagATCTGGCAGATCCCAGAGCAATGGTTTGACC---CCACTGACAGAGC-TGTAGTTGTGCCTGAGGGGCATACAATTAAACGACATCTGGGTATTACTACTTGGCATCCTACTGCCCAAATTGTGATTCTTGGTGCTggtaagtttattatgcccagaccatgctctctactctagtttcagttcagc Alignment from CESAR GTATGGCAGATTCCAGAA-AATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC---AAGCGC---GTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAg aatgataccctctcttgatgattgacccgttttttacattttctccctagATCTGGCAGATCCCAGAGCAATGGTTTGACC---CCACTGACAGAG-CTGTAGTTGTGCCTGAGGGGCATACAATTAAACGACATCTGGGTATTACTACTTGGCATCCTACTGCCCAAATTGTGATTCTTGGTGCTggtaagtttattatgcccagaccatgctctctactctagtttcagttcagc Alignment from Spaln_aa2Genome GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC------AAGCGCGTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAG aatgataccctctcttgatgattgacccgttttttacattttctccctagATCTGGCAGATCCCAGAGCAATGGTTT---GACCCCACTGACAGAGCTGTAGTTGTGCCTGAGGGGCATACAATTAAACGACATCTGGGTATTACTACTTGGCATCCTACTGCCCAAATTGTGATTCTTGGTGCTGgtaagtttattatgcccagaccatgctctctactctagtttcagttcagc Alignment from Spaln_nt2Genome GTATGGCAGATTCCAGAA-AATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACCA---AGCGCG---TGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAG aatgataccctctcttgatgattgacccgttttttacattttctccctagATCTGGCAGATCCCAGAGCAATGGTTTGA---CCCCACTGACAGAG-CTGTAGTTGTGCCTGAGGGGCATACAATTAAACGACATCTGGGTATTACTACTTGGCATCCTACTGCCCAAATTGTGATTCTTGGTGCTGgtaagtttattatgcccagaccatgctctctactctagtttcagttcagc Alignment from Pairagon GTATGGCAGATTCCAGAA-AATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATAC-------------CAAGCGCGTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAG aatgataccctctcttgatgattgacccgttttttacattttctccctagATCTGGCAGATCCCAGAGCAATGGTTTGA---CCCCACTGACAGAGCT-GTAGTTGTGCCTGAGGGGCATACAATTAAACGACATC-------TGGGTATTACTACTTGGCATCCTACTGCCCAAATTGTGATTCTTGGTGCTGgtaagtttattatgcccagaccatgctctctactctagtttcagttcagc Alignment from Exonerate_protein2genome GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC------AAGCGCGTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAG aatgataccctctcttgatgattgacccgttttttacattttctccctagATCTGGCAGATCCCAGAGCAATGGTTT---GACCCCACTGACAGAGCTGTAGTTGTGCCTGAGGGGCATACAATTAAACGACATCTGGGTATTACTACTTGGCATCCTACTGCCCAAATTGTGATTCTTGGTGCTGgtaagtttattatgcccagaccatgctctctactctagtttcagttcagc Alignment from Exonerate_coding2genome aatgataccctctcttgatgattgacccgttttttacattttctccctagatctggcagatcccagagcaatggtttgaccccactgacagagctgtagttgtgcctgaggggcatacaattaaacgacatctgggtattactacttggcatcctactgcccaaattgtgattcttggtgctggtaagtttattatgcccagaccatgctctctactctagtttcagttcagc Alignment from GeneWise GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC------AAGCGCGTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAG aatgataccctctcttgatgattgacccgttttttacattttctccctagATCTGGCAGATCCCAGAGCAATGGTTT---GACCCCACTGACAGAGCTGTAGTTGTGCCTGAGGGGCATACAATTAAACGACATCTGGGTATTACTACTTGGCATCCTACTGCCCAAATTGTGATTCTTGGTGCTGgtaagtttattatgcccagaccatgctctctactctagtttcagttcagc #### Coro1b_ID354_4 --> 2 - 0 Original Alignment gtTGTGACAATGTGGTACTTATCTGGAATGTG-GGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA atttaattcgttacaaactcatttgcacatgtctgtccttgcctctccaggaTGTGACAATGTGCTACTTATCTGGAATGTGCGATGCTGCAGAAGAGCTGTACCGTTTGGACA-TTTGCATCCTGACCTTGCTTATAATGTCAGTTGGAACCACATTGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtaggcacaaatgagtattctgtttttgactactgtccctcttccaccct Alignment from CESAR gtTGTGACAATGTGGTACTTATCTGGAATGTG-GGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA atttaattcgttacaaactcatttgcacatgtctgtccttgcctctccaggaTGTGACAATGTGCTACTTATCTGGAATGTGCGATGCTGCAGAAGAGCTGTACCGTTTGGAC-ATTTGCATCCTGACCTTGCTTATAATGTCAGTTGGAACCACATTGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtaggcacaaatgagtattctgtttttgactctttccttcttccctgtga Alignment from Spaln_aa2Genome GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA atttaattcgttacaaactcatttgcacatgtctgtccttgcctctccagGATGTGACAATGTGCTACTTATCTGGAATGTGCGATGCTGCAGAAGAGCTGTACCGTTTGGACATTTGCATCCTGACCTTGCTTATAATGTCAGTTGGAACCACATTGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtaggcacaaatgagtattctgtttttgactactgtccctcttccaccct Alignment from Spaln_nt2Genome GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCA-CTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA atttaattcgttacaaactcatttgcacatgtctgtccttgcctctccagGATGTGACAATGTGCTACTTATCTGGAATGTGCGATGCTGCAGAAGAGCTGTACCGTTTGGACA-TTTGCATCCTGACCTTGCTTATAATGTCAGTTGGAACCACATTGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtaggcacaaatgagtattctgtttttgactactgtccctcttccaccct Alignment from Pairagon GTTGTGACAATGTGGTACTTATCTGGAATGTG-GGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA atttaattcgttacaaactcatttgcacatgtctgtccttgcctctccagGATGTGACAATGTGCTACTTATCTGGAATGTGCGATGCTGCAGAAGAGCTGTACCGTTTGGACA-TTTGCATCCTGACCTTGCTTATAATGTCAGTTGGAACCACATTGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtaggcacaaatgagtattctgtttttgactactgtccctcttccaccct Alignment from Exonerate_protein2genome GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA atttaattcgttacaaactcatttgcacatgtctgtccttgcctctccagGATGTGACAATGTGCTACTTATCTGGAATGTGCGATGCTGCAGAAGAGCTGTACCGTTTGGACATTTGCATCCTGACCTTGCTTATAATGTCAGTTGGAACCACATTGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtaggcacaaatgagtattctgtttttgactactgtccctcttccaccct Alignment from Exonerate_coding2genome GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA atttaattcgttacaaactcatttgcacatgtctgtccttgcctctccagGATGTGACAATGTGCTACTTATCTGGAATGTGCGATGCTGCAGAAGAGCTGTACCGTTTGGACATTTGCATCCTGACCTTGCTTATAATGTCAGTTGGAACCACATTGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtaggcacaaatgagtattctgtttttgactactgtccctcttccaccct Alignment from GeneWise GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA atttaattcgttacaaactcatttgcacatgtctgtccttgcctctccagGATGTGACAATGTGCTACTTATCTGGAATGTGCGATGCTGCAGAAGAGCTGTACCGTTTGGACATTTGCATCCTGACCTTGCTTATAATGTCAGTTGGAACCACATTGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtaggcacaaatgagtattctgtttttgactactgtccctcttccaccct #### Coro1b_ID357_7 --> 0 - 2 Original Alignment GGCGATTCCAGCATCCGGTACTTTGAGATCACAGAT-GAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCag tggatactaatggacattcctttaattgactcttgtattttttttttcagGGTGATTCTAGTATCCGGTACTTTGAAAACACAGATCGAACCC---CACATCCAGTTCTTGAACACAT-TGCTAGCAAAGAACCCCAAAGGGGTATGGGCAGCATGCTGGAGAGGGGCCTGGCAGTCAGCAAGTGTGAAATAGCCcggtgagtacaatcagtggttgtatatcagttatctcattcttagttgaaac Alignment from CESAR GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCag tggatactaatggacattcctttaattgactcttgtattttttttttcagGGTGATTCTAGTATCCGGTACTTTGAAAACACAGAT--CGAACCCCACATCCAGTTCTTGAACACA-TTGCTAGCAAAGAACCCCAAAGGGGTATGGGCAGCATGCTGGAGAGGGGCCTGGCAGTCAGCAAGTGTGAAATAGCCcggtgagtacaatcagtggttgtatatcagttatctcattcttagttgaaac Alignment from Spaln_aa2Genome GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG tggatactaatggacattcctttaattgactcttgtattttttttttcagGGTGATTCTAGTATCCGGTACTTTGAAAACACAGATCGAACCCCACAT---CCAGTTCTTGAACACATTGCTAGCAAAGAACCCCAAAGGGGTATGGGCAGCATGCTGGAGAGGGGCCTGGCAGTCAGCAAGTGTGAAATAGCCCGgtgagtacaatcagtggttgtatatcagttatctcattcttagttgaaac Alignment from Spaln_nt2Genome GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG tggatactaatggacattcctttaattgactcttgtattttttttttcagGGTGATTCTAGTATCCGGTACTTTGAAAACACAGATCGAACCCC--ACATCCAGTTCTTGAACACA-TTGCTAGCAAAGAACCCCAAAGGGGTATGGGCAGCATGCTGGAGAGGGGCCTGGCAGTCAGCAAGTGTGAAATAGCCCGgtgagtacaatcagtggttgtatatcagttatctcattcttagttgaaac Alignment from Pairagon GGCGATTCCAGCATCCGGTACTTTGAGATCACAGAT-GAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG tggatactaatggacattcctttaattgactcttgtattttttttttcagGGTGATTCTAGTATCCGGTACTTTGAAAACACAGATCGAACCCC---ACATCCAGTTCTTGAACACA-TTGCTAGCAAAGAACCCCAAAGGGGTATGGGCAGCATGCTGGAGAGGGGCCTGGCAGTCAGCAAGTGTGAAATAGCCCGgtgagtacaatcagtggttgtatatcagttatctcattcttagttgaaac Alignment from Exonerate_protein2genome GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG tggatactaatggacattcctttaattgactcttgtattttttttttcagGGTGATTCTAGTATCCGGTACTTTGAAAACACAGATCGAACCCCACAT---CCAGTTCTTGAACACATTGCTAGCAAAGAACCCCAAAGGGGTATGGGCAGCATGCTGGAGAGGGGCCTGGCAGTCAGCAAGTGTGAAATAGCCCGgtgagtacaatcagtggttgtatatcagttatctcattcttagttgaaac Alignment from Exonerate_coding2genome GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG tggatactaatggacattcctttaattgactcttgtattttttttttcagGGTGATTCTAGTATCCGGTACTTTGAAAACACAGATCGAACCCCACAT---CCAGTTCTTGAACACATTGCTAGCAAAGAACCCCAAAGGGGTATGGGCAGCATGCTGGAGAGGGGCCTGGCAGTCAGCAAGTGTGAAATAGCCCGgtgagtacaatcagtggttgtatatcagttatctcattcttagttgaaac Alignment from GeneWise GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG tggatactaatggacattcctttaattgactcttgtattttttttttcagGGTGATTCTAGTATCCGGTACTTTGAAAACACAGATCGAACCCCACAT---CCAGTTCTTGAACACATTGCTAGCAAAGAACCCCAAAGGGGTATGGGCAGCATGCTGGAGAGGGGCCTGGCAGTCAGCAAGTGTGAAATAGCCCGgtgagtacaatcagtggttgtatatcagttatctcattcttagttgaaac #### Coro1b_ID359_9 --> 0 - 0 Original Alignment TCTGACCTCTTCCAGGATGATCTGTACCCTGACACAGCCGGGCCTGAGGCT-GCTCTTGAAGCAGAGGATTGGGTGAGCGGTCAGGATGCTAATCCAATCCTCATCTCACTACGGGAAGCCTATGTGCCCAGTAAACAACGGGACCTGAAGGTCAGCCGGCGCAACGTGCTATCAGACAGCAGGCCTGCCAGTTACAGCCGCTCCGGAGCCTCCACAGCTACTGCAGTTACTGATGTCCCCAGTGGCAACCTTGCTGGGGCTGGT ccaagatgtaacattggtatgtcttaatcctgacagcctgtcctacccagTCTGACCTCTACCAAGATGATCTGTACCCT---------GTGCCCGAGGCACCTGCTTGGAGCAAAGGAGTGGGTAAGCA-TCAGGATGCTAATCCAAATTTTATCCCACTGCAAGAAGCCTACATACCAAGTAAACAACATGACTTAAAAGGTAGCCGGCACAATGTGCTCTCAGATAGCCGACCAGCCAGCTACAGCCGTTTTGGCTCCTCTACAGCTACAGCAATTACAGATGTGCCCAGTGGTAATTTTGCTGGTGCTGGCgtaaggcagtctttaaagatctgttgctcaggcactgagaagatgccctg Alignment from CESAR TCTGACCTCTTCCAGGATGATCTGTACCCTGACACAGCCGGGCCTGAGGCTGCT-CTTGAAGCAGAGGATTGGGTGAGCGGTCAGGATGCTAATCCAATCCTCATCTCACTACGGGAAGCCTATGTGCCCAGTAAACAACGGGACCTGAAGGTCAGCCGGCGCAACGTGCTATCAGACAGCAGGCCTGCCAGTTACAGCCGCTCCGGAGCCTCCACAGCTACTGCAGTTACTGATGTCCCCAGTGGCAACCTTGCTGGGGCTGGT ccaagatgtaacattggtatgtcttaatcctgacagcctgtcctacccagTCTGACCTCTACCAAGATGATCTGTACCCT---------GTGCCCGAGGCACCTGCTTGGAGCAAAGGAGTGGGTAAGC-ATCAGGATGCTAATCCAAATTTTATCCCACTGCAAGAAGCCTACATACCAAGTAAACAACATGACTTAAAAGGTAGCCGGCACAATGTGCTCTCAGATAGCCGACCAGCCAGCTACAGCCGTTTTGGCTCCTCTACAGCTACAGCAATTACAGATGTGCCCAGTGGTAATTTTGCTGGTGCTGGCgtaaggcagtctttaaagatctgttgctcaggcactgagaagatgccctg Alignment from Spaln_aa2Genome TCTGACCTCTTCCAGGATGATCTGTACCCTGACACAGCCGGGCCTGAGGCTGCTCTTGAAGCAGAGGATTGGGTGAGCGGTCAGGATGCTAATCCAATCCTCATCTCACTACGGGAAGCCTATGTGCCCAGTAAACAACGGGACCTGAAGGTCAGCCGGCGCAACGTGCTATCAGACAGCAGGCCTGCCAGTTACAGCCGCTCCGGAGCCTCCACAGCTACTGCAGTTACTGATGTCCCCAGTGGCAACCTTGCTGGGGCTGGT ccaagatgtaacattggtatgtcttaatcctgacagcctgtcctacccagTCTGACCTCTACCAAGATGATCTGTACCCT---------GTGCCCGAGGCACCTGCTTGGAGCAAAGGAGTGGGTAAGCATCAGGATGCTAATCCAAATTTTATCCCACTGCAAGAAGCCTACATACCAAGTAAACAACATGACTTAAAAGGTAGCCGGCACAATGTGCTCTCAGATAGCCGACCAGCCAGCTACAGCCGTTTTGGCTCCTCTACAGCTACAGCAATTACAGATGTGCCCAGTGGTAATTTTGCTGGTGCTGGCgtaaggcagtctttaaagatctgttgctcaggcactgagaagatgccctg Alignment from Spaln_nt2Genome TCTGACCTCTTCCAGGATGATCTGTACCCTGACACAGCCGGGCCTGAGGCTGCT-CTTGAAGCAGAGGATTGGGTGAGCGGTCAGGATGCTAATCCAATCCTCATCTCACTACGGGAAGCCTATGTGCCCAGTAAACAACGGGACCTGAAGGTCAGCCGGCGCAACGTGCTATCAGACAGCAGGCCTGCCAGTTACAGCCGCTCCGGAGCCTCCACAGCTACTGCAGTTACTGATGTCCCCAGTGGCAACCTTGCTGGGGCTGGT ccaagatgtaacattggtatgtcttaatcctgacagcctgtcctacccagTCTGACCTCTACCAAGATGATCTGTACCCT---------GTGCCCGAGGCACCTGCTTGGAGCAAAGGAGTGGGTAAGC-ATCAGGATGCTAATCCAAATTTTATCCCACTGCAAGAAGCCTACATACCAAGTAAACAACATGACTTAAAAGGTAGCCGGCACAATGTGCTCTCAGATAGCCGACCAGCCAGCTACAGCCGTTTTGGCTCCTCTACAGCTACAGCAATTACAGATGTGCCCAGTGGTAATTTTGCTGGTGCTGGCgtaaggcagtctttaaagatctgttgctcaggcactgagaagatgccctg Alignment from Pairagon TCTGACCTCTTCCAGGATGATCTGTACCCTGACACAGCCGGGCCTGAGGCTGCT-CTTGAAGCAGAGGATTGGGTGAGCGGTCAGGATGCTAATCCAATCCTCATCTCACTACGGGAAGCCTATGTGCCCAGTAAACAACGGGACCTGAAGGTCAGCCGGCGCAACGTGCTATCAGACAGCAGGCCTGCCAGTTACAGCCGCTCCGGAGCCTCCACAGCTACTGCAGTTACTGATGTCCCCAGTGGCAACCTTGCTGGGGCTGGT ccaagatgtaacattggtatgtcttaatcctgacagcctgtcctacccagTCTGACCTCTACCAAGATGATCTGTACCCT---------GTGCCCGAGGCACCTGCTTGGAGCAAAGGAGTGGGTAAGC-ATCAGGATGCTAATCCAAATTTTATCCCACTGCAAGAAGCCTACATACCAAGTAAACAACATGACTTAAAAGGTAGCCGGCACAATGTGCTCTCAGATAGCCGACCAGCCAGCTACAGCCGTTTTGGCTCCTCTACAGCTACAGCAATTACAGATGTGCCCAGTGGTAATTTTGCTGGTGCTGGCgtaaggcagtctttaaagatctgttgctcaggcactgagaagatgccctg Alignment from Exonerate_protein2genome TCTGACCTCTTCCAGGATGATCTGTACCCTGACACAGCCGGGCCTGAGGCTGCTCTTGAAGCAGAGGATTGGGTGAGCGGTCAGGATGCTAATCCAATCCTCATCTCACTACGGGAAGCCTATGTGCCCAGTAAACAACGGGACCTGAAGGTCAGCCGGCGCAACGTGCTATCAGACAGCAGGCCTGCCAGTTACAGCCGCTCCGGAGCCTCCACAGCTACTGCAGTTACTGATGTCCCCAGTGGCAACCTTGCTGGGGCTGGT ccaagatgtaacattggtatgtcttaatcctgacagcctgtcctacccagTCTGACCTCTACCAAGATGATCTGTACCCT---------GTGCCCGAGGCACCTGCTTGGAGCAAAGGAGTGGGTAAGCATCAGGATGCTAATCCAAATTTTATCCCACTGCAAGAAGCCTACATACCAAGTAAACAACATGACTTAAAAGGTAGCCGGCACAATGTGCTCTCAGATAGCCGACCAGCCAGCTACAGCCGTTTTGGCTCCTCTACAGCTACAGCAATTACAGATGTGCCCAGTGGTAATTTTGCTGGTGCTGGCgtaaggcagtctttaaagatctgttgctcaggcactgagaagatgccctg Alignment from Exonerate_coding2genome TCTGACCTCTTCCAGGATGATCTGTACCCTGACACAGCCGGGCCTGAGGCTGCTCTTGAAGCAGAGGATTGGGTGAGCGGTCAGGATGCTAATCCAATCCTCATCTCACTACGGGAAGCCTATGTGCCCAGTAAACAACGGGACCTGAAGGTCAGCCGGCGCAACGTGCTATCAGACAGCAGGCCTGCCAGTTACAGCCGCTCCGGAGCCTCCACAGCTACTGCAGTTACTGATGTCCCCAGTGGCAACCTTGCTGGGGCTGGT ccaagatgtaacattggtatgtcttaatcctgacagcctgtcctacccagTCTGACCTCTACCAAGATGATCTGTACCCT---------GTGCCCGAGGCACCTGCTTGGAGCAAAGGAGTGGGTAAGCATCAGGATGCTAATCCAAATTTTATCCCACTGCAAGAAGCCTACATACCAAGTAAACAACATGACTTAAAAGGTAGCCGGCACAATGTGCTCTCAGATAGCCGACCAGCCAGCTACAGCCGTTTTGGCTCCTCTACAGCTACAGCAATTACAGATGTGCCCAGTGGTAATTTTGCTGGTGCTGGCgtaaggcagtctttaaagatctgttgctcaggcactgagaagatgccctg Alignment from GeneWise TCTGACCTCTTCCAGGATGATCTGTACCCTGACACAGCCGGGCCTGAGGCTGCTCTTGAAGCAGAGGATTGGGTGAGCGGTCAGGATGCTAATCCAATCCTCATCTCACTACGGGAAGCCTATGTGCCCAGTAAACAACGGGACCTGAAGGTCAGCCGGCGCAACGTGCTATCAGACAGCAGGCCTGCCAGTTACAGCCGCTCCGGAGCCTCCACAGCTACTGCAGTTACTGATGTCCCCAGTGGCAACCTTGCTGGGGCTGGT ccaagatgtaacattggtatgtcttaatcctgacagcctgtcctacccagTCTGACCTCTACCAAGATGATCTGTACCCTGTG---------CCCGAGGCACCTGCTTGGAGCAAAGGAGTGGGTAAGCATCAGGATGCTAATCCAAATTTTATCCCACTGCAAGAAGCCTACATACCAAGTAAACAACATGACTTAAAAGGTAGCCGGCACAATGTGCTCTCAGATAGCCGACCAGCCAGCTACAGCCGTTTTGGCTCCTCTACAGCTACAGCAATTACAGATGTGCCCAGTGGTAATTTTGCTGGTGCTGGCgtaaggcagtctttaaagatctgttgctcaggcactgagaagatgccctg #### Cpt1a_ID41_13 --> 0 - 0 Original Alignment TGCCAGGAGGTCATAGAG-ACATCCCTAAGCAGTGCCAGTTTTTTGGCAAATGATGTGGACCTGCATTCCTTCCCATTTGACACCTTTGGCAAAGGCTTGATCAAGAAGTGCCGGACGAGTCCCGATGCCTTCATCCAGCTGGCACTGCAGCTCGCACATTACAAG gacctggtcgtgtgcatcccaactccaatcaggctctgtgtgtcctgcagTGCCAGGGGGTCATAGCACATTTCCCTCAGCAGTACAAGTTTTTTGG-AAATGATGTAGACCTGCATTCTTTCCATTTTGACACCTTTGGTGAAGGTTTGATAAAGAAATGCCAGACCAGCCCTGATGCCTTCGTCCAGCTTGCACTGCAACTAGCACAATACAAGgtgcgtgatgcactttctacagagaatttgcttttgagatgtgctaagcc Alignment from CESAR TGCCAGGAGGTCATAGAG-ACATCCCTAAGCAGTGCCAGTTTTTTGGCAAATGATGTGGACCTGCATTCCTTCCCATTTGACACCTTTGGCAAAGGCTTGATCAAGAAGTGCCGGACGAGTCCCGATGCCTTCATCCAGCTGGCACTGCAGCTCGCACATTACAAG gacctggtcgtgtgcatcccaactccaatcaggctctgtgtgtcctgcagTGCCAGGGGGTCATAGCACATTTCCCTCAGCAGTACAAGTTTTTTG-GAAATGATGTAGACCTGCATTCTTTCCATTTTGACACCTTTGGTGAAGGTTTGATAAAGAAATGCCAGACCAGCCCTGATGCCTTCGTCCAGCTTGCACTGCAACTAGCACAATACAAGgtgcgtgatgcactttctacagagaatttgcttttgagatgtgctaagcc Alignment from Spaln_aa2Genome TGCCAGGAGGTCATAGAGACATCCCTAAGCAGTGCCAGTTTTTTGGCAAATGATGTGGACCTGCATTCCTTCCCATTTGACACCTTTGGCAAAGGCTTGATCAAGAAGTGCCGGACGAGTCCCGATGCCTTCATCCAGCTGGCACTGCAGCTCGCACATTACAAG gacctggtcgtgtgcatcccaactccaatcaggctctgtgtgtcctgcagTGCCAGGGGGTCATAGCACATTTCCCTCAGCAGTACAAGTTTTTTGGAAATGATGTAGACCTGCATTCTTTCCATTTTGACACCTTTGGTGAAGGTTTGATAAAGAAATGCCAGACCAGCCCTGATGCCTTCGTCCAGCTTGCACTGCAACTAGCACAATACAAGgtgcgtgatgcactttctacagagaatttgcttttgagatgtgctaagcc Alignment from Spaln_nt2Genome TGCCAGGAGGTCATAG-AGACATCCCTAAGCAGTGCCAGTTTTTTGGCAAATGATGTGGACCTGCATTCCTTCCCATTTGACACCTTTGGCAAAGGCTTGATCAAGAAGTGCCGGACGAGTCCCGATGCCTTCATCCAGCTGGCACTGCAGCTCGCACATTACAAG gacctggtcgtgtgcatcccaactccaatcaggctctgtgtgtcctgcagTGCCAGGGGGTCATAGCACATTTCCCTCAGCAGTACAAGTTTTTTGG-AAATGATGTAGACCTGCATTCTTTCCATTTTGACACCTTTGGTGAAGGTTTGATAAAGAAATGCCAGACCAGCCCTGATGCCTTCGTCCAGCTTGCACTGCAACTAGCACAATACAAGgtgcgtgatgcactttctacagagaatttgcttttgagatgtgctaagcc Alignment from Pairagon TGCCAGGAGGTCATAG-AGACATCCCTAAGCAGTGCCAGTTTTTTGGCAAATGATGTGGACCTGCATTCCTTCCCATTTGACACCTTTGGCAAAGGCTTGATCAAGAAGTGCCGGACGAGTCCCGATGCCTTCATCCAGCTGGCACTGCAGCTCGCACATTACAAG gacctggtcgtgtgcatcccaactccaatcaggctctgtgtgtcctgcagTGCCAGGGGGTCATAGCACATTTCCCTCAGCAGTACAAGTTTTTTGG-AAATGATGTAGACCTGCATTCTTTCCATTTTGACACCTTTGGTGAAGGTTTGATAAAGAAATGCCAGACCAGCCCTGATGCCTTCGTCCAGCTTGCACTGCAACTAGCACAATACAAGgtgcgtgatgcactttctacagagaatttgcttttgagatgtgctaagcc Alignment from Exonerate_protein2genome TGCCAGGAGGTCATAGAGACATCCCTAAGCAGTGCCAGTTTTTTGGCAAATGATGTGGACCTGCATTCCTTCCCATTTGACACCTTTGGCAAAGGCTTGATCAAGAAGTGCCGGACGAGTCCCGATGCCTTCATCCAGCTGGCACTGCAGCTCGCACATTACAAG gacctggtcgtgtgcatcccaactccaatcaggctctgtgtgtcctgcagTGCCAGGGGGTCATAGCACATTTCCCTCAGCAGTACAAGTTTTTTGGAAATGATGTAGACCTGCATTCTTTCCATTTTGACACCTTTGGTGAAGGTTTGATAAAGAAATGCCAGACCAGCCCTGATGCCTTCGTCCAGCTTGCACTGCAACTAGCACAATACAAGgtgcgtgatgcactttctacagagaatttgcttttgagatgtgctaagcc Alignment from Exonerate_coding2genome TGCCAGGAGGTCATAGAGACATCCCTAAGCAGTGCCAGTTTTTTGGCAAATGATGTGGACCTGCATTCCTTCCCATTTGACACCTTTGGCAAAGGCTTGATCAAGAAGTGCCGGACGAGTCCCGATGCCTTCATCCAGCTGGCACTGCAGCTCGCACATTACAAG gacctggtcgtgtgcatcccaactccaatcaggctctgtgtgtcctgcagTGCCAGGGGGTCATAGCACATTTCCCTCAGCAGTACAAGTTTTTTGGAAATGATGTAGACCTGCATTCTTTCCATTTTGACACCTTTGGTGAAGGTTTGATAAAGAAATGCCAGACCAGCCCTGATGCCTTCGTCCAGCTTGCACTGCAACTAGCACAATACAAGgtgcgtgatgcactttctacagagaatttgcttttgagatgtgctaagcc Alignment from GeneWise TGCCAGGAGGTCATAGAGACATCCCTAAGCAGTGCCAGTTTTTTGGCAAATGATGTGGACCTGCATTCCTTCCCATTTGACACCTTTGGCAAAGGCTTGATCAAGAAGTGCCGGACGAGTCCCGATGCCTTCATCCAGCTGGCACTGCAGCTCGCACATTACAAG gacctggtcgtgtgcatcccaactccaatcaggctctgtgtgtcctgcagTGCCAGGGGGTCATAGCACATTTCCCTCAGCAGTACAAGTTTTTTGGAAATGATGTAGACCTGCATTCTTTCCATTTTGACACCTTTGGTGAAGGTTTGATAAAGAAATGCCAGACCAGCCCTGATGCCTTCGTCCAGCTTGCACTGCAACTAGCACAATACAAGgtgcgtgatgcactttctacagagaatttgcttttgagatgtgctaagcc #### Crtac1_ID8462_10 --> 2 - 0 Original Alignment ggGGCGTAGTGACCGACTTCGATGGT-GATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccttcctcgcccaaatagtgatagcctgctgctcaccccccaaattatagggGGTGTGGTGACTGATTTTGATGGGCGATGGGATGCTGGATTTGATCTTGTCAC-TGGAAGGTCCATGGCTCAGCCCTTGTCCATTTTCTGTGGGAATCAGgtaggtaacacttttacccctatatgagaatgcaggtactacaggacaga Alignment from CESAR ggGGCGTAGTGACCGACTTCGAT-GGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccttcctcgcccaaatagtgatagcctgctgctcaccccccaaattatagggGGTGTGGTGACTGATTTTGATGGGCGATGGGATGCTGGATTTGATCTTGTCA-CTGGAAGGTCCATGGCTCAGCCCTTGTCCATTTTCTGTGGGAATCAGgtaggtaacacttttacccctatatgagaatgcaggtactacaggacaga Alignment from Spaln_aa2Genome GGGGCGTAGTGACCGACTTCGATGGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccttcctcgcccaaatagtgatagcctgctgctcaccccccaaattatagGGGGTGTGGTGACTGATTTTGATGGGCGATGGGATGCTGGATTTGATCTTGTCACTGGAAGGTCCATGGCTCAGCCCTTGTCCATTTTCTGTGGGAATCAGgtaggtaacacttttacccctatatgagaatgcaggtactacaggacaga Alignment from Spaln_nt2Genome GGGGCGTAGTGACCGACTTCGATGGT-GATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccttcctcgcccaaatagtgatagcctgctgctcaccccccaaattatagGGGGTGTGGTGACTGATTTTGATGGGCGATGGGATGCTGGATTTGATCTTGTCAC-TGGAAGGTCCATGGCTCAGCCCTTGTCCATTTTCTGTGGGAATCAGgtaggtaacacttttacccctatatgagaatgcaggtactacaggacaga Alignment from Pairagon GGGGCGTAGTGACCGACTTCGAT-GGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccttcctcgcccaaatagtgatagcctgctgctcaccccccaaattatagGGGGTGTGGTGACTGATTTTGATGGGCGATGGGATGCTGGATTTGATCTTGTCAC-TGGAAGGTCCATGGCTCAGCCCTTGTCCATTTTCTGTGGGAATCAGgtaggtaacacttttacccctatatgagaatgcaggtactacaggacaga Alignment from Exonerate_protein2genome GGGGCGTAGTGACCGACTTCGATGGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccttcctcgcccaaatagtgatagcctgctgctcaccccccaaattatagGGGGTGTGGTGACTGATTTTGATGGGCGATGGGATGCTGGATTTGATCTTGTCACTGGAAGGTCCATGGCTCAGCCCTTGTCCATTTTCTGTGGGAATCAGgtaggtaacacttttacccctatatgagaatgcaggtactacaggacaga Alignment from Exonerate_coding2genome GGGGCGTAGTGACCGACTTCGATGGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccttcctcgcccaaatagtgatagcctgctgctcaccccccaaattatagGGGGTGTGGTGACTGATTTTGATGGGCGATGGGATGCTGGATTTGATCTTGTCACTGGAAGGTCCATGGCTCAGCCCTTGTCCATTTTCTGTGGGAATCAGgtaggtaacacttttacccctatatgagaatgcaggtactacaggacaga Alignment from GeneWise GGGGCGTAGTGACCGACTTCGATGGT------GATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccttcctcgcccaaatagtgatagcctgctgctcaccccccaaattatagGGGGTGTGGTGACTGATTTTGATGGGCGATGGGATGCTGGATTTGATCTTGTCACT------GGAAGGTCCATGGCTCAGCCCTTGTCCATTTTCTGTGGGAATCAGgtaggtaacacttttacccctatatgagaatgcaggtactacaggacaga #### Csf2ra_ID13431_9 --> 2 - 2 Original Alignment agGCTGAGGACACGCGAGTGCCC-GGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGag caacaagcagccggcttcctgagtgccagccttacttggtgtcccttcagatGCAGATGACATGCGGGTGCCTCGGCACACTCCTCTACACAGTAACTGCTTGTGCAGTCTTACTAT-TGCACTAGTGCTTGGAGTGACTTGCAGGaggtgagtctaagggcccatatcatgaataagttatgcaaacggttggttta Alignment from CESAR agGCTGAGGACACGCGAGTGCCC-GGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGag caacaagcagccggcttcctgagtgccagccttacttggtgtcccttcagatGCAGATGACATGCGGGTGCCTCGGCACACTCCTCTACACAGTAACTGCTTGTGCAGTCTTACTA-TTGCACTAGTGCTTGGAGTGACTTGCAGGaggtgagtctaagggcccatatcatgaataagttatgcaaacggttggttta Alignment from Spaln_aa2Genome AGGCTGAGGACACGCGAGTGCCCGGT---GCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGAG caacaagcagccggcttcctgagtgccagccttacttggtgtcccttcagATGCAGATGACATGCGGGTGCCTCGGCACACTCCTCTACACAGTAACTGCTTGTGCAGTCTTACTATT---GCACTAGTGCTTGGAGTGACTTGCAGGAGgtgagtctaagggcccatatcatgaataagttatgcaaacggttggttta Alignment from Spaln_nt2Genome AGGCTGAGGACACGCGAGTGCC-CGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGAG caacaagcagccggcttcctgagtgccagccttacttggtgtcccttcagATGCAGATGACATGCGGGTGCCTCGGCACACTCCTCTACACAGTAACTGCTTGTGCAGTCTTACTAT-TGCACTAGTGCTTGGAGTGACTTGCAGGAGgtgagtctaagggcccatatcatgaataagttatgcaaacggttggttta Alignment from Pairagon AGGCTGAGGACACGCGAGTGCC-CGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGAG caacaagcagccggcttcctgagtgccagccttacttggtgtcccttcagATGCAGATGACATGCGGGTGCCTCGGCACACTCCTCTACACAGTAACTGCTTGTGCAGTCTTACTAT-TGCACTAGTGCTTGGAGTGACTTGCAGGAGgtgagtctaagggcccatatcatgaataagttatgcaaacggttggttta Alignment from Exonerate_protein2genome AGGCTGAGGACACGCGAGTGCCCGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGAG caacaagcagccggcttcctgagtgccagccttacttggtgtcccttcagATGCAGATGACATGCGGGTGCCTCGGCACACTCCTCTACACAGTAACTGCTTGTGCAGTCTTACTATTGCACTAGTGCTTGGAGTGACTTGCAGGAGgtgagtctaagggcccatatcatgaataagttatgcaaacggttggttta Alignment from Exonerate_coding2genome caacaagcagccggcttcctgagtgccagccttacttggtgtcccttcagatgcagatgacatgcgggtgcctcggcacactcctctacacagtaactgcttgtgcagtcttactattgcactagtgcttggagtgacttgcaggaggtgagtctaagggcccatatcatgaataagttatgcaaacggttggttta Alignment from GeneWise AGGCTGAGGACACGCGAGTG caacaagcagccggcttcctgagtgccagccttacttggtgtcccttcagatgcagatgacatgcgggtgcctcggcacactcctctacacagtaactgcttgtgcagtcttactattgcactagtgcttggagtgacttgcaggaggtgagtctaagggcccatatcatgaataagTTATGCAAACGGTTGGTTTA #### Csf2ra_ID13434_6 --> 2 - 0 Original Alignment agCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGG-GCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tcatcatcagagtgttcgtgtgtttaactgagtttgtgctctttctgcagagCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAATTCTTCCCATTGCACTGTGTCTTGGCGCTCCACCTTCCACTTGGGCATCTCTGGCAG-ACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgagttgaggcctcgattttctgggaaagcctgcctatatccgacataa Alignment from CESAR agCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGG-GCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tcatcatcagagtgttcgtgtgtttaactgagtttgtgctctttctgcagagCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAATTCTTCCCATTGCACTGTGTCTTGGCGCTCCACCTTCCACTTGGGCATCTCTGGCA-GACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgagttgaggcctcgattttctgggaaagcctgcctatatccgacataa Alignment from Spaln_aa2Genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tcatcatcagagtgttcgtgtgtttaactgagtttgtgctctttctgcagAGCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAATTCTTCCCATTGCACTGTGTCTTGGCGCTCCACCTTCCACTTGGGCATCTCTGGCAGACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgagttgaggcctcgattttctgggaaagcctgcctatatccgacataa Alignment from Spaln_nt2Genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGG-GCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tcatcatcagagtgttcgtgtgtttaactgagtttgtgctctttctgcagAGCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAATTCTTCCCATTGCACTGTGTCTTGGCGCTCCACCTTCCACTTGGGCATCTCTGGCAG-ACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgagttgaggcctcgattttctgggaaagcctgcctatatccgacataa Alignment from Pairagon AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGG-GCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tcatcatcagagtgttcgtgtgtttaactgagtttgtgctctttctgcagAGCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAATTCTTCCCATTGCACTGTGTCTTGGCGCTCCACCTTCCACTTGGGCATCTCTGGCAG-ACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgagttgaggcctcgattttctgggaaagcctgcctatatccgacataa Alignment from Exonerate_protein2genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tcatcatcagagtgttcgtgtgtttaactgagtttgtgctctttctgcagAGCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAATTCTTCCCATTGCACTGTGTCTTGGCGCTCCACCTTCCACTTGGGCATCTCTGGCAGACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgagttgaggcctcgattttctgggaaagcctgcctatatccgacataa Alignment from Exonerate_coding2genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tcatcatcagagtgttcgtgtgtttaactgagtttgtgctctttctgcagAGCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAATTCTTCCCATTGCACTGTGTCTTGGCGCTCCACCTTCCACTTGGGCATCTCTGGCAGACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgagttgaggcctcgattttctgggaaagcctgcctatatccgacataa Alignment from GeneWise AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tcatcatcagagtgttcgtgtgtttaactgagtttgtgctctttctgcagAGCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAATTCTTCCCATTGCACTGTGTCTTGGCGCTCCACCTTCCACTTGGGCATCTCTGGCAGACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgagttgaggcctcgattttctgggaaagcctgcctatatccgacataa #### Csf2ra_ID13436_4 --> 2 - 2 Original Alignment gcGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGA-GCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCac tgatagaggtagtgttgaattgcacccaggtcactcccaccactccacaggcACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGATTCGACGCTTCACGCTTTCTTTCCTGTGCTTGGCGAGAGGGGCCAG-TGCACCTGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAacgtaaggtgtaaacacccagttgtctgtccgcagcacattgccactatctt Alignment from CESAR gcGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGA-GCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCac tgatagaggtagtgttgaattgcacccaggtcactcccaccactccacaggcACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGATTCGACGCTTCACGCTTTCTTTCCTGTGCTTGGCGAGAGGGGCCAG-TGCACCTGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAacgtaaggtgtaaacacccagttgtctgtccgcagcacattgccactatctt Alignment from Spaln_aa2Genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC tgatagaggtagtgttgaattgcacccaggtcactcccaccactccacagGCACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGATTCGACGCTTCACGCTTTCTTTCCTGTGCTTGGCGAGAGGGGCCAGTGCACCTGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAACgtaaggtgtaaacacccagttgtctgtccgcagcacattgccactatctt Alignment from Spaln_nt2Genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGA-GCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC tgatagaggtagtgttgaattgcacccaggtcactcccaccactccacagGCACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGATTCGACGCTTCACGCTTTCTTTCCTGTGCTTGGCGAGAGGGGCCAG-TGCACCTGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAACgtaaggtgtaaacacccagttgtctgtccgcagcacattgccactatctt Alignment from Pairagon GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGA-GCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC tgatagaggtagtgttgaattgcacccaggtcactcccaccactccacagGCACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGATTCGACGCTTCACGCTTTCTTTCCTGTGCTTGGCGAGAGGGGCCAGT-GCACCTGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAACgtaaggtgtaaacacccagttgtctgtccgcagcacattgccactatctt Alignment from Exonerate_protein2genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGA-GCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCA--GCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC tgatagaggtagtgttgaattgcacccaggtcactcccaccactccacagGCACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGATTCGACGCTTCACGCTTTCTTTCCTGTGCTTGGCGAGAGGGGCCAGT---GCACCTGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAACgtaaggtgtaaacacccagttgtctgtccgcagcacattgccactatctt Alignment from Exonerate_coding2genome tgatagaggtagtgttgaattgcacccaggtcactcccaccactccacaggcactgcaggcactggggcagagaacctaatctgtgagattcgacgcttcacgctttctttcctgtgcttggcgagaggggccagtgcacctgcagatgtccagcactcactgcaggtccttaactcaacgtaaggtgtaaacacccagttgtctgtccgcagcacattgccactatctt Alignment from GeneWise GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC tgatagaggtagtgttgaattgcacccaggtcactcccaccactccacagGCACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGATTCGACGCTTCACGCTTTCTTTCCTGTGCTTGGCGAGAGGGGCCAGTGCACCTGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAACgtaaggtgtaaacacccagttgtctgtccgcagcacattgccactatctt #### Csf2ra_ID13437_3 --> 0 - 1 Original Alignment CCCTTCGGTTGCCGC-TGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAg atagaatgctccgtgcattaccttaaccgcctctgtgtgtctgtccccagCCCTTTGGTTGCCGCCTGCTGGTTCAGAAGGATGATGGCACTGCACCATG-TGTAACACTAGACGTCAATGGCACAGTTGGAGGTGCAGCTGCACATTGGAAGCTCAGCTTTGTTAATGAGggtcagcgtagatgttgtggactccaggttacactttctagctatcatatc Alignment from CESAR CCCTTCGGTTGCCGC-TGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAg atagaatgctccgtgcattaccttaaccgcctctgtgtgtctgtccccagCCCTTTGGTTGCCGCCTGCTGGTTCAGAAGGATGATGGCACTGCACCAT-GTGTAACACTAGACGTCAATGGCACAGTTGGAGGTGCAGCTGCACATTGGAAGCTCAGCTTTGTTAATGAGggtcagcgtagatgttgtggactccaggttacactttctagctatcatatc Alignment from Spaln_aa2Genome CCCTTCGGTTGCCGC-TGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAG atagaatgctccgtgcattaccttaaccgcctctgtgtgtctgtccccagCCCTTTGGTTGCCGCcTGCTGGTTCAGAAGGATGATGGCACTGCACCATGT-GTAACACTAGACGTCAATGGCACAGTTGGAGGTGCAGCTGCACATTGGAAGCTCAGCTTTGTTAATGAGGgtcagcgtagatgttgtggactccaggttacactttctagctatcatatc Alignment from Spaln_nt2Genome CCCTTCGGTTGCCGC-TGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAG atagaatgctccgtgcattaccttaaccgcctctgtgtgtctgtccccagCCCTTTGGTTGCCGCCTGCTGGTTCAGAAGGATGATGGCACTGCACCA-TGTGTAACACTAGACGTCAATGGCACAGTTGGAGGTGCAGCTGCACATTGGAAGCTCAGCTTTGTTAATGAGGgtcagcgtagatgttgtggactccaggttacactttctagctatcatatc Alignment from Pairagon CCCTTCGGTTGCCG-CTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAG atagaatgctccgtgcattaccttaaccgcctctgtgtgtctgtccccagCCCTTTGGTTGCCGCCTGCTGGTTCAGAAGGATGATGGCACTGCACCAT-GTGTAACACTAGACGTCAATGGCACAGTTGGAGGTGCAGCTGCACATTGGAAGCTCAGCTTTGTTAATGAGGgtcagcgtagatgttgtggactccaggttacactttctagctatcatatc Alignment from Exonerate_protein2genome CCCTTCGGTTGCCGC-TGCTGGTTCAGGAGGATGATGGCGCTGCACCAC--GGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAG atagaatgctccgtgcattaccttaaccgcctctgtgtgtctgtccccagCCCTTTGGTTGCCGCCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGT---GTAACACTAGACGTCAATGGCACAGTTGGAGGTGCAGCTGCACATTGGAAGCTCAGCTTTGTTAATGAGGgtcagcgtagatgttgtggactccaggttacactttctagctatcatatc Alignment from Exonerate_coding2genome atagaatgctccgtgcattaccttaaccgcctctgtgtgtctgtccccagccctttggttgccgcctgctggttcagaaggatgatggcactgcaccatgtgtaacactagacgtcaatggcacagttggaggtgcagctgcacattggaagctcagctttgttaatgagggtcagcgtagatgttgtggactccaggttacactttctagctatcatatc Alignment from GeneWise CCCTTCGGTTGC-CGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAG atagaatgctccgtgcattaccttaaccgcctctgtgtgtctgtccccagCCCTTTGGTTGCCGCCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGT-GTAACACTAGACGTCAATGGCACAGTTGGAGGTGCAGCTGCACATTGGAAGCTCAGCTTTGTTAATGAGGgtcagcgtagatgttgtggactccaggttacactttctagctatcatatc #### Ctsf_ID679_7 --> 2 - 0 Original Alignment agGAGGAATTCCACACCATCTACCTG-AATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTG------AAGAACCAG taggatggtgccctgatgcccgttctgtttgcctcttcactcctctatagagGAAGAAATTCATACCATTGGCCTGCATCCCTTTATTACAGAAGCAATCTGGCAGGA-AATGAGTTCAGCGAAATCCATAACTGACCTTGCTCCACCTGAGTGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGCTGAAGAATGAAgtaagtgtagcttgaaatcgggagggggttcaaggcctattagagctcac Alignment from CESAR agGAGGAATTCCACACCATCTACCTGAATCCC-CTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTG------AAGAACCAG taggatggtgccctgatgcccgttctgtttgcctcttcactcctctatagagGAAGAAATTCATACCATTGGCCTGCATCCCTTTATTACAGAAGCAATCTGGCAGGA-AATGAGTTCAGCGAAATCCATAACTGACCTTGCTCCACCTGAGTGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGCTGAAGAATGAAgtaagtgtagcttgaaatcgggagggggttcaaggcctattagagctcac Alignment from Spaln_aa2Genome AGGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTG------AAGAACCAG taggatggtgccctgatgcccgttctgtttgcctcttcactcctctatagAGGAAGAAATTCATACCATTGGCCTGCATCCCTTTATTACAGAAGCAATCTGGCAGGAAATGAGTTCAGCGAAATCCATAACTGACCTTGCTCCACCTGAGTGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGCTGAAGAATGAAgtaagtgtagcttgaaatcgggagggggttcaaggcctattagagctcac Alignment from Spaln_nt2Genome AGGAGGAATTCCACACCATCTACCTGAATCCCCTC-TTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGT------GAAGAACCAG taggatggtgccctgatgcccgttctgtttgcctcttcactcctctatagAGGAAGAAATTCATACCATTGGCCTGCATCCCTTTATTACAGAAGCAATCTGGCAGGAA-ATGAGTTCAGCGAAATCCATAACTGACCTTGCTCCACCTGAGTGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGCTGAAGAATGAAgtaagtgtagcttgaaatcgggagggggttcaaggcctattagagctcac Alignment from Pairagon AGGAGGAATTCCACACCATCTACCTGAATCCCCTC-TTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAG------TGAAGAACCAG taggatggtgccctgatgcccgttctgtttgcctcttcactcctctatagAGGAAGAAATTCATACCATTGGCCTGCATCCCTTTATTACAGAAGCAATCTGGCAGGAA-ATGAGTTCAGCGAAATCCATAACTGACCTTGCTCCACCTGAGTGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGCTGAAGAATGAAgtaagtgtagcttgaaatcgggagggggttcaaggcctattagagctcac Alignment from Exonerate_protein2genome AGGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAGAACCA taggatggtgccctgatgcccgttctgtttgcctcttcactcctctatagAGGAAGAAATTCATACCATTGGCCTGCATCCCTTTATTACAGAAGCAATCTGGCAGGAAATGAGTTCAGCGAAATCCATAACTGACCTTGCTCCACCTGAGTGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGCTGAAgaatgaagtaagtgtagcttgaaatcgggagggggttcaaggcctattagagctcac Alignment from Exonerate_coding2genome AGGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAGAACCA taggatggtgccctgatgcccgttctgtttgcctcttcactcctctatagAGGAAGAAATTCATACCATTGGCCTGCATCCCTTTATTACAGAAGCAATCTGGCAGGAAATGAGTTCAGCGAAATCCATAACTGACCTTGCTCCACCTGAGTGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGCTGAAgaatgaagtaagtgtagcttgaaatcgggagggggttcaaggcctattagagctcac Alignment from GeneWise AGGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTG------AAGAACCAG taggatggtgccctgatgcccgttctgtttgcctcttcactcctctatagAGGAAGAAATTCATACCATTGGCCTGCATCCCTTTATTACAGAAGCAATCTGGCAGGAAATGAGTTCAGCGAAATCCATAACTGACCTTGCTCCACCTGAGTGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGCTGAAGAATGAAgtaagtgtagcttgaaatcgggagggggttcaaggcctattagagctcac #### Ctsf_ID680_8 --> 0 - 1 Original Alignment GGC---ATGTGTGGCTCCTGC-TGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGg cctcagagaaacccattaggaggctctggactgtacctgtttccccccagAGCAGTATGTGCAGCTCTTGCCTGGGCCTTCTCTGTCACTGGCAATGGGGAGG-CCAGTGG---TTGATTCGAGGAACTCTTCTATCA---TCAGAACAGggtatttatatgatccactctggatatatcagacaaactcctccatagggt Alignment from CESAR GGC---ATGTGTGGCTCCTGC-TGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGg cctcagagaaacccattaggaggctctggactgtacctgtttccccccagAGCAGTATGTGCAGCTCTTGCCTGGGCCTTCTCTGTCACTGGCAATGGGG-AGGCCAGTGG---TTGATTCGAGGAACTCTTCTATCA---TCAGAACAGggtatttatatgatccactctggatatatcagacaaactcctccatagggt Alignment from Spaln_aa2Genome ---GGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAG cctcagagaaacccattaggaggctctggactgtacctgtttccccccagAGCAGTATGTGCAGCTCTTGCCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGCCAGTGGTTGATT---CGAGGAACTCTTCTATCA---TCAGAACAGGgtatttatatgatccactctggatatatcagacaaactcctccatagggt Alignment from Spaln_nt2Genome GGCA---TGTGTGGCTCCTGC-TGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cctcagagaaacccattaggaggctctggactgtacctgtttccccccagAGCAGTATGTGCAGCTCTTGCCTGGGCCTTCTCTGTCACTGGCAATGGGGA-GGCCAGTGGT---TGATTCGAGGAACTCTTCTATC---ATCAGAACAGGgtatttatatgatccactctggatatatcagacaaactcctccatagggt Alignment from Pairagon ----------------------------------------------CCAGGGC---ATGTGTGGCTCCTG-CTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG CCTCAGAGAAACCCATTAGGAGGCTCTGGACTGTACCTGTTTCCCCCCAGAGCAGTATGTGCAGCTCTTGCCTGGGCCTTCTCTGTCACTGGCAATGGGGA-GGCCAGTGGT---TGATTCGAGGAACTCTTCTATC---ATCAGAACAGGgtatttatatgatccactctggatatatcagacaaactcctccatagggt Alignment from Exonerate_protein2genome CAGGGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cctcagagaaacccattaggaggctctggactgtacctgtttccccccagAGCAGTATGTGCAGCTCTTGCCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGCCAGTGGTTGATT---CGAGGAACTCTTCTATCA---TCAGAACAGGgtatttatatgatccactctggatatatcagacaaactcctccatagggt Alignment from Exonerate_coding2genome cctcagagaaacccattaggaggctctggactgtacctgtttccccccagagcagtatgtgcagctcttgcctgggccttctctgtcactggcaatggggaggccagtggttgattcgaggaactcttctatcatcagaacagggtatttatatgatccactctggatatatcagacaaactcctccatagggt Alignment from GeneWise ---GGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cctcagagaaacccattaggaggctctggactgtacctgtttccccccagAGCAGTATGTGCAGCTCTTGCCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGCCAGTGGTTGATT---CGAGGAACTCTTCTATCA---TCAGAACAGGgtatttatatgatccactctggatatatcagacaaactcctccatagggt #### Ctsw_ID1017_9 --> 0 - 0 Original Alignment CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCT-CGGCAAGTGGACCACTCTGTC------TTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctcattacactggtaccccatgtgatcgctgcagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGTTCCTGTGACCCTCCGTCAAGAAGACCACCCCGTTCTGCTATTGT-GGTTGGTTTTGGTAAAAGGGAAGAGGGCATGCAAATGGGGACAGTCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCATTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAGgtatgggtacaggaacacaatgaagcatagaaaagcaatgaagcaaatcc Alignment from CESAR CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCT------CGGCAAGTGGACCACTCTGTCTTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctcattacactggtaccccatgtgatcgctgcagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGTTCCTGTGACCCTCCGTCAAGAAGACCACCCCGTTCTGCTATTGTGGTTGGTTTTGGTAAAAGGGAAGAGGGCATGCAAATGGGGACAGTCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCATTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAGgtatgggtacaggaacacaatgaagcatagaaaagcaatgaagcaaatcc Alignment from Spaln_aa2Genome CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCT------CGGCAAGTGGACCACTCTGTCTTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctcattacactggtaccccatgtgatcgctgcagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGTTCCTGTGACCCTCCGTCAAGAAGACCACCCCGTTCTGCTATTGTGGTTGGTTTTGGTAAAAGGGAAGAGGGCATGCAAATGGGGACAGTCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCATTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAGgtatgggtacaggaacacaatgaagcatagaaaagcaatgaagcaaatcc Alignment from Spaln_nt2Genome CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGG-CAAGTGGACCACTCTGTCTTGCT-----GGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctcattacactggtaccccatgtgatcgctgcagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGTTCCTGTGACCCTCCGTCAAGAAGACCACCCCGTTCTGCTATTGTGGTTGGTTTTGGTAAAAGGGAAGAGGGCATGCAAATGGGGACAGTCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCATTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAGgtatgggtacaggaacacaatgaagcatagaaaagcaatgaagcaaatcc Alignment from Pairagon CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGG-CAAGTGGACCACTCTGTCTTGC-----TGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctcattacactggtaccccatgtgatcgctgcagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGTTCCTGTGACCCTCCGTCAAGAAGACCACCCCGTTCTGCTATTGTGGTTGGTTTTGGTAAAAGGGAAGAGGGCATGCAAATGGGGACAGTCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCATTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAGgtatgggtacaggaacacaatgaagcatagaaaagcaatgaagcaaatcc Alignment from Exonerate_protein2genome CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCT------CGGCAAGTGGACCACTCTGTCTTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctcattacactggtaccccatgtgatcgctgcagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGTTCCTGTGACCCTCCGTCAAGAAGACCACCCCGTTCTGCTATTGTGGTTGGTTTTGGTAAAAGGGAAGAGGGCATGCAAATGGGGACAGTCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCATTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAGgtatgggtacaggaacacaatgaagcatagaaaagcaatgaagcaaatcc Alignment from Exonerate_coding2genome CCGTGCATGGACCTATCACCGTGACCATCAACA---TGAAACTACTCCAGCATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCT---CGGCAAGTGGACCACTCTGTCTTGCTG-----GTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG AAATCAATCCAGAGATCTCATTACACTGGTACCCCATGTGATCGCTGCAGTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGTTCCTGTGACC--CTCCGTCAAGAAGACCACCCCGTTCTGCTATTGTGGTTGGTTTTGGTAAAAGGGAAGAGGGCATGCAAATGGGGACAGTCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCATTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAGgtatgggtacaggaacacaatgaagcatagaaaagcaatgaagcaaatcc Alignment from GeneWise CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCT------CGGCAAGTGGACCACTCTGTCTTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctcattacactggtaccccatgtgatcgctgcagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGTTCCTGTGACCCTCCGTCAAGAAGACCACCCCGTTCTGCTATTGTGGTTGGTTTTGGTAAAAGGGAAGAGGGCATGCAAATGGGGACAGTCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCATTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAGgtatgggtacaggaacacaatgaagcatagaaaagcaatgaagcaaatcc #### Ctsw_ID1019_7 --> 2 - 1 Original Alignment gtGGCCTGGCCAGTGAAAAG-GATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGg agtgtacttgacatcaaagtttcttgcttgattttaccccatctcctcaggtAGTCTGGCCACTGAAAAGCGAATTTCCATTTCAGAAGGAAAGAAAGCCTCACA-ATGCCTGGCAAAAAAGTATAAGGAAGTGGCATGGATCCCA------GCCACATTGTCTAATAATGAGCAGggtatcaccagggtcagatgaggtagctctgtgactgctcacctgacctgt Alignment from CESAR gtGGCCTGGCCAGTGAAAAG-GATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGg agtgtacttgacatcaaagtttcttgcttgattttaccccatctcctcaggtAGTCTGGCCACTGAAAAGCGAATTTCCATTTCAGAAGGAAAGAAAGCCTCAC-AATGCCTGGCAAAAAAGTATAAGGAAGTGGCATGGATCCCA------GCCACATTGTCTAATAATGAGCAGggtatcaccagggtcagatgaggtagctctgtgactgctcacctgacctgt Alignment from Spaln_aa2Genome GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG agtgtacttgacatcaaagtttcttgcttgattttaccccatctcctcagGTAGTCTGGCCACTGAAAAGCGAATTTCCATTTCAGAAGGAAAGAAAGCCTCACAATGCCTGGCAAAAAAGTATAAGGAAGTGGCATGGATCCCA------GCCACATTGTCTAATAATGAGCAGGgtatcaccagggtcagatgaggtagctctgtgactgctcacctgacctgt Alignment from Spaln_nt2Genome GTGGCCTGGCCAGTGAAAAG-GATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG agtgtacttgacatcaaagtttcttgcttgattttaccccatctcctcagGTAGTCTGGCCACTGAAAAGCGAATTTCCATTTCAGAAGGAAAGAAAGCCTCACA-ATGCCTGGCAAAAAAGTATAAGGAAGTGGCATGGATCCCAG------CCACATTGTCTAATAATGAGCAGGgtatcaccagggtcagatgaggtagctctgtgactgctcacctgacctgt Alignment from Pairagon GTGGCCTGGCCAGTGAAAAG-GATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG agtgtacttgacatcaaagtttcttgcttgattttaccccatctcctcagGTAGTCTGGCCACTGAAAAGCGAATTTCCATTTCAGAAGGAAAGAAAGCCTCACA-ATGCCTGGCAAAAAAGTATAAGGAAGTGGCATGGATCCCAG------CCACATTGTCTAATAATGAGCAGGgtatcaccagggtcagatgaggtagctctgtgactgctcacctgacctgt Alignment from Exonerate_protein2genome GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG agtgtacttgacatcaaagtttcttgcttgattttaccccatctcctcagGTAGTCTGGCCACTGAAAAGCGAATTTCCATTTCAGAAGGAAAGAAAGCCTCACAATGCCTGGCAAAAAAGTATAAGGAAGTGGCATGGATCCCA------GCCACATTGTCTAATAATGAGCAGGgtatcaccagggtcagatgaggtagctctgtgactgctcacctgacctgt Alignment from Exonerate_coding2genome agtgtacttgacatcaaagtttcttgcttgattttaccccatctcctcaggtagtctggccactgaaaagcgaatttccatttcagaaggaaagaaagcctcacaatgcctggcaaaaaagtataaggaagtggcatggatcccagccacattgtctaataatgagcagggtatcaccagggtcagatgaggtagctctgtgactgctcacctgacctgt Alignment from GeneWise CCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG agtgtacttgacatcaaagtttcttgcttgattttaccccatctcctcaggtagTCTGGCCACTGAAAAGCGAATTTCCATTTCAGAAGGAAAGAAAGCCTCACAATGCCTGGCAAAAAAGTATAAGGAAGTGGCATGGATCCCA------GCCACATTGTCTAATAATGAGCAGGgtatcaccagggtcagatgaggtagctctgtgactgctcacctgacctgt #### Ctsw_ID1022_4 --> 2 - 0 Original Alignment agGAGGAGTTTGGCCAGTTA-TACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accacactgttgccaccctgctgctaccactgtaattatgttttccttagagGAGGAGTTTGGGCAATTACTATGGGAGA---AGATCCCCAGAATGGACCCCAAATATGA-CAAAAGGGTGGAGTCAAACACATGGGGGGAGTCTGTGCCTCGAACCTGTGATTGGTGTAAAGCAAAAAACATTATCTCATCAATTGAGAACCAGgtatgggccttagcttggtttccgttcatccaactcaaggacatctcaat Alignment from CESAR agGAGGAGTTTGGCCAGTTA-TACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accacactgttgccaccctgctgctaccactgtaattatgttttccttagagGAGGAGTTTGGGCAATTACTATGGGAGA---AGATCCCCAGAATGGACCCCAAATATGACAA-AAGGGTGGAGTCAAACACATGGGGGGAGTCTGTGCCTCGAACCTGTGATTGGTGTAAAGCAAAAAACATTATCTCATCAATTGAGAACCAGgtatgggccttagcttggtttccgttcatccaactcaaggacatgtattt Alignment from Spaln_aa2Genome AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAGGGA---------AGCTG accacactgttgccaccctgctgctaccactgtaattatgttttccttagAGGAGGAGTTTGGGCAATTACTATGG---GAGAAGATCCCCAGAATGGACCCCAAATATGACAAAAGGGTGGAGTCAAACACATGGGGGGAGTCTGTGCCTCGAACCTGTGATTGGTGTAAAGCAAAAAACATTATCTCATCAATTGAGAACCAGGTATGGGCCTTAGCTTGgtttccgttcatccaactcaaggacatctcaat Alignment from Spaln_nt2Genome AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accacactgttgccaccctgctgctaccactgtaattatgttttccttagAGGAGGAGTTTGGGCAATTACTATGGGAGAAGA--TCCCCAGAATGGACCCCAAATATGA-CAAAAGGGTGGAGTCAAACACATGGGGGGAGTCTGTGCCTCGAACCTGTGATTGGTGTAAAGCAAAAAACATTATCTCATCAATTGAGAACCAGgtatgggccttagcttggtttccgttcatccaactcaaggacatctcaat Alignment from Pairagon AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accacactgttgccaccctgctgctaccactgtaattatgttttccttagAGGAGGAGTTTGGGCAATTACTATGGGAGAAGA--TCCCCAGAATGGACCCCAAATATGA-CAAAAGGGTGGAGTCAAACACATGGGGGGAGTCTGTGCCTCGAACCTGTGATTGGTGTAAAGCAAAAAACATTATCTCATCAATTGAGAACCAGgtatgggccttagcttggtttccgttcatccaactcaaggacatctcaat Alignment from Exonerate_protein2genome AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accacactgttgccaccctgctgctaccactgtaattatgttttccttagAGGAGGAGTTTGGGCAATTACTA---TGGGAGAAGATCCCCAGAATGGACCCCAAATATGACAAAAGGGTGGAGTCAAACACATGGGGGGAGTCTGTGCCTCGAACCTGTGATTGGTGTAAAGCAAAAAACATTATCTCATCAATTGAGAACCAGgtatgggccttagcttggtttccgttcatccaactcaaggacatctcaat Alignment from Exonerate_coding2genome AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAGGGAAGCTGCAAATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGC accacactgttgccaccctgctgctaccactgtaattatgttttccttagAGGAGGAGTTTGGGCAATTACTA---TGGGAGAAGATCCCCAGAATGGACCCCAAATATGACAAAAGGGTGGAGTCAAACACATGGGGGGAGTCTGTGCCTCGAACCTGTGATTGGTGTAAAGCAAAAAACATTATCTCATCAATTGAGAACCAGGTATGGGCCTTAGCTTGGTTTCCGTTCATCCAACTCAAGGACATCTCAAT Alignment from GeneWise AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAGGGA---------AGCTG accacactgttgccaccctgctgctaccactgtaattatgttttccttagAGGAGGAGTTTGGGCAATTACTA---TGGGAGAAGATCCCCAGAATGGACCCCAAATATGACAAAAGGGTGGAGTCAAACACATGGGGGGAGTCTGTGCCTCGAACCTGTGATTGGTGTAAAGCAAAAAACATTATCTCATCAATTGAGAACCAGGTATGGGCCTTAGCTTGgtttccgttcatccaactcaaggacatctcaat #### Cyp2c39_ID7783_2 --> 0 - 1 Original Alignment TTCTCAAAAGCCTATGGCCCTGTGTTCACTCTGTATTTGGGCTCACGGCCCACTGTT-GTATTACATGGGTATGAAGCAGTGAAGGAAGCTCTGATTGATCATGGGGAGGAGTTTTCTGATAGAGGAAGCATTCCAATGGTAGAAAAGATTAATAACGGCCTTg ttgtagaaggccaggatcgttagtttttaaacctttgtcttctccttcagTTCTCAAAAGCCTATGGCCCCCTTTTCACTGTGTATTTAGGTTCTTGTCCCACTGTTCGTACTATATGGGTACGAAGCAGTGAAGGAGGCTCTGATCGATC-TGGAGAGGAGTTCTCTGACAGAGGAAGCATCCCAATGATAGATGAGATTAATACTGGCCTAggtaattaaattaaaaggcaagttcaggtttgaggctttgagaattaattt Alignment from CESAR TTCTCAAAAGCCTATGGCCCTGTGTTCACTCTGTATTTGGGCTCACGGCCCACTGTT-GTATTACATGGGTATGAAGCAGTGAAGGAAGCTCTGATTGATCATGGGGAGGAGTTTTCTGATAGAGGAAGCATTCCAATGGTAGAAAAGATTAATAACGGCCTTg ttgtagaaggccaggatcgttagtttttaaacctttgtcttctccttcagTTCTCAAAAGCCTATGGCCCCCTTTTCACTGTGTATTTAGGTTCTTGTCCCACTGTTCGTACTATATGGGTACGAAGCAGTGAAGGAGGCTCTGATCGAT-CTGGAGAGGAGTTCTCTGACAGAGGAAGCATCCCAATGATAGATGAGATTAATACTGGCCTAggtaattaaattaaaaggcaagttcaggtttgaggctttgagaattaattt Alignment from Spaln_aa2Genome TTCTCAAAAGCCTATGGCCCTGTGTTCACTCTGTATTTGGGCTCACGGCCCACTGTTGTATTACATGGGTATGAAGCAGTGAAGGAAGCTCTGATTGATCATGGGGAGGAGTTTTCTGATAGAGGAAGCATTCCAATGGTAGAAAAGATTAATAACGGCCTTG ttgtagaaggccaggatcgttagtttttaaacctttgtcttctccttcagTTCTCAAAAGCCTATGGCCCCCTTTTCACTGTGTATTTAGGTTCTTGTCCCACTGTTCGTACTATATGGGTACGAAGCAGTGAAGGAGGCTCTGATCGATCTGGAGAGGAGTTCTCTGACAGAGGAAGCATCCCAATGATAGATGAGATTAATACTGGCCTAGgtaattaaattaaaaggcaagttcaggtttgaggctttgagaattaattt Alignment from Spaln_nt2Genome TTCTCAAAAGCCTATGGCCCTGTGTTCACTCTGTATTTGGGCTCACGGCCCACTGTT-GTATTACATGGGTATGAAGCAGTGAAGGAAGCTCTGATTGATCATGGGGAGGAGTTTTCTGATAGAGGAAGCATTCCAATGGTAGAAAAGATTAATAACGGCCTTG ttgtagaaggccaggatcgttagtttttaaacctttgtcttctccttcagTTCTCAAAAGCCTATGGCCCCCTTTTCACTGTGTATTTAGGTTCTTGTCCCACTGTTCGTACTATATGGGTACGAAGCAGTGAAGGAGGCTCTGATCGATC-TGGAGAGGAGTTCTCTGACAGAGGAAGCATCCCAATGATAGATGAGATTAATACTGGCCTAGgtaattaaattaaaaggcaagttcaggtttgaggctttgagaattaattt Alignment from Pairagon TTCTCAAAAGCCTATGGCCCTGTGTTCACTCTGTATTTGGGCTCACGGCCCACTGTT-GTATTACATGGGTATGAAGCAGTGAAGGAAGCTCTGATTGATCATGGGGAGGAGTTTTCTGATAGAGGAAGCATTCCAATGGTAGAAAAGATTAATAACGGCCTTG ttgtagaaggccaggatcgttagtttttaaacctttgtcttctccttcagTTCTCAAAAGCCTATGGCCCCCTTTTCACTGTGTATTTAGGTTCTTGTCCCACTGTTCGTACTATATGGGTACGAAGCAGTGAAGGAGGCTCTGATCGATC-TGGAGAGGAGTTCTCTGACAGAGGAAGCATCCCAATGATAGATGAGATTAATACTGGCCTAGgtaattaaattaaaaggcaagttcaggtttgaggctttgagaattaattt Alignment from Exonerate_protein2genome TTCTCAAAAGCCTATGGCCCTGTGTTCACTCTGTATTTGGGCTCACGGCCCACTGTT-GTATTACATGGGTATGAAGCAGTGAAGGAAGCTCTGATTGAT--CATGGGGAGGAGTTTTCTGATAGAGGAAGCATTCCAATGGTAGAAAAGATTAATAACGGCCTTG ttgtagaaggccaggatcgttagtttttaaacctttgtcttctccttcagTTCTCAAAAGCCTATGGCCCCCTTTTCACTGTGTATTTAGGTTCTTGTCCCACTGTTCGTACTATATGGGTACGAAGCAGTGAAGGAGGCTCTGATCGATCT---GGAGAGGAGTTCTCTGACAGAGGAAGCATCCCAATGATAGATGAGATTAATACTGGCCTAGgtaattaaattaaaaggcaagttcaggtttgaggctttgagaattaattt Alignment from Exonerate_coding2genome TTCTCAAAAGCCTATGGCCCTGTGTTCACTCTGTATTTGGGCTCACGGCCCACTGTT-GTATTACATGGGTATGAAGCAGTGAAGGAAGCTCTGATTGAT--CATGGGGAGGAGTTTTCTGATAGAGGAAGCATTCCAATGGTAGAAAAGATTAATAACGGCCTTG ttgtagaaggccaggatcgttagtttttaaacctttgtcttctccttcagTTCTCAAAAGCCTATGGCCCCCTTTTCACTGTGTATTTAGGTTCTTGTCCCACTGTTCGTACTATATGGGTACGAAGCAGTGAAGGAGGCTCTGATCGATCT---GGAGAGGAGTTCTCTGACAGAGGAAGCATCCCAATGATAGATGAGATTAATACTGGCCTAGgtaattaaattaaaaggcaagttcaggtttgaggctttgagaattaattt Alignment from GeneWise TTCTCAAAAGCCTATGGCCCTGTGTTCACTCTGTATTTGGGCTCACGGCCCACTGTT-GTATTACATGGGTATGAAGCAGTGAAGGAAGCTCTGATTGATCATGGGGAGGAGTTTTCTGATAGAGGAAGCATTCCAATGGTAGAAAAGATTAATAACGGCCTTG ttgtagaaggccaggatcgttagtttttaaacctttgtcttctccttcagTTCTCAAAAGCCTATGGCCCCCTTTTCACTGTGTATTTAGGTTCTTGTCCCACTGTTCGTACTATATGGGTACGAAGCAGTGAAGGAGGCTCTGATCGATCT-GGAGAGGAGTTCTCTGACAGAGGAAGCATCCCAATGATAGATGAGATTAATACTGGCCTAGgtaattaaattaaaaggcaagttcaggtttgaggctttgagaattaattt #### Cyp2c50_ID7861_2 --> 0 - 1 Original Alignment TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTT-GACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg atattacatggcagacagatatctctagtttttaaattgtttttttctagTTATCCAAAGTCTATGATGGTCCTGTGTATACTCTATATTTAGGTAAGAAACCTACTGTAGTATTACAGGGTTATGAGGCAGTGAGGGAATCATTAGTTCGACCATGGAGAAGAATTTGCTGGGAGAGAAAGAC-ACCTGTTTTTGATAAAGCTACCAATGGAATGggtagctttagatttccaatgccagtgaaggggagtatgagtgcatagcag Alignment from CESAR TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTT-GACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg atattacatggcagacagatatctctagtttttaaattgtttttttctagTTATCCAAAGTCTATGATGGTCCTGTGTATACTCTATATTTAGGTAAGAAACCTACTGTAGTATTACAGGGTTATGAGGCAGTGAGGGAATCATTAGTTCGACCATGGAGAAGAATTTGCTGGGAGAGAAAGA-CACCTGTTTTTGATAAAGCTACCAATGGAATGggtagctttagatttccaatgccagtgaaggggagtatgagtgcatagcag Alignment from Spaln_aa2Genome TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG atattacatggcagacagatatctctagtttttaaattgtttttttctagTTATCCAAAGTCTATGATGGTCCTGTGTATACTCTATATTTAGGTAAGAAACCTACTGTAGTATTACAGGGTTATGAGGCAGTGAGGGAATCATTAGTTCGACCATGGAGAAGAATTTGCTGGGAGAGAAAGACACCTGTTTTTGATAAAGCTACCAATGGAATGGgtagctttagatttccaatgccagtgaaggggagtatgagtgcatagcag Alignment from Spaln_nt2Genome TTATCAAAAGTTTATG---GCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTT-GACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG atattacatggcagacagatatctctagtttttaaattgtttttttctagTTATCCAAAGTCTATGATGGTCCTGTGTATACTCTATATTTAGGTAAGAAACCTACTGTAGTATTACAGGGTTATGAGGCAGTGAGGGAATCATTAGTTCGACCATGGAGAAGAATTTGCTGGGAGAGAAAGAC-ACCTGTTTTTGATAAAGCTACCAATGGAATGGgtagctttagatttccaatgccagtgaaggggagtatgagtgcatagcag Alignment from Pairagon TTATCAAAAGTTT---ATGGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTT-GACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG atattacatggcagacagatatctctagtttttaaattgtttttttctagTTATCCAAAGTCTATGATGGTCCTGTGTATACTCTATATTTAGGTAAGAAACCTACTGTAGTATTACAGGGTTATGAGGCAGTGAGGGAATCATTAGTTCGACCATGGAGAAGAATTTGCTGGGAGAGAAAGACACCT-GTTTTTGATAAAGCTACCAATGGAATGGgtagctttagatttccaatgccagtgaaggggagtatgagtgcatagcag Alignment from Exonerate_protein2genome TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG atattacatggcagacagatatctctagtttttaaattgtttttttctagTTATCCAAAGTCTATGATGGTCCTGTGTATACTCTATATTTAGGTAAGAAACCTACTGTAGTATTACAGGGTTATGAGGCAGTGAGGGAATCATTAGTTCGACCATGGAGAAGAATTTGCTGGGAGAGAAAGACACCTGTTTTTGATAAAGCTACCAATGGAATGGgtagctttagatttccaatgccagtgaaggggagtatgagtgcatagcag Alignment from Exonerate_coding2genome TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG atattacatggcagacagatatctctagtttttaaattgtttttttctagTTATCCAAAGTCTATGATGGTCCTGTGTATACTCTATATTTAGGTAAGAAACCTACTGTAGTATTACAGGGTTATGAGGCAGTGAGGGAATCATTAGTTCGACCATGGAGAAGAATTTGCTGGGAGAGAAAGACACCTGTTTTTGATAAAGCTACCAATGGAATGGgtagctttagatttccaatgccagtgaaggggagtatgagtgcatagcag Alignment from GeneWise TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG atattacatggcagacagatatctctagtttttaaattgtttttttctagTTATCCAAAGTCTATGATGGTCCTGTGTATACTCTATATTTAGGTAAGAAACCTACTGTAGTATTACAGGGTTATGAGGCAGTGAGGGAATCATTAGTTCGACCATGGAGAAGAATTTGCTGGGAGAGAAAGACACCTGTTTTTGATAAAGCTACCAATGGAATGGgtagctttagatttccaatgccagtgaaggggagtatgagtgcatagcag #### Cyp2c50_ID7863_4 --> 2 - 0 Original Alignment gcTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAA-GATCGGGATTTTCTTAATTTGATGGAAAAACTGAATGAAATAACCAAGATAATGAGCACCCCTTGGTTGCAG tttcatacctagctttagtcagtggattgttcacttttctgtctttccaggcTCACTGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAACGATCGGGATTTTCTCAATTTGATGGAAA-GTTAAATAAAATATCTAAAATAATGAGTATGCCATGGCTT---gtaagatcagatatttggaatgacacccgtttgctgttattattaagcgt Alignment from CESAR gcTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAA-GATCGGGATTTTCTTAATTTGATGGAAAAACTGAATGAAATAACCAAGATAATGAGCACCCCTTGGTTGCAG tttcatacctagctttagtcagtggattgttcacttttctgtctttccaggcTCACTGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAACGATCGGGATTTTCTCAATTTGATGG-AAAGTTAAATAAAATATCTAAAATAATGAGTATGCCATGGCTT---gtaagatcagatatttggaatgacacccgtttgctgttattattaag Alignment from Spaln_aa2Genome GCTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCTTAATTTGATGGAAAAACTGAATGAAATAACCAAGATAATGAGCACCCCTTGGTTG tttcatacctagctttagtcagtggattgttcacttttctgtctttccagGCTCACTGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAACGATCGGGATTTTCTCAATTTGATGGAAAGTTAAATAAAATATCTAAAATAATGAGTATGCCATGGCTTgtaagatcagatatttggaatgacacccgtttgctgttattattaagcgt Alignment from Spaln_nt2Genome GCTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAA-GATCGGGATTTTCTTAATTTGATGGAAAAACTGAATGAAATAACCAAGATAATGAGCACCCCTTGGTTG tttcatacctagctttagtcagtggattgttcacttttctgtctttccagGCTCACTGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAACGATCGGGATTTTCTCAATTTGATGG-AAAGTTAAATAAAATATCTAAAATAATGAGTATGCCATGGCTTgtaagatcagatatttggaatgacacccgtttgctgttattattaagcgt Alignment from Pairagon GCTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAA-GATCGGGATTTTCTTAATTTGATGGAAAAACTGAATGAAATAACCAAGATAATGA tttcatacctagctttagtcagtggattgttcacttttctgtctttccagGCTCACTGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAACGATCGGGATTTTCTCAATTTGATGG-AAAGTTAAATAAAATATCTAAAATAATGAgtatgccatggcttgtaagatcagatatttggaatgacacccgtttgctgttattattaagcgt Alignment from Exonerate_protein2genome GCTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCTTAATTTGATGGAAAAACTGAATGAAATAACCAAGATAATGAGCACCCCTTGGTTG tttcatacctagctttagtcagtggattgttcacttttctgtctttccagGCTCACTGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAACGATCGGGATTTTCTCAATTTGATGGAAAGTTAAATAAAATATCTAAAATAATGAGTATGCCATGGCTTgtaagatcagatatttggaatgacacccgtttgctgttattattaagcgt Alignment from Exonerate_coding2genome GCTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCTTAATTTGATGGAAAAACTGAATGAAATAACCAAGATAATGAGCACCCCTTGGTTG tttcatacctagctttagtcagtggattgttcacttttctgtctttccagGCTCACTGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAACGATCGGGATTTTCTCAATTTGATGGAAAGTTAAATAAAATATCTAAAATAATGAGTATGCCATGGCTTgtaagatcagatatttggaatgacacccgtttgctgttattattaagcgt Alignment from GeneWise GCTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCTTAATTTGATGGAAAAACTGAATGAAATAACCAAGATAATGAGCACCCCTTGGTTG tttcatacctagctttagtcagtggattgttcacttttctgtctttccagGCTCACTGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAACGATCGGGATTTTCTCAATTTGATGGAAAGTTAAATAAAATATCTAAAATAATGAGTATGCCATGGCTTgtaagatcagatatttggaatgacacccgtttgctgttattattaagcgt #### Cyp2c54_ID7855_3 --> 2 - 1 Original Alignment gcATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTC-TCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg agcccggctgtggtgccaaggttgcttacctgcttggctctggcctgcaggcATTGGATTTAGCAATGGAACCGTATGGAAGAACACCAGGCACTTCCTCACTGATGACATTGTGGAATTTAGGTATGGGAAAAA-GAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGAGTAATggtaagtggaacgagagtgaggttaccaactgggttgcgcaaattctgttt Alignment from CESAR gcATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTC-TCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg agcccggctgtggtgccaaggttgcttacctgcttggctctggcctgcaggcATTGGATTTAGCAATGGAACCGTATGGAAGAACACCAGGCACTTCCTCACTGATGACATTGTGGAATTTAGGTATGGGAAAAA-GAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGAGTAATggtaagtggaacgagagtgaggttaccaactgggttgcgcaaattctgttt Alignment from Spaln_aa2Genome GCATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG agcccggctgtggtgccaaggttgcttacctgcttggctctggcctgcagGCATTGGATTTAGCAATGGAACCGTATGGAAGAACACCAGGCACTTCCTCACTGATGACATTGTGGAATTTAGGTATGGGAAAAAGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGAGTAATGgtaagtggaacgagagtgaggttaccaactgggttgcgcaaattctgttt Alignment from Spaln_nt2Genome GCATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTT-CTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG agcccggctgtggtgccaaggttgcttacctgcttggctctggcctgcagGCATTGGATTTAGCAATGGAACCGTATGGAAGAACACCAGGCACTTCCTCACTGATGACATTGTGGAATTTAGGTATGGGAAAAA-GAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGAGTAATGgtaagtggaacgagagtgaggttaccaactgggttgcgcaaattctgttt Alignment from Pairagon GCATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTT-CTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG agcccggctgtggtgccaaggttgcttacctgcttggctctggcctgcagGCATTGGATTTAGCAATGGAACCGTATGGAAGAACACCAGGCACTTCCTCACTGATGACATTGTGGAATTTAGGTATGGGAAAAA-GAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGAGTAATGgtaagtggaacgagagtgaggttaccaactgggttgcgcaaattctgttt Alignment from Exonerate_protein2genome GCATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG agcccggctgtggtgccaaggttgcttacctgcttggctctggcctgcagGCATTGGATTTAGCAATGGAACCGTATGGAAGAACACCAGGCACTTCCTCACTGATGACATTGTGGAATTTAGGTATGGGAAAAAGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGAGTAATGgtaagtggaacgagagtgaggttaccaactgggttgcgcaaattctgttt Alignment from Exonerate_coding2genome GCATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG agcccggctgtggtgccaaggttgcttacctgcttggctctggcctgcagGCATTGGATTTAGCAATGGAACCGTATGGAAGAACACCAGGCACTTCCTCACTGATGACATTGTGGAATTTAGGTATGGGAAAAAGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGAGTAATGgtaagtggaacgagagtgaggttaccaactgggttgcgcaaattctgttt Alignment from GeneWise GCATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG agcccggctgtggtgccaaggttgcttacctgcttggctctggcctgcagGCATTGGATTTAGCAATGGAACCGTATGGAAGAACACCAGGCACTTCCTCACTGATGACATTGTGGAATTTAGGTATGGGAAAAAGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGAGTAATGgtaagtggaacgagagtgaggttaccaactgggttgcgcaaattctgttt #### Cyp2c54_ID7856_2 --> 0 - 1 Original Alignment TTATCAAGAGTTTATGGTCCTGTGTATACTCTA-TATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg gggtgacttcatatggttacttcatattcatttcatctgtatatttgcagTTATCACGAGTTTATGGTCCATTTTATACTTTACTATCTAGGGAGGAAGCCAACTGTTGTTTTAC-TGGGTATGAGGCTGTGAAGGAGGAAGTTCTTGCTGACCAAGGGGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGggtgagctctggggcgtgtaccatgcatggttgcactactatgatatccaa Alignment from CESAR TTATCAAGAGTTTATGGTCCTGTGTATACTCTA-TATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg gggtgacttcatatggttacttcatattcatttcatctgtatatttgcagTTATCACGAGTTTATGGTCCATTTTATACTTTACTATCTAGGGAGGAAGCCAACTGTTGTTTTA-CTGGGTATGAGGCTGTGAAGGAGGAAGTTCTTGCTGACCAAGGGGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGggtgagctctggggcgtgtaccatgcatggttgcactactatgatatccaa Alignment from Spaln_aa2Genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG gggtgacttcatatggttacttcatattcatttcatctgtatatttgcagTTATCACGAGTTTATGGTCCATTTTATACTTTACTATCTAGGGAGGAAGCCAACTGTTGTTTTACTGGGTATGAGGCTGTGAAGGAGGAAGTTCTTGCTGACCAAGGGGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGGgtgagctctggggcgtgtaccatgcatggttgcactactatgatatccaa Alignment from Spaln_nt2Genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTA-TATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGA---AGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG gggtgacttcatatggttacttcatattcatttcatctgtatatttgcagTTATCACGAGTTTATGGTCCATTTTATACTTTACTATCTAGGGAGGAAGCCAACTGTTGTTTTAC-TGGGTATGAGGCTGTGAAGGAGGAAGTTCTTGCTGACCAAGGGGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGGgtgagctctggggcgtgtaccatgcatggttgcactactatgatatccaa Alignment from Pairagon TTATCAAGAGTTTATGGTCCTGTGTATACTCTA-TATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGA---AGGAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG gggtgacttcatatggttacttcatattcatttcatctgtatatttgcagTTATCACGAGTTTATGGTCCATTTTATACTTTACTATCTAGGGAGGAAGCCAACTGTTGTTTTAC-TGGGTATGAGGCTGTGAAGGAGGAAGTTCTTGCTGACCAAGGGGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGGgtgagctctggggcgtgtaccatgcatggttgcactactatgatatccaa Alignment from Exonerate_protein2genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG gggtgacttcatatggttacttcatattcatttcatctgtatatttgcagTTATCACGAGTTTATGGTCCATTTTATACTTTACTATCTAGGGAGGAAGCCAACTGTTGTTTTACTGGGTATGAGGCTGTGAAGGAGGAAGTTCTTGCTGACCAAGGGGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGGgtgagctctggggcgtgtaccatgcatggttgcactactatgatatccaa Alignment from Exonerate_coding2genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG gggtgacttcatatggttacttcatattcatttcatctgtatatttgcagTTATCACGAGTTTATGGTCCATTTTATACTTTACTATCTAGGGAGGAAGCCAACTGTTGTTTTACTGGGTATGAGGCTGTGAAGGAGGAAGTTCTTGCTGACCAAGGGGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGGgtgagctctggggcgtgtaccatgcatggttgcactactatgatatccaa Alignment from GeneWise TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAA---GCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG gggtgacttcatatggttacttcatattcatttcatctgtatatttgcagTTATCACGAGTTTATGGTCCATTTTATACTTTACTATCTAGGGAGGAAGCCAACTGTTGTTTTACTGGGTATGAGGCTGTGAAGGAGGAAGTTCTTGCTGACCAAGGGGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGGgtgagctctggggcgtgtaccatgcatggttgcactactatgatatccaa #### D19Ertd737e_ID13192_2 --> 0 - 1 Original Alignment AAATTTCAAGAATTGCATAAAAAAAATTCT-GAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAg atgcccatcttctgcctacgtgtacacaggggtttttcttttattttaagAAGTTTCAAGAATTGCATAAAAAAAACTCACGAACAAAAGAATTTAACACTAAGATTCAGGC-GAAAAAAAGAAAGAGGTCAAAAAAGggtaagtgtagcttaggaatgttggcttacatttaaattaagtaggccatt Alignment from CESAR AAATTTCAAGAATTGCATAAAAAAAATTCT-GAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAg atgcccatcttctgcctacgtgtacacaggggtttttcttttattttaagAAGTTTCAAGAATTGCATAAAAAAAACTCACGAACAAAAGAATTTAACACTAAGATTCAGG-CGAAAAAAAGAAAGAGGTCAAAAAAGggtaagtgtagcttaggaatgttggcttacatttaaattaagtaggccatt Alignment from Spaln_aa2Genome AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG atgcccatcttctgcctacgtgtacacaggggtttttcttttattttaagAAGTTTCAAGAATTGCATAAAAAAAACTCACGAACAAAAGAATTTAACACTAAGATTCAGGCGAAAAAAAGAAAGAGGTCAAAAAAGGgtaagtgtagcttaggaatgttggcttacatttaaattaagtaggccatt Alignment from Spaln_nt2Genome AAATTTCAAGAATTGCATAAAAAAAATTCT-GAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG atgcccatcttctgcctacgtgtacacaggggtttttcttttattttaagAAGTTTCAAGAATTGCATAAAAAAAACTCACGAACAAAAGAATTTAACACTAAGATTCAGGC-GAAAAAAAGAAAGAGGTCAAAAAAGGgtaagtgtagcttaggaatgttggcttacatttaaattaagtaggccatt Alignment from Pairagon AAATTTCAAGAATTGCATAAAAAAAATTC-TGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG atgcccatcttctgcctacgtgtacacaggggtttttcttttattttaagAAGTTTCAAGAATTGCATAAAAAAAACTCACGAACAAAAGAATTTAACACTAAGATTCAGGC-GAAAAAAAGAAAGAGGTCAAAAAAGGgtaagtgtagcttaggaatgttggcttacatttaaattaagtaggccatt Alignment from Exonerate_protein2genome AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG atgcccatcttctgcctacgtgtacacaggggtttttcttttattttaagAAGTTTCAAGAATTGCATAAAAAAAACTCACGAACAAAAGAATTTAACACTAAGATTCAGGCGAAAAAAAGAAAGAGGTCAAAAAAGGgtaagtgtagcttaggaatgttggcttacatttaaattaagtaggccatt Alignment from Exonerate_coding2genome AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAGGCAAATTGAAGAATGAAAAGGAATCTCACAG atgcccatcttctgcctacgtgtacacaggggtttttcttttattttaagAAGTTTCAAGAATTGCATAAAAAAAACTCACGAACAAAAGAATTTAACACTAAGATTCAGGCGAAAAAAAGAAAGAGGTCAAAAAAGGGTAAGTGTAGCTTAGGAATGTTGGCTTACATttaaattaagtaggccatt Alignment from GeneWise AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAGGCAAA- atgcccatcttctgcctacgtgtacacaggggtttttcttttattttaagAAGTTTCAAGAATTGCATAAAAAAAACTCACGAACAAAAGAATTTAACACTAAGATTCAGGCGAAAAAAAGAAAGAGGTCAAAAAAGGGTAAGTgtagcttaggaatgttggcttacatttaaattaagtaggccatt #### Dagla_ID2755_15 --> 1 - 0 Original Alignment gATTGGCCTTTCCCAGCTG-GAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA ggacagagatgttggtaaagaaggaaacaaatgttttgatgattctccaggGTTGGCCTTTCCCAACTACGAAGGATTTTGCAGGCAGCTTTTAGATGTCTTGCAAC-GAGTACTAAACCCAAGgtaaatactggtcagagctacagaaccaaaaaacgcctgtctatatgtgg Alignment from CESAR gATTGGCCTTTCCCAGCTG-GAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA ggacagagatgttggtaaagaaggaaacaaatgttttgatgattctccaggGTTGGCCTTTCCCAACTACGAAGGATTTTGCAGGCAGCTTTTAGATGTCTTGCAAC-GAGTACTAAACCCAAGgtaaatactggtcagagctacagaaccaaaaaacgcctgtctatatgtgg Alignment from Spaln_aa2Genome ---ATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAA ggacagagatgttggtaaagaaggaaacaaatgttttgatgattctccagGGTTGGCCTTTCCCAACTACGAAGGATTTTGCAGGCAGCTTTTAGATGTCTTGCAACGAGT-ACTAAACCCAAGgtaaatactggtcagagctacagaaccaaaaaacgcctgtctatatgtgg Alignment from Spaln_nt2Genome GATTGGCCTTTCCCAGCTG-GAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA ggacagagatgttggtaaagaaggaaacaaatgttttgatgattctccagGGTTGGCCTTTCCCAACTACGAAGGATTTTGCAGGCAGCTTTTAGATGTCTTGCAAC-GAGTACTAAACCCAAGgtaaatactggtcagagctacagaaccaaaaaacgcctgtctatatgtgg Alignment from Pairagon GATTGGCCTTTCCCAGCTG-GAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA ggacagagatgttggtaaagaaggaaacaaatgttttgatgattctccagGGTTGGCCTTTCCCAACTACGAAGGATTTTGCAGGCAGCTTTTAGATGTCTTGCAAC-GAGTACTAAACCCAAGgtaaatactggtcagagctacagaaccaaaaaacgcctgtctatatgtgg Alignment from Exonerate_protein2genome GATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA ggacagagatgttggtaaagaaggaaacaaatgttttgatgattctccagGGTTGGCCTTTCCCAACTACGAAGGATTTTGCAGGCAGCTTTTAGATGTCTTGCAACGAGTACTAAACCCAAGgtaaatactggtcagagctacagaaccaaaaaacgcctgtctatatgtgg Alignment from Exonerate_coding2genome GATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA ggacagagatgttggtaaagaaggaaacaaatgttttgatgattctccagGGTTGGCCTTTCCCAACTACGAAGGATTTTGCAGGCAGCTTTTAGATGTCTTGCAACGAGTACTAAACCCAAGgtaaatactggtcagagctacagaaccaaaaaacgcctgtctatatgtgg Alignment from GeneWise GATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA ggacagagatgttggtaaagaaggaaacaaatgttttgatgattctccagGGTTGGCCTTTCCCAACTACGAAGGATTTTGCAGGCAGCTTTTAGATGTCTTGCAACGAGTACTAAACCCAAGgtaaatactggtcagagctacagaaccaaaaaacgcctgtctatatgtgg #### Dak_ID2897_16 --> 0 - 0 Original Alignment CTGGATTCTCTGTGGGCA-GCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG ttggccccccctatggtgctaagattggctgcagtctctgatccctgcagCTAGACTCCCTGTGGTCACGCAGCACAGGAGTTCCAAGCCTGGAAAAGTCCCGGCGCTA-CCTCCTTCCAGTCCTTACAAAAGCTGTCAAGgtgagtcactcactagtaagtcagctcaccattaaggacctaaggattct Alignment from CESAR CTGGATTCTCTGTGGGCA-GCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG ttggccccccctatggtgctaagattggctgcagtctctgatccctgcagCTAGACTCCCTGTGGTCACGCAGCACAGGAGTTCCAAGCCTGGAAAAGTCCCGGCGCTA-CCTCCTTCCAGTCCTTACAAAAGCTGTCAAGgtgagtcactcactagtaagtcagctcaccattaaggacctaaggattct Alignment from Spaln_aa2Genome CTGGATTCTCTGTGGGCA-GCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG ttggccccccctatggtgctaagattggctgcagtctctgatccctgcagCTAGACTCCCTGTGGTCAcGCAGCACAGGAGTTCCAAGCCTGGAAAAGTCCCGGCGCTAC-CTCCTTCCAGTCCTTACAAAAGCTGTCAAGgtgagtcactcactagtaagtcagctcaccattaaggacctaaggattct Alignment from Spaln_nt2Genome CTGGATTCTCTGTGGGCA-GCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG ttggccccccctatggtgctaagattggctgcagtctctgatccctgcagCTAGACTCCCTGTGGTCACGCAGCACAGGAGTTCCAAGCCTGGAAAAGTCCCGGCGCTA-CCTCCTTCCAGTCCTTACAAAAGCTGTCAAGgtgagtcactcactagtaagtcagctcaccattaaggacctaaggattct Alignment from Pairagon CTGGATTCTCTGTGGGCA-GCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG ttggccccccctatggtgctaagattggctgcagtctctgatccctgcagCTAGACTCCCTGTGGTCACGCAGCACAGGAGTTCCAAGCCTGGAAAAGTCCCGGCGCTA-CCTCCTTCCAGTCCTTACAAAAGCTGTCAAGgtgagtcactcactagtaagtcagctcaccattaaggacctaaggattct Alignment from Exonerate_protein2genome CTGGATTCTCTGTGGGCA-GCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCC--AGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG ttggccccccctatggtgctaagattggctgcagtctctgatccctgcagCTAGACTCCCTGTGGTCACGCAGCACAGGAGTTCCAAGCCTGGAAAAGTCCCGGCGCTAC---CTCCTTCCAGTCCTTACAAAAGCTGTCAAGgtgagtcactcactagtaagtcagctcaccattaaggacctaaggattct Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CTGGATTCTCTGTGG-GCAGCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG ttggccccccctatggtgctaagattggctgcagtctctgatccctgcagCTAGACTCCCTGTGGTCACGCAGCACAGGAGTTCCAAGCCTGGAAAAGTCCCGGCGCTAC-CTCCTTCCAGTCCTTACAAAAGCTGTCAAGgtgagtcactcactagtaagtcagctcaccattaaggacctaaggattct #### Dak_ID2900_13 --> 2 - 0 Original Alignment ccATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACC-AGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtggttcagatatatatctttttctctttccagccATCCAGGGGTGGTTGAAAGAGGGCCCATCACTGACCCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGG-GAGGATGGGAGCTTCATCTGGGGCAgtgcgaagaacagttcttaggaccattataggaagccttactacagctag Alignment from CESAR ccATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACC-AGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtggttcagatatatatctttttctctttccagccATCCAGGGGTGGTTGAAAGAGGGCCCATCACTGACCCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTG-GGAGGATGGGAGCTTCATCTGGGGCAgtgcgaagaacagttcttaggaccattataggaagccttactacagctag Alignment from Spaln_aa2Genome CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtggttcagatatatatctttttctctttccagCCATCCAGGGGTGGTTGAAAGAGGGCCCATCACTGACCCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGGAGGATGGGAGCTTCATCTGGGGCAgtgcgaagaacagttcttaggaccattataggaagccttactacagctag Alignment from Spaln_nt2Genome CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACC-AGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtggttcagatatatatctttttctctttccagCCATCCAGGGGTGGTTGAAAGAGGGCCCATCACTGACCCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGG-GAGGATGGGAGCTTCATCTGGGGCAgtgcgaagaacagttcttaggaccattataggaagccttactacagctag Alignment from Pairagon CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAA-CCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtggttcagatatatatctttttctctttccagCCATCCAGGGGTGGTTGAAAGAGGGCCCATCACTGACCCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGG-GAGGATGGGAGCTTCATCTGGGGCAgtgcgaagaacagttcttaggaccattataggaagccttactacagctag Alignment from Exonerate_protein2genome CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtggttcagatatatatctttttctctttccagCCATCCAGGGGTGGTTGAAAGAGGGCCCATCACTGACCCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGGAGGATGGGAGCTTCATCTGGGGCAgtgcgaagaacagttcttaggaccattataggaagccttactacagctag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtggttcagatatatatctttttctctttccagCCATCCAGGGGTGGTTGAAAGAGGGCCCATCACTGACCCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGGAGGATGGGAGCTTCATCTGGGGCAgtgcgaagaacagttcttaggaccattataggaagccttactacagctag #### Dak_ID2902_11 --> 2 - 1 Original Alignment atGCTGAAACTACTGCAAAAGCCTGGCCTCACATGGCCAAGGTCTCT-GTG------------------ACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAg atcaaggcactactgctgtatgaatgggactgtcttttccttgtcctcagatGCTGAGTCAACTGCAAAACGT---TAT---ATGACCAAAGTCTCTCGTCATGACCAAAGTCTCCATAACTGGGAGGAAACAGATCC-GGCATCCCCCACAGAGCCACCTGAGTCCCCGGAAGCTACTGTTGCAGGGggtgagtagtccagatgtgaatactaaggacaaggaaggcttacctagcag Alignment from CESAR atGCTGAAACTACTGCAAAA---------------GCCTGGCCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAg atcaaggcactactgctgtatgaatgggactgtcttttccttgtcctcagatGCTGAGTCAACTGCAAAACGTTATATGACCAAAGTCTCTCGTC--ATGACCAAAGTCTCCATAACTGGGAGGAAACAGATCC-GGCATCCCCCACAGAGCCACCTGAGTCCCCGGAAGCTACTGTTGCAGGGggtgagtagtccagatgtgaatactaaggacaaggaaggcttacctagcag Alignment from Spaln_aa2Genome ATGCTGAAACTACTGCAAAAGCCTGGCCTCACATGGCCAAGGTCTCTGTGACTGGGAGG------------------AAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAG atcaaggcactactgctgtatgaatgggactgtcttttccttgtcctcagATGCTGAGTCAACTGCAAAA------CGTTATATGACCAAAGTCTCTCGTCATGACCAAAGTCTCCATAACTGGGAGGAAACAGATCCGGCATCCCCCACAGAGCCACCTGAGTCCCCGGAAGCTACTGTTGCAGGGGgtgagtagtccagatgtgaatactaaggacaaggaaggcttacctagcag Alignment from Spaln_nt2Genome ATGCTGAAACTACTGCAAAAGCCTG----------GCCTCAC---ATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAG atcaaggcactactgctgtatgaatgggactgtcttttccttgtcctcagATGCTGAGTCAACTGCAAAACGTTATATGACCAAAGTCTCTCGTCATGACCAAAGTCTCCATAACTGGGAGGAAACAGA-TCCGGCATCCCCCACAGAGCCACCTGAGTCCCCGGAAGCTACTGTTGCAGGGGgtgagtagtccagatgtgaatactaaggacaaggaaggcttacctagcag Alignment from Pairagon ATGCTGAAACTACTGCAAAAGCCTGGCCTCA------------------------CATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAG atcaaggcactactgctgtatgaatgggactgtcttttccttgtcctcagATGCTGAGTCAACTGCAAA-----------ACGTTATATGACCAAAGTCTCTCGTCATGACCAAAGTCTCCATAACTGGGAGGAAACAGATCC-GGCATCCCCCACAGAGCCACCTGAGTCCCCGGAAGCTACTGTTGCAGGGGgtgagtagtccagatgtgaatactaaggacaaggaaggcttacctagcag Alignment from Exonerate_protein2genome ATGCTGAAACTACTGCAAAAGCCTGG---CCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAA---------GCCCCTGAAGCCACTGCAGCAGGAG atcaaggcactactgctgtatgaatgggactgtcttttccttgtcctcagATGCTGAGTCAACTGCAAAACGTTATATGACCAAAGTCTCTCGTCATGACCAAAGTCTCCATAACTGGGAGGAAACAGATCCGGCATCCCCCACAGAGCCACCTGAGTCCCCGGAAGCTACTGTTGCAGGGGgtgagtagtccagatgtgaatactaaggacaaggaaggcttacctagcag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATGCTGAAACTACTGCAAAAGCCTGGCCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGG------------------GCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAG atcaaggcactactgctgtatgaatgggactgtcttttccttgtcctcagATGCTGAGTCAACTGCAAAACGTTAT------ATGACCAAAGTCTCTCGTCATGACCAAAGTCTCCATAACTGGGAGGAAACAGATCCGGCATCCCCCACAGAGCCACCTGAGTCCCCGGAAGCTACTGTTGCAGGGGgtgagtagtccagatgtgaatactaaggacaaggaaggcttacctagcag #### Dak_ID2904_9 --> 2 - 1 Original Alignment gcTCTTCAGTGGTGCTGATAGTCAACAAT-CTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGg gtgtgtctaggcatgctccaagcatgctctaaagtatttttgtcttctaggtTCATCAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCCGGGAACTGG-TATCACTGCTGATGCTGCCATACATTTGCTTggtaaagaacctcatcaggcatccatatggaaaccctttaatgcctatgcc Alignment from CESAR gcTCTTCAGTGGTGCTGATAGTCAACAAT-CTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGg gtgtgtctaggcatgctccaagcatgctctaaagtatttttgtcttctaggtTCATCAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCCGGGAAC-TGGTATCACTGCTGATGCTGCCATACATTTGCTTggtaaagaacctcatcaggcatccatatggaaaccctttaatgcctatgcc Alignment from Spaln_aa2Genome GCTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gtgtgtctaggcatgctccaagcatgctctaaagtatttttgtcttctagGTTCATCAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCCGGGAACTGGTATCACTGCTGATGCTGCCATACATTTGCTTGgtaaagaacctcatcaggcatccatatggaaaccctttaatgcctatgcc Alignment from Spaln_nt2Genome GCTCTTCAGTGGTGCTGATAGTCAACAATC-TGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gtgtgtctaggcatgctccaagcatgctctaaagtatttttgtcttctagGTTCATCAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCCGGGAACT-GGTATCACTGCTGATGCTGCCATACATTTGCTTGgtaaagaacctcatcaggcatccatatggaaaccctttaatgcctatgcc Alignment from Pairagon GCTCTTCAGTGGTGCTGATAGTCAACAAT-CTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gtgtgtctaggcatgctccaagcatgctctaaagtatttttgtcttctagGTTCATCAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCCGGGAACT-GGTATCACTGCTGATGCTGCCATACATTTGCTTGgtaaagaacctcatcaggcatccatatggaaaccctttaatgcctatgcc Alignment from Exonerate_protein2genome GCTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gtgtgtctaggcatgctccaagcatgctctaaagtatttttgtcttctagGTTCATCAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCCGGGAACTGGTATCACTGCTGATGCTGCCATACATTTGCTTGgtaaagaacctcatcaggcatccatatggaaaccctttaatgcctatgcc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GCTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gtgtgtctaggcatgctccaagcatgctctaaagtatttttgtcttctagGTTCATCAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCCGGGAACTGGTATCACTGCTGATGCTGCCATACATTTGCTTGgtaaagaacctcatcaggcatccatatggaaaccctttaatgcctatgcc #### Ddb1_ID2924_9 --> 0 - 0 Original Alignment CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTA-GGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tgtctgtttattcaagtctttagtctaacccctcccccatcacatttcagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTCACTAATTTGCGGACCTATTATAGATATGTTTGTCGTGGACCTGGAGAGGC-GGGACAGGGGCAGgtacgtggcatccctaaagagtggaagactaggagctgtaaacatcttta Alignment from CESAR CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTA-GGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tgtctgtttattcaagtctttagtctaacccctcccccatcacatttcagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTCACTAATTTGCGGACCTATTATAGATATGTTTGTCGTGGACCTGGAGAGG-CGGGACAGGGGCAGgtacgtggcatccctaaagagtggaagactaggagctgtaaacatcttta Alignment from Spaln_aa2Genome CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTA-GGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG--- tgtctgtttattcaagtctttagtctaacccctcccccatcacatttcagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTCACTAATTTGcGGACCTATTATAGATATGTTTGTCGTGGACCTGGAGAGGCGGGACAGGGGCAGGTACgtggcatccctaaagagtggaagactaggagctgtaaacatcttta Alignment from Spaln_nt2Genome CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTA-GGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tgtctgtttattcaagtctttagtctaacccctcccccatcacatttcagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTCACTAATTTGCGGACCTATTATAGATATGTTTGTCGTGGACCTGGAGAGGC-GGGACAGGGGCAGgtacgtggcatccctaaagagtggaagactaggagctgtaaacatcttta Alignment from Pairagon CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTA-GGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tgtctgtttattcaagtctttagtctaacccctcccccatcacatttcagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTCACTAATTTGCGGACCTATTATAGATATGTTTGTCGTGGACCTGGAGAGGC-GGGACAGGGGCAGgtacgtggcatccctaaagagtggaagactaggagctgtaaacatcttta Alignment from Exonerate_protein2genome CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTA-GGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCA tgtctgtttattcaagtctttagtctaacccctcccccatcacatttcagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTCACTAATTTGCGGACCTATTATAGATATGTTTGTCGTGGACCTGGAGAGGCGGGACAGGGGCAGgtacgtggcatccctaaagagtggaagactaggagctgtaaacatcttta Alignment from Exonerate_coding2genome CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTA-GGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCA tgtctgtttattcaagtctttagtctaacccctcccccatcacatttcagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTCACTAATTTGCGGACCTATTATAGATATGTTTGTCGTGGACCTGGAGAGGCGGGACAGGGGCAGgtacgtggcatccctaaagagtggaagactaggagctgtaaacatcttta Alignment from GeneWise CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAAT-TTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAGCTG tgtctgtttattcaagtctttagtctaacccctcccccatcacatttcagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTCACTAATTTGCGGACCTATTATAGATATGTTTGTCGTGGACCTGGAGAGGCGGGACAGGGGCAGGTACgtggcatccctaaagagtggaagactaggagctgtaaacatcttta #### Ddb1_ID2935_20 --> 2 - 1 Original Alignment tgCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTAC-TTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATg cggccagaacctgtgtagatagcagatctttatctcatttctacatctagtgCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACCTTCATTGTTGGTACAGCAATGGTGTATCCAGAAGAGGCAGAGC-CAAGCAAGGTCATATTGTGGTTTTCCAATATTCTGATggtgcgatgatgaatttgaggctccttttttttttttagaggcctgtttgt Alignment from CESAR tgCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTAC-TTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATg cggccagaacctgtgtagatagcagatctttatctcatttctacatctagtgCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACCTTCATTGTTGGTACAGCAATGGTGTATCCAGAAGAGGCAGAGC-CAAGCAAGGTCATATTGTGGTTTTCCAATATTCTGATggtgcgatgatgaatttgaggctccttttttttttttagaggcctgtttgt Alignment from Spaln_aa2Genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTAC-TTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG cggccagaacctgtgtagatagcagatctttatctcatttctacatctagTGCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACcTTCATTGTTGGTACAGCAATGGTGTATCCAGAAGAGGCAGAGCC-AAGCAAGGTCATATTGTGGTTTTCCAATATTCTGATGgtgcgatgatgaatttgaggctccttttttttttttagaggcctgtttgt Alignment from Spaln_nt2Genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTA-CTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG cggccagaacctgtgtagatagcagatctttatctcatttctacatctagTGCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACCTTCATTGTTGGTACAGCAATGGTGTATCCAGAAGAGGCAGAGCCA-AGCAAGGTCATATTGTGGTTTTCCAATATTCTGATGgtgcgatgatgaatttgaggctccttttttttttttagaggcctgtttgt Alignment from Pairagon TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTA-CTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG cggccagaacctgtgtagatagcagatctttatctcatttctacatctagTGCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACCTTCATTGTTGGTACAGCAATGGTGTATCCAGAAGAGGCAGAG-CCAAGCAAGGTCATATTGTGGTTTTCCAATATTCTGATGgtgcgatgatgaatttgaggctccttttttttttttagaggcctgtttgt Alignment from Exonerate_protein2genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTAC-TTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCC--AAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG cggccagaacctgtgtagatagcagatctttatctcatttctacatctagTGCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACCTTCATTGTTGGTACAGCAATGGTGTATCCAGAAGAGGCAGAGCCAAG---CAAGGTCATATTGTGGTTTTCCAATATTCTGATGgtgcgatgatgaatttgaggctccttttttttttttagaggcctgtttgt Alignment from Exonerate_coding2genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTAC-TTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCC--AAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG cggccagaacctgtgtagatagcagatctttatctcatttctacatctagTGCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACCTTCATTGTTGGTACAGCAATGGTGTATCCAGAAGAGGCAGAGCCAAG---CAAGGTCATATTGTGGTTTTCCAATATTCTGATGgtgcgatgatgaatttgaggctccttttttttttttagaggcctgtttgt Alignment from GeneWise TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTAC-TTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG cggccagaacctgtgtagatagcagatctttatctcatttctacatctagTGCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACCTTCATTGTTGGTACAGCAATGGTGTATCCAGAAGAGGCAGAGCCAAG-CAAGGTCATATTGTGGTTTTCCAATATTCTGATGgtgcgatgatgaatttgaggctccttttttttttttagaggcctgtttgt #### Ddb1_ID2936_21 --> 2 - 0 Original Alignment gaAAACTACAGACTGTGGCTGAAAAGGAA-GTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG cctgaggagaagtctatcaagcactggcttatctagtgtcttgtttttaggaAAGCTT---ACTGTCACTGATAAGGAACGTAAAAGGGGCAGTGTACTCAATGGTCGACTTTA-TGGGAAATTATTGGCCAGCACGAATAGCACAgtgagtgacaagggtttttaggctgaactctgatgacccacatttggaat Alignment from CESAR gaAAACTACAGACTGTGGCTGAAAAGGAA-GTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG cctgaggagaagtctatcaagcactggcttatctagtgtcttgtttttaggaAAGCTT---ACTGTCACTGATAAGGAACGTAAAAGGGGCAGTGTACTCAATGGTCGACTTT-ATGGGAAATTATTGGCCAGCACGAATAGCACAgtgagtgacaagggtttttaggctgaactctgatgacccacatttggaat Alignment from Spaln_aa2Genome GAAAACTACAGACTGTGGCTGAAAAGGAA-GTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG cctgaggagaagtctatcaagcactggcttatctagtgtcttgtttttagGAAAGCTT---ACTGTCACTGATAAGGAAcGTAAAAGGGGCAGTGTACTCAATGGTCGACTTTAT-GGGAAATTATTGGCCAGCACGAATAGCACAgtgagtgacaagggtttttaggctgaactctgatgacccacatttggaat Alignment from Spaln_nt2Genome GAAAACTACAGACTGTGGCTGAAAAGGAA-GTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG cctgaggagaagtctatcaagcactggcttatctagtgtcttgtttttagGAAAGCT---TACTGTCACTGATAAGGAACGTAAAAGGGGCAGTGTACTCAATGGTCGACTTT-ATGGGAAATTATTGGCCAGCACGAATAGCACAgtgagtgacaagggtttttaggctgaactctgatgacccacatttggaat Alignment from Pairagon GAAAACTACAGACTGTGGCTGAAAAGGAA-GTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG cctgaggagaagtctatcaagcactggcttatctagtgtcttgtttttagGAAAGCT---TACTGTCACTGATAAGGAACGTAAAAGGGGCAGTGTACTCAATGGTCGACTTT-ATGGGAAATTATTGGCCAGCACGAATAGCACAgtgagtgacaagggtttttaggctgaactctgatgacccacatttggaat Alignment from Exonerate_protein2genome GAAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG cctgaggagaagtctatcaagcactggcttatctagtgtcttgtttttagGAAAGCTT---ACTGTCACTGATAAGGAACGTAAAAGGGGCAGTGTACTCAATGGTCGACTTTATGGGAAATTATTGGCCAGCACGAATAGCACAgtgagtgacaagggtttttaggctgaactctgatgacccacatttggaat Alignment from Exonerate_coding2genome cctgaggagaagtctatcaagcactggcttatctagtgtcttgtttttaggaaagcttactgtcactgataaggaacgtaaaaggggcagtgtactcaatggtcgactttatgggaaattattggccagcacgaatagcacagtgagtgacaagggtttttaggctgaactctgatgacccacatttggaat Alignment from GeneWise GAAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG cctgaggagaagtctatcaagcactggcttatctagtgtcttgtttttagGAAAGCTT---ACTGTCACTGATAAGGAACGTAAAAGGGGCAGTGTACTCAATGGTCGACTTTATGGGAAATTATTGGCCAGCACGAATAGCACAgtgagtgacaagggtttttaggctgaactctgatgacccacatttggaat #### Ddb1_ID2939_24 --> 1 - 1 Original Alignment tGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCT-TCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAg taaggcttggtagaggggagtgctctggtctcccctgcttctccccacagtGCCGCAACAACTGTTGAGGAACGTCAGCATTTACAGGAAATAGTTCTCTTCCATCTAGGGGAGTTTGTCATTGTGTTTTGCCACAGCTCTCTAGTTATGAAGAATCTGGGTGAGGCCCTCCACTCCTACGACTCAGGGATCAGTCCTTTTTG-CACAGTCAATGTCATGATAggtaagagctgtgggatggcttgcttatgcaaagtttctcgatctcccctt Alignment from CESAR tGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCT-TCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAg taaggcttggtagaggggagtgctctggtctcccctgcttctccccacagtGCCGCAACAACTGTTGAGGAACGTCAGCATTTACAGGAAATAGTTCTCTTCCATCTAGGGGAGTTTGTCATTGTGTTTTGCCACAGCTCTCTAGTTATGAAGAATCTGGGTGAGGCCCTCCACTCCTACGACTCAGGGATCAGTCCTTTTT-GCACAGTCAATGTCATGATAggtaagagctgtgggatggcttgcttatgcaaagttgccactctttcctta Alignment from Spaln_aa2Genome TGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACACAGGGCTCGGTG---CTCTTTGGCACAGTCAACGGCATGATAG taaggcttggtagaggggagtgctctggtctcccctgcttctccccacagTGCCGCAACAACTGTTGAGGAACGTCAGCATTTACAGGAAATAGTTCTCTTCCATCTAGGGGAGTTTGTCATTGTGTTTTGCCACAGCTCTCTAGTTATGAAGAATCTGGGTGAGGCCCTCCACTCCTACGACTCAGGGATCAGTCCTTTTTGCACAGTCAATGTCATGATAGgtaagagctgtgggatggcttgcttatgcaaagtttctcgatctcccctt Alignment from Spaln_nt2Genome TGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCT-TCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG taaggcttggtagaggggagtgctctggtctcccctgcttctccccacagTGCCGCAACAACTGTTGAGGAACGTCAGCATTTACAGGAAATAGTTCTCTTCCATCTAGGGGAGTTTGTCATTGTGTTTTGCCACAGCTCTCTAGTTATGAAGAATCTGGGTGAGGCCCTCCACTCCTACGACTCAGGGATCAGTCCT-TTTTGCACAGTCAATGTCATGATAGgtaagagctgtgggatggcttgcttatgcaaagtttctcgatctcccctt Alignment from Pairagon TGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGG-CTTCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG taaggcttggtagaggggagtgctctggtctcccctgcttctccccacagTGCCGCAACAACTGTTGAGGAACGTCAGCATTTACAGGAAATAGTTCTCTTCCATCTAGGGGAGTTTGTCATTGTGTTTTGCCACAGCTCTCTAGTTATGAAGAATCTGGGTGAGGCCCTCCACTCCTACGACTCAGGGATCAGTCCTTTTT-GCACAGTCAATGTCATGATAGgtaagagctgtgggatggcttgcttatgcaaagtttctcgatctcccctt Alignment from Exonerate_protein2genome TGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCT---TCTACCCCTACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG taaggcttggtagaggggagtgctctggtctcccctgcttctccccacagTGCCGCAACAACTGTTGAGGAACGTCAGCATTTACAGGAAATAGTTCTCTTCCATCTAGGGGAGTTTGTCATTGTGTTTTGCCACAGCTCTCTAGTTATGAAGAATCTGGGTGAGGCCCTCCACTCCTACGACTCAGGGATCAGTCCTTTTTGCACAGTCAATGTCATGATAGgtaagagctgtgggatggcttgcttatgcaaagtttctcgatctcccctt Alignment from Exonerate_coding2genome TGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCT---TCTACCCCTACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG taaggcttggtagaggggagtgctctggtctcccctgcttctccccacagTGCCGCAACAACTGTTGAGGAACGTCAGCATTTACAGGAAATAGTTCTCTTCCATCTAGGGGAGTTTGTCATTGTGTTTTGCCACAGCTCTCTAGTTATGAAGAATCTGGGTGAGGCCCTCCACTCCTACGACTCAGGGATCAGTCCTTTTTGCACAGTCAATGTCATGATAGgtaagagctgtgggatggcttgcttatgcaaagtttctcgatctcccctt Alignment from GeneWise TGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCT---TCTACCCCTACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG taaggcttggtagaggggagtgctctggtctcccctgcttctccccacagTGCCGCAACAACTGTTGAGGAACGTCAGCATTTACAGGAAATAGTTCTCTTCCATCTAGGGGAGTTTGTCATTGTGTTTTGCCACAGCTCTCTAGTTATGAAGAATCTGGGTGAGGCCCTCCACTCCTACGACTCAGGGATCAGTCCTTTTTGCACAGTCAATGTCATGATAGgtaagagctgtgggatggcttgcttatgcaaagtttctcgatctcccctt #### Dkk1_ID6482_3 --> 2 - 1 Original Alignment gaATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCC-GCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAg tcaaaggagcaggtatggaacaccccaccatccctctgctttcctcacaggtATATGCATGCCATCCAGGCATAGCCACTTCCCATGTGGGGAAGTCAGGGAAAGGTCTGTTGAAATGCTTGGCATTGACCACAATGCTGCTCGCAGGGGATGGATTTCCCAGA---ACTGCATTGG-TTCAAAGATTTATCATACTAAAggtaaaagaacagtgtaagaacttcggattgaatctgcaaaaacaatgaga Alignment from CESAR gaATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCC-GCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAg tcaaaggagcaggtatggaacaccccaccatccctctgctttcctcacaggtATATGCATGCCATCCAGGCATAGCCACTTCCCATGTGGGGAAGTCAGGGAAAGGTCTGTTGAAATGCTTGGCATTGACCACAATGCTGCTCGCAGGGGATGGATTTCCC---AGAACTGCATTG-GTTCAAAGATTTATCATACTAAAggtaaaagaacagtgtaagaacttcggattgaatctgcaaaaacaatgaga Alignment from Spaln_aa2Genome GAATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAG tcaaaggagcaggtatggaacaccccaccatccctctgctttcctcacagGTATATGCATGCCATCCAGGCATAGCCACTTCCCATGTGGGGAAGTCAGGGAAAGGTCTGTTGAAATGCTTGGCATTGACCACAATGCTGCTCGCAGG---GGATGGATTTCCCAGAACTGCATTGGTTCAAAGATTTATCATACTAAAGgtaaaagaacagtgtaagaacttcggattgaatctgcaaaaacaatgaga Alignment from Spaln_nt2Genome GAATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGC-CGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAG tcaaaggagcaggtatggaacaccccaccatccctctgctttcctcacagGTATATGCATGCCATCCAGGCATAGCCACTTCCCATGTGGGGAAGTCAGGGAAAGGTCTGTTGAAATGCTTGGCATTGACCACAATGCTGCTCGCAGGGGATGGATTTCCC---AGAACTGCATTG-GTTCAAAGATTTATCATACTAAAGgtaaaagaacagtgtaagaacttcggattgaatctgcaaaaacaatgaga Alignment from Pairagon GAATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGC-CGCGGGGGATGGATATCCCAGAA--------GAACCACACTGACTTCAAAAATATATCACACCAAAG tcaaaggagcaggtatggaacaccccaccatccctctgctttcctcacagGTATATGCATGCCATCCAGGCATAGCCACTTCCCATGTGGGGAAGTCAGGGAAAGGTCTGTTGAAATGCTTGGCATTGACCACAATGCTGCTCGCAGGGGATGGATTTCCCAGAACTGCATTGG------------TTCAAAGATTTATCATACTAAAGgtaaaagaacagtgtaagaacttcggattgaatctgcaaaaacaatgaga Alignment from Exonerate_protein2genome GAATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAG tcaaaggagcaggtatggaacaccccaccatccctctgctttcctcacagGTATATGCATGCCATCCAGGCATAGCCACTTCCCATGTGGGGAAGTCAGGGAAAGGTCTGTTGAAATGCTTGGCATTGACCACAATGCTGCTCGC---AGGGGATGGATTTCCCAGAACTGCATTGGTTCAAAGATTTATCATACTAAAGgtaaaagaacagtgtaagaacttcggattgaatctgcaaaaacaatgaga Alignment from Exonerate_coding2genome GAATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAG tcaaaggagcaggtatggaacaccccaccatccctctgctttcctcacagGTATATGCATGCCATCCAGGCATAGCCACTTCCCATGTGGGGAAGTCAGGGAAAGGTCTGTTGAAATGCTTGGCATTGACCACAATGCTGCTCGC---AGGGGATGGATTTCCCAGAACTGCATTGGTTCAAAGATTTATCATACTAAAGgtaaaagaacagtgtaagaacttcggattgaatctgcaaaaacaatgaga Alignment from GeneWise GAATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAG tcaaaggagcaggtatggaacaccccaccatccctctgctttcctcacagGTATATGCATGCCATCCAGGCATAGCCACTTCCCATGTGGGGAAGTCAGGGAAAGGTCTGTTGAAATGCTTGGCATTGACCACAATGCTGCTCGC---AGGGGATGGATTTCCCAGAACTGCATTGGTTCAAAGATTTATCATACTAAAGgtaaaagaacagtgtaagaacttcggattgaatctgcaaaaacaatgaga #### Dkk1_ID6483_2 --> 0 - 1 Original Alignment CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTC-GGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATg ttatttgggaactcaactgatctacctgtaacaattctcattcttctcagCCATTCCCTTGTGTTATAGATGAGGAGTGTGGTTCTGATAAACATAGTCCCAGTCCCAGCTGTGGAGCGGCT---GTTCGAT------CAGATCTGCTTGGCTTGCCGAAGAC-CAGAAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATcgtaattgtaccccagtatctattgatggctttggttaacaagttctatgg Alignment from CESAR CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATg ttatttgggaactcaactgatctacctgtaacaattctcattcttctcagCCATTCCCTTGTGTTATAGATGAGGAGTGTGGTTCTGATAAACATAGTCCCAGTCCCAGCTGTGGAGCGGCT--GTTCGAT------CAGATCTGCTTGGCTTGCC-GAAGACCAGAAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATcgtaattgtaccccagtatctattgatggctttggttaacaagttctatgg Alignment from Spaln_aa2Genome CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG ttatttgggaactcaactgatctacctgtaacaattctcattcttctcagCCATTCCCTTGTGTTATAGATGAGGAGTGTGGTTCTGATAAACATAGTCCCAGTCCCAGCTGTGGAGCGGCTGTTC--------GATCAGATCTGCTTGGCTTGCCGAAGACC-AGAAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATCgtaattgtaccccagtatctattgatggctttggttaacaagttctatgg Alignment from Spaln_nt2Genome CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG ttatttgggaactcaactgatctacctgtaacaattctcattcttctcagCCATTCCCTTGTGTTATAGATGAGGAGTGTGGTTCTGATAAACATAGTCCCAGTCCCAGCTGTGGAGCGGCTG--TTC------GATCAGATCTGCTTGGCTTGCCG-AAGACCAGAAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATCgtaattgtaccccagtatctattgatggctttggttaacaagttctatgg Alignment from Pairagon CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGT----ACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG ttatttgggaactcaactgatctacctgtaacaattctcattcttctcagCCATTCCCTTGTGTTATAGATGAGGAGTGTGGTTCTGATAAACATAGTCCCAGTCCCAGCTGTGGAGCGGC------------TGTTCGATCAGATCTGCTTGGCTTGCCGAAGAC-CAGAAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATCgtaattgtaccccagtatctattgatggctttggttaacaagttctatgg Alignment from Exonerate_protein2genome CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG ttatttgggaactcaactgatctacctgtaacaattctcattcttctcagCCATTCCCTTGTGTTATAGATGAGGAGTGTGGTTCTGATAAACATAGTCCCAGTCCCAGCTGTGGAGCGGCTGTTCGATCAGATCTG---------CTTGGCTTGCCGAAGACCAGAAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATCgtaattgtaccccagtatctattgatggctttggttaacaagttctatgg Alignment from Exonerate_coding2genome ttatttgggaactcaactgatctacctgtaacaattctcattcttctcagccattcccttgtgttatagatgaggagtgtggttctgataaacatagtcccagtcccagctgtggagcggctgttcgatcagatctgcttggcttgccgaagaccagaaagtgttgtgtaaggcatgccatgtgttgccctgagaaccactgcaagaatcgtaattgtaccccagtatctattgatggctttggttaacaagttctatgg Alignment from GeneWise CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG ttatttgggaactcaactgatctacctgtaacaattctcattcttctcagCCATTCCCTTGTGTTATAGATGAGGAGTGTGGTTCTGATAAACATAGTCCCAGTCCCAGCTGTGGAGCGGCTGTTCGATCAGATCTG---------CTTGGCTTGCCGAAGACCAGAAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATCgtaattgtaccccagtatctattgatggctttggttaacaagttctatgg #### Dnmbp_ID8855_11 --> 0 - 0 Original Alignment AAAGAGAGGACCGAGCGGCTCGTCATCAATCCCTTAAACCAGTTGTTGAACATGTTCACGGGGCCCTACAAGCTGGTGCAGAAGCGGTTCGACAAGCTCCTGGACTTCTACAACTGCACT---GAGCGAGCGGAGAAGCTGAAGGACAAGAAGACT-CTGGAGGAGCTGCAGTCAGCCCGAAACAACTACGAGGCCCTGAACTCGCAGCTGCTGGACGAGCTGCCCAAGTTCCAGCAGTACGCCCAGAGCCTCTTCACCAACTGCATCCACGGCTATGCCGAAGCCCACTGTGACTTCGTGCAGCAAGCCCTGGAGCAGCTGCAGCCGCTGCTGTCG ccaaccagtgtaccattactgagggctacactctcgtgtttgaaaattagAAACAGCGGACAGAGCAGCTTATTATCAACCCTTTAAACCAATTGTTG------------GCACCATACAAACTGTTACAAAGGCGTTTTGACAAACTTCTTGACTTATACAACTGCATTGAT---------------------------AAATCTCTTGGAGGAACTGCAGTCAACCCGAAACAATC-TGAGGCTCTAAACACTAAGCTGCTAGATGCACTGCCCAAATTCCAGCAGTATGACCAGAGTCTCTTTGCCAACTGTGTCTATGGATATGCTAAAGCCCATTGTGACTTTCTTCAGCAGGCACTGGAGCAA---------CAGTTATCAgtaggacgttccttgccaatggcaaatgattactagtgaaggactggaac Alignment from CESAR AAAGAGAGGACCGAGCGGCTCGTCATCAATCCCTTAAACCAGTTGTTGAACATGTTCACGGGGCCCTACAAGCTGGTGCAGAAGCGGTTCGACAAGCTCCTGGACTTCTACAACTGCACTGAGCGAGCGGAGAAGCTGAAGGACAAGAAGACT-CTGGAGGAGCTGCAGTCAGCCCGAAACAACTACGAGGCCCTGAACTCGCAGCTGCTGGACGAGCTGCCCAAGTTCCAGCAGTACGCCCAGAGCCTCTTCACCAACTGCATCCACGGCTATGCCGAAGCCCACTGTGACTTCGTGCAGCAAGCCCTGGAGCAGCTGCAGCCGCTGCTGTCG ccaaccagtgtaccattactgagggctacactctcgtgtttgaaaattagAAACAGCGGACAGAGCAGCTTATTATCAACCCTTTAAACCAATTGTTG------------GCACCATACAAACTGTTACAAAGGCGTTTTGACAAACTTCTTGACTTATACAACTGCATTGAT------------------------AAATCTCTTGGAGGAACTGCAGTCAACCCGAAACAAT-CTGAGGCTCTAAACACTAAGCTGCTAGATGCACTGCCCAAATTCCAGCAGTATGACCAGAGTCTCTTTGCCAACTGTGTCTATGGATATGCTAAAGCCCATTGTGACTTTCTTCAGCAGGCACTGGAGCAA---------CAGTTATCAgtaggacgttccttgccaatggcaaatgattactagtgaaggactggaac Alignment from Spaln_aa2Genome AAAGAGAGGACCGAGCGGCTCGTCATCAATCCCTTAAACCAGTTGTTGAACATGTTCACGGGGCCCTACAAGCTGGTGCAGAAGCGGTTCGACAAGCTCCTGGACTTCTACAACTGCACTGAGCGAGCGGAGAAGCTGAAGGACAAGAAGACTCTGGAGGAGCTGCAGTCAGCCCGAAACAACTACGAGGCCCTGAACTCGCAGCTGCTGGACGAGCTGCCCAAGTTCCAGCAGTACGCCCAGAGCCTCTTCACCAACTGCATCCACGGCTATGCCGAAGCCCACTGTGACTTCGTGCAGCAAGCCCTGGAGCAGCTGCAGCCGCTGCTGTCG ccaaccagtgtaccattactgagggctacactctcgtgtttgaaaattagAAACAGCGGACAGAGCAGCTTATTATCAACCCTTTAAACCAATTGTTG------------GCACCATACAAACTGTTACAAAGGCGTTTTGACAAACTTCTTGACTTATACAACTGCATTGATAAATCTC-----------------------TTGGAGGAACTGCAGTCAACCCGAAACAATCT-GAGGCTCTAAACACTAAGCTGCTAGATGCACTGCCCAAATTCCAGCAGTATGACCAGAGTCTCTTTGCCAACTGTGTCTATGGATATGCTAAAGCCCATTGTGACTTTCTTCAGCAGGCACTGGAGCAA---------CAGTTATCAgtaggacgttccttgccaatggcaaatgattactagtgaaggactggaac Alignment from Spaln_nt2Genome AAAGAGAGGACCGAGCGGCTCGTCATCAATCCCTTAAACCAGTTGTTGAACATGTTCACGGGGCCCTACAAGCTGGTGCAGAAGCGGTTCGACAAGCTCCTGGACTTCTACAACTGCACTGAGCGAGCGGAGAAGCTGAAGGACAAGAAGACTCT-GGAGGAGCTGCAGTCAGCCCGAAACAACTACGAGGCCCTGAACTCGCAGCTGCTGGACGAGCTGCCCAAGTTCCAGCAGTACGCCCAGAGCCTCTTCACCAACTGCATCCACGGCTATGCCGAAGCCCACTGTGACTTCGTGCAGCAAGCCCTGGAGCAGCTGCAGCCG ccaaccagtgtaccattactgagggctacactctcgtgtttgaaaattagAAACAGCGGACAGAGCAGCTTATTATCAACCCTTTAAACCAATTGTT------------GGCACCATACAAACTGTTACAAAGGCGTTTTGACAAACTTCTTGACTTATACAACTGCATTG------------------------ATAAATCTCTTGGAGGAACTGCAGTCAACCCGAAACAA-TCTGAGGCTCTAAACACTAAGCTGCTAGATGCACTGCCCAAATTCCAGCAGTATGACCAGAGTCTCTTTGCCAACTGTGTCTATGGATATGCTAAAGCCCATTGTGACTTTCTTCAGCAGGCACTGGAGCAACAGTTATCAgtaggacgttccttgccaatggcaaatgattactagtgaaggactggaac Alignment from Pairagon AAAGAGAGGACCGAGCGGCTCGTCATCAATCCCTTAAACCAGTTGTTGAACATGTTCACGGGGCCCTACAAGCTGGTGCAGAAGCGGTTCGACAAGCTCCTGGACTTCTACAACTGCA-----------CTGAGCGAGCGGAGAAGCTGAAGGACAAGAAGACTCTGGAGGAGCTGCAGTCAGCCCGAAACAACTACGAGGCCCTGAACTCGCAGCTGCTGGACGAGCTGCCCAAGTTCCAGCAGTACGCCCAGAGCCTCTTCACCAACTGCATCCACGGCTATGCCGAAGCCCACTGTGACTTCGTGCAGCAAGCCCTGGAGCA---------- ccaaccagtgtaccattactgagggctacactctcgtgtttgaaaattagAAACAGCGGACAGAGCAGCTTATTATCAACCCTTTAAACCAATTGTT------------GGCACCATACAAACTGTTACAAAGGCGTTTTGACAAACTTCTTGACTTATACAACTGCATTGATAAATCTCT----------------------------------TGGAGGAACTGCAGTCAACCCGAAACAA-TCTGAGGCTCTAAACACTAAGCTGCTAGATGCACTGCCCAAATTCCAGCAGTATGACCAGAGTCTCTTTGCCAACTGTGTCTATGGATATGCTAAAGCCCATTGTGACTTTCTTCAGCAGGCACTGGAGCAACAGTTATCAgtaggacgttccttgccaatggcaaatgattactagtgaaggactggaac Alignment from Exonerate_protein2genome AAAGAGAGGACCGAGCGGCTCGTCATCAATCCCTTAAACCAGTTGTTGAACATGTTCACGGGGCCCTACAAGCTGGTGCAGAAGCGGTTCGACAAGCTCCTGGACTTCTACAACTGCACTGAGCGAGCG ccaaccagtgtaccattactgagggctacactctcgtgtttgaaaattagAAACAGCGGACAGAGCAGCTTATTATCAACCCTTTAAACCAATTGTTG------------GCACCATACAAACTGTTACAAAGGCGTTTTGACAAACTTCTTGACTTATACAACTGCATTGATAAATCTcttggaggaactgcagtcaacccgaaacaatctgaggctctaaacactaagctgctagatgcactgcccaaattccagcagtatgaccagagtctctttgccaactgtgtctatggatatgctaaagcccattgtgactttcttcagcaggcactggagcaacagttatcagtaggacgttccttgccaatggcaaatgattactagtgaaggactggaac Alignment from Exonerate_coding2genome ccaaccagtgtaccattactgagggctacactctcgtgtttgaaaattagaaacagcggacagagcagcttattatcaaccctttaaaccaattgttggcaccatacaaactgttacaaaggcgttttgacaaacttcttgacttatacaactgcattgataaatctcttggaggaactgcagtcaacccgaaacaatctgaggctctaaacactaagctgctagatgcactgcccaaattccagcagtatgaccagagtctctttgccaactgtgtctatggatatgctaaagcccattgtgactttcttcagcaggcactggagcaacagttatcagtaggacgttccttgccaatggcaaatgattactagtgaaggactggaac Alignment from GeneWise AAAGAGAGGACCGAGCGGCTCGTCATCAATCCCTTAAACCAGTTGTTGAACATGTTCACGGGGCCCTACAAGCTGGTGCAGAAGCGGTTCGACAAGCTCCTGGACTTCTACAACTGCACTGAGCGAGCGGAGAAGCTGAAGGACAAGAAGACTCTGGAGGAGCTGCAGTCAGCCCGAAACAACTACGAGGCCCTGAACTCGCAGCTGCTGGACGAGCTGCCCAAGTTCCAGCAGTACGCCCAGAGCCTCTTCACCAACTGCATCCACGGCTATGCCGAAGCCCACTGTGACTTCGTGCAGCAAGCCCTGGAGCAGCTGCAGCCGCTGCTGTCG ccaaccagtgtaccattactgagggctacactctcgtgtttgaaaattagAAACAGCGGACAGAGCAGCTTATTATCAACCCTTTAAACCAATTGTTG------------GCACCATACAAACTGTTACAAAGGCGTTTTGACAAACTTCTTGACTTATACAACTGCATTGAT------------------------AAATCTCTTGGAGGAACTGCAGTCAACCCGAAACAATCTGAGGCTCTAAACACTAAGCTGCTAGATGCACTGCCCAAATTCCAGCAGTATGACCAGAGTCTCTTTGCCAACTGTGTCTATGGATATGCTAAAGCCCATTGTGACTTTCTTCAGCAGGCACTGGAGCAACAG---------TTATCAgtaggacgttccttgccaatggcaaatgattactagtgaaggactggaac #### Dock8_ID5396_17 --> 1 - 0 Original Alignment gTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCT-GCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgcgcttcagatcacgattgcttgcaggtgtcttttgtttttgacaggTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCACGCGAAGCTGACAGTGAATCATCATCTTC-CTTCACTTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtaagttctggtggtttccaaccttccaatttaggttcacatgtgttagc Alignment from CESAR gTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCT-GCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgcgcttcagatcacgattgcttgcaggtgtcttttgtttttgacaggTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCACGCGAAGCTGACAGTGAATCATCATCTT-CCTTCACTTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtaagttctggtggtttccaaccttccaatttaggttcacatgtgttagc Alignment from Spaln_aa2Genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgcgcttcagatcacgattgcttgcaggtgtcttttgtttttgacagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCACGCGAAGCTGACAGTGAATCATCATCTTCCTTCACTTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtaagttctggtggtttccaaccttccaatttaggttcacatgtgttagc Alignment from Spaln_nt2Genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCT-GCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgcgcttcagatcacgattgcttgcaggtgtcttttgtttttgacagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCACGCGAAGCTGACAGTGAATCATCATCTTC-CTTCACTTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtaagttctggtggtttccaaccttccaatttaggttcacatgtgttagc Alignment from Pairagon GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCT-CCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgcgcttcagatcacgattgcttgcaggtgtcttttgtttttgacagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCACGCGAAGCTGACAGTGAATCATCATCTTC-CTTCACTTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtaagttctggtggtttccaaccttccaatttaggttcacatgtgttagc Alignment from Exonerate_protein2genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgcgcttcagatcacgattgcttgcaggtgtcttttgtttttgacagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCACGCGAAGCTGACAGTGAATCATCATCTTCCTTCACTTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtaagttctggtggtttccaaccttccaatttaggttcacatgtgttagc Alignment from Exonerate_coding2genome gcctgcgcttcagatcacgattgcttgcaggtgtcttttgtttttgacaggtctcctgacttttatgaagaagtgaaaatcaagctaccacgcgaagctgacagtgaatcatcatcttccttcactttctatcacatcagctgtcagcagaagcaaggggcctccggagagagccttctggggtactcagtaagttctggtggtttccaaccttccaatttaggttcacatgtgttagc Alignment from GeneWise GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgcgcttcagatcacgattgcttgcaggtgtcttttgtttttgacagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCACGCGAAGCTGACAGTGAATCATCATCTTCCTTCACTTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtaagttctggtggtttccaaccttccaatttaggttcacatgtgttagc #### Dock8_ID5413_32 --> 0 - 1 Original Alignment GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCA-AGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAg tcccagtggagacctagtaaactcaaagaatgtatggtgtttttctacagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCTCAGAGATGTCAAGGCCAAACTGGAAGAGGCCCTGC-CCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAggtaaggttccaacactgtaaccttaacttagtcaagctttgttaatccat Alignment from CESAR GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCA-AGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAg tcccagtggagacctagtaaactcaaagaatgtatggtgtttttctacagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCTCAGAGATGTCAAGGCCAAACTGGAAGAGGCCCTG-CCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAggtaaggttccaacactgtaaccttaacttagtcaagctttgttaatccat Alignment from Spaln_aa2Genome GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG tcccagtggagacctagtaaactcaaagaatgtatggtgtttttctacagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCTCAGAGATGTCAAGGCCAAACTGGAAGAGGCCCTGCCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtaaggttccaacactgtaaccttaacttagtcaagctttgttaatccat Alignment from Spaln_nt2Genome GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCA-AGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG tcccagtggagacctagtaaactcaaagaatgtatggtgtttttctacagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCTCAGAGATGTCAAGGCCAAACTGGAAGAGGCCCTGC-CCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtaaggttccaacactgtaaccttaacttagtcaagctttgttaatccat Alignment from Pairagon GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTC-AAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG tcccagtggagacctagtaaactcaaagaatgtatggtgtttttctacagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCTCAGAGATGTCAAGGCCAAACTGGAAGAGGCCCTGC-CCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtaaggttccaacactgtaaccttaacttagtcaagctttgttaatccat Alignment from Exonerate_protein2genome GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG tcccagtggagacctagtaaactcaaagaatgtatggtgtttttctacagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCTCAGAGATGTCAAGGCCAAACTGGAAGAGGCCCTGCCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtaaggttccaacactgtaaccttaacttagtcaagctttgttaatccat Alignment from Exonerate_coding2genome GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG tcccagtggagacctagtaaactcaaagaatgtatggtgtttttctacagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCTCAGAGATGTCAAGGCCAAACTGGAAGAGGCCCTGCCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtaaggttccaacactgtaaccttaacttagtcaagctttgttaatccat Alignment from GeneWise GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG tcccagtggagacctagtaaactcaaagaatgtatggtgtttttctacagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCTCAGAGATGTCAAGGCCAAACTGGAAGAGGCCCTGCCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtaaggttccaacactgtaaccttaacttagtcaagctttgttaatccat #### Dpf2_ID1305_8 --> 2 - 1 Original Alignment ccAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGAC-TTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAg ataacaaactagagatcagcaaaaaaaagataaaacctctgcttctatagccAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACCTTCTGCCTTGGAGACTCAAAAATCAACAAGA-GACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAggtaagtaactcactatacaccccatgcaaaaggcttgactctatatcgct Alignment from CESAR ccAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGAC-TTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAg ataacaaactagagatcagcaaaaaaaagataaaacctctgcttctatagccAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACCTTCTGCCTTGGAGACTCAAAAATCAACAAGA-GACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAggtaagtaactcactatacaccccatgcaaaaggcttgactctatatcgct Alignment from Spaln_aa2Genome CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG ataacaaactagagatcagcaaaaaaaagataaaacctctgcttctatagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACCTTCTGCCTTGGAGACTCAAAAATCAACAAGAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtaagtaactcactatacaccccatgcaaaaggcttgactctatatcgct Alignment from Spaln_nt2Genome CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGA-CTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG ataacaaactagagatcagcaaaaaaaagataaaacctctgcttctatagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACCTTCTGCCTTGGAGACTCAAAAATCAACAAG-AGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtaagtaactcactatacaccccatgcaaaaggcttgactctatatcgct Alignment from Pairagon CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGA-CTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG ataacaaactagagatcagcaaaaaaaagataaaacctctgcttctatagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACCTTCTGCCTTGGAGACTCAAAAATCAACAAG-AGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtaagtaactcactatacaccccatgcaaaaggcttgactctatatcgct Alignment from Exonerate_protein2genome CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG ataacaaactagagatcagcaaaaaaaagataaaacctctgcttctatagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACCTTCTGCCTTGGAGACTCAAAAATCAACAAGAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtaagtaactcactatacaccccatgcaaaaggcttgactctatatcgct Alignment from Exonerate_coding2genome CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG ataacaaactagagatcagcaaaaaaaagataaaacctctgcttctatagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACCTTCTGCCTTGGAGACTCAAAAATCAACAAGAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtaagtaactcactatacaccccatgcaaaaggcttgactctatatcgct Alignment from GeneWise CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG ataacaaactagagatcagcaaaaaaaagataaaacctctgcttctatagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACCTTCTGCCTTGGAGACTCAAAAATCAACAAGAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtaagtaactcactatacaccccatgcaaaaggcttgactctatatcgct #### Dpp3_ID740_13 --> 0 - 2 Original Alignment ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAG-TGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGga ttgggtacatggccaagctctaatttagtttgcctacctttaacccccagATCAAGAGCTGGTACCGGAGTGGAGAGACCTGGGACAGTGAATCTAGCACCATTGCCTCACGGTATCAAGAGCTGTCACGCCAAGAGTATAGGCCTGTATCTCTGT---A-CCCCCAAGTGTTAgagtaggaaaactctccaaattcatgggatttctgagctgtctccctctgca Alignment from CESAR ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAG-TGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGga ttgggtacatggccaagctctaatttagtttgcctacctttaacccccagATCAAGAGCTGGTACCGGAGTGGAGAGACCTGGGACAGTGAATCTAGCACCATTGCCTCACGGTATCAAGAGCTGTCACGCCAAGAGTATAGGCCTGTATCTCTGT----ACCCCCAAGTGTTAgagtaggaaaactctccaaattcatgggatttcatcctctttttctgccaca Alignment from Spaln_aa2Genome ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAGTGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA ttgggtacatggccaagctctaatttagtttgcctacctttaacccccagATCAAGAGCTGGTACCGGAGTGGAGAGACCTGGGACAGTGAATCTAGCACCATTGCCTCACGGTATCAAGAGCTGTCACGCCAAGAGTATAGGCCT---GTATCTCTGTACCCCCAAGTGTTAGAgtaggaaaactctccaaattcatgggatttctgagctgtctccctctgca Alignment from Spaln_nt2Genome ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAG-TGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA ttgggtacatggccaagctctaatttagtttgcctacctttaacccccagATCAAGAGCTGGTACCGGAGTGGAGAGACCTGGGACAGTGAATCTAGCACCATTGCCTCACGGTATCAAGAGCTGTCACGCCAAGAGTATAGGCCTGTATCTCTGT----ACCCCCAAGTGTTAGAgtaggaaaactctccaaattcatgggatttctgagctgtctccctctgca Alignment from Pairagon ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAG-TGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA ttgggtacatggccaagctctaatttagtttgcctacctttaacccccagATCAAGAGCTGGTACCGGAGTGGAGAGACCTGGGACAGTGAATCTAGCACCATTGCCTCACGGTATCAAGAGCTGTCACGCCAAGAGTATAGGCCTGTATCTCTGT----ACCCCCAAGTGTTAGAgtaggaaaactctccaaattcatgggatttctgagctgtctccctctgca Alignment from Exonerate_protein2genome ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAG-TGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA ttgggtacatggccaagctctaatttagtttgcctacctttaacccccagATCAAGAGCTGGTACCGGAGTGGAGAGACCTGGGACAGTGAATCTAGCACCATTGCCTCACGGTATCAAGAGCTGTCACGCCAAGAGTATAGGCCTGTATCTCTGTACCCCCAAGTGTTAGAGTAGgaaaactctccaaattcatgggatttctgagctgtctccctctgca Alignment from Exonerate_coding2genome ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAG-TGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA ttgggtacatggccaagctctaatttagtttgcctacctttaacccccagATCAAGAGCTGGTACCGGAGTGGAGAGACCTGGGACAGTGAATCTAGCACCATTGCCTCACGGTATCAAGAGCTGTCACGCCAAGAGTATAGGCCTGTATCTCTGTACCCCCAAGTGTTAGAGTAGgaaaactctccaaattcatgggatttctgagctgtctccctctgca Alignment from GeneWise ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAGTGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA ttgggtacatggccaagctctaatttagtttgcctacctttaacccccagATCAAGAGCTGGTACCGGAGTGGAGAGACCTGGGACAGTGAATCTAGCACCATTGCCTCACGGTATCAAGAGCTGTCACGCCAAGAGTAT---AGGCCTGTATCTCTGTACCCCCAAGTGTTAGAgtaggaaaactctccaaattcatgggatttctgagctgtctccctctgca #### Dpp3_ID743_10 --> 2 - 0 Original Alignment acGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTG-CTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcagtacaaatatagtccactcctgcatttctttctttcccccaaagacGATGACCTGAGACAGACAGAAGGCTTTAAGAACGTATCACTGGGGAATGTGCCTGGCTGTCGCCTATGCTGCAAAGCGAGAGAAGC-AACATTTTTGGAGGAGGAAGACAAGgtaagaatggccccccaagcttatggtgttgtacttggcaaaataggcta Alignment from CESAR acGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTG-CTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcagtacaaatatagtccactcctgcatttctttctttcccccaaagacGATGACCTGAGACAGACAGAAGGCTTTAAGAACGTATCACTGGGGAATGTGCCTGGCTGTCGCCTATGCTGCAAAGCGAGAGAAG-CAACATTTTTGGAGGAGGAAGACAAGgtaagaatggccccccaagcttatggtgttgtacttggcaaaataggcta Alignment from Spaln_aa2Genome ACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcagtacaaatatagtccactcctgcatttctttctttcccccaaagACGATGACCTGAGACAGACAGAAGGCTTTAAGAACGTATCACTGGGGAATGTGCCTGGCTGTCGCCTATGCTGCAAAGCGAGAGAAGCAACATTTTTGGAGGAGGAAGACAAGgtaagaatggccccccaagcttatggtgttgtacttggcaaaataggcta Alignment from Spaln_nt2Genome ACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTG-CTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcagtacaaatatagtccactcctgcatttctttctttcccccaaagACGATGACCTGAGACAGACAGAAGGCTTTAAGAACGTATCACTGGGGAATGTGCCTGGCTGTCGCCTATGCTGCAAAGCGAGAGAAGC-AACATTTTTGGAGGAGGAAGACAAGgtaagaatggccccccaagcttatggtgttgtacttggcaaaataggcta Alignment from Pairagon ACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTG-CTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcagtacaaatatagtccactcctgcatttctttctttcccccaaagACGATGACCTGAGACAGACAGAAGGCTTTAAGAACGTATCACTGGGGAATGTGCCTGGCTGTCGCCTATGCTGCAAAGCGAGAGAAGC-AACATTTTTGGAGGAGGAAGACAAGgtaagaatggccccccaagcttatggtgttgtacttggcaaaataggcta Alignment from Exonerate_protein2genome ACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcagtacaaatatagtccactcctgcatttctttctttcccccaaagACGATGACCTGAGACAGACAGAAGGCTTTAAGAACGTATCACTGGGGAATGTGCCTGGCTGTCGCCTATGCTGCAAAGCGAGAGAAGCAACATTTTTGGAGGAGGAAGACAAGgtaagaatggccccccaagcttatggtgttgtacttggcaaaataggcta Alignment from Exonerate_coding2genome CCCAACTACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcagtacaaatatagtccactcctgcatttctttctttccCCCAAAGACGATGACCTGAGACAGACAGAAGGCTTTAAGAACGTATCACTGGGGAATGTGCCTGGCTGTCGCCTATGCTGCAAAGCGAGAGAAGCAACATTTTTGGAGGAGGAAGACAAGgtaagaatggccccccaagcttatggtgttgtacttggcaaaataggcta Alignment from GeneWise ACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcagtacaaatatagtccactcctgcatttctttctttcccccaaagACGATGACCTGAGACAGACAGAAGGCTTTAAGAACGTATCACTGGGGAATGTGCCTGGCTGTCGCCTATGCTGCAAAGCGAGAGAAGCAACATTTTTGGAGGAGGAAGACAAGgtaagaatggccccccaagcttatggtgttgtacttggcaaaataggcta #### Drap1_ID984_6 --> 0 - 2 Original Alignment GATGAGTCTGAGGATACAGATACT-GATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGag gcattgttaaattttgtgtcccaaaatcttgtgtttctgctatcttctagGATAAGTCTGAGGATATGGATACACGATGGAGAGGAGGAGACACCCCAGCTTCCAC-TCAGGCCAGTCACCCCCTTGCTCACTATCAAaggtaaaatttacttaggaagtgtaccagttttttcaccctgacactggctt Alignment from CESAR GATGAGTCTGAGGATACAGATACT-GATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGag gcattgttaaattttgtgtcccaaaatcttgtgtttctgctatcttctagGATAAGTCTGAGGATATGGATACACGATGGAGAGGAGGAGACACCCCAGCTTCCA-CTCAGGCCAGTCACCCCCTTGCTCACTATCAAaggtaaaatttacttaggaagtgtaccagttttttcaccctgacactggctt Alignment from Spaln_aa2Genome GATGAGTCTGAGGATACAGATACT-GATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAG gcattgttaaattttgtgtcccaaaatcttgtgtttctgctatcttctagGATAAGTCTGAGGATATGGATACAcGATGGAGAGGAGGAGACACCCCAGCTTCCACT-CAGGCCAGTCACCCCCTTGCTCACTATCAAAGgtaaaatttacttaggaagtgtaccagttttttcaccctgacactggctt Alignment from Spaln_nt2Genome GATGAGTCTGAGGATACAGATACT-GATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAG gcattgttaaattttgtgtcccaaaatcttgtgtttctgctatcttctagGATAAGTCTGAGGATATGGATACACGATGGAGAGGAGGAGACACCCCAGCTTCCA-CTCAGGCCAGTCACCCCCTTGCTCACTATCAAAGgtaaaatttacttaggaagtgtaccagttttttcaccctgacactggctt Alignment from Pairagon GATGAGTCTGAGGATACAGATAC-TGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAG gcattgttaaattttgtgtcccaaaatcttgtgtttctgctatcttctagGATAAGTCTGAGGATATGGATACACGATGGAGAGGAGGAGACACCCCAGCTTCCA-CTCAGGCCAGTCACCCCCTTGCTCACTATCAAAGgtaaaatttacttaggaagtgtaccagttttttcaccctgacactggctt Alignment from Exonerate_protein2genome GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAG gcattgttaaattttgtgtcccaaaatcttgtgtttctgctatcttctagGATAAGTCTGAGGATATGGATACACGATGGAGAGGAGGAGACACCCCAGCTTCCACTCAGGCCAGTCACCCCCTTGCTCACTATCAAAGgtaaaatttacttaggaagtgtaccagttttttcaccctgacactggctt Alignment from Exonerate_coding2genome GAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGA gcattgttaaattttgtgtcccaaaatcttgtgtttctgctatcttctaggataagtctgaggatatggatacacgatggagagGAGGAGACACCCCAGCTTCCACTCAGGCCAGTCACCCCCTTGCTCACTATCAAAGgtaaaatttacttaggaagtgtaccagttttttcaccctgacactggctt Alignment from GeneWise GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAG gcattgttaaattttgtgtcccaaaatcttgtgtttctgctatcttctagGATAAGTCTGAGGATATGGATACACGATGGAGAGGAGGAGACACCCCAGCTTCCACTCAGGCCAGTCACCCCCTTGCTCACTATCAAAGgtaaaatttacttaggaagtgtaccagttttttcaccctgacactggctt #### Eef1g_ID2562_4 --> 2 - 0 Original Alignment taAGCAATGAGGAGCTGCGAGGAAGT-ACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG caagcctgaggttgttatgtactaaatgccgtgcgtctgtcttcctacagtgAGCAATGAGGAACTGCGAGGAAGTCGCACCAGAGGCAGCGGCTCAGGTAGCACAGTGGGTTA-CTTTACAGACAGTGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtatgttagttatctaccagttgagaatggtaagtacacattttgagtca Alignment from CESAR taAGCAATGAGGAGCTGCGAGGAAGT-ACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG caagcctgaggttgttatgtactaaatgccgtgcgtctgtcttcctacagtgAGCAATGAGGAACTGCGAGGAAGTCGCACCAGAGGCAGCGGCTCAGGTAGCACAGTGGGTTA-CTTTACAGACAGTGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtatgttagttatctaccagttgagaatggtaagtacacattttgagtca Alignment from Spaln_aa2Genome TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG caagcctgaggttgttatgtactaaatgccgtgcgtctgtcttcctacagTGAGCAATGAGGAACTGCGAGGAAGTCGCACCAGAGGCAGCGGCTCAGGTAGCACAGTGGGTTACTTTACAGACAGTGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtatgttagttatctaccagttgagaatggtaagtacacattttgagtca Alignment from Spaln_nt2Genome TAAGCAATGAGGAGCTGCGAGGAAGTA-CGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG caagcctgaggttgttatgtactaaatgccgtgcgtctgtcttcctacagTGAGCAATGAGGAACTGCGAGGAAGTCGCACCAGAGGCAGCGGCTCAGGTAGCACAGTGGGTTA-CTTTACAGACAGTGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtatgttagttatctaccagttgagaatggtaagtacacattttgagtca Alignment from Pairagon TAAGCAATGAGGAGCTGCGAGGAAGT-ACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG caagcctgaggttgttatgtactaaatgccgtgcgtctgtcttcctacagTGAGCAATGAGGAACTGCGAGGAAGTCGCACCAGAGGCAGCGGCTCAGGTAGCACAGTGGGTTA-CTTTACAGACAGTGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtatgttagttatctaccagttgagaatggtaagtacacattttgagtca Alignment from Exonerate_protein2genome TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG caagcctgaggttgttatgtactaaatgccgtgcgtctgtcttcctacagTGAGCAATGAGGAACTGCGAGGAAGTCGCACCAGAGGCAGCGGCTCAGGTAGCACAGTGGGTTACTTTACAGACAGTGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtatgttagttatctaccagttgagaatggtaagtacacattttgagtca Alignment from Exonerate_coding2genome TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG caagcctgaggttgttatgtactaaatgccgtgcgtctgtcttcctacagTGAGCAATGAGGAACTGCGAGGAAGTCGCACCAGAGGCAGCGGCTCAGGTAGCACAGTGGGTTACTTTACAGACAGTGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtatgttagttatctaccagttgagaatggtaagtacacattttgagtca Alignment from GeneWise TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG caagcctgaggttgttatgtactaaatgccgtgcgtctgtcttcctacagTGAGCAATGAGGAACTGCGAGGAAGTCGCACCAGAGGCAGCGGCTCAGGTAGCACAGTGGGTTACTTTACAGACAGTGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtatgttagttatctaccagttgagaatggtaagtacacattttgagtca #### Efemp2_ID1032_5 --> 2 - 1 Original Alignment acATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGT-GTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGg gatacatccaagttgtttggctgggctacagactgtcatttgttttccagacATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTCGTGATCCTACCAGGCTCATTCCGATGTC-ATGTGAGCCAGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGTGggtagggcagtgtgtcccgcaagtctttaaccttcaagtggaaccactatg Alignment from CESAR acATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGT-GTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGg gatacatccaagttgtttggctgggctacagactgtcatttgttttccagacATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTCGTGATCCTACCAGGCTCATTCCGATGTC-ATGTGAGCCAGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGTGggtagggcagtgtgtcccgcaagtctttaaccttcaagtggaaccactatg Alignment from Spaln_aa2Genome ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gatacatccaagttgtttggctgggctacagactgtcatttgttttccagACATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTCGTGATCCTACCAGGCTCATTCCGATGTCATGTGAGCCAGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGTGGgtagggcagtgtgtcccgcaagtctttaaccttcaagtggaaccactatg Alignment from Spaln_nt2Genome ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGT-GTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gatacatccaagttgtttggctgggctacagactgtcatttgttttccagACATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTCGTGATCCTACCAGGCTCATTCCGATGTCA-TGTGAGCCAGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGTGGgtagggcagtgtgtcccgcaagtctttaaccttcaagtggaaccactatg Alignment from Pairagon ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGT-GTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gatacatccaagttgtttggctgggctacagactgtcatttgttttccagACATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTCGTGATCCTACCAGGCTCATTCCGATGTCA-TGTGAGCCAGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGTGGgtagggcagtgtgtcccgcaagtctttaaccttcaagtggaaccactatg Alignment from Exonerate_protein2genome ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gatacatccaagttgtttggctgggctacagactgtcatttgttttccagACATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTCGTGATCCTACCAGGCTCATTCCGATGTCATGTGAGCCAGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGTGGgtagggcagtgtgtcccgcaagtctttaaccttcaagtggaaccactatg Alignment from Exonerate_coding2genome ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gatacatccaagttgtttggctgggctacagactgtcatttgttttccagACATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTCGTGATCCTACCAGGCTCATTCCGATGTCATGTGAGCCAGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGTGGgtagggcagtgtgtcccgcaagtctttaaccttcaagtggaaccactatg Alignment from GeneWise ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gatacatccaagttgtttggctgggctacagactgtcatttgttttccagACATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTCGTGATCCTACCAGGCTCATTCCGATGTCATGTGAGCCAGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGTGGgtagggcagtgtgtcccgcaagtctttaaccttcaagtggaaccactatg #### Efemp2_ID1033_6 --> 2 - 1 Original Alignment atGTGAATGAGTGTGACATGGGAGCCCCATGTGAGCAG-CGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCg tgtaatccacaactttcactttctatctttgctttgtccttgaattccagatGTTAATGAATGTGACATGGGAGCCCCTTGTGAGCAGCCGTTGTTTCAATTCATATGGGACCTTTTTGTGCCGGT-TAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTggtatgggtcaactgtgatatcccctctatgctacacagcataatttacat Alignment from CESAR atGTGAATGAGTGTGACATGGGAGCCCCATGTGAGCAG-CGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCg tgtaatccacaactttcactttctatctttgctttgtccttgaattccagatGTTAATGAATGTGACATGGGAGCCCCTTGTGAGCAGCCGTTGTTTCAATTCATATGGGACCTTTTTGTGCCGG-TTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTggtatgggtcaactgtgatatcccctctatgctacacagcataatttacat Alignment from Spaln_aa2Genome ATGTGAATGAGTGTGACATGGGAGCCCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG tgtaatccacaactttcactttctatctttgctttgtccttgaattccagATGTTAATGAATGTGACATGGGAGCCCCTTGTGAGCAGCCGTTGTTTCAATTCATATGGGACCTTTTTGTGCCGGTTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTGgtatgggtcaactgtgatatcccctctatgctacacagcataatttacat Alignment from Spaln_nt2Genome ATGTGAATGAGTGTGACATGGGAGCCCCATGTGAGCAGC-GCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG tgtaatccacaactttcactttctatctttgctttgtccttgaattccagATGTTAATGAATGTGACATGGGAGCCCCTTGTGAGCAGCCGTTGTTTCAATTCATATGGGACCTTTTTGTGCCGGT-TAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTGgtatgggtcaactgtgatatcccctctatgctacacagcataatttacat Alignment from Pairagon ATGTGAATGAGTGTGACATGGGAGCCCCATGTGAGCAG-CGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG tgtaatccacaactttcactttctatctttgctttgtccttgaattccagATGTTAATGAATGTGACATGGGAGCCCCTTGTGAGCAGCCGTTGTTTCAATTCATATGGGACCTTTTTGTGCCGGT-TAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTGgtatgggtcaactgtgatatcccctctatgctacacagcataatttacat Alignment from Exonerate_protein2genome ATGTGAATGAGTGTGACATGGGAGCCCCATGTGAGCAG-CGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGC--TGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG tgtaatccacaactttcactttctatctttgctttgtccttgaattccagATGTTAATGAATGTGACATGGGAGCCCCTTGTGAGCAGCCGTTGTTTCAATTCATATGGGACCTTTTTGTGCCGGTT---AACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTGgtatgggtcaactgtgatatcccctctatgctacacagcataatttacat Alignment from Exonerate_coding2genome ATGTGAATGAGTGTGACATGGGAGCCCCATGTGAGCAG-CGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGC--TGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG tgtaatccacaactttcactttctatctttgctttgtccttgaattccagATGTTAATGAATGTGACATGGGAGCCCCTTGTGAGCAGCCGTTGTTTCAATTCATATGGGACCTTTTTGTGCCGGTT---AACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTGgtatgggtcaactgtgatatcccctctatgctacacagcataatttacat Alignment from GeneWise ATGTGAATGAGTGTGACATGGGAGCCCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG tgtaatccacaactttcactttctatctttgctttgtccttgaattccagATGTTAATGAATGTGACATGGGAGCCCCTTGTGAGCAGCCGTTGTTTCAATTCATATGGGACCTTTTTGTGCCGGTTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTGgtatgggtcaactgtgatatcccctctatgctacacagcataatttacat #### Efemp2_ID1034_7 --> 2 - 1 Original Alignment atATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAAC-GAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAg tctcaaatttcctccatggccaatgactttttattttattatttatttagatATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTATAAATCGAGCCAGGCCAATTCTCCTGCCACTGTCCACAGG-CTACCAGCTGCTGGCAACTAGGCTCTGCCAAggtaaatggcttgggccgacaaccaacgaaattccaggtcttaccgtgagt Alignment from CESAR atATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAAC-GAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAg tctcaaatttcctccatggccaatgactttttattttattatttatttagatATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTATAAATCGAGCCAGGCCAATTCTCCTGCCACTGTCCAC-AGGCTACCAGCTGCTGGCAACTAGGCTCTGCCAAggtaaatggcttgggccgacaaccaacgaaattccaggtcttaccgtgagt Alignment from Spaln_aa2Genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaatttcctccatggccaatgactttttattttattatttatttagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTATAAATCGAGCCAGGCCAATTCTCCTGCCACTGTCCACAGGCTACCAGCTGCTGGCAACTAGGCTCTGCCAAGgtaaatggcttgggccgacaaccaacgaaattccaggtcttaccgtgagt Alignment from Spaln_nt2Genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAA-CGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaatttcctccatggccaatgactttttattttattatttatttagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTATAAATCGAGCCAGGCCAATTCTCCTGCCACTGTCCAC-AGGCTACCAGCTGCTGGCAACTAGGCTCTGCCAAGgtaaatggcttgggccgacaaccaacgaaattccaggtcttaccgtgagt Alignment from Pairagon ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAA-CGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaatttcctccatggccaatgactttttattttattatttatttagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTATAAATCGAGCCAGGCCAATTCTCCTGCCACTGTCCAC-AGGCTACCAGCTGCTGGCAACTAGGCTCTGCCAAGgtaaatggcttgggccgacaaccaacgaaattccaggtcttaccgtgagt Alignment from Exonerate_protein2genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAAC-GAGCCAGGCCGATTCTCCTGTCACTGCCCA--CAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaatttcctccatggccaatgactttttattttattatttatttagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTATAAATCGAGCCAGGCCAATTCTCCTGCCACTGTCCACA---GGCTACCAGCTGCTGGCAACTAGGCTCTGCCAAGgtaaatggcttgggccgacaaccaacgaaattccaggtcttaccgtgagt Alignment from Exonerate_coding2genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAAC-GAGCCAGGCCGATTCTCCTGTCACTGCCCA--CAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaatttcctccatggccaatgactttttattttattatttatttagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTATAAATCGAGCCAGGCCAATTCTCCTGCCACTGTCCACA---GGCTACCAGCTGCTGGCAACTAGGCTCTGCCAAGgtaaatggcttgggccgacaaccaacgaaattccaggtcttaccgtgagt Alignment from GeneWise ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaatttcctccatggccaatgactttttattttattatttatttagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTATAAATCGAGCCAGGCCAATTCTCCTGCCACTGTCCACAGGCTACCAGCTGCTGGCAACTAGGCTCTGCCAAGgtaaatggcttgggccgacaaccaacgaaattccaggtcttaccgtgagt #### Ehbp1l1_ID1217_18 --> 2 - 2 Original Alignment agTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTG-GAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGat tttttcatagtaggccagaaaggagcacatactttcctctttctttttagaaTGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCTCCTTCGAGGGACTTGTGTCTTTAGTAAACCAGAGGGAAGAGCTAG-TGGGGATTTAGATCAGAAGGAGCAGgtgtaagaacatgaacatgttttggccaggggaatgcctattgaggcccaag Alignment from CESAR agTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTG-GAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGat tttttcatagtaggccagaaaggagcacatactttcctctttctttttagaaTGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCTCCTTCGAGGGACTTGTGTCTTTAGTAAACCAGAGGGAAGAGCTAGTG-GGGATTTAGATCAGAAGGAGCAGgtgtaagaacatgaacatgttttggccaggggaatgcctattgaggcccaag Alignment from Spaln_aa2Genome AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTG-GAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGAT tttttcatagtaggccagaaaggagcacatactttcctctttctttttagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCTCCTTcGAGGGACTTGTGTCTTTAGTAAACCAGAGGGAAGAGCTAGTGGG-GATTTAGATCAGAAGGAGCAGGTgtaagaacatgaacatgttttggccaggggaatgcctattgaggcccaag Alignment from Spaln_nt2Genome AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTG-TTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGAT tttttcatagtaggccagaaaggagcacatactttcctctttctttttagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCTCCTTCGAGGGACTTGTGTCTTTAGTAAACCAGAGGGAAGAGCTAGT-GGGGATTTAGATCAGAAGGAGCAGGTgtaagaacatgaacatgttttggccaggggaatgcctattgaggcccaag Alignment from Pairagon AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCT-GTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGAT tttttcatagtaggccagaaaggagcacatactttcctctttctttttagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCTCCTTCGAGGGACTTGTGTCTTTAGTAAACCAGAGGGAAGAGCTAGT-GGGGATTTAGATCAGAAGGAGCAGGTgtaagaacatgaacatgttttggccaggggaatgcctattgaggcccaag Alignment from Exonerate_protein2genome AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGAT tttttcatagtaggccagaaaggagcacatactttcctctttctttttagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCTCCTTCGAGGGACTTGTGTCTTTAGTAAACCAGAGGGAAGAGCTAGTGGGGATTTAGATCAGAAGGAGCAGGTgtaagaacatgaacatgttttggccaggggaatgcctattgaggcccaag Alignment from Exonerate_coding2genome AGTGGCAGAAAACAGTTGCGCAGC tttttcatagtaggccagaaaggagcacatactttcctctttctttttagaatggcatacaacagttgcacagcagcactgtgaacaactcctccttcgagggacttgtgtctttagtaaaccagagggaagagctagtggggatttagatcagaaggagcaggtgtaagaacatgaacatgttttggccaGGGGAATGCCTATTGAGGCCCAAG Alignment from GeneWise AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGAT tttttcatagtaggccagaaaggagcacatactttcctctttctttttagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCTCCTTCGAGGGACTTGTGTCTTTAGTAAACCAGAGGGAAGAGCTAGTGGGGATTTAGATCAGAAGGAGCAGGTgtaagaacatgaacatgttttggccaggggaatgcctattgaggcccaag #### Ehbp1l1_ID1227_8 --> 2 - 2 Original Alignment ctGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCC-TTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAag ggatggcaatccaaacctccaaaagccattcttgtttcttgtctttcaagctGCTAGACCCTCTAGTGCTGAAAAGACAAGTCCCGCCCCGGTAAGTGCCCCTGCGCCCCAAGTTAGAGCACATCCGGGGCCAAGGG---GATCCAACTGCCATGACTG-TGGA---GTGGGGCATGAGACCCTAGAGCCCCCAGGGACTCCACCTGAGACAaagtaggaatcatctcagcttctcaggcaagattgcgccattgcagtgtcta Alignment from CESAR ctGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCC-TTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAag ggatggcaatccaaacctccaaaagccattcttgtttcttgtctttcaagctGCTAGACCCTCTAGTGCTGAAAAGACAAGTCCCGCCCCGGTAAGTGCCCCTGCGCCCCAAGTTAGAGCACATCCGGGGCCAAGGG---GATCCAACTGCCATGACT-GTGGA---GTGGGGCATGAGACCCTAGAGCCCCCAGGGACTCCACCTGAGACAaagtaggaatcatctcagcttctcaggcaagattgcgccattgcagtgtcta Alignment from Spaln_aa2Genome CTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAAG ggatggcaatccaaacctccaaaagccattcttgtttcttgtctttcaagCTGCTAGACCCTCTAGTGCTGAAAAGACAAGTCCCGCCCCGGTAAGTGCCCCTGCGCCCCAAGTTAGAGCACATCCGGGGCCAAGGGGATCCAACTGCCATGACTGTGGA------GTGGGGCATGAGACCCTAGAGCCCCCAGGGACTCCACCTGAGACAAAgtaggaatcatctcagcttctcaggcaagattgcgccattgcagtgtcta Alignment from Spaln_nt2Genome CTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGC-CTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAAG ggatggcaatccaaacctccaaaagccattcttgtttcttgtctttcaagCTGCTAGACCCTCTAGTGCTGAAAAGACAAGTCCCGCCCCGGTAAGTGCCCCTGCGCCCCAAGTTAGAGCACATCCGGGGCCAAGGG---GATCCAACTGCCATGACTGTGG----AGTGGGGCATGAGACCCTAGAGCCCCCAGGGACTCCACCTGAGACAAAgtaggaatcatctcagcttctcaggcaagattgcgccattgcagtgtcta Alignment from Pairagon CTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGC-CTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAAG ggatggcaatccaaacctccaaaagccattcttgtttcttgtctttcaagCTGCTAGACCCTCTAGTGCTGAAAAGACAAGTCCCGCCCCGGTAAGTGCCCCTGCGCCCCAAGTTAGAGCACATCCGGGGCCAAGGG---GATCCAACTGCCATGACTGTGG----AGTGGGGCATGAGACCCTAGAGCCCCCAGGGACTCCACCTGAGACAAAgtaggaatcatctcagcttctcaggcaagattgcgccattgcagtgtcta Alignment from Exonerate_protein2genome ggatggcaatccaaacctccaaaagccattcttgtttcttgtctttcaagctgctagaccctctagtgctgaaaagacaagtcccgccccggtaagtgcccctgcgccccaagttagagcacatccggggccaaggggatccaactgccatgactgtggagtggggcatgagaccctagagcccccagggactccacctgagacaaagtaggaatcatctcagcttctcaggcaagattgcgccattgcagtgtcta Alignment from Exonerate_coding2genome ggatggcaatccaaacctccaaaagccattcttgtttcttgtctttcaagctgctagaccctctagtgctgaaaagacaagtcccgccccggtaagtgcccctgcgccccaagttagagcacatccggggccaaggggatccaactgccatgactgtggagtggggcatgagaccctagagcccccagggactccacctgagacaaagtaggaatcatctcagcttctcaggcaagattgcgccattgcagtgtcta Alignment from GeneWise CTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAAG ggatggcaatccaaacctccaaaagccattcttgtttcttgtctttcaagCTGCTAGACCCTCTAGTGCTGAAAAGACAAGTCCCGCCCCGGTAAGTGCCCCTGCGCCCCAAGTTAGAGCACATCCGGGGCCAAGGGGATCCAACTGCCATGACTGTGGA------GTGGGGCATGAGACCCTAGAGCCCCCAGGGACTCCACCTGAGACAAAgtaggaatcatctcagcttctcaggcaagattgcgccattgcagtgtcta #### Ehbp1l1_ID1230_5 --> 0 - 2 Original Alignment GAGTCCAAGGGACAGCGGAAGGTACTGGCCACA-GTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCac ctctcccacccctgccagagtgtaggacttttaaaaaataatcaatatagGAGTCAAAGGGACAGCGGAAAGTATTAGCCACACGTTGGTGTCATTTCAGACCATCATGCAGGTCCCCTACCTGGCC-GATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCATCAAAGTTGTACACGCTGAGCTTAGCCTCACACTTGCTGTC---CTTCTACAAGAAGGCCGTGCCatgtaaatgtacctttatgcaggcagttttacactgaggctgggcagcatgc Alignment from CESAR GAGTCCAAGGGACAGCGGAAGGTACTGGCCACA-GTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCac ctctcccacccctgccagagtgtaggacttttaaaaaataatcaatatagGAGTCAAAGGGACAGCGGAAAGTATTAGCCACACGTTGGTGTCATTTCAGACCATCATGCAGGTCCCCTACCTGGC-CGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCATCAAAGTTGTACACGCTGAGCTTAGCCTCACACTTGCT---GTCCTTCTACAAGAAGGCCGTGCCatgtaaatgtacctttatgcaggcagttttacactgaggctgggcagcatgc Alignment from Spaln_aa2Genome GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC ctctcccacccctgccagagtgtaggacttttaaaaaataatcaatatagGAGTCAAAGGGACAGCGGAAAGTATTAGCCACACGTTGGTGTCATTTCAGACCATCATGCAGGTCCCCTACCTGGCCGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCATCAAAGTTGTACACGCTGAGCTTAGCCTCACACTTGCT---GTCCTTCTACAAGAAGGCCGTGCCATgtaaatgtacctttatgcaggcagttttacactgaggctgggcagcatgc Alignment from Spaln_nt2Genome GAGTCCAAGGGACAGCGGAAGGTACTGGCCACA-GTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC ctctcccacccctgccagagtgtaggacttttaaaaaataatcaatatagGAGTCAAAGGGACAGCGGAAAGTATTAGCCACACGTTGGTGTCATTTCAGACCATCATGCAGGTCCCCTACCTG-GCCGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCATCAAAGTTGTACACGCTGAGCTTAGCCTCACACTTGCT---GTCCTTCTACAAGAAGGCCGTGCCATgtaaatgtacctttatgcaggcagttttacactgaggctgggcagcatgc Alignment from Pairagon GAGTCCAAGGGACAGCGGAAGGTACTGGCCACA-GTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTG------CTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC ctctcccacccctgccagagtgtaggacttttaaaaaataatcaatatagGAGTCAAAGGGACAGCGGAAAGTATTAGCCACACGTTGGTGTCATTTCAGACCATCATGCAGGTCCCCTACCTGGCCGATCT-------CACTTCAATTGCGGCAGAAGCCCAAGTCCATCAAAGTTGTACACGCTGAGCTTAGCCTCACACTTGCT---GTCCTTCTACAAGAAGGCCGTGCCATgtaaatgtacctttatgcaggcagttttacactgaggctgggcagcatgc Alignment from Exonerate_protein2genome ctctcccacccctgccagagtgtaggacttttaaaaaataatcaatataggagtcaaagggacagcggaaagtattagccacacgttggtgtcatttcagaccatcatgcaggtcccctacctggccgatctcacttcaattgcggcagaagcccaagtccatcaaagttgtacacgctgagcttagcctcacacttgctgtccttctacaagaaggccgtgccatgtaaatgtacctttatgcaggcagttttacactgaggctgggcagcatgc Alignment from Exonerate_coding2genome ctctcccacccctgccagagtgtaggacttttaaaaaataatcaatataggagtcaaagggacagcggaaagtattagccacacgttggtgtcatttcagaccatcatgcaggtcccctacctggccgatctcacttcaattgcggcagaagcccaagtccatcaaagttgtacacgctgagcttagcctcacacttgctgtccttctacaagaaggccgtgccatgtaaatgtacctttatgcaggcagttttacactgaggctgggcagcatgc Alignment from GeneWise GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC ctctcccacccctgccagagtgtaggacttttaaaaaataatcaatatagGAGTCAAAGGGACAGCGGAAAGTATTAGCCACACGTTGGTGTCATTTCAGACCATCATGCAGGTCCCCTACCTGGCCGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCATCAAAGTTGTACACGCTGAGCTTAGCCTCACACTTGCT---GTCCTTCTACAAGAAGGCCGTGCCATgtaaatgtacctttatgcaggcagttttacactgaggctgggcagcatgc #### Eif1ad_ID949_2 --> 0 - 1 Original Alignment GTCCTCAGGACTCCTGGGAACAATCTGCAT-GAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAg acaatgcaaattctagataatgagtgattctttttctttgctgtcttcagGTCCTCAGGACCCCAGGGAACAATTTGCATCGAGGTGGAAACTGCTCAGGGGCAACGCTTCCTGG-CAGCATGCCCTCCAAATACCGTAAGAACATCTGGATCAAGAGAggtaagttctttttgctttttcaactaccaaacatgataccaccttgtccc Alignment from CESAR GTCCTCAGGACTCCTGGGAACAATCTGCAT-GAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAg acaatgcaaattctagataatgagtgattctttttctttgctgtcttcagGTCCTCAGGACCCCAGGGAACAATTTGCATCGAGGTGGAAACTGCTCAGGGGCAACGCTTCCTGG-CAGCATGCCCTCCAAATACCGTAAGAACATCTGGATCAAGAGAggtaagttctttttgctttttcaactaccaaacatgataccaccttgtccc Alignment from Spaln_aa2Genome GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAG acaatgcaaattctagataatgagtgattctttttctttgctgtcttcagGTCCTCAGGACCCCAGGGAACAATTTGCATCGAGGTGGAAACTGCTCAGGGGCAACGCTTCCTGGCAGCATGCCCTCCAAATACCGTAAGAACATCTGGATCAAGAGAGgtaagttctttttgctttttcaactaccaaacatgataccaccttgtccc Alignment from Spaln_nt2Genome GTCCTCAGGACTCCTGGGAACAATCTGCAT-GAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAG acaatgcaaattctagataatgagtgattctttttctttgctgtcttcagGTCCTCAGGACCCCAGGGAACAATTTGCATCGAGGTGGAAACTGCTCAGGGGCAACGCTTCCTGG-CAGCATGCCCTCCAAATACCGTAAGAACATCTGGATCAAGAGAGgtaagttctttttgctttttcaactaccaaacatgataccaccttgtccc Alignment from Pairagon GTCCTCAGGACTCCTGGGAACAATCTGCAT-GAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAG acaatgcaaattctagataatgagtgattctttttctttgctgtcttcagGTCCTCAGGACCCCAGGGAACAATTTGCATCGAGGTGGAAACTGCTCAGGGGCAACGCTTCCTGGC-AGCATGCCCTCCAAATACCGTAAGAACATCTGGATCAAGAGAGgtaagttctttttgctttttcaactaccaaacatgataccaccttgtccc Alignment from Exonerate_protein2genome GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAG acaatgcaaattctagataatgagtgattctttttctttgctgtcttcagGTCCTCAGGACCCCAGGGAACAATTTGCATCGAGGTGGAAACTGCTCAGGGGCAACGCTTCCTGGCAGCATGCCCTCCAAATACCGTAAGAACATCTGGATCAAGAGAGgtaagttctttttgctttttcaactaccaaacatgataccaccttgtccc Alignment from Exonerate_coding2genome GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAG acaatgcaaattctagataatgagtgattctttttctttgctgtcttcagGTCCTCAGGACCCCAGGGAACAATTTGCATCGAGGTGGAAACTGCTCAGGGGCAACGCTTCCTGGCAGCATGCCCTCCAAATACCGTAAGAACATCTGGATCAAGAGAGgtaagttctttttgctttttcaactaccaaacatgataccaccttgtccc Alignment from GeneWise GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAG acaatgcaaattctagataatgagtgattctttttctttgctgtcttcagGTCCTCAGGACCCCAGGGAACAATTTGCATCGAGGTGGAAACTGCTCAGGGGCAACGCTTCCTGGCAGCATGCCCTCCAAATACCGTAAGAACATCTGGATCAAGAGAGgtaagttctttttgctttttcaactaccaaacatgataccaccttgtccc #### Eif1ad_ID950_3 --> 2 - 2 Original Alignment ggGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTG-AAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACtg aatgatgcctcatgctgctcaacacaaagactatgtcttcatgatcttagggGACTTTCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTCCAAGGCAGAGATCTCGTTTGTACTCTGCAAGA-CCATGTTCACACCCTGCAGAAGGAGGGCCAAtggtgagtcagtctccctgtgcccctgctcagtgaagcagtgagagagttgt Alignment from CESAR ggGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTG-AAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACtg aatgatgcctcatgctgctcaacacaaagactatgtcttcatgatcttagggGACTTTCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTCCAAGGCAGAGATCTCGTTTGTACTCTGCA-AGACCATGTTCACACCCTGCAGAAGGAGGGCCAAtggtgagtcagtctccctgtgcccctgctcagtgaagcagtgagagagttgt Alignment from Spaln_aa2Genome GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aatgatgcctcatgctgctcaacacaaagactatgtcttcatgatcttagGGGACTTTCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTCCAAGGCAGAGATCTCGTTTGTACTCTGCAAGACCATGTTCACACCCTGCAGAAGGAGGGCCAATGgtgagtcagtctccctgtgcccctgctcagtgaagcagtgagagagttgt Alignment from Spaln_nt2Genome GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTG-AAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aatgatgcctcatgctgctcaacacaaagactatgtcttcatgatcttagGGGACTTTCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTCCAAGGCAGAGATCTCGTTTGTACTCTGCAAGAC-CATGTTCACACCCTGCAGAAGGAGGGCCAATGgtgagtcagtctccctgtgcccctgctcagtgaagcagtgagagagttgt Alignment from Pairagon GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGT-GAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aatgatgcctcatgctgctcaacacaaagactatgtcttcatgatcttagGGGACTTTCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTCCAAGGCAGAGATCTCGTTTGTACTCTGCAAG-ACCATGTTCACACCCTGCAGAAGGAGGGCCAATGgtgagtcagtctccctgtgcccctgctcagtgaagcagtgagagagttgt Alignment from Exonerate_protein2genome GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aatgatgcctcatgctgctcaacacaaagactatgtcttcatgatcttagGGGACTTTCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTCCAAGGCAGAGATCTCGTTTGTACTCTGCAAGACCATGTTCACACCCTGCAGAAGGAGGGCCAATGgtgagtcagtctccctgtgcccctgctcagtgaagcagtgagagagttgt Alignment from Exonerate_coding2genome GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aatgatgcctcatgctgctcaacacaaagactatgtcttcatgatcttagGGGACTTTCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTCCAAGGCAGAGATCTCGTTTGTACTCTGCAAGACCATGTTCACACCCTGCAGAAGGAGGGCCAATGgtgagtcagtctccctgtgcccctgctcagtgaagcagtgagagagttgt Alignment from GeneWise GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aatgatgcctcatgctgctcaacacaaagactatgtcttcatgatcttagGGGACTTTCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTCCAAGGCAGAGATCTCGTTTGTACTCTGCAAGACCATGTTCACACCCTGCAGAAGGAGGGCCAATGgtgagtcagtctccctgtgcccctgctcagtgaagcagtgagagagttgt #### Eif3a_ID13317_13 --> 0 - 0 Original Alignment GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAA-CTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG caagtacctaaagctgtagaactttacagtgtgcttcatttttaatatagGACTTTGAAGAACTGGATCAGGATTTTATAATGGCCAAACAGGTAGAACAGCCTGGAAAAGGAAAAGAAAGAACTTCAAGAAC-CCTCAAGACGCAAGAAGAGAAGgtaccagtggatcactgataagttctgtaagtaaagtagatcaaaagaac Alignment from CESAR GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAA-CTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG caagtacctaaagctgtagaactttacagtgtgcttcatttttaatatagGACTTTGAAGAACTGGATCAGGATTTTATAATGGCCAAACAGGTAGAACAGCCTGGAAAAGGAAAAGAAAGAACTTCAAGAA-CCCTCAAGACGCAAGAAGAGAAGgtaccagtggatcactgataagttctgtaagtaaagtagatcaaaagaac Alignment from Spaln_aa2Genome GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAA-CTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG caagtacctaaagctgtagaactttacagtgtgcttcatttttaatatagGACTTTGAAGAACTGGATCAGGATTTTATAATGGCCAAACAGGTAGAACAGcCTGGAAAAGGAAAAGAAAGAACTTCAAGAACC-CTCAAGACGCAAGAAGAGAAGgtaccagtggatcactgataagttctgtaagtaaagtagatcaaaagaac Alignment from Spaln_nt2Genome GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAAC-TGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG caagtacctaaagctgtagaactttacagtgtgcttcatttttaatatagGACTTTGAAGAACTGGATCAGGATTTTATAATGGCCAAACAGGTAGAACAGCCTGGAAAAGGAAAAGAAAGAACTTCAAGAAC-CCTCAAGACGCAAGAAGAGAAGgtaccagtggatcactgataagttctgtaagtaaagtagatcaaaagaac Alignment from Pairagon GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAA-CTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG caagtacctaaagctgtagaactttacagtgtgcttcatttttaatatagGACTTTGAAGAACTGGATCAGGATTTTATAATGGCCAAACAGGTAGAACAGCCTGGAAAAGGAAAAGAAAGAACTTCAAGAAC-CCTCAAGACGCAAGAAGAGAAGgtaccagtggatcactgataagttctgtaagtaaagtagatcaaaagaac Alignment from Exonerate_protein2genome GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG caagtacctaaagctgtagaactttacagtgtgcttcatttttaatatagGACTTTGAAGAACTGGATCAGGATTTTATAATGGCCAAACAGGTAGAACAGCCTGGAAAAGGAAAAGAAAGAACTTCAAGAACCCTCAAGACGCAAGAAGAGAAGgtaccagtggatcactgataagttctgtaagtaaagtagatcaaaagaac Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG caagtacctaaagctgtagaactttacagtgtgcttcatttttaatatagGACTTTGAAGAACTGGATCAGGATTTTATAATGGCCAAACAGGTAGAACAGCCTGGAAAAGGAAAAGAAAGAACTTCAAGAACCCTCAAGACGCAAGAAGAGAAGgtaccagtggatcactgataagttctgtaagtaaagtagatcaaaagaac #### Eml3_ID2503_3 --> 1 - 2 Original Alignment cAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCA-GGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACac gCCCCGAAGAAATTCTTCCTCCTCC tagaattagtccaacgtgttgggtaatggtacctttctctgctcctgcagcAGCATTACAGTCCCGCCGGGGCTGCCACCAATCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCCCCTGGCCTAAGCAATGGCCCACCAGCTCTACAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGCTGCCGCAGCAGTAGTGGATCACGGTTCACCAGGGCCTCCAGGAATCCTCAGGCCAG-GCAGCCGCTTGAATGTTCAGATacgtgtacacttattctcatttcctagaCCCCGAAGAAATTCTTTGTCCTCA Alignment from CESAR cAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCA-GGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACac gCCCCGAAGAAATTCTTCCTCCTCC tagaattagtccaacgtgttgggtaatggtacctttctctgctcctgcagcAGCATTACAGTCCCGCCGGGGCTGCCACCAATCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCCCCTGGCCTAAGCAATGGCCCACCAGCTCTACAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGCTGCCGCAGCAGTAGTGGATCACGGTTCACCAGGGCCTCCAGGAATCCTCAGGCCA-GGCAGCCGCTTGAATGTTCAGATacgtgccgcctcctctctcctccacagaCCCCGAAGAAATTCTTTGTCCTCA Alignment from Spaln_aa2Genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCA-GGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCG---------------GTGCAG---------CCTCTTCAGCGTTCTGACACGCCCCGAAGAAATTCTTCCTCCTCC tagaattagtccaacgtgttgggtaatggtacctttctctgctcctgcagCAGCATTACAGTCCCGCCGGGGCTGCCACCAATCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCCCCTGGCCTAAGCAATGGCCCACCAGCTCTACAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGCTGCCGCAGCAGTAGTGGATCAcGGTTCACCAGGGCCTCCAGGAATCCTCAGGCCAGGCAGCCGCTTGAATGTTCAGATACGTGTACACTTATTCTCATTTCCTAGACCCCGAAGAAATTCTTTGTCCTCA Alignment from Spaln_nt2Genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCA-GGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGC GTTCTGACACGCCCCGAAGAAATTC tagaattagtccaacgtgttgggtaatggtacctttctctgctcctgcagCAGCATTACAGTCCCGCCGGGGCTGCCACCAATCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCCCCTGGCCTAAGCAATGGCCCACCAGCTCTACAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGCTGCCGCAGCAGTAGTGGATCACGGTTCACCAGGGCCTCCAGGAATCCTCAGGCCAG-GCAGCCGCTTGAATgttcagatacgtgtacacttattctcatttcctag----------ACCCCGAAGAAATTC Alignment from Pairagon CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCA-GGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACACG-------------------------CCCCGAAGAAATTCTTCCTCCTCC tagaattagtccaacgtgttgggtaatggtacctttctctgctcctgcagCAGCATTACAGTCCCGCCGGGGCTGCCACCAATCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCCCCTGGCCTAAGCAATGGCCCACCAGCTCTACAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGCTGCCGCAGCAGTAGTGGATCACGGTTCACCAGGGCCTCCAGGAATCCTCAGGCCAG-GCAGCCGCTTGAATGTTCAGATACGTGTACACTTATTCTCATTTCCTAGACCCCGAAGAAATTCTTTGTCCTCA Alignment from Exonerate_protein2genome CCCCGAAGAAATTCTTCCTCCTCC tagaattagtccaacgtgttgggtaatggtacctttctctgctcctgcagcagcattacagtcccgccggggctgccaccaatctgtagtccttccctggttacaagaggcacacaaactaaagaagagttggagattgttccttcctctggaccccctggcctaagcaatggcccaccagctctacaagggagcagcaaagaacctagtggtatccaatttcaaggtggctgccgcagcagtagtggatcacggttcaccagggcctccaggaatcctcaggccaggcagccgcttgaatgttcagatacgtgtacacttattctcatttcctagaCCCCGAAGAAATTCTTTGTCCTCA Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGG-GCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCT------------------------GACACGCCCCGAAGAAATTCTTCCTCCTCC tagaattagtccaacgtgttgggtaatggtacctttctctgctcctgcagCAGCATTACAGTCCCGCCGGGGCTGCCACCAATCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCCCCTGGCCTAAGCAATGGCCCACCAGCTCTACAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGCTGCCGCAGCAGTAGTGGATCACGGTTCACCAGGGCCTCCAGGAATCCTCAGGCCAGGCAGCCGCTTGAATGTTCAGATACGTGTACACTTATTCTCATTTCCTAGACCCCGAAGAAATTCTTTGTCCTCA #### Eml3_ID2506_5 --> 1 - 1 Original Alignment cCGGGGGAACAAA-GACCCTCTGTCCAGTCCTGGGGGTCCCGGATCTCGGAGGAGCAATTATAACTTAg tcatcgctggcagtggacacaagttttactctgtgttctcccatttgcagtCGGGGGAATAAACGACCCTCTGTCCAGTCCTGGGGGTCCTGGATCTCGGAGGA-CAATTATAATTTAggtaggttaaggaaggagaatggcattaacactgactagtaacacacacca Alignment from CESAR cCGGGGGAACAAA-GACCCTCTGTCCAGTCCTGGGGGTCCCGGATCTCGGAGGAGCAATTATAACTTAg tcatcgctggcagtggacacaagttttactctgtgttctcccatttgcagtCGGGGGAATAAACGACCCTCTGTCCAGTCCTGGGGGTCCTGGATCTCGGAGG-ACAATTATAATTTAggtaggttaaggaaggagaatggcattaacactgactagtaacacacacca Alignment from Spaln_aa2Genome CCGGGGGAACAAA-GACCCTCTGTCCAGTCCTGGGGGTCCCGGATCTCGGAGGAGCAATTATAACTTAG tcatcgctggcagtggacacaagttttactctgtgttctcccatttgcagTCGGGGGAATAAAcGACCCTCTGTCCAGTCCTGGGGGTCCTGGATCTCGGAGGAC-AATTATAATTTAGgtaggttaaggaaggagaatggcattaacactgactagtaacacacacca Alignment from Spaln_nt2Genome CCGGGGGAACAAA-GACCCTCTGTCCAGTCCTGGGGGTCCCGGATCTCGGAGGAGCAATTATAACTTAG tcatcgctggcagtggacacaagttttactctgtgttctcccatttgcagTCGGGGGAATAAACGACCCTCTGTCCAGTCCTGGGGGTCCTGGATCTCGGAGGA-CAATTATAATTTAGgtaggttaaggaaggagaatggcattaacactgactagtaacacacacca Alignment from Pairagon CCGGGGGAACAAA-GACCCTCTGTCCAGTCCTGGGGGTCCCGGATCTCGGAGGAGCAATTATAACTTAG tcatcgctggcagtggacacaagttttactctgtgttctcccatttgcagTCGGGGGAATAAACGACCCTCTGTCCAGTCCTGGGGGTCCTGGATCTCGGAGGA-CAATTATAATTTAGgtaggttaaggaaggagaatggcattaacactgactagtaacacacacca Alignment from Exonerate_protein2genome CCGGGGGAACAAAGACCCTCTGTCCAGTCCTGGGGGTCCCGGATCTCGGAGGAGCAATTATAACTTAG tcatcgctggcagtggacacaagttttactctgtgttctcccatttgcagTCGGGGGAATAAACGACCCTCTGTCCAGTCCTGGGGGTCCTGGATCTCGGAGGACAATTATAATTTAGgtaggttaaggaaggagaatggcattaacactgactagtaacacacacca Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCGGGGGAACAAAGACCCTCTGTCCAGTCCTGGGGGTCCCGGATCTCGGAGGAGCAATTATAACTTAG tcatcgctggcagtggacacaagttttactctgtgttctcccatttgcagTCGGGGGAATAAACGACCCTCTGTCCAGTCCTGGGGGTCCTGGATCTCGGAGGACAATTATAATTTAGgtaggttaaggaaggagaatggcattaacactgactagtaacacacacca #### Eml3_ID2508_7 --> 1 - 2 Original Alignment tTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTAC-TTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGAtg ttacttctgctaatccccccccatagcctattctcttctctgcctcgcagtTATGGATATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACCTTTATTGCCTGTGTAGTGGTACTGTACCGGCCGGGAGGAG-CCCAGGTGGGCCAGGAGGTGGTGGTCAGAGACATTATCGGGGCCACACAGACTGTGTTCGAtggtaagaaccgtggtagtggtaaacacttaattcctgttgacttcaaggaa Alignment from CESAR tTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTAC-TTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGAtg ttacttctgctaatccccccccatagcctattctcttctctgcctcgcagtTATGGATATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACCTTTATTGCCTGTGTAGTGGTACTGTACCGGCCGGGAG-GAGCCCAGGTGGGCCAGGAGGTGGTGGTCAGAGACATTATCGGGGCCACACAGACTGTGTTCGAtggtaagaaccgtggtagtggtaaacacttaattcctgttgacttcaaggaa Alignment from Spaln_aa2Genome TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTAC-TTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttacttctgctaatccccccccatagcctattctcttctctgcctcgcagTTATGGATATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACcTTTATTGCCTGTGTAGTGGTACTGTACCGGCCGGGAGGAGC-CCAGGTGGGCCAGGAGGTGGTGGTCAGAGACATTATCGGGGCCACACAGACTGTGTTCGATGgtaagaaccgtggtagtggtaaacacttaattcctgttgacttcaaggaa Alignment from Spaln_nt2Genome TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTA-CTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttacttctgctaatccccccccatagcctattctcttctctgcctcgcagTTATGGATATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACCTTTATTGCCTGTGTAGTGGTACTGTACCGGCCGGGAGGAGC-CCAGGTGGGCCAGGAGGTGGTGGTCAGAGACATTATCGGGGCCACACAGACTGTGTTCGATGgtaagaaccgtggtagtggtaaacacttaattcctgttgacttcaaggaa Alignment from Pairagon TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTA-CTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttacttctgctaatccccccccatagcctattctcttctctgcctcgcagTTATGGATATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACCTTTATTGCCTGTGTAGTGGTACTGTACCGGCCGGGAGGA-GCCCAGGTGGGCCAGGAGGTGGTGGTCAGAGACATTATCGGGGCCACACAGACTGTGTTCGATGgtaagaaccgtggtagtggtaaacacttaattcctgttgacttcaaggaa Alignment from Exonerate_protein2genome TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTAC-TTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGA--GGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttacttctgctaatccccccccatagcctattctcttctctgcctcgcagTTATGGATATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACCTTTATTGCCTGTGTAGTGGTACTGTACCGGCCGGGAGGAGC---CCAGGTGGGCCAGGAGGTGGTGGTCAGAGACATTATCGGGGCCACACAGACTGTGTTCGATGgtaagaaccgtggtagtggtaaacacttaattcctgttgacttcaaggaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttacttctgctaatccccccccatagcctattctcttctctgcctcgcagTTATGGATATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACCTTTATTGCCTGTGTAGTGGTACTGTACCGGCCGGGAGGAGCCCAGGTGGGCCAGGAGGTGGTGGTCAGAGACATTATCGGGGCCACACAGACTGTGTTCGATGgtaagaaccgtggtagtggtaaacacttaattcctgttgacttcaaggaa #### Eml3_ID2509_8 --> 1 - 0 Original Alignment cCTTGCTGTTCACCCT-GATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG gtacttcagtgtaaccggtgattttatgatttttttccttctactcttagtCTTGCTGTACATCCTCGATGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGCGTGG-CAAGGATGGAAAGgtaagcgccagcatgcagatggcaatgagatcattgatcaagttttctgt Alignment from CESAR cCTTGCTGTTCACCCT-GATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG gtacttcagtgtaaccggtgattttatgatttttttccttctactcttagtCTTGCTGTACATCCTCGATGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGCGTG-GCAAGGATGGAAAGgtaagcgccagcatgcagatggcaatgagatcattgatcaagttttctgt Alignment from Spaln_aa2Genome CCTTGCTGTTCACCCT-GATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG gtacttcagtgtaaccggtgattttatgatttttttccttctactcttagTCTTGCTGTACATCCTcGATGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGCGTGGC-AAGGATGGAAAGgtaagcgccagcatgcagatggcaatgagatcattgatcaagttttctgt Alignment from Spaln_nt2Genome CCTTGCTGTTCACCCT-GATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG gtacttcagtgtaaccggtgattttatgatttttttccttctactcttagTCTTGCTGTACATCCTCGATGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGCGTGG-CAAGGATGGAAAGgtaagcgccagcatgcagatggcaatgagatcattgatcaagttttctgt Alignment from Pairagon CCTTGCTGTTCACCCT-GATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG gtacttcagtgtaaccggtgattttatgatttttttccttctactcttagTCTTGCTGTACATCCTCGATGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGCGTGG-CAAGGATGGAAAGgtaagcgccagcatgcagatggcaatgagatcattgatcaagttttctgt Alignment from Exonerate_protein2genome CCTTGCTGTTCACCCT-GATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAA gtacttcagtgtaaccggtgattttatgatttttttccttctactcttagTCTTGCTGTACATCCTCGATGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGCGTGGCAAGGATGGAAAGgtaagcgccagcatgcagatggcaatgagatcattgatcaagttttctgt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGG gtacttcagtgtaaccggtgattttatgatttttttccttctactcttagtcttgctgtacatcctcgatggagttcatgttgcttcagggcagacagctggcgtggcaaggatggaaaggtaagcgccagCATGCAGATGGCAATGAGATCATTG---ATCAAGTTTTC #### Eml3_ID2510_9 --> 0 - 0 Original Alignment CCCCTGCAGCCC-GTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagttttctgtccttctccctgccctctcttaaccacagCCCCTGCAGCCGCGTGGTTCATACCTGGGACTCAGAAACACTCC-AAAACTGCAGGAAATTGGCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtatggcagggatggcaacatgtgtgtgaccccattgtcttgtttattaa Alignment from CESAR CCCCTGCAGCCC-GTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagttttctgtccttctccctgccctctcttaaccacagCCCCTGCAGCCGCGTGGTTCATACCTGGGACTCAGAAACACTC-CAAAACTGCAGGAAATTGGCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtatggcagggatggcaacatgtgtgtgaccccattgtcttgtttattaa Alignment from Spaln_aa2Genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagttttctgtccttctccctgccctctcttaaccacagCCCCTGCAGCCGCGTGGTTCATACCTGGGACTCAGAAACACTCCAAAACTGCAGGAAATTGGCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtatggcagggatggcaacatgtgtgtgaccccattgtcttgtttattaa Alignment from Spaln_nt2Genome CCCCTGCAGCC-CGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagttttctgtccttctccctgccctctcttaaccacagCCCCTGCAGCCGCGTGGTTCATACCTGGGACTCAGAAACACTCC-AAAACTGCAGGAAATTGGCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtatggcagggatggcaacatgtgtgtgaccccattgtcttgtttattaa Alignment from Pairagon CCCCTGCAGCC-CGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagttttctgtccttctccctgccctctcttaaccacagCCCCTGCAGCCGCGTGGTTCATACCTGGGACTCAGAAACACTCC-AAAACTGCAGGAAATTGGCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtatggcagggatggcaacatgtgtgtgaccccattgtcttgtttattaa Alignment from Exonerate_protein2genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagttttctgtccttctccctgccctctcttaaccacagCCCCTGCAGCCGCGTGGTTCATACCTGGGACTCAGAAACACTCCAAAACTGCAGGAAATTGGCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtatggcagggatggcaacatgtgtgtgaccccattgtcttgtttattaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagttttctgtccttctccctgccctctcttaaccacagCCCCTGCAGCCGCGTGGTTCATACCTGGGACTCAGAAACACTCCAAAACTGCAGGAAATTGGCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtatggcagggatggcaacatgtgtgtgaccccattgtcttgtttattaa #### Eml3_ID2512_11 --> 0 - 0 Original Alignment AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATGTC-CACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG ttcagccctcatgacaacagttgtagtactgccttctgtcccctctgtagAGTACAAATGACTCCGTACTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTTACTAGTGGAAAATCACATGTTCCACTTTTGGAATTGGAGTGGTGGTACAGGGGCTCCTGGGA-TGGAATCCTTGCACGGAAGCAGGATGTTCTTGGGgtaggtcgggtaaggtaaacaaacgcatggcataataacacactgtgcct Alignment from CESAR AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATGTC-CACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG ttcagccctcatgacaacagttgtagtactgccttctgtcccctctgtagAGTACAAATGACTCCGTACTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTTACTAGTGGAAAATCACATGTTCCACTTTTGGAATTGGAGTGGTGGTACAGGGGCTCCTG-GGATGGAATCCTTGCACGGAAGCAGGATGTTCTTGGGgtaggtcgggtaaggtaaacaaacgcatggcataataacacactgtgcct Alignment from Spaln_aa2Genome AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATGTC-CACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG ttcagccctcatgacaacagttgtagtactgccttctgtcccctctgtagAGTACAAATGACTCCGTACTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTTACTAGTGGAAAATCACATGTTcCACTTTTGGAATTGGAGTGGTGGTACAGGGGCTCCTGG-GATGGAATCCTTGCACGGAAGCAGGATGTTCTTGGGgtaggtcgggtaaggtaaacaaacgcatggcataataacacactgtgcct Alignment from Spaln_nt2Genome AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATG-TCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG ttcagccctcatgacaacagttgtagtactgccttctgtcccctctgtagAGTACAAATGACTCCGTACTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTTACTAGTGGAAAATCACATGTTCCACTTTTGGAATTGGAGTGGTGGTACAGGGGCTCCTGGG-ATGGAATCCTTGCACGGAAGCAGGATGTTCTTGGGgtaggtcgggtaaggtaaacaaacgcatggcataataacacactgtgcct Alignment from Pairagon AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATG-TCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG ttcagccctcatgacaacagttgtagtactgccttctgtcccctctgtagAGTACAAATGACTCCGTACTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTTACTAGTGGAAAATCACATGTTCCACTTTTGGAATTGGAGTGGTGGTACAGGGGCTCCTGGG-ATGGAATCCTTGCACGGAAGCAGGATGTTCTTGGGgtaggtcgggtaaggtaaacaaacgcatggcataataacacactgtgcct Alignment from Exonerate_protein2genome AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATGTC-CACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGG--AATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG ttcagccctcatgacaacagttgtagtactgccttctgtcccctctgtagAGTACAAATGACTCCGTACTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTTACTAGTGGAAAATCACATGTTCCACTTTTGGAATTGGAGTGGTGGTACAGGGGCTCCTGGGAT---GGAATCCTTGCACGGAAGCAGGATGTTCTTGGGgtaggtcgggtaaggtaaacaaacgcatggcataataacacactgtgcct Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCAT-GTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG ttcagccctcatgacaacagttgtagtactgccttctgtcccctctgtagAGTACAAATGACTCCGTACTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTTACTAGTGGAAAATCACATGTTCCACTTTTGGAATTGGAGTGGTGGTACAGGGGCTCCTGGGAT-GGAATCCTTGCACGGAAGCAGGATGTTCTTGGGgtaggtcgggtaaggtaaacaaacgcatggcataataacacactgtgcct #### Exosc1_ID8332_7 --> 0 - 1 Original Alignment ATCTCCCTAGGCGATGCACAGTCC-AATTACCTGCTGACTACT---GCTGAAAACGAGCTGGGCGTTGTGGTGGCCCACAGTGAGTCAg taatggttatataagaaaggtcaaacactcctcgttcctctcttccccagATATCGCTAGGGGCTGCACAGTCCCAATTATCTGTTAACCACTGCTGCCGAAAACGAGCTGGGTG-TGTAGTGGCCCACAGTGAGTCAggtgagccagtaactaaatttgctgtcccaggaaggttgtcttgttattct Alignment from CESAR ATCTCCCTAGGCGATGCACAGTCC-AATTACCTGCTGACTACTGCT---GAAAACGAGCTGGGCGTTGTGGTGGCCCACAGTGAGTCAg taatggttatataagaaaggtcaaacactcctcgttcctctcttccccagATATCGCTAGGGGCTGCACAGTCCCAATTATCTGTTAACCACTGCTGCCGAAAACGAGCTGGGTG-TGTAGTGGCCCACAGTGAGTCAggtgagccagtaactaaatttgctgtcccaggaaggttgtctttgtttatc Alignment from Spaln_aa2Genome ATCTCCCTAGGCGATGCACAGTCCAATTACCTGCTGACT---ACTGCTGAAAACGAGCTGGGCGTTGTGGTGGCCCACAGTGAGTCAG taatggttatataagaaaggtcaaacactcctcgttcctctcttccccagATATCGCTAGGGGCTGCACAGTCCCAATTATCTGTTAACCACTGCTGCCGAAAACGAGCTGGGTGTGTAGTGGCCCACAGTGAGTCAGgtgagccagtaactaaatttgctgtcccaggaaggttgtcttgttattct Alignment from Spaln_nt2Genome ATCTCCCTAGGCGATGCACAGTCC-AATTACCTGCTGACTACTGCTG---AAAACGAGCTGGGCGTTGTGGTGGCCCACAGTGAGTCAG taatggttatataagaaaggtcaaacactcctcgttcctctcttccccagATATCGCTAGGGGCTGCACAGTCCCAATTATCTGTTAACCACTGCTGCCGAAAACGAGCTGGGTG-TGTAGTGGCCCACAGTGAGTCAGgtgagccagtaactaaatttgctgtcccaggaaggttgtcttgttattct Alignment from Pairagon ATCTCCCTAGGCGATGCACAGT-CCAATTACCTGCTGACTACTGCT---GAAAACGAGCTGGGCGTTGTGGTGGCCCACAGTGAGTCAG taatggttatataagaaaggtcaaacactcctcgttcctctcttccccagATATCGCTAGGGGCTGCACAGTCCCAATTATCTGTTAACCACTGCTGCCGAAAACGAGCTGGGTG-TGTAGTGGCCCACAGTGAGTCAGgtgagccagtaactaaatttgctgtcccaggaaggttgtcttgttattct Alignment from Exonerate_protein2genome ATCTCCCTAGGCGATGCACAGTCCAATTACCTGCTGACT---ACTGCTGAAAACGAGCTGGGCGTTGTGGTGGCCCACAGTGAGTCAG taatggttatataagaaaggtcaaacactcctcgttcctctcttccccagATATCGCTAGGGGCTGCACAGTCCCAATTATCTGTTAACCACTGCTGCCGAAAACGAGCTGGGTGTGTAGTGGCCCACAGTGAGTCAGgtgagccagtaactaaatttgctgtcccaggaaggttgtcttgttattct Alignment from Exonerate_coding2genome ACGAGCTGGGCGTTGTGGTG taatggttatataagaaaggtcaaacactcctcgttcctctcttccccagatatcgctaggggctgcacagtcccaattatctgttaaccactgctgccgaaaacgagctgggtgtgtagtggcccacagtgagtcaggtgagccagtaactaaatttgctgtcccagGAAGGTTGTCT---TGTTAT Alignment from GeneWise ATCTCCCTAGGCGATGCACAGTCCAATTACCTGCTGACT---ACTGCTGAAAACGAGCTGGGCGTTGTGGTGGCCCACAGTGAGTCAGGT------------------------------------------------ taatggttatataagaaaggtcaaacactcctcgttcctctcttccccagATATCGCTAGGGGCTGCACAGTCCCAATTATCTGTTAACCACTGCTGCCGAAAACGAGCTGGGTGTGTAGTGGCCCACAGTGAGTCAGGTGAGCCAGTAACTAAATTTGCTGTCCCAGGAAGGTTGTCTTGTTATTCT #### Fads1_ID2688_2 --> 0 - 0 Original Alignment GATCCTTTTGTG-GCATTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT taaattctcattgccatcggttctcattccgtggctctctaaaagggcagGATCCTTTTGTGCGCATTCCACTTCAACAAGGGTCTTGTGAGAA-ATATATGAATTATCTT---CTTGGGGAGCTAGCTCCCGAGCAACCCAGCTTTGAACCCACCAAGAATgtaggtaaacagaccctgaaaattagggataccattgttgcactagtggt Alignment from CESAR GATCCTTTTGTG-GCATTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT taaattctcattgccatcggttctcattccgtggctctctaaaagggcagGATCCTTTTGTGCGCATTCCACTTCAACAAGGGTCTTGTGA-GAAATATATGAATTATCTTCTT---GGGGAGCTAGCTCCCGAGCAACCCAGCTTTGAACCCACCAAGAATgtaggtaaacagaccctgaaaattagggataccattgttgcactagtggt Alignment from Spaln_aa2Genome GATCCTTTTGTGGCATTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT taaattctcattgccatcggttctcattccgtggctctctaaaagggcagGATCCTTTTGTGCGCATTCCACTTCAACAAGGGTCTTGTGAGAAATATATGAATTATCTTCTT---GGGGAGCTAGCTCCCGAGCAACCCAGCTTTGAACCCACCAAGAATgtaggtaaacagaccctgaaaattagggataccattgttgcactagtggt Alignment from Spaln_nt2Genome GATCCTTTTGTG-GCATTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT taaattctcattgccatcggttctcattccgtggctctctaaaagggcagGATCCTTTTGTGCGCATTCCACTTCAACAAGGGTCTTGTGAGAAA-TATATGAATTATCTTC---TTGGGGAGCTAGCTCCCGAGCAACCCAGCTTTGAACCCACCAAGAATgtaggtaaacagaccctgaaaattagggataccattgttgcactagtggt Alignment from Pairagon GATCCTTTTGTG-GCATTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT taaattctcattgccatcggttctcattccgtggctctctaaaagggcagGATCCTTTTGTGCGCATTCCACTTCAACAAGGGTCTTGTGAGAAA-TATATGAATTATCTTC---TTGGGGAGCTAGCTCCCGAGCAACCCAGCTTTGAACCCACCAAGAATgtaggtaaacagaccctgaaaattagggataccattgttgcactagtggt Alignment from Exonerate_protein2genome GATCCTTTTGTGGCATTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT taaattctcattgccatcggttctcattccgtggctctctaaaagggcagGATCCTTTTGTGCGCATTCCACTTCAACAAGGGTCTTGTGAGAAATATATGAATTATCTTCTT---GGGGAGCTAGCTCCCGAGCAACCCAGCTTTGAACCCACCAAGAATgtaggtaaacagaccctgaaaattagggataccattgttgcactagtggt Alignment from Exonerate_coding2genome GATCCTTTTGTGGCATTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT taaattctcattgccatcggttctcattccgtggctctctaaaagggcagGATCCTTTTGTGCGCATTCCACTTCAACAAGGGTCTTGTGAGAAATATATGAATTATCTTCTT---GGGGAGCTAGCTCCCGAGCAACCCAGCTTTGAACCCACCAAGAATgtaggtaaacagaccctgaaaattagggataccattgttgcactagtggt Alignment from GeneWise GATCCTTTTGTGGCATTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT taaattctcattgccatcggttctcattccgtggctctctaaaagggcagGATCCTTTTGTGCGCATTCCACTTCAACAAGGGTCTTGTGAGAAATATATGAATTATCTTCTT---GGGGAGCTAGCTCCCGAGCAACCCAGCTTTGAACCCACCAAGAATgtaggtaaacagaccctgaaaattagggataccattgttgcactagtggt #### Fads1_ID2689_3 --> 0 - 0 Original Alignment AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCT-GCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gcactttgagattagttaggctgatgttttatttctgtttttcttctcagAAAGTAATATCTGATGAATTTCGAGAACTGCGGGCCACTGTAGAGCGAATAGGTCTCATGAAAGCTAATCATCTCTTCCTTTTGGTATACCTGCTTCGCATTCCCCTGCTTGATGTAGCTCGCCTGGCTAACACTATGGATCTTTGGAACAT-CTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGCACTGTTCAGgtgaggcctacttctcagcctaaaccacaaatactgaagagtggtttgta Alignment from CESAR AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCT-GCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gcactttgagattagttaggctgatgttttatttctgtttttcttctcagAAAGTAATATCTGATGAATTTCGAGAACTGCGGGCCACTGTAGAGCGAATAGGTCTCATGAAAGCTAATCATCTCTTCCTTTTGGTATACCTGCTTCGCATTCCCCTGCTTGATGTAGCTCGCCTGGCTAACACTATGGATCTTTGGAACAT-CTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGCACTGTTCAGgtgaggcctacttctcagcctaaaccacaaatactgaagagtggtttgta Alignment from Spaln_aa2Genome AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCT-GCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gcactttgagattagttaggctgatgttttatttctgtttttcttctcagAAAGTAATATCTGATGAATTTCGAGAACTGCGGGCCACTGTAGAGCGAATAGGTCTCATGAAAGCTAATCATCTCTTCCTTTTGGTATACCTGCTTCGCATTCCCCTGCTTGATGTAGCTcGCCTGGCTAACACTATGGATCTTTGGAACATC-TTGGTGCCC---ATACTTTGTGCAGTATTACTCAGCACTGTTCAGgtgaggcctacttctcagcctaaaccacaaatactgaagagtggtttgta Alignment from Spaln_nt2Genome AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCT-GCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gcactttgagattagttaggctgatgttttatttctgtttttcttctcagAAAGTAATATCTGATGAATTTCGAGAACTGCGGGCCACTGTAGAGCGAATAGGTCTCATGAAAGCTAATCATCTCTTCCTTTTGGTATACCTGCTTCGCATTCCCCTGCTTGATGTAGCTCGCCTGGCTAACACTATGGATCTTTGGAACAT-CTTGGTGCC---CATACTTTGTGCAGTATTACTCAGCACTGTTCAGgtgaggcctacttctcagcctaaaccacaaatactgaagagtggtttgta Alignment from Pairagon AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCT-GCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gcactttgagattagttaggctgatgttttatttctgtttttcttctcagAAAGTAATATCTGATGAATTTCGAGAACTGCGGGCCACTGTAGAGCGAATAGGTCTCATGAAAGCTAATCATCTCTTCCTTTTGGTATACCTGCTTCGCATTCCCCTGCTTGATGTAGCTCGCCTGGCTAACACTATGGATCTTTGGAACAT-CTTGGTGCC---CATACTTTGTGCAGTATTACTCAGCACTGTTCAGgtgaggcctacttctcagcctaaaccacaaatactgaagagtggtttgta Alignment from Exonerate_protein2genome AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gcactttgagattagttaggctgatgttttatttctgtttttcttctcagAAAGTAATATCTGATGAATTTCGAGAACTGCGGGCCACTGTAGAGCGAATAGGTCTCATGAAAGCTAATCATCTCTTCCTTTTGGTATACCTGCTTCGCATTCCCCTGCTTGATGTAGCTCGCCTGGCTAACACTATGGATCTTTGGAACATCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGCACTGTTCAGgtgaggcctacttctcagcctaaaccacaaatactgaagagtggtttgta Alignment from Exonerate_coding2genome AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gcactttgagattagttaggctgatgttttatttctgtttttcttctcagAAAGTAATATCTGATGAATTTCGAGAACTGCGGGCCACTGTAGAGCGAATAGGTCTCATGAAAGCTAATCATCTCTTCCTTTTGGTATACCTGCTTCGCATTCCCCTGCTTGATGTAGCTCGCCTGGCTAACACTATGGATCTTTGGAACATCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGCACTGTTCAGgtgaggcctacttctcagcctaaaccacaaatactgaagagtggtttgta Alignment from GeneWise CGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gcactttgagattagttaggctgatgttttatttctgtttttcttctcagaaagTAATATCTGATGAATTTCGAGAACTGCGGGCCACTGTAGAGCGAATAGGTCTCATGAAAGCTAATCATCTCTTCCTTTTGGTATACCTGCTTCGCATTCCCCTGCTTGATGTAGCTCGCCTGGCTAACACTATGGATCTTTGGAACATCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGCACTGTTCAGgtgaggcctacttctcagcctaaaccacaaatactgaagagtggtttgta #### Fads1_ID2690_4 --> 0 - 0 Original Alignment GCTCAGGCAGGTTGGCTACAGCATGACTTT-GGGCACCTGTCAGTCTTTGGCACC---TCGACATGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttttgactccagcattggtatctaggggggatttgttttgtcctttcaagGGTCAGGCAGGTTGGCTGCAGCATGACTTTCGGGCGTTTGTCACTCTTTGGCACCTCAT-AATGTGGAATTACCTGCTCCACCATTTTGTGATTGGACACCTAAAGgtaagtactgaagttatgtcagtatatcgttaagtctttgtacactgcag Alignment from CESAR GCTCAGGCAGGTTGGCTACAGCATGACTTT-GGGCACCTGTCAGTCTTTGGCACCTCG--ACATGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttttgactccagcattggtatctaggggggatttgttttgtcctttcaagGGTCAGGCAGGTTGGCTGCAGCATGACTTTCGGGCGTTTGTCACTCTTTGGCACCTCATAATGTGGAATTACCTGCTCCACCATTTTGTGATTGGACACCTAAAGgtaagtactgaagttatgtcagtatatcgttaagtctttgtacactgcag Alignment from Spaln_aa2Genome GCTCAGGCAGGTTGGCTACAGCATGACTTT-GGGCACCTGTCAGTCTTTGGCACCTCG--ACATGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttttgactccagcattggtatctaggggggatttgttttgtcctttcaagGGTCAGGCAGGTTGGCTGCAGCATGACTTTcGGGCGTTTGTCACTCTTTGGCACCTCAtaATGTGGAATTACCTGCTCCACCATTTTGTGATTGGACACCTAAAGgtaagtactgaagttatgtcagtatatcgttaagtctttgtacactgcag Alignment from Spaln_nt2Genome GCTCAGGCAGGTTGGCTACAGCATGACTTT-GGGCACCTGTCAGTCTTTGGCACCTCGACATG--GAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttttgactccagcattggtatctaggggggatttgttttgtcctttcaagGGTCAGGCAGGTTGGCTGCAGCATGACTTTCGGGCGTTTGTCACTCTTTGGCACCTCATAATGTGGAATTACCTGCTCCACCATTTTGTGATTGGACACCTAAAGgtaagtactgaagttatgtcagtatatcgttaagtctttgtacactgcag Alignment from Pairagon GCTCAGGCAGGTTGGCTACAGCATGACTTT-GGGCACCTGTCAGTCTTTGGCACCTC--GACATGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttttgactccagcattggtatctaggggggatttgttttgtcctttcaagGGTCAGGCAGGTTGGCTGCAGCATGACTTTCGGGCGTTTGTCACTCTTTGGCACCTCATAATGTGGAATTACCTGCTCCACCATTTTGTGATTGGACACCTAAAGgtaagtactgaagttatgtcagtatatcgttaagtctttgtacactgcag Alignment from Exonerate_protein2genome GCTCAGGCAGGTTGGCTACAGCATGACTTT---GGGCACCTGTCAGTCTTTGGCACCTCGACATGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttttgactccagcattggtatctaggggggatttgttttgtcctttcaagGGTCAGGCAGGTTGGCTGCAGCATGACTTTCGGGCGTTTGTCACTCTTTGGCACCTCATAATGTGGAATTACCTGCTCCACCATTTTGTGATTGGACACCTAAAGgtaagtactgaagttatgtcagtatatcgttaagtctttgtacactgcag Alignment from Exonerate_coding2genome GCTCAGGCAGGTTGGCTACAGCATGACTTT---GGGCACCTGTCAGTCTTTGGCACCTCGACATGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttttgactccagcattggtatctaggggggatttgttttgtcctttcaagGGTCAGGCAGGTTGGCTGCAGCATGACTTTCGGGCGTTTGTCACTCTTTGGCACCTCATAATGTGGAATTACCTGCTCCACCATTTTGTGATTGGACACCTAAAGgtaagtactgaagttatgtcagtatatcgttaagtctttgtacactgcag Alignment from GeneWise GCTCAGGCAGGTTGGCTACAGCATGACTTT---GGGCACCTGTCAGTCTTTGGCACCTCGACATGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttttgactccagcattggtatctaggggggatttgttttgtcctttcaagGGTCAGGCAGGTTGGCTGCAGCATGACTTTCGGGCGTTTGTCACTCTTTGGCACCTCATAATGTGGAATTACCTGCTCCACCATTTTGTGATTGGACACCTAAAGgtaagtactgaagttatgtcagtatatcgttaagtctttgtacactgcag #### Fads1_ID2694_8 --> 0 - 2 Original Alignment GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTC-TTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGC---CTTTTCTTCATTGTCag caatcctttgaaaaaacaaaaaccctgcaaatcctagcctttgtccccagGATTTGGCCTGGATGGTTAGTTTCTACGCTCACATCTTTCTTAGCCTATATATCACTCTCAGGGTTGAAGG-CTTCTTGGGGCTCATCTTCTTCATTGTTaggtattgacaagcagtgagtttaaaatagtaagcccaaacaccaccagaac Alignment from CESAR GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACT---TACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTT---TTCTTCATTGTCag caatcctttgaaaaaacaaaaaccctgcaaatcctagcctttgtccccagGATTTGGCCTGGATGGTTAGTTTCTACGCTCACATCTTTCTTAGCCTATATATCACT---CTCAGGGTTGAAGGCTTCTTGGGGCTCATCTTCTTCATTGTTaggtattgacaagcagtgagtttaaaatagtaagcccaaacaccaccagaac Alignment from Spaln_aa2Genome GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTT---TTCTTCATTGTCAG caatcctttgaaaaaacaaaaaccctgcaaatcctagcctttgtccccagGATTTGGCCTGGATGGTTAGTTTCTACGCTCACATCTTTCTTAGCCTATATATCACTCTCAGGGTTGAAGGCTTCTTGGGGCTCATCTTCTTCATTGTTAGgtattgacaagcagtgagtttaaaatagtaagcccaaacaccaccagaac Alignment from Spaln_nt2Genome GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTT-CTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTT---TTCTTCATTGTCAG caatcctttgaaaaaacaaaaaccctgcaaatcctagcctttgtccccagGATTTGGCCTGGATGGTTAGTTTCTACGCTCACATCTTTCTTAGCCTATATATCACT-CTCAGGGTTGAAGGCTTCTTGGGGCTCATCTTCTTCATTGTTAGgtattgacaagcagtgagtttaaaatagtaagcccaaacaccaccagaac Alignment from Pairagon GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGA------------------------AAGGCTTCCTGGGCC---TTTTCTTCATTGTCAG caatcctttgaaaaaacaaaaaccctgcaaatcctagcctttgtccccagGATTTGGCCTGGATGGTTAGTTTCTACGCTCACATCTTT------------------------CTTAGCCTATATATCACTCTCAGGGTTGAAGGCTTCTTGGGGCTCATCTTCTTCATTGTTAGgtattgacaagcagtgagtttaaaatagtaagcccaaacaccaccagaac Alignment from Exonerate_protein2genome GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTT---TTCTTCATTGTCAG caatcctttgaaaaaacaaaaaccctgcaaatcctagcctttgtccccagGATTTGGCCTGGATGGTTAGTTTCTACGCTCACATCTTTCTTAGCCTATATATCACTCTCAGGGTTGAAGGCTTCTTGGGGCTCATCTTCTTCATTGTTAGgtattgacaagcagtgagtttaaaatagtaagcccaaacaccaccagaac Alignment from Exonerate_coding2genome GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTT---TTCTTCATTGTCAG caatcctttgaaaaaacaaaaaccctgcaaatcctagcctttgtccccagGATTTGGCCTGGATGGTTAGTTTCTACGCTCACATCTTTCTTAGCCTATATATCACTCTCAGGGTTGAAGGCTTCTTGGGGCTCATCTTCTTCATTGTTAGgtattgacaagcagtgagtttaaaatagtaagcccaaacaccaccagaac Alignment from GeneWise GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTT---TTCTTCATTGTCAG caatcctttgaaaaaacaaaaaccctgcaaatcctagcctttgtccccagGATTTGGCCTGGATGGTTAGTTTCTACGCTCACATCTTTCTTAGCCTATATATCACTCTCAGGGTTGAAGGCTTCTTGGGGCTCATCTTCTTCATTGTTAGgtattgacaagcagtgagtttaaaatagtaagcccaaacaccaccagaac #### Fads1_ID2695_9 --> 1 - 0 Original Alignment gTTCCTGGAAAGCAAC-TGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG accaccagaaccttgttactagctctgcgaccttcacccacgcccctcaggTTTCTGGAAAGCAACCTGGTTTGTGTGGGTGACACAGATGAACCATATCTCCATGCACA-TGATCCAGATAGGAATGTGGATTGGGTCTCAACACAGgtgaggtgtagtctacccagctgtgaagcttcggagttcagatcatgaat Alignment from CESAR gTTCCTGGAAAGCAAC-TGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG accaccagaaccttgttactagctctgcgaccttcacccacgcccctcaggTTTCTGGAAAGCAACCTGGTTTGTGTGGGTGACACAGATGAACCATATCTCCATGCACA-TGATCCAGATAGGAATGTGGATTGGGTCTCAACACAGgtgaggtgtagtctacccagctgtgaagcttcggagttcagatcatgaat Alignment from Spaln_aa2Genome GTTCCTGGAAAGCAAC-TGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG accaccagaaccttgttactagctctgcgaccttcacccacgcccctcagGTTTCTGGAAAGCAACcTGGTTTGTGTGGGTGACACAGATGAACCATATCTCCATGCACAT-GATCCAGATAGGAATGTGGATTGGGTCTCAACACAGgtgaggtgtagtctacccagctgtgaagcttcggagttcagatcatgaat Alignment from Spaln_nt2Genome GTTCCTGGAAAGCAA-CTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG accaccagaaccttgttactagctctgcgaccttcacccacgcccctcagGTTTCTGGAAAGCAACCTGGTTTGTGTGGGTGACACAGATGAACCATATCTCCATGCACA-TGATCCAGATAGGAATGTGGATTGGGTCTCAACACAGgtgaggtgtagtctacccagctgtgaagcttcggagttcagatcatgaat Alignment from Pairagon GTTCCTGGAAAGCAA-CTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG accaccagaaccttgttactagctctgcgaccttcacccacgcccctcagGTTTCTGGAAAGCAACCTGGTTTGTGTGGGTGACACAGATGAACCATATCTCCATGCACA-TGATCCAGATAGGAATGTGGATTGGGTCTCAACACAGgtgaggtgtagtctacccagctgtgaagcttcggagttcagatcatgaat Alignment from Exonerate_protein2genome GTTCCTGGAAAGCAAC-TGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATG--CACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG accaccagaaccttgttactagctctgcgaccttcacccacgcccctcagGTTTCTGGAAAGCAACCTGGTTTGTGTGGGTGACACAGATGAACCATATCTCCATGCACAT---GATCCAGATAGGAATGTGGATTGGGTCTCAACACAGgtgaggtgtagtctacccagctgtgaagcttcggagttcagatcatgaat Alignment from Exonerate_coding2genome GTTCCTGGAAAGCAAC-TGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATG--CACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG accaccagaaccttgttactagctctgcgaccttcacccacgcccctcagGTTTCTGGAAAGCAACCTGGTTTGTGTGGGTGACACAGATGAACCATATCTCCATGCACAT---GATCCAGATAGGAATGTGGATTGGGTCTCAACACAGgtgaggtgtagtctacccagctgtgaagcttcggagttcagatcatgaat Alignment from GeneWise ---------------------------AGGTTCCTGGAAAGCAACTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG accaccagaaccttgttactagCTCTGCGACCTTCACCCACGCCCCTCAGGTTTCTGGAAAGCAACCTGGTTTGTGTGGGTGACACAGATGAACCATATCTCCATGCACAT-GATCCAGATAGGAATGTGGATTGGGTCTCAACACAGgtgaggtgtagtctacccagctgtgaagcttcggagttcagatcatgaat #### Fads1_ID2697_11 --> 1 - 2 Original Alignment cCTCTTCCCCACCATGCCGCGGCACAACTACCAC-AAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTta tatgtagcagtctgtaatctcccacacataacgtgattttccttccccagtGTCTTCCCCTCCGTAACTCACCATAATTACCATCAAGGTGACTCCAGTAGTACAAGCTCTATGTGCCAAAT-TGGCATAAAGTATGAGTCTAAACCACTGCTTGCAGCGTTTGCAGACATTGTCtagtacagatgaacaagtacctgacagtagccaagtgagtgtgtgacaagag Alignment from CESAR cCTCTTCCCCACCATGCCGCGGCACAACTACCAC-AAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTta tatgtagcagtctgtaatctcccacacataacgtgattttccttccccagtGTCTTCCCCTCCGTAACTCACCATAATTACCATCAAGGTGACTCCAGTAGTACAAGCTCTATGTGCCAAA-TTGGCATAAAGTATGAGTCTAAACCACTGCTTGCAGCGTTTGCAGACATTGTCtagtacagatgaacaagtacctgacagtagccaagtgagtgtgtgacaagag Alignment from Spaln_aa2Genome CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTTA tatgtagcagtctgtaatctcccacacataacgtgattttccttccccagTGTCTTCCCCTCCGTAACTCACCATAATTACCATCAAGGTGACTCCAGTAGTACAAGCTCTATGTGCCAAATTGGCATAAAGTATGAGTCTAAACCACTGCTTGCAGCGTTTGCAGACATTGTCTAgtacagatgaacaagtacctgacagtagccaagtgagtgtgtgacaagag Alignment from Spaln_nt2Genome CCTCTTCCCCACCATGCCGCGGCACAACTACCA-CAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTTA tatgtagcagtctgtaatctcccacacataacgtgattttccttccccagTGTCTTCCCCTCCGTAACTCACCATAATTACCATCAAGGTGACTCCAGTAGTACAAGCTCTATGTGCCAAAT-TGGCATAAAGTATGAGTCTAAACCACTGCTTGCAGCGTTTGCAGACATTGTCTAgtacagatgaacaagtacctgacagtagccaagtgagtgtgtgacaagag Alignment from Pairagon CCTCTTCCCCACCATGCCGCGGCACAACTACCA-CAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTTA tatgtagcagtctgtaatctcccacacataacgtgattttccttccccagTGTCTTCCCCTCCGTAACTCACCATAATTACCATCAAGGTGACTCCAGTAGTACAAGCTCTATGTGCCAAAT-TGGCATAAAGTATGAGTCTAAACCACTGCTTGCAGCGTTTGCAGACATTGTCTAgtacagatgaacaagtacctgacagtagccaagtgagtgtgtgacaagag Alignment from Exonerate_protein2genome CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTTA tatgtagcagtctgtaatctcccacacataacgtgattttccttccccagTGTCTTCCCCTCCGTAACTCACCATAATTACCATCAAGGTGACTCCAGTAGTACAAGCTCTATGTGCCAAATTGGCATAAAGTATGAGTCTAAACCACTGCTTGCAGCGTTTGCAGACATTGTCTAgtacagatgaacaagtacctgacagtagccaagtgagtgtgtgacaagag Alignment from Exonerate_coding2genome tatgtagcagtctgtaatctcccacacataacgtgattttccttccccagtgtcttcccctccgtaactcaccataattaccatcaaggtgactccagtagtacaagctctatgtgccaaattggcataaagtatgagtctaaaccactgcttgcagcgtttgcagacattgtctagtacagatgaacaagtacctgacagtagccaagtgagtgtgtgacaagag Alignment from GeneWise tatgtagcagtctgtaatctcccacacataacgtgattttccttccccagtgtcttcccctccgtaactcaccataattaccatcaaggtgactccagtagtacaagctctatgtgccaaattggcataaagtatgagtctaaaccactgcttgcagcgtttgcagacattgtctagtacagatgaacaagtacctgacagtagccaagtgagtgtgtgacaagag #### Fads3_ID2665_8 --> 0 - 2 Original Alignment GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTC-TTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCag ttgaacaggcaaagtgattccagtttagtagtttaattatcttcccacagGACTTACTGTGGGCTGCCAGCTTCTACACCCACTTTTTTCTTGTCCTACTCACCCTTCTATGGAGTCACTG-GACACTAATCCTCTTTGTCGTTGTGcggtgagttgctacttgctgagcaccaaatctatttaactcccttggcctta Alignment from CESAR GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGC-TTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCag ttgaacaggcaaagtgattccagtttagtagtttaattatcttcccacagGACTTACTGTGGGCTGCCAGCTTCTACACCCACTTTTTTCTTGTCCTACTCACCCTTCTATGGAGTCACTG-GACACTAATCCTCTTTGTCGTTGTGcggtgagttgctacttgctgagcaccaaatctatttaactcccttggcctta Alignment from Spaln_aa2Genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTT-TTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG ttgaacaggcaaagtgattccagtttagtagtttaattatcttcccacagGACTTACTGTGGGCTGCCAGCTTCTACACCCACTTTtTTCTTGTCCTACTCACCCTTCTATGGAGTCACTGGACA-CTAATCCTCTTTGTCGTTGTGCGgtgagttgctacttgctgagcaccaaatctatttaactcccttggcctta Alignment from Spaln_nt2Genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGC-TTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG ttgaacaggcaaagtgattccagtttagtagtttaattatcttcccacagGACTTACTGTGGGCTGCCAGCTTCTACACCCACTTTTTTCTTGTCCTACTCACCCTTCTATGGAGTCACT-GGACACTAATCCTCTTTGTCGTTGTGCGgtgagttgctacttgctgagcaccaaatctatttaactcccttggcctta Alignment from Pairagon GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGC-TTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG ttgaacaggcaaagtgattccagtttagtagtttaattatcttcccacagGACTTACTGTGGGCTGCCAGCTTCTACACCCACTTTTTTCTTGTCCTACTCACCCTTCTATGGAGTCACT-GGACACTAATCCTCTTTGTCGTTGTGCGgtgagttgctacttgctgagcaccaaatctatttaactcccttggcctta Alignment from Exonerate_protein2genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG ttgaacaggcaaagtgattccagtttagtagtttaattatcttcccacagGACTTACTGTGGGCTGCCAGCTTCTACACCCACTTTTTTCTTGTCCTACTCACCCTTCTATGGAGTCACTGGACACTAATCCTCTTTGTCGTTGTGCGgtgagttgctacttgctgagcaccaaatctatttaactcccttggcctta Alignment from Exonerate_coding2genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG ttgaacaggcaaagtgattccagtttagtagtttaattatcttcccacagGACTTACTGTGGGCTGCCAGCTTCTACACCCACTTTTTTCTTGTCCTACTCACCCTTCTATGGAGTCACTGGACACTAATCCTCTTTGTCGTTGTGCGgtgagttgctacttgctgagcaccaaatctatttaactcccttggcctta Alignment from GeneWise GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG ttgaacaggcaaagtgattccagtttagtagtttaattatcttcccacagGACTTACTGTGGGCTGCCAGCTTCTACACCCACTTTTTTCTTGTCCTACTCACCCTTCTATGGAGTCACTGGACACTAATCCTCTTTGTCGTTGTGCGgtgagttgctacttgctgagcaccaaatctatttaactcccttggcctta #### Fam160b1_ID12353_4 --> 0 - 0 Original Alignment TGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTGGGA-CGAATCCGGCAGCCC------CTGCTTCCACACATCAACGTACACAGGCCTGTGCAG AAATTA ataaatgtaggttcaccttgtctgtaatggatttttatttttacaattagTGCCCTCCAGGAATGAAACAGCAGGTGTTACTACTTTACACCAAACTACTTGAACCAAATCCAGCAGCCCCAACCACTACTCCCACATGTCA-TGTGCACAGGCCAGTGCAGgtaaggaagtatagttgaatattgcccctggtgtttcctaacagCAGTTG Alignment from CESAR TGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTGGGA-CGAATCCGGCAGCCC------CTGCTTCCACACATCAACGTACACAGGCCTGTGCAG AAATTA ataaatgtaggttcaccttgtctgtaatggatttttatttttacaattagTGCCCTCCAGGAATGAAACAGCAGGTGTTACTACTTTACACCAAACTACTTGAACCAAATCCAGCAGCCCCAACCACTACTCCCACATGTC-ATGTGCACAGGCCAGTGCAGgtaaggaagtatagttgaatataatgttctactttttgtcccagCAGTTG Alignment from Spaln_aa2Genome TGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTGGGA------CGAATCCGGCAGCCCCTGCTTCCACACATCAACGTACACAGGCCTGTGCAG AAATTA ataaatgtaggttcaccttgtctgtaatggatttttatttttacaattagTGCCCTCCAGGAATGAAACAGCAGGTGTTACTACTTTACACCAAACTACTTGAACCAAATCCAGCAGCCCCAACCACTACTCCCACATGTCATGTGCACAGGCCAGTGCAGgtaaggaagtatagttgaatattgcccctggtgtttcctaacagCAGTTG Alignment from Spaln_nt2Genome TGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTGGGACGAA-TCCGGCAGCCCC------TGCTTCCACACATCAACGTACACAGGCCTGTGCAG AAATTA ataaatgtaggttcaccttgtctgtaatggatttttatttttacaattagTGCCCTCCAGGAATGAAACAGCAGGTGTTACTACTTTACACCAAACTACTTGAACCAAATCCAGCAGCCCCAACCACTACTCCCACATGTC-ATGTGCACAGGCCAGTGCAGgtaaggaagtatagttgaatattgcccctggtgtttcctaacagCAGTTG Alignment from Pairagon TGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTGGGA-CGAATCCGGCAGCCC------CTGCTTCCACACATCAACGTACACAGGCCTGTGCAG AAATTA ataaatgtaggttcaccttgtctgtaatggatttttatttttacaattagTGCCCTCCAGGAATGAAACAGCAGGTGTTACTACTTTACACCAAACTACTTGAACCAAATCCAGCAGCCCCAACCACTACTCCCACATGTC-ATGTGCACAGGCCAGTGCAGgtaaggaagtatagttgaatattgcccctggtgtttcctaacagCAGTTG Alignment from Exonerate_protein2genome TGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTG------GGACGAATCCGGCAGCCCCTGCTTCCACACATCAACGTACACAGGCCTGTGCAG AAATTA ataaatgtaggttcaccttgtctgtaatggatttttatttttacaattagTGCCCTCCAGGAATGAAACAGCAGGTGTTACTACTTTACACCAAACTACTTGAACCAAATCCAGCAGCCCCAACCACTACTCCCACATGTCATGTGCACAGGCCAGTGCAGgtaaggaagtatagttgaatattgcccctggtgtttcctaacagCAGTTG Alignment from Exonerate_coding2genome TGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTG------GGACGAATCCGGCAGCCCCTGCTTCCACACATCAACGTACACAGGCCTGTGCAG AAATTA ataaatgtaggttcaccttgtctgtaatggatttttatttttacaattagTGCCCTCCAGGAATGAAACAGCAGGTGTTACTACTTTACACCAAACTACTTGAACCAAATCCAGCAGCCCCAACCACTACTCCCACATGTCATGTGCACAGGCCAGTGCAGgtaaggaagtatagttgaatattgcccctggtgtttcctaacagCAGTTG Alignment from GeneWise TGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTG------GGACGAATCCGGCAGCCCCTGCTTCCACACATCAACGTACACAGGCCTGTGCAG AAATTA ataaatgtaggttcaccttgtctgtaatggatttttatttttacaattagTGCCCTCCAGGAATGAAACAGCAGGTGTTACTACTTTACACCAAACTACTTGAACCAAATCCAGCAGCCCCAACCACTACTCCCACATGTCATGTGCACAGGCCAGTGCAGgtaaggaagtatagttgaatattgcccctggtgtttcctaacagCAGTTG #### Fam160b1_ID12356_7 --> 0 - 2 Original Alignment GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTG-TACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGgg agaagaagaaatgctgctatagtcattttccgttttgttttgtttttcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGGCTCACTTCCTTGCTACAAGTCATTACCACAGTCAGTAGACCCTTTAGACA-TGAAACAGTGGAGGCAGTAAACTGGgggtaagtatccatttgatagactgcttggacagtgactgcttagactgtga Alignment from CESAR GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTG-TACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGgg agaagaagaaatgctgctatagtcattttccgttttgttttgtttttcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGGCTCACTTCCTTGCTACAAGTCATTACCACAGTCAGTAGACCCTTTAGACA-TGAAACAGTGGAGGCAGTAAACTGGgggtaagtatccatttgatagactgcttggacagtgactgcttagactgtga Alignment from Spaln_aa2Genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG agaagaagaaatgctgctatagtcattttccgttttgttttgtttttcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGGCTCACTTCCTTGCTACAAGTCATTACCACAGTCAGTAGACCCTTTAGACATGAAACAGTGGAGGCAGTAAACTGGGGgtaagtatccatttgatagactgcttggacagtgactgcttagactgtga Alignment from Spaln_nt2Genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTG-TACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG agaagaagaaatgctgctatagtcattttccgttttgttttgtttttcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGGCTCACTTCCTTGCTACAAGTCATTACCACAGTCAGTAGACCCTTTAGACA-TGAAACAGTGGAGGCAGTAAACTGGGGgtaagtatccatttgatagactgcttggacagtgactgcttagactgtga Alignment from Pairagon GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTG-TACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG agaagaagaaatgctgctatagtcattttccgttttgttttgtttttcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGGCTCACTTCCTTGCTACAAGTCATTACCACAGTCAGTAGACCCTTTAGACA-TGAAACAGTGGAGGCAGTAAACTGGGGgtaagtatccatttgatagactgcttggacagtgactgcttagactgtga Alignment from Exonerate_protein2genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG agaagaagaaatgctgctatagtcattttccgttttgttttgtttttcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGGCTCACTTCCTTGCTACAAGTCATTACCACAGTCAGTAGACCCTTTAGACATGAAACAGTGGAGGCAGTAAACTGGGGgtaagtatccatttgatagactgcttggacagtgactgcttagactgtga Alignment from Exonerate_coding2genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG agaagaagaaatgctgctatagtcattttccgttttgttttgtttttcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGGCTCACTTCCTTGCTACAAGTCATTACCACAGTCAGTAGACCCTTTAGACATGAAACAGTGGAGGCAGTAAACTGGGGgtaagtatccatttgatagactgcttggacagtgactgcttagactgtga Alignment from GeneWise GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG agaagaagaaatgctgctatagtcattttccgttttgttttgtttttcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGGCTCACTTCCTTGCTACAAGTCATTACCACAGTCAGTAGACCCTTTAGACATGAAACAGTGGAGGCAGTAAACTGGGGgtaagtatccatttgatagactgcttggacagtgactgcttagactgtga #### Fam160b1_ID12357_8 --> 1 - 0 Original Alignment gTTGGACTCATACAGCCATAAA-GAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG attttttccgttgcatctggttataattttctgtctcccccccacctcaggTTGGACTCTTACAGCCACAAACGAAGATACATCAGCGTTCCCAGGGAAGCGGGCCT-GATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtgagtagcatgatcttatcttcatagtgcttatgcacatcaaactgttc Alignment from CESAR gTTGGACTCATACAGCCATAAA-GAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG attttttccgttgcatctggttataattttctgtctcccccccacctcaggTTGGACTCTTACAGCCACAAACGAAGATACATCAGCGTTCCCAGGGAAGCGGG-CCTGATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtgagtagcatgatcttatcttcatagtgcttatgcacatcaaactgttc Alignment from Spaln_aa2Genome GTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG attttttccgttgcatctggttataattttctgtctcccccccacctcagGTTGGACTCTTACAGCCACAAACGAAGATACATCAGCGTTCCCAGGGAAGCGGGCCTGATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtgagtagcatgatcttatcttcatagtgcttatgcacatcaaactgttc Alignment from Spaln_nt2Genome GTTGGACTCATACAGCCATAAA-GAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG attttttccgttgcatctggttataattttctgtctcccccccacctcagGTTGGACTCTTACAGCCACAAACGAAGATACATCAGCGTTCCCAGGGAAGCGGGCC-TGATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtgagtagcatgatcttatcttcatagtgcttatgcacatcaaactgttc Alignment from Pairagon GTTGGACTCATACAGCCATAAA-GAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG attttttccgttgcatctggttataattttctgtctcccccccacctcagGTTGGACTCTTACAGCCACAAACGAAGATACATCAGCGTTCCCAGGGAAGCGGGCC-TGATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtgagtagcatgatcttatcttcatagtgcttatgcacatcaaactgttc Alignment from Exonerate_protein2genome GTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG attttttccgttgcatctggttataattttctgtctcccccccacctcagGTTGGACTCTTACAGCCACAAACGAAGATACATCAGCGTTCCCAGGGAAGCGGGCCTGATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtgagtagcatgatcttatcttcatagtgcttatgcacatcaaactgttc Alignment from Exonerate_coding2genome GTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG attttttccgttgcatctggttataattttctgtctcccccccacctcagGTTGGACTCTTACAGCCACAAACGAAGATACATCAGCGTTCCCAGGGAAGCGGGCCTGATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtgagtagcatgatcttatcttcatagtgcttatgcacatcaaactgttc Alignment from GeneWise GTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG attttttccgttgcatctggttataattttctgtctcccccccacctcagGTTGGACTCTTACAGCCACAAACGAAGATACATCAGCGTTCCCAGGGAAGCGGGCCTGATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtgagtagcatgatcttatcttcatagtgcttatgcacatcaaactgttc #### Fam160b1_ID12358_9 --> 0 - 2 Original Alignment ACTGCTGCTGTT-GCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGac gtcatagtatggatgtcatatgtcttctactaaccctgctgctattgcagACAGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTG-TGTTACAGAACCCCAACTAATGCAAacgtactggtttactaactttgtagaagacgaaacgttgctgaatctttttc Alignment from CESAR ACTGCTGCTGTT-GCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGac gtcatagtatggatgtcatatgtcttctactaaccctgctgctattgcagACAGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTT-GTGTTACAGAACCCCAACTAATGCAAacgtactggtttactaactttgtagaagacgaaacgttgctgaatctttttc Alignment from Spaln_aa2Genome ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gtcatagtatggatgtcatatgtcttctactaaccctgctgctattgcagacagCTG---CTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGT-GTTACAGAACCCCAACTAATGCAAACgtactggtttactaactttgtagaagacgaaacgttgctgaatctttttc Alignment from Spaln_nt2Genome ACTGCTGCTGTT-GCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gtcatagtatggatgtcatatgtcttctactaaccctgctgctattgcagACAGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTT-GTGTTACAGAACCCCAACTAATGCAAACgtactggtttactaactttgtagaagacgaaacgttgctgaatctttttc Alignment from Pairagon ACTGCTGCTGT-TGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gtcatagtatggatgtcatatgtcttctactaaccctgctgctattgcagACAGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTT-GTGTTACAGAACCCCAACTAATGCAAACgtactggtttactaactttgtagaagacgaaacgttgctgaatctttttc Alignment from Exonerate_protein2genome ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gtcatagtatggatgtcatatgtcttctactaaccctgctgctattgcagACAGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGTGTTACAGAACCCCAACTAATGCAAACgtactggtttactaactttgtagaagacgaaacgttgctgaatctttttc Alignment from Exonerate_coding2genome ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gtcatagtatggatgtcatatgtcttctactaaccctgctgctattgcagACAGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGTGTTACAGAACCCCAACTAATGCAAACgtactggtttactaactttgtagaagacgaaacgttgctgaatctttttc Alignment from GeneWise ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gtcatagtatggatgtcatatgtcttctactaaccctgctgctattgcagACAGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGTGTTACAGAACCCCAACTAATGCAAACgtactggtttactaactttgtagaagacgaaacgttgctgaatctttttc #### Fam160b1_ID12363_14 --> 0 - 0 Original Alignment TTCCGAGACTACTGTGCTATCTGCTCACGATGGGAGTGGCCAGGAGCCCCCAAACCACTGGAGAAGTGTGACCTAGAAGCAGCCTTCTTTGAA-GGACATTTTTTGAAAGTTTTATTTGACAGAATGGGAAGAATTCTCGATCAG tgaagtacttttcatacttactgtttggttgcttgttgtgtttcttccagTACCGAGATTTCTGTGCAATCTGCTCACGATGGGAATGGCCAGGAGCCCCTAAACCACTG------TGTGACCTAGAGGCAGCTTTCTTTGAACGGACATTTTTTAAAAGTTTTGTACAGGCGGATGGGAA-AAATCTTGATCAAgtaagtacttgaaagctcaacctccattgtcttcctgaaggtacaaaaaa Alignment from CESAR TTCCGAGACTACTGTGCTATCTGCTCACGATGGGAGTGGCCAGGAGCCCCCAAACCACTGGAGAAGTGTGACCTAGAAGCAGCCTTCTTTGAA-GGACATTTTTTGAAAGTTTTATTTGACAGAATGGGAAGAATTCTCGATCAG tgaagtacttttcatacttactgtttggttgcttgttgtgtttcttccagTACCGAGATTTCTGTGCAATCTGCTCACGATGGGAATGGCCAGGAGCCCCTAAACCACTG------TGTGACCTAGAGGCAGCTTTCTTTGAACGGACATTTTTTAAAAGTTTTGTACAGGCGGATGGGAAAAA-TCTTGATCAAgtaagtacttgaaagctcaacctccattgtcttcctgaaggtacaaaaaa Alignment from Spaln_aa2Genome TTCCGAGACTACTGTGCTATCTGCTCACGATGGGAGTGGCCAGGAGCCCCCAAACCACTGGAGAAGTGTGACCTAGAAGCAGCCTTCTTTGAA-GGACATTTTTTGAAAGTTTTATTTGACAGAATGGGAAGAATTCTCGATCAG tgaagtacttttcatacttactgtttggttgcttgttgtgtttcttccagTACCGAGATTTCTGTGCAATCTGCTCACGATGGGAATGGCCAGGAGCCCCTAAACCACTG------TGTGACCTAGAGGCAGCTTTCTTTGAAcGGACATTTTTTAAAAGTTTTGTACAGGCGGATGGGAAAAAT-CTTGATCAAgtaagtacttgaaagctcaacctccattgtcttcctgaaggtacaaaaaa Alignment from Spaln_nt2Genome TTCCGAGACTACTGTGCTATCTGCTCACGATGGGAGTGGCCAGGAGCCCCCAAACCACTGGAGAAGTGTGACCTAGAAGCAGCCTTCTTTGAAG-GACATTTTTTGAAAGTTTTATTTGACAGAATGGGAAGAATTCTCGATCAG tgaagtacttttcatacttactgtttggttgcttgttgtgtttcttccagTACCGAGATTTCTGTGCAATCTGCTCACGATGGGAATGGCCAGGAGCCCCTAAACCACTG------TGTGACCTAGAGGCAGCTTTCTTTGAACGGACATTTTTTAAAAGTTTTGTACAGGCGGATGGGAA-AAATCTTGATCAAgtaagtacttgaaagctcaacctccattgtcttcctgaaggtacaaaaaa Alignment from Pairagon TTCCGAGACTACTGTGCTATCTGCTCACGATGGGAGTGGCCAGGAGCCCCCAAACCACTGGAGAAGTGTGACCTAGAAGCAGCCTTCTTTGAA-GGACATTTTTTGAAAGTTTTATTTGACA---GAATGGGAAGAATTCTCGATCAG tgaagtacttttcatacttactgtttggttgcttgttgtgtttcttccagTACCGAGATTTCTGTGCAATCTGCTCACGATGGGAATGGCCAGGAGCCCCTAAACCACT------GTGTGACCTAGAGGCAGCTTTCTTTGAACGGACATTTTTTAAAAGTTTTGT---ACAGGCGGATGGGAAAAA-TCTTGATCAAgtaagtacttgaaagctcaacctccattgtcttcctgaaggtacaaaaaa Alignment from Exonerate_protein2genome TTCCGAGACTACTGTGCTATCTGCTCACGATGGGAGTGGCCAGGAGCCCCCAAACCACTGGAGAAGTGTGACCTAGAAGCAGCCTTCTTTGAA-GGACATTTTTTGAAAGTTTTATTTGACAGAATGGGAAGAATTCTCGATCA tgaagtacttttcatacttactgtttggttgcttgttgtgtttcttccagTACCGAGATTTCTGTGCAATCTGCTCACGATGGGAATGGCCAGGAGCCCCTAAACCACTG------TGTGACCTAGAGGCAGCTTTCTTTGAACGGACATTTTTTAAAAGTTTTGTACAGGCGGATGGGAAAAATCTTGATCAAgtaagtacttgaaagctcaacctccattgtcttcctgaaggtacaaaaaa Alignment from Exonerate_coding2genome tgaagtacttttcatacttactgtttggttgcttgttgtgtttcttccagtaccgagatttctgtgcaatctgctcacgatgggaatggccaggagcccctaaaccactgtgtgacctagaggcagctttctttgaacggacattttttaaaagttttgtacaggcggatgggaaaaatcttgatcaagtaagtacttgaaagctcaacctccattgtcttcctgaaggtacaaaaaa Alignment from GeneWise TTCCGAGACTACTGTGCTATCTGCTCACGATGGGAGTGGCCAGGAGCCCCCAAACCACTGGAGAAGTGTGACCTAGAAGCAGCCTTCTTTGAAGGACATTTTTTGAAAGTTTTATTTGACAGAATGGGAAGAATTCTCGATCAG tgaagtacttttcatacttactgtttggttgcttgttgtgtttcttccagTACCGAGATTTCTGTGCAATCTGCTCACGATGGGAATGGCCAGGAGCCCCTAAACCACTG------TGTGACCTAGAGGCAGCTTTCTTTGAACGGACATTTTTTAAAAGTTTTGTACAGGCGGATGGGAAAAATCTTGATCAAgtaagtacttgaaagctcaacctccattgtcttcctgaaggtacaaaaaa #### Fas_ID6926_7 --> 2 - 0 Original Alignment taTTTATATATCGAAAGTACCGGAAA-AGAAAGTGCTGGAAAAGGAGACAGGATGACCCTGAATCTAGAACCTCCAGTCGT atgagatatacagtgacaactactgacactctcgcttctcccacctctagtaTTTATATATAGAAAGTACCGAAAACAGAAAGTGCTGGAAAAGGAGACAAGATG-CCCCGAATCTAGAACCTCGAGTCGTgtaagaatctagtgcaatacagggatgccctttccaatactcccaatcaa Alignment from CESAR taTTTATATATCGAAAGTACCGGAAA-AGAAAGTGCTGGAAAAGGAGACAGGATGACCCTGAATCTAGAACCTCCAGTCGT atgagatatacagtgacaactactgacactctcgcttctcccacctctagtaTTTATATATAGAAAGTACCGAAAACAGAAAGTGCTGGAAAAGGAGACAAGAT-GCCCCGAATCTAGAACCTCGAGTCGTgtaagaatctagtgcaatacagggatgccctttccaatactcccaatcaa Alignment from Spaln_aa2Genome TATTTATATATCGAAAGTACCGGAAAAGAAAGTGCTGGAAAAGGAGACAGGATGACCCTGAATCTAGAACCTCCAGTCGT atgagatatacagtgacaactactgacactctcgcttctcccacctctagTATTTATATATAGAAAGTACCGAAAACAGAAAGTGCTGGAAAAGGAGACAAGATGCCCCGAATCTAGAACCTCGAGTCGTgtaagaatctagtgcaatacagggatgccctttccaatactcccaatcaa Alignment from Spaln_nt2Genome TATTTATATATCGAAAGTACCGGAAA-AGAAAGTGCTGGAAAAGGAGACAGGATGACCCTGAATCTAGAACCTCCAGTCGT atgagatatacagtgacaactactgacactctcgcttctcccacctctagTATTTATATATAGAAAGTACCGAAAACAGAAAGTGCTGGAAAAGGAGACAAGATGCCCC-GAATCTAGAACCTCGAGTCGTgtaagaatctagtgcaatacagggatgccctttccaatactcccaatcaa Alignment from Pairagon TATTTATATATCGAAAGTACCGGAAA-AGAAAGTGCTGGAAAAGGAGACAGGATGACCCTGAATCTAGAACCTCCAGTCGT atgagatatacagtgacaactactgacactctcgcttctcccacctctagTATTTATATATAGAAAGTACCGAAAACAGAAAGTGCTGGAAAAGGAGACAAGATG-CCCCGAATCTAGAACCTCGAGTCGTgtaagaatctagtgcaatacagggatgccctttccaatactcccaatcaa Alignment from Exonerate_protein2genome TATTTATATATCGAAAGTACCGGAAAAGAAAGTGCTGGAAAAGGAGACAGGATGACCCTGAATCTAGAACCTCCAGTCGTGAAACCATACCAATGAATGCCTCAA atgagatatacagtgacaactactgacactctcgcttctcccacctctagTATTTATATATAGAAAGTACCGAAAACAGAAAGTGCTGGAAAAGGAGACAAGATGCCCCGAATCTAGAACCTCGAGTCGTGTAAGAATCTAGTGCAAT---ACAGggatgccctttccaatactcccaat Alignment from Exonerate_coding2genome TATTTATATATCGAAAGTACCGGAAAAGAAAGTGCTGGAAAAGGAGACAGGATGACCCTGAATCTAGAACCTCCAGTCGTGAAACCATACCAATGAATGCCTCAA atgagatatacagtgacaactactgacactctcgcttctcccacctctagTATTTATATATAGAAAGTACCGAAAACAGAAAGTGCTGGAAAAGGAGACAAGATGCCCCGAATCTAGAACCTCGAGTCGTGTAAGAATCTAGTGCAAT---ACAGggatgccctttccaatactcccaat Alignment from GeneWise TATTTATATATCGAAAGTACCGGAAAAGAAAGTGCTGGAAAAGGAGACAGGATGACCCTGAATCTAGAACCTCCAGTCGTGAAACCATA-- atgagatatacagtgacaactactgacactctcgcttctcccacctctagTATTTATATATAGAAAGTACCGAAAACAGAAAGTGCTGGAAAAGGAGACAAGATGCCCCGAATCTAGAACCTCGAGTCGTGTAAGAATCTAgtgcaatacagggatgccctttccaatactcccaatcaa #### Fbxl15_ID9850_2 --> 1 - 0 Original Alignment gCTCCTGGACCTG-CCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG atcttattggtacttgttcccttactgatctggactgtgataactttcagaTTCCTAGACCTGCCCTTGGGAAGAATTGCTGCTCCTTCATGTTGTAAACTGGG-CCCACTTCACCAA---CTTCGACTGCAGCAGGTGAGTAGAACTTTTGGGGCACTTGTTCAGTTGCACTTGGCCAGGTTACGCCGCTTTGATGCTGCTCAAgtgagttggtaagcaggggtgctcttgtcgttgtactgttgtgctcttgt Alignment from CESAR gCTCCTGGACCTGCCC-TGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG atcttattggtacttgttcccttactgatctggactgtgataactttcagaTTCCTAGACCTGCCCTTGGGAAGAATTGCTGCTCCTTCATGTTGTAAACTGGG-CCCACTTCACCAA---CTTCGACTGCAGCAGGTGAGTAGAACTTTTGGGGCACTTGTTCAGTTGCACTTGGCCAGGTTACGCCGCTTTGATGCTGCTCAAgtgagttggtaagcaggggtgctcttgtcgttgtactgttgtgctcttgt Alignment from Spaln_aa2Genome GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG atcttattggtacttgttcccttactgatctggactgtgataactttcagATTCCTAGACCTGCCCTTGGGAAGAATTGCTGCTCCTTCATGTTGTAAACTGGGCCCACTTCACCAA---CTTCGACTGCAGCAGGTGAGTAGAACTTTTGGGGCACTTGTTCAGTTGCACTTGGCCAGGTTACGCCGCTTTGATGCTGCTCAAgtgagttggtaagcaggggtgctcttgtcgttgtactgttgtgctcttgt Alignment from Spaln_nt2Genome GCTCCTGGACCTGCCCT-GGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG atcttattggtacttgttcccttactgatctggactgtgataactttcagATTCCTAGACCTGCCCTTGGGAAGAATTGCTGCTCCTTCATGTTGTAAACTGGG-CCCACTTCACCA---ACTTCGACTGCAGCAGGTGAGTAGAACTTTTGGGGCACTTGTTCAGTTGCACTTGGCCAGGTTACGCCGCTTTGATGCTGCTCAAgtgagttggtaagcaggggtgctcttgtcgttgtactgttgtgctcttgt Alignment from Pairagon GCTCCTGGACCTGCCC-TGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG atcttattggtacttgttcccttactgatctggactgtgataactttcagATTCCTAGACCTGCCCTTGGGAAGAATTGCTGCTCCTTCATGTTGTAAACTGGG-CCCACTTCACCA---ACTTCGACTGCAGCAGGTGAGTAGAACTTTTGGGGCACTTGTTCAGTTGCACTTGGCCAGGTTACGCCGCTTTGATGCTGCTCAAgtgagttggtaagcaggggtgctcttgtcgttgtactgttgtgctcttgt Alignment from Exonerate_protein2genome GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG atcttattggtacttgttcccttactgatctggactgtgataactttcagATTCCTAGACCTGCCCTTGGGAAGAATTGCTGCTCCTTCATGTTGTAAACTGGGCCCACTTCACCAA---CTTCGACTGCAGCAGGTGAGTAGAACTTTTGGGGCACTTGTTCAGTTGCACTTGGCCAGGTTACGCCGCTTTGATGCTGCTCAAgtgagttggtaagcaggggtgctcttgtcgttgtactgttgtgctcttgt Alignment from Exonerate_coding2genome atcttattggtacttgttcccttactgatctggactgtgataactttcagattcctagacctgcccttgggaagaattgctgctccttcatgttgtaaactgggcccacttcaccaacttcgactgcagcaggtgagtagaacttttggggcacttgttcagttgcacttggccaggttacgccgctttgatgctgctcaagtgagttggtaagcaggggtgctcttgtcgttgtactgttgtgctcttgt Alignment from GeneWise GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAGGTG- atcttattggtacttgttcccttactgatctggactgtgataactttcagATTCCTAGACCTGCCCTTGGGAAGAATTGCTGCTCCTTCATGTTGTAAACTGGGCCCACTTCACCAACTT---CGACTGCAGCAGGTGAGTAGAACTTTTGGGGCACTTGTTCAGTTGCACTTGGCCAGGTTACGCCGCTTTGATGCTGCTCAAGTGAgttggtaagcaggggtgctcttgtcgttgtactgttgtgctcttgt #### Fibp_ID1010_7 --> 1 - 0 Original Alignment cCTGGTGTGCACT-GCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG cagaacttactatactcagtctacagaaacttcctcctctctcctttcagcCTAGTCTGCACTCGCCCTTCGTGGAAAACTTGGTGTCTTTTCTG-GATGGAATCCAACTTCAAGgtgagtttacttggcaatcataatcccttggttagatcactgaacacctg Alignment from CESAR cCTGGTGTGCACT-GCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG cagaacttactatactcagtctacagaaacttcctcctctctcctttcagcCTAGTCTGCACTCGCCCTTCGTGGAAAACTTGGTGTCTTTTCT-GGATGGAATCCAACTTCAAGgtgagtttacttggcaatcataatcccttggttagatcactgaacacctg Alignment from Spaln_aa2Genome CCTGGTGTGCACT-GCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG cagaacttactatactcagtctacagaaacttcctcctctctcctttcagCCTAGTCTGCACTcGCCCTTCGTGGAAAACTTGGTGTCTTTTCTGG-ATGGAATCCAACTTCAAGgtgagtttacttggcaatcataatcccttggttagatcactgaacacctg Alignment from Spaln_nt2Genome CCTGGTGTGCACT-GCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG cagaacttactatactcagtctacagaaacttcctcctctctcctttcagCCTAGTCTGCACTCGCCCTTCGTGGAAAACTTGGTGTCTTTTCTG-GATGGAATCCAACTTCAAGgtgagtttacttggcaatcataatcccttggttagatcactgaacacctg Alignment from Pairagon CCTGGTGTGCACT-GCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG cagaacttactatactcagtctacagaaacttcctcctctctcctttcagCCTAGTCTGCACTCGCCCTTCGTGGAAAACTTGGTGTCTTTTCTG-GATGGAATCCAACTTCAAGgtgagtttacttggcaatcataatcccttggttagatcactgaacacctg Alignment from Exonerate_protein2genome CCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG cagaacttactatactcagtctacagaaacttcctcctctctcctttcagCCTAGTCTGCACTCGCCCTTCGTGGAAAACTTGGTGTCTTTTCTGGATGGAATCCAACTTCAAGgtgagtttacttggcaatcataatcccttggttagatcactgaacacctg Alignment from Exonerate_coding2genome cagaacttactatactcagtctacagaaacttcctcctctctcctttcagcctagtctgcactcgcccttcgtggaaaacttggtgtcttttctggatggaatccaacttcaaggtgagtttacttggcaatcataatcccttggttagatcactgaacacctg Alignment from GeneWise CCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG cagaacttactatactcagtctacagaaacttcctcctctctcctttcagCCTAGTCTGCACTCGCCCTTCGTGGAAAACTTGGTGTCTTTTCTGGATGGAATCCAACTTCAAGgtgagtttacttggcaatcataatcccttggttagatcactgaacacctg #### Fkbp2_ID1947_2 --> 0 - 2 Original Alignment GGAAAGCTAGAAGATGGGACGGAGTTTGACAGC-AGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGgg acaatctttcctcatcattgatggtttgatgtgttctttttggtccctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCC-TGGCACTGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAgggtatgcttggcatataatctaagttgcagttgctatagtaaaggtatttt Alignment from CESAR GGAAAGCTAGAAGATGGGACGGAGTTTGACAGC-AGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGgg acaatctttcctcatcattgatggtttgatgtgttctttttggtccctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCC-TGGCACTGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAgggtatgcttggcatataatctaagttgcagttgctatagtaaaggtatttt Alignment from Spaln_aa2Genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG acaatctttcctcatcattgatggtttgatgtgttctttttggtccctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTGGCACTGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAGGgtatgcttggcatataatctaagttgcagttgctatagtaaaggtatttt Alignment from Spaln_nt2Genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAG-CAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG acaatctttcctcatcattgatggtttgatgtgttctttttggtccctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCCAGCCTACCACAGAACCAGCCCTTTATTTTCT-CCCTGGCACTGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAGGgtatgcttggcatataatctaagttgcagttgctatagtaaaggtatttt Alignment from Pairagon GGAAAGCTAGAAGATGGGACGGAGTTTGACAG-CAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG acaatctttcctcatcattgatggtttgatgtgttctttttggtccctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCC-TGGCACTGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAGGgtatgcttggcatataatctaagttgcagttgctatagtaaaggtatttt Alignment from Exonerate_protein2genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG acaatctttcctcatcattgatggtttgatgtgttctttttggtccctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTGGCACTGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAGGgtatgcttggcatataatctaagttgcagttgctatagtaaaggtatttt Alignment from Exonerate_coding2genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGGG acaatctttcctcatcattgatggtttgatgtgttctttttggtccctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTGGCACTGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAGGGtatgcttggcatataatctaagttgcagttgctatagtaaaggtatttt Alignment from GeneWise GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTT---GGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG acaatctttcctcatcattgatggtttgatgtgttctttttggtccctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCCAG---CCTACCACAGAACCAGCCCTTTATTTTCTCCCTGGCACTGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAGGgtatgcttggcatataatctaagttgcagttgctatagtaaaggtatttt #### Fth1_ID2624_3 --> 0 - 0 Original Alignment AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTG-GAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacacggtaactgaggcccttctgcagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGTGCACTACACTTGCGAAAAGAGTGTGAACCAGTCCCTACTGGAGC-GCATGAACTGGCAACTGATAAGAATGACCCCCATgtaagcttcaataggctgcatatagatggcttgctattatgaggagaaaa Alignment from CESAR AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTG-GAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacacggtaactgaggcccttctgcagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGTGCACTACACTTGCGAAAAGAGTGTGAACCAGTCCCTACTGGAG-CGCATGAACTGGCAACTGATAAGAATGACCCCCATgtaagcttcaataggctgcatatagatggcttgctattatgaggagaaaa Alignment from Spaln_aa2Genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacacggtaactgaggcccttctgcagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGTGCACTACACTTGCGAAAAGAGTGTGAACCAGTCCCTACTGGAGCGCATGAACTGGCAACTGATAAGAATGACCCCCATgtaagcttcaataggctgcatatagatggcttgctattatgaggagaaaa Alignment from Spaln_nt2Genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTG-GAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacacggtaactgaggcccttctgcagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGTGCACTACACTTGCGAAAAGAGTGTGAACCAGTCCCTACTGGAGC-GCATGAACTGGCAACTGATAAGAATGACCCCCATgtaagcttcaataggctgcatatagatggcttgctattatgaggagaaaa Alignment from Pairagon AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTG-GAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacacggtaactgaggcccttctgcagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGTGCACTACACTTGCGAAAAGAGTGTGAACCAGTCCCTACTGGAGC-GCATGAACTGGCAACTGATAAGAATGACCCCCATgtaagcttcaataggctgcatatagatggcttgctattatgaggagaaaa Alignment from Exonerate_protein2genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacacggtaactgaggcccttctgcagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGTGCACTACACTTGCGAAAAGAGTGTGAACCAGTCCCTACTGGAGCGCATGAACTGGCAACTGATAAGAATGACCCCCATgtaagcttcaataggctgcatatagatggcttgctattatgaggagaaaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacacggtaactgaggcccttctgcagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGTGCACTACACTTGCGAAAAGAGTGTGAACCAGTCCCTACTGGAGCGCATGAACTGGCAACTGATAAGAATGACCCCCATgtaagcttcaataggctgcatatagatggcttgctattatgaggagaaaa #### Ganab_ID2468_7 --> 1 - 0 Original Alignment gCAAGAATCAAAAGACCCA-GCTGAAGGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtgaacatcctaacttcactataggttaaataaataatttcttcttaggCAAGAATCAAAAGACCCTCGCGGAGGGCAATGGGGCCCAGCCCGAGGCGACACCTG-GGATGGCGACAAGgtgggttgaatgtgagatttttacctctttaggaggcggcaagttggtat Alignment from CESAR gCAAGAATCAAAAGACCCA-GCTGAAGGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtgaacatcctaacttcactataggttaaataaataatttcttcttaggCAAGAATCAAAAGACCCTCGCGGAGGGCAATGGGGCCCAGCCCGAGGCGACACCTG-GGATGGCGACAAGgtgggttgaatgtgagatttttacctctttaggaggcggcaagttggtat Alignment from Spaln_aa2Genome GCAAGAATCAAAAGACCCA-GCTGAAGGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG--- cagtgaacatcctaacttcactataggttaaataaataatttcttcttagGCAAGAATCAAAAGACCCTcGCGGAGGGCAATGGGGCCCAGCCCGAGGCGACACCTGGGATGGCGACAAGGTGGgttgaatgtgagatttttacctctttaggaggcggcaagttggtat Alignment from Spaln_nt2Genome GCAAGAATCAAAAGACCCA-GCTGAAGGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtgaacatcctaacttcactataggttaaataaataatttcttcttagGCAAGAATCAAAAGACCCTCGCGGAGGGCAATGGGGCCCAGCCCGAGGCGACACCT-GGGATGGCGACAAGgtgggttgaatgtgagatttttacctctttaggaggcggcaagttggtat Alignment from Pairagon GCAAGAATCAAAAGACCC-AGCTGAAGGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtgaacatcctaacttcactataggttaaataaataatttcttcttagGCAAGAATCAAAAGACCCTCGCGGAGGGCAATGGGGCCCAGCCCGAGGCGACACCT-GGGATGGCGACAAGgtgggttgaatgtgagatttttacctctttaggaggcggcaagttggtat Alignment from Exonerate_protein2genome GCAAGAATCAAAAGACCCAGCTGAAGGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtgaacatcctaacttcactataggttaaataaataatttcttcttagGCAAGAATCAAAAGACCCTCGCGGAGGGCAATGGGGCCCAGCCCGAGGCGACACCTGGGATGGCGACAAGgtgggttgaatgtgagatttttacctctttaggaggcggcaagttggtat Alignment from Exonerate_coding2genome GCAAGAATCAAAAGACCCAGCTGAAGGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtgaacatcctaacttcactataggttaaataaataatttcttcttagGCAAGAATCAAAAGACCCTCGCGGAGGGCAATGGGGCCCAGCCCGAGGCGACACCTGGGATGGCGACAAGgtgggttgaatgtgagatttttacctctttaggaggcggcaagttggtat Alignment from GeneWise GCAAGAATCAAAAGACCCAGCTGAAGGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtgaacatcctaacttcactataggttaaataaataatttcttcttagGCAAGAATCAAAAGACCCTCGCGGAGGGCAATGGGGCCCAGCCCGAGGCGACACCTGGGATGGCGACAAGgtgggttgaatgtgagatttttacctctttaggaggcggcaagttggtat #### Ganab_ID2469_8 --> 0 - 1 Original Alignment CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAG-CCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATg tttaggaggcggcaagttggtatgaatttgcctttgccctctaactgcagCCAGAGGAGACCCAAGAAAAGGCTGAGAAGGATGAGCCCAGGAGCTTGGGAGGAAACATTCAAAACAC-TTCTGACAGCAAGCCTTATggtatggaattggcaagccttgatgctaattttggaattgtcttctcttag Alignment from CESAR CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAG-CCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATg tttaggaggcggcaagttggtatgaatttgcctttgccctctaactgcagCCAGAGGAGACCCAAGAAAAGGCTGAGAAGGATGAGCCCAGGAGCTTGGGAGGAAACATTCAAAACA-CTTCTGACAGCAAGCCTTATggtatggaattggcaagccttgatgctaattttggaattgtcttctcttag Alignment from Spaln_aa2Genome CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG tttaggaggcggcaagttggtatgaatttgcctttgccctctaactgcagCCAGAGGAGACCCAAGAAAAGGCTGAGAAGGATGAGCCCAGGAGCTTGGGAGGAAACATTCAAAACACTTCTGACAGCAAGCCTTATGgtatggaattggcaagccttgatgctaattttggaattgtcttctcttag Alignment from Spaln_nt2Genome CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGC-CAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG tttaggaggcggcaagttggtatgaatttgcctttgccctctaactgcagCCAGAGGAGACCCAAGAAAAGGCTGAGAAGGATGAGCCCAGGAGCTTGGGAGGAAACATTCAAAACAC-TTCTGACAGCAAGCCTTATGgtatggaattggcaagccttgatgctaattttggaattgtcttctcttag Alignment from Pairagon CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAG-CCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG tttaggaggcggcaagttggtatgaatttgcctttgccctctaactgcagCCAGAGGAGACCCAAGAAAAGGCTGAGAAGGATGAGCCCAGGAGCTTGGGAGGAAACATTCAAAACAC-TTCTGACAGCAAGCCTTATGgtatggaattggcaagccttgatgctaattttggaattgtcttctcttag Alignment from Exonerate_protein2genome CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG tttaggaggcggcaagttggtatgaatttgcctttgccctctaactgcagCCAGAGGAGACCCAAGAAAAGGCTGAGAAGGATGAGCCCAGGAGCTTGGGAGGAAACATTCAAAACACTTCTGACAGCAAGCCTTATGgtatggaattggcaagccttgatgctaattttggaattgtcttctcttag Alignment from Exonerate_coding2genome CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG tttaggaggcggcaagttggtatgaatttgcctttgccctctaactgcagCCAGAGGAGACCCAAGAAAAGGCTGAGAAGGATGAGCCCAGGAGCTTGGGAGGAAACATTCAAAACACTTCTGACAGCAAGCCTTATGgtatggaattggcaagccttgatgctaattttggaattgtcttctcttag Alignment from GeneWise CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG tttaggaggcggcaagttggtatgaatttgcctttgccctctaactgcagCCAGAGGAGACCCAAGAAAAGGCTGAGAAGGATGAGCCCAGGAGCTTGGGAGGAAACATTCAAAACACTTCTGACAGCAAGCCTTATGgtatggaattggcaagccttgatgctaattttggaattgtcttctcttag #### Ganab_ID2473_12 --> 2 - 0 Original Alignment ggACCCAGGCATTGCCCCCACTCTTC-TCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG acaaagcatttatactcttaccagaccaccgtctaccttctgccctgcaggcTCCCAGACATTGCCCCCCCCCTCACTCCCTTGGCTACCATCAAAGTCGCTGGAACTACCGTG-TGAAGCAGATACCTTAGAGGTAGGCCAGGGTTTTGACGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGATCCCACCCAATTCCCCCAGCCACTTAATATGCTTGATCACTTGACTTCAAAGCGACGGAAGgtaactggtgttacagctatccatattttttgtccagggttgggaaatgg Alignment from CESAR ggACCCAGGCATTGCCCCCACTC-TTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG acaaagcatttatactcttaccagaccaccgtctaccttctgccctgcaggcTCCCAGACATTGCCCCCCCCCTCACTCCCTTGGCTACCATCAAAGTCGCTGGAACTACCGT-GTGAAGCAGATACCTTAGAGGTAGGCCAGGGTTTTGACGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGATCCCACCCAATTCCCCCAGCCACTTAATATGCTTGATCACTTGACTTCAAAGCGACGGAAGgtaactggtgttacagctatccatattttttgtccagggttgggaaatgg Alignment from Spaln_aa2Genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG acaaagcatttatactcttaccagaccaccgtctaccttctgccctgcagGCTCCCAGACATTGCCCCCCCCCTCACTCCCTTGGCTACCATCAAAGTCGCTGGAACTACCGTGTGAAGCAGATACCTTAGAGGTAGGCCAGGGTTTTGACGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGATCCCACCCAATTCCCCCAGCCACTTAATATGCTTGATCACTTGACTTCAAAGCGACGGAAGgtaactggtgttacagctatccatattttttgtccagggttgggaaatgg Alignment from Spaln_nt2Genome GGACCCAGGCATTGCCCCCACTCTT-CTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG acaaagcatttatactcttaccagaccaccgtctaccttctgccctgcagGCTCCCAGACATTGCCCCCCCCCTCACTCCCTTGGCTACCATCAAAGTCGCTGGAACTACCGTG-TGAAGCAGATACCTTAGAGGTAGGCCAGGGTTTTGACGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGATCCCACCCAATTCCCCCAGCCACTTAATATGCTTGATCACTTGACTTCAAAGCGACGGAAGgtaactggtgttacagctatccatattttttgtccagggttgggaaatgg Alignment from Pairagon GGACCCAGGCATTGCCCCCACTCTT-CTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG acaaagcatttatactcttaccagaccaccgtctaccttctgccctgcagGCTCCCAGACATTGCCCCCCCCCTCACTCCCTTGGCTACCATCAAAGTCGCTGGAACTACCGTG-TGAAGCAGATACCTTAGAGGTAGGCCAGGGTTTTGACGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGATCCCACCCAATTCCCCCAGCCACTTAATATGCTTGATCACTTGACTTCAAAGCGACGGAAGgtaactggtgttacagctatccatattttttgtccagggttgggaaatgg Alignment from Exonerate_protein2genome GGACCCAGGCATTG-CCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGG--GATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG acaaagcatttatactcttaccagaccaccgtctaccttctgccctgcagGCTCCCAGACATTGCCCCCCCCCTCACTCCCTTGGCTACCATCAAAGTCGCTGGAACTACCGTGT---GAAGCAGATACCTTAGAGGTAGGCCAGGGTTTTGACGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGATCCCACCCAATTCCCCCAGCCACTTAATATGCTTGATCACTTGACTTCAAAGCGACGGAAGgtaactggtgttacagctatccatattttttgtccagggttgggaaatgg Alignment from Exonerate_coding2genome GGACCCAGGCATTG-CCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGG--GATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG acaaagcatttatactcttaccagaccaccgtctaccttctgccctgcagGCTCCCAGACATTGCCCCCCCCCTCACTCCCTTGGCTACCATCAAAGTCGCTGGAACTACCGTGT---GAAGCAGATACCTTAGAGGTAGGCCAGGGTTTTGACGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGATCCCACCCAATTCCCCCAGCCACTTAATATGCTTGATCACTTGACTTCAAAGCGACGGAAGgtaactggtgttacagctatccatattttttgtccagggttgggaaatgg Alignment from GeneWise ----TTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG acaaagcatttatactcttaccagaccaccgtctaccttctgccctgcaggctcccagACATTGCCCCCCCCCTCACTCCCTTGGCTACCATCAAAGTCGCTGGAACTACCGTGT-GAAGCAGATACCTTAGAGGTAGGCCAGGGTTTTGACGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGATCCCACCCAATTCCCCCAGCCACTTAATATGCTTGATCACTTGACTTCAAAGCGACGGAAGgtaactggtgttacagctatccatattttttgtccagggttgggaaatgg #### Ganab_ID2475_14 --> 2 - 0 Original Alignment Ag gcTCAGCTAGTTACCCT-GACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG AggtaatgtccatgaccaatgaagttttttcttaccttgttaatcattaggcTCAGCTAGTTACCCTCGACTACACCAATCCAAGGATGAGGGCCTGGTGGTCTA-CATGTTCAGCTTTGACAATTATGAGgtgggtaattgggccagttggtaatccacataattttgattattagtcat Alignment from CESAR Ag gcTCAGCTAGTTACCCT-GACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG AggtaagttccatgaccaatgaagttttttcttaccttgttaatcattaggcTCAGCTAGTTACCCTCGACTACACCAATCCAAGGATGAGGGCCTGGTGGTCT-ACATGTTCAGCTTTGACAATTATGAGgtgggtaattgggccagttggtaatccacataattttgattattagtcat Alignment from Spaln_aa2Genome AGGCTCA GCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG AGGTAATgtccatgaccaatgaagttttttcttaccttgttaatcattaggctcagCTAGTTACCCTCGACTACACCAATCCAAGGATGAGGGCCTGGTGGTCTAC-ATGTTCAGCTTTGACAATTATGAGgtgggtaattgggccagttggtaatccacataattttgattattagtcat Alignment from Spaln_nt2Genome AG GCTCAGCTAGTTA-CCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG AGgtaatgtccatgaccaatgaagttttttcttaccttgttaatcattagGCTCAGCTAGTTACCCTCGACTACACCAATCCAAGGATGAGGGCCTGGTGGTCT-ACATGTTCAGCTTTGACAATTATGAGgtgggtaattgggccagttggtaatccacataattttgattattagtcat Alignment from Pairagon AG GCTCAGCTAGTTACCCT-GACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG AGgtaatgtccatgaccaatgaagttttttcttaccttgttaatcattagGCTCAGCTAGTTACCCTCGACTACACCAATCCAAGGATGAGGGCCTGGTGGTCT-ACATGTTCAGCTTTGACAATTATGAGgtgggtaattgggccagttggtaatccacataattttgattattagtcat Alignment from Exonerate_protein2genome AG GCTCAGCTAGTTACCCT-GACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCT--AACATGTTCAGCTTTGACAATTATGAG AGgtaatgtccatgaccaatgaagttttttcttaccttgttaatcattagGCTCAGCTAGTTACCCTCGACTACACCAATCCAAGGATGAGGGCCTGGTGGTCTAC---ATGTTCAGCTTTGACAATTATGAGgtgggtaattgggccagttggtaatccacataattttgattattagtcat Alignment from Exonerate_coding2genome AG GCTCAGCTAGTTACCCT-GACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCT--AACATGTTCAGCTTTGACAATTATGAG AGgtaatgtccatgaccaatgaagttttttcttaccttgttaatcattagGCTCAGCTAGTTACCCTCGACTACACCAATCCAAGGATGAGGGCCTGGTGGTCTAC---ATGTTCAGCTTTGACAATTATGAGgtgggtaattgggccagttggtaatccacataattttgattattagtcat Alignment from GeneWise AGGCTCA GCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG AGGTAATgtccatgaccaatgaagttttttcttaccttgttaatcattaggctcagCTAGTTACCCTCGACTACACCAATCCAAGGATGAGGGCCTGGTGGTCTAC-ATGTTCAGCTTTGACAATTATGAGgtgggtaattgggccagttggtaatccacataattttgattattagtcat #### Ganab_ID2478_17 --> 2 - 1 Original Alignment gaGCTGTGTGGACAGGGGACAACACTGCC-GAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAg cagtgtctactattttgtgggtgcagtcaatatgtgtctaattttctcaggaGCTGTGTGGGCAGGGGACAACACTGCTCGAATGGGATCATTTGAAGATCTCTATCCATATGTGCCTCA-CTTGGCATTGGTGGGGCTTTCATTCTGTGGAggtgagtgcagttatcatctgggctcttgcattgggtgggtgtgttggtac Alignment from CESAR gaGCTGTGTGGACAGGGGACAACACTGCC-GAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAg cagtgtctactattttgtgggtgcagtcaatatgtgtctaattttctcaggaGCTGTGTGGGCAGGGGACAACACTGCTCGAATGGGATCATTTGAAGATCTCTATCCATATGTGCCTCA-CTTGGCATTGGTGGGGCTTTCATTCTGTGGAggtgagtgcagttatcatctgggctcttgcattgggtgggtgtgttggtac Alignment from Spaln_aa2Genome GAGCTGTGTGGACAGGGGACAACACTGCC-GAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAG cagtgtctactattttgtgggtgcagtcaatatgtgtctaattttctcagGAGCTGTGTGGGCAGGGGACAACACTGCTcGAATGGGATCATTTGAAGATCTCTATCCATATGTGCCTCAC-TTGGCATTGGTGGGGCTTTCATTCTGTGGAGgtgagtgcagttatcatctgggctcttgcattgggtgggtgtgttggtac Alignment from Spaln_nt2Genome GAGCTGTGTGGACAGGGGACAACACTGC-CGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAG cagtgtctactattttgtgggtgcagtcaatatgtgtctaattttctcagGAGCTGTGTGGGCAGGGGACAACACTGCTCGAATGGGATCATTTGAAGATCTCTATCCATATGTGCCTCA-CTTGGCATTGGTGGGGCTTTCATTCTGTGGAGgtgagtgcagttatcatctgggctcttgcattgggtgggtgtgttggtac Alignment from Pairagon GAGCTGTGTGGACAGGGGACAACACTGC-CGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAG cagtgtctactattttgtgggtgcagtcaatatgtgtctaattttctcagGAGCTGTGTGGGCAGGGGACAACACTGCTCGAATGGGATCATTTGAAGATCTCTATCCATATGTGCCTCA-CTTGGCATTGGTGGGGCTTTCATTCTGTGGAGgtgagtgcagttatcatctgggctcttgcattgggtgggtgtgttggtac Alignment from Exonerate_protein2genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAG cagtgtctactattttgtgggtgcagtcaatatgtgtctaattttctcagGAGCTGTGTGGGCAGGGGACAACACTGCTCGAATGGGATCATTTGAAGATCTCTATCCATATGTGCCTCACTTGGCATTGGTGGGGCTTTCATTCTGTGGAGgtgagtgcagttatcatctgggctcttgcattgggtgggtgtgttggtac Alignment from Exonerate_coding2genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAG cagtgtctactattttgtgggtgcagtcaatatgtgtctaattttctcagGAGCTGTGTGGGCAGGGGACAACACTGCTCGAATGGGATCATTTGAAGATCTCTATCCATATGTGCCTCACTTGGCATTGGTGGGGCTTTCATTCTGTGGAGgtgagtgcagttatcatctgggctcttgcattgggtgggtgtgttggtac Alignment from GeneWise GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAG cagtgtctactattttgtgggtgcagtcaatatgtgtctaattttctcagGAGCTGTGTGGGCAGGGGACAACACTGCTCGAATGGGATCATTTGAAGATCTCTATCCATATGTGCCTCACTTGGCATTGGTGGGGCTTTCATTCTGTGGAGgtgagtgcagttatcatctgggctcttgcattgggtgggtgtgttggtac #### Ganab_ID2481_20 --> 2 - 0 Original Alignment gtGATGCACTCCTTATTCACCCTGTA-TCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggaccaggctgctcagatgcgtacaaaacctctgtgttgccgtccagcaggtGACACACTCCTTATTCACCCTGTACTCAGATGCCGGGGCCCATGGTGTGCAGGTCTATTTGC-CGGCCAAGAAGAAgtaaaatgccaaatagcaaagcccaaatggcaaataatacataggtgtgt Alignment from CESAR gtGATGCACTCCTTATTCACCCTGTA-TCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggaccaggctgctcagatgcgtacaaaacctctgtgttgccgtccagcaggtGACACACTCCTTATTCACCCTGTACTCAGATGCCGGGGCCCATGGTGTGCAGGTCTATTTGC-CGGCCAAGAAGAAgtaaaatgccaaatagcaaagcccaaatggcaaataatacataggtgtgt Alignment from Spaln_aa2Genome GTGATGCACTCCTTATTCACCCTGTA-TCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggaccaggctgctcagatgcgtacaaaacctctgtgttgccgtccagcagGTGACACACTCCTTATTCACCCTGTAcTCAGATGCCGGGGCCCATGGTGTGCAGGTCTATTTGCCGGC-CAAGAAGAAgtaaaatgccaaatagcaaagcccaaatggcaaataatacataggtgtgt Alignment from Spaln_nt2Genome GTGATGCACTCCTTATTCACCCTGTA-TCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggaccaggctgctcagatgcgtacaaaacctctgtgttgccgtccagcagGTGACACACTCCTTATTCACCCTGTACTCAGATGCCGGGGCCCATGGTGTGCAGGTCTATTTGCC-GGCCAAGAAGAAgtaaaatgccaaatagcaaagcccaaatggcaaataatacataggtgtgt Alignment from Pairagon GTGATGCACTCCTTATTCACCCTGTA-TCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggaccaggctgctcagatgcgtacaaaacctctgtgttgccgtccagcagGTGACACACTCCTTATTCACCCTGTACTCAGATGCCGGGGCCCATGGTGTGCAGGTCTATTTGCC-GGCCAAGAAGAAgtaaaatgccaaatagcaaagcccaaatggcaaataatacataggtgtgt Alignment from Exonerate_protein2genome GTGATGCACTCCTTATTCACCCTGTA-TCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggaccaggctgctcagatgcgtacaaaacctctgtgttgccgtccagcagGTGACACACTCCTTATTCACCCTGTACTCAGATGCCGGGGCCCATGGTGTGCAGGTCTATTTGCCGGCCAAGAAGAAGtaaaatgccaaatagcaaagcccaaatggcaaataatacataggtgtgt Alignment from Exonerate_coding2genome GTGATGCACTCCTTATTCACCCTGTA-TCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggaccaggctgctcagatgcgtacaaaacctctgtgttgccgtccagcagGTGACACACTCCTTATTCACCCTGTACTCAGATGCCGGGGCCCATGGTGTGCAGGTCTATTTGCCGGCCAAGAAGAAGtaaaatgccaaatagcaaagcccaaatggcaaataatacataggtgtgt Alignment from GeneWise --GGTGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggaccaggctgctcagatgcgtacaaaacctctgtgttgccgtccagCAGGTGACACACTCCTTATTCACCCTGTACTCAGATGCCGGGGCCCATGGTGTGCAGGTCTATTTGCCGGCCAAGAAGAAgtaaaatgccaaatagcaaagcccaaatggcaaataatacataggtgtgt #### Ganab_ID2482_21 --> 0 - 0 Original Alignment GTGTGGTATGACATTCAGAGC-TATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT aaataatacataggtgtgttaggagtaacttctgctgccctatcttgcagGTGTGGTATGATATTCAGAGCCTATCAGAAACATCATGGGCCCCAAACCT-GTATCTACCAGTAACCTTGAGCAGCgtgagcgggagatttgtaagggtatccatgttcgtttgtcaggattggaa Alignment from CESAR GTGTGGTATGACATTCAGAGC-TATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT aaataatacataggtgtgttaggagtaacttctgctgccctatcttgcagGTGTGGTATGATATTCAGAGCCTATCAGAAACATCATGGGCCCCAAA-CCTGTATCTACCAGTAACCTTGAGCAGCgtgagcgggagatttgtaagggtatccatgttcgtttgtcaggattggaa Alignment from Spaln_aa2Genome GTGTGGTATGACATTCAGAGC-TATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT aaataatacataggtgtgttaggagtaacttctgctgccctatcttgcagGTGTGGTATGATATTCAGAGCcTATCAGAAACATCATGGGCCCCAAAC-CTGTATCTACCAGTAACCTTGAGCAGCgtgagcgggagatttgtaagggtatccatgttcgtttgtcaggattggaa Alignment from Spaln_nt2Genome GTGTGGTATGACATTCAGAG-CTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT aaataatacataggtgtgttaggagtaacttctgctgccctatcttgcagGTGTGGTATGATATTCAGAGCCTATCAGAAACATCATGGGCCCCAAACC-TGTATCTACCAGTAACCTTGAGCAGCgtgagcgggagatttgtaagggtatccatgttcgtttgtcaggattggaa Alignment from Pairagon GTGTGGTATGACATTCAGAG-CTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT aaataatacataggtgtgttaggagtaacttctgctgccctatcttgcagGTGTGGTATGATATTCAGAGCCTATCAGAAACATCATGGGCCCCAAACC-TGTATCTACCAGTAACCTTGAGCAGCgtgagcgggagatttgtaagggtatccatgttcgtttgtcaggattggaa Alignment from Exonerate_protein2genome GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT aaataatacataggtgtgttaggagtaacttctgctgccctatcttgcagGTGTGGTATGATATTCAGAGCCTATCAGAAACATCATGGGCCCCAAACCTGTATCTACCAGTAACCTTGAGCAGCgtgagcgggagatttgtaagggtatccatgttcgtttgtcaggattggaa Alignment from Exonerate_coding2genome GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT aaataatacataggtgtgttaggagtaacttctgctgccctatcttgcagGTGTGGTATGATATTCAGAGCCTATCAGAAACATCATGGGCCCCAAACCTGTATCTACCAGTAACCTTGAGCAGCgtgagcgggagatttgtaagggtatccatgttcgtttgtcaggattggaa Alignment from GeneWise GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT aaataatacataggtgtgttaggagtaacttctgctgccctatcttgcagGTGTGGTATGATATTCAGAGCCTATCAGAAACATCATGGGCCCCAAACCTGTATCTACCAGTAACCTTGAGCAGCgtgagcgggagatttgtaagggtatccatgttcgtttgtcaggattggaa #### Ganab_ID2485_24 --> 1 - 1 Original Alignment tTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGA-GTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAg gccctgcctccagtttctgctacctgtgattgagtctttgtctctcccagcCTAGCCGACCCTAAAGGCCATCAGGAGACTCCTATCTGGGTGGAGCAACGTTATTATAATGGGGGCTGGGAAGCCAGCTG-TGTGGTGCACCAAGCAAAGggtaggaagatgcaatatgaattgatagaaacagtattagagatgaccagc Alignment from CESAR tTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGA-GTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAg gccctgcctccagtttctgctacctgtgattgagtctttgtctctcccagcCTAGCCGACCCTAAAGGCCATCAGGAGACTCCTATCTGGGTGGAGCAACGTTATTATAATGGGGGCTGGGAAGCCAGCTG-TGTGGTGCACCAAGCAAAGggtaggaagatgcaatatgaattgatagaaacagtattagagatgaccagc Alignment from Spaln_aa2Genome TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGA-GTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG gccctgcctccagtttctgctacctgtgattgagtctttgtctctcccagCCTAGCCGACCCTAAAGGCCATCAGGAGACTCCTATCTGGGTGGAGCAAcGTTATTATAATGGGGGCTGGGAAGCCAGCTGT-GTGGTGCACCAAGCAAAGGgtaggaagatgcaatatgaattgatagaaacagtattagagatgaccagc Alignment from Spaln_nt2Genome TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGA-GTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG gccctgcctccagtttctgctacctgtgattgagtctttgtctctcccagCCTAGCCGACCCTAAAGGCCATCAGGAGACTCCTATCTGGGTGGAGCAACGTTATTATAATGGGGGCTGGGAAGCCAGCTG-TGTGGTGCACCAAGCAAAGGgtaggaagatgcaatatgaattgatagaaacagtattagagatgaccagc Alignment from Pairagon TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGA-GTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG gccctgcctccagtttctgctacctgtgattgagtctttgtctctcccagCCTAGCCGACCCTAAAGGCCATCAGGAGACTCCTATCTGGGTGGAGCAACGTTATTATAATGGGGGCTGGGAAGCCAGCTG-TGTGGTGCACCAAGCAAAGGgtaggaagatgcaatatgaattgatagaaacagtattagagatgaccagc Alignment from Exonerate_protein2genome TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG gccctgcctccagtttctgctacctgtgattgagtctttgtctctcccagCCTAGCCGACCCTAAAGGCCATCAGGAGACTCCTATCTGGGTGGAGCAACGTTATTATAATGGGGGCTGGGAAGCCAGCTGTGTGGTGCACCAAGCAAAGGgtaggaagatgcaatatgaattgatagaaacagtattagagatgaccagc Alignment from Exonerate_coding2genome gccctgcctccagtttctgctacctgtgattgagtctttgtctctcccagcctagccgaccctaaaggccatcaggagactcctatctgggtggagcaacgttattataatgggggctgggaagccagctgtgtggtgcaccaagcaaagggtaggaagatgcaatatgaattgatagaaacagtattagagatgaccagc Alignment from GeneWise TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG gccctgcctccagtttctgctacctgtgattgagtctttgtctctcccagCCTAGCCGACCCTAAAGGCCATCAGGAGACTCCTATCTGGGTGGAGCAACGTTATTATAATGGGGGCTGGGAAGCCAGCTGTGTGGTGCACCAAGCAAAGGgtaggaagatgcaatatgaattgatagaaacagtattagagatgaccagc #### Gbf1_ID9797_16 --> 2 - 0 Original Alignment ctGACAAAAAGTTCACCAGGAAGCCA-CCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtgttgtaagcttctgttttctcttgcagcaGACAAAAAGTTCACCAGGAAGCCACCCTCGTTATTCCTGCCTCCTGCCAGATCCATGGGAAT-AATTGAAATTAAAAACAAAAAAAAGgtattggtagtgaacctattcaactatctccaatgctcacctgtctcagc Alignment from CESAR ctGACAAAAAGTTCACCAGGAAGCCA-CCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtgttgtaagcttctgttttctcttgcagcaGACAAAAAGTTCACCAGGAAGCCACCCTCGTTATTCCTGCCTCCTGCCAGATCCATGGGAA-TAATTGAAATTAAAAACAAAAAAAAGgtattggtagtgaacctattcaactatctccaatgctcacctgtctcagc Alignment from Spaln_aa2Genome CTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtgttgtaagcttctgttttctcttgcagCAGACAAAAAGTTCACCAGGAAGCCACCCTCGTTATTCCTGCCTCCTGCCAGATCCATGGGAATAATTGAAATTAAAAACAAAAAAAAGgtattggtagtgaacctattcaactatctccaatgctcacctgtctcagc Alignment from Spaln_nt2Genome CTGACAAAAAGTTCACCAGGAAGCCAC-CTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtgttgtaagcttctgttttctcttgcagCAGACAAAAAGTTCACCAGGAAGCCACCCTCGTTATTCCTGCCTCCTGCCAGATCCATGGGAA-TAATTGAAATTAAAAACAAAAAAAAGgtattggtagtgaacctattcaactatctccaatgctcacctgtctcagc Alignment from Pairagon CTGACAAAAAGTTCACCAGGAAGCCA-CCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtgttgtaagcttctgttttctcttgcagCAGACAAAAAGTTCACCAGGAAGCCACCCTCGTTATTCCTGCCTCCTGCCAGATCCATGGGAA-TAATTGAAATTAAAAACAAAAAAAAGgtattggtagtgaacctattcaactatctccaatgctcacctgtctcagc Alignment from Exonerate_protein2genome CTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtgttgtaagcttctgttttctcttgcagCAGACAAAAAGTTCACCAGGAAGCCACCCTCGTTATTCCTGCCTCCTGCCAGATCCATGGGAATAATTGAAATTAAAAACAAAAAAAAGgtattggtagtgaacctattcaactatctccaatgctcacctgtctcagc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTA------ATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtgttgtaagcttctgttttctcttgcagCAGACAAAAAGTTCACCAGGAAGCCACCC------TCGTTATTCCTGCCTCCTGCCAGATCCATGGGAATAATTGAAATTAAAAACAAAAAAAAGgtattggtagtgaacctattcaactatctccaatgctcacctgtctcagc #### Gbf1_ID9806_25 --> 1 - 0 Original Alignment aGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGT-GGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatactatcagtactatttaatctttgtggtcttttcagaGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTCGGCCCTCAACAGTCAAGTGTCCAGGGCCCTTCTACAG-GAACCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtgagttgttgacccaatgtcacaaggataaccatgcacagattttatag Alignment from CESAR aGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGT-GGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatactatcagtactatttaatctttgtggtcttttcagaGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTCGGCCCTCAACAGTCAAGTGTCCAGGGCCCTTCTACA-GGAACCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtgagttgttgacccaatgtcacaaggataaccatgcacagattttatag Alignment from Spaln_aa2Genome AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatactatcagtactatttaatctttgtggtcttttcagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTCGGCCCTCAACAGTCAAGTGTCCAGGGCCCTTCTACAGGAACCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtgagttgttgacccaatgtcacaaggataaccatgcacagattttatag Alignment from Spaln_nt2Genome AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGT-GGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatactatcagtactatttaatctttgtggtcttttcagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTCGGCCCTCAACAGTCAAGTGTCCAGGGCCCTTCTACAG-GAACCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtgagttgttgacccaatgtcacaaggataaccatgcacagattttatag Alignment from Pairagon AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGT-GGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatactatcagtactatttaatctttgtggtcttttcagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTCGGCCCTCAACAGTCAAGTGTCCAGGGCCCTTCTACAG-GAACCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtgagttgttgacccaatgtcacaaggataaccatgcacagattttatag Alignment from Exonerate_protein2genome AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatactatcagtactatttaatctttgtggtcttttcagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTCGGCCCTCAACAGTCAAGTGTCCAGGGCCCTTCTACAGGAACCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtgagttgttgacccaatgtcacaaggataaccatgcacagattttatag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatactatcagtactatttaatctttgtggtcttttcagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTCGGCCCTCAACAGTCAAGTGTCCAGGGCCCTTCTACAGGAACCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtgagttgttgacccaatgtcacaaggataaccatgcacagattttatag #### Gbf1_ID9807_26 --> 0 - 0 Original Alignment CAATGTGACCCA-GAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttacactgggctttctttgtttatcataaagtgctttcctttattttagCAGTGCGACCCACGAAAAGATGATCACGGAAAGCAAGTTCC-CCAGCTGGAATCACTGCAGGAACTCATGAAGgtgagttatgaacagatcatggaaaaatagaattgtactggtgcagtgca Alignment from CESAR CAATGTGACCCA-GAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttacactgggctttctttgtttatcataaagtgctttcctttattttagCAGTGCGACCCACGAAAAGATGATCACGGAAAGCAAGTTC-CCCAGCTGGAATCACTGCAGGAACTCATGAAGgtgagttatgaacagatcatggaaaaatagaattgtactggtgcagtgca Alignment from Spaln_aa2Genome CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttacactgggctttctttgtttatcataaagtgctttcctttattttagCAGTGCGACCCACGAAAAGATGATCACGGAAAGCAAGTTCCCCAGCTGGAATCACTGCAGGAACTCATGAAGgtgagttatgaacagatcatggaaaaatagaattgtactggtgcagtgca Alignment from Spaln_nt2Genome CAATGTGACCCA-GAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttacactgggctttctttgtttatcataaagtgctttcctttattttagCAGTGCGACCCACGAAAAGATGATCACGGAAAGCAAGTTCC-CCAGCTGGAATCACTGCAGGAACTCATGAAGgtgagttatgaacagatcatggaaaaatagaattgtactggtgcagtgca Alignment from Pairagon CAATGTGACCCA-GAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttacactgggctttctttgtttatcataaagtgctttcctttattttagCAGTGCGACCCACGAAAAGATGATCACGGAAAGCAAGTTCC-CCAGCTGGAATCACTGCAGGAACTCATGAAGgtgagttatgaacagatcatggaaaaatagaattgtactggtgcagtgca Alignment from Exonerate_protein2genome CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttacactgggctttctttgtttatcataaagtgctttcctttattttagCAGTGCGACCCACGAAAAGATGATCACGGAAAGCAAGTTCCCCAGCTGGAATCACTGCAGGAACTCATGAAGgtgagttatgaacagatcatggaaaaatagaattgtactggtgcagtgca Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttacactgggctttctttgtttatcataaagtgctttcctttattttagCAGTGCGACCCACGAAAAGATGATCACGGAAAGCAAGTTCCCCAGCTGGAATCACTGCAGGAACTCATGAAGgtgagttatgaacagatcatggaaaaatagaattgtactggtgcagtgca #### Gbf1_ID9815_34 --> 2 - 0 Original Alignment gaATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATG-CAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG cacacttggtgactttcacaattgcttcagtgtccttcatttttccacaggaATTGCTTGCTTATGCTGTGATGCTCGACGCCAGGTGCGGATGCCAGGCCTTGACATATCTCCAACATGCACTTC-TGTGCCCGACCTGCAGAAACTGGATGCCCTGGAGTGGGAGTCTTGTTCAAACAAGgtgattctcactcataatagatgctggttcacaacatacaccccaaaggg Alignment from CESAR gaATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATG-CAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG cacacttggtgactttcacaattgcttcagtgtccttcatttttccacaggaATTGCTTGCTTATGCTGTGATGCTCGACGCCAGGTGCGGATGCCAGGCCTTGACATATCTCCAACATGCACTTC-TGTGCCCGACCTGCAGAAACTGGATGCCCTGGAGTGGGAGTCTTGTTCAAACAAGgtgattctcactcataatagatgctggttcacaacatacaccccaaaggg Alignment from Spaln_aa2Genome GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG cacacttggtgactttcacaattgcttcagtgtccttcatttttccacagGAATTGCTTGCTTATGCTGTGATGCTCGACGCCAGGTGCGGATGCCAGGCCTTGACATATCTCCAACATGCACTTCTGTGCCCGACCTGCAGAAACTGGATGCCCTGGAGTGGGAGTCTTGTTCAAACAAGgtgattctcactcataatagatgctggttcacaacatacaccccaaaggg Alignment from Spaln_nt2Genome GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGC-AGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG cacacttggtgactttcacaattgcttcagtgtccttcatttttccacagGAATTGCTTGCTTATGCTGTGATGCTCGACGCCAGGTGCGGATGCCAGGCCTTGACATATCTCCAACATGCACTTCT-GTGCCCGACCTGCAGAAACTGGATGCCCTGGAGTGGGAGTCTTGTTCAAACAAGgtgattctcactcataatagatgctggttcacaacatacaccccaaaggg Alignment from Pairagon GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATG-CAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG cacacttggtgactttcacaattgcttcagtgtccttcatttttccacagGAATTGCTTGCTTATGCTGTGATGCTCGACGCCAGGTGCGGATGCCAGGCCTTGACATATCTCCAACATGCACTTCT-GTGCCCGACCTGCAGAAACTGGATGCCCTGGAGTGGGAGTCTTGTTCAAACAAGgtgattctcactcataatagatgctggttcacaacatacaccccaaaggg Alignment from Exonerate_protein2genome GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG cacacttggtgactttcacaattgcttcagtgtccttcatttttccacagGAATTGCTTGCTTATGCTGTGATGCTCGACGCCAGGTGCGGATGCCAGGCCTTGACATATCTCCAACATGCACTTCTGTGCCCGACCTGCAGAAACTGGATGCCCTGGAGTGGGAGTCTTGTTCAAACAAGgtgattctcactcataatagatgctggttcacaacatacaccccaaaggg Alignment from Exonerate_coding2genome GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAGGTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGA cacacttggtgactttcacaattgcttcagtgtccttcatttttccacagGAATTGCTTGCTTATGCTGTGATGCTCGACGCCAGGTGCGGATGCCAGGCCTTGACATATCTCCAACATGCACTTCTGTGCCCGACCTGCAGAAACTGGATGCCCTGGAGTGGGAGTCTTGTTCAAACAAGGTGATTCTCACTCATAATAGATGCTGGTTCACAACATACACCCCAAAGGG Alignment from GeneWise GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG cacacttggtgactttcacaattgcttcagtgtccttcatttttccacagGAATTGCTTGCTTATGCTGTGATGCTCGACGCCAGGTGCGGATGCCAGGCCTTGACATATCTCCAACATGCACTTCTGTGCCCGACCTGCAGAAACTGGATGCCCTGGAGTGGGAGTCTTGTTCAAACAAGgtgattctcactcataatagatgctggttcacaacatacaccccaaaggg #### Gif_ID3279_3 --> 2 - 1 Original Alignment acCTGACAAGTGGGCAG-CTTGCCCTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAa tcctccctctgtcttgtgtagtttgtctcctcccctcccccactttgcagacTTGACAAGTGGGCAGCCTGGCCCTCACTGTTATGGCTTTCACATCCTCTTGCA-AGATCCAGGTAGTAAGGTTTCTACTCTG---AGGAAAATGGAAAACTGGTCACCTTCAagtacgtgtggcttgtgggggcattgagagggagagagtgtcatgcatgaa Alignment from CESAR acCTGACAAGTGGGCAG-CTTGCCCTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAa tcctccctctgtcttgtgtagtttgtctcctcccctcccccactttgcagacTTGACAAGTGGGCAGCCTGGCCCTCACTGTTATGGCTTTCACATCCTCTTGCA-AGATCCAGGTAGTAAGGTTTCTACT---CTGAGGAAAATGGAAAACTGGTCACCTTCAagtacgtgtggcttgtgggggcattgagagggagagagtgtcatgcatgaa Alignment from Spaln_aa2Genome ACCTGACAAGTGGGCAG-CTTGCCCTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAA tcctccctctgtcttgtgtagtttgtctcctcccctcccccactttgcagACTTGACAAGTGGGCAGcCTGGCCCTCACTGTTATGGCTTTCACATCCTCTTGCAA-GATCCAGGTAGTAAGGTTTCTACT---CTGAGGAAAATGGAAAACTGGTCACCTTCAAgtacgtgtggcttgtgggggcattgagagggagagagtgtcatgcatgaa Alignment from Spaln_nt2Genome ACCTGACAAGTGGGCAGCT-TGCCCTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAA tcctccctctgtcttgtgtagtttgtctcctcccctcccccactttgcagACTTGACAAGTGGGCAGCCTGGCCCTCACTGTTATGGCTTTCACATCCTCTTGCA-AGATCCAGGTAGTAAGGTTTCTACT---CTGAGGAAAATGGAAAACTGGTCACCTTCAAgtacgtgtggcttgtgggggcattgagagggagagagtgtcatgcatgaa Alignment from Pairagon ACCTGACAAGTGGGCAGCTT-GCCCTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAA tcctccctctgtcttgtgtagtttgtctcctcccctcccccactttgcagACTTGACAAGTGGGCAGCCTGGCCCTCACTGTTATGGCTTTCACATCCTCTTGCA-AGATCCAGGTAGTAAGGTTTCTACT---CTGAGGAAAATGGAAAACTGGTCACCTTCAAgtacgtgtggcttgtgggggcattgagagggagagagtgtcatgcatgaa Alignment from Exonerate_protein2genome ACCTGACAAGTGGGCAGCTTGCCCTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAA tcctccctctgtcttgtgtagtttgtctcctcccctcccccactttgcagACTTGACAAGTGGGCAGCCTGGCCCTCACTGTTATGGCTTTCACATCCTCTTGCAAGATCCAGGTAGTAAGGTTTCTACT---CTGAGGAAAATGGAAAACTGGTCACCTTCAAgtacgtgtggcttgtgggggcattgagagggagagagtgtcatgcatgaa Alignment from Exonerate_coding2genome ACCTGACAAGTGGGCAGCTTGCCCTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAA tcctccctctgtcttgtgtagtttgtctcctcccctcccccactttgcagACTTGACAAGTGGGCAGCCTGGCCCTCACTGTTATGGCTTTCACATCCTCTTGCAAGATCCAGGTAGTAAGGTTTCTACT---CTGAGGAAAATGGAAAACTGGTCACCTTCAAgtacgtgtggcttgtgggggcattgagagggagagagtgtcatgcatgaa Alignment from GeneWise ACCTGACAAGTGGGCAGCTTGCCCTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAA tcctccctctgtcttgtgtagtttgtctcctcccctcccccactttgcagACTTGACAAGTGGGCAGCCTGGCCCTCACTGTTATGGCTTTCACATCCTCTTGCAAGATCCAGGTAGTAAGGTTTCTACTCTG---AGGAAAATGGAAAACTGGTCACCTTCAAgtacgtgtggcttgtgggggcattgagagggagagagtgtcatgcatgaa #### Gldc_ID6390_24 --> 0 - 0 Original Alignment ATGTCTCCACACTCCTTGACCTGTGTC-ACATCCTCCTGCTGGGATCGGCCGTATTCTAGAGAGGTAGCAGCATTTCCACTG ttaactatccctgccagggcaattttttcgagctctgaactgcattgcagATGTCACCACATTCCTTGATCTGTGTACACCTCCTCATGCTGGGATCAGCCCTATT-CCGGGAGGTTGTTGCATTCCCACTGgtatggcctgtaggtgatttaacctcagagtctctttgtgtctaactgag Alignment from CESAR ATGTCTCCACACTCCTTGACCTGTGTC-ACATCCTCCTGCTGGGATCGGCCGTATTCTAGAGAGGTAGCAGCATTTCCACTG ttaactatccctgccagggcaattttttcgagctctgaactgcattgcagATGTCACCACATTCCTTGATCTGTGTACACCTCCTCATGCTGGGATCAGCCCTATT-CCGGGAGGTTGTTGCATTCCCACTGgtatggcctgtaggtgatttaacctcagagtctctttgtgtctaactgag Alignment from Spaln_aa2Genome ATGTCTCCACACTCCTTGACCTGTGTCACATCCTCCTGCTGGGATCGGCCGTATTCTAGAGAGGTAGCAGCATTTCCACTG ttaactatccctgccagggcaattttttcgagctctgaactgcattgcagATGTCACCACATTCCTTGATCTGTGTACACCTCCTCATGCTGGGATCAGCCCTATTCCGGGAGGTTGTTGCATTCCCACTGgtatggcctgtaggtgatttaacctcagagtctctttgtgtctaactgag Alignment from Spaln_nt2Genome ATGTCTCCACACTCCTTGACCTGTGT-CACATCCTCCTGCTGGGATCGGCCGTATTCTAGAGAGGTAGCAGCATTTCCACTG ttaactatccctgccagggcaattttttcgagctctgaactgcattgcagATGTCACCACATTCCTTGATCTGTGTACACCTCCTCATGCTGGGATCAGCCCTATTC-CGGGAGGTTGTTGCATTCCCACTGgtatggcctgtaggtgatttaacctcagagtctctttgtgtctaactgag Alignment from Pairagon ATGTCTCCACACTCCTTGACCTGTGT-CACATCCTCCTGCTGGGATCGGCCGTATTCTAGAGAGGTAGCAGCATTTCCACTG ttaactatccctgccagggcaattttttcgagctctgaactgcattgcagATGTCACCACATTCCTTGATCTGTGTACACCTCCTCATGCTGGGATCAGCCCTATTCC-GGGAGGTTGTTGCATTCCCACTGgtatggcctgtaggtgatttaacctcagagtctctttgtgtctaactgag Alignment from Exonerate_protein2genome ATGTCTCCACACTCCTTGACCTGTGTCACATCCTCCTGCTGGGATCGGCCGTATTCTAGAGAGGTAGCAGCATTTCCACTG ttaactatccctgccagggcaattttttcgagctctgaactgcattgcagATGTCACCACATTCCTTGATCTGTGTACACCTCCTCATGCTGGGATCAGCCCTATTCCGGGAGGTTGTTGCATTCCCACTGgtatggcctgtaggtgatttaacctcagagtctctttgtgtctaactgag Alignment from Exonerate_coding2genome ttaactatccctgccagggcaattttttcgagctctgaactgcattgcagatgtcaccacattccttgatctgtgtacacctcctcatgctgggatcagccctattccgggaggttgttgcattcccactggtatggcctgtaggtgatttaacctcagagtctctttgtgtctaactgag Alignment from GeneWise ATGTCTCCACACTCCTTGACCTGTGTCACATCCTCCTGCTGGGATCGGCCGTATTCTAGAGAGGTAGCAGCATTTCCACTG ttaactatccctgccagggcaattttttcgagctctgaactgcattgcagATGTCACCACATTCCTTGATCTGTGTACACCTCCTCATGCTGGGATCAGCCCTATTCCGGGAGGTTGTTGCATTCCCACTGgtatggcctgtaggtgatttaacctcagagtctctttgtgtctaactgag #### Gldc_ID6402_13 --> 1 - 0 Original Alignment cTATCACTCAGAAACTAATCTTGTCCGG-TATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG cctgtggaatggctaatctctgtgtttatttgcctctcttgcttgtgaagtTACCACTCAGAAACTAATCTTGTTCCGCTACATGAAGAGATTGGAGAACCAAGATATTTCCCTTTTACACA-TATGATTCCTCTAgtaacagcagtatgactggttaccatgtacattggtatctatcaggtgtg Alignment from CESAR cTATCACTCAGAAACTAATCTTGTC-CGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG cctgtggaatggctaatctctgtgtttatttgcctctcttgcttgtgaagtTACCACTCAGAAACTAATCTTGTTCCGCTACATGAAGAGATTGGAGAACCAAGATATTTCCCTTTTACAC-ATATGATTCCTCTAgtaacagcagtatgactggttaccatgtacattggtatctatcaggtgtg Alignment from Spaln_aa2Genome CTATCACTCAGAAACTAATCTTGTC-CGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG cctgtggaatggctaatctctgtgtttatttgcctctcttgcttgtgaagTTACCACTCAGAAACTAATCTTGTTcCGCTACATGAAGAGATTGGAGAACCAAGATATTTCCCTTTTACACAT-ATGATTCCTCTAgtaacagcagtatgactggttaccatgtacattggtatctatcaggtgtg Alignment from Spaln_nt2Genome CTATCACTCAGAAACTAATCTTGTCCG-GTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG cctgtggaatggctaatctctgtgtttatttgcctctcttgcttgtgaagTTACCACTCAGAAACTAATCTTGTTCCGCTACATGAAGAGATTGGAGAACCAAGATATTTCCCTTTTACACA-TATGATTCCTCTAgtaacagcagtatgactggttaccatgtacattggtatctatcaggtgtg Alignment from Pairagon CTATCACTCAGAAACTAATCTTG-TCCGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG cctgtggaatggctaatctctgtgtttatttgcctctcttgcttgtgaagTTACCACTCAGAAACTAATCTTGTTCCGCTACATGAAGAGATTGGAGAACCAAGATATTTCCCTTTTACACA-TATGATTCCTCTAgtaacagcagtatgactggttaccatgtacattggtatctatcaggtgtg Alignment from Exonerate_protein2genome CTATCACTCAGAAACTAATCTTGTC-CGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCAC cctgtggaatggctaatctctgtgtttatttgcctctcttgcttgtgaagTTACCACTCAGAAACTAATCTTGTTCCGCTACATGAAGAGATTGGAGAACCAAGATATTTCCCTTTTACACatatgattcctctagtaacagcagtatgactggttaccatgtacattggtatctatcaggtgtg Alignment from Exonerate_coding2genome CTATCACTCAGAAACTAATCTTGTC-CGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCAC cctgtggaatggctaatctctgtgtttatttgcctctcttgcttgtgaagTTACCACTCAGAAACTAATCTTGTTCCGCTACATGAAGAGATTGGAGAACCAAGATATTTCCCTTTTACACatatgattcctctagtaacagcagtatgactggttaccatgtacattggtatctatcaggtgtg Alignment from GeneWise cctgtggaatggctaatctctgtgtttatttgcctctcttgcttgtgaagttaccactcagaaactaatcttgttccgctacatgaagagattggagaaccaagatatttcccttttacacatatgattcctctagtaacagcagtatgactggttaccatgtacattggtatctatcaggtgtg #### Gm815_ID5779_3 --> 2 - 0 Original Alignment gtGCCTCAAGAGAGGAAGGACAAAGTGAT-ACCCACTGGGGTCCAGCCAGCCCATCATTCCTGCATATTGACCCCGGAGGCCGGTGCCAGTGGAATAGCAGT catcatgatattctacttctcctacattagctcggttgtcctttccgcaggtGCCTCAAGAGAGGAAGGGCAAAGTGACCACCCACTGGGGTCCAGCCTGCCCATCATTCCTACATATTG-CCCTGGAGGCCGGTGCCAGTGGAATAGCAGTgttagtgttgtgtgtctgcttaggtgctcatgctcccaaatagtgggaac Alignment from CESAR gtGCCTCAAGAGAGGAAGGACAAAGTGAT-ACCCACTGGGGTCCAGCCAGCCCATCATTCCTGCATATTGACCCCGGAGGCCGGTGCCAGTGGAATAGCAGT catcatgatattctacttctcctacattagctcggttgtcctttccgcaggtGCCTCAAGAGAGGAAGGGCAAAGTGACCACCCACTGGGGTCCAGCCTGCCCATCATTCCTACATATT-GCCCTGGAGGCCGGTGCCAGTGGAATAGCAGTgttagtgttgtgtgtctgcttaggtgctcatgctcccaaatagtgggaac Alignment from Spaln_aa2Genome CACTTCCTTCTCTACGTTTAGAACTGCTTCCCATACTTTTTTCCCCCACTGTGCCTCAAGAGAGGAAGGACAAAGTGATACCCACTGGGGTCCAGCCAGCCCATCATTCCTGCATATTGACCCCGGAGGCCGGTGCCAGTGGAATAGCAGT CATGATATTCTAC---TTCTCCTACATTAGCTCGGTTGTCCTTTCCGCAGGTGCCTCAAGAGAGGAAGGGCAAAGTGACCACCCACTGGGGTCCAGCCTGCCCATCATTCCTACATATTGCCCTGGAGGCCGGTGCCAGTGGAATAGCAGTgttagtgttgtgtgtctgcttaggtgctcatgctcccaaatagtgggaac Alignment from Spaln_nt2Genome GTGCCTCAAGAGAGGAAGGACAAAGTGAT-ACCCACTGGGGTCCAGCCAGCCCATCATTCCTGCATATTGACCCCGGAGGCCGGTGCCAGTGGAATAGCAGT catcatgatattctacttctcctacattagctcggttgtcctttccgcagGTGCCTCAAGAGAGGAAGGGCAAAGTGACCACCCACTGGGGTCCAGCCTGCCCATCATTCCTACATATTG-CCCTGGAGGCCGGTGCCAGTGGAATAGCAGTgttagtgttgtgtgtctgcttaggtgctcatgctcccaaatagtgggaac Alignment from Pairagon GTGCCTCAAGAGAGGAAGGACAAAGTGA-TACCCACTGGGGTCCAGCCAGCCCATCATTCCTGCATATTGACCCCGGAGGCCGGTGCCAGTGGAATAGCAGT catcatgatattctacttctcctacattagctcggttgtcctttccgcagGTGCCTCAAGAGAGGAAGGGCAAAGTGACCACCCACTGGGGTCCAGCCTGCCCATCATTCCTACATATTG-CCCTGGAGGCCGGTGCCAGTGGAATAGCAGTgttagtgttgtgtgtctgcttaggtgctcatgctcccaaatagtgggaac Alignment from Exonerate_protein2genome ACACTTCCTTCTCTACGTTTAGAACTGCTTCCCATACTTTTTTCCCCCACTGTGCCTCAAGAGAGGAAGGACAAAGTGATACCCACTGGGGTCCAGCCAGCCCATCATTCCTGCATATT--GACCCCGGAGGCCGGTGCCAGTGGAATAGCAGT CATCATGATATTCTACTTCTCCTACATTAGCTCGGTTGTCCTTTCCGCAGGTGCCTCAAGAGAGGAAGGGCAAAGTGACCACCCACTGGGGTCCAGCCTGCCCATCATTCCTACATATTGC---CCTGGAGGCCGGTGCCAGTGGAATAGCAGTgttagtgttgtgtgtctgcttaggtgctcatgctcccaaatagtgggaac Alignment from Exonerate_coding2genome ACACTTCCTTCTCTACGTTTAGAACTGCTTCCCATACTTTTTTCCCCCACTGTGCCTCAAGAGAGGAAGGACAAAGTGATACCCACTGGGGTCCAGCCAGCCCATCATTCCTGCATATT--GACCCCGGAGGCCGGTGCCAGTGGAATAGCAGT CATCATGATATTCTACTTCTCCTACATTAGCTCGGTTGTCCTTTCCGCAGGTGCCTCAAGAGAGGAAGGGCAAAGTGACCACCCACTGGGGTCCAGCCTGCCCATCATTCCTACATATTGC---CCTGGAGGCCGGTGCCAGTGGAATAGCAGTgttagtgttgtgtgtctgcttaggtgctcatgctcccaaatagtgggaac Alignment from GeneWise TTCTCTACGTTTAGAACTGCTTCCCATACTTTTTTCCCCCACTGTGCCTCAAGAGAGGAAGGACAAAGTGATACCCACTGGGGTCCAGCCAGCCCATCATTCCTGCATATTGACCCCGGAGGCCGGTGCCAGTGGAATAGCAGT catcatgaTATTCTACTTCTCCTACATTAGCTCGGTTGTCCTTTCCGCAGGTGCCTCAAGAGAGGAAGGGCAAAGTGACCACCCACTGGGGTCCAGCCTGCCCATCATTCCTACATATTGC-CCTGGAGGCCGGTGCCAGTGGAATAGCAGTgttagtgttgtgtgtctgcttaggtgctcatgctcccaaatagtgggaac #### Got1_ID8751_4 --> 2 - 0 Original Alignment agAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAG-GACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG gttttatatctccattaataatggataaagcctcctctctctgtccacagagAACCATAATGCTGTATTCTCTGCTGCTGGTTTCAAGCGATATTCGTCCCTATTGCTACTGGGATGCTG-GAAAAGAGGATTAGACCTTCAGGGTTTCCTTAATGATCTGGAGgtaacagaagataagaatagatgcccaggcttagtgcaggagggttttcc Alignment from CESAR agAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAG-GACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG gttttatatctccattaataatggataaagcctcctctctctgtccacagagAACCATAATGCTGTATTCTCTGCTGCTGGTTTCAAGCGATATTCGTCCCTATTGCTACTGGGATGCT-GGAAAAGAGGATTAGACCTTCAGGGTTTCCTTAATGATCTGGAGgtaacagaagataagaatagatgcccaggcttagtgcaggagggttttcc Alignment from Spaln_aa2Genome AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG gttttatatctccattaataatggataaagcctcctctctctgtccacagAGAACCATAATGCTGTATTCTCTGCTGCTGGTTTCAAGCGATATTCGTCCCTATTGCTACTGGGATGCTGGAAAAGAGGATTAGACCTTCAGGGTTTCCTTAATGATCTGGAGgtaacagaagataagaatagatgcccaggcttagtgcaggagggttttcc Alignment from Spaln_nt2Genome AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAG-GACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG gttttatatctccattaataatggataaagcctcctctctctgtccacagAGAACCATAATGCTGTATTCTCTGCTGCTGGTTTCAAGCGATATTCGTCCCTATTGCTACTGGGATGCTG-GAAAAGAGGATTAGACCTTCAGGGTTTCCTTAATGATCTGGAGgtaacagaagataagaatagatgcccaggcttagtgcaggagggttttcc Alignment from Pairagon AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAG-GACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG gttttatatctccattaataatggataaagcctcctctctctgtccacagAGAACCATAATGCTGTATTCTCTGCTGCTGGTTTCAAGCGATATTCGTCCCTATTGCTACTGGGATGCTG-GAAAAGAGGATTAGACCTTCAGGGTTTCCTTAATGATCTGGAGgtaacagaagataagaatagatgcccaggcttagtgcaggagggttttcc Alignment from Exonerate_protein2genome AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAG-GACATTCGGCCCTATTGCTACTGGGATGCG--GAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG gttttatatctccattaataatggataaagcctcctctctctgtccacagAGAACCATAATGCTGTATTCTCTGCTGCTGGTTTCAAGCGATATTCGTCCCTATTGCTACTGGGATGCTGG---AAAAGAGGATTAGACCTTCAGGGTTTCCTTAATGATCTGGAGgtaacagaagataagaatagatgcccaggcttagtgcaggagggttttcc Alignment from Exonerate_coding2genome AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAG-GACATTCGGCCCTATTGCTACTGGGATGCG--GAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG gttttatatctccattaataatggataaagcctcctctctctgtccacagAGAACCATAATGCTGTATTCTCTGCTGCTGGTTTCAAGCGATATTCGTCCCTATTGCTACTGGGATGCTGG---AAAAGAGGATTAGACCTTCAGGGTTTCCTTAATGATCTGGAGgtaacagaagataagaatagatgcccaggcttagtgcaggagggttttcc Alignment from GeneWise AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG gttttatatctccattaataatggataaagcctcctctctctgtccacagAGAACCATAATGCTGTATTCTCTGCTGCTGGTTTCAAGCGATATTCGTCCCTATTGCTACTGGGATGCTGGAAAAGAGGATTAGACCTTCAGGGTTTCCTTAATGATCTGGAGgtaacagaagataagaatagatgcccaggcttagtgcaggagggttttcc #### Gpam_ID11543_6 --> 1 - 0 Original Alignment gCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTC-TTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG tgcccattctctggttcatcatgatgcagtcttttcccctctcctcccaggTTGACTGGCTGGGTATTACTAAAGCTCTTCAACAGCTTCCTTCTGGAACATTCAGATCCACAAGGGTCAAT-AGAGATGGTCAAGGCTGCCACCGAGgtgcgatccgaacttaaaaacctaaagggagatgtgcattactgaatgtt Alignment from CESAR gCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTC-TTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG tgcccattctctggttcatcatgatgcagtcttttcccctctcctcccaggTTGACTGGCTGGGTATTACTAAAGCTCTTCAACAGCTTCCTTCTGGAACATTCAGATCCACAAGGGTCAA-TAGAGATGGTCAAGGCTGCCACCGAGgtgcgatccgaacttaaaaacctaaagggagatgtgcattactgaatgtt Alignment from Spaln_aa2Genome GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG tgcccattctctggttcatcatgatgcagtcttttcccctctcctcccagGTTGACTGGCTGGGTATTACTAAAGCTCTTCAACAGCTTCCTTCTGGAACATTCAGATCCACAAGGGTCAATAGAGATGGTCAAGGCTGCCACCGAGgtgcgatccgaacttaaaaacctaaagggagatgtgcattactgaatgtt Alignment from Spaln_nt2Genome GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTT-CTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG tgcccattctctggttcatcatgatgcagtcttttcccctctcctcccagGTTGACTGGCTGGGTATTACTAAAGCTCTTCAACAGCTTCCTTCTGGAACATTCAGATCCACAAGGGTCAA-TAGAGATGGTCAAGGCTGCCACCGAGgtgcgatccgaacttaaaaacctaaagggagatgtgcattactgaatgtt Alignment from Pairagon GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTT-CTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG tgcccattctctggttcatcatgatgcagtcttttcccctctcctcccagGTTGACTGGCTGGGTATTACTAAAGCTCTTCAACAGCTTCCTTCTGGAACATTCAGATCCACAAGGGTCAA-TAGAGATGGTCAAGGCTGCCACCGAGgtgcgatccgaacttaaaaacctaaagggagatgtgcattactgaatgtt Alignment from Exonerate_protein2genome GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG tgcccattctctggttcatcatgatgcagtcttttcccctctcctcccagGTTGACTGGCTGGGTATTACTAAAGCTCTTCAACAGCTTCCTTCTGGAACATTCAGATCCACAAGGGTCAATAGAGATGGTCAAGGCTGCCACCGAGgtgcgatccgaacttaaaaacctaaagggagatgtgcattactgaatgtt Alignment from Exonerate_coding2genome GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG tgcccattctctggttcatcatgatgcagtcttttcccctctcctcccagGTTGACTGGCTGGGTATTACTAAAGCTCTTCAACAGCTTCCTTCTGGAACATTCAGATCCACAAGGGTCAATAGAGATGGTCAAGGCTGCCACCGAGgtgcgatccgaacttaaaaacctaaagggagatgtgcattactgaatgtt Alignment from GeneWise GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG tgcccattctctggttcatcatgatgcagtcttttcccctctcctcccagGTTGACTGGCTGGGTATTACTAAAGCTCTTCAACAGCTTCCTTCTGGAACATTCAGATCCACAAGGGTCAATAGAGATGGTCAAGGCTGCCACCGAGgtgcgatccgaacttaaaaacctaaagggagatgtgcattactgaatgtt #### Gpr137_ID1886_5 --> 0 - 0 Original Alignment GCAGATCTGGTGAATGACCTAGGGAACAAAGGC-TACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG gggctaacagggttgcacattagcaaattaatctctctctaatttgttagGCAGATCTGGTCAATGACCTAGTGAACAAAGGTCTACCTTGTGTTTGGTCTAATTCTC---TTTTGGCAAT-GCTACCTACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaggtaacatgtgtcccttaatagagatgtcctgtcatcttccaaacta Alignment from CESAR GCAGATCTGGTGAATGACCTAGGGAACAAAGGC-TACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG gggctaacagggttgcacattagcaaattaatctctctctaatttgttagGCAGATCTGGTCAATGACCTAGTGAACAAAGGTCTACCTTGTGTTTGGTCTAATTCTCTTT---TGG-CAATGCTACCTACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaggtaacatgtgtcccttaatagagatgtcctgtcatcttccaaacta Alignment from Spaln_aa2Genome GCAGATCTGGTGAATGACCTAGGGAACAAAGGC-TACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG gggctaacagggttgcacattagcaaattaatctctctctaatttgttagGCAGATCTGGTCAATGACCTAGTGAACAAAGGTcTACCTTGTGTTTGGTCTAATTCTCTTT---TGGCA-ATGCTACCTACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaggtaacatgtgtcccttaatagagatgtcctgtcatcttccaaacta Alignment from Spaln_nt2Genome GCAGATCTGGTGAATGACCTAGGGAACAAAGG-CTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG gggctaacagggttgcacattagcaaattaatctctctctaatttgttagGCAGATCTGGTCAATGACCTAGTGAACAAAGGTCTACCTTGTGTTTGGTCTAATTCTCT---TTTGGCAA-TGCTACCTACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaggtaacatgtgtcccttaatagagatgtcctgtcatcttccaaacta Alignment from Pairagon GCAGATCTGGTGAATGACCTAGGGAACAAAGG-CTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG gggctaacagggttgcacattagcaaattaatctctctctaatttgttagGCAGATCTGGTCAATGACCTAGTGAACAAAGGTCTACCTTGTGTTTGGTCTAATTCTC----TTTTGGCAATGCTACCTACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaggtaacatgtgtcccttaatagagatgtcctgtcatcttccaaacta Alignment from Exonerate_protein2genome GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG gggctaacagggttgcacattagcaaattaatctctctctaatttgttagGCAGATCTGGTCAATGACCTAGTGAACAAAGGT---CTACCTTGTGTTTGGTCTAATTCTCTTTTGGCAATGCTACCTACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaggtaacatgtgtcccttaatagagatgtcctgtcatcttccaaacta Alignment from Exonerate_coding2genome GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG gggctaacagggttgcacattagcaaattaatctctctctaatttgttagGCAGATCTGGTCAATGACCTAGTGAACAAAGGT---CTACCTTGTGTTTGGTCTAATTCTCTTTTGGCAATGCTACCTACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaggtaacatgtgtcccttaatagagatgtcctgtcatcttccaaacta Alignment from GeneWise GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTAC---CTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG gggctaacagggttgcacattagcaaattaatctctctctaatttgttagGCAGATCTGGTCAATGACCTAGTGAACAAAGGTCTACCTTGTGTTTGGTCTAATTCTCTTTTGGCA------ATGCTACCTACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaggtaacatgtgtcccttaatagagatgtcctgtcatcttccaaacta #### Gpr137_ID1887_4 --> 0 - 0 Original Alignment GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTAC-AACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaacatacctagaatcctgggacccctacatctctttcctttttctcagGGAACAAGTGTATGTCAGGTAGCAGCAATAGGG---CCCATGATCTTGATTTATGCCAGCCGGGCCTGTTACCAACCTAGCAGCCTTGGCCTTGGCACCTCAGAGTCGGCTAG-TGCCTTTGATTATGACTGGTATAATGTCTCAGACCAGgcaggttatatagtattctgggctaacagggttgcacattagcaaatttt Alignment from CESAR GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTAC-AACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaacatacctagaatcctgggacccctacatctctttcctttttctcagGGAACAAGTGTATGTCAGGTAGCAGCAATAGGG---CCCATGATCTTGATTTATGCCAGCCGGGCCTGTTACCAACCTAGCAGCCTTGGCCTTGGCACCTCAGAGTCGGCTA-GTGCCTTTGATTATGACTGGTATAATGTCTCAGACCAGgcaggttatatagtattctgggctaacagggttgcacattagcaaattaa Alignment from Spaln_aa2Genome GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaacatacctagaatcctgggacccctacatctctttcctttttctcagGGAACAAGTGTATGTCAGGTAGCAGCAATA---GGGCCCATGATCTTGATTTATGCCAGCCGGGCCTGTTACCAACCTAGCAGCCTTGGCCTTGGCACCTCAGAGTCGGCTAGTGCCTTTGATTATGACTGGTATAATGTCTCAGACCAGgcaggttatatagtattctgggctaacagggttgcacattagcaaatttt Alignment from Spaln_nt2Genome GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTAC-AACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaacatacctagaatcctgggacccctacatctctttcctttttctcagGGAACAAGTGTATGTCAGGTAGCAGCAATAGGG---CCCATGATCTTGATTTATGCCAGCCGGGCCTGTTACCAACCTAGCAGCCTTGGCCTTGGCACCTCAGAGTCGGCTAG-TGCCTTTGATTATGACTGGTATAATGTCTCAGACCAGgcaggttatatagtattctgggctaacagggttgcacattagcaaatttt Alignment from Pairagon GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTA-CAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaacatacctagaatcctgggacccctacatctctttcctttttctcagGGAACAAGTGTATGTCAGGTAGCAGCAATAGGG---CCCATGATCTTGATTTATGCCAGCCGGGCCTGTTACCAACCTAGCAGCCTTGGCCTTGGCACCTCAGAGTCGGCTAG-TGCCTTTGATTATGACTGGTATAATGTCTCAGACCAGgcaggttatatagtattctgggctaacagggttgcacattagcaaatttt Alignment from Exonerate_protein2genome GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaacatacctagaatcctgggacccctacatctctttcctttttctcagGGAACAAGTGTATGTCAGGTAGCAGCAATA---GGGCCCATGATCTTGATTTATGCCAGCCGGGCCTGTTACCAACCTAGCAGCCTTGGCCTTGGCACCTCAGAGTCGGCTAGTGCCTTTGATTATGACTGGTATAATGTCTCAGACCAGgcaggttatatagtattctgggctaacagggttgcacattagcaaatttt Alignment from Exonerate_coding2genome GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaacatacctagaatcctgggacccctacatctctttcctttttctcagGGAACAAGTGTATGTCAGGTAGCAGCAATA---GGGCCCATGATCTTGATTTATGCCAGCCGGGCCTGTTACCAACCTAGCAGCCTTGGCCTTGGCACCTCAGAGTCGGCTAGTGCCTTTGATTATGACTGGTATAATGTCTCAGACCAGgcaggttatatagtattctgggctaacagggttgcacattagcaaatttt Alignment from GeneWise GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAGGCAG taaacatacctagaatcctgggacccctacatctctttcctttttctcagGGAACAAGTGTATGTCAGGTAGCAGCAATAGGG---CCCATGATCTTGATTTATGCCAGCCGGGCCTGTTACCAACCTAGCAGCCTTGGCCTTGGCACCTCAGAGTCGGCTAGTGCCTTTGATTATGACTGGTATAATGTCTCAGACCAGGCAGgttatatagtattctgggctaacagggttgcacattagcaaatttt #### Gpr137_ID1888_3 --> 1 - 0 Original Alignment gCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAAT-GTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggctatagcccctgcactgaaggtgtcccttaacctacccctctccccaggCTGGCTGTTCAGGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTTAATCGTACTGTGTGCAGTTCTATCATGCCAGCGTC-ACAACAACCCTGGATACTTTCACTGGAACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGT------GCTCTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACCACCAGCATCTACTTAGATGCAAAGgtaaaggtgcaatatagatgtggcattgttggatttgtggacagaatact Alignment from CESAR gCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAAT-GTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggctatagcccctgcactgaaggtgtcccttaacctacccctctccccaggCTGGCTGTTCAGGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTTAATCGTACTGTGTGCAGTTCTATCATGCCAGCGTCAC-AACAACCCTGGATACTTTCACTGGAACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTGCT------CTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACCACCAGCATCTACTTAGATGCAAAGgtaaaggtgcaatatagatgtggcattgttggatttgtggacagaatact Alignment from Spaln_aa2Genome GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggctatagcccctgcactgaaggtgtcccttaacctacccctctccccagGCTGGCTGTTCAGGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTTAATCGTACTGTGTGCAGTTCTATCATGCCAGCGTCACAACAACCCTGGATACTTTCACTGGAACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTGCT------CTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACCACCAGCATCTACTTAGATGCAAAGgtaaaggtgcaatatagatgtggcattgttggatttgtggacagaatact Alignment from Spaln_nt2Genome GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAAT-GTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggctatagcccctgcactgaaggtgtcccttaacctacccctctccccagGCTGGCTGTTCAGGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTTAATCGTACTGTGTGCAGTTCTATCATGCCAGCGTCA-CAACAACCCTGGATACTTTCACTGGAACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTG------CTCTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACCACCAGCATCTACTTAGATGCAAAGgtaaaggtgcaatatagatgtggcattgttggatttgtggacagaatact Alignment from Pairagon GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAAT-GTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggctatagcccctgcactgaaggtgtcccttaacctacccctctccccagGCTGGCTGTTCAGGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTTAATCGTACTGTGTGCAGTTCTATCATGCCAGCGTCACA-ACAACCCTGGATACTTTCACTGGAACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTGCT------CTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACCACCAGCATCTACTTAGATGCAAAGgtaaaggtgcaatatagatgtggcattgttggatttgtggacagaatact Alignment from Exonerate_protein2genome GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggctatagcccctgcactgaaggtgtcccttaacctacccctctccccagGCTGGCTGTTCAGGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTTAATCGTACTGTGTGCAGTTCTATCATGCCAGCGTCACAACAACCCTGGATACTTTCACTGGAACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTGCT------CTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACCACCAGCATCTACTTAGATGCAAAGgtaaaggtgcaatatagatgtggcattgttggatttgtggacagaatact Alignment from Exonerate_coding2genome GTGTTCAAGGCCAAGGCGAAGCGTCGGCCA---GAGATGAGCCGAGGCTTGCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG GGCTATAGCCCCTGCACTGAAGGTGTCCCTTAACCTACCCCTCTCCCCAGGCTGGCTGTTCAGGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTTAATCGTACTGTGTGCAGTTCTATCATGCCAGCGTCACAACAACCCTGGATACTTTCACTGGAACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTGCT------CTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACCACCAGCATCTACTTAGATGCAAAGgtaaaggtgcaatatagatgtggcattgttggatttgtggacagaatact Alignment from GeneWise GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAAT---GTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggctatagcccctgcactgaaggtgtcccttaacctacccctctccccagGCTGGCTGTTCAGGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTTAATCGTACTGTGTGCAGTTCTATCATGCCAGCGTCACAA---CAACCCTGGATACTTTCACTGGAACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTGCTCTT------GCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACCACCAGCATCTACTTAGATGCAAAGgtaaaggtgcaatatagatgtggcattgttggatttgtggacagaatact #### Hectd2_ID7146_4 --> 1 - 0 Original Alignment gGAAGATTTAGAAAAAGCTGAGGCCACAGGG-AATTGGAAGACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG tggctgagttcgcctgcctctttttggtttttgtctgtctgtccatccaggGAAGATCTAGAAAAAGCTGAAGCTACAGGGCAATTGGAAAGCAGTACATGCTTTCTATATTACGGCAT-TGATTCCTTTACAGAGCTAAACACTGCATTTAAGgtagctatgcaaaaaaaagtttcctctcactctttggtggcacacataag Alignment from CESAR gGAAGATTTAGAAAAAGCTGAGGCCACAGGG-AATTGGAAGACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG tggctgagttcgcctgcctctttttggtttttgtctgtctgtccatccaggGAAGATCTAGAAAAAGCTGAAGCTACAGGGCAATTGGAAAGCAGTACATGCTTTCTATATTACGGCA-TTGATTCCTTTACAGAGCTAAACACTGCATTTAAGgtagctatgcaaaaaaaagtttcctctcactctttggtggcacacataag Alignment from Spaln_aa2Genome GGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAGACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG tggctgagttcgcctgcctctttttggtttttgtctgtctgtccatccagGGAAGATCTAGAAAAAGCTGAAGCTACAGGGCAATTGGAAAGCAGTACATGCTTTCTATATTACGGCATTGATTCCTTTACAGAGCTAAACACTGCATTTAAGgtagctatgcaaaaaaaagtttcctctcactctttggtggcacacataag Alignment from Spaln_nt2Genome GGAAGATTTAGAAAAAGCTGAGGCCACAGGGAAT-TGGAAGACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG tggctgagttcgcctgcctctttttggtttttgtctgtctgtccatccagGGAAGATCTAGAAAAAGCTGAAGCTACAGGGCAATTGGAAAGCAGTACATGCTTTCTATATTACGGCA-TTGATTCCTTTACAGAGCTAAACACTGCATTTAAGgtagctatgcaaaaaaaagtttcctctcactctttggtggcacacataag Alignment from Pairagon GGAAGATTTAGAAAAAGCTGAGGCCACAGGG-AATTGGAAGACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG tggctgagttcgcctgcctctttttggtttttgtctgtctgtccatccagGGAAGATCTAGAAAAAGCTGAAGCTACAGGGCAATTGGAAAGCAGTACATGCTTTCTATATTACGGCA-TTGATTCCTTTACAGAGCTAAACACTGCATTTAAGgtagctatgcaaaaaaaagtttcctctcactctttggtggcacacataag Alignment from Exonerate_protein2genome GGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAGACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG tggctgagttcgcctgcctctttttggtttttgtctgtctgtccatccagGGAAGATCTAGAAAAAGCTGAAGCTACAGGGCAATTGGAAAGCAGTACATGCTTTCTATATTACGGCATTGATTCCTTTACAGAGCTAAACACTGCATTTAAGgtagctatgcaaaaaaaagtttcctctcactctttggtggcacacataag Alignment from Exonerate_coding2genome tggctgagttcgcctgcctctttttggtttttgtctgtctgtccatccagggaagatctagaaaaagctgaagctacagggcaattggaaagcagtacatgctttctatattacggcattgattcctttacagagctaaacactgcatttaaggtagctatgcaaaaaaaagtttcctctcactctttggtggcacacataag Alignment from GeneWise -GAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAGACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG tggctgagttcgcctgcctctttttggtttttgtctgtctgtccatccagGGAAGATCTAGAAAAAGCTGAAGCTACAGGGCAATTGGAAAGCAGTACATGCTTTCTATATTACGGCATTGATTCCTTTACAGAGCTAAACACTGCATTTAAGgtagctatgcaaaaaaaagtttcctctcactctttggtggcacacataag #### Hells_ID7708_15 --> 0 - 0 Original Alignment ATTGATGAAGAGTTGGTAACA-AATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gtttcattcaaaattacaagctgtgatttaatgaaaatctccatccccagAATGATGAAGAGTTTGTAACACAATTCTGGGAGGTTCTTAATTTCAGATCGAATGC-GCCAGAACTTAAGAAAAGAGGTCATAAGgtaattacagctaaaatttatgctgtccagtgcagtctggatcagcttag Alignment from CESAR ATTGATGAAGAGTTGGTAACA-AATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gtttcattcaaaattacaagctgtgatttaatgaaaatctccatccccagAATGATGAAGAGTTTGTAACACAATTCTGGGAGGTTCTTAATTTCAGATCGAATG-CGCCAGAACTTAAGAAAAGAGGTCATAAGgtaattacagctaaaatttatgctgtccagtgcagtctggatcagcttag Alignment from Spaln_aa2Genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gtttcattcaaaattacaagctgtgatttaatgaaaatctccatccccagAATGATGAAGAGTTTGTAACACAATTCTGGGAGGTTCTTAATTTCAGATCGAATGCGCCAGAACTTAAGAAAAGAGGTCATAAGgtaattacagctaaaatttatgctgtccagtgcagtctggatcagcttag Alignment from Spaln_nt2Genome ATTGATGAAGAGTTGGTAACAAAT-TCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gtttcattcaaaattacaagctgtgatttaatgaaaatctccatccccagAATGATGAAGAGTTTGTAACACAATTCTGGGAGGTTCTTAATTTCAGATCGAATGC-GCCAGAACTTAAGAAAAGAGGTCATAAGgtaattacagctaaaatttatgctgtccagtgcagtctggatcagcttag Alignment from Pairagon ATTGATGAAGAGTTGGTAACA-AATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gtttcattcaaaattacaagctgtgatttaatgaaaatctccatccccagAATGATGAAGAGTTTGTAACACAATTCTGGGAGGTTCTTAATTTCAGATCGAATGC-GCCAGAACTTAAGAAAAGAGGTCATAAGgtaattacagctaaaatttatgctgtccagtgcagtctggatcagcttag Alignment from Exonerate_protein2genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gtttcattcaaaattacaagctgtgatttaatgaaaatctccatccccagAATGATGAAGAGTTTGTAACACAATTCTGGGAGGTTCTTAATTTCAGATCGAATGCGCCAGAACTTAAGAAAAGAGGTCATAAGgtaattacagctaaaatttatgctgtccagtgcagtctggatcagcttag Alignment from Exonerate_coding2genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gtttcattcaaaattacaagctgtgatttaatgaaaatctccatccccagAATGATGAAGAGTTTGTAACACAATTCTGGGAGGTTCTTAATTTCAGATCGAATGCGCCAGAACTTAAGAAAAGAGGTCATAAGgtaattacagctaaaatttatgctgtccagtgcagtctggatcagcttag Alignment from GeneWise ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAGGTT----------------------------------------------- gtttcattcaaaattacaagctgtgatttaatgaaaatctccatccccagAATGATGAAGAGTTTGTAACACAATTCTGGGAGGTTCTTAATTTCAGATCGAATGCGCCAGAACTTAAGAAAAGAGGTCATAAGGTAATTACAGCTAAAATTTATGCTGTCCAGTGCAGTCTGGATCAGCTTAG #### Hnrnpul2_ID2400_4 --> 2 - 0 Original Alignment atACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCA-GAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG tcttcggcactgaatgtcacactgaatcttttctctttttcacacaaaaggtACATCTGATCTGCATTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACTGTTCTCACGAAAAATTCCCCACCCTTTGGTCCGGGGCAAGAAGTACCT-TGGTGTAACAGAGGGTAAAGTATGCTTTGAAGCTAGGgtactatgctatctttaaaccaagtatgctagctttttaccactccaaac Alignment from CESAR atACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCA-GAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG tcttcggcactgaatgtcacactgaatcttttctctttttcacacaaaaggtACATCTGATCTGCATTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACTGTTCTCACGAAAAATTCCCCACCCTTTGGTCCGGGGCAAGAAGTACC-TTGGTGTAACAGAGGGTAAAGTATGCTTTGAAGCTAGGgtactatgctatctttaaaccaagtatgctagctttttaccactccaaac Alignment from Spaln_aa2Genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCA-GAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG tcttcggcactgaatgtcacactgaatcttttctctttttcacacaaaagGTACATCTGATCTGCATTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACTGTTCTCAcGAAAAATTCCCCACCCTTTGGTCCGGGGCAAGAAGTACCTT-GGTGTAACAGAGGGTAAAGTATGCTTTGAAGCTAGGgtactatgctatctttaaaccaagtatgctagctttttaccactccaaac Alignment from Spaln_nt2Genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCA-GAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG tcttcggcactgaatgtcacactgaatcttttctctttttcacacaaaagGTACATCTGATCTGCATTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACTGTTCTCACGAAAAATTCCCCACCCTTTGGTCCGGGGCAAGAAGTACCT-TGGTGTAACAGAGGGTAAAGTATGCTTTGAAGCTAGGgtactatgctatctttaaaccaagtatgctagctttttaccactccaaac Alignment from Pairagon ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCA-GAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAGGTA----------------------------------------------- tcttcggcactgaatgtcacactgaatcttttctctttttcacacaaaagGTACATCTGATCTGCATTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACTGTTCTCACGAAAAATTCCCCACCCTTTGGTCCGGGGCAAGAAGTACCT-TGGTGTAACAGAGGGTAAAGTATGCTTTGAAGCTAGGGTACTATGCTATCTTTAAACCAAGTATGCTAGCTTTTTACCACTCCAAAC Alignment from Exonerate_protein2genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG tcttcggcactgaatgtcacactgaatcttttctctttttcacacaaaagGTACATCTGATCTGCATTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACTGTTCTCACGAAAAATTCCCCACCCTTTGGTCCGGGGCAAGAAGTACCTTGGTGTAACAGAGGGTAAAGTATGCTTTGAAGCTAGGgtactatgctatctttaaaccaagtatgctagctttttaccactccaaac Alignment from Exonerate_coding2genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG tcttcggcactgaatgtcacactgaatcttttctctttttcacacaaaagGTACATCTGATCTGCATTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACTGTTCTCACGAAAAATTCCCCACCCTTTGGTCCGGGGCAAGAAGTACCTTGGTGTAACAGAGGGTAAAGTATGCTTTGAAGCTAGGgtactatgctatctttaaaccaagtatgctagctttttaccactccaaac Alignment from GeneWise ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG tcttcggcactgaatgtcacactgaatcttttctctttttcacacaaaagGTACATCTGATCTGCATTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACTGTTCTCACGAAAAATTCCCCACCCTTTGGTCCGGGGCAAGAAGTACCTTGGTGTAACAGAGGGTAAAGTATGCTTTGAAGCTAGGgtactatgctatctttaaaccaagtatgctagctttttaccactccaaac #### Hnrnpul2_ID2408_12 --> 2 - 0 Original Alignment tgGGCGGGCAGCGCCGAGGCTAC-GACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgagtttgcaacggctgaccagtttcccctttagtgGGTGGACAGCACCGAGGCTATCGACAACCAGGCCTATGGGCAGCAGTACTGGGGGC-GCCTGGAACCAGAGGAgtacgtgcacatccttcgtcactcatccttccaccctgttcctctaactg Alignment from CESAR tgGGCGGGCAGCGCCGAGGCTAC-GACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgagtttgcaacggctgaccagtttcccctttagtgGGTGGACAGCACCGAGGCTATCGACAACCAGGCCTATGGGCAGCAGTACTGGGGG-CGCCTGGAACCAGAGGAgtacgtgcacatccttcgtcactcatccttccaccctgttcctctaactg Alignment from Spaln_aa2Genome TGGGCGGGCAGCGCCGAGGCTAC-GACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG--- tcggctgatttctttgtgagtttgcaacggctgaccagtttcccctttagTGGGTGGACAGCACCGAGGCTATcGACAACCAGGCCTATGGGCAGCAGTACTGGGGGCGCCTGGAACCAGAGGAGTACgtgcacatccttcgtcactcatccttccaccctgttcctctaactg Alignment from Spaln_nt2Genome TGGGCGGGCAGCGCCGAGGCTA-CGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgagtttgcaacggctgaccagtttcccctttagTGGGTGGACAGCACCGAGGCTATCGACAACCAGGCCTATGGGCAGCAGTACTGGGGGC-GCCTGGAACCAGAGGAgtacgtgcacatccttcgtcactcatccttccaccctgttcctctaactg Alignment from Pairagon TGGGCGGGCAGCGCCGAGGCTA-CGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgagtttgcaacggctgaccagtttcccctttagTGGGTGGACAGCACCGAGGCTATCGACAACCAGGCCTATGGGCAGCAGTACTGGGGGC-GCCTGGAACCAGAGGAgtacgtgcacatccttcgtcactcatccttccaccctgttcctctaactg Alignment from Exonerate_protein2genome TGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgagtttgcaacggctgaccagtttcccctttagTGGGTGGACAGCACCGAGGCTATCGACAACCAGGCCTATGGGCAGCAGTACTGGGGGCGCCTGGAACCAGAGGAgtacgtgcacatccttcgtcactcatccttccaccctgttcctctaactg Alignment from Exonerate_coding2genome TGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgagtttgcaacggctgaccagtttcccctttagTGGGTGGACAGCACCGAGGCTATCGACAACCAGGCCTATGGGCAGCAGTACTGGGGGCGCCTGGAACCAGAGGAgtacgtgcacatccttcgtcactcatccttccaccctgttcctctaactg Alignment from GeneWise TGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgagtttgcaacggctgaccagtttcccctttagTGGGTGGACAGCACCGAGGCTATCGACAACCAGGCCTATGGGCAGCAGTACTGGGGGCGCCTGGAACCAGAGGAgtacgtgcacatccttcgtcactcatccttccaccctgttcctctaactg #### Hoga1_ID8380_3 --> 2 - 0 Original Alignment ccACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCC-ATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG agtaaatcaacctatccaattgtggctgctttcttacccccactttgtagctATGCAAGCTACAGTAGAGATGACTGTCAGCATGGCTCAAGTTGGTGCTGATGTCGCCCATGGTGGTGACTCCATGTTACTATCATGGCCATATGAGCA-TGCAGCAATTATTCACCACTACACTAAGgttagaaggaatggttgagatatgctttaagtattgattgaaggaagcta Alignment from CESAR ccACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCC-ATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG agtaaatcaacctatccaattgtggctgctttcttacccccactttgtagctATGCAAGCTACAGTAGAGATGACTGTCAGCATGGCTCAAGTTGGTGCTGATGTCGCCCATGGTGGTGACTCCATGTTACTATCATGGCCATATGAGC-ATGCAGCAATTATTCACCACTACACTAAGgttagaaggaatggttgagatatgctttaagtattgattgaaggaagcta Alignment from Spaln_aa2Genome CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG agtaaatcaacctatccaattgtggctgctttcttacccccactttgtagCTATGCAAGCTACAGTAGAGATGACTGTCAGCATGGCTCAAGTTGGTGCTGATGTCGCCCATGGTGGTGACTCCATGTTACTATCATGGCCATATGAGCATGCAGCAATTATTCACCACTACACTAAGgttagaaggaatggttgagatatgctttaagtattgattgaaggaagcta Alignment from Spaln_nt2Genome CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGC-CATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG agtaaatcaacctatccaattgtggctgctttcttacccccactttgtagCTATGCAAGCTACAGTAGAGATGACTGTCAGCATGGCTCAAGTTGGTGCTGATGTCGCCCATGGTGGTGACTCCATGTTACTATCATGGCCATATGAGCA-TGCAGCAATTATTCACCACTACACTAAGgttagaaggaatggttgagatatgctttaagtattgattgaaggaagcta Alignment from Pairagon CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCG-CCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG agtaaatcaacctatccaattgtggctgctttcttacccccactttgtagCTATGCAAGCTACAGTAGAGATGACTGTCAGCATGGCTCAAGTTGGTGCTGATGTCGCCCATGGTGGTGACTCCATGTTACTATCATGGCCATATGAGCA-TGCAGCAATTATTCACCACTACACTAAGgttagaaggaatggttgagatatgctttaagtattgattgaaggaagcta Alignment from Exonerate_protein2genome CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCC-ATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGC--AGCGCTGCCCTCATTCACCACTACACCAAG agtaaatcaacctatccaattgtggctgctttcttacccccactttgtagCTATGCAAGCTACAGTAGAGATGACTGTCAGCATGGCTCAAGTTGGTGCTGATGTCGCCCATGGTGGTGACTCCATGTTACTATCATGGCCATATGAGCAT---GCAGCAATTATTCACCACTACACTAAGgttagaaggaatggttgagatatgctttaagtattgattgaaggaagcta Alignment from Exonerate_coding2genome CACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGC-CATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG agtaaatcaacctatccaattgtggctgctttcttacccccactttgtagcTATGCAAGCTACAGTAGAGATGACTGTCAGCATGGCTCAAGTTGGTGCTGATGTCGCCCATGGTGGTGACTCCATGTTACTATCATGGCCATATGAGCAT-GCAGCAATTATTCACCACTACACTAAGgttagaaggaatggttgagatatgctttaagtattgattgaaggaagcta Alignment from GeneWise CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTC-GCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG agtaaatcaacctatccaattgtggctgctttcttacccccactttgtagCTATGCAAGCTACAGTAGAGATGACTGTCAGCATGGCTCAAGTTGGTGCTGATGTCGCCCATGGTGGTGACTCCATGTTACTATCATGGCCATATGAGCAT-GCAGCAATTATTCACCACTACACTAAGgttagaaggaatggttgagatatgctttaagtattgattgaaggaagcta #### Hoga1_ID8381_4 --> 0 - 0 Original Alignment GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTG-TACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaggggttgacatgggaaatggccatgcattctgctctgttgtagATTGCTGATGTTTCCCCAATCCCTGTAGTGTTACTACAGTGTCCCAGCCAATACAGGACTAGAGCTACCTGTGG-TGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGTCAGTGGTGGAGATgtaatgtgttgtagcatccaatttgctcaagcacccacaacctcaggtca Alignment from CESAR GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTG-TACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaggggttgacatgggaaatggccatgcattctgctctgttgtagATTGCTGATGTTTCCCCAATCCCTGTAGTGTTACTACAGTGTCCCAGCCAATACAGGACTAGAGCTACCTGTG-GTGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGTCAGTGGTGGAGATgtaatgtgttgtagcatccaatttgctcaagcacccacaacctcaggtca Alignment from Spaln_aa2Genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTG-TACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaggggttgacatgggaaatggccatgcattctgctctgttgtagATTGCTGATGTTTCCCCAATCCCTGTAGTGTTAcTACAGTGTCCCAGCCAATACAGGACTAGAGCTACCTGTGGT-GCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGTCAGTGGTGGAGATgtaatgtgttgtagcatccaatttgctcaagcacccacaacctcaggtca Alignment from Spaln_nt2Genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTG-TACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaggggttgacatgggaaatggccatgcattctgctctgttgtagATTGCTGATGTTTCCCCAATCCCTGTAGTGTTACTACAGTGTCCCAGCCAATACAGGACTAGAGCTACCTGTGG-TGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGTCAGTGGTGGAGATgtaatgtgttgtagcatccaatttgctcaagcacccacaacctcaggtca Alignment from Pairagon GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTG-TACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaggggttgacatgggaaatggccatgcattctgctctgttgtagATTGCTGATGTTTCCCCAATCCCTGTAGTGTTACTACAGTGTCCCAGCCAATACAGGACTAGAGCTACCTGTGG-TGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGTCAGTGGTGGAGATgtaatgtgttgtagcatccaatttgctcaagcacccacaacctcaggtca Alignment from Exonerate_protein2genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaggggttgacatgggaaatggccatgcattctgctctgttgtagATTGCTGATGTTTCCCCAATCCCTGTAGTGTTACTACAGTGTCCCAGCCAATACAGGACTAGAGCTACCTGTGGTGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGTCAGTGGTGGAGATgtaatgtgttgtagcatccaatttgctcaagcacccacaacctcaggtca Alignment from Exonerate_coding2genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaggggttgacatgggaaatggccatgcattctgctctgttgtagATTGCTGATGTTTCCCCAATCCCTGTAGTGTTACTACAGTGTCCCAGCCAATACAGGACTAGAGCTACCTGTGGTGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGTCAGTGGTGGAGATgtaatgtgttgtagcatccaatttgctcaagcacccacaacctcaggtca Alignment from GeneWise GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaggggttgacatgggaaatggccatgcattctgctctgttgtagATTGCTGATGTTTCCCCAATCCCTGTAGTGTTACTACAGTGTCCCAGCCAATACAGGACTAGAGCTACCTGTGGTGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGTCAGTGGTGGAGATgtaatgtgttgtagcatccaatttgctcaagcacccacaacctcaggtca #### Hoga1_ID8382_5 --> 0 - 1 Original Alignment GTGACCAGGATTGGACTGATAGTTCAC---AAGACCAGCAAGCAGGAT-TTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGg agatagatgtactggggagacaatcatttttataattcctgtatttttagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATCTTTCAGGTACTGGCAGGGTCTGTTGGCTCCCTCCTAG-TAGCTATTCTGTAggtaagcttgccgtcagttctaaaccaccagctccaactgcgccctgttgc Alignment from CESAR GTGACCAGGATTGGACTGATAGTT---CACAAGACCAGCAAGCAGGAT-TTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGg agatagatgtactggggagacaatcatttttataattcctgtatttttagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATCTTTCAGGTACTGGCAGGGTCTGTTGGCTCCCTCCTA-GTAGCTATTCTGTAggtaagcttgccgtcagttctaaaccaccagctccaactgcgccctgttgc Alignment from Spaln_aa2Genome GTGACCAGGATTGGACTGATAGTT---CACAAGACCAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGG agatagatgtactggggagacaatcatttttataattcctgtatttttagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATCTTTCAGGTACTGGCAGGGTCTGTTGGCTCCCTCCTAGTAGCTATTCTGTAGgtaagcttgccgtcagttctaaaccaccagctccaactgcgccctgttgc Alignment from Spaln_nt2Genome GTGACCAGGATTGGACTGATAGT---TCACAAGACCAGCAAGCAGGAT-TTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGG agatagatgtactggggagacaatcatttttataattcctgtatttttagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATCTTTCAGGTACTGGCAGGGTCTGTTGGCTCCCTCCTAG-TAGCTATTCTGTAGgtaagcttgccgtcagttctaaaccaccagctccaactgcgccctgttgc Alignment from Pairagon GTGACCAGGATTGGACTGATAGT---TCACAAGACCAGCAAGCAGGAT-TTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGG agatagatgtactggggagacaatcatttttataattcctgtatttttagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATCTTTCAGGTACTGGCAGGGTCTGTTGGCTCCCTCCTAG-TAGCTATTCTGTAGgtaagcttgccgtcagttctaaaccaccagctccaactgcgccctgttgc Alignment from Exonerate_protein2genome GTGACCAGGATTGGACTGATAGTT---CACAAGACCAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGG agatagatgtactggggagacaatcatttttataattcctgtatttttagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATCTTTCAGGTACTGGCAGGGTCTGTTGGCTCCCTCCTAGTAGCTATTCTGTAGgtaagcttgccgtcagttctaaaccaccagctccaactgcgccctgttgc Alignment from Exonerate_coding2genome agatagatgtactggggagacaatcatttttataattcctgtatttttaggtgaccaagattggactgatagttcatcacaagtctagcaagcaggatctttcaggtactggcagggtctgttggctccctcctagtagctattctgtaggtaagcttgccgtcagttctaaaccaccagctccaactgcgccctgttgc Alignment from GeneWise GTGACCAGGATTGGACTGATAGTTCAC---AAGACCAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGG agatagatgtactggggagacaatcatttttataattcctgtatttttagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATCTTTCAGGTACTGGCAGGGTCTGTTGGCTCCCTCCTAGTAGCTATTCTGTAGgtaagcttgccgtcagttctaaaccaccagctccaactgcgccctgttgc #### Hps1_ID8617_11 --> 0 - 0 Original Alignment AGCCCCAGCACCCCA-CTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG gacctgtcttactccgcttggctcccccactctccttccactgtccccagAGCCCTGGTGCCCCACCTAACCCAAATCCTATGCCAACTGCTGGATGGATTCTCCCTTC-GGAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGTAGTGCTTTACGATCCCAGCCCTTTGTGACCGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTCGGGCAGGAGGTCCAGgtactgtcacagaactaatgtggactgattttgggaccctggctacagcc Alignment from CESAR AGCCCCAGCACCCCA-CTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG gacctgtcttactccgcttggctcccccactctccttccactgtccccagAGCCCTGGTGCCCCACCTAACCCAAATCCTATGCCAACTGCTGGATGGATTCTCCCTT-CGGAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGTAGTGCTTTACGATCCCAGCCCTTTGTGACCGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTCGGGCAGGAGGTCCAGgtactgtcacagaactaatgtggactgattttgggaccctggctacagcc Alignment from Spaln_aa2Genome CCAGCACCCCA---CTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG gacctgtcttactccgcttggctcccccactctccttccactgtccccagagCCCTGGTGCCCCACCTAACCCAAATCCTATGCCAACTGCTGGATGGATTCTCCCTTCG-GAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGTAGTGCTTTACGATCCCAGCCCTTTGTGACCGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTCGGGCAGGAGGTCCAGgtactgtcacagaactaatgtggactgattttgggaccctggctacagcc Alignment from Spaln_nt2Genome AGCCCCAGCACCCCAC-TGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG gacctgtcttactccgcttggctcccccactctccttccactgtccccagAGCCCTGGTGCCCCACCTAACCCAAATCCTATGCCAACTGCTGGATGGATTCTCCCTTCG-GAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGTAGTGCTTTACGATCCCAGCCCTTTGTGACCGACCCACACCAGAACA---ACAAGTTCATCAAGAATCGGGTCGGGCAGGAGGTCCAGgtactgtcacagaactaatgtggactgattttgggaccctggctacagcc Alignment from Pairagon AGCCCCAGCACCCCA-CTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG gacctgtcttactccgcttggctcccccactctccttccactgtccccagAGCCCTGGTGCCCCACCTAACCCAAATCCTATGCCAACTGCTGGATGGATTCTCCCTTC-GGAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGTAGTGCTTTACGATCCCAGCCCTTTGTGACCGACCCACACCAGAACA---ACAAGTTCATCAAGAATCGGGTCGGGCAGGAGGTCCAGgtactgtcacagaactaatgtggactgattttgggaccctggctacagcc Alignment from Exonerate_protein2genome AGCCCCAGCACCCCA-CTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTC--CTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG gacctgtcttactccgcttggctcccccactctccttccactgtccccagAGCCCTGGTGCCCCACCTAACCCAAATCCTATGCCAACTGCTGGATGGATTCTCCCTTCG---GAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGTAGTGCTTTACGATCCCAGCCCTTTGTGACCGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTCGGGCAGGAGGTCCAGgtactgtcacagaactaatgtggactgattttgggaccctggctacagcc Alignment from Exonerate_coding2genome gacctgtcttactccgcttggctcccccactctccttccactgtccccagagccctggtgccccacctaacccaaatcctatgccaactgctggatggattctcccttcggagaaaaggttgaaggagggccaggaggctggtagtgctttacgatcccagccctttgtgaccgacccacaccagaacaacaagttcatcaagaatcgggtcgggcaggaggtccaggtactgtcacagaactaatgtggactgattttgggaccctggctacagcc Alignment from GeneWise ------------------------------AGCCCCAGCACC---CCACTGGCCCTG------------------ATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG GACCTGTCTTACTCCGCTTGGCTCCCCCACTCTCCTTCCACTGTCCCCAGAGCCCTGGTGCCCCACCTAACCCAAATCCTATGCCAACTGCTGGATGGATTCTCCCTTCG-GAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGTAGTGCTTTACGATCCCAGCCCTTTGTGACCGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTCGGGCAGGAGGTCCAGgtactgtcacagaactaatgtggactgattttgggaccctggctacagcc #### Hps1_ID8620_8 --> 0 - 1 Original Alignment GACACAGACAGC-ATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAg tggtaagcaaactagggtgtactctctgttcggtgttggtccatgggcagGATACTGAT---CAATTCC---CCGGAAGAGTATTTCACTCCCTCTC-TTCCCCAAGT------GGTCCAggtaagcggagcaggtgtggcgccctgttatgtcacttagctaagtacaga Alignment from CESAR GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAg tggtaagcaaactagggtgtactctctgttcggtgttggtccatgggcagGATACTGATCAA--TTCC---CCGGAAGAGTATTTCACTCCCT-CTCTTCCCCAAGT------GGTCCAggtaagcggagcaggtgtggcgccctgttatgtcacttagctaagtacaga Alignment from Spaln_aa2Genome AGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAGGTAGC- tggtaagcaaactagggtgtactctctgttcggtgttggtccatgggcagGATACTGATCAATTCCCCGGAAGAGTATTTCACTCCCTCTCTTCCCCAAGTGGTCCAGGTAAGCGGAGCAGgtgtggcgccctgttatgtcacttagctaagtacaga Alignment from Spaln_nt2Genome GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAG tggtaagcaaactagggtgtactctctgttcggtgttggtccatgggcagGATACTG--ATCAATTC---CCCGGAAGAGTATTTCACTCCCTCT-CTTCCCCAAGTG------GTCCAGgtaagcggagcaggtgtggcgccctgttatgtcacttagctaagtacaga Alignment from Pairagon -----------------------------------------------------------------CCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAG TGGTAAGCAAACTAGGGTGTACTCTCTGTTCGGTGTTGGTCCATGGGCAGGATACTGATCAATTCCCCGGAAGAGTATTTCACTCCCTCT-CTTCCCCAAGTG------GTCCAGgtaagcggagcaggtgtggcgccctgttatgtcacttagctaagtacaga Alignment from Exonerate_protein2genome GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCT---CCTTCCCCAGGCGATCAGAGTTCAGGTA tggtaagcaaactagggtgtactctctgttcggtgttggtccatgGGCAGGATACTGATCAATTCCCCGGAAGAGTATTTCACTCCCTCTCTTCCCCAAGTGGTCCAGGTAAGCGGAGCAGgtgtggcgccctgttatgtcacttagctaagtacaga Alignment from Exonerate_coding2genome tggtaagcaaactagggtgtactctctgttcggtgttggtccatgggcaggatactgatcaattccccggaagagtatttcactccctctcttccccaagtggtccaggtaagcggagcaggtgtggcgccctgttatgtcacttagctaagtacaga Alignment from GeneWise tggtaagcaaactagggtgtactctctgttcggtgttggtccatgggcaggatactgatcaattccccggaagagtatttcactccctctcttccccaagtggtccaggtaagcggagcaggtgtggcgccctgttatgtcacttagctaagtacaga #### Hps1_ID8621_7 --> 0 - 0 Original Alignment AGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAG-CAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tgtgctatgcgtttctgcttgatcattatcccctaatcccaccccttcagAGGCGTCCAAAGAGA---------------------CCAAACCAGGAGCCAGAGTACCTCAGTACCTGCCA-GGGTTGTAAGGAAACAgtaaatcctaagctggtaagcaaactagggtgtactctctgtttcttctt Alignment from CESAR AGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tgtgctatgcgtttctgcttgatcattatcccctaatcccaccccttcagAGGCGTCCAAAG--AGACCAAACC------------------AGGAGCCAGAGTACCTCAGTACCTGCCA-GGGTTGTAAGGAAACAgtaaatcctaagctggtaagcaaactagggtgtactctctgttcggtgtt Alignment from Spaln_aa2Genome AGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACAGACACA tgtgctatgcgtttctgcttgatcattatcccctaatcccaccccttcagAGGCGTCCAAAGAGA------------CCAAACCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGTTGTAAGGAAACAGTAAATCCTAAGCTGgtaagcaaactagggtgtactctctgtttcttctt Alignment from Spaln_nt2Genome AAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tgtgctatgcgtttctgcttgatcattatcccctaatcccaccccttcagAGGCGTCCAAAGAGACCAAACCAGGAGCCAGAGTACCTCAGTACCTGCCAGG-GTTGTAAGGAAACAgtaaatcctaagctggtaagcaaactagggtgtactctctgtttcttctt Alignment from Pairagon AGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGG---------------------------------------------------------------- tgtgctatgcgtttctgcttgatcattatcccctaatcccaccccttcagAGGCGTCCAAAGAG--------------------ACCAAACCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGTTGTAAGGAAACAGTAAATCCTAAGCTGGTAAGCAAACTAGGGTGTACTCTCTGTTTCTTCTT Alignment from Exonerate_protein2genome CAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACAGACACA tgtgctatgcgtttctgcttgatcattatcccctaatcccaccccttcAGAGGCGTCCAAAGAGACCAAACCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGTTGTAAGGAAACAGTAAATCctaagctggtaagcaaactagggtgtactctctgtttcttctt Alignment from Exonerate_coding2genome CCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACAGACACAGACAGCATCTCCCTCCCTGAAG tgtgctatgcgtttctgcttgatcattatcccctaatCCCACCCCTTCAGAGGCGTCCAAAGAGACCAAACCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGTTGTAAGGAAACAGTAAATCCTAAGCTGGTAAGCAAACTAGGgtgtactctctgtttcttctt Alignment from GeneWise AGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAG---------AGCACCTCAGTCCCCACCAGGAGTTCCAGG-------------------------- tgtgctatgcgtttctgcttgatcattatcccctaatcccaccccttcagAGGCGTCCAAAGAGACCAAACCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGTTGTAAGGAAACAGTAAATCCTAAGCTGGTAAGCAAACTAGGGTGTACTCTCTGTTTCTTCTT #### Hps1_ID8622_6 --> 1 - 0 Original Alignment cCATGGTGCGAGC-ACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGC---CCTCAG tcccccctcacaattttagttgtattctcttgtatgtccctcatctgtagcCAAGGTGCAAGCCACTCTATGTCCAGCAGATTTTCTT---------CTCC-AGTTCATGATCCACAGCCTTCACCGGCCATGACAGAGGAGGAGGGGGAGCAAGAAGATGGTCACAGCAGCCCACAGgtgagggcaaaccccagaattgcgattgactaattatcagaaggagctgg Alignment from CESAR cCATGGTGCGAGC-ACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGC---GACAGCCCTCAG tcccccctcacaattttagttgtattctcttgtatgtccctcatctgtagcCAAGGTGCAAGCCACTCTATGTCCAGCAGATTTTCTT---------CTC-CAGTTCATGATCCACAGCCTTCACCGGCCATGACAGAGGAGGAGGGGGAGCAAGAAGATGGTCACAGCAGCCCACAGgtgagggcaaaccccagaattgcgattgactaattatcagaaggagctgg Alignment from Spaln_aa2Genome CCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGAC---AGCCCTCAGAGGAGACCCAAGAGCAGCCAA tcccccctcacaattttagttgtattctcttgtatgtccctcatctgtagCCAAGGTGCAAGCCACTCTATGTCCAGCAGATTTTCTTCT---------CCAGTTCATGATCCACAGCCTTCACCGGCCATGACAGAGGAGGAGGGGGAGCAAGAAGATGGTCACAGCAGCCCACAGGTGAGGGCAAACCCCAGAATTgcgattgactaattatcagaaggagctgg Alignment from Spaln_nt2Genome CCATGGTGCGAGC-ACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGCC-CTCAGAG tcccccctcacaattttagttgtattctcttgtatgtccctcatctgtagCCAAGGTGCAAGCCACTCTATGTCCAGCAGATTT--------TCTTC--TCCAGTTCATGATCCACAGCCTTCACCGGCCATGACAGAGGAGGAGGGGGAGCAAGAAGATGGTCACAGCAGCCCACAGgtgagggcaaaccccagaattgcgattgactaattatcagaaggagctgg Alignment from Pairagon ----------CCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAG---CGACAGCCCTCAG tcccccctcacaattttagttgtattctcttgtatgtccctcatctgtagccaaggtgcaagccactctatgtccagcagattttcttctccagttcatgatccacagCCTTCACCGGCCATG-----------------------------------------------------------------------------ACAGAGGAGGAGGGGGAGCAAGAAGATGGTCACAGCAGCCCACAGgtgagggcaaaccccagaattgcgattgactaattatcagaaggagctgg Alignment from Exonerate_protein2genome tcccccctcacaattttagttgtattctcttgtatgtccctcatctgtagccaaggtgcaagccactctatgtccagcagattttcttctccagttcatgatccacagccttcaccggccatgacagaggaggagggggagcaagaagatggtcacagcagcccacaggtgagggcaaaccccagaattgcgattgactaattatcagaaggagctgg Alignment from Exonerate_coding2genome tcccccctcacaattttagttgtattctcttgtatgtccctcatctgtagccaaggtgcaagccactctatgtccagcagattttcttctccagttcatgatccacagccttcaccggccatgacagaggaggagggggagcaagaagatggtcacagcagcccacaggtgagggcaaaccccagaattgcgattgactaattatcagaaggagctgg Alignment from GeneWise CCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGC---GACAGCCCTCAG tcccccctcacaattttagttgtattctcttgtatgtccctcatctgtagCCAAGGTGCAAGCCACTCTATGTCCAGCAGATTTTCTTCT---------CCAGTTCATGATCCACAGCCTTCACCGGCCATGACAGAGGAGGAGGGGGAGCAAGAAGATGGTCACAGCAGCCCACAGgtgagggcaaaccccagaattgcgattgactaattatcagaaggagctgg #### Incenp_ID2605_14 --> 1 - 0 Original Alignment gGAGATGCAGGAGAGA-GAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tcccctgcattgttggggactagcagactaacgctgatttcttctcccaggGAGATGCAAGAGAGACGAAAAGGCCTTGAGACTCCAAAAAGAACGGCTTCAAA-GGAACTGGGGGAAAAGAAGCAGAAGgtgtgtgccctgcagacatatattccgcacagtaagtccgatctggagca Alignment from CESAR gGAGATGCAGGAGAGA-GAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tcccctgcattgttggggactagcagactaacgctgatttcttctcccaggGAGATGCAAGAGAGACGAAAAGGCCTTGAGACTCCAAAAAGAACGGCTTC-AAAGGAACTGGGGGAAAAGAAGCAGAAGgtgtgtgccctgcagacatatattccgcacagtaagtccgatctggagca Alignment from Spaln_aa2Genome GGAGATGCAGGAGAGA-GAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG--- tcccctgcattgttggggactagcagactaacgctgatttcttctcccagGGAGATGCAAGAGAGAcGAAAAGGCCTTGAGACTCCAAAAAGAACGGCTTCAAAGGAACTGGGGGAAAAGAAGCAGAAGGTGTgtgccctgcagacatatattccgcacagtaagtccgatctggagca Alignment from Spaln_nt2Genome GGAGATGCAGGAGAGAGAG-AAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tcccctgcattgttggggactagcagactaacgctgatttcttctcccagGGAGATGCAAGAGAGACGAAAAGGCCTTGAGACTCCAAAAAGAACGGCTTCA-AAGGAACTGGGGGAAAAGAAGCAGAAGgtgtgtgccctgcagacatatattccgcacagtaagtccgatctggagca Alignment from Pairagon GGAGATGCAGGAGAGA-GAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tcccctgcattgttggggactagcagactaacgctgatttcttctcccagGGAGATGCAAGAGAGACGAAAAGGCCTTGAGACTCCAAAAAGAACGGCTTCA-AAGGAACTGGGGGAAAAGAAGCAGAAGgtgtgtgccctgcagacatatattccgcacagtaagtccgatctggagca Alignment from Exonerate_protein2genome GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tcccctgcattgttggggactagcagactaacgctgatttcttctcccagGGAGATGCAAGAGAGACGAAAAGGCCTTGAGACTCCAAAAAGAACGGCTTCAAAGGAACTGGGGGAAAAGAAGCAGAAGgtgtgtgccctgcagacatatattccgcacagtaagtccgatctggagca Alignment from Exonerate_coding2genome GCAGGAGCGTCTTCGGGCCAAGAGGGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tcccctgcattgttggggactagcagACTAACGCTGATTTCTTCTCCCAGGGAGATGCAAGAGAGACGAAAAGGCCTTGAGACTCCAAAAAGAACGGCTTCAAAGGAACTGGGGGAAAAGAAGCAGAAGgtgtgtgccctgcagacatatattccgcacagtaagtccgatctggagca Alignment from GeneWise GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tcccctgcattgttggggactagcagactaacgctgatttcttctcccagGGAGATGCAAGAGAGACGAAAAGGCCTTGAGACTCCAAAAAGAACGGCTTCAAAGGAACTGGGGGAAAAGAAGCAGAAGgtgtgtgccctgcagacatatattccgcacagtaagtccgatctggagca #### Incenp_ID2608_11 --> 1 - 0 Original Alignment gAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAA-CAGATGAAGGAGGAAAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAG gttcagaatttacagagactctttgtagttcctttgcactcctgcctcaggAAGCGTGAAGAGCGGCTCCGCAAGGTGCTGCAAGCCCGTGAGAGGGTAGAACCAAATGAAAGAAGAGAGGAAGAAGCAGA-TGAGCAGAAGTTTGCTCAAATTGATGAGAAGACAGAAAAAgtgagcctgccatataacacagtgacacagagcagtgccttcttttggat Alignment from CESAR gAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAA-CAGATGAAGGAGGAAAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAG gttcagaatttacagagactctttgtagttcctttgcactcctgcctcaggAAGCGTGAAGAGCGGCTCCGCAAGGTGCTGCAAGCCCGTGAGAGGGTAGAACCAAATGAAAGAAGAGAGGAAGAAGCAGA-TGAGCAGAAGTTTGCTCAAATTGATGAGAAGACAGAAAAAgtgagcctgccatataacacagtgacacagagcagtgccttcttttggat Alignment from Spaln_aa2Genome GAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAG gttcagaatttacagagactctttgtagttcctttgcactcctgcctcagGAAGCGTGAAGAGCGGCTCCGCAAGGTGCTGCAAGCCCGTGAGAGGGTAGAACCAAATGAAAGAAGAGAGGAAGAAGCAGATGAGCAGAAGTTTGCTCAAATTGATGAGAAGACAGAAAAAgtgagcctgccatataacacagtgacacagagcagtgccttcttttggat Alignment from Spaln_nt2Genome GAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAAC-AGATGAAGGAGGAAAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAG gttcagaatttacagagactctttgtagttcctttgcactcctgcctcagGAAGCGTGAAGAGCGGCTCCGCAAGGTGCTGCAAGCCCGTGAGAGGGTAGAACCAAATGAAAGAAGAGAGGAAGAAGCAGA-TGAGCAGAAGTTTGCTCAAATTGATGAGAAGACAGAAAAAgtgagcctgccatataacacagtgacacagagcagtgccttcttttggat Alignment from Pairagon GAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAA-CAGATGAAGGAGGAAAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAG gttcagaatttacagagactctttgtagttcctttgcactcctgcctcagGAAGCGTGAAGAGCGGCTCCGCAAGGTGCTGCAAGCCCGTGAGAGGGTAGAACCAAATGAAAGAAGAGAGGAAGAAGCAGA-TGAGCAGAAGTTTGCTCAAATTGATGAGAAGACAGAAAAAgtgagcctgccatataacacagtgacacagagcagtgccttcttttggat Alignment from Exonerate_protein2genome GAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAG gttcagaatttacagagactctttgtagttcctttgcactcctgcctcagGAAGCGTGAAGAGCGGCTCCGCAAGGTGCTGCAAGCCCGTGAGAGGGTAGAACCAAATGAAAGAAGAGAGGAAGAAGCAGATGAGCAGAAGTTTGCTCAAATTGATGAGAAGACAGAAAAAgtgagcctgccatataacacagtgacacagagcagtgccttcttttggat Alignment from Exonerate_coding2genome GCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAA-AAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAGGCTAAGGAGGAGCGTCTGGCAGAGAAGGCAAAGAAGAAGGCAACTGCCAAGAAGATGGAAGAG GTTCAGAATTTACAGAGACTCTTTGTAGTTCCTTTGCACTCCTGCCTCAGGAAGCGTGAAGAGCGGCTCCGCAAGGTGCTGCAAGCCCGTGAGAGGGTAGAACCAAATGAAAGAAGAGAGGAAGAAGCAGATGAGCAGAAGTTTGCTCAAATTGATGAGAAGACAGAAAAAgtgagcctgccatataacacagtgacacagagcagtgccttcttttggat Alignment from GeneWise GAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAG gttcagaatttacagagactctttgtagttcctttgcactcctgcctcagGAAGCGTGAAGAGCGGCTCCGCAAGGTGCTGCAAGCCCGTGAGAGGGTAGAACCAAATGAAAGAAGAGAGGAAGAAGCAGATGAGCAGAAGTTTGCTCAAATTGATGAGAAGACAGAAAAAgtgagcctgccatataacacagtgacacagagcagtgccttcttttggat #### Kat5_ID1110_12 --> 2 - 2 Original Alignment gcTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTG-GAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCaa tgggcctataccagggaaaggagcagggccttttatatttttgattttaggcTATGAACTCTCAAAAGTTGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGCGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGG-GAGGCCCCAGATCACCATCaagtcagggaaggtgcaaataagcaggatgtgctatggatctcacagatgta Alignment from CESAR gcTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTG-GAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCaa tgggcctataccagggaaaggagcagggccttttatatttttgattttaggcTATGAACTCTCAAAAGTTGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGCGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGG-GGAGGCCCCAGATCACCATCaagtcagggaaggtgcaaataagcaggatgtgctatggatctcacagatgta Alignment from Spaln_aa2Genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTG-GAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA tgggcctataccagggaaaggagcagggccttttatatttttgattttagGCTATGAACTCTCAAAAGTTGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGcGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGG-AGGCCCCAGATCACCATCAAgtcagggaaggtgcaaataagcaggatgtgctatggatctcacagatgta Alignment from Spaln_nt2Genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTG-GAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA tgggcctataccagggaaaggagcagggccttttatatttttgattttagGCTATGAACTCTCAAAAGTTGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGCGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGG-GAGGCCCCAGATCACCATCAAgtcagggaaggtgcaaataagcaggatgtgctatggatctcacagatgta Alignment from Pairagon GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTG-GAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA tgggcctataccagggaaaggagcagggccttttatatttttgattttagGCTATGAACTCTCAAAAGTTGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGCGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGG-GAGGCCCCAGATCACCATCAAgtcagggaaggtgcaaataagcaggatgtgctatggatctcacagatgta Alignment from Exonerate_protein2genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA tgggcctataccagggaaaggagcagggccttttatatttttgattttagGCTATGAACTCTCAAAAGTTGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGCGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGGAGGCCCCAGATCACCATCAAgtcagggaaggtgcaaataagcaggatgtgctatggatctcacagatgta Alignment from Exonerate_coding2genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA tgggcctataccagggaaaggagcagggccttttatatttttgattttagGCTATGAACTCTCAAAAGTTGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGCGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGGAGGCCCCAGATCACCATCAAgtcagggaaggtgcaaataagcaggatgtgctatggatctcacagatgta Alignment from GeneWise GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA tgggcctataccagggaaaggagcagggccttttatatttttgattttagGCTATGAACTCTCAAAAGTTGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGCGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGGAGGCCCCAGATCACCATCAAgtcagggaaggtgcaaataagcaggatgtgctatggatctcacagatgta #### Kat5_ID1111_11 --> 0 - 1 Original Alignment GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGC-ATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCa agagagttgcaattacccaccaacctgttggccatgctctacccctctagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCCATCTTAACCCTACCCCCCTACCAACGGCGTG-CTATGGTAGATTGCTTATTGAGTTCagtaaggctatactacctgctcatggtctgagctaaatagatcaggttgag Alignment from CESAR GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGC-ATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCa agagagttgcaattacccaccaacctgttggccatgctctacccctctagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCCATCTTAACCCTACCCCCCTACCAACGGCGT-GCTATGGTAGATTGCTTATTGAGTTCagtaaggctatactacctgctcatggtctgagctaaatagatcaggttgag Alignment from Spaln_aa2Genome GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA agagagttgcaattacccaccaacctgttggccatgctctacccctctagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCCATCTTAACCCTACCCCCCTACCAACGGCGTGCTATGGTAGATTGCTTATTGAGTTCAgtaaggctatactacctgctcatggtctgagctaaatagatcaggttgag Alignment from Spaln_nt2Genome GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGC-ATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA agagagttgcaattacccaccaacctgttggccatgctctacccctctagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCCATCTTAACCCTACCCCCCTACCAACGGC-GTGCTATGGTAGATTGCTTATTGAGTTCAgtaaggctatactacctgctcatggtctgagctaaatagatcaggttgag Alignment from Pairagon GAAAAGGAATCCACAGAAGATTACAATGTGGCCTG-CATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA agagagttgcaattacccaccaacctgttggccatgctctacccctctagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCCATCTTAACCCTACCCCCCTACCAACGGC-GTGCTATGGTAGATTGCTTATTGAGTTCAgtaaggctatactacctgctcatggtctgagctaaatagatcaggttgag Alignment from Exonerate_protein2genome GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA agagagttgcaattacccaccaacctgttggccatgctctacccctctagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCCATCTTAACCCTACCCCCCTACCAACGGCGTGCTATGGTAGATTGCTTATTGAGTTCAgtaaggctatactacctgctcatggtctgagctaaatagatcaggttgag Alignment from Exonerate_coding2genome GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA agagagttgcaattacccaccaacctgttggccatgctctacccctctagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCCATCTTAACCCTACCCCCCTACCAACGGCGTGCTATGGTAGATTGCTTATTGAGTTCAgtaaggctatactacctgctcatggtctgagctaaatagatcaggttgag Alignment from GeneWise GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA agagagttgcaattacccaccaacctgttggccatgctctacccctctagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCCATCTTAACCCTACCCCCCTACCAACGGCGTGCTATGGTAGATTGCTTATTGAGTTCAgtaaggctatactacctgctcatggtctgagctaaatagatcaggttgag #### Kat5_ID1115_7 --> 0 - 0 Original Alignment AATGGGTCAGCC-CGTAGG---GCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG taaaatctcatgcatgctgtacgacctttgatccctccctgacctcccagAATGGGTCAACTCTGTCGAGCGGCTGTAGCAGCTCAGGCTGGATGGAAAT-TAAGTCAAACTGCTTAGGCACTGATGAGgtaaggcaaggcacccaagcagggctggatgtagatctgatttctgattg Alignment from CESAR AATGGGTCAGCC----CGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG taaaatctcatgcatgctgtacgacctttgatccctccctgacctcccagAATGGGTCAACTCTGTCGAGCGGCTGTAGCAGCTCAGGCTGGATGGAAA-TTAAGTCAAACTGCTTAGGCACTGATGAGgtaaggcaaggcacccaagcagggctggatgtagatctgatttctgattg Alignment from Spaln_aa2Genome AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGG---AAGCGGAAATCTAATTGCTTGGGCACTGATGAG taaaatctcatgcatgctgtacgacctttgatccctccctgacctcccagAATGGGTCAACTCTGTCGAGCGGCTGTAGCAGCTCAGGCTGGATGGAAATTAAGTCAAACTGCTTAGGCACTGATGAGgtaaggcaaggcacccaagcagggctggatgtagatctgatttctgattg Alignment from Spaln_nt2Genome AATGGGTCAGCCC-GTAG---GGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG taaaatctcatgcatgctgtacgacctttgatccctccctgacctcccagAATGGGTCAACTCTGTCGAGCGGCTGTAGCAGCTCAGGCTGGATGGAA-ATTAAGTCAAACTGCTTAGGCACTGATGAGgtaaggcaaggcacccaagcagggctggatgtagatctgatttctgattg Alignment from Pairagon AATGGGTC----------AGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG taaaatctcatgcatgctgtacgacctttgatccctccctgacctcccagAATGGGTCAACTCTGTCGAGC------GGCTGTAGCAGCTCAGGCTGGATGGAAAT-TAAGTCAAACTGCTTAGGCACTGATGAGgtaaggcaaggcacccaagcagggctggatgtagatctgatttctgattg Alignment from Exonerate_protein2genome AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGA---CGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG taaaatctcatgcatgctgtacgacctttgatccctccctgacctcccagAATGGGTCAACTCTGTCGAGCGGCTGTAGCAGCTCAGGCTGGATGGAAATTAAGTCAAACTGCTTAGGCACTGATGAGgtaaggcaaggcacccaagcagggctggatgtagatctgatttctgattg Alignment from Exonerate_coding2genome ACAGCCCCAGCCTCGGTTTTCCCTCAGAATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGA---CGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG taaaatctcatgcatgctgtacgACCTTTGATCCCTCCCTGACCTCCCAGAATGGGTCAACTCTGTCGAGCGGCTGTAGCAGCTCAGGCTGGATGGAAATTAAGTCAAACTGCTTAGGCACTGATGAGgtaaggcaaggcacccaagcagggctggatgtagatctgatttctgattg Alignment from GeneWise AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGA---CGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG taaaatctcatgcatgctgtacgacctttgatccctccctgacctcccagAATGGGTCAACTCTGTCGAGCGGCTGTAGCAGCTCAGGCTGGATGGAAATTAAGTCAAACTGCTTAGGCACTGATGAGgtaaggcaaggcacccaagcagggctggatgtagatctgatttctgattg #### Kcnip2_ID9604_8 --> 0 - 0 Original Alignment GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAG-TACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG ctcagtggtgcggggtgttatgctacccctcctctactttgttgtcccagGACATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAACTACACCTACCCTGCACTCCGGGAGGAAGCCCCACGGGAACACG-GGAAAGCTTCTTCCAAgtaagcgttgcaacttctggaatagtgggacatgtccagtctaggagtta Alignment from CESAR GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAG-TACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG ctcagtggtgcggggtgttatgctacccctcctctactttgttgtcccagGACATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAACTACACCTACCCTGCACTCCGGGAGGAAGCCCCACGGGAACAC-GGGAAAGCTTCTTCCAAgtaagcgttgcaacttctggaatagtgggacatgtccagtctaggagtta Alignment from Spaln_aa2Genome GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAG-TACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG ctcagtggtgcggggtgttatgctacccctcctctactttgttgtcccagGACATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAAcTACACCTACCCTGCACTCCGGGAGGAAGCCCCACGGGAACACGG-GAAAGCTTCTTCCAAgtaagcgttgcaacttctggaatagtgggacatgtccagtctaggagtta Alignment from Spaln_nt2Genome GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGC-AAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG ctcagtggtgcggggtgttatgctacccctcctctactttgttgtcccagGACATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAACTACACCTACCCTGCACTCCGGGAGGAAGCCCCACGGGAACACG-GGAAAGCTTCTTCCAAgtaagcgttgcaacttctggaatagtgggacatgtccagtctaggagtta Alignment from Pairagon GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAG-TACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG ctcagtggtgcggggtgttatgctacccctcctctactttgttgtcccagGACATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAACTACACCTACCCTGCACTCCGGGAGGAAGCCCCACGGGAACACG-GGAAAGCTTCTTCCAAgtaagcgttgcaacttctggaatagtgggacatgtccagtctaggagtta Alignment from Exonerate_protein2genome GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAG-TACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACAC--GTGGAGAGCTTCTTCCAG ctcagtggtgcggggtgttatgctacccctcctctactttgttgtcccagGACATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAACTACACCTACCCTGCACTCCGGGAGGAAGCCCCACGGGAACACGG---GAAAGCTTCTTCCAAgtaagcgttgcaacttctggaatagtgggacatgtccagtctaggagtta Alignment from Exonerate_coding2genome GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAG-TACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACAC--GTGGAGAGCTTCTTCCAG ctcagtggtgcggggtgttatgctacccctcctctactttgttgtcccagGACATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAACTACACCTACCCTGCACTCCGGGAGGAAGCCCCACGGGAACACGG---GAAAGCTTCTTCCAAgtaagcgttgcaacttctggaatagtgggacatgtccagtctaggagtta Alignment from GeneWise GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG ctcagtggtgcggggtgttatgctacccctcctctactttgttgtcccagGACATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAACTACACCTACCCTGCACTCCGGGAGGAAGCCCCACGGGAACACGGGAAAGCTTCTTCCAAgtaagcgttgcaacttctggaatagtgggacatgtccagtctaggagtta #### Kcnip2_ID9608_4 --> 2 - 0 Original Alignment acAGCGTGGAGGATGAGTTTGAACTA-TCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAG---TTGCAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggctagtgccagtcatgaagtattttctctctctccaatatttagatAGTGTTGAGGATGAGTTTGAACTGCTCAATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGA-ACACGCCAAGTTTGCACATAGAGAGTTGCTGCAAGTCTTGTATAGAGGATTCAAAAATgtgaggggggaatgaaaccacctgcggtagaccctccaaacttctaagct Alignment from CESAR acAGCGTGGAGGATGAGTTTGAACTA-TCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAGTTG---CAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggctagtgccagtcatgaagtattttctctctctccaatatttagatAGTGTTGAGGATGAGTTTGAACTGCTCAATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTAC-AGAACACGCCAAGTTTGCACATAGAGAGTTGCTGCAAGTCTTGTATAGAGGATTCAAAAATgtgaggggggaatgaaaccacctgcggtagaccctccaaacttctaagct Alignment from Spaln_aa2Genome ACAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAG---TTGCAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggctagtgccagtcatgaagtattttctctctctccaatatttagATAGTGTTGAGGATGAGTTTGAACTGCTCAATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAACACGCCAAGTTTGCACATAGAGAGTTGCTGCAAGTCTTGTATAGAGGATTCAAAAATgtgaggggggaatgaaaccacctgcggtagaccctccaaacttctaagct Alignment from Spaln_nt2Genome ACAGCGTGGAGGATGAGTTTGAACTA-TCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAGTTGCAG---GTCCTGTACAGAGGCTTCAAGAAC tgaagggctagtgccagtcatgaagtattttctctctctccaatatttagATAGTGTTGAGGATGAGTTTGAACTGCTCAATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACA-GAACACGCCAAGTTTGCACATAGAGAGTTGCTGCAAGTCTTGTATAGAGGATTCAAAAATgtgaggggggaatgaaaccacctgcggtagaccctccaaacttctaagct Alignment from Pairagon ACAGCGTGGAGGATGAGTTTGAACTA-TCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAGT---TGCAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggctagtgccagtcatgaagtattttctctctctccaatatttagATAGTGTTGAGGATGAGTTTGAACTGCTCAATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACA-GAACACGCCAAGTTTGCACATAGAGAGTTGCTGCAAGTCTTGTATAGAGGATTCAAAAATgtgaggggggaatgaaaccacctgcggtagaccctccaaacttctaagct Alignment from Exonerate_protein2genome ACAGCGTGGAGGATGAGTTTGAACTA-TCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTC--ACACGCAGAGAGTTGCAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggctagtgccagtcatgaagtattttctctctctccaatatttagATAGTGTTGAGGATGAGTTTGAACTGCTCAATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAACACGCCAAGTTTGCACATAGAGAGTTGCTGCAAGTCTTGTATAGAGGATTCAAAAATgtgaggggggaatgaaaccacctgcggtagaccctccaaacttctaagct Alignment from Exonerate_coding2genome ACAGCGTGGAGGATGAGTTTGAACTA-TCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTC--ACACGCAGAGAGTTGCAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggctagtgccagtcatgaagtattttctctctctccaatatttagATAGTGTTGAGGATGAGTTTGAACTGCTCAATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAACACGCCAAGTTTGCACATAGAGAGTTGCTGCAAGTCTTGTATAGAGGATTCAAAAATgtgaggggggaatgaaaccacctgcggtagaccctccaaacttctaagct Alignment from GeneWise ACAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAGTTG---CAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggctagtgccagtcatgaagtattttctctctctccaatatttagATAGTGTTGAGGATGAGTTTGAACTGCTCAATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAACACGCCAAGTTTGCACATAGAGAGTTGCTGCAAGTCTTGTATAGAGGATTCAAAAATgtgaggggggaatgaaaccacctgcggtagaccctccaaacttctaagct #### Kdm2a_ID518_3 --> 2 - 2 Original Alignment atTTTAATGTAGAGTAT-ATCCAGCGGGGTGGCTTGAGAGACCCTCTCATTTTCAAGAATTCTGATGGACTTGGAATAaa atgatcaccaatcttacagaagtgtgttaacatcctgtatttgtaaacagatTTTAATGATGAATATCTTACAACAGGGTGGGCTGAGACACCACCTTACCT-TAAGAATGCAGATGGACTTGGAATCaggtaaggcctctgggtcataatcctatgataattgggatgtataagcaaaa Alignment from CESAR atTTTAATGTAGAGTATATC-CAGCGGGGTGGCTTGAGAGACCCTCTCATTTTCAAGAATTCTGATGGACTTGGAATAaa atgatcaccaatcttacagaagtgtgttaacatcctgtatttgtaaacagatTTTAATGATGAATATCTTACAACAGGGTGGGCTGAGACACCACCTT-ACCTTAAGAATGCAGATGGACTTGGAATCaggtaaggcctctgggtcataatcctatgataattgggatgtataagcaaaa Alignment from Spaln_aa2Genome ATTTTAATGTAGAGTATATCCAGCGGGGTGGCTTGAGAGACCCTCTCATTTTCAAGAATTCTGATGGACTTGGAATAAA atgatcaccaatcttacagaagtgtgttaacatcctgtatttgtaaacagATTTTAATGATGAATATCTTACAACAGGGTGGGCTGAGACACCACCTTACCTTAAGAATGCAGATGGACTTGGAATCAGgtaaggcctctgggtcataatcctatgataattgggatgtataagcaaaa Alignment from Spaln_nt2Genome ATTTTAATGTAGAGTATATC-CAGCGGGGTGGCTTGAGAGACCCTCTCATTTTCAAGAATTCTGATGGACTTGGAATAAA atgatcaccaatcttacagaagtgtgttaacatcctgtatttgtaaacagATTTTAATGATGAATATCTTACAACAGGGTGGGCTGAGACACCACCTTACCTT-AAGAATGCAGATGGACTTGGAATCAGgtaaggcctctgggtcataatcctatgataattgggatgtataagcaaaa Alignment from Pairagon ATTTTAATGTAGAGTATATC-CAGCGGGGTGGCTTGAGAGACCCTCTCATTTTCAAGAATTCTGATGGACTTGGAATAAA atgatcaccaatcttacagaagtgtgttaacatcctgtatttgtaaacagATTTTAATGATGAATATCTTACAACAGGGTGGGCTGAGACACCACCTTACCTT-AAGAATGCAGATGGACTTGGAATCAGgtaaggcctctgggtcataatcctatgataattgggatgtataagcaaaa Alignment from Exonerate_protein2genome ATTTTAATGTAGAGTATATCCAGCGGGGTGGCTTGAGAGACCCTCTCATTTTCAAGAATTCTGATGGACTTGGAATAAA atgatcaccaatcttacagaagtgtgttaacatcctgtatttgtaaacagATTTTAATGATGAATATCTTACAACAGGGTGGGCTGAGACACCACCTTACCTTAAGAATGCAGATGGACTTGGAATCAGgtaaggcctctgggtcataatcctatgataattgggatgtataagcaaaa Alignment from Exonerate_coding2genome ATTTTAATGTAGAGTATATCCAGCGGGGTGGCTTGAGAGACCCTCTCATTTTCAAGAATTCTGATGGACTTGGAATAAA atgatcaccaatcttacagaagtgtgttaacatcctgtatttgtaaacagATTTTAATGATGAATATCTTACAACAGGGTGGGCTGAGACACCACCTTACCTTAAGAATGCAGATGGACTTGGAATCAGgtaaggcctctgggtcataatcctatgataattgggatgtataagcaaaa Alignment from GeneWise ATTTTAATGTAGAGTATATCCAGCGGGGTGGCTTGAGAGACCCTCTCATTTTCAAGAATTCTGATGGACTTGGAATAAA atgatcaccaatcttacagaagtgtgttaacatcctgtatttgtaaacagATTTTAATGATGAATATCTTACAACAGGGTGGGCTGAGACACCACCTTACCTTAAGAATGCAGATGGACTTGGAATCAGgtaaggcctctgggtcataatcctatgataattgggatgtataagcaaaa #### Kif11_ID7318_8 --> 0 - 0 Original Alignment GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAAT-ATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG tcaaactatggaagctgcagcttgaccagcccacctttcttctgttgaagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTCAAGAGAGCACGCAAAGCTGGAAATCATCAACCAATCTCTCTTAACTCTGGGAAGAGTAA-TACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGTGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAAgtgagtcagatagtagccatgacacacaaactcattggtctcttcagcca Alignment from CESAR GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAAT-ATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG tcaaactatggaagctgcagcttgaccagcccacctttcttctgttgaagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTCAAGAGAGCACGCAAAGCTGGAAATCATCAACCAATCTCTCTTAACTCTGGGAAGAGTAA-TACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGTGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAAgtgagtcagatagtagccatgacacacaaactcattggtctcttcagcca Alignment from Spaln_aa2Genome GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG tcaaactatggaagctgcagcttgaccagcccacctttcttctgttgaagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTCAAGAGAGCACGCAAAGCTGGAAATCATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGTGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAAgtgagtcagatagtagccatgacacacaaactcattggtctcttcagcca Alignment from Spaln_nt2Genome GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAAT-ATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG tcaaactatggaagctgcagcttgaccagcccacctttcttctgttgaagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTCAAGAGAGCACGCAAAGCTGGAAATCATCAACCAATCTCTCTTAACTCTGGGAAGAG-TAATACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGTGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAAgtgagtcagatagtagccatgacacacaaactcattggtctcttcagcca Alignment from Pairagon GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAAT-ATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG tcaaactatggaagctgcagcttgaccagcccacctttcttctgttgaagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTCAAGAGAGCACGCAAAGCTGGAAATCATCAACCAATCTCTCTTAACTCTGGGAAGAG-TAATACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGTGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAAgtgagtcagatagtagccatgacacacaaactcattggtctcttcagcca Alignment from Exonerate_protein2genome GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG tcaaactatggaagctgcagcttgaccagcccacctttcttctgttgaagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTCAAGAGAGCACGCAAAGCTGGAAATCATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGTGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAAgtgagtcagatagtagccatgacacacaaactcattggtctcttcagcca Alignment from Exonerate_coding2genome GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG tcaaactatggaagctgcagcttgaccagcccacctttcttctgttgaagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTCAAGAGAGCACGCAAAGCTGGAAATCATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGTGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAAgtgagtcagatagtagccatgacacacaaactcattggtctcttcagcca Alignment from GeneWise GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG tcaaactatggaagctgcagcttgaccagcccacctttcttctgttgaagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTCAAGAGAGCACGCAAAGCTGGAAATCATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGTGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAAgtgagtcagatagtagccatgacacacaaactcattggtctcttcagcca #### Kif20b_ID6998_3 --> 0 - 0 Original Alignment GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGAC-CCTCAAAGCATCCTTGGCCACTTA---AGTGAGAAGAGCTCTGGACAGGTGGCA---------CAGAAATTCAGTTTTTCTAAG ctggctataaacacagtctctcacgagatatatattccccccacccacag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCCACAGAGTATGCTTGGTCACTTGTTGAGTC-GAAAAGCTCTGGCCAGGTA---CGCCAGGTACAGGAATTTAGCTTTTCTAAGgtaagtgtaagtatggtggattgaccacgttgaacgctctatcaagaggt Alignment from CESAR GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGAC-CCTCAAAGCATCCTTGGCCAC---TTAAGTGAGAAGAGCTCTGGACAGGTG------GCACAGAAATTCAGTTTTTCTAAG ctggctataaacacagtctctcacgagatatatattccccccacccacag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCCACAGAGTATGCTTGGTCACTTGTTGAGT-CGAAAAGCTCTGGCCAGGTACGCCAGGTACAGGAATTTAGCTTTTCTAAGgtaagtgtaagtatggtggattgaccacgttgaacgctctatcaagaggt Alignment from Spaln_aa2Genome GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAG---AAGAGCTCTGGACAGGTG------GCACAGAAATTCAGTTTTTCTAAG ctggctataaacacagtctctcacgagatatatattccccccacccacag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCCACAGAGTATGCTTGGTCACTTGTTGAGTCGAAAAGCTCTGGCCAGGTACGCCAGGTACAGGAATTTAGCTTTTCTAAGgtaagtgtaagtatggtggattgaccacgttgaacgctctatcaagaggt Alignment from Spaln_nt2Genome TGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCT-CAAAGCATCCTTGGCCACTTAAGTGAG---AAGAGCTCTGGACAGGT------GGCACAGAAATTCAGTTTTTCTAAG ctggctataaacacagtctctcacgagatatatattccccccacccacag-GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCCACAGAGTATGCTTGGTCACTT-GTTGAGTCGAAAAGCTCTGGCCAGGTACGCCAGGTACAGGAATTTAGCTTTTCTAAGgtaagtgtaagtatggtggattgaccacgttgaacgctctatcaagaggt Alignment from Pairagon GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCT-CAAAGCATCCTTGGCCACTT----------AAGTGAGAAGAGCTCTGGACAGGT------GGCACAGAAATTCAGTTTTTCTAAG ctggctataaacacagtctctcacgagatatatattccccccacccacag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCCACAGAGTATGCTTGGTCACTTGTTGAGTCGAAA--------AGCTCTGGCCAGGTACGCCAGGTACAGGAATTTAGCTTTTCTAAGgtaagtgtaagtatggtggattgaccacgttgaacgctctatcaagaggt Alignment from Exonerate_protein2genome GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAG---AAGAGCTCTGGACAGGTG------GCACAGAAATTCAGTTTTTCTAAG ctggctataaacacagtctctcacgagatatatattccccccacCCACAGGTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCCACAGAGTATGCTTGGTCACTTGTTGAGTCGAAAAGCTCTGGCCAGGTACGCCAGGTACAGGAATTTAGCTTTTCTAAGgtaagtgtaagtatggtggattgaccacgttgaacgctctatcaagaggt Alignment from Exonerate_coding2genome GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAG---AAGAGCTCTGGACAGGTG------GCACAGAAATTCAGTTTTTCTAAG ctggctataaacacagtctctcacgagatatatattccccccacCCACAGGTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCCACAGAGTATGCTTGGTCACTTGTTGAGTCGAAAAGCTCTGGCCAGGTACGCCAGGTACAGGAATTTAGCTTTTCTAAGgtaagtgtaagtatggtggattgaccacgttgaacgctctatcaagaggt Alignment from GeneWise ---CAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAG---AAGAGCTCTGGACAGGTG------GCACAGAAATTCAGTTTTTCTAAG ctggctataaacacagtctctcacgagatatatattccccccacccacagGTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCCACAGAGTATGCTTGGTCACTTGTTGAGTCGAAAAGCTCTGGCCAGGTACGCCAGGTACAGGAATTTAGCTTTTCTAAGgtaagtgtaagtatggtggattgaccacgttgaacgctctatcaagaggt #### Kif20b_ID7002_7 --> 2 - 1 Original Alignment gaCACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTG-TTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAg gacagattttgaggtttgcagttgaactctgacctgtgcctctcatctagggCACTTTACAAACTCTTTAACTATTCCAGAGTTTGAGGAACCTGTCAACAGG---------CCAAGTTTAAATGTAGATAATATAAAGTATTCTGTGTGGGTCTCATTCTTTGAAATCTATAACAAAAGTATATTC---TTGCTTTGTGCCTGTTTCCTCCAAGTTTCAAAAGAGAA-AATGTTACGAATTGCTCAGGACATAAAGGGATATTCTTTTATTAAAggtaagtccatcttgttaaagaaggagcatatgttacaactatttcacatt Alignment from CESAR gaCACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAg gacagattttgaggtttgcagttgaactctgacctgtgcctctcatctagggCACTTTACAAACTCTTTAACTATTCCAGAGTTTGAGGAACCTGTCAAC---------AGGCCAAGTTTAAATGTAGATAATATAAAGTATTCTGTGTGGGTCTCATTCTTTGAAATCTATAACAAAAGTATATTCTTGC--TTTGTGCCTGTTTCCTCCAAGTTTCAAAAGA-GAAAATGTTACGAATTGCTCAGGACATAAAGGGATATTCTTTTATTAAAggtaagtccatcttgttaaagaaggagcatatgttacaactatttcacatt Alignment from Spaln_aa2Genome GACACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAG gacagattttgaggtttgcagttgaactctgacctgtgcctctcatctagGGCACTTTACAAACTCTTTAACTATTCCAGAGTTTGAGGAACCTGTCAAC---------AGGCCAAGTTTAAATGTAGATAATATAAAGTATTCTGTGTGGGTCTCATTCTTTGAAATCTATAACAAAAGTATATTCT--TGCTTTGTGCCTGTTTCCTCCAAGTTTCAAAAGAGAAA-ATGTTACGAATTGCTCAGGACATAAAGGGATATTCTTTTATTAAAGgtaagtccatcttgttaaagaaggagcatatgttacaactatttcacatt Alignment from Spaln_nt2Genome GACACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAG gacagattttgaggtttgcagttgaactctgacctgtgcctctcatctagGGCACTTTACAAACTCTTTAACTATTCCAGAGTTTGAGGAACCTGTCAACAG---------GCCAAGTTTAAATGTAGATAATATAAAGTATTCTGTGTGGGTCTCATTCTTTGAAATCTATAACAAAAGTATATTC--TTGCTTTGTGCCTGTTTCCTCCAAGTTTCAAAAGAG-AAAATGTTACGAATTGCTCAGGACATAAAGGGATATTCTTTTATTAAAGgtaagtccatcttgttaaagaaggagcatatgttacaactatttcacatt Alignment from Pairagon GACACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAG gacagattttgaggtttgcagttgaactctgacctgtgcctctcatctagGGCACTTTACAAACTCTTTAACTATTCCAGAGTTTGAGGAACCTGTCAACAG---------GCCAAGTTTAAATGTAGATAATATAAAGTATTCTGTGTGGGTCTCATTCTTTGAAATCTATAACAAAAGTATATTC--TTGCTTTGTGCCTGTTTCCTCCAAGTTTCAAAAGAG-AAAATGTTACGAATTGCTCAGGACATAAAGGGATATTCTTTTATTAAAGgtaagtccatcttgttaaagaaggagcatatgttacaactatttcacatt Alignment from Exonerate_protein2genome GACACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAG gacagattttgaggtttgcagttgaactctgacctgtgcctctcatctagGGCACTTTACAAACTCTTTAACTATTCCAGAGTTTGAGGAACCTGTCAAC---------AGGCCAAGTTTAAATGTAGATAATATAAAGTATTCTGTGTGGGTCTCATTCTTTGAAATCTATAACAAAAGTATATTC---TTGCTTTGTGCCTGTTTCCTCCAAGTTTCAAAAGAGAAAATGTTACGAATTGCTCAGGACATAAAGGGATATTCTTTTATTAAAGgtaagtccatcttgttaaagaaggagcatatgttacaactatttcacatt Alignment from Exonerate_coding2genome GTTACCATACATAATGACAGTTATGACGTTCTTTGTGGACACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAG gacagattttgagGTTTGCAGTTGAACTCTGACCTGTGCCTCTCATCTAGGGCACTTTACAAACTCTTTAACTATTCCAGAGTTTGAGGAACCTGTCAAC---------AGGCCAAGTTTAAATGTAGATAATATAAAGTATTCTGTGTGGGTCTCATTCTTTGAAATCTATAACAAAAGTATATTC---TTGCTTTGTGCCTGTTTCCTCCAAGTTTCAAAAGAGAAAATGTTACGAATTGCTCAGGACATAAAGGGATATTCTTTTATTAAAGgtaagtccatcttgttaaagaaggagcatatgttacaactatttcacatt Alignment from GeneWise GACACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAG gacagattttgaggtttgcagttgaactctgacctgtgcctctcatctagGGCACTTTACAAACTCTTTAACTATTCCAGAGTTTGAGGAACCTGTCAAC---------AGGCCAAGTTTAAATGTAGATAATATAAAGTATTCTGTGTGGGTCTCATTCTTTGAAATCTATAACAAAAGTATATTC---TTGCTTTGTGCCTGTTTCCTCCAAGTTTCAAAAGAGAAAATGTTACGAATTGCTCAGGACATAAAGGGATATTCTTTTATTAAAGgtaagtccatcttgttaaagaaggagcatatgttacaactatttcacatt #### Kif20b_ID7005_10 --> 1 - 2 Original Alignment aTTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAAT-ATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAaa cgttttggaaagaaagtctctgcagcactaggactgatgttgccttgcaggTTGTCGCCGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACGCAGAATGAAGGTGAGAGGCCAAGAGAAGCAGGAAATCATCAACACACCCTTGTTGACCTTGGGAATGT-TGTCAATGTATTAAAGAACAGTGAGAAGTCAaagtaagtgccagttgtgtcatagaatctgctgttctgagtactttctagga Alignment from CESAR aTTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAAT-ATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAaa cgttttggaaagaaagtctctgcagcactaggactgatgttgccttgcaggTTGTCGCCGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACGCAGAATGAAGGTGAGAGGCCAAGAGAAGCAGGAAATCATCAACACACCCTTGTTGACCTTGGGAATG-TTGTCAATGTATTAAAGAACAGTGAGAAGTCAaagtaagtgccagttgtgtcatagaatctgctgttctgagtactttctagga Alignment from Spaln_aa2Genome ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA cgttttggaaagaaagtctctgcagcactaggactgatgttgccttgcagGTTGTCGCCGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACGCAGAATGAAGGTGAGAGGCCAAGAGAAGCAGGAAATCATCAACACACCCTTGTTGACCTTGGGAATGTTGTCAATGTATTAAAGAACAGTGAGAAGTCAAAgtaagtgccagttgtgtcatagaatctgctgttctgagtactttctagga Alignment from Spaln_nt2Genome ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAAT-ATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA cgttttggaaagaaagtctctgcagcactaggactgatgttgccttgcagGTTGTCGCCGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACGCAGAATGAAGGTGAGAGGCCAAGAGAAGCAGGAAATCATCAACACACCCTTGTTGACCTTGGGAATGT-TGTCAATGTATTAAAGAACAGTGAGAAGTCAAAgtaagtgccagttgtgtcatagaatctgctgttctgagtactttctagga Alignment from Pairagon ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAAT-ATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA cgttttggaaagaaagtctctgcagcactaggactgatgttgccttgcagGTTGTCGCCGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACGCAGAATGAAGGTGAGAGGCCAAGAGAAGCAGGAAATCATCAACACACCCTTGTTGACCTTGGGAATGT-TGTCAATGTATTAAAGAACAGTGAGAAGTCAAAgtaagtgccagttgtgtcatagaatctgctgttctgagtactttctagga Alignment from Exonerate_protein2genome ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA cgttttggaaagaaagtctctgcagcactaggactgatgttgccttgcagGTTGTCGCCGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACGCAGAATGAAGGTGAGAGGCCAAGAGAAGCAGGAAATCATCAACACACCCTTGTTGACCTTGGGAATGTTGTCAATGTATTAAAGAACAGTGAGAAGTCAAAgtaagtgccagttgtgtcatagaatctgctgttctgagtactttctagga Alignment from Exonerate_coding2genome ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA cgttttggaaagaaagtctctgcagcactaggactgatgttgccttgcagGTTGTCGCCGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACGCAGAATGAAGGTGAGAGGCCAAGAGAAGCAGGAAATCATCAACACACCCTTGTTGACCTTGGGAATGTTGTCAATGTATTAAAGAACAGTGAGAAGTCAAAgtaagtgccagttgtgtcatagaatctgctgttctgagtactttctagga Alignment from GeneWise ---------------------------------------------------TTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA CGTTTTGGAAAGAAAGTCTCTGCAGCACTAGGACTGATGTTGCCTTGCAGGTTGTCGCCGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACGCAGAATGAAGGTGAGAGGCCAAGAGAAGCAGGAAATCATCAACACACCCTTGTTGACCTTGGGAATGTTGTCAATGTATTAAAGAACAGTGAGAAGTCAAAgtaagtgccagttgtgtcatagaatctgctgttctgagtactttctagga #### Kif20b_ID7008_13 --> 0 - 2 Original Alignment GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTT-AAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTaa tacaaggcttggttataaaatgtaaacaatgttgttttctttatttttagGAGCTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAAAATCAAGAAAAATTGTCATTAGAACTTCAAGATCCGGGAAGATGTTACACAAAAATTCA-TCAGTATTGGAGCCATCGGGAAGCTGATTATaagtaagttatgtctaaattcttgtcatgatagcacaaacatcagtgtgtaa Alignment from CESAR GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTT-AAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTaa tacaaggcttggttataaaatgtaaacaatgttgttttctttatttttagGAGCTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAAAATCAAGAAAAATTGTCATTAGAACTTCAAGATCCGGGAAGATGTTACACAAAAATTC-ATCAGTATTGGAGCCATCGGGAAGCTGATTATaagtaagttatgtctaaattcttgtcatgatagcacaaacatcagtgtgtaa Alignment from Spaln_aa2Genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA tacaaggcttggttataaaatgtaaacaatgttgttttctttatttttagGAGCTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAAAATCAAGAAAAATTGTCATTAGAACTTCAAGATCCGGGAAGATGTTACACAAAAATTCATCAGTATTGGAGCCATCGGGAAGCTGATTATAAgtaagttatgtctaaattcttgtcatgatagcacaaacatcagtgtgtaa Alignment from Spaln_nt2Genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAA-ATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA tacaaggcttggttataaaatgtaaacaatgttgttttctttatttttagGAGCTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAAAATCAAGAAAAATTGTCATTAGAACTTCAAGATCCGGGAAGATGTTACACAAAAATTCA-TCAGTATTGGAGCCATCGGGAAGCTGATTATAAgtaagttatgtctaaattcttgtcatgatagcacaaacatcagtgtgtaa Alignment from Pairagon GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTT-AAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA tacaaggcttggttataaaatgtaaacaatgttgttttctttatttttagGAGCTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAAAATCAAGAAAAATTGTCATTAGAACTTCAAGATCCGGGAAGATGTTACACAAAAATTCA-TCAGTATTGGAGCCATCGGGAAGCTGATTATAAgtaagttatgtctaaattcttgtcatgatagcacaaacatcagtgtgtaa Alignment from Exonerate_protein2genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA tacaaggcttggttataaaatgtaaacaatgttgttttctttatttttagGAGCTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAAAATCAAGAAAAATTGTCATTAGAACTTCAAGATCCGGGAAGATGTTACACAAAAATTCATCAGTATTGGAGCCATCGGGAAGCTGATTATAAgtaagttatgtctaaattcttgtcatgatagcacaaacatcagtgtgtaa Alignment from Exonerate_coding2genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA tacaaggcttggttataaaatgtaaacaatgttgttttctttatttttagGAGCTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAAAATCAAGAAAAATTGTCATTAGAACTTCAAGATCCGGGAAGATGTTACACAAAAATTCATCAGTATTGGAGCCATCGGGAAGCTGATTATAAgtaagttatgtctaaattcttgtcatgatagcacaaacatcagtgtgtaa Alignment from GeneWise GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA tacaaggcttggttataaaatgtaaacaatgttgttttctttatttttagGAGCTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAAAATCAAGAAAAATTGTCATTAGAACTTCAAGATCCGGGAAGATGTTACACAAAAATTCATCAGTATTGGAGCCATCGGGAAGCTGATTATAAgtaagttatgtctaaattcttgtcatgatagcacaaacatcagtgtgtaa #### Klc2_ID853_13 --> 0 - 2 Original Alignment GACGGCAGCGGCTCTCTGCGGCGC-AGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTag ggggcataaccaatctcttttgagcctgctggctcccttcctcttcacagGATGGAAGCGGTTCCCTGCAGTGCCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCA-CAGTGAAATGCTCGTAAGGAAATTGCAGGGGGGTGGGCCACAGGAGCCCTCTAATTCTaggtaacggctcacctcttgcatccatatcattaatgatgacttgcagggca Alignment from CESAR GACGGCAGCGGCTCTCTGCGGCGC-AGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTag ggagcataaccaatctcttttgagcctgctggctcccttcctcttcacagGATGGAAGCGGTTCCCTGCAGTGCCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGC-ACAGTGAAATGCTCGTAAGGAAATTGCAGGGGGGTGGGCCACAGGAGCCCTCTAATTCTaggtaacggctcacctcttgcatccatatcattaatgatgacttgcagggca Alignment from Spaln_aa2Genome GACGGCAGCGGCTCTCTGCGGCGC-AGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG ggggcataaccaatctcttttgagcctgctggctcccttcctcttcacagGATGGAAGCGGTTCCCTGCAGTGCcAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCAC-AGTGAAATGCTCGTAAGGAAATTGCAGGGGGGTGGGCCACAGGAGCCCTCTAATTCTAGgtaacggctcacctcttgcatccatatcattaatgatgacttgcagggca Alignment from Spaln_nt2Genome GACGGCAGCGGCTCTCTGCGGCGC-AGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG ggggcataaccaatctcttttgagcctgctggctcccttcctcttcacagGATGGAAGCGGTTCCCTGCAGTGCCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCA-CAGTGAAATGCTCGTAAGGAAATTGCAGGGGGGTGGGCCACAGGAGCCCTCTAATTCTAGgtaacggctcacctcttgcatccatatcattaatgatgacttgcagggca Alignment from Pairagon GACGGCAGCGGCTCTCTGCGGCG-CAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG ggggcataaccaatctcttttgagcctgctggctcccttcctcttcacagGATGGAAGCGGTTCCCTGCAGTGCCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCA-CAGTGAAATGCTCGTAAGGAAATTGCAGGGGGGTGGGCCACAGGAGCCCTCTAATTCTAGgtaacggctcacctcttgcatccatatcattaatgatgacttgcagggca Alignment from Exonerate_protein2genome GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG ggggcataaccaatctcttttgagcctgctggctcccttcctcttcacagGATGGAAGCGGTTCCCTGCAGTGCCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCACAGTGAAATGCTCGTAAGGAAATTGCAGGGGGGTGGGCCACAGGAGCCCTCTAATTCTAGgtaacggctcacctcttgcatccatatcattaatgatgacttgcagggca Alignment from Exonerate_coding2genome ggggcataaccaatctcttttgagcctgctggctcccttcctcttcacaggatggaagcggttccctgcagtgccagtggttcttttgggaaactccgagatgctctaagacgcacagtgaaatgctcgtaaggaaattgcaggggggtgggccacaggagccctctaattctaggtaacggctcacctcttgcatccatatcattaatgatgacttgcagggca Alignment from GeneWise GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAGG ggggcataaccaatctcttttgagcctgctggctcccttcctcttcacagGATGGAAGCGGTTCCCTGCAGTGCCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCACAGTGAAATGCTCGTAAGGAAATTGCAGGGGGGTGGGCCACAGGAGCCCTCTAATTCTAGGtaacggctcacctcttgcatccatatcattaatgatgacttgcagggca #### Klc2_ID854_12 --> 0 - 0 Original Alignment GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGC-AGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG tcttgtgtatatttttgcagggcctaacgtatcattatgtttctgtgcagGGCCTAGACCCTGCCAGTCAGACAAAGGTCATCAAGCTATTAAAGGATGGTCAGCAGTGGACACAGCCAATGCCGTGGTA-TAGAGATGTGATTGGGCCT---CCTGAACTAGATTTGGAAGAGTCAGAGCCAATGGCTCACTGGGGTGGTgtaggagcataaccaatctcttttgagcctgacctcttctgtgtttcctt Alignment from CESAR GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGC-AGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG tcttgtgtatatttttgcagggcctaacgtatcattatgtttctgtgcagGGCCTAGACCCTGCCAGTCAGACAAAGGTCATCAAGCTATTAAAGGATGGTCAGCAGTGGACACAGCCAATGCCGTGGT-ATAGAGATGTGATTGGGCCT---CCTGAACTAGATTTGGAAGAGTCAGAGCCAATGGCTCACTGGGGTGGTgtaggagcataaccaatctcttttgagcctgctggctcccttcctcttca Alignment from Spaln_aa2Genome GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG tcttgtgtatatttttgcagggcctaacgtatcattatgtttctgtgcagGGCCTAGACCCTGCCAGTCAGACAAAGGTCATCAAGCTATTAAAGGATGGTCAGCAGTGGACACAGCCAATGCCGTGGTATAGAGATGTGATTGGGCCT---CCTGAACTAGATTTGGAAGAGTCAGAGCCAATGGCTCACTGGGGTGGTgtaggagcataaccaatctcttttgagcctgacctcttctgtgtttcctt Alignment from Spaln_nt2Genome GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGG-CAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG tcttgtgtatatttttgcagggcctaacgtatcattatgtttctgtgcagGGCCTAGACCCTGCCAGTCAGACAAAGGTCATCAAGCTATTAAAGGATGGTCAGCAGTGGACACAGCCAATGCCGTGGTA-TAGAGATGTGATTGGGCCTC---CTGAACTAGATTTGGAAGAGTCAGAGCCAATGGCTCACTGGGGTGGTgtaggagcataaccaatctcttttgagcctgacctcttctgtgtttcctt Alignment from Pairagon GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGG-CAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG tcttgtgtatatttttgcagggcctaacgtatcattatgtttctgtgcagGGCCTAGACCCTGCCAGTCAGACAAAGGTCATCAAGCTATTAAAGGATGGTCAGCAGTGGACACAGCCAATGCCGTGGTA-TAGAGATGTGATTGGGCCTC---CTGAACTAGATTTGGAAGAGTCAGAGCCAATGGCTCACTGGGGTGGTgtaggagcataaccaatctcttttgagcctgacctcttctgtgtttcctt Alignment from Exonerate_protein2genome GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG tcttgtgtatatttttgcagggcctaacgtatcattatgtttctgtgcagGGCCTAGACCCTGCCAGTCAGACAAAGGTCATCAAGCTATTAAAGGATGGTCAGCAGTGGACACAGCCAATGCCGTGGTATAGAGATGTGATTGGGCCT---CCTGAACTAGATTTGGAAGAGTCAGAGCCAATGGCTCACTGGGGTGGTgtaggagcataaccaatctcttttgagcctgacctcttctgtgtttcctt Alignment from Exonerate_coding2genome tcttgtgtatatttttgcagggcctaacgtatcattatgtttctgtgcagggcctagaccctgccagtcagacaaaggtcatcaagctattaaaggatggtcagcagtggacacagccaatgccgtggtatagagatgtgattgggcctcctgaactagatttggaagagtcagagccaatggctcactggggtggtgtaggagcataaccaatctcttttgagcctgacctcttctgtgtttcctt Alignment from GeneWise GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG tcttgtgtatatttttgcagggcctaacgtatcattatgtttctgtgcagGGCCTAGACCCTGCCAGTCAGACAAAGGTCATCAAGCTATTAAAGGATGGTCAGCAGTGGACACAGCCAATGCCGTGGTATAGAGATGTGATTGGGCCTCCT---GAACTAGATTTGGAAGAGTCAGAGCCAATGGCTCACTGGGGTGGTgtaggagcataaccaatctcttttgagcctgacctcttctgtgtttcctt #### Klc2_ID855_11 --> 1 - 0 Original Alignment tCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTG-GAAGCCGCA---CACACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG taccactatcaggccaaattacttttcactgttccctgtgctttctgtagtCCTACAGTCAATACCAGATTGCGAAGCTGGGGTACGCTGTACTGGCATGAAGGCAAACTGCGATGCTACACAACACACACTGAAAGACTGTTCAA-CCATAGTTGCAAACAGgtaggtctttcatccctggggataaatagggccacattcttgtgtatatt Alignment from CESAR tCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTG-GAAGCCGCA---CACACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG taccactatcaggccaaattacttttcactgttccctgtgctttctgtagtCCTACAGTCAATACCAGATTGCGAAGCTGGGGTACGCTGTACTGGCATGAAGGCAAACTGCGATGCTACACAACACACACTGAAAGACTGT-TCAACCATAGTTGCAAACAGgtaggtctttcatccctggggataaatagggccacattcttgtgtatatt Alignment from Spaln_aa2Genome TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCCGCACACACACTGGAAGACTGTGCC---AGCCGCAGCCGCAAACAG taccactatcaggccaaattacttttcactgttccctgtgctttctgtagTCCTACAGTCAATACCAGATTGCGAAGCTGGGGTACGCTGTACTGGCATGAAGGCAAACTGCGATGCTACACAACACACACTGAAAGACTGTTCAACCATAGTTGCAAACAGgtaggtctttcatccctggggataaatagggccacattcttgtgtatatt Alignment from Spaln_nt2Genome TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTG-GAAGCCGCACA---CACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG taccactatcaggccaaattacttttcactgttccctgtgctttctgtagTCCTACAGTCAATACCAGATTGCGAAGCTGGGGTACGCTGTACTGGCATGAAGGCAAACTGCGATGCTACACAACACACACTGAAAGACTGT-TCAACCATAGTTGCAAACAGgtaggtctttcatccctggggataaatagggccacattcttgtgtatatt Alignment from Pairagon TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCCGC-----------ACACACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG taccactatcaggccaaattacttttcactgttccctgtgctttctgtagTCCTACAGTCAATACCAGATTGCGAAGCTGGGGTACGCTGTACTGGCATGAAGGCAAACT-------GCGATGCTACACAACACACACTGAAAGACTGT-TCAACCATAGTTGCAAACAGgtaggtctttcatccctggggataaatagggccacattcttgtgtatatt Alignment from Exonerate_protein2genome TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCCGCACACACA---CTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG taccactatcaggccaaattacttttcactgttccctgtgctttctgtagTCCTACAGTCAATACCAGATTGCGAAGCTGGGGTACGCTGTACTGGCATGAAGGCAAACTGCGATGCTACACAACACACACTGAAAGACTGTTCAACCATAGTTGCAAACAGgtaggtctttcatccctggggataaatagggccacattcttgtgtatatt Alignment from Exonerate_coding2genome taccactatcaggccaaattacttttcactgttccctgtgctttctgtagtcctacagtcaataccagattgcgaagctggggtacgctgtactggcatgaaggcaaactgcgatgctacacaacacacactgaaagactgttcaaccatagttgcaaacaggtaggtctttcatccctggggataaatagggccacattcttgtgtatatt Alignment from GeneWise TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCCGCACACACA---CTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG taccactatcaggccaaattacttttcactgttccctgtgctttctgtagTCCTACAGTCAATACCAGATTGCGAAGCTGGGGTACGCTGTACTGGCATGAAGGCAAACTGCGATGCTACACAACACACACTGAAAGACTGTTCAACCATAGTTGCAAACAGgtaggtctttcatccctggggataaatagggccacattcttgtgtatatt #### Klc2_ID859_7 --> 0 - 0 Original Alignment GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTG-GAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG aatgccatacagcaccatgactaggaacgctggtatccaacaccctgcagGTCCTTGGAAAGTTT------GATGTGGCTGAGCCACTTAGCAACCTGGTTTTGTTATGCCAGAACCAGGACAGAGCTGAAGAGGTGCGAATACTATTACCCACGGGGCTTGAAGATATATGCCAAAC-CCTCAGTCCTGAAGATCCCAATGCAGCAAAAACTAAGAACAACCTGgtgagttgtaatgtaatggatcctataaagatgacaccacccatgttgaa Alignment from CESAR GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTG-GAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG aatgccatacagcaccatgactaggaacgctggtatccaacaccctgcagGTCCTTGGAAAGTTT------GATGTGGCTGAGCCACTTAGCAACCTGGTTTTGTTATGCCAGAACCAGGACAGAGCTGAAGAGGTGCGAATACTATTACCCACGGGGCTTGAAGATATATGCCAAA-CCCTCAGTCCTGAAGATCCCAATGCAGCAAAAACTAAGAACAACCTGgtgagttgtaatgtaatggatcctataaagatgacaccacccatgttgaa Alignment from Spaln_aa2Genome GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG aatgccatacagcaccatgactaggaacgctggtatccaacaccctgcagGTCCTTGGAAAGTTT------GATGTGGCTGAGCCACTTAGCAACCTGGTTTTGTTATGCCAGAACCAGGACAGAGCTGAAGAGGTGCGAATACTATTACCCACGGGGCTTGAAGATATATGCCAAACCCTCAGTCCTGAAGATCCCAATGCAGCAAAAACTAAGAACAACCTGgtgagttgtaatgtaatggatcctataaagatgacaccacccatgttgaa Alignment from Spaln_nt2Genome GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTG-GAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG aatgccatacagcaccatgactaggaacgctggtatccaacaccctgcagGTCCTTGGAAAGTTT------GATGTGGCTGAGCCACTTAGCAACCTGGTTTTGTTATGCCAGAACCAGGACAGAGCTGAAGAGGTGCGAATACTATTACCCACGGGGCTTGAAGATATATGCCAAAC-CCTCAGTCCTGAAGATCCCAATGCAGCAAAAACTAAGAACAACCTGgtgagttgtaatgtaatggatcctataaagatgacaccacccatgttgaa Alignment from Pairagon GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTG-GAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG aatgccatacagcaccatgactaggaacgctggtatccaacaccctgcagGTCCTTGGAAAGTTT------GATGTGGCTGAGCCACTTAGCAACCTGGTTTTGTTATGCCAGAACCAGGACAGAGCTGAAGAGGTGCGAATACTATTACCCACGGGGCTTGAAGATATATGCCAAAC-CCTCAGTCCTGAAGATCCCAATGCAGCAAAAACTAAGAACAACCTGgtgagttgtaatgtaatggatcctataaagatgacaccacccatgttgaa Alignment from Exonerate_protein2genome GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG aatgccatacagcaccatgactaggaacgctggtatccaacaccctgcagGTCCTTGGAAAGTTT------GATGTGGCTGAGCCACTTAGCAACCTGGTTTTGTTATGCCAGAACCAGGACAGAGCTGAAGAGGTGCGAATACTATTACCCACGGGGCTTGAAGATATATGCCAAACCCTCAGTCCTGAAGATCCCAATGCAGCAAAAACTAAGAACAACCTGgtgagttgtaatgtaatggatcctataaagatgacaccacccatgttgaa Alignment from Exonerate_coding2genome GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG aatgccatacagcaccatgactaggaacgctggtatccaacaccctgcagGTCCTTGGAAAGTTT------GATGTGGCTGAGCCACTTAGCAACCTGGTTTTGTTATGCCAGAACCAGGACAGAGCTGAAGAGGTGCGAATACTATTACCCACGGGGCTTGAAGATATATGCCAAACCCTCAGTCCTGAAGATCCCAATGCAGCAAAAACTAAGAACAACCTGgtgagttgtaatgtaatggatcctataaagatgacaccacccatgttgaa Alignment from GeneWise GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG aatgccatacagcaccatgactaggaacgctggtatccaacaccctgcagGTCCTTGGAAAGTTT------GATGTGGCTGAGCCACTTAGCAACCTGGTTTTGTTATGCCAGAACCAGGACAGAGCTGAAGAGGTGCGAATACTATTACCCACGGGGCTTGAAGATATATGCCAAACCCTCAGTCCTGAAGATCCCAATGCAGCAAAAACTAAGAACAACCTGgtgagttgtaatgtaatggatcctataaagatgacaccacccatgttgaa #### Ldb1_ID9691_9 --> 0 - 1 Original Alignment CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGAC-TGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCg ttacaggccaatccaaacactgatttagcttcctgtgattgatttttcagCTCTGTGTAATCCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTTAGTCCTCGGGATCTGCCTCAAGACATGTCTCTTCCAGAGGTGGC-GCGAATGGTTGCGCCTCCTggtaaggttccctctaattgagtgaagtagttctgcaacagttgagccttt Alignment from CESAR CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGAC-TGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCg ttacaggccaatccaaacactgatttagcttcctgtgattgatttttcagCTCTGTGTAATCCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTTAGTCCTCGGGATCTGCCTCAAGACATGTCTCTTCCAGAGGTGG-CGCGAATGGTTGCGCCTCCTggtaaggttccctctaattgagtgaagtagttctgcaacagttgagccttt Alignment from Spaln_aa2Genome CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGAC-TGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG ttacaggccaatccaaacactgatttagcttcctgtgattgatttttcagCTCTGTGTAATCCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTTAGTCCTCGGGATcTGCCTCAAGACATGTCTCTTCCAGAGGTGGCG-CGAATGGTTGCGCCTCCTGgtaaggttccctctaattgagtgaagtagttctgcaacagttgagccttt Alignment from Spaln_nt2Genome CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGA-CTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG ttacaggccaatccaaacactgatttagcttcctgtgattgatttttcagCTCTGTGTAATCCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTTAGTCCTCGGGATCTGCCTCAAGACATGTCTCTTCCAGAGGTGGC-GCGAATGGTTGCGCCTCCTGgtaaggttccctctaattgagtgaagtagttctgcaacagttgagccttt Alignment from Pairagon CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGA-CTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG ttacaggccaatccaaacactgatttagcttcctgtgattgatttttcagCTCTGTGTAATCCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTTAGTCCTCGGGATCTGCCTCAAGACATGTCTCTTCCAGAGGTGGC-GCGAATGGTTGCGCCTCCTGgtaaggttccctctaattgagtgaagtagttctgcaacagttgagccttt Alignment from Exonerate_protein2genome CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG ttacaggccaatccaaacactgatttagcttcctgtgattgatttttcagCTCTGTGTAATCCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTTAGTCCTCGGGATCTGCCTCAAGACATGTCTCTTCCAGAGGTGGCGCGAATGGTTGCGCCTCCTGgtaaggttccctctaattgagtgaagtagttctgcaacagttgagccttt Alignment from Exonerate_coding2genome CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG ttacaggccaatccaaacactgatttagcttcctgtgattgatttttcagCTCTGTGTAATCCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTTAGTCCTCGGGATCTGCCTCAAGACATGTCTCTTCCAGAGGTGGCGCGAATGGTTGCGCCTCCTGgtaaggttccctctaattgagtgaagtagttctgcaacagttgagccttt Alignment from GeneWise CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG ttacaggccaatccaaacactgatttagcttcctgtgattgatttttcagCTCTGTGTAATCCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTTAGTCCTCGGGATCTGCCTCAAGACATGTCTCTTCCAGAGGTGGCGCGAATGGTTGCGCCTCCTGgtaaggttccctctaattgagtgaagtagttctgcaacagttgagccttt #### Ldb1_ID9692_8 --> 0 - 0 Original Alignment GCCCAGGACCCCCAGATGCTGGATCAG-CTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA tttggagtccacatcttaatcaggtgaagagaatgtgttgtgttttctagGCTCAGGACCCCCAGATGCTGGATCAGCCTATCCAAAAACATTACTCGATGCGGATTTT-AAATACAGCTATTAAGTACTTTCGGgtaggcgtggagggccacaatataaattagcttttgttaccattacaggc Alignment from CESAR GCCCAGGACCCCCAGATGCTGGATCAG-CTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA tttggagtccacatcttaatcaggtgaagagaatgtgttgtgttttctagGCTCAGGACCCCCAGATGCTGGATCAGCCTATCCAAAAACATTACTCGATGCGGATTT-TAAATACAGCTATTAAGTACTTTCGGgtaggcgtggagggccacaatataaattagcttttgttaccattacaggc Alignment from Spaln_aa2Genome GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA tttggagtccacatcttaatcaggtgaagagaatgtgttgtgttttctagGCTCAGGACCCCCAGATGCTGGATCAGCCTATCCAAAAACATTACTCGATGCGGATTTTAAATACAGCTATTAAGTACTTTCGGgtaggcgtggagggccacaatataaattagcttttgttaccattacaggc Alignment from Spaln_nt2Genome GCCCAGGACCCCCAGATGCTGGATCAGC-TGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA tttggagtccacatcttaatcaggtgaagagaatgtgttgtgttttctagGCTCAGGACCCCCAGATGCTGGATCAGCCTATCCAAAAACATTACTCGATG-CGGATTTTAAATACAGCTATTAAGTACTTTCGGgtaggcgtggagggccacaatataaattagcttttgttaccattacaggc Alignment from Pairagon GCCCAGGACCCCCAGATGCTGGATCAG-CTGTCCAAAAACATTACCCGGT tttggagtccacatcttaatcaggtgaagagaatgtgttgtgttttctagGCTCAGGACCCCCAGATGCTGGATCAGCCTATCCAAAAACATTACTCGATgcggattttaaatacagctattaagtactttcgggtaggcgtggagggccacaatataaattagcttttgttaccattacaggc Alignment from Exonerate_protein2genome GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA tttggagtccacatcttaatcaggtgaagagaatgtgttgtgttttctagGCTCAGGACCCCCAGATGCTGGATCAGCCTATCCAAAAACATTACTCGATGCGGATTTTAAATACAGCTATTAAGTACTTTCGGgtaggcgtggagggccacaatataaattagcttttgttaccattacaggc Alignment from Exonerate_coding2genome GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA tttggagtccacatcttaatcaggtgaagagaatgtgttgtgttttctagGCTCAGGACCCCCAGATGCTGGATCAGCCTATCCAAAAACATTACTCGATGCGGATTTTAAATACAGCTATTAAGTACTTTCGGgtaggcgtggagggccacaatataaattagcttttgttaccattacaggc Alignment from GeneWise GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA tttggagtccacatcttaatcaggtgaagagaatgtgttgtgttttctagGCTCAGGACCCCCAGATGCTGGATCAGCCTATCCAAAAACATTACTCGATGCGGATTTTAAATACAGCTATTAAGTACTTTCGGgtaggcgtggagggccacaatataaattagcttttgttaccattacaggc #### Lipa_ID6938_5 --> 2 - 0 Original Alignment gtTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAA-ATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ggtagggatggctcaagctcaggtcaatctacctcctttgtgcactgcaggtTTCATAGCTTTTTCACAAATGCCTGAGTTAGCTAAAAAGATCAAACATGTTTTTAGCACTGTCCCCAGTATTGTCTCTCA-TTTTGCTTCCAGCCCATTATTACAATCAGGACACTTGCCTGATCCATTGCTCAAGgtaaccgagttgacattttaaacatttaatactcaattgtaagtgtctgt Alignment from CESAR gtTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAA-ATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ggtagggatggctcaagctcaggtcaatctacctcctttgtgcactgcaggtTTCATAGCTTTTTCACAAATGCCTGAGTTAGCTAAAAAGATCAAACATGTTTTTAGCACTGTCCCCAGTATTGTCTCTC-ATTTTGCTTCCAGCCCATTATTACAATCAGGACACTTGCCTGATCCATTGCTCAAGgtaaccgagttgacattttaaacatttaatactcaattgtaagtgtctgt Alignment from Spaln_aa2Genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ggtagggatggctcaagctcaggtcaatctacctcctttgtgcactgcagGTTTCATAGCTTTTTCACAAATGCCTGAGTTAGCTAAAAAGATCAAACATGTTTTTAGCACTGTCCCCAGTATTGTCTCTCATTTTGCTTCCAGCCCATTATTACAATCAGGACACTTGCCTGATCCATTGCTCAAGgtaaccgagttgacattttaaacatttaatactcaattgtaagtgtctgt Alignment from Spaln_nt2Genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAA-ATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ggtagggatggctcaagctcaggtcaatctacctcctttgtgcactgcagGTTTCATAGCTTTTTCACAAATGCCTGAGTTAGCTAAAAAGATCAAACATGTTTTTAGCACTGTCCCCAGTATTGTCTCTC-ATTTTGCTTCCAGCCCATTATTACAATCAGGACACTTGCCTGATCCATTGCTCAAGgtaaccgagttgacattttaaacatttaatactcaattgtaagtgtctgt Alignment from Pairagon GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAA-ATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ggtagggatggctcaagctcaggtcaatctacctcctttgtgcactgcagGTTTCATAGCTTTTTCACAAATGCCTGAGTTAGCTAAAAAGATCAAACATGTTTTTAGCACTGTCCCCAGTATTGTCTCTC-ATTTTGCTTCCAGCCCATTATTACAATCAGGACACTTGCCTGATCCATTGCTCAAGgtaaccgagttgacattttaaacatttaatactcaattgtaagtgtctgt Alignment from Exonerate_protein2genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ggtagggatggctcaagctcaggtcaatctacctcctttgtgcactgcagGTTTCATAGCTTTTTCACAAATGCCTGAGTTAGCTAAAAAGATCAAACATGTTTTTAGCACTGTCCCCAGTATTGTCTCTCATTTTGCTTCCAGCCCATTATTACAATCAGGACACTTGCCTGATCCATTGCTCAAGgtaaccgagttgacattttaaacatttaatactcaattgtaagtgtctgt Alignment from Exonerate_coding2genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ggtagggatggctcaagctcaggtcaatctacctcctttgtgcactgcagGTTTCATAGCTTTTTCACAAATGCCTGAGTTAGCTAAAAAGATCAAACATGTTTTTAGCACTGTCCCCAGTATTGTCTCTCATTTTGCTTCCAGCCCATTATTACAATCAGGACACTTGCCTGATCCATTGCTCAAGgtaaccgagttgacattttaaacatttaatactcaattgtaagtgtctgt Alignment from GeneWise GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ggtagggatggctcaagctcaggtcaatctacctcctttgtgcactgcagGTTTCATAGCTTTTTCACAAATGCCTGAGTTAGCTAAAAAGATCAAACATGTTTTTAGCACTGTCCCCAGTATTGTCTCTCATTTTGCTTCCAGCCCATTATTACAATCAGGACACTTGCCTGATCCATTGCTCAAGgtaaccgagttgacattttaaacatttaatactcaattgtaagtgtctgt #### Ltbp3_ID1251_3 --> 2 - 0 Original Alignment tgCAGGCTCCGCCCCCCGTGGTGAACGTGCGTGTCCATCACCCTCCTGAAGCTTCCGTTCAGGTGCACCGCATCGAGGGGCCGAACGCTGAAGGCCCAGCCTCTTCCCAG-CACTTGCTGCCGCATCCCAAGCCCCAGCACCCGAGGCCACCCACCCAAAAGCCACTGGGCCGCTGCTTCCAGGACACATTGCCCAAGCAGCCT gcagaaccgccttgctgcaggcagttcaatgtcatacactgtcctaccagttCAGGCTCCCCCTTCGCTTGTGAATGTGCGGGTCCATCATTCCTTAGAACCCTCTGTGCAGGAGCAGCGCATTGAAAGACCTAATACTGAAGGCCCAGCCTCTTCACAGCCATTTACTGCCTCACCTGACACCCCAGC-CCCAAGAGCACCTACCCAAAAGCCACTTGGACATTGTTTTCAGGACACATTGCCCAAGCAGCCGgtacacaagggttctacccctcaagagttgcctccctgtcagaaagtgtt Alignment from CESAR tgCAGGCTCCGCCCCCCGTGGTGAACGTGCGTGTCCATCACCCTCCTGAAGCTTCCGTTCAGGTGCACCGCATCGAGGGGCCGAACGCTGAAGGCCCAGCCTCTTCCCAG-CACTTGCTGCCGCATCCCAAGCCCCAGCACCCGAGGCCACCCACCCAAAAGCCACTGGGCCGCTGCTTCCAGGACACATTGCCCAAGCAGCCT gcagaaccgccttgctgcaggcagttcaatgtcatacactgtcctaccagttCAGGCTCCCCCTTCGCTTGTGAATGTGCGGGTCCATCATTCCTTAGAACCCTCTGTGCAGGAGCAGCGCATTGAAAGACCTAATACTGAAGGCCCAGCCTCTTCACAGCCATTTACTGCCTCACCTGACACCCCAG-CCCCAAGAGCACCTACCCAAAAGCCACTTGGACATTGTTTTCAGGACACATTGCCCAAGCAGCCGgtacacaagggttctacccctcaagagttgcctccctgtcagaaagtgtt Alignment from Spaln_aa2Genome TGCAGGCTCCGCCCCCCGTGGTGAACGTGCGTGTCCATCACCCTCCTGAAGCTTCCGTTCAGGTGCACCGCATCGAGGGGCCGAACGCTGAAGGCCCAGCCTCTTCCCAGCACTTGCTGCCGCATCCCAAGCCCCAGCACCCGAGGCCACCCACCCAAAAGCCACTGGGCCGCTGCTTCCAGGACACATTGCCCAAGCAGCCT gcagaaccgccttgctgcaggcagttcaatgtcatacactgtcctaccagTTCAGGCTCCCCCTTCGCTTGTGAATGTGCGGGTCCATCATTCCTTAGAACCCTCTGTGCAGGAGCAGCGCATTGAAAGACCTAATACTGAAGGCCCAGCCTCTTCACAGCCATTTACTGCCTCACCTGACACCCCAGCCCCAAGAGCACCTACCCAAAAGCCACTTGGACATTGTTTTCAGGACACATTGCCCAAGCAGCCGgtacacaagggttctacccctcaagagttgcctccctgtcagaaagtgtt Alignment from Spaln_nt2Genome TGCAGGCTCCGCCCCCCGTGGTGAACGTGCGTGTCCATCACCCTCCTGAAGCTTCCGTTCAGGTGCACCGCATCGAGGGGCCGAACGCTGAAGGCCCAGCCTCTTCCCAGC-ACTTGCTGCCGCATCCCAAGCCCCAGCACCCGAGGCCACCCACCCAAAAGCCACTGGGCCGCTGCTTCCAGGACACATTGCCCAAGCAGCCT gcagaaccgccttgctgcaggcagttcaatgtcatacactgtcctaccagTTCAGGCTCCCCCTTCGCTTGTGAATGTGCGGGTCCATCATTCCTTAGAACCCTCTGTGCAGGAGCAGCGCATTGAAAGACCTAATACTGAAGGCCCAGCCTCTTCACAGCCATTTACTGCCTCACCTGACACCCCAGC-CCCAAGAGCACCTACCCAAAAGCCACTTGGACATTGTTTTCAGGACACATTGCCCAAGCAGCCGgtacacaagggttctacccctcaagagttgcctccctgtcagaaagtgtt Alignment from Pairagon TGCAGGCTCCGCCCCCCGTGGTGAACGTGCGTGTCCATCACCCTCCTGAAGCTTCCGTTCAGGTGCACCGCATCGAGGGGCCGAACGCTGAAGGCCCAGCCTCTTCCCAG-CACTTGCTGCCGCATCCCAAGCCCCAGCACCCGAGGCCACCCACCCAAAAGCCACTGGGCCGCTGCTTCCAGGACACATTGCCCAAGCAGCCT gcagaaccgccttgctgcaggcagttcaatgtcatacactgtcctaccagTTCAGGCTCCCCCTTCGCTTGTGAATGTGCGGGTCCATCATTCCTTAGAACCCTCTGTGCAGGAGCAGCGCATTGAAAGACCTAATACTGAAGGCCCAGCCTCTTCACAGCCATTTACTGCCTCACCTGACACCCCAGC-CCCAAGAGCACCTACCCAAAAGCCACTTGGACATTGTTTTCAGGACACATTGCCCAAGCAGCCGgtacacaagggttctacccctcaagagttgcctccctgtcagaaagtgtt Alignment from Exonerate_protein2genome TGCAGGCTCCGCCCCCCGTGGTGAACGTGCGTGTCCATCACCCTCCTGAAGCTTCCGTTCAGGTGCACCGCATCGAGGGGCCGAACGCTGAAGGCCCAGCCTCTTCCCAGCACTTGCTGCCGCATCCCAAGCCCCAGCACCCGAGGCCACCCACCCAAAAGCCACTGGGCCGCTGCTTCCAGGACACATTGCCCAAGCAGCCT gcagaaccgccttgctgcaggcagttcaatgtcatacactgtcctaccagTTCAGGCTCCCCCTTCGCTTGTGAATGTGCGGGTCCATCATTCCTTAGAACCCTCTGTGCAGGAGCAGCGCATTGAAAGACCTAATACTGAAGGCCCAGCCTCTTCACAGCCATTTACTGCCTCACCTGACACCCCAGCCCCAAGAGCACCTACCCAAAAGCCACTTGGACATTGTTTTCAGGACACATTGCCCAAGCAGCCGgtacacaagggttctacccctcaagagttgcctccctgtcagaaagtgtt Alignment from Exonerate_coding2genome TGCAGGCTCCGCCCCCCGTGGTGAACGTGCGTGTCCATCACCCTCCTGAAGCTTCCGTTCAGGTGCACCGCATCGAGGGGCCGAACGCTGAAGGCCCAGCCTCTTCCCAGCACTTGCTGCCGCATCCCAAGCCCCAGCACCCGAGGCCACCCACCCAAAAGCCACTGGGCCGCTGCTTCCAGGACACATTGCCCAAGCAGCCT gcagaaccgccttgctgcaggcagttcaatgtcatacactgtcctaccagTTCAGGCTCCCCCTTCGCTTGTGAATGTGCGGGTCCATCATTCCTTAGAACCCTCTGTGCAGGAGCAGCGCATTGAAAGACCTAATACTGAAGGCCCAGCCTCTTCACAGCCATTTACTGCCTCACCTGACACCCCAGCCCCAAGAGCACCTACCCAAAAGCCACTTGGACATTGTTTTCAGGACACATTGCCCAAGCAGCCGgtacacaagggttctacccctcaagagttgcctccctgtcagaaagtgtt Alignment from GeneWise TGCAGGCTCCGCCCCCCGTGGTGAACGTGCGTGTCCATCACCCTCCTGAAGCTTCCGTTCAGGTGCACCGCATCGAGGGGCCGAACGCTGAAGGCCCAGCCTCTTCCCAGCACTTGCTGCCGCATCCCAAGCCCCAGCACCCGAGGCCACCCACCCAAAAGCCACTGGGCCGCTGCTTCCAGGACACATTGCCCAAGCAGCCT gcagaaccgccttgctgcaggcagttcaatgtcatacactgtcctaccagTTCAGGCTCCCCCTTCGCTTGTGAATGTGCGGGTCCATCATTCCTTAGAACCCTCTGTGCAGGAGCAGCGCATTGAAAGACCTAATACTGAAGGCCCAGCCTCTTCACAGCCATTTACTGCCTCACCTGACACCCCAGCCCCAAGAGCACCTACCCAAAAGCCACTTGGACATTGTTTTCAGGACACATTGCCCAAGCAGCCGgtacacaagggttctacccctcaagagttgcctccctgtcagaaagtgtt #### Ltbp3_ID1252_4 --> 0 - 1 Original Alignment TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGT-AGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGt ctattccaaccatcaaaccagtgctgatgaatgtttgtgatctcttacagTGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGTGGTCAGCATAGGTACTGCCTGGGGACCAAGCAAGTGTCACA-GTGCCCACAGCTTCAGtgtgagggcttaacatggactcacaattttctctccgatcatgattagtag Alignment from CESAR TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGT-AGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGt ctattccaaccatcaaaccagtgctgatgaatgtttgtgatctcttacagTGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGTGGTCAGCATAGGTACTGCCTGGGGACCAAGCAAGTGTC-ACAGTGCCCACAGCTTCAGtgtgagggcttaacatggactcacaattttctctccgatcatgattagtag Alignment from Spaln_aa2Genome TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGT-AGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGT ctattccaaccatcaaaccagtgctgatgaatgtttgtgatctcttacagTGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGTGGTcAGCATAGGTACTGCCTGGGGACCAAGCAAGTGTCACAG-TGCCCACAGCTTCAGTgtgagggcttaacatggactcacaattttctctccgatcatgattagtag Alignment from Spaln_nt2Genome TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGT-AGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGT ctattccaaccatcaaaccagtgctgatgaatgtttgtgatctcttacagTGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGTGGTCAGCATAGGTACTGCCTGGGGACCAAGCAAGTGTCACA-GTGCCCACAGCTTCAGTgtgagggcttaacatggactcacaattttctctccgatcatgattagtag Alignment from Pairagon TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGT-AGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGT ctattccaaccatcaaaccagtgctgatgaatgtttgtgatctcttacagTGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGTGGTCAGCATAGGTACTGCCTGGGGACCAAGCAAGTGTCAC-AGTGCCCACAGCTTCAGTgtgagggcttaacatggactcacaattttctctccgatcatgattagtag Alignment from Exonerate_protein2genome TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGT ctattccaaccatcaaaccagtgctgatgaatgtttgtgatctcttacagTGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGTGGTCAGCATAGGTACTGCCTGGGGACCAAGCAAGTGTCACAGTGCCCACAGCTTCAGTgtgagggcttaacatggactcacaattttctctccgatcatgattagtag Alignment from Exonerate_coding2genome TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGT ctattccaaccatcaaaccagtgctgatgaatgtttgtgatctcttacagTGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGTGGTCAGCATAGGTACTGCCTGGGGACCAAGCAAGTGTCACAGTGCCCACAGCTTCAGTgtgagggcttaacatggactcacaattttctctccgatcatgattagtag Alignment from GeneWise TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGT ctattccaaccatcaaaccagtgctgatgaatgtttgtgatctcttacagTGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGTGGTCAGCATAGGTACTGCCTGGGGACCAAGCAAGTGTCACAGTGCCCACAGCTTCAGTgtgagggcttaacatggactcacaattttctctccgatcatgattagtag #### Ltbp3_ID1253_5 --> 2 - 1 Original Alignment atACAGGGGTGCAGAAG-CCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGg taccgagctcactctcttttttcactatcttatgcccatgtgtcttacagatACAGGAGTGCAAAAGCCCTGGACCTGTTCGAGGG---GTGGGCACTG-CTGCCCCAAAGGCTATAAAAGACTTAATAGCACCCATTCCCAGggttaatatcaccaatcaccaaaggttccattaattgtgatgtgaggaagg Alignment from CESAR atACAGGGGTGCAGAAG-CCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGg taccgagctcactctcttttttcactatcttatgcccatgtgtcttacagatACAGGAGTGCAAAAGCCCTGGACCTGTTCGAGGG---GTGGGCACT-GCTGCCCCAAAGGCTATAAAAGACTTAATAGCACCCATTCCCAGggttaatatcaccaatcaccaaaggttccattaattgtgatgtgaggaagg Alignment from Spaln_aa2Genome ATACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGG taccgagctcactctcttttttcactatcttatgcccatgtgtcttacagATACAGGAGTGCAAAAGCCCTGGACCTGTTCGAGGGGT---GGGCACTGCTGCCCCAAAGGCTATAAAAGACTTAATAGCACCCATTCCCAGGgttaatatcaccaatcaccaaaggttccattaattgtgatgtgaggaagg Alignment from Spaln_nt2Genome ATACAGGGGTGCAGAAGCC-TGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGG taccgagctcactctcttttttcactatcttatgcccatgtgtcttacagATACAGGAGTGCAAAAGCCCTGGACCTGTTCGAGG---GGTGGGCACTG-CTGCCCCAAAGGCTATAAAAGACTTAATAGCACCCATTCCCAGGgttaatatcaccaatcaccaaaggttccattaattgtgatgtgaggaagg Alignment from Pairagon ATACAGGGGTGCAGAAG-CCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGG taccgagctcactctcttttttcactatcttatgcccatgtgtcttacagATACAGGAGTGCAAAAGCCCTGGACCTGTTCGAGG---GGTGGGCACTG-CTGCCCCAAAGGCTATAAAAGACTTAATAGCACCCATTCCCAGGgttaatatcaccaatcaccaaaggttccattaattgtgatgtgaggaagg Alignment from Exonerate_protein2genome ATACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGG taccgagctcactctcttttttcactatcttatgcccatgtgtcttacagATACAGGAGTGCAAAAGCCCTGGACCTGT---TCGAGGGGTGGGCACTGCTGCCCCAAAGGCTATAAAAGACTTAATAGCACCCATTCCCAGGgttaatatcaccaatcaccaaaggttccattaattgtgatgtgaggaagg Alignment from Exonerate_coding2genome taccgagctcactctcttttttcactatcttatgcccatgtgtcttacagatacaggagtgcaaaagccctggacctgttcgaggggtgggcactgctgccccaaaggctataaaagacttaatagcacccattcccagggttaatatcaccaatcaccaaaggttccattaattgtgatgtgaggaagg Alignment from GeneWise ATACAGGGGTGCAGAAGCCTGGACCTGTA---CGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGG taccgagctcactctcttttttcactatcttatgcccatgtgtcttacagATACAGGAGTGCAAAAGCCCTGGACCTGTTCGAGGGGT------GGGCACTGCTGCCCCAAAGGCTATAAAAGACTTAATAGCACCCATTCCCAGGgttaatatcaccaatcaccaaaggttccattaattgtgatgtgaggaagg #### Ltbp3_ID1254_6 --> 2 - 1 Original Alignment atATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTC-AACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTg attgaatcagcattgattgtctcaagtgctaaacctgtacctctgtatagacATAAATGAATGTGTGATGCCTGGGATGTGTCGTCATGGGGATTGTCTGCACCAACCCTGGCTCTTATCATTGTGTCTGCCCACCTG-TCATAGTTTAGGTCCTTTCCGCAAACAGTGTATAggtgagttcaagaacaagtttggattgactaaaggggagcagatgggtggt Alignment from CESAR atATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAAC-AACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTg attgaatcagcattgattgtctcaagtgctaaacctgtacctctgtatagacATAAATGAATGTGTGATGCCTGGGATGTGTCGTCATGGGGATTGTCTGCACCAACCCTGGCTCTTATCATTGTGTCTGCCCACCT-GTCATAGTTTAGGTCCTTTCCGCAAACAGTGTATAggtgagttcaagaacaagtttggattgactaaaggggagcagatgggtggt Alignment from Spaln_aa2Genome ATATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG attgaatcagcattgattgtctcaagtgctaaacctgtacctctgtatagACATAAATGAATGTGTGATGCCTGGGATGTGTCGTCATGGGGATTGTCTGCACCAACCCTGGCTCTTATCATTGTGTCTGCCCACCTGTCATAGTTTAGGTCCTTTCCGCAAACAGTGTATAGgtgagttcaagaacaagtttggattgactaaaggggagcagatgggtggt Alignment from Spaln_nt2Genome ATATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCT-CAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG attgaatcagcattgattgtctcaagtgctaaacctgtacctctgtatagACATAAATGAATGTGTGATGCCTGGGATGTGTCGTCATGGGGATTGTCTGCACCAACCCTGGCTCTTATCATTGTGTCTGCCCA-CCTGTCATAGTTTAGGTCCTTTCCGCAAACAGTGTATAGgtgagttcaagaacaagtttggattgactaaaggggagcagatgggtggt Alignment from Pairagon ATATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCT-CAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG attgaatcagcattgattgtctcaagtgctaaacctgtacctctgtatagACATAAATGAATGTGTGATGCCTGGGATGTGTCGTCATGGGGATTGTCTGCACCAACCCTGGCTCTTATCATTGTGTCTGCCCACCT-GTCATAGTTTAGGTCCTTTCCGCAAACAGTGTATAGgtgagttcaagaacaagtttggattgactaaaggggagcagatgggtggt Alignment from Exonerate_protein2genome ATATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG attgaatcagcattgattgtctcaagtgctaaacctgtacctctgtatagACATAAATGAATGTGTGATGCCTGGGATGTGTCGTCATGGGGATTGTCTGCACCAACCCTGGCTCTTATCATTGTGTCTGCCCACCTGTCATAGTTTAGGTCCTTTCCGCAAACAGTGTATAGgtgagttcaagaacaagtttggattgactaaaggggagcagatgggtggt Alignment from Exonerate_coding2genome ATATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG attgaatcagcattgattgtctcaagtgctaaacctgtacctctgtatagACATAAATGAATGTGTGATGCCTGGGATGTGTCGTCATGGGGATTGTCTGCACCAACCCTGGCTCTTATCATTGTGTCTGCCCACCTGTCATAGTTTAGGTCCTTTCCGCAAACAGTGTATAGgtgagttcaagaacaagtttggattgactaaaggggagcagatgggtggt Alignment from GeneWise ATATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG attgaatcagcattgattgtctcaagtgctaaacctgtacctctgtatagACATAAATGAATGTGTGATGCCTGGGATGTGTCGTCATGGGGATTGTCTGCACCAACCCTGGCTCTTATCATTGTGTCTGCCCACCTGTCATAGTTTAGGTCCTTTCCGCAAACAGTGTATAGgtgagttcaagaacaagtttggattgactaaaggggagcagatgggtggt #### Ltbp3_ID1255_7 --> 2 - 1 Original Alignment ccGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACC-GAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAg c agcacagtaagattgcctctccacactgttaaagacacaattttctgcagctGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTCGAACACCAGTGCCAGCATCCTTTAACTACAC-TTTGACCCATCAGCTCTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTCTCCAGCAGATGGCATGggtatctttgtagagtcttgggattgcagtgtatcttctgtttaatgtagc Alignment from CESAR ccGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACC-GAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAg c agcacagtaagattgcctctccacactgttaaagacacaattttctgcagctGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTCGAACACCAGTGCCAGCATCCTTTAACTACA-CTTTGACCCATCAGCTCTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTCTCCAGCAGATGGCATGggtatctttgtagagtcttgggattgcatccctacaatctcctgttgcagc Alignment from Spaln_aa2Genome CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAG C agcacagtaagattgcctctccacactgttaaagacacaattttctgcagCTGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTCGAACACCAGTGCCAGCATCCTTTAACTACACTTTGACCCATCAGCTCTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTCTCCAGCAGATGGCATGGgtatctttgtagagtcttgggattgcagtgtatcttctgtttaatgtagC Alignment from Spaln_nt2Genome CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCAC-CGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAG C agcacagtaagattgcctctccacactgttaaagacacaattttctgcagCTGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTCGAACACCAGTGCCAGCATCCTTTAACTACAC-TTTGACCCATCAGCTCTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTCTCCAGCAGATGGCATGGgtatctttgtagagtcttgggattgcagtgtatcttctgtttaatgtagC Alignment from Pairagon CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCAC-CGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTA-------------------------------------------------CAGC agcacagtaagattgcctctccacactgttaaagacacaattttctgcagCTGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTCGAACACCAGTGCCAGCATCCTTTAACTACAC-TTTGACCCATCAGCTCTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTCTCCAGCAGATGGCATGGGTATCTTTGTAGAGTCTTGGGATTGCAGTGTATCTTCTGTTTAATGTAGC Alignment from Exonerate_protein2genome CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAG C agcacagtaagattgcctctccacactgttaaagacacaattttctgcagCTGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTCGAACACCAGTGCCAGCATCCTTTAACTACACTTTGACCCATCAGCTCTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTCTCCAGCAGATGGCATGGgtatctttgtagagtcttgggattgcagtgtatcttctgtttaatgtagC Alignment from Exonerate_coding2genome CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAG C agcacagtaagattgcctctccacactgttaaagacacaattttctgcagCTGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTCGAACACCAGTGCCAGCATCCTTTAACTACACTTTGACCCATCAGCTCTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTCTCCAGCAGATGGCATGGgtatctttgtagagtcttgggattgcagtgtatcttctgtttaatgtagC Alignment from GeneWise CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAG C agcacagtaagattgcctctccacactgttaaagacacaattttctgcagCTGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTCGAACACCAGTGCCAGCATCCTTTAACTACACTTTGACCCATCAGCTCTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTCTCCAGCAGATGGCATGGgtatctttgtagagtcttgggattgcagtgtatcttctgtttaatgtagC #### Ltbp3_ID1256_8 --> 2 - 1 Original Alignment g caGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTACCATATCCTCACCTCC-CACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAg ggtaggtttgtagagtcttgggattgcatccctacaatctcctgttgcagctTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCATACGCTCACCTCTCCACCAAATGCTGACTATTCATGGAGAAAGTGGCTTCT-TCTATTTGTGCACCCTGATGGCCCACCCAAACCTCAGCAGCTTCCCGAAGGTCCAAGTAGGGCACCACCCCTAGAGGACACGGAGGAAGAGAGAggtaagtctacaagccataatcttatagtgggaacagtaaagtgggcccct Alignment from CESAR g caGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTACCATATCCTCACCTCC-CACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAg ggtatctttgtagagtcttgggattgcatccctacaatctcctgttgcagctTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCATACGCTCACCTCTCCACCAAATGCTGACTATTCATGGAGAAAGTGGCTTC-TTCTATTTGTGCACCCTGATGGCCCACCCAAACCTCAGCAGCTTCCCGAAGGTCCAAGTAGGGCACCACCCCTAGAGGACACGGAGGAAGAGAGAggtaagtctacaagccataatcttatagtgggaacagtaaagtgggcccct Alignment from Spaln_aa2Genome G CAGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTACCATATCCTCACCTCCCACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAG GgtaggtttgtagagtcttgggattgcatccctacaatctcctgttgcagCTTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCATACGCTCACCTCTCCACCAAATGCTGACTATTCATGGAGAAAGTGGCTTCTTCTATTTGTGCACCCTGATGGCCCACCCAAACCTCAGCAGCTTCCCGAAGGTCCAAGTAGGGCACCACCCCTAGAGGACACGGAGGAAGAGAGAGgtaagtctacaagccataatcttatagtgggaacagtaaagtgggcccct Alignment from Spaln_nt2Genome G CAGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTACCATATCCTCACCTC-CCACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAG GgtaggtttgtagagtcttgggattgcatccctacaatctcctgttgcagCTTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCATACGCTCACCTCTCCACCAAATGCTGACTATTCATGGAGAAAGTGGCTTCT-TCTATTTGTGCACCCTGATGGCCCACCCAAACCTCAGCAGCTTCCCGAAGGTCCAAGTAGGGCACCACCCCTAGAGGACACGGAGGAAGAGAGAGgtaagtctacaagccataatcttatagtgggaacagtaaagtgggcccct Alignment from Pairagon -----------------------------------------------CAGCAGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTACCATATCCTCACCTC-CCACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAG GGTAGGTTTGTAGAGTCTTGGGATTGCATCCCTACAATCTCCTGTTGCAGCTTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCATACGCTCACCTCTCCACCAAATGCTGACTATTCATGGAGAAAGTGGCTTCT-TCTATTTGTGCACCCTGATGGCCCACCCAAACCTCAGCAGCTTCCCGAAGGTCCAAGTAGGGCACCACCCCTAGAGGACACGGAGGAAGAGAGAGgtaagtctacaagccataatcttatagtgggaacagtaaagtgggcccct Alignment from Exonerate_protein2genome G CAGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTACCATATCCTCACCTCCCACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAG GgtaggtttgtagagtcttgggattgcatccctacaatctcctgttgcagCTTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCATACGCTCACCTCTCCACCAAATGCTGACTATTCATGGAGAAAGTGGCTTCTTCTATTTGTGCACCCTGATGGCCCACCCAAACCTCAGCAGCTTCCCGAAGGTCCAAGTAGGGCACCACCCCTAGAGGACACGGAGGAAGAGAGAGgtaagtctacaagccataatcttatagtgggaacagtaaagtgggcccct Alignment from Exonerate_coding2genome G CAGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTACCATATCCTCACCTCCCACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAG GgtaggtttgtagagtcttgggattgcatccctacaatctcctgttgcagCTTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCATACGCTCACCTCTCCACCAAATGCTGACTATTCATGGAGAAAGTGGCTTCTTCTATTTGTGCACCCTGATGGCCCACCCAAACCTCAGCAGCTTCCCGAAGGTCCAAGTAGGGCACCACCCCTAGAGGACACGGAGGAAGAGAGAGgtaagtctacaagccataatcttatagtgggaacagtaaagtgggcccct Alignment from GeneWise G CAGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTACCATATCCTCACCTCCCACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAGGAGTGACCATGGATCCA--------- GgtaggtttgtagagtcttgggattgcatccctacaatctcctgttgcagCTTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCATACGCTCACCTCTCCACCAAATGCTGACTATTCATGGAGAAAGTGGCTTCTTCTATTTGTGCACCCTGATGGCCCACCCAAACCTCAGCAGCTTCCCGAAGGTCCAAGTAGGGCACCACCCCTAGAGGACACGGAGGAAGAGAGAGGTAAGTCTACAAGCCATAATCTTATAgtgggaacagtaaagtgggcccct #### Ltbp3_ID1258_10 --> 0 - 1 Original Alignment CCAGTGAGTGAGGAGCGA-TCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAg tattacgacttggactaccaacatgaggtctatttttaccccgaccacagCCAGTGAGTGAGGAGCGACTCTGTACAACAGAGCCATCCTGCCACTGTTA-CTCACCATCTCAACCTTTCCTTggtaatgtggttggtggagggcaagccataccaacaggggtaagcctagct Alignment from CESAR CCAGTGAGTGAGGAGCGA-TCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAg tattacgacttggactaccaacatgaggtctatttttaccccgaccacagCCAGTGAGTGAGGAGCGACTCTGTACAACAGAGCCATCCTGCCACTGTTA-CTCACCATCTCAACCTTTCCTTggtaatgtggttggtggagggcaagccataccaacaggggtaagcctagct Alignment from Spaln_aa2Genome CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG tattacgacttggactaccaacatgaggtctatttttaccccgaccacagCCAGTGAGTGAGGAGCGACTCTGTACAACAGAGCCATCCTGCCACTGTTACTCACCATCTCAACCTTTCCTTGgtaatgtggttggtggagggcaagccataccaacaggggtaagcctagct Alignment from Spaln_nt2Genome CCAGTGAGTGAGGAGCGA-TCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG tattacgacttggactaccaacatgaggtctatttttaccccgaccacagCCAGTGAGTGAGGAGCGACTCTGTACAACAGAGCCATCCTGCCACTGTTA-CTCACCATCTCAACCTTTCCTTGgtaatgtggttggtggagggcaagccataccaacaggggtaagcctagct Alignment from Pairagon CCAGTGAGTGAGGAGCGA-TCGGTGCAGCAGAGCCACC---CCACT tattacgacttggactaccaacatgaggtctatttttaccccgaccacagCCAGTGAGTGAGGAGCGACTCTGTACAACAGAGCCATCCTGCCACTgttactcaccatctcaacctttccttggtaatgtggttggtggagggcaagccataccaacaggggtaagcctagct Alignment from Exonerate_protein2genome CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG tattacgacttggactaccaacatgaggtctatttttaccccgaccacagCCAGTGAGTGAGGAGCGACTCTGTACAACAGAGCCATCCTGCCACTGTTACTCACCATCTCAACCTTTCCTTGgtaatgtggttggtggagggcaagccataccaacaggggtaagcctagct Alignment from Exonerate_coding2genome tattacgacttggactaccaacatgaggtctatttttaccccgaccacagccagtgagtgaggagcgactctgtacaacagagccatcctgccactgttactcaccatctcaacctttccttggtaatgtggttggtggagggcaagccataccaacaggggtaagcctagct Alignment from GeneWise -GTGACC tattacgacttggactaccaacatgaggtctatttttaccccgaccacagccagtgagtgaggagcgactctgtacaacagagccatcctgccactgttactcaccatctcaacctttccttggtaatgtggttggtggagggcaagccataccaacaggggtaagCCTAGCT #### Ltbp3_ID1261_13 --> 2 - 1 Original Alignment atGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCC-GGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGg gatgtgactggtcaattctagacatatctaacaggcctgttcccctgcagatGTGACTGGGTGTGGGGCTGAGCCCTGTGGCCCTCGGAAAAGGTATCTGTATGACTACTGGTGGATCATATA-TTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCGACTCTGTGTGggtgagtatacttgggtagcacacacctgtgtgcatttctgacaccagacc Alignment from CESAR atGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCC-GGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGg gatgtgactggtcaattctagacatatctaacaggcctgttcccctgcagatGTGACTGGGTGTGGGGCTGAGCCCTGTGGCCCTCGGAAAAGGTATCTGTATGACTACTGGTGGATCATAT-ATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCGACTCTGTGTGggtgagtatacttgggtagcacacacctgtgtgcatttctgacaccagacc Alignment from Spaln_aa2Genome ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG gatgtgactggtcaattctagacatatctaacaggcctgttcccctgcagATGTGACTGGGTGTGGGGCTGAGCCCTGTGGCCCTCGGAAAAGGTATCTGTATGACTACTGGTGGATCATATATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCGACTCTGTGTGGgtgagtatacttgggtagcacacacctgtgtgcatttctgacaccagacc Alignment from Spaln_nt2Genome ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCC-CGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG gatgtgactggtcaattctagacatatctaacaggcctgttcccctgcagATGTGACTGGGTGTGGGGCTGAGCCCTGTGGCCCTCGGAAAAGGTATCTGTATGACTACTGGTGGATCATA-TATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCGACTCTGTGTGGgtgagtatacttgggtagcacacacctgtgtgcatttctgacaccagacc Alignment from Pairagon ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCC-CGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG gatgtgactggtcaattctagacatatctaacaggcctgttcccctgcagATGTGACTGGGTGTGGGGCTGAGCCCTGTGGCCCTCGGAAAAGGTATCTGTATGACTACTGGTGGATCATAT-ATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCGACTCTGTGTGGgtgagtatacttgggtagcacacacctgtgtgcatttctgacaccagacc Alignment from Exonerate_protein2genome ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCC-GGGAAAGGCATCTGTATGAACACTGGTGGCTCC--TACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG gatgtgactggtcaattctagacatatctaacaggcctgttcccctgcagATGTGACTGGGTGTGGGGCTGAGCCCTGTGGCCCTCGGAAAAGGTATCTGTATGACTACTGGTGGATCATATAT---TGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCGACTCTGTGTGGgtgagtatacttgggtagcacacacctgtgtgcatttctgacaccagacc Alignment from Exonerate_coding2genome gatgtgactggtcaattctagacatatctaacaggcctgttcccctgcagatgtgactgggtgtggggctgagccctgtggccctcggaaaaggtatctgtatgactactggtggatcatatattgtcattgcaaccggggctaccgccttcatgtaggtgcagggggccgactctgtgtgggtgagtatacttgggtagcacacacctgtgtgcatttctgacaccagacc Alignment from GeneWise ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG gatgtgactggtcaattctagacatatctaacaggcctgttcccctgcagATGTGACTGGGTGTGGGGCTGAGCCCTGTGGCCCTCGGAAAAGGTATCTGTATGACTACTGGTGGATCATATATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCGACTCTGTGTGGgtgagtatacttgggtagcacacacctgtgtgcatttctgacaccagacc #### Ltbp3_ID1262_14 --> 2 - 1 Original Alignment acCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGC-TTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAg atttctgacaccagaccctctccttcctgtgtgtgtgtgtgtgtatgtagatCTAAACGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCCTTCTGCATCAATTTCCCAGGCCACTACACATGCAACT-TTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAggtgagatgtcatcctacttctcctcctggccttaggttggatgagtgcat Alignment from CESAR acCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGC-TTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAg atttctgacaccagaccctctccttcctgtgtgtgtgtgtgtgtatgtagatCTAAACGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCCTTCTGCATCAATTTCCCAGGCCACTACACATGCAAC-TTTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAggtgagatgtcatcctacttctcctcctggccttaggttggatgagtgcat Alignment from Spaln_aa2Genome ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG atttctgacaccagaccctctccttcctgtgtgtgtgtgtgtgtatgtagATCTAAACGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCCTTCTGCATCAATTTCCCAGGCCACTACACATGCAACTTTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAGgtgagatgtcatcctacttctcctcctggccttaggttggatgagtgcat Alignment from Spaln_nt2Genome ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGC-TTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG atttctgacaccagaccctctccttcctgtgtgtgtgtgtgtgtatgtagATCTAAACGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCCTTCTGCATCAATTTCCCAGGCCACTACACATGCAACT-TTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAGgtgagatgtcatcctacttctcctcctggccttaggttggatgagtgcat Alignment from Pairagon ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGG-CTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG atttctgacaccagaccctctccttcctgtgtgtgtgtgtgtgtatgtagATCTAAACGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCCTTCTGCATCAATTTCCCAGGCCACTACACATGCAACT-TTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAGgtgagatgtcatcctacttctcctcctggccttaggttggatgagtgcat Alignment from Exonerate_protein2genome ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG atttctgacaccagaccctctccttcctgtgtgtgtgtgtgtgtatgtagATCTAAACGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCCTTCTGCATCAATTTCCCAGGCCACTACACATGCAACTTTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAGgtgagatgtcatcctacttctcctcctggccttaggttggatgagtgcat Alignment from Exonerate_coding2genome atttctgacaccagaccctctccttcctgtgtgtgtgtgtgtgtatgtagatctaaacgagtgcacaaagccccatctgtgtggtgatggtggccttctgcatcaatttcccaggccactacacatgcaactttatcctggttacaggctcaaggcctccagaccaccaatctgggaaggtgagatgtcatcctacttctcctcctggccttaggttggatgagtgcat Alignment from GeneWise ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG atttctgacaccagaccctctccttcctgtgtgtgtgtgtgtgtatgtagATCTAAACGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCCTTCTGCATCAATTTCCCAGGCCACTACACATGCAACTTTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAGgtgagatgtcatcctacttctcctcctggccttaggttggatgagtgcat #### Ltbp3_ID1263_15 --> 2 - 1 Original Alignment acATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGC-TTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTg tggcaccatacttgtatcggaccatcctcactcaatgtgtgtcactgcagatATTGATGAATGTCATGATCCTAGCACTTGCCCAGATGGGAAGTGTGAAAATAAACTTGGGAGCCTTCAGGTGCATTGCTTGCCAGCCTGGTTACCGAAGCC-GGGAGGGGGGACATGCCATggtaagccaaagccagcctctcccatagggtttgtagggtcgcctgatgga Alignment from CESAR acATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGC-TTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTg tggcaccatacttgtatcggaccatcctcactcaatgtgtgtcactgcagatATTGATGAATGTCATGATCCTAGCACTTGCCCAGATGGGAAGTGTGAAAATAAACTTGGGAGCCTTCAGGTGCATTGCTTGCCAGCCTGGTTACCGAAGC-CGGGAGGGGGGACATGCCATggtaagccaaagccagcctctcccatagggtttgtagggtcgcctgatgga Alignment from Spaln_aa2Genome ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGC-TTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGG---GCCTGTCGTG tggcaccatacttgtatcggaccatcctcactcaatgtgtgtcactgcagATATTGATGAATGTCATGATCCTAGCACTTGCCCAGATGGGAAGTGTGAAAATAAACTTGGGAGCcTTCAGGTGCATTGCTTGCCAGCCTGGTTACCGAAGCCGGGAGGGGGGACATGCCATGGTAAgccaaagccagcctctcccatagggtttgtagggtcgcctgatgga Alignment from Spaln_nt2Genome ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAG-CTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTG tggcaccatacttgtatcggaccatcctcactcaatgtgtgtcactgcagATATTGATGAATGTCATGATCCTAGCACTTGCCCAGATGGGAAGTGTGAAAATAAACTTGGGAGCCTTCAGGTGCATTGCTTGCCAGCCTGGTTACCGAAGCC-GGGAGGGGGGACATGCCATGgtaagccaaagccagcctctcccatagggtttgtagggtcgcctgatgga Alignment from Pairagon ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAG-CTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTG tggcaccatacttgtatcggaccatcctcactcaatgtgtgtcactgcagATATTGATGAATGTCATGATCCTAGCACTTGCCCAGATGGGAAGTGTGAAAATAAACTTGGGAGCCTTCAGGTGCATTGCTTGCCAGCCTGGTTACCGAAGCC-GGGAGGGGGGACATGCCATGgtaagccaaagccagcctctcccatagggtttgtagggtcgcctgatgga Alignment from Exonerate_protein2genome ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGC-TTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGT tggcaccatacttgtatcggaccatcctcactcaatgtgtgtcactgcagATATTGATGAATGTCATGATCCTAGCACTTGCCCAGATGGGAAGTGTGAAAATAAACTTGGGAGCCTTCAGGTGCATTGCTTGCCAGCCTGGTTACCGAAGCCGGGAGGGGGGACATGCCATGgtaagccaaagccagcctctcccatagggtttgtagggtcgcctgatgga Alignment from Exonerate_coding2genome tggcaccatacttgtatcggaccatcctcactcaatgtgtgtcactgcagatattgatgaatgtcatgatcctagcacttgcccagatgggaagtgtgaaaataaacttgggagccttcaggtgcattgcttgccagcctggttaccgaagccgggaggggggacatgccatggtaagccaaagccagcctctcccatagggtttgtagggtcgcctgatgga Alignment from GeneWise ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAG---GGGGGCGGGGCCTGTCGTG tggcaccatacttgtatcggaccatcctcactcaatgtgtgtcactgcagATATTGATGAATGTCATGATCCTAGCACTTGCCCAGATGGGAAGTGTGAAAATAAACTTGGGAGCCTTCAG---GTGCATTGCTTGCCAGCCTGGTTACCGAAGCCGGGAGGGGGGACATGCCATGgtaagccaaagccagcctctcccatagggtttgtagggtcgcctgatgga #### Ltbp3_ID1274_26 --> 2 - 1 Original Alignment acGAAGACAGCTCAGAGGAGGATTCAGAT-GAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGg gtgattgtatgcaaagtctatgataggctctcttcctcttttgccagcagatGAAGACAGCTCAGAGGAAGATTCAGATCGAGTGCCGTTGTGTCATTGGGCACTGTGCCC-GCGTCCCGGTGGGGCTGTATGTGAGTGTCCTGGTGGCTTTCCATTGGATGCCTCCCGTGCCCGACGAGTAggtaagtatgacatcagggggcagatgggggtggaagacatcatgaaccta Alignment from CESAR acGAAGACAGCTCAGAGGAGGATTCAGAT-GAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGg gtgattgtatgcaaagtctatgataggctctcttcctcttttgccagcagatGAAGACAGCTCAGAGGAAGATTCAGATCGAGTGCCGTTGTGTCATTGGGCACTGT-GCCCGCGTCCCGGTGGGGCTGTATGTGAGTGTCCTGGTGGCTTTCCATTGGATGCCTCCCGTGCCCGACGAGTAggtaagtatgacatcagggggcagatgggggtggaagacatcatgaaccta Alignment from Spaln_aa2Genome CTCCGCGAGACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG gtatgcaaagtctatgataggctctcttcctcttttgccagCA------GATGAAGACAGCTCAGAGGAAGATTCAGATCGAGTGCCGTTGTGTCATTGGGCACTGTGCCCGCGTCCCGGTGGGGCTGTATGTGAGTGTCCTGGTGGCTTTCCATTGGATGCCTCCCGTGCCCGACGAGTAGgtaagtatgacatcagggggcagatgggggtggaagacatcatgaaccta Alignment from Spaln_nt2Genome ACGAAGACAGCTCAGAGGAGGATTCAGAT-GAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG gtgattgtatgcaaagtctatgataggctctcttcctcttttgccagcagATGAAGACAGCTCAGAGGAAGATTCAGATCGAGTGCCGTTGTGTCATTGGGCACTGTG-CCCGCGTCCCGGTGGGGCTGTATGTGAGTGTCCTGGTGGCTTTCCATTGGATGCCTCCCGTGCCCGACGAGTAGgtaagtatgacatcagggggcagatgggggtggaagacatcatgaaccta Alignment from Pairagon ACGAAGACAGCTCAGAGGAGGATTCAGAT-GAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG gtgattgtatgcaaagtctatgataggctctcttcctcttttgccagcagATGAAGACAGCTCAGAGGAAGATTCAGATCGAGTGCCGTTGTGTCATTGGGCACTGTGC-CCGCGTCCCGGTGGGGCTGTATGTGAGTGTCCTGGTGGCTTTCCATTGGATGCCTCCCGTGCCCGACGAGTAGgtaagtatgacatcagggggcagatgggggtggaagacatcatgaaccta Alignment from Exonerate_protein2genome CTCCGCGAGACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG gtgattgtatgcaaagtctatgataggctctcttcctctttTGCCAGCAGATGAAGACAGCTCAGAGGAAGATTCAGATCGAGTGCCGTTGTGTCATTGGGCACTGTGCCCGCGTCCCGGTGGGGCTGTATGTGAGTGTCCTGGTGGCTTTCCATTGGATGCCTCCCGTGCCCGACGAGTAGgtaagtatgacatcagggggcagatgggggtggaagacatcatgaaccta Alignment from Exonerate_coding2genome gtgattgtatgcaaagtctatgataggctctcttcctcttttgccagcagatgaagacagctcagaggaagattcagatcgagtgccgttgtgtcattgggcactgtgcccgcgtcccggtggggctgtatgtgagtgtcctggtggctttccattggatgcctcccgtgcccgacgagtaggtaagtatgacatcagggggcagatgggggtggaagacatcatgaaccta Alignment from GeneWise --------------TCTCCGCGAGACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG gtgattgtatgcaaagtctatgatagGCTCTCTTCCTCTTTTGCCAGCAGATGAAGACAGCTCAGAGGAAGATTCAGATCGAGTGCCGTTGTGTCATTGGGCACTGTGCCCGCGTCCCGGTGGGGCTGTATGTGAGTGTCCTGGTGGCTTTCCATTGGATGCCTCCCGTGCCCGACGAGTAGgtaagtatgacatcagggggcagatgggggtggaagacatcatgaaccta #### Macrod1_ID2051_6 --> 2 - 0 Original Alignment atGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGC-TACTTGAGCAGC---CTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG gagtagaagacatcattggtacacccccccccccctcgtctgcctctcagatGTCATT------GTGGGGCTCATTGCAGTAGGG------------AGTGAGGCGGCTGAATTCCACAGTTGTCTATCTGAGCAGTCCGTTAGACCTACTGCTAGAACACA-ATTGTGTCCAGTTgtaagatggtggactcaagggcaaaagctggcattacactagtagaaaca Alignment from CESAR atGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGC-TACTTGAGCAGC---CTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG gagtagaagacatcattggtacacccccccccccctcgtctgcctctcagatGTCATT------GTGGGGCTCATTGCAGTAGGG------------AGTGAGGCGGCTGAATTCCACAGTTGTCTATCTGAGCAGTCCGTTAGACCTACTGCTAGAAC-ACAATTGTGTCCAGTTgtaagatggtggactcaagggcaaaagctggcattacactagtagaaaca Alignment from Spaln_aa2Genome ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTG---AGCAGCCTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG gagtagaagacatcattggtacacccccccccccctcgtctgcctctcagATGTCATT------GTGGGGCTCATTGCAGTAGGG------------AGTGAGGCGGCTGAATTCCACAGTTGTCTATCTGAGCAGTCCGTTAGACCTACTGCTAGAACACAATTGTGTCCAGTTgtaagatggtggactcaagggcaaaagctggcattacactagtagaaaca Alignment from Spaln_nt2Genome ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTG-CTACTTGAGCAGCCTG---GACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG gagtagaagacatcattggtacacccccccccccctcgtctgcctctcagATGTCAT------TGTGGGGCTCATTGCAGTAGG------------GAGTGAGGCGGCTGAATTCCACAGTTGTCTATCTGAGCAGTCCGTTAGACCTACTGCTAGAACA-CAATTGTGTCCAGTTgtaagatggtggactcaagggcaaaagctggcattacactagtagaaaca Alignment from Pairagon ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTG-CTACTTGAGCAGCCTG---GACCTGCTGCTGGAGC---------------- gagtagaagacatcattggtacacccccccccccctcgtctgcctctcagATGTCATT------GTGGGGCTCATTGCAGTAGG------------GAGTGAGGCGGCTGAATTCCACAGTTGTCTATCTGAGCAGTCCGTTAGACCTACTGCTAGAACACAATTGTGTCCAGTTgtaagatggtggactcaagggcaaaagctggcattacactagtagaaaca Alignment from Exonerate_protein2genome CCATCGCCGTGGGCCAA---CCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGC-TACTTGAGCAGC---CTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGT gagtagaagacatcattggtacacccccccccccctcgtctgcctctcagATGTCATTGTGGGGCTCATTGCAGTAGGGAGTGAGGCGGCTGAATTCCACAGTTGTCTATCTGAGCAGTCCGTTAGACCTACTGCTAGAACACAATTGTGTCCAGTTgtaagatggtggactcaagggcaaaagctggcattacactagtagaaaca Alignment from Exonerate_coding2genome gagtagaagacatcattggtacacccccccccccctcgtctgcctctcagatgtcattgtggggctcattgcagtagggagtgaggcggctgaattccacagttgtctatctgagcagtccgttagacctactgctagaacacaattgtgtccagttgtaagatggtggactcaagggcaaaagctggcattacactagtagaaaca Alignment from GeneWise ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAG gagtagaagacatcattggtacacccccccccccctcgtctgcctctcagATGTCATT------GTGGGGCTCATTGCAGTAGGG------------AGTGAGGCGGCTGAATTCCACAGTTGTCTATCTGAGCAgtccgttagacctactgctagaacacaattgtgtccagttgtaagatggtggactcaagggcaaaagctggcattacactagtagaaaca #### Macrod1_ID2053_8 --> 2 - 0 Original Alignment gcTACCCCAATGAGGAG-GCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG aatgtggtgggacccaatatgcatttactttctctgacttcttactccaggcTACCCCAATGAGGAGCGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAATGGTTGGAGC-ACACAAGGACAAGgtaacaccaaattcatgacaggagtttggttagatgaagaggttttattg Alignment from CESAR gcTACCCCAATGAGGAG-GCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG aatgtggtgggacccaatatgcatttactttctctgacttcttactccaggcTACCCCAATGAGGAGCGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAATGGTTGGAGC-ACACAAGGACAAGgtaacaccaaattcatgacaggagtttggttagatgaagaggttttattg Alignment from Spaln_aa2Genome GCTACCCCAATGAGGAG-GCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG aatgtggtgggacccaatatgcatttactttctctgacttcttactccagGCTACCCCAATGAGGAGcGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAATGGTTGGAGCA-CACAAGGACAAGgtaacaccaaattcatgacaggagtttggttagatgaagaggttttattg Alignment from Spaln_nt2Genome GCTACCCCAATGAGGAG-GCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG aatgtggtgggacccaatatgcatttactttctctgacttcttactccagGCTACCCCAATGAGGAGCGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAATGGTTGGAGCA-CACAAGGACAAGgtaacaccaaattcatgacaggagtttggttagatgaagaggttttattg Alignment from Pairagon GCTACCCCAATGAGGAG-GCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG aatgtggtgggacccaatatgcatttactttctctgacttcttactccagGCTACCCCAATGAGGAGCGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAATGGTTGGAGCA-CACAAGGACAAGgtaacaccaaattcatgacaggagtttggttagatgaagaggttttattg Alignment from Exonerate_protein2genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG aatgtggtgggacccaatatgcatttactttctctgacttcttactccagGCTACCCCAATGAGGAGCGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAATGGTTGGAGCACACAAGGACAAGgtaacaccaaattcatgacaggagtttggttagatgaagaggttttattg Alignment from Exonerate_coding2genome aatgtggtgggacccaatatgcatttactttctctgacttcttactccaggctaccccaatgaggagcgctgcagaggtagtgctggtttcattgcaggaatggttggagcacacaaggacaaggtaacaccaaattcatgacaggagtttggttagatgaagaggttttattg Alignment from GeneWise -----------CGCTCAGTGGCTTTCCCGTGCATCTCCACAGGCGTGTTTGGCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG AATGTGGTGGGACCCAATATGCATTTACTTTCTCTGACTTCTTACTCCAGGCTACCCCAATGAGGAGCGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAATGGTTGGAGCA-CACAAGGACAAGgtaacaccaaattcatgacaggagtttggttagatgaagaggttttattg #### Macrod1_ID2054_9 --> 0 - 1 Original Alignment GTGGATCGGCTCATCATCTGTGTG-TTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAg ttcacctgatatggtcgaagtttaagtacattctgtgaccttaaatgcagGTGGATCGACTCATTATCTGTGTACTGCTTGGAGAAAGAAGAGGGCATTTACAGGGAAC-TCTTCCGCATTATTTCCCAGTAggtaagtataagtggctcctatacttgaagggacctgctgccacttccctt Alignment from CESAR GTGGATCGGCTCATCATCTGTGTGTTC-CTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAg ttcacctgatatggtcgaagtttaagtacattctgtgaccttaaatgcagGTGGATCGACTCATTATCTGTGTACTGCTTGGAGAAAGAAGAGGGCATTTACAGGGAA-CTCTTCCGCATTATTTCCCAGTAggtaagtataagtggctcctatacttgaagggacctactgcccttctcctg Alignment from Spaln_aa2Genome GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAG ttcacctgatatggtcgaagtttaagtacattctgtgaccttaaatgcagGTGGATCGACTCATTATCTGTGTACTGCTTGGAGAAAGAAGAGGGCATTTACAGGGAACTCTTCCGCATTATTTCCCAGTAGgtaagtataagtggctcctatacttgaagggacctgctgccacttccctt Alignment from Spaln_nt2Genome GTGGATCGGCTCATCATCTGTGTGTTCCT-GGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAGCC ttcacctgatatggtcgaagtttaagtacattctgtgaccttaaatgcagGTGGATCGACTCATTATCTGTGTACTGCTTGGAGAAAGAAGAGGGCATTTACAGGGAAC-TCTTCCGCATTATTTCCCAGTAGGTaagtataagtggctcctatacttgaagggacctgctgccacttccctt Alignment from Pairagon GTGGATCGGCTCATCATCTGTGTGTT-CCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAGCC ttcacctgatatggtcgaagtttaagtacattctgtgaccttaaatgcagGTGGATCGACTCATTATCTGTGTACTGCTTGGAGAAAGAAGAGGGCATTTACAGGGAAC-TCTTCCGCATTATTTCCCAGTAGGTaagtataagtggctcctatacttgaagggacctgctgccacttccctt Alignment from Exonerate_protein2genome GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTA ttcacctgatatggtcgaagtttaagtacattctgtgaccttaaatgcagGTGGATCGACTCATTATCTGTGTACTGCTTGGAGAAAGAAGAGGGCATTTACAGGGAACTCTTCCGCATTATTTCCCAGTAggtaagtataagtggctcctatacttgaagggacctgctgccacttccctt Alignment from Exonerate_coding2genome ttcacctgatatggtcgaagtttaagtacattctgtgaccttaaatgcaggtggatcgactcattatctgtgtactgcttggagaaagaagagggcatttacagggaactcttccgcattatttcccagtaggtaagtataagtggctcctatacttgaagggacctgctgccacttccctt Alignment from GeneWise GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAGCC ttcacctgatatggtcgaagtttaagtacattctgtgaccttaaatgcagGTGGATCGACTCATTATCTGTGTACTGCTTGGAGAAAGAAGAGGGCATTTACAGGGAACTCTTCCGCATTATTTCCCAGTAGGTaagtataagtggctcctatacttgaagggacctgctgccacttccctt #### Map3k11_ID1203_4 --> 2 - 0 Original Alignment CACAACTCATGGCTg acTGCTGGGCACAGGACCCCCACCGCAGG-CCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG CACAACTAATGGCTggtgagctgagattgctgcttctctctctgttgcagatTGCTGGGCACAGGATCCACACCGCAGGCCCCCATTTTGCTTCTTTATTGCAGCAGTTGGAAGCCCTAG-AGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGTTTGTTTGATGATCTGCGGGCTAAGGAAAAGgtaagctgcatctgcctatgggacatagcaaggatacataacattgagtc Alignment from CESAR CACAACTCATGGCTg acTGCTGGGCACAGGACCCCCACCGCAGGCCC-GACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG CACAACTAATGGCTggtaggctgagattgctgcttctctctctgttgcagatTGCTGGGCACAGGATCCACACCGCAGGCCCCCATTTTGCTTCTTTATTGCAGCAGTTGGAAGCCCTAG-AGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGTTTGTTTGATGATCTGCGGGCTAAGGAAAAGgtaagctgcatctgcctatgggacatagcaaggatacataacattgagtc Alignment from Spaln_aa2Genome CACAACTCATGGCTG ACTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG CACAACTAATGGCTGgtgagctgagattgctgcttctctctctgttgcagATTGCTGGGCACAGGATCCACACCGCAGGCCCCCATTTTGCTTCTTTATTGCAGCAGTTGGAAGCCCTAGAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGTTTGTTTGATGATCTGCGGGCTAAGGAAAAGgtaagctgcatctgcctatgggacatagcaaggatacataacattgagtc Alignment from Spaln_nt2Genome CACAACTCATGGCTG ACTGCTGGGCACAGGACCCCCACCGCAGGCCCG-ACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG CACAACTAATGGCTGgtgagctgagattgctgcttctctctctgttgcagATTGCTGGGCACAGGATCCACACCGCAGGCCCCCATTTTGCTTCTTTATTGCAGCAGTTGGAAGCCCTAG-AGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGTTTGTTTGATGATCTGCGGGCTAAGGAAAAGgtaagctgcatctgcctatgggacatagcaaggatacataacattgagtc Alignment from Pairagon CACAACTCATGGCTG ACTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCC---------------TGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG CACAACTAATGGCTGgtgagctgagattgctgcttctctctctgttgcagATTGCTGGGCACAGGATCCACACCGCAGGCCC--------------CCATTTTGCTTCTTTATTGCAGCAGTTGGAAGCCCTAG-AGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGTTTGTTTGATGATCTGCGGGCTAAGGAAAAGgtaagctgcatctgcctatgggacatagcaaggatacataacattgagtc Alignment from Exonerate_protein2genome CACAACTCATGGCTG ACTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG CACAACTAATGGCTGgtgagctgagattgctgcttctctctctgttgcagATTGCTGGGCACAGGATCCACACCGCAGGCCCCCATTTTGCTTCTTTATTGCAGCAGTTGGAAGCCCTAGAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGTTTGTTTGATGATCTGCGGGCTAAGGAAAAGgtaagctgcatctgcctatgggacatagcaaggatacataacattgagtc Alignment from Exonerate_coding2genome CACAACTCATGGCTG ACTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG CACAACTAATGGCTGgtgagctgagattgctgcttctctctctgttgcagATTGCTGGGCACAGGATCCACACCGCAGGCCCCCATTTTGCTTCTTTATTGCAGCAGTTGGAAGCCCTAGAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGTTTGTTTGATGATCTGCGGGCTAAGGAAAAGgtaagctgcatctgcctatgggacatagcaaggatacataacattgagtc Alignment from GeneWise CACAACTCATGGCTG ACTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG CACAACTAATGGCTGgtgagctgagattgctgcttctctctctgttgcagATTGCTGGGCACAGGATCCACACCGCAGGCCCCCATTTTGCTTCTTTATTGCAGCAGTTGGAAGCCCTAGAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGTTTGTTTGATGATCTGCGGGCTAAGGAAAAGgtaagctgcatctgcctatgggacatagcaaggatacataacattgagtc #### Map3k11_ID1204_5 --> 0 - 1 Original Alignment GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGA------CGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAG-CTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGg tcctacatcgtgagttgatagctatattcccgcatctgctatttcttcagGAACTCCTTAGTCAAGAGGAAGAATTGACATGGGCTGCATGTGTGCAGTGGTCTCAGGCAGAACAGCTCCAGCTGAGCCGCCATGAGCATTTGTTGGCACAATGGGAGCTGGAGGTTTTTGAACAACTGCCTGCACCTGACATTACTACTCCAGCAGGTGGATCGAGAAC-GGCACATGTACACCGACGGCAGGCCACCTCCAAATTGAGCAAGCTCCGAGCCAGAGATAGTGAAGAACGGGTCAGCATGACTTTGggtgagagctgtgactccaagcagtagcattaaggattactgctttgcaaa Alignment from CESAR GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGA------CGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAG-CTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGg tcctacatcgtgagttgatagctatattcccgcatctgctatttcttcagGAACTCCTTAGTCAAGAGGAAGAATTGACATGGGCTGCATGTGTGCAGTGGTCTCAGGCAGAACAGCTCCAGCTGAGCCGCCATGAGCATTTGTTGGCACAATGGGAGCTGGAGGTTTTTGAACAACTGCCTGCACCTGACATTACTACTCCAGCAGGTGGATCGAGAACGG-CACATGTACACCGACGGCAGGCCACCTCCAAATTGAGCAAGCTCCGAGCCAGAGATAGTGAAGAACGGGTCAGCATGACTTTGggtgagagctgtgactccaagcagtagcattaaggattactgctttgcaaa Alignment from Spaln_aa2Genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGA------CGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC-------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG tcctacatcgtgagttgatagctatattcccgcatctgctatttcttcagGAACTCCTTAGTCAAGAGGAAGAATTGACATGGGCTGCATGTGTGCAGTGGTCTCAGGCAGAACAGCTCCAGCTGAGCCGCCATGAGCATTTGTTGGCACAATGGGAGCTGGAGGTTTTTGAACAACTGCCTgCACCTGACATTACTACTCCAGCAGGTGGATCGAGAACGGCA-CATGTACACCGACGGCAGGCCACCTCCAAATTGAGCAAGCTCCGAGCCAGAGATAGTGAAGAACGGGTCAGCATGACTTTGGgtgagagctgtgactccaagcagtagcattaaggattactgctttgcaaa Alignment from Spaln_nt2Genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGACGGCGC------GAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGC----GCGAGC---TGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG tcctacatcgtgagttgatagctatattcccgcatctgctatttcttcagGAACTCCTTAGTCAAGAGGAAGAATTGACATGGGCTGCATGTGTGCAGTGGTCTCAGGCAGAACAGCTCCAGCTGAGCCGCCATGAGCATTTGTTGGCACAATGGGAGCTGGAGGTTTTTGAACAACTGCCTGCACCTGACATTACTACTCCAGCAGGTGGATCGAGAACGG-CACATGTACACCGACGGCAGGCCACCTCCAAATTGAGCAAGCTCCGAGCCAGAGATAGTGAAGAACGGGTCAGCATGACTTTGGgtgagagctgtgactccaagcagtagcattaaggattactgctttgcaaa Alignment from Pairagon GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGC------GACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGA----------GCGCGAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG tcctacatcgtgagttgatagctatattcccgcatctgctatttcttcagGAACTCCTTAGTCAAGAGGAAGAATTGACATGGGCTGCATGTGTGCAGTGGTCTCAGGCAGAACAGCTCCAGCTGAGCCGCCATGAGCATTTGTTGGCACAATGGGAGCTGGAGGTTTTTGAACAACTGCCTGCAC---CTGACATTACTACTCCAGCAGGTGGATCGAGAACGG-CACATGTACACCGACGGCAGGCCACCTCCAAATTGAGCAAGCTCCGAGCCAGAGATAGTGAAGAACGGGTCAGCATGACTTTGGgtgagagctgtgactccaagcagtagcattaaggattactgctttgcaaa Alignment from Exonerate_protein2genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGA------CGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC-------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGG--CCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG tcctacatcgtgagttgatagctatattcccgcatctgctatttcttcagGAACTCCTTAGTCAAGAGGAAGAATTGACATGGGCTGCATGTGTGCAGTGGTCTCAGGCAGAACAGCTCCAGCTGAGCCGCCATGAGCATTTGTTGGCACAATGGGAGCTGGAGGTTTTTGAACAACTGCCTGCACCTGACATTACTACTCCAGCAGGTGGATCGAGAACGGCA---CATGTACACCGACGGCAGGCCACCTCCAAATTGAGCAAGCTCCGAGCCAGAGATAGTGAAGAACGGGTCAGCATGACTTTGGgtgagagctgtgactccaagcagtagcattaaggattactgctttgcaaa Alignment from Exonerate_coding2genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGA------CGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC-------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGG--CCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTG tcctacatcgtgagttgatagctatattcccgcatctgctatttcttcagGAACTCCTTAGTCAAGAGGAAGAATTGACATGGGCTGCATGTGTGCAGTGGTCTCAGGCAGAACAGCTCCAGCTGAGCCGCCATGAGCATTTGTTGGCACAATGGGAGCTGGAGGTTTTTGAACAACTGCCTGCACCTGACATTACTACTCCAGCAGGTGGATCGAGAACGGCA---CATGTACACCGACGGCAGGCCACCTCCAAATTGAGCAAGCTCCGAGCCAGAGATAGTGAAGAACGGGTCAGCATGACTTTGggtgagagctgtgactccaagcagtagcattaaggattactgctttgcaaa Alignment from GeneWise GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGA------CGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG tcctacatcgtgagttgatagctatattcccgcatctgctatttcttcagGAACTCCTTAGTCAAGAGGAAGAATTGACATGGGCTGCATGTGTGCAGTGGTCTCAGGCAGAACAGCTCCAGCTGAGCCGCCATGAGCATTTGTTGGCACAATGGGAGCTGGAGGTTTTTGAACAACTGCCTGCACCTGACATTACTACTCCAGCAGGTGGATCGAGAACGGCACATGTACACCGACGGCAGGCCACCTCCAAATTGAGCAAGCTCCGAGCCAGAGATAGTGAAGAACGGGTCAGCATGACTTTGGgtgagagctgtgactccaagcagtagcattaaggattactgctttgcaaa #### Map4k2_ID1624_4 --> 1 - 1 Original Alignment gAATGACCGATTG-TGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCACg caggtgcctcactcttagttgctcactgaccttctttttctctcctgtaggAATGACCGATTGCTGGATCTGTATGGAGTTCTGTGGAGGGGCAT-ACTACAGGAAGTTTACCATggtgaggaccaaaccccatggacctgtcattctttgattactataacatgt Alignment from CESAR gAATGACCGATTG-TGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCACg caggtgcctcactcttagttgctcactgaccttctttttctctcctgtaggAATGACCGATTGCTGGATCTGTATGGAGTTCTGTGGAG-GGGCATACTACAGGAAGTTTACCATggtgaggaccaaaccccatggacctgtcattctttgattactataacatgt Alignment from Spaln_aa2Genome GAATGACCGATTG-TGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCACG caggtgcctcactcttagttgctcactgaccttctttttctctcctgtagGAATGACCGATTGcTGGATCTGTATGGAGTTCTGTGGAGGGGCATA-CTACAGGAAGTTTACCATGgtgaggaccaaaccccatggacctgtcattctttgattactataacatgt Alignment from Spaln_nt2Genome GAATGACCGATTG-TGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCACG caggtgcctcactcttagttgctcactgaccttctttttctctcctgtagGAATGACCGATTGCTGGATCTGTATGGAGTTCTGTGGAGG-GGCATACTACAGGAAGTTTACCATGgtgaggaccaaaccccatggacctgtcattctttgattactataacatgt Alignment from Pairagon GAATGACCGATTG-TGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCACG caggtgcctcactcttagttgctcactgaccttctttttctctcctgtagGAATGACCGATTGCTGGATCTGTATGGAGTTCTGTGGAGG-GGCATACTACAGGAAGTTTACCATGgtgaggaccaaaccccatggacctgtcattctttgattactataacatgt Alignment from Exonerate_protein2genome caggtgcctcactcttagttgctcactgaccttctttttctctcctgtaggaatgaccgattgctggatctgtatggagttctgtggaggggcatactacaggaagtttaccatggtgaggaccaaaccccatggacctgtcattctttgattactataacatgt Alignment from Exonerate_coding2genome caggtgcctcactcttagttgctcactgaccttctttttctctcctgtaggaatgaccgattgctggatctgtatggagttctgtggaggggcatactacaggaagtttaccatggtgaggaccaaaccccatggacctgtcattctttgattactataacatgt Alignment from GeneWise GAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCACG caggtgcctcactcttagttgctcactgaccttctttttctctcctgtagGAATGACCGATTGCTGGATCTGTATGGAGTTCTGTGGAGGGGCATACTACAGGAAGTTTACCATGgtgaggaccaaaccccatggacctgtcattctttgattactataacatgt #### Map4k2_ID1634_13 --> 0 - 1 Original Alignment ACCCATGACATGTTTCCA-GATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGt aagtctactggtgcacagcacaagataattcctgtttgtctaacatccagACCCATGATATGTTCCCACGATACTATCCATTCCCACAGCCATCATGGTC-AGCTGAAAGGACTCATTCAGAGATCCAGtgtaaggtatcagatggtgaaaaaatcctaatgagatgaggtaactgcaac Alignment from CESAR ACCCATGACATGTTTCCA-GATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGt aagtctactggtgcacagcacaagataattcctgtttgtctaacatccagACCCATGATATGTTCCCACGATACTATCCATTCCCACAGCCATCATGGT-CAGCTGAAAGGACTCATTCAGAGATCCAGtgtaaggtatcagatggtgaaaaaatcctaatgagatgaggtaactgcaac Alignment from Spaln_aa2Genome ACCCATGACATGTTTCCAGATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGT aagtctactggtgcacagcacaagataattcctgtttgtctaacatccagACCCATGATATGTTCCCACGATACTATCCATTCCCACAGCCATCATGGTCAGCTGAAAGGACTCATTCAGAGATCCAGTgtaaggtatcagatggtgaaaaaatcctaatgagatgaggtaactgcaac Alignment from Spaln_nt2Genome ACCCATGACATGTTTCCA-GATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGT aagtctactggtgcacagcacaagataattcctgtttgtctaacatccagACCCATGATATGTTCCCACGATACTATCCATTCCCACAGCCATCATGGT-CAGCTGAAAGGACTCATTCAGAGATCCAGTgtaaggtatcagatggtgaaaaaatcctaatgagatgaggtaactgcaac Alignment from Pairagon ACCCATGACATGTTTCCA-GATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGT aagtctactggtgcacagcacaagataattcctgtttgtctaacatccagACCCATGATATGTTCCCACGATACTATCCATTCCCACAGCCATCATGGTCA-GCTGAAAGGACTCATTCAGAGATCCAGTgtaaggtatcagatggtgaaaaaatcctaatgagatgaggtaactgcaac Alignment from Exonerate_protein2genome ACCCATGACATGTTTCCA-GATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGTTTCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAG aagtctactggtgcacagcacaagataattcctgtttgtctaacatccagACCCATGATATGTTCCCACGATACTATCCATTCCCACAGCCATCATGGTCAGCTGAAAGGACTCATTCAGAGATCCAGTGTAAGGTATCAGATGGTGAAAAAATCCTAATGAGATGAGgtaactgcaac Alignment from Exonerate_coding2genome aagtctactggtgcacagcacaagataattcctgtttgtctaacatccagacccatgatatgttcccacgatactatccattcccacagccatcatggtcagctgaaaggactcattcagagatccagtgtaaggtatcagatggtgaaaaaatcctaatgagatgaggtaactgcaac Alignment from GeneWise ACCCATGACATGTTTCCAGATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGT aagtctactggtgcacagcacaagataattcctgtttgtctaacatccagACCCATGATATGTTCCCACGATACTATCCATTCCCACAGCCATCATGGTCAGCTGAAAGGACTCATTCAGAGATCCAGTgtaaggtatcagatggtgaaaaaatcctaatgagatgaggtaactgcaac #### Map4k2_ID1635_14 --> 2 - 0 Original Alignment ttCACCAAGTGAAATTC-GGT------------------GCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG aatgagatgaggtaactgcaacgggaccatcaatggtgttcactacttagttCACCAAGTGGAACTCCACAGCTCCACACCAGAAGGAGACTCCCCAACAGGAAG-GACAGAC------AATGATGCAgtaggctaaatgtacaggggggaaggctaagggcgactcctacgtcagaa Alignment from CESAR ttCACCAAGTGAAATTC-GGTGCTCCTCGCCGGAAGGAGACAGATCCTCTC------------AATGAACCG aatgagatgaggtaactgcaacgggaccatcaatggtgttcactacttagttCACCAAGTGGAACTCCACAGCTCCACACCAGAAGGAGACT-CCCCAACAGGAAGGACAGACAATGATGCAgtaggctaaatgtacaggggggaaggctaagggcgactcctacgtcagaa Alignment from Spaln_aa2Genome TTCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTC------------AATGAACCG aatgagatgaggtaactgcaacgggaccatcaatggtgttcactacttagTTCACCAAGTGGAACTCCACAGCTCCACACCAGAAGGAGACTCCCCAACAGGAAGGACAGACAATGATGCAgtaggctaaatgtacaggggggaaggctaagggcgactcctacgtcagaa Alignment from Spaln_nt2Genome TTCACCAAGTGAAATTCGGT-GCTCCTCGCCGGAAGGAGACAGATCCTCT-----------CAATGAACCG aatgagatgaggtaactgcaacgggaccatcaatggtgttcactacttagTTCACCAAGTGGAACTCCACAGCTCCACACCAGAAGGAGACTCCCCAACAGGAAGGACAGACAATGATGCAgtaggctaaatgtacaggggggaaggctaagggcgactcctacgtcagaa Alignment from Pairagon aatgagatgaggtaactgcaacgggaccatcaatggtgttcactacttagttcaccaagtggaactccacagctccacaccagaaggagactccccaacaggaaggacagacaatgatgcagtaggctaaatgtacaggggggaaggctaagggcgactcctacgtcagaa Alignment from Exonerate_protein2genome CCGGAAGGAGA AATGAGATGAGgtaactgcaacgggaccatcaatggtgttcactacttagttcaccaagtggaactccacagctccacaccagaaggagactccccaacaggaaggacagacaatgatgcagtaggctaaatgtacaggggggaaggctaagggcgactcctacgtcagaa Alignment from Exonerate_coding2genome aatgagatgaggtaactgcaacgggaccatcaatggtgttcactacttagttcaccaagtggaactccacagctccacaccagaaggagactccccaacaggaaggacagacaatgatgcagtaggctaaatgtacaggggggaaggctaagggcgactcctacgtcagaa Alignment from GeneWise aatgagatgaggtaactgcaacgggaccatcaatggtgttcactacttagttcaccaagtggaactccacagctccacaccagaaggagactccccaacaggaaggacagacaatgatgcagtaggctaaatgtacaggggggaaggctaagggcgactcctacgtcagaa #### Map4k2_ID1642_21 --> 0 - 1 Original Alignment ATGGGTGCCTGCTTCTCCAAGGTCTTC-AATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAg aagcggttccattgtcttagctcactggggatgttatgacactcctgtagATGGGGGCATGCTTCACAAAGGTCTCTCAACGGCTGTCCTCTGCAGATTCATGCCGCTG-TACTTGGGTCCACCCTGTGACACGAggtaagagtgggcaaactaaaggggataacttaggcacctatgaccatgat Alignment from CESAR ATGGGTGCCTGCTTCTCCAAGGTC-TTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAg gagtggttccattgtcttagctcactggggatgttatgacactcctgtagATGGGGGCATGCTTCACAAAGGTCTCTCAACGGCTGTCCTCTGCAGATTCATGCCGCTG-TACTTGGGTCCACCCTGTGACACGAggtaagagtgggcaaactaaaggggataacttaggcacctatgaccatgat Alignment from Spaln_aa2Genome ATGGGTGCCTGCTTCTCCAAGGTC-TTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAG aagcggttccattgtcttagctcactggggatgttatgacactcctgtagATGGGGGCATGCTTCACAAAGGTCtCTCAACGGCTGTCCTCTGCAGATTCATGCCGCTGT-ACTTGGGTCCACCCTGTGACACGAGgtaagagtgggcaaactaaaggggataacttaggcacctatgaccatgat Alignment from Spaln_nt2Genome ATGGGTGCCTGCTTCTCCAAGGTCT-TCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAG aagcggttccattgtcttagctcactggggatgttatgacactcctgtagATGGGGGCATGCTTCACAAAGGTCTCTCAACGGCTGTCCTCTGCAGATTCATGCCGCTGT-ACTTGGGTCCACCCTGTGACACGAGgtaagagtgggcaaactaaaggggataacttaggcacctatgaccatgat Alignment from Pairagon ATGGGTGCCTGCTTCTCCAAGGTCT-TCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAG aagcggttccattgtcttagctcactggggatgttatgacactcctgtagATGGGGGCATGCTTCACAAAGGTCTCTCAACGGCTGTCCTCTGCAGATTCATGCCGCTGT-ACTTGGGTCCACCCTGTGACACGAGgtaagagtgggcaaactaaaggggataacttaggcacctatgaccatgat Alignment from Exonerate_protein2genome ATGGGTGCCTGCTTCTCCAAGGTCTTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAG aagcggttccattgtcttagctcactggggatgttatgacactcctgtagATGGGGGCATGCTTCACAAAGGTCTCTCAACGGCTGTCCTCTGCAGATTCATGCCGCTGTACTTGGGTCCACCCTGTGACACGAGgtaagagtgggcaaactaaaggggataacttaggcacctatgaccatgat Alignment from Exonerate_coding2genome aagcggttccattgtcttagctcactggggatgttatgacactcctgtagatgggggcatgcttcacaaaggtctctcaacggctgtcctctgcagattcatgccgctgtacttgggtccaccctgtgacacgaggtaagagtgggcaaactaaaggggataacttaggcacctatgaccatgat Alignment from GeneWise ATGGGTGCCTGCTTCTCCAAGGTCTTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAG aagcggttccattgtcttagctcactggggatgttatgacactcctgtagATGGGGGCATGCTTCACAAAGGTCTCTCAACGGCTGTCCTCTGCAGATTCATGCCGCTGTACTTGGGTCCACCCTGTGACACGAGgtaagagtgggcaaactaaaggggataacttaggcacctatgaccatgat #### Map4k2_ID1647_26 --> 2 - 0 Original Alignment ttCGAAACCCCTATACCGGCAGTACGTTC-CTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gtgggagtgccatgcaactggccccaccgtgatgtttttctgtgttatagtcCACAATCCTTATACTAGCAGCACATTCCCTGCTGGCTGCTCTACCTGCAAGCCTCCTGCTTT-AGAATGGTATGAGCCCCTGCAGAAATTTCTCCTGCTTAAGgtaagggactttttaatacatagagctgcatggcatttaatcctcatctt Alignment from CESAR ttCGAAACCCCTATACCGGCAGTACGTTC-CTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gtgggagtgccatgcaactggccccaccgtgatgtttttctgtgttatagtcCACAATCCTTATACTAGCAGCACATTCCCTGCTGGCTGCTCTACCTGCAAGCCTCCTGC-TTTAGAATGGTATGAGCCCCTGCAGAAATTTCTCCTGCTTAAGgtaagggactttttaatacatagagctgcatggcatttcttggttggttt Alignment from Spaln_aa2Genome TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gtgggagtgccatgcaactggccccaccgtgatgtttttctgtgttatagTCCACAATCCTTATACTAGCAGCACATTCCCTGCTGGCTGCTCTACCTGCAAGCCTCCTGCTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTCCTGCTTAAGgtaagggactttttaatacatagagctgcatggcatttaatcctcatctt Alignment from Spaln_nt2Genome TTCGAAACCCCTATACCGGCAGTACGTTCC-TGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gtgggagtgccatgcaactggccccaccgtgatgtttttctgtgttatagTCCACAATCCTTATACTAGCAGCACATTCCCTGCTGGCTGCTCTACCTGCAAGCCTCCTGCT-TTAGAATGGTATGAGCCCCTGCAGAAATTTCTCCTGCTTAAGgtaagggactttttaatacatagagctgcatggcatttaatcctcatctt Alignment from Pairagon TTCGAAACCCCTATACCGGCAGTACGTT-CCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gtgggagtgccatgcaactggccccaccgtgatgtttttctgtgttatagTCCACAATCCTTATACTAGCAGCACATTCCCTGCTGGCTGCTCTACCTGCAAGCCTCCTGCT-TTAGAATGGTATGAGCCCCTGCAGAAATTTCTCCTGCTTAAGgtaagggactttttaatacatagagctgcatggcatttaatcctcatctt Alignment from Exonerate_protein2genome TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gtgggagtgccatgcaactggccccaccgtgatgtttttctgtgttatagTCCACAATCCTTATACTAGCAGCACATTCCCTGCTGGCTGCTCTACCTGCAAGCCTCCTGCTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTCCTGCTTAAGgtaagggactttttaatacatagagctgcatggcatttaatcctcatctt Alignment from Exonerate_coding2genome TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gtgggagtgccatgcaactggccccaccgtgatgtttttctgtgttatagTCCACAATCCTTATACTAGCAGCACATTCCCTGCTGGCTGCTCTACCTGCAAGCCTCCTGCTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTCCTGCTTAAGgtaagggactttttaatacatagagctgcatggcatttaatcctcatctt Alignment from GeneWise -------------------------------------------------GTTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG-------------------------------------------------- GTGGGAGTGCCATGCAACTGGCCCCACCGTGATGTTTTTCTGTGTTATAGTCCACAATCCTTATACTAGCAGCACATTCCCTGCTGGCTGCTCTACCTGCAAGCCTCCTGCTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTCCTGCTTAAGGTAAGGGACTTTTTAATACATAGAGCTGCATGGCATTTAATCCTCATCTT #### March5_ID7302_4 --> 0 - 1 Original Alignment GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTG-ATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAg gcatctatgaaggtgtgaaagggactttctcttgaactctttttctgtagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGAGCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTCATGCTGCATACTAGGAAAAATGATTCGCTGGGAGGACCATGTGC-TAGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAggtgagccattggtatggtattgcattcaaggcatacatagctaggattaa Alignment from CESAR GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTG-ATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAg gcatctatgaaggtgtgaaagggactttctcttgaactctttttctgtagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGAGCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTCATGCTGCATACTAGGAAAAATGATTCGCTGGGAGGACCATGTGC-TAGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAggtgagccattggtatggtattgcattcaaggcatacatagctaggattaa Alignment from Spaln_aa2Genome GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG gcatctatgaaggtgtgaaagggactttctcttgaactctttttctgtagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGAGCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTCATGCTGCATACTAGGAAAAATGATTCGCTGGGAGGACCATGTGCTAGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtgagccattggtatggtattgcattcaaggcatacatagctaggattaa Alignment from Spaln_nt2Genome GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTG-ATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG gcatctatgaaggtgtgaaagggactttctcttgaactctttttctgtagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGAGCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTCATGCTGCATACTAGGAAAAATGATTCGCTGGGAGGACCATGTGC-TAGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtgagccattggtatggtattgcattcaaggcatacatagctaggattaa Alignment from Pairagon GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTG-ATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG gcatctatgaaggtgtgaaagggactttctcttgaactctttttctgtagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGAGCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTCATGCTGCATACTAGGAAAAATGATTCGCTGGGAGGACCATGTGC-TAGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtgagccattggtatggtattgcattcaaggcatacatagctaggattaa Alignment from Exonerate_protein2genome GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTG-ATACTAGGCAAAATGATTCGCTGGGAGGACTATGTG--CTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG gcatctatgaaggtgtgaaagggactttctcttgaactctttttctgtagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGAGCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTCATGCTGCATACTAGGAAAAATGATTCGCTGGGAGGACCATGTGCT---AGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtgagccattggtatggtattgcattcaaggcatacatagctaggattaa Alignment from Exonerate_coding2genome GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTG-ATACTAGGCAAAATGATTCGCTGGGAGGACTATGTG--CTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG gcatctatgaaggtgtgaaagggactttctcttgaactctttttctgtagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGAGCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTCATGCTGCATACTAGGAAAAATGATTCGCTGGGAGGACCATGTGCT---AGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtgagccattggtatggtattgcattcaaggcatacatagctaggattaa Alignment from GeneWise GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG gcatctatgaaggtgtgaaagggactttctcttgaactctttttctgtagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGAGCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTCATGCTGCATACTAGGAAAAATGATTCGCTGGGAGGACCATGTGCTAGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtgagccattggtatggtattgcattcaaggcatacatagctaggattaa #### Mark2_ID2106_15 --> 1 - 2 Original Alignment cCTAACCATGCCAGGGTCCCGG-GCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCag cccatctaactcttcactcagtgggtttgccagctccccctttcttgcagcCTAACCATGCCAGGATCCCGGCGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGG-CCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCTGTGCACCCCAACAAGGCTTCTGGGTTGCCCCCCACAGAGAGTAACTGTGAGGTGCCTCAGCCCaggtaggcctacagggatagctatacatctatggcaccatgctggacactcg Alignment from CESAR cCTAACCATGCCAGGGTCCCGG-GCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCag cccatctaactcttcactcagtgggtttgccagctccccctttcttgcagcCTAACCATGCCAGGATCCCGGCGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGG-CCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCTGTGCACCCCAACAAGGCTTCTGGGTTGCCCCCCACAGAGAGTAACTGTGAGGTGCCTCAGCCCaggtaggcctacagggatagctatacatctatggcaccatgctggacactcg Alignment from Spaln_aa2Genome CCTAACCATGCCAGGGTCCCGG-GCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cccatctaactcttcactcagtgggtttgccagctccccctttcttgcagCCTAACCATGCCAGGATCCCGGcGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCGGCCC-CGCCAGCACCAGAAATCCATGTCTGCCTCTGTGCACCCCAACAAGGCTTCTGGGTTGCCCCCCACAGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaggcctacagggatagctatacatctatggcaccatgctggacactcg Alignment from Spaln_nt2Genome CCTAACCATGCCAGGGTCCCGG-GCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cccatctaactcttcactcagtgggtttgccagctccccctttcttgcagCCTAACCATGCCAGGATCCCGGCGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGG-CCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCTGTGCACCCCAACAAGGCTTCTGGGTTGCCCCCCACAGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaggcctacagggatagctatacatctatggcaccatgctggacactcg Alignment from Pairagon CCTAACCATGCCAGGGTCCCGG-GCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cccatctaactcttcactcagtgggtttgccagctccccctttcttgcagCCTAACCATGCCAGGATCCCGGCGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGG-CCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCTGTGCACCCCAACAAGGCTTCTGGGTTGCCCCCCACAGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaggcctacagggatagctatacatctatggcaccatgctggacactcg Alignment from Exonerate_protein2genome CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cccatctaactcttcactcagtgggtttgccagctccccctttcttgcagCCTAACCATGCCAGGATCCCGGCGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCTGTGCACCCCAACAAGGCTTCTGGGTTGCCCCCCACAGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaggcctacagggatagctatacatctatggcaccatgctggacactcg Alignment from Exonerate_coding2genome CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cccatctaactcttcactcagtgggtttgccagctccccctttcttgcagCCTAACCATGCCAGGATCCCGGCGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCTGTGCACCCCAACAAGGCTTCTGGGTTGCCCCCCACAGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaggcctacagggatagctatacatctatggcaccatgctggacactcg Alignment from GeneWise CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cccatctaactcttcactcagtgggtttgccagctccccctttcttgcagCCTAACCATGCCAGGATCCCGGCGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCTGTGCACCCCAACAAGGCTTCTGGGTTGCCCCCCACAGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaggcctacagggatagctatacatctatggcaccatgctggacactcg #### Mark2_ID2113_8 --> 0 - 0 Original Alignment GCAGAAAACCTGCTCCTGGATGCTGATATGAACATCAAGATTGCAGACTTTGGCTTTAGCAACGAATTCACCTTTGGGAACAAGCTGGATACTTTCTGTGGCAGTCCTCCTTATGCTGCCCCAGAACTTTTCCAGGGCAAAAAGTATGATGGTCCT-GAGGTGGATGTCTGGAGCCTGGGAGTCATCCTCTATACACTGGTCAGCGGATCCCTGCCTTTTGATGGACAGAACCTCAAG gagcctgtatacattgtcactatccatcatgaaatatttatcttttttagTCAGAGAAGCTGCTTTTGGATGCCGACATGAACATTAAGATTGCAGACTTTGGATTTAGCAACAAGTTCACTTTTGGGAATGTACTGGACACTTTTTGTGGCAGTCCTCCTTATGCTGCTCCAGAGTATTTCCAGGCTAAAAAGTATGATGGCCATCGAAGTAGATGTTCGGAGCCTTGGAGTCATTC-TTATACACTA------GGATCTCTGCCCTTTGATGGACGAAATTTAATGgtatggaaactgagcatggacagctttttgctttgagcccttctcggacc Alignment from CESAR GCAGAAAACCTGCTCCTGGATGCTGATATGAACATCAAGATTGCAGACTTTGGCTTTAGCAACGAATTCACCTTTGGGAACAAGCTGGATACTTTCTGTGGCAGTCCTCCTTATGCTGCCCCAGAACTTTTCCAGGGCAAAAAGTATGATGGTCCT-GAGGTGGATGTCTGGAGCCTGGGAGTCATCCTCTATACACTGGTCAGCGGATCCCTGCCTTTTGATGGACAGAACCTCAAG gagcctgtatacattgtcactatccatcatgaaatatttatcttttttagTCAGAGAAGCTGCTTTTGGATGCCGACATGAACATTAAGATTGCAGACTTTGGATTTAGCAACAAGTTCACTTTTGGGAATGTACTGGACACTTTTTGTGGCAGTCCTCCTTATGCTGCTCCAGAGTATTTCCAGGCTAAAAAGTATGATGGCCATCGAAGTAGATGTTCGGAGCCTTGGAGTCATTC-TTATACACTA------GGATCTCTGCCCTTTGATGGACGAAATTTAATGgtatggaaactgagcatggacagctttttgctttgagcccttctcggacc Alignment from Spaln_aa2Genome GCAGAAAACCTGCTCCTGGATGCTGATATGAACATCAAGATTGCAGACTTTGGCTTTAGCAACGAATTCACCTTTGGGAACAAGCTGGATACTTTCTGTGGCAGTCCTCCTTATGCTGCCCCAGAACTTTTCCAGGGCAAAAAGTATGATGGTCCTGAGGTGGATGTCTGGAGCCTGGGAGTCATCCTCTATACACTGGTCAGCGGATCCCTGCCTTTTGATGGACAGAACCTCAAG gagcctgtatacattgtcactatccatcatgaaatatttatcttttttagTCAGAGAAGCTGCTTTTGGATGCCGACATGAACATTAAGATTGCAGACTTTGGATTTAGCAACAAGTTCACTTTTGGGAATGTACTGGACACTTTTTGTGGCAGTCCTCCTTATGCTGCTCCAGAGTATTTCCAGGCTAAAAAGTATGATGGCCATCGAAGTAGATGTTCGGAGCCTTGGAGTCATTCTTATACACTA------GGATCTCTGCCCTTTGATGGACGAAATTTAATGgtatggaaactgagcatggacagctttttgctttgagcccttctcggacc Alignment from Spaln_nt2Genome GCAGAAAACCTGCTCCTGGATGCTGATATGAACATCAAGATTGCAGACTTTGGCTTTAGCAACGAATTCACCTTTGGGAACAAGCTGGATACTTTCTGTGGCAGTCCTCCTTATGCTGCCCCAGAACTTTTCCAGGGCAAAAAGTATGATGGTCCT-GAGGTGGATGTCTGGAGCCTGGGAGTCATCCTCTATACACTGGTCAGCGGATCCCTGCCTTTTGATGGACAGAACCTCAAG gagcctgtatacattgtcactatccatcatgaaatatttatcttttttagTCAGAGAAGCTGCTTTTGGATGCCGACATGAACATTAAGATTGCAGACTTTGGATTTAGCAACAAGTTCACTTTTGGGAATGTACTGGACACTTTTTGTGGCAGTCCTCCTTATGCTGCTCCAGAGTATTTCCAGGCTAAAAAGTATGATGGCCATCGAAGTAGATGTTCGGAGCCTTGGAGTCATTCT-TATACACT------AGGATCTCTGCCCTTTGATGGACGAAATTTAATGgtatggaaactgagcatggacagctttttgctttgagcccttctcggacc Alignment from Pairagon GCAGAAAACCTGCTCCTGGATGCTGATATGAACATCAAGATTGCAGACTTTGGCTTTAGCAACGAATTCACCTTTGGGAACAAGCTGGATACTTTCTGTGGCAGTCCTCCTTATGCTGCCCCAGAACTTTTCCAGGGCAAAAAGTATGATGGTCCT-GAGGTGGATGTCTGGAGCCTGGGAGTCATCCTCTATACACTGGTCAGCGGATCCCTGCCTTTTGATGGACAGAACCTCAAG gagcctgtatacattgtcactatccatcatgaaatatttatcttttttagTCAGAGAAGCTGCTTTTGGATGCCGACATGAACATTAAGATTGCAGACTTTGGATTTAGCAACAAGTTCACTTTTGGGAATGTACTGGACACTTTTTGTGGCAGTCCTCCTTATGCTGCTCCAGAGTATTTCCAGGCTAAAAAGTATGATGGCCATCGAAGTAGATGTTCGGAGCCTTGGAGTCATTCT-TATACACTA------GGATCTCTGCCCTTTGATGGACGAAATTTAATGgtatggaaactgagcatggacagctttttgctttgagcccttctcggacc Alignment from Exonerate_protein2genome GCAGAAAACCTGCTCCTGGATGCTGATATGAACATCAAGATTGCAGACTTTGGCTTTAGCAACGAATTCACCTTTGGGAACAAGCTGGATACTTTCTGTGGCAGTCCTCCTTATGCTGCCCCAGAACTTTTCCAGGGCAAAAAGTATGATGGTCCTGAGGTGGATGTCTGGAGCCTGGGAGTCATCCTCTATACACTGGTCAGCGGATCCCTGCCTTTTGATGGACAGAACCTCAAG gagcctgtatacattgtcactatccatcatgaaatatttatcttttttagTCAGAGAAGCTGCTTTTGGATGCCGACATGAACATTAAGATTGCAGACTTTGGATTTAGCAACAAGTTCACTTTTGGGAATGTACTGGACACTTTTTGTGGCAGTCCTCCTTATGCTGCTCCAGAGTATTTCCAGGCTAAAAAGTATGATGGCCATCGAAGTAGATGTTCGGAGCCTTGGAGTCATTCTTATACACTA------GGATCTCTGCCCTTTGATGGACGAAATTTAATGgtatggaaactgagcatggacagctttttgctttgagcccttctcggacc Alignment from Exonerate_coding2genome GCAGAAAACCTGCTCCTGGATGCTGATATGAACATCAAGATTGCAGACTTTGGCTTTAGCAACGAATTCACCTTTGGGAACAAGCTGGATACTTTCTGTGGCAGTCCTCCTTATGCTGCCCCAGAACTTTTCCAGGGCAAAAAGTATGATGGTCCTGAGGTGGATGTCTGGAGCCTGGGAGTCATCCTCTATACACTGGTCAGCGGATCCCTGCCTTTTGATGGACAGAACCTCAAG gagcctgtatacattgtcactatccatcatgaaatatttatcttttttagTCAGAGAAGCTGCTTTTGGATGCCGACATGAACATTAAGATTGCAGACTTTGGATTTAGCAACAAGTTCACTTTTGGGAATGTACTGGACACTTTTTGTGGCAGTCCTCCTTATGCTGCTCCAGAGTATTTCCAGGCTAAAAAGTATGATGGCCATCGAAGTAGATGTTCGGAGCCTTGGAGTCATTCTTATACACTA------GGATCTCTGCCCTTTGATGGACGAAATTTAATGgtatggaaactgagcatggacagctttttgctttgagcccttctcggacc Alignment from GeneWise GCAGAAAACCTGCTCCTGGATGCTGATATGAACATCAAGATTGCAGACTTTGGCTTTAGCAACGAATTCACCTTTGGGAACAAGCTGGATACTTTCTGTGGCAGTCCTCCTTATGCTGCCCCAGAACTTTTCCAGGGCAAAAAGTATGATGGTCCTGAGGTGGATGTCTGGAGCCTGGGAGTCATCCTCTATACACTGGTCAGCGGATCCCTGCCTTTTGATGGACAGAACCTCAAG gagcctgtatacattgtcactatccatcatgaaatatttatcttttttagTCAGAGAAGCTGCTTTTGGATGCCGACATGAACATTAAGATTGCAGACTTTGGATTTAGCAACAAGTTCACTTTTGGGAATGTACTGGACACTTTTTGTGGCAGTCCTCCTTATGCTGCTCCAGAGTATTTCCAGGCTAAAAAGTATGATGGCCATCGAAGTAGATGTTCGGAGCCTTGGAGTCATTCTTATACACTA------GGATCTCTGCCCTTTGATGGACGAAATTTAATGgtatggaaactgagcatggacagctttttgctttgagcccttctcggacc #### Mark2_ID2115_6 --> 2 - 0 Original Alignment gaGAGGTGTTTGATTAC-CTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG atgagacaacccctacccttgactcttacattatttcccccatcccacaggtGAGCTGTTTGATTATCCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCGAG-CAAATACCACCAGgtaagggtgttgctaaatctgcaagtttggcaccagtgtgagaatacaga Alignment from CESAR gaGAGGTGTTTGATTAC-CTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG atgagacaacccctacccttgactcttacattatttcccccatcccacaggtGAGCTGTTTGATTATCCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCGAG-CAAATACCACCAGgtaagggtgttgctaaatctgcaagtttggcaccagtgtgagaatacaga Alignment from Spaln_aa2Genome GAGAGGTGTTTGATTAC-CTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG atgagacaacccctacccttgactcttacattatttcccccatcccacagGTGAGCTGTTTGATTATcCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCGAGC-AAATACCACCAGgtaagggtgttgctaaatctgcaagtttggcaccagtgtgagaatacaga Alignment from Spaln_nt2Genome GAGAGGTGTTTGATTA-CCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG atgagacaacccctacccttgactcttacattatttcccccatcccacagGTGAGCTGTTTGATTATCCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCGAG-CAAATACCACCAGgtaagggtgttgctaaatctgcaagtttggcaccagtgtgagaatacaga Alignment from Pairagon GAGAGGTGTTTGATTA-CCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG atgagacaacccctacccttgactcttacattatttcccccatcccacagGTGAGCTGTTTGATTATCCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCGAG-CAAATACCACCAGgtaagggtgttgctaaatctgcaagtttggcaccagtgtgagaatacaga Alignment from Exonerate_protein2genome GAGAGGTGTTTGATTAC-CTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCA atgagacaacccctacccttgactcttacattatttcccccatcccacagGTGAGCTGTTTGATTATCCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCGAGCAAATACCACCAGgtaagggtgttgctaaatctgcaagtttggcaccagtgtgagaatacaga Alignment from Exonerate_coding2genome GAGAGGTGTTTGATTAC-CTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCA atgagacaacccctacccttgactcttacattatttcccccatcccacagGTGAGCTGTTTGATTATCCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCGAGCAAATACCACCAGgtaagggtgttgctaaatctgcaagtttggcaccagtgtgagaatacaga Alignment from GeneWise GGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGC-- atgagacaacccctacccttgactcttacattatttcccccatcccacaggtgagCTGTTTGATTATCCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCGAGCAAATACCACCAGgtaagggtgttgctaaatctgcaagtttggcaccagtgtgagaatacaga #### Mrpl11_ID768_3 --> 0 - 1 Original Alignment CCCGACAGGACA-TTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAg ctgactggggaatggactgagtatatgcggattggtatcctctcccttagCCTGATAGACCTCCTGGAT---------------------GTCTCCTACTTGC-TAAGGCAGCTTCTGGCATTGAGAAGGGAGCGCGGCATGCAggtgagtgttctggcaagccatgtgcggcaaggcaccaaggaccaaatagc Alignment from CESAR CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTG---AAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAg ctgactggggaatggactgagtatatgcggattggtatcctctcccttagCCTGATAGA------------------------CCTCCTGGATGTCTCCTACTTGCTAAGGCAGCTTCTGGCATTGAGAAGGGAGCGCGGCATGCAggtgagtgttctggcaagccatgtgcggcaaggcaccaaggaccaaatagc Alignment from Spaln_aa2Genome CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ctgactggggaatggactgagtatatgcggattggtatcctctcccttagCCTGATAGA---------------------CCTCCTGGATGTCTCCTACTTGCTAAGGCAGCTTCTGGCATTGAGAAGGGAGCGCGGCATGCAGgtgagtgttctggcaagccatgtgcggcaaggcaccaaggaccaaatagc Alignment from Spaln_nt2Genome ---GATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ctgactggggaatggactgagtatatgcggattggtatcctctcccttagCCTGATAGACCTCCTGGATGTCTCCTACTTGCT-AAGGCAGCTTCTGGCATTGAGAAGGGAGCGCGGCATGCAGgtgagtgttctggcaagccatgtgcggcaaggcaccaaggaccaaatagc Alignment from Pairagon CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ctgactggggaatggactgagtatatgcggattggtatcctctcccttagcctgatagacctcctggatgtctcctacttgctaag---------------------------------------------------------GCAGCTTCTGGCATTGAGAAGGGAGCGCGGCATGCAGgtgagtgttctggcaagccatgtgcggcaaggcaccaaggaccaaatagc Alignment from Exonerate_protein2genome GCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ctgactggggaatggactgagtatatgcggattggtatcctctcccttagcctgatagACCTCCTGGATGTCTCCTACTTGCTAAGGCAGCTTCTGGCATTGAGAAGGGAGCGCGGCATGCAGgtgagtgttctggcaagccatgtgcggcaaggcaccaaggaccaaatagc Alignment from Exonerate_coding2genome CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCT ctgactggggaatggactgagtatatgcggattggtatcctctcccttagcctgatagacctcctggatgtctcctacttgctaaggcagcttctggcattgagaagGGAGCGCGGCATGCAGGTGAGTGTTCTGGCAAGCCATGTGCGGCAAGGCACCAAGGACCAAATAGC Alignment from GeneWise CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCAT------------------------------------------------------ ctgactggggaatggactgagtatatgcggattggtatcctctcccttagCCTGATAGA---------------------CCTCCTGGATGTCTCCTACTTGCTAAGGCAGCTTCTGGCATTGAGAAGGGAGCGCGGCATGCAGGTGAGTGTTCTGGCAAGCCATGTGCGGCAAGGCACCAAGGACCAAATAGC #### Mrpl43_ID9260_2 --> 1 - 1 Original Alignment gGAGTTCGTGGAACGCGAGGTGACCGAC-TTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACc ggcacaaaacttagaactagcctaatacgtaattttattttcttttgtagaGAGTTAGTTGAACGTGAGGTTACTGACCTTTGCCCAATGGAACCCAGGAGTTGTGG-ATATGTGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACtgtacagccagctgagtgagggcaggggtatccagtacttaatctattaca Alignment from CESAR gGAGTTCGTGGAACGCGAGGTGACCGAC-TTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACc ggcacaaaacttagaactagcctaatacgtaattttattttcttttgtagaGAGTTAGTTGAACGTGAGGTTACTGACCTTTGCCCAATGGAACCCAGGAGTTGTG-GATATGTGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACtgtacagccagctgagtgagggcaggggtatccagtacttaatctattaca Alignment from Spaln_aa2Genome GGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcctaatacgtaattttattttcttttgtagAGAGTTAGTTGAACGTGAGGTTACTGACCTTTGCCCAATGGAACCCAGGAGTTGTGGATATGTGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtacagccagctgagtgagggcaggggtatccagtacttaatctattaca Alignment from Spaln_nt2Genome GGAGTTCGTGGAACGCGAGGTGACCGAC-TTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcctaatacgtaattttattttcttttgtagAGAGTTAGTTGAACGTGAGGTTACTGACCTTTGCCCAATGGAACCCAGGAGTTGT-GGATATGTGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtacagccagctgagtgagggcaggggtatccagtacttaatctattaca Alignment from Pairagon GGAGTTCGTGGAACGCGAGGTGACCGA-CTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcctaatacgtaattttattttcttttgtagAGAGTTAGTTGAACGTGAGGTTACTGACCTTTGCCCAATGGAACCCAGGAGTTGTGG-ATATGTGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtacagccagctgagtgagggcaggggtatccagtacttaatctattaca Alignment from Exonerate_protein2genome GGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcctaatacgtaattttattttcttttgtagAGAGTTAGTTGAACGTGAGGTTACTGACCTTTGCCCAATGGAACCCAGGAGTTGTGGATATGTGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtacagccagctgagtgagggcaggggtatccagtacttaatctattaca Alignment from Exonerate_coding2genome GGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcctaatacgtaattttattttcttttgtagAGAGTTAGTTGAACGTGAGGTTACTGACCTTTGCCCAATGGAACCCAGGAGTTGTGGATATGTGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtacagccagctgagtgagggcaggggtatccagtacttaatctattaca Alignment from GeneWise GGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcctaatacgtaattttattttcttttgtagAGAGTTAGTTGAACGTGAGGTTACTGACCTTTGCCCAATGGAACCCAGGAGTTGTGGATATGTGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtacagccagctgagtgagggcaggggtatccagtacttaatctattaca #### Ms4a10_ID3085_2 --> 0 - 0 Original Alignment GGCTTTCACATCGCCATTGCTTTTGCA-CACTTGGCCTTTGGTGGCTACTTGATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccagacacagctcagcattagtgaggatttctgtggtctcttatgcagGGATTTCACATTACCATTGCCTTTGCTCCATTTAGCCTTTGGTGGGTACTTGATCTCCACAG-CAAGAATCTGCACCTTGTAGTACTGAAATGTTGGTATCCACTTTGGGGAACTGTCTCAgtaaataagtgcctatagcaaccagcgaagtgcctaggatgtctacaaag Alignment from CESAR GGCTTTCACATCGCCATTGCTTTTGCA-CACTTGGCCTTTGGTGGCTACTTGATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccagacacagctcagcattagtgaggatttctgtggtctcttatgcagGGATTTCACATTACCATTGCCTTTGCTCCATTTAGCCTTTGGTGGGTACTTGATCTCCACA-GCAAGAATCTGCACCTTGTAGTACTGAAATGTTGGTATCCACTTTGGGGAACTGTCTCAgtaaataagtgcctatagcaaccagcgaagtgcctaggatgtctacaaag Alignment from Spaln_aa2Genome GGCTTTCACATCGCCATTGCTTTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccagacacagctcagcattagtgaggatttctgtggtctcttatgcagGGATTTCACATTACCATTGCCTTTGCTCCATTTAGCCTTTGGTGGGTACTTGATCTCCACAGCAAGAATCTGCACCTTGTAGTACTGAAATGTTGGTATCCACTTTGGGGAACTGTCTCAgtaaataagtgcctatagcaaccagcgaagtgcctaggatgtctacaaag Alignment from Spaln_nt2Genome GGCTTTCACATCGCCATTGCTTTTGCAC-ACTTGGCCTTTGGTGGCTACTTGATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccagacacagctcagcattagtgaggatttctgtggtctcttatgcagGGATTTCACATTACCATTGCCTTTGCTCCATTTAGCCTTTGGTGGGTACTTGATCTCCACAG-CAAGAATCTGCACCTTGTAGTACTGAAATGTTGGTATCCACTTTGGGGAACTGTCTCAgtaaataagtgcctatagcaaccagcgaagtgcctaggatgtctacaaag Alignment from Pairagon GGCTTTCACATCGCCATTGCTTTTGC-ACACTTGGCCTTTGGTGGCTACTTGATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccagacacagctcagcattagtgaggatttctgtggtctcttatgcagGGATTTCACATTACCATTGCCTTTGCTCCATTTAGCCTTTGGTGGGTACTTGATCTCCACAG-CAAGAATCTGCACCTTGTAGTACTGAAATGTTGGTATCCACTTTGGGGAACTGTCTCAgtaaataagtgcctatagcaaccagcgaagtgcctaggatgtctacaaag Alignment from Exonerate_protein2genome GGCTTTCACATCGCCATTGCTTTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccagacacagctcagcattagtgaggatttctgtggtctcttatgcagGGATTTCACATTACCATTGCCTTTGCTCCATTTAGCCTTTGGTGGGTACTTGATCTCCACAGCAAGAATCTGCACCTTGTAGTACTGAAATGTTGGTATCCACTTTGGGGAACTGTCTCAgtaaataagtgcctatagcaaccagcgaagtgcctaggatgtctacaaag Alignment from Exonerate_coding2genome gtccagacacagctcagcattagtgaggatttctgtggtctcttatgcagggatttcacattaccattgcctttgctccatttagcctttggtgggtacttgatctccacagcaagaatctgcaccttgtagtactgaaatgttggtatccactttggggaactgtctcagtaaataagtgcctatagcaaccagcgaagtgcctaggatgtctacaaag Alignment from GeneWise GGCTTTCACATCGCCATTGCTTTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccagacacagctcagcattagtgaggatttctgtggtctcttatgcagGGATTTCACATTACCATTGCCTTTGCTCCATTTAGCCTTTGGTGGGTACTTGATCTCCACAGCAAGAATCTGCACCTTGTAGTACTGAAATGTTGGTATCCACTTTGGGGAACTGTCTCAgtaaataagtgcctatagcaaccagcgaagtgcctaggatgtctacaaag #### Ms4a2_ID3243_2 --> 1 - 0 Original Alignment tGCACCTGACATTGAACTCTTGGAAGCA-TCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attgagatctgttcagaacactggtagtggcccctttctcccttcagcagtGCACCTGACATTGAGCTCCTGGAAGCACTCACCTGCCAAAGCAGCTCCACCAAAGCAGACAT-GCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtgggtttgtaggcttatttgtcaatgacgaaagcattgccttctcccac Alignment from CESAR tGCACCTGACATTGAACTCTTGGAAGCA-TCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attgagatctgttcagaacactggtagtggcccctttctcccttcagcagtGCACCTGACATTGAGCTCCTGGAAGCACTCACCTGCCAAAGCAGCTCCACCAAAGCAGACA-TGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtgggtttgtaggcttatttgtcaatgacgaaagcattgccttctcccac Alignment from Spaln_aa2Genome TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attgagatctgttcagaacactggtagtggcccctttctcccttcagcagTGCACCTGACATTGAGCTCCTGGAAGCACTCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtgggtttgtaggcttatttgtcaatgacgaaagcattgccttctcccac Alignment from Spaln_nt2Genome TGCACCTGACATTGAACTCTTGGAAGCA-TCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attgagatctgttcagaacactggtagtggcccctttctcccttcagcagTGCACCTGACATTGAGCTCCTGGAAGCACTCACCTGCCAAAGCAGCTCCACCAAAGCAGACAT-GCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtgggtttgtaggcttatttgtcaatgacgaaagcattgccttctcccac Alignment from Pairagon TGCACCTGACATTGAACTCTTGGAAGCA-TCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attgagatctgttcagaacactggtagtggcccctttctcccttcagcagTGCACCTGACATTGAGCTCCTGGAAGCACTCACCTGCCAAAGCAGCTCCACCAAAGCAGACAT-GCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtgggtttgtaggcttatttgtcaatgacgaaagcattgccttctcccac Alignment from Exonerate_protein2genome TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attgagatctgttcagaacactggtagtggcccctttctcccttcagcagTGCACCTGACATTGAGCTCCTGGAAGCACTCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtgggtttgtaggcttatttgtcaatgacgaaagcattgccttctcccac Alignment from Exonerate_coding2genome TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attgagatctgttcagaacactggtagtggcccctttctcccttcagcagTGCACCTGACATTGAGCTCCTGGAAGCACTCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtgggtttgtaggcttatttgtcaatgacgaaagcattgccttctcccac Alignment from GeneWise TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attgagatctgttcagaacactggtagtggcccctttctcccttcagcagTGCACCTGACATTGAGCTCCTGGAAGCACTCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtgggtttgtaggcttatttgtcaatgacgaaagcattgccttctcccac #### Mta2_ID2532_5 --> 1 - 0 Original Alignment gGGGAAGTGCAGC-GTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG aatgacttgtgtctctacatcctaagttccctctctctcactgctctcaggGTAAAATGCAGTCGTGAGTCTTTTGAACGAGACAGACATCTTAAATC-GTATCTAGACAAGGAGgtgagtagccatctggagaaaaaggcgggtggatattgaatgtaggtgag Alignment from CESAR gGGGAAGTGCAGC-GTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG aatgacttgtgtctctacatcctaagttccctctctctcactgctctcaggGTAAAATGCAGTCGTGAGTCTTTTGAACGAGACAGACATCTTAAAT-CGTATCTAGACAAGGAGgtgagtagccatctggagaaaaaggcgggtggatattgaatgtaggtgag Alignment from Spaln_aa2Genome GGGGAAGTGCAGC-GTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG aatgacttgtgtctctacatcctaagttccctctctctcactgctctcagGGTAAAATGCAGTcGTGAGTCTTTTGAACGAGACAGACATCTTAAATCG-TATCTAGACAAGGAGgtgagtagccatctggagaaaaaggcgggtggatattgaatgtaggtgag Alignment from Spaln_nt2Genome GGGGAAGTGCAG-CGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG aatgacttgtgtctctacatcctaagttccctctctctcactgctctcagGGTAAAATGCAGTCGTGAGTCTTTTGAACGAGACAGACATCTTAAATC-GTATCTAGACAAGGAGgtgagtagccatctggagaaaaaggcgggtggatattgaatgtaggtgag Alignment from Pairagon GGGGAAGTGCAG-CGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG aatgacttgtgtctctacatcctaagttccctctctctcactgctctcagGGTAAAATGCAGTCGTGAGTCTTTTGAACGAGACAGACATCTTAAATC-GTATCTAGACAAGGAGgtgagtagccatctggagaaaaaggcgggtggatattgaatgtaggtgag Alignment from Exonerate_protein2genome GGGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG aatgacttgtgtctctacatcctaagttccctctctctcactgctctcagGGTAAAATGCAGTCGTGAGTCTTTTGAACGAGACAGACATCTTAAATCGTATCTAGACAAGGAGgtgagtagccatctggagaaaaaggcgggtggatattgaatgtaggtgag Alignment from Exonerate_coding2genome GGGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG aatgacttgtgtctctacatcctaagttccctctctctcactgctctcagGGTAAAATGCAGTCGTGAGTCTTTTGAACGAGACAGACATCTTAAATCGTATCTAGACAAGGAGgtgagtagccatctggagaaaaaggcgggtggatattgaatgtaggtgag Alignment from GeneWise GGGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG aatgacttgtgtctctacatcctaagttccctctctctcactgctctcagGGTAAAATGCAGTCGTGAGTCTTTTGAACGAGACAGACATCTTAAATCGTATCTAGACAAGGAGgtgagtagccatctggagaaaaaggcgggtggatattgaatgtaggtgag #### Mta2_ID2533_6 --> 0 - 1 Original Alignment GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAG-AAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGg accattaatatctgcactaaaccacattttttttgtcttctctgtccaagGAGTGTTTTTTTTATTCATTGGTGTTTGAGCCTGTGCAGCAAAACACTACTGGCAGATCAAGGGGAGAGCAGGGTTGGTTGCA-ATTCCAAGCTGCAATTCCAGATCACTTGGCAGAGggtaatcaaaagtctggtttgaacataattttttctctcaacgatatcaat Alignment from CESAR GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAG-AAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGg accattaatatctgcactaaaccacattttttttgtcttctctgtccaagGAGTGTTTTTTTTATTCATTGGTGTTTGAGCCTGTGCAGCAAAACACTACTGGCAGATCAAGGGGAGAGCAGGGTTGGTTGC-AATTCCAAGCTGCAATTCCAGATCACTTGGCAGAGggtaatcaaaagtctggtttgaacataattttttctctcaacgatatcaat Alignment from Spaln_aa2Genome GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG accattaatatctgcactaaaccacattttttttgtcttctctgtccaagGAGTGTTTTTTTTATTCATTGGTGTTTGAGCCTGTGCAGCAAAACACTACTGGCAGATCAAGGGGAGAGCAGGGTTGGTTGCAATTCCAAGCTGCAATTCCAGATCACTTGGCAGAGGgtaatcaaaagtctggtttgaacataattttttctctcaacgatatcaat Alignment from Spaln_nt2Genome GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAG-AAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG accattaatatctgcactaaaccacattttttttgtcttctctgtccaagGAGTGTTTTTTTTATTCATTGGTGTTTGAGCCTGTGCAGCAAAACACTACTGGCAGATCAAGGGGAGAGCAGGGTTGGTTGC-AATTCCAAGCTGCAATTCCAGATCACTTGGCAGAGGgtaatcaaaagtctggtttgaacataattttttctctcaacgatatcaat Alignment from Pairagon GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAG-AAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG accattaatatctgcactaaaccacattttttttgtcttctctgtccaagGAGTGTTTTTTTTATTCATTGGTGTTTGAGCCTGTGCAGCAAAACACTACTGGCAGATCAAGGGGAGAGCAGGGTTGGTTGC-AATTCCAAGCTGCAATTCCAGATCACTTGGCAGAGGgtaatcaaaagtctggtttgaacataattttttctctcaacgatatcaat Alignment from Exonerate_protein2genome GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAG-AAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGC--AAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG accattaatatctgcactaaaccacattttttttgtcttctctgtccaagGAGTGTTTTTTTTATTCATTGGTGTTTGAGCCTGTGCAGCAAAACACTACTGGCAGATCAAGGGGAGAGCAGGGTTGGTTGCAA---TTCCAAGCTGCAATTCCAGATCACTTGGCAGAGGgtaatcaaaagtctggtttgaacataattttttctctcaacgatatcaat Alignment from Exonerate_coding2genome GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAG-AAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGC--AAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG accattaatatctgcactaaaccacattttttttgtcttctctgtccaagGAGTGTTTTTTTTATTCATTGGTGTTTGAGCCTGTGCAGCAAAACACTACTGGCAGATCAAGGGGAGAGCAGGGTTGGTTGCAA---TTCCAAGCTGCAATTCCAGATCACTTGGCAGAGGgtaatcaaaagtctggtttgaacataattttttctctcaacgatatcaat Alignment from GeneWise GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG accattaatatctgcactaaaccacattttttttgtcttctctgtccaagGAGTGTTTTTTTTATTCATTGGTGTTTGAGCCTGTGCAGCAAAACACTACTGGCAGATCAAGGGGAGAGCAGGGTTGGTTGCAATTCCAAGCTGCAATTCCAGATCACTTGGCAGAGGgtaatcaaaagtctggtttgaacataattttttctctcaacgatatcaat #### Mta2_ID2534_7 --> 2 - 2 Original Alignment gaGAATCAGATAATCGAAAC-CAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCcg agcccaactagaggtatgttacggctgaaccctcacctttttctacacaggaGAGTCAGATAATAGAAACCCAACAGATGATGGAGATGAAAGTCTGGGACCCAGGCAATCCAC-TACAGACCAGCAGATTGACCAGTTCCTAATCGTGGCTcggtaaggaaaggttgggaggccacataggtgcactacatcttactctggat Alignment from CESAR gaGAATCAGATAATCGAAAC-CAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCcg agcccaactagaggtatgttacggctgaaccctcacctttttctacacaggaGAGTCAGATAATAGAAACCCAACAGATGATGGAGATGAAAGTCTGGGACCCAGGCAATCCAC-TACAGACCAGCAGATTGACCAGTTCCTAATCGTGGCTcggtaaggaaaggttgggaggccacataggtgcactacatcttactctggat Alignment from Spaln_aa2Genome GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG agcccaactagaggtatgttacggctgaaccctcacctttttctacacagGAGAGTCAGATAATAGAAACCCAACAGATGATGGAGATGAAAGTCTGGGACCCAGGCAATCCACTACAGACCAGCAGATTGACCAGTTCCTAATCGTGGCTCGgtaaggaaaggttgggaggccacataggtgcactacatcttactctggat Alignment from Spaln_nt2Genome GAGAATCAGATAATCGAAACC-AACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG agcccaactagaggtatgttacggctgaaccctcacctttttctacacagGAGAGTCAGATAATAGAAACCCAACAGATGATGGAGATGAAAGTCTGGGACCCAGGCAATCCACT-ACAGACCAGCAGATTGACCAGTTCCTAATCGTGGCTCGgtaaggaaaggttgggaggccacataggtgcactacatcttactctggat Alignment from Pairagon GAGAATCAGATAATCGAAA-CCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG agcccaactagaggtatgttacggctgaaccctcacctttttctacacagGAGAGTCAGATAATAGAAACCCAACAGATGATGGAGATGAAAGTCTGGGACCCAGGCAATCCACT-ACAGACCAGCAGATTGACCAGTTCCTAATCGTGGCTCGgtaaggaaaggttgggaggccacataggtgcactacatcttactctggat Alignment from Exonerate_protein2genome GAGAATCAGATAATCGAAAC-CAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCT--CTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG agcccaactagaggtatgttacggctgaaccctcacctttttctacacagGAGAGTCAGATAATAGAAACCCAACAGATGATGGAGATGAAAGTCTGGGACCCAGGCAATCCACT---ACAGACCAGCAGATTGACCAGTTCCTAATCGTGGCTCGgtaaggaaaggttgggaggccacataggtgcactacatcttactctggat Alignment from Exonerate_coding2genome GAGAATCAGATAATCGAAAC-CAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCT--CTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCGAGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATTCGGC agcccaactagaggtatgttacggctgaaccctcacctttttctacacagGAGAGTCAGATAATAGAAACCCAACAGATGATGGAGATGAAAGTCTGGGACCCAGGCAATCCACT---ACAGACCAGCAGATTGACCAGTTCCTAATCGTGGCTCGG---TAAGGAAAGGTTGGGAGGCCACATAGGTGCACTACATCTTACTCTG Alignment from GeneWise ATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG agcccaactagaggtatgttacggctgaaccctcacctttttctacacaggagagTCAGATAATAGAAACCCAACAGATGATGGAGATGAAAGTCTGGGACCCAGGCAATCCACT-ACAGACCAGCAGATTGACCAGTTCCTAATCGTGGCTCGgtaaggaaaggttgggaggccacataggtgcactacatcttactctggat #### Mta2_ID2535_8 --> 1 - 0 Original Alignment aGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATT------CGG-CAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGAT---ATCACTCTG gctaatgtggcatccaatatgaagaatcaggaccctgtgtctggttatagtGCTGTGAGGACTTTTGTACGGGCTCTAGATTGCAATTGCTCCATTTCCATTCAACAAGTCCAGCTTGGACATGAGTGCA------GCTA-CACAGGTATTATCACCCTGgtaaaaaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from CESAR aGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATT------CGGCAG-CCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gctaatgtggcatccaatatgaagaatcaggaccctgtgtctggttatagtGCTGTGAGGACTTTTGTACGGGCTCTAGATTGCAATTGCTCCATTTCCATTCAACAAGTCCAGCTTGGACATGAGTGCAGCT------------------ACACAGgtattatcaccctggtaaaaaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from Spaln_aa2Genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCG---TCCCGAGATATCACTCTG gctaatgtggcatccaatatgaagaatcaggaccctgtgtctggttatagTGCTGTGAGGACTTTTGTACGGGCTCTAGATTGCAATTGCTCCATTTCCATTCAACAAGTCCAGCTTGGACATGAGTGCAGCTACACAGGTATTATCACCCTGgtaaaaaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from Spaln_nt2Genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATT------CGGCA-GCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gctaatgtggcatccaatatgaagaatcaggaccctgtgtctggttatagTGCTGTGAGGACTTTTGTACGGGCTCTAGATTGCAATTGCTCCATTTCCATTCAACAAGTCCAGCTTGGACATGAGTGCAGCTAC----ACAGGTATTATCACCCTGgtaaaaaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from Pairagon AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGA---------TATCACTCTG gctaatgtggcatccaatatgaagaatcaggaccctgtgtctggttatagtgctgtgaggacttttgtacgggctctagattgcaattgctccatttccattcaacaagtccag---------------------------------------------------------CTTGGACATGAGTGCAGCT-------------ACACAGGTATTATCACCCTGgtaaaaaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from Exonerate_protein2genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGT---GCAGCTGCTGCGTCCCGAGATATCACTCTG gctaatgtggcatccaatatgaagaatcaggaccctgtgtctggttatagTGCTGTGAGGACTTTTGTACGGGCTCTAGATTGCAATTGCTCCATTTCCATTCAACAAGTCCAGCTTGGACATGAGTGCAGCTACACAGGTATTATCACCCTGgtaaaaaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from Exonerate_coding2genome TCTG GCTAatgtggcatccaatatgaagaatcaggaccctgtgtctggttatagtgctgtgaggacttttgtacgggctctagattgcaattgctccatttccattcaacaagtccagcttggacatgagtgcagctacacaggtattatcaccctggtaaaaaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from GeneWise AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGAT---ATCACTCTG gctaatgtggcatccaatatgaagaatcaggaccctgtgtctggttatagTGCTGTGAGGACTTTTGTACGGGCTCTAGATTGCAATTGCTCCATTTCCATTCAACAAGTCCAGCTTGGACATGAGTGCAGCTACACAGGTATTATCACCCTGgtaaaaaccaagtcacaaatatttttgtatgataagccaagagtggagta #### Mta2_ID2537_10 --> 0 - 0 Original Alignment CTACCCTGGAAGTCACTT-GCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG aaaaagacaaggtgaccaattgaacactcctattttatttcccacctcagCTACCCTGGAAGTCACTTCGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAG-CCGGTATATTCAGCAGgtaagccgaaatacaagcaaaccagaatcaaaggtggtcagcagtctgtt Alignment from CESAR CTACCCTGGAAGTCACTT-GCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG aaaaagacaaggtgaccaattgaacactcctattttatttcccacctcagCTACCCTGGAAGTCACTTCGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACA-GCCGGTATATTCAGCAGgtaagccgaaatacaagcaaaccagaatcaaaggtggtcagcagtctgtt Alignment from Spaln_aa2Genome CTACCCTGGAAGTCACTT-GCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG aaaaagacaaggtgaccaattgaacactcctattttatttcccacctcagCTACCCTGGAAGTCACTTcGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGC-CGGTATATTCAGCAGgtaagccgaaatacaagcaaaccagaatcaaaggtggtcagcagtctgtt Alignment from Spaln_nt2Genome CTACCCTGGAAGTCACTT-GCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG aaaaagacaaggtgaccaattgaacactcctattttatttcccacctcagCTACCCTGGAAGTCACTTCGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAG-CCGGTATATTCAGCAGgtaagccgaaatacaagcaaaccagaatcaaaggtggtcagcagtctgtt Alignment from Pairagon CTACCCTGGAAGTCACTT-GCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG aaaaagacaaggtgaccaattgaacactcctattttatttcccacctcagCTACCCTGGAAGTCACTTCGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAG-CCGGTATATTCAGCAGgtaagccgaaatacaagcaaaccagaatcaaaggtggtcagcagtctgtt Alignment from Exonerate_protein2genome CTACCCTGGAAGTCACTT-GCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCA aaaaagacaaggtgaccaattgaacactcctattttatttcccacctcagCTACCCTGGAAGTCACTTCGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGCCGGTATATTCAGCAGgtaagccgaaatacaagcaaaccagaatcaaaggtggtcagcagtctgtt Alignment from Exonerate_coding2genome CTACCCTGGAAGTCACTT-GCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAGAAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACA aaaaagacaaggtgaccaattgaacactcctattttatttcccacctcagCTACCCTGGAAGTCACTTCGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGCCGGTATATTCAGCAGGTAAGCCGAAATACAAGCAAACCAGAATCAAAGGTGGTCAGCAGTCTGTT Alignment from GeneWise CTACCCTGGAAGTCACTT-GCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG aaaaagacaaggtgaccaattgaacactcctattttatttcccacctcagCTACCCTGGAAGTCACTTCGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGC-CGGTATATTCAGCAGgtaagccgaaatacaagcaaaccagaatcaaaggtggtcagcagtctgtt #### Mta2_ID2539_12 --> 1 - 1 Original Alignment tACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAA-CCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACa atcgcggtaggagaaagtctagtggcctctctttctctcccttactttagcACAAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCAAAGCCCTGGCATGAATGGGGCTGGATTCCAGAAAGGACTGA-TTGTGAGAGCTGTCATagtaagttacacatctgatatatcccttactattagatattcatggtttgt Alignment from CESAR tACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAA-CCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACa atcgcggtaggagaaagtctagtggcctctctttctctcccttactttagcACAAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCAAAGCCCTGGCATGAATGGGGCTGGATTCCAGAAAGGACTG-ATTGTGAGAGCTGTCATagtaagttacacatctgatatatcccttactattagatattcatggtttgt Alignment from Spaln_aa2Genome TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCT-GGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA atcgcggtaggagaaagtctagtggcctctctttctctcccttactttagCACAAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCAAAGCCCtGGCATGAATGGGGCTGGATTCCAGAAAGGACTGAT-TGTGAGAGCTGTCATAgtaagttacacatctgatatatcccttactattagatattcatggtttgt Alignment from Spaln_nt2Genome TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTC-AAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA atcgcggtaggagaaagtctagtggcctctctttctctcccttactttagCACAAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCAAAGCCCTGGCATGAATGGGGCTGGATTCCAGAAAGGACTGA-TTGTGAGAGCTGTCATAgtaagttacacatctgatatatcccttactattagatattcatggtttgt Alignment from Pairagon TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAA-CCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA atcgcggtaggagaaagtctagtggcctctctttctctcccttactttagCACAAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCAAAGCCCTGGCATGAATGGGGCTGGATTCCAGAAAGGACTGA-TTGTGAGAGCTGTCATAgtaagttacacatctgatatatcccttactattagatattcatggtttgt Alignment from Exonerate_protein2genome TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA atcgcggtaggagaaagtctagtggcctctctttctctcccttactttagCACAAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCAAAGCCCTGGCATGAATGGGGCTGGATTCCAGAAAGGACTGATTGTGAGAGCTGTCATAgtaagttacacatctgatatatcccttactattagatattcatggtttgt Alignment from Exonerate_coding2genome TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACC---TGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA atcgcggtaggagaaagtctagtggcctctctttctctcccttactttagCACAAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCAAAG--CCCTGGCATGAATGGGGCTGGATTCCAGAAAGGACTGAT-TGTGAGAGCTGTCATAgtaagttacacatctgatatatcccttactattagatattcatggtttgt Alignment from GeneWise TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA atcgcggtaggagaaagtctagtggcctctctttctctcccttactttagCACAAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCAAAGCCCTGGCATGAATGGGGCTGGATTCCAGAAAGGACTGATTGTGAGAGCTGTCATAgtaagttacacatctgatatatcccttactattagatattcatggtttgt #### Mta2_ID2540_13 --> 2 - 0 Original Alignment ccACACAGTCTGCCCAGTGGTATGCCTGG-GGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactataatacagcaattcctttaaagtttgaacttttacttttagcaACACAGTCTGCACAGTGGTATGCCTGGCGGACCACCCAATATGCAGTACCGACTTTGTG-TTCTTGTTGGGTTTATTGGAAGACATATGGAGGCTTGAAAACTCCTACCCAGCTAGAAGGAGCAGCTCGGATAACAACCgtaaaggtgagtgtgtctggagcgaccataagaattgaacctaaggaaga Alignment from CESAR ccACACAGTCTGCCCAGTGGTATGCCTGG-GGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactataatacagcaattcctttaaagtttgaacttttacttttagcaACACAGTCTGCACAGTGGTATGCCTGGCGGACCACCCAATATGCAGTACCGACTTTGTG-TTCTTGTTGGGTTTATTGGAAGACATATGGAGGCTTGAAAACTCCTACCCAGCTAGAAGGAGCAGCTCGGATAACAACCgtaaaggtgagtgtgtctggagcgaccataagaattgaacctaaggaaga Alignment from Spaln_aa2Genome CCACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactataatacagcaattcctttaaagtttgaacttttacttttagCAACACAGTCTGCACAGTGGTATGCCTGGCGGACCACCCAATATGCAGTACCGACTTTGTGTTCTTGTTGGGTTTATTGGAAGACATATGGAGGCTTGAAAACTCCTACCCAGCTAGAAGGAGCAGCTCGGATAACAACCgtaaaggtgagtgtgtctggagcgaccataagaattgaacctaaggaaga Alignment from Spaln_nt2Genome CCACACAGTCTGCCCAGTGGTATGCCTGG-GGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactataatacagcaattcctttaaagtttgaacttttacttttagCAACACAGTCTGCACAGTGGTATGCCTGGCGGACCACCCAATATGCAGTACCGACTTTGTG-TTCTTGTTGGGTTTATTGGAAGACATATGGAGGCTTGAAAACTCCTACCCAGCTAGAAGGAGCAGCTCGGATAACAACCgtaaaggtgagtgtgtctggagcgaccataagaattgaacctaaggaaga Alignment from Pairagon CCACACAGTCTGCCCAGTGGTATGCCTGG-GGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactataatacagcaattcctttaaagtttgaacttttacttttagCAACACAGTCTGCACAGTGGTATGCCTGGCGGACCACCCAATATGCAGTACCGACTTTGTG-TTCTTGTTGGGTTTATTGGAAGACATATGGAGGCTTGAAAACTCCTACCCAGCTAGAAGGAGCAGCTCGGATAACAACCgtaaaggtgagtgtgtctggagcgaccataagaattgaacctaaggaaga Alignment from Exonerate_protein2genome CCACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactataatacagcaattcctttaaagtttgaacttttacttttagCAACACAGTCTGCACAGTGGTATGCCTGGCGGACCACCCAATATGCAGTACCGACTTTGTGTTCTTGTTGGGTTTATTGGAAGACATATGGAGGCTTGAAAACTCCTACCCAGCTAGAAGGAGCAGCTCGGATAACAACCgtaaaggtgagtgtgtctggagcgaccataagaattgaacctaaggaaga Alignment from Exonerate_coding2genome CCACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactataatacagcaattcctttaaagtttgaacttttacttttagCAACACAGTCTGCACAGTGGTATGCCTGGCGGACCACCCAATATGCAGTACCGACTTTGTGTTCTTGTTGGGTTTATTGGAAGACATATGGAGGCTTGAAAACTCCTACCCAGCTAGAAGGAGCAGCTCGGATAACAACCgtaaaggtgagtgtgtctggagcgaccataagaattgaacctaaggaaga Alignment from GeneWise CCACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactataatacagcaattcctttaaagtttgaacttttacttttagCAACACAGTCTGCACAGTGGTATGCCTGGCGGACCACCCAATATGCAGTACCGACTTTGTGTTCTTGTTGGGTTTATTGGAAGACATATGGAGGCTTGAAAACTCCTACCCAGCTAGAAGGAGCAGCTCGGATAACAACCgtaaaggtgagtgtgtctggagcgaccataagaattgaacctaaggaaga #### Mta2_ID2542_15 --> 2 - 1 Original Alignment gcTCGATCCGACTTCCTAAGGCTGCC-AAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGg gctggtgaccctggagacctttctctccacacatgtatggaatattttaggcTCAATCCGATTTCCTAAGTCTGCCCAAGACTCCATTGAAAATTCACCCTCTTGTGC-GCTGCCTTTGGCAACTATCATCAAAGATCTGggtgaggaggatcacattcccaagccaggtcagggtcctttgtctcgtaac Alignment from CESAR gcTCGATCCGACTTCCTAAGGCTGCC-AAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGg gctggtgaccctggagacctttctctccacacatgtatggaatattttaggcTCAATCCGATTTCCTAAGTCTGCCCAAGACTCCATTGAAAATTCACCCTCTTGTGC-GCTGCCTTTGGCAACTATCATCAAAGATCTGggtgaggaggatcacattcccaagccaggtcagattaatgtttttgttctt Alignment from Spaln_aa2Genome GCTCGATCCGACTTCCTAAGGCTGCC-AAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG gctggtgaccctggagacctttctctccacacatgtatggaatattttagGCTCAATCCGATTTCCTAAGTCTGCCcAAGACTCCATTGAAAATTCACCCTCTTGTGCG-CTGCCTTTGGCAACTATCATCAAAGATCTGGgtgaggaggatcacattcccaagccaggtcagggtcctttgtctcgtaac Alignment from Spaln_nt2Genome GCTCGATCCGACTTCCTAAGGCTGCC-AAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG gctggtgaccctggagacctttctctccacacatgtatggaatattttagGCTCAATCCGATTTCCTAAGTCTGCCCAAGACTCCATTGAAAATTCACCCTCTTGTGC-GCTGCCTTTGGCAACTATCATCAAAGATCTGGgtgaggaggatcacattcccaagccaggtcagggtcctttgtctcgtaac Alignment from Pairagon GCTCGATCCGACTTCCTAAGGCTG-CCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG gctggtgaccctggagacctttctctccacacatgtatggaatattttagGCTCAATCCGATTTCCTAAGTCTGCCCAAGACTCCATTGAAAATTCACCCTCTTGTGC-GCTGCCTTTGGCAACTATCATCAAAGATCTGGgtgaggaggatcacattcccaagccaggtcagggtcctttgtctcgtaac Alignment from Exonerate_protein2genome GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG gctggtgaccctggagacctttctctccacacatgtatggaatattttagGCTCAATCCGATTTCCTAAGTCTGCCCAAGACTCCATTGAAAATTCACCCTCTTGTGCGCTGCCTTTGGCAACTATCATCAAAGATCTGGgtgaggaggatcacattcccaagccaggtcagggtcctttgtctcgtaac Alignment from Exonerate_coding2genome GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG gctggtgaccctggagacctttctctccacacatgtatggaatattttagGCTCAATCCGATTTCCTAAGTCTGCCCAAGACTCCATTGAAAATTCACCCTCTTGTGCGCTGCCTTTGGCAACTATCATCAAAGATCTGGgtgaggaggatcacattcccaagccaggtcagggtcctttgtctcgtaac Alignment from GeneWise GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTG--------------------------------------------------- gctggtgaccctggagacctttctctccacacatgtatggaatattttagGCTCAATCCGATTTCCTAAGTCTGCCCAAGACTCCATTGAAAATTCACCCTCTTGTGCGCTGCCTTTGGCAACTATCATCAAAGATCTGGGTGAGGAGGATCACATTCCCAAGCCAGGTCAGGGTCCTTTGTCTCGTAAC #### Mta2_ID2543_16 --> 2 - 0 Original Alignment tgGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAG-ACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT ctaggatcacattcccaagccaggtcagattaatgtttttgttctttcaggtGCACAGTCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGCACACCAATCAACAGAAACCAACTGACCCAGAATCGAG-CCTGGGGGGAATTATGGTGAAACGCTCATACGAGACAgtgacttgaccagaataagagcataccagtaattaccttacttttttaat Alignment from CESAR tgGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAG-ACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT ggaggatcacattcccaagccaggtcagattaatgtttttgttctttcaggtGCACAGTCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGCACACCAATCAACAGAAACCAACTGACCCAGAATC-GAGCCTGGGGGGAATTATGGTGAAACGCTCATACGAGACAgtgacttgaccagaataagagcataccagtaattaccttacttttttaat Alignment from Spaln_aa2Genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT ctaggatcacattcccaagccaggtcagattaatgtttttgttctttcagGTGCACAGTCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGCACACCAATCAACAGAAACCAACTGACCCAGAATCGAGCCTGGGGGGAATTATGGTGAAACGCTCATACGAGACAgtgacttgaccagaataagagcataccagtaattaccttacttttttaat Alignment from Spaln_nt2Genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAG-ACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT ctaggatcacattcccaagccaggtcagattaatgtttttgttctttcagGTGCACAGTCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGCACACCAATCAACAGAAACCAACTGACCCAGAATCGAG-CCTGGGGGGAATTATGGTGAAACGCTCATACGAGACAgtgacttgaccagaataagagcataccagtaattaccttacttttttaat Alignment from Pairagon TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAG-ACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT ctaggatcacattcccaagccaggtcagattaatgtttttgttctttcagGTGCACAGTCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGCACACCAATCAACAGAAACCAACTGACCCAGAATCGA-GCCTGGGGGGAATTATGGTGAAACGCTCATACGAGACAgtgacttgaccagaataagagcataccagtaattaccttacttttttaat Alignment from Exonerate_protein2genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT ctaggatcacattcccaagccaggtcagattaatgtttttgttctttcagGTGCACAGTCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGCACACCAATCAACAGAAACCAACTGACCCAGAATCGAGCCTGGGGGGAATTATGGTGAAACGCTCATACGAGACAgtgacttgaccagaataagagcataccagtaattaccttacttttttaat Alignment from Exonerate_coding2genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT ctaggatcacattcccaagccaggtcagattaatgtttttgttctttcagGTGCACAGTCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGCACACCAATCAACAGAAACCAACTGACCCAGAATCGAGCCTGGGGGGAATTATGGTGAAACGCTCATACGAGACAgtgacttgaccagaataagagcataccagtaattaccttacttttttaat Alignment from GeneWise TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT ctaggatcacattcccaagccaggtcagattaatgtttttgttctttcagGTGCACAGTCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGCACACCAATCAACAGAAACCAACTGACCCAGAATCGAGCCTGGGGGGAATTATGGTGAAACGCTCATACGAGACAgtgacttgaccagaataagagcataccagtaattaccttacttttttaat #### Mta2_ID2544_17 --> 0 - 2 Original Alignment ATGGCAGGGGCAGGGGTCCCCTTC-TCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCag taaattcccaaccacatccagggatggcatccactctgatctctcctcagATGGCAGGTGCGGGGGTCCCCTTCCTCTGTGAATGGAAGGCCCCTGGCTTCAGGGATTCGTTCAA-CTCTCAGCCAGCAGCCAAGCGCCAAAAATTAAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGATGCTaggtaagcaatgagtgaaccaggaaaaactggtaaccaatcacatctggaag Alignment from CESAR ATGGCAGGGGCAGGGGTCCCCTTC-TCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCag taaattcccaaccacatccagggatggcatccactctgatctctcctcagATGGCAGGTGCGGGGGTCCCCTTCCTCTGTGAATGGAAGGCCCCTGGCTTCAGGGATTCGTT-CAACTCTCAGCCAGCAGCCAAGCGCCAAAAATTAAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGATGCTaggtaagcaatgagtgaaccaggaaaaactggtaaccaatcacatctggaag Alignment from Spaln_aa2Genome ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG taaattcccaaccacatccagggatggcatccactctgatctctcctcagATGGCAGGTGCGGGGGTCCCCTTCCTCTGTGAATGGAAGGCCCCTGGCTTCAGGGATTCGTTCAACTCTCAGCCAGCAGCCAAGCGCCAAAAATTAAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGATGCTAGgtaagcaatgagtgaaccaggaaaaactggtaaccaatcacatctggaag Alignment from Spaln_nt2Genome ATGGCAGGGGCAGGGGTCCCCTTC-TCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG taaattcccaaccacatccagggatggcatccactctgatctctcctcagATGGCAGGTGCGGGGGTCCCCTTCCTCTGTGAATGGAAGGCCCCTGGCTTCAGGGATTCGTTCAA-CTCTCAGCCAGCAGCCAAGCGCCAAAAATTAAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGATGCTAGgtaagcaatgagtgaaccaggaaaaactggtaaccaatcacatctggaag Alignment from Pairagon ATGGCAGGGGCAGGGGTCCCCTT-CTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG taaattcccaaccacatccagggatggcatccactctgatctctcctcagATGGCAGGTGCGGGGGTCCCCTTCCTCTGTGAATGGAAGGCCCCTGGCTTCAGGGATTCGTTCAA-CTCTCAGCCAGCAGCCAAGCGCCAAAAATTAAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGATGCTAGgtaagcaatgagtgaaccaggaaaaactggtaaccaatcacatctggaag Alignment from Exonerate_protein2genome ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG taaattcccaaccacatccagggatggcatccactctgatctctcctcagATGGCAGGTGCGGGGGTCCCCTTCCTCTGTGAATGGAAGGCCCCTGGCTTCAGGGATTCGTTCAACTCTCAGCCAGCAGCCAAGCGCCAAAAATTAAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGATGCTAGgtaagcaatgagtgaaccaggaaaaactggtaaccaatcacatctggaag Alignment from Exonerate_coding2genome ATGGCAGGGGCAGGGGTCCCCTTCTC---TGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG taaattcccaaccacatccagggatggcatccactctgatctctcctcagATGGCAGGTGCGGGGGTCCCCTTC--CTCTGTGAATGGAAGGCCCCTGGCTTCAGGGATTCGTTC-AACTCTCAGCCAGCAGCCAAGCGCCAAAAATTAAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGATGCTAGgtaagcaatgagtgaaccaggaaaaactggtaaccaatcacatctggaag Alignment from GeneWise ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGC------TCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG taaattcccaaccacatccagggatggcatccactctgatctctcctcagATGGCAGGTGCGGGGGTCCCCTTCCTCTGTGAATGGAAG------GCCCCTGGCTTCAGGGATTCGTTCAACTCTCAGCCAGCAGCCAAGCGCCAAAAATTAAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGATGCTAGgtaagcaatgagtgaaccaggaaaaactggtaaccaatcacatctggaag #### Myrf_ID2720_17 --> 0 - 2 Original Alignment TCATCGCCAGCGGTCCCAGACCAGGCCTGC-ATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCag atgggcatctcaagtctatatagggcaacacagctggcttcttcctacagTCATCATCTGCAGTCCCAGACCAAGCCTGCCATCAGTCAGCATTTTCTGCAGGGGACCATCATAGCTCTCG-AGTAGTGATGGCCTTCaggtaggactcttaaccaggctgagtccctaaaagtgccatacaagctctca Alignment from CESAR TCATCGCCAGCGGTCCCAGACCAGGCCTGC-ATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCag atgggcatctcaagtctatatagggcaacacagctggcttcttcctacagTCATCATCTGCAGTCCCAGACCAAGCCTGCCATCAGTCAGCATTTTCTGCAGGGGACCATCATAGCTCTC-GAGTAGTGATGGCCTTCaggtaggactcttaaccaggctgagtccctaaaagtgccatacaagctctca Alignment from Spaln_aa2Genome TCATCGCCAGCGGTCCCAGACCAGGCCTGC-ATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAG atgggcatctcaagtctatatagggcaacacagctggcttcttcctacagTCATCATCTGCAGTCCCAGACCAAGCCTGCcATCAGTCAGCATTTTCTGCAGGGGACCATCATAGCTCTCGA-GTAGTGATGGCCTTCAGgtaggactcttaaccaggctgagtccctaaaagtgccatacaagctctca Alignment from Spaln_nt2Genome TCATCGCCAGCGGTCCCAGACCAGGCCTGC-ATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAG atgggcatctcaagtctatatagggcaacacagctggcttcttcctacagTCATCATCTGCAGTCCCAGACCAAGCCTGCCATCAGTCAGCATTTTCTGCAGGGGACCATCATAGCTCTCG-AGTAGTGATGGCCTTCAGgtaggactcttaaccaggctgagtccctaaaagtgccatacaagctctca Alignment from Pairagon TCATCGCCAGCGGTCCCAGACCAGGCCTG-CATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAG atgggcatctcaagtctatatagggcaacacagctggcttcttcctacagTCATCATCTGCAGTCCCAGACCAAGCCTGCCATCAGTCAGCATTTTCTGCAGGGGACCATCATAGCTCTCG-AGTAGTGATGGCCTTCAGgtaggactcttaaccaggctgagtccctaaaagtgccatacaagctctca Alignment from Exonerate_protein2genome TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAG atgggcatctcaagtctatatagggcaacacagctggcttcttcctacagTCATCATCTGCAGTCCCAGACCAAGCCTGCCATCAGTCAGCATTTTCTGCAGGGGACCATCATAGCTCTCGAGTAGTGATGGCCTTCAGgtaggactcttaaccaggctgagtccctaaaagtgccatacaagctctca Alignment from Exonerate_coding2genome TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAG atgggcatctcaagtctatatagggcaacacagctggcttcttcctacagTCATCATCTGCAGTCCCAGACCAAGCCTGCCATCAGTCAGCATTTTCTGCAGGGGACCATCATAGCTCTCGAGTAGTGATGGCCTTCAGgtaggactcttaaccaggctgagtccctaaaagtgccatacaagctctca Alignment from GeneWise TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAG atgggcatctcaagtctatatagggcaacacagctggcttcttcctacagTCATCATCTGCAGTCCCAGACCAAGCCTGCCATCAGTCAGCATTTTCTGCAGGGGACCATCATAGCTCTCGAGTAGTGATGGCCTTCAGgtaggactcttaaccaggctgagtccctaaaagtgccatacaagctctca #### Myrf_ID2721_16 --> 1 - 0 Original Alignment cCATGCAGGGAGCCAGTTTAGC-CGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG cgcaggtgtgttatgcattatccattttctaaaatgacaatgtgttttagcCATGCTGGTAGTGAATTTAGTCAGGGCAGGCAGTGTCCCTCACAAAAAGAGGCCCC-CAGGCTTGCCAATAAGgtaagacagtccacagcagcgtacacttctacccatccatgttctagagc Alignment from CESAR cCATGCAGGGAGCCAGTTTAGC-CGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG cgcaggtgtgttatgcattatccattttctaaaatgacaatgtgttttagcCATGCTGGTAGTGAATTTAGTCAGGGCAGGCAGTGTCCCTCACAAAAAGAGGCCCC-CAGGCTTGCCAATAAGgtaagacagtccacagcagcgtacacttctacccatccatgttctagagc Alignment from Spaln_aa2Genome CCATGCAGGGAGCCAGTTTAGC-CGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG cgcaggtgtgttatgcattatccattttctaaaatgacaatgtgttttagCCATGCTGGTAGTGAATTTAGTcAGGGCAGGCAGTGTCCCTCACAAAAAGAGGCCCCCAGG-CTTGCCAATAAGgtaagacagtccacagcagcgtacacttctacccatccatgttctagagc Alignment from Spaln_nt2Genome CCATGCAGGGAGCCAGTTTAGCC-GGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG cgcaggtgtgttatgcattatccattttctaaaatgacaatgtgttttagCCATGCTGGTAGTGAATTTAGTCAGGGCAGGCAGTGTCCCTCACAAAAAGAGGCCCCC-AGGCTTGCCAATAAGgtaagacagtccacagcagcgtacacttctacccatccatgttctagagc Alignment from Pairagon CCATGCAGGGAGCCAGTTTAGCC-GGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG cgcaggtgtgttatgcattatccattttctaaaatgacaatgtgttttagCCATGCTGGTAGTGAATTTAGTCAGGGCAGGCAGTGTCCCTCACAAAAAGAGGCCCCC-AGGCTTGCCAATAAGgtaagacagtccacagcagcgtacacttctacccatccatgttctagagc Alignment from Exonerate_protein2genome CCATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG cgcaggtgtgttatgcattatccattttctaaaatgacaatgtgttttagCCATGCTGGTAGTGAATTTAGTCAGGGCAGGCAGTGTCCCTCACAAAAAGAGGCCCCCAGGCTTGCCAATAAGgtaagacagtccacagcagcgtacacttctacccatccatgttctagagc Alignment from Exonerate_coding2genome CCATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG cgcaggtgtgttatgcattatccattttctaaaatgacaatgtgttttagCCATGCTGGTAGTGAATTTAGTCAGGGCAGGCAGTGTCCCTCACAAAAAGAGGCCCCCAGGCTTGCCAATAAGgtaagacagtccacagcagcgtacacttctacccatccatgttctagagc Alignment from GeneWise CCATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG cgcaggtgtgttatgcattatccattttctaaaatgacaatgtgttttagCCATGCTGGTAGTGAATTTAGTCAGGGCAGGCAGTGTCCCTCACAAAAAGAGGCCCCCAGGCTTGCCAATAAGgtaagacagtccacagcagcgtacacttctacccatccatgttctagagc #### Myrf_ID2722_15 --> 0 - 2 Original Alignment GAGCGAATCTTCATGGAGAATGTGGGGGCTGTG-AAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCag gtgggtggatacaaaatgagcagttccctcatgtatgcctctttttatagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTACAAGGAGTTATGCAAACTGAGAGACAACCTAGAGACTC-CATTGATGAGTTGGAACGATGGAGCCACAAGTTGGCTAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACCGGCAGCTCAGGGGCTTTCaggtaagacaaccaagaacatgggcaggagactaaggtaagaagaggaggaa Alignment from CESAR GAGCGAATCTTCATGGAGAATGTGGGGGCTGTG-AAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCag gtgggtggatacaaaatgagcagttccctcatgtatgcctctttttatagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTACAAGGAGTTATGCAAACTGAGAGACAACCTAGAGACT-CCATTGATGAGTTGGAACGATGGAGCCACAAGTTGGCTAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACCGGCAGCTCAGGGGCTTTCaggtaagacaaccaagaacatgggcaggagactaaggtaagaagaggaggaa Alignment from Spaln_aa2Genome GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAG gtgggtggatacaaaatgagcagttccctcatgtatgcctctttttatagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTACAAGGAGTTATGCAAACTGAGAGACAACCTAGAGACTCCATTGATGAGTTGGAACGATGGAGCCACAAGTTGGCTAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACCGGCAGCTCAGGGGCTTTCAGgtaagacaaccaagaacatgggcaggagactaaggtaagaagaggaggaa Alignment from Spaln_nt2Genome GAGCGAATCTTCATGGAGAATGTGGGGGCTGTG-AAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAG gtgggtggatacaaaatgagcagttccctcatgtatgcctctttttatagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTACAAGGAGTTATGCAAACTGAGAGACAACCTAGAGACTC-CATTGATGAGTTGGAACGATGGAGCCACAAGTTGGCTAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACCGGCAGCTCAGGGGCTTTCAGgtaagacaaccaagaacatgggcaggagactaaggtaagaagaggaggaa Alignment from Pairagon GAGCGAATCTTCATGGAGAATGTGGGGGCTGTG-AAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAG gtgggtggatacaaaatgagcagttccctcatgtatgcctctttttatagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTACAAGGAGTTATGCAAACTGAGAGACAACCTAGAGACTC-CATTGATGAGTTGGAACGATGGAGCCACAAGTTGGCTAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACCGGCAGCTCAGGGGCTTTCAGgtaagacaaccaagaacatgggcaggagactaaggtaagaagaggaggaa Alignment from Exonerate_protein2genome GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAG gtgggtggatacaaaatgagcagttccctcatgtatgcctctttttatagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTACAAGGAGTTATGCAAACTGAGAGACAACCTAGAGACTCCATTGATGAGTTGGAACGATGGAGCCACAAGTTGGCTAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACCGGCAGCTCAGGGGCTTTCAGgtaagacaaccaagaacatgggcaggagactaaggtaagaagaggaggaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAG gtgggtggatacaaaatgagcagttccctcatgtatgcctctttttatagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTACAAGGAGTTATGCAAACTGAGAGACAACCTAGAGACTCCATTGATGAGTTGGAACGATGGAGCCACAAGTTGGCTAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACCGGCAGCTCAGGGGCTTTCAGgtaagacaaccaagaacatgggcaggagactaaggtaagaagaggaggaa #### Myrf_ID2723_14 --> 2 - 0 Original Alignment gtGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGAC-ACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcctggcaaagtagagtcctgactgcagctgttgttttgtttctccttagggATCCTTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACCACAGGGGATGTTGTCTTCACAAATGGAAAAAGTATAAAGAACT-CCTAGTAGTGAACAAAgtaagtttataggatctgcagcttaggcatggtatcttgaatctagctgt Alignment from CESAR gtGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGAC-ACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcctggcaaagtagagtcctgactgcagctgttgttttgtttctccttagggATCCTTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACCACAGGGGATGTTGTCTTCACAAATGGAAAAAGTATAAAGA-ACTCCTAGTAGTGAACAAAgtaagtttataggatctgcagcttaggcatggtatcttgaatctagctgt Alignment from Spaln_aa2Genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGAC-ACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcctggcaaagtagagtcctgactgcagctgttgttttgtttctccttagGGATCCTTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACcACAGGGGATGTTGTCTTCACAAATGGAAAAAGTATAAAGAACTC-CTAGTAGTGAACAAAgtaagtttataggatctgcagcttaggcatggtatcttgaatctagctgt Alignment from Spaln_nt2Genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGAC-ACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcctggcaaagtagagtcctgactgcagctgttgttttgtttctccttagGGATCCTTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACCACAGGGGATGTTGTCTTCACAAATGGAAAAAGTATAAAGAAC-TCCTAGTAGTGAACAAAgtaagtttataggatctgcagcttaggcatggtatcttgaatctagctgt Alignment from Pairagon GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGA-CACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcctggcaaagtagagtcctgactgcagctgttgttttgtttctccttagGGATCCTTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACCACAGGGGATGTTGTCTTCACAAATGGAAAAAGTATAAAGAAC-TCCTAGTAGTGAACAAAgtaagtttataggatctgcagcttaggcatggtatcttgaatctagctgt Alignment from Exonerate_protein2genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcctggcaaagtagagtcctgactgcagctgttgttttgtttctccttagGGATCCTTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACCACAGGGGATGTTGTCTTCACAAATGGAAAAAGTATAAAGAACTCCTAGTAGTGAACAAAgtaagtttataggatctgcagcttaggcatggtatcttgaatctagctgt Alignment from Exonerate_coding2genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcctggcaaagtagagtcctgactgcagctgttgttttgtttctccttagGGATCCTTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACCACAGGGGATGTTGTCTTCACAAATGGAAAAAGTATAAAGAACTCCTAGTAGTGAACAAAgtaagtttataggatctgcagcttaggcatggtatcttgaatctagctgt Alignment from GeneWise GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcctggcaaagtagagtcctgactgcagctgttgttttgtttctccttagGGATCCTTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACCACAGGGGATGTTGTCTTCACAAATGGAAAAAGTATAAAGAACTCCTAGTAGTGAACAAAgtaagtttataggatctgcagcttaggcatggtatcttgaatctagctgt #### Myrf_ID2726_11 --> 1 - 0 Original Alignment gTATTTCATGCTGGTGGTGGCCCTCCAG-GCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG ttgagaatggggccatggatacaggtatgttcactctatgttggttgcaggTATTTCATGCTGGTGGTTGCCCTCCAACGCACATGCACAGAACCAAAATTACACCCTGGCAGCCC-AATTTCAGAGCGTATCATTGTGCGGgtaggagccatacctacgccctagcagtccagggtccaaggcatgtcatt Alignment from CESAR gTATTTCATGCTGGTGGTGGCCCTCCAG-GCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG ttgagaatggggccatggatacaggtatgttcactctatgttggttgcaggTATTTCATGCTGGTGGTTGCCCTCCAACGCACATGCACAGAACCAAAATTACACCCTGGCAGCCC-AATTTCAGAGCGTATCATTGTGCGGgtaggagccatacctacgccctagcagtccagggtccaaggcatgtcatt Alignment from Spaln_aa2Genome GTATTTCATGCTGGTGGTGGCCCTCCAG-GCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG ttgagaatggggccatggatacaggtatgttcactctatgttggttgcagGTATTTCATGCTGGTGGTTGCCCTCCAAcGCACATGCACAGAACCAAAATTACACCCTGGCAGCCCAATT-TCAGAGCGTATCATTGTGCGGgtaggagccatacctacgccctagcagtccagggtccaaggcatgtcatt Alignment from Spaln_nt2Genome GTATTTCATGCTGGTGGTGGCCCTCCAG-GCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG ttgagaatggggccatggatacaggtatgttcactctatgttggttgcagGTATTTCATGCTGGTGGTTGCCCTCCAACGCACATGCACAGAACCAAAATTACACCCTGGCAGCCCA-ATTTCAGAGCGTATCATTGTGCGGgtaggagccatacctacgccctagcagtccagggtccaaggcatgtcatt Alignment from Pairagon GTATTTCATGCTGGTGGTGGCCCTCCAG-GCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG ttgagaatggggccatggatacaggtatgttcactctatgttggttgcagGTATTTCATGCTGGTGGTTGCCCTCCAACGCACATGCACAGAACCAAAATTACACCCTGGCAGCCCA-ATTTCAGAGCGTATCATTGTGCGGgtaggagccatacctacgccctagcagtccagggtccaaggcatgtcatt Alignment from Exonerate_protein2genome GTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG ttgagaatggggccatggatacaggtatgttcactctatgttggttgcagGTATTTCATGCTGGTGGTTGCCCTCCAACGCACATGCACAGAACCAAAATTACACCCTGGCAGCCCAATTTCAGAGCGTATCATTGTGCGGgtaggagccatacctacgccctagcagtccagggtccaaggcatgtcatt Alignment from Exonerate_coding2genome GTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG ttgagaatggggccatggatacaggtatgttcactctatgttggttgcagGTATTTCATGCTGGTGGTTGCCCTCCAACGCACATGCACAGAACCAAAATTACACCCTGGCAGCCCAATTTCAGAGCGTATCATTGTGCGGgtaggagccatacctacgccctagcagtccagggtccaaggcatgtcatt Alignment from GeneWise GTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG ttgagaatggggccatggatacaggtatgttcactctatgttggttgcagGTATTTCATGCTGGTGGTTGCCCTCCAACGCACATGCACAGAACCAAAATTACACCCTGGCAGCCCAATTTCAGAGCGTATCATTGTGCGGgtaggagccatacctacgccctagcagtccagggtccaaggcatgtcatt #### Myrf_ID2732_6 --> 1 - 1 Original Alignment aCTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGA-TCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAg gc actactgtagtgccgagggggaatgaagtttttttcttttttggatacagaCTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTAACAACCTTACCATTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTCTCACCTGGTACTGGACTCTTTGGCTCTCAGTACAGCCCGGGCTCAAACTCCACCTT-GCACCCACCAGGTGCACCCTCTCCTggttagtagaccccatgcagatttagtcctgagtctcttttgtccctaggg Alignment from CESAR aCTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGA-TCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAg gc actactgtagtgccgagggggaatgaagtttttttcttttttggatacagaCTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTAACAACCTTACCATTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTCTCACCTGGTACTGGACTCTTTGGCTCTCAGTACAGCCCGGGCTCAAACTCCACCT-TGCACCCACCAGGTGCACCCTCTCCTggttagtagaccccatgcagatttagttttcttttccattaaatcccaggg Alignment from Spaln_aa2Genome ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG GC actactgtagtgccgagggggaatgaagtttttttcttttttggatacagACTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTAACAACCTTACCATTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTCTCACCTGGTACTGGACTCTTTGGCTCTCAGTACAGCCCGGGCTCAAACTCCACCTTGCACCCACCAGGTGCACCCTCTCCTGgttagtagaccccatgcagatttagtcctgagtctcttttgtccctagGG Alignment from Spaln_nt2Genome ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGA-TCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG GC actactgtagtgccgagggggaatgaagtttttttcttttttggatacagACTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTAACAACCTTACCATTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTCTCACCTGGTACTGGACTCTTTGGCTCTCAGTACAGCCCGGGCTCAAACTCCA-CCTTGCACCCACCAGGTGCACCCTCTCCTGgttagtagaccccatgcagatttagtcctgagtctcttttgtccctagGG Alignment from Pairagon ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGA-TCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCC------------------------------------------------AGGC actactgtagtgccgagggggaatgaagtttttttcttttttggatacagACTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTAACAACCTTACCATTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTCTCACCTGGTACTGGACTCTTTGGCTCTCAGTACAGCCCGGGCTCAAACTCCACCTT-GCACCCACCAGGTGCACCCTCTCCTGGTTAGTAGACCCCATGCAGATTTAGTCCTGAGTCTCTTTTGTCCCTAGGG Alignment from Exonerate_protein2genome ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG GC actactgtagtgccgagggggaatgaagtttttttcttttttggatacagACTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTAACAACCTTACCATTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTCTCACCTGGTACTGGACTCTTTGGCTCTCAGTACAGCCCGGGCTCAAACTCCACCTTGCACCCACCAGGTGCACCCTCTCCTGgttagtagaccccatgcagatttagtcctgagtctcttttgtccctagGG Alignment from Exonerate_coding2genome ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG GC actactgtagtgccgagggggaatgaagtttttttcttttttggatacagACTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTAACAACCTTACCATTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTCTCACCTGGTACTGGACTCTTTGGCTCTCAGTACAGCCCGGGCTCAAACTCCACCTTGCACCCACCAGGTGCACCCTCTCCTGgttagtagaccccatgcagatttagtcctgagtctcttttgtccctagGG Alignment from GeneWise ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG GC actactgtagtgccgagggggaatgaagtttttttcttttttggatacagACTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTAACAACCTTACCATTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTCTCACCTGGTACTGGACTCTTTGGCTCTCAGTACAGCCCGGGCTCAAACTCCACCTTGCACCCACCAGGTGCACCCTCTCCTGgttagtagaccccatgcagatttagtcctgagtctcttttgtccctagGG #### Naaladl1_ID1443_2 --> 1 - 1 Original Alignment aGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAG-ACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCg acactgtttaagcttcaattctcctgcagctccatctcttgccttgccagaGAGCTTGCAAAAGAACCACATGTTGCCACCAGTACTCGAGATGATGCCCTGGTTCAGCTGCTGTTGGCACGCTGGAAGGATACAGCACCAGGATTGGACTCAGCCAAGCACCTACGAATATCGGGTGTTGCTTGCATTCC-TAATGCA---GAGGCCAACAGTGTGGAAGTTggtatgtgtcagaagtcgctaggcagcacgctgtccatccatctctttccc Alignment from CESAR aGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAG-ACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCg acactgtttaagcttcaattctcctgcagctccatctcttgccttgccagaGAGCTTGCAAAAGAACCACATGTTGCCACCAGTACTCGAGATGATGCCCTGGTTCAGCTGCTGTTGGCACGCTGGAAGGATACAGCACCAGGATTGGACTCAGCCAAGCACCTACGAATATCGGGTGTTGCTTGCAT-TCCTAATGCAGAG---GCCAACAGTGTGGAAGTTggtatgtgtcagaagtcgctaggcagcacgcgtggcttttttctttgtctt Alignment from Spaln_aa2Genome AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAG-ACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCGTGG acactgtttaagcttcaattctcctgcagctccatctcttgccttgccagAGAGCTTGCAAAAGAACCACATGTTGCCACCAGTACTCGAGATGATGCCCTGGTTCAGCTGCTGTTGGCACGCTGGAAGGATACAGCACCAGGATTGGACTCAGCCAAGcACCTACGAATATCGGGTGTTGCTTGCATTCCTA---ATGCAGAGGCCAACAGTGTGGAAGTTGGTATgtgtcagaagtcgctaggcagcacgctgtccatccatctctttccc Alignment from Spaln_nt2Genome AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAG-ACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG acactgtttaagcttcaattctcctgcagctccatctcttgccttgccagAGAGCTTGCAAAAGAACCACATGTTGCCACCAGTACTCGAGATGATGCCCTGGTTCAGCTGCTGTTGGCACGCTGGAAGGATACAGCACCAGGATTGGACTCAGCCAAGCACCTACGAATATCGGGTGTTGCT-TGCATTCCTAATGCAGAG--GCC-AACAGTGTGGAAGTTGgtatgtgtcagaagtcgctaggcagcacgctgtccatccatctctttccc Alignment from Pairagon AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAG-ACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG acactgtttaagcttcaattctcctgcagctccatctcttgccttgccagAGAGCTTGCAAAAGAACCACATGTTGCCACCAGTACTCGAGATGATGCCCTGGTTCAGCTGCTGTTGGCACGCTGGAAGGATACAGCACCAGGATTGGACTCAGCCAAGCACCTACGAATATCGGGTGTTGCT-TGCATTCCTAATGCAG---AGGCCAACAGTGTGGAAGTTGgtatgtgtcagaagtcgctaggcagcacgctgtccatccatctctttccc Alignment from Exonerate_protein2genome AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG acactgtttaagcttcaattctcctgcagctccatctcttgccttgccagAGAGCTTGCAAAAGAACCACATGTTGCCACCAGTACTCGAGATGATGCCCTGGTTCAGCTGCTGTTGGCACGCTGGAAGGATACAGCACCAGGATTGGACTCAGCCAAGCACCTACGAATATCGGGTGTTGCTTGCATTCCTAATGCAGAG---GCCAACAGTGTGGAAGTTGgtatgtgtcagaagtcgctaggcagcacgctgtccatccatctctttccc Alignment from Exonerate_coding2genome AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG acactgtttaagcttcaattctcctgcagctccatctcttgccttgccagAGAGCTTGCAAAAGAACCACATGTTGCCACCAGTACTCGAGATGATGCCCTGGTTCAGCTGCTGTTGGCACGCTGGAAGGATACAGCACCAGGATTGGACTCAGCCAAGCACCTACGAATATCGGGTGTTGCTTGCATTCCTAATGCAGAG---GCCAACAGTGTGGAAGTTGgtatgtgtcagaagtcgctaggcagcacgctgtccatccatctctttccc Alignment from GeneWise AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG acactgtttaagcttcaattctcctgcagctccatctcttgccttgccagAGAGCTTGCAAAAGAACCACATGTTGCCACCAGTACTCGAGATGATGCCCTGGTTCAGCTGCTGTTGGCACGCTGGAAGGATACAGCACCAGGATTGGACTCAGCCAAGCACCTACGAATATCGGGTGTTGCTTGCATTCCTAATGCAGAGGCC---AACAGTGTGGAAGTTGgtatgtgtcagaagtcgctaggcagcacgctgtccatccatctctttccc #### Naaladl1_ID1456_15 --> 2 - 1 Original Alignment gtTTCAGCAGCCACCAAGCTGTGGCCCGG-ACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGg gg atgaaggtgaaacttggatttggcctctatcctgtgccttatttctgcaggcTTTAGTAGCCAGCAGGCTGTTGCCCGGCACTGCTGGGAGTGTGCTTCTCCAGCTCAGTG-TAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCGCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGggtgagtcccaacatcttgagactgtgctatttttgtttgtacccacagga Alignment from CESAR gtTTCAGCAGCCACCAAGCTGTGGCCCGG-ACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGg gg atgaaggtgaaacttggatttggcctctatcctgtgccttatttctgcaggcTTTAGTAGCCAGCAGGCTGTTGCCCGGCACTGCTGGGAGTGTGCTTCTCCAGCTCAGT-GTAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCGCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGggtgagtcccaacatcttgagactgtggtttctgtgctcttccccgcagga Alignment from Spaln_aa2Genome GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG atgaaggtgaaacttggatttggcctctatcctgtgccttatttctgcagGCTTTAGTAGCCAGCAGGCTGTTGCCCGGCACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGTAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCGCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtgagtcccaacatcttgagactgtgctatttttgtttgtacccacagGA Alignment from Spaln_nt2Genome GTTTCAGCAGCCACCAAGCTGTGGCCCGG-ACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG atgaaggtgaaacttggatttggcctctatcctgtgccttatttctgcagGCTTTAGTAGCCAGCAGGCTGTTGCCCGGCACTGCTGGGAGTGTGCTTCTCCAGCTCAGTG-TAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCGCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtgagtcccaacatcttgagactgtgctatttttgtttgtacccacagGA Alignment from Pairagon GTTTCAGCAGCCACCAAGCTGTGGCCCGG-ACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG atgaaggtgaaacttggatttggcctctatcctgtgccttatttctgcagGCTTTAGTAGCCAGCAGGCTGTTGCCCGGCACTGCTGGGAGTGTGCTTCTCCAGCTCAGTG-TAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCGCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtgagtcccaacatcttgagactgtgctatttttgtttgtacccacagGA Alignment from Exonerate_protein2genome GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG atgaaggtgaaacttggatttggcctctatcctgtgccttatttctgcagGCTTTAGTAGCCAGCAGGCTGTTGCCCGGCACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGTAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCGCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtgagtcccaacatcttgagactgtgctatttttgtttgtacccacagGA Alignment from Exonerate_coding2genome atgaaggtgaaacttggatttggcctctatcctgtgccttatttctgcaggctttagtagccagcaggctgttgcccggcactgctgggagtgtgcttctccagctcagtgtagcctcttcctgcccctaaatgttagtgactatagtgagaccttacaaagtttccttcaggcagcgcaagaagccctaggtacccaattagaaaagcagaatgtaagcttgggtgagtcccaacatcttgagactgtgctatttttgtttgtacccacagga Alignment from GeneWise GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTG------------------------------------------------GGG atgaaggtgaaacttggatttggcctctatcctgtgccttatttctgcagGCTTTAGTAGCCAGCAGGCTGTTGCCCGGCACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGTAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCGCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGGTGAGTCCCAACATCTTGAGACTGTGCTATTTTTGTTTGTACCCACAGGA #### Ndufv1_ID276_6 --> 2 - 1 Original Alignment gaGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTG-TCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTg gatggtgcttgatcatgactcagttaattgaccgtgtctactctcttcaggaGTGTTTGGTTGTCCCACAACTGTGACCAATGTTAAAACAGTGGCTGTGCTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGT-TGCCGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCGCCCATGCACTGTGGAGGAAGAGATGGCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTggtaacccttaagccaattcaaggtcagggcatcagaggggtgcttgcaaa Alignment from CESAR gaGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTG-TCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTg gatggtgcttgatcatgactcagttaattgaccgtgtctactctcttcaggaGTGTTTGGTTGTCCCACAACTGTGACCAATGTTAAAACAGTGGCTGTGCTCCCCCACAATCTGTCGCCGTGGGGGCACCTGG-TTGCCGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCGCCCATGCACTGTGGAGGAAGAGATGGCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTggtaacccttaagccaattcaaggtcagggcatcagaggggtgcttgcaaa Alignment from Spaln_aa2Genome GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gatggtgcttgatcatgactcagttaattgaccgtgtctactctcttcagGAGTGTTTGGTTGTCCCACAACTGTGACCAATGTTAAAACAGTGGCTGTGCTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTGCCGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCGCCCATGCACTGTGGAGGAAGAGATGGCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtaacccttaagccaattcaaggtcagggcatcagaggggtgcttgcaaa Alignment from Spaln_nt2Genome GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTG-TCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gatggtgcttgatcatgactcagttaattgaccgtgtctactctcttcagGAGTGTTTGGTTGTCCCACAACTGTGACCAATGTTAAAACAGTGGCTGTGCTCCCCCACAATCTGTCGCCGTGGGGGCACCTGG-TTGCCGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCGCCCATGCACTGTGGAGGAAGAGATGGCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtaacccttaagccaattcaaggtcagggcatcagaggggtgcttgcaaa Alignment from Pairagon GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTG-TCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gatggtgcttgatcatgactcagttaattgaccgtgtctactctcttcagGAGTGTTTGGTTGTCCCACAACTGTGACCAATGTTAAAACAGTGGCTGTGCTCCCCCACAATCTGTCGCCGTGGGGGCACCTGG-TTGCCGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCGCCCATGCACTGTGGAGGAAGAGATGGCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtaacccttaagccaattcaaggtcagggcatcagaggggtgcttgcaaa Alignment from Exonerate_protein2genome GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gatggtgcttgatcatgactcagttaattgaccgtgtctactctcttcagGAGTGTTTGGTTGTCCCACAACTGTGACCAATGTTAAAACAGTGGCTGTGCTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTGCCGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCGCCCATGCACTGTGGAGGAAGAGATGGCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtaacccttaagccaattcaaggtcagggcatcagaggggtgcttgcaaa Alignment from Exonerate_coding2genome GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gatggtgcttgatcatgactcagttaattgaccgtgtctactctcttcagGAGTGTTTGGTTGTCCCACAACTGTGACCAATGTTAAAACAGTGGCTGTGCTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTGCCGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCGCCCATGCACTGTGGAGGAAGAGATGGCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtaacccttaagccaattcaaggtcagggcatcagaggggtgcttgcaaa Alignment from GeneWise GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gatggtgcttgatcatgactcagttaattgaccgtgtctactctcttcagGAGTGTTTGGTTGTCCCACAACTGTGACCAATGTTAAAACAGTGGCTGTGCTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTGCCGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCGCCCATGCACTGTGGAGGAAGAGATGGCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtaacccttaagccaattcaaggtcagggcatcagaggggtgcttgcaaa #### Nfkb2_ID9826_4 --> 0 - 0 Original Alignment CGAGGCTTCAGATTTCGATATGGCTGTGAAGGC-CCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG gggtagtttgcttcacctgctcattgtaaatgtgccttcctctttcacagAGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCCTCCCATGGTGGCTTGCCAGGTGCATCCAGTG-GAAGGGCCGGAAGAGCTATCCCACTGTAAAAgtaagtacaggtgccacagctgcttcatgcatagacctgtggggcactca Alignment from CESAR CGAGGCTTCAGATTTCGATATGGCTGTGAAGGC-CCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG gggtagtttgcttcacctgctcattgtaaatgtgccttcctctttcacagAGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCCTCCCATGGTGGCTTGCCAGGTGCATCCAGT-GGAAGGGCCGGAAGAGCTATCCCACTGTAAAAgtaagtacaggtgccacagctgcttcatgcatagacctgtggggcactca Alignment from Spaln_aa2Genome CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG gggtagtttgcttcacctgctcattgtaaatgtgccttcctctttcacagAGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCCTCCCATGGTGGCTTGCCAGGTGCATCCAGTGGAAGGGCCGGAAGAGCTATCCCACTGTAAAAgtaagtacaggtgccacagctgcttcatgcatagacctgtggggcactca Alignment from Spaln_nt2Genome CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCC-CTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG gggtagtttgcttcacctgctcattgtaaatgtgccttcctctttcacagAGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCCTCCCATGGTGGCTTGCCAGGTGCATCCAGTG-GAAGGGCCGGAAGAGCTATCCCACTGTAAAAgtaagtacaggtgccacagctgcttcatgcatagacctgtggggcactca Alignment from Pairagon CGAGGCTTCAGATTTCGATATGGCTGTGAAGG-CCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG gggtagtttgcttcacctgctcattgtaaatgtgccttcctctttcacagAGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCCTCCCATGGTGGCTTGCCAGGTGCATCCAGTG-GAAGGGCCGGAAGAGCTATCCCACTGTAAAAgtaagtacaggtgccacagctgcttcatgcatagacctgtggggcactca Alignment from Exonerate_protein2genome CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG gggtagtttgcttcacctgctcattgtaaatgtgccttcctctttcacagAGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCCTCCCATGGTGGCTTGCCAGGTGCATCCAGTGGAAGGGCCGGAAGAGCTATCCCACTGTAAAAgtaagtacaggtgccacagctgcttcatgcatagacctgtggggcactca Alignment from Exonerate_coding2genome CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG gggtagtttgcttcacctgctcattgtaaatgtgccttcctctttcacagAGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCCTCCCATGGTGGCTTGCCAGGTGCATCCAGTGGAAGGGCCGGAAGAGCTATCCCACTGTAAAAgtaagtacaggtgccacagctgcttcatgcatagacctgtggggcactca Alignment from GeneWise CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG gggtagtttgcttcacctgctcattgtaaatgtgccttcctctttcacagAGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCCTCCCATGGTGGCTTGCCAGGTGCATCCAGTGGAAGGGCCGGAAGAGCTATCCCACTGTAAAAgtaagtacaggtgccacagctgcttcatgcatagacctgtggggcactca #### Nfkb2_ID9827_5 --> 0 - 2 Original Alignment ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGT-CTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTca gacctgtggggcactcaacaatatagaaccctcaccacctgtcttctcagATATGTAACTATGAGGGACCCACAAAGATTGTCGTTGACCTGGCAACACACAGTGACCCACCTCGTGCACATGCCCACAGTCCTGGCGGGCAAGCAGTGTTCAGAACTCGGGGTATGTGCCA-TTCTGTAGGCCCCAAGGACATGACTGCTcagtgagtcacttatcagtcttggagttgatccaaaggatatctggatatcc Alignment from CESAR ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGT-CTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTca gacctgtggggcactcaacaatatagaaccctcaccacctgtcttctcagATATGTAACTATGAGGGACCCACAAAGATTGTCGTTGACCTGGCAACACACAGTGACCCACCTCGTGCACATGCCCACAGTCCTGGCGGGCAAGCAGTGTTCAGAACTCGGGGTATGTGCCA-TTCTGTAGGCCCCAAGGACATGACTGCTcagtgagtcacttatcagtcttggagttgatccaaaggatatctggatatcc Alignment from Spaln_aa2Genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA gacctgtggggcactcaacaatatagaaccctcaccacctgtcttctcagATATGTAACTATGAGGGACCCACAAAGATTGTCGTTGACCTGGCAACACACAGTGACCCACCTCGTGCACATGCCCACAGTCCTGGCGGGCAAGCAGTGTTCAGAACTCGGGGTATGTGCCATTCTGTAGGCCCCAAGGACATGACTGCTCAgtgagtcacttatcagtcttggagttgatccaaaggatatctggatatcc Alignment from Spaln_nt2Genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGT-CTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA gacctgtggggcactcaacaatatagaaccctcaccacctgtcttctcagATATGTAACTATGAGGGACCCACAAAGATTGTCGTTGACCTGGCAACACACAGTGACCCACCTCGTGCACATGCCCACAGTCCTGGCGGGCAAGCAGTGTTCAGAACTCGGGGTATGTGCCAT-TCTGTAGGCCCCAAGGACATGACTGCTCAgtgagtcacttatcagtcttggagttgatccaaaggatatctggatatcc Alignment from Pairagon ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGT-CTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA gacctgtggggcactcaacaatatagaaccctcaccacctgtcttctcagATATGTAACTATGAGGGACCCACAAAGATTGTCGTTGACCTGGCAACACACAGTGACCCACCTCGTGCACATGCCCACAGTCCTGGCGGGCAAGCAGTGTTCAGAACTCGGGGTATGTGCCAT-TCTGTAGGCCCCAAGGACATGACTGCTCAgtgagtcacttatcagtcttggagttgatccaaaggatatctggatatcc Alignment from Exonerate_protein2genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGT-CTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCT--GTGTCTGTAGGACCCAAGGACATGACTGCTCA gacctgtggggcactcaacaatatagaaccctcaccacctgtcttctcagATATGTAACTATGAGGGACCCACAAAGATTGTCGTTGACCTGGCAACACACAGTGACCCACCTCGTGCACATGCCCACAGTCCTGGCGGGCAAGCAGTGTTCAGAACTCGGGGTATGTGCCAT---TCTGTAGGCCCCAAGGACATGACTGCTCAgtgagtcacttatcagtcttggagttgatccaaaggatatctggatatcc Alignment from Exonerate_coding2genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGT-CTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCT--GTGTCTGTAGGACCCAAGGACATGACTGCTCA gacctgtggggcactcaacaatatagaaccctcaccacctgtcttctcagATATGTAACTATGAGGGACCCACAAAGATTGTCGTTGACCTGGCAACACACAGTGACCCACCTCGTGCACATGCCCACAGTCCTGGCGGGCAAGCAGTGTTCAGAACTCGGGGTATGTGCCAT---TCTGTAGGCCCCAAGGACATGACTGCTCAgtgagtcacttatcagtcttggagttgatccaaaggatatctggatatcc Alignment from GeneWise ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA gacctgtggggcactcaacaatatagaaccctcaccacctgtcttctcagATATGTAACTATGAGGGACCCACAAAGATTGTCGTTGACCTGGCAACACACAGTGACCCACCTCGTGCACATGCCCACAGTCCTGGCGGGCAAGCAGTGTTCAGAACTCGGGGTATGTGCCATTCTGTAGGCCCCAAGGACATGACTGCTCAgtgagtcacttatcagtcttggagttgatccaaaggatatctggatatcc #### Nfkb2_ID9828_6 --> 1 - 1 Original Alignment aTTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAG-ATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAg ggggtgacacagtataaatcatccagaaagctcttgtctgaactttgcaggTTCAATAATTTCGGC------CATGTAACAAAAAAGAACATGATGGAGCATAATGATACAGAGACTGCACAGGCAGCGTCTTCAATCCAAAC-ACAGGGCCTAACTggtaaggaacctgaatgtgtcttggatggtgctcataagtagactatggaa Alignment from CESAR aTTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAG-ATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAg ggggtgacacagtataaatcatccagaaagctcttgtctgaactttgcaggTTCAATAATTTCGGC------CATGTAACAAAAAAGAACATGATGGAGCATAATGATACAGAGACTGCACAGGCAGCGTCTTCAATCCAAA-CACAGGGCCTAACTggtaaggaacctgaatgtgtcttggatggtgctcataagtagactatggaa Alignment from Spaln_aa2Genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAG-ATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG ggggtgacacagtataaatcatccagaaagctcttgtctgaactttgcagGTTCAATAATTTCGGC------CATGTAACAAAAAAGAACATGATGGAGcATAATGATACAGAGACTGCACAGGCAGCGTCTTCAATCCAAACA-CAGGGCCTAACTGgtaaggaacctgaatgtgtcttggatggtgctcataagtagactatggaa Alignment from Spaln_nt2Genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAG-ATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG ggggtgacacagtataaatcatccagaaagctcttgtctgaactttgcagGTTCAATAATTTCGG------CCATGTAACAAAAAAGAACATGATGGAGCATAATGATACAGAGACTGCACAGGCAGCGTCTTCAATCCAA-ACACAGGGCCTAACTGgtaaggaacctgaatgtgtcttggatggtgctcataagtagactatggaa Alignment from Pairagon ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAG-ATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG ggggtgacacagtataaatcatccagaaagctcttgtctgaactttgcagGTTCAATAATTTCGGC------CATGTAACAAAAAAGAACATGATGGAGCATAATGATACAGAGACTGCACAGGCAGCGTCTTCAATCCAAACA-CAGGGCCTAACTGgtaaggaacctgaatgtgtcttggatggtgctcataagtagactatggaa Alignment from Exonerate_protein2genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG ggggtgacacagtataaatcatccagaaagctcttgtctgaactttgcagGTTCAATAATTTCGGC------CATGTAACAAAAAAGAACATGATGGAGCATAATGATACAGAGACTGCACAGGCAGCGTCTTCAATCCAAACACAGGGCCTAACTGgtaaggaacctgaatgtgtcttggatggtgctcataagtagactatggaa Alignment from Exonerate_coding2genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG ggggtgacacagtataaatcatccagaaagctcttgtctgaactttgcagGTTCAATAATTTCGGC------CATGTAACAAAAAAGAACATGATGGAGCATAATGATACAGAGACTGCACAGGCAGCGTCTTCAATCCAAACACAGGGCCTAACTGgtaaggaacctgaatgtgtcttggatggtgctcataagtagactatggaa Alignment from GeneWise ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG ggggtgacacagtataaatcatccagaaagctcttgtctgaactttgcagGTTCAATAATTTCGGC------CATGTAACAAAAAAGAACATGATGGAGCATAATGATACAGAGACTGCACAGGCAGCGTCTTCAATCCAAACACAGGGCCTAACTGgtaaggaacctgaatgtgtcttggatggtgctcataagtagactatggaa #### Nfkb2_ID9829_7 --> 2 - 1 Original Alignment agGCTGAGCGGCGGGAGCTAGAGCAGGAG-GCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCa agggcaatttattacttgccctacccataacttattctttctttttttagagGCTGAGCGCCGAGAGCTTGAACAGGAGCGCCAAGGAGCTGAAGAAAGTTATGGATTTGAGCA-TGTACGGCTACGCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAACCAATCCATGATAGCagtgagtctgcacaaacataagcgataagatttcaggtaaaagatcggttt Alignment from CESAR agGCTGAGCGGCGGGAGCTAGAGCAGGAG-GCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCa agggcaatttattacttgccctacccataacttattctttctttttttagagGCTGAGCGCCGAGAGCTTGAACAGGAGCGCCAAGGAGCTGAAGAAAGTTATGGATTTGAGCA-TGTACGGCTACGCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAACCAATCCATGATAGCagtgagtctgcacaaacataagcgataagatttcaggtaaaagatcggttt Alignment from Spaln_aa2Genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA agggcaatttattacttgccctacccataacttattctttctttttttagAGGCTGAGCGCCGAGAGCTTGAACAGGAGCGCCAAGGAGCTGAAGAAAGTTATGGATTTGAGCATGTACGGCTACGCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAACCAATCCATGATAGCAgtgagtctgcacaaacataagcgataagatttcaggtaaaagatcggttt Alignment from Spaln_nt2Genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAG-GCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA agggcaatttattacttgccctacccataacttattctttctttttttagAGGCTGAGCGCCGAGAGCTTGAACAGGAGCGCCAAGGAGCTGAAGAAAGTTATGGATTTGAGCAT-GTACGGCTACGCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAACCAATCCATGATAGCAgtgagtctgcacaaacataagcgataagatttcaggtaaaagatcggttt Alignment from Pairagon AGGCTGAGCGGCGGGAGCTAGAGCAGGAG-GCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA agggcaatttattacttgccctacccataacttattctttctttttttagAGGCTGAGCGCCGAGAGCTTGAACAGGAGCGCCAAGGAGCTGAAGAAAGTTATGGATTTGAGCA-TGTACGGCTACGCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAACCAATCCATGATAGCAgtgagtctgcacaaacataagcgataagatttcaggtaaaagatcggttt Alignment from Exonerate_protein2genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA agggcaatttattacttgccctacccataacttattctttctttttttagAGGCTGAGCGCCGAGAGCTTGAACAGGAGCGCCAAGGAGCTGAAGAAAGTTATGGATTTGAGCATGTACGGCTACGCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAACCAATCCATGATAGCAgtgagtctgcacaaacataagcgataagatttcaggtaaaagatcggttt Alignment from Exonerate_coding2genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA agggcaatttattacttgccctacccataacttattctttctttttttagAGGCTGAGCGCCGAGAGCTTGAACAGGAGCGCCAAGGAGCTGAAGAAAGTTATGGATTTGAGCATGTACGGCTACGCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAACCAATCCATGATAGCAgtgagtctgcacaaacataagcgataagatttcaggtaaaagatcggttt Alignment from GeneWise AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA agggcaatttattacttgccctacccataacttattctttctttttttagAGGCTGAGCGCCGAGAGCTTGAACAGGAGCGCCAAGGAGCTGAAGAAAGTTATGGATTTGAGCATGTACGGCTACGCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAACCAATCCATGATAGCAgtgagtctgcacaaacataagcgataagatttcaggtaaaagatcggttt #### Nfkb2_ID9831_9 --> 2 - 0 Original Alignment acGACATTGAGGTTCGGTTCTATGAGGATGATGAG-AATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG cacctgcccctgtccctccatatcactgcatttgaaaactttgctactagatGACATCGAGGTTCAATTCTATGAGGATGATGAGCAATGGGTGGCAAGCCTTTGGGGACTTCTCTCCCA-AGATGTTTATAAACAGgtaagacaacaacaacataattcatattccctgtggttagtacaggtaca Alignment from CESAR acGACATTGAGGTTCGGTTCTATGAGGATGATGAG-AATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG cacctgcccctgtccctccatatcactgcatttgaaaactttgctactagatGACATCGAGGTTCAATTCTATGAGGATGATGAGCAATGGGTGGCAAGCCTTTGGGGACTTCTCTCCC-AAGATGTTTATAAACAGgtaagacaacaacaacataattcatattccctgtggttagtacaggtaca Alignment from Spaln_aa2Genome ACGACATTGAGGTTCGGTTCTATGAGGATGATGAG-AATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG cacctgcccctgtccctccatatcactgcatttgaaaactttgctactagATGACATCGAGGTTCAATTCTATGAGGATGATGAGcAATGGGTGGCAAGCCTTTGGGGACTTCTCTCCCAA-GATGTTTATAAACAGgtaagacaacaacaacataattcatattccctgtggttagtacaggtaca Alignment from Spaln_nt2Genome ACGACATTGAGGTTCGGTTCTATGAGGATGATGAG-AATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG cacctgcccctgtccctccatatcactgcatttgaaaactttgctactagATGACATCGAGGTTCAATTCTATGAGGATGATGAGCAATGGGTGGCAAGCCTTTGGGGACTTCTCTCCCA-AGATGTTTATAAACAGgtaagacaacaacaacataattcatattccctgtggttagtacaggtaca Alignment from Pairagon ACGACATTGAGGTTCGGTTCTATGAGGATGATGAG-AATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG cacctgcccctgtccctccatatcactgcatttgaaaactttgctactagATGACATCGAGGTTCAATTCTATGAGGATGATGAGCAATGGGTGGCAAGCCTTTGGGGACTTCTCTCCCA-AGATGTTTATAAACAGgtaagacaacaacaacataattcatattccctgtggttagtacaggtaca Alignment from Exonerate_protein2genome ACGACATTGAGGTTCGGTTCTATGAGGATGATGAG-AATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACA cacctgcccctgtccctccatatcactgcatttgaaaactttgctactagATGACATCGAGGTTCAATTCTATGAGGATGATGAGCAATGGGTGGCAAGCCTTTGGGGACTTCTCTCCCAAGATGTTTATAAACAGgtaagacaacaacaacataattcatattccctgtggttagtacaggtaca Alignment from Exonerate_coding2genome ACGACATTGAGGTTCGGTTCTATGAGGATGATGAG-AATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACA cacctgcccctgtccctccatatcactgcatttgaaaactttgctactagATGACATCGAGGTTCAATTCTATGAGGATGATGAGCAATGGGTGGCAAGCCTTTGGGGACTTCTCTCCCAAGATGTTTATAAACAGgtaagacaacaacaacataattcatattccctgtggttagtacaggtaca Alignment from GeneWise ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG cacctgcccctgtccctccatatcactgcatttgaaaactttgctactagATGACATCGAGGTTCAATTCTATGAGGATGATGAGCAATGGGTGGCAAGCCTTTGGGGACTTCTCTCCCAAGATGTTTATAAACAGgtaagacaacaacaacataattcatattccctgtggttagtacaggtaca #### Nfkb2_ID9833_11 --> 2 - 1 Original Alignment acAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAG-CCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAg gtacatgcttgtatttattaagcctcaaactagtgattgtgtctttacagacAAGGAAGAA------AGTAAAAGGAGGAAGTCGTTGCCTACTTTCTCCCAGCCCCTTTGGGGGTGGAACCCATATGGGTGGAC-CTTTGGCGGGTCTGCAGGGGGTTATGGAGATGCTGGAGGAagtgatgaagaaaaatggaaggagaaagaaagaagattagttgatgatatt Alignment from CESAR acAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAG-CCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAg gtacatgcttgtatttattaagcctcaaactagtgattgtgtctttacagacAAGGAAGAA------AGTAAAAGGAGGAAGTCGTTGCCTACTTTCTCCCAGCCCCTTTGGGGGTGGAACCCATATGGGTGGA-CCTTTGGCGGGTCTGCAGGGGGTTATGGAGATGCTGGAGGAagtgatgaagaaaaatggaaggagaaagaaagaagattagttgatgatatt Alignment from Spaln_aa2Genome ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG gtacatgcttgtatttattaagcctcaaactagtgattgtgtctttacagACAAGGAAGAA------AGTAAAAGGAGGAAGTCGTTGCCTACTTTCTCCCAGCCCCTTTGGGGGTGGAACCCATATGGGTGGACCTTTGGCGGGTCTGCAGGGGGTTATGGAGATGCTGGAGGAAgtgatgaagaaaaatggaaggagaaagaaagaagattagttgatgatatt Alignment from Spaln_nt2Genome ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCC-TTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG gtacatgcttgtatttattaagcctcaaactagtgattgtgtctttacagACAAGGAAGAA------AGTAAAAGGAGGAAGTCGTTGCCTACTTTCTCCCAGCCCCTTTGGGGGTGGAACCCATATGGGTGGACCTT-TGGCGGGTCTGCAGGGGGTTATGGAGATGCTGGAGGAAgtgatgaagaaaaatggaaggagaaagaaagaagattagttgatgatatt Alignment from Pairagon ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAG-CCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG gtacatgcttgtatttattaagcctcaaactagtgattgtgtctttacagACAAGGAAGAA------AGTAAAAGGAGGAAGTCGTTGCCTACTTTCTCCCAGCCCCTTTGGGGGTGGAACCCATATGGGTGGACCTT-TGGCGGGTCTGCAGGGGGTTATGGAGATGCTGGAGGAAgtgatgaagaaaaatggaaggagaaagaaagaagattagttgatgatatt Alignment from Exonerate_protein2genome ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG gtacatgcttgtatttattaagcctcaaactagtgattgtgtctttacagACAAGGAAGAA------AGTAAAAGGAGGAAGTCGTTGCCTACTTTCTCCCAGCCCCTTTGGGGGTGGAACCCATATGGGTGGACCTTTGGCGGGTCTGCAGGGGGTTATGGAGATGCTGGAGGAAgtgatgaagaaaaatggaaggagaaagaaagaagattagttgatgatatt Alignment from Exonerate_coding2genome ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG gtacatgcttgtatttattaagcctcaaactagtgattgtgtctttacagACAAGGAAGAA------AGTAAAAGGAGGAAGTCGTTGCCTACTTTCTCCCAGCCCCTTTGGGGGTGGAACCCATATGGGTGGACCTTTGGCGGGTCTGCAGGGGGTTATGGAGATGCTGGAGGAAgtgatgaagaaaaatggaaggagaaagaaagaagattagttgatgatatt Alignment from GeneWise ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG gtacatgcttgtatttattaagcctcaaactagtgattgtgtctttacagACAAGGAAGAA------AGTAAAAGGAGGAAGTCGTTGCCTACTTTCTCCCAGCCCCTTTGGGGGTGGAACCCATATGGGTGGACCTTTGGCGGGTCTGCAGGGGGTTATGGAGATGCTGGAGGAAgtgatgaagaaaaatggaaggagaaagaaagaagattagttgatgatatt #### Nfkb2_ID9834_12 --> 2 - 1 Original Alignment gtGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTAC-CAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAg tattgcctttgtaaggaccctgataagacactgttgtgtgtttccttcaggtGGAAGCCTTGGTTTTTTATCCCCCCCTTTGGCCTATAATCCCTATCCAACCAGGTGCTTCCCCCATGGGTTATTATCTGG-TGGGGGGGGTGGAACACAAATGGCCGGTTCTAGACGTGACACTGATGCTGGTGAAGGTCCTAAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACACTGCATCGAagtaagtgttggcacgaattcacacatgctattgaaagtgcaacgcaggat Alignment from CESAR gtGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTAC-CAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAg tattgcctttgtaaggaccctgataagacactgttgtgtgtttccttcaggtGGAAGCCTTGGTTTTTTATCCCCCCCTTTGGCCTATAATCCCTATCCAACCAGGTGCTTCCCCCATGGGTTATTATC-TGGTGGGGGGGGTGGAACACAAATGGCCGGTTCTAGACGTGACACTGATGCTGGTGAAGGTCCTAAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACACTGCATCGAagtaagtgttggcacgaattcacacatgctattgaaagtgcaacgcaggat Alignment from Spaln_aa2Genome GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctttgtaaggaccctgataagacactgttgtgtgtttccttcagGTGGAAGCCTTGGTTTTTTATCCCCCCCTTTGGCCTATAATCCCTATCCAACCAGGTGCTTCCCCCATGGGTTATTATCTGGTGGGGGGGGTGGAACACAAATGGCCGGTTCTAGACGTGACACTGATGCTGGTGAAGGTCCTAAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACACTGCATCGAAgtaagtgttggcacgaattcacacatgctattgaaagtgcaacgcaggat Alignment from Spaln_nt2Genome GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTA-CCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctttgtaaggaccctgataagacactgttgtgtgtttccttcagGTGGAAGCCTTGGTTTTTTATCCCCCCCTTTGGCCTATAATCCCTATCCAACCAGGTGCTTCCCCCATGGGTTATTAT-CTGGTGGGGGGGGTGGAACACAAATGGCCGGTTCTAGACGTGACACTGATGCTGGTGAAGGTCCTAAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACACTGCATCGAAgtaagtgttggcacgaattcacacatgctattgaaagtgcaacgcaggat Alignment from Pairagon GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTA-CCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctttgtaaggaccctgataagacactgttgtgtgtttccttcagGTGGAAGCCTTGGTTTTTTATCCCCCCCTTTGGCCTATAATCCCTATCCAACCAGGTGCTTCCCCCATGGGTTATTATCT-GGTGGGGGGGGTGGAACACAAATGGCCGGTTCTAGACGTGACACTGATGCTGGTGAAGGTCCTAAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACACTGCATCGAAgtaagtgttggcacgaattcacacatgctattgaaagtgcaacgcaggat Alignment from Exonerate_protein2genome GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctttgtaaggaccctgataagacactgttgtgtgtttccttcagGTGGAAGCCTTGGTTTTTTATCCCCCCCTTTGGCCTATAATCCCTATCCAACCAGGTGCTTCCCCCATGGGTTATTATCTGGTGGGGGGGGTGGAACACAAATGGCCGGTTCTAGACGTGACACTGATGCTGGTGAAGGTCCTAAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACACTGCATCGAAgtaagtgttggcacgaattcacacatgctattgaaagtgcaacgcaggat Alignment from Exonerate_coding2genome GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctttgtaaggaccctgataagacactgttgtgtgtttccttcagGTGGAAGCCTTGGTTTTTTATCCCCCCCTTTGGCCTATAATCCCTATCCAACCAGGTGCTTCCCCCATGGGTTATTATCTGGTGGGGGGGGTGGAACACAAATGGCCGGTTCTAGACGTGACACTGATGCTGGTGAAGGTCCTAAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACACTGCATCGAAgtaagtgttggcacgaattcacacatgctattgaaagtgcaacgcaggat Alignment from GeneWise GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctttgtaaggaccctgataagacactgttgtgtgtttccttcagGTGGAAGCCTTGGTTTTTTATCCCCCCCTTTGGCCTATAATCCCTATCCAACCAGGTGCTTCCCCCATGGGTTATTATCTGGTGGGGGGGGTGGAACACAAATGGCCGGTTCTAGACGTGACACTGATGCTGGTGAAGGTCCTAAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACACTGCATCGAAgtaagtgttggcacgaattcacacatgctattgaaagtgcaacgcaggat #### Nfkb2_ID9837_15 --> 0 - 1 Original Alignment ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGC-TTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCT------------------------------------------CTCCGGGCAGGT---GCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGg ttgtaagcaaagagtgcaaggctatccctttttcttcttttcttctacagACCCCGCTGCACCTTGCTTTAATTACTGGGCAGAAAAGAGTGGTGAGCCTTTCTGCTGCAGGTGGGTGTGGACCCCACAC-ACTGGAAAGACACGAA---TCTGCACTCCACCTGGCTCACACCTGTGAAAATTTCTTGCCATCTTGGACCTCTCAGGAGCTCAGGGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCTTTGTTACGCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCCGAGTTTGAGggtggctgctaaaagccatggcatgatgaatccagaagcctcagtagtcag Alignment from CESAR ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGC-TTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCT------------------------------------------CTCCGGGCAGGTGCTGCA---GCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGg ttgtaagcaaagagtgcaaggctatccctttttcttcttttcttctacagACCCCGCTGCACCTTGCTTTAATTACTGGGCAGAAAAGAGTGGTGAGCCTTTCTGCTGCAGGTGGGTGTGGACCCCACA-CACTGGAAAGACAC---GAATCTGCACTCCACCTGGCTCACACCTGTGAAAATTTCTTGCCATCTTGGACCTCTCAGGAGCTCAGGGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCTTTGTTACGCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCCGAGTTTGAGggtggctgctaaaagccatggcatgatgaatccagaagcctcagtagtcag Alignment from Spaln_aa2Genome ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTG GCTCTCCGGGCAGGT---GCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG ttgtaagcaaagagtgcaaggctatccctttttcttcttttcttctacagACCCCGCTGCACCTTGCTTTAATTACTGGGCAGAAAAGAGTGGTGAGCCTTTCTGCTGCAGGTGGGTGTGGACCCCACACACTGGAAAGACAC---GAATCTGCACTCCACCTGgctcacacctgtgaaaatttcttgccatcttggacctctcagGAGCTCAGGGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCTTTGTTACGCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCCGAGTTTGAGGgtggctgctaaaagccatggcatgatgaatccagaagcctcagtagtcag Alignment from Spaln_nt2Genome ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCT-TCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTG GCTCTCCGGGCAGGTGCTGCAGC---CCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG ttgtaagcaaagagtgcaaggctatccctttttcttcttttcttctacagACCCCGCTGCACCTTGCTTTAATTACTGGGCAGAAAAGAGTGGTGAGCCTTTCTGCTGCAGGTGGGTGTGGACCCCACAC-ACTGGAAAGACAC---GAATCTGCACTCCACCTGgctcacacctgtgaaaatttcttgccatcttggacctctcagGAGCTCAGGGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCTTTGTTACGCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCCGAGTTTGAGGgtggctgctaaaagccatggcatgatgaatccagaagcctcagtagtcag Alignment from Pairagon ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAG-CTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGAC----------------TCCGCCCTCCACTTGGCT------------------------------------------CTCCGGGCAGGTGCTGCA---GCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG ttgtaagcaaagagtgcaaggctatccctttttcttcttttcttctacagACCCCGCTGCACCTTGCTTTAATTACTGGGCAGAAAAGAGTGGTGAGCCTTTCTGCTGCAGGTGGGTGTGGACCCCAC--------------------ACACTGGAAAGACACGAATCTGCACTCCACCTGGCTCACACCTGTGAAAATTTCTTGCCATCTTGGACCTCTCAGGAGCTCAGGGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCTTTGTTACGCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCCGAGTTTGAGGgtggctgctaaaagccatggcatgatgaatccagaagcctcagtagtcag Alignment from Exonerate_protein2genome ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTG GCTCTCCGGGCAGGT---GCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG ttgtaagcaaagagtgcaaggctatccctttttcttcttttcttctacagACCCCGCTGCACCTTGCTTTAATTACTGGGCAGAAAAGAGTGGTGAGCCTTTCTGCTGCAGGTGGGTGTGGACCCCACACACTGGAAAGACAC---GAATCTGCACTCCACCTGgctcacacctgtgaaaatttcttgccatcttggacctctcagGAGCTCAGGGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCTTTGTTACGCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCCGAGTTTGAGGgtggctgctaaaagccatggcatgatgaatccagaagcctcagtagtcag Alignment from Exonerate_coding2genome GTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTG TTGTAAGCAAAGAGTGCAAGGCTATCCCTTTTTCTTCTTttcttctacagaccccgctgcaccttgctttaattactgggcagaaaagagtggtgagcctttctgctgcaggtgggtgtggaccccacacactggaaagacacgaatctgcactccacctggctcacacctgtgaaaatttcttgccatcttggacctctcaggagctcagggcaggagcagcagctgcccctgagttgttgcaggctttgttacgcagtgaagcccatgctgtaccacatatacatatgcccgagtttgagggtggctgctaaaagccatggcatgatgaatccagaagcctcagtagtcag Alignment from GeneWise ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCT------------------------------------------CTCCGGGCAGGT---GCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG ttgtaagcaaagagtgcaaggctatccctttttcttcttttcttctacagACCCCGCTGCACCTTGCTTTAATTACTGGGCAGAAAAGAGTGGTGAGCCTTTCTGCTGCAGGTGGGTGTGGACCCCACACACTGGAAAGACAC---GAATCTGCACTCCACCTGGCTCACACCTGTGAAAATTTCTTGCCATCTTGGACCTCTCAGGAGCTCAGGGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCTTTGTTACGCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCCGAGTTTGAGGgtggctgctaaaagccatggcatgatgaatccagaagcctcagtagtcag #### Nfkb2_ID9839_17 --> 0 - 1 Original Alignment CTCCATGCTAAT-GTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTg gatttgcttgtttgtgaccagactctgtagacgtccccctctctctgcagCTGCATGCCAATCGTCAATACTTGGACCTTTGCTGCAAATACAC-ACTCCACCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTggtgagtcctccattaacctgtgactacaaaactcaaggcttggggagcaa Alignment from CESAR CTCCATGCTAAT-GTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTg gatttgcttgtttgtgaccagactctgtagacgtccccctctctctgcagCTGCATGCCAATCGTCAATACTTGGACCTTTGCTGCAAATACA-CACTCCACCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTggtgagtcctccattaacctgtgactacaaaactcaaggcttggggagcaa Alignment from Spaln_aa2Genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gatttgcttgtttgtgaccagactctgtagacgtccccctctctctgcagCTGCATGCCAATCGTCAATACTTGGACCTTTGCTGCAAATACACACTCCACCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtgagtcctccattaacctgtgactacaaaactcaaggcttggggagcaa Alignment from Spaln_nt2Genome CTCCATGCTAAT-GTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gatttgcttgtttgtgaccagactctgtagacgtccccctctctctgcagCTGCATGCCAATCGTCAATACTTGGACCTTTGCTGCAAATACA-CACTCCACCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtgagtcctccattaacctgtgactacaaaactcaaggcttggggagcaa Alignment from Pairagon CTCCATGCTAAT-GTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gatttgcttgtttgtgaccagactctgtagacgtccccctctctctgcagCTGCATGCCAATCGTCAATACTTGGACCTTTGCTGCAAATACA-CACTCCACCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtgagtcctccattaacctgtgactacaaaactcaaggcttggggagcaa Alignment from Exonerate_protein2genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gatttgcttgtttgtgaccagactctgtagacgtccccctctctctgcagCTGCATGCCAATCGTCAATACTTGGACCTTTGCTGCAAATACACACTCCACCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtgagtcctccattaacctgtgactacaaaactcaaggcttggggagcaa Alignment from Exonerate_coding2genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gatttgcttgtttgtgaccagactctgtagacgtccccctctctctgcagCTGCATGCCAATCGTCAATACTTGGACCTTTGCTGCAAATACACACTCCACCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtgagtcctccattaacctgtgactacaaaactcaaggcttggggagcaa Alignment from GeneWise CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gatttgcttgtttgtgaccagactctgtagacgtccccctctctctgcagCTGCATGCCAATCGTCAATACTTGGACCTTTGCTGCAAATACACACTCCACCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtgagtcctccattaacctgtgactacaaaactcaaggcttggggagcaa #### Nfkb2_ID9840_18 --> 2 - 0 Original Alignment gtGCTGACATCCATGCAGAGAATGAGGAGCCTCTG-TGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtaatctttcaaaaactctattgtgtttttgcaggtGCTGACACCCATACAGAGAATGAAGAGCCACTGCTGTCCTTTGCCATCTCCCTCAACTTCTGGGAGTG-CTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCACGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgtgactgttccgaaaggactcaggtggttgta Alignment from CESAR gtGCTGACATCCATGCAGAGAATGAGGAGCCTCTG-TGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtaatctttcaaaaactctattgtgtttttgcaggtGCTGACACCCATACAGAGAATGAAGAGCCACTGCTGTCCTTTGCCATCTCCCTCAACTTCTGGGAGT-GCTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCACGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgtgactgttccgaaaggactcaggtggttgta Alignment from Spaln_aa2Genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtaatctttcaaaaactctattgtgtttttgcagGTGCTGACACCCATACAGAGAATGAAGAGCCACTGCTGTCCTTTGCCATCTCCCTCAACTTCTGGGAGTGCTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCACGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgtgactgttccgaaaggactcaggtggttgta Alignment from Spaln_nt2Genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTG-TGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtaatctttcaaaaactctattgtgtttttgcagGTGCTGACACCCATACAGAGAATGAAGAGCCACTGCTGTCCTTTGCCATCTCCCTCAACTTCTGGGAGTG-CTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCACGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgtgactgttccgaaaggactcaggtggttgta Alignment from Pairagon GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTG-TGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtaatctttcaaaaactctattgtgtttttgcagGTGCTGACACCCATACAGAGAATGAAGAGCCACTGCTGTCCTTTGCCATCTCCCTCAACTTCTGGGAGTG-CTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCACGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgtgactgttccgaaaggactcaggtggttgta Alignment from Exonerate_protein2genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTG-TGCCCGCTGCCCTCACCCTCGACCTCTGGGAGC--GACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtaatctttcaaaaactctattgtgtttttgcagGTGCTGACACCCATACAGAGAATGAAGAGCCACTGCTGTCCTTTGCCATCTCCCTCAACTTCTGGGAGTGC---TCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCACGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgtgactgttccgaaaggactcaggtggttgta Alignment from Exonerate_coding2genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTG-TGCCCGCTGCCCTCACCCTCGACCTCTGGGAGC--GACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAGGTGAAG cagttagagactataagtaatctttcaaaaactctattgtgtttttgcagGTGCTGACACCCATACAGAGAATGAAGAGCCACTGCTGTCCTTTGCCATCTCCCTCAACTTCTGGGAGTGC---TCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCACGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGGTAAGGtacacggagtctgtgactgttccgaaaggactcaggtggttgta Alignment from GeneWise GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtaatctttcaaaaactctattgtgtttttgcagGTGCTGACACCCATACAGAGAATGAAGAGCCACTGCTGTCCTTTGCCATCTCCCTCAACTTCTGGGAGTGCTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCACGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgtgactgttccgaaaggactcaggtggttgta #### Nfkb2_ID9841_19 --> 0 - 1 Original Alignment GTG---AAGACT-CTGCTGCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAg tgatagtgacagatacctcccctttaggtactctgttttgtgaattgtagGTAAAAAAAACACCTACTTCTAAACACTGCTCAGAATTCCACAGAGCCACCCTTGG-CCCACCGACCCCAGTAggtgatactgcgtgccatggcctgcaggggagggattgagggcttttttaa Alignment from CESAR GTG---AAGACT-CTGCTGCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAg tgatagtgacagatacctcccctttaggtactctgttttgtgaattgtagGTAAAAAAAACACCTACTTCTAAACACTGCTCAGAATTCCACAGAGCCACCCTTGG-CCCACCGACCCCAGTAggtgatactgcgtgccatggcctgcaggggagggattgagggcttttttaa Alignment from Spaln_aa2Genome GTG----AAGACTCTGCTGCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG tgatagtgacagatacctcccctttaggtactctgttttgtgaattgtagGTAAAAaAAACACCTACTTCTAAACACTGCTCAGAATTCCACAGAGCCACCCTTGGC-CCACCGACCCCAGTAGgtgatactgcgtgccatggcctgcaggggagggattgagggcttttttaa Alignment from Spaln_nt2Genome GTGAAGACT----CTGCTGCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG tgatagtgacagatacctcccctttaggtactctgttttgtgaattgtagGTAAAAAAAACACCTACTTCTAAACACTGCTCAGAATTCCACAGAGCCACCCTTGG-CCCACCGACCCCAGTAGgtgatactgcgtgccatggcctgcaggggagggattgagggcttttttaa Alignment from Pairagon GTGAAGACTCTG-------------------------------CTGCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG agtgacagatacctcccctttagGT----ACTCTGTTTTGTGAATTGTAGGTAAAAAAAACACCTACTTCTAAACACTGCTCAGAATTCCACAGAGCCACCCTTGG-CCCACCGACCCCAGTAGgtgatactgcgtgccatggcctgcaggggagggattgagggcttttttaa Alignment from Exonerate_protein2genome GTGAAGACTCTGCTGCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCC------CCACC tgatagtgacagatacctcccctttaggtactctgttttgtgaattgtaggtaaAAAAAACACCTACTTCTAAACACTGCTCAGAATTCCACAGAGCCACCCTTGGCCCACCGACCCCAgtaggtgatactgcgtgccatggcctgcaggggagggattgagggcttttttaa Alignment from Exonerate_coding2genome tgatagtgacagatacctcccctttaggtactctgttttgtgaattgtaggtaaaaaaaacacctacttctaaacactgctcagaattccacagagccacccttggcccaccgaccccagtaggtgatactgcgtgccatggcctgcaggggagggattgagggcttttttaa Alignment from GeneWise tgatagtgacagatacctcccctttaggtactctgttttgtgaattgtaggtaaaaaaaacacctacttctaaacactgctcagaattccacagagccacccttggcccaccgaccccagtaggtgatactgcgtgccatggcctgcaggggagggattgagggcttttttaa #### Nfkb2_ID9842_20 --> 2 - 0 Original Alignment ggCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGA-CTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG aggtctaggcttctgcacctaagcactgcccgtttctgttcctgtttcagagCCAGGCCTGTCCCTGGGAGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCTGAGCGTCCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTC-ATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtgaggtaggtggactgctggggcctgaactactcttagtcttcagcact Alignment from CESAR ggCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGA-CTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG aggtctaggcttctgcacctaagcactgcccgtttctgttcctgtttcagagCCAGGCCTGTCCCTGGGAGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCTGAGCGTCCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACT-CATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtgaggtaggtggactgctggggcctgaactactcttagtcttcagcact Alignment from Spaln_aa2Genome GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGA-CTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG aggtctaggcttctgcacctaagcactgcccgtttctgttcctgtttcagAGCCAGGCCTGTCCCTGGGAGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCTGAGCGTcCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCA-TCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtgaggtaggtggactgctggggcctgaactactcttagtcttcagcact Alignment from Spaln_nt2Genome GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGAC-TGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG aggtctaggcttctgcacctaagcactgcccgtttctgttcctgtttcagAGCCAGGCCTGTCCCTGGGAGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCTGAGCGTCCTGGGATTGAGGAGCCTGGTGGACACATACAGGAA-AACTCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtgaggtaggtggactgctggggcctgaactactcttagtcttcagcact Alignment from Pairagon GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCG-ACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG aggtctaggcttctgcacctaagcactgcccgtttctgttcctgtttcagAGCCAGGCCTGTCCCTGGGAGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCTGAGCGTCCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAA-CTCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtgaggtaggtggactgctggggcctgaactactcttagtcttcagcact Alignment from Exonerate_protein2genome GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG aggtctaggcttctgcacctaagcactgcccgtttctgttcctgtttcagAGCCAGGCCTGTCCCTGGGAGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCTGAGCGTCCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtgaggtaggtggactgctggggcctgaactactcttagtcttcagcact Alignment from Exonerate_coding2genome TGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAGGGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG TCTAGGCTTCTGCACCTAAGCACTGCCCGTTTCTGTTCCT---GTTTCAGAGCCAGGCCTGTCCCTGGGAGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCTGAGCGTCCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtgaggtaggtggactgctggggcctgaactactcttagtcttcagcact Alignment from GeneWise GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG aggtctaggcttctgcacctaagcactgcccgtttctgttcctgtttcagAGCCAGGCCTGTCCCTGGGAGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCTGAGCGTCCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtgaggtaggtggactgctggggcctgaactactcttagtcttcagcact #### Noc3l_ID7659_16 --> 2 - 1 Original Alignment gtGATGTTTTAAATATTGAC-CCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAg cattctgcctccctttcatttcactaaactgattctttttgtgtctccaggaGATGATTTGAATATTGACCCCAATGAAATTTTATACCCCACTATTTCAGACAC-ATTTACATTGCATGCAggtatgtcattgtagcttagagcctttatattcagtggtgctagtattaaa Alignment from CESAR gtGATGTTTTAAATATTGAC-CCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAg cattctgcctccctttcatttcactaaactgattctttttgtgtctccaggaGATGATTTGAATATTGACCCCAATGAAATTTTATACCCCACTATTTCAGACA-CATTTACATTGCATGCAggtatgtcattgtagcttagagcctttatattcagtggtgctagtattaaa Alignment from Spaln_aa2Genome GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG cattctgcctccctttcatttcactaaactgattctttttgtgtctccagGAGATGATTTGAATATTGACCCCAATGAAATTTTATACCCCACTATTTCAGACACATTTACATTGCATGCAGgtatgtcattgtagcttagagcctttatattcagtggtgctagtattaaa Alignment from Spaln_nt2Genome GTGATGTTTTAAATATTGACCCGA-TGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG cattctgcctccctttcatttcactaaactgattctttttgtgtctccagGAGATGATTTGAATATTGACCCCAATGAAATTTTATACCCCACTATTTCAGACAC-ATTTACATTGCATGCAGgtatgtcattgtagcttagagcctttatattcagtggtgctagtattaaa Alignment from Pairagon GTGATGTTTTAAATATTGA-CCCGATGAAATTCTAT---------------ACACATCTCTACAAGACACTGTTCACATTACATGCAG cattctgcctccctttcatttcactaaactgattctttttgtgtctccagGAGATGATTTGAATATTGACCCCAATGAAATTTTATACCCCACTATTTCAGACACA----------------TTTACATTGCATGCAGgtatgtcattgtagcttagagcctttatattcagtggtgctagtattaaa Alignment from Exonerate_protein2genome GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG cattctgcctccctttcatttcactaaactgattctttttgtgtctccagGAGATGATTTGAATATTGACCCCAATGAAATTTTATACCCCACTATTTCAGACACATTTACATTGCATGCAGgtatgtcattgtagcttagagcctttatattcagtggtgctagtattaaa Alignment from Exonerate_coding2genome GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG cattctgcctccctttcatttcactaaactgattctttttgtgtctccagGAGATGATTTGAATATTGACCCCAATGAAATTTTATACCCCACTATTTCAGACACATTTACATTGCATGCAGgtatgtcattgtagcttagagcctttatattcagtggtgctagtattaaa Alignment from GeneWise ----------------------------------------------CAAGGTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG CATTCTGCCTCCCTTTCATTTCACTAAACTGATTCTTTTTGTGTCTCCAGGAGATGATTTGAATATTGACCCCAATGAAATTTTATACCCCACTATTTCAGACACATTTACATTGCATGCAGgtatgtcattgtagcttagagcctttatattcagtggtgctagtattaaa #### Npas4_ID775_6 --> 2 - 2 Original Alignment tgGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGG-ATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCag gtagatggcctgatagcacttgagatgtaatgtgttgatttaatccacagttGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTAAGGCTGCAGGCCAAGCATGGAGGGTGGACATGGCATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTT-TGCTGCCAATAATTATCCTAATaggtaggatgggttccaccagacgaatgacagctgctgtatttggttggtaa Alignment from CESAR tgGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGG-ATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCag gtagatggcctgatagcacttgagatgtaatgtgttgatttaatccacagttGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTAAGGCTGCAGGCCAAGCATGGAGGGTGGACATGGCATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGAC-CTTTGCTGCCAATAATTATCCTAATaggtaggatgggttccaccagacgaatgacagctgctgtatttggttggtaa Alignment from Spaln_aa2Genome TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGG-ATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtagatggcctgatagcacttgagatgtaatgtgttgatttaatccacagTTGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTAAGGCTGCAGGCCAAGCATGGAGGGTGGACATGGcATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACC-TTTGCTGCCAATAATTATCCTAATAGgtaggatgggttccaccagacgaatgacagctgctgtatttggttggtaa Alignment from Spaln_nt2Genome TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGG-ATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtagatggcctgatagcacttgagatgtaatgtgttgatttaatccacagTTGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTAAGGCTGCAGGCCAAGCATGGAGGGTGGACATGGCATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACC-TTTGCTGCCAATAATTATCCTAATAGgtaggatgggttccaccagacgaatgacagctgctgtatttggttggtaa Alignment from Pairagon TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGG-ATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtagatggcctgatagcacttgagatgtaatgtgttgatttaatccacagTTGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTAAGGCTGCAGGCCAAGCATGGAGGGTGGACATGGCATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACC-TTTGCTGCCAATAATTATCCTAATAGgtaggatgggttccaccagacgaatgacagctgctgtatttggttggtaa Alignment from Exonerate_protein2genome TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtagatggcctgatagcacttgagatgtaatgtgttgatttaatccacagTTGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTAAGGCTGCAGGCCAAGCATGGAGGGTGGACATGGCATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTGCTGCCAATAATTATCCTAATAGgtaggatgggttccaccagacgaatgacagctgctgtatttggttggtaa Alignment from Exonerate_coding2genome TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtagatggcctgatagcacttgagatgtaatgtgttgatttaatccacagTTGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTAAGGCTGCAGGCCAAGCATGGAGGGTGGACATGGCATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTGCTGCCAATAATTATCCTAATAGgtaggatgggttccaccagacgaatgacagctgctgtatttggttggtaa Alignment from GeneWise TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtagatggcctgatagcacttgagatgtaatgtgttgatttaatccacagTTGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTAAGGCTGCAGGCCAAGCATGGAGGGTGGACATGGCATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTGCTGCCAATAATTATCCTAATAGgtaggatgggttccaccagacgaatgacagctgctgtatttggttggtaa #### Npm3_ID9576_4 --> 0 - 1 Original Alignment CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTC-ACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCg tgatcgttgatacccattaaaaagtactttacctctgctgtatctctcagCTTGGTGTTGATGATCTCCAACTTCAACCACCAGTTCTCCTTTCGATTGAGGTCAGGTTCAGGTCCAGTTC-AATC---------CATCACATTggtaagtgggcagaattgtgtggactattatgcagtgagttgtcagcaaca Alignment from CESAR CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTC-ACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCg tgatcgttgatacccattaaaaagtactttacctctgctgtatctctcagCTTGGTGTTGATGATCTCCAACTTCAACCACCAGTTCTCCTTTCGATTGAGGTCAGGTTCAGGTCCAGTTC-AATC---------CATCACATTggtaagtgggcagaattgtgtggactattatgcagtgagttgtcagcaaca Alignment from Spaln_aa2Genome CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTC-ACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG tgatcgttgatacccattaaaaagtactttacctctgctgtatctctcagCTTGGTGTTGATGATCTCCAACTTCAACCACCAGTTcTCCTTTCGATTGAGGTCAGGTTCAGGTCCAGTTCAATCCATCACA------TTGGTAAgtgggcagaattgtgtggactattatgcagtgagttgtcagcaaca Alignment from Spaln_nt2Genome CTCAGTGTGGATGATTTCCAACTCCAACCACCTGT-CACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG tgatcgttgatacccattaaaaagtactttacctctgctgtatctctcagCTTGGTGTTGATGATCTCCAACTTCAACCACCAGTTCTCCTTTCGATTGAGGTCAGGTTCAGGTCCAGTTC-AATC---------CATCACATTGgtaagtgggcagaattgtgtggactattatgcagtgagttgtcagcaaca Alignment from Pairagon CTCAGTGTGGATGATTTCCAACTCCAACCACCTG-TCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG tgatcgttgatacccattaaaaagtactttacctctgctgtatctctcagCTTGGTGTTGATGATCTCCAACTTCAACCACCAGTTCTCCTTTCGATTGAGGTCAGGTTCAGGTCCAGTTC-AATC---------CATCACATTGgtaagtgggcagaattgtgtggactattatgcagtgagttgtcagcaaca Alignment from Exonerate_protein2genome CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTC-ACCTTCCGCCTGAAGTCCGGTTCTGGCCCAG tgatcgttgatacccattaaaaagtactttacctctgctgtatctctcagCTTGGTGTTGATGATCTCCAACTTCAACCACCAGTTCTCCTTTCGATTGAGGTCAGGTTCAGGTCCAGttcaatccatcacattggtaagtgggcagaattgtgtggactattatgcagtgagttgtcagcaaca Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG tgatcgttgatacccattaaaaagtactttacctctgctgtatctctcagCTTGGTGTTGATGATCTCCAACTTCAACCACCAGTTCTCCTTTCGATTGAGGTC---------AGGTTCAGGTCCAGTTCAATCCATCACATTGgtaagtgggcagaattgtgtggactattatgcagtgagttgtcagcaaca #### Npm3_ID9578_2 --> 2 - 0 Original Alignment gtTGTGAGCTCTCCGGCCAC-ACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggtttaggatgtacctaggaggtagtgtgtctgctctccctgcaggtTGTGAGCTCTCTGATCACCACACGTTCATTCACCTTCAATGTTGCGGAGGAAGATG-CACGGAGCAGGTGCTTGCATTGAACATGgtaagcggtacagaaaaattcagttcagcacacccctggtcttatctttc Alignment from CESAR gtTGTGAGCTCTCCGGCCAC-ACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggtttaggatgtacctaggaggtagtgtgtctgctctccctgcaggtTGTGAGCTCTCTGATCACCACACGTTCATTCACCTTCAATGTTGCGGAGGAAGAT-GCACGGAGCAGGTGCTTGCATTGAACATGgtaagcggtacagaaaaattcagttcagcacacccctggtcttatctttc Alignment from Spaln_aa2Genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggtttaggatgtacctaggaggtagtgtgtctgctctccctgcagGTTGTGAGCTCTCTGATCACCACACGTTCATTCACCTTCAATGTTGCGGAGGAAGATGCACGGAGCAGGTGCTTGCATTGAACATGgtaagcggtacagaaaaattcagttcagcacacccctggtcttatctttc Alignment from Spaln_nt2Genome GTTGTGAGCTCTCCGGCCAC-ACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggtttaggatgtacctaggaggtagtgtgtctgctctccctgcagGTTGTGAGCTCTCTGATCACCACACGTTCATTCACCTTCAATGTTGCGGAGGAAGATG-CACGGAGCAGGTGCTTGCATTGAACATGgtaagcggtacagaaaaattcagttcagcacacccctggtcttatctttc Alignment from Pairagon GTTGTGAGCTCTCCGGCCA-CACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggtttaggatgtacctaggaggtagtgtgtctgctctccctgcagGTTGTGAGCTCTCTGATCACCACACGTTCATTCACCTTCAATGTTGCGGAGGAAGATG-CACGGAGCAGGTGCTTGCATTGAACATGgtaagcggtacagaaaaattcagttcagcacacccctggtcttatctttc Alignment from Exonerate_protein2genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggtttaggatgtacctaggaggtagtgtgtctgctctccctgcagGTTGTGAGCTCTCTGATCACCACACGTTCATTCACCTTCAATGTTGCGGAGGAAGATGCACGGAGCAGGTGCTTGCATTGAACATGgtaagcggtacagaaaaattcagttcagcacacccctggtcttatctttc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggtttaggatgtacctaggaggtagtgtgtctgctctccctgcagGTTGTGAGCTCTCTGATCACCACACGTTCATTCACCTTCAATGTTGCGGAGGAAGATGCACGGAGCAGGTGCTTGCATTGAACATGgtaagcggtacagaaaaattcagttcagcacacccctggtcttatctttc #### Nrxn2_ID1761_12 --> 2 - 1 Original Alignment gtAAAGGCCCCGAGACACTGTTTGCGGGGCACAAGCTGAATGACAATGAA-TGGCACACGGTGAGGGTGGTCCGGCGTGGCAAGAGCCTGCAGCTGTCCGTGGACAACGTGACTGTGGAGg tgcatcagagacttcctgctgatttctctattttctcatttctttgtcaggtAAAGGTCCTGAAACACTGTTTGCAGGGCACAAACTAAATGACAATGAGCTGGCACATGGTGAGGGTGGTCCAGCATGGCAAGAGCCTCC-GCTATTTGTTGACAATGTGACTGTGGAGggtgagcggctgagactgttcctgcctgggagtgctccaaagtctcattaa Alignment from CESAR gtAAAGGCCCCGAGACACTGTTTGCGGGGCACAAGCTGAATGACAATGAA-TGGCACACGGTGAGGGTGGTCCGGCGTGGCAAGAGCCTGCAGCTGTCCGTGGACAACGTGACTGTGGAGg tgcatcagagacttcctgctgatttctctattttctcatttctttgtcaggtAAAGGTCCTGAAACACTGTTTGCAGGGCACAAACTAAATGACAATGAGCTGGCACATGGTGAGGGTGGTCCAGCATGGCAAGAGCCTC-CGCTATTTGTTGACAATGTGACTGTGGAGggtgagcggctgagactgttcctgcctgggagtgctccaaagtctcattaa Alignment from Spaln_aa2Genome GTAAAGGCCCCGAGACACTGTTTGCGGGGCACAAGCTGAATGACAATGAATGGCACACGGTGAGGGTGGTCCGGCGTGGCAAGAGCCTGCAGCTGTCCGTGGACAACGTGACTGTGGAGG tgcatcagagacttcctgctgatttctctattttctcatttctttgtcagGTAAAGGTCCTGAAACACTGTTTGCAGGGCACAAACTAAATGACAATGAGCTGGCACATGGTGAGGGTGGTCCAGCATGGCAAGAGCCTCCGCTATTTGTTGACAATGTGACTGTGGAGGgtgagcggctgagactgttcctgcctgggagtgctccaaagtctcattaa Alignment from Spaln_nt2Genome GTAAAGGCCCCGAGACACTGTTTGCGGGGCACAAGCTGAATGACAATGAA-TGGCACACGGTGAGGGTGGTCCGGCGTGGCAAGAGCCTGCAGCTGTCCGTGGACAACGTGACTGTGGAGG tgcatcagagacttcctgctgatttctctattttctcatttctttgtcagGTAAAGGTCCTGAAACACTGTTTGCAGGGCACAAACTAAATGACAATGAGCTGGCACATGGTGAGGGTGGTCCAGCATGGCAAGAGCCT-CCGCTATTTGTTGACAATGTGACTGTGGAGGgtgagcggctgagactgttcctgcctgggagtgctccaaagtctcattaa Alignment from Pairagon GTAAAGGCCCCGAGACACTGTTTGCGGGGCACAAGCTGAATGACAATGAA-TGGCACACGGTGAGGGTGGTCCGGCGTGGCAAGAGCCTGCAGCTGTCCGTGGACAACGTGACTGTGGAGG tgcatcagagacttcctgctgatttctctattttctcatttctttgtcagGTAAAGGTCCTGAAACACTGTTTGCAGGGCACAAACTAAATGACAATGAGCTGGCACATGGTGAGGGTGGTCCAGCATGGCAAGAGCCT-CCGCTATTTGTTGACAATGTGACTGTGGAGGgtgagcggctgagactgttcctgcctgggagtgctccaaagtctcattaa Alignment from Exonerate_protein2genome GTAAAGGCCCCGAGACACTGTTTGCGGGGCACAAGCTGAATGACAATGAA-TGGCACACGGTGAGGGTGGTCCGGCGTGGCAAGAGCCTG--CAGCTGTCCGTGGACAACGTGACTGTGGAGG tgcatcagagacttcctgctgatttctctattttctcatttctttgtcagGTAAAGGTCCTGAAACACTGTTTGCAGGGCACAAACTAAATGACAATGAGCTGGCACATGGTGAGGGTGGTCCAGCATGGCAAGAGCCTCCG---CTATTTGTTGACAATGTGACTGTGGAGGgtgagcggctgagactgttcctgcctgggagtgctccaaagtctcattaa Alignment from Exonerate_coding2genome GTAAAGGCCCCGAGACACTGTTTGCGGGGCACAAGCTGAATGACAATGAATG---GCACACGGTGAGGGTGGTCCGGCGTGGCAAGAGCCTGCAGCTGTCCGTGGACAACGTGACTGTGGAGG tgcatcagagacttcctgctgatttctctattttctcatttctttgtcagGTAAAGGTCCTGAAACACTGTTTGCAGGGCACAAACTAAATGACAATGAG--CTGGCACATGGTGAGGGTGGTCCAGCATGGCAAGAGCCT-CCGCTATTTGTTGACAATGTGACTGTGGAGGgtgagcggctgagactgttcctgcctgggagtgctccaaagtctcattaa Alignment from GeneWise GTAAAGGCCCCGAGACACTGTTTGCGGGGCACAAGCTGAATGACAATGAATGGCACACGGTGAGGGTGGTCCGGCGTGGCAAGAGCCTGCAGCTGTCCGTGGACAACGTGACTGTGGAGG tgcatcagagacttcctgctgatttctctattttctcatttctttgtcagGTAAAGGTCCTGAAACACTGTTTGCAGGGCACAAACTAAATGACAATGAGCTGGCACATGGTGAGGGTGGTCCAGCATGGCAAGAGCCTCCGCTATTTGTTGACAATGTGACTGTGGAGGgtgagcggctgagactgttcctgcctgggagtgctccaaagtctcattaa #### Nt5c2_ID10040_13 --> 0 - 1 Original Alignment AAAACTGGAAAACTG-AAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGg tgagtaccagactaatgagaaaggtgagttctttttctccttccctgtagAAAACTGGAAAACTGCAAAAATGGCTCCTACACAGGCCCTTTACAACAT---G-TGTCTATTCTGGGggtagctatgccattggccttccaggggtcttttcatggaaggtactctct Alignment from CESAR AAAACTGGAAAACTG-AAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGg tgagtaccagactaatgagaaaggtgagttctttttctccttccctgtagAAAACTGGAAAACTGCAAAAATGGCTCCTACACAGGCCCTTTACAACAT---G-TGTCTATTCTGGGggtagctatgccattggccttccaggggtcttttcatggaaggtactctct Alignment from Spaln_aa2Genome AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGGGTT tgagtaccagactaatgagaaaggtgagttctttttctccttccctgtagAAAACTGGAAAACTGCAAAAATGGCTCCTACACAGGCCCTTTACAACATGT---GTCTATTCTGGGGGTAgctatgccattggccttccaggggtcttttcatggaaggtactctct Alignment from Spaln_nt2Genome AAAACTGGAAAACTG-AAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgagtaccagactaatgagaaaggtgagttctttttctccttccctgtagAAAACTGGAAAACTGCAAAAATGGCTCCTACACAGGCCCTTTACAACATG----TGTCTATTCTGGGGgtagctatgccattggccttccaggggtcttttcatggaaggtactctct Alignment from Pairagon AAAACTGGAAAACTG-AAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgagtaccagactaatgagaaaggtgagttctttttctccttccctgtagAAAACTGGAAAACTGCAAAAATGGCTCCTACACAGGCCCTTTACAACATG----TGTCTATTCTGGGGgtagctatgccattggccttccaggggtcttttcatggaaggtactctct Alignment from Exonerate_protein2genome AAAACTGGAAAACTG-AAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgagtaccagactaatgagaaaggtgagttctttttctccttccctgtagAAAACTGGAAAACTGCAAAAATGGCTCCTACACAGGCCCTTTACAACATGTGTCTATTCTGGGGGTAGctatgccattggccttccaggggtcttttcatggaaggtactctct Alignment from Exonerate_coding2genome tgagtaccagactaatgagaaaggtgagttctttttctccttccctgtagaaaactggaaaactgcaaaaatggctcctacacaggccctttacaacatgtgtctattctgggggtagctatgccattggccttccaggggtcttttcatggaaggtactctct Alignment from GeneWise AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgagtaccagactaatgagaaaggtgagttctttttctccttccctgtagAAAACTGGAAAACTGCAAAAATGGCTCCTACACAGGCCCTTTACAACA---TGTGTCTATTCTGGGGgtagctatgccattggccttccaggggtcttttcatggaaggtactctct #### Nt5c2_ID10041_12 --> 0 - 0 Original Alignment CCCGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGAC-CTGATTTTGGTGGATGCTCGGAAACCACTCTTTTTTGGAGAAGGCACAGTGCTGCGTCAGGTGGACACT agagccacctctggcttccatgagaagactctggcttctctttgtttcagCCTGGGAGCTCACACCGGCCATGGCAGTCCTACTTTGATCCTGATTCTG---GATGCTCGGAAACCACTCTTTT-TGGTGAAGGAACCGTGCTGCGTCAGATTGACACTgtatgagtgaaataaattggattaaatagatatgaagcctgctctactct Alignment from CESAR CCCGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGAC-CTGATTTTGGTGGATGCTCGGAAACCACTCTTTTTTGGAGAAGGCACAGTGCTGCGTCAGGTGGACACT agagccacctctggcttccatgagaagactctggcttctctttgtttcagCCTGGGAGCTCACACCGGCCATGGCAGTCCTACTTTGATCCTGATTCTG---GATGCTCGGAAACCACTCT-TTTTGGTGAAGGAACCGTGCTGCGTCAGATTGACACTgtatgagtgaaataaattggattaaatagatatgaagcctgctctactct Alignment from Spaln_aa2Genome CCCGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGAC-CTGATTTTGGTGGATGCTCGGAAACCACTCTTTTTTGGAGAAGGCACAGTGCTGCGTCAGGTGGACACT agagccacctctggcttccatgagaagactctggcttctctttgtttcagCCTGGGAGCTCACACCGGCCATGGCAGTCCTACTTTGATcCTGATTCTG---GATGCTCGGAAACCACTCTT-TTTGGTGAAGGAACCGTGCTGCGTCAGATTGACACTgtatgagtgaaataaattggattaaatagatatgaagcctgctctactct Alignment from Spaln_nt2Genome CCCGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGA-CCTGATTTTGGTGGATGCTCGGAAACCACTCTTTTTTGGAGAAGGCACAGTGCTGCGTCAGGTGGACACT agagccacctctggcttccatgagaagactctggcttctctttgtttcagCCTGGGAGCTCACACCGGCCATGGCAGTCCTACTTTGATCCTGATT---CTGGATGCTCGGAAACCACTC-TTTTTGGTGAAGGAACCGTGCTGCGTCAGATTGACACTgtatgagtgaaataaattggattaaatagatatgaagcctgctctactct Alignment from Pairagon CCCGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGA-CCTGATTTTGGTGGATGCTCGGAAACCACTCTTTTTTGGAGAAGGCACAGTGCTGCGTCAGGTGGACACT agagccacctctggcttccatgagaagactctggcttctctttgtttcagCCTGGGAGCTCACACCGGCCATGGCAGTCCTACTTTGATCCTGATTC---TGGATGCTCGGAAACCACTC-TTTTTGGTGAAGGAACCGTGCTGCGTCAGATTGACACTgtatgagtgaaataaattggattaaatagatatgaagcctgctctactct Alignment from Exonerate_protein2genome CCCGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGACCTGATTTTGGTGGATGCTCGGAAACCACTCTTTTTTGGAGAAGGCACAGTGCTGCGTCAGGTGGACACT agagccacctctggcttccatgagaagactctggcttctctttgtttcagCCTGGGAGCTCACACCGGCCATGGCAGTCCTACTTTGATCCTGAT---TCTGGATGCTCGGAAACCACTCTTTTTGGTGAAGGAACCGTGCTGCGTCAGATTGACACTgtatgagtgaaataaattggattaaatagatatgaagcctgctctactct Alignment from Exonerate_coding2genome CATGACTTACCTGTTTGATTTCCCGCATGGCCCCAAGCCCGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGACCTGATTTTGGTGGATGCTCGGAAACCA--CTCTTTTTTGGAGAAGGCACAGTGCTGCGTCAGGTGGACACT agagccacctctgGCTTCCATGAGAAGACTCTGGCTTCTCTTTGTTTCAGCCTGGGAGCTCACACCGGCCATGGCAGTCCTACTTTG--ATCCTGATTCTGGATGCTCGGAAACCACTCTT---TTTGGTGAAGGAACCGTGCTGCGTCAGATTGACACTgtatgagtgaaataaattggattaaatagatatgaagcctgctctactct Alignment from GeneWise CCCGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGACCTGATTTTGGTGGATGCTCGGAAACCACTCTTTTTTGGAGAAGGCACAGTGCTGCGTCAGGTGGACACT agagccacctctggcttccatgagaagactctggcttctctttgtttcagCCTGGGAGCTCACACCGGCCATGGCAGTCCTACTTTGATCCTGATTCT---GGATGCTCGGAAACCACTCTTTTTGGTGAAGGAACCGTGCTGCGTCAGATTGACACTgtatgagtgaaataaattggattaaatagatatgaagcctgctctactct #### Nudt22_ID1971_4 --> 1 - 0 Original Alignment gTGCAGCTTGACTTCAGAG-GAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gattatgagaacgcaacactatcctagcggtcaaggtgcgcggtctgcaggTGCAGCTTGACTTCAGAGCGAGGTCAGGAGCTATTACCTGAGTGGGGGAC-TGAGGCCCACGAATCTACAGGAATCATCTTTGTGGAAACGCAGgtgagcgagcttagctctagttggcacctggattatttaaggctattaac Alignment from CESAR gTGCAGCTTGACTTCAGAG-GAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gattatgagaacgcaacactatcctagcggtcaaggtgcgcggtctgcaggTGCAGCTTGACTTCAGAGCGAGGTCAGGAGCTATTACCTGAGTGGGGGA-CTGAGGCCCACGAATCTACAGGAATCATCTTTGTGGAAACGCAGgtgagcgagcttagctctagttggcacctggattatttaaggctattaac Alignment from Spaln_aa2Genome GTGCAGCTTGACTTCAGAG-GAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gattatgagaacgcaacactatcctagcggtcaaggtgcgcggtctgcagGTGCAGCTTGACTTCAGAGcGAGGTCAGGAGCTATTACCTGAGTGGGGGACT-GAGGCCCACGAATCTACAGGAATCATCTTTGTGGAAACGCAGgtgagcgagcttagctctagttggcacctggattatttaaggctattaac Alignment from Spaln_nt2Genome GTGCAGCTTGACTTCAGAG-GAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gattatgagaacgcaacactatcctagcggtcaaggtgcgcggtctgcagGTGCAGCTTGACTTCAGAGCGAGGTCAGGAGCTATTACCTGAGT-GGGGGACTGAGGCCCACGAATCTACAGGAATCATCTTTGTGGAAACGCAGgtgagcgagcttagctctagttggcacctggattatttaaggctattaac Alignment from Pairagon GTGCAGCTTGACTTCAGAG-GAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gattatgagaacgcaacactatcctagcggtcaaggtgcgcggtctgcagGTGCAGCTTGACTTCAGAGCGAGGTCAGGAGCTATTACCTGAGTGGGGGA-CTGAGGCCCACGAATCTACAGGAATCATCTTTGTGGAAACGCAGgtgagcgagcttagctctagttggcacctggattatttaaggctattaac Alignment from Exonerate_protein2genome GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gattatgagaacgcaacactatcctagcggtcaaggtgcgcggtctgcagGTGCAGCTTGACTTCAGAGCGAGGTCAGGAGCTATTACCTGAGTGGGGGACTGAGGCCCACGAATCTACAGGAATCATCTTTGTGGAAACGCAGgtgagcgagcttagctctagttggcacctggattatttaaggctattaac Alignment from Exonerate_coding2genome GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gattatgagaacgcaacactatcctagcggtcaaggtgcgcggtctgcagGTGCAGCTTGACTTCAGAGCGAGGTCAGGAGCTATTACCTGAGTGGGGGACTGAGGCCCACGAATCTACAGGAATCATCTTTGTGGAAACGCAGgtgagcgagcttagctctagttggcacctggattatttaaggctattaac Alignment from GeneWise GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gattatgagaacgcaacactatcctagcggtcaaggtgcgcggtctgcagGTGCAGCTTGACTTCAGAGCGAGGTCAGGAGCTATTACCTGAGTGGGGGACTGAGGCCCACGAATCTACAGGAATCATCTTTGTGGAAACGCAGgtgagcgagcttagctctagttggcacctggattatttaaggctattaac #### Nudt8_ID267_2 --> 1 - 0 Original Alignment tTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTA---ATACATACGGCCCTTCGGGAGACTCAGGAG-GAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG ttgattggtttaggccatttaaacattaatgctgtcttgctgtgctgcagtTTTCCAGGTGGTAAGTGTGACCCTGATGACCGAGATGTTGTAATACACACTGCACTGCAGGAGACACAAGAGCGAGTTAGACTTG---GTACCCAAGGAGCAAGTCTGGG-GGTGCTGCAACCTGTGCATGATCAGgtgagtaagcttttcaatagaaaaactctatcattcagatgcctaacatt Alignment from CESAR tTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAGACTCAGGAG-GAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG ttgattggtttaggccatttaaacattaatgctgtcttgctgtgctgcagtTTTCCAGGTGGTAAGTGTGACCCTGATGACCGAGATGTTGTAATACACACTGCACTGCAGGAGACACAAGAGCGAGTTAGACTTG---GTACCCAAGGAGCAAGTCTGGG-GGTGCTGCAACCTGTGCATGATCAGgtgagtaagcttttcaatagaaaaactctatcattcagatgcctaacatt Alignment from Spaln_aa2Genome TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG ttgattggtttaggccatttaaacattaatgctgtcttgctgtgctgcagTTTTCCAGGTGGTAAGTGTGACCCTGATGACCGAGATGTTGTAATACACACTGCACTGCAGGAGACACAAGAGCGAGTTAGACTTGGTACCCAAGGAGCAAGTCTG---GGGGTGCTGCAACCTGTGCATGATCAGgtgagtaagcttttcaatagaaaaactctatcattcagatgcctaacatt Alignment from Spaln_nt2Genome TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGT---AATACATACGGCCCTTCGGGAGACTCAGGAG-GAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG ttgattggtttaggccatttaaacattaatgctgtcttgctgtgctgcagTTTTCCAGGTGGTAAGTGTGACCCTGATGACCGAGATGTTGTAATACACACTGCACTGCAGGAGACACAAGAGCGAGTTAGACTT---GGTACCCAAGGAGCAAGTCTGGGG-GTGCTGCAACCTGTGCATGATCAGgtgagtaagcttttcaatagaaaaactctatcattcagatgcctaacatt Alignment from Pairagon No alignment No alignment Alignment from Exonerate_protein2genome TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG ttgattggtttaggccatttaaacattaatgctgtcttgctgtgctgcagTTTTCCAGGTGGTAAGTGTGACCCTGATGACCGAGATGTTGTAATACACACTGCACTGCAGGAGACACAAGAGCGAGTTAGACTTGGTACCCAAGGAGCAAGTCTG---GGGGTGCTGCAACCTGTGCATGATCAGgtgagtaagcttttcaatagaaaaactctatcattcagatgcctaacatt Alignment from Exonerate_coding2genome ttgattggtttaggccatttaaacattaatgctgtcttgctgtgctgcagttttccaggtggtaagtgtgaccctgatgaccgagatgttgtaatacacactgcactgcaggagacacaagagcgagttagacttggtacccaaggagcaagtctgggggtgctgcaacctgtgcatgatcaggtgagtaagcttttcaatagaaaaactctatcattcagatgcctaacatt Alignment from GeneWise TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTA---ATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG ttgattggtttaggccatttaaacattaatgctgtcttgctgtgctgcagTTTTCCAGGTGGTAAGTGTGACCCTGATGACCGAGATGTTGTAATACACACTGCACTGCAGGAGACACAAGAGCGAGTTAGACTTGGTACCCAAGGAGCAAGTCTG---GGGGTGCTGCAACCTGTGCATGATCAGgtgagtaagcttttcaatagaaaaactctatcattcagatgcctaacatt #### Nxf1_ID2345_5 --> 0 - 0 Original Alignment TTTCACTATGAAAATACA-CGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATC---CAGGATCGAGAAAACAGAAGG ttgagtagcttcgttcagtgaggagtatgtgttctttttccttcctctagTTTCACCATGAAAATACACCGCAATCATTTCTTTGTAGAGGATGCAACTACTG-TTCCACATTAAAAGGTGTGAACCATCAGATCATCCAGGATCGAGAGAACAGACGGgtagacgcagccaaaattaaagaatggactggtcgtatcaacttttctac Alignment from CESAR TTTCACTATGAAAATACA-CGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGAGAAAACAGAAGG ttgagtagcttcgttcagtgaggagtatgtgttctttttccttcctctagTTTCACCATGAAAATACACCGCAATCATTTCTTTGTAGAGGATGCAACTACTG-TTCCACATTAAAAGGTGTGAACCATCAGATCATCCAGGATCGAGAGAACAGACGGgtagacgcagccaaaattaaagaatggactggtcgtatcaacttttctac Alignment from Spaln_aa2Genome TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGAGAAAACAGAAGG ttgagtagcttcgttcagtgaggagtatgtgttctttttccttcctctagTTTCACCATGAAAATACACCGCAATCATTTCTTTGTAGAGGATGCAACTACTGTTCCACATTAAAAGGTGTGAACCATCAGATCATCCAGGATCGAGAGAACAGACGGgtagacgcagccaaaattaaagaatggactggtcgtatcaacttttctac Alignment from Spaln_nt2Genome TTTCACTATGAAAATACACGGGCC-CATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATC---CAGGATCGAGAAAACAGAAGG ttgagtagcttcgttcagtgaggagtatgtgttctttttccttcctctagTTTCACCATGAAAATACACCGCAATCATTTCTTTGTAGAGGATGCAACTACTG-TTCCACATTAAAAGGTGTGAACCATCAGATCATCCAGGATCGAGAGAACAGACGGgtagacgcagccaaaattaaagaatggactggtcgtatcaacttttctac Alignment from Pairagon TTTCACTATGAAAATACACGGGCC-----CATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGAGAAAACAGAAGG ttgagtagcttcgttcagtgaggagtatgtgttctttttccttcctctagTTTCACCATGAAAATACA----CCGCAATCATTTCTTTGTAGAGGATGCAACTACTG-TTCCACATTAAAAGGTGTGAACCATCAGATCATCCAGGATCGAGAGAACAGACGGgtagacgcagccaaaattaaagaatggactggtcgtatcaacttttctac Alignment from Exonerate_protein2genome TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGAGAAAACAGAAGG ttgagtagcttcgttcagtgaggagtatgtgttctttttccttcctctagTTTCACCATGAAAATACACCGCAATCATTTCTTTGTAGAGGATGCAACTACTGTTCCACATTAAAAGGTGTGAACCATCAGATCATCCAGGATCGAGAGAACAGACGGgtagacgcagccaaaattaaagaatggactggtcgtatcaacttttctac Alignment from Exonerate_coding2genome TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGAGAAAACAGAAGG ttgagtagcttcgttcagtgaggagtatgtgttctttttccttcctctagTTTCACCATGAAAATACACCGCAATCATTTCTTTGTAGAGGATGCAACTACTGTTCCACATTAAAAGGTGTGAACCATCAGATCATCCAGGATCGAGAGAACAGACGGgtagacgcagccaaaattaaagaatggactggtcgtatcaacttttctac Alignment from GeneWise TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATC---CAGGATCGAGAAAACAGAAGG ttgagtagcttcgttcagtgaggagtatgtgttctttttccttcctctagTTTCACCATGAAAATACACCGCAATCATTTCTTTGTAGAGGATGCAACTACTGTTCCACATTAAAAGGTGTGAACCATCAGATCATCCAGGATCGAGAGAACAGACGGgtagacgcagccaaaattaaagaatggactggtcgtatcaacttttctac #### Nxf1_ID2346_6 --> 0 - 0 Original Alignment ATATCTATCATCATCAATGCTTCTGCT-CCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG aaatgtaaaaatgcagcaattgtcctgttagctgtttccttctctcctagATATCTATCATAATCAATACTTCTGCCCCCGGCCTACACTGTGCAGAACAAAGTAGAGG-TGAACAGATAGAGCAGCTCAAAgtgaggttgcataagtctacctgaccaccctgtaatctctagggagagtt Alignment from CESAR ATATCTATCATCATCAATGCTTCTGCTCCA-CCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG aaatgtaaaaatgcagcaattgtcctgttagctgtttccttctctcctagATATCTATCATAATCAATACTTCTGCCCCCGGCCTACACTGTGCAGAACAAAGTAGAG-GTGAACAGATAGAGCAGCTCAAAgtgaggttgcataagtctacctgaccaccctgtaatctctagggagagtt Alignment from Spaln_aa2Genome ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG aaatgtaaaaatgcagcaattgtcctgttagctgtttccttctctcctagATATCTATCATAATCAATACTTCTGCCCCCGGCCTACACTGTGCAGAACAAAGTAGAGGTGAACAGATAGAGCAGCTCAAAgtgaggttgcataagtctacctgaccaccctgtaatctctagggagagtt Alignment from Spaln_nt2Genome ATATCTATCATCATCAATGCTTCTGCTCCAC-CCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG aaatgtaaaaatgcagcaattgtcctgttagctgtttccttctctcctagATATCTATCATAATCAATACTTCTGCCCCCGGCCTACACTGTGCAGAACAAAGTAGAG-GTGAACAGATAGAGCAGCTCAAAgtgaggttgcataagtctacctgaccaccctgtaatctctagggagagtt Alignment from Pairagon ATATCTATCATCATCAATGCTTCTG-CTCCACCCTACACTGTACAGAATGAACTGAAGCCC-----------GAACAAATAGAGCAGCTCAAGCTGA---------------------------------------------- aaatgtaaaaatgcagcaattgtcctgttagctgtttccttctctcctagATATCTATCATAATCAATACTTCTGCCCCCGGCCTACACTGTGCAGAA------------CAAAGTAGAGGTGAACAGATAGAGCAGCTCAAAGTGAGGTTGCATAAGTCTACCTGACCACCCTGTAATCTCTAGGGAGAGTT Alignment from Exonerate_protein2genome ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG aaatgtaaaaatgcagcaattgtcctgttagctgtttccttctctcctagATATCTATCATAATCAATACTTCTGCCCCCGGCCTACACTGTGCAGAACAAAGTAGAGGTGAACAGATAGAGCAGCTCAAAgtgaggttgcataagtctacctgaccaccctgtaatctctagggagagtt Alignment from Exonerate_coding2genome ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG aaatgtaaaaatgcagcaattgtcctgttagctgtttccttctctcctagATATCTATCATAATCAATACTTCTGCCCCCGGCCTACACTGTGCAGAACAAAGTAGAGGTGAACAGATAGAGCAGCTCAAAgtgaggttgcataagtctacctgaccaccctgtaatctctagggagagtt Alignment from GeneWise ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG aaatgtaaaaatgcagcaattgtcctgttagctgtttccttctctcctagATATCTATCATAATCAATACTTCTGCCCCCGGCCTACACTGTGCAGAACAAAGTAGAGGTGAACAGATAGAGCAGCTCAAAgtgaggttgcataagtctacctgaccaccctgtaatctctagggagagtt #### Nxf1_ID2348_8 --> 2 - 0 Original Alignment atTTGGTGGCCCAGAACATCGATGTTGTT-CTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG tgggcccctattttgaattagttgtctgactcaggccacttgtcttgcagatTTGGTAGCTCAGAACATTGTCGTCATTCCTAAACCGGAGGAGTTGCATGGCAGCAACGCTTC-CACCATCAAGGATAACATTCCTGAGgtaagatttattctctctgtgataatttaatcgcgcttacttaattagat Alignment from CESAR atTTGGTGGCCCAGAACATCGATGTTGTT-CTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG tgggcccctattttgaattagttgtctgactcaggccacttgtcttgcagatTTGGTAGCTCAGAACATTGTCGTCATTCCTAAACCGGAGGAGTTGCATGGCAGCAACGCTT-CCACCATCAAGGATAACATTCCTGAGgtaagatttattctctctgtgataatttaatcgcgcttacttaattagat Alignment from Spaln_aa2Genome ATTTGGTGGCCCAGAACATCGATGTTGTT-CTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG tgggcccctattttgaattagttgtctgactcaggccacttgtcttgcagATTTGGTAGCTCAGAACATTGTCGTCATTcCTAAACCGGAGGAGTTGCATGGCAGCAACGCTTCC-ACCATCAAGGATAACATTCCTGAGgtaagatttattctctctgtgataatttaatcgcgcttacttaattagat Alignment from Spaln_nt2Genome ATTTGGTGGCCCAGAACATCGATGTTGTTC-TAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG CT tgggcccctattttgaattagttgtctgactcaggccacttgtcttgcagATTTGGTAGCTCAGAACATTGTCGTCATTCCTAAACCGGAGGAGTTGCATGGCAGCAACGCTTC-CACCATCAAGGATAACATTCCTGAGgtaagatttattctctctgtgataatttaatcgcgcttacttaattagAT Alignment from Pairagon ATTTGGTGGCCCAGAACATCGATGTTGTT-CTAAACCGCAGAAGCTGTATGGCAGCCACCCTGC---------GGATCATTGAAGAGAACATTCCTGAG tgggcccctattttgaattagttgtctgactcaggccacttgtcttgcagATTTGGTAGCTCAGAACATTGTCGTCATTCCTAAACCGGAGGAGTTGCATGGCAGCAACGCTTCCACCATCAAGGAT----------AACATTCCTGAGgtaagatttattctctctgtgataatttaatcgcgcttacttaattagat Alignment from Exonerate_protein2genome ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAGCTA tgggcccctattttgaattagttgtctgactcaggccacttgtcttgcagATTTGGTAGCTCAGAACATTGTCGTCATTCCTAAACCGGAGGAGTTGCATGGCAGCAACGCTTCCACCATCAAGGATAACATTCCTGAG---gtaagatttattctctctgtgataatttaatcgcgcttacttaatta Alignment from Exonerate_coding2genome ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAGCTA tgggcccctattttgaattagttgtctgactcaggccacttgtcttgcagATTTGGTAGCTCAGAACATTGTCGTCATTCCTAAACCGGAGGAGTTGCATGGCAGCAACGCTTCCACCATCAAGGATAACATTCCTGAG---gtaagatttattctctctgtgataatttaatcgcgcttacttaatta Alignment from GeneWise ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG tgggcccctattttgaattagttgtctgactcaggccacttgtcttgcagATTTGGTAGCTCAGAACATTGTCGTCATTCCTAAACCGGAGGAGTTGCATGGCAGCAACGCTTCCACCATCAAGGATAACATTCCTGAGgtaagatttattctctctgtgataatttaatcgcgcttacttaattagat #### Pacs1_ID888_6 --> 2 - 0 Original Alignment atCGCTCCCCAGATATTGACAACTAC-TCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG actggatcttgtgaaactctcatgcagtgttattttctgtgtttacccagacCGCTCCCCAGACATCGACAATTATCTCAGAGGAGGAGGAAGAAAGCTTCTTCTCAG-GCAGGATGACACTGATGAACCACTGCATGGACAAgtgaagatttggcagtgtggcagtgtacaagttgaaacagggtgaggcac Alignment from CESAR atCGCTCCCCAGATATTGACAACTAC-TCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG actggatcttgtgaaactctcatgcagtgttattttctgtgtttacccagacCGCTCCCCAGACATCGACAATTATCTCAGAGGAGGAGGAAGAAAGCTTCTTCTCA-GGCAGGATGACACTGATGAACCACTGCATGGACAAgtgaagatttggcagtgtggcagtgtacaagttgaaacagggtgaggcac Alignment from Spaln_aa2Genome ATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG actggatcttgtgaaactctcatgcagtgttattttctgtgtttacccagACCGCTCCCCAGACATCGACAATTATCTCAGAGGAGGAGGAAGAAAGCTTCTTCTCAGGCAGGATGACACTGATGAACCACTGCATGGACAAgtgaagatttggcagtgtggcagtgtacaagttgaaacagggtgaggcac Alignment from Spaln_nt2Genome ATCGCTCCCCAGATATTGACAACTA-CTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG actggatcttgtgaaactctcatgcagtgttattttctgtgtttacccagACCGCTCCCCAGACATCGACAATTATCTCAGAGGAGGAGGAAGAAAGCTTCTTCTCAG-GCAGGATGACACTGATGAACCACTGCATGGACAAgtgaagatttggcagtgtggcagtgtacaagttgaaacagggtgaggcac Alignment from Pairagon ATCGCTCCCCAGATATTGACAACTA-CTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG actggatcttgtgaaactctcatgcagtgttattttctgtgtttacccagACCGCTCCCCAGACATCGACAATTATCTCAGAGGAGGAGGAAGAAAGCTTCTTCTCAG-GCAGGATGACACTGATGAACCACTGCATGGACAAgtgaagatttggcagtgtggcagtgtacaagttgaaacagggtgaggcac Alignment from Exonerate_protein2genome ATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG actggatcttgtgaaactctcatgcagtgttattttctgtgtttacccagACCGCTCCCCAGACATCGACAATTATCTCAGAGGAGGAGGAAGAAAGCTTCTTCTCAGGCAGGATGACACTGATGAACCACTGCATGGACAAgtgaagatttggcagtgtggcagtgtacaagttgaaacagggtgaggcac Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG actggatcttgtgaaactctcatgcagtgttattttctgtgtttacccagACCGCTCCCCAGACATCGACAATTATCTCAGAGGAGGAGGAAGAAAGCTTCTTCTCAGGCAGGATGACACTGATGAACCACTGCATGGACAAgtgaagatttggcagtgtggcagtgtacaagttgaaacagggtgaggcac #### Patl1_ID3333_18 --> 1 - 2 Original Alignment gACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGG-ATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGca ctcctagttggtgtggctctggtctgtcttttcttttccctttgttgcaggACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGCATCCTGCAAGTAGCCCTTTCCAACTCAACTTCTA-TCCACCAAACCTAGCATCTTTTTTATCCCGCTTTGTTGACCGACAAAAACTGAATCTGTTAGAGACCAAACTCaagtatgcattgtcacactttttctgctttgtcgggtgagaaaaactgattg Alignment from CESAR gACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGG-ATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGca ctcctagttggtgtggctctggtctgtcttttcttttccctttgttgcaggACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGCATCCTGCAAGTAGCCCTTTCCAACTCAACTTCTA-TCCACCAAACCTAGCATCTTTTTTATCCCGCTTTGTTGACCGACAAAAACTGAATCTGTTAGAGACCAAACTCaagtatgcattgtcacactttttctgctttgtcgggtgagaaaaactgattg Alignment from Spaln_aa2Genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCA ctcctagttggtgtggctctggtctgtcttttcttttccctttgttgcagGACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGCATCCTGCAAGTAGCCCTTTCCAACTCAACTTCTATCCACCAAACCTAGCATCTTTTTTATCCCGCTTTGTTGACCGACAAAAACTGAATCTGTTAGAGACCAAACTCAAgtatgcattgtcacactttttctgctttgtcgggtgagaaaaactgattg Alignment from Spaln_nt2Genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGG-ATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCA ctcctagttggtgtggctctggtctgtcttttcttttccctttgttgcagGACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGCATCCTGCAAGTAGCCCTTTCCAACTCAACTTCTAT-CCACCAAACCTAGCATCTTTTTTATCCCGCTTTGTTGACCGACAAAAACTGAATCTGTTAGAGACCAAACTCAAgtatgcattgtcacactttttctgctttgtcgggtgagaaaaactgattg Alignment from Pairagon GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGG-ATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCA ctcctagttggtgtggctctggtctgtcttttcttttccctttgttgcagGACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGCATCCTGCAAGTAGCCCTTTCCAACTCAACTTCTATCCAC-CAAACCTAGCATCTTTTTTATCCCGCTTTGTTGACCGACAAAAACTGAATCTGTTAGAGACCAAACTCAAgtatgcattgtcacactttttctgctttgtcgggtgagaaaaactgattg Alignment from Exonerate_protein2genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAG ctcctagttggtgtggctctggtctgtcttttcttttccctttgttgcagGACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGCATCCTGCAAGTAGCCCTTTCCAACTCAACTTCTATCCACCAAACCTAGCATCTTTTTTATCCCGCTTTGTTGACCGACAAAAACTGAATCTGTTAGAGACCAAACTCAAGtatgcattgtcacactttttctgctttgtcgggtgagaaaaactgattg Alignment from Exonerate_coding2genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAG ctcctagttggtgtggctctggtctgtcttttcttttccctttgttgcagGACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGCATCCTGCAAGTAGCCCTTTCCAACTCAACTTCTATCCACCAAACCTAGCATCTTTTTTATCCCGCTTTGTTGACCGACAAAAACTGAATCTGTTAGAGACCAAACTCAAGtatgcattgtcacactttttctgctttgtcgggtgagaaaaactgattg Alignment from GeneWise GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAGCTGGTTCAGGGGATACGG ctcctagttggtgtggctctggtctgtcttttcttttccctttgttgcagGACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGCATCCTGCAAGTAGCCCTTTCCAACTCAACTTCTATCCACCAAACCTAGCATCTTTTTTATCCCGCTTTGTTGACCGACAAAAACTGAATCTGTTAGAGACCAAACTCAAGTATGCATTGTCACACTTTttctgctttgtcgggtgagaaaaactgattg #### Pcgf6_ID10084_3 --> 2 - 2 Original Alignment ttTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAAC-AGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAag tataatattaactaacaatcataaagtagaatatttttttctgcctttagttTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGCAATCAGATGCCCAAAATGCAACATAGTTGTCCACC-AACTCAGCCTCTTTATAATATAaggtgtgcaggtacggacctgcttcaaactattttgctcattgttacatttt Alignment from CESAR ttTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAAC-AGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAag tataatattaactaacaatcataaagtagaatatttttttctgcctttagttTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGCAATCAGATGCCCAAAATGCAACATAGTTGTCCACC-AACTCAGCCTCTTTATAATATAaggtgtgcaggtacggacctgcttcaaactattttgctcattgttacatttt Alignment from Spaln_aa2Genome TTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAAG tataatattaactaacaatcataaagtagaatatttttttctgcctttagTTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGCAATCAGATGCCCAAAATGCAACATAGTTGTCCACCAACTCAGCCTCTTTATAATATAAGgtgtgcaggtacggacctgcttcaaactattttgctcattgttacatttt Alignment from Spaln_nt2Genome TTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAA-CAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAAG tataatattaactaacaatcataaagtagaatatttttttctgcctttagTTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGCAATCAGATGCCCAAAATGCAACATAGTTGTCCACCA-ACTCAGCCTCTTTATAATATAAGgtgtgcaggtacggacctgcttcaaactattttgctcattgttacatttt Alignment from Pairagon TTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAA-CAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAAG tataatattaactaacaatcataaagtagaatatttttttctgcctttagTTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGCAATCAGATGCCCAAAATGCAACATAGTTGTCCACCA-ACTCAGCCTCTTTATAATATAAGgtgtgcaggtacggacctgcttcaaactattttgctcattgttacatttt Alignment from Exonerate_protein2genome TTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAAG tataatattaactaacaatcataaagtagaatatttttttctgcctttagTTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGCAATCAGATGCCCAAAATGCAACATAGTTGTCCACCAACTCAGCCTCTTTATAATATAAGgtgtgcaggtacggacctgcttcaaactattttgctcattgttacatttt Alignment from Exonerate_coding2genome TTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAAG tataatattaactaacaatcataaagtagaatatttttttctgcctttagTTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGCAATCAGATGCCCAAAATGCAACATAGTTGTCCACCAACTCAGCCTCTTTATAATATAAGgtgtgcaggtacggacctgcttcaaactattttgctcattgttacatttt Alignment from GeneWise TTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAAG tataatattaactaacaatcataaagtagaatatttttttctgcctttagTTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGCAATCAGATGCCCAAAATGCAACATAGTTGTCCACCAACTCAGCCTCTTTATAATATAAGgtgtgcaggtacggacctgcttcaaactattttgctcattgttacatttt #### Pcnxl3_ID1159_34 --> 2 - 0 Original Alignment gcAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGA-CCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG aaattataaactgaaatgttgtgctgggatttctttttataaacttctaggcAGCAGTGAGCAGCCCCTCCCACCAGGCCCTAGCTGGGGACCACGACCCTCCCTAATTGGCTCTGGAGATGGGCAGCCCCGTTCTCTTTTACAGTGGCCCCCCCCTCGGCTCCAAGGACCACCCCCAGTTTCACCTGTCCCCACTGATGGACCTCAGCCCTCACGACTTTCGGGCCCTGCTCTCCTTAATTCAGAGGGACCCCAGTGGGAAGTGGAGTTTGGGGGGTCAGA-GGGGCTGGAAGGATCTGATGGGGAACCTGCTTCTGGGAGCCCAAAAGGTGGTAGCCCCAAGTCTCAGgtaaagaactcatggtaaaggggcgtccatgatgacaaggtggttactcc Alignment from CESAR gcAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGA-CCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG aaattataaactgaaatgttgtgctgggatttctttttataaacttctaggcAGCAGTGAGCAGCCCCTCCCACCAGGCCCTAGCTGGGGACCACGACCCTCCCTAATTGGCTCTGGAGATGGGCAGCCCCGTTCTCTTTTACAGTGGCCCCCCCCTCGGCTCCAAGGACCACCCCCAGTTTCACCTGTCCCCACTGATGGACCTCAGCCCTCACGACTTTCGGGCCCTGCTCTCCTTAATTCAGAGGGACCCCAGTGGGAAGTGGAGTTTGGGGGGTCAGA-GGGGCTGGAAGGATCTGATGGGGAACCTGCTTCTGGGAGCCCAAAAGGTGGTAGCCCCAAGTCTCAGgtaaagaactcatggtaaaggggcgtccatgatgacaaggtggttactcc Alignment from Spaln_aa2Genome GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG aaattataaactgaaatgttgtgctgggatttctttttataaacttctagGCAGCAGTGAGCAGCCCCTCCCACCAGGCCCTAGCTGGGGACCACGACCCTCCCTAATTGGCTCTGGAGATGGGCAGCCCCGTTCTCTTTTACAGTGGCCCCCCCCTCGGCTCCAAGGACCACCCCCAGTTTCACCTGTCCCCACTGATGGACCTCAGCCCTCACGACTTTCGGGCCCTGCTCTCCTTAATTCAGAGGGACCCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAGGGGCTGGAAGGATCTGATGGGGAACCTGCTTCTGGGAGCCCAAAAGGTGGTAGCCCCAAGTCTCAGgtaaagaactcatggtaaaggggcgtccatgatgacaaggtggttactcc Alignment from Spaln_nt2Genome GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGA-GGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG aaattataaactgaaatgttgtgctgggatttctttttataaacttctagGCAGCAGTGAGCAGCCCCTCCCACCAGGCCCTAGCTGGGGACCACGACCCTCCCTAATTGGCTCTGGAGATGGGCAGCCCCGTTCTCTTTTACAGTGGCCCCCCCCTCGGCTCCAAGGACCACCCCCAGTTTCACCTGTCCCCACTGATGGACCTCAGCCCTCACGACTTTCGGGCCCTGCTCTCCTTAATTCAGAGGGACCCCAGTGGGAAGTGGAGTTTGGGGGGTCAGA-GGGGCTGGAAGGATCTGATGGGGAACCTGCTTCTGGGAGCCCAAAAGGTGGTAGCCCCAAGTCTCAGgtaaagaactcatggtaaaggggcgtccatgatgacaaggtggttactcc Alignment from Pairagon GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGA-CCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG aaattataaactgaaatgttgtgctgggatttctttttataaacttctagGCAGCAGTGAGCAGCCCCTCCCACCAGGCCCTAGCTGGGGACCACGACCCTCCCTAATTGGCTCTGGAGATGGGCAGCCCCGTTCTCTTTTACAGTGGCCCCCCCCTCGGCTCCAAGGACCACCCCCAGTTTCACCTGTCCCCACTGATGGACCTCAGCCCTCACGACTTTCGGGCCCTGCTCTCCTTAATTCAGAGGGACCCCAGTGGGAAGTGGAGTTTGGGGGGTCAG-AGGGGCTGGAAGGATCTGATGGGGAACCTGCTTCTGGGAGCCCAAAAGGTGGTAGCCCCAAGTCTCAGgtaaagaactcatggtaaaggggcgtccatgatgacaaggtggttactcc Alignment from Exonerate_protein2genome GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG aaattataaactgaaatgttgtgctgggatttctttttataaacttctagGCAGCAGTGAGCAGCCCCTCCCACCAGGCCCTAGCTGGGGACCACGACCCTCCCTAATTGGCTCTGGAGATGGGCAGCCCCGTTCTCTTTTACAGTGGCCCCCCCCTCGGCTCCAAGGACCACCCCCAGTTTCACCTGTCCCCACTGATGGACCTCAGCCCTCACGACTTTCGGGCCCTGCTCTCCTTAATTCAGAGGGACCCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAGGGGCTGGAAGGATCTGATGGGGAACCTGCTTCTGGGAGCCCAAAAGGTGGTAGCCCCAAGTCTCAGgtaaagaactcatggtaaaggggcgtccatgatgacaaggtggttactcc Alignment from Exonerate_coding2genome aaattataaactgaaatgttgtgctgggatttctttttataaacttctaggcagcagtgagcagcccctcccaccaggccctagctggggaccacgaccctccctaattggctctggagatgggcagccccgttctcttttacagtggcccccccctcggctccaaggaccacccccagtttcacctgtccccactgatggacctcagccctcacgactttcgggccctgctctccttaattcagagggaccccagtgggaagtggagtttggggggtcagaggggctggaaggatctgatggggaacctgcttctgggagcccaaaaggtggtagccccaagtctcaggtaaagaactcatggtaaaggggcgtccatgatgacaaggtggttactcc Alignment from GeneWise GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG aaattataaactgaaatgttgtgctgggatttctttttataaacttctagGCAGCAGTGAGCAGCCCCTCCCACCAGGCCCTAGCTGGGGACCACGACCCTCCCTAATTGGCTCTGGAGATGGGCAGCCCCGTTCTCTTTTACAGTGGCCCCCCCCTCGGCTCCAAGGACCACCCCCAGTTTCACCTGTCCCCACTGATGGACCTCAGCCCTCACGACTTTCGGGCCCTGCTCTCCTTAATTCAGAGGGACCCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAGGGGCTGGAAGGATCTGATGGGGAACCTGCTTCTGGGAGCCCAAAAGGTGGTAGCCCCAAGTCTCAGgtaaagaactcatggtaaaggggcgtccatgatgacaaggtggttactcc #### Pcnxl3_ID1160_33 --> 1 - 1 Original Alignment aCTTCATAAG---GGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGT-GGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAg cacaacacaaaatgcattaccacacacccgctgtgttcttgttctttcaggCTTCATAAGAAGGGTTGTGGTGCTGGCTGCAATAGTGGAGGTAATCTCGATGATGCAGATTGTGGTCGGGGGTGGTGGACTGGCTTCCCTCGGCAACCATCCTCCCT-GGTACACCCTACACCTGACAATGTGGCAggtacaagcaagattttaagaaaattataaactgaaatgttgtgctgggga Alignment from CESAR aCTTCAT---AAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGT-GGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAg cacaacacaaaatgcattaccacacacccgctgtgttcttgttctttcaggCTTCATAAGAAGGGTTGTGGTGCTGGCTGCAATAGTGGAGGTAATCTCGATGATGCAGATTGTGGTCGGGGGTGGTGGACTGGCTTCCCTCGGCAACCATCCTC-CCTGGTACACCCTACACCTGACAATGTGGCAggtacaagcaagattttaagaaaattataaactgaaatgttgtgctgggat Alignment from Spaln_aa2Genome ACTTCAT---AAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG cacaacacaaaatgcattaccacacacccgctgtgttcttgttctttcagGCTTCATAAGAAGGGTTGTGGTGCTGGCTGCAATAGTGGAGGTAATCTCGATGATGCAGATTGTGGTCGGGGGTGGTGGACTGGCTTCCCTCGGCAACCATCCTCCCTGGTACACCCTACACCTGACAATGTGGCAGgtacaagcaagattttaagaaaattataaactgaaatgttgtgctgggga Alignment from Spaln_nt2Genome ACTTCATAAG---GGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGT-GGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG cacaacacaaaatgcattaccacacacccgctgtgttcttgttctttcagGCTTCATAAGAAGGGTTGTGGTGCTGGCTGCAATAGTGGAGGTAATCTCGATGATGCAGATTGTGGTCGGGGGTGGTGGACTGGCTTCCCTCGGCAACCATCCT-CCCTGGTACACCCTACACCTGACAATGTGGCAGgtacaagcaagattttaagaaaattataaactgaaatgttgtgctgggga Alignment from Pairagon ACTTCAT---AAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGT-GGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG cacaacacaaaatgcattaccacacacccgctgtgttcttgttctttcagGCTTCATAAGAAGGGTTGTGGTGCTGGCTGCAATAGTGGAGGTAATCTCGATGATGCAGATTGTGGTCGGGGGTGGTGGACTGGCTTCCCTCGGCAACCATCCTCCC-TGGTACACCCTACACCTGACAATGTGGCAGgtacaagcaagattttaagaaaattataaactgaaatgttgtgctgggga Alignment from Exonerate_protein2genome ACTTCAT---AAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG cacaacacaaaatgcattaccacacacccgctgtgttcttgttctttcagGCTTCATAAGAAGGGTTGTGGTGCTGGCTGCAATAGTGGAGGTAATCTCGATGATGCAGATTGTGGTCGGGGGTGGTGGACTGGCTTCCCTCGGCAACCATCCTCCCTGGTACACCCTACACCTGACAATGTGGCAGgtacaagcaagattttaagaaaattataaactgaaatgttgtgctgggga Alignment from Exonerate_coding2genome cacaacacaaaatgcattaccacacacccgctgtgttcttgttctttcaggcttcataagaagggttgtggtgctggctgcaatagtggaggtaatctcgatgatgcagattgtggtcgggggtggtggactggcttccctcggcaaccatcctccctggtacaccctacacctgacaatgtggcaggtacaagcaagattttaagaaaattataaactgaaatgttgtgctgggga Alignment from GeneWise ACTTCATAAG---GGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCC---TTGGCACACCCTACGCCTGAAAATGCAGCAG cacaacacaaaatgcattaccacacacccgctgtgttcttgttctttcagGCTTCATAAGAAGGGTTGTGGTGCTGGCTGCAATAGTGGAGGTAATCTCGATGATGCAGATTGTGGTCGGGGGTGG---TGGACTGGCTTCCCTCGGCAACCATCCTCCCTGGTACACCCTACACCTGACAATGTGGCAGgtacaagcaagattttaagaaaattataaactgaaatgttgtgctgggga #### Pcnxl3_ID1169_24 --> 2 - 2 Original Alignment acTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTC-TTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACaa ctgtctggccagactagctgtgaagaactctgtttctgctattgttatagacTCAGCCATGTTGTTCCTCCAAGCTTTGCTCTCAGGTCTGCTTCTCTACTCCACTGAATCCTCTACTGG-TAGTGCAGTATTCATTACGTCGTACACAAGCCCCCTCAAATATTGGGAGAGAGACTACaagtatgtcagtaagaaagagcactctagttccagagatacctttagggttg Alignment from CESAR acTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTC-TTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACaa ctgtctggccagactagctgtgaagaactctgtttctgctattgttatagacTCAGCCATGTTGTTCCTCCAAGCTTTGCTCTCAGGTCTGCTTCTCTACTCCACTGAATCCTCTAC-TGGTAGTGCAGTATTCATTACGTCGTACACAAGCCCCCTCAAATATTGGGAGAGAGACTACaagtatgtcagtaagaaagagcactctagttccagagatacctttagggttg Alignment from Spaln_aa2Genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ctgtctggccagactagctgtgaagaactctgtttctgctattgttatagACTCAGCCATGTTGTTCCTCCAAGCTTTGCTCTCAGGTCTGCTTCTCTACTCCACTGAATCCTCTACTGGTAGTGCAGTATTCATTACGTCGTACACAAGCCCCCTCAAATATTGGGAGAGAGACTACAAgtatgtcagtaagaaagagcactctagttccagagatacctttagggttg Alignment from Spaln_nt2Genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCT-CTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ctgtctggccagactagctgtgaagaactctgtttctgctattgttatagACTCAGCCATGTTGTTCCTCCAAGCTTTGCTCTCAGGTCTGCTTCTCTACTCCACTGAATCCTCTACT-GGTAGTGCAGTATTCATTACGTCGTACACAAGCCCCCTCAAATATTGGGAGAGAGACTACAAgtatgtcagtaagaaagagcactctagttccagagatacctttagggttg Alignment from Pairagon ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCT-CTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ctgtctggccagactagctgtgaagaactctgtttctgctattgttatagACTCAGCCATGTTGTTCCTCCAAGCTTTGCTCTCAGGTCTGCTTCTCTACTCCACTGAATCCTCTACT-GGTAGTGCAGTATTCATTACGTCGTACACAAGCCCCCTCAAATATTGGGAGAGAGACTACAAgtatgtcagtaagaaagagcactctagttccagagatacctttagggttg Alignment from Exonerate_protein2genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ctgtctggccagactagctgtgaagaactctgtttctgctattgttatagACTCAGCCATGTTGTTCCTCCAAGCTTTGCTCTCAGGTCTGCTTCTCTACTCCACTGAATCCTCTACTGGTAGTGCAGTATTCATTACGTCGTACACAAGCCCCCTCAAATATTGGGAGAGAGACTACAAgtatgtcagtaagaaagagcactctagttccagagatacctttagggttg Alignment from Exonerate_coding2genome T Ctgtctggccagactagctgtgaagaactctgtttctgctattgttatagactcagccatgttgttcctccaagctttgctctcaggtctgcttctctactccactgaatcctctactggtagtgcagtattcattacgtcgtacacaagccccctcaaatattgggagagagactacaagtatgtcagtaagaaagagcactctagttccagagatacctttagggttg Alignment from GeneWise ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ctgtctggccagactagctgtgaagaactctgtttctgctattgttatagACTCAGCCATGTTGTTCCTCCAAGCTTTGCTCTCAGGTCTGCTTCTCTACTCCACTGAATCCTCTACTGGTAGTGCAGTATTCATTACGTCGTACACAAGCCCCCTCAAATATTGGGAGAGAGACTACAAgtatgtcagtaagaaagagcactctagttccagagatacctttagggttg #### Pcnxl3_ID1178_15 --> 2 - 1 Original Alignment GTGGCCACTg tgTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTC-AACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAg GTGGCAACTggtaacacacctcaagataccaagcacttgtgcatacccagtaTTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCCCAGGTCCAACACCTGCCTGACGTACCTCTCGGAAC-AATTGATATGCATGGTTTTGGAGGCACAggtgaagtgtgctcagaaaggtctatgccaggaatattgcatctaccaaat Alignment from CESAR GTGGCCACTg tgTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTC-AACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAg GTGGCAACTggtgggtcacctcaagataccaagcacttgtgcatacccagtaTTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCCCAGGTCCAACACCTGCCTGACGTACCTCTCGGAAC-AATTGATATGCATGGTTTTGGAGGCACAggtgaagtgtgctcagaaaggtctatgccaggaatattgcatctaccaaat Alignment from Spaln_aa2Genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaacacacctcaagataccaagcacttgtgcatacccagTATTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCCCAGGTCCAACACCTGCCTGACGTACCTCTCGGAACAATTGATATGCATGGTTTTGGAGGCACAGgtgaagtgtgctcagaaaggtctatgccaggaatattgcatctaccaaat Alignment from Spaln_nt2Genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTC-AACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaacacacctcaagataccaagcacttgtgcatacccagTATTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCCCAGGTCCAACACCTGCCTGACGTACCTCTCGGAACA-ATTGATATGCATGGTTTTGGAGGCACAGgtgaagtgtgctcagaaaggtctatgccaggaatattgcatctaccaaat Alignment from Pairagon GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGT-CAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaacacacctcaagataccaagcacttgtgcatacccagTATTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCCCAGGTCCAACACCTGCCTGACGTACCTCTCGGAACA-ATTGATATGCATGGTTTTGGAGGCACAGgtgaagtgtgctcagaaaggtctatgccaggaatattgcatctaccaaat Alignment from Exonerate_protein2genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaacacacctcaagataccaagcacttgtgcatacccagTATTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCCCAGGTCCAACACCTGCCTGACGTACCTCTCGGAACAATTGATATGCATGGTTTTGGAGGCACAGgtgaagtgtgctcagaaaggtctatgccaggaatattgcatctaccaaat Alignment from Exonerate_coding2genome gtggcaactggtaacacacctcaagataccaagcacttgtgcatacccagtattcaccttatgctttccctttgtcttcctgctggggctcctgccccaggtccaacacctgcctgacgtacctctcggaacaattgatatgcatggttttggaggcacaggtgaagtgtgctcagaaaggtctatgccaggaatattgcatctaccaaat Alignment from GeneWise GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaacacacctcaagataccaagcacttgtgcatacccagTATTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCCCAGGTCCAACACCTGCCTGACGTACCTCTCGGAACAATTGATATGCATGGTTTTGGAGGCACAGgtgaagtgtgctcagaaaggtctatgccaggaatattgcatctaccaaat #### Pcnxl3_ID1179_14 --> 0 - 1 Original Alignment GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCC-TTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTg tgTTCACCTT caataacttatagttgcttggcctatgattgctccaaattgcgtccccagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTTTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCACTTGGGACAACTCAACCCCTTCCCACCTGTCTCTCTGTATGGTCTAACCCTCT-TTCTGCCTCGTTCTTCTTTTGTGCACGAGATGTGGCAACTggtgggtcacctcaagataattagtgtctgtttgtttctagtaTTCACCTT Alignment from CESAR GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAG-CCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTg tgTTCACCTT caataacttatagttgcttggcctatgattgctccaaattgcgtccccagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTTTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCACTTGGGACAACTCAACCCCTTCCCACCTGTCTCTCTGTATGGTCTAACCCTCT-TTCTGCCTCGTTCTTCTTTTGTGCACGAGATGTGGCAACTggtgggtcacctcaagataccaagcacttgtgcatacccagtaTTCACCTT Alignment from Spaln_aa2Genome GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAG-CCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTG TGTTCACCTT caataacttatagttgcttggcctatgattgctccaaattgcgtccccagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTTTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCACTTGGGACAACTCAAcCCCTTCCCACCTGTCTCTCTGTATGGTCTAACCCTCTT-TCTGCCTCGTTCTTCTTTTGTGCACGAGATGTGGCAACTGgtgggtcacctcaagataattagtgtctgtttgtttctagTATTCACCTT Alignment from Spaln_nt2Genome GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAG-CCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTG TGTTCACCTT caataacttatagttgcttggcctatgattgctccaaattgcgtccccagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTTTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCACTTGGGACAACTCAACCCCTTCCCACCTGTCTCTCTGTATGGTCTAACCCTCTT-TCTGCCTCGTTCTTCTTTTGTGCACGAGATGTGGCAACTGgtgggtcacctcaagataattagtgtctgtttgtttctagTATTCACCTT Alignment from Pairagon GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAG-CCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTG TGTTCACCTT caataacttatagttgcttggcctatgattgctccaaattgcgtccccagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTTTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCACTTGGGACAACTCAACCCCTTCCCACCTGTCTCTCTGTATGGTCTAACCCTCTT-TCTGCCTCGTTCTTCTTTTGTGCACGAGATGTGGCAACTGgtgggtcacctcaagataattagtgtctgtttgtttctagTATTCACCTT Alignment from Exonerate_protein2genome GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTG TGTTCACCTT caataacttatagttgcttggcctatgattgctccaaattgcgtccccagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTTTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCACTTGGGACAACTCAACCCCTTCCCACCTGTCTCTCTGTATGGTCTAACCCTCTTTCTGCCTCGTTCTTCTTTTGTGCACGAGATGTGGCAACTGgtgggtcacctcaagataattagtgtctgtttgtttctagTATTCACCTT Alignment from Exonerate_coding2genome caataacttatagttgcttggcctatgattgctccaaattgcgtccccagggtcacaactgggtgattgcatacagccgtcctgtttacttttgtatttgttgcctgctcatctggttgctggatgcacttgggacaactcaaccccttcccacctgtctctctgtatggtctaaccctctttctgcctcgttcttcttttgtgcacgagatgtggcaactggtgggtcacctcaagataattagtgtctgtttgtttctagtattcacctt Alignment from GeneWise GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTG TGTTCACCTT caataacttatagttgcttggcctatgattgctccaaattgcgtccccagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTTTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCACTTGGGACAACTCAACCCCTTCCCACCTGTCTCTCTGTATGGTCTAACCCTCTTTCTGCCTCGTTCTTCTTTTGTGCACGAGATGTGGCAACTGgtgggtcacctcaagataattagtgtctgtttgtttctagTATTCACCTT #### Pcnxl3_ID1181_12 --> 1 - 0 Original Alignment gACACGTGGG---GTAATGGAGAACATTTTCGGTGTTGGATTGAGCAGCCTGGTTGCCTTCCTGGGATAC-CTGTTGCTGCTCAAGGGCTTCTTCACTGACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAG ttctataggcattttaggaaacatagtacatatttgtccttcctctgcaggACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGAGTACCCTACTTGCTATCCTTGGGTACCCTGTTGCTCCTAAAGGGATTCATCACAGAGATT---A-CTTTCAGTTTTGTCTGGTCATTGCTTCTTGTCAGTATTTTCTGCTCAAGgtacctactgggttctcagttttagaacagtagcctgcttgctatcctta Alignment from CESAR gACACGTGGG---GTAATGGAGAACATTTTCGGTGTTGGATTGAGCAGCCTGGTTGCCTTCCTGGGATAC-CTGTTGCTGCTCAAGGGCTTCTTCACTGACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAG ttctataggcattttaggaaacatagtacatatttgtccttcctctgcaggACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGAGTACCCTACTTGCTATCCTTGGGTACCCTGTTGCTCCTAAAGGGATTCATCACAGAGATT----ACTTTCAGTTTTGTCTGGTCATTGCTTCTTGTCAGTATTTTCTGCTCAAGgtacctactgggttctcagttttagaacagtagcctgcttgctatcctta Alignment from Spaln_aa2Genome GACACGTGGG---GTAATGGAGAACATTTTCGGTGTTGGATTGAGCAGCCTGGTTGCCTTCCTGGGATAC-CTGTTGCTGCTCAAGGGCTTCTTCACTGACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAG ttctataggcattttaggaaacatagtacatatttgtccttcctctgcagGACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGAGTACCCTACTTGCTATCCTTGGGTACcCTGTTGCTCCTAAAGGGATTCATCACAGAGATTAC----TTTCAGTTTTGTCTGGTCATTGCTTCTTGTCAGTATTTTCTGCTCAAGgtacctactgggttctcagttttagaacagtagcctgcttgctatcctta Alignment from Spaln_nt2Genome GACACGTGGG---GTAATGGAGAACATTTTCGGTGTTGGATTGAGCAGCCTGGTTGCCTTCCTGGGATACC-TGTTGCTGCTCAAGGGCTTCTTCACTGACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAG ttctataggcattttaggaaacatagtacatatttgtccttcctctgcagGACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGAGTACCCTACTTGCTATCCTTGGGTACCCTGTTGCTCCTAAAGGGATTCATCACAGAGAT----TACTTTCAGTTTTGTCTGGTCATTGCTTCTTGTCAGTATTTTCTGCTCAAGgtacctactgggttctcagttttagaacagtagcctgcttgctatcctta Alignment from Pairagon GACACGTGG---GGTAATGGAGAACATTTTCGGTGTTGGATTGAGCAGCCTGGTTGCCTTCCTGGGATA-CCTGTTGCTGCTCAAGGGCTTCTTCACTGACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAG ttctataggcattttaggaaacatagtacatatttgtccttcctctgcagGACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGAGTACCCTACTTGCTATCCTTGGGTACCCTGTTGCTCCTAAAGGGATTCATCACAGAGATT----ACTTTCAGTTTTGTCTGGTCATTGCTTCTTGTCAGTATTTTCTGCTCAAGgtacctactgggttctcagttttagaacagtagcctgcttgctatcctta Alignment from Exonerate_protein2genome GACACGTGGG---GTAATGGAGAACATTTTCGGTGTTGGATTGAGCAGCCTGGTTGCCTTCCTGGGATACCTGTTGCTGCTCAAGGGCTTCTTCACTGACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAG ttctataggcattttaggaaacatagtacatatttgtccttcctctgcagGACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGAGTACCCTACTTGCTATCCTTGGGTACCCTGTTGCTCCTAAAGGGATTCATCACAGAGATTAC---TTTCAGTTTTGTCTGGTCATTGCTTCTTGTCAGTATTTTCTGCTCAAGgtacctactgggttctcagttttagaacagtagcctgcttgctatcctta Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GACACGTGGG---GTAATGGAGAACATTTTCGGTGTTGGATTGAGCAGCCTGGTTGCCTTCCTGGGATACCTGTTGCTGCTCAAGGGCTTCTTCACTGACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAG ttctataggcattttaggaaacatagtacatatttgtccttcctctgcagGACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGAGTACCCTACTTGCTATCCTTGGGTACCCTGTTGCTCCTAAAGGGATTCATCACAGAGATTAC---TTTCAGTTTTGTCTGGTCATTGCTTCTTGTCAGTATTTTCTGCTCAAGgtacctactgggttctcagttttagaacagtagcctgcttgctatcctta #### Pcx_ID553_3 --> 2 - 0 Original Alignment gtGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGAC-ACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggaggggggttgcttcttctgtctccccaggtGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGTATTCGGAACAGGATCACAGGGCTAACGCACAGGCAGAAAACAGATG-GGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtaaggaccaattacctttacaggatagagttttttgtcaagtgttctgt Alignment from CESAR gtGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGAC-ACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggaggggggttgcttcttctgtctccccaggtGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGTATTCGGAACAGGATCACAGGGCTAACGCACAGGCAGAAAACAGAT-GGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtaaggaccaattacctttacaggatagagttttttgtcaagtgttctgt Alignment from Spaln_aa2Genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggaggggggttgcttcttctgtctccccagGTGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGTATTCGGAACAGGATCACAGGGCTAACGCACAGGCAGAAAACAGATGGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtaaggaccaattacctttacaggatagagttttttgtcaagtgttctgt Alignment from Spaln_nt2Genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGA-CACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggaggggggttgcttcttctgtctccccagGTGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGTATTCGGAACAGGATCACAGGGCTAACGCACAGGCAGAAAACAGATG-GGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtaaggaccaattacctttacaggatagagttttttgtcaagtgttctgt Alignment from Pairagon GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGA-CACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggaggggggttgcttcttctgtctccccagGTGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGTATTCGGAACAGGATCACAGGGCTAACGCACAGGCAGAAAACAGATG-GGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtaaggaccaattacctttacaggatagagttttttgtcaagtgttctgt Alignment from Exonerate_protein2genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggaggggggttgcttcttctgtctccccagGTGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGTATTCGGAACAGGATCACAGGGCTAACGCACAGGCAGAAAACAGATGGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtaaggaccaattacctttacaggatagagttttttgtcaagtgttctgt Alignment from Exonerate_coding2genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggaggggggttgcttcttctgtctccccagGTGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGTATTCGGAACAGGATCACAGGGCTAACGCACAGGCAGAAAACAGATGGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtaaggaccaattacctttacaggatagagttttttgtcaagtgttctgt Alignment from GeneWise GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggaggggggttgcttcttctgtctccccagGTGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGTATTCGGAACAGGATCACAGGGCTAACGCACAGGCAGAAAACAGATGGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtaaggaccaattacctttacaggatagagttttttgtcaagtgttctgt #### Pcx_ID554_4 --> 0 - 1 Original Alignment GAAAATGGTGTAGATGCGGTGCATCCT-GGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAg ttaaagagagtgaagacacaaatgagtgtctcctctctgttcatttgtagGAAAATGGTGAAGATGCAGTGCATCCGCGGTTATGGGTTTCTCTCAGAGCAGGCAGATTTTG-CCAGGCCTGCCAGGACACTGGGGTCCGATTTATTGGTCCAAGCCCAGAGGTTGTACTTAAAATA---GACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAggtacggtaccaaacaaaacattgaacttgaaccagaagtacaggtgtttt Alignment from CESAR GAAAATGGTGTAGATGCGGTGCATCCT-GGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAg ttaaagagagtgaagacacaaatgagtgtctcctctctgttcatttgtagGAAAATGGTGAAGATGCAGTGCATCCGCGGTTATGGGTTTCTCTCAGAGCAGGCAGATTTTG-CCAGGCCTGCCAGGACACTGGGGTCCGATTTATTGGTCCAAGCCCAGAGGTTGTACTTAAAATA---GACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAggtacggtaccaaacaaaacattgaacttgaaccagaagtacaggtgtttt Alignment from Spaln_aa2Genome GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG ttaaagagagtgaagacacaaatgagtgtctcctctctgttcatttgtagGAAAATGGTGAAGATGCAGTGCATCCGCGGTTATGGGTTTCTCTCAGAGCAGGCAGATTTTGCCAGGCCTGCCAGGACACTGGGGTCCGATTTATTGGTCCAAGCCCAGAGGTTGTACTTAAAATA---GACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAGgtacggtaccaaacaaaacattgaacttgaaccagaagtacaggtgtttt Alignment from Spaln_nt2Genome GAAAATGGTGTAGATGCGGTGCATCCT-GGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG ttaaagagagtgaagacacaaatgagtgtctcctctctgttcatttgtagGAAAATGGTGAAGATGCAGTGCATCCGCGGTTATGGGTTTCTCTCAGAGCAGGCAGATTTTG-CCAGGCCTGCCAGGACACTGGGGTCCGATTTATTGGTCCAAGCCCAGAGGTTGTACTTAAAAT---AGACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAGgtacggtaccaaacaaaacattgaacttgaaccagaagtacaggtgtttt Alignment from Pairagon GAAAATGGTGTAGATGCGGTGCATCC-TGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG ttaaagagagtgaagacacaaatgagtgtctcctctctgttcatttgtagGAAAATGGTGAAGATGCAGTGCATCCGCGGTTATGGGTTTCTCTCAGAGCAGGCAGATTTTG-CCAGGCCTGCCAGGACACTGGGGTCCGATTTATTGGTCCAAGCCCAGAGGTTGTACTTAAAAT---AGACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAGgtacggtaccaaacaaaacattgaacttgaaccagaagtacaggtgtttt Alignment from Exonerate_protein2genome GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG ttaaagagagtgaagacacaaatgagtgtctcctctctgttcatttgtagGAAAATGGTGAAGATGCAGTGCATCCGCGGTTATGGGTTTCTCTCAGAGCAGGCAGATTTTGCCAGGCCTGCCAGGACACTGGGGTCCGATTTATTGGTCCAAGCCCAGAGGTTGTACTTAAAATA---GACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAGgtacggtaccaaacaaaacattgaacttgaaccagaagtacaggtgtttt Alignment from Exonerate_coding2genome GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG ttaaagagagtgaagacacaaatgagtgtctcctctctgttcatttgtagGAAAATGGTGAAGATGCAGTGCATCCGCGGTTATGGGTTTCTCTCAGAGCAGGCAGATTTTGCCAGGCCTGCCAGGACACTGGGGTCCGATTTATTGGTCCAAGCCCAGAGGTTGTACTTAAAATA---GACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAGgtacggtaccaaacaaaacattgaacttgaaccagaagtacaggtgtttt Alignment from GeneWise GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG ttaaagagagtgaagacacaaatgagtgtctcctctctgttcatttgtagGAAAATGGTGAAGATGCAGTGCATCCGCGGTTATGGGTTTCTCTCAGAGCAGGCAGATTTTGCCAGGCCTGCCAGGACACTGGGGTCCGATTTATTGGTCCAAGCCCAGAGGTTGTACTTAAAATA---GACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAGgtacggtaccaaacaaaacattgaacttgaaccagaagtacaggtgtttt #### Pcx_ID555_5 --> 2 - 0 Original Alignment gcGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCT-ATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG aacttgaaccagaagtacaggtgttttggtctctgtttgcttttccctaggtGCCCCGGTAGTTCCTGGAACAGAGTCCCCCATCAGCTCCCTATATGAAGCCCATGAGTTCTCCAACACCTATGATCCTCCCCTTTATTTTCAATGCAGCTTATGGAGATGGAGGTCATG-TATGAGGGTTGTGCAGAGCTATGAGgtgagtggggcagcatagggtaaggtggtcatggcagggccagtctttag Alignment from CESAR gcGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGC-TTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG aacttgaaccagaagtacaggtgttttggtctctgtttgcttttccctaggtGCCCCGGTAGTTCCTGGAACAGAGTCCCCCATCAGCTCCCTATATGAAGCCCATGAGTTCTCCAACACCTATGATCCTCCCCTTTATTTTCAATGCAGCTTATGGAGATGGAGGTCAT-GTATGAGGGTTGTGCAGAGCTATGAGgtgagtggggcagcatagggtaaggtggtcatggcagggccagtctttag Alignment from Spaln_aa2Genome GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG aacttgaaccagaagtacaggtgttttggtctctgtttgcttttccctagGTGCCCCGGTAGTTCCTGGAACAGAGTCCCCCATCAGCTCCCTATATGAAGCCCATGAGTTCTCCAACACCTATGATCCTCCCCTTTATTTTCAATGCAGCTTATGGAGATGGAGGTCATGTATGAGGGTTGTGCAGAGCTATGAGgtgagtggggcagcatagggtaaggtggtcatggcagggccagtctttag Alignment from Spaln_nt2Genome GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGG-CTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG aacttgaaccagaagtacaggtgttttggtctctgtttgcttttccctagGTGCCCCGGTAGTTCCTGGAACAGAGTCCCCCATCAGCTCCCTATATGAAGCCCATGAGTTCTCCAACACCTATGATCCTCCCCTTTATTTTCAATGCAGCTTATGGAGATGGAGGTC-ATGTATGAGGGTTGTGCAGAGCTATGAGgtgagtggggcagcatagggtaaggtggtcatggcagggccagtctttag Alignment from Pairagon GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGG-CTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG aacttgaaccagaagtacaggtgttttggtctctgtttgcttttccctagGTGCCCCGGTAGTTCCTGGAACAGAGTCCCCCATCAGCTCCCTATATGAAGCCCATGAGTTCTCCAACACCTATGATCCTCCCCTTTATTTTCAATGCAGCTTATGGAGATGGAGGTCAT-GTATGAGGGTTGTGCAGAGCTATGAGgtgagtggggcagcatagggtaaggtggtcatggcagggccagtctttag Alignment from Exonerate_protein2genome GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG aacttgaaccagaagtacaggtgttttggtctctgtttgcttttccctagGTGCCCCGGTAGTTCCTGGAACAGAGTCCCCCATCAGCTCCCTATATGAAGCCCATGAGTTCTCCAACACCTATGATCCTCCCCTTTATTTTCAATGCAGCTTATGGAGATGGAGGTCATGTATGAGGGTTGTGCAGAGCTATGAGgtgagtggggcagcatagggtaaggtggtcatggcagggccagtctttag Alignment from Exonerate_coding2genome GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG aacttgaaccagaagtacaggtgttttggtctctgtttgcttttccctagGTGCCCCGGTAGTTCCTGGAACAGAGTCCCCCATCAGCTCCCTATATGAAGCCCATGAGTTCTCCAACACCTATGATCCTCCCCTTTATTTTCAATGCAGCTTATGGAGATGGAGGTCATGTATGAGGGTTGTGCAGAGCTATGAGgtgagtggggcagcatagggtaaggtggtcatggcagggccagtctttag Alignment from GeneWise GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG aacttgaaccagaagtacaggtgttttggtctctgtttgcttttccctagGTGCCCCGGTAGTTCCTGGAACAGAGTCCCCCATCAGCTCCCTATATGAAGCCCATGAGTTCTCCAACACCTATGATCCTCCCCTTTATTTTCAATGCAGCTTATGGAGATGGAGGTCATGTATGAGGGTTGTGCAGAGCTATGAGgtgagtggggcagcatagggtaaggtggtcatggcagggccagtctttag #### Pcx_ID556_6 --> 0 - 1 Original Alignment GAGTTGGAAGAGAATTACACCCGGGCCTACTCC-GAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAg ggtggttgtattgaaaatgcctggctgcctattgttctgtttcattttagGAGCTAGAAAAGAATTATACCAGAGCCTACTCACGAAGCCTTGGCAGCCTTTGGGAACAGAGCCCTGT-TGTTGAAAAGTTTATTGGCCAGCCAAGCCATTTTGAGGAGCAGATCCTAggtaagtaaatagatggctgcaactgcccaacacttttgagagacccaaca Alignment from CESAR GAGTTGGAAGAGAATTACACCCGGGCCTACTCC-GAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAg ggtggttgtattgaaaatgcctggctgcctattgttctgtttcattttagGAGCTAGAAAAGAATTATACCAGAGCCTACTCACGAAGCCTTGGCAGCCTTTGGGAACAGAGCCCTG-TTGTTGAAAAGTTTATTGGCCAGCCAAGCCATTTTGAGGAGCAGATCCTAggtaagtaaatagatggctgcaactgcccaacacttttgagagacccaaca Alignment from Spaln_aa2Genome GAGTTGGAAGAGAATTACACCCGGGCCTACTCC-GAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG ggtggttgtattgaaaatgcctggctgcctattgttctgtttcattttagGAGCTAGAAAAGAATTATACCAGAGCCTACTCAcGAAGCCTTGGCAGCCTTTGGGAACAGAGCCCTGTT-GTTGAAAAGTTTATTGGCCAGCCAAGCCATTTTGAGGAGCAGATCCTAGgtaagtaaatagatggctgcaactgcccaacacttttgagagacccaaca Alignment from Spaln_nt2Genome GAGTTGGAAGAGAATTACACCCGGGCCTACTC-CGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG ggtggttgtattgaaaatgcctggctgcctattgttctgtttcattttagGAGCTAGAAAAGAATTATACCAGAGCCTACTCACGAAGCCTTGGCAGCCTTTGGGAACAGAGCCCTG-TTGTTGAAAAGTTTATTGGCCAGCCAAGCCATTTTGAGGAGCAGATCCTAGgtaagtaaatagatggctgcaactgcccaacacttttgagagacccaaca Alignment from Pairagon GAGTTGGAAGAGAATTACACCCGGGCCTACTC-CGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG ggtggttgtattgaaaatgcctggctgcctattgttctgtttcattttagGAGCTAGAAAAGAATTATACCAGAGCCTACTCACGAAGCCTTGGCAGCCTTTGGGAACAGAGCCCTG-TTGTTGAAAAGTTTATTGGCCAGCCAAGCCATTTTGAGGAGCAGATCCTAGgtaagtaaatagatggctgcaactgcccaacacttttgagagacccaaca Alignment from Exonerate_protein2genome GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG ggtggttgtattgaaaatgcctggctgcctattgttctgtttcattttagGAGCTAGAAAAGAATTATACCAGAGCCTACTCACGAAGCCTTGGCAGCCTTTGGGAACAGAGCCCTGTTGTTGAAAAGTTTATTGGCCAGCCAAGCCATTTTGAGGAGCAGATCCTAGgtaagtaaatagatggctgcaactgcccaacacttttgagagacccaaca Alignment from Exonerate_coding2genome GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG ggtggttgtattgaaaatgcctggctgcctattgttctgtttcattttagGAGCTAGAAAAGAATTATACCAGAGCCTACTCACGAAGCCTTGGCAGCCTTTGGGAACAGAGCCCTGTTGTTGAAAAGTTTATTGGCCAGCCAAGCCATTTTGAGGAGCAGATCCTAGgtaagtaaatagatggctgcaactgcccaacacttttgagagacccaaca Alignment from GeneWise GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG ggtggttgtattgaaaatgcctggctgcctattgttctgtttcattttagGAGCTAGAAAAGAATTATACCAGAGCCTACTCACGAAGCCTTGGCAGCCTTTGGGAACAGAGCCCTGTTGTTGAAAAGTTTATTGGCCAGCCAAGCCATTTTGAGGAGCAGATCCTAGgtaagtaaatagatggctgcaactgcccaacacttttgagagacccaaca #### Pcx_ID563_12 --> 2 - 1 Original Alignment gaCATGTCATGGTGAAT-GGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAg actctttgaaattggaaaaacagtgaaggtacacgtgtgggctattttaggaCATGTTATGGTCAATCGGACCTATCTCACCAATCCCAGTCAATGTGA-GCCTAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAggtaagttatgatataccttcttaatgagaaggtgtgtcagatacagcatt Alignment from CESAR gaCATGTCATGGTGAAT-GGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAg actctttgaaattggaaaaacagtgaaggtacacgtgtgggctattttaggaCATGTTATGGTCAATCGGACCTATCTCACCAATCCCAGTCAATGTGA-GCCTAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAggtaagttatgatataccttcttaatgagaaggtgtgtcagatacagcatt Alignment from Spaln_aa2Genome GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG actctttgaaattggaaaaacagtgaaggtacacgtgtgggctattttagGACATGTTATGGTCAATCGGACCTATCTCACCAATCCCAGTCAATGTGAGCCTAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAGgtaagttatgatataccttcttaatgagaaggtgtgtcagatacagcatt Alignment from Spaln_nt2Genome GACATGTCATGGTGAAT-GGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG actctttgaaattggaaaaacagtgaaggtacacgtgtgggctattttagGACATGTTATGGTCAATCGGACCTATCTCACCAATCCCAGTCAATGTGAG-CCTAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAGgtaagttatgatataccttcttaatgagaaggtgtgtcagatacagcatt Alignment from Pairagon GACATGTCATGGTGAAT-GGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG actctttgaaattggaaaaacagtgaaggtacacgtgtgggctattttagGACATGTTATGGTCAATCGGACCTATCTCACCAATCCCAGTCAATGTGAG-CCTAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAGgtaagttatgatataccttcttaatgagaaggtgtgtcagatacagcatt Alignment from Exonerate_protein2genome GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG actctttgaaattggaaaaacagtgaaggtacacgtgtgggctattttagGACATGTTATGGTCAATCGGACCTATCTCACCAATCCCAGTCAATGTGAGCCTAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAGgtaagttatgatataccttcttaatgagaaggtgtgtcagatacagcatt Alignment from Exonerate_coding2genome GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGC actctttgaaattggaaaaacagtgaaggtacacgtgtgggctattttaggacatgttatggtcaatcggacctatctcaccaatcccagtcaatgtgagcctagtcctgtagatgctgcagttccagcagtccctatagGTAAGTTATGATATACCTTCTTAATGAGAAGGTGTGTCAGATACAGCATT Alignment from GeneWise GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG actctttgaaattggaaaaacagtgaaggtacacgtgtgggctattttagGACATGTTATGGTCAATCGGACCTATCTCACCAATCCCAGTCAATGTGAGCCTAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAGgtaagttatgatataccttcttaatgagaaggtgtgtcagatacagcatt #### Pcx_ID566_15 --> 0 - 1 Original Alignment GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAG-CCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAg tctccatctttggatcatagctgaggatccatctcttgtgtcacctctagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGCTCCCTGTGGGACCGATCACCTGACCTTCCTCTTCACATCCATACCCACGATACTTTAGGAGCAGGTGTTGCAGCCACCCTAGCTTGCTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCCAAGTATGGGGGCATTAGTAACCTGCA-AAAGGGGACTCCCTCTGAAACAggtaccgaagaagagttgctacaataacataatactactcccatctaatgg Alignment from CESAR GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAG-CCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAg tctccatctttggatcatagctgaggatccatctcttgtgtcacctctagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGCTCCCTGTGGGACCGATCACCTGACCTTCCTCTTCACATCCATACCCACGATACTTTAGGAGCAGGTGTTGCAGCCACCCTAGCTTGCTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCCAAGTATGGGGGCATTAGTAACCTGC-AAAAGGGGACTCCCTCTGAAACAggtaccgaagaagagttgctacaataacataatactactcccatctaatgg Alignment from Spaln_aa2Genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGAC---GTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCA-AGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTG------------GACACAG tctccatctttggatcatagctgaggatccatctcttgtgtcacctctagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGCTCCCTGTGGGACCGATCACCTGACCTTCCTCTTCACATCCATACCCACGATACTTTAGGAGCAGGTGTTGCAGCCACCCTAGCTTGCTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCCaAGTATGGGGGCATTAGTAACCTGCAAAAGGGGACTCCCTCTGAAACAGGTACCGAAGAAGAgttgctacaataacataatactactcccatctaatgg Alignment from Spaln_nt2Genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTGG---CAGTAGACTCCATGTCTGGGATGACCTCACAGCC-AAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG tctccatctttggatcatagctgaggatccatctcttgtgtcacctctagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGCTCCCTGTGGGACCGATCACCTGACCTTCCTCTTCACATCCATACCCACGATACTTTAGGAGCAGGTGTTGCAGCCACCCTAGCTTGCTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCCAAGTATGGGGGCATTAGTAACCTGCA-AAAGGGGACTCCCTCTGAAACAGgtaccgaagaagagttgctacaataacataatactactcccatctaatgg Alignment from Pairagon GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAG-CCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTC tctccatctttggatcatagctgaggatccatctcttgtgtcacctctagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGCTCCCTGTGGGACCGATCACCTGACCTTCCTCTTCACATCCATACCCACGATACTTTAGGAGCAGGTGTTGCAGCCACCCTAGCTTGCTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCCAAGTATGGGGGC----------------------ATTAgtaacctgcaaaaggggactccctctgaaacaggtaccgaagaagagttgctacaataacataatactactcccatctaatgg Alignment from Exonerate_protein2genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGAC---GTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG tctccatctttggatcatagctgaggatccatctcttgtgtcacctctagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGCTCCCTGTGGGACCGATCACCTGACCTTCCTCTTCACATCCATACCCACGATACTTTAGGAGCAGGTGTTGCAGCCACCCTAGCTTGCTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCCAAGTATGGGGGCATTAGTAACCTGCAAAAGGGGACTCCCTCTGAAACAGgtaccgaagaagagttgctacaataacataatactactcccatctaatgg Alignment from Exonerate_coding2genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGAC---GTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG tctccatctttggatcatagctgaggatccatctcttgtgtcacctctagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGCTCCCTGTGGGACCGATCACCTGACCTTCCTCTTCACATCCATACCCACGATACTTTAGGAGCAGGTGTTGCAGCCACCCTAGCTTGCTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCCAAGTATGGGGGCATTAGTAACCTGCAAAAGGGGACTCCCTCTGAAACAGgtaccgaagaagagttgctacaataacataatactactcccatctaatgg Alignment from GeneWise GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG tctccatctttggatcatagctgaggatccatctcttgtgtcacctctagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGCTCCCTGTGGGACCGATCACCTGACCTTCCTCTTCACATCCATACCCACGATACTTTAGGAGCAGGTGTTGCAGCCACCCTAGCTTGCTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCCAAGTATGGGGGCATTAGTAACCTGCAAAAGGGGACTCCCTCTGAAACAGgtaccgaagaagagttgctacaataacataatactactcccatctaatgg #### Pcx_ID568_17 --> 0 - 0 Original Alignment GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAG-CTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctggtgcacttgcagaagccttgctttattctgtttgctttagGTAAAGCCATCTTCCAAGATCTTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGGACTGAAACAGAAGCTCAAGCAGAGGAGCCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGGGACATA-TGGTATCCCACAAGGAGGCTTCCCCAAGCCATTTCATTCTAAAgtagattaggttgatgtgggtgtaaatcagtctttaaaactccaattgta Alignment from CESAR GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAG-CTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctggtgcacttgcagaagccttgctttattctgtttgctttagGTAAAGCCATCTTCCAAGATCTTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGGACTGAAACAGAAGCTCAAGCAGAGGAGCCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGGGACATA-TGGTATCCCACAAGGAGGCTTCCCCAAGCCATTTCATTCTAAAgtagattaggttgatgtgggtgtaaatcagtctttctgtggtggatgtgt Alignment from Spaln_aa2Genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctggtgcacttgcagaagccttgctttattctgtttgctttagGTAAAGCCATCTTCCAAGATCTTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGGACTGAAACAGAAGCTCAAGCAGAGGAGCCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGGGACATATGGTATCCCACAAGGAGGCTTCCCCAAGCCATTTCATTCTAAAgtagattaggttgatgtgggtgtaaatcagtctttaaaactccaattgta Alignment from Spaln_nt2Genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGC-TGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACAT-TGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctggtgcacttgcagaagccttgctttattctgtttgctttagGTAAAGCCATCTTCCAAGATCTTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGGACTGAAACAGAAGCTCAAGCAGAGGAGCCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGGG--ACATATGGTATCCCACAAGGAGGCTTCCCCAAGCCATTTCATTCTAAAgtagattaggttgatgtgggtgtaaatcagtctttaaaactccaattgta Alignment from Pairagon GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAG-CTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACAT-TGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTA---------------------------------------------------- tacttctctggtgcacttgcagaagccttgctttattctgtttgctttagGTAAAGCCATCTTCCAAGATCTTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGGACTGAAACAGAAGCTCAAGCAGAGGAGCCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGGG--ACATATGGTATCCCACAAGGAGGCTTCCCCAAGCCATTTCATTCTAAAGTAGATTAGGTTGATGTGGGTGTAAATCAGTCTTTAAAACTCCAATTGTA Alignment from Exonerate_protein2genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctggtgcacttgcagaagccttgctttattctgtttgctttagGTAAAGCCATCTTCCAAGATCTTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGGACTGAAACAGAAGCTCAAGCAGAGGAGCCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGGGACATATGGTATCCCACAAGGAGGCTTCCCCAAGCCATTTCATTCTAAAgtagattaggttgatgtgggtgtaaatcagtctttaaaactccaattgta Alignment from Exonerate_coding2genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctggtgcacttgcagaagccttgctttattctgtttgctttagGTAAAGCCATCTTCCAAGATCTTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGGACTGAAACAGAAGCTCAAGCAGAGGAGCCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGGGACATATGGTATCCCACAAGGAGGCTTCCCCAAGCCATTTCATTCTAAAgtagattaggttgatgtgggtgtaaatcagtctttaaaactccaattgta Alignment from GeneWise GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctggtgcacttgcagaagccttgctttattctgtttgctttagGTAAAGCCATCTTCCAAGATCTTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGGACTGAAACAGAAGCTCAAGCAGAGGAGCCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGGGACATATGGTATCCCACAAGGAGGCTTCCCCAAGCCATTTCATTCTAAAgtagattaggttgatgtgggtgtaaatcagtctttaaaactccaattgta #### Pcx_ID569_18 --> 0 - 0 Original Alignment GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCT-GGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttgatgtgggtgtaaatcagtctttctgtggtggatgtgtttttcagGTGCTAAAGGACCTCCCAAGAATTGAAGGAAGGCCACGGAGCCTCGTTACCTCCCTTGAACCTGG-GGAGTTGGATAAGGGTCTGATTGATAGACATGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCAGCTATGTACCCATAT------ACCCAATTCAAAGACTTCACAGCTACTTTCAGC---CTTCATAGCCTAAATACAAGTCTATTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtgagtggtttctatgcctatgtctacactctccatggggcttatagtaa Alignment from CESAR GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCT-GGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttgatgtgggtgtaaatcagtctttctgtggtggatgtgtttttcagGTGCTAAAGGACCTCCCAAGAATTGAAGGAAGGCCACGGAGCCTCGTTACCTCCCTTGAACCTG-GGGAGTTGGATAAGGGTCTGATTGATAGACATGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCAGCTATGTACCCA------TATACCCAATTCAAAGACTTCACAGCTACTTTCAGC---CTTCATAGCCTAAATACAAGTCTATTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtgagtggtttctatgcctatgtctacactctccatggggcttatagtaa Alignment from Spaln_aa2Genome GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttgatgtgggtgtaaatcagtctttctgtggtggatgtgtttttcagGTGCTAAAGGACCTCCCAAGAATTGAAGGAAGGCCACGGAGCCTCGTTACCTCCCTTGAACCTGGGGAGTTGGATAAGGGTCTGATTGATAGACATGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCAGCTATGTACCCA------TATACCCAATTCAAAGACTTCACAGCTACTTTC---AGCCTTCATAGCCTAAATACAAGTCTATTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtgagtggtttctatgcctatgtctacactctccatggggcttatagtaa Alignment from Spaln_nt2Genome GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCT-GGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttgatgtgggtgtaaatcagtctttctgtggtggatgtgtttttcagGTGCTAAAGGACCTCCCAAGAATTGAAGGAAGGCCACGGAGCCTCGTTACCTCCCTTGAACCTG-GGGAGTTGGATAAGGGTCTGATTGATAGACATGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCAGCTATGTACCC------ATATACCCAATTCAAAGACTTCACAGCTACTTTCAG---CCTTCATAGCCTAAATACAAGTCTATTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtgagtggtttctatgcctatgtctacactctccatggggcttatagtaa Alignment from Pairagon GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCC-TGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttgatgtgggtgtaaatcagtctttctgtggtggatgtgtttttcagGTGCTAAAGGACCTCCCAAGAATTGAAGGAAGGCCACGGAGCCTCGTTACCTCCCTTGAACCTG-GGGAGTTGGATAAGGGTCTGATTGATAGACATGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCAGCTATGTACCC------ATATACCCAATTCAAAGACTTCACAGCTACTTTCAGCCTTC---ATAGCCTAAATACAAGTCTATTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtgagtggtttctatgcctatgtctacactctccatggggcttatagtaa Alignment from Exonerate_protein2genome GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttgatgtgggtgtaaatcagtctttctgtggtggatgtgtttttcagGTGCTAAAGGACCTCCCAAGAATTGAAGGAAGGCCACGGAGCCTCGTTACCTCCCTTGAACCTGGGGAGTTGGATAAGGGTCTGATTGATAGACATGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCAGCTATGTACCCA------TATACCCAATTCAAAGACTTCACAGCTACTTTCAGC---CTTCATAGCCTAAATACAAGTCTATTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtgagtggtttctatgcctatgtctacactctccatggggcttatagtaa Alignment from Exonerate_coding2genome GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttgatgtgggtgtaaatcagtctttctgtggtggatgtgtttttcagGTGCTAAAGGACCTCCCAAGAATTGAAGGAAGGCCACGGAGCCTCGTTACCTCCCTTGAACCTGGGGAGTTGGATAAGGGTCTGATTGATAGACATGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCAGCTATGTACCCA------TATACCCAATTCAAAGACTTCACAGCTACTTTCAGC---CTTCATAGCCTAAATACAAGTCTATTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtgagtggtttctatgcctatgtctacactctccatggggcttatagtaa Alignment from GeneWise GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttgatgtgggtgtaaatcagtctttctgtggtggatgtgtttttcagGTGCTAAAGGACCTCCCAAGAATTGAAGGAAGGCCACGGAGCCTCGTTACCTCCCTTGAACCTGGGGAGTTGGATAAGGGTCTGATTGATAGACATGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCAGCTATGTACCCA------TATACCCAATTCAAAGACTTCACAGCTACTTTCAGC---CTTCATAGCCTAAATACAAGTCTATTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtgagtggtttctatgcctatgtctacactctccatggggcttatagtaa #### Pcx_ID570_19 --> 0 - 0 Original Alignment GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGC-GACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG GAGATGCA gaacatcatgcacccaattttgaaggagagctcaactgtatttctcccagGTTAAGCTAGAACAAGGAAAAACACTGCACATTAAAGCATTAGCTATAAGTCGACCTGAACCGCACTGGCCAGAGACAGG-GTTTTTTGAACTCAATGGCCAGCTTCGATCAATTTTGGTCAAAGACACGCAGGCCATGAAGgtaagaccaagtttgatttgttttgtgtttggttttctttagGAAATGCA Alignment from CESAR GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGC-GACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG GAGATGCA gaacatcatgcacccaattttgaaggagagctcaactgtatttctcccagGTTAAGCTAGAACAAGGAAAAACACTGCACATTAAAGCATTAGCTATAAGTCGACCTGAACCGCACTGGCCAGAGACAG-GGTTTTTTGAACTCAATGGCCAGCTTCGATCAATTTTGGTCAAAGACACGCAGGCCATGAAGgtaagaccaagtttgatttgatccccctaccactccccgcagGAAATGCA Alignment from Spaln_aa2Genome GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG GAGATGCA gaacatcatgcacccaattttgaaggagagctcaactgtatttctcccagGTTAAGCTAGAACAAGGAAAAACACTGCACATTAAAGCATTAGCTATAAGTCGACCTGAACCGCACTGGCCAGAGACAGGGTTTTTTGAACTCAATGGCCAGCTTCGATCAATTTTGGTCAAAGACACGCAGGCCATGAAGgtaagaccaagtttgatttgttttgtgtttggttttctttagGAAATGCA Alignment from Spaln_nt2Genome GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAG-CGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG GAGATGCA gaacatcatgcacccaattttgaaggagagctcaactgtatttctcccagGTTAAGCTAGAACAAGGAAAAACACTGCACATTAAAGCATTAGCTATAAGTCGACCTGAACCGCACTGGCCAGAGACAGG-GTTTTTTGAACTCAATGGCCAGCTTCGATCAATTTTGGTCAAAGACACGCAGGCCATGAAGgtaagaccaagtttgatttgttttgtgtttggttttctttagGAAATGCA Alignment from Pairagon GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAG-CGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG GAGATGCA gaacatcatgcacccaattttgaaggagagctcaactgtatttctcccagGTTAAGCTAGAACAAGGAAAAACACTGCACATTAAAGCATTAGCTATAAGTCGACCTGAACCGCACTGGCCAGAGACAGG-GTTTTTTGAACTCAATGGCCAGCTTCGATCAATTTTGGTCAAAGACACGCAGGCCATGAAGgtaagaccaagtttgatttgttttgtgtttggttttctttagGAAATGCA Alignment from Exonerate_protein2genome GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG GAGATGCA gaacatcatgcacccaattttgaaggagagctcaactgtatttctcccagGTTAAGCTAGAACAAGGAAAAACACTGCACATTAAAGCATTAGCTATAAGTCGACCTGAACCGCACTGGCCAGAGACAGGGTTTTTTGAACTCAATGGCCAGCTTCGATCAATTTTGGTCAAAGACACGCAGGCCATGAAGgtaagaccaagtttgatttgttttgtgtttggttttctttagGAAATGCA Alignment from Exonerate_coding2genome GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG GAGATGCA gaacatcatgcacccaattttgaaggagagctcaactgtatttctcccagGTTAAGCTAGAACAAGGAAAAACACTGCACATTAAAGCATTAGCTATAAGTCGACCTGAACCGCACTGGCCAGAGACAGGGTTTTTTGAACTCAATGGCCAGCTTCGATCAATTTTGGTCAAAGACACGCAGGCCATGAAGgtaagaccaagtttgatttgttttgtgtttggttttctttagGAAATGCA Alignment from GeneWise GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG GAGATGCA gaacatcatgcacccaattttgaaggagagctcaactgtatttctcccagGTTAAGCTAGAACAAGGAAAAACACTGCACATTAAAGCATTAGCTATAAGTCGACCTGAACCGCACTGGCCAGAGACAGGGTTTTTTGAACTCAATGGCCAGCTTCGATCAATTTTGGTCAAAGACACGCAGGCCATGAAGgtaagaccaagtttgatttgttttgtgtttggttttctttagGAAATGCA #### Pdcd11_ID10111_5 --> 0 - 1 Original Alignment CTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGCTACCTAGTGGACATTGGCGTTGGTGGGACCAGA-GCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAg catgtcttctgttagaaacatccaaaagtccctttctcctctgtctccagCTCCTGACAGGAACAGTTTCTAGCCTCGAAGACCATGGCTACCTTGTGGGCATTGGTGTTGGCGCAACTAGACGCCTTTCTATTACTGAAGAAGGCACAAGAGTACA-TCGACAGAAGAACAAAggtatggcatcataaccttagtccttgtgtttcgggttagtagttcttatt Alignment from CESAR CTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGCTACCTAGTGGACATTGGCGTTGGTGGGACCAGA-GCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAg catgtcttctgttagaaacatccaaaagtccctttctcctctgtctccagCTCCTGACAGGAACAGTTTCTAGCCTCGAAGACCATGGCTACCTTGTGGGCATTGGTGTTGGCGCAACTAGACGCCTTTCTATTACTGAAGAAGGCACAAGAGTACA-TCGACAGAAGAACAAAggtatggcatcataaccttagtccttgtgtttcgggttagtagttcttatt Alignment from Spaln_aa2Genome CTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGCTACCTAGTGGACATTGGCGTTGGTGGGACCAGA-GCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAG catgtcttctgttagaaacatccaaaagtccctttctcctctgtctccagCTCCTGACAGGAACAGTTTCTAGCCTCGAAGACCATGGCTACCTTGTGGGCATTGGTGTTGGCGCAACTAGAcGCCTTTCTATTACTGAAGAAGGCACAAGAGTACATCGA-CAGAAGAACAAAGgtatggcatcataaccttagtccttgtgtttcgggttagtagttcttatt Alignment from Spaln_nt2Genome CATGCTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGCTACCTAGTGGACATTGGCGTTGGTGGGACCAGA-GCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAG catgtcttctgttagaaacatccaaaagtccctttctcctctgtctccag----CTCCTGACAGGAACAGTTTCTAGCCTCGAAGACCATGGCTACCTTGTGGGCATTGGTGTTGGCGCAACTAGACGCCTTTCTATTACTGAAGAAGGCACAAGAGTACAT-CGACAGAAGAACAAAGgtatggcatcataaccttagtccttgtgtttcgggttagtagttcttatt Alignment from Pairagon CTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGCTACCTAGTGGACATTGGCGTTGGTGGGACCAGA-GCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAG catgtcttctgttagaaacatccaaaagtccctttctcctctgtctccagCTCCTGACAGGAACAGTTTCTAGCCTCGAAGACCATGGCTACCTTGTGGGCATTGGTGTTGGCGCAACTAGACGCCTTTCTATTACTGAAGAAGGCACAAGAGTACAT-CGACAGAAGAACAAAGgtatggcatcataaccttagtccttgtgtttcgggttagtagttcttatt Alignment from Exonerate_protein2genome CTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGCTACCTAGTGGACATTGGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAG catgtcttctgttagaaacatccaaaagtccctttctcctctgtctccagCTCCTGACAGGAACAGTTTCTAGCCTCGAAGACCATGGCTACCTTGTGGGCATTGGTGTTGGCGCAACTAGACGCCTTTCTATTACTGAAGAAGGCACAAGAGTACATCGACAGAAGAACAAAGgtatggcatcataaccttagtccttgtgtttcgggttagtagttcttatt Alignment from Exonerate_coding2genome catgtcttctgttagaaacatccaaaagtccctttctcctctgtctccagctcctgacaggaacagtttctagcctcgaagaccatggctaccttgtgggcattggtgttggcgcaactagacgcctttctattactgaagaaggcacaagagtacatcgacagaagaacaaaggtatggcatcataaccttagtccttgtgtttcgggttagtagttcttatt Alignment from GeneWise CTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGCTACCTAGTGGACATTGGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAG catgtcttctgttagaaacatccaaaagtccctttctcctctgtctccagCTCCTGACAGGAACAGTTTCTAGCCTCGAAGACCATGGCTACCTTGTGGGCATTGGTGTTGGCGCAACTAGACGCCTTTCTATTACTGAAGAAGGCACAAGAGTACATCGACAGAAGAACAAAGgtatggcatcataaccttagtccttgtgtttcgggttagtagttcttatt #### Pdcd11_ID10112_6 --> 2 - 0 Original Alignment gtGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGTCTCTCTGTAGAGCACTCCGAG-GTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG aggatctgcttggcatctggtgacaccaagaacccctttactttcattaggtGCTAAGTTCAAAGTTGGCCAATATCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGTGGTGTTGTGAGTCTCTCTGTGGATCGCTCTGTGCATCTCATTAGTCTTTACAACAGAAGACCAAAGTTGGAACC-CAATAACTTACTACCAGGATTACTAGTTAAAGCCCAAGTACAGAAGgtgaggtcctcactaacgaatgggaaatgggagaggagagagtagagtca Alignment from CESAR gtGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGTCTCTCTGTAGAGCACTCCGAG-GTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG aggatctgcttggcatctggtgacaccaagaacccctttactttcattaggtGCTAAGTTCAAAGTTGGCCAATATCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGTGGTGTTGTGAGTCTCTCTGTGGATCGCTCTGTGCATCTCATTAGTCTTTACAACAGAAGACCAAAGTTGGAAC-CCAATAACTTACTACCAGGATTACTAGTTAAAGCCCAAGTACAGAAGgtgaggtcctcactaacgaatgggaaatgggagaggagagagtagagtca Alignment from Spaln_aa2Genome GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG aggatctgcttggcatctggtgacaccaagaacccctttactttcattagGTGCTAAGTTCAAAGTTGGCCAATATCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGTGGTGTTGTGAGTCTCTCTGTGGATCGCTCTGTGCATCTCATTAGTCTTTACAACAGAAGACCAAAGTTGGAACCCAATAACTTACTACCAGGATTACTAGTTAAAGCCCAAGTACAGAAGgtgaggtcctcactaacgaatgggaaatgggagaggagagagtagagtca Alignment from Spaln_nt2Genome GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGTCTCTCTGTAGAGCACTCCGAGGTT-TCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG aggatctgcttggcatctggtgacaccaagaacccctttactttcattagGTGCTAAGTTCAAAGTTGGCCAATATCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGTGGTGTTGTGAGTCTCTCTGTGGATCGCTCTGTGCATCTCATTAGTCTTTACAACAGAAGACCAAAGTTGGAACC-CAATAACTTACTACCAGGATTACTAGTTAAAGCCCAAGTACAGAAGgtgaggtcctcactaacgaatgggaaatgggagaggagagagtagagtca Alignment from Pairagon GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCG------------------------CAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG aggatctgcttggcatctggtgacaccaagaacccctttactttcattagGTGCTAAGTTCAAAGTTGGCCAATATCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGTGGTGTTGTGAGTCTCTCTGTGGA-----------------------TCGCTCTGTGCATCTCATTAGTCTTTACAACAGAAGACCAAAGTTGGAACCC-AATAACTTACTACCAGGATTACTAGTTAAAGCCCAAGTACAGAAGgtgaggtcctcactaacgaatgggaaatgggagaggagagagtagagtca Alignment from Exonerate_protein2genome GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG aggatctgcttggcatctggtgacaccaagaacccctttactttcattagGTGCTAAGTTCAAAGTTGGCCAATATCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGTGGTGTTGTGAGTCTCTCTGTGGATCGCTCTGTGCATCTCATTAGTCTTTACAACAGAAGACCAAAGTTGGAACCCAATAACTTACTACCAGGATTACTAGTTAAAGCCCAAGTACAGAAGgtgaggtcctcactaacgaatgggaaatgggagaggagagagtagagtca Alignment from Exonerate_coding2genome aggatctgcttggcatctggtgacaccaagaacccctttactttcattaggtgctaagttcaaagttggccaatatctaacttgtgtagtcaaggaggtgaagagtaatggtggtgttgtgagtctctctgtggatcgctctgtgcatctcattagtctttacaacagaagaccaaagttggaacccaataacttactaccaggattactagttaaagcccaagtacagaaggtgaggtcctcactaacgaatgggaaatgggagaggagagagtagagtca Alignment from GeneWise GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG aggatctgcttggcatctggtgacaccaagaacccctttactttcattagGTGCTAAGTTCAAAGTTGGCCAATATCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGTGGTGTTGTGAGTCTCTCTGTGGATCGCTCTGTGCATCTCATTAGTCTTTACAACAGAAGACCAAAGTTGGAACCCAATAACTTACTACCAGGATTACTAGTTAAAGCCCAAGTACAGAAGgtgaggtcctcactaacgaatgggaaatgggagaggagagagtagagtca #### Pdcd11_ID10113_7 --> 0 - 0 Original Alignment GTAACTCAGTTTGGACTCCAGCTAAATTTCCTTACGTTCTTCAAGGGC-CTGGTTGACTTCATGCATCTGGAGCCCAAGAAAATGGGATCTTATTCTTCAAATCAAACG atagtgcctttgatgacttattttgtctgctcataattttctttcattagGTGACCCAGTTTGGGCTCCAGTTAAATTTCCTCATGTTCTTCAGGAGTCCTAGTGGATTTTATGCATTCAGAGCCCAAGA-AATGGGATCATATTCTCCAAATCAAATGgtaaggaatctcctgggtgtttccacactgttaccccttcactaagccat Alignment from CESAR GTAACTCAGTTTGGACTCCAGCTAAATTTCCTTACGTTCTTCAAGGGC-CTGGTTGACTTCATGCATCTGGAGCCCAAGAAAATGGGATCTTATTCTTCAAATCAAACG atagtgcctttgatgacttattttgtctgctcataattttctttcattagGTGACCCAGTTTGGGCTCCAGTTAAATTTCCTCATGTTCTTCAGGAGTCCTAGTGGATTTTATGCATTCAGAGCCCAAGA-AATGGGATCATATTCTCCAAATCAAATGgtaaggaatctcctgggtgtttccacactgttaccccttcactaagccat Alignment from Spaln_aa2Genome GTAACTCAGTTTGGACTCCAGCTAAATTTCCTTACGTTCTTCAAGGGCCTGGTTGACTTCATGCATCTGGAGCCCAAGAAAATGGGATCTTATTCTTCAAATCAAACG atagtgcctttgatgacttattttgtctgctcataattttctttcattagGTGACCCAGTTTGGGCTCCAGTTAAATTTCCTCATGTTCTTCAGGAGTCCTAGTGGATTTTATGCATTCAGAGCCCAAGAAATGGGATCATATTCTCCAAATCAAATGgtaaggaatctcctgggtgtttccacactgttaccccttcactaagccat Alignment from Spaln_nt2Genome GTAACTCAGTTTGGACTCCAGCTAAATTTCCTTACGTTCTTCAAGGG-CCTGGTTGACTTCATGCATCTGGAGCCCAAGAAAATGGGATCTTATTCTTCAAATCAAACG atagtgcctttgatgacttattttgtctgctcataattttctttcattagGTGACCCAGTTTGGGCTCCAGTTAAATTTCCTCATGTTCTTCAGGAGTCCTAGTGGATTTTATGCATTCAGAGCCCAAG-AAATGGGATCATATTCTCCAAATCAAATGgtaaggaatctcctgggtgtttccacactgttaccccttcactaagccat Alignment from Pairagon GTAACTCAGTTTGGACTCCAGCTAAATTTCCTTACGTTCTTCAAGGG-CCTGGTTGACTTCATGCATCTGGAGCCCAAGAAAATGGGATCTTATTCTTCAAATCAAACG atagtgcctttgatgacttattttgtctgctcataattttctttcattagGTGACCCAGTTTGGGCTCCAGTTAAATTTCCTCATGTTCTTCAGGAGTCCTAGTGGATTTTATGCATTCAGAGCCCAAG-AAATGGGATCATATTCTCCAAATCAAATGgtaaggaatctcctgggtgtttccacactgttaccccttcactaagccat Alignment from Exonerate_protein2genome GTAACTCAGTTTGGACTCCAGCTAAATTTCCTTACGTTCTTCAAGGGCCTGGTTGACTTCATGCATCTGGAGCCCAAGAAAATGGGATCTTATTCTTCAAATCAAACG atagtgcctttgatgacttattttgtctgctcataattttctttcattagGTGACCCAGTTTGGGCTCCAGTTAAATTTCCTCATGTTCTTCAGGAGTCCTAGTGGATTTTATGCATTCAGAGCCCAAGAAATGGGATCATATTCTCCAAATCAAATGgtaaggaatctcctgggtgtttccacactgttaccccttcactaagccat Alignment from Exonerate_coding2genome atagtgcctttgatgacttattttgtctgctcataattttctttcattaggtgacccagtttgggctccagttaaatttcctcatgttcttcaggagtcctagtggattttatgcattcagagcccaagaaatgggatcatattctccaaatcaaatggtaaggaatctcctgggtgtttccacactgttaccccttcactaagccat Alignment from GeneWise GTAACTCAGTTTGGACTCCAGCTAAATTTCCTTACGTTCTTCAAGGGCCTGGTTGACTTCATGCATCTGGAGCCCAAGAAAATGGGATCTTATTCTTCAAATCAAACG atagtgcctttgatgacttattttgtctgctcataattttctttcattagGTGACCCAGTTTGGGCTCCAGTTAAATTTCCTCATGTTCTTCAGGAGTCCTAGTGGATTTTATGCATTCAGAGCCCAAGAAATGGGATCATATTCTCCAAATCAAATGgtaaggaatctcctgggtgtttccacactgttaccccttcactaagccat #### Pdcd11_ID10134_28 --> 1 - 0 Original Alignment cGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCT-GAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctgaaacattctatttgccttctcaccgcgcgccgtccccagcATCAACCCCACAAAGAACTTGAGAGAGTTATCCCTCCTTCCAGGTGATACTGGGAGGCAAGATGTTTCCCCCCCTGCCCCAGAACCAGAACAAGAAGAGGGCAGTGGAGGGGCTCGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGA-GCGGGATGAGAAGGAGGAACCACAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaaggcaggcagtgtgtattgtgttttgttatgggacagctttgttgct Alignment from CESAR cGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCT-GAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctgaaacattctatttgccttctcaccgcgcgccgtccccagcATCAACCCCACAAAGAACTTGAGAGAGTTATCCCTCCTTCCAGGTGATACTGGGAGGCAAGATGTTTCCCCCCCTGCCCCAGAACCAGAACAAGAAGAGGGCAGTGGAGGGGCTCGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAG-AGCGGGATGAGAAGGAGGAACCACAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaaggcaggcagtgtgtattgtgttttgttatgggacagctttgttgct Alignment from Spaln_aa2Genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctgaaacattctatttgccttctcaccgcgcgccgtccccagCATCAACCCCACAAAGAACTTGAGAGAGTTATCCCTCCTTCCAGGTGATACTGGGAGGCAAGATGTTTCCCCCCCTGCCCCAGAACCAGAACAAGAAGAGGGCAGTGGAGGGGCTCGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGCGGGATGAGAAGGAGGAACCACAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaaggcaggcagtgtgtattgtgttttgttatgggacagctttgttgct Alignment from Spaln_nt2Genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCT-GAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctgaaacattctatttgccttctcaccgcgcgccgtccccagCATCAACCCCACAAAGAACTTGAGAGAGTTATCCCTCCTTCCAGGTGATACTGGGAGGCAAGATGTTTCCCCCCCTGCCCCAGAACCAGAACAAGAAGAGGGCAGTGGAGGGGCTCGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAG-CGGGATGAGAAGGAGGAACCACAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaaggcaggcagtgtgtattgtgttttgttatgggacagctttgttgct Alignment from Pairagon CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCT-GAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctgaaacattctatttgccttctcaccgcgcgccgtccccagCATCAACCCCACAAAGAACTTGAGAGAGTTATCCCTCCTTCCAGGTGATACTGGGAGGCAAGATGTTTCCCCCCCTGCCCCAGAACCAGAACAAGAAGAGGGCAGTGGAGGGGCTCGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAG-CGGGATGAGAAGGAGGAACCACAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaaggcaggcagtgtgtattgtgttttgttatgggacagctttgttgct Alignment from Exonerate_protein2genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctgaaacattctatttgccttctcaccgcgcgccgtccccagCATCAACCCCACAAAGAACTTGAGAGAGTTATCCCTCCTTCCAGGTGATACTGGGAGGCAAGATGTTTCCCCCCCTGCCCCAGAACCAGAACAAGAAGAGGGCAGTGGAGGGGCTCGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGCGGGATGAGAAGGAGGAACCACAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaaggcaggcagtgtgtattgtgttttgttatgggacagctttgttgct Alignment from Exonerate_coding2genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctgaaacattctatttgccttctcaccgcgcgccgtccccagCATCAACCCCACAAAGAACTTGAGAGAGTTATCCCTCCTTCCAGGTGATACTGGGAGGCAAGATGTTTCCCCCCCTGCCCCAGAACCAGAACAAGAAGAGGGCAGTGGAGGGGCTCGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGCGGGATGAGAAGGAGGAACCACAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaaggcaggcagtgtgtattgtgttttgttatgggacagctttgttgct Alignment from GeneWise CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctgaaacattctatttgccttctcaccgcgcgccgtccccagCATCAACCCCACAAAGAACTTGAGAGAGTTATCCCTCCTTCCAGGTGATACTGGGAGGCAAGATGTTTCCCCCCCTGCCCCAGAACCAGAACAAGAAGAGGGCAGTGGAGGGGCTCGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGCGGGATGAGAAGGAGGAACCACAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaaggcaggcagtgtgtattgtgttttgttatgggacagctttgttgct #### Pdcd11_ID10137_31 --> 0 - 2 Original Alignment AAGAAGAAGGGCAAG-AAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCag tcttatcttgttcaacggggttggagctgctctgactctttcctttccagAAGAAGAAAGGCAAACAAAGAAAGGGAACTGGAGAAGCAAAAATTGAAGAAAG-GCTGTCACGCATTGAAAAGGCACTAATGGACCCTTGGCGACAACCAGAGTCTGCTGATGAATCTGACCAGCTGGTGCTAAGTTTCCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACGACAGAGATTGAGCGGGCCCGGGCTGTAGCTGAGAGGGCTTTGAAGACCATCACATTCcggtaagaggtccaggtcttctgcagttcaaaaggatgaggagttctcagcc Alignment from CESAR AAGAAGAAGGGCAAG-AAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCag tcttatcttgttcaacggggttggagctgctctgactctttcctttccagAAGAAGAAAGGCAAACAAAGAAAGGGAACTGGAGAAGCAAAAATTGAAGAAA-GGCTGTCACGCATTGAAAAGGCACTAATGGACCCTTGGCGACAACCAGAGTCTGCTGATGAATCTGACCAGCTGGTGCTAAGTTTCCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACGACAGAGATTGAGCGGGCCCGGGCTGTAGCTGAGAGGGCTTTGAAGACCATCACATTCcggtaagaggtccaggtcttctgcagttcaaaaggatgaggagttctcagcc Alignment from Spaln_aa2Genome AAGAAGAAGGGCAAG-AAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCAG tcttatcttgttcaacggggttggagctgctctgactctttcctttccagAAGAAGAAAGGCAAAcAAAGAAAGGGAACTGGAGAAGCAAAAATTGAAGAAAGG-CTGTCACGCATTGAAAAGGCACTAATGGACCCTTGGCGACAACCAGAGTCTGCTGATGAATCTGACCAGCTGGTGCTAAGTTTCCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACGACAGAGATTGAGCGGGCCCGGGCTGTAGCTGAGAGGGCTTTGAAGACCATCACATTCCGgtaagaggtccaggtcttctgcagttcaaaaggatgaggagttctcagcc Alignment from Spaln_nt2Genome AAGAAGAAGGGCAAG-AAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCAG tcttatcttgttcaacggggttggagctgctctgactctttcctttccagAAGAAGAAAGGCAAACAAAGAAAGGGAACTGGAGAAGCAAAAATTGAAGAAAG-GCTGTCACGCATTGAAAAGGCACTAATGGACCCTTGGCGACAACCAGAGTCTGCTGATGAATCTGACCAGCTGGTGCTAAGTTTCCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACGACAGAGATTGAGCGGGCCCGGGCTGTAGCTGAGAGGGCTTTGAAGACCATCACATTCCGgtaagaggtccaggtcttctgcagttcaaaaggatgaggagttctcagcc Alignment from Pairagon AAGAAGAAGGGCAAG-AAGGAGAGGGAGCTGGAGAAGCA------GAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCAG tcttatcttgttcaacggggttggagctgctctgactctttcctttccagAAGAAGAAAGGCAAACAAAGAAAGGGAACTGGAGAAGCAAAAATTGAAGAAAG-------GCTGTCACGCATTGAAAAGGCACTAATGGACCCTTGGCGACAACCAGAGTCTGCTGATGAATCTGACCAGCTGGTGCTAAGTTTCCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACGACAGAGATTGAGCGGGCCCGGGCTGTAGCTGAGAGGGCTTTGAAGACCATCACATTCCGgtaagaggtccaggtcttctgcagttcaaaaggatgaggagttctcagcc Alignment from Exonerate_protein2genome AAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCAG tcttatcttgttcaacggggttggagctgctctgactctttcctttccagAAGAAGAAAGGCAAACAAAGAAAGGGAACTGGAGAAGCAAAAATTGAAGAAAGGCTGTCACGCATTGAAAAGGCACTAATGGACCCTTGGCGACAACCAGAGTCTGCTGATGAATCTGACCAGCTGGTGCTAAGTTTCCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACGACAGAGATTGAGCGGGCCCGGGCTGTAGCTGAGAGGGCTTTGAAGACCATCACATTCCGgtaagaggtccaggtcttctgcagttcaaaaggatgaggagttctcagcc Alignment from Exonerate_coding2genome AAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCAG tcttatcttgttcaacggggttggagctgctctgactctttcctttccagAAGAAGAAAGGCAAACAAAGAAAGGGAACTGGAGAAGCAAAAATTGAAGAAAGGCTGTCACGCATTGAAAAGGCACTAATGGACCCTTGGCGACAACCAGAGTCTGCTGATGAATCTGACCAGCTGGTGCTAAGTTTCCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACGACAGAGATTGAGCGGGCCCGGGCTGTAGCTGAGAGGGCTTTGAAGACCATCACATTCCGgtaagaggtccaggtcttctgcagttcaaaaggatgaggagttctcagcc Alignment from GeneWise AAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCAG tcttatcttgttcaacggggttggagctgctctgactctttcctttccagAAGAAGAAAGGCAAACAAAGAAAGGGAACTGGAGAAGCAAAAATTGAAGAAAGGCTGTCACGCATTGAAAAGGCACTAATGGACCCTTGGCGACAACCAGAGTCTGCTGATGAATCTGACCAGCTGGTGCTAAGTTTCCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACGACAGAGATTGAGCGGGCCCGGGCTGTAGCTGAGAGGGCTTTGAAGACCATCACATTCCGgtaagaggtccaggtcttctgcagttcaaaaggatgaggagttctcagcc #### Pdcd11_ID10138_32 --> 1 - 0 Original Alignment aGAGGAGCAGGAGAAGCTGAACGTGTGG-GTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG tatgtgaatggtttccatgtaggtagattctcatatttcactgtgaataggGAGGAACAAGAGAAGCTAAATATATGGCGTAGCCCTATTAAATCTGGAAAACATGTACGGCTCCCAGG-ATCACTGACAAATGTTTTTGATCAAGCTGTCCAATACAATGAATCTCTTAAGGTTTTTCTGCACTTGGATGATATATACACCAAGTCCAAGAGATACAAGgtaagatgttggccacattatcaatgcagtttatcctgcacccttgcctt Alignment from CESAR aGAGGAGCAGGAGAAGCTGAACGTGTGG-GTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG tatgtgaatggtttccatgtaggtagattctcatatttcactgtgaataggGAGGAACAAGAGAAGCTAAATATATGGCGTAGCCCTATTAAATCTGGAAAACATGTACGGCTCCCAGG-ATCACTGACAAATGTTTTTGATCAAGCTGTCCAATACAATGAATCTCTTAAGGTTTTTCTGCACTTGGATGATATATACACCAAGTCCAAGAGATACAAGgtaagatgttggccacattatcaatgcagtttatcctgcacccttgcctt Alignment from Spaln_aa2Genome AGAGGAGCAGGAGAAGCTGAACGTGTGG-GTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG tatgtgaatggtttccatgtaggtagattctcatatttcactgtgaatagGGAGGAACAAGAGAAGCTAAATATATGGcGTAGCCCTATTAAATCTGGAAAACATGTACGGCTCCCAGGA-TCACTGACAAATGTTTTTGATCAAGCTGTCCAATACAATGAATCTCTTAAGGTTTTTCTGCACTTGGATGATATATACACCAAGTCCAAGAGATACAAGgtaagatgttggccacattatcaatgcagtttatcctgcacccttgcctt Alignment from Spaln_nt2Genome AGAGGAGCAGGAGAAGCTGAACGTGTGG-GTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG tatgtgaatggtttccatgtaggtagattctcatatttcactgtgaatagGGAGGAACAAGAGAAGCTAAATATATGGCGTAGCCCTATTAAATCTGGAAAACATGTACGGCTCCCAGGA-TCACTGACAAATGTTTTTGATCAAGCTGTCCAATACAATGAATCTCTTAAGGTTTTTCTGCACTTGGATGATATATACACCAAGTCCAAGAGATACAAGgtaagatgttggccacattatcaatgcagtttatcctgcacccttgcctt Alignment from Pairagon AGAGGAGCAGGAGAAGCTGAACGTGTGG-GTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG tatgtgaatggtttccatgtaggtagattctcatatttcactgtgaatagGGAGGAACAAGAGAAGCTAAATATATGGCGTAGCCCTATTAAATCTGGAAAACATGTACGGCTCCCAGGA-TCACTGACAAATGTTTTTGATCAAGCTGTCCAATACAATGAATCTCTTAAGGTTTTTCTGCACTTGGATGATATATACACCAAGTCCAAGAGATACAAGgtaagatgttggccacattatcaatgcagtttatcctgcacccttgcctt Alignment from Exonerate_protein2genome AGAGGAGCAGGAGAAGCTGAACGTGTGG-GTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAG--GAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG tatgtgaatggtttccatgtaggtagattctcatatttcactgtgaatagGGAGGAACAAGAGAAGCTAAATATATGGCGTAGCCCTATTAAATCTGGAAAACATGTACGGCTCCCAGGA---TCACTGACAAATGTTTTTGATCAAGCTGTCCAATACAATGAATCTCTTAAGGTTTTTCTGCACTTGGATGATATATACACCAAGTCCAAGAGATACAAGgtaagatgttggccacattatcaatgcagtttatcctgcacccttgcctt Alignment from Exonerate_coding2genome AGAGGAGCAGGAGAAGCTGAACGTGTGG-GTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAG--GAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG tatgtgaatggtttccatgtaggtagattctcatatttcactgtgaatagGGAGGAACAAGAGAAGCTAAATATATGGCGTAGCCCTATTAAATCTGGAAAACATGTACGGCTCCCAGGA---TCACTGACAAATGTTTTTGATCAAGCTGTCCAATACAATGAATCTCTTAAGGTTTTTCTGCACTTGGATGATATATACACCAAGTCCAAGAGATACAAGgtaagatgttggccacattatcaatgcagtttatcctgcacccttgcctt Alignment from GeneWise AGAGGAGCAGGAGAAGCTGAACGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG tatgtgaatggtttccatgtaggtagattctcatatttcactgtgaatagGGAGGAACAAGAGAAGCTAAATATATGGCGTAGCCCTATTAAATCTGGAAAACATGTACGGCTCCCAGGATCACTGACAAATGTTTTTGATCAAGCTGTCCAATACAATGAATCTCTTAAGGTTTTTCTGCACTTGGATGATATATACACCAAGTCCAAGAGATACAAGgtaagatgttggccacattatcaatgcagtttatcctgcacccttgcctt #### Pde6c_ID7533_3 --> 0 - 0 Original Alignment GTCTTTTCTAAGTACCTCAGCTTTGTT-GCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG agccatgggtgcaccattaaaattacctgggcccttacttaatattttagGTCATCTCAAGATACCTCAGCTTTGTTCGCTGTTGCACTACGGCTGAAGCACACGAGTTATCTGTACAGTT-AGAGTCCCGGAGGAGTCAAgttctggaatactactgaaagcctggcatttccacaactacacatcgtta Alignment from CESAR GTCTTTTCTAAGTACCTCAGCTTTGTT-GCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG agccatgggtgcaccattaaaattacctgggcccttacttaatattttagGTCATCTCAAGATACCTCAGCTTTGTTCGCTGTTGCACTACGGCTGAAGCACACGAGTTATCTGTACAGT-TAGAGTCCCGGAGGAGTCAAgttctggaatactactgaaagcctggcatttccacaactacacatcgtta Alignment from Spaln_aa2Genome GTCTTTTCTAAGTACCTCAGCTTTGTT-GCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG agccatgggtgcaccattaaaattacctgggcccttacttaatattttagGTCATCTCAAGATACCTCAGCTTTGTTcGCTGTTGCACTACGGCTGAAGCACACGAGTTATCTGTACAG-TTAGAGTCCCGGAGGAGTCAAgttctggaatactactgaaagcctggcatttccacaactacacatcgtta Alignment from Spaln_nt2Genome GTCTTTTCTAAGTACCTCAGCTTTGTT-GCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG agccatgggtgcaccattaaaattacctgggcccttacttaatattttagGTCATCTCAAGATACCTCAGCTTTGTTCGCTGTTGCACTACGGCTGAAGCACACGAGTTATCTGTACAGT-TAGAGTCCCGGAGGAGTCAAgttctggaatactactgaaagcctggcatttccacaactacacatcgtta Alignment from Pairagon GTCTTTTCTAAGTACCTCAGCTTTGTT-GCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG agccatgggtgcaccattaaaattacctgggcccttacttaatattttagGTCATCTCAAGATACCTCAGCTTTGTTCGCTGTTGCACTACGGCTGAAGCACACGAGTTATCTGTACAGT-TAGAGTCCCGGAGGAGTCAAgttctggaatactactgaaagcctggcatttccacaactacacatcgtta Alignment from Exonerate_protein2genome GTCTTTTCTAAGTACCTCAGCTTTGTT-GCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG agccatgggtgcaccattaaaattacctgggcccttacttaatattttagGTCATCTCAAGATACCTCAGCTTTGTTCGCTGTTGCACTACGGCTGAAGCACACGAGTTATCTGTACAGTTAGAGTCCCGGAGGAGTCAAGttctggaatactactgaaagcctggcatttccacaactacacatcgtta Alignment from Exonerate_coding2genome GTCTTTTCTAAGTACCTCAGCTTTGTT-GCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG agccatgggtgcaccattaaaattacctgggcccttacttaatattttagGTCATCTCAAGATACCTCAGCTTTGTTCGCTGTTGCACTACGGCTGAAGCACACGAGTTATCTGTACAGTTAGAGTCCCGGAGGAGTCAAGttctggaatactactgaaagcctggcatttccacaactacacatcgtta Alignment from GeneWise GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG agccatgggtgcaccattaaaattacctgggcccttacttaatattttagGTCATCTCAAGATACCTCAGCTTTGTTCGCTGTTGCACTACGGCTGAAGCACACGAGTTATCTGTACAGTTAGAGTCCCGGAGGAGTCAAgttctggaatactactgaaagcctggcatttccacaactacacatcgtta #### Pde6c_ID7543_13 --> 0 - 0 Original Alignment GTTCTTACAAGGTGGATGTACACAGTCCGGAAA-GGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG ctctttaatgttggagtagtgaccatgacggttatgttttctccctctagATTCTTACAAAGTGGATGTACACCGTCCGAAAGCGGATACCGACCTGCTACATACCACAATT-GCGGCATGGGTCAAATGTGGGGTATACAATATCTCCCCTGTTAATGgtgagtttagctgtggatagcttgaatgctctcttcctactaaatgccag Alignment from CESAR GTTCTTACAAGGTGGATGTACACAGTCCGGAAA-GGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG ctctttaatgttggagtagtgaccatgacggttatgttttctccctctagATTCTTACAAAGTGGATGTACACCGTCCGAAAGCGGATACCGACCTGCTACATACCACAAT-TGCGGCATGGGTCAAATGTGGGGTATACAATATCTCCCCTGTTAATGgtgagtttagctgtggatagcttgaatgctctcttcctactaaatgccag Alignment from Spaln_aa2Genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG ctctttaatgttggagtagtgaccatgacggttatgttttctccctctagATTCTTACAAAGTGGATGTACACCGTCCGAAAGCGGATACCGACCTGCTACATACCACAATTGCGGCATGGGTCAAATGTGGGGTATACAATATCTCCCCTGTTAATGgtgagtttagctgtggatagcttgaatgctctcttcctactaaatgccag Alignment from Spaln_nt2Genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGG-TACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG ctctttaatgttggagtagtgaccatgacggttatgttttctccctctagATTCTTACAAAGTGGATGTACACCGTCCGAAAGCGGATACCGACCTGCTACATACCACAA-TTGCGGCATGGGTCAAATGTGGGGTATACAATATCTCCCCTGTTAATGgtgagtttagctgtggatagcttgaatgctctcttcctactaaatgccag Alignment from Pairagon GTTCTTACAAGGTGGATGTACACAGTCCGGAAA-GGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG ctctttaatgttggagtagtgaccatgacggttatgttttctccctctagATTCTTACAAAGTGGATGTACACCGTCCGAAAGCGGATACCGACCTGCTACATACCACAATT-GCGGCATGGGTCAAATGTGGGGTATACAATATCTCCCCTGTTAATGgtgagtttagctgtggatagcttgaatgctctcttcctactaaatgccag Alignment from Exonerate_protein2genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG ctctttaatgttggagtagtgaccatgacggttatgttttctccctctagATTCTTACAAAGTGGATGTACACCGTCCGAAAGCGGATACCGACCTGCTACATACCACAATTGCGGCATGGGTCAAATGTGGGGTATACAATATCTCCCCTGTTAATGgtgagtttagctgtggatagcttgaatgctctcttcctactaaatgccag Alignment from Exonerate_coding2genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG ctctttaatgttggagtagtgaccatgacggttatgttttctccctctagATTCTTACAAAGTGGATGTACACCGTCCGAAAGCGGATACCGACCTGCTACATACCACAATTGCGGCATGGGTCAAATGTGGGGTATACAATATCTCCCCTGTTAATGgtgagtttagctgtggatagcttgaatgctctcttcctactaaatgccag Alignment from GeneWise GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG ctctttaatgttggagtagtgaccatgacggttatgttttctccctctagATTCTTACAAAGTGGATGTACACCGTCCGAAAGCGGATACCGACCTGCTACATACCACAATTGCGGCATGGGTCAAATGTGGGGTATACAATATCTCCCCTGTTAATGgtgagtttagctgtggatagcttgaatgctctcttcctactaaatgccag #### Pga5_ID2970_8 --> 0 - 0 Original Alignment GTGACGGCGAG TACTTCCTCAAGTGTGACACCATCAAC------ACCCTGCCTGAT-ATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG GTGACGGTCAGgtacgtgtttccggctacaaatgtcctttctgtccacagTATTTCCTAAAGTGTGAT---GTCAACTTCAACTGCTTGCCAGATCATTGTA---------------TTTACATGCCCAGTAC-AGCTAGTACCTACATTCGAAAGgtaagttgggcaggagtcattaactaacttatattgcttaggtttttatg Alignment from CESAR GTGACGGCGAG TACTTCCTCAAGTGTGAC---ACCATCAACACCCTGCCTGAT-ATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG GTGACGGTCAGgtttgtgtttccggctacaaatgtcctttctgtccacagTATTTCCTAAAGTGTGATGTCAACTTCAACTGCTTGCCAGATCATTGTATTT---------------ACATGCCCAGTAC-AGCTAGTACCTACATTCGAAAGgtaagttgggcaggagtcattaactaacttatattgcttaggtttttatg Alignment from Spaln_aa2Genome GTGACGGCGAG TACTTCCTCAAGTGTGAC---ACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG GTGACGGTCAGgtacgtgtttccggctacaaatgtcctttctgtccacagTATTTCCTAAAGTGTGATGTCAACTTCAACTGCTTGCCAGAT---------------CATTGTATTTACATGCCCAGTACAGCTAGTACCTACATTCGAAAGgtaagttgggcaggagtcattaactaacttatattgcttaggtttttatg Alignment from Spaln_nt2Genome GTGACGGCGAG TACTTCCTCAAGTGTGA---CACCATCAACACCCTGCCTGAT-ATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG GTGACGGTCAGgtacgtgtttccggctacaaatgtcctttctgtccacagTATTTCCTAAAGTGTGATGTCAACTTCAACTGCTTGCCAGATCATTGTAT---------------TTACATGCCCAGT-ACAGCTAGTACCTACATTCGAAAGgtaagttgggcaggagtcattaactaacttatattgcttaggtttttatg Alignment from Pairagon GTGACGGCGAG TACTTCCTCAAGTGTGA---CACCATCAACACCCTGCCTGAT-ATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG GTGACGGTCAGgtacgtgtttccggctacaaatgtcctttctgtccacagTATTTCCTAAAGTGTGATGTCAACTTCAACTGCTTGCCAGATCATTGTAT---------------TTACATGCCCAGTA-CAGCTAGTACCTACATTCGAAAGgtaagttgggcaggagtcattaactaacttatattgcttaggtttttatg Alignment from Exonerate_protein2genome GTGACGGCGAG TACTTCCTCAAGTGTGAC---ACCATCAACACCCTGCCTGAT-ATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAG GTGACGGTCAGgtacgtgtttccggctacaaatgtcctttctgtccacagTATTTCCTAAAGTGTGATGTCAACTTCAACTGCTTGCCAGATCATTGTATTTACATGCCCAGTACAGCTAGTACCTACATTCGAAAGgtaagttgggcaggagtcattaactaacttatattgcttaggtttttatg Alignment from Exonerate_coding2genome GTGACGGCGAG GTGACGGTCAGgtacgtgtttccggctacaaatgtcctttctgtccacagtatttcctaaagtgtgatgtcaacttcaactgcttgccagatcattgtatttacatgcccagtacagctagtacctacattcgaaaggtaagttgggcaggagtcattaactaacttatattgcttaggtttttatg Alignment from GeneWise GTGACGGCGAG---------------------------------------TACTTCCTCAAGTGTGACACC---ATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG GTGACGGTCAGGTACGTGTTTCCGGCTACAAATGTCCTTTCTGTCCACAGTATTTCCTAAAGTGTGATGTCAACTTCAACTGCTTGCCAGATCATTGT---------------ATTTACATGCCCAGTACAGCTAGTACCTACATTCGAAAGgtaagttgggcaggagtcattaactaacttatattgcttaggtttttatg #### Pga5_ID2971_7 --> 1 - 0 Original Alignment cATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGC-CAAGGTATTATGGACACAGGGACCTCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG TACTTCCTCAA gtttaaagagcattctgtgatatggctcgtgtgctgcgctttgcttgcagcAATTCCATGAATGGGGAGGCCATTGCATCAGATGGTAGCTGTCCAAGGCATTATGGATACAGGGGCTTCATTGC-GACCAGGCCTCAAAGCACCATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGACGGTCAGgtttgtgtttccggctagttctcttacctttcctgaaagTATTTCCTAAA Alignment from CESAR cATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGC-CAAGGTATTATGGACACAGGGACCTCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG TACTTCCTCAA gtttaaagagcattctgtgatatggctcgtgtgctgcgctttgcttgcagcAATTCCATGAATGGGGAGGCCATTGCATCAGATGGTAGCTGTCCAAGGCATTATGGATACAGGGGCTTCATTG-CGACCAGGCCTCAAAGCACCATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGACGGTCAGgtttgtgtttccggctacaaatgtcctttctgtccacagTATTTCCTAAA Alignment from Spaln_aa2Genome CATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACAGGGACCTCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG TACTTCCTCAA gtttaaagagcattctgtgatatggctcgtgtgctgcgctttgcttgcagCAATTCCATGAATGGGGAGGCCATTGCATCAGATGGTAGCTGTCCAAGGCATTATGGATACAGGGGCTTCATTGCGACCAGGCCTCAAAGCACCATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGACGGTCAGgtttgtgtttccggctagttctcttacctttcctgaaagTATTTCCTAAA Alignment from Spaln_nt2Genome CATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTG-CCAAGGTATTATGGACACAGGGACCTCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG TACTTCCTCAA gtttaaagagcattctgtgatatggctcgtgtgctgcgctttgcttgcagCAATTCCATGAATGGGGAGGCCATTGCATCAGATGGTAGCTGTCCAAGGCATTATGGATACAGGGGCTTCATTGC-GACCAGGCCTCAAAGCACCATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGACGGTCAGgtttgtgtttccggctagttctcttacctttcctgaaagTATTTCCTAAA Alignment from Pairagon CATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTG-CCAAGGTATTATGGACACAGGGACCTCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGC---------------------------------------GAGTACTTCCTCAA gtttaaagagcattctgtgatatggctcgtgtgctgcgctttgcttgcagCAATTCCATGAATGGGGAGGCCATTGCATCAGATGGTAGCTGTCCAAGGCATTATGGATACAGGGGCTTCATTGC-GACCAGGCCTCAAAGCACCATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGACGGTCAGGTTTGTGTTTCCGGCTAGTTCTCTTACCTTTCCTGAAAGTATTTCCTAAA Alignment from Exonerate_protein2genome CATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACAGGGACCTCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG TACTTCCTCAA gtttaaagagcattctgtgatatggctcgtgtgctgcgctttgcttgcagCAATTCCATGAATGGGGAGGCCATTGCATCAGATGGTAGCTGTCCAAGGCATTATGGATACAGGGGCTTCATTGCGACCAGGCCTCAAAGCACCATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGACGGTCAGgtttgtgtttccggctagttctcttacctttcctgaaagTATTTCCTAAA Alignment from Exonerate_coding2genome CATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGC-CAAGGTATTATGGACACAGGGACCTCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAGTACTTCCTCAAGTGTGACACCATCAACACCCTGCCTGATATTGTCTTCAC gtttaaagagcattctgtgatatggctcgtgtgctgcgctttgcttgcagCAATTCCATGAATGGGGAGGCCATTGCATCAGATGGTAGCTGTCCAAGGCATTATGGATACAGGGGCTTCATTGCGA-CCAGGCCTCAAAGCACCATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGACGGTCAGGTTTGTGTTTCCGGCTAGTTCTCTTACCTTTCCTGAAAGTATTTCCTAAA Alignment from GeneWise CATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACAGGGACCTCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG TACTTCCTCAA gtttaaagagcattctgtgatatggctcgtgtgctgcgctttgcttgcagCAATTCCATGAATGGGGAGGCCATTGCATCAGATGGTAGCTGTCCAAGGCATTATGGATACAGGGGCTTCATTGCGACCAGGCCTCAAAGCACCATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGACGGTCAGgtttgtgtttccggctagttctcttacctttcctgaaagTATTTCCTAAA #### Pga5_ID2972_6 --> 1 - 2 Original Alignment cAAGGATGAAAAGGGCAGCATGCTGATGCTAGGT-GGAGTGGATCCCTCCTACTACCATGGAGAGCTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATag tcatacagtttgaagtaccctggagatttttatttttcctcacactatagtAAGGATGAAAAGGGCAGCATGTTAATGTTAGGACGGAGTGGACCCCTCCTACTACCATGGAGAACTTC-TTGGGTACCTGTCTCAAAGCCGAGTTACTGGCAGTTAGCTGCAGATaggtgacccataggcacttgttgccaataggcactgtctcagcagcatgcat Alignment from CESAR cAAGGATGAAAAGGGCAGCATGCTGATGCTAGGT-GGAGTGGATCCCTCCTACTACCATGGAGAGCTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATag tcatacagtttgaagtaccctggagatttttatttttcctcacactatagtAAGGATGAAAAGGGCAGCATGTTAATGTTAGGACGGAGTGGACCCCTCCTACTACCATGGAGAACTT-CTTGGGTACCTGTCTCAAAGCCGAGTTACTGGCAGTTAGCTGCAGATaggtgacccataggcacttgttgccaataggcactgtctcagcagcatgcat Alignment from Spaln_aa2Genome CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAGCTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacagtttgaagtaccctggagatttttatttttcctcacactatagTAAGGATGAAAAGGGCAGCATGTTAATGTTAGGACGGAGTGGACCCCTCCTACTACCATGGAGAACTTCTTGGGTACCTGTCTCAAAGCCGAGTTACTGGCAGTTAGCTGCAGATAGgtgacccataggcacttgttgccaataggcactgtctcagcagcatgcat Alignment from Spaln_nt2Genome CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGT-GGAGTGGATCCCTCCTACTACCATGGAGAGCTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacagtttgaagtaccctggagatttttatttttcctcacactatagTAAGGATGAAAAGGGCAGCATGTTAATGTTAGGACGGAGTGGACCCCTCCTACTACCATGGAGAACTTC-TTGGGTACCTGTCTCAAAGCCGAGTTACTGGCAGTTAGCTGCAGATAGgtgacccataggcacttgttgccaataggcactgtctcagcagcatgcat Alignment from Pairagon CAAGGATGAAAAGGGCAGCATGCTGATGCTAGG-TGGAGTGGATCCCTCCTACTACCATGGAGAGCTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacagtttgaagtaccctggagatttttatttttcctcacactatagTAAGGATGAAAAGGGCAGCATGTTAATGTTAGGACGGAGTGGACCCCTCCTACTACCATGGAGAACTTC-TTGGGTACCTGTCTCAAAGCCGAGTTACTGGCAGTTAGCTGCAGATAGgtgacccataggcacttgttgccaataggcactgtctcagcagcatgcat Alignment from Exonerate_protein2genome CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAGCTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacagtttgaagtaccctggagatttttatttttcctcacactatagTAAGGATGAAAAGGGCAGCATGTTAATGTTAGGACGGAGTGGACCCCTCCTACTACCATGGAGAACTTCTTGGGTACCTGTCTCAAAGCCGAGTTACTGGCAGTTAGCTGCAGATAGgtgacccataggcacttgttgccaataggcactgtctcagcagcatgcat Alignment from Exonerate_coding2genome CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAGCTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacagtttgaagtaccctggagatttttatttttcctcacactatagTAAGGATGAAAAGGGCAGCATGTTAATGTTAGGACGGAGTGGACCCCTCCTACTACCATGGAGAACTTCTTGGGTACCTGTCTCAAAGCCGAGTTACTGGCAGTTAGCTGCAGATAGgtgacccataggcacttgttgccaataggcactgtctcagcagcatgcat Alignment from GeneWise CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAGCTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacagtttgaagtaccctggagatttttatttttcctcacactatagTAAGGATGAAAAGGGCAGCATGTTAATGTTAGGACGGAGTGGACCCCTCCTACTACCATGGAGAACTTCTTGGGTACCTGTCTCAAAGCCGAGTTACTGGCAGTTAGCTGCAGATAGgtgacccataggcacttgttgccaataggcactgtctcagcagcatgcat #### Pitpnm1_ID309_6 --> 2 - 1 Original Alignment gcGGCGTGTCTCCACAGAGCTTGTCT-GAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATg aatatgggggtgagcatctttttaacatctgtcgggttttttctttataggtTGTGTATCTCCACAGAGTTTGTCCCGAATGGCACATGCAGAATATTGCCCGAGACACCAAAA-CAGCTCTGAGGAAGACTTCTTTGATCCCCATggtaggaaagaaaggtaaaatgtaaagaatgatgtgattgatgggtgacat Alignment from CESAR gcGGCGTGTCTCCACAGAGCTTGTCT-GAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATg aatatgggggtgagcatctttttaacatctgtcgggttttttctttataggtTGTGTATCTCCACAGAGTTTGTCCCGAATGGCACATGCAGAATATTGCCCGAGACACC-AAAACAGCTCTGAGGAAGACTTCTTTGATCCCCATggtaggaaagaaaggtaaaatgtaaagaatgatgtgattgatgggtgacat Alignment from Spaln_aa2Genome GCGGCGTGTCTCCACAGAGCTTGTCTGAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATG aatatgggggtgagcatctttttaacatctgtcgggttttttctttatagGTTGTGTATCTCCACAGAGTTTGTCCCGAATGGCACATGCAGAATATTGCCCGAGACACCAAAACAGCTCTGAGGAAGACTTCTTTGATCCCCATGgtaggaaagaaaggtaaaatgtaaagaatgatgtgattgatgggtgacat Alignment from Spaln_nt2Genome GCGGCGTGTCTCCACAGAGCTTGTCT-GAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATG aatatgggggtgagcatctttttaacatctgtcgggttttttctttatagGTTGTGTATCTCCACAGAGTTTGTCCCGAATGGCACATGCAGAATATTGCCCGAGACAC-CAAAACAGCTCTGAGGAAGACTTCTTTGATCCCCATGgtaggaaagaaaggtaaaatgtaaagaatgatgtgattgatgggtgacat Alignment from Pairagon GCGGCGTGTCTCCACAGAGCTTGT-CTGAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATG aatatgggggtgagcatctttttaacatctgtcgggttttttctttatagGTTGTGTATCTCCACAGAGTTTGTCCCGAATGGCACATGCAGAATATTGCCCGAGACACC-AAAACAGCTCTGAGGAAGACTTCTTTGATCCCCATGgtaggaaagaaaggtaaaatgtaaagaatgatgtgattgatgggtgacat Alignment from Exonerate_protein2genome GCGGCGTGTCTCCACAGAGCTTGTCTGAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATG aatatgggggtgagcatctttttaacatctgtcgggttttttctttatagGTTGTGTATCTCCACAGAGTTTGTCCCGAATGGCACATGCAGAATATTGCCCGAGACACCAAAACAGCTCTGAGGAAGACTTCTTTGATCCCCATGgtaggaaagaaaggtaaaatgtaaagaatgatgtgattgatgggtgacat Alignment from Exonerate_coding2genome GCGGCGTGTCTCCACAGAGCTTGTCTGAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATG aatatgggggtgagcatctttttaacatctgtcgggttttttctttatagGTTGTGTATCTCCACAGAGTTTGTCCCGAATGGCACATGCAGAATATTGCCCGAGACACCAAAACAGCTCTGAGGAAGACTTCTTTGATCCCCATGgtaggaaagaaaggtaaaatgtaaagaatgatgtgattgatgggtgacat Alignment from GeneWise GCGGCGTGTCTCCACAGAGCTTGTCTGAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATG aatatgggggtgagcatctttttaacatctgtcgggttttttctttatagGTTGTGTATCTCCACAGAGTTTGTCCCGAATGGCACATGCAGAATATTGCCCGAGACACCAAAACAGCTCTGAGGAAGACTTCTTTGATCCCCATGgtaggaaagaaaggtaaaatgtaaagaatgatgtgattgatgggtgacat #### Pitpnm1_ID312_9 --> 0 - 2 Original Alignment GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGT-CACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCaa attaggtggggtcaacatatgctcttgttttgatgttctcttccttgcagGGACTAGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGATCTTTTCCTCATACTGCACAGTGGTAGCATTCCAGACCCTGGCCCTGGGGACACCAATTCTAAGCAAGCTGACGTCCAAACTCTGAGCACTGCTTTTGAGGCTGTCTTTCGAGTTCATTCTCCCAAGGCCCTTGGACCATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTTATGCACTTGTCTCCaagtaagagcagagaggaatagtaaatacacataaataaagcaagtaatgat Alignment from CESAR GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGT-CACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCaa attaggtggggtcaacatatgctcttgttttgatgttctcttccttgcagGGACTAGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGATCTTTTCCTCATACTGCACAGTGGTAGCATTCCAGACCCTGGCCCTGGGGACACCAATTCTAAGCAAGCTGACGTCCAAACTCTGAGCACTGCTTTTGAGGCTGTCTTTCGAGTTCATTCTCCCAAGGCCCTTGGACCATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTTATGCACTTGTCTCCaagtaagagcagagaggaatagtaaatacacataaataaagcaagtaatgat Alignment from Spaln_aa2Genome GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGT-CACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA attaggtggggtcaacatatgctcttgttttgatgttctcttccttgcagGGACTAGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGATCTTTTCCTCATACTGCACAGTGGTAGCATTCCAGACCCTGGCCCTGGGGACACCAATTCTAAGCAAGCTGACGTCCAAACTCTGAGCACTGCTTTTGAGGCTGTCTTTCGAGTTCATTCTCCCAAGGCCCTTGGAcCATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTTATGCACTTGTCTCCAAgtaagagcagagaggaatagtaaatacacataaataaagcaagtaatgat Alignment from Spaln_nt2Genome GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTC-ACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA attaggtggggtcaacatatgctcttgttttgatgttctcttccttgcagGGACTAGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGATCTTTTCCTCATACTGCACAGTGGTAGCATTCCAGACCCTGGCCCTGGGGACACCAATTCTAAGCAAGCTGACGTCCAAACTCTGAGCACTGCTTTTGAGGCTGTCTTTCGAGTTCATTCTCCCAAGGCCCTTGGACCATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTTATGCACTTGTCTCCAAgtaagagcagagaggaatagtaaatacacataaataaagcaagtaatgat Alignment from Pairagon GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCC-TGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA attaggtggggtcaacatatgctcttgttttgatgttctcttccttgcagGGACTAGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGATCTTTTCCTCATACTGCACAGTGGTAGCATTCCAGACCCTGGCCCTGGGGACACCAATTCTAAGCAAGCTGACGTCCAAACTCTGAGCACTGCTTTTGAGGCTGTCTTTCGAGTTCATTCTCCCAAGGCCCTTGGACCATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTTATGCACTTGTCTCCAAgtaagagcagagaggaatagtaaatacacataaataaagcaagtaatgat Alignment from Exonerate_protein2genome GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGT-CACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA attaggtggggtcaacatatgctcttgttttgatgttctcttccttgcagGGACTAGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGATCTTTTCCTCATACTGCACAGTGGTAGCATTCCAGACCCTGGCCCTGGGGACACCAATTCTAAGCAAGCTGACGTCCAAACTCTGAGCACTGCTTTTGAGGCTGTCTTTCGAGTTCATTCTCCCAAGGCCCTTGGACCATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTTATGCACTTGTCTCCAAgtaagagcagagaggaatagtaaatacacataaataaagcaagtaatgat Alignment from Exonerate_coding2genome GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGT-CACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA attaggtggggtcaacatatgctcttgttttgatgttctcttccttgcagGGACTAGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGATCTTTTCCTCATACTGCACAGTGGTAGCATTCCAGACCCTGGCCCTGGGGACACCAATTCTAAGCAAGCTGACGTCCAAACTCTGAGCACTGCTTTTGAGGCTGTCTTTCGAGTTCATTCTCCCAAGGCCCTTGGACCATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTTATGCACTTGTCTCCAAgtaagagcagagaggaatagtaaatacacataaataaagcaagtaatgat Alignment from GeneWise GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTG-GGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA attaggtggggtcaacatatgctcttgttttgatgttctcttccttgcagGGACTAGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGATCTTTTCCTCATACTGCACAGTGGTAGCATTCCAGACCCTGGCCCTGGGGACACCAATTCTAAGCAAGCTGACGTCCAAACTCTGAGCACTGCTTTTGAGGCTGTCTTTCGAGTTCATTCTCCCAAGGCCCTTGGACCATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTTATGCACTTGTCTCCAAgtaagagcagagaggaatagtaaatacacataaataaagcaagtaatgat #### Pitpnm1_ID315_12 --> 0 - 2 Original Alignment AACAATGAGATGCTCTCCCCTGAAGTT-GGT---CCAGTACGGGACCCGCTGGCAGAT------GGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCT---GATCCTGATGGCTCTCAGAACag agttagagagccagtattttgaagttggccttggttccttccctctgcagATCACTGAGACACTCTTACCTGAGGTTCGGTTGCCCATTGCGCGACCCACTGGCAGATGCAGATGGGGTGG-AGTGCTTGGTCATGCTAGTCCAGAACTAACAGCTCTACTAGGCCAGTGCACATTCAGTGACATTGCTAACCCTACTGATCCAGATGGCTCACAAAATaggtaggaagttctcttttatagcactttgaatataaaaacctggacctatt Alignment from CESAR AACAATGAGATGCTCTCCCCTGAAGTT-GGT---CCAGTACGGGACCCGCTGGCAGAT------GGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCT---GATCCTGATGGCTCTCAGAACag agttagagagccagtattttgaagttggccttggttccttccctctgcagATCACTGAGACACTCTTACCTGAGGTTCGGTTGCCCATTGCGCGACCCACTGGCAGATGCAGATGGGGTGG-AGTGCTTGGTCATGCTAGTCCAGAACTAACAGCTCTACTAGGCCAGTGCACATTCAGTGACATTGCTAACCCTACTGATCCAGATGGCTCACAAAATaggtaggaagttctcttttatagcactttgaatataaaaacctggacctatt Alignment from Spaln_aa2Genome AACAATGAGATGCTCTCCCCTGAAGTTGGT---CCAGTACGGGACCCGCTGGCAGATGGG------GTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCT---GATCCTGATGGCTCTCAGAACAG agttagagagccagtattttgaagttggccttggttccttccctctgcagATCACTGAGACACTCTTACCTGAGGTTCGGTTGCCCATTGCGCGACCCACTGGCAGATGCAGATGGGGTGGAGTGCTTGGTCATGCTAGTCCAGAACTAACAGCTCTACTAGGCCAGTGCACATTCAGTGACATTGCTAACCCTACTGATCCAGATGGCTCACAAAATAGgtaggaagttctcttttatagcactttgaatataaaaacctggacctatt Alignment from Spaln_nt2Genome AACAATGAGATGCTCTCCCCTGAAGTT-GGT---CCAGTACGGGACCCGCTGGCAGATG------GGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCT---GATCCTGATGGCTCTCAGAACAG agttagagagccagtattttgaagttggccttggttccttccctctgcagATCACTGAGACACTCTTACCTGAGGTTCGGTTGCCCATTGCGCGACCCACTGGCAGATGCAGATGGGGTGGA-GTGCTTGGTCATGCTAGTCCAGAACTAACAGCTCTACTAGGCCAGTGCACATTCAGTGACATTGCTAACCCTACTGATCCAGATGGCTCACAAAATAGgtaggaagttctcttttatagcactttgaatataaaaacctggacctatt Alignment from Pairagon AACAATGAGATGCTCTCCCCTGAAGTTG----GTCCAGTACGGGACCCGCTG------GCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATC---CTGATCCTGATGGCTCTCAGAACAG agttagagagccagtattttgaagttggccttggttccttccctctgcagATCACTGAGACACTCTTACCTGAGGTTCGGTTGCCCATTGCGCGACCCACTGGCAGATGCAGATGGGGTGGA-GTGCTTGGTCATGCTAGTCCAGAACTAACAGCTCTACTAGGCCAGTGCACATTCAGTGACATTGCTAACCCTACTGATCCAGATGGCTCACAAAATAGgtaggaagttctcttttatagcactttgaatataaaaacctggacctatt Alignment from Exonerate_protein2genome AACAATGAGATGCTCTCCCCTGAAGTTGGT----CCAGTACGGGACCCGCTGGCAGATGGG-----GTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCT---GATCCTGATGGCTCTCAGAACAGCCTCCAGGTAGCCTCCACAGCTACC agttagagagccagtattttgaagttggccttggttccttccctctgcagATCACTGAGACACTCTTACCTGAGGTTCGGTTGCCCATTGCGCGACCCACTGGCAGATGCAGATGGGGTGGAGTGCTTGGTCATGCTAGTCCAGAACTAACAGCTCTACTAGGCCAGTGCACATTCAGTGACATTGCTAACCCTACTGATCCAGATGGCTCACAAAATAGGTAGGAAGTTCTCTTTTATAGCACTttgaatataaaaacctggacctatt Alignment from Exonerate_coding2genome agttagagagccagtattttgaagttggccttggttccttccctctgcagatcactgagacactcttacctgaggttcggttgcccattgcgcgacccactggcagatgcagatggggtggagtgcttggtcatgctagtccagaactaacagctctactaggccagtgcacattcagtgacattgctaaccctactgatccagatggctcacaaaataggtaggaagttctcttttatagcactttgaatataaaaacctggacctatt Alignment from GeneWise AACAATGAGATGCTCTCCCCTGAAGTTGGT---CCAGTACGGGACCCGCTGGCAGAT------GGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCT---GATCCTGATGGCTCTCAGAACAG agttagagagccagtattttgaagttggccttggttccttccctctgcagATCACTGAGACACTCTTACCTGAGGTTCGGTTGCCCATTGCGCGACCCACTGGCAGATGCAGATGGGGTGGAGTGCTTGGTCATGCTAGTCCAGAACTAACAGCTCTACTAGGCCAGTGCACATTCAGTGACATTGCTAACCCTACTGATCCAGATGGCTCACAAAATAGgtaggaagttctcttttatagcactttgaatataaaaacctggacctatt #### Pitpnm1_ID319_16 --> 2 - 0 Original Alignment tcCTGGACCGCTGGTGGGGAAACAAGCGGATCGAC-TATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG gaacacagttgaagctgtgttgttgctccctgccatgggtcacctgccagttCTCGACCGCTGGTGGGGAAACAAACGCATTGATCTATTCTCTCTACTGCCCAGAAGCACTTACAG-CTTTCCCACTGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGgtaagtacaccccaggattggcccaacactgagtttagacaacaggagcc Alignment from CESAR tcCTGGACCGCTGGTGGGGAAACAAGCGGATCGAC-TATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG gaacacagttgaagctgtgttgttgctccctgccatgggtcacctgccagttCTCGACCGCTGGTGGGGAAACAAACGCATTGATCTATTCTCTCTACTGCCCAGAAGCACTTACAGCTT-TCCCACTGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGgtaagtacaccccaggattggcccaacactgagtttagacaacaggagcc Alignment from Spaln_aa2Genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGAC-TATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG gaacacagttgaagctgtgttgttgctccctgccatgggtcacctgccagTTCTCGACCGCTGGTGGGGAAACAAACGCATTGATcTATTCTCTCTACTGCCCAGAAGCACTTACAGCTTTCCC-ACTGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGgtaagtacaccccaggattggcccaacactgagtttagacaacaggagcc Alignment from Spaln_nt2Genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGA-CTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG gaacacagttgaagctgtgttgttgctccctgccatgggtcacctgccagTTCTCGACCGCTGGTGGGGAAACAAACGCATTGATCTATTCTCTCTACTGCCCAGAAGCACTTACAG-CTTTCCCACTGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGgtaagtacaccccaggattggcccaacactgagtttagacaacaggagcc Alignment from Pairagon TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGA-CTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG gaacacagttgaagctgtgttgttgctccctgccatgggtcacctgccagTTCTCGACCGCTGGTGGGGAAACAAACGCATTGATCTATTCTCTCTACTGCCCAGAAGCACTTACAG-CTTTCCCACTGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGgtaagtacaccccaggattggcccaacactgagtttagacaacaggagcc Alignment from Exonerate_protein2genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG gaacacagttgaagctgtgttgttgctccctgccatgggtcacctgccagTTCTCGACCGCTGGTGGGGAAACAAACGCATTGATCTATTCTCTCTACTGCCCAGAAGCACTTACAGCTTTCCCACTGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGgtaagtacaccccaggattggcccaacactgagtttagacaacaggagcc Alignment from Exonerate_coding2genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG gaacacagttgaagctgtgttgttgctccctgccatgggtcacctgccagTTCTCGACCGCTGGTGGGGAAACAAACGCATTGATCTATTCTCTCTACTGCCCAGAAGCACTTACAGCTTTCCCACTGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGgtaagtacaccccaggattggcccaacactgagtttagacaacaggagcc Alignment from GeneWise TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG gaacacagttgaagctgtgttgttgctccctgccatgggtcacctgccagTTCTCGACCGCTGGTGGGGAAACAAACGCATTGATCTATTCTCTCTACTGCCCAGAAGCACTTACAGCTTTCCCACTGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGgtaagtacaccccaggattggcccaacactgagtttagacaacaggagcc #### Pitpnm1_ID322_19 --> 0 - 2 Original Alignment TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACA-GAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCag TGTAGTTACACTCACCAGAGAAGAGgtaagtttttttctcatgtgcacagGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACACGAGGTCACAAACAGTTCTGGCCATCTTACCTTCCCAGTGT-ATCAGAGCATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTGGTCaggtgagtacagaagttagctactaatttcattcctgctaaatactaactta Alignment from CESAR TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACA-GAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCag TGTAGTTACACTCACCAGAGAAGAGgtcatgttttttctcatgtgcacagGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACACGAGGTCACAAACAGTTCTGGCCATCTTACCTTCCCAGTG-TATCAGAGCATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTGGTCaggtgagtacagaagttagctactaatttcattcctgctaaatactaactta Alignment from Spaln_aa2Genome TGTGGTCACGCTCACTGGAGAGAAG-------------------------GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCAGAGAAGAGGTAAGTTTTTTTCTCATGTGCACAgGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACACGAGGTCACAAACAGTTCTGGCCATCTTACCTTCCCAGTGTATCAGAGCATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTGGTCAGgtgagtacagaagttagctactaatttcattcctgctaaatactaactta Alignment from Spaln_nt2Genome TGTGGTCACGCTCACTGGAGA-GA------------------------AGGTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACA-GAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCAGAGAAGAGGTAAGTTTTTTTCTCATGTGCACAGGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACACGAGGTCACAAACAGTTCTGGCCATCTTACCTTCCCAGTG-TATCAGAGCATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTGGTCAGgtgagtacagaagttagctactaatttcattcctgctaaatactaactta Alignment from Pairagon TGTGGTCACGCTCACTGGAGAGAAG-------------------------GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACA-GAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCAGAGAAGAGGTAAGTTTTTTTCTCATGTGCACAGGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACACGAGGTCACAAACAGTTCTGGCCATCTTACCTTCCCAGTG-TATCAGAGCATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTGGTCAGgtgagtacagaagttagctactaatttcattcctgctaaatactaactta Alignment from Exonerate_protein2genome TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCAGAGAAGAGgtaagtttttttctcatgtgcacaggttgatGTCTATGTC------ATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACACGAGGTCACAAACAGTTCTGGCCATCTTACCTTCCCAGTGTATCAGAGCATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTGGTCAGgtgagtacagaagttagctactaatttcattcctgctaaatactaactta Alignment from Exonerate_coding2genome TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCAGAGAAGAGgtaagtttttttctcatgtgcacaggttgatGTCTATGTC------ATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACACGAGGTCACAAACAGTTCTGGCCATCTTACCTTCCCAGTGTATCAGAGCATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTGGTCAGgtgagtacagaagttagctactaatttcattcctgctaaatactaactta Alignment from GeneWise TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCAGAGAAGAGgtaagtttttttctcatgtgcacagGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACACGAGGTCACAAACAGTTCTGGCCATCTTACCTTCCCAGTGTATCAGAGCATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTGGTCAGgtgagtacagaagttagctactaatttcattcctgctaaatactaactta #### Pkd2l1_ID8957_11 --> 0 - 2 Original Alignment AGCTACAACAAGACCCTACTAAGGCTGCGCCTG-AGGAAAGAGCGGGTTTCTGATGTGCAGAAGGTCCTGAAGGGTGGGGAACCAGAGATCCAGTTTGAAGATTTCACCAGCACCTTGAGGga tggtaccaacaccacatctatcatattcgctcctttctgttccactctagAGCTATAACAAGACCCTATTACGGTTGCGCCTGCAGAGAGGAGCGGGTTTCAGATGTGCAAAAGG-CCTTAAGGGTGGAGAACCAGAGATCAAGTTTGAAGATTCCACAAGCACATTGAGAgagtgagtaagtccatgcctgccagatgttctgatcacactgggctaaggta Alignment from CESAR AGCTACAACAAGACCCTACTAAGGCTGCGCCTG-AGGAAAGAGCGGGTTTCTGATGTGCAGAAGGTCCTGAAGGGTGGGGAACCAGAGATCCAGTTTGAAGATTTCACCAGCACCTTGAGGga tggtaccaacaccacatctatcatattcgctcctttctgttccactctagAGCTATAACAAGACCCTATTACGGTTGCGCCTGCAGAGAGGAGCGGGTTTCAGATGTGCAAAAGG-CCTTAAGGGTGGAGAACCAGAGATCAAGTTTGAAGATTCCACAAGCACATTGAGAgagtgagtaagtccatgcctgccagatgttctgatcacactgggctaaggta Alignment from Spaln_aa2Genome AGCTACAACAAGACCCTACTAAGGCTGCGCCTGAGGAAAGAGCGGGTTTCTGATGTGCAGAAGGTCCTGAAGGGTGGGGAACCAGAGATCCAGTTTGAAGATTTCACCAGCACCTTGAGGGA tggtaccaacaccacatctatcatattcgctcctttctgttccactctagAGCTATAACAAGACCCTATTACGGTTGCGCCTGCAGAGAGGAGCGGGTTTCAGATGTGCAAAAGGCCTTAAGGGTGGAGAACCAGAGATCAAGTTTGAAGATTCCACAAGCACATTGAGAGAgtgagtaagtccatgcctgccagatgttctgatcacactgggctaaggta Alignment from Spaln_nt2Genome AGCTACAACAAGACCCTACTAAGGCTGCGCCTGAGGAAAG-AGCGGGTTTCTGATGTGCAGAAGGTCCTGAAGGGTGGGGAACCAGAGATCCAGTTTGAAGATTTCACCAGCACCTTGAGGGA tggtaccaacaccacatctatcatattcgctcctttctgttccactctagAGCTATAACAAGACCCTATTACGGTTGCGCCTGCAGAGAGGAGCGGGTTTCAGATGTGCAAAAGG-CCTTAAGGGTGGAGAACCAGAGATCAAGTTTGAAGATTCCACAAGCACATTGAGAGAgtgagtaagtccatgcctgccagatgttctgatcacactgggctaaggta Alignment from Pairagon AGCTACAACAAGACCCTACTAAGGCTGCGCCTG-AGGAAAGAGCGGGTTTCTGATGTGCAGAAGGTCCTGAAGGGTGGGGAACCAGAGATCCAGTTTGAAGATTTCACCAGCACCTTGAGGGA tggtaccaacaccacatctatcatattcgctcctttctgttccactctagAGCTATAACAAGACCCTATTACGGTTGCGCCTGCAGAGAGGAGCGGGTTTCAGATGTGCAAAAGG-CCTTAAGGGTGGAGAACCAGAGATCAAGTTTGAAGATTCCACAAGCACATTGAGAGAgtgagtaagtccatgcctgccagatgttctgatcacactgggctaaggta Alignment from Exonerate_protein2genome AGCTACAACAAGACCCTACTAAGGCTGCGCCTGAGGAAAGAGCGGGTTTCTGATGTGCAGAAGGTCCTGAAGGGTGGGGAACCAGAGATCCAGTTTGAAGATTTCACCAGCACCTTGAGGGA tggtaccaacaccacatctatcatattcgctcctttctgttccactctagAGCTATAACAAGACCCTATTACGGTTGCGCCTGCAGAGAGGAGCGGGTTTCAGATGTGCAAAAGGCCTTAAGGGTGGAGAACCAGAGATCAAGTTTGAAGATTCCACAAGCACATTGAGAGAgtgagtaagtccatgcctgccagatgttctgatcacactgggctaaggta Alignment from Exonerate_coding2genome AGCTACAACAAGACCCTACTAAGGCTGCGCCTGAGGAAAGAGCGGGTTTCTGATGTGCAGAAGGTCCTGAAGGGTGGGGAACCAGAGATCCAGTTTGAAGATTTCACCAGCACCTTGAGGGAA tggtaccaacaccacatctatcatattcgctcctttctgttccactctagAGCTATAACAAGACCCTATTACGGTTGCGCCTGCAGAGAGGAGCGGGTTTCAGATGTGCAAAAGGCCTTAAGGGTGGAGAACCAGAGATCAAGTTTGAAGATTCCACAAGCACATTGAGAGAGtgagtaagtccatgcctgccagatgttctgatcacactgggctaaggta Alignment from GeneWise AGCTACAACAAGACCCTACTAAGGCTGCGCCTGAGGAAAGAGCGGGTTTCTGATGTGCAGAAGGTCCTGAAGGGTGGGGAACCAGAGATCCAGTTTGAAGATTTCACCAGCACCTTGAGGGA tggtaccaacaccacatctatcatattcgctcctttctgttccactctagAGCTATAACAAGACCCTATTACGGTTGCGCCTGCAGAGAGGAGCGGGTTTCAGATGTGCAAAAGGCCTTAAGGGTGGAGAACCAGAGATCAAGTTTGAAGATTCCACAAGCACATTGAGAGAgtgagtaagtccatgcctgccagatgttctgatcacactgggctaaggta #### Pkd2l1_ID8959_9 --> 1 - 0 Original Alignment tTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCC-AACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG atgagagccttgtacacacagagtgctcctctctccctccgtgttttcagtTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTCAACAGAATCCTTGGCCCTGTGTACTTTGTCACCTATG-CTTCTTCGTCTTCTTTGTGCTTCTGgtacttataacttaaagatctgtgtgctatatttctgttgggtatattct Alignment from CESAR tTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCC-AACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG atgagagccttgtacacacagagtgctcctctctccctccgtgttttcagtTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTCAACAGAATCCTTGGCCCTGTGTACTTTGTCACCTAT-GCTTCTTCGTCTTCTTTGTGCTTCTGgtacttataacttaaagatctgtgtgctatatttctgttgggtatattct Alignment from Spaln_aa2Genome TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG atgagagccttgtacacacagagtgctcctctctccctccgtgttttcagTTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTCAACAGAATCCTTGGCCCTGTGTACTTTGTCACCTATGCTTCTTCGTCTTCTTTGTGCTTCTGgtacttataacttaaagatctgtgtgctatatttctgttgggtatattct Alignment from Spaln_nt2Genome TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGC-CAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG atgagagccttgtacacacagagtgctcctctctccctccgtgttttcagTTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTCAACAGAATCCTTGGCCCTGTGTACTTTGTCACCTATG-CTTCTTCGTCTTCTTTGTGCTTCTGgtacttataacttaaagatctgtgtgctatatttctgttgggtatattct Alignment from Pairagon TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGC-CAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG atgagagccttgtacacacagagtgctcctctctccctccgtgttttcagTTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTCAACAGAATCCTTGGCCCTGTGTACTTTGTCACCTATG-CTTCTTCGTCTTCTTTGTGCTTCTGgtacttataacttaaagatctgtgtgctatatttctgttgggtatattct Alignment from Exonerate_protein2genome TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG atgagagccttgtacacacagagtgctcctctctccctccgtgttttcagTTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTCAACAGAATCCTTGGCCCTGTGTACTTTGTCACCTATGCTTCTTCGTCTTCTTTGTGCTTCTGgtacttataacttaaagatctgtgtgctatatttctgttgggtatattct Alignment from Exonerate_coding2genome TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGC---CAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG atgagagccttgtacacacagagtgctcctctctccctccgtgttttcagTTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAAT--GCTCAACAGAATCCTTGGCCCTGTGTACTTTGTCACCTATGC-TTCTTCGTCTTCTTTGTGCTTCTGgtacttataacttaaagatctgtgtgctatatttctgttgggtatattct Alignment from GeneWise TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG atgagagccttgtacacacagagtgctcctctctccctccgtgttttcagTTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTCAACAGAATCCTTGGCCCTGTGTACTTTGTCACCTATGCTTCTTCGTCTTCTTTGTGCTTCTGgtacttataacttaaagatctgtgtgctatatttctgttgggtatattct #### Pkd2l1_ID8960_8 --> 0 - 2 Original Alignment ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTG-GGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCat aggcctaccctttgagagtgtactccactgacttgctgtttatttcctagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGCGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATG-CCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTCAGCACTTTTGTTAAGTGCatgtacgtacaaccattgtagacccttgggttttgagatcccagaatgtctg Alignment from CESAR ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTG-GGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCat aggcctaccctttgagagtgtactccactgacttgctgtttatttcctagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGCGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATG-CCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTCAGCACTTTTGTTAAGTGCatgtacgtacaaccattgtagacccttgggttttgagatcccagaatgtctg Alignment from Spaln_aa2Genome ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTG-GGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT aggcctaccctttgagagtgtactccactgacttgctgtttatttcctagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGcGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGCCAGCTT-GGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTCAGCACTTTTGTTAAGTGCATgtacgtacaaccattgtagacccttgggttttgagatcccagaatgtctg Alignment from Spaln_nt2Genome ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTG-GGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT aggcctaccctttgagagtgtactccactgacttgctgtttatttcctagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGCGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATG-CCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTCAGCACTTTTGTTAAGTGCATgtacgtacaaccattgtagacccttgggttttgagatcccagaatgtctg Alignment from Pairagon ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTG-GGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT aggcctaccctttgagagtgtactccactgacttgctgtttatttcctagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGCGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATG-CCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTCAGCACTTTTGTTAAGTGCATgtacgtacaaccattgtagacccttgggttttgagatcccagaatgtctg Alignment from Exonerate_protein2genome ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTG-GGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTAC--GCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT aggcctaccctttgagagtgtactccactgacttgctgtttatttcctagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGCGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGC---CAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTCAGCACTTTTGTTAAGTGCATgtacgtacaaccattgtagacccttgggttttgagatcccagaatgtctg Alignment from Exonerate_coding2genome ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTG-GGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTAC--GCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT aggcctaccctttgagagtgtactccactgacttgctgtttatttcctagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGCGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGC---CAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTCAGCACTTTTGTTAAGTGCATgtacgtacaaccattgtagacccttgggttttgagatcccagaatgtctg Alignment from GeneWise ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT aggcctaccctttgagagtgtactccactgacttgctgtttatttcctagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGCGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGCCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTCAGCACTTTTGTTAAGTGCATgtacgtacaaccattgtagacccttgggttttgagatcccagaatgtctg #### Plcb3_ID1901_30 --> 0 - 0 Original Alignment CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGC-CTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG ttcctcatcattgctcagacttccaaccctttctctttctatctgctcagTTGGGAGAGGCCCAAAAACAGCAACATGAGCGGCCTAGTGGCAGGACAACAGCAAGTCCTCCAGCAACTAGAGG-AGAGAAACCAAAAgtaagactctgtagggttgcatgtacacactaataggggaactggtcagc Alignment from CESAR CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGC-CTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG ttcctcatcattgctcagacttccaaccctttctctttctatctgctcagTTGGGAGAGGCCCAAAAACAGCAACATGAGCGGCCTAGTGGCAGGACAACAGCAAGTCCTCCAGCAACTAGAGG-AGAGAAACCAAAAgtaagactctgtagggttgcatgtacacactaataggggaactggtcagc Alignment from Spaln_aa2Genome CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGC-CTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG ttcctcatcattgctcagacttccaaccctttctctttctatctgctcagTTGGGAGAGGCCCAAAAACAGCAACATGAGCGGcCTAGTGGCAGGACAACAGCAAGTCCTCCAGCAACTAGAGGA-GAGAAACCAAAAgtaagactctgtagggttgcatgtacacactaataggggaactggtcagc Alignment from Spaln_nt2Genome CTGGAAGAGGCCCAGAAGCAGCGCCATGAACG-CCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG ttcctcatcattgctcagacttccaaccctttctctttctatctgctcagTTGGGAGAGGCCCAAAAACAGCAACATGAGCGGCCTAGTGGCAGGACAACAGCAAGTCCTCCAGCAACTAGAGG-AGAGAAACCAAAAgtaagactctgtagggttgcatgtacacactaataggggaactggtcagc Alignment from Pairagon CTGGAAGAGGCCCAGAAGCAGCGCCATGAAC-GCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG ttcctcatcattgctcagacttccaaccctttctctttctatctgctcagTTGGGAGAGGCCCAAAAACAGCAACATGAGCGGCCTAGTGGCAGGACAACAGCAAGTCCTCCAGCAACTAGAGG-AGAGAAACCAAAAgtaagactctgtagggttgcatgtacacactaataggggaactggtcagc Alignment from Exonerate_protein2genome CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGC-CTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG ttcctcatcattgctcagacttccaaccctttctctttctatctgctcagTTGGGAGAGGCCCAAAAACAGCAACATGAGCGGCCTAGTGGCAGGACAACAGCAAGTCCTCCAGCAACTAGAGGAGAGAAACCAAAAGtaagactctgtagggttgcatgtacacactaataggggaactggtcagc Alignment from Exonerate_coding2genome CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGC-CTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG ttcctcatcattgctcagacttccaaccctttctctttctatctgctcagTTGGGAGAGGCCCAAAAACAGCAACATGAGCGGCCTAGTGGCAGGACAACAGCAAGTCCTCCAGCAACTAGAGGAGAGAAACCAAAAGtaagactctgtagggttgcatgtacacactaataggggaactggtcagc Alignment from GeneWise CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG ttcctcatcattgctcagacttccaaccctttctctttctatctgctcagTTGGGAGAGGCCCAAAAACAGCAACATGAGCGGCCTAGTGGCAGGACAACAGCAAGTCCTCCAGCAACTAGAGGAGAGAAACCAAAAgtaagactctgtagggttgcatgtacacactaataggggaactggtcagc #### Plcb3_ID1905_26 --> 1 - 0 Original Alignment gGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAAC-CGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA tctcatttggttgtatcagttagagagttcacgggtgctctgtcctttaggGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAAAATCCAAAAAGCACAAAGCTTGTTGGAATTGAGAGAAGCCCAGGGTG-TGTGGAGACCAACTGCAAGCTGGAACATCTACGACAGgtaagtgatcaatgtgggatggtaaatgctgtacttctattgtagGCACA Alignment from CESAR gGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAAC-CGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA tctcatttggttgtatcagttagagagttcacgggtgctctgtcctttaggGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAAAATCCAAAAAGCACAAAGCTTGTTGGAATTGAGAGAAGCCCAGGGT-GTGTGGAGACCAACTGCAAGCTGGAACATCTACGACAGgtaagtgatcaatgtgggatggtatcaccctgcgtggctttccagGCACA Alignment from Spaln_aa2Genome GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAAC-CGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA tctcatttggttgtatcagttagagagttcacgggtgctctgtcctttagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAAAATcCAAAAAGCACAAAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGT-GTGGAGACCAACTGCAAGCTGGAACATCTACGACAGgtaagtgatcaatgtgggatggtaaatgctgtacttctattgtagGCACA Alignment from Spaln_nt2Genome GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAA-CCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA tctcatttggttgtatcagttagagagttcacgggtgctctgtcctttagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAAAATCCAAAAAGCACAAAGCTTGTTGGAATTGAGAGAAGCCCAGGGTG-TGTGGAGACCAACTGCAAGCTGGAACATCTACGACAGgtaagtgatcaatgtgggatggtaaatgctgtacttctattgtagGCACA Alignment from Pairagon GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAA-CCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA tctcatttggttgtatcagttagagagttcacgggtgctctgtcctttagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAAAATCCAAAAAGCACAAAGCTTGTTGGAATTGAGAGAAGCCCAGGGTG-TGTGGAGACCAACTGCAAGCTGGAACATCTACGACAGgtaagtgatcaatgtgggatggtaaatgctgtacttctattgtagGCACA Alignment from Exonerate_protein2genome GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA tctcatttggttgtatcagttagagagttcacgggtgctctgtcctttagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAAAATCCAAAAAGCACAAAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGTGTGGAGACCAACTGCAAGCTGGAACATCTACGACAGgtaagtgatcaatgtgggatggtaaatgctgtacttctattgtagGCACA Alignment from Exonerate_coding2genome GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG tctcatttggttgtatcagttagagagttcacgggtgctctgtcctttagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAAAATCCAAAAAGCACAAAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGTGTGGAGACCAACTGCAAGCTGGAACATCTACGACAGgtaagtgatcaatgtgggatggtaaatgctgtacttctattgtaggcaca Alignment from GeneWise GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA tctcatttggttgtatcagttagagagttcacgggtgctctgtcctttagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAAAATCCAAAAAGCACAAAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGTGTGGAGACCAACTGCAAGCTGGAACATCTACGACAGgtaagtgatcaatgtgggatggtaaatgctgtacttctattgtagGCACA #### Plcb3_ID1906_25 --> 2 - 2 Original Alignment agGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCC-CTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCct ccagcctacaagctagcacaccaaccaagcttatttgtgtcctaccatagaaGTAATCCCCACACCCCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAGCTGCGCAGCCGACAGTGTGACCAAGACCTACAGGAATTACATAAGAAGCACCAGCGTAAGGTTATAGCACCTCACACGCCGTTTGCTGGATGGCCTGGCTCAGACAA-AGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCctgtaagtacactccattacaccataacttggcagtatgtacttgctgcact Alignment from CESAR agGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCC-CTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCct ccagcctacaagctagcacaccaaccaagcttatttgtgtcctaccatagaaGTAATCCCCACACCCCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAGCTGCGCAGCCGACAGTGTGACCAAGACCTACAGGAATTACATAAGAAGCACCAGCGTAAGGTTATAGCACCTCACACGCCGTTTGCTGGATGGCCTGGCTCAGACAA-AGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCctgtaagtacactccattacaccataacttggcagtatgtacttgctgcact Alignment from Spaln_aa2Genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ccagcctacaagctagcacaccaaccaagcttatttgtgtcctaccatagAAGTAATCCCCACACCCCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAGCTGCGCAGCCGACAGTGTGACCAAGACCTACAGGAATTACATAAGAAGCACCAGCGTAAGGTTATAGCACCTCACACGCCGTTTGCTGGATGGCCTGGCTCAGACAAAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCCTgtaagtacactccattacaccataacttggcagtatgtacttgctgcact Alignment from Spaln_nt2Genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGC-CCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ccagcctacaagctagcacaccaaccaagcttatttgtgtcctaccatagAAGTAATCCCCACACCCCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAGCTGCGCAGCCGACAGTGTGACCAAGACCTACAGGAATTACATAAGAAGCACCAGCGTAAGGTTATAGCACCTCACACGCCGTTTGCTGGATGGCCTGGCTCA-GACAAAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCCTgtaagtacactccattacaccataacttggcagtatgtacttgctgcact Alignment from Pairagon AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGC-CCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ccagcctacaagctagcacaccaaccaagcttatttgtgtcctaccatagAAGTAATCCCCACACCCCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAGCTGCGCAGCCGACAGTGTGACCAAGACCTACAGGAATTACATAAGAAGCACCAGCGTAAGGTTATAGCACCTCACACGCCGTTTGCTGGATGGCCTGGCTCAGA-CAAAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCCTgtaagtacactccattacaccataacttggcagtatgtacttgctgcact Alignment from Exonerate_protein2genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ccagcctacaagctagcacaccaaccaagcttatttgtgtcctaccatagAAGTAATCCCCACACCCCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAGCTGCGCAGCCGACAGTGTGACCAAGACCTACAGGAATTACATAAGAAGCACCAGCGTAAGGTTATAGCACCTCACACGCCGTTTGCTGGATGGCCTGGCTCAGACAAAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCCTgtaagtacactccattacaccataacttggcagtatgtacttgctgcact Alignment from Exonerate_coding2genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ccagcctacaagctagcacaccaaccaagcttatttgtgtcctaccatagAAGTAATCCCCACACCCCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAGCTGCGCAGCCGACAGTGTGACCAAGACCTACAGGAATTACATAAGAAGCACCAGCGTAAGGTTATAGCACCTCACACGCCGTTTGCTGGATGGCCTGGCTCAGACAAAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCCTgtaagtacactccattacaccataacttggcagtatgtacttgctgcact Alignment from GeneWise GGCAGCGAGATGATTTGATTGCCAGCATCCTCTCTGAGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT gcacaccaaccaagCTTATTTGTGTCCTACCATA---------------GAAGTAATCCCCACACCCCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAGCTGCGCAGCCGACAGTGTGACCAAGACCTACAGGAATTACATAAGAAGCACCAGCGTAAGGTTATAGCACCTCACACGCCGTTTGCTGGATGGCCTGGCTCAGACAAAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCCTgtaagtacactccattacaccataacttggcagtatgtacttgctgcact #### Plcb3_ID1910_21 --> 2 - 1 Original Alignment gaTACCACTATGTCTGCCTGCGAAAC---GAGGCCAAC-CAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGg atttgaaacagttacaaaattctgtaagttgttttttgttttttttccaggcTACCACTATGTGTGCTTGCGAAATATTGAAGCTAACCCAATCTTTGTGCTTGCCTGCCCTGCTTATAT-CACTGTAGCCTCCGACTACATCCCAGATGACCACCAGggtaagagagtagactggcgaagtaatgtgaagagtctcatagggtgatca Alignment from CESAR gaTACCACTATGTCTGCCTGCGAAAC---GAGGCCAAC-CAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGg atttgaaacagttacaaaattctgtaagttgttttttgttttttttccaggcTACCACTATGTGTGCTTGCGAAATATTGAAGCTAACCCAATCTTTGTGCTTGCCTGCCCTGCTTATA-TCACTGTAGCCTCCGACTACATCCCAGATGACCACCAGggtaagagagtagactggcgaagtaatgtgaagagtctcatagggtgatca Alignment from Spaln_aa2Genome GATACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTAC---ACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG atttgaaacagttacaaaattctgtaagttgttttttgttttttttccagGCTACCACTATGTGTGCTTGCGAAATATTGAAGCTAACCCAATCTTTGTGCTTGCCTGCCCTGCTTATATCACTGTAGCCTCCGACTACATCCCAGATGACCACCAGGgtaagagagtagactggcgaagtaatgtgaagagtctcatagggtgatca Alignment from Spaln_nt2Genome GATACCACTATGTCTGCCTGCGAAAC---GAGGCCAACC-AACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG atttgaaacagttacaaaattctgtaagttgttttttgttttttttccagGCTACCACTATGTGTGCTTGCGAAATATTGAAGCTAACCCAATCTTTGTGCTTGCCTGCCCTGCTTATAT-CACTGTAGCCTCCGACTACATCCCAGATGACCACCAGGgtaagagagtagactggcgaagtaatgtgaagagtctcatagggtgatca Alignment from Pairagon GATACCACTATGTCTGCCTGCGAAA---CGAGGCCAA-CCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG atttgaaacagttacaaaattctgtaagttgttttttgttttttttccagGCTACCACTATGTGTGCTTGCGAAATATTGAAGCTAACCCAATCTTTGTGCTTGCCTGCCCTGCTTATAT-CACTGTAGCCTCCGACTACATCCCAGATGACCACCAGGgtaagagagtagactggcgaagtaatgtgaagagtctcatagggtgatca Alignment from Exonerate_protein2genome GATACCACTATGTCTGCCTGCGAAAC---GAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG atttgaaacagttacaaaattctgtaagttgttttttgttttttttccagGCTACCACTATGTGTGCTTGCGAAATATTGAAGCTAACCCAATCTTTGTGCTTGCCTGCCCTGCTTATATCACTGTAGCCTCCGACTACATCCCAGATGACCACCAGGgtaagagagtagactggcgaagtaatgtgaagagtctcatagggtgatca Alignment from Exonerate_coding2genome GATACCACTATGTCTGCCTGCGAAAC---GAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG atttgaaacagttacaaaattctgtaagttgttttttgttttttttccagGCTACCACTATGTGTGCTTGCGAAATATTGAAGCTAACCCAATCTTTGTGCTTGCCTGCCCTGCTTATATCACTGTAGCCTCCGACTACATCCCAGATGACCACCAGGgtaagagagtagactggcgaagtaatgtgaagagtctcatagggtgatca Alignment from GeneWise GATACCACTATGTCTGCCTGCGAAAC---GAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG atttgaaacagttacaaaattctgtaagttgttttttgttttttttccagGCTACCACTATGTGTGCTTGCGAAATATTGAAGCTAACCCAATCTTTGTGCTTGCCTGCCCTGCTTATATCACTGTAGCCTCCGACTACATCCCAGATGACCACCAGGgtaagagagtagactggcgaagtaatgtgaagagtctcatagggtgatca #### Plcb3_ID1911_20 --> 0 - 1 Original Alignment GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTT-GAGGAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAg ctgttttgccatatgctagttgtgagagcctgaacctgttctcattccagGTTGTACTACCCACAGTGACTTCGCTCCGCATTGCAGTTTTTCGAGAAGGGTGGCAAGTTTGTAGGGCATCGAA-TCTGCCTGTATCTGCAATCCACTCTggtagcgttaggggggggctgatttgaaacagttacaaaattctgtaagcc Alignment from CESAR GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTT-GAGGAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAg ctgttttgccatatgctagttgtgagagcctgaacctgttctcattccagGTTGTACTACCCACAGTGACTTCGCTCCGCATTGCAGTTTTTCGAGAAGGGTGGCAAGTTTGTAGGGCATCGAA-TCTGCCTGTATCTGCAATCCACTCTggtagcgttaggggggggctgatttgaaacagttacaaaattctgtaagtt Alignment from Spaln_aa2Genome GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAGGAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAG ctgttttgccatatgctagttgtgagagcctgaacctgttctcattccagGTTGTACTACCCACAGTGACTTCGCTCCGCATTGCAGTTTTTCGAGAAGGGTGGCAAGTTTGTAGGGCATCGAATCTGCCTGTATCTGCAATCCACTCTGgtagcgttaggggggggctgatttgaaacagttacaaaattctgtaagcc Alignment from Spaln_nt2Genome GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTT-GAGGAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAG ctgttttgccatatgctagttgtgagagcctgaacctgttctcattccagGTTGTACTACCCACAGTGACTTCGCTCCGCATTGCAGTTTTTCGAGAAGGGTGGCAAGTTTGTAGGGCATCGAAT-CTGCCTGTATCTGCAATCCACTCTGgtagcgttaggggggggctgatttgaaacagttacaaaattctgtaagcc Alignment from Pairagon GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTT-GAGGAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCT----------------------------------------------------- ctgttttgccatatgctagttgtgagagcctgaacctgttctcattccagGTTGTACTACCCACAGTGACTTCGCTCCGCATTGCAGTTTTTCGAGAAGGGTGGCAAGTTTGTAGGGCATCGAAT-CTGCCTGTATCTGCAATCCACTCTGGTAGCGTTAGGGGGGGGCTGATTTGAAACAGTTACAAAATTCTGTAAGCC Alignment from Exonerate_protein2genome GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAGGAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAG ctgttttgccatatgctagttgtgagagcctgaacctgttctcattccagGTTGTACTACCCACAGTGACTTCGCTCCGCATTGCAGTTTTTCGAGAAGGGTGGCAAGTTTGTAGGGCATCGAATCTGCCTGTATCTGCAATCCACTCTGgtagcgttaggggggggctgatttgaaacagttacaaaattctgtaagcc Alignment from Exonerate_coding2genome GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAGGAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAG ctgttttgccatatgctagttgtgagagcctgaacctgttctcattccagGTTGTACTACCCACAGTGACTTCGCTCCGCATTGCAGTTTTTCGAGAAGGGTGGCAAGTTTGTAGGGCATCGAATCTGCCTGTATCTGCAATCCACTCTGgtagcgttaggggggggctgatttgaaacagttacaaaattctgtaagcc Alignment from GeneWise GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAGGAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAG ctgttttgccatatgctagttgtgagagcctgaacctgttctcattccagGTTGTACTACCCACAGTGACTTCGCTCCGCATTGCAGTTTTTCGAGAAGGGTGGCAAGTTTGTAGGGCATCGAATCTGCCTGTATCTGCAATCCACTCTGgtagcgttaggggggggctgatttgaaacagttacaaaattctgtaagcc #### Plcb3_ID1914_17 --> 1 - 1 Original Alignment aTACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTAC-ATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGg ggcctcctggctgctggatccccaggacaccgctgcctgctgtctttcagaTACAACAGACAACAGCTTAGCCAGATATACTCCAGGAGCAAACAAGTGGACTCTTCAAACTACCATGCCTTATCTCTTTTGGAATGTGGGCTGCCAACTTG-TGCCCTCAACTTCCAGAGTCTGggtaaccatatgtttgcttttggcctccctaatcacctacctttaatttgg Alignment from CESAR aTACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTAC-ATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGg ggcctcctggctgctggatccccaggacaccgctgcctgctgtctttcagaTACAACAGACAACAGCTTAGCCAGATATACTCCAGGAGCAAACAAGTGGACTCTTCAAACTACCATGCCTTATCTCTTTTGGAATGTGGGCTGCCAACTTG-TGCCCTCAACTTCCAGAGTCTGggtaaccatatgtttgcttttggcctccctaatcacctacctttaatttgg Alignment from Spaln_aa2Genome ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTAC-ATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG ggcctcctggctgctggatccccaggacaccgctgcctgctgtctttcagATACAACAGACAACAGCTTAGCCAGATATACTCCAGGAGCAAACAAGTGGACTCTTCAAACTACcATGCCTTATCTCTTTTGGAATGTGGGCTGCCAACTTGTGCC-CTCAACTTCCAGAGTCTGGgtaaccatatgtttgcttttggcctccctaatcacctacctttaatttgg Alignment from Spaln_nt2Genome ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTA-CATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG ggcctcctggctgctggatccccaggacaccgctgcctgctgtctttcagATACAACAGACAACAGCTTAGCCAGATATACTCCAGGAGCAAACAAGTGGACTCTTCAAACTACCATGCCTTATCTCTTTTGGAATGTGGGCTGCCAACTTG-TGCCCTCAACTTCCAGAGTCTGGgtaaccatatgtttgcttttggcctccctaatcacctacctttaatttgg Alignment from Pairagon ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTA-CATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG ggcctcctggctgctggatccccaggacaccgctgcctgctgtctttcagATACAACAGACAACAGCTTAGCCAGATATACTCCAGGAGCAAACAAGTGGACTCTTCAAACTACCATGCCTTATCTCTTTTGGAATGTGGGCTGCCAACTTG-TGCCCTCAACTTCCAGAGTCTGGgtaaccatatgtttgcttttggcctccctaatcacctacctttaatttgg Alignment from Exonerate_protein2genome ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG ggcctcctggctgctggatccccaggacaccgctgcctgctgtctttcagATACAACAGACAACAGCTTAGCCAGATATACTCCAGGAGCAAACAAGTGGACTCTTCAAACTACCATGCCTTATCTCTTTTGGAATGTGGGCTGCCAACTTGTGCCCTCAACTTCCAGAGTCTGGgtaaccatatgtttgcttttggcctccctaatcacctacctttaatttgg Alignment from Exonerate_coding2genome ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG ggcctcctggctgctggatccccaggacaccgctgcctgctgtctttcagATACAACAGACAACAGCTTAGCCAGATATACTCCAGGAGCAAACAAGTGGACTCTTCAAACTACCATGCCTTATCTCTTTTGGAATGTGGGCTGCCAACTTGTGCCCTCAACTTCCAGAGTCTGGgtaaccatatgtttgcttttggcctccctaatcacctacctttaatttgg Alignment from GeneWise ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG ggcctcctggctgctggatccccaggacaccgctgcctgctgtctttcagATACAACAGACAACAGCTTAGCCAGATATACTCCAGGAGCAAACAAGTGGACTCTTCAAACTACCATGCCTTATCTCTTTTGGAATGTGGGCTGCCAACTTGTGCCCTCAACTTCCAGAGTCTGGgtaaccatatgtttgcttttggcctccctaatcacctacctttaatttgg #### Plcb3_ID1915_16 --> 2 - 2 Original Alignment aaAGGAACAAGTGCTTCGAGATGTCATCC-TTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGga catcaggttggtctttcaggtgattgctctttctaattctttttccttagaaAGGAACAAGTGTTTTAGAATGTCATCTCTTTGCAGAAACCAAAGCA------------ACCA-GAGCCCTATGGAGCTAGTGgagtgagttcatcaatgtgtagtgcgaggacgataactttgttgcctacaat Alignment from CESAR aaAGGAACAAGTGCTTCGAGATGTCATCC-TTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGga catcaggttggtctttcaggtgattgctctttctaattctttttccttagaaAGGAACAAGTGTTTTAGAATGTCATCTCTTTGCAGAAACCAAAGCA------------A-CCAGAGCCCTATGGAGCTAGTGgagtgagttcatcaatgtgtagtgcgaggacgataactttgttgcctacaat Alignment from Spaln_aa2Genome AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA catcaggttggtctttcaggtgattgctctttctaattctttttccttagAAAGGAACAAGTGTTTTAGAATGTCATCTCTTTGCAGAAAC------------CAAAGCAACCAGAGCCCTATGGAGCTAGTGGAgtgagttcatcaatgtgtagtgcgaggacgataactttgttgcctacaat Alignment from Spaln_nt2Genome AAAGGAACAAGTGCTTCGAGATGTCATC-CTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA catcaggttggtctttcaggtgattgctctttctaattctttttccttagAAAGGAACAAGTGTTTTAGAATGTCATCTCTTTGCAGAAACCAAAGCAA-------------CCAGAGCCCTATGGAGCTAGTGGAgtgagttcatcaatgtgtagtgcgaggacgataactttgttgcctacaat Alignment from Pairagon AAAGGAACAAGTGCTTCGAGATGTCATC-CTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA catcaggttggtctttcaggtgattgctctttctaattctttttccttagAAAGGAACAAGTGTTTTAGAATGTCATCTCTTTGCAGAAACCAAAGCAA-------------CCAGAGCCCTATGGAGCTAGTGGAgtgagttcatcaatgtgtagtgcgaggacgataactttgttgcctacaat Alignment from Exonerate_protein2genome AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA catcaggttggtctttcaggtgattgctctttctaattctttttccttagAAAGGAACAAGTGTTTTAGAATGTCATCTCTT------------TGCAGAAACCAAAGCAACCAGAGCCCTATGGAGCTAGTGGAgtgagttcatcaatgtgtagtgcgaggacgataactttgttgcctacaat Alignment from Exonerate_coding2genome catcaggttggtctttcaggtgattgctctttctaattctttttccttagaaaggaacaagtgttttagaatgtcatctctttgcagaaaccaaagcaaccagagccctatggagctagtggagtgagttcatcaatgtgtagtgcgaggacgataactttgttgcctacaat Alignment from GeneWise AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA catcaggttggtctttcaggtgattgctctttctaattctttttccttagAAAGGAACAAGTGTTTTAGAATGTCATCTCTT------------TGCAGAAACCAAAGCAACCAGAGCCCTATGGAGCTAGTGGAgtgagttcatcaatgtgtagtgcgaggacgataactttgttgcctacaat #### Plcb3_ID1922_9 --> 1 - 1 Original Alignment aGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTC-ATGGACTTTATCAAC------CAGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCg agtagtagggagctaccatcatgagtgtcttagcccacccttccccacagaGGCATGAAAGGCAAGCCTTACCTT---CTGGAGCAGCTTCATGGACTTTGTGAACCAACAAGAGAAGCAGAGAG-CCCAAGACTG---------------------------TCCTCACAAGCTCGTCTACTAATAGAAGAGTATGAGGCTAACAGACAGTTTCTGGAGTGTggtaggtccacacaggtaagatagttgtacgtactagtgggatctgctttg Alignment from CESAR aGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTC-ATGGACTTTATCAACCAG------AAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCg agtagtagggagctaccatcatgagtgtcttagcccacccttccccacagaGGCATGAAAGGCAAGCCTTACCTT---CTGGAGCAGCTTCATGGACTTTGTGAACCAACAAGAGAAGCAGAGA-GCCCAAGACTG---------------------------TCCTCACAAGCTCGTCTACTAATAGAAGAGTATGAGGCTAACAGACAGTTTCTGGAGTGTggtaggtccacacaggtaagatagttgtacgtactagtgggatctgctttg Alignment from Spaln_aa2Genome AGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAACCAGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCG agtagtagggagctaccatcatgagtgtcttagcccacccttccccacagAGGCATGAAAGGCAAGCCTTACCTT---CTGGAGCAGCTTCATGGACTTTGTGAACCAACAAGA------------------GAAGCAGAGAGCCCAAGACTG---TCCTCACAAGCTCGTCTACTAATAGAAGAGTATGAGGCTAACAGACAGTTTCTGGAGTGTGgtaggtccacacaggtaagatagttgtacgtactagtgggatctgctttg Alignment from Spaln_nt2Genome AGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCT-CATGGACTTTATCAACCAGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCG agtagtagggagctaccatcatgagtgtcttagcccacccttccccacagAGGCATGAAAGGCAAGCCTTACCT---TCTGGAGCAGCTTCATGGACTTTGTGAACC--AACAAGAGA-AGCAGAGAGCCCAAGA-------------------CTGTCCTCACAAGCTCGTCTACTAATAGAAGAGTATGAGGCTAACAGACAGTTTCTGGAGTGTGgtaggtccacacaggtaagatagttgtacgtactagtgggatctgctttg Alignment from Pairagon AGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGC-TCATGGACTTTATCAACC------AGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCG agtagtagggagctaccatcatgagtgtcttagcccacccttccccacagAGGCATGAAAGGCAAGCCTTACCT---TCTGGAGCAGCTTCATGGACTTTGTGAACCAACAAGAGAAGCAGAGAG-CCCAAGACT---------------------------GTCCTCACAAGCTCGTCTACTAATAGAAGAGTATGAGGCTAACAGACAGTTTCTGGAGTGTGgtaggtccacacaggtaagatagttgtacgtactagtgggatctgctttg Alignment from Exonerate_protein2genome CCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCG agtagtagggagctaccatcatgagtgtcttagcccacccttccccacagaggcatgaaaggcaagccttaccttctggagcagcttcatggactttgtgaaccaacaagagaagcagagagcCCAAGACTGTCCTCACAAGCTCGTCTACTAATAGAAGAGTATGAGGCTAACAGACAGTTTCTGGAGTGTGgtaggtccacacaggtaagatagttgtacgtactagtgggatctgctttg Alignment from Exonerate_coding2genome agtagtagggagctaccatcatgagtgtcttagcccacccttccccacagaggcatgaaaggcaagccttaccttctggagcagcttcatggactttgtgaaccaacaagagaagcagagagcccaagactgtcctcacaagctcgtctactaatagaagagtatgaggctaacagacagtttctggagtgtggtaggtccacacaggtaagatagttgtacgtactagtgggatctgctttg Alignment from GeneWise AGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAAC------CAGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCG agtagtagggagctaccatcatgagtgtcttagcccacccttccccacagAGGCATGAAAGGCAAGCCTTACCTT---CTGGAGCAGCTTCATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGCCCAAGACTG---------------------------TCCTCACAAGCTCGTCTACTAATAGAAGAGTATGAGGCTAACAGACAGTTTCTGGAGTGTGgtaggtccacacaggtaagatagttgtacgtactagtgggatctgctttg #### Plcb3_ID1926_5 --> 0 - 2 Original Alignment GTCTGGTCAGAGGAGTTGTTTAAA-CTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAgc gggattaactgcctcttccattccactaatgagttgtctcttctccccagGTATGGTCAGAGGAGTTGTTTAGACTTAGCAATGAACATATTGGCCCAGAATGCATCCCAAAACA-ATTCTCGCGTAAAccgtgagtctacaagcacacaggggggtgggaaaatgtctcactgtgcatca Alignment from CESAR GTCTGGTCAGAGGAGTTGTTTAAACTG-GCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAgc gggattaactgcctcttccattccactaatgagttgtctcttctccccagGTATGGTCAGAGGAGTTGTTTAGACTTAGCAATGAACATATTGGCCCAGAATGCATCCCAAAAC-AATTCTCGCGTAAAccgtgagtctacaagcacacaggggggtgggaaaatgtctcactgtgcatca Alignment from Spaln_aa2Genome GTCTGGTCAGAGGAGTTGTTTAAA-CTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTC---CTGCGGAAAGC gggattaactgcctcttccattccactaatgagttgtctcttctccccagGTATGGTCAGAGGAGTTGTTTAGAcTTAGCAATGAACATATTGGCCCAGAATGCATCCCAAAACAATTCTCGCGTAAACCGTGAgtctacaagcacacaggggggtgggaaaatgtctcactgtgcatca Alignment from Spaln_nt2Genome GTCTGGTCAGAGGAGTTGTTTAAACTG-GCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC gggattaactgcctcttccattccactaatgagttgtctcttctccccagGTATGGTCAGAGGAGTTGTTTAGACTTAGCAATGAACATATTGGCCCAGAATGCATCCCAAAACA-ATTCTCGCGTAAACCgtgagtctacaagcacacaggggggtgggaaaatgtctcactgtgcatca Alignment from Pairagon GTCTGGTCAGAGGAGTTGTTTAAAC-TGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC gggattaactgcctcttccattccactaatgagttgtctcttctccccagGTATGGTCAGAGGAGTTGTTTAGACTTAGCAATGAACATATTGGCCCAGAATGCATCCCAAAACA-ATTCTCGCGTAAACCgtgagtctacaagcacacaggggggtgggaaaatgtctcactgtgcatca Alignment from Exonerate_protein2genome GTCTGGTCAGAGGAGTTGTTTAAA-CTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTG gggattaactgcctcttccattccactaatgagttgtctcttctccccagGTATGGTCAGAGGAGTTGTTTAGACTTAGCAATGAACATATTGGCCCAGAATGCATCCCAAAACAATTCTCGCgtaaaccgtgagtctacaagcacacaggggggtgggaaaatgtctcactgtgcatca Alignment from Exonerate_coding2genome gggattaactgcctcttccattccactaatgagttgtctcttctccccaggtatggtcagaggagttgtttagacttagcaatgaacatattggcccagaatgcatcccaaaacaattctcgcgtaaaccgtgagtctacaagcacacaggggggtgggaaaatgtctcactgtgcatca Alignment from GeneWise GTCTGGTCAGAGGAGTTGTTTAAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC gggattaactgcctcttccattccactaatgagttgtctcttctccccagGTATGGTCAGAGGAGTTGTTTAGACTTAGCAATGAACATATTGGCCCAGAATGCATCCCAAAACAATTCTCGCGTAAACCgtgagtctacaagcacacaggggggtgggaaaatgtctcactgtgcatca #### Plcb3_ID1928_3 --> 0 - 0 Original Alignment GAGGTGGACACA-CTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG taaatcggtggacaaccttgttccttgatctctgttttggtgcctcatagGAGGTGGACACACCTGGATATCAGCTCGATCAGAGGTACAAGGACAGGTCGTTATG-CCACCTGCCCAAAgtgagtcactggctttgcacatgtaaataccacaccacttttggggaaca Alignment from CESAR GAGGTGGACACA-CTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG taaatcggtggacaaccttgttccttgatctctgttttggtgcctcatagGAGGTGGACACACCTGGATATCAGCTCGATCAGAGGTACAAGGACAGGTCGTTATG-CCACCTGCCCAAAgtgagtcactggctttgcacatgtaaataccacaccacttttggggaaca Alignment from Spaln_aa2Genome GAGGTGGACACA-CTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG taaatcggtggacaaccttgttccttgatctctgttttggtgcctcatagGAGGTGGACACAcCTGGATATCAGCTCGATCAGAGGTACAAGGACAGGTCGTTATGCCAC-CTGCCCAAAgtgagtcactggctttgcacatgtaaataccacaccacttttggggaaca Alignment from Spaln_nt2Genome GAGGTGGACACAC-TGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG taaatcggtggacaaccttgttccttgatctctgttttggtgcctcatagGAGGTGGACACACCTGGATATCAGCTCGATCAGAGGTACAAGGACAGGTCGTTATG-CCACCTGCCCAAAgtgagtcactggctttgcacatgtaaataccacaccacttttggggaaca Alignment from Pairagon GAGGTGGACACA-CTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG taaatcggtggacaaccttgttccttgatctctgttttggtgcctcatagGAGGTGGACACACCTGGATATCAGCTCGATCAGAGGTACAAGGACAGGTCGTTATG-CCACCTGCCCAAAgtgagtcactggctttgcacatgtaaataccacaccacttttggggaaca Alignment from Exonerate_protein2genome GAGGTGGACACA-CTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAA taaatcggtggacaaccttgttccttgatctctgttttggtgcctcatagGAGGTGGACACACCTGGATATCAGCTCGATCAGAGGTACAAGGACAGGTCGTTATGCCACCTGCCCAAAgtgagtcactggctttgcacatgtaaataccacaccacttttggggaaca Alignment from Exonerate_coding2genome taaatcggtggacaaccttgttccttgatctctgttttggtgcctcataggaggtggacacacctggatatcagctcgatcagaggtacaaggacaggtcgttatgccacctgcccaaagtgagtcactggctttgcacatgtaaataccacaccacttttggggaaca Alignment from GeneWise GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG taaatcggtggacaaccttgttccttgatctctgttttggtgcctcatagGAGGTGGACACACCTGGATATCAGCTCGATCAGAGGTACAAGGACAGGTCGTTATGCCACCTGCCCAAAgtgagtcactggctttgcacatgtaaataccacaccacttttggggaaca #### Plce1_ID7626_12 --> 1 - 1 Original Alignment cATCAGGAGCCGCAAGGACTTGAAGGACATCTTT-GACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAg ctgtatatgactatttcagaaaggctatattgtccccttcttccttatagcATTAGGAGCCGTAAGGACCTGAAAGACATCTTTCGATATCTATACAGTG---------AGATCTA-CTCAGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGggtaagtttgttggcccaatcctcccatcaggcaggtttgtaactttgata Alignment from CESAR cATCAGGAGCCGCAAGGACTTGAAGGACATCTTT-GACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAg ctgtatatgactatttcagaaaggctatattgtccccttcttccttatagcATTAGGAGCCGTAAGGACCTGAAAGACATCTTTCGATATCTATACAGTG---------AGATCT-ACTCAGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGggtaagtttgttggcccaatcctcccatcaggcaggtttgtaactttgata Alignment from Spaln_aa2Genome CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG ctgtatatgactatttcagaaaggctatattgtccccttcttccttatagCATTAGGAGCCGTAAGGACCTGAAAGACATCTTTCGA---TAT------CTATACAGTGAGATCTACTCAGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGGgtaagtttgttggcccaatcctcccatcaggcaggtttgtaactttgata Alignment from Spaln_nt2Genome CATCAGGAGCCGCAAGGACTTGAAGGACATCTTT-GACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG ctgtatatgactatttcagaaaggctatattgtccccttcttccttatagCATTAGGAGCCGTAAGGACCTGAAAGACATCTTTCGATATCTA-----TACAGTGAGATC-----TACTCAGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGGgtaagtttgttggcccaatcctcccatcaggcaggtttgtaactttgata Alignment from Pairagon CATCAGGAGCCGCAAGGACTTGAAGGACATCTT---------------TGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG ctgtatatgactatttcagaaaggctatattgtccccttcttccttatagCATTAGGAGCCGTAAGGACCTGAAAGACATCTTTCGATATCTATACAGTGAGATCTA------------------------CTCAGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGGgtaagtttgttggcccaatcctcccatcaggcaggtttgtaactttgata Alignment from Exonerate_protein2genome CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG ctgtatatgactatttcagaaaggctatattgtccccttcttccttatagCATTAGGAGCCGTAAGGACCTGAAAGACATCTTTCGATATCTA---------TACAGTGAGATCTACTCAGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGGgtaagtttgttggcccaatcctcccatcaggcaggtttgtaactttgata Alignment from Exonerate_coding2genome CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG ctgtatatgactatttcagaaaggctatattgtccccttcttccttatagCATTAGGAGCCGTAAGGACCTGAAAGACATCTTTCGATATCTA---------TACAGTGAGATCTACTCAGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGGgtaagtttgttggcccaatcctcccatcaggcaggtttgtaactttgata Alignment from GeneWise CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGAC---ATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG ctgtatatgactatttcagaaaggctatattgtccccttcttccttatagCATTAGGAGCCGTAAGGACCTGAAAGACATCTTTCGATATCTATACAGT------------GAGATCTACTCAGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGGgtaagtttgttggcccaatcctcccatcaggcaggtttgtaactttgata #### Plekhs1_ID12098_3 --> 0 - 2 Original Alignment ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAG-AGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACgg cattgactttactgacatcaactagtgcaagaagggcttttcttttttagACCTCCTGGAAGAAGCGTTTATTTATACTGTCCCAGCAGCCGGGGATCAGGTCTTGGTCTTTCTTATT-CAAAGATCATCAACACAGAGGCTCCATTGGAGTTGATaggtgagtatttgagcaatgctcacactaaaagcactagattttgagtacca Alignment from CESAR ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAG-AGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACgg cattgactttactgacatcaactagtgcaagaagggcttttcttttttagACCTCCTGGAAGAAGCGTTTATTTATACTGTCCCAGCAGCCGGGGATCAGGTCTTGGTCTTTCTT-ATTCAAAGATCATCAACACAGAGGCTCCATTGGAGTTGATaggtgagtatttgagcaatgctcacactaaaagcactagattttgagtacca Alignment from Spaln_aa2Genome ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAGAGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACGG cattgactttactgacatcaactagtgcaagaagggcttttcttttttagACCTCCTGGAAGAAGCGTTTATTTATACTGTCCCAGCAGCCGGGGATCAGGTCTTGGTCTTTCTTATTCAAAGATCATCAACACAGAGGCTCCATTGGAGTTGATAGgtgagtatttgagcaatgctcacactaaaagcactagattttgagtacca Alignment from Spaln_nt2Genome ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAG-AGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACGG cattgactttactgacatcaactagtgcaagaagggcttttcttttttagACCTCCTGGAAGAAGCGTTTATTTATACTGTCCCAGCAGCCGGGGATCAGGTCTTGGTCTTTCTTATT-CAAAGATCATCAACACAGAGGCTCCATTGGAGTTGATAGgtgagtatttgagcaatgctcacactaaaagcactagattttgagtacca Alignment from Pairagon ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAG-AGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACGG cattgactttactgacatcaactagtgcaagaagggcttttcttttttagACCTCCTGGAAGAAGCGTTTATTTATACTGTCCCAGCAGCCGGGGATCAGGTCTTGGTCTTTCTTATT-CAAAGATCATCAACACAGAGGCTCCATTGGAGTTGATAGgtgagtatttgagcaatgctcacactaaaagcactagattttgagtacca Alignment from Exonerate_protein2genome ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAGAGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACGG cattgactttactgacatcaactagtgcaagaagggcttttcttttttagACCTCCTGGAAGAAGCGTTTATTTATACTGTCCCAGCAGCCGGGGATCAGGTCTTGGTCTTTCTTATTCAAAGATCATCAACACAGAGGCTCCATTGGAGTTGATAGgtgagtatttgagcaatgctcacactaaaagcactagattttgagtacca Alignment from Exonerate_coding2genome ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAGAGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACGG cattgactttactgacatcaactagtgcaagaagggcttttcttttttagACCTCCTGGAAGAAGCGTTTATTTATACTGTCCCAGCAGCCGGGGATCAGGTCTTGGTCTTTCTTATTCAAAGATCATCAACACAGAGGCTCCATTGGAGTTGATAGgtgagtatttgagcaatgctcacactaaaagcactagattttgagtacca Alignment from GeneWise ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAGAGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACGG cattgactttactgacatcaactagtgcaagaagggcttttcttttttagACCTCCTGGAAGAAGCGTTTATTTATACTGTCCCAGCAGCCGGGGATCAGGTCTTGGTCTTTCTTATTCAAAGATCATCAACACAGAGGCTCCATTGGAGTTGATAGgtgagtatttgagcaatgctcacactaaaagcactagattttgagtacca #### Pnlip_ID12748_7 --> 2 - 1 Original Alignment gaTTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGA-TGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAg gtctgggctttgaataatctacgggccttcgtgtgtctcgtacaatacaggaTTTGGAATGAGCCAGACTGTGGGTCACTTAGACTTCTTCCCCAATGAAGGAATTGAAATGCCAGGACTGCCAGAAAAATACTCTTTCCCAGATTG-TGATATTGATGGGATCTGGGAAggtgagtgcttgtgtagctgaaataaactataatgcaattaattctcttga Alignment from CESAR gaTTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGA-TGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAg gtctgggctttgaataatctacgggccttcgtgtgtctcgtacaatacaggaTTTGGAATGAGCCAGACTGTGGGTCACTTAGACTTCTTCCCCAATGAAGGAATTGAAATGCCAGGACTGCCAGAAAAATACTCTTTCCCAGATTG-TGATATTGATGGGATCTGGGAAggtgagtgcttgtgtagctgaaataaactataatgcaattaattctcttga Alignment from Spaln_aa2Genome GATTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAG gtctgggctttgaataatctacgggccttcgtgtgtctcgtacaatacagGATTTGGAATGAGCCAGACTGTGGGTCACTTAGACTTCTTCCCCAATGAAGGAATTGAAATGCCAGGACTGCCAGAAAAATACTCTTTCCCAGATTGTGATATTGATGGGATCTGGGAAGgtgagtgcttgtgtagctgaaataaactataatgcaattaattctcttga Alignment from Spaln_nt2Genome GATTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGA-TGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAG gtctgggctttgaataatctacgggccttcgtgtgtctcgtacaatacagGATTTGGAATGAGCCAGACTGTGGGTCACTTAGACTTCTTCCCCAATGAAGGAATTGAAATGCCAGGACTGCCAGAAAAATACTCTTTCCCAGATTG-TGATATTGATGGGATCTGGGAAGgtgagtgcttgtgtagctgaaataaactataatgcaattaattctcttga Alignment from Pairagon GATTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGA-TGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAG gtctgggctttgaataatctacgggccttcgtgtgtctcgtacaatacagGATTTGGAATGAGCCAGACTGTGGGTCACTTAGACTTCTTCCCCAATGAAGGAATTGAAATGCCAGGACTGCCAGAAAAATACTCTTTCCCAGATTG-TGATATTGATGGGATCTGGGAAGgtgagtgcttgtgtagctgaaataaactataatgcaattaattctcttga Alignment from Exonerate_protein2genome GATTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAG gtctgggctttgaataatctacgggccttcgtgtgtctcgtacaatacagGATTTGGAATGAGCCAGACTGTGGGTCACTTAGACTTCTTCCCCAATGAAGGAATTGAAATGCCAGGACTGCCAGAAAAATACTCTTTCCCAGATTGTGATATTGATGGGATCTGGGAAGgtgagtgcttgtgtagctgaaataaactataatgcaattaattctcttga Alignment from Exonerate_coding2genome GATTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAG gtctgggctttgaataatctacgggccttcgtgtgtctcgtacaatacagGATTTGGAATGAGCCAGACTGTGGGTCACTTAGACTTCTTCCCCAATGAAGGAATTGAAATGCCAGGACTGCCAGAAAAATACTCTTTCCCAGATTGTGATATTGATGGGATCTGGGAAGgtgagtgcttgtgtagctgaaataaactataatgcaattaattctcttga Alignment from GeneWise GATTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAG gtctgggctttgaataatctacgggccttcgtgtgtctcgtacaatacagGATTTGGAATGAGCCAGACTGTGGGTCACTTAGACTTCTTCCCCAATGAAGGAATTGAAATGCCAGGACTGCCAGAAAAATACTCTTTCCCAGATTGTGATATTGATGGGATCTGGGAAGgtgagtgcttgtgtagctgaaataaactataatgcaattaattctcttga #### Pnliprp1_ID12765_2 --> 2 - 0 Original Alignment ggAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCC-CTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG tgaaagcccagttaacatggactggcacagtttggactccttgcacccagggAAAGAATTTTGTTATCACAACCTTGGGTGCTTCTCTGATGCAGAACCCTGGGCAGGCACAGCCAATAGACCTCCTAAAACTCCTACCATGGAGTCCAGAGAAGATCAACACCTGCT-TTTACTCTACACAAATGAGAACCCCATTGCATTCCAGgtgagtactgtaggtcctagatgagaatcaggtgaccctacccctttaac Alignment from CESAR ggAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCC-CTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG tgaaagcccagttaacatggactggcacagtttggactccttgcacccagggAAAGAATTTTGTTATCACAACCTTGGGTGCTTCTCTGATGCAGAACCCTGGGCAGGCACAGCCAATAGACCTCCTAAAACTCCTACCATGGAGTCCAGAGAAGATCAACACCTGCT-TTTACTCTACACAAATGAGAACCCCATTGCATTCCAGgtgagtactgtaggtcctagatgagaatcaggtgaccctacccctttaac Alignment from Spaln_aa2Genome GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG tgaaagcccagttaacatggactggcacagtttggactccttgcacccagGGAAAGAATTTTGTTATCACAACCTTGGGTGCTTCTCTGATGCAGAACCCTGGGCAGGCACAGCCAATAGACCTCCTAAAACTCCTACCATGGAGTCCAGAGAAGATCAACACCTGCTTTTACTCTACACAAATGAGAACCCCATTGCATTCCAGgtgagtactgtaggtcctagatgagaatcaggtgaccctacccctttaac Alignment from Spaln_nt2Genome GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCC-CCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG tgaaagcccagttaacatggactggcacagtttggactccttgcacccagGGAAAGAATTTTGTTATCACAACCTTGGGTGCTTCTCTGATGCAGAACCCTGGGCAGGCACAGCCAATAGACCTCCTAAAACTCCTACCATGGAGTCCAGAGAAGATCAACACCTGCTT-TTACTCTACACAAATGAGAACCCCATTGCATTCCAGgtgagtactgtaggtcctagatgagaatcaggtgaccctacccctttaac Alignment from Pairagon GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCC-CCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG tgaaagcccagttaacatggactggcacagtttggactccttgcacccagGGAAAGAATTTTGTTATCACAACCTTGGGTGCTTCTCTGATGCAGAACCCTGGGCAGGCACAGCCAATAGACCTCCTAAAACTCCTACCATGGAGTCCAGAGAAGATCAACACCTGCTT-TTACTCTACACAAATGAGAACCCCATTGCATTCCAGgtgagtactgtaggtcctagatgagaatcaggtgaccctacccctttaac Alignment from Exonerate_protein2genome GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCC-CTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACT--CGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG tgaaagcccagttaacatggactggcacagtttggactccttgcacccagGGAAAGAATTTTGTTATCACAACCTTGGGTGCTTCTCTGATGCAGAACCCTGGGCAGGCACAGCCAATAGACCTCCTAAAACTCCTACCATGGAGTCCAGAGAAGATCAACACCTG---CTTTTACTCTACACAAATGAGAACCCCATTGCATTCCAGgtgagtactgtaggtcctagatgagaatcaggtgaccctacccctttaac Alignment from Exonerate_coding2genome tgaaagcccagttaacatggactggcacagtttggactccttgcacccagggaaagaattttgttatcacaaccttgggtgcttctctgatgcagaaccctgggcaggcacagccaatagacctcctaaaactcctaccatggagtccagagaagatcaacacctgcttttactctacacaaatgagaaccccattgcattccaggtgagtactgtaggtcctagatgagaatcaggtgaccctacccctttaac Alignment from GeneWise GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG tgaaagcccagttaacatggactggcacagtttggactccttgcacccagGGAAAGAATTTTGTTATCACAACCTTGGGTGCTTCTCTGATGCAGAACCCTGGGCAGGCACAGCCAATAGACCTCCTAAAACTCCTACCATGGAGTCCAGAGAAGATCAACACCTGCTTTTACTCTACACAAATGAGAACCCCATTGCATTCCAGgtgagtactgtaggtcctagatgagaatcaggtgaccctacccctttaac #### Pola2_ID1323_17 --> 1 - 0 Original Alignment tTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAG-AACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG ggaggggtgacggtatggtcaggagatcaagttcttccttgcttttgcagcTACTATCCACTTTATCCACCCCATGTGGACATGGCCATAGACTATAAGCAATTTTTACACCTATGCTCAATTGCCAGTGTTAC-TGGTGTGTTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGgtgagagttggattgctttctcctttgggtcttctgatatgccatctcac Alignment from CESAR tTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAG-AACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG ggaggggtgacggtatggtcaggagatcaagttcttccttgcttttgcagcTACTATCCACTTTATCCACCCCATGTGGACATGGCCATAGACTATAAGCAATTTTTACACCTATGCTCAATTGCCAGTG-TTACTGGTGTGTTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGgtgagagttggattgctttctcctttgggtcttctgatatgccatctcac Alignment from Spaln_aa2Genome TTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG ggaggggtgacggtatggtcaggagatcaagttcttccttgcttttgcagCTACTATCCACTTTATCCACCCCATGTGGACATGGCCATAGACTATAAGCAATTTTTACACCTATGCTCAATTGCCAGTGTTACTGGTGTGTTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGgtgagagttggattgctttctcctttgggtcttctgatatgccatctcac Alignment from Spaln_nt2Genome TTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAG-AACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG ggaggggtgacggtatggtcaggagatcaagttcttccttgcttttgcagCTACTATCCACTTTATCCACCCCATGTGGACATGGCCATAGACTATAAGCAATTTTTACACCTATGCTCAATTGCCAGT-GTTACTGGTGTGTTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGgtgagagttggattgctttctcctttgggtcttctgatatgccatctcac Alignment from Pairagon TTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAG-AACTTCTATACCTATGCCCAGCTGCC---------GGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG ggaggggtgacggtatggtcaggagatcaagttcttccttgcttttgcagCTACTATCCACTTTATCCACCCCATGTGGACATGGCCATAGACTATAAGCAATTTTTACACCTATGCTCAATTGCCAGTGTTACTGG----------TGTGTTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGgtgagagttggattgctttctcctttgggtcttctgatatgccatctcac Alignment from Exonerate_protein2genome ggaggggtgacggtatggtcaggagatcaagttcttccttgcttttgcagctactatccactttatccaccccatgtggacatggccatagactataagcaatttttacacctatgctcaattgccagtgttactggtgtgttcatagtgccatctgagctgaaatactttgtaaaggtgagagttggattgctttctcctttgggtcttctgatatgccatctcac Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG ggaggggtgacggtatggtcaggagatcaagttcttccttgcttttgcagCTACTATCCACTTTATCCACCCCATGTGGACATGGCCATAGACTATAAGCAATTTTTACACCTATGCTCAATTGCCAGTGTTACTGGTGTGTTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGgtgagagttggattgctttctcctttgggtcttctgatatgccatctcac #### Pola2_ID1335_6 --> 1 - 1 Original Alignment tGCTACCCCCTCCCAGAAATACACCTCCAGAACCAACCGGGGAGAAGTGGTGACCACCTTT-GGCTCCGCACAGGGCTTGTCTTGGTCCGGGAGAGGAGGCTCTGGAAGCGTCAGTCTGAAGGTCGTGGGGGACCCAGAGCCACTCACTGGCAGCTACAAAGCGATGTTTCAGCAGCTCATGGGTGTTCGAGAAg gtgtgtaccagtcattccctcataatttccgtaatttctttctttttcagcACTACTCCATCCCAAAAATACACGTCCAGGATTAAGAAGGGAGAGGTGGTTACCACCTTTCGGCTCTGCACATGGCTTATCTTGGTCCGGGGGAGGAGGCTCTG-GAGTGTTAGTCTGAAAGTAGCAGGAGACCCAGAGCCACTCACAGGTAGCTACAAATCAATGTTTCAACAGTTGATGGGTGTTGGGGAAggtgagcattacaggccctcagactgtgattccaaggtgtgaacattcatg Alignment from CESAR tGCTACCCCCTCCCAGAAATACACCTCCAGAACCAACCGGGGAGAAGTGGTGACCACCTTT-GGCTCCGCACAGGGCTTGTCTTGGTCCGGGAGAGGAGGCTCTGGAAGCGTCAGTCTGAAGGTCGTGGGGGACCCAGAGCCACTCACTGGCAGCTACAAAGCGATGTTTCAGCAGCTCATGGGTGTTCGAGAAg gtgtgtaccagtcattccctcataatttccgtaatttctttctttttcagcACTACTCCATCCCAAAAATACACGTCCAGGATTAAGAAGGGAGAGGTGGTTACCACCTTTCGGCTCTGCACATGGCTTATCTTGGTCCGGGGGAGGAGGCTCTG-GAGTGTTAGTCTGAAAGTAGCAGGAGACCCAGAGCCACTCACAGGTAGCTACAAATCAATGTTTCAACAGTTGATGGGTGTTGGGGAAggtgagcattacaggccctcagactgtgattccaaggtgtgaacattcatg Alignment from Spaln_aa2Genome TCGCAGCCCACGTCAGCTTCTCTCACCGTCAAGTTTCTCCCCGAGTGCTACCCCCTCCCAGAAATACACCTCCAGAACCAACCGGGGAGAAGTGGTGACCACCTTTGGCTCCGCACAGGGCTTGTCTTGGTCCGGGAGAGGAGGCTCTGGAAGCGTCAGTCTGAAGGTCGTGGGGGACCCAGAGCCACTCACTGGCAGCTACAAAGCGATGTTTCAGCAGCTCATGGGTGTTCGAGAAG accagTCATTCCCTC------ATAATTTCCGTAATTTCTTTCTTTTTCAGCACTACTCCATCCCAAAAATACACGTCCAGGATTAAGAAGGGAGAGGTGGTTACCACCTTTCGGCTCTGCACATGGCTTATCTTGGTCCGGGGGAGGAGGCTCTGGAGTGTTAGTCTGAAAGTAGCAGGAGACCCAGAGCCACTCACAGGTAGCTACAAATCAATGTTTCAACAGTTGATGGGTGTTGGGGAAGgtgagcattacaggccctcagactgtgattccaaggtgtgaacattcatg Alignment from Spaln_nt2Genome TGCTACCCCCTCCCAGAAATACACCTCCAGAACCAACCGGGGAGAAGTGGTGACCACCTTT-GGCTCCGCACAGGGCTTGTCTTGGTCCGGGAGAGGAGGCTCTGGAAGCGTCAGTCTGAAGGTCGTGGGGGACCCAGAGCCACTCACTGGCAGCTACAAAGCGATGTTTCAGCAGCTCATGGGTGTTCGAGAAG gtgtgtaccagtcattccctcataatttccgtaatttctttctttttcagCACTACTCCATCCCAAAAATACACGTCCAGGATTAAGAAGGGAGAGGTGGTTACCACCTTTCGGCTCTGCACATGGCTTATCTTGGTCCGGGGGAGGAGGCTCTGG-AGTGTTAGTCTGAAAGTAGCAGGAGACCCAGAGCCACTCACAGGTAGCTACAAATCAATGTTTCAACAGTTGATGGGTGTTGGGGAAGgtgagcattacaggccctcagactgtgattccaaggtgtgaacattcatg Alignment from Pairagon CAAGTTTCTCCCCGAGTGCTACCCCCTCCCAGAAATACACCTCCAGAACCAACCGGGGAGAAGTGGTGACCACCTTT-GGCTCCGCACAGGGCTTGTCTTGGTCCGGGAGAGGAGGCTCTGGAAGCGTCAGTCTGAAGGTCGTGGGGGACCCAGAGCCACTCACTGGCAGCTACAAAGCGATGTTTCAGCAGCTCATGGGTGTTCGAGAAG gtgtgtaccagtcattccctcataatttccgtaatttctttctttttcagCA----------------CTACTCCATCCCAAAAATACACGTCCAGGATTAAGAAGGGAGAGGTGGTTACCACCTTTCGGCTCTGCACATGGCTTATCTTGGTCCGGGGGAGGAGGCTCTGG-AGTGTTAGTCTGAAAGTAGCAGGAGACCCAGAGCCACTCACAGGTAGCTACAAATCAATGTTTCAACAGTTGATGGGTGTTGGGGAAGgtgagcattacaggccctcagactgtgattccaaggtgtgaacattcatg Alignment from Exonerate_protein2genome TCGCAGCCCACGTCAGCTTCTCTCACCGTCAAGTTTCTCCCCGAGTGCTACCCCCTCCCAGAAATACACCTCCAGAACCAACCGGGGAGAAGTGGTGACCACC-TTTGGCTCCGCACAGGGCTTGTCTTGGTCCGGGAGAGGAGGCTCTGGA--AGCGTCAGTCTGAAGGTCGTGGGGGACCCAGAGCCACTCACTGGCAGCTACAAAGCGATGTTTCAGCAGCTCATGGGTGTTCGAGAAG gtgtgTACCAGTCATTCCCTCATAATTTCCGTAATTTCTTTCTTTTTCAGCACTACTCCATCCCAAAAATACACGTCCAGGATTAAGAAGGGAGAGGTGGTTACCACCTTTCGGCTCTGCACATGGCTTATCTTGGTCCGGGGGAGGAGGCTCTGGAGT---GTTAGTCTGAAAGTAGCAGGAGACCCAGAGCCACTCACAGGTAGCTACAAATCAATGTTTCAACAGTTGATGGGTGTTGGGGAAGgtgagcattacaggccctcagactgtgattccaaggtgtgaacattcatg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TCGCAGCCCACGTCAGCTTCTCTCACCGTCAAGTTTCTCCCCGAGTGCTACCCCCTCCCAGAAATACACCTCCAGAACCAACCGGGGAGAAGTGGTGACC-ACCTTTGGCTCCGCACAGGGCTTGTCTTGGTCCGGGAGAGGAGGCTCTGGAAGCGTCAGTCTGAAGGTCGTGGGGGACCCAGAGCCACTCACTGGCAGCTACAAAGCGATGTTTCAGCAGCTCATGGGTGTTCGAGAAG accagTCATTCC------CTCATAATTTCCGTAATTTCTTTCTTTTTCAGCACTACTCCATCCCAAAAATACACGTCCAGGATTAAGAAGGGAGAGGTGGTTACCACCTTTCGGCTCTGCACATGGCTTATCTTGGTCCGGGGGAGGAGGCTCTGGAGT-GTTAGTCTGAAAGTAGCAGGAGACCCAGAGCCACTCACAGGTAGCTACAAATCAATGTTTCAACAGTTGATGGGTGTTGGGGAAGgtgagcattacaggccctcagactgtgattccaaggtgtgaacattcatg #### Pold4_ID438_3 --> 2 - 2 Original Alignment gtATCACAAGG---CTGCAGCGCTGGAGTCGGGCAGAG-CAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCag gggtacactaccaccccctgattgtctcccacatcctttgtctcccacagggATCTCAAGATTGTTGCAGTGC---AGCCGTGCAGAGCCAGATGGGCTTGACGCCCCCTCTAGAGGTGTATCCTGTGT-GAAAGCACGCCCTGAAGACCCTCACTATTGGTGTacgtacgcatgtacagcctgcctatctggaagctcatctggagtgtgttagc Alignment from CESAR gtATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAG-CAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCag gggtacactaccaccccctgattgtctcccacatcctttgtctcccacagggATCTCAAGATTGTTGCAGTGCAGCCGTGCAGAGCCAGATGGGCTTGACGCCCCCTCTAGAGGTGTATCCTG-TGTGAAAGCACGCCCTGAAGACCCTCACTATTGGTGTacgtacgcatgtacagcctgcctatctggaagctcatctggagtgtgttagc Alignment from Spaln_aa2Genome GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG gggtacactaccaccccctgattgtctcccacatcctttgtctcccacagGGATCTCAAGATTGTTGCAGTGCAGCCGTGCAGAGCCAGATGGGCTTGACGCCCCCTCTAGAGGTGTATCCTGTGTGAAAGCACGCCCTGAAGACCCTCACTATTGGTGTACgtacgcatgtacagcctgcctatctggaagctcatctggagtgtgttagc Alignment from Spaln_nt2Genome GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGC-AGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG gggtacactaccaccccctgattgtctcccacatcctttgtctcccacagGGATCTCAAGATTGTTGCAGTGCAGCCGTGCAGAGCCAGATGGGCTTGACGCCCCCTCTAGAGGTGTATCCTGTG-TGAAAGCACGCCCTGAAGACCCTCACTATTGGTGTACgtacgcatgtacagcctgcctatctggaagctcatctggagtgtgttagc Alignment from Pairagon GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAG-CAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCAC------- gggtacactaccaccccctgattgtctcccacatcctttgtctcccacagGGATCTCAAGATTGTTGCAGTGCAGCCGTGCAGAGCCAGATGGGCTTGACGCCCCCTCTAGAGGTGTATCCTGTG-TGAAAGCACGCCCTGAAGACCCTCACTATTGGTgtacgtacgcatgtacagcctgcctatctggaagctcatctggagtgtgttagc Alignment from Exonerate_protein2genome GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG gggtacactaccaccccctgattgtctcccacatcctttgtctcccacagGGATCTCAAGATTGTTGCAGTGCAGCCGTGCAGAGCCAGATGGGCTTGACGCCCCCTCTAGAGGTGTATCCTGTGTGAAAGCACGCCCTGAAGACCCTCACTATTGGTGTACgtacgcatgtacagcctgcctatctggaagctcatctggagtgtgttagc Alignment from Exonerate_coding2genome GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAGC gggtacactaccaccccctgattgtctcccacatcctttgtctcccacagGGATCTCAAGATTGTTGCAGTGCAGCCGTGCAGAGCCAGATGGGCTTGACGCCCCCTCTAGAGGTGTATCCTGTGTGAAAGCACGCCCTGAAGACCCTCACTATTGGTGTACGtacgcatgtacagcctgcctatctggaagctcatctggagtgtgttagc Alignment from GeneWise GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAGCCTGTGGCATCTCTACCCACTC gggtacactaccaccccctgattgtctcccacatcctttgtctcccacagGGATCTCAAGATTGTTGCAGTGCAGCCGTGCAGAGCCAGATGGGCTTGACGCCCCCTCTAGAGGTGTATCCTGTGTGAAAGCACGCCCTGAAGACCCTCACTATTGGTGTACGTACGCATGTACAGCCTGCCTAtctggaagctcatctggagtgtgttagc #### Poll_ID9484_3 --> 1 - 0 Original Alignment gTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTT-TCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG gaccattcatactctttaaatagctcctaacgccaccttcctgtctgcaggTCCTTGGATGAGCCACAGCCCAGCAAGTCCGGCCAAGAT---TCTGCTCCTGGTATACAGTGGGACTTGCCTAGAACCACACTCTCCCTTCTCCCCTCCCCATCCTCGAGCAGTATCACCACCTCCAA-AGCAGAAAAACCATCCAGAACTCGAGCCCAAgtaagtttgcgcgccattcaagattgttagtgatagaacacgcaaatatc Alignment from CESAR gTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTT-TCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG gaccattcatactctttaaatagctcctaacgccaccttcctgtctgcaggTCCTTGGATGAGCCACAGCCCAGCAAGTCCGGCCAAGAT---TCTGCTCCTGGTATACAGTGGGACTTGCCTAGAACCACACTCTCCCTTCTCCCCTCCCCATCCTCGAGCAGTATCACCACCTCCA-AAGCAGAAAAACCATCCAGAACTCGAGCCCAAgtaagtttgcgcgccattcaagattgttagtgatagaacacgcaaatatc Alignment from Spaln_aa2Genome GTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG gaccattcatactctttaaatagctcctaacgccaccttcctgtctgcagGTCCTTGGATGAGCCACAGCCCAGCAAGTCCGGCCAAGAT---TCTGCTCCTGGTATACAGTGGGACTTGCCTAGAACCACACTCTCCCTTCTCCCCTCCCCATCCTCGAGCAGTATCACCACCTCCAAAGCAGAAAAACCATCCAGAACTCGAGCCCAAgtaagtttgcgcgccattcaagattgttagtgatagaacacgcaaatatc Alignment from Spaln_nt2Genome GTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTT-TCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG gaccattcatactctttaaatagctcctaacgccaccttcctgtctgcagGTCCTTGGATGAGCCACAGCCCAGCAAGTCCGGCCAAGAT---TCTGCTCCTGGTATACAGTGGGACTTGCCTAGAACCACACTCTCCCTTCTCCCCTCCCCATCCTCGAGCAGTATCACCACCTCCAA-AGCAGAAAAACCATCCAGAACTCGAGCCCAAgtaagtttgcgcgccattcaagattgttagtgatagaacacgcaaatatc Alignment from Pairagon GTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTT-TCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG gaccattcatactctttaaatagctcctaacgccaccttcctgtctgcagGTCCTTGGATGAGCCACAGCCCAGCAAGTCCGGCCAAGA---TTCTGCTCCTGGTATACAGTGGGACTTGCCTAGAACCACACTCTCCCTTCTCCCCTCCCCATCCTCGAGCAGTATCACCACCTCCAA-AGCAGAAAAACCATCCAGAACTCGAGCCCAAgtaagtttgcgcgccattcaagattgttagtgatagaacacgcaaatatc Alignment from Exonerate_protein2genome GTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG gaccattcatactctttaaatagctcctaacgccaccttcctgtctgcagGTCCTTGGATGAGCCACAGCCCAGCAAGTCCGGCCAAGAT---TCTGCTCCTGGTATACAGTGGGACTTGCCTAGAACCACACTCTCCCTTCTCCCCTCCCCATCCTCGAGCAGTATCACCACCTCCAAAGCAGAAAAACCATCCAGAACTCGAGCCCAAgtaagtttgcgcgccattcaagattgttagtgatagaacacgcaaatatc Alignment from Exonerate_coding2genome GTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG gaccattcatactctttaaatagctcctaacgccaccttcctgtctgcagGTCCTTGGATGAGCCACAGCCCAGCAAGTCCGGCCAAGAT---TCTGCTCCTGGTATACAGTGGGACTTGCCTAGAACCACACTCTCCCTTCTCCCCTCCCCATCCTCGAGCAGTATCACCACCTCCAAAGCAGAAAAACCATCCAGAACTCGAGCCCAAgtaagtttgcgcgccattcaagattgttagtgatagaacacgcaaatatc Alignment from GeneWise GTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG gaccattcatactctttaaatagctcctaacgccaccttcctgtctgcagGTCCTTGGATGAGCCACAGCCCAGCAAGTCCGGCCAAGAT---TCTGCTCCTGGTATACAGTGGGACTTGCCTAGAACCACACTCTCCCTTCTCCCCTCCCCATCCTCGAGCAGTATCACCACCTCCAAAGCAGAAAAACCATCCAGAACTCGAGCCCAAgtaagtttgcgcgccattcaagattgttagtgatagaacacgcaaatatc #### Polr2g_ID2377_6 --> 0 - 0 Original Alignment GACATTGTGATTCAGCAG----GACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT agaaagggcagcaattcaggtcagggccttcatgtttctttactttccagGGCATATTGATTCAGCTGGATCGAG------ATACAGCTAAAGATAATAGGGACACATGTAG-TAAAAATGATGTCgtgaggcaagccaggcttttgctcttgggttagatcacatcgtggaagac Alignment from CESAR GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT agaaagggcagcaattcaggtcagggccttcatgtttctttactttccagGGCATATTGATTCAGCTGGAT--CGAGATACAGCTAAAGATAATAGGGACACATGTA-GTAAAAATGATGTCgtgaggcaagccaggcttttgctcttgggttagatcacatcgtggaagac Alignment from Spaln_aa2Genome GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT agaaagggcagcaattcaggtcagggccttcatgtttctttactttccagGGCATATTGATTCAGCTGGATCGAGATACAGCT---AAAGATAATAGGGACACATGTAGTAAAAATGATGTCgtgaggcaagccaggcttttgctcttgggttagatcacatcgtggaagac Alignment from Spaln_nt2Genome GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT agaaagggcagcaattcaggtcagggccttcatgtttctttactttccagGGCATATTGATTCAGCTGGA--TCGAGATACAGCTAAAGATAATAGGGACACATGTAG-TAAAAATGATGTCgtgaggcaagccaggcttttgctcttgggttagatcacatcgtggaagac Alignment from Pairagon GACATTGTGATTCAGCAGGA agaaagggcagcaattcaggtcagggccttcatgtttctttactttccagGGCATATTGATTCAGCTGGAtcgagatacagctaaagataatagggacacatgtagtaaaaatgatgtcgtgaggcaagccaggcttttgctcttgggttagatcacatcgtggaagac Alignment from Exonerate_protein2genome GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT agaaagggcagcaattcaggtcagggccttcatgtttctttactttccagGGCATATTGATTCAGCTGGATCGAGAT---ACAGCTAAAGATAATAGGGACACATGTAGTAAAAATGATGTCgtgaggcaagccaggcttttgctcttgggttagatcacatcgtggaagac Alignment from Exonerate_coding2genome agaaagggcagcaattcaggtcagggccttcatgtttctttactttccagggcatattgattcagctggatcgagatacagctaaagataatagggacacatgtagtaaaaatgatgtcgtgaggcaagccaggcttttgctcttgggttagatcacatcgtggaagac Alignment from GeneWise agaaagggcagcaattcaggtcagggccttcatgtttctttactttccagggcatattgattcagctggatcgagatacagctaaagataatagggacacatgtagtaaaaatgatgtcgtgaggcaagccaggcttttgctcttgggttagatcacatcgtggaagac #### Polr2g_ID2381_2 --> 0 - 2 Original Alignment ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGA-TACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGaa tcctgaccctggtcaagccagttaaagttcctccgttctccctcctttagATTTCCCTGGAGCGCGAAATCCTCCTGCACCCACGACTACTTCGGTCCAAACTTGCTCAACATGGTGAAGCAGA-GCCATTTACTGAAGTGGAGGGGACCTGCACTGGGaagtatgcctcttctttacaggagcaagaccttttgaatgcattggcagcaa Alignment from CESAR ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGA-TACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGaa tcctgaccctggtcaagccagttaaagttcctccgttctccctcctttagATTTCCCTGGAGCGCGAAATCCTCCTGCACCCACGACTACTTCGGTCCAAACTTGCTCAACATGGTGAAGC-AGAGCCATTTACTGAAGTGGAGGGGACCTGCACTGGGaagtatgcctcttctttacaggagcaagaccttttgaatgcattggcagcaa Alignment from Spaln_aa2Genome ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA tcctgaccctggtcaagccagttaaagttcctccgttctccctcctttagATTTCCCTGGAGCGCGAAATCCTCCTGCACCCACGACTACTTCGGTCCAAACTTGCTCAACATGGTGAAGCAGAGCCATTTACTGAAGTGGAGGGGACCTGCACTGGGAAgtatgcctcttctttacaggagcaagaccttttgaatgcattggcagcaa Alignment from Spaln_nt2Genome ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGA-TACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA tcctgaccctggtcaagccagttaaagttcctccgttctccctcctttagATTTCCCTGGAGCGCGAAATCCTCCTGCACCCACGACTACTTCGGTCCAAACTTGCTCAACATGGTGAAGCAGA-GCCATTTACTGAAGTGGAGGGGACCTGCACTGGGAAgtatgcctcttctttacaggagcaagaccttttgaatgcattggcagcaa Alignment from Pairagon ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGA-TACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA tcctgaccctggtcaagccagttaaagttcctccgttctccctcctttagATTTCCCTGGAGCGCGAAATCCTCCTGCACCCACGACTACTTCGGTCCAAACTTGCTCAACATGGTGAAGCAG-AGCCATTTACTGAAGTGGAGGGGACCTGCACTGGGAAgtatgcctcttctttacaggagcaagaccttttgaatgcattggcagcaa Alignment from Exonerate_protein2genome ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA tcctgaccctggtcaagccagttaaagttcctccgttctccctcctttagATTTCCCTGGAGCGCGAAATCCTCCTGCACCCACGACTACTTCGGTCCAAACTTGCTCAACATGGTGAAGCAGAGCCATTTACTGAAGTGGAGGGGACCTGCACTGGGAAgtatgcctcttctttacaggagcaagaccttttgaatgcattggcagcaa Alignment from Exonerate_coding2genome TTCCCTGGAGCACGAGATCCTCCTGCACCCACG-ATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA tcctgaccctggtcaagccagttaaagttcctccgttctccctcctttagatTTCCCTGGAGCGCGAAATCCTCCTGCACCCACGACTACTTCGGTCCAAACTTGCTCAACATGGTGAAGCAGAGCCA-TTTACTGAAGTGGAGGGGACCTGCACTGGGAAgtatgcctcttctttacaggagcaagaccttttgaatgcattggcagcaa Alignment from GeneWise TTTTATCACATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA tcctgaccctggtcaagccagttaaagttcctccgttctccctcctttag---------ATTTCCCTGGAGCGCGAAATCCTCCTGCACCCACGACTACTTCGGTCCAAACTTGCTCAACATGGTGAAGCAGAGCCATTTACTGAAGTGGAGGGGACCTGCACTGGGAAgtatgcctcttctttacaggagcaagaccttttgaatgcattggcagcaa #### Ppp1ca_ID411_5 --> 2 - 0 Original Alignment gcCTGTCTCCAGACTTGCAATCCATGGAGCAGATT-AGGCGTATTATGCGGCCCACAGACGTGCCTGACCAGGGCCTACTGTGTGATCTCCTGTGGTCTGACCCTGACAAGGATGTTCAAGGCTGGGGCGAGAATGACCGTGGTGTCTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATCTGCAGAGCACATCAG tgctctcatcctctagttatataaaaaattaattttctctttttgttcaggcCTGTCACCAGGTTTACAATCCATGGAGCAAATCCAGGCATATTATGCGGCCCACAGATGTTCCAGACCAAGGCC-GCTGTGTGATCTCCTGTGGTCTGATCCTGATAAGGATGTTCAAGGCTGGGCTGAGAATGACCGAGGTGTTTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCATAAGCATGATTTGGACCTTATTTGCAGAGCTCATCAGgtactagaaaatggcatttggattggtgggcagtccccatgtattgacca Alignment from CESAR gcCTGTCTCCAGACTTGCAATCCATGGAGCAGATT-AGGCGTATTATGCGGCCCACAGACGTGCCTGACCAGGGCCTACTGTGTGATCTCCTGTGGTCTGACCCTGACAAGGATGTTCAAGGCTGGGGCGAGAATGACCGTGGTGTCTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATCTGCAGAGCACATCAG tgctctcatcctctagttatataaaaaattaattttctctttttgttcaggcCTGTCACCAGGTTTACAATCCATGGAGCAAATCCAGGCATATTATGCGGCCCACAGATGTTCCAGACCAAGGC-CGCTGTGTGATCTCCTGTGGTCTGATCCTGATAAGGATGTTCAAGGCTGGGCTGAGAATGACCGAGGTGTTTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCATAAGCATGATTTGGACCTTATTTGCAGAGCTCATCAGgtactagaaaatggcatttggattggtgggcagtccccatgtattgacca Alignment from Spaln_aa2Genome GCCTGTCTCCAGACTTGCAATCCATGGAGCAGATTAGGCGTATTATGCGGCCCACAGACGTGCCTGACCAGGGCCTACTGTGTGATCTCCTGTGGTCTGACCCTGACAAGGATGTTCAAGGCTGGGGCGAGAATGACCGTGGTGTCTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATCTGCAGAGCACATCAG tgctctcatcctctagttatataaaaaattaattttctctttttgttcagGCCTGTCACCAGGTTTACAATCCATGGAGCAAATCCAGGCATATTATGCGGCCCACAGATGTTCCAGACCAAGGCCGCTGTGTGATCTCCTGTGGTCTGATCCTGATAAGGATGTTCAAGGCTGGGCTGAGAATGACCGAGGTGTTTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCATAAGCATGATTTGGACCTTATTTGCAGAGCTCATCAGgtactagaaaatggcatttggattggtgggcagtccccatgtattgacca Alignment from Spaln_nt2Genome GCCTGTCTCCAGACTTGCAATCCATGGAGCAGATT-AGGCGTATTATGCGGCCCACAGACGTGCCTGACCAGGGCCTACTGTGTGATCTCCTGTGGTCTGACCCTGACAAGGATGTTCAAGGCTGGGGCGAGAATGACCGTGGTGTCTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATCTGCAGAGCACATCAG tgctctcatcctctagttatataaaaaattaattttctctttttgttcagGCCTGTCACCAGGTTTACAATCCATGGAGCAAATCCAGGCATATTATGCGGCCCACAGATGTTCCAGACCAAGGCC-GCTGTGTGATCTCCTGTGGTCTGATCCTGATAAGGATGTTCAAGGCTGGGCTGAGAATGACCGAGGTGTTTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCATAAGCATGATTTGGACCTTATTTGCAGAGCTCATCAGgtactagaaaatggcatttggattggtgggcagtccccatgtattgacca Alignment from Pairagon GCCTGTCTCCAGACTTGCAATCCATGGAGCAGAT-TAGGCGTATTATGCGGCCCACAGACGTGCCTGACCAGGGCCTACTGTGTGATCTCCTGTGGTCTGACCCTGACAAGGATGTTCAAGGCTGGGGCGAGAATGACCGTGGTGTCTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATCTGCAGAGCACATCAGGTTGTAGAAGATGGC----------------------------------- tgctctcatcctctagttatataaaaaattaattttctctttttgttcagGCCTGTCACCAGGTTTACAATCCATGGAGCAAATCCAGGCATATTATGCGGCCCACAGATGTTCCAGACCAAGGCC-GCTGTGTGATCTCCTGTGGTCTGATCCTGATAAGGATGTTCAAGGCTGGGCTGAGAATGACCGAGGTGTTTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCATAAGCATGATTTGGACCTTATTTGCAGAGCTCATCAGGTACTAGAAAATGGCATTTGGATTGGTGGGCAGTCCCCATGTATTGACCA Alignment from Exonerate_protein2genome GCCTGTCTCCAGACTTGCAATCCATGGAGCAGATT-AGGCGTATTATGCGGCCCACAGACGTGCCTGACCAGGGC--CTACTGTGTGATCTCCTGTGGTCTGACCCTGACAAGGATGTTCAAGGCTGGGGCGAGAATGACCGTGGTGTCTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATCTGCAGAGCACATCAG tgctctcatcctctagttatataaaaaattaattttctctttttgttcagGCCTGTCACCAGGTTTACAATCCATGGAGCAAATCCAGGCATATTATGCGGCCCACAGATGTTCCAGACCAAGGCCG---CTGTGTGATCTCCTGTGGTCTGATCCTGATAAGGATGTTCAAGGCTGGGCTGAGAATGACCGAGGTGTTTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCATAAGCATGATTTGGACCTTATTTGCAGAGCTCATCAGgtactagaaaatggcatttggattggtgggcagtccccatgtattgacca Alignment from Exonerate_coding2genome GCCTGTCTCCAGACTTGCAATCCATGGAGCAGATT-AGGCGTATTATGCGGCCCACAGACGTGCCTGACCAGGGC--CTACTGTGTGATCTCCTGTGGTCTGACCCTGACAAGGATGTTCAAGGCTGGGGCGAGAATGACCGTGGTGTCTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATCTGCAGAGCACATCAG tgctctcatcctctagttatataaaaaattaattttctctttttgttcagGCCTGTCACCAGGTTTACAATCCATGGAGCAAATCCAGGCATATTATGCGGCCCACAGATGTTCCAGACCAAGGCCG---CTGTGTGATCTCCTGTGGTCTGATCCTGATAAGGATGTTCAAGGCTGGGCTGAGAATGACCGAGGTGTTTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCATAAGCATGATTTGGACCTTATTTGCAGAGCTCATCAGgtactagaaaatggcatttggattggtgggcagtccccatgtattgacca Alignment from GeneWise GCCTGTCTCCAGACTTGCAATCCATGGAGCAGATTAGGCGTATTATGCGGCCCACAGACGTGCCTGACCAGGGCCTACTGTGTGATCTCCTGTGGTCTGACCCTGACAAGGATGTTCAAGGCTGGGGCGAGAATGACCGTGGTGTCTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATCTGCAGAGCACATCAGGTTGTAGAAGATGGC----------------------------------- tgctctcatcctctagttatataaaaaattaattttctctttttgttcagGCCTGTCACCAGGTTTACAATCCATGGAGCAAATCCAGGCATATTATGCGGCCCACAGATGTTCCAGACCAAGGCCGCTGTGTGATCTCCTGTGGTCTGATCCTGATAAGGATGTTCAAGGCTGGGCTGAGAATGACCGAGGTGTTTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCATAAGCATGATTTGGACCTTATTTGCAGAGCTCATCAGGTACTAGAAAATGGCATTTGGATTGGTGGGCAGTCCCCATGTATTGACCA #### Ppp1r32_ID2845_6 --> 2 - 0 Original Alignment atCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAA-GAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttacttagccgcctattggtggttgaaatgttctctgcagatCTCTTGCTTAAGAAGACAATCGGATCTAAGGAGGAGATTGGGTTCCTAGAACGAGTCCACAAAAAATCCTCTTGTTTTCCAGCCTCCTTCACATA-CTTCCCTGGGAAGTCTgtaggagggaatggttaaaagtgcatcttgaacactcacaatgctgcaat Alignment from CESAR atCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAA-GAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttacttagccgcctattggtggttgaaatgttctctgcagatCTCTTGCTTAAGAAGACAATCGGATCTAAGGAGGAGATTGGGTTCCTAGAACGAGTCCACAAAAAATCCTCTTGTTTTCCAGCCTCCTTCACAT-ACTTCCCTGGGAAGTCTgtaggagggaatggttaaaagtgcatcttgaacactcacaatgctgcaat Alignment from Spaln_aa2Genome ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAA-GAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttacttagccgcctattggtggttgaaatgttctctgcagATCTCTTGCTTAAGAAGACAATCGGATCTAAGGAGGAGATTGGGTTCCTAGAAcGAGTCCACAAAAAATCCTCTTGTTTTCCAGCCTCCTTCACATAC-TTCCCTGGGAAGTCTgtaggagggaatggttaaaagtgcatcttgaacactcacaatgctgcaat Alignment from Spaln_nt2Genome ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAA-GAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttacttagccgcctattggtggttgaaatgttctctgcagATCTCTTGCTTAAGAAGACAATCGGATCTAAGGAGGAGATTGGGTTCCTAGAACGAGTCCACAAAAAATCCTCTTGTTTTCCAGCCTCCTTCACA-TACTTCCCTGGGAAGTCTgtaggagggaatggttaaaagtgcatcttgaacactcacaatgctgcaat Alignment from Pairagon ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAA-GAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttacttagccgcctattggtggttgaaatgttctctgcagATCTCTTGCTTAAGAAGACAATCGGATCTAAGGAGGAGATTGGGTTCCTAGAACGAGTCCACAAAAAATCCTCTTGTTTTCCAGCCTCCTTCACATA-CTTCCCTGGGAAGTCTgtaggagggaatggttaaaagtgcatcttgaacactcacaatgctgcaat Alignment from Exonerate_protein2genome ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAA-GAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttacttagccgcctattggtggttgaaatgttctctgcagATCTCTTGCTTAAGAAGACAATCGGATCTAAGGAGGAGATTGGGTTCCTAGAACGAGTCCACAAAAAATCCTCTTGTTTTCCAGCCTCCTTCACATACTTCCCTGGGAAGTCTGtaggagggaatggttaaaagtgcatcttgaacactcacaatgctgcaat Alignment from Exonerate_coding2genome ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCTGTCCTCCATCCAGGACGGAGTATCACCAAGTCAGACTACCTCCCTGTAAC cctgttggttttacttagccgcctattggtggttgaaatgttctctgcagATCTCTTGCTTAAGAAGACAATCGGATCTAAGGAGGAGATTGGGTTCCTAGAACGAGTCCACAAAAAATCCTCTTGTTTTCCAGCCTCCTTCACATACTTCCCTGGGAAGTCTGTAGGAGGGAATGGTTAAAAGTGCATCTTGAACACTCACAATGCTGCAAT Alignment from GeneWise ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttacttagccgcctattggtggttgaaatgttctctgcagATCTCTTGCTTAAGAAGACAATCGGATCTAAGGAGGAGATTGGGTTCCTAGAACGAGTCCACAAAAAATCCTCTTGTTTTCCAGCCTCCTTCACATACTTCCCTGGGAAGTCTgtaggagggaatggttaaaagtgcatcttgaacactcacaatgctgcaat #### Prdx5_ID1854_3 --> 0 - 0 Original Alignment ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCC-AAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG agtagccccagggcatgcactgatagtgatgtctccttgtctctgcacagGCCCACCTGCCTGGCTTGGTAGAACAGGCTGGAGCTCGGAAAGCCCAAAGGTGCACAGGTAGTGGCATGTTTAAGTGTAA-TGATGTCTTTGTGGTTGAGGAGTGGGGACGAGCCCATGAAGCAGAAGGTAAAgtgagagatccttctgctagttgtgatagcctaggaccagattgcgattt Alignment from CESAR ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCC-AAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG agtagccccagggcatgcactgatagtgatgtctccttgtctctgcacagGCCCACCTGCCTGGCTTGGTAGAACAGGCTGGAGCTCGGAAAGCCCAAAGGTGCACAGGTAGTGGCATGTTTAAGTG-TAATGATGTCTTTGTGGTTGAGGAGTGGGGACGAGCCCATGAAGCAGAAGGTAAAgtgagagatccttctgctagttgtgatagcctaggaccagattgcgattt Alignment from Spaln_aa2Genome ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG agtagccccagggcatgcactgatagtgatgtctccttgtctctgcacagGCCCACCTGCCTGGCTTGGTAGAACAGGCTGGAGCTCGGAAAGCCCAAAGGTGCACAGGTAGTGGCATGTTTAAGTGTAATGATGTCTTTGTGGTTGAGGAGTGGGGACGAGCCCATGAAGCAGAAGGTAAAgtgagagatccttctgctagttgtgatagcctaggaccagattgcgattt Alignment from Spaln_nt2Genome ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCC-AAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG agtagccccagggcatgcactgatagtgatgtctccttgtctctgcacagGCCCACCTGCCTGGCTTGGTAGAACAGGCTGGAGCTCGGAAAGCCCAAAGGTGCACAGGTAGTGGCATGTTTAAGTG-TAATGATGTCTTTGTGGTTGAGGAGTGGGGACGAGCCCATGAAGCAGAAGGTAAAgtgagagatccttctgctagttgtgatagcctaggaccagattgcgattt Alignment from Pairagon ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGG-CCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG agtagccccagggcatgcactgatagtgatgtctccttgtctctgcacagGCCCACCTGCCTGGCTTGGTAGAACAGGCTGGAGCTCGGAAAGCCCAAAGGTGCACAGGTAGTGGCATGTTTAAGTG-TAATGATGTCTTTGTGGTTGAGGAGTGGGGACGAGCCCATGAAGCAGAAGGTAAAgtgagagatccttctgctagttgtgatagcctaggaccagattgcgattt Alignment from Exonerate_protein2genome ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG agtagccccagggcatgcactgatagtgatgtctccttgtctctgcacagGCCCACCTGCCTGGCTTGGTAGAACAGGCTGGAGCTCGGAAAGCCCAAAGGTGCACAGGTAGTGGCATGTTTAAGTGTAATGATGTCTTTGTGGTTGAGGAGTGGGGACGAGCCCATGAAGCAGAAGGTAAAgtgagagatccttctgctagttgtgatagcctaggaccagattgcgattt Alignment from Exonerate_coding2genome ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG agtagccccagggcatgcactgatagtgatgtctccttgtctctgcacagGCCCACCTGCCTGGCTTGGTAGAACAGGCTGGAGCTCGGAAAGCCCAAAGGTGCACAGGTAGTGGCATGTTTAAGTGTAATGATGTCTTTGTGGTTGAGGAGTGGGGACGAGCCCATGAAGCAGAAGGTAAAgtgagagatccttctgctagttgtgatagcctaggaccagattgcgattt Alignment from GeneWise ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG agtagccccagggcatgcactgatagtgatgtctccttgtctctgcacagGCCCACCTGCCTGGCTTGGTAGAACAGGCTGGAGCTCGGAAAGCCCAAAGGTGCACAGGTAGTGGCATGTTTAAGTGTAATGATGTCTTTGTGGTTGAGGAGTGGGGACGAGCCCATGAAGCAGAAGGTAAAgtgagagatccttctgctagttgtgatagcctaggaccagattgcgattt #### Prpf19_ID3044_3 --> 2 - 0 Original Alignment ttGCTCACCCAATCCGACCCAAG-CCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttgcatgcaaggaatatgttttattatgttttcttcttagttGCACACCCAATTCGACCCAAGCCCTCCCTCTGCGACCAGTATTCCAGCTATCCTAAAGG-CTTACAAGATGAGTGGgtaagtaaacttgacgtccttctctccccacagGATGCAGTCATGCTGCA Alignment from CESAR ttGCTCACCCAATCCGACCCAAG-CCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttgcatgcaaggaatatgttttattatgttttcttcttagttGCACACCCAATTCGACCCAAGCCCTCCCTCTGCGACCAGTATTCCAGCTATCCTAAAGG-CTTACAAGATGAGTGGgtaagtaaacttcgatgttccctctccccacagGATGCAGTCATGCTGCA Alignment from Spaln_aa2Genome TTGCTCACCCAATCCGACCCAAG-CCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttgcatgcaaggaatatgttttattatgttttcttcttagTTGCACACCCAATTCGACCCAAGcCCTCCCTCTGCGACCAGTATTCCAGCTATCCTAAAGGC-TTACAAGATGAGTGGgtaagtaaacttgacgtccttctctccccacagGATGCAGTCATGCTGCA Alignment from Spaln_nt2Genome TTGCTCACCCAATCCGACCCAAGCC-TCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttgcatgcaaggaatatgttttattatgttttcttcttagTTGCACACCCAATTCGACCCAAGCCCTCCCTCTGCGACCAGTATTCCAGCTATCCT-AAAGGCTTACAAGATGAGTGGgtaagtaaacttgacgtccttctctccccacagGATGCAGTCATGCTGCA Alignment from Pairagon TTGCTCACCCAATCCGACCCAAG-CCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttgcatgcaaggaatatgttttattatgttttcttcttagTTGCACACCCAATTCGACCCAAGCCCTCCCTCTGCGACCAGTATTCCAGCTATCCT-AAAGGCTTACAAGATGAGTGGgtaagtaaacttgacgtccttctctccccacagGATGCAGTCATGCTGCA Alignment from Exonerate_protein2genome TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttgcatgcaaggaatatgttttattatgttttcttcttagTTGCACACCCAATTCGACCCAAGCCCTCCCTCTGCGACCAGTATTCCAGCTATCCTAAAGGCTTACAAGATGAGTGGgtaagtaaacttgacgtccttctctccccacagGATGCAGTCATGCTGCA Alignment from Exonerate_coding2genome TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGGGATGCAGTCATGCT atgtgagaggttgcatgcaaggaatatgttttattatgttttcttcttagttgcacacccaattcgacccaagccctccctctgcgACCAGTATTCCAGCTATCCTAAAGGCTTACAAGATGAGTGGGTA---AGTAAACTTGACGTCCTTCTCTCCCCACAGGATGCAGTCATGCT Alignment from GeneWise TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG---------------------------------GATGCAGTCATGCTGCA atgtgagaggttgcatgcaaggaatatgttttattatgttttcttcttagTTGCACACCCAATTCGACCCAAGCCCTCCCTCTGCGACCAGTATTCCAGCTATCCTAAAGGCTTACAAGATGAGTGGGTAAGTAAACTTGACGTCCTTCTCTCCCCACAGGATGCAGTCATGCTGCA #### Prpf19_ID3045_4 --> 0 - 1 Original Alignment CCTTGCAGGATGAGTGG GATGCAGTCATGCTG-CACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAg ctCTGGCTA CCTTACAAGATGAGTGGgtaattaaacttcgatgttccctctccccacagGATGCAGTCATGCTGCCACAGCTTCACTCTTCGCCAACAACTGCAGACTACCCGCCAGG-ACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAggtgagtctcattccactgtctccccttctccctctctccagccTTGGCCA Alignment from CESAR CCTTGCAGGATGAGTGG GATGCAGTCATGCTG-CACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAg ctCTGGCTA CCTTACAAGATGAGTGGgtaagtaaacttcgatgttccctctccccacagGATGCAGTCATGCTGCCACAGCTTCACTCTTCGCCAACAACTGCAGACTACCCGCCAGG-ACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAggtgagtctcattccactgtcttgttaacttgctgtttctagccTTGGCCA Alignment from Spaln_aa2Genome CCTTGCAGGATGAGTGG GATGCAGTCATGCTG-CACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CTCTGGCTA CCTTACAAGATGAGTGGgtaattaaacttcgatgttccctctccccacagGATGCAGTCATGCTGcCACAGCTTCACTCTTCGCCAACAACTGCAGACTACCCGCCAGGA-CTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtgagtctcattccactgtctccccttctccctctctccagCCTTGGCCA Alignment from Spaln_nt2Genome CCTTGCAGGATGAGTGG GATGCAGTCATGCTG-CACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CTCTGGCTA CCTTACAAGATGAGTGGgtaattaaacttcgatgttccctctccccacagGATGCAGTCATGCTGCCACAGCTTCACTCTTCGCCAACAACTGCAGACTACCCGCCAGGA-CTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtgagtctcattccactgtctccccttctccctctctccagCCTTGGCCA Alignment from Pairagon CCTTGCAGGATGAGTGG GATGCAGTCATGCTG-CACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CTCTGGCTA CCTTACAAGATGAGTGGgtaattaaacttcgatgttccctctccccacagGATGCAGTCATGCTGCCACAGCTTCACTCTTCGCCAACAACTGCAGACTACCCGCCAGGA-CTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtgagtctcattccactgtctccccttctccctctctccagCCTTGGCCA Alignment from Exonerate_protein2genome CCTTGCAGGATGAGTGG GATGCAGTCATGCTG-CACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAG--GAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CTCTGGCTA CCTTACAAGATGAGTGGgtaattaaacttcgatgttccctctccccacagGATGCAGTCATGCTGCCACAGCTTCACTCTTCGCCAACAACTGCAGACTACCCGCCAGGA---CTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtgagtctcattccactgtctccccttctccctctctccagCCTTGGCCA Alignment from Exonerate_coding2genome CCTTGCAGGATGAGTGG GATGCAGTCATGCTG-CACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAG--GAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CTCTGGCTA CCTTACAAGATGAGTGGgtaattaaacttcgatgttccctctccccacagGATGCAGTCATGCTGCCACAGCTTCACTCTTCGCCAACAACTGCAGACTACCCGCCAGGA---CTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtgagtctcattccactgtctccccttctccctctctccagCCTTGGCCA Alignment from GeneWise CCTTGCAGGATGAGTGG---------------------------------GATGCAGTCATG-CTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CTCTGGCTA CCTTACAAGATGAGTGGGTAATTAAACTTCGATGTTCCCTCTCCCCACAGGATGCAGTCATGCTGCCACAGCTTCACTCTTCGCCAACAACTGCAGACTACCCGCCAGGA-CTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtgagtctcattccactgtctccccttctccctctctccagCCTTGGCCA #### Prpf19_ID3046_5 --> 2 - 0 Original Alignment CTCGAGAAg ctCTGGCTACTCTGAAACCACAG-GCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG CTCGAGAAggtaagtctcattccactgtcttgttaacttgctgtttctagccTTGGCCACCCTAAAACCACAGCGCTGGCCTGATAGTACCTCAAGCTGTGCCAAGTT-ACCACCCAGTGTAATAgtggggtgtgcacccccccactagcagtacctcatgggaactatacagtt Alignment from CESAR CTCGAGAAg ctCTGGCTACTCTGAAACCACAG-GCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG CTCGAGAAggtgagtctcattccactgtcttgttaacttgctgtttctagccTTGGCCACCCTAAAACCACAGCGCTGGCCTGATAGTACCTCAAGCTGTGCCAAGT-TACCACCCAGTGTAATAgtggggtgtgcacccccccactagcagtacctcatgggaactatacagtt Alignment from Spaln_aa2Genome CTCGAGAAG CTCTGGCTACTCTGAAACCACAG-GCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCC CTCGAGAAGgtaagtctcattccactgtcttgttaacttgctgtttctagCCTTGGCCACCCTAAAACCACAGcGCTGGCCTGATAGTACCTCAAGCTGTGCCAAGTTACCACCCAgtgtaatagtggggtgtgcacccccccactagcagtacctcatgggaactatacagtt Alignment from Spaln_nt2Genome CTCGAGAAG CTCTGGCTACTCTGAAACCACAG-GCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG CTCGAGAAGgtaagtctcattccactgtcttgttaacttgctgtttctagCCTTGGCCACCCTAAAACCACAGCGCTGGCCTGATAGTACCTCAAGCTGTGCCAAG-TTACCACCCAGTGTAATAgtggggtgtgcacccccccactagcagtacctcatgggaactatacagtt Alignment from Pairagon CTCGAGAAG CTCTGGCTACTCTGAAACCACAG-GCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG CTCGAGAAGgtaagtctcattccactgtcttgttaacttgctgtttctagCCTTGGCCACCCTAAAACCACAGCGCTGGCCTGATAGTACCTCAAGCTGTGCCAAG-TTACCACCCAGTGTAATAgtggggtgtgcacccccccactagcagtacctcatgggaactatacagtt Alignment from Exonerate_protein2genome CTCGAGAAG CTCTGGCTACTCTGAAACCACAG-GCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG CTCGAGAAGgtaagtctcattccactgtcttgttaacttgctgtttctagCCTTGGCCACCCTAAAACCACAGCGCTGGCCTGATAGTACCTCAAGCTGTGCCAAGTTACCACCCAGTGTAATAGtggggtgtgcacccccccactagcagtacctcatgggaactatacagtt Alignment from Exonerate_coding2genome CTCGAGAAG CTCTGGCTACTCTGAAACCACAGGCT CTCGAGAAGgtaagtctcattccactgtcttgttaacttgctgtttctagccttggccaccctaaaaccacagcgctggcctgatagtacctcaagctgtgccaagttaccacccagtgtaatagtggggtgtgcacccccccactagCAGTACCTCATGGGAACTATACAGTT Alignment from GeneWise CTCGAGAAG CTCTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG CTCGAGAAGgtaagtctcattccactgtcttgttaacttgctgtttctagCCTTGGCCACCCTAAAACCACAGCGCTGGCCTGATAGTACCTCAAGCTGTGCCAAGTTACCACCCAGTGTAATAgtggggtgtgcacccccccactagcagtacctcatgggaactatacagtt #### Prpf19_ID3055_14 --> 0 - 0 Original Alignment GAGCGTACCAATGTGGCCAACTTC-CCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGAC---TTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG tagcactttctctcatagtcaattgacatcatgatcatccttgtccctagGAGCACACTAATGTGGTAATCTTCCCCT------GCTGGGCCTATCACCACCA-TGTGTTCTCTGAGAATGGGTACTACTTGGCCACAGCAACAGATGATTCTCCAGTCAAGCTTTGGGAAAACATACAGAAGCTGAAGAACTTTAAAATGTTGCAGTTGCACAACAACTTTGAGgtgagtcacttgatcccttttcttctcttttgcagtttttgtgctacccc Alignment from CESAR GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGAC---TTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG tagcactttctctcatagtcaattgacatcatgatcatccttgtccctagGAGCACACTAATGTGGTAATCTTCCCC-----TGCTGGGCCTATCACCACCATG-TGTTCTCTGAGAATGGGTACTACTTGGCCACAGCAACAGATGATTCTCCAGTCAAGCTTTGGGAAAACATACAGAAGCTGAAGAACTTTAAAATGTTGCAGTTGCACAACAACTTTGAGgtgagtcacttgatcccttttcttctcttttgcagtttttgtgctacccc Alignment from Spaln_aa2Genome GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGAC---TTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG tagcactttctctcatagtcaattgacatcatgatcatccttgtccctagGAGCACACTAATGTGGTAATCTTCCCC------TGCTGGGCCTATCACCACCATGTGTTCTCTGAGAATGGGTACTACTTGGCCACAGCAACAGATGATTCTCCAGTCAAGCTTTGGGAAAACATACAGAAGCTGAAGAACTTTAAAATGTTGCAGTTGCACAACAACTTTGAGgtgagtcacttgatcccttttcttctcttttgcagtttttgtgctacccc Alignment from Spaln_nt2Genome GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGA---CTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG tagcactttctctcatagtcaattgacatcatgatcatccttgtccctagGAGCACACTAATGTGGTAATCTTC-----CCCTGCTGGGCCTATCACCACCAT-GTGTTCTCTGAGAATGGGTACTACTTGGCCACAGCAACAGATGATTCTCCAGTCAAGCTTTGGGAAAACATACAGAAGCTGAAGAACTTTAAAATGTTGCAGTTGCACAACAACTTTGAGgtgagtcacttgatcccttttcttctcttttgcagtttttgtgctacccc Alignment from Pairagon GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGG---ACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG tagcactttctctcatagtcaattgacatcatgatcatccttgtccctagGAGCACACTAATGTGGTAATCTTCCCC-----TGCTGGGCCTATCACCACCAT-GTGTTCTCTGAGAATGGGTACTACTTGGCCACAGCAACAGATGATTCTCCAGTCAAGCTTTGGGAAAACATACAGAAGCTGAAGAACTTTAAAATGTTGCAGTTGCACAACAACTTTGAGgtgagtcacttgatcccttttcttctcttttgcagtttttgtgctacccc Alignment from Exonerate_protein2genome GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGAC---TTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG tagcactttctctcatagtcaattgacatcatgatcatccttgtccctagGAGCACACTAATGTGGTAATCTTCCCC------TGCTGGGCCTATCACCACCATGTGTTCTCTGAGAATGGGTACTACTTGGCCACAGCAACAGATGATTCTCCAGTCAAGCTTTGGGAAAACATACAGAAGCTGAAGAACTTTAAAATGTTGCAGTTGCACAACAACTTTGAGgtgagtcacttgatcccttttcttctcttttgcagtttttgtgctacccc Alignment from Exonerate_coding2genome GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGAC---TTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG tagcactttctctcatagtcaattgacatcatgatcatccttgtccctagGAGCACACTAATGTGGTAATCTTC-----CCCTGCTGGGCCTATCACCACCAT-GTGTTCTCTGAGAATGGGTACTACTTGGCCACAGCAACAGATGATTCTCCAGTCAAGCTTTGGGAAAACATACAGAAGCTGAAGAACTTTAAAATGTTGCAGTTGCACAACAACTTTGAGgtgagtcacttgatcccttttcttctcttttgcagtttttgtgctacccc Alignment from GeneWise GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGAC---TTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG tagcactttctctcatagtcaattgacatcatgatcatccttgtccctagGAGCACACTAATGTGGTAATCTTCCCC------TGCTGGGCCTATCACCACCATGTGTTCTCTGAGAATGGGTACTACTTGGCCACAGCAACAGATGATTCTCCAGTCAAGCTTTGGGAAAACATACAGAAGCTGAAGAACTTTAAAATGTTGCAGTTGCACAACAACTTTGAGgtgagtcacttgatcccttttcttctcttttgcagtttttgtgctacccc #### Pygm_ID1680_4 --> 2 - 0 Original Alignment ctTGCTTTTTGGACTCCATGGCCACCCTGGGG-CTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG agtatttgtagtcttcaagtctttacaaatggtattctcttttccaaaagctTGCTTTTTGGACTCTATGGCCCCCCTAGGGCCTTGCTGCTTATGGCTATGGGATCCGCT-TGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtaagtaattctgaccctaatatgttttggggtttagtcataataattag Alignment from CESAR ctTGCTTTTTGGACTCCATGGCCACCCTGGGG-CTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG agtatttgtagtcttcaagtctttacaaatggtattctcttttccaaaagctTGCTTTTTGGACTCTATGGCCCCCCTAGGGCCTTGCTGCTTATGGCTATGGGATCCGC-TTGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtaagtaattctgaccctaatatgttttggggtttagtcataataattag Alignment from Spaln_aa2Genome CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG agtatttgtagtcttcaagtctttacaaatggtattctcttttccaaaagCTTGCTTTTTGGACTCTATGGCCCCCCTAGGGCCTTGCTGCTTATGGCTATGGGATCCGCTTGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtaagtaattctgaccctaatatgttttggggtttagtcataataattag Alignment from Spaln_nt2Genome CTTGCTTTTTGGACTCCATGGCCACCCTGGGGC-TCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG agtatttgtagtcttcaagtctttacaaatggtattctcttttccaaaagCTTGCTTTTTGGACTCTATGGCCCCCCTAGGGCCTTGCTGCTTATGGCTATGGGATCCGCT-TGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtaagtaattctgaccctaatatgttttggggtttagtcataataattag Alignment from Pairagon CTTGCTTTTTGGACTCCATGGCCACCCTGGGG-CTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG agtatttgtagtcttcaagtctttacaaatggtattctcttttccaaaagCTTGCTTTTTGGACTCTATGGCCCCCCTAGGGCCTTGCTGCTTATGGCTATGGGATCCGCT-TGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtaagtaattctgaccctaatatgttttggggtttagtcataataattag Alignment from Exonerate_protein2genome CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAGATGGAAGAAGCTGATGACTGG agtatttgtagtcttcaagtctttacaaatggtattctcttttccaaaagCTTGCTTTTTGGACTCTATGGCCCCCCTAGGGCCTTGCTGCTTATGGCTATGGGATCCGCTTGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGGTAAGTAATTCTGACCCTAATatgttttggggtttagtcataataattag Alignment from Exonerate_coding2genome agtatttgtagtcttcaagtctttacaaatggtattctcttttccaaaagcttgctttttggactctatggcccccctagggccttgctgcttatggctatgggatccgcttgagtttggaatttttaatcagaagatctgtgggggttggcaggtaagtaattctgaccctaatatgttttggggtttagtcataataattag Alignment from GeneWise CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG agtatttgtagtcttcaagtctttacaaatggtattctcttttccaaaagCTTGCTTTTTGGACTCTATGGCCCCCCTAGGGCCTTGCTGCTTATGGCTATGGGATCCGCTTGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtaagtaattctgaccctaatatgttttggggtttagtcataataattag #### Pygm_ID1684_8 --> 0 - 0 Original Alignment TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCT-GCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG agttgtgaccatctgacatgatatgatgcatgtctgtcacctccccacagTTCTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTCGCCAGCCTTCAAGACATCATCCGATGTT-CAAGTCCTCTAAGTTAGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtaccttctggttcaagttgttactttacccaccatctcacaatgtattt Alignment from CESAR TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCT-GCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG agttgtgaccatctgacatgatatgatgcatgtctgtcacctccccacagTTCTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTCGCCAGCCTTCAAGACATCATCCGA-TGTTCAAGTCCTCTAAGTTAGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtaccttctggttcaagttgttactttacccaccatctcacaatgtattt Alignment from Spaln_aa2Genome TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG agttgtgaccatctgacatgatatgatgcatgtctgtcacctccccacagTTCTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTCGCCAGCCTTCAAGACATCATCCGATGTTCAAGTCCTCTAAGTTAGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtaccttctggttcaagttgttactttacccaccatctcacaatgtattt Alignment from Spaln_nt2Genome TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCT-GCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG agttgtgaccatctgacatgatatgatgcatgtctgtcacctccccacagTTCTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTCGCCAGCCTTCAAGACATCATCCGATG-TTCAAGTCCTCTAAGTTAGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtaccttctggttcaagttgttactttacccaccatctcacaatgtattt Alignment from Pairagon TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCT-GCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG agttgtgaccatctgacatgatatgatgcatgtctgtcacctccccacagTTCTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTCGCCAGCCTTCAAGACATCATCCGATG-TTCAAGTCCTCTAAGTTAGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtaccttctggttcaagttgttactttacccaccatctcacaatgtattt Alignment from Exonerate_protein2genome TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG agttgtgaccatctgacatgatatgatgcatgtctgtcacctccccacagTTCTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTCGCCAGCCTTCAAGACATCATCCGATGTTCAAGTCCTCTAAGTTAGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtaccttctggttcaagttgttactttacccaccatctcacaatgtattt Alignment from Exonerate_coding2genome TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG agttgtgaccatctgacatgatatgatgcatgtctgtcacctccccacagTTCTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTCGCCAGCCTTCAAGACATCATCCGATGTTCAAGTCCTCTAAGTTAGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtaccttctggttcaagttgttactttacccaccatctcacaatgtattt Alignment from GeneWise TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG agttgtgaccatctgacatgatatgatgcatgtctgtcacctccccacagTTCTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTCGCCAGCCTTCAAGACATCATCCGATGTTCAAGTCCTCTAAGTTAGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtaccttctggttcaagttgttactttacccaccatctcacaatgtattt #### Pygm_ID1686_10 --> 0 - 0 Original Alignment GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTG-CACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC acaaagatgggtggagggtgactaatgctgttcaccgttgtcttctacagGCCTGGGATGTTACAGTAAAGACCTGCGTCTACACTAACCACACAGTGCTGCCTGAAGCTCTAGAGCGATGGCCTGTGCCATCTCATGGAGTCACTGCTACCCCGTCACT-GCAGATAATTTACGAGATTAATCAGTGTTTCCTGAATgtaagtacagaatgatgaggaggagcctgaggagcttgagtatgatgtat Alignment from CESAR GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTG-CACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC acaaagatgggtggagggtgactaatgctgttcaccgttgtcttctacagGCCTGGGATGTTACAGTAAAGACCTGCGTCTACACTAACCACACAGTGCTGCCTGAAGCTCTAGAGCGATGGCCTGTGCCATCTCATGGAGTCACTGCTACCCCGTC-ACTGCAGATAATTTACGAGATTAATCAGTGTTTCCTGAATgtaagtacagaatgatgaggaggagcctgaggagcttgagtatgatgtat Alignment from Spaln_aa2Genome GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC acaaagatgggtggagggtgactaatgctgttcaccgttgtcttctacagGCCTGGGATGTTACAGTAAAGACCTGCGTCTACACTAACCACACAGTGCTGCCTGAAGCTCTAGAGCGATGGCCTGTGCCATCTCATGGAGTCACTGCTACCCCGTCACTGCAGATAATTTACGAGATTAATCAGTGTTTCCTGAATgtaagtacagaatgatgaggaggagcctgaggagcttgagtatgatgtat Alignment from Spaln_nt2Genome GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGC-ACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC acaaagatgggtggagggtgactaatgctgttcaccgttgtcttctacagGCCTGGGATGTTACAGTAAAGACCTGCGTCTACACTAACCACACAGTGCTGCCTGAAGCTCTAGAGCGATGGCCTGTGCCATCTCATGGAGTCACTGCTACCCCGTCAC-TGCAGATAATTTACGAGATTAATCAGTGTTTCCTGAATgtaagtacagaatgatgaggaggagcctgaggagcttgagtatgatgtat Alignment from Pairagon GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTG-CACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC acaaagatgggtggagggtgactaatgctgttcaccgttgtcttctacagGCCTGGGATGTTACAGTAAAGACCTGCGTCTACACTAACCACACAGTGCTGCCTGAAGCTCTAGAGCGATGGCCTGTGCCATCTCATGGAGTCACTGCTACCCCGTCAC-TGCAGATAATTTACGAGATTAATCAGTGTTTCCTGAATgtaagtacagaatgatgaggaggagcctgaggagcttgagtatgatgtat Alignment from Exonerate_protein2genome GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC acaaagatgggtggagggtgactaatgctgttcaccgttgtcttctacagGCCTGGGATGTTACAGTAAAGACCTGCGTCTACACTAACCACACAGTGCTGCCTGAAGCTCTAGAGCGATGGCCTGTGCCATCTCATGGAGTCACTGCTACCCCGTCACTGCAGATAATTTACGAGATTAATCAGTGTTTCCTGAATgtaagtacagaatgatgaggaggagcctgaggagcttgagtatgatgtat Alignment from Exonerate_coding2genome GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC acaaagatgggtggagggtgactaatgctgttcaccgttgtcttctacagGCCTGGGATGTTACAGTAAAGACCTGCGTCTACACTAACCACACAGTGCTGCCTGAAGCTCTAGAGCGATGGCCTGTGCCATCTCATGGAGTCACTGCTACCCCGTCACTGCAGATAATTTACGAGATTAATCAGTGTTTCCTGAATgtaagtacagaatgatgaggaggagcctgaggagcttgagtatgatgtat Alignment from GeneWise GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC acaaagatgggtggagggtgactaatgctgttcaccgttgtcttctacagGCCTGGGATGTTACAGTAAAGACCTGCGTCTACACTAACCACACAGTGCTGCCTGAAGCTCTAGAGCGATGGCCTGTGCCATCTCATGGAGTCACTGCTACCCCGTCACTGCAGATAATTTACGAGATTAATCAGTGTTTCCTGAATgtaagtacagaatgatgaggaggagcctgaggagcttgagtatgatgtat #### Pygm_ID1692_16 --> 0 - 1 Original Alignment GCTGCACCCGGGTACCACATGGCTAAGATGATCATCAAGCTTATCACTGCCATTGGGGATGTGGTCAACCACGACCCTGCGGTAGGA-GACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAg agaattaaacccaaagaagtgtacacatgatttttatataccattttcagGCAGCACCTGGGTATCACATGGCTGAGATGCTCATCAAGATTATCACTGCAATAGGAGATGTGGTTAATCATGACCCTACAGTAGGGCGATCGTCTCCAAGTGCTCTTTCTGGAGA-CTATCAGGTCACACTTGCTGAGAGGggtataaggcaccactgccgatggactactgctgctggctaagaagctctg Alignment from CESAR GCTGCACCCGGGTACCACATGGCTAAGATGATCATCAAGCTTATCACTGCCATTGGGGATGTGGTCAACCACGACCCTGCGGTAGGA-GACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAg agaattaaacccaaagaagtgtacacatgatttttatataccattttcagGCAGCACCTGGGTATCACATGGCTGAGATGCTCATCAAGATTATCACTGCAATAGGAGATGTGGTTAATCATGACCCTACAGTAGGGCGATCGTCTCCAAGTGCTCTTTCTGG-AGACTATCAGGTCACACTTGCTGAGAGGggtataaggcaccactgccgatggactactgctgctggctaagaagctctg Alignment from Spaln_aa2Genome GCTGCACCCGGGTACCACATGGCTAAGATGATCATCAAGCTTATCACTGCCATTGGGGATGTGGTCAACCACGACCCTGCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAG agaattaaacccaaagaagtgtacacatgatttttatataccattttcagGCAGCACCTGGGTATCACATGGCTGAGATGCTCATCAAGATTATCACTGCAATAGGAGATGTGGTTAATCATGACCCTACAGTAGGGCGATCGTCTCCAAGTGCTCTTTCTGGAGACTATCAGGTCACACTTGCTGAGAGGGgtataaggcaccactgccgatggactactgctgctggctaagaagctctg Alignment from Spaln_nt2Genome GCTGCACCCGGGTACCACATGGCTAAGATGATCATCAAGCTTATCACTGCCATTGGGGATGTGGTCAACCACGACCCTGCGGTAGGA-GACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAG agaattaaacccaaagaagtgtacacatgatttttatataccattttcagGCAGCACCTGGGTATCACATGGCTGAGATGCTCATCAAGATTATCACTGCAATAGGAGATGTGGTTAATCATGACCCTACAGTAGGGCGATCGTCTCCAAGTGCTCTTTCTGGAG-ACTATCAGGTCACACTTGCTGAGAGGGgtataaggcaccactgccgatggactactgctgctggctaagaagctctg Alignment from Pairagon GCTGCACCCGGGTACCACATGGCTAAGATGATCATCAAGCTTATCACTGCCATTGGGGATGTGGTCAACCACGACCCTGCGGTAGGA-GACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAG agaattaaacccaaagaagtgtacacatgatttttatataccattttcagGCAGCACCTGGGTATCACATGGCTGAGATGCTCATCAAGATTATCACTGCAATAGGAGATGTGGTTAATCATGACCCTACAGTAGGGCGATCGTCTCCAAGTGCTCTTTCTGGAG-ACTATCAGGTCACACTTGCTGAGAGGGgtataaggcaccactgccgatggactactgctgctggctaagaagctctg Alignment from Exonerate_protein2genome GCTGCACCCGGGTACCACATGGCTAAGATGATCATCAAGCTTATCACTGCCATTGGGGATGTGGTCAACCACGACCCTGCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAG agaattaaacccaaagaagtgtacacatgatttttatataccattttcagGCAGCACCTGGGTATCACATGGCTGAGATGCTCATCAAGATTATCACTGCAATAGGAGATGTGGTTAATCATGACCCTACAGTAGGGCGATCGTCTCCAAGTGCTCTTTCTGGAGACTATCAGGTCACACTTGCTGAGAGGGgtataaggcaccactgccgatggactactgctgctggctaagaagctctg Alignment from Exonerate_coding2genome GCTGCACCCGGGTACCACATGGCTAAGATGATCATCAAGCTTATCACTGCCATTGGGGATGTGGTCAACCACGACCCTGCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAG agaattaaacccaaagaagtgtacacatgatttttatataccattttcagGCAGCACCTGGGTATCACATGGCTGAGATGCTCATCAAGATTATCACTGCAATAGGAGATGTGGTTAATCATGACCCTACAGTAGGGCGATCGTCTCCAAGTGCTCTTTCTGGAGACTATCAGGTCACACTTGCTGAGAGGGgtataaggcaccactgccgatggactactgctgctggctaagaagctctg Alignment from GeneWise GCTGCACCCGGGTACCACATGGCTAAGATGATCATCAAGCTTATCACTGCCATTGGGGATGTGGTCAACCACGACCCTGCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAG agaattaaacccaaagaagtgtacacatgatttttatataccattttcagGCAGCACCTGGGTATCACATGGCTGAGATGCTCATCAAGATTATCACTGCAATAGGAGATGTGGTTAATCATGACCCTACAGTAGGGCGATCGTCTCCAAGTGCTCTTTCTGGAGACTATCAGGTCACACTTGCTGAGAGGGgtataaggcaccactgccgatggactactgctgctggctaagaagctctg #### Pyroxd2_ID8597_11 --> 0 - 1 Original Alignment GAGTGGCTTCCCGGGGCT-TTTGTGAAGAGAATCTCCCAGCTGGACACCCAGTCTCCTGTCACCAAGATCAATg gcacaagcactacatctccgcagggtattgacatggtggcctcatcccagGAGTGGCTCCCTGGGGCACTTTGGGAAGAGGATCTCGCAGTTGGACACCCAGTCGCCTG-TACTAAAATCAATggtaagcggccatagctgattgattacaatctatgtaaaatttcatatgtg Alignment from CESAR GAGTGGCTTCCCGGGGCT-TTTGTGAAGAGAATCTCCCAGCTGGACACCCAGTCTCCTGTCACCAAGATCAATg gcacaagcactacatctccgcagggtattgacatggtggcctcatcccagGAGTGGCTCCCTGGGGCACTTTGGGAAGAGGATCTCGCAGTTGGACACCCAGTCGCCTG-TACTAAAATCAATggtaagcggccatagctgattgattacaatctatgtaaaatttcatatgtg Alignment from Spaln_aa2Genome GAGTGGCTTCCCGGGGCT-TTTGTGAAGAGAATCTCCCAGCTGGACACCCAGTCTCCTGTCACCAAG------ATCAATG gcacaagcactacatctccgcagggtattgacatggtggcctcatcccagGAGTGGCTCCCTGGGGCAcTTTGGGAAGAGGATCTCGCAGTTGGACACCCAGTCGCCTGTACTAAAATCAATGGTAAGCGgccatagctgattgattacaatctatgtaaaatttcatatgtg Alignment from Spaln_nt2Genome GAGTGGCTTCCCGGGGCT-TTTGTGAAGAGAATCTCCCAGCTGGACACCCAGTCTCCTGTCACCAAGATCAATG gcacaagcactacatctccgcagggtattgacatggtggcctcatcccagGAGTGGCTCCCTGGGGCACTTTGGGAAGAGGATCTCGCAGTTGGACACCCAGTCGCCTGT-ACTAAAATCAATGgtaagcggccatagctgattgattacaatctatgtaaaatttcatatgtg Alignment from Pairagon GAGTGGCTTCCCGGGGC-TTTTGTGAAGAGAATCTCCCAGCTGGACACCCAGTCTCCTGTCACCAAGATCAATG gcacaagcactacatctccgcagggtattgacatggtggcctcatcccagGAGTGGCTCCCTGGGGCACTTTGGGAAGAGGATCTCGCAGTTGGACACCCAGTCGCCTGT-ACTAAAATCAATGgtaagcggccatagctgattgattacaatctatgtaaaatttcatatgtg Alignment from Exonerate_protein2genome GAGTGGCTTCCCGGGGCT-TTTGTGAAGAGAATCTCCCAGCTGGACACCCAGTCTCCTGTCACCAAGATCAAT gcacaagcactacatctccgcagggtattgacatggtggcctcatcccagGAGTGGCTCCCTGGGGCACTTTGGGAAGAGGATCTCGCAGTTGGACACCCAGTCGCCTGTACTAAAATCAATGgtaagcggccatagctgattgattacaatctatgtaaaatttcatatgtg Alignment from Exonerate_coding2genome gcacaagcactacatctccgcagggtattgacatggtggcctcatcccaggagtggctccctggggcactttgggaagaggatctcgcagttggacacccagtcgcctgtactaaaatcaatggtaagcggccatagctgattgattacaatctatgtaaaatttcatatgtg Alignment from GeneWise GAGTGGCTTCCCGGGGCTTTTGTGAAGAGAATCTCCCAGCTGGACACCCAGTCTCCTGTCACCAAGATCAATG gcacaagcactacatctccgcagggtattgacatggtggcctcatcccagGAGTGGCTCCCTGGGGCACTTTGGGAAGAGGATCTCGCAGTTGGACACCCAGTCGCCTGTACTAAAATCAATGgtaagcggccatagctgattgattacaatctatgtaaaatttcatatgtg #### Rab3il1_ID2648_4 --> 0 - 0 Original Alignment GAAGCTCACAAG-ATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG gggttaacaactcctggtgcttttacagttttattgtcctttcttcacagGAAGCCCACAAACATGGTGCAGGAAGCAAACATGAAACAGGCAACATCAGAAA-GCAGCTGAAGGAAGCATGGGGCAAGgtaaggtggagcaaaatgatcacaagtgctgtctacccctgtttccaagc Alignment from CESAR GAAGCTCACAAG-ATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG gggttaacaactcctggtgcttttacagttttattgtcctttcttcacagGAAGCCCACAAACATGGTGCAGGAAGCAAACATGAAACAGGCAACATCAG-AAAGCAGCTGAAGGAAGCATGGGGCAAGgtaaggtggagcaaaatgatcacaagtgctgtctacccctgtttccaagc Alignment from Spaln_aa2Genome GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG gggttaacaactcctggtgcttttacagttttattgtcctttcttcacaggaagCCCACAAAC---ATGGTGCAGGAAGCAAACATGAAACAGGCAACATCAGA-AAGCAGCTGAAGGAAGCATGGGGCAAGgtaaggtggagcaaaatgatcacaagtgctgtctacccctgtttccaagc Alignment from Spaln_nt2Genome GAAGCTCACAAG-ATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG gggttaacaactcctggtgcttttacagttttattgtcctttcttcacagGAAGCCCACAAACATGGTGCAGGAAGCAAACATGAAACAGGCAACATCAG-AAAGCAGCTGAAGGAAGCATGGGGCAAGgtaaggtggagcaaaatgatcacaagtgctgtctacccctgtttccaagc Alignment from Pairagon GAAGCTCACAAG-ATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG gggttaacaactcctggtgcttttacagttttattgtcctttcttcacagGAAGCCCACAAACATGGTGCAGGAAGCAAACATGAAACAGGCAACATCAG-AAAGCAGCTGAAGGAAGCATGGGGCAAGgtaaggtggagcaaaatgatcacaagtgctgtctacccctgtttccaagc Alignment from Exonerate_protein2genome GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG gggttaacaactcctggtgcttttacagttttattgtcctttcttcacagGAAGCCCACAAACATGGTGCAGGAAGCAAACATGAAACAGGCAACATCAGAAAGCAGCTGAAGGAAGCATGGGGCAAGgtaaggtggagcaaaatgatcacaagtgctgtctacccctgtttccaagc Alignment from Exonerate_coding2genome gggttaacaactcctggtgcttttacagttttattgtcctttcttcacaggaagcccacaaacatggtgcaggaagcaaacatgaaacaggcaacatcagaaagcagctgaaggaagcatggggcaaggtaaggtggagcaaaatgatcacaagtgctgtctacccctgtttccaagc Alignment from GeneWise -----------------------------------------------GAGGAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG GGGTTAACAACTCCTGGTGCTTTTACAGTTTTATTGTCCTTTCTTCACAGGAAGCCCACAAACATGGTGCAGGAAGCAAACATGAAACAGGCAACATCAGAAAGCAGCTGAAGGAAGCATGGGGCAAGgtaaggtggagcaaaatgatcacaagtgctgtctacccctgtttccaagc #### Rab3il1_ID2652_7 --> 0 - 2 Original Alignment CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAG-CCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACCaa gcaatctgcaatcttgtagcttcataagttggtctcttttcttttgccagCTATCAGCTTTAGTTCAAACTGCTGTAGAAGACAATACACTCACCATTGAGCCCCGTTGCTTCACAGACACTGCCGGCAGTAA-GGTACCTAGTATTGAGTGTAACAACACCaagtgagctcatacatgcctctgaaaggctcaaaatttctagatttagctaa Alignment from CESAR CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCT-GTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACCaa gcaatctgcaatcttgtagcttcataagttggtctcttttcttttgccagCTATCAGCTTTAGTTCAAACTGCTGTAGAAGACAATACACTCACCATTGAGCCCCGTTGCTTCACAGACACTGCCGGCAG-TAAGGTACCTAGTATTGAGTGTAACAACACCaagtgagctcatacatgcctctgaaaggctcaaaatttctagatttagctaa Alignment from Spaln_aa2Genome CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACCAA gcaatctgcaatcttgtagcttcataagttggtctcttttcttttgccagCTATCAGCTTTAGTTCAAACTGCTGTAGAAGACAATACACTCACCATTGAGCCCCGTTGCTTCACAGACACTGCCGGCAGTAAGGTACCTAGTATTGAGTGTAACAACACCAAgtgagctcatacatgcctctgaaaggctcaaaatttctagatttagctaa Alignment from Spaln_nt2Genome CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCT-GTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACCAA gcaatctgcaatcttgtagcttcataagttggtctcttttcttttgccagCTATCAGCTTTAGTTCAAACTGCTGTAGAAGACAATACACTCACCATTGAGCCCCGTTGCTTCACAGACACTGCCGGCAGTAAG-GTACCTAGTATTGAGTGTAACAACACCAAgtgagctcatacatgcctctgaaaggctcaaaatttctagatttagctaa Alignment from Pairagon CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAG-CCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACCAA gcaatctgcaatcttgtagcttcataagttggtctcttttcttttgccagCTATCAGCTTTAGTTCAAACTGCTGTAGAAGACAATACACTCACCATTGAGCCCCGTTGCTTCACAGACACTGCCGGCAGT-AAGGTACCTAGTATTGAGTGTAACAACACCAAgtgagctcatacatgcctctgaaaggctcaaaatttctagatttagctaa Alignment from Exonerate_protein2genome CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACCAA gcaatctgcaatcttgtagcttcataagttggtctcttttcttttgccagCTATCAGCTTTAGTTCAAACTGCTGTAGAAGACAATACACTCACCATTGAGCCCCGTTGCTTCACAGACACTGCCGGCAGTAAGGTACCTAGTATTGAGTGTAACAACACCAAgtgagctcatacatgcctctgaaaggctcaaaatttctagatttagctaa Alignment from Exonerate_coding2genome CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACCAA gcaatctgcaatcttgtagcttcataagttggtctcttttcttttgccagCTATCAGCTTTAGTTCAAACTGCTGTAGAAGACAATACACTCACCATTGAGCCCCGTTGCTTCACAGACACTGCCGGCAGTAAGGTACCTAGTATTGAGTGTAACAACACCAAgtgagctcatacatgcctctgaaaggctcaaaatttctagatttagctaa Alignment from GeneWise CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACCAA gcaatctgcaatcttgtagcttcataagttggtctcttttcttttgccagCTATCAGCTTTAGTTCAAACTGCTGTAGAAGACAATACACTCACCATTGAGCCCCGTTGCTTCACAGACACTGCCGGCAGTAAGGTACCTAGTATTGAGTGTAACAACACCAAgtgagctcatacatgcctctgaaaggctcaaaatttctagatttagctaa #### Rasgrp2_ID1703_2 --> 2 - 2 Original Alignment atGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATG-ATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACtt tcctcagcaggcttaaatacaagctccagtgtcctctcactgtcctacagatGATTCAGGAAAGGTGCAAGATTCCCAGCTTGTACATATGTTCCTAATGCATGTATCCATGGTATATACCTTCCACTCAGT-GGCTTCAAAACTGCTCCACttgtaagtttggtgctccataacattggaagattttgagtgtctagtactaa Alignment from CESAR atGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATG-ATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACtt tcctcagcaggcttaaatacaagctccagtgtcctctcactgtcctacagatGATTCAGGAAAGGTGCAAGATTCCCAGCTTGTACATATGTTCCTAATGCATGTATCCATGGTATATACCTTCCACTC-AGTGGCTTCAAAACTGCTCCACttgtaagtttggtgctccataacattggaagattttgagtgtctagtactaa Alignment from Spaln_aa2Genome ATGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT tcctcagcaggcttaaatacaagctccagtgtcctctcactgtcctacagATGATTCAGGAAAGGTGCAAGATTCCCAGCTTGTACATATGTTCCTAATGCATGTATCCATGGTATATACCTTCCACTCAGTGGCTTCAAAACTGCTCCACTTgtaagtttggtgctccataacattggaagattttgagtgtctagtactaa Alignment from Spaln_nt2Genome ATGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATG-ATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT tcctcagcaggcttaaatacaagctccagtgtcctctcactgtcctacagATGATTCAGGAAAGGTGCAAGATTCCCAGCTTGTACATATGTTCCTAATGCATGTATCCATGGTATATACCTTCCACTCAG-TGGCTTCAAAACTGCTCCACTTgtaagtttggtgctccataacattggaagattttgagtgtctagtactaa Alignment from Pairagon ATGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATG-ATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT tcctcagcaggcttaaatacaagctccagtgtcctctcactgtcctacagATGATTCAGGAAAGGTGCAAGATTCCCAGCTTGTACATATGTTCCTAATGCATGTATCCATGGTATATACCTTCCACTCAG-TGGCTTCAAAACTGCTCCACTTgtaagtttggtgctccataacattggaagattttgagtgtctagtactaa Alignment from Exonerate_protein2genome ATGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT tcctcagcaggcttaaatacaagctccagtgtcctctcactgtcctacagATGATTCAGGAAAGGTGCAAGATTCCCAGCTTGTACATATGTTCCTAATGCATGTATCCATGGTATATACCTTCCACTCAGTGGCTTCAAAACTGCTCCACTTgtaagtttggtgctccataacattggaagattttgagtgtctagtactaa Alignment from Exonerate_coding2genome ATGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT tcctcagcaggcttaaatacaagctccagtgtcctctcactgtcctacagATGATTCAGGAAAGGTGCAAGATTCCCAGCTTGTACATATGTTCCTAATGCATGTATCCATGGTATATACCTTCCACTCAGTGGCTTCAAAACTGCTCCACTTgtaagtttggtgctccataacattggaagattttgagtgtctagtactaa Alignment from GeneWise ATGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT tcctcagcaggcttaaatacaagctccagtgtcctctcactgtcctacagATGATTCAGGAAAGGTGCAAGATTCCCAGCTTGTACATATGTTCCTAATGCATGTATCCATGGTATATACCTTCCACTCAGTGGCTTCAAAACTGCTCCACTTgtaagtttggtgctccataacattggaagattttgagtgtctagtactaa #### Rasgrp2_ID1706_5 --> 1 - 0 Original Alignment cCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGG-AACCCTGTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG tgcattatggattaataaattgccggctatgcttccctcacttaacacagcCCTACTTATAAATGGAAGCGGCAGGTGACCCAGCGGCAACCTTGTGGAACAGAAGAAACCCAAGATGTCCTTAT-GTTTGATCACTTGGAGCTGATGGAGCTTGCTGAACATCTAACCTACCTGGGGTATCGTTCCTTCTGCAAAATACTGgtaagggttgaaggtctggttgtgggtatcaggcaggtctttttgagtag Alignment from CESAR cCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGG-AACCCTGTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG tgcattatggattaataaattgccggctatgcttccctcacttaacacagcCCTACTTATAAATGGAAGCGGCAGGTGACCCAGCGGCAACCTTGTGGAACAGAAGAAACCCAAGATGTCCT-TATGTTTGATCACTTGGAGCTGATGGAGCTTGCTGAACATCTAACCTACCTGGGGTATCGTTCCTTCTGCAAAATACTGgtaagggttgaaggtctggttgtgggtatcaggcaggtctttttgagtag Alignment from Spaln_aa2Genome CCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCTGTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG tgcattatggattaataaattgccggctatgcttccctcacttaacacagCCCTACTTATAAATGGAAGCGGCAGGTGACCCAGCGGCAACCTTGTGGAACAGAAGAAACCCAAGATGTCCTTATGTTTGATCACTTGGAGCTGATGGAGCTTGCTGAACATCTAACCTACCTGGGGTATCGTTCCTTCTGCAAAATACTGgtaagggttgaaggtctggttgtgggtatcaggcaggtctttttgagtag Alignment from Spaln_nt2Genome CCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGG-AACCCTGTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG tgcattatggattaataaattgccggctatgcttccctcacttaacacagCCCTACTTATAAATGGAAGCGGCAGGTGACCCAGCGGCAACCTTGTGGAACAGAAGAAACCCAAGATGTCCTT-ATGTTTGATCACTTGGAGCTGATGGAGCTTGCTGAACATCTAACCTACCTGGGGTATCGTTCCTTCTGCAAAATACTGgtaagggttgaaggtctggttgtgggtatcaggcaggtctttttgagtag Alignment from Pairagon CCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGG-AACCCTGTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG tgcattatggattaataaattgccggctatgcttccctcacttaacacagCCCTACTTATAAATGGAAGCGGCAGGTGACCCAGCGGCAACCTTGTGGAACAGAAGAAACCCAAGATGTCCTTA-TGTTTGATCACTTGGAGCTGATGGAGCTTGCTGAACATCTAACCTACCTGGGGTATCGTTCCTTCTGCAAAATACTGgtaagggttgaaggtctggttgtgggtatcaggcaggtctttttgagtag Alignment from Exonerate_protein2genome CCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCTGTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG tgcattatggattaataaattgccggctatgcttccctcacttaacacagCCCTACTTATAAATGGAAGCGGCAGGTGACCCAGCGGCAACCTTGTGGAACAGAAGAAACCCAAGATGTCCTTATGTTTGATCACTTGGAGCTGATGGAGCTTGCTGAACATCTAACCTACCTGGGGTATCGTTCCTTCTGCAAAATACTGgtaagggttgaaggtctggttgtgggtatcaggcaggtctttttgagtag Alignment from Exonerate_coding2genome CCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCTGTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG tgcattatggattaataaattgccggctatgcttccctcacttaacacagCCCTACTTATAAATGGAAGCGGCAGGTGACCCAGCGGCAACCTTGTGGAACAGAAGAAACCCAAGATGTCCTTATGTTTGATCACTTGGAGCTGATGGAGCTTGCTGAACATCTAACCTACCTGGGGTATCGTTCCTTCTGCAAAATACTGgtaagggttgaaggtctggttgtgggtatcaggcaggtctttttgagtag Alignment from GeneWise CCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCTGTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG tgcattatggattaataaattgccggctatgcttccctcacttaacacagCCCTACTTATAAATGGAAGCGGCAGGTGACCCAGCGGCAACCTTGTGGAACAGAAGAAACCCAAGATGTCCTTATGTTTGATCACTTGGAGCTGATGGAGCTTGCTGAACATCTAACCTACCTGGGGTATCGTTCCTTCTGCAAAATACTGgtaagggttgaaggtctggttgtgggtatcaggcaggtctttttgagtag #### Rasgrp2_ID1707_6 --> 0 - 0 Original Alignment TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTC-CTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgatattaactgttaacagtttcacacctgtgtcctctcttaccccagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCCTGGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTC-GTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtaggaacagttctgtcatatgagaccaggtcctttattgaatgtacaga Alignment from CESAR TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTC-CTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgatattaactgttaacagtttcacacctgtgtcctctcttaccccagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCCTGGAGCGATTTATCTCTCTCTTCAACAGTGTGCCT-CGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtaggaacagttctgtcatatgagaccaggtcctttattgaatgtacaga Alignment from Spaln_aa2Genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgatattaactgttaacagtttcacacctgtgtcctctcttaccccagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCCTGGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtaggaacagttctgtcatatgagaccaggtcctttattgaatgtacaga Alignment from Spaln_nt2Genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCC-TGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgatattaactgttaacagtttcacacctgtgtcctctcttaccccagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCCTGGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTC-GTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtaggaacagttctgtcatatgagaccaggtcctttattgaatgtacaga Alignment from Pairagon TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGT-CCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgatattaactgttaacagtttcacacctgtgtcctctcttaccccagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCCTGGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTC-GTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtaggaacagttctgtcatatgagaccaggtcctttattgaatgtacaga Alignment from Exonerate_protein2genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgatattaactgttaacagtttcacacctgtgtcctctcttaccccagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCCTGGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtaggaacagttctgtcatatgagaccaggtcctttattgaatgtacaga Alignment from Exonerate_coding2genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgatattaactgttaacagtttcacacctgtgtcctctcttaccccagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCCTGGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtaggaacagttctgtcatatgagaccaggtcctttattgaatgtacaga Alignment from GeneWise TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgatattaactgttaacagtttcacacctgtgtcctctcttaccccagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCCTGGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtaggaacagttctgtcatatgagaccaggtcctttattgaatgtacaga #### Rbm20_ID11377_4 --> 1 - 1 Original Alignment tGCTGGCCTCCGGAGTATA-CGTGCTTCA---GGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGg tagattcaaaactaataacgtaccatgactttcccttttaaaaaaataagtACTGGTCTCCAGAGTATCCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAG-TAATAGTACAGCCGTTTATAACCCAACAGGAAATGAGggttggtaaggtgaatggtagggctctgtggcatgttaaccattagttgta Alignment from CESAR tGCTGGCCTCCGGAGTATA-CGT---GCTTCAGGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGg tagattcaaaactaataacgtaccatgactttcccttttaaaaaaataagtACTGGTCTCCAGAGTATCCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCA-GTAATAGTACAGCCGTTTATAACCCAACAGGAAATGAGggttggtaaggtgaatggtagggctctgtggcatgttaaccattagttgta Alignment from Spaln_aa2Genome TGCTGGCCTCCGGAGTATA---CGTGCTTCAGGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGG tagattcaaaactaataacgtaccatgactttcccttttaaaaaaataagTACTGGTCTCCAGAGTATCCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAGTAATAGTACAGCCGTTTATAACCCAACAGGAAATGAGGgttggtaaggtgaatggtagggctctgtggcatgttaaccattagttgta Alignment from Spaln_nt2Genome TGCTGGCCTCCGGAGTATACGTGCT----TCAGGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGG tagattcaaaactaataacgtaccatgactttcccttttaaaaaaataagTACTGGTCTCCAGAGTATCCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAG-TAATAGTACAGCCGTTTATAACCCAACAGGAAATGAGGgttggtaaggtgaatggtagggctctgtggcatgttaaccattagttgta Alignment from Pairagon TGCTGGCCTCCGGAGTATACGTGCT----TCAGGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGG tagattcaaaactaataacgtaccatgactttcccttttaaaaaaataagTACTGGTCTCCAGAGTATCCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAG-TAATAGTACAGCCGTTTATAACCCAACAGGAAATGAGGgttggtaaggtgaatggtagggctctgtggcatgttaaccattagttgta Alignment from Exonerate_protein2genome TGCTGGCCTCCGGAGTATACGTGCT---TCAGGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGG tagattcaaaactaataacgtaccatgactttcccttttaaaaaaataagTACTGGTCTCCAGAGTATCCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAGTAATAGTACAGCCGTTTATAACCCAACAGGAAATGAGGgttggtaaggtgaatggtagggctctgtggcatgttaaccattagttgta Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TGCTGGCCTCCGGAGTATACGTGCT---TCAGGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGG tagattcaaaactaataacgtaccatgactttcccttttaaaaaaataagTACTGGTCTCCAGAGTATCCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAGTAATAGTACAGCCGTTTATAACCCAACAGGAAATGAGGgttggtaaggtgaatggtagggctctgtggcatgttaaccattagttgta #### Rbp4_ID7524_3 --> 0 - 2 Original Alignment TTCTCTGGGCTCTGGTATGCCATC-GCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCT---GAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGag ctaatttagttggggggtgagcttaggctttttacttttctctccctcagTTTTCAGGTCTCTTGTATACTATTCGCA---AAGGGTCCGAAGGGGCTCTTTTTGCAAG-CAATATCATTGCTGCTGAGTTTTCTGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGaggtgagtgaacctgagtgcagtactgtcactttagcctaataaagcctttc Alignment from CESAR TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATC---GCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGag ctaatttagttggggggtgagcttaggctttttacttttctctccctcagTTTTCAGGTCTCTTGTATACTATTCGCA--AAGGGTCCGAAGGGGCTCTTTTTGCAA-GCAATATCATTGCTGCTGAGTTTTCTGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGaggtgagtgaacctgagtgcagtactgtcactttagcctaataaagcctttc Alignment from Spaln_aa2Genome TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaatttagttggggggtgagcttaggctttttacttttctctccctcagTTTTCAGGTCTCTTGTATACTATTCGCAAAGGGTCCGAAGGGGCTCTTTTTGCAAGCAATATCATTGCTGCTGAGTTTTCTGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGAGgtgagtgaacctgagtgcagtactgtcactttagcctaataaagcctttc Alignment from Spaln_nt2Genome TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTG---AGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaatttagttggggggtgagcttaggctttttacttttctctccctcagTTTTCAGGTCTCTTGTATACTAT--TCGCAAAGGGTCCGAAGGGGCTCTTTTTGCAAG-CAATATCATTGCTGCTGAGTTTTCTGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGAGgtgagtgaacctgagtgcagtactgtcactttagcctaataaagcctttc Alignment from Pairagon TTCTCTGGGCTCTGGTATGCCA-TCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCAT---CGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaatttagttggggggtgagcttaggctttttacttttctctccctcagTTTTCAGGTCTCTTGTATACTATTCGC---AAAGGGTCCGAAGGGGCTCTTTTTGCAAG-CAATATCATTGCTGCTGAGTTTTCTGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGAGgtgagtgaacctgagtgcagtactgtcactttagcctaataaagcctttc Alignment from Exonerate_protein2genome TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaatttagttggggggtgagcttaggctttttacttttctctccctcagTTTTCAGGTCTCTTGTATACTATTCGCAAAGGGTCCGAAGGGGCTCTTTTTGCAAGCAATATCATTGCTGCTGAGTTTTCTGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGAGgtgagtgaacctgagtgcagtactgtcactttagcctaataaagcctttc Alignment from Exonerate_coding2genome TTCGACAAGGCTCGTTTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaatttagttggggggtgagcttaggctttttacTTTTCTCTCCCTCAGTTTTCAGGTCTCTTGTATACTATTCGCAAAGGGTCCGAAGGGGCTCTTTTTGCAAGCAATATCATTGCTGCTGAGTTTTCTGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGAGgtgagtgaacctgagtgcagtactgtcactttagcctaataaagcctttc Alignment from GeneWise TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaatttagttggggggtgagcttaggctttttacttttctctccctcagTTTTCAGGTCTCTTGTATACTATTCGCAAAGGGTCCGAAGGGGCTCTTTTTGCAAGCAATATCATTGCTGCTGAGTTTTCTGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGAGgtgagtgaacctgagtgcagtactgtcactttagcctaataaagcctttc #### Rce1_ID576_6 --> 2 - 1 Original Alignment CTTTTTTGGAGTCg ccCATTTTCACCACATT-ATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAg CTTTCTTGGGGTTggtaggattattgtgtagttctcctttttaattttagctCATTTTCAGCACATTCATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGA-CATCTTTGTGTCTACAggtaagagggaaaagtagtaatgaagagaaaaaagggctggctctttatag Alignment from CESAR CTTTTTTGGAGTCg ccCATTTTCACCACATT-ATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAg CTTTCTTGGGGTTggtacgtttattgtgtagttctcctttttaattttagctCATTTTCAGCACATTCATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGG-ACATCTTTGTGTCTACAggtaagagggaaaagtagtaatgaagagaaaaaagggctggctctttatag Alignment from Spaln_aa2Genome CTTTTTTGGAGTCG CCCATTTTCACCACATT-ATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTT CTTTCTTGGGGTTGgtaggattattgtgtagttctcctttttaattttagCTCATTTTCAGCACATTcATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGACATCTTTgtgtctacaggtaagagggaaaagtagtaatgaagagaaaaaagggctggctctttatag Alignment from Spaln_nt2Genome CTTTTTTGGAGTCG CCCATTTTCACCACATT-ATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CTTTCTTGGGGTTGgtaggattattgtgtagttctcctttttaattttagCTCATTTTCAGCACATTCATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGA-CATCTTTGTGTCTACAGgtaagagggaaaagtagtaatgaagagaaaaaagggctggctctttatag Alignment from Pairagon CTTTTTTGGAGTCG CCCATTTTCACCACATT-ATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CTTTCTTGGGGTTGgtaggattattgtgtagttctcctttttaattttagCTCATTTTCAGCACATTCATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGA-CATCTTTGTGTCTACAGgtaagagggaaaagtagtaatgaagagaaaaaagggctggctctttatag Alignment from Exonerate_protein2genome CTTTTTTGGAGTCG CCCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CTTTCTTGGGGTTGgtaggattattgtgtagttctcctttttaattttagCTCATTTTCAGCACATTCATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGACATCTTTGTGTCTACAGgtaagagggaaaagtagtaatgaagagaaaaaagggctggctctttatag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CTTTTTTGGAGTCGCCCATTTTCAC CTTTCTTGGGGTTGGTAGGATTATTgtgtagttctcctttttaattttagctcattttcagcacattcatagagcagttacgcttccgccagagcagtgtggggacatctttgtgtctacaggtaagagggaaaagtagtaatgaagagaaaaaagggctggctctttatag #### Rce1_ID577_5 --> 2 - 1 Original Alignment ccCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATG-CTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCg ccCATTTTCACCAC gtcataggctagcaagtaggtacatgagtaaccgtccctctatcacccagcaCCCTGTTCATGGGCTCAATGTCTGACTGAAATGCGCTGGCTGAGTAACAAAGTTATTGCACCATTGACTGGGGAGTTGGTGTTCCGGGCATGCATGCTGCCCATGCCTAGCACCATGTACTGGTCTCAGTCCAGCGGTGTTTGCAT-CCCACTCTTTCTTGGGGTTggtacgtttattgtggactgagttcccgtcgttttagctCATTTTCAGCAC Alignment from CESAR ccCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATG-CTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCg ccCATTTTCACCAC gtcataggctagcaagtaggtacatgagtaaccgtccctctatcacccagcaCCCTGTTCATGGGCTCAATGTCTGACTGAAATGCGCTGGCTGAGTAACAAAGTTATTGCACCATTGACTGGGGAGTTGGTGTTCCGGGCATGCATGCTGCCCATGCCTAGCACCATGTACTGGTCTCAGTCCAGCGGTGTTTGCA-TCCCACTCTTTCTTGGGGTTggtacgtttattgtgtagttctcctttttaattttagctCATTTTCAGCAC Alignment from Spaln_aa2Genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATG-CTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGA---GTCG CCCATTTTCACCAC gtcataggctagcaagtaggtacatgagtaaccgtccctctatcacccagCACCCTGTTCATGGGCTCAATGTCTGACTGAAATGCGCTGGCTGAGTAACAAAGTTATTGCACCATTGACTGGGGAGTTGGTGTTCCGGGCATGCATGCTGCCCATGcCTAGCACCATGTACTGGTCTCAGTCCAGCGGTGTTTGCATCCCACTCTTTCTTGGGGTTGGTACgtttattgtggactgagttcccgtcgttttagCTCATTTTCAGCAC Alignment from Spaln_nt2Genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGC-TAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCG CCCATTTTCACCAC gtcataggctagcaagtaggtacatgagtaaccgtccctctatcacccagCACCCTGTTCATGGGCTCAATGTCTGACTGAAATGCGCTGGCTGAGTAACAAAGTTATTGCACCATTGACTGGGGAGTTGGTGTTCCGGGCATGCATGCTGCCCATGCCTAGCACCATGTACTGGTCTCAGTCCAGCGGTGTTTGCAT-CCCACTCTTTCTTGGGGTTGgtacgtttattgtggactgagttcccgtcgttttagCTCATTTTCAGCAC Alignment from Pairagon CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATG-CTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCG CCCATTTTCACCAC gtcataggctagcaagtaggtacatgagtaaccgtccctctatcacccagCACCCTGTTCATGGGCTCAATGTCTGACTGAAATGCGCTGGCTGAGTAACAAAGTTATTGCACCATTGACTGGGGAGTTGGTGTTCCGGGCATGCATGCTGCCCATGCCTAGCACCATGTACTGGTCTCAGTCCAGCGGTGTTTGCAT-CCCACTCTTTCTTGGGGTTGgtacgtttattgtggactgagttcccgtcgttttagCTCATTTTCAGCAC Alignment from Exonerate_protein2genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATG-CTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTC GCCCATTTTCACCAC gtcataggctagcaagtaggtacatgagtaaccgtccctctatcacccagCACCCTGTTCATGGGCTCAATGTCTGACTGAAATGCGCTGGCTGAGTAACAAAGTTATTGCACCATTGACTGGGGAGTTGGTGTTCCGGGCATGCATGCTGCCCATGCCTAGCACCATGTACTGGTCTCAGTCCAGCGGTGTTTGCATCCCACTCTTTCTTGGGGTTGgtacgtttattgtggactgagttcccgtcgttttaGCTCATTTTCAGCAC Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATG-CTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCGCC- --CATTTTCACCAC gtcataggctagcaagtaggtacatgagtaaccgtccctctatcacccagCACCCTGTTCATGGGCTCAATGTCTGACTGAAATGCGCTGGCTGAGTAACAAAGTTATTGCACCATTGACTGGGGAGTTGGTGTTCCGGGCATGCATGCTGCCCATGCCTAGCACCATGTACTGGTCTCAGTCCAGCGGTGTTTGCATCCCACTCTTTCTTGGGGTTGGTACgtttattgtggactgagttcccgtcgttttagCTCATTTTCAGCAC #### Rce1_ID579_3 --> 0 - 0 Original Alignment CCAGGCACATCACTGCTT-ACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG cataccgaggaatcttttatctgcaacatcttaaacttttaatatttcagCCTGGAACATCACTCCTCCATCTTGATGGGTTTCAGGCTAGAGGGCATTTTCC-TGCAGCATTGCTGCCACTGCTATTAACTATGgtaagtcatgcttggtatttttacaacattattatagtcacttaatggcc Alignment from CESAR CCAGGCACATCACTGCTT-ACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG cataccgaggaatcttttatctgcaacatcttaaacttttaatatttcagCCTGGAACATCACTCCTCCATCTTGATGGGTTTCAGGCTAGAGGGCATTT-TCCTGCAGCATTGCTGCCACTGCTATTAACTATGgtaagtcatgcttggtatttttacaacattattatagtcacttaatggcc Alignment from Spaln_aa2Genome CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG cataccgaggaatcttttatctgcaacatcttaaacttttaatatttcagCCTGGAACATCACTCCTCCATCTTGATGGGTTTCAGGCTAGAGGGCATTTTCCTGCAGCATTGCTGCCACTGCTATTAACTATGgtaagtcatgcttggtatttttacaacattattatagtcacttaatggcc Alignment from Spaln_nt2Genome CCAGGCACATCACTGCTT-ACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG cataccgaggaatcttttatctgcaacatcttaaacttttaatatttcagCCTGGAACATCACTCCTCCATCTTGATGGGTTTCAGGCTAGAGGGCATTTT-CCTGCAGCATTGCTGCCACTGCTATTAACTATGgtaagtcatgcttggtatttttacaacattattatagtcacttaatggcc Alignment from Pairagon CCAGGCACATCACTGCT-TACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG cataccgaggaatcttttatctgcaacatcttaaacttttaatatttcagCCTGGAACATCACTCCTCCATCTTGATGGGTTTCAGGCTAGAGGGCATTTTCCT-GCAGCATTGCTGCCACTGCTATTAACTATGgtaagtcatgcttggtatttttacaacattattatagtcacttaatggcc Alignment from Exonerate_protein2genome CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG cataccgaggaatcttttatctgcaacatcttaaacttttaatatttcagCCTGGAACATCACTCCTCCATCTTGATGGGTTTCAGGCTAGAGGGCATTTTCCTGCAGCATTGCTGCCACTGCTATTAACTATGgtaagtcatgcttggtatttttacaacattattatagtcacttaatggcc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG cataccgaggaatcttttatctgcaacatcttaaacttttaatatttcagCCTGGAACATCACTCCTCCATCTTGATGGGTTTCAGGCTAGAGGGCATTTTCCTGCAGCATTGCTGCCACTGCTATTAACTATGgtaagtcatgcttggtatttttacaacattattatagtcacttaatggcc #### Rcor2_ID2094_5 --> 0 - 2 Original Alignment CTCCCTGACAAGGTGATTCCCAGCCTGGTG-AAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACag tgcagatctactatgcacatcattctagttttctcttcctgcctgcctagCTTCCTGATAAGATCATTCCCAGCCTGGTGCAAATACTATTACTCTTGGAAGAAGACTCGTA-TCAAACTAGTGTGATGGATAGGCAGGCGAGGCGGTTGAGTGGCCATAAGGACAAAGAAGATaggtaagtagtgtagtttgtgacttgggggaatgataatggagtgtcttctt Alignment from CESAR CTCCCTGACAAGGTGATTCCCAGCCTGGTG-AAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACag tgcagatctactatgcacatcattctagttttctcttcctgcctgcctagCTTCCTGATAAGATCATTCCCAGCCTGGTGCAAATACTATTACTCTTGGAAGAAGACTCGT-ATCAAACTAGTGTGATGGATAGGCAGGCGAGGCGGTTGAGTGGCCATAAGGACAAAGAAGATaggtaagtagtgtagtttgtgacttgggggaatgataatggagtggatgaga Alignment from Spaln_aa2Genome CTCCCTGACAAGGTGATTCCCAGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACAG tgcagatctactatgcacatcattctagttttctcttcctgcctgcctagCTTCCTGATAAGATCATTCCCAGCCTGGTGCAAATACTATTACTCTTGGAAGAAGACTCGTATCAAACTAGTGTGATGGATAGGCAGGCGAGGCGGTTGAGTGGCCATAAGGACAAAGAAGATAGgtaagtagtgtagtttgtgacttgggggaatgataatggagtgtcttctt Alignment from Spaln_nt2Genome CTCCCTGACAAGGTGATTCCCAGCCTGGTG-AAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACAG tgcagatctactatgcacatcattctagttttctcttcctgcctgcctagCTTCCTGATAAGATCATTCCCAGCCTGGTGCAAATACTATTACTCTTGGAAGAAGACTCGTA-TCAAACTAGTGTGATGGATAGGCAGGCGAGGCGGTTGAGTGGCCATAAGGACAAAGAAGATAGgtaagtagtgtagtttgtgacttgggggaatgataatggagtgtcttctt Alignment from Pairagon CTCCCTGACAAGGTGATTCCCAGCCTGGTG-AAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACAG tgcagatctactatgcacatcattctagttttctcttcctgcctgcctagCTTCCTGATAAGATCATTCCCAGCCTGGTGCAAATACTATTACTCTTGGAAGAAGACTCGTA-TCAAACTAGTGTGATGGATAGGCAGGCGAGGCGGTTGAGTGGCCATAAGGACAAAGAAGATAGgtaagtagtgtagtttgtgacttgggggaatgataatggagtgtcttctt Alignment from Exonerate_protein2genome CTCCCTGACAAGGTGATTCCCAGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACAG tgcagatctactatgcacatcattctagttttctcttcctgcctgcctagCTTCCTGATAAGATCATTCCCAGCCTGGTGCAAATACTATTACTCTTGGAAGAAGACTCGTATCAAACTAGTGTGATGGATAGGCAGGCGAGGCGGTTGAGTGGCCATAAGGACAAAGAAGATAGgtaagtagtgtagtttgtgacttgggggaatgataatggagtgtcttctt Alignment from Exonerate_coding2genome CTCCCTGACAAGGTGATTCCCAGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACAG tgcagatctactatgcacatcattctagttttctcttcctgcctgcctagCTTCCTGATAAGATCATTCCCAGCCTGGTGCAAATACTATTACTCTTGGAAGAAGACTCGTATCAAACTAGTGTGATGGATAGGCAGGCGAGGCGGTTGAGTGGCCATAAGGACAAAGAAGATAGgtaagtagtgtagtttgtgacttgggggaatgataatggagtgtcttctt Alignment from GeneWise CTCCCTGACAAGGTGATTCCCAGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACAG tgcagatctactatgcacatcattctagttttctcttcctgcctgcctagCTTCCTGATAAGATCATTCCCAGCCTGGTGCAAATACTATTACTCTTGGAAGAAGACTCGTATCAAACTAGTGTGATGGATAGGCAGGCGAGGCGGTTGAGTGGCCATAAGGACAAAGAAGATAGgtaagtagtgtagtttgtgacttgggggaatgataatggagtgtcttctt #### Rcor2_ID2099_10 --> 2 - 0 Original Alignment ctATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGG-GCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GTCCAGA agaggaggggccaactgttttgtccaaactttgtttttgtgaccttaaagccATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGAAACAAGACCCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGCGCCCCCACAGCCCTAGTCCCCACAGAAG-GGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAAGAGGATGATAAGgtaagagacctctccatggaataatccttcttttttattttagGTACAGA Alignment from CESAR ctATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGG-GCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GTCCAGA agaggaggggccaactgttttgtccaaactttgtttttgtgaccttaaagccATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGAAACAAGACCCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGCGCCCCCACAGCCCTAGTCCCCACAGAA-GGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAAGAGGATGATAAGgtaagagacctctccatggaaatttttcttttctgttttacagGTACAGA Alignment from Spaln_aa2Genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GTCCAGA agaggaggggccaactgttttgtccaaactttgtttttgtgaccttaaagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGAAACAAGACCCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGCGCCCCCACAGCCCTAGTCCCCACAGAAGGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAAGAGGATGATAAGgtaagagacctctccatggaataatccttcttttttattttagGTACAGA Alignment from Spaln_nt2Genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGG-GCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GTCCAGA agaggaggggccaactgttttgtccaaactttgtttttgtgaccttaaagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGAAACAAGACCCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGCGCCCCCACAGCCCTAGTCCCCACAGAAG-GGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAAGAGGATGATAAGgtaagagacctctccatggaataatccttcttttttattttagGTACAGA Alignment from Pairagon CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGG-GCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GTCCAGA agaggaggggccaactgttttgtccaaactttgtttttgtgaccttaaagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGAAACAAGACCCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGCGCCCCCACAGCCCTAGTCCCCACAGAAG-GGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAAGAGGATGATAAGgtaagagacctctccatggaataatccttcttttttattttagGTACAGA Alignment from Exonerate_protein2genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GTCCAGA agaggaggggccaactgttttgtccaaactttgtttttgtgaccttaaagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGAAACAAGACCCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGCGCCCCCACAGCCCTAGTCCCCACAGAAGGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAAGAGGATGATAAGgtaagagacctctccatggaataatccttcttttttattttagGTACAGA Alignment from Exonerate_coding2genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GTCCAGA agaggaggggccaactgttttgtccaaactttgtttttgtgaccttaaagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGAAACAAGACCCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGCGCCCCCACAGCCCTAGTCCCCACAGAAGGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAAGAGGATGATAAGgtaagagacctctccatggaataatccttcttttttattttagGTACAGA Alignment from GeneWise CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GTCCAGA agaggaggggccaactgttttgtccaaactttgtttttgtgaccttaaagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGAAACAAGACCCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGCGCCCCCACAGCCCTAGTCCCCACAGAAGGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAAGAGGATGATAAGgtaagagacctctccatggaataatccttcttttttattttagGTACAGA #### Rela_ID1126_3 --> 2 - 0 Original Alignment agCCAGCCCAGGCTTCTGGGCCTTATGTG-GAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG ctggaggcaagggcacaccatactgcctttttggcctattttttgcttagaaCCAGCCCAGGCAGCTGGTCCTTATGTACGACATCATCAAACAACCAAACCAACAAGGC---CATTTCCACT-TAAATCTGATGGGCACTCCGAAGGTGGTATCCCTGGTGAGAGGAGCATGGATACTAAAAAAACACATCCCACTATAAAGgtacctaataaagtccttgtatggcaaacaaggaaagaagtcttggtatc Alignment from CESAR agCCAGCCCAGGCTTCTGGGCCTTATGTG-GAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG ctggaggcaagggcacaccatactgcctttttggcctattttttgcttagaaCCAGCCCAGGCAGCTGGTCCTTATGTACGACATCATCAAACAACCAAACCAACAAGGC---CATTTCCAC-TTAAATCTGATGGGCACTCCGAAGGTGGTATCCCTGGTGAGAGGAGCATGGATACTAAAAAAACACATCCCACTATAAAGgtacctaataaagtccttgtatggcaaacaaggaaagaagtcttggtatc Alignment from Spaln_aa2Genome AGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG ctggaggcaagggcacaccatactgcctttttggcctattttttgcttagAACCAGCCCAGGCAGCTGGTCCTTATGTACGA---CATCATCAAACAACCAAACCAACAAGGCCATTTCCACTTAAATCTGATGGGCACTCCGAAGGTGGTATCCCTGGTGAGAGGAGCATGGATACTAAAAAAACACATCCCACTATAAAGgtacctaataaagtccttgtatggcaaacaaggaaagaagtcttggtatc Alignment from Spaln_nt2Genome AGCCAGCCCAGGCTTCTGGGCCTTATGTG-GAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG ctggaggcaagggcacaccatactgcctttttggcctattttttgcttagAACCAGCCCAGGCAGCTGGTCCTTATGTACGACATCATCAAACAACCAAACCAACAAGGC---CATTTCCACT-TAAATCTGATGGGCACTCCGAAGGTGGTATCCCTGGTGAGAGGAGCATGGATACTAAAAAAACACATCCCACTATAAAGgtacctaataaagtccttgtatggcaaacaaggaaagaagtcttggtatc Alignment from Pairagon AGCCAGCCCAGGCTTCTGGGCCTTATGTG-GAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG ctggaggcaagggcacaccatactgcctttttggcctattttttgcttagAACCAGCCCAGGCAGCTGGTCCTTATGTACGACATCATCAAACAACCAAACCAACAAGGC---CATTTCCACT-TAAATCTGATGGGCACTCCGAAGGTGGTATCCCTGGTGAGAGGAGCATGGATACTAAAAAAACACATCCCACTATAAAGgtacctaataaagtccttgtatggcaaacaaggaaagaagtcttggtatc Alignment from Exonerate_protein2genome AGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG ctggaggcaagggcacaccatactgcctttttggcctattttttgcttagAACCAGCCCAGGCAGCTGGTCCTTATGTACGA---CATCATCAAACAACCAAACCAACAAGGCCATTTCCACTTAAATCTGATGGGCACTCCGAAGGTGGTATCCCTGGTGAGAGGAGCATGGATACTAAAAAAACACATCCCACTATAAAGgtacctaataaagtccttgtatggcaaacaaggaaagaagtcttggtatc Alignment from Exonerate_coding2genome ctggaggcaagggcacaccatactgcctttttggcctattttttgcttagaaccagcccaggcagctggtccttatgtacgacatcatcaaacaaccaaaccaacaaggccatttccacttaaatctgatgggcactccgaaggtggtatccctggtgagaggagcatggatactaaaaaaacacatcccactataaaggtacctaataaagtccttgtatggcaaacaaggaaagaagtcttggtatc Alignment from GeneWise GACGATCTGTTTCCCCTCATCTTTCCCTCAGAGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG agggcacaccatactgcct---------TTTTGGCCTATTTTTTGCTTAGAACCAGCCCAGGCAGCTGGTCCTTATGTACGACATCATCAAACAACCAAACCAACA---AGGCCATTTCCACTTAAATCTGATGGGCACTCCGAAGGTGGTATCCCTGGTGAGAGGAGCATGGATACTAAAAAAACACATCCCACTATAAAGgtacctaataaagtccttgtatggcaaacaaggaaagaagtcttggtatc #### Rela_ID1128_5 --> 1 - 1 Original Alignment cTTCCAGAACCTGGGGATC-CAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACCAACAATAACCCCTTTCACg agaacatgactttccttagcaaatctaacaaatcttttcttttctttcagtTTCCAGAATTTAGGCATACCAGTGTGTGAAAAAGCGCGACCTGGCACAAGCAA-AAGTCAGCGAATTCAGACTACCAATAACTCATTTCACggtaattagcagggcagaaaggaattccatctctatatggaccattaatct Alignment from CESAR cTTCCAGAACCTGGGGATC-CAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACCAACAATAACCCCTTTCACg agaacatgactttccttagcaaatctaacaaatcttttcttttctttcagtTTCCAGAATTTAGGCATACCAGTGTGTGAAAAAGCGCGACCTGGCACAAGCA-AAAGTCAGCGAATTCAGACTACCAATAACTCATTTCACggtaattagcagggcagaaaggaattccatctctatatggaccattaatct Alignment from Spaln_aa2Genome CTTCCAGAACCTGGGGATCCAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACCAACAATAACCCCTTTCACG agaacatgactttccttagcaaatctaacaaatcttttcttttctttcagTTTCCAGAATTTAGGCATACCAGTGTGTGAAAAAGCGCGACCTGGCACAAGCAAAAGTCAGCGAATTCAGACTACCAATAACTCATTTCACGgtaattagcagggcagaaaggaattccatctctatatggaccattaatct Alignment from Spaln_nt2Genome CTTCCAGAACCTGGGGAT-CCAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACCAACAATAACCCCTTTCACG agaacatgactttccttagcaaatctaacaaatcttttcttttctttcagTTTCCAGAATTTAGGCATACCAGTGTGTGAAAAAGCGCGACCTGGCACAAG-CAAAAGTCAGCGAATTCAGACTACCAATAACTCATTTCACGgtaattagcagggcagaaaggaattccatctctatatggaccattaatct Alignment from Pairagon CTTCCAGAACCTGGGGAT-CCAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACCAACAATAACCCCTTTCACG agaacatgactttccttagcaaatctaacaaatcttttcttttctttcagTTTCCAGAATTTAGGCATACCAGTGTGTGAAAAAGCGCGACCTGGCACAAGCAA-AAGTCAGCGAATTCAGACTACCAATAACTCATTTCACGgtaattagcagggcagaaaggaattccatctctatatggaccattaatct Alignment from Exonerate_protein2genome CTTCCAGAACCTGGGGATCCAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACCAACAATAACCCCTTTCACG agaacatgactttccttagcaaatctaacaaatcttttcttttctttcagTTTCCAGAATTTAGGCATACCAGTGTGTGAAAAAGCGCGACCTGGCACAAGCAAAAGTCAGCGAATTCAGACTACCAATAACTCATTTCACGgtaattagcagggcagaaaggaattccatctctatatggaccattaatct Alignment from Exonerate_coding2genome agaacatgactttccttagcaaatctaacaaatcttttcttttctttcagtttccagaatttaggcataccagtgtgtgaaaaagcgcgacctggcacaagcaaaagtcagcgaattcagactaccaataactcatttcacggtaattagcagggcagaaaggaattccatctctatatggaccattaatct Alignment from GeneWise CTTCCAGAACCTGGGGATCCAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACCAACAATAACCCCTTTCACG agaacatgactttccttagcaaatctaacaaatcttttcttttctttcagTTTCCAGAATTTAGGCATACCAGTGTGTGAAAAAGCGCGACCTGGCACAAGCAAAAGTCAGCGAATTCAGACTACCAATAACTCATTTCACGgtaattagcagggcagaaaggaattccatctctatatggaccattaatct #### Rin1_ID807_2 --> 1 - 0 Original Alignment gCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGT-ACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG A gattttagaacattgggcagaggaagctttatataacctttccctttaaggCCAGCGACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTGCAGGCTGGTGGGTCACAACAACCAGCATGCCAAAGTCAGCCTTCACGAGCGACTGTTGATCACATGTCCTG-GTGGTTACGGCTCCGGGCCAATGCAGCTACTGTACTACATGTGCTAAGTACAAAACCTCCAGGGgtaagcctcttagttacaagacctaaactccttgtgtttcactccccagA Alignment from CESAR gCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGT-ACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG A gattttagaacattgggcagaggaagctttatataacctttccctttaaggCCAGCGACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTGCAGGCTGGTGGGTCACAACAACCAGCATGCCAAAGTCAGCCTTCACGAGCGACTGTTGATCACATGTCCT-GGTGGTTACGGCTCCGGGCCAATGCAGCTACTGTACTACATGTGCTAAGTACAAAACCTCCAGGGgtaagcctcttagttacaagacctaaacgttgctcttctgtctctgtagA Alignment from Spaln_aa2Genome GCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCA-CGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG A gattttagaacattgggcagaggaagctttatataacctttccctttaagGCCAGCGACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTGCAGGCTGGTGGGTCACAACAACCAGCAtGCCAAAGTCAGCCTTCACGAGCGACTGTTGATCACATGTCCTGG-TGGTTACGGCTCCGGGCCAATGCAGCTACTGTACTACATGTGCTAAGTACAAAACCTCCAGGGgtaagcctcttagttacaagacctaaactccttgtgtttcactccccagA Alignment from Spaln_nt2Genome GCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGT-ACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG A gattttagaacattgggcagaggaagctttatataacctttccctttaagGCCAGCGACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTGCAGGCTGGTGGGTCACAACAACCAGCATGCCAAAGTCAGCCTTCACGAGCGACTGTTGATCACATGTCCTG-GTGGTTACGGCTCCGGGCCAATGCAGCTACTGTACTACATGTGCTAAGTACAAAACCTCCAGGGgtaagcctcttagttacaagacctaaactccttgtgtttcactccccagA Alignment from Pairagon GCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACG-TACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG A gattttagaacattgggcagaggaagctttatataacctttccctttaagGCCAGCGACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTGCAGGCTGGTGGGTCACAACAACCAGCATGCCAAAGTCAGCCTTCACGAGCGACTGTTGATCACATGTCCTG-GTGGTTACGGCTCCGGGCCAATGCAGCTACTGTACTACATGTGCTAAGTACAAAACCTCCAGGGgtaagcctcttagttacaagacctaaactccttgtgtttcactccccagA Alignment from Exonerate_protein2genome GCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG A gattttagaacattgggcagaggaagctttatataacctttccctttaagGCCAGCGACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTGCAGGCTGGTGGGTCACAACAACCAGCATGCCAAAGTCAGCCTTCACGAGCGACTGTTGATCACATGTCCTGGTGGTTACGGCTCCGGGCCAATGCAGCTACTGTACTACATGTGCTAAGTACAAAACCTCCAGGGgtaagcctcttagttacaagacctaaactccttgtgtttcactccccagA Alignment from Exonerate_coding2genome AAGCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG A gattttagaacattgggcagaggaagctttatataacctttccctttaAGGCCAGCGACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTGCAGGCTGGTGGGTCACAACAACCAGCATGCCAAAGTCAGCCTTCACGAGCGACTGTTGATCACATGTCCTGGTGGTTACGGCTCCGGGCCAATGCAGCTACTGTACTACATGTGCTAAGTACAAAACCTCCAGGGgtaagcctcttagttacaagacctaaactccttgtgtttcactccccagA Alignment from GeneWise AAGCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG A gattttagaacattgggcagaggaagctttatataacctttccctttaAGGCCAGCGACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTGCAGGCTGGTGGGTCACAACAACCAGCATGCCAAAGTCAGCCTTCACGAGCGACTGTTGATCACATGTCCTGGTGGTTACGGCTCCGGGCCAATGCAGCTACTGTACTACATGTGCTAAGTACAAAACCTCCAGGGgtaagcctcttagttacaagacctaaactccttgtgtttcactccccagA #### Rin1_ID808_3 --> 0 - 1 Original Alignment G ACCTTCCTGGTG-CGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCg GgtaaagctcttagttacaagacctaaacgttgctcttctgtctctgtagACATTTGTTATACTGCAAATACAACACTCGACAGTGCCAGGCTCTGTGTGTACGGT-ACCAGAACCTAGTGGCCCAGCTTTTGTCTCTAGTCACTATATTGAGGAAGGTACTGGTggtgagcaggataataaggggggggtcaagacatgtgtccctaagcacatg Alignment from CESAR G ACCTTCCTGGTGCGG-AAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCg GgtaagcctcttagttacaagacctaaacgttgctcttctgtctctgtagACATTTGTTATACTGCAAATACAACACTCGACAGTGCCAGGCTCTGTGTGTACGG-TACCAGAACCTAGTGGCCCAGCTTTTGTCTCTAGTCACTATATTGAGGAAGGTACTGGTggtgagcaggataataaggggggggtcaagacatgtgtccctaagcacatg Alignment from Spaln_aa2Genome G----- -ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG GGTAAAgctcttagttacaagacctaaacgttgctcttctgtctctgtagACATTTGTTATACTGCAAATACAACACTCGACAGTGCCAGGCTCTGTGTGTACGGTA-CCAGAACCTAGTGGCCCAGCTTTTGTCTCTAGTCACTATATTGAGGAAGGTACTGGTGgtgagcaggataataaggggggggtcaagacatgtgtccctaagcacatg Alignment from Spaln_nt2Genome G ACCTTCCTGGTGCGG-AAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG GgtaaagctcttagttacaagacctaaacgttgctcttctgtctctgtagACATTTGTTATACTGCAAATACAACACTCGACAGTGCCAGGCTCTGTGTGTACGG-TACCAGAACCTAGTGGCCCAGCTTTTGTCTCTAGTCACTATATTGAGGAAGGTACTGGTGgtgagcaggataataaggggggggtcaagacatgtgtccctaagcacatg Alignment from Pairagon CGGAAATCT---------------------------------------------------------------AACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG -GTAAAGCTCTTAGTTACAAGACCTAAACGTTGCTCTTCTGTCTCTGTAGACATTTGTTATACTGCAAATACAACACTCGACAGTGCCAGGCTCTGTGTGTACGG-TACCAGAACCTAGTGGCCCAGCTTTTGTCTCTAGTCACTATATTGAGGAAGGTACTGGTGgtgagcaggataataaggggggggtcaagacatgtgtccctaagcacatg Alignment from Exonerate_protein2genome G ACCTTCCTGGTGCGG-AAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGG--CTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG GgtaaagctcttagttacaagacctaaacgttgctcttctgtctctgtagACATTTGTTATACTGCAAATACAACACTCGACAGTGCCAGGCTCTGTGTGTACGGTA---CCAGAACCTAGTGGCCCAGCTTTTGTCTCTAGTCACTATATTGAGGAAGGTACTGGTGgtgagcaggataataaggggggggtcaagacatgtgtccctaagcacatg Alignment from Exonerate_coding2genome G ACCTTCCTGGTGCGG-AAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGG--CTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG GgtaaagctcttagttacaagacctaaacgttgctcttctgtctctgtagACATTTGTTATACTGCAAATACAACACTCGACAGTGCCAGGCTCTGTGTGTACGGTA---CCAGAACCTAGTGGCCCAGCTTTTGTCTCTAGTCACTATATTGAGGAAGGTACTGGTGgtgagcaggataataaggggggggtcaagacatgtgtccctaagcacatg Alignment from GeneWise GACCTTCCTG------------------------------------------------GTG--CGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG GGTAAAGCTCTTAGTTACAAGACCTAAACGTTGCTCTTCTGTCTCTGTAGACATTTGTTATACTGCAAATACAACACTCGACAGTGCCAGGCTCTGTGTGTACGGTA-CCAGAACCTAGTGGCCCAGCTTTTGTCTCTAGTCACTATATTGAGGAAGGTACTGGTGgtgagcaggataataaggggggggtcaagacatgtgtccctaagcacatg #### Rin1_ID811_6 --> 2 - 1 Original Alignment agTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCT-CGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGg gtagaattacctgtacatactcctccaactttcggggttctggtgttcagagTGCTGGAGCTCTTCTTTGAATACCAAGGACCAACAGAGACCCCCTGAAGCCTCACCAATACCTCAACTAAAAGCTCCGCTCCCCACAGGATCTGGCCCAAGGTTCTGGAGCCGCACTTT-CTTCTTCAACCCTCCCTTATCGGGGGATCTAGGGCCAACCAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTGCTGACACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTCCCAGGTACATCTTCAAGACAAACTGAACGACTACCC---CGGCAGCTACAACAGCGAGAAGGCTCAGTCGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTCCAAGAAGTAGACTGCTGCTCCCCTAGCAGTTCAGAGGAGGAAGGCTCCTCAGGA---CCCACAACCTCACCATGTCTGAGCCGGCCAAGGCAGCGGCAGCCTCTGCTCAGATCTATGAGTTCTGCTTTCTGTTCTTTGCTGATACCAGAACAGCAGGTTGATTGGGCAGCCACGACACTAATGCAGACCCGATGCACAGTTGTGGGTCAACTGGCCCAGGACACCCTTTCACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCGGAGCTGGGGCCAGAAGAACTACTGTTGCCAGAGTGGCTCagtaagccactttggaagtgattccaacataaaatccactggctctgtttc Alignment from CESAR agTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCT-CGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGg gtagaattacctgtacatactcctccaactttcggggttctggtgttcagagTGCTGGAGCTCTTCTTTGAATACCAAGGACCAACAGAGACCCCCTGAAGCCTCACCAATACCTCAACTAAAAGCTCCGCTCCCCACAGGATCTGGCCCAAGGTTCTGGAGCCGCACTT-TCTTCTTCAACCCTCCCTTATCGGGGGATCTAGGGCCAACCAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTGCTGACACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTCCCAGGTACATCTTCAAGACAAACTGAACGACTACCC---CGGCAGCTACAACAGCGAGAAGGCTCAGTCGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTCCAAGAAGTAGACTGCTGCTCCCCTAGCAGTTCAGAGGAGGAAGGCTCCTCAGGA---CCCACAACCTCACCATGTCTGAGCCGGCCAAGGCAGCGGCAGCCTCTGCTCAGATCTATGAGTTCTGCTTTCTGTTCTTTGCTGATACCAGAACAGCAGGTTGATTGGGCAGCCACGACACTAATGCAGACCCGATGCACAGTTGTGGGTCAACTGGCCCAGGACACCCTTTCACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCGGAGCTGGGGCCAGAAGAACTACTGTTGCCAGAGTGGCTCagtaagccactttggaagtgattccaacataaaatccactggcttaaactt Alignment from Spaln_aa2Genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG gtagaattacctgtacatactcctccaactttcggggttctggtgttcagAGTGCTGGAGCTCTTCTTTGAATACCAAGGACCAACAGAGACCCCCTGAAGCCTCACCAATACCTCAACTAAAAGCTCCGCTCCCCACAGGATCTGGCCCAAGGTTCTGGAGCCGCACTTTCTTCTTCAACCCTCCCTTATCGGGGGATCTAGGGCCAACCAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTGCTGACACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTCCCAGGTACATCTTCAAGACAAACTGAACGACTA---CCCCGGCAGCTACAACAGCGAGAAGGCTCAGTCGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTCCAAGAAGTAGACTGCTGCTCCCCTAGCAGTTCAGAGGAGGAAGGCTCCTCAGGA---CCCACAACCTCACCATGTCTGAGCCGGCCAAGGCAGCGGCAGCCTCTGCTCAGATCTATGAGTTCTGCTTTCTGTTCTTTGCTGATACCAGAACAGCAGGTTGATTGGGCAGCCACGACACTAATGCAGACCCGATGCACAGTTGTGGGTCAACTGGCCCAGGACACCCTTTCACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCGGAGCTGGGGCCAGAAGAACTACTGTTGCCAGAGTGGCTCAgtaagccactttggaagtgattccaacataaaatccactggctctgtttc Alignment from Spaln_nt2Genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTC-GCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG gtagaattacctgtacatactcctccaactttcggggttctggtgttcagAGTGCTGGAGCTCTTCTTTGAATACCAAGGACCAACAGAGACCCCCTGAAGCCTCACCAATACCTCAACTAAAAGCTCCGCTCCCCACAGGATCTGGCCCAAGGTTCTGGAGCCGCACT-TTCTTCTTCAACCCTCCCTTATCGGGGGATCTAGGGCCAACCAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTGCTGACACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTCCCAGGTACATCTTCAAGACAAACTGAACGACTACCC---CGGCAGCTACAACAGCGAGAAGGCTCAGTCGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTCCAAGAAGTAGACTGCTGCTCCCCTAGCAGTTCAGAGGAGGAAGGCTCCTCAGGA---CCCACAACCTCACCATGTCTGAGCCGGCCAAGGCAGCGGCAGCCTCTGCTCAGATCTATGAGTTCTGCTTTCTGTTCTTTGCTGATACCAGAACAGCAGGTTGATTGGGCAGCCACGACACTAATGCAGACCCGATGCACAGTTGTGGGTCAACTGGCCCAGGACACCCTTTCACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCGGAGCTGGGGCCAGAAGAACTACTGTTGCCAGAGTGGCTCAgtaagccactttggaagtgattccaacataaaatccactggctctgtttc Alignment from Pairagon AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCT-CGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG gtagaattacctgtacatactcctccaactttcggggttctggtgttcagAGTGCTGGAGCTCTTCTTTGAATACCAAGGACCAACAGAGACCCCCTGAAGCCTCACCAATACCTCAACTAAAAGCTCCGCTCCCCACAGGATCTGGCCCAAGGTTCTGGAGCCGCACTTT-CTTCTTCAACCCTCCCTTATCGGGGGATCTAGGGCCAACCAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTGCTGACACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTCCCAGGTACATCTTCAAGACAAACTGAACGACTACCC---CGGCAGCTACAACAGCGAGAAGGCTCAGTCGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTCCAAGAAGTAGACTGCTGCTCCCCTAGCAGTTCAGAGGAGGAAGGCTCCTCAGGA---CCCACAACCTCACCATGTCTGAGCCGGCCAAGGCAGCGGCAGCCTCTGCTCAGATCTATGAGTTCTGCTTTCTGTTCTTTGCTGATACCAGAACAGCAGGTTGATTGGGCAGCCACGACACTAATGCAGACCCGATGCACAGTTGTGGGTCAACTGGCCCAGGACACCCTTTCACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCGGAGCTGGGGCCAGAAGAACTACTGTTGCCAGAGTGGCTCAgtaagccactttggaagtgattccaacataaaatccactggctctgtttc Alignment from Exonerate_protein2genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG gtagaattacctgtacatactcctccaactttcggggttctggtgttcagAGTGCTGGAGCTCTTCTTTGAATACCAAGGACCAACAGAGACCCCCTGAAGCCTCACCAATACCTCAACTAAAAGCTCCGCTCCCCACAGGATCTGGCCCAAGGTTCTGGAGCCGCACTTTCTTCTTCAACCCTCCCTTATCGGGGGATCTAGGGCCAACCAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTGCTGACACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTCCCAGGTACATCTTCAAGACAAACTGAACGACTA---CCCCGGCAGCTACAACAGCGAGAAGGCTCAGTCGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTCCAAGAAGTAGACTGCTGCTCCCCTAGCAGTTCAGAGGAGGAAGGCTCCTCAGGA---CCCACAACCTCACCATGTCTGAGCCGGCCAAGGCAGCGGCAGCCTCTGCTCAGATCTATGAGTTCTGCTTTCTGTTCTTTGCTGATACCAGAACAGCAGGTTGATTGGGCAGCCACGACACTAATGCAGACCCGATGCACAGTTGTGGGTCAACTGGCCCAGGACACCCTTTCACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCGGAGCTGGGGCCAGAAGAACTACTGTTGCCAGAGTGGCTCAgtaagccactttggaagtgattccaacataaaatccactggctctgtttc Alignment from Exonerate_coding2genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG gtagaattacctgtacatactcctccaactttcggggttctggtgttcagAGTGCTGGAGCTCTTCTTTGAATACCAAGGACCAACAGAGACCCCCTGAAGCCTCACCAATACCTCAACTAAAAGCTCCGCTCCCCACAGGATCTGGCCCAAGGTTCTGGAGCCGCACTTTCTTCTTCAACCCTCCCTTATCGGGGGATCTAGGGCCAACCAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTGCTGACACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTCCCAGGTACATCTTCAAGACAAACTGAACGACTA---CCCCGGCAGCTACAACAGCGAGAAGGCTCAGTCGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTCCAAGAAGTAGACTGCTGCTCCCCTAGCAGTTCAGAGGAGGAAGGCTCCTCAGGA---CCCACAACCTCACCATGTCTGAGCCGGCCAAGGCAGCGGCAGCCTCTGCTCAGATCTATGAGTTCTGCTTTCTGTTCTTTGCTGATACCAGAACAGCAGGTTGATTGGGCAGCCACGACACTAATGCAGACCCGATGCACAGTTGTGGGTCAACTGGCCCAGGACACCCTTTCACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCGGAGCTGGGGCCAGAAGAACTACTGTTGCCAGAGTGGCTCAgtaagccactttggaagtgattccaacataaaatccactggctctgtttc Alignment from GeneWise AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG gtagaattacctgtacatactcctccaactttcggggttctggtgttcagAGTGCTGGAGCTCTTCTTTGAATACCAAGGACCAACAGAGACCCCCTGAAGCCTCACCAATACCTCAACTAAAAGCTCCGCTCCCCACAGGATCTGGCCCAAGGTTCTGGAGCCGCACTTTCTTCTTCAACCCTCCCTTATCGGGGGATCTAGGGCCAACCAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTGCTGACACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTCCCAGGTACATCTTCAAGACAAACTGAACGACTACCC---CGGCAGCTACAACAGCGAGAAGGCTCAGTCGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTCCAAGAAGTAGACTGCTGCTCCCCTAGCAGTTCAGAGGAGGAAGGCTCCTCAGGA---CCCACAACCTCACCATGTCTGAGCCGGCCAAGGCAGCGGCAGCCTCTGCTCAGATCTATGAGTTCTGCTTTCTGTTCTTTGCTGATACCAGAACAGCAGGTTGATTGGGCAGCCACGACACTAATGCAGACCCGATGCACAGTTGTGGGTCAACTGGCCCAGGACACCCTTTCACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCGGAGCTGGGGCCAGAAGAACTACTGTTGCCAGAGTGGCTCAgtaagccactttggaagtgattccaacataaaatccactggctctgtttc #### Rin1_ID813_8 --> 2 - 1 Original Alignment gaGAGAATGCAGGTGCTGAT-GAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTC---ACTGGAGAGg tgactctaaattcaagacctctaacacaacactccgacttttctttctaggaGAAAATACAGGTGCTGATCCAGTTCCTCCCCCTGTTAAGTCTTATTTTGGCACAGT-TGACCTGCCAGACCTCTTATTGGAAGCTGAGTATATGTCAGAGCTTCTTGAACCAACTCTACTCACTGCAGGTGAGggtgagtatcattcttatatagtatgacctggtacttgttataggtcctta Alignment from CESAR gaGAGAATGCAGGTGCTGAT-GAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACT---GGAGAGg tgactctaaattcaagacctctaacacaacactccgacttttctttctaggaGAAAATACAGGTGCTGATCCAGTTCCTCCCCCTGTTAAGTCTTATTTTGGCACAG-TTGACCTGCCAGACCTCTTATTGGAAGCTGAGTATATGTCAGAGCTTCTTGAACCAACTCTACTCACTGCAGGTGAGggtgagtatcattcttatatagtatgacctggtacttgttataggtcctta Alignment from Spaln_aa2Genome GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACT---GGAGAGG tgactctaaattcaagacctctaacacaacactccgacttttctttctagGAGAAAATACAGGTGCTGATCCAGTTCCTCCCCCTGTTAAGTCTTATTTTGGCACAGTTGACCTGCCAGACCTCTTATTGGAAGCTGAGTATATGTCAGAGCTTCTTGAACCAACTCTACTCACTGCAGGTGAGGgtgagtatcattcttatatagtatgacctggtacttgttataggtcctta Alignment from Spaln_nt2Genome GAGAGAATGCAGGTGCTGATG-AGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGAG---AGG tgactctaaattcaagacctctaacacaacactccgacttttctttctagGAGAAAATACAGGTGCTGATCCAGTTCCTCCCCCTGTTAAGTCTTATTTTGGCACAGT-TGACCTGCCAGACCTCTTATTGGAAGCTGAGTATATGTCAGAGCTTCTTGAACCAACTCTACTCACTGCAGGTGAGGgtgagtatcattcttatatagtatgacctggtacttgttataggtcctta Alignment from Pairagon GAGAGAATGCAGGTGCTGAT-GAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGA---GAGG tgactctaaattcaagacctctaacacaacactccgacttttctttctagGAGAAAATACAGGTGCTGATCCAGTTCCTCCCCCTGTTAAGTCTTATTTTGGCACAGT-TGACCTGCCAGACCTCTTATTGGAAGCTGAGTATATGTCAGAGCTTCTTGAACCAACTCTACTCACTGCAGGTGAGGgtgagtatcattcttatatagtatgacctggtacttgttataggtcctta Alignment from Exonerate_protein2genome GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACT---GGAGAGG tgactctaaattcaagacctctaacacaacactccgacttttctttctagGAGAAAATACAGGTGCTGATCCAGTTCCTCCCCCTGTTAAGTCTTATTTTGGCACAGTTGACCTGCCAGACCTCTTATTGGAAGCTGAGTATATGTCAGAGCTTCTTGAACCAACTCTACTCACTGCAGGTGAGGgtgagtatcattcttatatagtatgacctggtacttgttataggtcctta Alignment from Exonerate_coding2genome GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACT---GGAGAGG tgactctaaattcaagacctctaacacaacactccgacttttctttctagGAGAAAATACAGGTGCTGATCCAGTTCCTCCCCCTGTTAAGTCTTATTTTGGCACAGTTGACCTGCCAGACCTCTTATTGGAAGCTGAGTATATGTCAGAGCTTCTTGAACCAACTCTACTCACTGCAGGTGAGGgtgagtatcattcttatatagtatgacctggtacttgttataggtcctta Alignment from GeneWise GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACT---GGAGAGG tgactctaaattcaagacctctaacacaacactccgacttttctttctagGAGAAAATACAGGTGCTGATCCAGTTCCTCCCCCTGTTAAGTCTTATTTTGGCACAGTTGACCTGCCAGACCTCTTATTGGAAGCTGAGTATATGTCAGAGCTTCTTGAACCAACTCTACTCACTGCAGGTGAGGgtgagtatcattcttatatagtatgacctggtacttgttataggtcctta #### Rnaseh2c_ID1104_3 --> 0 - 0 Original Alignment GACCGCCTTATCGGGGCCACC-GGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG gtacaagtgtatccaactaatgtacaaatgctttaccactctctatctagGACCGCCTTATCGGGGCCACTCGGGAGCTTCAGCCATTTCACCTTGTGGGATC-GGAAACAGTCCCAGGTCCGGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTTGCGGCAGCAgtgaggagactgaagaaacttgcccccaagggctcataattcctttcacc Alignment from CESAR GACCGCCTTATCGGGGCCACC-GGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG gtacaagtgtatccaactaatgtacaaatgctttaccactctctatctagGACCGCCTTATCGGGGCCACTCGGGAGCTTCAGCCATTTCACCTTGTGGGAT-CGGAAACAGTCCCAGGTCCGGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTTGCGGCAGCAgtgaggagactgaagaaacttgcccccaagggctcataattcctttcacc Alignment from Spaln_aa2Genome GACCGCCTTATCGGGGCCACCGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG gtacaagtgtatccaactaatgtacaaatgctttaccactctctatctagGACCGCCTTATCGGGGCCACTCGGGAGCTTCAGCCATTTCACCTTGTGGGATCGGAAACAGTCCCAGGTCCGGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTTGCGGCAGCAgtgaggagactgaagaaacttgcccccaagggctcataattcctttcacc Alignment from Spaln_nt2Genome GACCGCCTTATCGGGGCCAC-CGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG gtacaagtgtatccaactaatgtacaaatgctttaccactctctatctagGACCGCCTTATCGGGGCCACTCGGGAGCTTCAGCCATTTCACCTTGTGGGATC-GGAAACAGTCCCAGGTCCGGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTTGCGGCAGCAgtgaggagactgaagaaacttgcccccaagggctcataattcctttcacc Alignment from Pairagon GACCGCCTTATCGGGGCCAC-CGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG gtacaagtgtatccaactaatgtacaaatgctttaccactctctatctagGACCGCCTTATCGGGGCCACTCGGGAGCTTCAGCCATTTCACCTTGTGGGATC-GGAAACAGTCCCAGGTCCGGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTTGCGGCAGCAgtgaggagactgaagaaacttgcccccaagggctcataattcctttcacc Alignment from Exonerate_protein2genome gtacaagtgtatccaactaatgtacaaatgctttaccactctctatctaggaccgccttatcggggccactcgggagcttcagccatttcaccttgtgggatcggaaacagtcccaggtccggatgccatagtgcatagggccctaggatggcccacccttgcggcagcagtgaggagactgaagaaacttgcccccaagggctcataattcctttcacc Alignment from Exonerate_coding2genome CTTCGACCGCCTTATCGGGGCCAC-CGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCGATT gtacaagtgtatccaactaatgtacaaatgctttaccactctctatCTAGGACCGCCTTATCGGGGCCACTCGGGAGCTTCAGCCATTTCACCTTGTGGGATCG-GAAACAGTCCCAGGTCCGGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTTGCGGCAGCAGTGaggagactgaagaaacttgcccccaagggctcataattcctttcacc Alignment from GeneWise GACCGCCTTATCGGGGCCACCGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCGATTCACGCCCAGGTCCCTGAGGAC gtacaagtgtatccaactaatgtacaaatgctttaccactctctatctagGACCGCCTTATCGGGGCCACTCGGGAGCTTCAGCCATTTCACCTTGTGGGATCGGAAACAGTCCCAGGTCCGGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTTGCGGCAGCAGTGAGGAGACTGAAGAAACTTGCCcccaagggctcataattcctttcacc #### Rom1_ID2497_2 --> 1 - 0 Original Alignment cCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTG-GAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ttgtataactgctgacaagatcttattggaacaagtgccttgctccttagtCACATTCCCAGCAATATAGAAGGATTATACCTGATTGATGGTGTTCCGTTCTCCTGCTGTAATCCCCACTCACGA------TGCTTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCCCTTCTC---CCTCAGCAGCCAAATCTAAACCTGTGGTCCCAGGGATGCCACAAAGTGCTGTTCCGAACGCCTGCAAGGATTATCTGGAACATTGGGGA-AATTCTGGTGATTACTTTATTGTTGCAGgttagtcatcaaaattccatgttcctcatcaagatctctaacctctgtag Alignment from CESAR cCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTG-GAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ttgtataactgctgacaagatcttattggaacaagtgccttgctccttagtCACATTCCCAGCAATATAGAAGGATTATACCTGATTGATGGTGTTCCGTTCTCCTGCTGTAATCCCCACTCA---CGA---TGCTTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCCCTTCTC---CCTCAGCAGCCAAATCTAAACCTGTGGTCCCAGGGATGCCACAAAGTGCTGTTCCGAACGCCTGCAAGGATTATCTGGAACATTGGGG-AAATTCTGGTGATTACTTTATTGTTGCAGgttagtcatcaaaattccatgttcctcatcaagatctctaacctctgtag Alignment from Spaln_aa2Genome CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ttgtataactgctgacaagatcttattggaacaagtgccttgctccttagTCACATTCCCAGCAATATAGAAGGATTATACCTGATTGATGGTGTTCCGTTCTCCTGCTGTAATCCCCACTCA------CGATGCTTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCCCTTCTC---CCTCAGCAGCCAAATCTAAACCTGTGGTCCCAGGGATGCCACAAAGTGCTGTTCCGAACGCCTGCAAGGATTATCTGGAACATTGGGGAAATTCTGGTGATTACTTTATTGTTGCAGgttagtcatcaaaattccatgttcctcatcaagatctctaacctctgtag Alignment from Spaln_nt2Genome CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTG-GAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ttgtataactgctgacaagatcttattggaacaagtgccttgctccttagTCACATTCCCAGCAATATAGAAGGATTATACCTGATTGATGGTGTTCCGTTCTCCTGCTGTAATCCCCACTCA------CGATGCTTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCCCTTCTC---CCTCAGCAGCCAAATCTAAACCTGTGGTCCCAGGGATGCCACAAAGTGCTGTTCCGAACGCCTGCAAGGATTATCTGGAACATTGGGGA-AATTCTGGTGATTACTTTATTGTTGCAGgttagtcatcaaaattccatgttcctcatcaagatctctaacctctgtag Alignment from Pairagon CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCT-GGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ttgtataactgctgacaagatcttattggaacaagtgccttgctccttagtcacattcccag------------CAATATAGAAGGATTATACCTGATTGATGGTGTTCCGTTCTCCTGCTGTAATCCCCACTCACGA------TGCTTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCCCTTCTC---CCTCAGCAGCCAAATCTAAACCTGTGGTCCCAGGGATGCCACAAAGTGCTGTTCCGAACGCCTGCAAGGATTATCTGGAACATTGGGGAA-ATTCTGGTGATTACTTTATTGTTGCAGgttagtcatcaaaattccatgttcctcatcaagatctctaacctctgtag Alignment from Exonerate_protein2genome CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ttgtataactgctgacaagatcttattggaacaagtgccttgctccttagTCACATTCCCAGCAATATAGAAGGATTATACCTGATTGATGGTGTTCCGTTCTCCTGCTGTAATCCCCACTCA------CGATGCTTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCCCTTCTC---CCTCAGCAGCCAAATCTAAACCTGTGGTCCCAGGGATGCCACAAAGTGCTGTTCCGAACGCCTGCAAGGATTATCTGGAACATTGGGGAAATTCTGGTGATTACTTTATTGTTGCAGgttagtcatcaaaattccatgttcctcatcaagatctctaacctctgtag Alignment from Exonerate_coding2genome CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ttgtataactgctgacaagatcttattggaacaagtgccttgctccttagTCACATTCCCAGCAATATAGAAGGATTATACCTGATTGATGGTGTTCCGTTCTCCTGCTGTAATCCCCACTCA------CGATGCTTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCCCTTCTC---CCTCAGCAGCCAAATCTAAACCTGTGGTCCCAGGGATGCCACAAAGTGCTGTTCCGAACGCCTGCAAGGATTATCTGGAACATTGGGGAAATTCTGGTGATTACTTTATTGTTGCAGgttagtcatcaaaattccatgttcctcatcaagatctctaacctctgtag Alignment from GeneWise CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ttgtataactgctgacaagatcttattggaacaagtgccttgctccttagTCACATTCCCAGCAATATAGAAGGATTATACCTGATTGATGGTGTTCCGTTCTCCTGCTGTAATCCCCACTCACGA------TGCTTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCCCTTCTC---CCTCAGCAGCCAAATCTAAACCTGTGGTCCCAGGGATGCCACAAAGTGCTGTTCCGAACGCCTGCAAGGATTATCTGGAACATTGGGGAAATTCTGGTGATTACTTTATTGTTGCAGgttagtcatcaaaattccatgttcctcatcaagatctctaacctctgtag #### Rps6kb2_ID368_14 --> 0 - 2 Original Alignment GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGC-ATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCag agacggggtcgtgccacctggctttactctaactctctcttcctctctagAGTTTTATGTATGTGGCACCTTTTGTCCTAGACAGCCATCAAAGAAGGTTTTTCATTCCAGCCCAAGCTGCGTTCCCCAC-ATGCCTTAACAGTAGTCCCCGCACACCCATCaggtaagtggcagggcagataattccaaacatgcaccactactcagcagaga Alignment from CESAR GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGC-ATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCag agacggggtcgtgccacctggctttactctaactctctcttcctctctagAGTTTTATGTATGTGGCACCTTTTGTCCTAGACAGCCATCAAAGAAGGTTTTTCATTCCAGCCCAAGCTGCGTTCCCCA-CATGCCTTAACAGTAGTCCCCGCACACCCATCaggtaagtggcagggcagataattccaaacatgcaccactactcagcagaga Alignment from Spaln_aa2Genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGC-ATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAG agacggggtcgtgccacctggctttactctaactctctcttcctctctagAGTTTTATGTATGTGGCACCTTTTGTCCTAGACAGCcATCAAAGAAGGTTTTTCATTCCAGCCCAAGCTGCGTTCCCCACATGC-CTTAACAGTAGTCCCCGCACACCCATCAGgtaagtggcagggcagataattccaaacatgcaccactactcagcagaga Alignment from Spaln_nt2Genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGC-ATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAG agacggggtcgtgccacctggctttactctaactctctcttcctctctagAGTTTTATGTATGTGGCACCTTTTGTCCTAGACAGCCATCAAAGAAGGTTTTTCATTCCAGCCCAAGCTGCGTTC-CCCACATGCCTTAACAGTAGTCCCCGCACACCCATCAGgtaagtggcagggcagataattccaaacatgcaccactactcagcagaga Alignment from Pairagon -------------------------------------------------GGGCTTTACATATGTGGCACCTTCTGTCCTGGACAG-CATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAG AGACGGGGTCGTGCCACCTGGCTTTACTCTAACTCTCTCTTCCTCTCTAGAGTTTTATGTATGTGGCACCTTTTGTCCTAGACAGCCATCAAAGAAGGTTTTTCATTCCAGCCCAAGCTGCGTTC-CCCACATGCCTTAACAGTAGTCCCCGCACACCCATCAGgtaagtggcagggcagataattccaaacatgcaccactactcagcagaga Alignment from Exonerate_protein2genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGC-ATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGA--CGCCTTAACAGCAGTCCCCGCACCCCCATCAG agacggggtcgtgccacctggctttactctaactctctcttcctctctagAGTTTTATGTATGTGGCACCTTTTGTCCTAGACAGCCATCAAAGAAGGTTTTTCATTCCAGCCCAAGCTGCGTTCCCCACATGC---CTTAACAGTAGTCCCCGCACACCCATCAGgtaagtggcagggcagataattccaaacatgcaccactactcagcagaga Alignment from Exonerate_coding2genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGC-ATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGA--CGCCTTAACAGCAGTCCCCGCACCCCCATCAG agacggggtcgtgccacctggctttactctaactctctcttcctctctagAGTTTTATGTATGTGGCACCTTTTGTCCTAGACAGCCATCAAAGAAGGTTTTTCATTCCAGCCCAAGCTGCGTTCCCCACATGC---CTTAACAGTAGTCCCCGCACACCCATCAGgtaagtggcagggcagataattccaaacatgcaccactactcagcagaga Alignment from GeneWise GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAG agacggggtcgtgccacctggctttactctaactctctcttcctctctagAGTTTTATGTATGTGGCACCTTTTGTCCTAGACAGCCATCAAAGAAGGTTTTTCATTCCAGCCCAAGCTGCGTTCCCCACATGCCTTAACAGTAGTCCCCGCACACCCATCAGgtaagtggcagggcagataattccaaacatgcaccactactcagcagaga #### Rps6kb2_ID373_9 --> 1 - 0 Original Alignment gGCCCCAGAGATTCTAGTGCGCACTGGTCACAACCGGGCA-GTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG agggataccccaaacggggctacaactgcacatttctctatattttacaggGTGCCAGAGATTCTGTTGCGCACAGGTCATAATCGGGCACGTGGATTGGTGGAGCCTTGGGGCTCTAATGT-TGACATGCTCACTGAATCAgtaatacccttccactaggtgatactggtattggagcgcaactgcattga Alignment from CESAR gGCCCCAGAGATTCTAGTGCGCACTGGTCACAACCGGGCA-GTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG agggataccccaaacggggctacaactgcacatttctctatattttacaggGTGCCAGAGATTCTGTTGCGCACAGGTCATAATCGGGCACGTGGATTGGTGGAGCCTTGGGGCTCTAATG-TTGACATGCTCACTGAATCAgtaatacccttccactaggtgatactggtattggagcgcaactgcattga Alignment from Spaln_aa2Genome GGCCCCAGAGATTCTAGTGCGCACTGGTCACAACCGGGCA-GTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG agggataccccaaacggggctacaactgcacatttctctatattttacagGGTGCCAGAGATTCTGTTGCGCACAGGTCATAATCGGGCAcGTGGATTGGTGGAGCCTTGGGGCTCTAATGTT-GACATGCTCACTGAATCAgtaatacccttccactaggtgatactggtattggagcgcaactgcattga Alignment from Spaln_nt2Genome GGCCCCAGAGATTCTAGTGCGCACTGGTCACAACCGGGCA-GTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG agggataccccaaacggggctacaactgcacatttctctatattttacagGGTGCCAGAGATTCTGTTGCGCACAGGTCATAATCGGGCACGTGGATTGGTGGAGCCTTGGGGCTCTAATGT-TGACATGCTCACTGAATCAgtaatacccttccactaggtgatactggtattggagcgcaactgcattga Alignment from Pairagon GGCCCCAGAGATTCTAGTGCGCACTGGTCACAACCGGGCA-GTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG agggataccccaaacggggctacaactgcacatttctctatattttacagGGTGCCAGAGATTCTGTTGCGCACAGGTCATAATCGGGCACGTGGATTGGTGGAGCCTTGGGGCTCTAATGT-TGACATGCTCACTGAATCAgtaatacccttccactaggtgatactggtattggagcgcaactgcattga Alignment from Exonerate_protein2genome GGCCCCAGAGATTCTAGTGCGCACTGGTCACAACCGGGCA-GTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG agggataccccaaacggggctacaactgcacatttctctatattttacagGGTGCCAGAGATTCTGTTGCGCACAGGTCATAATCGGGCACGTGGATTGGTGGAGCCTTGGGGCTCTAATGTTGACATGCTCACTGAATCAGtaatacccttccactaggtgatactggtattggagcgcaactgcattga Alignment from Exonerate_coding2genome GGCCCCAGAGATTCTAGTGCGCACTGGTCACAACCGGGCA-GTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG agggataccccaaacggggctacaactgcacatttctctatattttacagGGTGCCAGAGATTCTGTTGCGCACAGGTCATAATCGGGCACGTGGATTGGTGGAGCCTTGGGGCTCTAATGTTGACATGCTCACTGAATCAGtaatacccttccactaggtgatactggtattggagcgcaactgcattga Alignment from GeneWise GGCCCCAGAGATTCTAGTGCGCACTGGTCACAACCGGGCAGTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG agggataccccaaacggggctacaactgcacatttctctatattttacagGGTGCCAGAGATTCTGTTGCGCACAGGTCATAATCGGGCACGTGGATTGGTGGAGCCTTGGGGCTCTAATGTTGACATGCTCACTGAATCAgtaatacccttccactaggtgatactggtattggagcgcaactgcattga #### Rrp12_ID8295_28 --> 1 - 1 Original Alignment cATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGC-CGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTg gtaagttagggcagggttgcgtcctattctcacacgaccctcggccacagcATTGAGGAAATTTCAGCTGACTCAAAGGATGAGTTTGAGGAAGAACAAAGAGGCCGAGGCAAAGAGCAA------TTGGTC------AGGAGCCCGATCATGG---AAGGATGGAGGTGGT---GCAC-TCTCAATTTC------CCAAAAGTAGCACATCGTATCCAGggtgggaaggggtaaggatgccctactttgctcggggggtcaagggttagg Alignment from CESAR cATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGC-CGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTg gtaagttagggcagggttgcgtcctattctcacacgaccctcggccacagcATTGAGGAAATTTCAGCTGACTCAAAGGATGAGTTTGAGGAAGAACAAAGAGGCCGAGGCAAAGAGCAA------TTGGTC------AGGAGCCCGATCATGG---AAGGATGGAGGTGGT----GCACTCTCAATTTC------CCAAAAGTAGCACATCGTATCCAGggtgggaaggggtaaggatgccctactttgctcggggggtcaagggttagg Alignment from Spaln_aa2Genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG gtaagttagggcagggttgcgtcctattctcacacgaccctcggccacagCATTGAGGAAATTTCAGCTGACTCAAAGGATGAGTTTGAGGAAGAACAAAGAGGCCGAGGCAAAGAGCAA------TTGGTCAGGAGCCCG------------ATCATGGAAGGATGGAGGTGGTGCACTCTCAATTTC------CCAAAAGTAGCACATCGTATCCAGGgtgggaaggggtaaggatgccctactttgctcggggggtcaagggttagg Alignment from Spaln_nt2Genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG gtaagttagggcagggttgcgtcctattctcacacgaccctcggccacagCATTGAGGAAATTTCAGCTGACTCAAAGGATGAGTTTGAGGAAGAACAAAGAGGCCGAGGCAAAGAGC------AATTGG------TCAGGAGCCCG--ATCATGGAAGGATGGAGGTGGTG----CACTCTCAATTTC------CCAAAAGTAGCACATCGTATCCAGGgtgggaaggggtaaggatgccctactttgctcggggggtcaagggttagg Alignment from Pairagon CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG gtaagttagggcagggttgcgtcctattctcacacgaccctcggccacagCATTGAGGAAATTTCAGCTGACTCAAAGGATGAGTTTGAGGAAGAACAAAGAGGCCGAGGCAAAGAGCAA-------------------------------------------------------------------------------------------------TTGgtcaggagcccgatcatggaaggatggaggtggtgcactctcaatttcccaaaagtagcacatcgtatccagggtgggaaggggtaaggatgccctactttgctcggggggtcaagggttagg Alignment from Exonerate_protein2genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGA GCAGCGGAAGCTGGCA gtaagttagggcagggttgcgtcctattctcacacgaccctcggccacagCATTGAGGAAATTTCAGCTGACTCAAAGGATGAGTTTGAGGAAGAACAAAGAGGCCGAGGCAAAGAgcaattggtcaggagcccgatcatggaaggatggaggtggtgcactctcaatttcccaaaagtagcacatcgtatccagggtgggaaggggtaaggatgccctactttgctcggGGGGTCAAGGGTTAGG Alignment from Exonerate_coding2genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGA GCAGCGGAAGCTGGCA gtaagttagggcagggttgcgtcctattctcacacgaccctcggccacagCATTGAGGAAATTTCAGCTGACTCAAAGGATGAGTTTGAGGAAGAACAAAGAGGCCGAGGCAAAGAgcaattggtcaggagcccgatcatggaaggatggaggtggtgcactctcaatttcccaaaagtagcacatcgtatccagggtgggaaggggtaaggatgccctactttgctcggGGGGTCAAGGGTTAGG Alignment from GeneWise CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG gtaagttagggcagggttgcgtcctattctcacacgaccctcggccacagCATTGAGGAAATTTCAGCTGACTCAAAGGATGAGTTTGAGGAAGAACAAAGAGGCCGAGGCAAAGAG------------------CAATTGGTCAGGAGCCCGATCATGGAAGGATGGAGGTGGTGCACTCTCAATTTC------CCAAAAGTAGCACATCGTATCCAGGgtgggaaggggtaaggatgccctactttgctcggggggtcaagggttagg #### Rrp12_ID8296_27 --> 1 - 2 Original Alignment aTTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTG-ATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACag atgctatgcagacatccacccttggtgactgccggctctcttcctctcaggTATGAATCAGTCAAGGGACTGTTACCTGCAGAGTACCACAAAGTACTACATAAATATGAGGAAAGCAGAGACCCGGGCAAAGA-ATATAAGGCCTTGAGTCAAGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCTTTGCAAAGCAAAGGTGACaggtacggccaattcgcacctcagcaattagtaagttagggcagggttgcgt Alignment from CESAR aTTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTG-ATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACag atgctatgcagacatccacccttggtgactgccggctctcttcctctcaggTATGAATCAGTCAAGGGACTGTTACCTGCAGAGTACCACAAAGTACTACATAAATATGAGGAAAGCAGAGACCCGGGCAAAG-AATATAAGGCCTTGAGTCAAGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCTTTGCAAAGCAAAGGTGACaggtacggccaattcgcacctcagcaattagtaagttagggcagggttgcgt Alignment from Spaln_aa2Genome ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG atgctatgcagacatccacccttggtgactgccggctctcttcctctcagGTATGAATCAGTCAAGGGACTGTTACCTGCAGAGTACCACAAAGTACTACATAAATATGAGGAAAGCAGAGACCCGGGCAAAGAATATAAGGCCTTGAGTCAAGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCTTTGCAAAGCAAAGGTGACAGgtacggccaattcgcacctcagcaattagtaagttagggcagggttgcgt Alignment from Spaln_nt2Genome ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTG-ATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG atgctatgcagacatccacccttggtgactgccggctctcttcctctcagGTATGAATCAGTCAAGGGACTGTTACCTGCAGAGTACCACAAAGTACTACATAAATATGAGGAAAGCAGAGACCCGGGCAAAGAA-TATAAGGCCTTGAGTCAAGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCTTTGCAAAGCAAAGGTGACAGgtacggccaattcgcacctcagcaattagtaagttagggcagggttgcgt Alignment from Pairagon ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTG-ATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG atgctatgcagacatccacccttggtgactgccggctctcttcctctcagGTATGAATCAGTCAAGGGACTGTTACCTGCAGAGTACCACAAAGTACTACATAAATATGAGGAAAGCAGAGACCCGGGCAAAGAA-TATAAGGCCTTGAGTCAAGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCTTTGCAAAGCAAAGGTGACAGgtacggccaattcgcacctcagcaattagtaagttagggcagggttgcgt Alignment from Exonerate_protein2genome ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG atgctatgcagacatccacccttggtgactgccggctctcttcctctcagGTATGAATCAGTCAAGGGACTGTTACCTGCAGAGTACCACAAAGTACTACATAAATATGAGGAAAGCAGAGACCCGGGCAAAGAATATAAGGCCTTGAGTCAAGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCTTTGCAAAGCAAAGGTGACAGgtacggccaattcgcacctcagcaattagtaagttagggcagggttgcgt Alignment from Exonerate_coding2genome ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGAC atgctatgcagacatccacccttggtgactgccggctctcttcctctcagGTATGAATCAGTCAAGGGACTGTTACCTGCAGAGTACCACAAAGTACTACATAAATATGAGGAAAGCAGAGACCCGGGCAAAGAATATAAGGCCTTGAGTCAAGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCTTTGCAAAGCAAAGGTGACaggtacggccaattcgcacctcagcaattagtaagttagggcagggttgcgt Alignment from GeneWise ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG atgctatgcagacatccacccttggtgactgccggctctcttcctctcagGTATGAATCAGTCAAGGGACTGTTACCTGCAGAGTACCACAAAGTACTACATAAATATGAGGAAAGCAGAGACCCGGGCAAAGAATATAAGGCCTTGAGTCAAGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCTTTGCAAAGCAAAGGTGACAGgtacggccaattcgcacctcagcaattagtaagttagggcagggttgcgt #### Rrp12_ID8297_26 --> 0 - 2 Original Alignment ATGGAAGCCATTGGGAAGTTGTCAGATGACATGCGA-CGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTTgg taatgatggatgacctaggtggataatgaaaaacatctgcttttttccagATGGAAGCAATAGGGAAACTGTCAGATGACATGCAACCGGCACTTCCGGATGAAACTCCAGAATCTGTTCATCA-GTTCACACGCAAGTTTgggtgggtcaaaagtagagggagaatggaacatggtgtatttgcagggtcct Alignment from CESAR ATGGAAGCCATTGGGAAGTTGTCAGATGACATGCGA-CGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTTgg taatgatggatgacctaggtggataatgaaaaacatctgcttttttccagATGGAAGCAATAGGGAAACTGTCAGATGACATGCAACCGGCACTTCCGGATGAAACTCCAGAATCTGTTCA-TCAGTTCACACGCAAGTTTgggtgggtcaaaagtagagggagaatggaacatggtgtatttgcagggtcct Alignment from Spaln_aa2Genome ATGGAAGCCATTGGGAAGTTGTCAGATGACATGCGACGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTTGG taatgatggatgacctaggtggataatgaaaaacatctgcttttttccagATGGAAGCAATAGGGAAACTGTCAGATGACATGCAACCGGCACTTCCGGATGAAACTCCAGAATCTGTTCATCAGTTCACACGCAAGTTTGGgtgggtcaaaagtagagggagaatggaacatggtgtatttgcagggtcct Alignment from Spaln_nt2Genome ATGGAAGCCATTGGGAAGTTGTCAGATGACATGCGAC-GGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTTGG taatgatggatgacctaggtggataatgaaaaacatctgcttttttccagATGGAAGCAATAGGGAAACTGTCAGATGACATGCAACCGGCACTTCCGGATGAAACTCCAGAATCTGTTCATCA-GTTCACACGCAAGTTTGGgtgggtcaaaagtagagggagaatggaacatggtgtatttgcagggtcct Alignment from Pairagon ATGGAAGCCATTGGGAAGTTGTCAGATGACATGCGA-CGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTTGG taatgatggatgacctaggtggataatgaaaaacatctgcttttttccagATGGAAGCAATAGGGAAACTGTCAGATGACATGCAACCGGCACTTCCGGATGAAACTCCAGAATCTGTTCATC-AGTTCACACGCAAGTTTGGgtgggtcaaaagtagagggagaatggaacatggtgtatttgcagggtcct Alignment from Exonerate_protein2genome ATGGAAGCCATTGGGAAGTTGTCAGATGACATGCGA-CGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATC--AAGTTCACCCGCAAGTTTGG taatgatggatgacctaggtggataatgaaaaacatctgcttttttccagATGGAAGCAATAGGGAAACTGTCAGATGACATGCAACCGGCACTTCCGGATGAAACTCCAGAATCTGTTCATCAG---TTCACACGCAAGTTTGGgtgggtcaaaagtagagggagaatggaacatggtgtatttgcagggtcct Alignment from Exonerate_coding2genome ATGGAAGCCATTGGGAAGTTGTCAGATGACATGCGA-CGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATC--AAGTTCACCCGCAAGTTTGG taatgatggatgacctaggtggataatgaaaaacatctgcttttttccagATGGAAGCAATAGGGAAACTGTCAGATGACATGCAACCGGCACTTCCGGATGAAACTCCAGAATCTGTTCATCAG---TTCACACGCAAGTTTGGgtgggtcaaaagtagagggagaatggaacatggtgtatttgcagggtcct Alignment from GeneWise ATGGAAGCCATTGGGAAGTTGTCAGATGACATG-CGACGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTTGGA-- taatgatggatgacctaggtggataatgaaaaacatctgcttttttccagATGGAAGCAATAGGGAAACTGTCAGATGACATGCAACCGGCACTTCCGGATGAAACTCCAGAATCTGTTCATCAGTTCACACGCAAGTTTGGGTGGgtcaaaagtagagggagaatggaacatggtgtatttgcagggtcct #### Rrp12_ID8308_15 --> 1 - 1 Original Alignment gGAGACTCTGGATTTCCCACGGAGC-TGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAg aaccaaaacatcgactgagctaactacaggatgccccttcccacctgcaggGAAAATTTGGACTTT---CAGAGCCTGGTTGTTGTCTGTCATCCGGGATTATGTCCAGGAAACCC-GCTTGGCTTCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAggtaagcaggtcttatctttataagatacaggtcacagaaggaatatcagc Alignment from CESAR gGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAg aaccaaaacatcgactgagctaactacaggatgccccttcccacctgcaggGAAAATTTGGACTTTC--AGAGCCTGGTTGTTGTCTGTCATCCGGGATTATGTCCAGGAAACCC-GCTTGGCTTCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAggtaagcaggtcttatctttataagatacaggtcacagaaggaatatcagc Alignment from Spaln_aa2Genome GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG aaccaaaacatcgactgagctaactacaggatgccccttcccacctgcagGGAAAATTTGGACTTTC--AGAGCCTGGTTGTTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGCTT-GGCTTCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtaagcaggtcttatctttataagatacaggtcacagaaggaatatcagc Alignment from Spaln_nt2Genome GGAGACTCTGGATTTCCCACGGAGC-TGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG aaccaaaacatcgactgagctaactacaggatgccccttcccacctgcagGGAAAATTTGGACTT---TCAGAGCCTGGTTGTTGTCTGTCATCCGGGATTATGTCCAGGAAACCC-GCTTGGCTTCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtaagcaggtcttatctttataagatacaggtcacagaaggaatatcagc Alignment from Pairagon GGAGACTCTGGATTTCCCACGGAG---CTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG aaccaaaacatcgactgagctaactacaggatgccccttcccacctgcagGGAAAATTTGGACTTTC-----AGAGCCTGGTTGTTGTCTGTCATCCGGGATTATGTCCAGGAAACCC-GCTTGGCTTCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtaagcaggtcttatctttataagatacaggtcacagaaggaatatcagc Alignment from Exonerate_protein2genome GGAGACTCTGGAT-TTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGG--CTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG aaccaaaacatcgactgagctaactacaggatgccccttcccacctgcagGGAAAATTTGGACTTTC---AGAGCCTGGTTGTTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGCTT---GGCTTCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtaagcaggtcttatctttataagatacaggtcacagaaggaatatcagc Alignment from Exonerate_coding2genome GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAGCAATGGACCTGGCTCAGGCAGGCAGCACAGTGGAGTCGAAGATTTATGAT aaccaaaacatcgactgagctaactacaggatgccccttcccacctgcagGGAAAATTTGGACTTT--CAGAGCCTGGTTGTTGTCTGTCATCCGGGATTATGTCCAGGAAACCCG-CTTGGCTTCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGGTAAGCAGGTCTTATCTTTATAAGATACAGGTCACAGAAGGAATATCAGC Alignment from GeneWise GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG aaccaaaacatcgactgagctaactacaggatgccccttcccacctgcagGGAAAATTTGGACTTTC--AGAGCCTGGTTGTTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGCTT-GGCTTCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtaagcaggtcttatctttataagatacaggtcacagaaggaatatcagc #### Sart1_ID956_19 --> 0 - 2 Original Alignment CTCCTGAAGAAAATGAGCTCCAGTGACACG-CCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATgc ctgatatgccaaaattggcagcactgacaatgtaatttccatttttatagCTTCGTAAGAAGATGAGCTCTAGTGATACACCCCCTGGGAACAGTGGCATTGCTCCAGGAGAAGC-GAAGGCCCAAAAGACACCTCAGATTGTACTCAGTGGCAGTGGCAAGAGCATGAATgcgtgaggaggtaggagttgtcagcttggactggtatgctgaacacaattat Alignment from CESAR CTCCTGAAGAAAATGAGCTCCAGTGACACG-CCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATgc ctgatatgccaaaattggcagcactgacaatgtaatttccatttttatagCTTCGTAAGAAGATGAGCTCTAGTGATACACCCCCTGGGAACAGTGGCATTGCTCCAGGAGAAG-CGAAGGCCCAAAAGACACCTCAGATTGTACTCAGTGGCAGTGGCAAGAGCATGAATgcgtgaggaggtaggagttgtcagcttggactggtatgctgaacacaattat Alignment from Spaln_aa2Genome CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGC ctgatatgccaaaattggcagcactgacaatgtaatttccatttttatagCTTCGTAAGAAGATGAGCTCTAGTGATACACCCCCTGGGAACAGTGGCATTGCTCCAGGAGAAGCGAAGGCCCAAAAGACACCTCAGATTGTACTCAGTGGCAGTGGCAAGAGCATGAATGCgtgaggaggtaggagttgtcagcttggactggtatgctgaacacaattat Alignment from Spaln_nt2Genome CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCC-TGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGC ctgatatgccaaaattggcagcactgacaatgtaatttccatttttatagCTTCGTAAGAAGATGAGCTCTAGTGATACACCCCCTGGGAACAGTGGCATTGCTCCAGGAGAAGC-GAAGGCCCAAAAGACACCTCAGATTGTACTCAGTGGCAGTGGCAAGAGCATGAATGCgtgaggaggtaggagttgtcagcttggactggtatgctgaacacaattat Alignment from Pairagon CTCCTGAAGAAAATGAGCTCCAGTGACACG-CCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGC ctgatatgccaaaattggcagcactgacaatgtaatttccatttttatagCTTCGTAAGAAGATGAGCTCTAGTGATACACCCCCTGGGAACAGTGGCATTGCTCCAGGAGAAGC-GAAGGCCCAAAAGACACCTCAGATTGTACTCAGTGGCAGTGGCAAGAGCATGAATGCgtgaggaggtaggagttgtcagcttggactggtatgctgaacacaattat Alignment from Exonerate_protein2genome CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGCG ctgatatgccaaaattggcagcactgacaatgtaatttccatttttatagCTTCGTAAGAAGATGAGCTCTAGTGATACACCCCCTGGGAACAGTGGCATTGCTCCAGGAGAAGCGAAGGCCCAAAAGACACCTCAGATTGTACTCAGTGGCAGTGGCAAGAGCATGAATGCGtgaggaggtaggagttgtcagcttggactggtatgctgaacacaattat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGCG ctgatatgccaaaattggcagcactgacaatgtaatttccatttttatagCTTCGTAAGAAGATGAGCTCTAGTGATACACCCCCTGGGAACAGTGGCATTGCTCCAGGAGAAGCGAAGGCCCAAAAGACACCTCAGATTGTACTCAGTGGCAGTGGCAAGAGCATGAATGCGtgaggaggtaggagttgtcagcttggactggtatgctgaacacaattat #### Sart1_ID962_13 --> 0 - 0 Original Alignment GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAG-GGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG actcataccattccctactgcctataacctcccgatgctttgcgttacagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAGGCGGAACATCAGTTTTCAATGCCACATCGGAAT-TTGCTGTATACTAGGGGAATCCCCCACATATGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtaggtcgattgattcttagatcaatcaattcttagctttcattgtaagt Alignment from CESAR GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAG-GGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG actcataccattccctactgcctataacctcccgatgctttgcgttacagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAGGCGGAACATCAGTTTTCAATGCCACATCGGAAT-TTGCTGTATACTAGGGGAATCCCCCACATATGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtaggtcgattgattcttagatcaatcaattcttagctttcattgtaagt Alignment from Spaln_aa2Genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG actcataccattccctactgcctataacctcccgatgctttgcgttacagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAGGCGGAACATCAGTTTTCAATGCCACATCGGAATTTGCTGTATACTAGGGGAATCCCCCACATATGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtaggtcgattgattcttagatcaatcaattcttagctttcattgtaagt Alignment from Spaln_nt2Genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATC-GTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG actcataccattccctactgcctataacctcccgatgctttgcgttacagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAGGCGGAACATCAGTTTTCAATGCCACATCGGAATT-TGCTGTATACTAGGGGAATCCCCCACATATGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtaggtcgattgattcttagatcaatcaattcttagctttcattgtaagt Alignment from Pairagon GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATC-GTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG actcataccattccctactgcctataacctcccgatgctttgcgttacagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAGGCGGAACATCAGTTTTCAATGCCACATCGGAATT-TGCTGTATACTAGGGGAATCCCCCACATATGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtaggtcgattgattcttagatcaatcaattcttagctttcattgtaagt Alignment from Exonerate_protein2genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG actcataccattccctactgcctataacctcccgatgctttgcgttacagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAGGCGGAACATCAGTTTTCAATGCCACATCGGAATTTGCTGTATACTAGGGGAATCCCCCACATATGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtaggtcgattgattcttagatcaatcaattcttagctttcattgtaagt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG actcataccattccctactgcctataacctcccgatgctttgcgttacagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAGGCGGAACATCAGTTTTCAATGCCACATCGGAATTTGCTGTATACTAGGGGAATCCCCCACATATGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtaggtcgattgattcttagatcaatcaattcttagctttcattgtaagt #### Sart1_ID963_12 --> 2 - 0 Original Alignment agGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCA-GAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG gggctaacacatgctagggtatcacaaatctgcccaatgtgtcttacaagaaGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCACGAACTGGAATTACAAAAGCAGCTAGAAAAGGGACGTCGGC-GCGGCAACTCCAGCAGTTACAGCAGCTCAGGGACAGTGGGGAGAAAgtagggcactaaattagttacaatgagaggactgtgcactgttgtaacaa Alignment from CESAR agGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCA-GAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG gggctaacacatgctagggtatcacaaatctgcccaatgtgtcttacaagaaGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCACGAACTGGAATTACAAAAGCAGCTAGAAAAGGGACGTCGG-CGCGGCAACTCCAGCAGTTACAGCAGCTCAGGGACAGTGGGGAGAAAgtagggcactaaattagttacaatgagaggactgtgcactgttgtaacaa Alignment from Spaln_aa2Genome AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCA-GAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG gggctaacacatgctagggtatcacaaatctgcccaatgtgtcttacaagAAGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAcGAACTGGAATTACAAAAGCAGCTAGAAAAGGGACGTCGGCG-CGGCAACTCCAGCAGTTACAGCAGCTCAGGGACAGTGGGGAGAAAgtagggcactaaattagttacaatgagaggactgtgcactgttgtaacaa Alignment from Spaln_nt2Genome AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCA-GAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG gggctaacacatgctagggtatcacaaatctgcccaatgtgtcttacaagAAGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCACGAACTGGAATTACAAAAGCAGCTAGAAAAGGGACGTCGGC-GCGGCAACTCCAGCAGTTACAGCAGCTCAGGGACAGTGGGGAGAAAgtagggcactaaattagttacaatgagaggactgtgcactgttgtaacaa Alignment from Pairagon AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCA-GAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG gggctaacacatgctagggtatcacaaatctgcccaatgtgtcttacaagAAGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCACGAACTGGAATTACAAAAGCAGCTAGAAAAGGGACGTCGGC-GCGGCAACTCCAGCAGTTACAGCAGCTCAGGGACAGTGGGGAGAAAgtagggcactaaattagttacaatgagaggactgtgcactgttgtaacaa Alignment from Exonerate_protein2genome AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG gggctaacacatgctagggtatcacaaatctgcccaatgtgtcttacaagAAGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCACGAACTGGAATTACAAAAGCAGCTAGAAAAGGGACGTCGGCGCGGCAACTCCAGCAGTTACAGCAGCTCAGGGACAGTGGGGAGAAAgtagggcactaaattagttacaatgagaggactgtgcactgttgtaacaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG gggctaacacatgctagggtatcacaaatctgcccaatgtgtcttacaagAAGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCACGAACTGGAATTACAAAAGCAGCTAGAAAAGGGACGTCGGCGCGGCAACTCCAGCAGTTACAGCAGCTCAGGGACAGTGGGGAGAAAgtagggcactaaattagttacaatgagaggactgtgcactgttgtaacaa #### Sart1_ID964_11 --> 1 - 1 Original Alignment gCTCCGGGGCCGG-GGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAG---GCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACT---------CGAGTAGAGAACATGGACATCAGTGATGAAg agatggagaaattcaaagagcatagtttactgtctgctttttgtctttagaCTTCGGGGACGGCGGAAGGCACCAAGTTTCC------AAGGAGGAGACAACAC-TGAGGATGAGGGGAAGGATCTTGTTGCCAAACCACCTCCATCAGATGACACTCGAGTCATTCAAGTC------ATGGACATCAGTGATGAAggtgagttattgcagaatagggatccagggtgaacctgcaggcagggctaa Alignment from CESAR gCTCCGGGGCCGG-GGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGATGAAg agatggagaaattcaaagagcatagtttactgtctgctttttgtctttagaCTTCGGGGACGGCGGAAGGCACCAAGTTTCCAAG---GAGGAGACAACAC-TGAGGATGAGGGGAAGGATCTTGTTGCCAAACCACCTCCATCAGATGACACTCGAGTCATTCAAGTCATGGACATCAGTGATGAAggtgagttattgcagaatagggatccagggtgaacctgcaggcagggctaa Alignment from Spaln_aa2Genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGATGAAG agatggagaaattcaaagagcatagtttactgtctgctttttgtctttagACTTCGGGGACGGCGGAAGGCACCAAGTTTCCAAGGAGGAGACAACACT---GAGGATGAGGGGAAGGATCTTGTTGCCAAACCACCTCCATCAGATGACACTCGAGTCATTCAAGTCATGGACATCAGTGATGAAGgtgagttattgcagaatagggatccagggtgaacctgcaggcagggctaa Alignment from Spaln_nt2Genome GCTCCGGGGCCGG-GGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGT-AGAGAA--CATGGACATCAGTGATGAAG agatggagaaattcaaagagcatagtttactgtctgctttttgtctttagACTTCGGGGACGGCGGAAGGCACCAAGTTTCCAAGGAGGA----GACAACACTGAGGATGAGGGGAAGGATCTTGTTGCCAAACCACCTCCATCAGATGACACTCGAGTCATTCAAGTCATGGACATCAGTGATGAAGgtgagttattgcagaatagggatccagggtgaacctgcaggcagggctaa Alignment from Pairagon GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGC------------------------CCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGT------AGAGAACATGGACATCAGTGATGAAG agatggagaaattcaaagagcatagtttactgtctgctttttgtctttagACTTCGGGGACGGCG---------------------------GAAGGCACCAAGTTTCCAAGGAGGAGACAACACTGAGGATGAGGGGAAGGATCTTGTTGCCAAACCACCTCCATCAGATGACACTCGAGTCATTCAAG---TCATGGACATCAGTGATGAAGgtgagttattgcagaatagggatccagggtgaacctgcaggcagggctaa Alignment from Exonerate_protein2genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGATGAAG agatggagaaattcaaagagcatagtttactgtctgctttttgtctttagACTTCGGGGACGG---CGGAAGGCACCAAGTTTCCAAGGAGGAGACAACACTGAGGATGAGGGGAAGGATCTTGTTGCCAAACCACCTCCATCAGATGACACTCGAGTCATTCAAGTCATGGACATCAGTGATGAAGgtgagttattgcagaatagggatccagggtgaacctgcaggcagggctaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAG---GAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGATGAAG agatggagaaattcaaagagcatagtttactgtctgctttttgtctttagACTTCGG------GGACGGCGGAAGGCACCAAGTTTCCAAGGAGGAGACAACACTGAGGATGAGGGGAAGGATCTTGTTGCCAAACCACCTCCATCAGATGACACTCGAGTCATTCAAGTCATGGACATCAGTGATGAAGgtgagttattgcagaatagggatccagggtgaacctgcaggcagggctaa #### Sart1_ID965_10 --> 0 - 2 Original Alignment GTGACCTTCAAG-AAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCag aggggatgctaacatcttgggaggctcgtcgcgggtttgtcatccaacagGTGACCTTCAAACAAGTCCAAGTGGAGGGTCAAAAAAACCAGGAAGAAGGAGC-GGAGGTGATAATGCAGGCTGATGATTTACTGCCTCTGGGAGATCAGACACAGGATGGG---TTTGGGTCAaggtgagcacaagcgtagtaagcacaagatggagaaattcaaagagcatagt Alignment from CESAR GTGACCTTCAAG-AAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCag aggggatgctaacatcttgggaggctcgtcgcgggtttgtcatccaacagGTGACCTTCAAACAAGTCCAAGTGGAGGGTCAAAAAAACCAGGAAGAAGGAG-CGGAGGTGATAATGCAGGCTGATGATTTACTGCCTCTGGGAGATCAGACACAGGATGGG---TTTGGGTCAaggtgagcacaagcgtagtaagcacaagatggagaaattcaaagagcatagt Alignment from Spaln_aa2Genome GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCAG aggggatgctaacatcttgggaggctcgtcgcgggtttgtcatccaacagGTGACCTTCAAACAAGTCCAAGTGGAGGGTCAAAAAAACCAGGAAGAAGGAGCGGAGGTGATAATGCAGGCTGATGATTTACTGCCTCTGGGAGATCAGACACAGGATGGG---TTTGGGTCAAGgtgagcacaagcgtagtaagcacaagatggagaaattcaaagagcatagt Alignment from Spaln_nt2Genome GTGACCTTCAAG-AAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCAG aggggatgctaacatcttgggaggctcgtcgcgggtttgtcatccaacagGTGACCTTCAAACAAGTCCAAGTGGAGGGTCAAAAAAACCAGGAAGAAGGAG-CGGAGGTGATAATGCAGGCTGATGATTTACTGCCTCTGGGAGATCAGACACAGGATGGG---TTTGGGTCAAGgtgagcacaagcgtagtaagcacaagatggagaaattcaaagagcatagt Alignment from Pairagon GTGACCTTCAAG-AAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCAG aggggatgctaacatcttgggaggctcgtcgcgggtttgtcatccaacagGTGACCTTCAAACAAGTCCAAGTGGAGGGTCAAAAAAACCAGGAAGAAGGAG-CGGAGGTGATAATGCAGGCTGATGATTTACTGCCTCTGGGAGATCAGACACAGGATGGG---TTTGGGTCAAGgtgagcacaagcgtagtaagcacaagatggagaaattcaaagagcatagt Alignment from Exonerate_protein2genome GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCAG aggggatgctaacatcttgggaggctcgtcgcgggtttgtcatccaacagGTGACCTTCAAACAAGTCCAAGTGGAGGGTCAAAAAAACCAGGAAGAAGGAGCGGAGGTGATAATGCAGGCTGATGATTTACTGCCTCTGGGAGATCAGACACAGGATGGG---TTTGGGTCAAGgtgagcacaagcgtagtaagcacaagatggagaaattcaaagagcatagt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCAG aggggatgctaacatcttgggaggctcgtcgcgggtttgtcatccaacagGTGACCTTCAAACAAGTCCAAGTGGAGGGTCAAAAAAACCAGGAAGAAGGAGCGGAGGTGATAATGCAGGCTGATGATTTACTGCCTCTGGGAGATCAGACACAGGATGGG---TTTGGGTCAAGgtgagcacaagcgtagtaagcacaagatggagaaattcaaagagcatagt #### Sart1_ID966_9 --> 0 - 0 Original Alignment CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAG-GCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG tgagtctaatcagtctgtgagaacaagcttgtgtcccccgcttatcctagCGGAGACCTTGTTCAATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGGATGGCTGATGGTCTAAGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCACGCCCAATCGCTAAGTTTAATGGGCCCCA-ACTTAGTACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcagtgggttatggtcatcaatacagtcctgttcacaccccctag Alignment from CESAR CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTG-CAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG tgagcctaatcagtctgtgagaacaagcttgtgtcccccgcttatcctagCGGAGACCTTGTTCAATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGGATGGCTGATGGTCTAAGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCACGCCCAATCGCTAAGTTTAA-TGGGCCCCAACTTAGTACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcagtgggttatggtcatcaatacagtcctgttcacaccccctag Alignment from Spaln_aa2Genome CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG tgagtctaatcagtctgtgagaacaagcttgtgtcccccgcttatcctagCGGAGACCTTGTTCAATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGGATGGCTGATGGTCTAAGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCACGCCCAATCGCTAAGTTTAATGGGCCCCAACTTAGTACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcagtgggttatggtcatcaatacagtcctgttcacaccccctag Alignment from Spaln_nt2Genome CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGC-AGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG tgagtctaatcagtctgtgagaacaagcttgtgtcccccgcttatcctagCGGAGACCTTGTTCAATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGGATGGCTGATGGTCTAAGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCACGCCCAATCGCTAAGTTTAAT-GGGCCCCAACTTAGTACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcagtgggttatggtcatcaatacagtcctgttcacaccccctag Alignment from Pairagon CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGA--------------------------------------------GTACCTCAGTCCCGAGGAGATG tgagtctaatcagtctgtgagaacaagcttgtgtcccccgcttatcctagCGGAGACCTTGTTCAATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGGATGGCTGATGGTCTAAGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACT--------------------------------------------ACCACGCCCAATCGCTAAGTTTAATGGGCCCCAACTTAGTACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcagtgggttatggtcatcaatacagtcctgttcacaccccctag Alignment from Exonerate_protein2genome CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG tgagtctaatcagtctgtgagaacaagcttgtgtcccccgcttatcctagCGGAGACCTTGTTCAATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGGATGGCTGATGGTCTAAGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCACGCCCAATCGCTAAGTTTAATGGGCCCCAACTTAGTACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcagtgggttatggtcatcaatacagtcctgttcacaccccctag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG tgagtctaatcagtctgtgagaacaagcttgtgtcccccgcttatcctagCGGAGACCTTGTTCAATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGGATGGCTGATGGTCTAAGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCACGCCCAATCGCTAAGTTTAATGGGCCCCAACTTAGTACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcagtgggttatggtcatcaatacagtcctgttcacaccccctag #### Sart1_ID967_8 --> 2 - 0 Original Alignment ggGTACTGCAGGACGGGGAGGACGTG-CTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccagctaccctgtctcttaacttaaacaggtGTACTCCAGGATGGAGAAGATGTGCCTGGTGAATGTGAATATGGTGGACAAAGAACGCGCTG-TCGAAATGTGGAGCTTCGGAAAGAGAAGGCAGACTACCTAAGCTATGTTGAGGATGAGGGTGTGGATGACCTAGCACAGgtgagcctaatcagtctgtgagaacaagcgtcgtcttgttctttctccca Alignment from CESAR ggGTACTGCAGGACGGGGAGGACGTG-CTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccagctaccctgtctcttaacttaaacaggtGTACTCCAGGATGGAGAAGATGTGCCTGGTGAATGTGAATATGGTGGACAAAGAACGCGCT-GTCGAAATGTGGAGCTTCGGAAAGAGAAGGCAGACTACCTAAGCTATGTTGAGGATGAGGGTGTGGATGACCTAGCACAGgtgagcctaatcagtctgtgagaacaagcttgtgtcccccgcttatccta Alignment from Spaln_aa2Genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccagctaccctgtctcttaacttaaacagGTGTACTCCAGGATGGAGAAGATGTGCCTGGTGAATGTGAATATGGTGGACAAAGAACGCGCTGTCGAAATGTGGAGCTTCGGAAAGAGAAGGCAGACTACCTAAGCTATGTTGAGGATGAGGGTGTGGATGACCTAGCACAGgtgagcctaatcagtctgtgagaacaagcgtcgtcttgttctttctccca Alignment from Spaln_nt2Genome GGGTACTGCAGGACGGGGAGGACGTGC-TGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccagctaccctgtctcttaacttaaacagGTGTACTCCAGGATGGAGAAGATGTGCCTGGTGAATGTGAATATGGTGGACAAAGAACGCGCTGTCGA-AATGTGGAGCTTCGGAAAGAGAAGGCAGACTACCTAAGCTATGTTGAGGATGAGGGTGTGGATGACCTAGCACAGgtgagcctaatcagtctgtgagaacaagcgtcgtcttgttctttctccca Alignment from Pairagon GGGTACTGCAGGACGGGGAGGACGTG-CTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccagctaccctgtctcttaacttaaacagGTGTACTCCAGGATGGAGAAGATGTGCCTGGTGAATGTGAATATGGTGGACAAAGAACGCGCTGTCGA-AATGTGGAGCTTCGGAAAGAGAAGGCAGACTACCTAAGCTATGTTGAGGATGAGGGTGTGGATGACCTAGCACAGgtgagcctaatcagtctgtgagaacaagcgtcgtcttgttctttctccca Alignment from Exonerate_protein2genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccagctaccctgtctcttaacttaaacagGTGTACTCCAGGATGGAGAAGATGTGCCTGGTGAATGTGAATATGGTGGACAAAGAACGCGCTGTCGAAATGTGGAGCTTCGGAAAGAGAAGGCAGACTACCTAAGCTATGTTGAGGATGAGGGTGTGGATGACCTAGCACAGgtgagcctaatcagtctgtgagaacaagcgtcgtcttgttctttctccca Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccagctaccctgtctcttaacttaaacagGTGTACTCCAGGATGGAGAAGATGTGCCTGGTGAATGTGAATATGGTGGACAAAGAACGCGCTGTCGAAATGTGGAGCTTCGGAAAGAGAAGGCAGACTACCTAAGCTATGTTGAGGATGAGGGTGTGGATGACCTAGCACAGgtgagcctaatcagtctgtgagaacaagcgtcgtcttgttctttctccca #### Sart1_ID970_5 --> 1 - 0 Original Alignment gAAAATAAAGACACTGGGGGAGGATGACCCC-TGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG tcttcacctgcccagggttcaggaaaacttatttggttgtctgggcttagtAAAGTTAAAACTCTGGGAGAAGATGACCCCCTGGCTGGACGATACAGCAGCATGGATAGAGA-GAGC------CTCCAGAAAGAGAAGGATTTGGCAAAGAAGAGGgtgtgtacacatggttattcaaaagctatctgttaagtcccaaacctttt Alignment from CESAR gAAAATAAAGACACTGGGGGAGGATGACCCC-TGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG tcttcacctgcccagggttcaggaaaacttatttggttgtctgggcttagtAAAGTTAAAACTCTGGGAGAAGATGACCCCCTGGCTGGACGATACAGCAGCATGGATAGAGA-GAGC------CTCCAGAAAGAGAAGGATTTGGCAAAGAAGAGGgtgtgtacacatggttattcaaaagctatctgttaagtcccaaacctttt Alignment from Spaln_aa2Genome GAAAATAAAGACACTGGGGGAGGATGAC-CCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG tcttcacctgcccagggttcaggaaaacttatttggttgtctgggcttagTAAAGTTAAAACTCTGGGAGAAGATGACcCCCTGGCTGGACGATACAGCAGCATGGATAGAGAGAGC-------CTCCAGAAAGAGAAGGATTTGGCAAAGAAGAGGgtgtgtacacatggttattcaaaagctatctgttaagtcccaaacctttt Alignment from Spaln_nt2Genome GAAAATAAAGACACTGGGGGAGGATGACCCC-TGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG tcttcacctgcccagggttcaggaaaacttatttggttgtctgggcttagTAAAGTTAAAACTCTGGGAGAAGATGACCCCCTGGCTGGACGATACAGCAGCATGGATAGAGA-GAGC------CTCCAGAAAGAGAAGGATTTGGCAAAGAAGAGGgtgtgtacacatggttattcaaaagctatctgttaagtcccaaacctttt Alignment from Pairagon ---------------------------------------------------AAAATAAAGACACTGGGGGAGGATGA-CCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG TCTTCACCTGCCCAGGGTTCAGGAAAACTTATTTGGTTGTCTGGGCTTAGTAAAGTTAAAACTCTGGGAGAAGATGACCCCCTGGCTGGACGATACAGCAGCATGGATAGAGA-GAGC------CTCCAGAAAGAGAAGGATTTGGCAAAGAAGAGGgtgtgtacacatggttattcaaaagctatctgttaagtcccaaacctttt Alignment from Exonerate_protein2genome GAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG tcttcacctgcccagggttcaggaaaacttatttggttgtctgggcttagTAAAGTTAAAACTCTGGGAGAAGATGACCCC---CTGGCTGGACGATACAGCAGCATGGATAGA---GAGAGCCTCCAGAAAGAGAAGGATTTGGCAAAGAAGAGGgtgtgtacacatggttattcaaaagctatctgttaagtcccaaacctttt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG tcttcacctgcccagggttcaggaaaacttatttggttgtctgggcttagTAAAGTTAAAACTCTGGGAGAAGATGACCCC---CTGGCTGGACGATACAGCAGCATGGATAGA---GAGAGCCTCCAGAAAGAGAAGGATTTGGCAAAGAAGAGGgtgtgtacacatggttattcaaaagctatctgttaagtcccaaacctttt #### Sec31b_ID9030_22 --> 0 - 0 Original Alignment CTGCCTGAGACA-TTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG cagatgctgagttggtgtgaacttatgagtaattctaaccttcatttcagCTGCCTGAAGCACTTCATGACGCCTGCACCGACTACAGCCCCAC-TCGAAGCCCTGGACCGGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCCGGAGCCCCCAGAGAGTGTAGCTTGCAAgtgagtgaaagtctgcacttgccctagtcaaggcaacctgatctctctta Alignment from CESAR CTGCCTGAGACA-TTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG cagatgctgagttggtgtgaacttatgagtaattctaaccttcatttcagCTGCCTGAAGCACTTCATGACGCCTGCACCGACTACAGCCCCAC-TCGAAGCCCTGGACCGGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCCGGAGCCCCCAGAGAGTGTAGCTTGCAAgtgagtgaaagtctgcacttgccctagtcaaggcaacctgatctctctta Alignment from Spaln_aa2Genome GAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG cagatgctgagttggtgtgaacttatgagtaattctaaccttcatttcagctgcctgaagCAC---TTCATGACGCCTGCACCGACTACAGCCCCACT-CGAAGCCCTGGACCGGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCCGGAGCCCCCAGAGAGTGTAGCTTGCAAgtgagtgaaagtctgcacttgccctagtcaaggcaacctgatctctctta Alignment from Spaln_nt2Genome CTGCCTGAGACA-TTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG cagatgctgagttggtgtgaacttatgagtaattctaaccttcatttcagCTGCCTGAAGCACTTCATGACGCCTGCACCGACTACAGCCCCAC-TCGAAGCCCTGGACCGGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCCGGAGCCCCCAGAGAGTGTAGCTTGCAAgtgagtgaaagtctgcacttgccctagtcaaggcaacctgatctctctta Alignment from Pairagon CTGCCTGAGACA-TTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG cagatgctgagttggtgtgaacttatgagtaattctaaccttcatttcagCTGCCTGAAGCACTTCATGACGCCTGCACCGACTACAGCCCCACTC-GAAGCCCTGGACCGGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCCGGAGCCCCCAGAGAGTGTAGCTTGCAAgtgagtgaaagtctgcacttgccctagtcaaggcaacctgatctctctta Alignment from Exonerate_protein2genome CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG cagatgctgagttggtgtgaacttatgagtaattctaaccttcatttcagCTGCCTGAAGCACTTCATGACGCCTGCACCGACTACAGCCCCACTCGAAGCCCTGGACCGGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCCGGAGCCCCCAGAGAGTGTAGCTTGCAAgtgagtgaaagtctgcacttgccctagtcaaggcaacctgatctctctta Alignment from Exonerate_coding2genome GCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG cagatgctgagttggtgtgaacttatgagtaattctaaccttcatttcagctgcctgaagcacttcatgacgcctgcaccgactacAGCCCCACTCGAAGCCCTGGACCGGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCCGGAGCCCCCAGAGAGTGTAGCTTGCAAgtgagtgaaagtctgcacttgccctagtcaaggcaacctgatctctctta Alignment from GeneWise CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG cagatgctgagttggtgtgaacttatgagtaattctaaccttcatttcagCTGCCTGAAGCACTTCATGACGCCTGCACCGACTACAGCCCCACTCGAAGCCCTGGACCGGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCCGGAGCCCCCAGAGAGTGTAGCTTGCAAgtgagtgaaagtctgcacttgccctagtcaaggcaacctgatctctctta #### Sec31b_ID9037_15 --> 0 - 1 Original Alignment CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGG-AGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTg cactcttccaatgcactagtccataggtaagaaaatgttttgtctttcagTTCCTAGCCTGTGTTATAAAAAAG---AGGAAGGACCTTGTGTGTGCTTTTTGCTTG---AACTGGCAGAGACACACTGGCTTTGCTACTAACACATTCAGGGCCCAAAA-GTTCCCAGAACTTTGTggtaatggtgagattaatatgattcattgtatttatgccaagcaaggcagc Alignment from CESAR CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGG-AGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTg cactcttccaatgcactagtccataggtaagaaaatgttttgtctttcagTTCCTAGCCTGTGTTATAAAAAAG---AGGAAGGACCTTGTGTGTGCTTTTTGCTTG---AACTGGCAGAGACACACTGGCTTTGCTACTAACACATTCAGGGCCC-AAAAGTTCCCAGAACTTTGTggtaatggtgagattaatatgattcattgtatttatgccaagcaaggcagc Alignment from Spaln_aa2Genome CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG cactcttccaatgcactagtccataggtaagaaaatgttttgtctttcagTTCCTAGCCTGTGTTATAAAAAAG---AGGAAGGACCTTGTGTGTGCTTTTTGCTTG---AACTGGCAGAGACACACTGGCTTTGCTACTAACACATTCAGGGCCCAAAAGTTCCCAGAACTTTGTGgtaatggtgagattaatatgattcattgtatttatgccaagcaaggcagc Alignment from Spaln_nt2Genome CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGG-AGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG cactcttccaatgcactagtccataggtaagaaaatgttttgtctttcagTTCCTAGCCTGTGTTATAAAAAAGA---GGAAGGACCTTGTGTGTGCTTTTTGCTT---GAACTGGCAGAGACACACTGGCTTTGCTACTAACACATTCAGGGCC-CAAAAGTTCCCAGAACTTTGTGgtaatggtgagattaatatgattcattgtatttatgccaagcaaggcagc Alignment from Pairagon CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGC------------CTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG cactcttccaatgcactagtccataggtaagaaaatgttttgtctttcagTTCCTAGCCTGTGTTATAAAAAAGA---GGAAGGACCTTGTGTGTGCTTTTTGCTTGAACTG--------------GCAGAGACACACTGGCTTTGCTACTAACACATTCAGGGCCC-AAAAGTTCCCAGAACTTTGTGgtaatggtgagattaatatgattcattgtatttatgccaagcaaggcagc Alignment from Exonerate_protein2genome CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG cactcttccaatgcactagtccataggtaagaaaatgttttgtctttcagTTCCTAGCCTGTGTTATAAAAAAGAGG---AAGGACCTTGTGTGTGCTTTTTGCTTG---AACTGGCAGAGACACACTGGCTTTGCTACTAACACATTCAGGGCCCAAAAGTTCCCAGAACTTTGTGgtaatggtgagattaatatgattcattgtatttatgccaagcaaggcagc Alignment from Exonerate_coding2genome cactcttccaatgcactagtccataggtaagaaaatgttttgtctttcagttcctagcctgtgttataaaaaagaggaaggaccttgtgtgtgctttttgcttgaactggcagagacacactggctttgctactaacacattcagggcccaaaagttcccagaactttgtggtaatggtgagattaatatgattcattgtatttatgccaagcaaggcagc Alignment from GeneWise CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG cactcttccaatgcactagtccataggtaagaaaatgttttgtctttcagTTCCTAGCCTGTGTTATAAAAAAGAGG---AAGGACCTTGTGTGTGCTTTTTGCTTG---AACTGGCAGAGACACACTGGCTTTGCTACTAACACATTCAGGGCCCAAAAGTTCCCAGAACTTTGTGgtaatggtgagattaatatgattcattgtatttatgccaagcaaggcagc #### Sec31b_ID9038_14 --> 2 - 0 Original Alignment acACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCT-GTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG atacagtaaagcattgactgagtgagtgtctctctgttttgcctatgtagatACTGATGGGCTCCTAAGC---CCTTTGTTAATTGGGGAACTGCACTCTGCTCGTAGATTTGTGTTTGAAGGAGGAGCGATTTGCAGATG-TGTTATTTTGGCTCAT---GGGGATGCAGAGTGGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaagtcctgttgtccataattgtgttgctcacagccatgtcattcaaca Alignment from CESAR acACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCT-GTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG atacagtaaagcattgactgagtgagtgtctctctgttttgcctatgtagatACTGATGGGCTCCTAAGC---CCTTTGTTAATTGGGGAACTGCACTCTGCTCGTAGATTTGTGTTTGAAGGAGGAGCGATTTGCAGAT-GTGTTATTTTGGCTCAT---GGGGATGCAGAGTGGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaagtcctgttgtccataattgtgttgctcacagccatgtcattcaaca Alignment from Spaln_aa2Genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCT-GTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG atacagtaaagcattgactgagtgagtgtctctctgttttgcctatgtagATACTGATGGGCTCCTAAGC---CCTTTGTTAATTGGGGAACTGCACTCTGCTcGTAGATTTGTGTTTGAAGGAGGAGCGATTTGCAGATGT-GTTATTTTGGCTCAT---GGGGATGCAGAGTGGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaagtcctgttgtccataattgtgttgctcacagccatgtcattcaaca Alignment from Spaln_nt2Genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCT-GTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG atacagtaaagcattgactgagtgagtgtctctctgttttgcctatgtagATACTGATGGGCTCCTAAGCC---CTTTGTTAATTGGGGAACTGCACTCTGCTCGTAGATTTGTGTTTGAAGGAGGAGCGATTTGCAGATG-TGTTATTTTGGCTCA---TGGGGATGCAGAGTGGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaagtcctgttgtccataattgtgttgctcacagccatgtcattcaaca Alignment from Pairagon ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCT-GTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG atacagtaaagcattgactgagtgagtgtctctctgttttgcctatgtagATACTGATGGGCTCCTAAGCC---CTTTGTTAATTGGGGAACTGCACTCTGCTCGTAGATTTGTGTTTGAAGGAGGAGCGATTTGCAGATG-TGTTATTTTGGCTCA---TGGGGATGCAGAGTGGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaagtcctgttgtccataattgtgttgctcacagccatgtcattcaaca Alignment from Exonerate_protein2genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG atacagtaaagcattgactgagtgagtgtctctctgttttgcctatgtagATACTGATGGGCTCCTAAGC---CCTTTGTTAATTGGGGAACTGCACTCTGCTCGTAGATTTGTGTTTGAAGGAGGAGCGATTTGCAGATGTGTTATTTTGGCTCAT---GGGGATGCAGAGTGGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaagtcctgttgtccataattgtgttgctcacagccatgtcattcaaca Alignment from Exonerate_coding2genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG atacagtaaagcattgactgagtgagtgtctctctgttttgcctatgtagATACTGATGGGCTCCTAAGC---CCTTTGTTAATTGGGGAACTGCACTCTGCTCGTAGATTTGTGTTTGAAGGAGGAGCGATTTGCAGATGTGTTATTTTGGCTCAT---GGGGATGCAGAGTGGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaagtcctgttgtccataattgtgttgctcacagccatgtcattcaaca Alignment from GeneWise ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG atacagtaaagcattgactgagtgagtgtctctctgttttgcctatgtagATACTGATGGGCTCCTAAGCCCT---TTGTTAATTGGGGAACTGCACTCTGCTCGTAGATTTGTGTTTGAAGGAGGAGCGATTTGCAGATGTGTTATTTTGGCTCAT---GGGGATGCAGAGTGGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaagtcctgttgtccataattgtgttgctcacagccatgtcattcaaca #### Sec31b_ID9044_8 --> 0 - 0 Original Alignment GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGC-TGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG ccaggtttagttccactggcatgtgttcctgtctctgtcttgccttccagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTCCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCCGCTGTCTCTTTTGATGGCCTGGATCAGTCTATGTTCTGTAACAGGAAGGAGCT-GGAAGTGCAGCATATGAGATCACCTGACGAGgtaacaaatggttgtattcataagcaggagacttgctggaaatgcaactt Alignment from CESAR GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGC-TGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG ccaggtttagttccactggcatgtgttcctgtctctgtcttgccttccagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTCCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCCGCTGTCTCTTTTGATGGCCTGGATCAGTCTATGTTCTGTAACAGGAAGGAGCT-GGAAGTGCAGCATATGAGATCACCTGACGAGgtaacaaatggttgtattcataagcaggagacttgctggaaatgcaactt Alignment from Spaln_aa2Genome GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGC-TGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG ccaggtttagttccactggcatgtgttcctgtctctgtcttgccttccagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTCCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCCGCTGTCTCTTTTGATGGCcTGGATCAGTCTATGTTCTGTAACAGGAAGGAGCTGGAA-GTGCAGCATATGAGATCACCTGACGAGgtaacaaatggttgtattcataagcaggagacttgctggaaatgcaactt Alignment from Spaln_nt2Genome GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGG-CTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG ccaggtttagttccactggcatgtgttcctgtctctgtcttgccttccagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTCCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCCGCTGTCTCTTTTGATGGCCTGGATCAGTCTATGTTCTGTAACAGGAAGGAGCT-GGAAGTGCAGCATATGAGATCACCTGACGAGgtaacaaatggttgtattcataagcaggagacttgctggaaatgcaactt Alignment from Pairagon GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGG-CTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG ccaggtttagttccactggcatgtgttcctgtctctgtcttgccttccagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTCCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCCGCTGTCTCTTTTGATGGCCTGGATCAGTCTATGTTCTGTAACAGGAAGGAGCT-GGAAGTGCAGCATATGAGATCACCTGACGAGgtaacaaatggttgtattcataagcaggagacttgctggaaatgcaactt Alignment from Exonerate_protein2genome GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGC-TGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAA--GCCCAGCACATGAGGCAGGCTGACAAG ccaggtttagttccactggcatgtgttcctgtctctgtcttgccttccagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTCCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCCGCTGTCTCTTTTGATGGCCTGGATCAGTCTATGTTCTGTAACAGGAAGGAGCTGGAAGTG---CAGCATATGAGATCACCTGACGAGgtaacaaatggttgtattcataagcaggagacttgctggaaatgcaactt Alignment from Exonerate_coding2genome GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGC-TGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAA--GCCCAGCACATGAGGCAGGCTGACAAG ccaggtttagttccactggcatgtgttcctgtctctgtcttgccttccagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTCCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCCGCTGTCTCTTTTGATGGCCTGGATCAGTCTATGTTCTGTAACAGGAAGGAGCTGGAAGTG---CAGCATATGAGATCACCTGACGAGgtaacaaatggttgtattcataagcaggagacttgctggaaatgcaactt Alignment from GeneWise GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG ccaggtttagttccactggcatgtgttcctgtctctgtcttgccttccagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTCCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCCGCTGTCTCTTTTGATGGCCTGGATCAGTCTATGTTCTGTAACAGGAAGGAGCTGGAAGTGCAGCATATGAGATCACCTGACGAGgtaacaaatggttgtattcataagcaggagacttgctggaaatgcaactt #### Sema4g_ID9244_2 --> 2 - 0 Original Alignment agCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAG-AGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG cttgctcatgccttatccatcataactagactgtctgctcttgtccctagaaGTTTCACAAGTACAACGCTTTAGGGAGCAGGCCCAAATTCATTCGACATTGCTGTTGGAGGAGGCTTCTGAACAAGCTGTCAGCAGGCGCGCGGGGTCCATTGT-CTCCCTC------AGTGAAATCAGAGAGAGAACACATAAAGAGgtaccttgctgatactgggtttacaggaccccacattttgcgtctggtct Alignment from CESAR agCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAG-AGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG cttgctcatgccttatccatcataactagactgtctgctcttgtccctagaaGTTTCACAAGTACAACGCTTTAGGGAGCAGGCCCAAATTCATTCGACATTGCTGTTGGAGGAGGCTTCTGAACAAGCTGTCAGCAGGCGCGCGGGGTCCATTG-TCTCCCTCAGT------GAAATCAGAGAGAGAACACATAAAGAGgtaccttgctgatactgggtttacaggaccccacattttgcgtctggtct Alignment from Spaln_aa2Genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG cttgctcatgccttatccatcataactagactgtctgctcttgtccctagAAGTTTCACAAGTACAACGCTTTAGGGAGCAGGCCCAAATTCATTCGACATTGCTGTTGGAGGAGGCTTCTGAACAAGCTGTCAGCAGGCGCGCGGGGTCCATTGTCTCCCTCAGT------GAAATCAGAGAGAGAACACATAAAGAGgtaccttgctgatactgggtttacaggaccccacattttgcgtctggtct Alignment from Spaln_nt2Genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAG-AGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG cttgctcatgccttatccatcataactagactgtctgctcttgtccctagAAGTTTCACAAGTACAACGCTTTAGGGAGCAGGCCCAAATTCATTCGACATTGCTGTTGGAGGAGGCTTCTGAACAAGCTGTCAGCAGGCGCGCG-GGGTCCATTGTCTCCCTCA------GTGAAATCAGAGAGAGAACACATAAAGAGgtaccttgctgatactgggtttacaggaccccacattttgcgtctggtct Alignment from Pairagon AGAGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGA-------------------------------GAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG cttgctcatgccttatccatcataactagactgtctgctcttgtccctagaagtttcacaagtacaacgctttagGGAGCAGGCCCAAATTC---------------------------ATTCGACATTGCTGTTGGAGGAGGCTTCTGAACAAGCTGTCAGCAGGCGCGCGGGGTCCATTG-------------------------------TCTCCCTCA------GTGAAATCAGAGAGAGAACACATAAAGAGgtaccttgctgatactgggtttacaggaccccacattttgcgtctggtct Alignment from Exonerate_protein2genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG cttgctcatgccttatccatcataactagactgtctgctcttgtccctagAAGTTTCACAAGTACAACGCTTTAGGGAGCAGGCCCAAATTCATTCGACATTGCTGTTGGAGGAGGCTTCTGAACAAGCTGTCAGCAGGCGCGCGGGGTCCATTGTCTCCCTCAGT------GAAATCAGAGAGAGAACACATAAAGAGgtaccttgctgatactgggtttacaggaccccacattttgcgtctggtct Alignment from Exonerate_coding2genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG cttgctcatgccttatccatcataactagactgtctgctcttgtccctagAAGTTTCACAAGTACAACGCTTTAGGGAGCAGGCCCAAATTCATTCGACATTGCTGTTGGAGGAGGCTTCTGAACAAGCTGTCAGCAGGCGCGCGGGGTCCATTGTCTCCCTCAGT------GAAATCAGAGAGAGAACACATAAAGAGgtaccttgctgatactgggtttacaggaccccacattttgcgtctggtct Alignment from GeneWise AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG cttgctcatgccttatccatcataactagactgtctgctcttgtccctagAAGTTTCACAAGTACAACGCTTTAGGGAGCAGGCCCAAATTCATTCGACATTGCTGTTGGAGGAGGCTTCTGAACAAGCTGTCAGCAGGCGCGCGGGGTCCATTGTCTCCCTCAGT------GAAATCAGAGAGAGAACACATAAAGAGgtaccttgctgatactgggtttacaggaccccacattttgcgtctggtct #### Sema4g_ID9251_9 --> 1 - 0 Original Alignment gAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCT-GAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG catatgcgcaggttgaggggatcagaaccccacccttgtgctgataccaggAAAACACTGGAGGCGTCAGATATATGCCGGCATGACTTGGCACGAGATTCATGCCGTTTTC---AGCCCCTTTATGGAGTACCAGG-TGGTGCCCGATGCTGGGGGTGTTATGGGGGTGGAGTACATCAACCCCAACCGGGCTTAgtaagtacttaaagtttggatcacactaatttttagaaataagttatgtg Alignment from CESAR gAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCT-GAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG catatgcgcaggttgaggggatcagaaccccacccttgtgctgataccaggAAAACACTGGAGGCGTCAGATATATGCCGGCATGACTTGGCACGAGATTCATGCCGTTTTC---AGCCCCTTTATGGAGTACCAG-GTGGTGCCCGATGCTGGGGGTGTTATGGGGGTGGAGTACATCAACCCCAACCGGGCTTAgtaagtacttaaagtttggatcacactaatttttagaaataagttatgtg Alignment from Spaln_aa2Genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG catatgcgcaggttgaggggatcagaaccccacccttgtgctgataccagGAAAACACTGGAGGCGTCAGATATATGCCGGCATGACTTGGCACGAGATTCATGCCGTTTTCAG---CCCCTTTATGGAGTACCAGGTGGTGCCCGATGCTGGGGGTGTTATGGGGGTGGAGTACATCAACCCCAACCGGGCTTAgtaagtacttaaagtttggatcacactaatttttagaaataagttatgtg Alignment from Spaln_nt2Genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCT-GAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG catatgcgcaggttgaggggatcagaaccccacccttgtgctgataccagGAAAACACTGGAGGCGTCAGATATATGCCGGCATGACTTGGCACGAGATTCATGCCGTTTTCA---GCCCCTTTATGGAGTACCAGG-TGGTGCCCGATGCTGGGGGTGTTATGGGGGTGGAGTACATCAACCCCAACCGGGCTTAgtaagtacttaaagtttggatcacactaatttttagaaataagttatgtg Alignment from Pairagon GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGC-TGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG catatgcgcaggttgaggggatcagaaccccacccttgtgctgataccagGAAAACACTGGAGGCGTCAGATATATGCCGGCATGACTTGGCACGAGATTCATGCCGTTTTCA---GCCCCTTTATGGAGTACCAGG-TGGTGCCCGATGCTGGGGGTGTTATGGGGGTGGAGTACATCAACCCCAACCGGGCTTAgtaagtacttaaagtttggatcacactaatttttagaaataagttatgtg Alignment from Exonerate_protein2genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG catatgcgcaggttgaggggatcagaaccccacccttgtgctgataccagGAAAACACTGGAGGCGTCAGATATATGCCGGCATGACTTGGCACGAGATTCATGCCGTTTTCAG---CCCCTTTATGGAGTACCAGGTGGTGCCCGATGCTGGGGGTGTTATGGGGGTGGAGTACATCAACCCCAACCGGGCTTAgtaagtacttaaagtttggatcacactaatttttagaaataagttatgtg Alignment from Exonerate_coding2genome catatgcgcaggttgaggggatcagaaccccacccttgtgctgataccaggaaaacactggaggcgtcagatatatgccggcatgacttggcacgagattcatgccgttttcagcccctttatggagtaccaggtggtgcccgatgctgggggtgttatgggggtggagtacatcaaccccaaccgggcttagtaagtacttaaagtttggatcacactaatttttagaaataagttatgtg Alignment from GeneWise GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG catatgcgcaggttgaggggatcagaaccccacccttgtgctgataccagGAAAACACTGGAGGCGTCAGATATATGCCGGCATGACTTGGCACGAGATTCATGCCGTTTTCAG---CCCCTTTATGGAGTACCAGGTGGTGCCCGATGCTGGGGGTGTTATGGGGGTGGAGTACATCAACCCCAACCGGGCTTAgtaagtacttaaagtttggatcacactaatttttagaaataagttatgtg #### Sema4g_ID9252_10 --> 0 - 1 Original Alignment TGCATCACAGATTCA-TTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAg gttatgtgaaaatatagcagcagtgtccttacataccgatgtgtctgcagTGTATCTCTGATTCTCCTGCGGAGCCAAGGATACAACTCC---CAAGATTTGCCTTCAC-TGTCCTTGATTCCGTGAAGCTACATCCACCACTGATGGCTCATCCTGTAGTTCCCACACGGGGGCAGCCTCTACTGCTGAAGCACAATGTACACTACACACATGTCACAGGTACACATGTCAGTCCACCTGCAGGACCTACCTACGAGTTGCTATTTCTAGGCACAggtaatgtaaccccgccctgcacatgcctccacctagtggggatacaatgc Alignment from CESAR TGCATCACAGATTCA-TTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAg gttatgtgaaaatatagcagcagtgtccttacataccgatgtgtctgcagTGTATCTCTGATTCTCCTGCGGAGCCAAGGATACAAC---TCCCAAGATTTGCCTTCAC-TGTCCTTGATTCCGTGAAGCTACATCCACCACTGATGGCTCATCCTGTAGTTCCCACACGGGGGCAGCCTCTACTGCTGAAGCACAATGTACACTACACACATGTCACAGGTACACATGTCAGTCCACCTGCAGGACCTACCTACGAGTTGCTATTTCTAGGCACAggtaatgtaaccccgccctgcacatgcctccacctagtggggatacaatgc Alignment from Spaln_aa2Genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gttatgtgaaaatatagcagcagtgtccttacataccgatgtgtctgcagTGTATCTCTGATTCTCCTGCGGAGCCAAGGATACAACTCCCAAGA---TTTGCCTTCACTGTCCTTGATTCCGTGAAGCTACATCCACCACTGATGGCTCATCCTGTAGTTCCCACACGGGGGCAGCCTCTACTGCTGAAGCACAATGTACACTACACACATGTCACAGGTACACATGTCAGTCCACCTGCAGGACCTACCTACGAGTTGCTATTTCTAGGCACAGgtaatgtaaccccgccctgcacatgcctccacctagtggggatacaatgc Alignment from Spaln_nt2Genome TGCATCACAGATTCAT-TGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCC---TGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gttatgtgaaaatatagcagcagtgtccttacataccgatgtgtctgcagTGTATCTCTGATTCTCCTGCGGAGCCAAGGATACAAC---TCCCAAGATTTGCCTTCACT-GTCCTTGATTCCGTGAAGCTACATCCACCACTGATGGCTCATCCTGTAGTTCCCACACGGGGGCAGCCTCTACTGCTGAAGCACAATGTACACTACACACATGTCACAGGTACACATGTCAGTCCACCTGCAGGACCTACCTACGAGTTGCTATTTCTAGGCACAGgtaatgtaaccccgccctgcacatgcctccacctagtggggatacaatgc Alignment from Pairagon TGCATCACAGATTC-ATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gttatgtgaaaatatagcagcagtgtccttacataccgatgtgtctgcagTGTATCTCTGATTCTCCTGCGGAGCCAAGGATACAAC---TCCCAAGATTTGCCTTCACT-GTCCTTGATTCCGTGAAGCTACATCCACCACTGATGGCTCATCCTGTAGTTCCCACACGGGGGCAGCCTCTACTGCTGAAGCACAATGTACACTACACACATGTCACAGGTACACATGTCAGTCCACCTGCAGGACCTACCTACGAGTTGCTATTTCTAGGCACAGgtaatgtaaccccgccctgcacatgcctccacctagtggggatacaatgc Alignment from Exonerate_protein2genome TGCATCACAGATTCA-TTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCC--CTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gttatgtgaaaatatagcagcagtgtccttacataccgatgtgtctgcagTGTATCTCTGATTCTCCTGCGGAGCCAAGGATACAAC---TCCCAAGATTTGCCTTCACT---GTCCTTGATTCCGTGAAGCTACATCCACCACTGATGGCTCATCCTGTAGTTCCCACACGGGGGCAGCCTCTACTGCTGAAGCACAATGTACACTACACACATGTCACAGGTACACATGTCAGTCCACCTGCAGGACCTACCTACGAGTTGCTATTTCTAGGCACAGgtaatgtaaccccgccctgcacatgcctccacctagtggggatacaatgc Alignment from Exonerate_coding2genome TGCATCACAGATTCA-TTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCC--CTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gttatgtgaaaatatagcagcagtgtccttacataccgatgtgtctgcagTGTATCTCTGATTCTCCTGCGGAGCCAAGGATACAAC---TCCCAAGATTTGCCTTCACT---GTCCTTGATTCCGTGAAGCTACATCCACCACTGATGGCTCATCCTGTAGTTCCCACACGGGGGCAGCCTCTACTGCTGAAGCACAATGTACACTACACACATGTCACAGGTACACATGTCAGTCCACCTGCAGGACCTACCTACGAGTTGCTATTTCTAGGCACAGgtaatgtaaccccgccctgcacatgcctccacctagtggggatacaatgc Alignment from GeneWise TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCC---CTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gttatgtgaaaatatagcagcagtgtccttacataccgatgtgtctgcagTGTATCTCTGATTCTCCTGCGGAGCCAAGGATACAACTCCCAAGA---TTTGCCTTCACTGTCCTTGATTCCGTGAAGCTACATCCACCACTGATGGCTCATCCTGTAGTTCCCACACGGGGGCAGCCTCTACTGCTGAAGCACAATGTACACTACACACATGTCACAGGTACACATGTCAGTCCACCTGCAGGACCTACCTACGAGTTGCTATTTCTAGGCACAGgtaatgtaaccccgccctgcacatgcctccacctagtggggatacaatgc #### Sema4g_ID9253_11 --> 2 - 0 Original Alignment ctGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAA-GTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG gtccaaccaccacctaatgaaagagtcgaacttgctctgtatgtcttcagcaGATGGCTGGAATCATAAAGCTGTAGTCCAAGGCTCTGGCATGCACATCATTGAAGAGATACAACGTGGTCAGAGAGCCCCAGTCAGTAGACAATT-ACTGATCTCACCAATGCAAgtgagttactgttactatggtaagaagccccacttatttacccacaacta Alignment from CESAR ctGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAA-GTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG gtccaaccaccacctaatgaaagagtcgaacttgctctgtatgtcttcagcaGATGGCTGGAATCATAAAGCTGTAGTCCAAGGCTCTGGCATGCACATCATTGAAGAGATACAACGTGGTCAGAGAGCCCCAGTCAGTAGACA-ATTACTGATCTCACCAATGCAAgtgagttactgttactatggtaagaagccccacttatttacccacaacta Alignment from Spaln_aa2Genome CTGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG gtccaaccaccacctaatgaaagagtcgaacttgctctgtatgtcttcagCAGATGGCTGGAATCATAAAGCTGTAGTCCAAGGCTCTGGCATGCACATCATTGAAGAGATACAACGTGGTCAGAGAGCCCCAGTCAGTAGACAATTACTGATCTCACCAATGCAAgtgagttactgttactatggtaagaagccccacttatttacccacaacta Alignment from Spaln_nt2Genome CTGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAA-GTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG gtccaaccaccacctaatgaaagagtcgaacttgctctgtatgtcttcagCAGATGGCTGGAATCATAAAGCTGTAGTCCAAGGCTCTGGCATGCACATCATTGAAGAGATACAACGTGGTCAGAGAGCCCCAGTCAGTAGACAAT-TACTGATCTCACCAATGCAAgtgagttactgttactatggtaagaagccccacttatttacccacaacta Alignment from Pairagon CTGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAA-GTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG gtccaaccaccacctaatgaaagagtcgaacttgctctgtatgtcttcagCAGATGGCTGGAATCATAAAGCTGTAGTCCAAGGCTCTGGCATGCACATCATTGAAGAGATACAACGTGGTCAGAGAGCCCCAGTCAGTAGACAAT-TACTGATCTCACCAATGCAAgtgagttactgttactatggtaagaagccccacttatttacccacaacta Alignment from Exonerate_protein2genome CTGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG gtccaaccaccacctaatgaaagagtcgaacttgctctgtatgtcttcagCAGATGGCTGGAATCATAAAGCTGTAGTCCAAGGCTCTGGCATGCACATCATTGAAGAGATACAACGTGGTCAGAGAGCCCCAGTCAGTAGACAATTACTGATCTCACCAATGCAAgtgagttactgttactatggtaagaagccccacttatttacccacaacta Alignment from Exonerate_coding2genome CTGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG gtccaaccaccacctaatgaaagagtcgaacttgctctgtatgtcttcagCAGATGGCTGGAATCATAAAGCTGTAGTCCAAGGCTCTGGCATGCACATCATTGAAGAGATACAACGTGGTCAGAGAGCCCCAGTCAGTAGACAATTACTGATCTCACCAATGCAAgtgagttactgttactatggtaagaagccccacttatttacccacaacta Alignment from GeneWise CTGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG gtccaaccaccacctaatgaaagagtcgaacttgctctgtatgtcttcagCAGATGGCTGGAATCATAAAGCTGTAGTCCAAGGCTCTGGCATGCACATCATTGAAGAGATACAACGTGGTCAGAGAGCCCCAGTCAGTAGACAATTACTGATCTCACCAATGCAAgtgagttactgttactatggtaagaagccccacttatttacccacaacta #### Sema4g_ID9254_12 --> 0 - 2 Original Alignment CACAGCCTCTACGTG-GGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACag tgacatgggaggactaatactgctcatctgcatttttgcctacatcatagCACAGCCTATATGTGCGGGGCTGCAAGTGGAATT---CAGTTTCCTC-TTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATTCTAGCACGAGACCCCTACTGTGGCTGGGATTCTAGTATCCATGTGTGCATGGTGGCCACTACGGTAGCAAACaggtacctagacaaaatataacagcgccctgttcaccaactggtagtagtat Alignment from CESAR CACAGCCTCTACGTG-GGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACag tgacatgggaggactaatactgctcatctgcatttttgcctacatcatagCACAGCCTATATGTGCGGGGCTGCAAGTGGAATT---CAGTTTCCTC-TTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATTCTAGCACGAGACCCCTACTGTGGCTGGGATTCTAGTATCCATGTGTGCATGGTGGCCACTACGGTAGCAAACaggtacctagacaaaatataacagcgccctgttcaccaactggtagtagtat Alignment from Spaln_aa2Genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG tgacatgggaggactaatactgctcatctgcatttttgcctacatcatagCACAGCCTATATGTGCGGGGCTGCAAGTGGAAT---TCAGTTTCCTCTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATTCTAGCACGAGACCCCTACTGTGGCTGGGATTCTAGTATCCATGTGTGCATGGTGGCCACTACGGTAGCAAACAGgtacctagacaaaatataacagcgccctgttcaccaactggtagtagtat Alignment from Spaln_nt2Genome CACAGCCTCTACGTG-GGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG tgacatgggaggactaatactgctcatctgcatttttgcctacatcatagCACAGCCTATATGTGCGGGGCTGCAAGTGGA---ATTCAGTTTCCTCT-TCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATTCTAGCACGAGACCCCTACTGTGGCTGGGATTCTAGTATCCATGTGTGCATGGTGGCCACTACGGTAGCAAACAGgtacctagacaaaatataacagcgccctgttcaccaactggtagtagtat Alignment from Pairagon CACAGCCTCTACGTG-GGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAGG------------------------------------------------- tgacatgggaggactaatactgctcatctgcatttttgcctacatcatagCACAGCCTATATGTGCGGGGCTGCAAGTGGAA---TTCAGTTTCCTCT-TCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATTCTAGCACGAGACCCCTACTGTGGCTGGGATTCTAGTATCCATGTGTGCATGGTGGCCACTACGGTAGCAAACAGGTACCTAGACAAAATATAACAGCGCCCTGTTCACCAACTGGTAGTAGTAT Alignment from Exonerate_protein2genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG tgacatgggaggactaatactgctcatctgcatttttgcctacatcatagCACAGCCTATATGTGCGGGGCTGCAAGTGG---AATTCAGTTTCCTCTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATTCTAGCACGAGACCCCTACTGTGGCTGGGATTCTAGTATCCATGTGTGCATGGTGGCCACTACGGTAGCAAACAGgtacctagacaaaatataacagcgccctgttcaccaactggtagtagtat Alignment from Exonerate_coding2genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG tgacatgggaggactaatactgctcatctgcatttttgcctacatcatagCACAGCCTATATGTGCGGGGCTGCAAGTGG---AATTCAGTTTCCTCTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATTCTAGCACGAGACCCCTACTGTGGCTGGGATTCTAGTATCCATGTGTGCATGGTGGCCACTACGGTAGCAAACAGgtacctagacaaaatataacagcgccctgttcaccaactggtagtagtat Alignment from GeneWise CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG tgacatgggaggactaatactgctcatctgcatttttgcctacatcatagCACAGCCTATATGTGCGGGGCTGCAAGTGG---AATTCAGTTTCCTCTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATTCTAGCACGAGACCCCTACTGTGGCTGGGATTCTAGTATCCATGTGTGCATGGTGGCCACTACGGTAGCAAACAGgtacctagacaaaatataacagcgccctgttcaccaactggtagtagtat #### Sf1_ID1669_10 --> 0 - 1 Original Alignment TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGC-TTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGg gggtcagactttgtctatgctaaactagttgtgggttttccatcccgcagTCTCTCATGTCTACAACTCAGAGCCACCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGGCCTGGTGGAGGCCCCCACAGTCTTTCCACACCCATTACCCAGTCTCACAGGTGGCCATGGTGGTC-CCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCTCCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGCCCCTCCGCCAATGggtaaaaaaccaagagcatttagggcttgagcaaatggcagacaccccaag Alignment from CESAR TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGC-TTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGg gggtcagactttgtctatgctaaactagttgtgggttttccatcccgcagTCTCTCATGTCTACAACTCAGAGCCACCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGGCCTGGTGGAGGCCCCCACAGTCTTTCCACACCCATTACCCAGTCTCACAGGTGGCCATGGTGGT-CCCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCTCCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGCCCCTCCGCCAATGggtaaaaaaccaagagcatttagggcttgagcaaatggcagacaccccaag Alignment from Spaln_aa2Genome TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGC-TTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGG gggtcagactttgtctatgctaaactagttgtgggttttccatcccgcagTCTCTCATGTCTACAACTCAGAGCCACCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGGCCTGGTGGAGGCCCCCACAGTcTTTCCACACCCATTACCCAGTCTCACAGGTGGCCATGGTGGTCCCCC-ATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCTCCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGCCCCTCCGCCAATGGgtaaaaaaccaagagcatttagggcttgagcaaatggcagacaccccaag Alignment from Spaln_nt2Genome TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAG-CTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGG gggtcagactttgtctatgctaaactagttgtgggttttccatcccgcagTCTCTCATGTCTACAACTCAGAGCCACCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGGCCTGGTGGAGGCCCCCACAGTCTTTCCACACCCATTACCCAGTCTCACAGGTGGCCATGGTGGTC-CCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCTCCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGCCCCTCCGCCAATGGgtaaaaaaccaagagcatttagggcttgagcaaatggcagacaccccaag Alignment from Pairagon TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAG-CTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGG gggtcagactttgtctatgctaaactagttgtgggttttccatcccgcagTCTCTCATGTCTACAACTCAGAGCCACCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGGCCTGGTGGAGGCCCCCACAGTCTTTCCACACCCATTACCCAGTCTCACAGGTGGCCATGGTGGTC-CCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCTCCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGCCCCTCCGCCAATGGgtaaaaaaccaagagcatttagggcttgagcaaatggcagacaccccaag Alignment from Exonerate_protein2genome TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGC-TTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGG--CATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGG gggtcagactttgtctatgctaaactagttgtgggttttccatcccgcagTCTCTCATGTCTACAACTCAGAGCCACCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGGCCTGGTGGAGGCCCCCACAGTCTTTCCACACCCATTACCCAGTCTCACAGGTGGCCATGGTGGTCC---CCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCTCCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGCCCCTCCGCCAATGGgtaaaaaaccaagagcatttagggcttgagcaaatggcagacaccccaag Alignment from Exonerate_coding2genome TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGC-TTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGG--CATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGG gggtcagactttgtctatgctaaactagttgtgggttttccatcccgcagTCTCTCATGTCTACAACTCAGAGCCACCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGGCCTGGTGGAGGCCCCCACAGTCTTTCCACACCCATTACCCAGTCTCACAGGTGGCCATGGTGGTCC---CCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCTCCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGCCCCTCCGCCAATGGgtaaaaaaccaagagcatttagggcttgagcaaatggcagacaccccaag Alignment from GeneWise TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCAC-AGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGG gggtcagactttgtctatgctaaactagttgtgggttttccatcccgcagTCTCTCATGTCTACAACTCAGAGCCACCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGGCCTGGTGGAGGCCCCCACAGTCTTTCCACACCCATTACCCAGTCTCACAGGTGGCCATGGTGGTCC-CCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCTCCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGCCCCTCCGCCAATGGgtaaaaaaccaagagcatttagggcttgagcaaatggcagacaccccaag #### Sf3b2_ID898_20 --> 0 - 0 Original Alignment GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAG-AAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG tggggttgggcactgatctataagatttatcccttgttttgtgattttagGTAATGAGCCAAAAGGGTGCTGCCCCTGAATTACAAGGTGTTGAGGTGGCATTGGCACCTGAAGAATTAGACTTGGATTCTATGGCTACAATGCAGCAAGTACAAAGAACATGTTCAGGAGAAA------CAAGTAG-GAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtgagaatgattgatgtatatggcatgggggttattctctctagtgagat Alignment from CESAR GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAG-AAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG tggggttgggcactgatctataagatttatcccttgttttgtgattttagGTAATGAGCCAAAAGGGTGCTGCCCCTGAATTACAAGGTGTTGAGGTGGCATTGGCACCTGAAGAATTAGACTTGGATTCTATGGCTACAATGCAGCAAGTACAAAGAACATGTTCAGGAGAAA------CAAGTA-GGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtgagaatgattgatgtatatggcatgggggttattctctctagtgagat Alignment from Spaln_aa2Genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG tggggttgggcactgatctataagatttatcccttgttttgtgattttagGTAATGAGCCAAAAGGGTGCTGCCCCTGAATTACAAGGTGTTGAGGTGGCATTGGCACCTGAAGAATTAGACTTGGATTCTATGGCTACAATGCAGCAAGTACAAAGAACATGTTCAGGAGAAACAAGTAGG------AAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtgagaatgattgatgtatatggcatgggggttattctctctagtgagat Alignment from Spaln_nt2Genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAG-AAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGACATG---GTGGCTGAGCATGCTGCTAAGCAGAAG tggggttgggcactgatctataagatttatcccttgttttgtgattttagGTAATGAGCCAAAAGGGTGCTGCCCCTGAATTACAAGGTGTTGAGGTGGCATTGGCACCTGAAGAATTAGACTTGGATTCTATGGCTACAATGCAGCAAGTACAAAGAACATGTTCAGGAGAA------ACAAGTAG-GAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtgagaatgattgatgtatatggcatgggggttattctctctagtgagat Alignment from Pairagon GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAG-AAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG tggggttgggcactgatctataagatttatcccttgttttgtgattttagGTAATGAGCCAAAAGGGTGCTGCCCCTGAATTACAAGGTGTTGAGGTGGCATTGGCACCTGAAGAATTAGACTTGGATTCTATGGCTACAATGCAGCAAGTACAAAGAACATGTTCAGGAGAA------ACAAGTAG-GAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtgagaatgattgatgtatatggcatgggggttattctctctagtgagat Alignment from Exonerate_protein2genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG tggggttgggcactgatctataagatttatcccttgttttgtgattttagGTAATGAGCCAAAAGGGTGCTGCCCCTGAATTACAAGGTGTTGAGGTGGCATTGGCACCTGAAGAATTAGACTTGGATTCTATGGCTACAATGCAGCAAGTACAAAGAACATGTTCAGGAGAAACAAGTAGG------AAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtgagaatgattgatgtatatggcatgggggttattctctctagtgagat Alignment from Exonerate_coding2genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG tggggttgggcactgatctataagatttatcccttgttttgtgattttagGTAATGAGCCAAAAGGGTGCTGCCCCTGAATTACAAGGTGTTGAGGTGGCATTGGCACCTGAAGAATTAGACTTGGATTCTATGGCTACAATGCAGCAAGTACAAAGAACATGTTCAGGAGAAACAAGTAGG------AAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtgagaatgattgatgtatatggcatgggggttattctctctagtgagat Alignment from GeneWise GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG tggggttgggcactgatctataagatttatcccttgttttgtgattttagGTAATGAGCCAAAAGGGTGCTGCCCCTGAATTACAAGGTGTTGAGGTGGCATTGGCACCTGAAGAATTAGACTTGGATTCTATGGCTACAATGCAGCAAGTACAAAGAACATGTTCAGGAGAAACAAGTAGG------AAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtgagaatgattgatgtatatggcatgggggttattctctctagtgagat #### Sf3b2_ID907_11 --> 0 - 0 Original Alignment GAAAAGAAGCCGGAAGCC-CCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG cagagctgcctcacacaatgatgcctaaatctttgcttctttttttacagAAGAAAAAGCCAGAGGCCCCCCAAACTATCGCGAAAGAAGTTGCGTCGTATGAACCGGT-TACAGTTGCAGAATTAAAGCAAgtaacaaattttgggaaggtcaagccagctactccagctctgtaaatcgt Alignment from CESAR GAAAAGAAGCCGGAAGCCCCT-AAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG cagagctgcctcacacaatgatgcctaaatctttgcttctttttttacagAAGAAAAAGCCAGAGGCCCCCCAAACTATCGCGAAAGAAGTTGCGTCGTATGAACCGG-TTACAGTTGCAGAATTAAAGCAAgtaacaaattttgggaaggtcaagccagctactccagctctgtaaatcgt Alignment from Spaln_aa2Genome GAAAAGAAGCCGGAAGCC-CCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG cagagctgcctcacacaatgatgcctaaatctttgcttctttttttacagAAGAAAAAGCCAGAGGCCcCCCAAACTATCGCGAAAGAAGTTGCGTCGTATGAACCGGTT-ACAGTTGCAGAATTAAAGCAAgtaacaaattttgggaaggtcaagccagctactccagctctgtaaatcgt Alignment from Spaln_nt2Genome GAAAAGAAGCCGGAAGCCCCT-AAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG cagagctgcctcacacaatgatgcctaaatctttgcttctttttttacagAAGAAAAAGCCAGAGGCCCCCCAAACTATCGCGAAAGAAGTTGCGTCGTATGAACCG-GTTACAGTTGCAGAATTAAAGCAAgtaacaaattttgggaaggtcaagccagctactccagctctgtaaatcgt Alignment from Pairagon GAAAAGAAGCCGGAAG-CCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG cagagctgcctcacacaatgatgcctaaatctttgcttctttttttacagAAGAAAAAGCCAGAGGCCCCCCAAACTATCGCGAAAGAAGTTGCGTCGTATGAACCG-GTTACAGTTGCAGAATTAAAGCAAgtaacaaattttgggaaggtcaagccagctactccagctctgtaaatcgt Alignment from Exonerate_protein2genome GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG cagagctgcctcacacaatgatgcctaaatctttgcttctttttttacagAAGAAAAAGCCAGAGGCCCCCCAAACTATCGCGAAAGAAGTTGCGTCGTATGAACCGGTTACAGTTGCAGAATTAAAGCAAgtaacaaattttgggaaggtcaagccagctactccagctctgtaaatcgt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG cagagctgcctcacacaatgatgcctaaatctttgcttctttttttacagAAGAAAAAGCCAGAGGCCCCCCAAACTATCGCGAAAGAAGTTGCGTCGTATGAACCGGTTACAGTTGCAGAATTAAAGCAAgtaacaaattttgggaaggtcaagccagctactccagctctgtaaatcgt #### Sf3b2_ID910_8 --> 2 - 0 Original Alignment agGAGGAGGAAATGGAGACAGAT-ACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAAAAAGAG tgcagcaagttgtggttaattgtggccaaactagtctccctccccttcagaaAAAGCAGAAATGGAGACAGTCCACTCGCTCATCTCTGGGACCATCGGCAT-TGAGACTGAGGAAGACACAGTATCCATATCTAAAATAGAGgtgagtatttatcaagttgggggccacttttctgtgagcttcttacattc Alignment from CESAR agGAGGAGGAAATGGAGACA-GATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAAAAAGAG tgcagcaagttgtggttaattgtggccaaactagtctccctccccttcagaaAAAGCAGAAATGGAGACAGTCCACTCGCTCATCTCTGGGACCATCGGCA-TTGAGACTGAGGAAGACACAGTATCCATATCTAAAATAGAGgtgagtatttatcaagttgggggccacttttctgtgagcttcttacattc Alignment from Spaln_aa2Genome CAGGAGGAGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAAAAAGAG agcaagttgtggttaattgtggccaaactagtctccctccccttca gAAAAAGCAGAAATGGAGACAGTCCACTCGCTCATCTCTGGGACCATCGGCATTGAGACTGAGGAAGACACAGTATCCATATCTAAAATAGAGgtgagtatttatcaagttgggggccacttttctgtgagcttcttacattc Alignment from Spaln_nt2Genome AGGAGGAGGAAATGGAGACAGAT-ACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAAAAAGAG tgcagcaagttgtggttaattgtggccaaactagtctccctccccttcagAAAAAGCAGAAATGGAGACAGTCCACTCGCTCATCTCTGGGACCATCGGCAT-TGAGACTGAGGAAGACACAGTATCCATATCTAAAATAGAGgtgagtatttatcaagttgggggccacttttctgtgagcttcttacattc Alignment from Pairagon AAATGGAGACAG-ATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAAAAAGAG tgcagcaagttgtggttaattgtggccaaactagtctccctccccttcagaaaaagcagAAATGGAGACAGTCCACTCGCTCATCTCTGGGACCATCGGCATT-GAGACTGAGGAAGACACAGTATCCATATCTAAAATAGAGgtgagtatttatcaagttgggggccacttttctgtgagcttcttacattc Alignment from Exonerate_protein2genome AGGAGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAAAAAGAG tgcagcaagttgtggttaattgtggccaaactagtctccctccccttcagAAAAAGCAGAAATGGAGACAGTCCACTCGCTCATCTCTGGGACCATCGGCATTGAGACTGAGGAAGACACAGTATCCATATCTAAAATAGAGgtgagtatttatcaagttgggggccacttttctgtgagcttcttacattc Alignment from Exonerate_coding2genome tgcagcaagttgtggttaattgtggccaaactagtctccctccccttcagaaaaagcagaaatggagacagtccactcgctcatctctgggaccatcggcattgagactgaggaagacacagtatccatatctaaaatagaggtgagtatttatcaagttgggggccacttttctgtgagcttcttacattc Alignment from GeneWise AGGAGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAAAAAGAG tgcagcaagttgtggttaattgtggccaaactagtctccctccccttcagAAAAAGCAGAAATGGAGACAGTCCACTCGCTCATCTCTGGGACCATCGGCATTGAGACTGAGGAAGACACAGTATCCATATCTAAAATAGAGgtgagtatttatcaagttgggggccacttttctgtgagcttcttacattc #### Sf3b2_ID911_7 --> 0 - 1 Original Alignment ATGGATGATCCT-TCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGg tttttgcaacgggataagtttcagaccgaagttgattattcccatttcagATT---GATCCCCTCAGTGGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTC-GCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAG---ggtaggtttaacagttaaacacacattagctgggagctgttgctttcacca Alignment from CESAR ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGg tttttgcaacgggataagtttcagaccgaagttgattattcccatttcagATTGAT--CCCCTCAGTGGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTT-CGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCT---CAGggtaggtttaacagttaaacacacattagctgggagctgttgctttcacca Alignment from Spaln_aa2Genome TGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAG- tttttgcaacgggataagtttcagaccgaagttgattattcccatttcagattgatcccctcagTGGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTCG-CTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAGGgtaggtttaacagttaaacacacattagctgggagctgttgctttcacca Alignment from Spaln_nt2Genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG tttttgcaacgggataagtttcagaccgaagttgattattcccatttcagATTGAT--CCCCTCAGTGGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTC-GCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCT---CAGGgtaggtttaacagttaaacacacattagctgggagctgttgctttcacca Alignment from Pairagon ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGGAGGAGGAGG tttttgcaacgggataagtttcagaccgaagttgattattcccatttcagATTGAT--CCCCTCAGTGGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTC-GCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTC------------AGGgtaggtttaacagttaaacacacattagctgggagctgttgctttcacca Alignment from Exonerate_protein2genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG tttttgcaacgggataagtttcagaccgaagttgattattcccatttcagATT---GATCCCCTCAGTGGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTCGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCT---CAGGgtaggtttaacagttaaacacacattagctgggagctgttgctttcacca Alignment from Exonerate_coding2genome tttttgcaacgggataagtttcagaccgaagttgattattcccatttcagattgatcccctcagtgggccccaaaattcctcaggctgtggaaaaaatccttcgctgaaggagagtcagcagcaagagatgaactctcagggtaggtttaacagttaaacacacattagctgggagctgttgctttcacca Alignment from GeneWise ATGAT---------------------CCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGGAGGAGGAG- tttttgcaacgggataagtttcagaccgaagTTGATTATTCCCATTTCAGATTGATCCCCTCAGTGGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTCG-CTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAGGGTAGGTTTAACAgttaaacacacattagctgggagctgttgctttcacca #### Sfxn3_ID9286_4 --> 1 - 0 Original Alignment gCAGTTGGGGACAGCCTATGTG-AGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG ctagtttccagcctaaacttggtagcttatgaactgttctgtctcttcaggCCGTTAGGGACAGCCTATGTGCAGTGCCACCACTGGAGCTGTGGCTACGGCCC-GGGACTAAAGTCTCTGACCAAGgtacgctttccctccttctttctaaagttccacctttacgaggtcaccac Alignment from CESAR gCAGTTGGGGACAGCCTATGTG-AGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG ctagtttccagcctaaacttggtagcttatgaactgttctgtctcttcaggCCGTTAGGGACAGCCTATGTGCAGTGCCACCACTGGAGCTGTGGCTACGGCC-CGGGACTAAAGTCTCTGACCAAGgtacgctttccctccttctttctaaagttccacctttacgaggtcaccac Alignment from Spaln_aa2Genome GCAGTTGGGGACAGCCTATGTG-AGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG ctagtttccagcctaaacttggtagcttatgaactgttctgtctcttcagGCCGTTAGGGACAGCCTATGTGcAGTGCCACCACTGGAGCTGTGGCTACGGCCCG-GGACTAAAGTCTCTGACCAAGgtacgctttccctccttctttctaaagttccacctttacgaggtcaccac Alignment from Spaln_nt2Genome GCAGTTGGGGACAGCCTATGTG-AGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG ctagtttccagcctaaacttggtagcttatgaactgttctgtctcttcagGCCGTTAGGGACAGCCTATGTGCAGTGCCACCACTGGAGCTGTGGCTACGGC-CCGGGACTAAAGTCTCTGACCAAGgtacgctttccctccttctttctaaagttccacctttacgaggtcaccac Alignment from Pairagon GCAGTTGGGGACAGCCTATGTG-AGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG ctagtttccagcctaaacttggtagcttatgaactgttctgtctcttcagGCCGTTAGGGACAGCCTATGTGCAGTGCCACCACTGGAGCTGTGGCTACGGC-CCGGGACTAAAGTCTCTGACCAAGgtacgctttccctccttctttctaaagttccacctttacgaggtcaccac Alignment from Exonerate_protein2genome GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG ctagtttccagcctaaacttggtagcttatgaactgttctgtctcttcagGCCGTTAGGGACAGCCTATGTGCAGTGCCACCACTGGAGCTGTGGCTACGGCCCGGGACTAAAGTCTCTGACCAAGgtacgctttccctccttctttctaaagttccacctttacgaggtcaccac Alignment from Exonerate_coding2genome GTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG ctagtttccagcctaaacttggtagcttatgaactgttctgtctcttcaggccgTTAGGGACAGCCTATGTGCAGTGCCACCACTGGAGCTGTGGCTAC-GGCCCGGGACTAAAGTCTCTGACCAAGgtacgctttccctccttctttctaaagttccacctttacgaggtcaccac Alignment from GeneWise GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG ctagtttccagcctaaacttggtagcttatgaactgttctgtctcttcagGCCGTTAGGGACAGCCTATGTGCAGTGCCACCACTGGAGCTGTGGCTACGGCCCGGGACTAAAGTCTCTGACCAAGgtacgctttccctccttctttctaaagttccacctttacgaggtcaccac #### Shoc2_ID11421_7 --> 0 - 1 Original Alignment AAATTAGTCTTGACAAACAACCAG-TTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCg gctattggatatacaccatgtttttttgccccagccccctttctccaaagGAATTAGTCTTAACAAACAACCAGCTTAAGCATGCTCCCAAGGGGTATAGGCCACCTCA-TAACCTCACTCACCTTGGTCTAGGTGAGAACCTACTCACTCACCTGCCTGAAGAAATTggtaaggactgggattagactgaataattttgtacatctgacatttaacaa Alignment from CESAR AAATTAGTCTTGACAAACAACCAG-TTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCg gctattggatatacaccatgtttttttgccccagccccctttctccaaagGAATTAGTCTTAACAAACAACCAGCTTAAGCATGCTCCCAAGGGGTATAGGCCACCTC-ATAACCTCACTCACCTTGGTCTAGGTGAGAACCTACTCACTCACCTGCCTGAAGAAATTggtaaggactgggattagactgaataattttgtacatctgacatttaacaa Alignment from Spaln_aa2Genome AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCG gctattggatatacaccatgtttttttgccccagccccctttctccaaagGAATTAGTCTTAACAAACAACCAGCTTAAGCATGCTCCCAAGGGGTATAGGCCACCTCATAACCTCACTCACCTTGGTCTAGGTGAGAACCTACTCACTCACCTGCCTGAAGAAATTGgtaaggactgggattagactgaataattttgtacatctgacatttaacaa Alignment from Spaln_nt2Genome AAATTAGTCTTGACAAACAACCAG-TTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCG gctattggatatacaccatgtttttttgccccagccccctttctccaaagGAATTAGTCTTAACAAACAACCAGCTTAAGCATGCTCCCAAGGGGTATAGGCCACCTCA-TAACCTCACTCACCTTGGTCTAGGTGAGAACCTACTCACTCACCTGCCTGAAGAAATTGgtaaggactgggattagactgaataattttgtacatctgacatttaacaa Alignment from Pairagon AAATTAGTCTTGACAAACAACCAG-TTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCG gctattggatatacaccatgtttttttgccccagccccctttctccaaagGAATTAGTCTTAACAAACAACCAGCTTAAGCATGCTCCCAAGGGGTATAGGCCACCTCA-TAACCTCACTCACCTTGGTCTAGGTGAGAACCTACTCACTCACCTGCCTGAAGAAATTGgtaaggactgggattagactgaataattttgtacatctgacatttaacaa Alignment from Exonerate_protein2genome AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCG gctattggatatacaccatgtttttttgccccagccccctttctccaaagGAATTAGTCTTAACAAACAACCAGCTTAAGCATGCTCCCAAGGGGTATAGGCCACCTCATAACCTCACTCACCTTGGTCTAGGTGAGAACCTACTCACTCACCTGCCTGAAGAAATTGgtaaggactgggattagactgaataattttgtacatctgacatttaacaa Alignment from Exonerate_coding2genome AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCG gctattggatatacaccatgtttttttgccccagccccctttctccaaagGAATTAGTCTTAACAAACAACCAGCTTAAGCATGCTCCCAAGGGGTATAGGCCACCTCATAACCTCACTCACCTTGGTCTAGGTGAGAACCTACTCACTCACCTGCCTGAAGAAATTGgtaaggactgggattagactgaataattttgtacatctgacatttaacaa Alignment from GeneWise AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCG gctattggatatacaccatgtttttttgccccagccccctttctccaaagGAATTAGTCTTAACAAACAACCAGCTTAAGCATGCTCCCAAGGGGTATAGGCCACCTCATAACCTCACTCACCTTGGTCTAGGTGAGAACCTACTCACTCACCTGCCTGAAGAAATTGgtaaggactgggattagactgaataattttgtacatctgacatttaacaa #### Sipa1_ID1142_10 --> 1 - 0 Original Alignment cTCCCTGTCCGATGAGGCTCCAGTCCTGCCC-AACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ggagaggtgcttatgcaggagaatagtccgtttaccctctgcttctccagcTCCCTGACTGATGAGGTCCCTGTCCTACCCCAAGATTACACCAGACCTCCTACTGATTACAACAGCTA-CACTTCCGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtgtgtagggaggtgtaggctctactaacacatagcccactgtcaaggtc Alignment from CESAR cTCCCTGTCCGATGAGGCTCCAGTCCTGCCC-AACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ggagaggtgcttatgcaggagaatagtccgtttaccctctgcttctccagcTCCCTGACTGATGAGGTCCCTGTCCTACCCCAAGATTACACCAGACCTCCTACTGATTACAACAGCTACA-CTTCCGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtgtgtagggaggtgtaggctctactaacacatagcccactgtcaaggtc Alignment from Spaln_aa2Genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ggagaggtgcttatgcaggagaatagtccgtttaccctctgcttctccagCTCCCTGACTGATGAGGTCCCTGTCCTACCCCAAGATTACACCAGACCTCCTACTGATTACAACAGCTACACTTCCGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtgtgtagggaggtgtaggctctactaacacatagcccactgtcaaggtc Alignment from Spaln_nt2Genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCC-AACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ggagaggtgcttatgcaggagaatagtccgtttaccctctgcttctccagCTCCCTGACTGATGAGGTCCCTGTCCTACCCCAAGATTACACCAGACCTCCTACTGATTACAACAG-CTACACTTCCGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtgtgtagggaggtgtaggctctactaacacatagcccactgtcaaggtc Alignment from Pairagon CTCCCTGTCCGATGAGGCTCCAGTCCTG-CCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ggagaggtgcttatgcaggagaatagtccgtttaccctctgcttctccagCTCCCTGACTGATGAGGTCCCTGTCCTACCCCAAGATTACACCAGACCTCCTACTGATTACAACAGCT-ACACTTCCGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtgtgtagggaggtgtaggctctactaacacatagcccactgtcaaggtc Alignment from Exonerate_protein2genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ggagaggtgcttatgcaggagaatagtccgtttaccctctgcttctccagCTCCCTGACTGATGAGGTCCCTGTCCTACCCCAAGATTACACCAGACCTCCTACTGATTACAACAGCTACACTTCCGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtgtgtagggaggtgtaggctctactaacacatagcccactgtcaaggtc Alignment from Exonerate_coding2genome ggagaggtgcttatgcaggagaatagtccgtttaccctctgcttctccagctccctgactgatgaggtccctgtcctaccccaagattacaccagacctcctactgattacaacagctacacttccgcccctgatactgatagagaaacaccaccttcccaggtgtgtagggaggtgtaggctctactaacacatagcccactgtcaaggtc Alignment from GeneWise CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ggagaggtgcttatgcaggagaatagtccgtttaccctctgcttctccagCTCCCTGACTGATGAGGTCCCTGTCCTACCCCAAGATTACACCAGACCTCCTACTGATTACAACAGCTACACTTCCGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtgtgtagggaggtgtaggctctactaacacatagcccactgtcaaggtc #### Sipa1_ID1145_7 --> 1 - 0 Original Alignment gGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAG-TTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG actcttggctgggcactcaaatttccttcttatcttctcacctaactcaggGTGGCGGTGAGTCGTACAAAAGACACTCCTGCCTTCAGTCCTGCACTACCAGAAGGCGGAGGTCCCTTTGCAGCCAATACTGACTTCCAAGCATTCCCATGGGCGAAGGCACTAAATGGTGAGCAAGCAGCTGGGCACACAAGGCAGCTTCCATGCCATGACTACATGTACACGGCAACAG---C-GCAAGAGTTGGCAACAAATGAGGTGAGTACTACTTTGCTAGACTTGGCCTCCCGATCTGGGTTACCATCCCTAGGCGGTAGACACCAC------CCACAGAGTTCTGGAGCAAAGCTACAAGCAACTGATGCATTGATGTGGGGTGTACATGCAGCTCCTGGGGCACGGGTTGCAGCAGGGGCTGAAACAAAAGGGCCAGAAGATACTGAAGTACCTTGTTTATTGGGTATTTCTGCTGAAACACTAGTGCTGGTCACACCTTCTGATAGTCATGTGGCCTTTAACTGTACATGTCGAGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTTGACCTATACCATGGGCGTGGGAAAGCAATCACATTGCAATTGGATGGTCCACCAGGTCAAGCTGTTGGTGATGTTGTGGCACGTCTGCAAgtaaggtgcaattacgggagtaaggtacaatgcaattactggagtaagga Alignment from CESAR gGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAG-TTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG actcttggctgggcactcaaatttccttcttatcttctcacctaactcaggGTGGCGGTGAGTCGTACAAAAGACACTCCTGCCTTCAGTCCTGCACTACCAGAAGGCGGAGGTCCCTTTGCAGCCAATACTGACTTCCAAGCATTCCCATGGGCGAAGGCACTAAATGGTGAGCAAGCAGCTGGGCACACAAGGCAGCTTCCATGCCATGACTACATGTACACGGCAACAG----CGCAAGAGTTGGCAACAAATGAGGTGAGTACTACTTTGCTAGACTTGGCCTCCCGATCTGGGTTACCATCCCTAGGCGGTAGACACCAC------CCACAGAGTTCTGGAGCAAAGCTACAAGCAACTGATGCATTGATGTGGGGTGTACATGCAGCTCCTGGGGCACGGGTTGCAGCAGGGGCTGAAACAAAAGGGCCAGAAGATACTGAAGTACCTTGTTTATTGGGTATTTCTGCTGAAACACTAGTGCTGGTCACACCTTCTGATAGTCATGTGGCCTTTAACTGTACATGTCGAGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTTGACCTATACCATGGGCGTGGGAAAGCAATCACATTGCAATTGGATGGTCCACCAGGTCAAGCTGTTGGTGATGTTGTGGCACGTCTGCAAgtaaggtgcaattacgggagtaaggtacaatgcaattactggagtaagga Alignment from Spaln_aa2Genome GGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG actcttggctgggcactcaaatttccttcttatcttctcacctaactcagGGTGGCGGTGAGTCGTACAAAAGACACTCCTGCCTTCAGTCCTGCACTACCAGAAGGCGGAGGTCCCTTTGCAGCCAATACTGACTTCCAAGCATTCCCATGGGCGAAGGCACTAAATGGTGAGCAAGCAGCTGGGCACACAAGGCAGCTTCCATGCCATGAC---TACATGTACACGGCAACAGCGCAAGAGTTGGCAACAAATGAGGTGAGTACTACTTTGCTAGACTTGGCCTCCCGATCTGGGTTACCATCCCTAGGCGGTAGACACCAC------CCACAGAGTTCTGGAGCAAAGCTACAAGCAACTGATGCATTGATGTGGGGTGTACATGCAGCTCCTGGGGCACGGGTTGCAGCAGGGGCTGAAACAAAAGGGCCAGAAGATACTGAAGTACCTTGTTTATTGGGTATTTCTGCTGAAACACTAGTGCTGGTCACACCTTCTGATAGTCATGTGGCCTTTAACTGTACATGTCGAGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTTGACCTATACCATGGGCGTGGGAAAGCAATCACATTGCAATTGGATGGTCCACCAGGTCAAGCTGTTGGTGATGTTGTGGCACGTCTGCAAgtaaggtgcaattacgggagtaaggtacaatgcaattactggagtaagga Alignment from Spaln_nt2Genome GGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAG-TTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG actcttggctgggcactcaaatttccttcttatcttctcacctaactcagGGTGGCGGTGAGTCGTACAAAAGACACTCCTGCCTTCAGTCCTGCACTACCAGAAGGCGGAGGTCCCTTTGCAGCCAATACTGACTTCCAAGCATTCCCATGGGCGAAGGCACTAAATGGTGAGCAAGCAGCTGGGCACACAAGGCAGCTTCCATGCCATGACTACATGTACACGGCAACAG----CGCAAGAGTTGGCAACAAATGAGGTGAGTACTACTTTGCTAGACTTGGCCTCCCGATCTGGGTTACCATCCCTAGGCGGTAGACACC------ACCCACAGAGTTCTGGAGCAAAGCTACAAGCAACTGATGCATTGATGTGGGGTGTACATGCAGCTCCTGGGGCACGGGTTGCAGCAGGGGCTGAAACAAAAGGGCCAGAAGATACTGAAGTACCTTGTTTATTGGGTATTTCTGCTGAAACACTAGTGCTGGTCACACCTTCTGATAGTCATGTGGCCTTTAACTGTACATGTCGAGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTTGACCTATACCATGGGCGTGGGAAAGCAATCACATTGCAATTGGATGGTCCACCAGGTCAAGCTGTTGGTGATGTTGTGGCACGTCTGCAAgtaaggtgcaattacgggagtaaggtacaatgcaattactggagtaagga Alignment from Pairagon GGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAG-TTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG actcttggctgggcactcaaatttccttcttatcttctcacctaactcagGGTGGCGGTGAGTCGTACAAAAGACACTCCTGCCTTCAGTCCTGCACTACCAGAAGGCGGAGGTCCCTTTGCAGCCAATACTGACTTCCAAGCATTCCCATGGGCGAAGGCACTAAATGGTGAGCAAGCAGCTGGGCACACAAGGCAGCTTCCATGCCATGACTACATGTACACGGCAACAG----CGCAAGAGTTGGCAACAAATGAGGTGAGTACTACTTTGCTAGACTTGGCCTCCCGATCTGGGTTACCATCCCTAGGCGGTAGACACCA------CCCACAGAGTTCTGGAGCAAAGCTACAAGCAACTGATGCATTGATGTGGGGTGTACATGCAGCTCCTGGGGCACGGGTTGCAGCAGGGGCTGAAACAAAAGGGCCAGAAGATACTGAAGTACCTTGTTTATTGGGTATTTCTGCTGAAACACTAGTGCTGGTCACACCTTCTGATAGTCATGTGGCCTTTAACTGTACATGTCGAGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTTGACCTATACCATGGGCGTGGGAAAGCAATCACATTGCAATTGGATGGTCCACCAGGTCAAGCTGTTGGTGATGTTGTGGCACGTCTGCAAgtaaggtgcaattacgggagtaaggtacaatgcaattactggagtaagga Alignment from Exonerate_protein2genome GGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG actcttggctgggcactcaaatttccttcttatcttctcacctaactcagGGTGGCGGTGAGTCGTACAAAAGACACTCCTGCCTTCAGTCCTGCACTACCAGAAGGCGGAGGTCCCTTTGCAGCCAATACTGACTTCCAAGCATTCCCATGGGCGAAGGCACTAAATGGTGAGCAAGCAGCTGGGCACACAAGGCAGCTT---CCATGCCATGACTACATGTACACGGCAACAGCGCAAGAGTTGGCAACAAATGAGGTGAGTACTACTTTGCTAGACTTGGCCTCCCGATCTGGGTTACCATCCCTAGGCGGTAGACACCAC------CCACAGAGTTCTGGAGCAAAGCTACAAGCAACTGATGCATTGATGTGGGGTGTACATGCAGCTCCTGGGGCACGGGTTGCAGCAGGGGCTGAAACAAAAGGGCCAGAAGATACTGAAGTACCTTGTTTATTGGGTATTTCTGCTGAAACACTAGTGCTGGTCACACCTTCTGATAGTCATGTGGCCTTTAACTGTACATGTCGAGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTTGACCTATACCATGGGCGTGGGAAAGCAATCACATTGCAATTGGATGGTCCACCAGGTCAAGCTGTTGGTGATGTTGTGGCACGTCTGCAAgtaaggtgcaattacgggagtaaggtacaatgcaattactggagtaagga Alignment from Exonerate_coding2genome GGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG actcttggctgggcactcaaatttccttcttatcttctcacctaactcagGGTGGCGGTGAGTCGTACAAAAGACACTCCTGCCTTCAGTCCTGCACTACCAGAAGGCGGAGGTCCCTTTGCAGCCAATACTGACTTCCAAGCATTCCCATGGGCGAAGGCACTAAATGGTGAGCAAGCAGCTGGGCACACAAGGCAGCTT---CCATGCCATGACTACATGTACACGGCAACAGCGCAAGAGTTGGCAACAAATGAGGTGAGTACTACTTTGCTAGACTTGGCCTCCCGATCTGGGTTACCATCCCTAGGCGGTAGACACCAC------CCACAGAGTTCTGGAGCAAAGCTACAAGCAACTGATGCATTGATGTGGGGTGTACATGCAGCTCCTGGGGCACGGGTTGCAGCAGGGGCTGAAACAAAAGGGCCAGAAGATACTGAAGTACCTTGTTTATTGGGTATTTCTGCTGAAACACTAGTGCTGGTCACACCTTCTGATAGTCATGTGGCCTTTAACTGTACATGTCGAGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTTGACCTATACCATGGGCGTGGGAAAGCAATCACATTGCAATTGGATGGTCCACCAGGTCAAGCTGTTGGTGATGTTGTGGCACGTCTGCAAgtaaggtgcaattacgggagtaaggtacaatgcaattactggagtaagga Alignment from GeneWise GGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCC---------ATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG actcttggctgggcactcaaatttccttcttatcttctcacctaactcagGGTGGCGGTGAGTCGTACAAAAGACACTCCTGCCTTCAGTCCTGCACTACCAGAAGGCGGAGGTCCCTTTGCAGCCAATACTGACTTCCAAGCATTCCCATGGGCGAAGGCACTAAATGGTGAGCAAGCAGCTGGGCACACAAGGCAGCTTCCATGCCATGACTACATGTACACGGCAACA------------GCGCAAGAGTTGGCAACAAATGAGGTGAGTACTACTTTGCTAGACTTGGCCTCCCGATCTGGGTTACCATCCCTAGGCGGTAGACACCAC------CCACAGAGTTCTGGAGCAAAGCTACAAGCAACTGATGCATTGATGTGGGGTGTACATGCAGCTCCTGGGGCACGGGTTGCAGCAGGGGCTGAAACAAAAGGGCCAGAAGATACTGAAGTACCTTGTTTATTGGGTATTTCTGCTGAAACACTAGTGCTGGTCACACCTTCTGATAGTCATGTGGCCTTTAACTGTACATGTCGAGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTTGACCTATACCATGGGCGTGGGAAAGCAATCACATTGCAATTGGATGGTCCACCAGGTCAAGCTGTTGGTGATGTTGTGGCACGTCTGCAAgtaaggtgcaattacgggagtaaggtacaatgcaattactggagtaagga #### Sipa1_ID1146_6 --> 0 - 2 Original Alignment CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCT-ACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACag cttgagccactgaaactcaggtatttttacgaactttattttacacttagCTACTAAGGAAATGTCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTCAAGACAGTATGCTCTCACTTCCCACACGTTTTCTTGGTGGTGC-AGCATATGCATCTTGCACTCCCCACACATCATACaggtaataatttggttaagctggggtctcagggatgggtaagttgtcatggt Alignment from CESAR CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCT-ACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACag cttgagccactgaaactcaggtatttttacgaactttattttacacttagCTACTAAGGAAATGTCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTCAAGACAGTATGCTCTCACTTCCCACACGTTTTCTTGGTGGTGC-AGCATATGCATCTTGCACTCCCCACACATCATACaggtaataatttggttaagctggggtctcagggatgggtaagttgtcatggt Alignment from Spaln_aa2Genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG cttgagccactgaaactcaggtatttttacgaactttattttacacttagCTACTAAGGAAATGTCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTCAAGACAGTATGCTCTCACTTCCCACACGTTTTCTTGGTGGTGCAGCATATGCATCTTGCACTCCCCACACATCATACAGgtaataatttggttaagctggggtctcagggatgggtaagttgtcatggt Alignment from Spaln_nt2Genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCT-ACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG cttgagccactgaaactcaggtatttttacgaactttattttacacttagCTACTAAGGAAATGTCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTCAAGACAGTATGCTCTCACTTCCCACACGTTTTCTTGGTGGTGC-AGCATATGCATCTTGCACTCCCCACACATCATACAGgtaataatttggttaagctggggtctcagggatgggtaagttgtcatggt Alignment from Pairagon CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCT-ACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG cttgagccactgaaactcaggtatttttacgaactttattttacacttagCTACTAAGGAAATGTCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTCAAGACAGTATGCTCTCACTTCCCACACGTTTTCTTGGTGGTGCA-GCATATGCATCTTGCACTCCCCACACATCATACAGgtaataatttggttaagctggggtctcagggatgggtaagttgtcatggt Alignment from Exonerate_protein2genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG cttgagccactgaaactcaggtatttttacgaactttattttacacttagCTACTAAGGAAATGTCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTCAAGACAGTATGCTCTCACTTCCCACACGTTTTCTTGGTGGTGCAGCATATGCATCTTGCACTCCCCACACATCATACAGgtaataatttggttaagctggggtctcagggatgggtaagttgtcatggt Alignment from Exonerate_coding2genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG cttgagccactgaaactcaggtatttttacgaactttattttacacttagCTACTAAGGAAATGTCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTCAAGACAGTATGCTCTCACTTCCCACACGTTTTCTTGGTGGTGCAGCATATGCATCTTGCACTCCCCACACATCATACAGgtaataatttggttaagctggggtctcagggatgggtaagttgtcatggt Alignment from GeneWise CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG cttgagccactgaaactcaggtatttttacgaactttattttacacttagCTACTAAGGAAATGTCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTCAAGACAGTATGCTCTCACTTCCCACACGTTTTCTTGGTGGTGCAGCATATGCATCTTGCACTCCCCACACATCATACAGgtaataatttggttaagctggggtctcagggatgggtaagttgtcatggt #### Sipa1_ID1147_5 --> 2 - 0 Original Alignment cgGATTCCACGGGCACACACTCACTCTACACCACCTACCAAGACCAT-GAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG tggagccttccacagcacacttgccaatgacgtgaacatctttccaacagcaGATTCCACGGGCACCCACTCACTCTACACCACCTACCAAGATCATCGAGATCATGTTTCATGTGTCCACGATGTTGC-TTACACACCTAATAACCAGCAACAGgtatgttaagtatttgccaaaactaggaaaaactactgggaatcagtctc Alignment from CESAR cgGATTCCACGGGCACACACTCACTCTACACCACCTACCAAGACCAT-GAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG tggagccttccacagcacacttgccaatgacgtgaacatctttccaacagcaGATTCCACGGGCACCCACTCACTCTACACCACCTACCAAGATCATCGAGATCATGTTTCATGTGTCCACGATGT-TGCTTACACACCTAATAACCAGCAACAGgtatgttaagtatttgccaaaactaggaaaaactactgggaatcagtctc Alignment from Spaln_aa2Genome CGGATTCCACGGGCACACACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG tggagccttccacagcacacttgccaatgacgtgaacatctttccaacagCAGATTCCACGGGCACCCACTCACTCTACACCACCTACCAAGATCATCGAGATCATGTTTCATGTGTCCACGATGTTGCTTACACACCTAATAACCAGCAACAGgtatgttaagtatttgccaaaactaggaaaaactactgggaatcagtctc Alignment from Spaln_nt2Genome CGGATTCCACGGGCACACACTCACTCTACACCACCTACCAAGACCAT-GAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG tggagccttccacagcacacttgccaatgacgtgaacatctttccaacagCAGATTCCACGGGCACCCACTCACTCTACACCACCTACCAAGATCATCGAGATCATGTTTCATGTGTCCACGATGTTGCT-TACACACCTAATAACCAGCAACAGgtatgttaagtatttgccaaaactaggaaaaactactgggaatcagtctc Alignment from Pairagon CGGATTCCACGGGCACACACTCACTCTACACCACCTACCAAGACCAT-GAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG tggagccttccacagcacacttgccaatgacgtgaacatctttccaacagCAGATTCCACGGGCACCCACTCACTCTACACCACCTACCAAGATCATCGAGATCATGTTTCATGTGTCCACGATGTTG-CTTACACACCTAATAACCAGCAACAGgtatgttaagtatttgccaaaactaggaaaaactactgggaatcagtctc Alignment from Exonerate_protein2genome CGGATTCCACGGGCACACACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG tggagccttccacagcacacttgccaatgacgtgaacatctttccaacagCAGATTCCACGGGCACCCACTCACTCTACACCACCTACCAAGATCATCGAGATCATGTTTCATGTGTCCACGATGTTGCTTACACACCTAATAACCAGCAACAGgtatgttaagtatttgccaaaactaggaaaaactactgggaatcagtctc Alignment from Exonerate_coding2genome CGGATTCCACGGGCACACACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG tggagccttccacagcacacttgccaatgacgtgaacatctttccaacagCAGATTCCACGGGCACCCACTCACTCTACACCACCTACCAAGATCATCGAGATCATGTTTCATGTGTCCACGATGTTGCTTACACACCTAATAACCAGCAACAGgtatgttaagtatttgccaaaactaggaaaaactactgggaatcagtctc Alignment from GeneWise CGGATTCCACGGGCACACACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATG------CTGCCTTACACGCCTAATAACCAGCAACAG tggagccttccacagcacacttgccaatgacgtgaacatctttccaacagCAGATTCCACGGGCACCCACTCACTCTACACCACCTACCAAGATCATCGA------GATCATGTTTCATGTGTCCACGATGTTGCTTACACACCTAATAACCAGCAACAGgtatgttaagtatttgccaaaactaggaaaaactactgggaatcagtctc #### Slc18a2_ID12936_4 --> 2 - 1 Original Alignment tgTTTGCCTTCTCCAGCAGCTAT-GCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTg ctggcttatgtagggaaccaggaaggcagtcttggggctgtgtcttacagtgTTTGCATAT------GGTTATCGCCTTGCTCCTGATTGCCAAGTCCTTGCAAGGAA-AGGTTCATCTTGCTCATCTGTTGCTggtacagtataattaaagtatgaccatgaactcacaggtattgaggcaggg Alignment from CESAR tgTTTGCCTTCTCCAGCAGCTAT-GCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTg ctggcttatgtagggaaccaggaaggcagtcttggggctgtgtcttacagtgTTTGCATAT------GGTTATCGCCTTGCTCCTGATTGCCAAGTCCTTGCAAGGA-AAGGTTCATCTTGCTCATCTGTTGCTggtacagtataattaaagtatgaccatgaactcacaggtattgaggcaggg Alignment from Spaln_aa2Genome TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG ctggcttatgtagggaaccaggaaggcagtcttggggctgtgtcttacagTGTTTGCATAT------GGTTATCGCCTTGCTCCTGATTGCCAAGTCCTTGCAAGGAAAGGTTCATCTTGCTCATCTGTTGCTGgtacagtataattaaagtatgaccatgaactcacaggtattgaggcaggg Alignment from Spaln_nt2Genome TGTTTGCCTTCTCCAGCAGCTAT-GCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG ctggcttatgtagggaaccaggaaggcagtcttggggctgtgtcttacagTGTTTGCAT------ATGGTTATCGCCTTGCTCCTGATTGCCAAGTCCTTGCAAGGAA-AGGTTCATCTTGCTCATCTGTTGCTGgtacagtataattaaagtatgaccatgaactcacaggtattgaggcaggg Alignment from Pairagon TGTTTGCCTTCTCCAGCAGCTAT---------GCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG ctggcttatgtagggaaccaggaaggcagtcttggggctgtgtcttacagTGTTTGC--------------ATATGGTTATCGCCTTGCTCCTGATTGCCAAGTCCTTGCAAGGAA-AGGTTCATCTTGCTCATCTGTTGCTGgtacagtataattaaagtatgaccatgaactcacaggtattgaggcaggg Alignment from Exonerate_protein2genome CCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG ctggcttatgtagggaaccaggaaggcagtcttggggctgtgtcttacagTGTTTGCATATGGTTATCGCCTTGCTCCTGATTGCCAAGTCCTTGCAAGGAAAGGTTCATCTTGCTCATCTGTTGCTGgtacagtataattaaagtatgaccatgaactcacaggtattgaggcaggg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ctggcttatgtagggaaccaggaaggcagtcttggggctgtgtcttacagtgtttgcatatggttatcgccttgctcctgattgccaagtccttgcaaggaaaggttcatcttgctcatctgttgctggtacagtataattaaagtatgaccatgaactcacaggtattgaggcaggg #### Slc22a12_ID1788_9 --> 1 - 2 Original Alignment gATGACTGCAGTGGGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCTTTGGTACGGCTGCTGGGTGTCTATGGCTCCTGGATGCCC-CTGCTGGTGTATGGAGTGGTGCCAGTGTTAAGTGGCCTAGCTGCACTGCTGCTGCCTGAGACCAAGAACTTACCACTGCCTGACACCATCCAAGACATCCAGAAAca gactaatgaatacaacagaacattgctgttttggatttattttctcacaggATGACTTCAGTTTGTGTCTGCCATGTTGTGGCTCGAGGGGGAGCTACTTTGGGGCCTTTATTG---------------------------ATACCCCTTGCTGGTTTATGGA------CCAGTTTTAAGTG-CTTTGCAGCATTGCTACTGCCTGAGACTAAAATATTACCTCTTCCT---ACCATTCAGGATATACAGAAAcagtgagtttaaacagactgtttgaatttgccgtttgattccctccatcttg Alignment from CESAR gATGACTGCAGTGGGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCTTTGGTACGGCTGCTGGGTGTCTATGGCTCCTGGATGCCC-CTGCTGGTGTATGGAGTGGTGCCAGTGTTAAGTGGCCTAGCTGCACTGCTGCTGCCTGAGACCAAGAACTTACCACTGCCTGACACCATCCAAGACATCCAGAAAca gactaatgaatacaacagaacattgctgttttggatttattttctcacaggATGACTTCAGTTTGTGTCTGCCATGTTGTGGCTCGAGGGGGAGCTACTTTGGGGCCTTTATTG---------------------------ATACCCCTTGCTGGTTTATGGA------CCAGTTTTAAGTGCTT-TGCAGCATTGCTACTGCCTGAGACTAAAATATTACCTCTTCCT---ACCATTCAGGATATACAGAAAcagtgagtttaaacagactgtttgaatttgccgtttgattccctccatcttg Alignment from Spaln_aa2Genome GATGACTGCAGTGGGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCTTTGGTACGGCTGCTGGGTGTCTATGGCTCCTGGATGCCCCTGCTGGTGTATGGAGTGGTGCCAGTGTTAAGTGGCCTAGCTGCACTGCTGCTGCCTGAGACCAAGAACTTACCACTGCCTGACACCATCCAAGACATCCAGAAACA gactaatgaatacaacagaacattgctgttttggatttattttctcacagGATGACTTCAGTTTGTGTCTGCCATGTTGTGGCTCGAGGGGGAGCTACTTTGGGGCCTTTATTGATACCCCTTGCT------GGTTTATGGACCAGT---------------------------TTTAAGTGCTTTGCAGCATTGCTACTGCCTGAGACTAAAATATTACCTCTTCCT---ACCATTCAGGATATACAGAAACAgtgagtttaaacagactgtttgaatttgccgtttgattccctccatcttg Alignment from Spaln_nt2Genome GATGACTGCAGTGGGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCTTTGGTACGGCTGCTGGGTGTCTATGGCTCCTGGATGCCCCTGCTGGTGTATGGAGTGGTGCCAGTGTTAAGTGGCCTAGCTGCACTGCTGCTGCCTGAGACCAAGAACTTACCACTGCCTGACACCATCCAAGACATCCAGAAACA gactaatgaatacaacagaacattgctgttttggatttattttctcacagGATGACTTCAGTTTGTGTCTGCCATGTTGTGGCTCGAGGGGGAGCTACTTTGGGGCCTT--------------------TATTGATAC------CCCTTGCTGGTTTATGGA------CCAGTTTTAAGT-GCTTTGCAGCATTGCTACTGCCTGAGACTAAAATATTACCTCTTCCT---ACCATTCAGGATATACAGAAACAgtgagtttaaacagactgtttgaatttgccgtttgattccctccatcttg Alignment from Pairagon GATGACTGCAGTGGGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCT---TTGGTACGGCTGCTGGGTGTCTATGGCTCCTGGATGCCCCTGCTGGTGTATGGAGTGGTGCCAGTGTTAAGTGGCCTAGCTGCACTGCTGCTGCCTGAGACCAAGAACTTACCACTGCCTGACACCATCCAAGACATCCAGAAACA gactaatgaatacaacagaacattgctgttttggatttattttctcacagGATGACTTCAGTTTGTGTCTGCCATGTTGTGGCTCGAGGGGGAGCTACTTTGGGGCCTTTATTGATAC-----------------------------CCCTTGCTGGTTTATGGA------CCAGTTTTAAGT-GCTTTGCAGCATTGCTACTGCCTGAGACTAAAATATTACCTCTTCCT---ACCATTCAGGATATACAGAAACAgtgagtttaaacagactgtttgaatttgccgtttgattccctccatcttg Alignment from Exonerate_protein2genome GATGACTGCAGTGGGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCTTTGGTA gactaatgaatacaacagaacattgctgttttggatttattttctcacagGATGACTTCAGTTTGTGTCTGCCATGTTGTGGCTCGAGGGGGAGCTACTTTGGGGCCTTTATTGataccccttgctggtttatggaccagttttaagtgctttgcagcattgctactgcctgagactaaaatattacctcttcctaccattcaggatatacagaaacagtgagtttaaacagactgtttgaatttgccgtttgattccctccatcttg Alignment from Exonerate_coding2genome gactaatgaatacaacagaacattgctgttttggatttattttctcacaggatgacttcagtttgtgtctgccatgttgtggctcgagggggagctactttggggcctttattgataccccttgctggtttatggaccagttttaagtgctttgcagcattgctactgcctgagactaaaatattacctcttcctaccattcaggatatacagaaacagtgagtttaaacagactgtttgaatttgccgtttgattccctccatcttg Alignment from GeneWise GATGACTGCAGTGGGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCTTTGGTACGGCTGCTGGGTGTCTATGGCTCCTGGATGCCCCTGCTGGTGTATGGAGTGGTGCCAGTGTTAAGTGGCCTAGCTGCACTGCTGCTGCCTGAGACCAAGAACTTACCACTGCCTGACACCATCCAAGACATCCAGAAACA gactaatgaatacaacagaacattgctgttttggatttattttctcacagGATGACTTCAGTTTGTGTCTGCCATGTTGTGGCTCGAGGGGGAGCTACTTTGGGGCCTTTA------TTGATACCCCTTGCTGGTTTATGGACCAGTTTTAAGTGCTTT---------------------------GCAGCATTGCTACTGCCTGAGACTAAAATATTACCTCTTCCT---ACCATTCAGGATATACAGAAACAgtgagtttaaacagactgtttgaatttgccgtttgattccctccatcttg #### Slc22a12_ID1789_8 --> 2 - 2 Original Alignment ggATGGGGGTCCTTCGCTCG-GCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCag ctatggctggttgataaattgtgaggttttagcatgttctctacccacagcaATGGGGGTCCTTCGCTCTCGCTCTAGCTGTCCTAGGGTTGGGCTGCCTAGGTG-TGCCTTCACATGTATCACCATTTTCTCTAGCGAGCTCTTTCCCACTGTTATTaggtcagtgctatgaagcccctggatcacaccactagaccattgcacataga Alignment from CESAR ggATGGGGGTCCTTCGCTCG-GCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCag ctatggctggttgataaattgtgaggttttagcatgttctctacccacagcaATGGGGGTCCTTCGCTCTCGCTCTAGCTGTCCTAGGGTTGGGCTGCCTAGGT-GTGCCTTCACATGTATCACCATTTTCTCTAGCGAGCTCTTTCCCACTGTTATTaggtcagtgctatgaagcccctggatcacaccactagaccattgcacataga Alignment from Spaln_aa2Genome GGATGGGGGTCCTTCGCTCG-GCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG ctatggctggttgataaattgtgaggttttagcatgttctctacccacagCAATGGGGGTCCTTCGCTCTcGCTCTAGCTGTCCTAGGGTTGGGCTGCCTAGGTGT-GCCTTCACATGTATCACCATTTTCTCTAGCGAGCTCTTTCCCACTGTTATTAGgtcagtgctatgaagcccctggatcacaccactagaccattgcacataga Alignment from Spaln_nt2Genome GGATGGGGGTCCTTCGCTCG-GCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG ctatggctggttgataaattgtgaggttttagcatgttctctacccacagCAATGGGGGTCCTTCGCTCTCGCTCTAGCTGTCCTAGGGTTGGGCTGCCT-AGGTGTGCCTTCACATGTATCACCATTTTCTCTAGCGAGCTCTTTCCCACTGTTATTAGgtcagtgctatgaagcccctggatcacaccactagaccattgcacataga Alignment from Pairagon GGATGGGGGTCCTTCGCTC-GGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG ctatggctggttgataaattgtgaggttttagcatgttctctacccacagCAATGGGGGTCCTTCGCTCTCGCTCTAGCTGTCCTAGGGTTGGGCTGCCT-AGGTGTGCCTTCACATGTATCACCATTTTCTCTAGCGAGCTCTTTCCCACTGTTATTAGgtcagtgctatgaagcccctggatcacaccactagaccattgcacataga Alignment from Exonerate_protein2genome GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG ctatggctggttgataaattgtgaggttttagcatgttctctacccacagCAATGGGGGTCCTTCGCTCTCGCTCTAGCTGTCCTAGGGTTGGGCTGCCTAGGTGTGCCTTCACATGTATCACCATTTTCTCTAGCGAGCTCTTTCCCACTGTTATTAGgtcagtgctatgaagcccctggatcacaccactagaccattgcacataga Alignment from Exonerate_coding2genome ctatggctggttgataaattgtgaggttttagcatgttctctacccacagcaatgggggtccttcgctctcgctctagctgtcctagggttgggctgcctaggtgtgccttcacatgtatcaccattttctctagcgagctctttcccactgttattaggtcagtgctatgaagcccctggatcacaccactagaccattgcacataga Alignment from GeneWise GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG ctatggctggttgataaattgtgaggttttagcatgttctctacccacagCAATGGGGGTCCTTCGCTCTCGCTCTAGCTGTCCTAGGGTTGGGCTGCCTAGGTGTGCCTTCACATGTATCACCATTTTCTCTAGCGAGCTCTTTCCCACTGTTATTAGgtcagtgctatgaagcccctggatcacaccactagaccattgcacataga #### Slc22a12_ID1791_6 --> 0 - 2 Original Alignment GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGC-ACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCtg tgggggagaaacttgaagtgaaaattgatggggctgctcctctgtttcagGTCCTATGGTCAGCTATGGACAAAGAACCAAGCAGAGACCAGGCCTGCGCCAGTATTAGCCACTTTACTCCACACACCTGGTCTGCGTC-CCGTAGTATTATCTCTATGCTGTGTctgtatggtcatcactacaatggtttgcaagcaagagcagttccccagttat Alignment from CESAR GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGT-CTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCtg tgggggagaaacttgaagtgaaaattgatggggctgctcctctgtttcagGTCCTATGGTCAGCTATGGACAAAGAACCAAGCAGAGACCAGGCCTGCGCCAGTATTAGCCACTTTACTCCACACACCTGGTCTGCGT-CCCGTAGTATTATCTCTATGCTGTGTctgtatggtcatcactacaatggtttgcaagcaagagcagttccccagttat Alignment from Spaln_aa2Genome GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTG tgggggagaaacttgaagtgaaaattgatggggctgctcctctgtttcagGTCCTATGGTCAGCTATGGACAAAGAACCAAGCAGAGACCAGGCCTGCGCCAGTATTAGCCACTTTACTCCACACACCTGGTCTGCGTCCCGTAGTATTATCTCTATGCTGTGTCTgtatggtcatcactacaatggtttgcaagcaagagcagttccccagttat Alignment from Spaln_nt2Genome GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGC-ACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTG tgggggagaaacttgaagtgaaaattgatggggctgctcctctgtttcagGTCCTATGGTCAGCTATGGACAAAGAACCAAGCAGAGACCAGGCCTGCGCCAGTATTAGCCACTTTACTCCACACACCTGGTCTGCGTC-CCGTAGTATTATCTCTATGCTGTGTCTgtatggtcatcactacaatggtttgcaagcaagagcagttccccagttat Alignment from Pairagon GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGT-CTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTG tgggggagaaacttgaagtgaaaattgatggggctgctcctctgtttcagGTCCTATGGTCAGCTATGGACAAAGAACCAAGCAGAGACCAGGCCTGCGCCAGTATTAGCCACTTTACTCCACACACCTGGTCTGCGTC-CCGTAGTATTATCTCTATGCTGTGTCTgtatggtcatcactacaatggtttgcaagcaagagcagttccccagttat Alignment from Exonerate_protein2genome GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTG tgggggagaaacttgaagtgaaaattgatggggctgctcctctgtttcagGTCCTATGGTCAGCTATGGACAAAGAACCAAGCAGAGACCAGGCCTGCGCCAGTATTAGCCACTTTACTCCACACACCTGGTCTGCGTCCCGTAGTATTATCTCTATGCTGTGTCTgtatggtcatcactacaatggtttgcaagcaagagcagttccccagttat Alignment from Exonerate_coding2genome tgggggagaaacttgaagtgaaaattgatggggctgctcctctgtttcaggtcctatggtcagctatggacaaagaaccaagcagagaccaggcctgcgccagtattagccactttactccacacacctggtctgcgtcccgtagtattatctctatgctgtgtctgtatggtcatcactacaatggtttgcaagcaagagcagttccccagttat Alignment from GeneWise GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTG tgggggagaaacttgaagtgaaaattgatggggctgctcctctgtttcagGTCCTATGGTCAGCTATGGACAAAGAACCAAGCAGAGACCAGGCCTGCGCCAGTATTAGCCACTTTACTCCACACACCTGGTCTGCGTCCCGTAGTATTATCTCTATGCTGTGTCTgtatggtcatcactacaatggtttgcaagcaagagcagttccccagttat #### Slc22a12_ID1794_3 --> 1 - 1 Original Alignment gTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTAT---------------CTTCTGGTGTCCGTGTCCGGCACA-GCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCt gttatccatagaactattactgcgcctcaacaagggtgcccggctgtcaggTTCGGCTGCAGAAGGGTCCTGACCTGGAGCTACCTGACCTGGAGCTACCTTTTGGTGTCTGTGTCTGTCACACGGTGCCGCTTTCATGCCCACCTTTCCACTGCATTGTCTGTATT-TTTACTACTAGCCTCCTCAGTGGCTGGTATCATGATGAATACAGCCAGTCTTtgtgaggcaagtggtttctggctgacaggatgatttatcacacttcactca Alignment from CESAR gTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTAT---------------CTTCTGGTGTCCGTGTCCGGCACA-GCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCt gttatccatagaactattactgcgcctcaacaagggtgcccggctgtcaggTTCGGCTGCAGAAGGGTCCTGACCTGGAGCTACCTGACCTGGAGCTACCTTTTGGTGTCTGTGTCTGTCACACGGTGCCGCTTTCATGCCCACCTTTCCACTGCATTGTCTGTAT-TTTTACTACTAGCCTCCTCAGTGGCTGGTATCATGATGAATACAGCCAGTCTTtgtgaggcaagtggtttctggctgacaggatgatttatcacacttcactca Alignment from Spaln_aa2Genome GTTTGGGCGCAGAAGGGTG---------------CTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT gttatccatagaactattactgcgcctcaacaagggtgcccggctgtcagGTTCGGCTGCAGAAGGGTCCTGACCTGGAGCTACCTGACCTGGAGCTACCTTTTGGTGTCTGTGTCTGTCACACGGTGCCGCTTTCATGCCCACCTTTCCACTGCATTGTCTGTATTTTTACTACTAGCCTCCTCAGTGGCTGGTATCATGATGAATACAGCCAGTCTTTgtgaggcaagtggtttctggctgacaggatgatttatcacacttcactca Alignment from Spaln_nt2Genome GTTTGGGCGCAGAAGGGTG---------------CTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACA-GCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT gttatccatagaactattactgcgcctcaacaagggtgcccggctgtcagGTTCGGCTGCAGAAGGGTCCTGACCTGGAGCTACCTGACCTGGAGCTACCTTTTGGTGTCTGTGTCTGTCACACGGTGCCGCTTTCATGCCCACCTTTCCACTGCATTGTCTGTAT-TTTTACTACTAGCCTCCTCAGTGGCTGGTATCATGATGAATACAGCCAGTCTTTgtgaggcaagtggtttctggctgacaggatgatttatcacacttcactca Alignment from Pairagon GTTTGGGCGCAGAAGGGTGCTGACCTG---------------GAGCTATCTTCTGGTGTCCGTGTCCGGCACA-GCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT gttatccatagaactattactgcgcctcaacaagggtgcccggctgtcagGTTCGGCTGCAGAAGGGTCCTGACCTGGAGCTACCTGACCTGGAGCTACCTTTTGGTGTCTGTGTCTGTCACACGGTGCCGCTTTCATGCCCACCTTTCCACTGCATTGTCTGTATT-TTTACTACTAGCCTCCTCAGTGGCTGGTATCATGATGAATACAGCCAGTCTTTgtgaggcaagtggtttctggctgacaggatgatttatcacacttcactca Alignment from Exonerate_protein2genome GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACA-GCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTC--CTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT gttatccatagaactattactgcgcctcaacaagggtgcccggctgtcaggttcggctgcagaagGGTCCTGACCTGGAGCTACCTGACCTGGAGCTACCTTTTGGTGTCTGTGTCTGTCACACGGTGCCGCTTTCATGCCCACCTTTCCACTGCATTGTCTGTAT---TTTTACTACTAGCCTCCTCAGTGGCTGGTATCATGATGAATACAGCCAGTCTTTgtgaggcaagtggtttctggctgacaggatgatttatcacacttcactca Alignment from Exonerate_coding2genome GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACA-GCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTC--CTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT gttatccatagaactattactgcgcctcaacaagggtgcccggctgtcaggttcggctgcagaagGGTCCTGACCTGGAGCTACCTGACCTGGAGCTACCTTTTGGTGTCTGTGTCTGTCACACGGTGCCGCTTTCATGCCCACCTTTCCACTGCATTGTCTGTAT---TTTTACTACTAGCCTCCTCAGTGGCTGGTATCATGATGAATACAGCCAGTCTTTgtgaggcaagtggtttctggctgacaggatgatttatcacacttcactca Alignment from GeneWise GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTT---------------CTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT gttatccatagaactattactgcgcctcaacaagggtgcccggctgtcagGTTCGGCTGCAGAAGGGTCCTGACCTGGAGCTACCTGACCTGGAGCTACCTTTTGGTGTCTGTGTCTGTCACACGGTGCCGCTTTCATGCCCACCTTTCCACTGCATTGTCTGTATTTTTACTACTAGCCTCCTCAGTGGCTGGTATCATGATGAATACAGCCAGTCTTTgtgaggcaagtggtttctggctgacaggatgatttatcacacttcactca #### Slc22a20_ID1344_9 --> 1 - 2 Original Alignment gCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGA-ATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGAcg gacttaatcatctctagaccaggtccttcatctctgctgttgtactccaggCAAATGGGTATGGAGTTGGCTTCTGTCAATGCT---ATTGGAGGTTTGGTGCTCCCATTGATTACATCATTAGGCGAAATCAGCCCAGTACTGCCACCTGTATTTTCTGGTGCTACATCTGTTCTAGCTGGCCATGGCTGTAGCTTGCTTCCTAACA---ACTC-TAATGTGCCACTAGTCGAAATTATCACCGCAATGGAGAGAcggtaaagacactcttatgatgaccagcaacacttgtgtcatgtgggcatac Alignment from CESAR gCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGA-ATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGAcg gacttaatcatctctagaccaggtccttcatctctgctgttgtactccaggCAAATGGGTATGGAGTTGGCTTCTGTCAATGCT---ATTGGAGGTTTGGTGCTCCCATTGATTACATCATTAGGCGAAATCAGCCCAGTACTGCCACCTGTATTTTCTGGTGCTACATCTGTTCTAGCTGGCCATGGCTGTAGCTTGCTTCCTAACA---ACT-CTAATGTGCCACTAGTCGAAATTATCACCGCAATGGAGAGAcggtaaagacactcttatgatgaccagcaacacttgtgtcatgtgggcatac Alignment from Spaln_aa2Genome GCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGACG gacttaatcatctctagaccaggtccttcatctctgctgttgtactccagGCAAATGGGTATGGAGTTGGCTTCTGTCAATGCT---ATTGGAGGTTTGGTGCTCCCATTGATTACATCATTAGGCGAAATCAGCCCAGTACTGCCACCTGTATTTTCTGGTGCTACATCTGTTCTAGCTGGCCATGGCTGTAGC---TTGCTTCCTAACAACTCTAATGTGCCACTAGTCGAAATTATCACCGCAATGGAGAGACGgtaaagacactcttatgatgaccagcaacacttgtgtcatgtgggcatac Alignment from Spaln_nt2Genome GCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGA-ATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGACG gacttaatcatctctagaccaggtccttcatctctgctgttgtactccagGCAAATGGGTATGGAGTTGGCTTCTGTCAATGC---TATTGGAGGTTTGGTGCTCCCATTGATTACATCATTAGGCGAAATCAGCCCAGTACTGCCACCTGTATTTTCTGGTGCTACATCTGTTCTAGCTGGCCATGGCTGTAGCTTGCTTCCTAAC----AACTCTAATGTGCCACTAGTCGAAATTATCACCGCAATGGAGAGACGgtaaagacactcttatgatgaccagcaacacttgtgtcatgtgggcatac Alignment from Pairagon GCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGG-AATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGACG gacttaatcatctctagaccaggtccttcatctctgctgttgtactccagGCAAATGGGTATGGAGTTGGCTTCTGTCAATGC---TATTGGAGGTTTGGTGCTCCCATTGATTACATCATTAGGCGAAATCAGCCCAGTACTGCCACCTGTATTTTCTGGTGCTACATCTGTTCTAGCTGGCCATGGCTGTAGCTTGCTTCCTAAC----AACTCTAATGTGCCACTAGTCGAAATTATCACCGCAATGGAGAGACGgtaaagacactcttatgatgaccagcaacacttgtgtcatgtgggcatac Alignment from Exonerate_protein2genome GCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGACG gacttaatcatctctagaccaggtccttcatctctgctgttgtactccagGCAAATGGGTATGGAGTTGGCTTCTGTCAATGCT---ATTGGAGGTTTGGTGCTCCCATTGATTACATCATTAGGCGAAATCAGCCCAGTACTGCCACCTGTATTTTCTGGTGCTACATCTGTTCTAGCTGGCCATGGCTGTAGC---TTGCTTCCTAACAACTCTAATGTGCCACTAGTCGAAATTATCACCGCAATGGAGAGACGgtaaagacactcttatgatgaccagcaacacttgtgtcatgtgggcatac Alignment from Exonerate_coding2genome gacttaatcatctctagaccaggtccttcatctctgctgttgtactccaggcaaatgggtatggagttggcttctgtcaatgctattggaggtttggtgctcccattgattacatcattaggcgaaatcagcccagtactgccacctgtattttctggtgctacatctgttctagctggccatggctgtagcttgcttcctaacaactctaatgtgccactagtcgaaattatcaccgcaatggagagacggtaaagacactcttatgatgaccagcaacacttgtgtcatgtgggcatac Alignment from GeneWise GCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGACG gacttaatcatctctagaccaggtccttcatctctgctgttgtactccagGCAAATGGGTATGGAGTTGGCTTCTGTCAATGCT---ATTGGAGGTTTGGTGCTCCCATTGATTACATCATTAGGCGAAATCAGCCCAGTACTGCCACCTGTATTTTCTGGTGCTACATCTGTTCTAGCTGGCCATGGCTGTAGC---TTGCTTCCTAACAACTCTAATGTGCCACTAGTCGAAATTATCACCGCAATGGAGAGACGgtaaagacactcttatgatgaccagcaacacttgtgtcatgtgggcatac #### Slc22a20_ID1345_8 --> 2 - 2 Original Alignment atCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGC-TGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCag ataccagtacatgtaagtccagcctagagcgttgttctttaaattttcaggtCAGCAAATGTTGCGAACTGTGCCAGCTGAACTAGGGAAGGGCCTGTCTGTTGAGTTCATTTATCTGTGTGTACCTTTTTATAGGGG-ACTATATCCA------ATCaggttagtccaggacttaatcatctctagaccaggtcctttatgctttctgt Alignment from CESAR atCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGC-TGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCag ataccagtacatgtaagtccagcctagagcgttgttctttaaattttcaggtCAGCAAATGTTGCGAACTGTGCCAGCTGAACTAGGGAAGGGCCTGTCTGTTGAGTTCATTTATCTGTGTGTACCTTTTTATAGGGG-ACTATATCCA------ATCaggttagtccaggacttaatcatctctagaccaggtccttcatctctgctgt Alignment from Spaln_aa2Genome ATCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGC-TGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCAG ataccagtacatgtaagtccagcctagagcgttgttctttaaattttcagGTCAGCAAATGTTGCGAACTGTGCCAGCTGAACTAGGGAAGGGCcTGTCTGTTGAGTTCATTTATCTGTGTGTACCTTTTTATAGGGGAC---TATATCCAATCAGGTTAgtccaggacttaatcatctctagaccaggtcctttatgctttctgt Alignment from Spaln_nt2Genome ATCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGC-TGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCAG ataccagtacatgtaagtccagcctagagcgttgttctttaaattttcagGTCAGCAAATGTTGCGAACTGTGCCAGCTGAACTAGGGAAGGGCCTGTCTGTTGAGTTCATTTATCTGTGTGTACCTTTTTATAGG-GGACTATATCC------AATCAGgttagtccaggacttaatcatctctagaccaggtcctttatgctttctgt Alignment from Pairagon ataccagtacatgtaagtccagcctagagcgttgttctttaaattttcaggtcagcaaatgttgcgaactgtgccagctgaactagggaagggcctgtctgttgagttcatttatctgtgtgtacctttttataggggactatatccaatcaggttagtccaggacttaatcatctctagaccaggtcctttatgctttctgt Alignment from Exonerate_protein2genome ATCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGC-TGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGA ataccagtacatgtaagtccagcctagagcgttgttctttaaattttcagGTCAGCAAATGTTGCGAACTGTGCCAGCTGAACTAGGGAAGGGCCTGTCTGTTGAGTTCATTTATCTGTGTGTACCTTTTTATAGGGGAC---TATATCCAATCAGgttagtccaggacttaatcatctctagaccaggtcctttatgctttctgt Alignment from Exonerate_coding2genome ataccagtacatgtaagtccagcctagagcgttgttctttaaattttcaggtcagcaaatgttgcgaactgtgccagctgaactagggaagggcctgtctgttgagttcatttatctgtgtgtacctttttataggggactatatccaatcaggttagtccaggacttaatcatctctagaccaggtcctttatgctttctgt Alignment from GeneWise ATCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATC------TGCGTGTATCTGTTCACGGGAGAACTCTATCCC------------------------------------------------------A ataccagtacatgtaagtccagcctagagcgttgttctttaaattttcagGTCAGCAAATGTTGCGAACTGTGCCAGCTGAACTAGGGAAGGGC---CTGTCTGTTGAGTTCATTTATCTGTGTGTACCTTTTTATAGGGGA---CTATATCCAATCAGGTTAGTCCAGGACTTAATCATCTCTAGACCAGGTCCTTTATGCTTTCTGT #### Slc22a20_ID1351_2 --> 0 - 2 Original Alignment TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCC-ATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACag gcttaaccacacaaccatagcgcagtgagtccccttctctcccatcccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCATCTCATCTATATGTCTGGAATATCAGTAGGCGCTGCCTTGTTTG-TTGTGTAGCAGACaggtagggaacttggacgggaacatctattcccttactcttaattgtaagtt Alignment from CESAR TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCC-ATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACag gcttaaccacacaaccatagcgcagtgagtccccttctctcccatcccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCATCTCATCTATATGTCTGGAATATCAGTAGGCGCTGCCTTGTTT-GTTGTGTAGCAGACaggtagggaacttggacgggaacatctattcccttactcttaattgtaagtt Alignment from Spaln_aa2Genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCC-ATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gcttaaccacacaaccatagcgcagtgagtccccttctctcccatcccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCATCTcATCTATATGTCTGGAATATCAGTAGGCGCTGCCTTGTTTGT-TGTGTAGCAGACAGgtagggaacttggacgggaacatctattcccttactcttaattgtaagtt Alignment from Spaln_nt2Genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTC-CATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gcttaaccacacaaccatagcgcagtgagtccccttctctcccatcccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCATCTCATCTATATGTCTGGAATATCAGTAGGCGCTGCCTTGTTT-GTTGTGTAGCAGACAGgtagggaacttggacgggaacatctattcccttactcttaattgtaagtt Alignment from Pairagon TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTC-CATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gcttaaccacacaaccatagcgcagtgagtccccttctctcccatcccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCATCTCATCTATATGTCTGGAATATCAGTAGGCGCTGCCTTGTTT-GTTGTGTAGCAGACAGgtagggaacttggacgggaacatctattcccttactcttaattgtaagtt Alignment from Exonerate_protein2genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gcttaaccacacaaccatagcgcagtgagtccccttctctcccatcccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCATCTCATCTATATGTCTGGAATATCAGTAGGCGCTGCCTTGTTTGTTGTGTAGCAGACAGgtagggaacttggacgggaacatctattcccttactcttaattgtaagtt Alignment from Exonerate_coding2genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gcttaaccacacaaccatagcgcagtgagtccccttctctcccatcccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCATCTCATCTATATGTCTGGAATATCAGTAGGCGCTGCCTTGTTTGTTGTGTAGCAGACAGgtagggaacttggacgggaacatctattcccttactcttaattgtaagtt Alignment from GeneWise TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gcttaaccacacaaccatagcgcagtgagtccccttctctcccatcccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCATCTCATCTATATGTCTGGAATATCAGTAGGCGCTGCCTTGTTTGTTGTGTAGCAGACAGgtagggaacttggacgggaacatctattcccttactcttaattgtaagtt #### Slc22a26_ID2221_4 --> 2 - 2 Original Alignment tgTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGG-CACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAag cttccacagtacaaaaccccccctaaagattgacaaaagctctttttcagtgTTAGAATGGACAAGCCCTAAAACCCGAGCATGGGTGACCACGCTGTCAACAAGCCCTCATCATTTTGGAGGCCTTATTTTGGCAGGATTGGCATTTGCATTTCAAAATTGGCCACCACCTCCAGCTT---GTATCTGTGCCTATTTTCGTTT-GCTTGTACCAACAaggtaagtcacaagaattcttatacaccattctgtccaacggtccattagag Alignment from CESAR tgTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGG-CACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAag cttccacagtacaaaaccccccctaaagattgacaaaagctctttttcagtgTTAGAATGGACAAGCCCTAAAACCCGAGCATGGGTGACCACGCTGTCAACAAGCCCTCATCATTTTGGAGGCCTTATTTTGGCAGGATTGGCATTTGCATTTCAAAATTGGCCACCACCTCCAGCTT---GTATCTGTGCCTATTTTCG-TTTGCTTGTACCAACAaggtaagtcacaagaattcttatacaccattctgtccaacggtccattagag Alignment from Spaln_aa2Genome TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAAG cttccacagtacaaaaccccccctaaagattgacaaaagctctttttcagTGTTAGAATGGACAAGCCCTAAAACCCGAGCATGGGTGACCACGCTGTCAACAAGCCCTCATCATTTTGGAGGCCTTATTTTGGCAGGATTGGCATTTGCATTTCAAAATTGGCCACCACCTCCAGCTTGTATCTGT---GCCTATTTTCGTTTGCTTGTACCAACAAGgtaagtcacaagaattcttatacaccattctgtccaacggtccattagag Alignment from Spaln_nt2Genome TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGC-ACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAAG cttccacagtacaaaaccccccctaaagattgacaaaagctctttttcagTGTTAGAATGGACAAGCCCTAAAACCCGAGCATGGGTGACCACGCTGTCAACAAGCCCTCATCATTTTGGAGGCCTTATTTTGGCAGGATTGGCATTTGCATTTCAAAATTGGCCACCACCTCCAGCTTG---TATCTGTGCCTATTTTCGT-TTGCTTGTACCAACAAGgtaagtcacaagaattcttatacaccattctgtccaacggtccattagag Alignment from Pairagon TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGG-CACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAAG cttccacagtacaaaaccccccctaaagattgacaaaagctctttttcagTGTTAGAATGGACAAGCCCTAAAACCCGAGCATGGGTGACCACGCTGTCAACAAGCCCTCATCATTTTGGAGGCCTTATTTTGGCAGGATTGGCATTTGCATTTCAAAATTGGCCACCACCTCCAGCTTG---TATCTGTGCCTATTTTCGT-TTGCTTGTACCAACAAGgtaagtcacaagaattcttatacaccattctgtccaacggtccattagag Alignment from Exonerate_protein2genome TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAAG cttccacagtacaaaaccccccctaaagattgacaaaagctctttttcagTGTTAGAATGGACAAGCCCTAAAACCCGAGCATGGGTGACCACGCTGTCAACAAGCCCTCATCATTTTGGAGGCCTTATTTTGGCAGGATTGGCATTTGCATTTCAAAATTGGCCACCACCTCCAGCTTGTATCTGTGCC---TATTTTCGTTTGCTTGTACCAACAAGgtaagtcacaagaattcttatacaccattctgtccaacggtccattagag Alignment from Exonerate_coding2genome TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAAG cttccacagtacaaaaccccccctaaagattgacaaaagctctttttcagTGTTAGAATGGACAAGCCCTAAAACCCGAGCATGGGTGACCACGCTGTCAACAAGCCCTCATCATTTTGGAGGCCTTATTTTGGCAGGATTGGCATTTGCATTTCAAAATTGGCCACCACCTCCAGCTTGTATCTGTGCC---TATTTTCGTTTGCTTGTACCAACAAGgtaagtcacaagaattcttatacaccattctgtccaacggtccattagag Alignment from GeneWise TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAAG cttccacagtacaaaaccccccctaaagattgacaaaagctctttttcagTGTTAGAATGGACAAGCCCTAAAACCCGAGCATGGGTGACCACGCTGTCAACAAGCCCTCATCATTTTGGAGGCCTTATTTTGGCAGGATTGGCATTTGCATTTCAAAATTGGCCACCACCTCCAGCTTGTATCTGTGCC---TATTTTCGTTTGCTTGTACCAACAAGgtaagtcacaagaattcttatacaccattctgtccaacggtccattagag #### Slc22a6_ID2281_2 --> 0 - 2 Original Alignment TGGAACCTTGTGTGCTCTCATCGG-GCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATG---ATGTTTGGCTACCTGGCGGACag gctactaaaattgacatatttcagtgcagagttatgtttgttctgcccagTGGAACCTT---TGCTCCCATAGACGCCTTTCACCGATTGGCCCAGTCACTGTTCATGGTAG-AGTG---TTTGGTGCCATGATGTTGTTTGGTTACCTTTCAGATaggttggctaacaagtattcatgcacggggtagatgaacccattatagccca Alignment from CESAR TGGAACCTTGTGTGCTCTCATCGG-GCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATG---TTTGGCTACCTGGCGGACag gctactaaaattgacatatttcagtgcagagttatgtttgttctgcccagTGGAACCTT---TGCTCCCATAGACGCCTTTCACCGATTGGCCCAGTCACTGTTCATGGTA-GAGTGTTT---GGTGCCATGATGTTGTTTGGTTACCTTTCAGATaggttggctaacaagtattcatgcacggggtagatgaacccattatagccca Alignment from Spaln_aa2Genome TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAG gctactaaaattgacatatttcagtgcagagttatgtttgttctgcccagTGGAACCTT---TGCTCCCATAGACGCCTTTCACCGATTGGCCCAgtcactgttcatggtagagtgtttggtgccatgatgttgtttggttacctttcagataggttggctaacaagtattcatgcacggggtagatgaacccattatagccca Alignment from Spaln_nt2Genome TGGAACCTTGTGTGCTCTCATCGG-GCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATGTT---TGGCTACCTGGCGGACAG gctactaaaattgacatatttcagtgcagagttatgtttgttctgcccagTGGAACCTT---TGCTCCCATAGACGCCTTTCACCGATTGGCCCAGTCACTGTTCATGGT-AGAGTGT---TTGGTGCCATGATGTTGTTTGGTTACCTTTCAGATAGgttggctaacaagtattcatgcacggggtagatgaacccattatagccca Alignment from Pairagon TGGAACCTTGTGTGCTCTCATCGG-GCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGA---TGTTTGGCTACCTGGCGGACAG gctactaaaattgacatatttcagtgcagagttatgtttgttctgcccagTGGAACCTT---TGCTCCCATAGACGCCTTTCACCGATTGGCCCAGTCACTGTTCATGGT-AGAGTGT---TTGGTGCCATGATGTTGTTTGGTTACCTTTCAGATAGgttggctaacaagtattcatgcacggggtagatgaacccattatagccca Alignment from Exonerate_protein2genome TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATGTTTGGCTACCTGGCGGACAG gctactaaaattgacatatttcagtgcagagttatgtttgttctgcccagTGGAACCTT---TGCTCCCATAGACGCCTTTCACCGATTGGCCCAGTCACTGTTCATGGTAGAGTGTTTGGTGCCATGATGTTGTTTGGTTACCTTTCAGATAGgttggctaacaagtattcatgcacggggtagatgaacccattatagccca Alignment from Exonerate_coding2genome gctactaaaattgacatatttcagtgcagagttatgtttgttctgcccagtggaacctttgctcccatagacgcctttcaccgattggcccagtcactgttcatggtagagtgtttggtgccatgatgttgtttggttacctttcagataggttggctaacaagtattcatgcacggggtagatgaacccattatagccca Alignment from GeneWise gctactaaaattgacatatttcagtgcagagttatgtttgttctgcccagtggaacctttgctcccatagacgcctttcaccgattggcccagtcactgttcatggtagagtgtttggtgccatgatgttgtttggttacctttcagataggttggctaacaagtattcatgcacggggtagatgaacccattatagccca #### Slc22a8_ID2270_3 --> 1 - 1 Original Alignment gTTTGGCCGCAAGCCCATCCTGACCTGGAGCTATCTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCC---AGCCTCACTGTC----TATATGATCTTCCGATTCCTGTGTGGCTGCAGCATCTCGGGCATTTCTCTG---AGCACCATTATCTTGa gatggccccaaaagcatgttgtcaagccacctcctcctccttctcctcagaTTTGGTCACCAGCCCATTCTTACCTGGAGTTATTTGTTGCTAACTGCAAGTGCTTGCAGTGGTGTTTTTAGCCCCACTAGCCTTACCATTTTTCTATATTCTTTTCCAAGTTCTATGCAGTTGCAGCA-CTCAGGCATTTCTTTGAGGTGTACAACTACTCTAagtgagaccatagtattgctagagcaggcactttatgtggccttgggtagg Alignment from CESAR gTTTGGCCGCAAGCCCATCCTGACCTGGAGCTATCTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCC---AGCCTCACTGTC----TATATGATCTTCCGATTCCTGTGTGGCTGCAGCATCTCGGGCATTTCTCTG---AGCACCATTATCTTGa gatggccccaaaagcatgttgtcaagccacctcctcctccttctcctcagaTTTGGTCACCAGCCCATTCTTACCTGGAGTTATTTGTTGCTAACTGCAAGTGCTTGCAGTGGTGTTTTTAGCCCCACTAGCCTTACCATTTTTCTATATTCTTTTCCAAGTTCTATGCAGTTGCAGC-ACTCAGGCATTTCTTTGAGGTGTACAACTACTCTAagtgagaccatagtattgctagagcaggcactttatgtggccttgggtagg Alignment from Spaln_aa2Genome GTTTGGCCGCAAGCCCATCCTGACCTGGAGCTATCTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCCAGCCTCACTGTCTATATGATCTTCCGATTCCTGTGTGGCTGCAGCATC------TCGGGCATTTCTCTG---AGCACCATTATCTTGA gatggccccaaaagcatgttgtcaagccacctcctcctccttctcctcagATTTGGTCACCAGCCCATTCTTACCTGGAGTTATTTGTTGCTAACTGCAAGTGCTTGCAGTGGTGTTTTTAGCCCCACTAGCCTTACCATTTTTCTATATTCTTTTCCAAGTTCTATGCAGTTGCAGCACTCAGGCATTTCTTTGAGGTGTACAACTACTCTAAgtgagaccatagtattgctagagcaggcactttatgtggccttgggtagg Alignment from Spaln_nt2Genome GTTTGGCCGCAAGCCCATCCTGACCTGGAGCTATCTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCCA---GCCTCAC----TGTCTATATGATCTTCCGATTCCTGTGTGGCTGCAGCATCTCGGGCATTTCTCTGAGC---ACCATTATCTTGA gatggccccaaaagcatgttgtcaagccacctcctcctccttctcctcagATTTGGTCACCAGCCCATTCTTACCTGGAGTTATTTGTTGCTAACTGCAAGTGCTTGCAGTGGTGTTTTTAGCCCCACTAGCCTTACCATTTTTCTATATTCTTTTCCAAGTTCTATGCAGTTGCAGCA-CTCAGGCATTTCTTTGAGGTGTACAACTACTCTAAgtgagaccatagtattgctagagcaggcactttatgtggccttgggtagg Alignment from Pairagon GTTTGGCCGCAAGCCCATCCTGACCTGGAGCTATCTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCC---AGCCTCAC----TGTCTATATGATCTTCCGATTCCTGTGTGGCTGCAGCATCTCGGGCATTTCTCTGAG gatggccccaaaagcatgttgtcaagccacctcctcctccttctcctcagATTTGGTCACCAGCCCATTCTTACCTGGAGTTATTTGTTGCTAACTGCAAGTGCTTGCAGTGGTGTTTTTAGCCCCACTAGCCTTACCATTTTTCTATATTCTTTTCCAAGTTCTATGCAGTTGCAGCA-CTCAGGCATTTCTTTGAGgtgtacaactactctaagtgagaccatagtattgctagagcaggcactttatgtggccttgggtagg Alignment from Exonerate_protein2genome GTTTGGCCGCAAGCCCATCCTGACCTGGAGCTATCTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCCAGCCTCACTGTCTATATGATCTTCCGATTCCTGTGTGGCTGCAGCATC------TCGGGCATTTCTCTG---AGCACCATTATCTTGA gatggccccaaaagcatgttgtcaagccacctcctcctccttctcctcagATTTGGTCACCAGCCCATTCTTACCTGGAGTTATTTGTTGCTAACTGCAAGTGCTTGCAGTGGTGTTTTTAGCCCCACTAGCCTTACCATTTTTCTATATTCTTTTCCAAGTTCTATGCAGTTGCAGCACTCAGGCATTTCTTTGAGGTGTACAACTACTCTAAgtgagaccatagtattgctagagcaggcactttatgtggccttgggtagg Alignment from Exonerate_coding2genome gatggccccaaaagcatgttgtcaagccacctcctcctccttctcctcagatttggtcaccagcccattcttacctggagttatttgttgctaactgcaagtgcttgcagtggtgtttttagccccactagccttaccatttttctatattcttttccaagttctatgcagttgcagcactcaggcatttctttgaggtgtacaactactctaagtgagaccatagtattgctagagcaggcactttatgtggccttgggtagg Alignment from GeneWise GTTTGGCCGCAAGCCCATCCTGACCTGGAGCTATCTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCCAGCCTCACTGTCTATATGATCTTCCGATTCCTGTGTGGCTGCAGCATC------TCGGGCATTTCTCTGAGC---ACCATTATCTTGA gatggccccaaaagcatgttgtcaagccacctcctcctccttctcctcagATTTGGTCACCAGCCCATTCTTACCTGGAGTTATTTGTTGCTAACTGCAAGTGCTTGCAGTGGTGTTTTTAGCCCCACTAGCCTTACCATTTTTCTATATTCTTTTCCAAGTTCTATGCAGTTGCAGCACTCAGGCATTTCTTTGAGGTGTACAACTACTCTAAgtgagaccatagtattgctagagcaggcactttatgtggccttgggtagg #### Slc25a45_ID1293_4 --> 0 - 0 Original Alignment GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACC-TCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG cattccactaccaaagttttgctaatgactctctgtctcctctctcccagGTTCTAGGGTTCTTTAAAGGAATGAGTTTCCCAATAGCTACTGTAGCTCTGGTTAATTCTGTCTTGTTTGGAGTGTATAGCAACACACTCCTGGCATTAACAGCCACACTCCCATCAGGAACACCAGGTTCAGCCTCCAAGCCACACAA-TACCTTTATAGCAGGTTGTACAGGGGGTCTCCGGCAGgtgagtatatcatggttgaaggataactcacataccctgagtttgaagaa Alignment from CESAR GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACC-TCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG cattccactaccaaagttttgctaatgactctctgtctcctctctcccagGTTCTAGGGTTCTTTAAAGGAATGAGTTTCCCAATAGCTACTGTAGCTCTGGTTAATTCTGTCTTGTTTGGAGTGTATAGCAACACACTCCTGGCATTAACAGCCACACTCCCATCAGGAACACCAGGTTCAGCCTCCAAGCCACA-CAATACCTTTATAGCAGGTTGTACAGGGGGTCTCCGGCAGgtgagtatatcatggttgaaggataactcacataccctgagtttgaagaa Alignment from Spaln_aa2Genome GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG cattccactaccaaagttttgctaatgactctctgtctcctctctcccagGTTCTAGGGTTCTTTAAAGGAATGAGTTTCCCAATAGCTACTGTAGCTCTGGTTAATTCTGTCTTGTTTGGAGTGTATAGCAACACACTCCTGGCATTAACAGCCACACTCCCATCAGGAACACCAGGTTCAGCCTCCAAGCCACACAATACCTTTATAGCAGGTTGTACAGGGGGTCTCCGGCAGgtgagtatatcatggttgaaggataactcacataccctgagtttgaagaa Alignment from Spaln_nt2Genome GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCAC-CTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG cattccactaccaaagttttgctaatgactctctgtctcctctctcccagGTTCTAGGGTTCTTTAAAGGAATGAGTTTCCCAATAGCTACTGTAGCTCTGGTTAATTCTGTCTTGTTTGGAGTGTATAGCAACACACTCCTGGCATTAACAGCCACACTCCCATCAGGAACACCAGGTTCAGCCTCCAAGCCACAC-AATACCTTTATAGCAGGTTGTACAGGGGGTCTCCGGCAGgtgagtatatcatggttgaaggataactcacataccctgagtttgaagaa Alignment from Pairagon GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCAC-CTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG cattccactaccaaagttttgctaatgactctctgtctcctctctcccagGTTCTAGGGTTCTTTAAAGGAATGAGTTTCCCAATAGCTACTGTAGCTCTGGTTAATTCTGTCTTGTTTGGAGTGTATAGCAACACACTCCTGGCATTAACAGCCACACTCCCATCAGGAACACCAGGTTCAGCCTCCAAGCCACAC-AATACCTTTATAGCAGGTTGTACAGGGGGTCTCCGGCAGgtgagtatatcatggttgaaggataactcacataccctgagtttgaagaa Alignment from Exonerate_protein2genome GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG cattccactaccaaagttttgctaatgactctctgtctcctctctcccagGTTCTAGGGTTCTTTAAAGGAATGAGTTTCCCAATAGCTACTGTAGCTCTGGTTAATTCTGTCTTGTTTGGAGTGTATAGCAACACACTCCTGGCATTAACAGCCACACTCCCATCAGGAACACCAGGTTCAGCCTCCAAGCCACACAATACCTTTATAGCAGGTTGTACAGGGGGTCTCCGGCAGgtgagtatatcatggttgaaggataactcacataccctgagtttgaagaa Alignment from Exonerate_coding2genome CGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCAGTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG CATTCCACTACCAAAGTTTTGCTAATGACTCTCTGTCTCCTCTCTCCCAGGTTCTAGGGTTCTTTAAAGGAATGAGTTTCCCAATAGCTACTGTAGCTCTGGTTAATTCTGTCTTGTTTGGAGTGTATAGCAACACACTCCTGGCATTAACAGCCACACTCCCATCAGGAACACCAGGTTCAGCCTCCAAGCCACACAATACCTTTATAGCAGGTTGTACAGGGGGTCTCCGGCAGgtgagtatatcatggttgaaggataactcacataccctgagtttgaagaa Alignment from GeneWise GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG cattccactaccaaagttttgctaatgactctctgtctcctctctcccagGTTCTAGGGTTCTTTAAAGGAATGAGTTTCCCAATAGCTACTGTAGCTCTGGTTAATTCTGTCTTGTTTGGAGTGTATAGCAACACACTCCTGGCATTAACAGCCACACTCCCATCAGGAACACCAGGTTCAGCCTCCAAGCCACACAATACCTTTATAGCAGGTTGTACAGGGGGTCTCCGGCAGgtgagtatatcatggttgaaggataactcacataccctgagtttgaagaa #### Slc29a2_ID788_2 --> 1 - 0 Original Alignment cTACCACCTGGTT-GGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG gtgaaatctgatggatggctggcagctacatgactttgtgttgtcctcagcTACCACCTCGCTCGGCATCAGCTTTTTCATTCTGGGACTAGGCACCCTTC-CCCCTGGAATTTCTTCATTACTGCGATCCCAgtaggatagtgcagtataaatgctatgaacagattctatcacacctccca Alignment from CESAR cTACCACCTGGTT-GGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG gtgaaatctgatggatggctggcagctacatgactttgtgttgtcctcagcTACCACCTCGCTCGGCATCAGCTTTTTCATTCTGGGACTAGGCACCCTT-CCCCCTGGAATTTCTTCATTACTGCGATCCCAgtaggatagtgcagtataaatgctatgaacagattctatcacacctccca Alignment from Spaln_aa2Genome CTACCACCTG-GTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG gtgaaatctgatggatggctggcagctacatgactttgtgttgtcctcagCTACCACCTCgCTCGGCATCAGCTTTTTCATTCTGGGACTAGGCACCCTTCCCCC-TGGAATTTCTTCATTACTGCGATCCCAgtaggatagtgcagtataaatgctatgaacagattctatcacacctccca Alignment from Spaln_nt2Genome CTACCACCTGGTTGGG-ATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG gtgaaatctgatggatggctggcagctacatgactttgtgttgtcctcagCTACCACCTCGCTCGGCATCAGCTTTTTCATTCTGGGACTAGGCACCCTTC-CCCCTGGAATTTCTTCATTACTGCGATCCCAgtaggatagtgcagtataaatgctatgaacagattctatcacacctccca Alignment from Pairagon CTACCACCT-GGTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG gtgaaatctgatggatggctggcagctacatgactttgtgttgtcctcagCTACCACCTCGCTCGGCATCAGCTTTTTCATTCTGGGACTAGGCACCCTTC-CCCCTGGAATTTCTTCATTACTGCGATCCCAgtaggatagtgcagtataaatgctatgaacagattctatcacacctccca Alignment from Exonerate_protein2genome CTACCACCTGGTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG gtgaaatctgatggatggctggcagctacatgactttgtgttgtcctcagCTACCACCTCGCTCGGCATCAGCTTTTTCATTCTGGGACTAGGCACCCTTCCCCCTGGAATTTCTTCATTACTGCGATCCCAgtaggatagtgcagtataaatgctatgaacagattctatcacacctccca Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG gtgaaatctgatggatggctggcagctacatgactttgtgttgtcctcagctaccacctcgCTCGGCATCAGCTTTTTCATTCTGGGACTAGGCACCCTTCC-CCCTGGAATTTCTTCATTACTGCGATCCCAgtaggatagtgcagtataaatgctatgaacagattctatcacacctccca #### Slc29a2_ID792_6 --> 2 - 0 Original Alignment gtGGCGTGGATGCCCAGACCTCTGCT-CTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacaaacaaagctggaatgggagacttgtggtctgtttgtgttttccaggtGACGTGGATGCCCAAACCTCTGCTCCTGGGATACTTCATCACACCTTGTGTGGGCATCCTAC-CCCCATTGTATGTTACCTTAGCTTGCCACACCTGgtcagtcgcttcatagtttatgttatgcatgcactgcttaaatataaaag Alignment from CESAR gtGGCGTGGATGCCCAGACCTCTGCT-CTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacaaacaaagctggaatgggagacttgtggtctgtttgtgttttccaggtGACGTGGATGCCCAAACCTCTGCTCCTGGGATACTTCATCACACCTTGTGTGGGCATCCTA-CCCCCATTGTATGTTACCTTAGCTTGCCACACCTGgtcagtcgcttcatagtttatgttatgcatgcactgcttaaatataaaag Alignment from Spaln_aa2Genome GTGGCGTGGATGCCCAGACCTCTGCT-CTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacaaacaaagctggaatgggagacttgtggtctgtttgtgttttccagGTGACGTGGATGCCCAAACCTCTGCTcCTGGGATACTTCATCACACCTTGTGTGGGCATCCTACC-CCCATTGTATGTTACCTTAGCTTGCCACACCTGgtcagtcgcttcatagtttatgttatgcatgcactgcttaaatataaaag Alignment from Spaln_nt2Genome GTGGCGTGGATGCCCAGACCTCTGCT-CTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacaaacaaagctggaatgggagacttgtggtctgtttgtgttttccagGTGACGTGGATGCCCAAACCTCTGCTCCTGGGATACTTCATCACACCTTGTGTGGGCATCCTAC-CCCCATTGTATGTTACCTTAGCTTGCCACACCTGgtcagtcgcttcatagtttatgttatgcatgcactgcttaaatataaaag Alignment from Pairagon GTGGCGTGGATGCCCAGACCTCTGCTCTT-GGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacaaacaaagctggaatgggagacttgtggtctgtttgtgttttccagGTGACGTGGATGCCCAAACCTCTGCTCCTGGGATACTTCATCACACCTTGTGTGGGCATCCTAC-CCCCATTGTATGTTACCTTAGCTTGCCACACCTGgtcagtcgcttcatagtttatgttatgcatgcactgcttaaatataaaag Alignment from Exonerate_protein2genome GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacaaacaaagctggaatgggagacttgtggtctgtttgtgttttccagGTGACGTGGATGCCCAAACCTCTGCTCCTGGGATACTTCATCACACCTTGTGTGGGCATCCTACCCCCATTGTATGTTACCTTAGCTTGCCACACCTGgtcagtcgcttcatagtttatgttatgcatgcactgcttaaatataaaag Alignment from Exonerate_coding2genome GTGGCGTGGATGCCCAGACCTCTGCTCTTGG-ATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacaaacaaagctggaatgggagacttgtggtctgtttgtgttttccagGTGACGTGGATGCCCAAACCTCTGCTCCTGGGATACTTCATCACACCTTGTGTGGGCATCCT-ACCCCCATTGTATGTTACCTTAGCTTGCCACACCTGgtcagtcgcttcatagtttatgttatgcatgcactgcttaaatataaaag Alignment from GeneWise GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacaaacaaagctggaatgggagacttgtggtctgtttgtgttttccagGTGACGTGGATGCCCAAACCTCTGCTCCTGGGATACTTCATCACACCTTGTGTGGGCATCCTACCCCCATTGTATGTTACCTTAGCTTGCCACACCTGgtcagtcgcttcatagtttatgttatgcatgcactgcttaaatataaaag #### Slc29a2_ID795_9 --> 0 - 1 Original Alignment ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTC-TTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGg tgacctgaatacttcagtgactatccagtgatggggtgtgtgtctttcagATCTGGCTGACAGCGCTGTGCCTTGTGTTAGTCCTTCACAGTTACCCTATCTGTTTTTCCTG-TATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGggtatggacttgtaatagttcacagtatggaccagaggagccagccatttc Alignment from CESAR ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTC-TTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGg tgacctgaatacttcagtgactatccagtgatggggtgtgtgtctttcagATCTGGCTGACAGCGCTGTGCCTTGTGTTAGTCCTTCACAGTTACCCTATCTGTTTTTCCT-GTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGggtatggacttgtaatagttcacagtatggaccagaggagccagccctttg Alignment from Spaln_aa2Genome ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG tgacctgaatacttcagtgactatccagtgatggggtgtgtgtctttcagATCTGGCTGACAGCGCTGTGCCTTGTGTTAGTCCTTCACAGTTACCCTATCTGTTTTTCCTGTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtatggacttgtaatagttcacagtatggaccagaggagccagccatttc Alignment from Spaln_nt2Genome ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTC-TTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG tgacctgaatacttcagtgactatccagtgatggggtgtgtgtctttcagATCTGGCTGACAGCGCTGTGCCTTGTGTTAGTCCTTCACAGTTACCCTATCTGTTTTTCCTG-TATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtatggacttgtaatagttcacagtatggaccagaggagccagccatttc Alignment from Pairagon ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGT-CTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG tgacctgaatacttcagtgactatccagtgatggggtgtgtgtctttcagATCTGGCTGACAGCGCTGTGCCTTGTGTTAGTCCTTCACAGTTACCCTATCTGTTTTTCCTG-TATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtatggacttgtaatagttcacagtatggaccagaggagccagccatttc Alignment from Exonerate_protein2genome ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG tgacctgaatacttcagtgactatccagtgatggggtgtgtgtctttcagATCTGGCTGACAGCGCTGTGCCTTGTGTTAGTCCTTCACAGTTACCCTATCTGTTTTTCCTGTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtatggacttgtaatagttcacagtatggaccagaggagccagccatttc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG tgacctgaatacttcagtgactatccagtgatggggtgtgtgtctttcagATCTGGCTGACAGCGCTGTGCCTTGTGTTAGTCCTTCACAGTTACCCTATCTGTTTTTCCTGTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtatggacttgtaatagttcacagtatggaccagaggagccagccatttc #### Slk_ID10250_6 --> 1 - 2 Original Alignment gATGGCTCCTGAAGTAGTCATGTGTGAGACATCAAAGGACAGACCTTATGACTACAAAGCTGAT-GTTTGGTCCCTGGGTATTACTTTAATAGAAATGGCTGAGATAGAGCCACCTCATCATGAGTTAAATCCAATGCGCGTGCTGCTGAAAATTGCAAAATCTGAGCCCCCAACATTAGCACAGCCATCAAAAtg acttggtaactattttcaatacctcccccagactctgctttggtttttaggATGTCTCCTGAAGTGGTCATGTGTGAAACATCCAAGGACACACCTTATGATTACAAAGCTGATCGTTTGGTCTCTGGGGATAACTTTAATAGAAATGG-TGAAATAGCACCACCTCATCATGACTTAAATCCTATGCGTGTGCTGCTGAAGATCGCAAAATTTGCACCCCCAACACTGGCCCAGCCGTCCAAGctgtatgataatgctgttgaatgaaacctaagactggttttccagatgccta Alignment from CESAR gATGGCTCCTGAAGTAGTCATGTGTGAGACATCAAAGGACAGACCTTATGACTACAAAGCTGAT-GTTTGGTCCCTGGGTATTACTTTAATAGAAATGGCTGAGATAGAGCCACCTCATCATGAGTTAAATCCAATGCGCGTGCTGCTGAAAATTGCAAAATCTGAGCCCCCAACATTAGCACAGCCATCAAAAtg acttggtaactattttcaatacctcccccagactctgctttggtttttaggATGTCTCCTGAAGTGGTCATGTGTGAAACATCCAAGGACACACCTTATGATTACAAAGCTGATCGTTTGGTCTCTGGGGATAACTTTAATAGAAATGG-TGAAATAGCACCACCTCATCATGACTTAAATCCTATGCGTGTGCTGCTGAAGATCGCAAAATTTGCACCCCCAACACTGGCCCAGCCGTCCAAGctgtatgataatgctgttgaatgaaacctaagactggttttccagatgccta Alignment from Spaln_aa2Genome GATGGCTCCTGAAGTAGTCATGTGTGAGACATCAAAGGACAGACCTTATGACTACAAAGCTGATGTTTGGTCCCTGGGTATTACTTTAATAGAAATGGCTGAGATAGAGCCACCTCATCATGAGTTAAATCCAATGCGCGTGCTGCTGAAAATTGCAAAATCTGAGCCCCCAACATTAGCACAGCCATCAAAATG acttggtaactattttcaatacctcccccagactctgctttggtttttagGATGTCTCCTGAAGTGGTCATGTGTGAAACATCCAAGGACACACCTTATGATTACAAAGCTGATCGTTTGGTCTCTGGGGATAACTTTAATAGAAATGGTGAAATAGCACCACCTCATCATGACTTAAATCCTATGCGTGTGCTGCTGAAGATCGCAAAATTTGCACCCCCAACACTGGCCCAGCCGTCCAAGCTgtatgataatgctgttgaatgaaacctaagactggttttccagatgccta Alignment from Spaln_nt2Genome GATGGCTCCTGAAGTAGTCATGTGTGAGACATCAAAGGACAGACCTTATGACTACAAAGCTGAT-GTTTGGTCCCTGGGTATTACTTTAATAGAAATGGCTGAGATAGAGCCACCTCATCATGAGTTAAATCCAATGCGCGTGCTGCTGAAAATTGCAAAATCTGAGCCCCCAACATTAGCACAGCCATCAAAATG acttggtaactattttcaatacctcccccagactctgctttggtttttagGATGTCTCCTGAAGTGGTCATGTGTGAAACATCCAAGGACACACCTTATGATTACAAAGCTGATCGTTTGGTCTCTGGGGATAACTTTAATAGAAATGG-TGAAATAGCACCACCTCATCATGACTTAAATCCTATGCGTGTGCTGCTGAAGATCGCAAAATTTGCACCCCCAACACTGGCCCAGCCGTCCAAGCTgtatgataatgctgttgaatgaaacctaagactggttttccagatgccta Alignment from Pairagon GATGGCTCCTGAAGTAGTCATGTGTGAGACATCAAAGGACAGACCTTATGACTACAAAGCTGAT-GTTTGGTCCCTGGGTATTACTTTAATAGAAATGGCTGAGATAGAGCCACCTCATCATGAGTTAAATCCAATGCGCGTGCTGCTGAAAATTGCAAAATCTGAGCCCCCAACATTAGCACAGCCATCAAAATG acttggtaactattttcaatacctcccccagactctgctttggtttttagGATGTCTCCTGAAGTGGTCATGTGTGAAACATCCAAGGACACACCTTATGATTACAAAGCTGATCGTTTGGTCTCTGGGGATAACTTTAATAGAAATGG-TGAAATAGCACCACCTCATCATGACTTAAATCCTATGCGTGTGCTGCTGAAGATCGCAAAATTTGCACCCCCAACACTGGCCCAGCCGTCCAAGCTgtatgataatgctgttgaatgaaacctaagactggttttccagatgccta Alignment from Exonerate_protein2genome GATGGCTCCTGAAGTAGTCATGTGTGAGACATCAAAGGACAGACCTTATGACTACAAAGCTGATGTTTGGTCCCTGGGTATTACTTTAATAGAAATGGCTGAGATAGAGCCACCTCATCATGAGTTAAATCCAATGCGCGTGCTGCTGAAAATTGCAAAATCTGAGCCCCCAACATTAGCACAGCCATCAAAATG acttggtaactattttcaatacctcccccagactctgctttggtttttagGATGTCTCCTGAAGTGGTCATGTGTGAAACATCCAAGGACACACCTTATGATTACAAAGCTGATCGTTTGGTCTCTGGGGATAACTTTAATAGAAATGGTGAAATAGCACCACCTCATCATGACTTAAATCCTATGCGTGTGCTGCTGAAGATCGCAAAATTTGCACCCCCAACACTGGCCCAGCCGTCCAAGCTgtatgataatgctgttgaatgaaacctaagactggttttccagatgccta Alignment from Exonerate_coding2genome GATGGCTCCTGAAGTAGTCATGTGTGAGACATCAAAGGACAGACCTTATGACTACAAAGCTGATGTTTGGTCCCTGGGTATTACTTTAATAGAAATGGCTGAGATAGAGCCACCTCATCATGAGTTAAATCCAATGCGCGTGCTGCTGAAAATTGCAAAATCTGAGCCCCCAACATTAGCACAGCCATCAAAATG acttggtaactattttcaatacctcccccagactctgctttggtttttagGATGTCTCCTGAAGTGGTCATGTGTGAAACATCCAAGGACACACCTTATGATTACAAAGCTGATCGTTTGGTCTCTGGGGATAACTTTAATAGAAATGGTGAAATAGCACCACCTCATCATGACTTAAATCCTATGCGTGTGCTGCTGAAGATCGCAAAATTTGCACCCCCAACACTGGCCCAGCCGTCCAAGCTgtatgataatgctgttgaatgaaacctaagactggttttccagatgccta Alignment from GeneWise GATGGCTCCTGAAGTAGTCATGTGTGAGACATCAAAGGACAGACCTTATGACTACAAAGCTGATGTTTGGTCCCTGGGTATTACTTTAATAGAAATGGCTGAGATAGAGCCACCTCATCATGAGTTAAATCCAATGCGCGTGCTGCTGAAAATTGCAAAATCTGAGCCCCCAACATTAGCACAGCCATCAAAATG acttggtaactattttcaatacctcccccagactctgctttggtttttagGATGTCTCCTGAAGTGGTCATGTGTGAAACATCCAAGGACACACCTTATGATTACAAAGCTGATCGTTTGGTCTCTGGGGATAACTTTAATAGAAATGGTGAAATAGCACCACCTCATCATGACTTAAATCCTATGCGTGTGCTGCTGAAGATCGCAAAATTTGCACCCCCAACACTGGCCCAGCCGTCCAAGCTgtatgataatgctgttgaatgaaacctaagactggttttccagatgccta #### Smc3_ID11322_10 --> 0 - 0 Original Alignment CTTTCTGCTAAG-CGAGAAACGAGTGGAGAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG gtttttatccaatgttcagattagatagccctgtgtgtttgaccttgtagCTTTCAGCTAAGCCAGGAAACAAGTGGAGAGAAATCAAGACAAC-AAGGGATGCACAGCAGGATACAAGAGATAAAATGGAAgtaaggtgaagcctaaggtaatacctagatgttacttttactgataatct Alignment from CESAR CTTTCTGCTAAG-CGAGAAACGAGTGGAGAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG gtttttatccaatgttcagattagatagccctgtgtgtttgaccttgtagCTTTCAGCTAAGCCAGGAAACAAGTGGAGAGAAATCAAGACAA-CAAGGGATGCACAGCAGGATACAAGAGATAAAATGGAAgtaaggtgaagcctaaggtaatacctagatgttacttttactgataatct Alignment from Spaln_aa2Genome CTTTCTGCTAAGCGAGAAACGAGTGGAGAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG gtttttatccaatgttcagattagatagccctgtgtgtttgaccttgtagctttcagCTAAGC------CAGGAAACAAGTGGAGAGAAATCAAGACAACA-AGGGATGCACAGCAGGATACAAGAGATAAAATGGAAgtaaggtgaagcctaaggtaatacctagatgttacttttactgataatct Alignment from Spaln_nt2Genome CTTTCTGCTAAGCGAG-AAACGAGTGGAGAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG gtttttatccaatgttcagattagatagccctgtgtgtttgaccttgtagCTTTCAGCTAAGCCAGGAAACAAGTGGAGAGAAATCAAGACAAC-AAGGGATGCACAGCAGGATACAAGAGATAAAATGGAAgtaaggtgaagcctaaggtaatacctagatgttacttttactgataatct Alignment from Pairagon CTTTCTGCTAAGCGA-GAAACGAGTGGAGAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG gtttttatccaatgttcagattagatagccctgtgtgtttgaccttgtagCTTTCAGCTAAGCCAGGAAACAAGTGGAGAGAAATCAAGACAAC-AAGGGATGCACAGCAGGATACAAGAGATAAAATGGAAgtaaggtgaagcctaaggtaatacctagatgttacttttactgataatct Alignment from Exonerate_protein2genome CTTTCTGCTAAGCGAGAAACGAGTGGAGAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG gtttttatccaatgttcagattagatagccctgtgtgtttgaccttgtagCTTTCAGCTAAGCCAGGAAACAAGTGGAGAGAAATCAAGACAACAAGGGATGCACAGCAGGATACAAGAGATAAAATGGAAgtaaggtgaagcctaaggtaatacctagatgttacttttactgataatct Alignment from Exonerate_coding2genome gtttttatccaatgttcagattagatagccctgtgtgtttgaccttgtagctttcagctaagccaggaaacaagtggagagaaatcaagacaacaagggatgcacagcaggatacaagagataaaatggaagtaaggtgaagcctaaggtaatacctagatgttacttttactgataatct Alignment from GeneWise CTTTCTGCTAAGCGAGAAACGAGTGGAGAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG gtttttatccaatgttcagattagatagccctgtgtgtttgaccttgtagCTTTCAGCTAAGCCAGGAAACAAGTGGAGAGAAATCAAGACAACAAGGGATGCACAGCAGGATACAAGAGATAAAATGGAAgtaaggtgaagcctaaggtaatacctagatgttacttttactgataatct #### Smc3_ID11323_11 --> 0 - 0 Original Alignment GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAA-CAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG ctcacctgcaactcagtagtgcactttctctttgtcggttgcccctacagGATACCGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCGGCCATGAAAGAAGAAAAAGAACCAGCTCAGTGCTGGAAGACAAGAACGGA-TAAGCAAAGGACAAAGTTGGAACTCAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGCgtctaccatagtgtacagcacaaaaagaaaactggtcagatttctgtgta Alignment from CESAR GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAA-CAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG ctcacctgcaactcagtagtgcactttctctttgtcggttgcccctacagGATACCGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCGGCCATGAAAGAAGAAAAAGAACCAGCTCAGTGCTGGAAGACAAGAACGGA-TAAGCAAAGGACAAAGTTGGAACTCAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGCgtctaccatagtgtacagcacaaaaagaaaactggtcagatttctgtgta Alignment from Spaln_aa2Genome GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG ctcacctgcaactcagtagtgcactttctctttgtcggttgcccctacagGATACCGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCGGCCATGAAAGAAGAAAAAGAACCAGCTCAGTGCTGGAAGACAAGAACGGATAAGCAAAGGACAAAGTTGGAACTCAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGCgtctaccatagtgtacagcacaaaaagaaaactggtcagatttctgtgta Alignment from Spaln_nt2Genome GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAA-CAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG ctcacctgcaactcagtagtgcactttctctttgtcggttgcccctacagGATACCGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCGGCCATGAAAGAAGAAAAAGAACCAGCTCAGTGCTGGAAGACAAGAACGGA-TAAGCAAAGGACAAAGTTGGAACTCAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGCgtctaccatagtgtacagcacaaaaagaaaactggtcagatttctgtgta Alignment from Pairagon GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAA-CAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG ctcacctgcaactcagtagtgcactttctctttgtcggttgcccctacagGATACCGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCGGCCATGAAAGAAGAAAAAGAACCAGCTCAGTGCTGGAAGACAAGAACGGA-TAAGCAAAGGACAAAGTTGGAACTCAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGCgtctaccatagtgtacagcacaaaaagaaaactggtcagatttctgtgta Alignment from Exonerate_protein2genome GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG ctcacctgcaactcagtagtgcactttctctttgtcggttgcccctacagGATACCGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCGGCCATGAAAGAAGAAAAAGAACCAGCTCAGTGCTGGAAGACAAGAACGGATAAGCAAAGGACAAAGTTGGAACTCAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGCgtctaccatagtgtacagcacaaaaagaaaactggtcagatttctgtgta Alignment from Exonerate_coding2genome GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG ctcacctgcaactcagtagtgcactttctctttgtcggttgcccctacagGATACCGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCGGCCATGAAAGAAGAAAAAGAACCAGCTCAGTGCTGGAAGACAAGAACGGATAAGCAAAGGACAAAGTTGGAACTCAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGCgtctaccatagtgtacagcacaaaaagaaaactggtcagatttctgtgta Alignment from GeneWise GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG ctcacctgcaactcagtagtgcactttctctttgtcggttgcccctacagGATACCGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCGGCCATGAAAGAAGAAAAAGAACCAGCTCAGTGCTGGAAGACAAGAACGGATAAGCAAAGGACAAAGTTGGAACTCAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGCgtctaccatagtgtacagcacaaaaagaaaactggtcagatttctgtgta #### Smc3_ID11337_25 --> 0 - 0 Original Alignment TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATC-ATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaagctccgaaacctacaatgtgtggactctgctcttttcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACATATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTGAACTTCTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAGCTT---AGC---CATAAGTCAGTCCATGGAACTGATGAATGTACTGGAACTAA-GAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtaagcaatagtttcttctaatgcacagcatgaatggatacacaggttgc Alignment from CESAR TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATC-ATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaagctccgaaacctacaatgtgtggactctgctcttttcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACATATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTGAACTTCTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAGCTT------AGCCATAAGTCAGTCCATGGAACTGATGAATGTACTGGAACTAA-GAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtaagcaatagtttcttctaatgcacagcatgaatggatacacaggttgc Alignment from Spaln_aa2Genome TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATC-ATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaagctccgaaacctacaatgtgtggactctgctcttttcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACATATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTGAACTTCTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAGCTT------AGCCATAAGTCAGTCcATGGAACTGATGAATGTACTGGAACTAAG-AAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtaagcaatagtttcttctaatgcacagcatgaatggatacacaggttgc Alignment from Spaln_nt2Genome TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATC-ATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaagctccgaaacctacaatgtgtggactctgctcttttcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACATATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTGAACTTCTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGA---GCTTA---GCCATAAGTCAGTCCATGGAACTGATGAATGTACTGGAACTAAG-AAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtaagcaatagtttcttctaatgcacagcatgaatggatacacaggttgc Alignment from Pairagon TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGA--------------------ATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaagctccgaaacctacaatgtgtggactctgctcttttcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACATATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTGAACTTCTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAGCTTAGCCATAAGTCAGTCCA-------------------------TGGAACTGATGAATGTACTGGAACTAAG-AAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtaagcaatagtttcttctaatgcacagcatgaatggatacacaggttgc Alignment from Exonerate_protein2genome attatattaaagctccgaaacctacaatgtgtggactctgctcttttcaggtgttccaaaaactggagcaatgcaatacagaattgaagacatatagccgtgtgaacaaaaaggcactagatcagctggtgaacttctctgagaaaaaggaaaagtcgataaaatggcaggaggagcttagccataagtcagtccatggaactgatgaatgtactggaactaagaaacatgaagctgttcatttaactttcaagcaagtaagcaatagtttcttctaatgcacagcatgaatggatacacaggttgc Alignment from Exonerate_coding2genome attatattaaagctccgaaacctacaatgtgtggactctgctcttttcaggtgttccaaaaactggagcaatgcaatacagaattgaagacatatagccgtgtgaacaaaaaggcactagatcagctggtgaacttctctgagaaaaaggaaaagtcgataaaatggcaggaggagcttagccataagtcagtccatggaactgatgaatgtactggaactaagaaacatgaagctgttcatttaactttcaagcaagtaagcaatagtttcttctaatgcacagcatgaatggatacacaggttgc Alignment from GeneWise TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaagctccgaaacctacaatgtgtggactctgctcttttcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACATATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTGAACTTCTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAGCTTAGC------CATAAGTCAGTCCATGGAACTGATGAATGTACTGGAACTAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtaagcaatagtttcttctaatgcacagcatgaatggatacacaggttgc #### Smc5_ID5113_20 --> 0 - 0 Original Alignment GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTA-TTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG tcagcatactggtatgctcattatttacttgtcttctttgtcctttgaagGCATTTGAAGATCTCCTAAACACATTGGATGAAACTGATGCATTACTTAACTGCAGAAAGATCAAGAGCTTCATGCT-CACAGAATTCAATCCTTCAgtaagtctccatattttttttgtttaccctatttccaaatgactggattc Alignment from CESAR GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTA-TTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG tcagcatactggtatgctcattatttacttgtcttctttgtcctttgaagGCATTTGAAGATCTCCTAAACACATTGGATGAAACTGATGCATTACTTAACTGCAGAAAGATCAAGAGCTTCAT-GCTCACAGAATTCAATCCTTCAgtaagtctccatattttttttgtttaccctatttccaaatgactggattc Alignment from Spaln_aa2Genome GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG tcagcatactggtatgctcattatttacttgtcttctttgtcctttgaagGCATTTGAAGATCTCCTAAACACATTGGATGAAACTGATGCATTACTTAACTGCAGAAAGATCAAGAGCTTCATGCTCACAGAATTCAATCCTTCAgtaagtctccatattttttttgtttaccctatttccaaatgactggattc Alignment from Spaln_nt2Genome GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTAT-TAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG tcagcatactggtatgctcattatttacttgtcttctttgtcctttgaagGCATTTGAAGATCTCCTAAACACATTGGATGAAACTGATGCATTACTTAACTGCAGAAAGATCAAGAGCTTCATGC-TCACAGAATTCAATCCTTCAgtaagtctccatattttttttgtttaccctatttccaaatgactggattc Alignment from Pairagon GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTA-TTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG tcagcatactggtatgctcattatttacttgtcttctttgtcctttgaagGCATTTGAAGATCTCCTAAACACATTGGATGAAACTGATGCATTACTTAACTGCAGAAAGATCAAGAGCTTCATGC-TCACAGAATTCAATCCTTCAgtaagtctccatattttttttgtttaccctatttccaaatgactggattc Alignment from Exonerate_protein2genome GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG tcagcatactggtatgctcattatttacttgtcttctttgtcctttgaagGCATTTGAAGATCTCCTAAACACATTGGATGAAACTGATGCATTACTTAACTGCAGAAAGATCAAGAGCTTCATGCTCACAGAATTCAATCCTTCAgtaagtctccatattttttttgtttaccctatttccaaatgactggattc Alignment from Exonerate_coding2genome GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG tcagcatactggtatgctcattatttacttgtcttctttgtcctttgaagGCATTTGAAGATCTCCTAAACACATTGGATGAAACTGATGCATTACTTAACTGCAGAAAGATCAAGAGCTTCATGCTCACAGAATTCAATCCTTCAgtaagtctccatattttttttgtttaccctatttccaaatgactggattc Alignment from GeneWise GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG tcagcatactggtatgctcattatttacttgtcttctttgtcctttgaagGCATTTGAAGATCTCCTAAACACATTGGATGAAACTGATGCATTACTTAACTGCAGAAAGATCAAGAGCTTCATGCTCACAGAATTCAATCCTTCAgtaagtctccatattttttttgtttaccctatttccaaatgactggattc #### Snx15_ID1465_7 --> 2 - 1 Original Alignment aaAGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGATGGAGAG-CCT------GCCCCAGCTTACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGGGTGTCTCAg ataaataggtggtccccaccccaggaagtgttgatcttatattattacagcaAGTACTGGCCCCAGCCCAACCCATCCTGGTGAGTTAACTGCGATTGAAGTTGGGGCTAAAAAACTGGATCATGAACCCTGGGAACCAGGTGGACAACAGCAGGAGGAAGCTGAGGATGGGGAACCCTGCTCCAGGTCCCCCTTATCTTGGCCAGG-AGCAGAGCTTATCACTCAAACTGTTAGAAATAAAAAGGCAGGGACCTACACTGCTGCTCTTCAAGGATACCAAGACGGTGTTCACATCCTTTTGCAGGGTGTTTCAggtaagtagtaaggtagtcctaaccatgttatcagaaataaggaaggcaat Alignment from CESAR aaAGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGATGGAGAG-CCTGCCCCA------GCTTACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGGGTGTCTCAg ataaataggtggtccccaccccaggaagtgttgatcttatattattacagcaAGTACTGGCCCCAGCCCAACCCATCCTGGTGAGTTAACTGCGATTGAAGTTGGGGCTAAAAAACTGGATCATGAACCCTGGGAACCAGGTGGACAACAGCAGGAGGAAGCTGAGGATGGGGAACCCTGCTCCAGGTCCCCCTTATCTTGGCCAG-GAGCAGAGCTTATCACTCAAACTGTTAGAAATAAAAAGGCAGGGACCTACACTGCTGCTCTTCAAGGATACCAAGACGGTGTTCACATCCTTTTGCAGGGTGTTTCAggtaagtagtaaggtagtcctaaccatgttatcagaaataaggaaggcaat Alignment from Spaln_aa2Genome AAAGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGATGGAGAGCCTGCC------CCAGCTTACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGGGTGTCTCAG ataaataggtggtccccaccccaggaagtgttgatcttatattattacagCAAGTACTGGCCCCAGCCCAACCCATCCTGGTGAGTTAACTGCGATTGAAGTTGGGGCTAAAAAACTGGATCATGAACCCTGGGAACCAGGTGGACAACAGCAGGAGGAAGCTGAGGATGGGGAACCCTGCTCCAGGTCCCCCTTATCTTGGCCAGGAGCAGAGCTTATCACTCAAACTGTTAGAAATAAAAAGGCAGGGACCTACACTGCTGCTCTTCAAGGATACCAAGACGGTGTTCACATCCTTTTGCAGGGTGTTTCAGgtaagtagtaaggtagtcctaaccatgttatcagaaataaggaaggcaat Alignment from Spaln_nt2Genome AAAGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGATGGAGAGCC-TGCCCCAG------CTTACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGGGTGTCTCAG ataaataggtggtccccaccccaggaagtgttgatcttatattattacagCAAGTACTGGCCCCAGCCCAACCCATCCTGGTGAGTTAACTGCGATTGAAGTTGGGGCTAAAAAACTGGATCATGAACCCTGGGAACCAGGTGGACAACAGCAGGAGGAAGCTGAGGATGGGGAACCCTGCTCCAGGTCCCCCTTATCTTGGCCAGG-AGCAGAGCTTATCACTCAAACTGTTAGAAATAAAAAGGCAGGGACCTACACTGCTGCTCTTCAAGGATACCAAGACGGTGTTCACATCCTTTTGCAGGGTGTTTCAGgtaagtagtaaggtagtcctaaccatgttatcagaaataaggaaggcaat Alignment from Pairagon AAAGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGATGGAGAG-CCTGCCCCAG------CTTACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGGGTGTCTCAG ataaataggtggtccccaccccaggaagtgttgatcttatattattacagCAAGTACTGGCCCCAGCCCAACCCATCCTGGTGAGTTAACTGCGATTGAAGTTGGGGCTAAAAAACTGGATCATGAACCCTGGGAACCAGGTGGACAACAGCAGGAGGAAGCTGAGGATGGGGAACCCTGCTCCAGGTCCCCCTTATCTTGGCCAGG-AGCAGAGCTTATCACTCAAACTGTTAGAAATAAAAAGGCAGGGACCTACACTGCTGCTCTTCAAGGATACCAAGACGGTGTTCACATCCTTTTGCAGGGTGTTTCAGgtaagtagtaaggtagtcctaaccatgttatcagaaataaggaaggcaat Alignment from Exonerate_protein2genome AAAGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGATGGAGAGCCTGCC------CCAGCTTACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGGGTGTCTCAG ataaataggtggtccccaccccaggaagtgttgatcttatattattacagCAAGTACTGGCCCCAGCCCAACCCATCCTGGTGAGTTAACTGCGATTGAAGTTGGGGCTAAAAAACTGGATCATGAACCCTGGGAACCAGGTGGACAACAGCAGGAGGAAGCTGAGGATGGGGAACCCTGCTCCAGGTCCCCCTTATCTTGGCCAGGAGCAGAGCTTATCACTCAAACTGTTAGAAATAAAAAGGCAGGGACCTACACTGCTGCTCTTCAAGGATACCAAGACGGTGTTCACATCCTTTTGCAGGGTGTTTCAGgtaagtagtaaggtagtcctaaccatgttatcagaaataaggaaggcaat Alignment from Exonerate_coding2genome AAAGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGATGGAGAGCCTGCC------CCAGCTTACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGGGTGTCTCAG ataaataggtggtccccaccccaggaagtgttgatcttatattattacagCAAGTACTGGCCCCAGCCCAACCCATCCTGGTGAGTTAACTGCGATTGAAGTTGGGGCTAAAAAACTGGATCATGAACCCTGGGAACCAGGTGGACAACAGCAGGAGGAAGCTGAGGATGGGGAACCCTGCTCCAGGTCCCCCTTATCTTGGCCAGGAGCAGAGCTTATCACTCAAACTGTTAGAAATAAAAAGGCAGGGACCTACACTGCTGCTCTTCAAGGATACCAAGACGGTGTTCACATCCTTTTGCAGGGTGTTTCAGgtaagtagtaaggtagtcctaaccatgttatcagaaataaggaaggcaat Alignment from GeneWise AAAGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGATGGAGAGCCTGCCCCAGCT------TACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGGGTGTCTCAG ataaataggtggtccccaccccaggaagtgttgatcttatattattacagCAAGTACTGGCCCCAGCCCAACCCATCCTGGTGAGTTAACTGCGATTGAAGTTGGGGCTAAAAAACTGGATCATGAACCCTGGGAACCAGGTGGACAACAGCAGGAGGAAGCTGAGGATGGGGAACCCTGCTCCAGGTCCCCCTTATCTTGGCCAGGAGCAGAGCTTATCACTCAAACTGTTAGAAATAAAAAGGCAGGGACCTACACTGCTGCTCTTCAAGGATACCAAGACGGTGTTCACATCCTTTTGCAGGGTGTTTCAGgtaagtagtaaggtagtcctaaccatgttatcagaaataaggaaggcaat #### Snx15_ID1466_6 --> 2 - 1 Original Alignment tgGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGT-GACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGg atatctccatcccctggataagtcttggtcttattctccccacctcccagtaGACCCTCTACCATCTGGTCCAGCTCATGAGGCCCTTGAACATCTCTTCAGCTGTCGACAGTACAGAGGAGGCCTCTGGTACTCTGGCTC-AGGTCCCCTCTCTGAGGCTGATCTCACACTTTTTGACCCTTACTCAAAAGTGagtgagattggatggaggggcagtcattaatgccctgcagaactccattag Alignment from CESAR tgGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGT-GACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGg atatctccatcccctggataagtcttggtcttattctccccacctcccagtaGACCCTCTACCATCTGGTCCAGCTCATGAGGCCCTTGAACATCTCTTCAGCTGTCGACAGTACAGAGGAGGCCTCTGGTACTCTGGCTC-AGGTCCCCTCTCTGAGGCTGATCTCACACTTTTTGACCCTTACTCAAAAGTGagtgagattggatggaggggcagtcattaatgccctgcagaactccattag Alignment from Spaln_aa2Genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atatctccatcccctggataagtcttggtcttattctccccacctcccagTAGACCCTCTACCATCTGGTCCAGCTCATGAGGCCCTTGAACATCTCTTCAGCTGTCGACAGTACAGAGGAGGCCTCTGGTACTCTGGCTCAGGTCCCCTCTCTGAGGCTGATCTCACACTTTTTGACCCTTACTCAAAAGTGAgtgagattggatggaggggcagtcattaatgccctgcagaactccattag Alignment from Spaln_nt2Genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGT-GACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atatctccatcccctggataagtcttggtcttattctccccacctcccagTAGACCCTCTACCATCTGGTCCAGCTCATGAGGCCCTTGAACATCTCTTCAGCTGTCGACAGTACAGAGGAGGCCTCTGGTACTCTGGCTC-AGGTCCCCTCTCTGAGGCTGATCTCACACTTTTTGACCCTTACTCAAAAGTGAgtgagattggatggaggggcagtcattaatgccctgcagaactccattag Alignment from Pairagon TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGT-GACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atatctccatcccctggataagtcttggtcttattctccccacctcccagTAGACCCTCTACCATCTGGTCCAGCTCATGAGGCCCTTGAACATCTCTTCAGCTGTCGACAGTACAGAGGAGGCCTCTGGTACTCTGGCTC-AGGTCCCCTCTCTGAGGCTGATCTCACACTTTTTGACCCTTACTCAAAAGTGAgtgagattggatggaggggcagtcattaatgccctgcagaactccattag Alignment from Exonerate_protein2genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atatctccatcccctggataagtcttggtcttattctccccacctcccagTAGACCCTCTACCATCTGGTCCAGCTCATGAGGCCCTTGAACATCTCTTCAGCTGTCGACAGTACAGAGGAGGCCTCTGGTACTCTGGCTCAGGTCCCCTCTCTGAGGCTGATCTCACACTTTTTGACCCTTACTCAAAAGTGAgtgagattggatggaggggcagtcattaatgccctgcagaactccattag Alignment from Exonerate_coding2genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atatctccatcccctggataagtcttggtcttattctccccacctcccagTAGACCCTCTACCATCTGGTCCAGCTCATGAGGCCCTTGAACATCTCTTCAGCTGTCGACAGTACAGAGGAGGCCTCTGGTACTCTGGCTCAGGTCCCCTCTCTGAGGCTGATCTCACACTTTTTGACCCTTACTCAAAAGTGAgtgagattggatggaggggcagtcattaatgccctgcagaactccattag Alignment from GeneWise TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atatctccatcccctggataagtcttggtcttattctccccacctcccagTAGACCCTCTACCATCTGGTCCAGCTCATGAGGCCCTTGAACATCTCTTCAGCTGTCGACAGTACAGAGGAGGCCTCTGGTACTCTGGCTCAGGTCCCCTCTCTGAGGCTGATCTCACACTTTTTGACCCTTACTCAAAAGTGAgtgagattggatggaggggcagtcattaatgccctgcagaactccattag #### Snx15_ID1468_4 --> 2 - 0 Original Alignment ggCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGAC-CTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG caccaacactgaaacattcatgctggcataactgtgcttcccttccataggaCGATTCGAAGCTTCTGTTATTGAGGAACATCAGAAAGGTGCAGATGACCCTGCTGCGCTTCACAGTGCCAATCCCAGCCC-CAACAACAGCCCTCAAGTTAAAGAATTCTTCCGCgtaagtgcctgtactaacagggtccccttctagtcaaatcacccagcctt Alignment from CESAR ggCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGAC-CTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG caccaacactgaaacattcatgctggcataactgtgcttcccttccataggaCGATTCGAAGCTTCTGTTATTGAGGAACATCAGAAAGGTGCAGATGACCCTGCTGCGCTTCACAGTGCCAATCCCAGCC-CCAACAACAGCCCTCAAGTTAAAGAATTCTTCCGCgtaagtgcctgtactaacagggtccccttctagtcaaatcacccagcctt Alignment from Spaln_aa2Genome GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG caccaacactgaaacattcatgctggcataactgtgcttcccttccatagGACGATTCGAAGCTTCTGTTATTGAGGAACATCAGAAAGGTGCAGATGACCCTGCTGCGCTTCACAGTGCCAATCCCAGCCCCAACAACAGCCCTCAAGTTAAAGAATTCTTCCGCgtaagtgcctgtactaacagggtccccttctagtcaaatcacccagcctt Alignment from Spaln_nt2Genome GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACC-TGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG caccaacactgaaacattcatgctggcataactgtgcttcccttccatagGACGATTCGAAGCTTCTGTTATTGAGGAACATCAGAAAGGTGCAGATGACCCTGCTGCGCTTCACAGTGCCAATCCCAGC-CCCAACAACAGCCCTCAAGTTAAAGAATTCTTCCGCgtaagtgcctgtactaacagggtccccttctagtcaaatcacccagcctt Alignment from Pairagon GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGA-CCTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG caccaacactgaaacattcatgctggcataactgtgcttcccttccatagGACGATTCGAAGCTTCTGTTATTGAGGAACATCAGAAAGGTGCAGATGACCCTGCTGCGCTTCACAGTGCCAATCCCAGC-CCCAACAACAGCCCTCAAGTTAAAGAATTCTTCCGCgtaagtgcctgtactaacagggtccccttctagtcaaatcacccagcctt Alignment from Exonerate_protein2genome GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG caccaacactgaaacattcatgctggcataactgtgcttcccttccatagGACGATTCGAAGCTTCTGTTATTGAGGAACATCAGAAAGGTGCAGATGACCCTGCTGCGCTTCACAGTGCCAATCCCAGCCCCAACAACAGCCCTCAAGTTAAAGAATTCTTCCGCgtaagtgcctgtactaacagggtccccttctagtcaaatcacccagcctt Alignment from Exonerate_coding2genome GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG caccaacactgaaacattcatgctggcataactgtgcttcccttccatagGACGATTCGAAGCTTCTGTTATTGAGGAACATCAGAAAGGTGCAGATGACCCTGCTGCGCTTCACAGTGCCAATCCCAGCCCCAACAACAGCCCTCAAGTTAAAGAATTCTTCCGCgtaagtgcctgtactaacagggtccccttctagtcaaatcacccagcctt Alignment from GeneWise GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG caccaacactgaaacattcatgctggcataactgtgcttcccttccatagGACGATTCGAAGCTTCTGTTATTGAGGAACATCAGAAAGGTGCAGATGACCCTGCTGCGCTTCACAGTGCCAATCCCAGCCCCAACAACAGCCCTCAAGTTAAAGAATTCTTCCGCgtaagtgcctgtactaacagggtccccttctagtcaaatcacccagcctt #### Snx15_ID1469_3 --> 0 - 1 Original Alignment GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTG-GCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTg gtcttacccagcccttgctaaggtctgcttctgtgtctccttctccacagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTACGCCTACACCCACCGGAATCTCTTCCAGGATCTCGAGG-GTTCTCGGCGTTCCCACAAGCCCAGGTGTTTggtaaaatttagacaacatctccagctgatgacatccagaatctccaaatg Alignment from CESAR GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTG-GCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTg gtcttacccagcccttgctaaggtctgcttctgtgtctccttctccacagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTACGCCTACACCCACCGGAATCTCTTCCAGGATCTCGAG-GGTTCTCGGCGTTCCCACAAGCCCAGGTGTTTggtaaaatttagacaacatctccagctgatgacatccagaatctccaaatg Alignment from Spaln_aa2Genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG gtcttacccagcccttgctaaggtctgcttctgtgtctccttctccacagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTACGCCTACACCCACCGGAATCTCTTCCAGGATCTCGAGGGTTCTCGGCGTTCCCACAAGCCCAGGTGTTTGgtaaaatttagacaacatctccagctgatgacatccagaatctccaaatg Alignment from Spaln_nt2Genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTG-GCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG gtcttacccagcccttgctaaggtctgcttctgtgtctccttctccacagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTACGCCTACACCCACCGGAATCTCTTCCAGGATCTCGAGG-GTTCTCGGCGTTCCCACAAGCCCAGGTGTTTGgtaaaatttagacaacatctccagctgatgacatccagaatctccaaatg Alignment from Pairagon GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTG-GCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGA--------GTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG gtcttacccagcccttgctaaggtctgcttctgtgtctccttctccacagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTACGCCTACACCCACCGGAATCTCTTCC---------AGGATCTCGAGGGTTCTCGGCGTTCCCACAAGCCCAGGTGTTTGgtaaaatttagacaacatctccagctgatgacatccagaatctccaaatg Alignment from Exonerate_protein2genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG gtcttacccagcccttgctaaggtctgcttctgtgtctccttctccacagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTACGCCTACACCCACCGGAATCTCTTCCAGGATCTCGAGGGTTCTCGGCGTTCCCACAAGCCCAGGTGTTTGgtaaaatttagacaacatctccagctgatgacatccagaatctccaaatg Alignment from Exonerate_coding2genome GAGGTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG gtcttacccagcccttgctaaggtctgcttctgtgtctccttctccaCAGGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTACGCCTACACCCACCGGAATCTCTTCCAGGATCTCGAGGGTTCTCGGCGTTCCCACAAGCCCAGGTGTTTGgtaaaatttagacaacatctccagctgatgacatccagaatctccaaatg Alignment from GeneWise ---TTCATCTCAAAGAAGGACCCAGAGGATATCAAAGAGGTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG gtcttacccagCCCTTGCTAAGGTCTGCTTCTGTGTCTCCTTCTCCACAGGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTACGCCTACACCCACCGGAATCTCTTCCAGGATCTCGAGGGTTCTCGGCGTTCCCACAAGCCCAGGTGTTTGgtaaaatttagacaacatctccagctgatgacatccagaatctccaaatg #### Snx32_ID1073_5 --> 1 - 0 Original Alignment gGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCA-GCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT aacaagcaaaatggcattctagtagacctctaattatcctctctaatcaggGAATACTTGGCCATTTTTAAGAAGACTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGGCACGCCCATCCCACCCTGCGTCGGGATCACAACTTCT-CATCTTCTTGGAATATAGCCAGGATgtaaggttgttgaatcattacaacaaaatgagaggctgatgggcatgtgg Alignment from CESAR gGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCA-GCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT aacaagcaaaatggcattctagtagacctctaattatcctctctaatcaggGAATACTTGGCCATTTTTAAGAAGACTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGGCACGCCCATCCCACCCTGCGTCGGGATCACAACTTCT-CATCTTCTTGGAATATAGCCAGGATgtaaggttgttgaatcattacaacaaaatgagaggctgatgggcatgtgg Alignment from Spaln_aa2Genome GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT aacaagcaaaatggcattctagtagacctctaattatcctctctaatcagGGAATACTTGGCCATTTTTAAGAAGACTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGGCACGCCCATCCCACCCTGCGTCGGGATCACAACTTCTCATCTTCTTGGAATATAGCCAGGATgtaaggttgttgaatcattacaacaaaatgagaggctgatgggcatgtgg Alignment from Spaln_nt2Genome GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCA-GCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT aacaagcaaaatggcattctagtagacctctaattatcctctctaatcagGGAATACTTGGCCATTTTTAAGAAGACTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGGCACGCCCATCCCACCCTGCGTCGGGATCACAACTTCT-CATCTTCTTGGAATATAGCCAGGATgtaaggttgttgaatcattacaacaaaatgagaggctgatgggcatgtgg Alignment from Pairagon GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCA-GCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT aacaagcaaaatggcattctagtagacctctaattatcctctctaatcagGGAATACTTGGCCATTTTTAAGAAGACTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGGCACGCCCATCCCACCCTGCGTCGGGATCACAACTTCT-CATCTTCTTGGAATATAGCCAGGATgtaaggttgttgaatcattacaacaaaatgagaggctgatgggcatgtgg Alignment from Exonerate_protein2genome GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCA-GCCCATCCCACCCTGCGTCGGGACCACAACTTCTCC--GTCTTCTTGGAATACAGCCAGGAT aacaagcaaaatggcattctagtagacctctaattatcctctctaatcagGGAATACTTGGCCATTTTTAAGAAGACTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGGCACGCCCATCCCACCCTGCGTCGGGATCACAACTTCTCATC---TTCTTGGAATATAGCCAGGATgtaaggttgttgaatcattacaacaaaatgagaggctgatgggcatgtgg Alignment from Exonerate_coding2genome GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCA-GCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGATCTGA aacaagcaaaatggcattctagtagacctctaattatcctctctaatcagGGAATACTTGGCCATTTTTAAGAAGACTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGGCACGCCCATCCCACCCTGCGTCGGGATCACAACTTCTCA-TCTTCTTGGAATATAGCCAGGATGTAAggttgttgaatcattacaacaaaatgagaggctgatgggcatgtgg Alignment from GeneWise GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT aacaagcaaaatggcattctagtagacctctaattatcctctctaatcagGGAATACTTGGCCATTTTTAAGAAGACTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGGCACGCCCATCCCACCCTGCGTCGGGATCACAACTTCTCATCTTCTTGGAATATAGCCAGGATgtaaggttgttgaatcattacaacaaaatgagaggctgatgggcatgtgg #### Sptbn2_ID612_7 --> 2 - 0 Original Alignment atGTGAATGTAGACCAGCCCGACGAGAAG-TCTATCATCACCTACGTGGCCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaagttattgaatgttgctgttttaaatacagatGTGAATGTAGATCAGCCTGATGAGCAGCTCTGTCATTACCTATGTG------TACTACC-CTACTTCTCCAGGATGAAGGCTCTTTCAGTGGAAGGGAAAAGAACTGGGAAGgtgatgtctccattgtaatctatctgtaagttccagtaaggaccagatta Alignment from CESAR atGTGAATGTAGACCAGCCCGACGAGAAG-TCTATCATCACCTACGTGGCCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaagttattgaatgttgctgttttaaatacagatGTGAATGTAGATCAGCCTGATGAGCAGCTCTGTCATTACCTATGTG------TACTAC-CCTACTTCTCCAGGATGAAGGCTCTTTCAGTGGAAGGGAAAAGAACTGGGAAGgtgatgtctccattgtaatctatctgtaagttccagtaaggaccagatta Alignment from Spaln_aa2Genome ATGTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTACGTGGCCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaagttattgaatgttgctgttttaaatacagATGTGAATGTAGATCAGCCTGATGAGCAG---CTCTGTCATTACCTATGTGTA---CTACCCTACTTCTCCAGGATGAAGGCTCTTTCAGTGGAAGGGAAAAGAACTGGGAAGgtgatgtctccattgtaatctatctgtaagttccagtaaggaccagatta Alignment from Spaln_nt2Genome ATGTGAATGTAGACCAGCCCGACGAGAAG-TCTATCATCACCTACGTGGCCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaagttattgaatgttgctgttttaaatacagATGTGAATGTAGATCAGCCTGATGAGCAGCTCTGTCATTACCTATGTG------TACTACC-CTACTTCTCCAGGATGAAGGCTCTTTCAGTGGAAGGGAAAAGAACTGGGAAGgtgatgtctccattgtaatctatctgtaagttccagtaaggaccagatta Alignment from Pairagon ATGTGAATGTAGACCAGCCCGACGAGAAG-TCTATCATCACCTACGTGGCCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaagttattgaatgttgctgttttaaatacagATGTGAATGTAGATCAGCCTGATGAGCAGCTCTGTCATTACCTATGTG------TACTACC-CTACTTCTCCAGGATGAAGGCTCTTTCAGTGGAAGGGAAAAGAACTGGGAAGgtgatgtctccattgtaatctatctgtaagttccagtaaggaccagatta Alignment from Exonerate_protein2genome agggacatggggggaacacaagttattgaatgttgctgttttaaatacagatgtgaatgtagatcagcctgatgagcagctctgtcattacctatgtgtactaccctacttctccaggatgaaggctctttcagtggaagggaaaagaactgggaaggtgatgtctccattgtaatctatctgtaagttccagtaaggaccagatta Alignment from Exonerate_coding2genome agggacatggggggaacacaagttattgaatgttgctgttttaaatacagatgtgaatgtagatcagcctgatgagcagctctgtcattacctatgtgtactaccctacttctccaggatgaaggctctttcagtggaagggaaaagaactgggaaggtgatgtctccattgtaatctatctgtaagttccagtaaggaccagatta Alignment from GeneWise ATGTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTACGTGGCCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaagttattgaatgttgctgttttaaatacagATGTGAATGTAGATCAGCCTGATGAGCAG------CTCTGTCATTACCTATGTGTACTACCCTACTTCTCCAGGATGAAGGCTCTTTCAGTGGAAGGGAAAAGAACTGGGAAGgtgatgtctccattgtaatctatctgtaagttccagtaaggaccagatta #### Sptbn2_ID631_26 --> 0 - 2 Original Alignment GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAG-GGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCcg tctgtgatctaccatctcttccagtccttgctgaaacgctctttttccagGTCCAACAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATTGGTCGTCATATGCAGGCAGTTGCTGAGGCCTGGGCCCAGCTCCAACGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTG-CACAACGGATAAATTTCGGTTCTTTAAGGCTGTCCGAGAGTTAATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCcggtaagacttgtggtggatggtttcacccgattgctactatgttgggttgg Alignment from CESAR GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAG-GGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCcg tctgtgatctaccatctcttccagtccttgctgaaacgctctttttccagGTCCAACAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATTGGTCGTCATATGCAGGCAGTTGCTGAGGCCTGGGCCCAGCTCCAACGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTT-GCACAACGGATAAATTTCGGTTCTTTAAGGCTGTCCGAGAGTTAATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCcggtaagacttgtggtggatggtttcacccgattgctactatgttgggttgg Alignment from Spaln_aa2Genome GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCG tctgtgatctaccatctcttccagtccttgctgaaacgctctttttccagGTCCAACAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATTGGTCGTCATATGCAGGCAGTTGCTGAGGCCTGGGCCCAGCTCCAACGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTGCACAACGGATAAATTTCGGTTCTTTAAGGCTGTCCGAGAGTTAATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCCGgtaagacttgtggtggatggtttcacccgattgctactatgttgggttgg Alignment from Spaln_nt2Genome GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAG-GGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCG tctgtgatctaccatctcttccagtccttgctgaaacgctctttttccagGTCCAACAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATTGGTCGTCATATGCAGGCAGTTGCTGAGGCCTGGGCCCAGCTCCAACGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTG-CACAACGGATAAATTTCGGTTCTTTAAGGCTGTCCGAGAGTTAATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCCGgtaagacttgtggtggatggtttcacccgattgctactatgttgggttgg Alignment from Pairagon GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAG-GGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCG tctgtgatctaccatctcttccagtccttgctgaaacgctctttttccagGTCCAACAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATTGGTCGTCATATGCAGGCAGTTGCTGAGGCCTGGGCCCAGCTCCAACGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTG-CACAACGGATAAATTTCGGTTCTTTAAGGCTGTCCGAGAGTTAATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCCGgtaagacttgtggtggatggtttcacccgattgctactatgttgggttgg Alignment from Exonerate_protein2genome GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCG tctgtgatctaccatctcttccagtccttgctgaaacgctctttttccagGTCCAACAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATTGGTCGTCATATGCAGGCAGTTGCTGAGGCCTGGGCCCAGCTCCAACGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTGCACAACGGATAAATTTCGGTTCTTTAAGGCTGTCCGAGAGTTAATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCCGgtaagacttgtggtggatggtttcacccgattgctactatgttgggttgg Alignment from Exonerate_coding2genome GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCG tctgtgatctaccatctcttccagtccttgctgaaacgctctttttccagGTCCAACAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATTGGTCGTCATATGCAGGCAGTTGCTGAGGCCTGGGCCCAGCTCCAACGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTGCACAACGGATAAATTTCGGTTCTTTAAGGCTGTCCGAGAGTTAATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCCGgtaagacttgtggtggatggtttcacccgattgctactatgttgggttgg Alignment from GeneWise GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCG tctgtgatctaccatctcttccagtccttgctgaaacgctctttttccagGTCCAACAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATTGGTCGTCATATGCAGGCAGTTGCTGAGGCCTGGGCCCAGCTCCAACGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTGCACAACGGATAAATTTCGGTTCTTTAAGGCTGTCCGAGAGTTAATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCCGgtaagacttgtggtggatggtttcacccgattgctactatgttgggttgg #### Sptbn2_ID633_28 --> 0 - 1 Original Alignment ATCTCAGAGAAGCTG-TCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTg ggcaggttcaaatgcatgtcaaccctacctaacctcaagctctgtttcagATTTCAGAGAAGCTTCTCTCAGCTACAGTCCCGGCGACAGGAGACTGCTG-CAAGTGGCAGGAGAAAATGGACTGGCTACAACTTggtgagtttggttagaacttggacagttaattgaaaacattgtgggacgta Alignment from CESAR ATCTCAGAGAAGCTG-TCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTg ggcaggttcaaatgcatgtcaaccctacctaacctcaagctctgtttcagATTTCAGAGAAGCTTCTCTCAGCTACAGTCCCGGCGACAGGAGACTGCT-GCAAGTGGCAGGAGAAAATGGACTGGCTACAACTTggtgagtttggttagaacttggacagttaattgaaaacattgtgggacgta Alignment from Spaln_aa2Genome ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG ggcaggttcaaatgcatgtcaaccctacctaacctcaagctctgtttcagatttcagAGAAGC------TTCTCTCAGCTACAGTCCCGGCGACAGGAGACTGCTGC-AAGTGGCAGGAGAAAATGGACTGGCTACAACTTGgtgagtttggttagaacttggacagttaattgaaaacattgtgggacgta Alignment from Spaln_nt2Genome ATCTCAGAGAAGCTG-TCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG ggcaggttcaaatgcatgtcaaccctacctaacctcaagctctgtttcagATTTCAGAGAAGCTTCTCTCAGCTACAGTCCCGGCGACAGGAGACTGCTG-CAAGTGGCAGGAGAAAATGGACTGGCTACAACTTGgtgagtttggttagaacttggacagttaattgaaaacattgtgggacgta Alignment from Pairagon ATCTCAGAGAAGC-TGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG ggcaggttcaaatgcatgtcaaccctacctaacctcaagctctgtttcagATTTCAGAGAAGCTTCTCTCAGCTACAGTCCCGGCGACAGGAGACTGCTG-CAAGTGGCAGGAGAAAATGGACTGGCTACAACTTGgtgagtttggttagaacttggacagttaattgaaaacattgtgggacgta Alignment from Exonerate_protein2genome ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG ggcaggttcaaatgcatgtcaaccctacctaacctcaagctctgtttcagATTTCAGAGAAGCTTCTCTCAGCTACAGTCCCGGCGACAGGAGACTGCTGCAAGTGGCAGGAGAAAATGGACTGGCTACAACTTGgtgagtttggttagaacttggacagttaattgaaaacattgtgggacgta Alignment from Exonerate_coding2genome ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG ggcaggttcaaatgcatgtcaaccctacctaacctcaagctctgtttcagATTTCAGAGAAGCTTCTCTCAGCTACAGTCCCGGCGACAGGAGACTGCTGCAAGTGGCAGGAGAAAATGGACTGGCTACAACTTGgtgagtttggttagaacttggacagttaattgaaaacattgtgggacgta Alignment from GeneWise ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG ggcaggttcaaatgcatgtcaaccctacctaacctcaagctctgtttcagATTTCAGAGAAGCTTCTCTCAGCTACAGTCCCGGCGACAGGAGACTGCTGCAAGTGGCAGGAGAAAATGGACTGGCTACAACTTGgtgagtttggttagaacttggacagttaattgaaaacattgtgggacgta #### Sptbn2_ID635_30 --> 0 - 2 Original Alignment CTGGAAGAGCGGGAAAAT-GAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATgg atattctattcccattggttcccactcttctgtctctcctgcctctccagCTGGAAGAGAGGGAAATTCGAACGCAAAAGAAAGAGGGAGGGGGAGGAAC-AAGGAGGCAACCTTCCACTTCAGAGCCCATGGCTAGTCAGTTAGAAGGTAGCCTAGTGGATGGCCAAAGAGTACTGGACACTGCATGGGATgggtgagcaaatgatgctaatactggcagatgaccctagttcctttctgtac Alignment from CESAR CTGGAAGAGCGGGAAAAT-GAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATgg atattctattcccattggttcccactcttctgtctctcctgcctctccagCTGGAAGAGAGGGAAATTCGAACGCAAAAGAAAGAGGGAGGGGGAGGAAC-AAGGAGGCAACCTTCCACTTCAGAGCCCATGGCTAGTCAGTTAGAAGGTAGCCTAGTGGATGGCCAAAGAGTACTGGACACTGCATGGGATgggtgagcaaatgatgctaatactggcagatgacccttttttatccaatttg Alignment from Spaln_aa2Genome CTGGAAGAGCGGGAAAAT-GAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG atattctattcccattggttcccactcttctgtctctcctgcctctccagCTGGAAGAGAGGGAAATTcGAACGCAAAAGAAAGAGGGAGGGGGAGGAACA-AGGAGGCAACCTTCCACTTCAGAGCCCATGGCTAGTCAGTTAGAAGGTAGCCTAGTGGATGGCCAAAGAGTACTGGACACTGCATGGGATGGgtgagcaaatgatgctaatactggcagatgaccctagttcctttctgtac Alignment from Spaln_nt2Genome CTGGAAGAGCGGGAAAAT-GAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG atattctattcccattggttcccactcttctgtctctcctgcctctccagCTGGAAGAGAGGGAAATTCGAACGCAAAAGAAAGAGGGAGGGGGAGGAAC-AAGGAGGCAACCTTCCACTTCAGAGCCCATGGCTAGTCAGTTAGAAGGTAGCCTAGTGGATGGCCAAAGAGTACTGGACACTGCATGGGATGGgtgagcaaatgatgctaatactggcagatgaccctagttcctttctgtac Alignment from Pairagon CTGGAAGAGCGGGAAAAT-GAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG atattctattcccattggttcccactcttctgtctctcctgcctctccagCTGGAAGAGAGGGAAATTCGAACGCAAAAGAAAGAGGGAGGGGGAGGAAC-AAGGAGGCAACCTTCCACTTCAGAGCCCATGGCTAGTCAGTTAGAAGGTAGCCTAGTGGATGGCCAAAGAGTACTGGACACTGCATGGGATGGgtgagcaaatgatgctaatactggcagatgaccctagttcctttctgtac Alignment from Exonerate_protein2genome CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG atattctattcccattggttcccactcttctgtctctcctgcctctccagCTGGAAGAGAGGGAAATTCGAACGCAAAAGAAAGAGGGAGGGGGAGGAACAAGGAGGCAACCTTCCACTTCAGAGCCCATGGCTAGTCAGTTAGAAGGTAGCCTAGTGGATGGCCAAAGAGTACTGGACACTGCATGGGATGGgtgagcaaatgatgctaatactggcagatgaccctagttcctttctgtac Alignment from Exonerate_coding2genome CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGGGACTCAGTCAAAATTGCCACCATCCACACAAGCACCCAGTGTTAATGGGG atattctattcccattggttcccactcttctgtctctcctgcctctccagCTGGAAGAGAGGGAAATTCGAACGCAAAAGAAAGAGGGAGGGGGAGGAACAAGGAGGCAACCTTCCACTTCAGAGCCCATGGCTAGTCAGTTAGAAGGTAGCCTAGTGGATGGCCAAAGAGTACTGGACACTGCATGGGATGGGTGAGCAAATGATGCTAATACTGGCAGATGACCCTAGTTCCTTTCTGTAC Alignment from GeneWise CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG atattctattcccattggttcccactcttctgtctctcctgcctctccagCTGGAAGAGAGGGAAATTCGAACGCAAAAGAAAGAGGGAGGGGGAGGAACAAGGAGGCAACCTTCCACTTCAGAGCCCATGGCTAGTCAGTTAGAAGGTAGCCTAGTGGATGGCCAAAGAGTACTGGACACTGCATGGGATGGgtgagcaaatgatgctaatactggcagatgaccctagttcctttctgtac #### Sptbn2_ID639_34 --> 1 - 2 Original Alignment gTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGC-CTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGgg cactccccctagcctctaacattgaaagaatcagtatttgcttttaataggTCATGGCAAAATGTGTATTGCGTACTTAGGTGTGGAAGCCCTTGGCTTCTACAAGGATGCAAAGGCTGCCAGTGCTG-GGTACCGTAT------GAAGTGCCCGTCAGCCTGGCTAGGGCCCAAGGTAGTGTGGCGTTTGATTATAGGAAGCGCAAACACGTTTTCAAACTGgggtgaacttgcaggcttaactaagtggccacctatactagggcacctatac Alignment from CESAR gTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGC-CTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGgg cactccccctagcctctaacattgaaagaatcagtatttgcttttaataggTCATGGCAAAATGTGTATTGCGTACTTAGGTGTGGAAGCCCTTGGCTTCTACAAGGATGCAAAGGCTGCCAGTGCTG-GGTACCGTAT------GAAGTGCCCGTCAGCCTGGCTAGGGCCCAAGGTAGTGTGGCGTTTGATTATAGGAAGCGCAAACACGTTTTCAAACTGgggtgaacttgcaggcttaactaagtggccacctatactagggcacctatac Alignment from Spaln_aa2Genome GTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGC-CTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGGG cactccccctagcctctaacattgaaagaatcagtatttgcttttaatagGTCATGGCAAAATGTGTATTGCGTACTTAGGTGTGGAAGCcCTTGGCTTCTACAAGGATGCAAAGGCTGCCAGTGCTGGGTA-CCGTAT------GAAGTGCCCGTCAGCCTGGCTAGGGCCCAAGGTAGTGTGGCGTTTGATTATAGGAAGCGCAAACACGTTTTCAAACTGGGgtgaacttgcaggcttaactaagtggccacctatactagggcacctatac Alignment from Spaln_nt2Genome GTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAG-CCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGGG cactccccctagcctctaacattgaaagaatcagtatttgcttttaatagGTCATGGCAAAATGTGTATTGCGTACTTAGGTGTGGAAGCCCTTGGCTTCTACAAGGATGCAAAGGCTGCCAGTGCTGG-GTACCGTA------TGAAGTGCCCGTCAGCCTGGCTAGGGCCCAAGGTAGTGTGGCGTTTGATTATAGGAAGCGCAAACACGTTTTCAAACTGGGgtgaacttgcaggcttaactaagtggccacctatactagggcacctatac Alignment from Pairagon GTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAG-CCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGA--------GAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGGG cactccccctagcctctaacattgaaagaatcagtatttgcttttaatagGTCATGGCAAAATGTGTATTGCGTACTTAGGTGTGGAAGCCCTTGGCTTCTACAAGGATGCAAAGGCTGCCAGTGC---------------TGGGTACCGTATGAAGTGCCCGTCAGCCTGGCTAGGGCCCAAGGTAGTGTGGCGTTTGATTATAGGAAGCGCAAACACGTTTTCAAACTGGGgtgaacttgcaggcttaactaagtggccacctatactagggcacctatac Alignment from Exonerate_protein2genome GTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGGG cactccccctagcctctaacattgaaagaatcagtatttgcttttaatagGTCATGGCAAAATGTGTATTGCGTACTTAGGTGTGGAAGCCCTTGGCTTCTACAAGGATGCAAAGGCTGCCAGTGCTGGGTACCGTAT------GAAGTGCCCGTCAGCCTGGCTAGGGCCCAAGGTAGTGTGGCGTTTGATTATAGGAAGCGCAAACACGTTTTCAAACTGGGgtgaacttgcaggcttaactaagtggccacctatactagggcacctatac Alignment from Exonerate_coding2genome GTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGGG cactccccctagcctctaacattgaaagaatcagtatttgcttttaatagGTCATGGCAAAATGTGTATTGCGTACTTAGGTGTGGAAGCCCTTGGCTTCTACAAGGATGCAAAGGCTGCCAGTGCTGGGTACCGTAT------GAAGTGCCCGTCAGCCTGGCTAGGGCCCAAGGTAGTGTGGCGTTTGATTATAGGAAGCGCAAACACGTTTTCAAACTGGGgtgaacttgcaggcttaactaagtggccacctatactagggcacctatac Alignment from GeneWise GTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGGG cactccccctagcctctaacattgaaagaatcagtatttgcttttaatagGTCATGGCAAAATGTGTATTGCGTACTTAGGTGTGGAAGCCCTTGGCTTCTACAAGGATGCAAAGGCTGCCAGTGCTGGGTACCGTAT------GAAGTGCCCGTCAGCCTGGCTAGGGCCCAAGGTAGTGTGGCGTTTGATTATAGGAAGCGCAAACACGTTTTCAAACTGGGgtgaacttgcaggcttaactaagtggccacctatactagggcacctatac #### Ssh3_ID447_9 --> 0 - 0 Original Alignment ATCCGTCAGGCCCTGGAGCTG-CGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGC tagaccttcagtccacttagacattcagccttaactataactcccttcagCTCCATCGGGCCTTAGAACTACCACCTTGGATGTCCTTTA------TATCGTGTCTTTATTG-TAACCAGATGTTGCTTCTTATGGCCCATCAGGATCAGACATCTCGAATCTACCCATACCTCTACTTAgtaaacggtcttctattcattcttcctcttctctctcactcctacagGGC Alignment from CESAR ATCCGTCAGGCCCTGGAGCTG-CGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGC tagaccttcagtccacttagacattcagccttaactataactcccttcagCTCCATCGGGCCTTAGAACTACCACCTTGGATGTCCTTTA------TATCGTGTCTTTATT-GTAACCAGATGTTGCTTCTTATGGCCCATCAGGATCAGACATCTCGAATCTACCCATACCTCTACTTAgtaaacggtcttctattcattcttcaatgatctcttccctctgacagGGC Alignment from Spaln_aa2Genome ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTGGGCTCTGAG-TGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACAG tagaccttcagtccacttagacattcagccttaactataactcccttcagCTCCATCGGGCCTTAGAACTACCACCTTGGATGTCCTTTATATCGTGT------CTTTATTGTAACCAGATGTTGCTTCTTATGGCCCATCAGGATCAGACATCTCGAATCTACCCATACCTCTACTTAGTAAACGGTcTTCTATTCATTCTTCCTCTTCTCTCTCACTCCTACAGGgc Alignment from Spaln_nt2Genome ATCCGTCAGGCCCTGGAGCTGCGTC-TGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGC tagaccttcagtccacttagacattcagccttaactataactcccttcagCTCCATCGGGCCTTAGAACTACCACCTTGGATGTCCTTT------ATATCGTGTCTTTATTG-TAACCAGATGTTGCTTCTTATGGCCCATCAGGATCAGACATCTCGAATCTACCCATACCTCTACTTAgtaaacggtcttctattcattcttcctcttctctctcactcctacagGGC Alignment from Pairagon ATCCGTCAGGCCCTGGAGCTG-CGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGC tagaccttcagtccacttagacattcagccttaactataactcccttcagCTCCATCGGGCCTTAGAACTACCACCTTGGATGTCCTTT------ATATCGTGTCTTTATTG-TAACCAGATGTTGCTTCTTATGGCCCATCAGGATCAGACATCTCGAATCTACCCATACCTCTACTTAgtaaacggtcttctattcattcttcctcttctctctcactcctacagGGC Alignment from Exonerate_protein2genome ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGC tagaccttcagtccacttagacattcagccttaactataactcccttcagCTCCATCGGGCCTTAGAACTACCACCTTGG------ATGTCCTTTATATCGTGTCTTTATTGTAACCAGATGTTGCTTCTTATGGCCCATCAGGATCAGACATCTCGAATCTACCCATACCTCTACTTAgtaaacggtcttctattcattcttcctcttctctctcactcctacagGGC Alignment from Exonerate_coding2genome CAGTGACCTGGACAGTGTCACTTCTAAAGAGATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGC tagaccttcagtccacttagACATTCAGCCTTAACTATAACTCCCTTCAGCTCCATCGGGCCTTAGAACTACCACCTTGGATGTCCTTTA------TATCGTGTCTTTATT-GTAACCAGATGTTGCTTCTTATGGCCCATCAGGATCAGACATCTCGAATCTACCCATACCTCTACTTAgtaaacggtcttctattcattcttcctcttctctctcactcctacagGGC Alignment from GeneWise -------CGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGAC------------AACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGC tagaccttcagtccacttagacattcagCCTTAACTATAACTCCCTTCAGCTCCATCGGGCCTTAGAACTACCACCTTGGATGTCCTTTATATCGTGTCTTTATTGTAACCAGATGTTGCTTCTTATGGCCCATCAGGATCAGACATCTCGAATCTACCCATACCTCTACTTAgtaaacggtcttctattcattcttcctcttctctctcactcctacagGGC #### Ssh3_ID448_8 --> 1 - 0 Original Alignment gGCTTCAGAGCAG-GAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG ggtgtttactgccactaactaacaggtatgcctgtcttttcttttcccaggGCCTCAGAGCAACGAGAAGACA---------------GTAGAATTGTGGCAAG-ATTAGATACCAGTGATCTAGAAAGTGTTACCTCCAAAGAGgtaaggtaaagcagggtatctgtcaattgttcctatctgacgccccccat Alignment from CESAR gGCTTCAGAGCAG-GAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG ggtgtttactgccactaactaacaggtatgcctgtcttttcttttcccaggGCCTCAGAGCAACGAGAAGACA---------------GTAGAATTGTGGCAA-GATTAGATACCAGTGATCTAGAAAGTGTTACCTCCAAAGAGgtaaggtaaagcagggtatctgtcaattgttcctatctgacgccccccat Alignment from Spaln_aa2Genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG ggtgtttactgccactaactaacaggtatgcctgtcttttcttttcccagGGCCTCAGAGCAA---CGAGAAGACAGTAGAATTGTGGCAAGA------------TTAGATACCAGTGATCTAGAAAGTGTTACCTCCAAAGAGgtaaggtaaagcagggtatctgtcaattgttcctatctgacgccccccat Alignment from Spaln_nt2Genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG ggtgtttactgccactaactaacaggtatgcctgtcttttcttttcccagGGCCTCAGAGC--------AACGAGAAGAC------AGTAGAATTGTGGCAAG-ATTAGATACCAGTGATCTAGAAAGTGTTACCTCCAAAGAGgtaaggtaaagcagggtatctgtcaattgttcctatctgacgccccccat Alignment from Pairagon GGCTTCAGAG-----------CAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG ggtgtttactgccactaactaacaggtatgcctgtcttttcttttcccagGGCCTCAGAGCAACGAGAAGACAGTA-------------------------GAATTGTGGCAAG-ATTAGATACCAGTGATCTAGAAAGTGTTACCTCCAAAGAGgtaaggtaaagcagggtatctgtcaattgttcctatctgacgccccccat Alignment from Exonerate_protein2genome AAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG ggtgtttactgccactaactaacaggtatgcctgtcttttcttttcccagGGCCTCAGAGCAACGAGAAGACAGTAGAATTGTGGCAAGATTAGATACCAGTGATCTAGAAAGTGTTACCTCCAAAGAGgtaaggtaaagcagggtatctgtcaattgttcctatctgacgccccccat Alignment from Exonerate_coding2genome ggtgtttactgccactaactaacaggtatgcctgtcttttcttttcccagggcctcagagcaacgagaagacagtagaattgtggcaagattagataccagtgatctagaaagtgttacctccaaagaggtaaggtaaagcagggtatctgtcaattgttcctatctgacgccccccat Alignment from GeneWise GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG ggtgtttactgccactaactaacaggtatgcctgtcttttcttttcccagGGCCTCAGAGCAACGAGAA---GACAGTAGAATTGTGGCAAGATTA------------GATACCAGTGATCTAGAAAGTGTTACCTCCAAAGAGgtaaggtaaagcagggtatctgtcaattgttcctatctgacgccccccat #### Ssh3_ID449_7 --> 1 - 2 Original Alignment gGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGT-GGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGAca tatctggttggtcatctagggccaaggtctctgactcatcccattgccaggGCCACATTGCAAGTATTGCATCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTCGGGAGTGCTCTAGCATGGGCTACTTACTATCAGGTGAAGCTTA-CTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCTGACCTGGAAACATTTCGACCACCCAATGCTGAGCCCACAcagtaaggggcaggacagggcaaagcagaaaaataatgtggagggtgtttac Alignment from CESAR gGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGT-GGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGAca tatctggttggtcatctagggccaaggtctctgactcatcccattgccaggGCCACATTGCAAGTATTGCATCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTCGGGAGTGCTCTAGCATGGGCTACTTACTATCAGGTGAAGCTT-ACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCTGACCTGGAAACATTTCGACCACCCAATGCTGAGCCCACAcagtaaggggcaggacagggcaaagcagaaaaataatgtggagggtgtttac Alignment from Spaln_aa2Genome GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA tatctggttggtcatctagggccaaggtctctgactcatcccattgccagGGCCACATTGCAAGTATTGCATCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTCGGGAGTGCTCTAGCATGGGCTACTTACTATCAGGTGAAGCTTACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCTGACCTGGAAACATTTCGACCACCCAATGCTGAGCCCACACAgtaaggggcaggacagggcaaagcagaaaaataatgtggagggtgtttac Alignment from Spaln_nt2Genome GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGT-GGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA tatctggttggtcatctagggccaaggtctctgactcatcccattgccagGGCCACATTGCAAGTATTGCATCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTCGGGAGTGCTCTAGCATGGGCTACTTACTATCAGGTGAAGCT-TACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCTGACCTGGAAACATTTCGACCACCCAATGCTGAGCCCACACAgtaaggggcaggacagggcaaagcagaaaaataatgtggagggtgtttac Alignment from Pairagon GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGT-GGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA tatctggttggtcatctagggccaaggtctctgactcatcccattgccagGGCCACATTGCAAGTATTGCATCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTCGGGAGTGCTCTAGCATGGGCTACTTACTATCAGGTGAAGCTT-ACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCTGACCTGGAAACATTTCGACCACCCAATGCTGAGCCCACACAgtaaggggcaggacagggcaaagcagaaaaataatgtggagggtgtttac Alignment from Exonerate_protein2genome GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGT-GGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTC--AACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACAGGCTTCAGAGC tatctggttggtcatctagggccaaggtctctgactcatcccattgccagGGCCACATTGCAAGTATTGCATCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTCGGGAGTGCTCTAGCATGGGCTACTTACTATCAGGTGAAGCTTAC---TCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCTGACCTGGAAACATTTCGACCACCCAATGCTGAGCCCACACAGTAAGGGGCAGgacagggcaaagcagaaaaataatgtggagggtgtttac Alignment from Exonerate_coding2genome tatctggttggtcatctagggccaaggtctctgactcatcccattgccagggccacattgcaagtattgcatcaggcatgtgaggtagctcttggtagtggccttgtgcctggtcgggagtgctctagcatgggctacttactatcaggtgaagcttactctgatcagggctgcctaaatgaatggatggcaatgtctgacctggaaacatttcgaccacccaatgctgagcccacacagtaaggggcaggacagggcaaagcagaaaaataatgtggagggtgtttac Alignment from GeneWise GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA tatctggttggtcatctagggccaaggtctctgactcatcccattgccagGGCCACATTGCAAGTATTGCATCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTCGGGAGTGCTCTAGCATGGGCTACTTACTATCAGGTGAAGCTTACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCTGACCTGGAAACATTTCGACCACCCAATGCTGAGCCCACACAgtaaggggcaggacagggcaaagcagaaaaataatgtggagggtgtttac #### Ssh3_ID450_6 --> 1 - 2 Original Alignment gGGCTTCAGTGTG-ACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGtg gcctattgattacctgctctcaaagtctgacttgcccatgtgctttgcagtAGTTTGAGTGTGCACACCTGGTGGCAAAAGCCGAATCTTCAAGC-TCTCTCTATCCAGACCATGtggtaagtggtccaaacaataaggtttccaagcatacttggctgaccatcta Alignment from CESAR gGGCTTCAGTGTG-ACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGtg gcctattgattacctgctctcaaagtctgacttgcccatgtgctttgcagtAGTTTGAGTGTGCACACCTGGTGGCAAAAGCCGAATCTTCA-AGCTCTCTCTATCCAGACCATGtggtaagtggtccaaacaataaggtttccaagcatacttggctgaccatcta Alignment from Spaln_aa2Genome GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGTG gcctattgattacctgctctcaaagtctgacttgcccatgtgctttgcagTAGTTTGAGTGTGCACACCTGGTGGCAAAAGCCGAATCTTCAAGCTCTCTCTATCCAGACCATGTGgtaagtggtccaaacaataaggtttccaagcatacttggctgaccatcta Alignment from Spaln_nt2Genome GGGCTTCAGTGTG-ACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGTG gcctattgattacctgctctcaaagtctgacttgcccatgtgctttgcagTAGTTTGAGTGTGCACACCTGGTGGCAAAAGCCGAATCTTCAAG-CTCTCTCTATCCAGACCATGTGgtaagtggtccaaacaataaggtttccaagcatacttggctgaccatcta Alignment from Pairagon GGGCTTCAGTGTG-ACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGTG gcctattgattacctgctctcaaagtctgacttgcccatgtgctttgcagTAGTTTGAGTGTGCACACCTGGTGGCAAAAGCCGAATCTTCAAG-CTCTCTCTATCCAGACCATGTGgtaagtggtccaaacaataaggtttccaagcatacttggctgaccatcta Alignment from Exonerate_protein2genome GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGTG gcctattgattacctgctctcaaagtctgacttgcccatgtgctttgcagTAGTTTGAGTGTGCACACCTGGTGGCAAAAGCCGAATCTTCAAGCTCTCTCTATCCAGACCATGTGgtaagtggtccaaacaataaggtttccaagcatacttggctgaccatcta Alignment from Exonerate_coding2genome gcctattgattacctgctctcaaagtctgacttgcccatgtgctttgcagtagtttgagtgtgcacacctggtggcaaaagccgaatcttcaagctctctctatccagaccatgtggtaagtggtccaaacaataaggtttccaagcatacttggctgaccatcta Alignment from GeneWise gcctattgattacctgctctcaaagtctgacttgcccatgtgctttgcagtagtttgagtgtgcacacctggtggcaaaagccgaatcttcaagctctctctatccagaccatgtggtaagtggtccaaacaataaggtttccaagcatacttggctgaccatcta #### Ssh3_ID451_5 --> 1 - 2 Original Alignment tTCCCAC----------AGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATgg ctattgacattatgcggggagacaaattgcaagtctgcatctcattccagtTGTCATAGCTGCACACAGTTGCACGCTTGGACTTGTTGTGCCCCTTTGGAGTGTTA-TCATGTATACCTATACGGAGATgggtaagggggtctccgtcggggaaacaagatagggctgagaaaattgggcc Alignment from CESAR t-TCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATgg aacaggctgctattgacattatgcggggagacaactgcatctcattccagttgtcatagcTGCACACAGTTGCACGCTTGGACTTGTTGTGCCCCTTTGGAGTGTT-ATCATGTATACCTATACGGAGATgggtaagggggtctccgtcggggaaacaagatagggctgagaaaattgggcc Alignment from Spaln_aa2Genome GCAGTTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGG ctattgacattatgcggggagacaaattgcaagtctgcatctcattccagttgtcatagCT---GCACACAGTTGCACGCTTGGACTTGTTGTGCCCCTTTGGAGTGTTAT-CATGTATACCTATACGGAGATGGgtaagggggtctccgtcggggaaacaagatagggctgagaaaattgggcc Alignment from Spaln_nt2Genome TTCC-CACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGG ctattgacattatgcggggagacaaattgcaagtctgcatctcattccagttgtcatagCTGCACACAGTTGCACGCTTGGACTTGTTGTGCCCCTTTGGAGTGTTA-TCATGTATACCTATACGGAGATGGgtaagggggtctccgtcggggaaacaagatagggctgagaaaattgggcc Alignment from Pairagon TT----------CCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGG ctattgacattatgcggggagacaaattgcaagtctgcatctcattccagTTGTCATAGCTGCACACAGTTGCACGCTTGGACTTGTTGTGCCCCTTTGGAGTGTTA-TCATGTATACCTATACGGAGATGGgtaagggggtctccgtcggggaaacaagatagggctgagaaaattgggcc Alignment from Exonerate_protein2genome GTTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACC--CAGGTGTACCTGGACGGCGATGG ctattgacattatgcggggagacaaattgcaagtctgcatctcattccagttgtcatagCTGCACACAGTTGCACGCTTGGACTTGTTGTGCCCCTTTGGAGT---GTTATCATGTATACCTATACGGAGATGGgtaagggggtctccgtcggggaaacaagatagggctgagaaaattgggcc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise -------------------------AGTTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGG ctattgacattatgcggggagacaaattgcaagTCTGCATCTCATTCCAGTTGTCATAGCTGCACACAGTTGCACGCTTGGACTTGTTGTGCCCCTTTGGAGTGT-TATCATGTATACCTATACGGAGATGGgtaagggggtctccgtcggggaaacaagatagggctgagaaaattgggcc #### Stip1_ID1989_12 --> 2 - 0 Original Alignment tcAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACA-AAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG atttctccattatatttcgacaaatcgttgagccagatgacccaccctagacAAGGGTTATACCCGACAAGCAGCTGCTTTAGAAGCCATGAAGGACTATACACAAAGCAATGCAT------CAAAAGGCATTAG-CCTAGACTCCTGTTGCAAGgtaaggtagtgataccttgcatacagaccgtgtttatgtaactgagggtt Alignment from CESAR tcAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACA-AAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG gtttctccattatatttcgacaaatcgttgagccagatgacccaccctagacAAGGGTTATACCCGACAAGCAGCTGCTTTAGAAGCCATGAAGGACTATACACAAAGCAATG------CATCAAAAGGCATTA-GCCTAGACTCCTGTTGCAAGgtaaggtagtgataccttgcatacagaccgtgtttatgtaactgagggtt Alignment from Spaln_aa2Genome TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG atttctccattatatttcgacaaatcgttgagccagatgacccaccctagACAAGGGTTATACCCGACAAGCAGCTGCTTTAGAAGCCATGAAGGACTATACACAAAGCAATGCATCA------AAAGGCATTAGCCTAGACTCCTGTTGCAAGgtaaggtagtgataccttgcatacagaccgtgtttatgtaactgagggtt Alignment from Spaln_nt2Genome TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACA-AAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG atttctccattatatttcgacaaatcgttgagccagatgacccaccctagACAAGGGTTATACCCGACAAGCAGCTGCTTTAGAAGCCATGAAGGACTATACACAAAGCAATGCAT------CAAAAGGCATTAG-CCTAGACTCCTGTTGCAAGgtaaggtagtgataccttgcatacagaccgtgtttatgtaactgagggtt Alignment from Pairagon TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACA-AAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG atttctccattatatttcgacaaatcgttgagccagatgacccaccctagACAAGGGTTATACCCGACAAGCAGCTGCTTTAGAAGCCATGAAGGACTATACACAAAGCAATGCAT------CAAAAGGCATTAG-CCTAGACTCCTGTTGCAAGgtaaggtagtgataccttgcatacagaccgtgtttatgtaactgagggtt Alignment from Exonerate_protein2genome TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG atttctccattatatttcgacaaatcgttgagccagatgacccaccctagACAAGGGTTATACCCGACAAGCAGCTGCTTTAGAAGCCATGAAGGACTATACACAAAGCAAT------GCATCAAAAGGCATTAGCCTAGACTCCTGTTGCAAGgtaaggtagtgataccttgcatacagaccgtgtttatgtaactgagggtt Alignment from Exonerate_coding2genome TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG atttctccattatatttcgacaaatcgttgagccagatgacccaccctagACAAGGGTTATACCCGACAAGCAGCTGCTTTAGAAGCCATGAAGGACTATACACAAAGCAAT------GCATCAAAAGGCATTAGCCTAGACTCCTGTTGCAAGgtaaggtagtgataccttgcatacagaccgtgtttatgtaactgagggtt Alignment from GeneWise TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG atttctccattatatttcgacaaatcgttgagccagatgacccaccctagACAAGGGTTATACCCGACAAGCAGCTGCTTTAGAAGCCATGAAGGACTATACACAAAGCAAT------GCATCAAAAGGCATTAGCCTAGACTCCTGTTGCAAGgtaaggtagtgataccttgcatacagaccgtgtttatgtaactgagggtt #### Stx5a_ID2330_2 --> 0 - 2 Original Alignment AATGGAATCCAAACAAGC-AAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCag ggggtacaaagatgactgaccctatcaaccctcaatcactcctgttccagAATGGAATCCCAACAACCCAAA---CCTCTTCATGCAGCCCGTCAGTGCA-TGAACTTACCCTTATGGCTcggtatgatgtagctgtcttaatgggctgactttttgtaatatgtagagtca Alignment from CESAR AATGGAATCCAAACAAGC-AAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCag ggggtacaaagatgactgaccctatcaaccctcaatcactcctgttccagAATGGAATCCCAACAACCCAAACCT---CTTCATGCAGCCCGTCAGTGC-ATGAACTTACCCTTATGGCTcggtatgatgtagctgtcttaatgggctgactttttgtaatatgtagagtca Alignment from Spaln_aa2Genome AATGGAATCCAAACAAGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCAG ggggtacaaagatgactgaccctatcaaccctcaatcactcctgttccagAATGGAATCCCAACAACCCAAACCTCTTCATGCAGCCCGTCA---GTGCATGAACTTACCCTTATGGCTCGgtatgatgtagctgtcttaatgggctgactttttgtaatatgtagagtca Alignment from Spaln_nt2Genome AATGGAATCCAAACAAGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCAG ggggtacaaagatgactgaccctatcaaccctcaatcactcctgttccagAATGGAATCCCAACAACCCAAAC--CTCTTCATGCAGCCCGTCAGTGCA-TGAACTTACCCTTATGGCTCGgtatgatgtagctgtcttaatgggctgactttttgtaatatgtagagtca Alignment from Pairagon AATGGAATCCAAACAAGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGC----------------------------------------------------- ggggtacaaagatgactgaccctatcaaccctcaatcactcctgttccagAATGGAATCCCAACAACCCAAAC--CTCTTCATGCAGCCCGTCAGTGCA-TGAACTTACCCTTATGGCTCGGTATGATGTAGCTGTCTTAATGGGCTGACTTTTTGTAATATGTAGAGTCA Alignment from Exonerate_protein2genome AATGGAATCCAAACAAGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCAG ggggtacaaagatgactgaccctatcaaccctcaatcactcctgttccagAATGGAATCCCAACAACCCAAACCTCT---TCATGCAGCCCGTCAGTGCATGAACTTACCCTTATGGCTCGgtatgatgtagctgtcttaatgggctgactttttgtaatatgtagagtca Alignment from Exonerate_coding2genome AATGGAATCCAAACAAGCAAACC ggggtacaaagatgactgaccctatcaaccctcaatcactcctgttccagaatggaatcccaacaacccaaacctcttcatgcagcccgtcagtgcatgaacttacccttatggctcggtatgatgtagctgtcttaatgggctgACTTTTTGTAATATGTAGAGTCA Alignment from GeneWise ---AA ggggtacaaagatgactgaccctatcaaccctcaatcactcctgttccagaatggaatcccaacaacccaaacctcttcatgcagcccgtcagtgcatgaacttacccttatggctcggtatgatgtagctgtcttaatgggctgactttttgtaatatgtagAGTCA #### Stx5a_ID2335_7 --> 0 - 1 Original Alignment AATCTGAAACAGCAGAGGAACCGTCGG-GAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTg ccatgcacaaatgttcacagagccttggaaccagtgtctcttctgaacagAATTTAAAACAGCAGAGGAATCGA---CGCCCAGCTA---TGGGCCCCAGTGTCTGCCTTTCCAT-AGCACCCAACAACCTTggtaggattaccttatttatgtatagtgggtctgacctgaccagcttcaaa Alignment from CESAR AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTg ccatgcacaaatgttcacagagccttggaaccagtgtctcttctgaacagAATTTAAAACAGCAGAGGAATCGACGC--CCAGCTA---TGGGCCCCAGTGTCTGCCTTTCCA-TAGCACCCAACAACCTTggtaggattaccttatttatgtatagtgggtctgacctgaccagcttcaaa Alignment from Spaln_aa2Genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTG ccatgcacaaatgttcacagagccttggaaccagtgtctcttctgaacagAATTTAAAACAGCAGAGGAATCGACGCCCA------GCTATGGGCCCCAGTGTCTGCCTTTCCATAGCACCCAACAACCTTGgtaggattaccttatttatgtatagtgggtctgacctgaccagcttcaaa Alignment from Spaln_nt2Genome AGAATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTG ccatgcacaaatgttcacagagccttggaaccagtgtctcttctgaacAGAATTTAAAACAGCAGAGGAATCGAC--GCCCAGCTAT---GGGCCCCAGTGTCTGCCTTTCC-ATAGCACCCAACAACCTTGgtaggattaccttatttatgtatagtgggtctgacctgaccagcttcaaa Alignment from Pairagon AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCA-----GGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTG ccatgcacaaatgttcacagagccttggaaccagtgtctcttctgaacagAATTTAAAACAGCAGAGGAATCGACG----------CCCAGCTATGGGCCCCAGTGTCTGCCTTTCC-ATAGCACCCAACAACCTTGgtaggattaccttatttatgtatagtgggtctgacctgaccagcttcaaa Alignment from Exonerate_protein2genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTG ccatgcacaaatgttcacagagccttggaaccagtgtctcttctgaacagAATTTAAAACAGCAGAGGAATCGACGCCCA------GCTATGGGCCCCAGTGTCTGCCTTTCCATAGCACCCAACAACCTTGgtaggattaccttatttatgtatagtgggtctgacctgaccagcttcaaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTG ccatgcacaaatgttcacagagccttggaaccagtgtctcttctgaacagAATTTAAAACAGCAGAGGAATCGACGCCCA------GCTATGGGCCCCAGTGTCTGCCTTTCCATAGCACCCAACAACCTTGgtaggattaccttatttatgtatagtgggtctgacctgaccagcttcaaa #### Suv420h1_ID146_8 --> 0 - 2 Original Alignment TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATT-GAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAag ttatttgggctggttaagtcaatggttattgtcccttttggtcaattcagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTCGAGCCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTT-TGGAGAAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAaggtaaggacctaagtcctagacccgacttccgtggagaagtgtttattgtg Alignment from CESAR TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATT-GAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAag ttatttgggctggttaagtcaatggttattgtcccttttggtcaattcagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTCGAGCCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGT-TTTTGGAGAAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAaggtaaggacctaagtcctagacccgacttccgtggagaagtgtttattgtg Alignment from Spaln_aa2Genome TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATT-GAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAG ttatttgggctggttaagtcaatggttattgtcccttttggtcaattcagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTcGAGCCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTT-TTTGGAGAAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAAGgtaaggacctaagtcctagacccgacttccgtggagaagtgtttattgtg Alignment from Spaln_nt2Genome TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATT-GAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAG ttatttgggctggttaagtcaatggttattgtcccttttggtcaattcagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTCGAGCCTGGAGAAGAGATCTCTTGTTATTATGGAGATGG-GTTTTTGGAGAAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAAGgtaaggacctaagtcctagacccgacttccgtggagaagtgtttattgtg Alignment from Pairagon TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATT-GAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAG ttatttgggctggttaagtcaatggttattgtcccttttggtcaattcagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTCGAGCCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGG-TTTTTGGAGAAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAAGgtaaggacctaagtcctagacccgacttccgtggagaagtgtttattgtg Alignment from Exonerate_protein2genome TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATT-GAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGC--TTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAG ttatttgggctggttaagtcaatggttattgtcccttttggtcaattcagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTCGAGCCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTT---TTTGGAGAAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAAGgtaaggacctaagtcctagacccgacttccgtggagaagtgtttattgtg Alignment from Exonerate_coding2genome GTAAGTTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATT-GAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGC--TTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAG ttatttgggctggttaagtcaatggttattgtcccttttggtcaaTTCAGTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTCGAGCCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTT---TTTGGAGAAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAAGgtaaggacctaagtcctagacccgacttccgtggagaagtgtttattgtg Alignment from GeneWise TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGAT-ATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAG ttatttgggctggttaagtcaatggttattgtcccttttggtcaattcagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTCGAGCCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTT-GGAGAAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAAGgtaaggacctaagtcctagacccgacttccgtggagaagtgtttattgtg #### Syvn1_ID1383_2 --> 0 - 0 Original Alignment GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTG-GGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG agacagaaattggcagtacccttaaatgataatattattctatatttcagGTCCTATACATACAGGCCTTTGTTCTTGTCTTCCTCTTGCGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGG-ACCAGAGATGGAAgtgagaagggtccagcagttagggcaaggcttctaaattgccatgctggc Alignment from CESAR GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTG-GGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG agacagaaattggcagtacccttaaatgataatattattctatatttcagGTCCTATACATACAGGCCTTTGTTCTTGTCTTCCTCTTGCGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGG-GACCAGAGATGGAAgtgagaagggtccagcagttagggcaaggcttctaaattgccatgctggc Alignment from Spaln_aa2Genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTG-GGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAG----- agacagaaattggcagtacccttaaatgataatattattctatatttcagGTCCTATACATACAGGCCTTTGTTCTTGTCTTCCTCTTGcGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGACCAGAGATGGAAgtgagaagggtccagcagttagggcaaggcttctaaattgccatgctggc Alignment from Spaln_nt2Genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGG-GCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG agacagaaattggcagtacccttaaatgataatattattctatatttcagGTCCTATACATACAGGCCTTTGTTCTTGTCTTCCTCTTGCGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGG-ACCAGAGATGGAAgtgagaagggtccagcagttagggcaaggcttctaaattgccatgctggc Alignment from Pairagon GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTG-GGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG agacagaaattggcagtacccttaaatgataatattattctatatttcagGTCCTATACATACAGGCCTTTGTTCTTGTCTTCCTCTTGCGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGG-ACCAGAGATGGAAgtgagaagggtccagcagttagggcaaggcttctaaattgccatgctggc Alignment from Exonerate_protein2genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTG-GGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGC agacagaaattggcagtacccttaaatgataatattattctatatttcagGTCCTATACATACAGGCCTTTGTTCTTGTCTTCCTCTTGCGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGACCAgagatggaagtgagaagggtccagcagttagggcaaggcttctaaattgccatgctggc Alignment from Exonerate_coding2genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTG-GGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGC agacagaaattggcagtacccttaaatgataatattattctatatttcagGTCCTATACATACAGGCCTTTGTTCTTGTCTTCCTCTTGCGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGACCAgagatggaagtgagaagggtccagcagttagggcaaggcttctaaattgccatgctggc Alignment from GeneWise GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTC-TTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATG-- agacagaaattggcagtacccttaaatgataatattattctatatttcagGTCCTATACATACAGGCCTTTGTTCTTGTCTTCCTCTTGCGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGACCAGAGATGGAAgtgagaagggtccagcagttagggcaaggcttctaaattgccatgctggc #### Syvn1_ID1386_5 --> 2 - 0 Original Alignment ctCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTC-GTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tcaaacataaggtcaagaagccttatcatttcaagtccttttccccatagctCTCATGTTTCTCCTGGGCATCCTGGACTTCCTTTTTCGTCAGCCATACTTATCACAGGGTCGTGACTCGTGGTACTTCAG-GCAGTTGGTATTTGGCTTTGTTgtatgatcaggcaagaggtaacaagccagctgttcttcgtgcccctctat Alignment from CESAR ctCTCATGTTTCTCCTGGGTATCCTGGACTTCCTC-TTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tcaaacataaggtcaagaagccttatcatttcaagtccttttccccatagctCTCATGTTTCTCCTGGGCATCCTGGACTTCCTTTTTCGTCAGCCATACTTATCACAGGGTCGTGACTCGTGGTACTTCA-GGCAGTTGGTATTTGGCTTTGTTgtatgatcaggcaagaggtaacaagccagctgttcttcgtgcccctctat Alignment from Spaln_aa2Genome CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tcaaacataaggtcaagaagccttatcatttcaagtccttttccccatagCTCTCATGTTTCTCCTGGGCATCCTGGACTTCCTTTTTCGTCAGCCATACTTATCACAGGGTCGTGACTCGTGGTACTTCAGGCAGTTGGTATTTGGCTTTGTTgtatgatcaggcaagaggtaacaagccagctgttcttcgtgcccctctat Alignment from Spaln_nt2Genome CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCT-TCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tcaaacataaggtcaagaagccttatcatttcaagtccttttccccatagCTCTCATGTTTCTCCTGGGCATCCTGGACTTCCTTTTTCGTCAGCCATACTTATCACAGGGTCGTGACTCGTGGTACTTCAG-GCAGTTGGTATTTGGCTTTGTTgtatgatcaggcaagaggtaacaagccagctgttcttcgtgcccctctat Alignment from Pairagon CTCTCATGTTTCTCCTGGGTATCCTGGACTTCC-TCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tcaaacataaggtcaagaagccttatcatttcaagtccttttccccatagCTCTCATGTTTCTCCTGGGCATCCTGGACTTCCTTTTTCGTCAGCCATACTTATCACAGGGTCGTGACTCGTGGTACTTCAG-GCAGTTGGTATTTGGCTTTGTTgtatgatcaggcaagaggtaacaagccagctgttcttcgtgcccctctat Alignment from Exonerate_protein2genome CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTC-TTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTT tcaaacataaggtcaagaagccttatcatttcaagtccttttccccatagCTCTCATGTTTCTCCTGGGCATCCTGGACTTCCTTTTTCGTCAGCCATACTTATCACAGGGTCGTGACTCGTGGTACTTCAGGCAGTTGGTATTTGGCTTTgttgtatgatcaggcaagaggtaacaagccagctgttcttcgtgcccctctat Alignment from Exonerate_coding2genome CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTC-TTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTT tcaaacataaggtcaagaagccttatcatttcaagtccttttccccatagCTCTCATGTTTCTCCTGGGCATCCTGGACTTCCTTTTTCGTCAGCCATACTTATCACAGGGTCGTGACTCGTGGTACTTCAGGCAGTTGGTATTTGGCTTTgttgtatgatcaggcaagaggtaacaagccagctgttcttcgtgcccctctat Alignment from GeneWise CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tcaaacataaggtcaagaagccttatcatttcaagtccttttccccatagCTCTCATGTTTCTCCTGGGCATCCTGGACTTCCTTTTTCGTCAGCCATACTTATCACAGGGTCGTGACTCGTGGTACTTCAGGCAGTTGGTATTTGGCTTTGTTgtatgatcaggcaagaggtaacaagccagctgttcttcgtgcccctctat #### Syvn1_ID1388_7 --> 2 - 2 Original Alignment gcTTCATCAAGGTCCTGCTGTACATGGCCTTC-ATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGag ttggtgcatcttccatccttgcagttggcattgcactaattctaccacaggcTTCATCAAGGTGCTGCTATATATGGCCTTCCATGACCATCATGATCAAGGTGCACACTTTTCCAC-GTTTGCCATTAAGCCCATGTACCTGGCTATGaggtagagtaggcctcacatctgctattttgtcaccttgatttttgtcttcc Alignment from CESAR gcTTCATCAAGGTCCTGCTGTACATGGCCTTC-ATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGag ttggtgcatcttccatccttgcagttggcattgcactaattctaccacaggcTTCATCAAGGTGCTGCTATATATGGCCTTCCATGACCATCATGATCAAGGTGCACACTTTTCCA-CGTTTGCCATTAAGCCCATGTACCTGGCTATGaggtagagtaggcctcacatctgctattttgtcaccttgatttttgtcttcc Alignment from Spaln_aa2Genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ttggtgcatcttccatccttgcagttggcattgcactaattctaccacagGCTTCATCAAGGTGCTGCTATATATGGCCTTCCATGACCATCATGATCAAGGTGCACACTTTTCCACGTTTGCCATTAAGCCCATGTACCTGGCTATGAGgtagagtaggcctcacatctgctattttgtcaccttgatttttgtcttcc Alignment from Spaln_nt2Genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTC-ATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ttggtgcatcttccatccttgcagttggcattgcactaattctaccacagGCTTCATCAAGGTGCTGCTATATATGGCCTTCCATGACCATCATGATCAAGGTGCACACTTTTCCAC-GTTTGCCATTAAGCCCATGTACCTGGCTATGAGgtagagtaggcctcacatctgctattttgtcaccttgatttttgtcttcc Alignment from Pairagon GCTTCATCAAGGTCCTGCTGTACATGGCCTT-CATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ttggtgcatcttccatccttgcagttggcattgcactaattctaccacagGCTTCATCAAGGTGCTGCTATATATGGCCTTCCATGACCATCATGATCAAGGTGCACACTTTTCCAC-GTTTGCCATTAAGCCCATGTACCTGGCTATGAGgtagagtaggcctcacatctgctattttgtcaccttgatttttgtcttcc Alignment from Exonerate_protein2genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ttggtgcatcttccatccttgcagttggcattgcactaattctaccacagGCTTCATCAAGGTGCTGCTATATATGGCCTTCCATGACCATCATGATCAAGGTGCACACTTTTCCACGTTTGCCATTAAGCCCATGTACCTGGCTATGAGgtagagtaggcctcacatctgctattttgtcaccttgatttttgtcttcc Alignment from Exonerate_coding2genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ttggtgcatcttccatccttgcagttggcattgcactaattctaccacagGCTTCATCAAGGTGCTGCTATATATGGCCTTCCATGACCATCATGATCAAGGTGCACACTTTTCCACGTTTGCCATTAAGCCCATGTACCTGGCTATGAGgtagagtaggcctcacatctgctattttgtcaccttgatttttgtcttcc Alignment from GeneWise GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ttggtgcatcttccatccttgcagttggcattgcactaattctaccacagGCTTCATCAAGGTGCTGCTATATATGGCCTTCCATGACCATCATGATCAAGGTGCACACTTTTCCACGTTTGCCATTAAGCCCATGTACCTGGCTATGAGgtagagtaggcctcacatctgctattttgtcaccttgatttttgtcttcc #### Syvn1_ID1394_13 --> 2 - 2 Original Alignment ccTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTG-CGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGgg gcaatactaaactggtagctaggcctgacagttattgttttggattttagccTTCCCCCCAATGCCAGTACCGCCTGCTGGATTTGCTGGTCTAACACCAGAGGAGTTGTGTGCTCTAGAAGGTCATGAGCGGCAAGACCTGGAGGCTTGTTTGCAGAGTCTGCTGCAACATACACACACTACTGGATGCTGCAATGCTTCAAA-CAACCAATACCTCACTGTGTTGGCCTCTTTGgggtgagtatgcaagttcagctgaacacttccctgttgtctgaccaactatt Alignment from CESAR ccTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTG-CGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGgg gcaatactaaactggtagctaggcctgacagttattgttttggattttagccTTCCCCCCAATGCCAGTACCGCCTGCTGGATTTGCTGGTCTAACACCAGAGGAGTTGTGTGCTCTAGAAGGTCATGAGCGGCAAGACCTGGAGGCTTGTTTGCAGAGTCTGCTGCAACATACACACACTACTGGATGCTGCAATGCTTCAA-ACAACCAATACCTCACTGTGTTGGCCTCTTTGgggtgagtatgcaagttcagctgaacacttccctgttgtctgaccaactatt Alignment from Spaln_aa2Genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG gcaatactaaactggtagctaggcctgacagttattgttttggattttagCCTTCCCCCCAATGCCAGTACCGCCTGCTGGATTTGCTGGTCTAACACCAGAGGAGTTGTGTGCTCTAGAAGGTCATGAGCGGCAAGACCTGGAGGCTTGTTTGCAGAGTCTGCTGCAACATACACACACTACTGGATGCTGCAATGCTTCAAACAACCAATACCTCACTGTGTTGGCCTCTTTGGGgtgagtatgcaagttcagctgaacacttccctgttgtctgaccaactatt Alignment from Spaln_nt2Genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGC-GCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG gcaatactaaactggtagctaggcctgacagttattgttttggattttagCCTTCCCCCCAATGCCAGTACCGCCTGCTGGATTTGCTGGTCTAACACCAGAGGAGTTGTGTGCTCTAGAAGGTCATGAGCGGCAAGACCTGGAGGCTTGTTTGCAGAGTCTGCTGCAACATACACACACTACTGGATGCTGCAATGCTTCAAA-CAACCAATACCTCACTGTGTTGGCCTCTTTGGGgtgagtatgcaagttcagctgaacacttccctgttgtctgaccaactatt Alignment from Pairagon CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGC-GCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG gcaatactaaactggtagctaggcctgacagttattgttttggattttagCCTTCCCCCCAATGCCAGTACCGCCTGCTGGATTTGCTGGTCTAACACCAGAGGAGTTGTGTGCTCTAGAAGGTCATGAGCGGCAAGACCTGGAGGCTTGTTTGCAGAGTCTGCTGCAACATACACACACTACTGGATGCTGCAATGCTTCAAA-CAACCAATACCTCACTGTGTTGGCCTCTTTGGGgtgagtatgcaagttcagctgaacacttccctgttgtctgaccaactatt Alignment from Exonerate_protein2genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGC-AACATACACACACTACTGGATGCTGCCATGCTTCAA--ATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG gcaatactaaactggtagctaggcctgacagttattgttttggattttagCCTTCCCCCCAATGCCAGTACCGCCTGCTGGATTTGCTGGTCTAACACCAGAGGAGTTGTGTGCTCTAGAAGGTCATGAGCGGCAAGACCTGGAGGCTTGTTTGCAGAGTCTGCTGCAACATACACACACTACTGGATGCTGCAATGCTTCAAAC---AACCAATACCTCACTGTGTTGGCCTCTTTGGGgtgagtatgcaagttcagctgaacacttccctgttgtctgaccaactatt Alignment from Exonerate_coding2genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCG---CAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG gcaatactaaactggtagctaggcctgacagttattgttttggattttagCCTTCCCCCCAATGCCAGTACCGCCTGCTGGATTTGCTGGTCTAACACCAGAGGAGTTGTGTGCTCTAGAAGGTCATGAGCGGCAAGACCTGGAGGCTTGTTTGCAGAGTCTG--CTGCAACATACACACACTACTGGATGCTGCAATGCTTCAAAC-AACCAATACCTCACTGTGTTGGCCTCTTTGGGgtgagtatgcaagttcagctgaacacttccctgttgtctgaccaactatt Alignment from GeneWise CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTG---CGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG gcaatactaaactggtagctaggcctgacagttattgttttggattttagCCTTCCCCCCAATGCCAGTACCGCCTGCTGGATTTGCTGGTCTAACACCAGAGGAGTTGTGTGCTCTAGAAGGTCATGAGCGGCAAGACCTGGAGGCTTGTTTGCAGAGTCTGCTGCAACATACACACACT---ACTGGATGCTGCAATGCTTCAAACAACCAATACCTCACTGTGTTGGCCTCTTTGGGgtgagtatgcaagttcagctgaacacttccctgttgtctgaccaactatt #### Taf5_ID10097_5 --> 1 - 0 Original Alignment aATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAA-ATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gacatgtgattttgctcaacaggctgttagtaggtagttttccattccagaATTCCTCTCCCGGAACTAAAGGATTCTGACAAATTAGACAAACATAATGAATATGAAAGAAACTACCAAACGAGTGCGCC-TGGGCCAGACTGTTTACCTTCAATTTGTTATTACACCTTTGTTAATGCTTACCAGgtgagcaagaaaacaggtactgctatgtcacacagatggccacagttgca Alignment from CESAR aATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAA-ATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gacatgtgattttgctcaacaggctgttagtaggtagttttccattccagaATTCCTCTCCCGGAACTAAAGGATTCTGACAAATTAGACAAACATAATGAATATGAAAGAAACTACCAAACGAGTGCGCC-TGGGCCAGACTGTTTACCTTCAATTTGTTATTACACCTTTGTTAATGCTTACCAGgtgagcaagaaaacaggtactgctatgtcacacagatggccacagttgca Alignment from Spaln_aa2Genome AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAA-ATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gacatgtgattttgctcaacaggctgttagtaggtagttttccattccagAATTCCTCTCCCGGAACTAAAGGATTCTGACAAATTAGACAAAcATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTGGG-CCAGACTGTTTACCTTCAATTTGTTATTACACCTTTGTTAATGCTTACCAGgtgagcaagaaaacaggtactgctatgtcacacagatggccacagttgca Alignment from Spaln_nt2Genome AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAA-ATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gacatgtgattttgctcaacaggctgttagtaggtagttttccattccagAATTCCTCTCCCGGAACTAAAGGATTCTGACAAATTAGACAAACATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCT-GGGCCAGACTGTTTACCTTCAATTTGTTATTACACCTTTGTTAATGCTTACCAGgtgagcaagaaaacaggtactgctatgtcacacagatggccacagttgca Alignment from Pairagon AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAA-ATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gacatgtgattttgctcaacaggctgttagtaggtagttttccattccagAATTCCTCTCCCGGAACTAAAGGATTCTGACAAATTAGACAAACATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCT-GGGCCAGACTGTTTACCTTCAATTTGTTATTACACCTTTGTTAATGCTTACCAGgtgagcaagaaaacaggtactgctatgtcacacagatggccacagttgca Alignment from Exonerate_protein2genome AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gacatgtgattttgctcaacaggctgttagtaggtagttttccattccagAATTCCTCTCCCGGAACTAAAGGATTCTGACAAATTAGACAAACATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTGGGCCAGACTGTTTACCTTCAATTTGTTATTACACCTTTGTTAATGCTTACCAGgtgagcaagaaaacaggtactgctatgtcacacagatggccacagttgca Alignment from Exonerate_coding2genome AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAAT---AATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gacatgtgattttgctcaacaggctgttagtaggtagttttccattccagAATTCCTCTCCCGGAACTAAAGGATTCTGACAAATTAGACAAA--CATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCT-GGGCCAGACTGTTTACCTTCAATTTGTTATTACACCTTTGTTAATGCTTACCAGgtgagcaagaaaacaggtactgctatgtcacacagatggccacagttgca Alignment from GeneWise AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gacatgtgattttgctcaacaggctgttagtaggtagttttccattccagAATTCCTCTCCCGGAACTAAAGGATTCTGACAAATTAGACAAACATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTGGGCCAGACTGTTTACCTTCAATTTGTTATTACACCTTTGTTAATGCTTACCAGgtgagcaagaaaacaggtactgctatgtcacacagatggccacagttgca #### Taf5_ID10102_10 --> 0 - 1 Original Alignment GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATT-GGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAg atccgcatgccaatacactacaaatccaattaatttgttcaattttccagGGCCCAATTCATTCTTTGACATTTTCTCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTCGGACATGGCCTAATGGTTGGAGAATTAAAAGGCCACACAG-TACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGGAATTTTGGCGTCAggtacagccagtagtgacctcataacagggcctacagcatttattgtttgt Alignment from CESAR GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATT-GGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAg atccgcatgccaatacactacaaatccaattaatttgttcaattttccagGGCCCAATTCATTCTTTGACATTTTCTCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTCGGACATGGCCTAATGGTTGGAGAATTAAAAGGCCACACA-GTACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGGAATTTTGGCGTCAggtacagccagtagtgacctcataacagggcctacaatagtgtctgtgccc Alignment from Spaln_aa2Genome GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATT-GGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG atccgcatgccaatacactacaaatccaattaatttgttcaattttccagGGCCCAATTCATTCTTTGACATTTTCTCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTcGGACATGGCCTAATGGTTGGAGAATTAAAAGGCCACACAGT-ACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGGAATTTTGGCGTCAGgtacagccagtagtgacctcataacagggcctacagcatttattgtttgt Alignment from Spaln_nt2Genome GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATT-GGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG atccgcatgccaatacactacaaatccaattaatttgttcaattttccagGGCCCAATTCATTCTTTGACATTTTCTCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTCGGACATGGCCTAATGGTTGGAGAATTAAAAGGCCACACAG-TACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGGAATTTTGGCGTCAGgtacagccagtagtgacctcataacagggcctacagcatttattgtttgt Alignment from Pairagon GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATT-GGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAGGT------------------------------------------------ atccgcatgccaatacactacaaatccaattaatttgttcaattttccagGGCCCAATTCATTCTTTGACATTTTCTCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTCGGACATGGCCTAATGGTTGGAGAATTAAAAGGCCACACAG-TACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGGAATTTTGGCGTCAGGTACAGCCAGTAGTGACCTCATAACAGGGCCTACAGCATTTATTGTTTGT Alignment from Exonerate_protein2genome GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATT-GGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACT--GATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG atccgcatgccaatacactacaaatccaattaatttgttcaattttccagGGCCCAATTCATTCTTTGACATTTTCTCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTCGGACATGGCCTAATGGTTGGAGAATTAAAAGGCCACACAGT---ACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGGAATTTTGGCGTCAGgtacagccagtagtgacctcataacagggcctacagcatttattgtttgt Alignment from Exonerate_coding2genome GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATT-GGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACT--GATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG atccgcatgccaatacactacaaatccaattaatttgttcaattttccagGGCCCAATTCATTCTTTGACATTTTCTCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTCGGACATGGCCTAATGGTTGGAGAATTAAAAGGCCACACAGT---ACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGGAATTTTGGCGTCAGgtacagccagtagtgacctcataacagggcctacagcatttattgtttgt Alignment from GeneWise GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGAT-ATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG atccgcatgccaatacactacaaatccaattaatttgttcaattttccagGGCCCAATTCATTCTTTGACATTTTCTCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTCGGACATGGCCTAATGGTTGGAGAATTAAAAGGCCACACAGT-ACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGGAATTTTGGCGTCAGgtacagccagtagtgacctcataacagggcctacagcatttattgtttgt #### Tbc1d10c_ID399_5 --> 1 - 0 Original Alignment gCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTAC-ACCCTGTACCGGCCAGAGCAGGGATAC------TGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG tgaacagggaagatcatatgggagggtgcccctcacccccacccccgcagaCAGCAAGGGTTTCTGCAGGTTATGAAAGCCTATCAATCTTCACCACCCAGAACAAGGATATTGTCACT-TCAAGCACAGGGACCTGTAGCTGCAGTACTTCTCATGCATCTCCCTCCAGAGgtgaggtccctagatagaaacagtaaggtatatatactatggcgactgaa Alignment from CESAR gCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTAC-ACCCTGTACCGGCCAGAGCAGGGATACTGC-----CAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG tgaacagggaagatcatatgggagggtgcccctcacccccacccccgcagaCAGCAAGGGTTTCTGCAGGTTATGAAAGCCTATCAATCTTCACCACCCAGAACAAGGATATTGTCACTTCAAGCACAGGGACCTGTAGCTGCAGTACTTCTCATGCATCTCCCTCCAGAGgtgaggtccctagatagaaacagtaaggtatatatactatggcgactgaa Alignment from Spaln_aa2Genome GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGA------TACTGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG tgaacagggaagatcatatgggagggtgcccctcacccccacccccgcagACAGCAAGGGTTTCTGCAGGTTATGAAAGCCTATCAATCTTCACCACCCAGAACAAGGATATTGTCACTTCAAGCACAGGGACCTGTAGCTGCAGTACTTCTCATGCATCTCCCTCCAGAGgtgaggtccctagatagaaacagtaaggtatatatactatggcgactgaa Alignment from Spaln_nt2Genome GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTA-CACCCTGTACCGGCCAGAGCAGGGATACTGCCAG-----GCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG tgaacagggaagatcatatgggagggtgcccctcacccccacccccgcagACAGCAAGGGTTTCTGCAGGTTATGAAAGCCTATCAATCTTCACCACCCAGAACAAGGATATTGTCACTTCAAGCACAGGGACCTGTAGCTGCAGTACTTCTCATGCATCTCCCTCCAGAGgtgaggtccctagatagaaacagtaaggtatatatactatggcgactgaa Alignment from Pairagon GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTA-CACCCTGTACCGGCCAGAGCAGGGATACTG-----CCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG tgaacagggaagatcatatgggagggtgcccctcacccccacccccgcagACAGCAAGGGTTTCTGCAGGTTATGAAAGCCTATCAATCTTCACCACCCAGAACAAGGATATTGTCACTTCAAGCACAGGGACCTGTAGCTGCAGTACTTCTCATGCATCTCCCTCCAGAGgtgaggtccctagatagaaacagtaaggtatatatactatggcgactgaa Alignment from Exonerate_protein2genome GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTAC-ACCCTGTACCGGCCAGAGCAGGGATACTGC-----CAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG tgaacagggaagatcatatgggagggtgcccctcacccccacccccgcagACAGCAAGGGTTTCTGCAGGTTATGAAAGCCTATCAATCTTCACCACCCAGAACAAGGATATTGTCACTTCAAGCACAGGGACCTGTAGCTGCAGTACTTCTCATGCATCTCCCTCCAGAGgtgaggtccctagatagaaacagtaaggtatatatactatggcgactgaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATACTGC------CAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG tgaacagggaagatcatatgggagggtgcccctcacccccacccccgcagACAGCAAGGGTTTCTGCAGGTTATGAAAGCCTATCAATCTTCACCACCCAGAACAAGGATATTGTCACTTCAAGCACAGGGACCTGTAGCTGCAGTACTTCTCATGCATCTCCCTCCAGAGgtgaggtccctagatagaaacagtaaggtatatatactatggcgactgaa #### Tbc1d10c_ID400_4 --> 0 - 2 Original Alignment CTACCAG GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACC-ATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACgg ATATCAGgtatggaggccaggaatgccctcttgttccccttgcattacagGAGCTGGCATCAGCACCCGGAGACCCCCAGTGGATGGAAGCCCACCGGCAGAGACTTACACCAACAATTTCCTTTGCATG-GATACTTGTCCTGCCTCAGGGACATgggtatccgttgaggaaatagggtccatctgttgtccacagaaaggggaggg Alignment from CESAR CTACCAG GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACC-ATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACgg ATATCAGgtagacaggccaggaatgccctcttgttccccttgcattacagGAGCTGGCATCAGCACCCGGAGACCCCCAGTGGATGGAAGCCCACCGGCAGAGACTTACACCAACAATTTCCTTTGCAT-GGATACTTGTCCTGCCTCAGGGACATgggtatccgttgaggaaatagggtccatctgttgtccacagaaaggggaggg Alignment from Spaln_aa2Genome CTACCAG GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG ATATCAGgtatggaggccaggaatgccctcttgttccccttgcattacagGAGCTGGCATCAGCACCCGGAGACCCCCAGTGGATGGAAGCCCACCGGCAGAGACTTACACCAACAATTTCCTTTGCATGGATACTTGTCCTGCCTCAGGGACATGGgtatccgttgaggaaatagggtccatctgttgtccacagaaaggggaggg Alignment from Spaln_nt2Genome CTACCAG GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGG-AGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG ATATCAGgtatggaggccaggaatgccctcttgttccccttgcattacagGAGCTGGCATCAGCACCCGGAGACCCCCAGTGGATGGAAGCCCACCGGCAGAGACTTACACCAACAATTTCCTTTGCATG-GATACTTGTCCTGCCTCAGGGACATGGgtatccgttgaggaaatagggtccatctgttgtccacagaaaggggaggg Alignment from Pairagon CTACCAG GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGG-AGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG ATATCAGgtatggaggccaggaatgccctcttgttccccttgcattacagGAGCTGGCATCAGCACCCGGAGACCCCCAGTGGATGGAAGCCCACCGGCAGAGACTTACACCAACAATTTCCTTTGCATG-GATACTTGTCCTGCCTCAGGGACATGGgtatccgttgaggaaatagggtccatctgttgtccacagaaaggggaggg Alignment from Exonerate_protein2genome CTACCAG GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACC-ATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCA--CCCCAGGGACACGG ATATCAGgtatggaggccaggaatgccctcttgttccccttgcattacagGAGCTGGCATCAGCACCCGGAGACCCCCAGTGGATGGAAGCCCACCGGCAGAGACTTACACCAACAATTTCCTTTGCATGGA---TACTTGTCCTGCCTCAGGGACATGGgtatccgttgaggaaatagggtccatctgttgtccacagaaaggggaggg Alignment from Exonerate_coding2genome CTACCAG GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACC-ATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCA--CCCCAGGGACACGG ATATCAGgtatggaggccaggaatgccctcttgttccccttgcattacagGAGCTGGCATCAGCACCCGGAGACCCCCAGTGGATGGAAGCCCACCGGCAGAGACTTACACCAACAATTTCCTTTGCATGGA---TACTTGTCCTGCCTCAGGGACATGGgtatccgttgaggaaatagggtccatctgttgtccacagaaaggggaggg Alignment from GeneWise CTACCAG GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG ATATCAGgtatggaggccaggaatgccctcttgttccccttgcattacagGAGCTGGCATCAGCACCCGGAGACCCCCAGTGGATGGAAGCCCACCGGCAGAGACTTACACCAACAATTTCCTTTGCATGGATACTTGTCCTGCCTCAGGGACATGGgtatccgttgaggaaatagggtccatctgttgtccacagaaaggggaggg #### Tbc1d10c_ID401_3 --> 0 - 0 Original Alignment GTAAAGATCCAGTGCCGCAAG-GGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTGG gctcttttttataatattagtttgctggaactgggagtgttttttattagGTGAAGATACAATGTCACAAGCGGCATTCCCACTGTCTTGTGTGCGCGGTGTTGGCCCC-CCTATGTGGGGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtagacaggccaggaatgccctcctccacccacccacccgcagGAGCTGG Alignment from CESAR GTAAAGATCCAGTGCCGCAAG-GGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTGG gctcttttttataatattagtttgctggaactgggagtgttttttattagGTGAAGATACAATGTCACAAGCGGCATTCCCACTGTCTTGTGTGCGCGGTGTTGGCCC-CCCTATGTGGGGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtagacaggccaggaatgccctcttgttccccttgcattacagGAGCTGG Alignment from Spaln_aa2Genome GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTGG gctcttttttataatattagtttgctggaactgggagtgttttttattagGTGAAGATACAATGTCACAAGCGGCATTCCCACTGTCTTGTGTGCGCGGTGTTGGCCCCCCTATGTGGGGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtagacaggccaggaatgccctcctccacccacccacccgcagGAGCTGG Alignment from Spaln_nt2Genome GTAAAGATCCAGTGCCGCAAG-GGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTGG gctcttttttataatattagtttgctggaactgggagtgttttttattagGTGAAGATACAATGTCACAAGCGGCATTCCCACTGTCTTGTGTGCGCGGTGTTGGCCCC-CCTATGTGGGGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtagacaggccaggaatgccctcctccacccacccacccgcagGAGCTGG Alignment from Pairagon GTAAAGATCCAGTGCCGCAAG-GGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTGG gctcttttttataatattagtttgctggaactgggagtgttttttattagGTGAAGATACAATGTCACAAGCGGCATTCCCACTGTCTTGTGTGCGCGGTGTTGGCCCC-CCTATGTGGGGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtagacaggccaggaatgccctcctccacccacccacccgcagGAGCTGG Alignment from Exonerate_protein2genome GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTGG gctcttttttataatattagtttgctggaactgggagtgttttttattagGTGAAGATACAATGTCACAAGCGGCATTCCCACTGTCTTGTGTGCGCGGTGTTGGCCCCCCTATGTGGGGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtagacaggccaggaatgccctcctccacccacccacccgcagGAGCTGG Alignment from Exonerate_coding2genome GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTGG gctcttttttataatattagtttgctggaactgggagtgttttttattagGTGAAGATACAATGTCACAAGCGGCATTCCCACTGTCTTGTGTGCGCGGTGTTGGCCCCCCTATGTGGGGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtagacaggccaggaatgccctcctccacccacccacccgcagGAGCTGG Alignment from GeneWise GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTGG gctcttttttataatattagtttgctggaactgggagtgttttttattagGTGAAGATACAATGTCACAAGCGGCATTCCCACTGTCTTGTGTGCGCGGTGTTGGCCCCCCTATGTGGGGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtagacaggccaggaatgccctcctccacccacccacccgcagGAGCTGG #### Tcirg1_ID169_18 --> 2 - 2 Original Alignment agCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCC-TTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACtg tagaatgacataggtctacaatgctcttctggtgtacctgcactttgcagagCTGTCGGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTTGCAGCTGTAGTACTGGTCCCTGTGTTTGCTGCCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGG-AATGGAGGGGCTTTTAGCATTCTTACATGCTCTGCGGTTGCATtggtatgagtgatatcaacatgacaggatgggacagggaccataggttgatt Alignment from CESAR agCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCC-TTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACtg tagaatgacataggtctacaatgctcttctggtgtacctgcactttgcagagCTGTCGGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTTGCAGCTGTAGTACTGGTCCCTGTGTTTGCTGCCCTTTGCTGTATTAAGTGTCGCAATTCTGTTG-GAATGGAGGGGCTTTTAGCATTCTTACATGCTCTGCGGTTGCATtggtatgagtgatatcaacatgacaggatgggacagggaccataggttgatt Alignment from Spaln_aa2Genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG tagaatgacataggtctacaatgctcttctggtgtacctgcactttgcagAGCTGTCGGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTTGCAGCTGTAGTACTGGTCCCTGTGTTTGCTGCCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGAATGGAGGGGCTTTTAGCATTCTTACATGCTCTGCGGTTGCATTGgtatgagtgatatcaacatgacaggatgggacagggaccataggttgatt Alignment from Spaln_nt2Genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCC-TTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG tagaatgacataggtctacaatgctcttctggtgtacctgcactttgcagAGCTGTCGGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTTGCAGCTGTAGTACTGGTCCCTGTGTTTGCTGCCCTTTGCTGTATTAAGTGTCGCAATTCTGTT-GGAATGGAGGGGCTTTTAGCATTCTTACATGCTCTGCGGTTGCATTGgtatgagtgatatcaacatgacaggatgggacagggaccataggttgatt Alignment from Pairagon AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTG-CCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG tagaatgacataggtctacaatgctcttctggtgtacctgcactttgcagAGCTGTCGGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTTGCAGCTGTAGTACTGGTCCCTGTGTTTGCTGCCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGG-AATGGAGGGGCTTTTAGCATTCTTACATGCTCTGCGGTTGCATTGgtatgagtgatatcaacatgacaggatgggacagggaccataggttgatt Alignment from Exonerate_protein2genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG tagaatgacataggtctacaatgctcttctggtgtacctgcactttgcagAGCTGTCGGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTTGCAGCTGTAGTACTGGTCCCTGTGTTTGCTGCCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGAATGGAGGGGCTTTTAGCATTCTTACATGCTCTGCGGTTGCATTGgtatgagtgatatcaacatgacaggatgggacagggaccataggttgatt Alignment from Exonerate_coding2genome tagaatgacataggtctacaatgctcttctggtgtacctgcactttgcagagctgtcggaggtcctttgggcaatggtgatgcacataggccttggcatgggccgagagattggagttgcagctgtagtactggtccctgtgtttgctgccctttgctgtattaagtgtcgcaattctgttggaatggaggggcttttagcattcttacatgctctgcggttgcattggtatgagtgatatcaacatgacaggatgggacagggaccataggttgatt Alignment from GeneWise AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTGGGTGGAG tagaatgacataggtctacaatgctcttctggtgtacctgcactttgcagAGCTGTCGGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTTGCAGCTGTAGTACTGGTCCCTGTGTTTGCTGCCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGAATGGAGGGGCTTTTAGCATTCTTACATGCTCTGCGGTTGCATTGGTATGAGtgatatcaacatgacaggatgggacagggaccataggttgatt #### Tcirg1_ID172_15 --> 0 - 0 Original Alignment GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCT-ACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG GATGAGGAC actccaattcaatgactatgaacacacttactgtcttattttcttttcagGAAGTGGTACAGTATGTCCTAGTGGTCTTGGCATTAGCTCACTGTCCCCATTTTGCTGCTGGGCACACCC------CTCCTAC-TGAGCACCAGCACAGAAGAAACTCCCAAACACGA---GCAGGCCAACAAgtaagtatatagtgttgagaccttctctcggttctgggcagGATGAGGAC Alignment from CESAR GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCT-ACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG GATGAGGAC actccaattcaatgactatgaacacacttactgtcttattttcttttcagGAAGTGGTACAGTATGTCCTAGTGGTCTTGGCATTAGCTCACTGTCCCCATTTTGCTGCTGGGCACACCC------CTCCTA-CTGAGCACCAGCACAGAAGAAACTCCCAAACACGA---GCAGGCCAACAAgtaagtatatagtgttgaggtcttctactttcaccctccagGATGAGGAC Alignment from Spaln_aa2Genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCT-ACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG GATGAGGAC actccaattcaatgactatgaacacacttactgtcttattttcttttcagGAAGTGGTACAGTATGTCCTAGTGGTCTTGGCATTAGCTcACTGTCCCCATTTTGCTGCTGGGCACACCCCTCCTACT-------GAGCACCAGCACAGAAGAAACTCCCAAACACGA---GCAGGCCAACAAgtaagtatatagtgttgagaccttctctcggttctgggcagGATGAGGAC Alignment from Spaln_nt2Genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCT-ACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG GATGAGGAC actccaattcaatgactatgaacacacttactgtcttattttcttttcagGAAGTGGTACAGTATGTCCTAGTGGTCTTGGCATTAGCTCACTGTCCCCATTTTGCTGCTGGGCACACCCCT---CCTACTG----AGCACCAGCACAGAAGAAACTCCCA---AACACGAGCAGGCCAACAAgtaagtatatagtgttgagaccttctctcggttctgggcagGATGAGGAC Alignment from Pairagon GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCT-ACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCA-----------------------------------------GCAGGATGAGGAC actccaattcaatgactatgaacacacttactgtcttattttcttttcagGAAGTGGTACAGTATGTCCTAGTGGTCTTGGCATTAGCTCACTGTCCCCATTTTGCTGCTGGGCACACCCCT---CCTACTG----AGCACCAGCACAGAAGAAACTCCCA---AACACGAGCAGGCCAACAAGTAAGTATATAGTGTTGAGACCTTCTCTCGGTTCTGGGCAGGATGAGGAC Alignment from Exonerate_protein2genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG GATGAGGAC actccaattcaatgactatgaacacacttactgtcttattttcttttcagGAAGTGGTACAGTATGTCCTAGTGGTCTTGGCATTAGCTCACTGTCCCCATTTTGCTGCTGGGCACACC------CCTCCTACTGAGCACCAGCACAGAAGAAACTCCCAAACACGA---GCAGGCCAACAAgtaagtatatagtgttgagaccttctctcggttctgggcagGATGAGGAC Alignment from Exonerate_coding2genome actccaattcaatgactatgaacacacttactgtcttattttcttttcaggaagtggtacagtatgtcctagtggtcttggcattagctcactgtccccattttgctgctgggcacacccctcctactgagcaccagcacagaagaaactcccaaacacgagcaggccaacaagtaagtatatagtgttgagaccttctctcggttctgggcaggatgaggac Alignment from GeneWise GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGC---ACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG GATGAGGAC actccaattcaatgactatgaacacacttactgtcttattttcttttcagGAAGTGGTACAGTATGTCCTAGTGGTCTTGGCATTAGCTCACTGTCCCCATTTTGCTGCTGGGCACACCCCTCCT---------ACTGAGCACCAGCACAGAAGAAACTCCCAAACACGA---GCAGGCCAACAAgtaagtatatagtgttgagaccttctctcggttctgggcagGATGAGGAC #### Tcirg1_ID173_14 --> 1 - 0 Original Alignment gCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATC-CTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG tgagtcttgcctcatcctgatgagaatactcacaccctgttttcttccaggCACTTCGGTGAGGCCCACAGGCTGCTGCTT------GTGTCAGAGCTTATTTTCCTCCTGGGCCTC------TATCTGGTGCTCCTAATTCTCTATAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCC------CATTATTCACTTCATCAAT---TTCCTCTTCTCCC-GAACCCG---AATCATCTGCTGTTCCATGGGCAGgtgagcagtgtgtgacaggtgattctaatgtcatatagcataatctgacc Alignment from CESAR gCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG tgagtcttgcctcatcctgatgagaatactcacaccctgttttcttccaggCACTTCGGTGAGGCCCACAGGCTGCTGCTT------GTGTCAGAGCTTATTTTCCTCCTGGGCCTC------TATCTGGTGCTCCTAATTCTCTATAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCC--CATT---ATTCACTTCATCAAT---TTCCTCTTCTCC-CGAACCCG---AATCATCTGCTGTTCCATGGGCAGgtgagcagtgtgtgacaggtgattctaatgtcatatagcataatctgacc Alignment from Spaln_aa2Genome GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG tgagtcttgcctcatcctgatgagaatactcacaccctgttttcttccagGCACTTCGGTGAGGCCCACAGGCTGCTGCTTGTGTCA------GAGCTTATTTTCCTCCTGGGCCTCTATCTGGTG------CTCCTAATTCTCTATAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCCCAT---------TATTCACTTCATCAATTTCCTCTTCTCCCGAACCCG---AATCATCTGCTGTTCCATGGGCAGgtgagcagtgtgtgacaggtgattctaatgtcatatagcataatctgacc Alignment from Spaln_nt2Genome GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG tgagtcttgcctcatcctgatgagaatactcacaccctgttttcttccagGCACTTCGGTGAGGCCCACAGGCTGCTGCTTG------TGTCAGAGCTTATTTTCCTCCTGGGCCT------CTATCTGGTGCTCCTAATTCTCTATAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCC-----CATTATTCACTTCATCAAT---TTCCTCTTCTCCCGAA----CCCGAATCATCTGCTGTTCCATGGGCAGgtgagcagtgtgtgacaggtgattctaatgtcatatagcataatctgacc Alignment from Pairagon GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG tgagtcttgcctcatcctgatgagaatactcacaccctgttttcttccagGCACTTCGGTGAGGCCCACAGGCTGCTGCTTG------TGTCAGAGCTTATTTTCCTCCTGGGCCT------CTATCTGGTGCTCCTAATTCTCTATAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCC-----CATTATTCACTTCATCAAT---TTCCTCTTCTCCCGAA----CCCGAATCATCTGCTGTTCCATGGGCAGgtgagcagtgtgtgacaggtgattctaatgtcatatagcataatctgacc Alignment from Exonerate_protein2genome GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG tgagtcttgcctcatcctgatgagaatactcacaccctgttttcttccagGCACTTCGGTGAGGCCCACAGGCTGCTGCTT------GTGTCAGAGCTTATTTTCCTCCTGGGCCTC------TATCTGGTGCTCCTAATTCTCTATAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCCCATTATTCACTTCAT---------CAATTTCCTCTTCTCCCGAACCCG---AATCATCTGCTGTTCCATGGGCAGgtgagcagtgtgtgacaggtgattctaatgtcatatagcataatctgacc Alignment from Exonerate_coding2genome tgagtcttgcctcatcctgatgagaatactcacaccctgttttcttccaggcacttcggtgaggcccacaggctgctgcttgtgtcagagcttattttcctcctgggcctctatctggtgctcctaattctctataaatgggtaaacatctcagcaactagttctgcctcagccccccattattcacttcatcaatttcctcttctcccgaacccgaatcatctgctgttccatgggcaggtgagcagtgtgtgacaggtgattctaatgtcatatagcataatctgacc Alignment from GeneWise GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG tgagtcttgcctcatcctgatgagaatactcacaccctgttttcttccagGCACTTCGGTGAGGCCCACAGGCTGCTGCTT------GTGTCAGAGCTTATTTTCCTCCTGGGCCTC------TATCTGGTGCTCCTAATTCTCTATAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCCCATTATTCACTTCAT---------CAATTTCCTCTTCTCCCGAACCCG---AATCATCTGCTGTTCCATGGGCAGgtgagcagtgtgtgacaggtgattctaatgtcatatagcataatctgacc #### Tcirg1_ID174_13 --> 0 - 2 Original Alignment ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAG-ATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACgt accactgaagtgcatgttgcaaagtgttctttatgtggcatcttcttcagCTCTGCAGTCTGGCCACAAACCACCTGAGCTTTCTCAACTCTTTTAAGCATGAAGACATCAGTCATCCTAGGAGTCATACACATGGCAT-TGGGGTCTTCCTCAGCATCTTCAATCAGgtgtatgtcatttgatttgggcatgggtagtatgtgctgagtcttgcctcat Alignment from CESAR ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAG-ATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACgt accactgaagtgcatgttgcaaagtgttctttatgtggcatcttcttcagCTCTGCAGTCTGGCCACAAACCACCTGAGCTTTCTCAACTCTTTTAAGCATGAAGACATCAGTCATCCTAGGAGTCATACACATGGCA-TTGGGGTCTTCCTCAGCATCTTCAATCAGgtgtatgtcatttgatttgggcatgggtagtatgtgctgagtcttgcctcat Alignment from Spaln_aa2Genome ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACGT accactgaagtgcatgttgcaaagtgttctttatgtggcatcttcttcagCTCTGCAGTCTGGCCACAAACCACCTGAGCTTTCTCAACTCTTTTAAGCATGAAGACATCAGTCATCCTAGGAGTCATACACATGGCATTGGGGTCTTCCTCAGCATCTTCAATCAGGTgtatgtcatttgatttgggcatgggtagtatgtgctgagtcttgcctcat Alignment from Spaln_nt2Genome ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAG-ATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACGT accactgaagtgcatgttgcaaagtgttctttatgtggcatcttcttcagCTCTGCAGTCTGGCCACAAACCACCTGAGCTTTCTCAACTCTTTTAAGCATGAAGACATCAGTCATCCTAGGAGTCATACACATGGCATTG-GGGTCTTCCTCAGCATCTTCAATCAGGTgtatgtcatttgatttgggcatgggtagtatgtgctgagtcttgcctcat Alignment from Pairagon ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAG-ATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACGT accactgaagtgcatgttgcaaagtgttctttatgtggcatcttcttcagCTCTGCAGTCTGGCCACAAACCACCTGAGCTTTCTCAACTCTTTTAAGCATGAAGACATCAGTCATCCTAGGAGTCATACACATGGCA-TTGGGGTCTTCCTCAGCATCTTCAATCAGGTgtatgtcatttgatttgggcatgggtagtatgtgctgagtcttgcctcat Alignment from Exonerate_protein2genome ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAG-ATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCC--TTTGGGGTGTTCCTCAGCATCTTCAACCACGT accactgaagtgcatgttgcaaagtgttctttatgtggcatcttcttcagCTCTGCAGTCTGGCCACAAACCACCTGAGCTTTCTCAACTCTTTTAAGCATGAAGACATCAGTCATCCTAGGAGTCATACACATGGCATT---GGGGTCTTCCTCAGCATCTTCAATCAGGTgtatgtcatttgatttgggcatgggtagtatgtgctgagtcttgcctcat Alignment from Exonerate_coding2genome ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAG-ATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACGTGC accactgaagtgcatgttgcaaagtgttctttatgtggcatcttcttcagCTCTGCAGTCTGGCCACAAACCACCTGAGCTTTCTCAACTCTTTTAAGCATGAAGACATCAGTCATCCTAGGAGTCATACACATGGCA-TTGGGGTCTTCCTCAGCATCTTCAATCAGGTGTatgtcatttgatttgggcatgggtagtatgtgctgagtcttgcctcat Alignment from GeneWise ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAG---ATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACGT accactgaagtgcatgttgcaaagtgttctttatgtggcatcttcttcagCTCTGCAGTCTGGCCACAAACCACCTGAGCTTTCTCAACTCTTTTAAGCATGAAGACATCAGTCATCCTAGGAGTCATACACAT---GGCATTGGGGTCTTCCTCAGCATCTTCAATCAGGTgtatgtcatttgatttgggcatgggtagtatgtgctgagtcttgcctcat #### Tcirg1_ID176_11 --> 0 - 2 Original Alignment ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAAT---GAGTGCTTCAGCCGAGCC-ACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGag cacagctgaagaccagggagccattttccaatcccttcttctccgagcagATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCACGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGG-CAATCAATCTGGCTGGctgtaagtctatgtggagcagttctgatacgaagtattggttatcttgcttt Alignment from CESAR ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAAT---GAGTGCTTCAGCCGAGCC-ACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGag cacagctgaagaccagggagccattttccaatcccttcttctccgagcagATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCACGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGG-CAATCAATCTGGCTGGctgtaagtctatgtggagcagttctgatacgaagtattggttaagctctctg Alignment from Spaln_aa2Genome ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAAT---GAGTGCTTCAGCCGAGCC-ACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCC---AACCAGTCAGGCTGGAG cacagctgaagaccagggagccattttccaatcccttcttctccgagcagATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCAcGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCAATCAATCTGGCTGGCTGTAAgtctatgtggagcagttctgatacgaagtattggttatcttgcttt Alignment from Spaln_nt2Genome ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCAT--CTACAA-TGAGTGCTTCAGCCGAGC-CACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGAG cacagctgaagaccagggagccattttccaatcccttcttctccgagcagATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCACGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGG-CAATCAATCTGGCTGGCTgtaagtctatgtggagcagttctgatacgaagtattggttatcttgcttt Alignment from Pairagon ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCAT------------------------------CTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGG---------------------------------------------------- cacagctgaagaccagggagccattttccaatcccttcttctccgagcagATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCACGCT--------------------------ACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGG-CAATCAATCTGGCTGGCTGTAAGTCTATGTGGAGCAGTTCTGATACGAAGTATTGGTTATCTTGCTTT Alignment from Exonerate_protein2genome ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAAT---GAGTGCTTCAGCCGAGCC-ACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCC---AACCAGTCAGGCT cacagctgaagaccagggagccattttccaatcccttcttctccgagcagATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCACGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCAATCAATCTGGCTGGCTgtaagtctatgtggagcagttctgatacgaagtattggttatcttgcttt Alignment from Exonerate_coding2genome ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAAT---GAGTGCTTCAGCCGAGCC-ACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCC---AACCAGTCAGGCT cacagctgaagaccagggagccattttccaatcccttcttctccgagcagATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCACGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCAATCAATCTGGCTGGCTgtaagtctatgtggagcagttctgatacgaagtattggttatcttgcttt Alignment from GeneWise ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAAT---GAGTGCTTCAGCCGAGCC-ACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCC---AACCAGTCAGGCTGGAG cacagctgaagaccagggagccattttccaatcccttcttctccgagcagATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCACGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCAATCAATCTGGCTGGCTGTAAgtctatgtggagcagttctgatacgaagtattggttatcttgcttt #### Tcirg1_ID182_5 --> 1 - 0 Original Alignment tTTTGTGGCAGGTGCTGTGGAGCCCTAC-AAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC gaaaagggggagttgagaggagtctgcaatggatatctttcttccctcagcTTTGTGGCAGGTGCAGTGGAACCCTACCAAGGCTGCAGCCTTAGAGCGCCTGCTGTGGAGAGCATGCC-TGGCTTTCTCATTGCTAGTTTTCGTGAGACCGAAGGGCAGTTGAAGGATCCAGTGGCAgtaaggttaggggcaggacactgttgccctttgtttctccagGGTGAACC Alignment from CESAR tTTTGTGGCAGGTGCTGTGGAGCCCTAC-AAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC gaaaagggggagttgagaggagtctgcaatggatatctttcttccctcagcTTTGTGGCAGGTGCAGTGGAACCCTACCAAGGCTGCAGCCTTAGAGCGCCTGCTGTGGAGAGCATGC-CTGGCTTTCTCATTGCTAGTTTTCGTGAGACCGAAGGGCAGTTGAAGGATCCAGTGGCAgtaaggttaggggcaggacagaattaatctgagcatttgcagGGTGAACC Alignment from Spaln_aa2Genome TTTTGTGGCAGGTGCTGTGGAGCCCTAC-AAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC gaaaagggggagttgagaggagtctgcaatggatatctttcttccctcagCTTTGTGGCAGGTGCAGTGGAACCCTACcAAGGCTGCAGCCTTAGAGCGCCTGCTGTGGAGAGCATGCCT-GGCTTTCTCATTGCTAGTTTTCGTGAGACCGAAGGGCAGTTGAAGGATCCAGTGGCAgtaaggttaggggcaggacactgttgccctttgtttctccagGGTGAACC Alignment from Spaln_nt2Genome TTTTGTGGCAGGTGCTGTGGAGCCCTAC-AAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC gaaaagggggagttgagaggagtctgcaatggatatctttcttccctcagCTTTGTGGCAGGTGCAGTGGAACCCTACCAAGGCTGCAGCCTTAGAGCGCCTGCTGTGGAGAGCATGCC-TGGCTTTCTCATTGCTAGTTTTCGTGAGACCGAAGGGCAGTTGAAGGATCCAGTGGCAgtaaggttaggggcaggacactgttgccctttgtttctccagGGTGAACC Alignment from Pairagon TTTTGTGGCAGGTGCTGTGGAGCCCTA-CAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC gaaaagggggagttgagaggagtctgcaatggatatctttcttccctcagCTTTGTGGCAGGTGCAGTGGAACCCTACCAAGGCTGCAGCCTTAGAGCGCCTGCTGTGGAGAGCATGCC-TGGCTTTCTCATTGCTAGTTTTCGTGAGACCGAAGGGCAGTTGAAGGATCCAGTGGCAgtaaggttaggggcaggacactgttgccctttgtttctccagGGTGAACC Alignment from Exonerate_protein2genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC gaaaagggggagttgagaggagtctgcaatggatatctttcttccctcagCTTTGTGGCAGGTGCAGTGGAACCCTACCAAGGCTGCAGCCTTAGAGCGCCTGCTGTGGAGAGCATGCCTGGCTTTCTCATTGCTAGTTTTCGTGAGACCGAAGGGCAGTTGAAGGATCCAGTGGCAgtaaggttaggggcaggacactgttgccctttgtttctccagGGTGAACC Alignment from Exonerate_coding2genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC gaaaagggggagttgagaggagtctgcaatggatatctttcttccctcagCTTTGTGGCAGGTGCAGTGGAACCCTACCAAGGCTGCAGCCTTAGAGCGCCTGCTGTGGAGAGCATGCCTGGCTTTCTCATTGCTAGTTTTCGTGAGACCGAAGGGCAGTTGAAGGATCCAGTGGCAgtaaggttaggggcaggacactgttgccctttgtttctccagGGTGAACC Alignment from GeneWise TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG------------------------------------------GGTGAGCC gaaaagggggagttgagaggagtctgcaatggatatctttcttccctcagCTTTGTGGCAGGTGCAGTGGAACCCTACCAAGGCTGCAGCCTTAGAGCGCCTGCTGTGGAGAGCATGCCTGGCTTTCTCATTGCTAGTTTTCGTGAGACCGAAGGGCAGTTGAAGGATCCAGTGGCAGTAAGGTTAGGGGCAGGACACTGTTGCCCTTTGTTTCTCCAGGGTGAACC #### Tcirg1_ID183_4 --> 0 - 2 Original Alignment GTGGCAGCTGAC-CATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCaa cacagatacaacctcacagtgtatgtgctaacccctctcttctctcccagGTGGCAGCTGACCCATACGGAAGGTCCTCTCTCAGAAACAACACCCCTTCTTC-AGGCACACGGGGTCCACATTCTGACCTGAAAGTTaagtgagttgaagcatccaagcttttttgtccctctcatattcacactcttc Alignment from CESAR GTGGCAGCTGAC-CATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCaa cacagatacaacctcacagtgtatgtgctaacccctctcttctctcccagGTGGCAGCTGACCCATACGGAAGGTCCTCTCTCAGAAACAACACCCCTTC-TTCAGGCACACGGGGTCCACATTCTGACCTGAAAGTTaagtgagttgaagcatccaagcttttttgtccctctcatattcacactcttc Alignment from Spaln_aa2Genome A------GCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCA cacagatacaacctcacagtgtatgtgctaacccctctcttctctcccagGTGGCAGCTGACCCATACGGAAGGTCCTCTCTCAGAAACAACACCCCTTCTTCA-GGCACACGGGGTCCACATTCTGACCTGAAAGTTAAgtgagttgaagcatccaagcttttttgtccctctcatattcacactcttc Alignment from Spaln_nt2Genome GTGGCAGCTGACC-ATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA cacagatacaacctcacagtgtatgtgctaacccctctcttctctcccagGTGGCAGCTGACCCATACGGAAGGTCCTCTCTCAGAAACAACACCCCTTCTT-CAGGCACACGGGGTCCACATTCTGACCTGAAAGTTAAgtgagttgaagcatccaagcttttttgtccctctcatattcacactcttc Alignment from Pairagon GTGGCAGCTGA-CCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA cacagatacaacctcacagtgtatgtgctaacccctctcttctctcccagGTGGCAGCTGACCCATACGGAAGGTCCTCTCTCAGAAACAACACCCCTTCTT-CAGGCACACGGGGTCCACATTCTGACCTGAAAGTTAAgtgagttgaagcatccaagcttttttgtccctctcatattcacactcttc Alignment from Exonerate_protein2genome GTGGCAGCTGAC-CATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTT--CCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA cacagatacaacctcacagtgtatgtgctaacccctctcttctctcccagGTGGCAGCTGACCCATACGGAAGGTCCTCTCTCAGAAACAACACCCCTTCTTCA---GGCACACGGGGTCCACATTCTGACCTGAAAGTTAAgtgagttgaagcatccaagcttttttgtccctctcatattcacactcttc Alignment from Exonerate_coding2genome GTGGCAGCTGAC-CATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTT--CCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA cacagatacaacctcacagtgtatgtgctaacccctctcttctctcccagGTGGCAGCTGACCCATACGGAAGGTCCTCTCTCAGAAACAACACCCCTTCTTCA---GGCACACGGGGTCCACATTCTGACCTGAAAGTTAAgtgagttgaagcatccaagcttttttgtccctctcatattcacactcttc Alignment from GeneWise ----GCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA cacagatacaacctcacagtgtatgtgctaacccctctcttctctcccagGTGGCAGCTGACCCATACGGAAGGTCCTCTCTCAGAAACAACACCCCTTCTTCA-GGCACACGGGGTCCACATTCTGACCTGAAAGTTAAgtgagttgaagcatccaagcttttttgtccctctcatattcacactcttc #### Tcirg1_ID184_3 --> 2 - 0 Original Alignment ccTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCA-GCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG atgtgtgtttgtggaatcccttctggcctaattatgtacttcaattttagccTTCCTCAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCTCCACCTGAGGGTACATTACCACGCACCACCCCCAAGGGACCTACTTCGCATCCAGGAAG-GACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATAGTAATCAGGAGGCACTGCAGGCTCAGTTGCACCATTTACGGCTATACTCATCTGTGCTAGGCCAGAGCCACAGCCCACCGgtaagatcctagccaaaagagccctccagcagttttttcgtaattggagc Alignment from CESAR ccTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCA-GCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG atgtgtgtttgtggaatcccttctggcctaattatgtacttcaattttagccTTCCTCAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCTCCACCTGAGGGTACATTACCACGCACCACCCCCAAGGGACCTACTTCGCATCCAGGAA-GGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATAGTAATCAGGAGGCACTGCAGGCTCAGTTGCACCATTTACGGCTATACTCATCTGTGCTAGGCCAGAGCCACAGCCCACCGgtaagatcctagccaaaagagccctccagcagttttttcgtaattggagc Alignment from Spaln_aa2Genome TTTACCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG tgtgtttgtggaatcccttctggcctaattatgtacttcaatttta gCCTTCCTCAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCTCCACCTGAGGGTACATTACCACGCACCACCCCCAAGGGACCTACTTCGCATCCAGGAAGGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATAGTAATCAGGAGGCACTGCAGGCTCAGTTGCACCATTTACGGCTATACTCATCTGTGCTAGGCCAGAGCCACAGCCCACCGgtaagatcctagccaaaagagccctccagcagttttttcgtaattggagc Alignment from Spaln_nt2Genome CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCA-GCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG atgtgtgtttgtggaatcccttctggcctaattatgtacttcaattttagCCTTCCTCAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCTCCACCTGAGGGTACATTACCACGCACCACCCCCAAGGGACCTACTTCGCATCCAGGAAG-GACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATAGTAATCAGGAGGCACTGCAGGCTCAGTTGCACCATTTACGGCTATACTCATCTGTGCTAGGCCAGAGCCACAGCCCACCGgtaagatcctagccaaaagagccctccagcagttttttcgtaattggagc Alignment from Pairagon CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCA-GCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG atgtgtgtttgtggaatcccttctggcctaattatgtacttcaattttagCCTTCCTCAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCTCCACCTGAGGGTACATTACCACGCACCACCCCCAAGGGACCTACTTCGCATCCAGGAAG-GACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATAGTAATCAGGAGGCACTGCAGGCTCAGTTGCACCATTTACGGCTATACTCATCTGTGCTAGGCCAGAGCCACAGCCCACCGgtaagatcctagccaaaagagccctccagcagttttttcgtaattggagc Alignment from Exonerate_protein2genome CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG atgtgtgtttgtggaatcccttctggcctaattatgtacttcaattttagCCTTCCTCAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCTCCACCTGAGGGTACATTACCACGCACCACCCCCAAGGGACCTACTTCGCATCCAGGAAGGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATAGTAATCAGGAGGCACTGCAGGCTCAGTTGCACCATTTACGGCTATACTCATCTGTGCTAGGCCAGAGCCACAGCCCACCGgtaagatcctagccaaaagagccctccagcagttttttcgtaattggagc Alignment from Exonerate_coding2genome TTTACCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG atgtgtgtttgtggaatcccttctggcctaattatgtacttcaattTTAGCCTTCCTCAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCTCCACCTGAGGGTACATTACCACGCACCACCCCCAAGGGACCTACTTCGCATCCAGGAAGGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATAGTAATCAGGAGGCACTGCAGGCTCAGTTGCACCATTTACGGCTATACTCATCTGTGCTAGGCCAGAGCCACAGCCCACCGgtaagatcctagccaaaagagccctccagcagttttttcgtaattggagc Alignment from GeneWise CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG atgtgtgtttgtggaatcccttctggcctaattatgtacttcaattttagCCTTCCTCAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCTCCACCTGAGGGTACATTACCACGCACCACCCCCAAGGGACCTACTTCGCATCCAGGAAGGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATAGTAATCAGGAGGCACTGCAGGCTCAGTTGCACCATTTACGGCTATACTCATCTGTGCTAGGCCAGAGCCACAGCCCACCGgtaagatcctagccaaaagagccctccagcagttttttcgtaattggagc #### Tcirg1_ID185_2 --> 0 - 1 Original Alignment CCTCGTGGAGTTCAGAGAC CTCAACGAATCC-GTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTa GCCCGTGGAGTTGAGAGATgtgagtagtcgcccctccccctaccttgcagTTCAATGAGTTGCGTGAGTGCAGTCCAGAGACGCTTTGTAGTAGATGTGCAGCACT-TGAGGAGCTGGACAAG---ATTagtcagtcgtccttggcatactgagatgacagggtgtactttttatttacc Alignment from CESAR CCTCGTGGAGTTCAGAGAC CTCAACGAA-TCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTa GCCCGTGGAGTTGAGAGATgtaagaagtcgcccctccccctaccttgcagTTCAATGAGTTGCGTGAGTGCAGTCCAGAGACGCTTTGTAGTAGATGTGCAGCAC-TTGAGGAGCTGGACAAG---ATTagtcagtcgtccttggcatactgagatgacagggtgtactttttatttacc Alignment from Spaln_aa2Genome CCTCGTGGAGTTCAGAGACCTCAACGAATCCGTGAGCGCCTTCCAG AGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTA GCCCGTGGAGTTGAGAGATGTGAGTAGTCGCCCCTCCCCCTACCTTgcagttcaatgagttgcgtgagtgcagtccagAGACGCTTTGTAGTAGATGTGCAGCACTTGAGGAGCTGGACAAGATTAGTCAgtcgtccttggcatactgagatgacagggtgtactttttatttacc Alignment from Spaln_nt2Genome CCTCGTGGAGTTCAGAGAC-------------------------------CTCAACGAATC-CGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTA GCCCGTGGAGTTGAGAGATGTGAGTAGTCGCCCCTCCCCCTACCTTGCAGTTCAATGAGTTGCGTGAGTGCAGTCCAGAGACGCTTTGTAGTAGATGTGCAGCACT-TGAGGAGCTGGACAAGA---TTAgtcagtcgtccttggcatactgagatgacagggtgtactttttatttacc Alignment from Pairagon CCTCGTGGAGTTCAGAGAC CTCAACGAATC-CGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTA GCCCGTGGAGTTGAGAGATgtgagtagtcgcccctccccctaccttgcagTTCAATGAGTTGCGTGAGTGCAGTCCAGAGACGCTTTGTAGTAGATGTGCAGCACT-TGAGGAGCTGGACAAGA---TTAgtcagtcgtccttggcatactgagatgacagggtgtactttttatttacc Alignment from Exonerate_protein2genome CCTCGTGGAGTTCAGAGAC CTCAACGAA-TCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTA GCCCGTGGAGTTGAGAGATgtgagtagtcgcccctccccctaccttgcagTTCAATGAGTTGCGTGAGTGCAGTCCAGAGACGCTTTGTAGTAGATGTGCAGCACTTGAGGAGCTGGACAAGATTAGTCAgtcgtccttggcatactgagatgacagggtgtactttttatttacc Alignment from Exonerate_coding2genome gcccgtggagttgagagatgtgagtagtcgcccctccccctaccttgcagttcaatgagttgcgtgagtgcagtccagagacgctttgtagtagatgtgcagcacttgaggagctggacaagattagtcagtcgtccttggcatactgagatgacagggtgtactttttatttacc Alignment from GeneWise CCTCGTGGAGTTCAGAGACCTCAACG GCCCGTGGAGTTGAGAGATGTGAGTAgtcgcccctccccctaccttgcagttcaatgagttgcgtgagtgcagtccagagacgctttgtagtagatgtgcagcacttgaggagctggacaagattagtcagtcgtccttggcatactgagatgacagggtgtactttttatttacc #### Tctn3_ID7992_9 --> 0 - 0 Original Alignment GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGG-ATCCAGAAAGTCTCTGTCAGCTTCCGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG caggtgcacatgctctatttattaaggaaacgtgatttaacttcctctagGTCGTCTATGAGATAGAGACCAATGGGACCTTTGGGCATACAGAAAGTCTCTGTCAGCTTCCGACAGA-AAACTTGACAGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATTGTTCACTTCAGAgtaactctcctccctctgggatggaattgagcctaagcatacaaaattac Alignment from CESAR GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGG-ATCCAGAAAGTCTCTGTCAGCTTCCGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG caggtgcacatgctctatttattaaggaaacgtgatttaacttcctctagGTCGTCTATGAGATAGAGACCAATGGGACCTTTGGGCATACAGAAAGTCTCTGTCAGCTTCCGACAG-AAAACTTGACAGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATTGTTCACTTCAGAgtaactctcctccctctgggatggaattgagcctaagcatacaaaattac Alignment from Spaln_aa2Genome GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAAGTCTCTGTCAGCTTCCGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG caggtgcacatgctctatttattaaggaaacgtgatttaacttcctctagGTCGTCTATGAGATAGAGACCAATGGGACCTTTGGGCATACAGAAAGTCTCTGTCAGCTTCCGACAGAAAACTTGACAGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATTGTTCACTTCAGAgtaactctcctccctctgggatggaattgagcctaagcatacaaaattac Alignment from Spaln_nt2Genome GTCGTCTACGAGATAGAGACCAATGGGACC-TTTGGGATCCAGAAAGTCTCTGTCAGCTTCCGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG caggtgcacatgctctatttattaaggaaacgtgatttaacttcctctagGTCGTCTATGAGATAGAGACCAATGGGACCTTTGGGCATACAGAAAGTCTCTGTCAGCTTCCGACAGA-AAACTTGACAGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATTGTTCACTTCAGAgtaactctcctccctctgggatggaattgagcctaagcatacaaaattac Alignment from Pairagon GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGG-ATCCAGAAAGTCTCTGTCAGCTTCCGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG caggtgcacatgctctatttattaaggaaacgtgatttaacttcctctagGTCGTCTATGAGATAGAGACCAATGGGACCTTTGGGCATACAGAAAGTCTCTGTCAGCTTCCGACAGA-AAACTTGACAGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATTGTTCACTTCAGAgtaactctcctccctctgggatggaattgagcctaagcatacaaaattac Alignment from Exonerate_protein2genome GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAAGTCTCTGTCAGCTTCCGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG caggtgcacatgctctatttattaaggaaacgtgatttaacttcctctagGTCGTCTATGAGATAGAGACCAATGGGACCTTTGGGCATACAGAAAGTCTCTGTCAGCTTCCGACAGAAAACTTGACAGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATTGTTCACTTCAGAgtaactctcctccctctgggatggaattgagcctaagcatacaaaattac Alignment from Exonerate_coding2genome GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAAGTCTCTGTCAGCTTCCGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG caggtgcacatgctctatttattaaggaaacgtgatttaacttcctctagGTCGTCTATGAGATAGAGACCAATGGGACCTTTGGGCATACAGAAAGTCTCTGTCAGCTTCCGACAGAAAACTTGACAGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATTGTTCACTTCAGAgtaactctcctccctctgggatggaattgagcctaagcatacaaaattac Alignment from GeneWise GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAAGTCTCTGTCAGCTTCCGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG caggtgcacatgctctatttattaaggaaacgtgatttaacttcctctagGTCGTCTATGAGATAGAGACCAATGGGACCTTTGGGCATACAGAAAGTCTCTGTCAGCTTCCGACAGAAAACTTGACAGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATTGTTCACTTCAGAgtaactctcctccctctgggatggaattgagcctaagcatacaaaattac #### Tctn3_ID7996_5 --> 0 - 1 Original Alignment GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTG-GTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAg gtTTCCTAGAGAGTAAAAGCA accatttaaagataccattttttcagttcaaaatctcccctattttatagGCTGGGGATCCCATCCTGACATACTACCCAAGCTGGTCCGTGCGTAAGCTTACTAAGACAACCTGCAGCTGTAG-AGCTGGCGGACTTTGTGCAGAGAGCAACCCAGCAggtacgatagaccctgctttctgtccacaggaTTTCTAGAGACTAAGAGCA Alignment from CESAR GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTG-GTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAg gtTTCCTAGAGAGTAAAAGCA accatttaaagataccattttttcagttcaaaatctcccctattttatagGCTGGGGATCCCATCCTGACATACTACCCAAGCTGGTCCGTGCGTAAGCTTACTAAGACAACCTGCAGCTGTA-GAGCTGGCGGACTTTGTGCAGAGAGCAACCCAGCAggtactgtagaaaccaccatttcttcccaggaTTTCTAGAGACTAAGAGCA Alignment from Spaln_aa2Genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCA-----------------------------GGTTTCCTAGAGAGTAAAAGCA accatttaaagataccattttttcagttcaaaatctcccctattttatagGCTGGGGATCCCATCCTGACATACTACCCAAGCTGGTCCGTGCGTAAGCTTACTAAGACAACCTGCAGCTGTAGAGCTGGCGGACTTTGTGCAGAGAGCAACCCAGCAGGTACGATAGACCCTGCTTTCTGTCCAcaGGATTTCTAGAGACTAAGAGCA Alignment from Spaln_nt2Genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTG-GTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCA GGTTTCCTAGAGAGTAAAAGC accatttaaagataccattttttcagttcaaaatctcccctattttatagGCTGGGGATCCCATCCTGACATACTACCCAAGCTGGTCCGTGCGTAAGCTTACTAAGACAACCTGCAGCTGT-AGAGCTGGCGGACTTTGTGCAGAGAGCAACC---CAgcaggtacgatagaccctgctttctgtccacagGATTT-CTAGAGACTAAGAGC Alignment from Pairagon GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTG-GTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAGGT-----------------------------TTCCTAGAGAGTAAAAGCA accatttaaagataccattttttcagttcaaaatctcccctattttatagGCTGGGGATCCCATCCTGACATACTACCCAAGCTGGTCCGTGCGTAAGCTTACTAAGACAACCTGCAGCTGT-AGAGCTGGCGGACTTTGTGCAGAGAGCAACCCAGCAGGTACGATAGACCCTGCTTTCTGTCCACAGGATTTCTAGAGACTAAGAGCA Alignment from Exonerate_protein2genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAGGTT TCCTAGAGAGTAAAAGCA accatttaaagataccattttttcagttcaaaatctcccctattttatagGCTGGGGATCCCATCCTGACATACTACCCAAGCTGGTCCGTGCGTAAGCTTACTAAGACAACCTGCAGCTGTAGAGCTGGCGGACTTTGTGCAGAGAGCAACCCAGCA---GgtacgatagaccctgctttctgtccacaggatTTCTAGAGACTAAGAGCA Alignment from Exonerate_coding2genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAGGTT TCCTAGAGAGTAAAAGCA accatttaaagataccattttttcagttcaaaatctcccctattttatagGCTGGGGATCCCATCCTGACATACTACCCAAGCTGGTCCGTGCGTAAGCTTACTAAGACAACCTGCAGCTGTAGAGCTGGCGGACTTTGTGCAGAGAGCAACCCAGCA---GgtacgatagaccctgctttctgtccacaggatTTCTAGAGACTAAGAGCA Alignment from GeneWise GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAG GTTTCCTAGAGAGTAAAAGCA accatttaaagataccattttttcagttcaaaatctcccctattttatagGCTGGGGATCCCATCCTGACATACTACCCAAGCTGGTCCGTGCGTAAGCTTACTAAGACAACCTGCAGCTGTAGAGCTGGCGGACTTTGTGCAGAGAGCAACCCAGCAGgtacgatagaccctgctttctgtccacagGATTTCTAGAGACTAAGAGCA #### Tjp2_ID5278_9 --> 1 - 1 Original Alignment cTCAAGAGAGGAGACCTCAGGC-AGACTATCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAg ttgttattcaataaagcattgaccatagtctctctctcttatcttttaagcACTAAAGAAGAAACATCCGGCCAAACTGTCAAGAATGGGAGCCATGCCCACATCATTCAAGG-CACAGGTAGCCCCACAGCTGCAGGAGTTATG---GCCAGTAAGGAGCCA---AATCAACAAAAAGGCCCAggtgtgttgttatgctattcttttatctatctaaaacatagacaggttggg Alignment from CESAR cTCAAGAGAGGAGACCTCAGGC-AGACTATCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAg ttgttattcaataaagcattgaccatagtctctctctcttatcttttaagcACTAAAGAAGAAACATCCGGCCAAACTGTCAAGAATGGGAGCCATGCCCACATCATTCAAGG-CACAGGTAGCCCCACAGCTGCAGGAGTTATG---GCCAGTAAGGAGCCAAAT---CAACAAAAAGGCCCAggtgtgttgttatgctattcttttatctatctaaaacatagacaggttggg Alignment from Spaln_aa2Genome CTCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAG ttgttattcaataaagcattgaccatagtctctctctcttatcttttaagCACTAAAGAAGAAACATCCGGCCAAACTGTCAAGAATGGGAGCCATGCCCACATCATTCAAGGCACAGGTAGCCCCACAGCTGCAGGAGTTATG---GCCAGTAAGGAGCCAAAT---CAACAAAAAGGCCCAGgtgtgttgttatgctattcttttatctatctaaaacatagacaggttggg Alignment from Spaln_nt2Genome CTCAAGAGAGGAGACCTCAGGC-AGACTATCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAG ttgttattcaataaagcattgaccatagtctctctctcttatcttttaagCACTAAAGAAGAAACATCCGGCCAAACTGTCAAGAATGGGAGCCATGCCCACATCATTCAAG-GCACAGGTAGCCCCACAGCTGCAGGAGTTA---TGGCCAGTAAGGAGCCAA---ATCAACAAAAAGGCCCAGgtgtgttgttatgctattcttttatctatctaaaacatagacaggttggg Alignment from Pairagon CTCAAGAGAGGAGACCTCAGG-CAGACTATCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTA------------------------CCAGGAAG----------------AAGGCCCAG ttgttattcaataaagcattgaccatagtctctctctcttatcttttaagCACTAAAGAAGAAACATCCGGCCAAACTGTCAAGAATGGGAGCCATGCCCACATCATTCAAG-----------------------------------------------GCACAGGTAGCCCCACAGCTGCAGGAGTTATGGCCAGTAAGGAGCCAAATCAACAAAAAGGCCCAGgtgtgttgttatgctattcttttatctatctaaaacatagacaggttggg Alignment from Exonerate_protein2genome CTCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAG ttgttattcaataaagcattgaccatagtctctctctcttatcttttaagCACTAAAGAAGAAACATCCGGCCAAACTGTCAAGAATGGGAGCCATGCCCACATCATTCAAGGCACAGGTAGCCCCACAGCTGCAGGAGTTATG---GCCAGTAAGGAGCCAAAT---CAACAAAAAGGCCCAGgtgtgttgttatgctattcttttatctatctaaaacatagacaggttggg Alignment from Exonerate_coding2genome ttgttattcaataaagcattgaccatagtctctctctcttatcttttaagcactaaagaagaaacatccggccaaactgtcaagaatgggagccatgcccacatcattcaaggcacaggtagccccacagctgcaggagttatggccagtaaggagccaaatcaacaaaaaggcccaggtgtgttgttatgctattcttttatctatctaaaacatagacaggttggg Alignment from GeneWise ------------------------------------------------AGCTCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAG TTGTTATTCAATAAAGCATTGACCATAGTCTCTCTCTCTTATCTTTTAAGCACTAAAGAAGAAACATCCGGCCAAACTGTCAAGAATGGGAGCCATGCCCACATCATTCAAGGCACAGGTAGCCCCACAGCTGCAGGAGTTATG---GCCAGTAAGGAGCCAAAT---CAACAAAAAGGCCCAGgtgtgttgttatgctattcttttatctatctaaaacatagacaggttggg #### Tle4_ID3619_18 --> 0 - 1 Original Alignment ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTA-TTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTg tttgcttcaaggcaaggtgttgtcaaccttcctcaactccaacttggcagACTTTTTCATTGGGATATTGCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAAAATAGCAATGTGGATGTACTTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTC-TGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCagtgagtatacacccaacatctggcatcacttgctgtgaaataaacttact Alignment from CESAR ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTA-TTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTg tttgcttcaaggcaaggtgttgtcaaccttcctcaactccaacttggcagACTTTTTCATTGGGATATTGCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAAAATAGCAATGTGGATGTACTTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTT-CTGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCagtgagtatacacccaacatctggcatcacttgctgtgaaataaacttact Alignment from Spaln_aa2Genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcaaggcaaggtgttgtcaaccttcctcaactccaacttggcagACTTTTTCATTGGGATATTGCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAAAATAGCAATGTGGATGTACTTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCTGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCAgtgagtatacacccaacatctggcatcacttgctgtgaaataaacttact Alignment from Spaln_nt2Genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTA-TTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcaaggcaaggtgttgtcaaccttcctcaactccaacttggcagACTTTTTCATTGGGATATTGCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAAAATAGCAATGTGGATGTACTTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTC-TGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCAgtgagtatacacccaacatctggcatcacttgctgtgaaataaacttact Alignment from Pairagon ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTA-TTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcaaggcaaggtgttgtcaaccttcctcaactccaacttggcagACTTTTTCATTGGGATATTGCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAAAATAGCAATGTGGATGTACTTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTC-TGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCAgtgagtatacacccaacatctggcatcacttgctgtgaaataaacttact Alignment from Exonerate_protein2genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcaaggcaaggtgttgtcaaccttcctcaactccaacttggcagACTTTTTCATTGGGATATTGCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAAAATAGCAATGTGGATGTACTTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCTGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCAgtgagtatacacccaacatctggcatcacttgctgtgaaataaacttact Alignment from Exonerate_coding2genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcaaggcaaggtgttgtcaaccttcctcaactccaacttggcagACTTTTTCATTGGGATATTGCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAAAATAGCAATGTGGATGTACTTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCTGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCAgtgagtatacacccaacatctggcatcacttgctgtgaaataaacttact Alignment from GeneWise ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcaaggcaaggtgttgtcaaccttcctcaactccaacttggcagACTTTTTCATTGGGATATTGCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAAAATAGCAATGTGGATGTACTTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCTGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCAgtgagtatacacccaacatctggcatcacttgctgtgaaataaacttact #### Tle4_ID3625_13 --> 2 - 0 Original Alignment caTCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTG-CCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttatcttaagctaaggcaagatgactttttcccttttaatcatatttcagctTCCAGCCTAAGGACACCAGTAGCAGTGCCTTGTCCATATCCAACACCACTTGGAATTGTGCCCACATGCAGGAACGAATGGAGAGCTGACCAGCCCTGGGG-TGCTTATGGTGGGCTCCACAATGTGTCCCCCCAGATGAGTGCTTCCACTGCTGCTGCCACAGCAGCAGCGGCTTATGGAAGATCACCTGTGgtaactcctgcatatatgtaggtctgttaaagtgcaaagctggtacattt Alignment from CESAR caTCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCC-CATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttatcttaagctaaggcaagatgactttttcccttttaatcatatttcagctTCCAGCCTAAGGACACCAGTAGCAGTGCCTTGTCCATATCCAACACCACTTGGAATTGTGCCCACATGCAGGAACGAATGGAGAGCTGACCAGCCCTGGG-GTGCTTATGGTGGGCTCCACAATGTGTCCCCCCAGATGAGTGCTTCCACTGCTGCTGCCACAGCAGCAGCGGCTTATGGAAGATCACCTGTGgtaactcctgcatatatgtaggtctgttaaagtgcaaagctggtacattt Alignment from Spaln_aa2Genome CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttatcttaagctaaggcaagatgactttttcccttttaatcatatttcagCTTCCAGCCTAAGGACACCAGTAGCAGTGCCTTGTCCATATCCAACACCACTTGGAATTGTGCCCACATGCAGGAACGAATGGAGAGCTGACCAGCCCTGGGGTGCTTATGGTGGGCTCCACAATGTGTCCCCCCAGATGAGTGCTTCCACTGCTGCTGCCACAGCAGCAGCGGCTTATGGAAGATCACCTGTGgtaactcctgcatatatgtaggtctgttaaagtgcaaagctggtacattt Alignment from Spaln_nt2Genome CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTG-CCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttatcttaagctaaggcaagatgactttttcccttttaatcatatttcagCTTCCAGCCTAAGGACACCAGTAGCAGTGCCTTGTCCATATCCAACACCACTTGGAATTGTGCCCACATGCAGGAACGAATGGAGAGCTGACCAGCCCTGG-GGTGCTTATGGTGGGCTCCACAATGTGTCCCCCCAGATGAGTGCTTCCACTGCTGCTGCCACAGCAGCAGCGGCTTATGGAAGATCACCTGTGgtaactcctgcatatatgtaggtctgttaaagtgcaaagctggtacattt Alignment from Pairagon CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCC-CATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttatcttaagctaaggcaagatgactttttcccttttaatcatatttcagCTTCCAGCCTAAGGACACCAGTAGCAGTGCCTTGTCCATATCCAACACCACTTGGAATTGTGCCCACATGCAGGAACGAATGGAGAGCTGACCAGCCCTGG-GGTGCTTATGGTGGGCTCCACAATGTGTCCCCCCAGATGAGTGCTTCCACTGCTGCTGCCACAGCAGCAGCGGCTTATGGAAGATCACCTGTGgtaactcctgcatatatgtaggtctgttaaagtgcaaagctggtacattt Alignment from Exonerate_protein2genome CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttatcttaagctaaggcaagatgactttttcccttttaatcatatttcagCTTCCAGCCTAAGGACACCAGTAGCAGTGCCTTGTCCATATCCAACACCACTTGGAATTGTGCCCACATGCAGGAACGAATGGAGAGCTGACCAGCCCTGGGGTGCTTATGGTGGGCTCCACAATGTGTCCCCCCAGATGAGTGCTTCCACTGCTGCTGCCACAGCAGCAGCGGCTTATGGAAGATCACCTGTGgtaactcctgcatatatgtaggtctgttaaagtgcaaagctggtacattt Alignment from Exonerate_coding2genome CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttatcttaagctaaggcaagatgactttttcccttttaatcatatttcagCTTCCAGCCTAAGGACACCAGTAGCAGTGCCTTGTCCATATCCAACACCACTTGGAATTGTGCCCACATGCAGGAACGAATGGAGAGCTGACCAGCCCTGGGGTGCTTATGGTGGGCTCCACAATGTGTCCCCCCAGATGAGTGCTTCCACTGCTGCTGCCACAGCAGCAGCGGCTTATGGAAGATCACCTGTGgtaactcctgcatatatgtaggtctgttaaagtgcaaagctggtacattt Alignment from GeneWise CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttatcttaagctaaggcaagatgactttttcccttttaatcatatttcagCTTCCAGCCTAAGGACACCAGTAGCAGTGCCTTGTCCATATCCAACACCACTTGGAATTGTGCCCACATGCAGGAACGAATGGAGAGCTGACCAGCCCTGGGGTGCTTATGGTGGGCTCCACAATGTGTCCCCCCAGATGAGTGCTTCCACTGCTGCTGCCACAGCAGCAGCGGCTTATGGAAGATCACCTGTGgtaactcctgcatatatgtaggtctgttaaagtgcaaagctggtacattt #### Tm7sf2_ID1411_9 --> 2 - 1 Original Alignment gtCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGG-TGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTg aaattgggttggctaagtttttgagggccaaatttcttttgtgccttcaggtCTTGACACCATCCCCACTGCCACAGGTAGACATCTGCTTGTGTCTGGGCTGGTGGGGCATGGTACAGCATCCCAACTACCTGGGAGACC-CATCATGGCTCTTGCATGGTCCTTGCCATGTggtaggatgatggctacaatgtctcccaggactgagttcagtaggtggagg Alignment from CESAR gtCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGG-TGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTg gagctgggttggctaagtttttgagggccaaatttcttttgtgccttcaggtCTTGACACCATCCCCACTGCCACAGGTAGACATCTGCTTGTGTCTGGGCTGGTGGGGCATGGTACAGCATCCCAACTACCTGGGAGAC-CCATCATGGCTCTTGCATGGTCCTTGCCATGTggtaggatgatggctacaatgtctcccaggactgagttcagtaggtggagg Alignment from Spaln_aa2Genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG aaattgggttggctaagtttttgagggccaaatttcttttgtgccttcagGTCTTGACACCATCCCCACTGCCACAGGTAGACATCTGCTTGTGTCTGGGCTGGTGGGGCATGGTACAGCATCCCAACTACCTGGGAGACCCATCATGGCTCTTGCATGGTCCTTGCCATGTGgtaggatgatggctacaatgtctcccaggactgagttcagtaggtggagg Alignment from Spaln_nt2Genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCT-GGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG aaattgggttggctaagtttttgagggccaaatttcttttgtgccttcagGTCTTGACACCATCCCCACTGCCACAGGTAGACATCTGCTTGTGTCTGGGCTGGTGGGGCATGGTACAGCATCCCAACTACCTGGGAGA-CCCATCATGGCTCTTGCATGGTCCTTGCCATGTGgtaggatgatggctacaatgtctcccaggactgagttcagtaggtggagg Alignment from Pairagon GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGG-TGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG aaattgggttggctaagtttttgagggccaaatttcttttgtgccttcagGTCTTGACACCATCCCCACTGCCACAGGTAGACATCTGCTTGTGTCTGGGCTGGTGGGGCATGGTACAGCATCCCAACTACCTGGGAGA-CCCATCATGGCTCTTGCATGGTCCTTGCCATGTGgtaggatgatggctacaatgtctcccaggactgagttcagtaggtggagg Alignment from Exonerate_protein2genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCT-GGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGAT--CTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG aaattgggttggctaagtttttgagggccaaatttcttttgtgccttcagGTCTTGACACCATCCCCACTGCCACAGGTAGACATCTGCTTGTGTCTGGGCTGGTGGGGCATGGTACAGCATCCCAACTACCTGGGAGACCC---ATCATGGCTCTTGCATGGTCCTTGCCATGTGgtaggatgatggctacaatgtctcccaggactgagttcagtaggtggagg Alignment from Exonerate_coding2genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCT-GGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGAT--CTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG aaattgggttggctaagtttttgagggccaaatttcttttgtgccttcagGTCTTGACACCATCCCCACTGCCACAGGTAGACATCTGCTTGTGTCTGGGCTGGTGGGGCATGGTACAGCATCCCAACTACCTGGGAGACCC---ATCATGGCTCTTGCATGGTCCTTGCCATGTGgtaggatgatggctacaatgtctcccaggactgagttcagtaggtggagg Alignment from GeneWise GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTG-TCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG aaattgggttggctaagtttttgagggccaaatttcttttgtgccttcagGTCTTGACACCATCCCCACTGCCACAGGTAGACATCTGCTTGTGTCTGGGCTGGTGGGGCATGGTACAGCATCCCAACTACCTGGGAGACCC-ATCATGGCTCTTGCATGGTCCTTGCCATGTGgtaggatgatggctacaatgtctcccaggactgagttcagtaggtggagg #### Tm7sf2_ID1413_7 --> 0 - 1 Original Alignment GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTG-GTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGg aacatcaagcttgctgctgccaagggagttggattcttttatttttcaagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTGGCTTCATGCTTCGTCTTTGGGGATTTAGCTTGGATACCACTTATCTACAGCCTGC-GGCCCAGTTCCTTTTATACCACCCCCAACCACTAGGATACCCAATGGCC---TTCATCTGCCTGCTCCAGggtaagaattagatacccaaaatgctcaaccgtgcaccaccaattatgttg Alignment from CESAR GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTG-GTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGg aacatcaagcttgctgctgccaagggagttggattcttttatttttcaagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTGGCTTCATGCTTCGTCTTTGGGGATTTAGCTTGGATACCACTTATCTACAGCCTG-CGGCCCAGTTCCTTTTATACCACCCCCAACCACTAGGATACCCAATGGCC---TTCATCTGCCTGCTCCAGggtaagaattagatacccaaaatgctcaaccgtgcaccaccaattatgttg Alignment from Spaln_aa2Genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aacatcaagcttgctgctgccaagggagttggattcttttatttttcaagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTGGCTTCATGCTTCGTCTTTGGGGATTTAGCTTGGATACCACTTATCTACAGCCTGCGGCCCAGTTCCTTTTATACCACCCCCAACCACTAGGATACCCAATGGCC---TTCATCTGCCTGCTCCAGGgtaagaattagatacccaaaatgctcaaccgtgcaccaccaattatgttg Alignment from Spaln_nt2Genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTG-GTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aacatcaagcttgctgctgccaagggagttggattcttttatttttcaagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTGGCTTCATGCTTCGTCTTTGGGGATTTAGCTTGGATACCACTTATCTACAGCCTGC-GGCCCAGTTCCTTTTATACCACCCCCAACCACTAGGATACCCAATGGCCT---TCATCTGCCTGCTCCAGGgtaagaattagatacccaaaatgctcaaccgtgcaccaccaattatgttg Alignment from Pairagon GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGC-TGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aacatcaagcttgctgctgccaagggagttggattcttttatttttcaagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTGGCTTCATGCTTCGTCTTTGGGGATTTAGCTTGGATACCACTTATCTACAGCCTGC-GGCCCAGTTCCTTTTATACCACCCCCAACCACTAGGATACCCAATGGCCT---TCATCTGCCTGCTCCAGGgtaagaattagatacccaaaatgctcaaccgtgcaccaccaattatgttg Alignment from Exonerate_protein2genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTG-GTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTG--CAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aacatcaagcttgctgctgccaagggagttggattcttttatttttcaagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTGGCTTCATGCTTCGTCTTTGGGGATTTAGCTTGGATACCACTTATCTACAGCCTGCG---GCCCAGTTCCTTTTATACCACCCCCAACCACTAGGATACCCAATGGCC---TTCATCTGCCTGCTCCAGGgtaagaattagatacccaaaatgctcaaccgtgcaccaccaattatgttg Alignment from Exonerate_coding2genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTG-GTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTG--CAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aacatcaagcttgctgctgccaagggagttggattcttttatttttcaagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTGGCTTCATGCTTCGTCTTTGGGGATTTAGCTTGGATACCACTTATCTACAGCCTGCG---GCCCAGTTCCTTTTATACCACCCCCAACCACTAGGATACCCAATGGCC---TTCATCTGCCTGCTCCAGGgtaagaattagatacccaaaatgctcaaccgtgcaccaccaattatgttg Alignment from GeneWise GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTG-GTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aacatcaagcttgctgctgccaagggagttggattcttttatttttcaagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTGGCTTCATGCTTCGTCTTTGGGGATTTAGCTTGGATACCACTTATCTACAGCCTGCG-GCCCAGTTCCTTTTATACCACCCCCAACCACTAGGATACCCAATGGCCTTC---ATCTGCCTGCTCCAGGgtaagaattagatacccaaaatgctcaaccgtgcaccaccaattatgttg #### Tm7sf2_ID1416_4 --> 2 - 1 Original Alignment gcTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTG-GGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAg ctttcctagtatgtgtactgtccctgagtcaggttctggctctcttgcaggtTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGCGGGTTCCCCCTTGCAGGATTACCTGGAATGCTCCTGC-ACTGGCCTTGGCAACCACTCTCACCAGGTTTGTCTTCAGCCTACTACTCTACACAAAGGCTTTGGTAACACCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAggtgaggagggtgcccagcagatctcagaaggtgcgggactagtgaaggtg Alignment from CESAR gcTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTG-GGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAg ctttcctagtatgtgtactgtccctgagtcaggttctggctctcttgcaggtTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGCGGGTTCCCCCTTGCAGGATTACCTGGAATGCTCCTG-CACTGGCCTTGGCAACCACTCTCACCAGGTTTGTCTTCAGCCTACTACTCTACACAAAGGCTTTGGTAACACCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAggtgaggagggtgcccagcagatctcagaaggtgcgggactagtgaaggtg Alignment from Spaln_aa2Genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgtccctgagtcaggttctggctctcttgcagGTTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGCGGGTTCCCCCTTGCAGGATTACCTGGAATGCTCCTGCACTGGCCTTGGCAACCACTCTCACCAGGTTTGTCTTCAGCCTACTACTCTACACAAAGGCTTTGGTAACACCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAGgtgaggagggtgcccagcagatctcagaaggtgcgggactagtgaaggtg Alignment from Spaln_nt2Genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTG-GGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgtccctgagtcaggttctggctctcttgcagGTTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGCGGGTTCCCCCTTGCAGGATTACCTGGAATGCTCCTGCAC-TGGCCTTGGCAACCACTCTCACCAGGTTTGTCTTCAGCCTACTACTCTACACAAAGGCTTTGGTAACACCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAGgtgaggagggtgcccagcagatctcagaaggtgcgggactagtgaaggtg Alignment from Pairagon GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTG-GGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgtccctgagtcaggttctggctctcttgcagGTTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGCGGGTTCCCCCTTGCAGGATTACCTGGAATGCTCCTGCAC-TGGCCTTGGCAACCACTCTCACCAGGTTTGTCTTCAGCCTACTACTCTACACAAAGGCTTTGGTAACACCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAGgtgaggagggtgcccagcagatctcagaaggtgcgggactagtgaaggtg Alignment from Exonerate_protein2genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgtccctgagtcaggttctggctctcttgcagGTTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGCGGGTTCCCCCTTGCAGGATTACCTGGAATGCTCCTGCACTGGCCTTGGCAACCACTCTCACCAGGTTTGTCTTCAGCCTACTACTCTACACAAAGGCTTTGGTAACACCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAGgtgaggagggtgcccagcagatctcagaaggtgcgggactagtgaaggtg Alignment from Exonerate_coding2genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgtccctgagtcaggttctggctctcttgcagGTTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGCGGGTTCCCCCTTGCAGGATTACCTGGAATGCTCCTGCACTGGCCTTGGCAACCACTCTCACCAGGTTTGTCTTCAGCCTACTACTCTACACAAAGGCTTTGGTAACACCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAGgtgaggagggtgcccagcagatctcagaaggtgcgggactagtgaaggtg Alignment from GeneWise GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgtccctgagtcaggttctggctctcttgcagGTTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGCGGGTTCCCCCTTGCAGGATTACCTGGAATGCTCCTGCACTGGCCTTGGCAACCACTCTCACCAGGTTTGTCTTCAGCCTACTACTCTACACAAAGGCTTTGGTAACACCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAGgtgaggagggtgcccagcagatctcagaaggtgcgggactagtgaaggtg #### Tm7sf2_ID1418_2 --> 2 - 0 Original Alignment gcGTCGCGGCTTTACTG-ATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG agggcattatactcatgctccaatccaaagtgaatcttgtgtctttttaggtGTTGCAGCTTTATTGCATACTGCTGCCAGCTACCATGTCTCACTACC-CCTTGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCGGCATACCTACCTGGTCTGGAAGAACTATGGAGCCCATGGGCCCTGCTTCTCCTGTTCATCTGGCTTGGTCTGCAGGTGGCACTCTATCTGCTGCCTGCATGCAGGgtgagcgatctcccccttgatatgacctatgttgtgtgtttcattctctt Alignment from CESAR gcGTCGCGGCTTTACTG-ATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG agggcattatactcatgctccaatccaaagtgaatcttgtgtctttttaggtGTTGCAGCTTTATTGCATACTGCTGCCAGCTACCATGTCTC-ACTACCCCTTGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCGGCATACCTACCTGGTCTGGAAGAACTATGGAGCCCATGGGCCCTGCTTCTCCTGTTCATCTGGCTTGGTCTGCAGGTGGCACTCTATCTGCTGCCTGCATGCAGGgtgagcgatctcccccttgatatgacctatgttgtgtgaaccacatgctg Alignment from Spaln_aa2Genome GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG agggcattatactcatgctccaatccaaagtgaatcttgtgtctttttagGTGTTGCAGCTTTATTGCATACTGCTGCCAGCTACCATGTCTCACTACCCCTTGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCGGCATACCTACCTGGTCTGGAAGAACTATGGAGCCCATGGGCCCTGCTTCTCCTGTTCATCTGGCTTGGTCTGCAGGTGGCACTCTATCTGCTGCCTGCATGCAGGgtgagcgatctcccccttgatatgacctatgttgtgtgtttcattctctt Alignment from Spaln_nt2Genome GCGTCGCGGCTTTACTG-ATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG agggcattatactcatgctccaatccaaagtgaatcttgtgtctttttagGTGTTGCAGCTTTATTGCATACTGCTGCCAGCTACCATGTCTCA-CTACCCCTTGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCGGCATACCTACCTGGTCTGGAAGAACTATGGAGCCCATGGGCCCTGCTTCTCCTGTTCATCTGGCTTGGTCTGCAGGTGGCACTCTATCTGCTGCCTGCATGCAGGgtgagcgatctcccccttgatatgacctatgttgtgtgtttcattctctt Alignment from Pairagon GCGTCGCGGCTTTACTG-ATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG agggcattatactcatgctccaatccaaagtgaatcttgtgtctttttagGTGTTGCAGCTTTATTGCATACTGCTGCCAGCTACCATGTCTCA-CTACCCCTTGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCGGCATACCTACCTGGTCTGGAAGAACTATGGAGCCCATGGGCCCTGCTTCTCCTGTTCATCTGGCTTGGTCTGCAGGTGGCACTCTATCTGCTGCCTGCATGCAGGgtgagcgatctcccccttgatatgacctatgttgtgtgtttcattctctt Alignment from Exonerate_protein2genome GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG agggcattatactcatgctccaatccaaagtgaatcttgtgtctttttagGTGTTGCAGCTTTATTGCATACTGCTGCCAGCTACCATGTCTCACTACCCCTTGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCGGCATACCTACCTGGTCTGGAAGAACTATGGAGCCCATGGGCCCTGCTTCTCCTGTTCATCTGGCTTGGTCTGCAGGTGGCACTCTATCTGCTGCCTGCATGCAGGgtgagcgatctcccccttgatatgacctatgttgtgtgtttcattctctt Alignment from Exonerate_coding2genome GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG agggcattatactcatgctccaatccaaagtgaatcttgtgtctttttagGTGTTGCAGCTTTATTGCATACTGCTGCCAGCTACCATGTCTCACTACCCCTTGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCGGCATACCTACCTGGTCTGGAAGAACTATGGAGCCCATGGGCCCTGCTTCTCCTGTTCATCTGGCTTGGTCTGCAGGTGGCACTCTATCTGCTGCCTGCATGCAGGgtgagcgatctcccccttgatatgacctatgttgtgtgtttcattctctt Alignment from GeneWise GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG agggcattatactcatgctccaatccaaagtgaatcttgtgtctttttagGTGTTGCAGCTTTATTGCATACTGCTGCCAGCTACCATGTCTCACTACCCCTTGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCGGCATACCTACCTGGTCTGGAAGAACTATGGAGCCCATGGGCCCTGCTTCTCCTGTTCATCTGGCTTGGTCTGCAGGTGGCACTCTATCTGCTGCCTGCATGCAGGgtgagcgatctcccccttgatatgacctatgttgtgtgtttcattctctt #### Tmem179b_ID2369_4 --> 1 - 0 Original Alignment cTGCTCTGAAGCCCAGAAAACCTCATGG-ACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ctatctttatcattcttattacacttattgtgccttggtcccctcctcagcTGCTCCGAAGCACAGAAGACTGCTTGGCACACCTTTGGGAACTGCTGTGCAGCTTTACTCCAACC-ACACACCGCCGAAgtgagttgcaagcatcgataaggagacatcaatatgcttggctctgcgct Alignment from CESAR cTGCTCTGAAGCCCAGAAAACCTCATGG-ACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ctatctttatcattcttattacacttattgtgccttggtcccctcctcagcTGCTCCGAAGCACAGAAGACTGCTTGGCACACCTTTGGGAACTGCTGTGCAGCTTTACTCCAAC-CACACACCGCCGAAgtgagttgcaagcatcgataaggagacatcaatatgcttggctctgcgct Alignment from Spaln_aa2Genome CTGCTCTGAAGCCCAGAAAACCTCATGG-ACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ctatctttatcattcttattacacttattgtgccttggtcccctcctcagCTGCTCCGAAGCACAGAAGACTGCTTGGcACACCTTTGGGAACTGCTGTGCAGCTTTACTCCAACCA-CACACCGCCGAAgtgagttgcaagcatcgataaggagacatcaatatgcttggctctgcgct Alignment from Spaln_nt2Genome CTGCTCTGAAGCCCAGAAAACCTCATGG-ACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ctatctttatcattcttattacacttattgtgccttggtcccctcctcagCTGCTCCGAAGCACAGAAGACTGCTTGGCACACCTTTGGGAACTGCTGTGCAGCTTTACTCCAACC-ACACACCGCCGAAgtgagttgcaagcatcgataaggagacatcaatatgcttggctctgcgct Alignment from Pairagon CTGCTCTGAAGCCCAGAAAACCTCATGG-ACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ctatctttatcattcttattacacttattgtgccttggtcccctcctcagCTGCTCCGAAGCACAGAAGACTGCTTGGCACACCTTTGGGAACTGCTGTGCAGCTTTACTCCAACC-ACACACCGCCGAAgtgagttgcaagcatcgataaggagacatcaatatgcttggctctgcgct Alignment from Exonerate_protein2genome CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ctatctttatcattcttattacacttattgtgccttggtcccctcctcagCTGCTCCGAAGCACAGAAGACTGCTTGGCACACCTTTGGGAACTGCTGTGCAGCTTTACTCCAACCACACACCGCCGAAgtgagttgcaagcatcgataaggagacatcaatatgcttggctctgcgct Alignment from Exonerate_coding2genome CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ctatctttatcattcttattacacttattgtgccttggtcccctcctcagCTGCTCCGAAGCACAGAAGACTGCTTGGCACACCTTTGGGAACTGCTGTGCAGCTTTACTCCAACCACACACCGCCGAAgtgagttgcaagcatcgataaggagacatcaatatgcttggctctgcgct Alignment from GeneWise CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ctatctttatcattcttattacacttattgtgccttggtcccctcctcagCTGCTCCGAAGCACAGAAGACTGCTTGGCACACCTTTGGGAACTGCTGTGCAGCTTTACTCCAACCACACACCGCCGAAgtgagttgcaagcatcgataaggagacatcaatatgcttggctctgcgct #### Tmem179b_ID2370_3 --> 1 - 2 Original Alignment aGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTA-GTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTag tcggtttactttgtggtaggttgttaatccccctttttctctgttaatagaGGCTCTATAGGGCTCCGGATTGCTCTGGCCATCTCAGCTACAGCTATCTTCCTGATTTTACGTATCCGCTTGCATAGTCCGATTTGGCACAAATT-TTTCTGTAACTCCATTATCTCTCTGAATCTGACAATAaggtgagttgaagaataggtctactgagagttgcaaactagatttagttcct Alignment from CESAR aGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTA-GTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTag tcggtttactttgtggtaggttgttaatccccctttttctctgttaatagaGGCTCTATAGGGCTCCGGATTGCTCTGGCCATCTCAGCTACAGCTATCTTCCTGATTTTACGTATCCGCTTGCATAGTCCGATTTGGCACAAAT-TTTTCTGTAACTCCATTATCTCTCTGAATCTGACAATAaggtgagttgaagaataggtctactgagagttgcaaactagatttagttcct Alignment from Spaln_aa2Genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG tcggtttactttgtggtaggttgttaatccccctttttctctgttaatagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATCTCAGCTACAGCTATCTTCCTGATTTTACGTATCCGCTTGCATAGTCCGATTTGGCACAAATTTTTCTGTAACTCCATTATCTCTCTGAATCTGACAATAAGgtgagttgaagaataggtctactgagagttgcaaactagatttagttcct Alignment from Spaln_nt2Genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTA-GTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG tcggtttactttgtggtaggttgttaatccccctttttctctgttaatagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATCTCAGCTACAGCTATCTTCCTGATTTTACGTATCCGCTTGCATAGTCCGATTTGGCACAAATT-TTTCTGTAACTCCATTATCTCTCTGAATCTGACAATAAGgtgagttgaagaataggtctactgagagttgcaaactagatttagttcct Alignment from Pairagon AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTA-GTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG tcggtttactttgtggtaggttgttaatccccctttttctctgttaatagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATCTCAGCTACAGCTATCTTCCTGATTTTACGTATCCGCTTGCATAGTCCGATTTGGCACAAATT-TTTCTGTAACTCCATTATCTCTCTGAATCTGACAATAAGgtgagttgaagaataggtctactgagagttgcaaactagatttagttcct Alignment from Exonerate_protein2genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG tcggtttactttgtggtaggttgttaatccccctttttctctgttaatagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATCTCAGCTACAGCTATCTTCCTGATTTTACGTATCCGCTTGCATAGTCCGATTTGGCACAAATTTTTCTGTAACTCCATTATCTCTCTGAATCTGACAATAAGgtgagttgaagaataggtctactgagagttgcaaactagatttagttcct Alignment from Exonerate_coding2genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG tcggtttactttgtggtaggttgttaatccccctttttctctgttaatagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATCTCAGCTACAGCTATCTTCCTGATTTTACGTATCCGCTTGCATAGTCCGATTTGGCACAAATTTTTCTGTAACTCCATTATCTCTCTGAATCTGACAATAAGgtgagttgaagaataggtctactgagagttgcaaactagatttagttcct Alignment from GeneWise -GGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG tcggtttactttgtggtaggttgttaatccccctttttctctgttaatagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATCTCAGCTACAGCTATCTTCCTGATTTTACGTATCCGCTTGCATAGTCCGATTTGGCACAAATTTTTCTGTAACTCCATTATCTCTCTGAATCTGACAATAAGgtgagttgaagaataggtctactgagagttgcaaactagatttagttcct #### Tmem180_ID9862_4 --> 1 - 0 Original Alignment cGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACC-TTGGGCCAGTACCTCCGGCAACTGGCACGCCACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcctatggccagtataaccatgatcctgtgttcttgtctgtctcagtGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACTCTTAGGGCAGTACCTCCACCAACAGGCACACCACCAGAACT-CCTATGGTTTGTAGGTATGTATTTGGTGCAGgtgagtcagcctatcccttagctccctgccaggcttgattctggcctagg Alignment from CESAR cGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACC-TTGGGCCAGTACCTCCGGCAACTGGCACGCCACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcctatggccagtataaccatgatcctgtgttcttgtctgtctcagtGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACTCTTAGGGCAGTACCTCCACCAACAGGCACACCACCAGA-ACTCCTATGGTTTGTAGGTATGTATTTGGTGCAGgtgagtcagcctatcccttagctccctgccaggcttgattctggcctagg Alignment from Spaln_aa2Genome CGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACCTTGGGCCAGTACCTCCGGCAACTGGCACGCCACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcctatggccagtataaccatgatcctgtgttcttgtctgtctcagTGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACTCTTAGGGCAGTACCTCCACCAACAGGCACACCACCAGAACTCCTATGGTTTGTAGGTATGTATTTGGTGCAGgtgagtcagcctatcccttagctccctgccaggcttgattctggcctagg Alignment from Spaln_nt2Genome CGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCAC-CTTGGGCCAGTACCTCCGGCAACTGGCACGCCACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcctatggccagtataaccatgatcctgtgttcttgtctgtctcagTGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACTCTTAGGGCAGTACCTCCACCAACAGGCACACCACCAGAAC-TCCTATGGTTTGTAGGTATGTATTTGGTGCAGgtgagtcagcctatcccttagctccctgccaggcttgattctggcctagg Alignment from Pairagon CGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCAC-CTTGGGCCAGTACCTCCGGCAACTGGCACGCCACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcctatggccagtataaccatgatcctgtgttcttgtctgtctcagTGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACTCTTAGGGCAGTACCTCCACCAACAGGCACACCACCAGAAC-TCCTATGGTTTGTAGGTATGTATTTGGTGCAGgtgagtcagcctatcccttagctccctgccaggcttgattctggcctagg Alignment from Exonerate_protein2genome CGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACCTTGGGCCAGTACCTCCGGCAACTGGCACGCCACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcctatggccagtataaccatgatcctgtgttcttgtctgtctcagTGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACTCTTAGGGCAGTACCTCCACCAACAGGCACACCACCAGAACTCCTATGGTTTGTAGGTATGTATTTGGTGCAGgtgagtcagcctatcccttagctccctgccaggcttgattctggcctagg Alignment from Exonerate_coding2genome CGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACCTTGGGCCAGTACCTCCGGCAACTGGCACGCCACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcctatggccagtataaccatgatcctgtgttcttgtctgtctcagTGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACTCTTAGGGCAGTACCTCCACCAACAGGCACACCACCAGAACTCCTATGGTTTGTAGGTATGTATTTGGTGCAGgtgagtcagcctatcccttagctccctgccaggcttgattctggcctagg Alignment from GeneWise CGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACCTTGGGCCAGTACCTCCGGCAACTGGCACGCCACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcctatggccagtataaccatgatcctgtgttcttgtctgtctcagTGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACTCTTAGGGCAGTACCTCCACCAACAGGCACACCACCAGAACTCCTATGGTTTGTAGGTATGTATTTGGTGCAGgtgagtcagcctatcccttagctccctgccaggcttgattctggcctagg #### Trpt1_ID1981_4 --> 0 - 1 Original Alignment GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCA---CAA------GCCCTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTA-CTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCAC------TTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCg tgtatgttagaggggaacttcttgctgcacaaatgtctattattttgcagGTCCCTAAGTTGGAGCTTACGCCCCTGGACACCCCACAACAAGCCTTGCCCCTGCCCCTAGCACTAGTCCATGGCACATTCTGGACAAATCACTGGCCGTCCATTTTGCCTCAAGGGG---TCACATCAAGGAAGGACTTGCAATCATCTTG-TCTTGCTTCAGGATTGCCA---GACCCAGGCACCATCAGTggtgcgttctaattaccctatcatgatgcatggatagacaaagcctcattt Alignment from CESAR GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAA---------GCCCTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTA-CTAAAGGGCTTGTCACGCCAAGGAAGGACA------CACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCg tgtatgttagaggggaacttcttgctgcacaaatgtctattattttgcagGTCCCTAAGTTGGAGCTTACGCCCCTGGACACCCCACAACAAGCCTTGCCCCTGCCCCTAGCACTAGTCCATGGCACATTCTGGACAAATCACTGGCCGTCCATTTTGCCTCAAGGGG---TCACATCAAGGAAGGACTTGCAATCATCTT-GTCTTGCTTCAGGATTGCCA---GACCCAGGCACCATCAGTggtgcgttctaattaccctatcatgatgcatggatagacaaagcctcattt Alignment from Spaln_aa2Genome GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAA---------GCCCTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTG---TCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG tgtatgttagaggggaacttcttgctgcacaaatgtctattattttgcagGTCCCTAAGTTGGAGCTTACGCCCCTGGACACCCCACAACAAGCCTTGCCCCTGCCCCTAGCACTAGTCCATGGCACATTCTGGACAAATCACTGGCCGTCCATTTTGCCTCAAGGGGTCACATCAAGGAAGGACTTGCAATCATCTTGTCTTGCTTCAGGATTGCCA---GACCCAGGCACCATCAGTGgtgcgttctaattaccctatcatgatgcatggatagacaaagcctcattt Alignment from Spaln_nt2Genome GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAAG---------CCCTGCCCTTGACACTAGTCCATGGTACATTCTGGA---AGCACTGGCCATCTATTCTAC-TAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCA-CTTG----GCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG tgtatgttagaggggaacttcttgctgcacaaatgtctattattttgcagGTCCCTAAGTTGGAGCTTACGCCCCTGGACACCCCACAACAAGCCTTGCCCCTGCCCCTAGCACTAGTCCATGGCACATTCTGGACAAATCACTGGCCGTCCATTTTGCCTCAAGGG---GTCACATCAAGGAAGGACTTGCAATCATCTTGTCTTGCTTCAGGATTGCC---AGACCCAGGCACCATCAGTGgtgcgttctaattaccctatcatgatgcatggatagacaaagcctcattt Alignment from Pairagon GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAA---------GCCCTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTA-CTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTG---------------GCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG tgtatgttagaggggaacttcttgctgcacaaatgtctattattttgcagGTCCCTAAGTTGGAGCTTACGCCCCTGGACACCCCACAACAAGCCTTGCCCCTGCCCCTAGCACTAGTCCATGGCACATTCTGGACAAATCACTGGCCGTCCATTTTGCCTCAAGGG---GTCACATCAAGGAAGG----------ACTTGCAATCATCTTGTCTTGCTTCAGGATTGCC---AGACCCAGGCACCATCAGTGgtgcgttctaattaccctatcatgatgcatggatagacaaagcctcattt Alignment from Exonerate_protein2genome GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAA---------GCCCTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTG---TCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG tgtatgttagaggggaacttcttgctgcacaaatgtctattattttgcagGTCCCTAAGTTGGAGCTTACGCCCCTGGACACCCCACAACAAGCCTTGCCCCTGCCCCTAGCACTAGTCCATGGCACATTCTGGACAAATCACTGGCCGTCCATTTTGCCTCAAGGGGTCACATCAAGGAAGGACTTGCAATCATCTTGTCTTGCTTCAGGATTGCCA---GACCCAGGCACCATCAGTGgtgcgttctaattaccctatcatgatgcatggatagacaaagcctcattt Alignment from Exonerate_coding2genome GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAA---------GCCCTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTG---TCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCGGC tgtatgttagaggggaacttcttgctgcacaaatgtctattattttgcagGTCCCTAAGTTGGAGCTTACGCCCCTGGACACCCCACAACAAGCCTTGCCCCTGCCCCTAGCACTAGTCCATGGCACATTCTGGACAAATCACTGGCCGTCCATTTTGCCTCAAGGGGTCACATCAAGGAAGGACTTGCAATCATCTTGTCTTGCTTCAGGATTGCCA---GACCCAGGCACCATCAGTGGTgcgttctaattaccctatcatgatgcatggatagacaaagcctcattt Alignment from GeneWise GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAAGCC---------CTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTG---TCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG tgtatgttagaggggaacttcttgctgcacaaatgtctattattttgcagGTCCCTAAGTTGGAGCTTACGCCCCTGGACACCCCACAACAAGCCTTGCCCCTGCCCCTAGCACTAGTCCATGGCACATTCTGGACAAATCACTGGCCGTCCATTTTGCCTCAAGGGGTCACATCAAGGAAGGACTTGCAATCATCTTGTCTTGCTTCAGGATTGCCA---GACCCAGGCACCATCAGTGgtgcgttctaattaccctatcatgatgcatggatagacaaagcctcattt #### Tut1_ID2554_7 --> 2 - 1 Original Alignment gaGGTGGCCCCCTTCTCAATAACTACGCCTTG-ACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAg ttgacatgcagacttgtttttgcaattatggtctgtttctttcctgtcaggaGGTGGCCCACTATTCAATAATTAT---GTACACCTTGTTGGTGATCTACCTGCTTCAAACAAGAGACC-ACCAGTACTACCTAGTGTAGCCGAGCTAACCCAGAGGGCAggtgagtataatgtttgcctctgtaacccagacactctggctggtatgact Alignment from CESAR gaGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAg ttgacatgcagacttgtttttgcaattatggtctgtttctttcctgtcaggaGGTGGCCCACTATTCAATAATTATGTA--CACCTTGTTGGTGATCTACCTGCTTCAAACAAGAG-ACCACCAGTACTACCTAGTGTAGCCGAGCTAACCCAGAGGGCAggtgagtataatgtttgcctctgtaacccagacactctggctggtatgact Alignment from Spaln_aa2Genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG ttgacatgcagacttgtttttgcaattatggtctgtttctttcctgtcagGAGGTGGCCCACTATTCAATAATTATGTAC--ACCTTGTTGGTGATCTACCTGCTTCAAACAAGAGA-CCACCAGTACTACCTAGTGTAGCCGAGCTAACCCAGAGGGCAGgtgagtataatgtttgcctctgtaacccagacactctggctggtatgact Alignment from Spaln_nt2Genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG ttgacatgcagacttgtttttgcaattatggtctgtttctttcctgtcagGAGGTGGCCCACTATTCAATAATTATG--TACACCTTGTTGGTGATCTACCTGCTTCAAACAAGAGA-CCACCAGTACTACCTAGTGTAGCCGAGCTAACCCAGAGGGCAGgtgagtataatgtttgcctctgtaacccagacactctggctggtatgact Alignment from Pairagon GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG ttgacatgcagacttgtttttgcaattatggtctgtttctttcctgtcagGAGGTGGCCCACTATTCAATAATTATG--TACACCTTGTTGGTGATCTACCTGCTTCAAACAAGAGACCA-CCAGTACTACCTAGTGTAGCCGAGCTAACCCAGAGGGCAGgtgagtataatgtttgcctctgtaacccagacactctggctggtatgact Alignment from Exonerate_protein2genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG ttgacatgcagacttgtttttgcaattatggtctgtttctttcctgtcagGAGGTGGCCCACTATTCAATAATTAT---GTACACCTTGTTGGTGATCTACCTGCTTCAAACAAGAGACCACCAGTACTACCTAGTGTAGCCGAGCTAACCCAGAGGGCAGgtgagtataatgtttgcctctgtaacccagacactctggctggtatgact Alignment from Exonerate_coding2genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG ttgacatgcagacttgtttttgcaattatggtctgtttctttcctgtcagGAGGTGGCCCACTATTCAATAATTAT---GTACACCTTGTTGGTGATCTACCTGCTTCAAACAAGAGACCACCAGTACTACCTAGTGTAGCCGAGCTAACCCAGAGGGCAGgtgagtataatgtttgcctctgtaacccagacactctggctggtatgact Alignment from GeneWise GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG ttgacatgcagacttgtttttgcaattatggtctgtttctttcctgtcagGAGGTGGCCCACTATTCAATAATTAT---GTACACCTTGTTGGTGATCTACCTGCTTCAAACAAGAGACCACCAGTACTACCTAGTGTAGCCGAGCTAACCCAGAGGGCAGgtgagtataatgtttgcctctgtaacccagacactctggctggtatgact #### Ubxn1_ID2443_7 --> 0 - 0 Original Alignment TATGGTGGTAGTGTGGGTTCTCGGTCATCCCCACCAGCA-ACAGACCCAGGTCCTGTTCCTTCTTCTCCCAGCCAGGAGCCCCCTACTAAGCGGGAGTATGACCAGTGTCGTATACAG ttatagacctgatgaataaatagggcctcatgtctgcactgtctccacagTGTGGTGGCAGTGTGGGTTCACGAACATCCCCACCAGCACATGGACCCCGGTCCTGTACCATCTCCTCCAAGCCAAGAGC-CCCTACTAAGCGGGAGTATGACCAGTGTCGTACACAAgtgagctctccaggggactatcctcctcgggactttcatgtaacttttta Alignment from CESAR TATGGTGGTAGTGTGGGTTCTCGGTCATCCCCACCAGCA-ACAGACCCAGGTCCTGTTCCTTCTTCTCCCAGCCAGGAGCCCCCTACTAAGCGGGAGTATGACCAGTGTCGTATACAG ttatagacctgatgaataaatagggcctcatgtctgcactgtctccacagTGTGGTGGCAGTGTGGGTTCACGAACATCCCCACCAGCACATGGACCCCGGTCCTGTACCATCTCCTCCAAGCCAAGAGC-CCCTACTAAGCGGGAGTATGACCAGTGTCGTACACAAgtgagctctccaggggactatcctcctcgggactttcatgtaacttttta Alignment from Spaln_aa2Genome TATGGTGGTAGTGTGGGTTCTCGGTCATCCCCACCAGCAACAGACCCAGGTCCTGTTCCTTCTTCTCCCAGCCAGGAGCCCCCTACTAAGCGGGAGTATGACCAGTGTCGTATACAG ttatagacctgatgaataaatagggcctcatgtctgcactgtctccacagTGTGGTGGCAGTGTGGGTTCACGAACATCCCCACCAGCACATGGACCCCGGTCCTGTACCATCTCCTCCAAGCCAAGAGCCCCTACTAAGCGGGAGTATGACCAGTGTCGTACACAAgtgagctctccaggggactatcctcctcgggactttcatgtaacttttta Alignment from Spaln_nt2Genome TATGGTGGTAGTGTGGGTTCTCGGTCATCCCCACCAGCA-ACAGACCCAGGTCCTGTTCCTTCTTCTCCCAGCCAGGAGCCCCCTACTAAGCGGGAGTATGACCAGTGTCGTATACAG ttatagacctgatgaataaatagggcctcatgtctgcactgtctccacagTGTGGTGGCAGTGTGGGTTCACGAACATCCCCACCAGCACATGGACCCCGGTCCTGTACCATCTCCTCCAAGCCAAGAG-CCCCTACTAAGCGGGAGTATGACCAGTGTCGTACACAAgtgagctctccaggggactatcctcctcgggactttcatgtaacttttta Alignment from Pairagon TATGGTGGTAGTGTGGGTTCTCGGTCATCCCCACCAGCA-ACAGACCCAGGTCCTGTTCCTTCTTCTCCCAGCCAGGAGCCCCCTACTAAGCGGGAGTATGACCAGTGTCGTATACAG ttatagacctgatgaataaatagggcctcatgtctgcactgtctccacagTGTGGTGGCAGTGTGGGTTCACGAACATCCCCACCAGCACATGGACCCCGGTCCTGTACCATCTCCTCCAAGCCAAGAG-CCCCTACTAAGCGGGAGTATGACCAGTGTCGTACACAAgtgagctctccaggggactatcctcctcgggactttcatgtaacttttta Alignment from Exonerate_protein2genome TATGGTGGTAGTGTGGGTTCTCGGTCATCCCCACCAGCAACAGACCCAGGTCCTGTTCCTTCTTCTCCCAGCCAGGAGCCCCCTACTAAGCGGGAGTATGACCAGTGTCGTATACAG ttatagacctgatgaataaatagggcctcatgtctgcactgtctccacagTGTGGTGGCAGTGTGGGTTCACGAACATCCCCACCAGCACATGGACCCCGGTCCTGTACCATCTCCTCCAAGCCAAGAGCCCCTACTAAGCGGGAGTATGACCAGTGTCGTACACAAgtgagctctccaggggactatcctcctcgggactttcatgtaacttttta Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TATGGTGGTAGTGTGGGTTCTCGGTCATCCCCACCAGCAACAGACCCAGGTCCTGTTCCTTCTTCTCCCAGCCAGGAGCCCCCTACTAAGCGGGAGTATGACCAGTGTCGTATACAG ttatagacctgatgaataaatagggcctcatgtctgcactgtctccacagTGTGGTGGCAGTGTGGGTTCACGAACATCCCCACCAGCACATGGACCCCGGTCCTGTACCATCTCCTCCAAGCCAAGAGCCCCTACTAAGCGGGAGTATGACCAGTGTCGTACACAAgtgagctctccaggggactatcctcctcgggactttcatgtaacttttta #### Ubxn1_ID2444_8 --> 0 - 1 Original Alignment GTTAGGCTGCCTGATGGGACTTCACTGACCCAGACTTTCCGGGCCCGGGAACAGCTGGCAGCTGTGAGGCTCTACGTGGAGCTTCACCGTGGGGAGGAGCCTGGACAGGACCAGGACCCT-GTGCAGTTGCTCAGTGGCTTCCCCAGACGGGCTTTCTCAGAGGCTGATATGGAACGGCCTCTGCAGGAACTGg ggcaactacagaaaatgccgctcattggaatgacaagcatcttcttctagGTTAGGCTGCCTGATGTCACTTCACTGACCCAGACTTTCCGGATCCAGGAAGAGTTGGCAGCTGTGAGGCTTTATGTAGAGCTCCATCACGGTGAGGAACCCGGACAGGATCAGGACCCTCGTACAATTGCTCAGTGGATTCCCCAGACGGGCTT-CTCTGAAGCTGACATGGAGCGGCCTTTACAGAGACTGggtaggctttgtattcctacatttatgcacattgtcttgaggcacatgcta Alignment from CESAR GTTAGGCTGCCTGATGGGACTTCACTGACCCAGACTTTCCGGGCCCGGGAACAGCTGGCAGCTGTGAGGCTCTACGTGGAGCTTCACCGTGGGGAGGAGCCTGGACAGGACCAGGACCCT-GTGCAGTTGCTCAGTGGCTTCCCCAGACGGGCTTTCTCAGAGGCTGATATGGAACGGCCTCTGCAGGAACTGg ggcaactacagaaaatgccgctcattggaatgacaagcatcttcttctagGTTAGGCTGCCTGATGTCACTTCACTGACCCAGACTTTCCGGATCCAGGAAGAGTTGGCAGCTGTGAGGCTTTATGTAGAGCTCCATCACGGTGAGGAACCCGGACAGGATCAGGACCCTCGTACAATTGCTCAGTGGATTCCCCAGACGGG-CTTCTCTGAAGCTGACATGGAGCGGCCTTTACAGAGACTGggtaggctttgtattcctacatttatgcacattgtcttgaggcacatgcta Alignment from Spaln_aa2Genome GTTAGGCTGCCTGATGGGACTTCACTGACCCAGACTTTCCGGGCCCGGGAACAGCTGGCAGCTGTGAGGCTCTACGTGGAGCTTCACCGTGGGGAGGAGCCTGGACAGGACCAGGACCCTGTGCAGTTGCTCAGTGGCTTCCCCAGACGGGCTTTCTCAGAGGCTGATATGGAACGGCCTCTGCAGGAACTGG ggcaactacagaaaatgccgctcattggaatgacaagcatcttcttctagGTTAGGCTGCCTGATGTCACTTCACTGACCCAGACTTTCCGGATCCAGGAAGAGTTGGCAGCTGTGAGGCTTTATGTAGAGCTCCATCACGGTGAGGAACCCGGACAGGATCAGGACCCTCGTACAATTGCTCAGTGGATTCCCCAGACGGGCTTCTCTGAAGCTGACATGGAGCGGCCTTTACAGAGACTGGgtaggctttgtattcctacatttatgcacattgtcttgaggcacatgcta Alignment from Spaln_nt2Genome GTTAGGCTGCCTGATGGGACTTCACTGACCCAGACTTTCCGGGCCCGGGAACAGCTGGCAGCTGTGAGGCTCTACGTGGAGCTTCACCGTGGGGAGGAGCCTGGACAGGACCAGGACCCT-GTGCAGTTGCTCAGTGGCTTCCCCAGACGGGCTTTCTCAGAGGCTGATATGGAACGGCCTCTGCAGGAACTGG ggcaactacagaaaatgccgctcattggaatgacaagcatcttcttctagGTTAGGCTGCCTGATGTCACTTCACTGACCCAGACTTTCCGGATCCAGGAAGAGTTGGCAGCTGTGAGGCTTTATGTAGAGCTCCATCACGGTGAGGAACCCGGACAGGATCAGGACCCTCGTACAATTGCTCAGTGGATTCCCCAGACGGGC-TTCTCTGAAGCTGACATGGAGCGGCCTTTACAGAGACTGGgtaggctttgtattcctacatttatgcacattgtcttgaggcacatgcta Alignment from Pairagon GTTAGGCTGCCTGATGGGACTTCACTGACCCAGACTTTCCGGGCCCGGGAACAGCTGGCAGCTGTGAGGCTCTACGTGGAGCTTCACCGTGGGGAGGAGCCTGGACAGGACCAGGACCCT-GTGCAGTTGCTCAGTGGCTTCCCCAGACGGGCTTTCTCAGAGGCTGATATGGAACGGCCTCTGCAGGAACTGG ggcaactacagaaaatgccgctcattggaatgacaagcatcttcttctagGTTAGGCTGCCTGATGTCACTTCACTGACCCAGACTTTCCGGATCCAGGAAGAGTTGGCAGCTGTGAGGCTTTATGTAGAGCTCCATCACGGTGAGGAACCCGGACAGGATCAGGACCCTCGTACAATTGCTCAGTGGATTCCCCAGACGGGC-TTCTCTGAAGCTGACATGGAGCGGCCTTTACAGAGACTGGgtaggctttgtattcctacatttatgcacattgtcttgaggcacatgcta Alignment from Exonerate_protein2genome GTTAGGCTGCCTGATGGGACTTCACTGACCCAGACTTTCCGGGCCCGGGAACAGCTGGCAGCTGTGAGGCTCTACGTGGAGCTTCACCGTGGGGAGGAGCCTGGACAGGACCAGGACCCTGTGCAGTTGCTCAGTGGCTTCCCCAGACGGGCTTTCTCAGAGGCTGATATGGAACGGCCTCTGCAGGAACTGG ggcaactacagaaaatgccgctcattggaatgacaagcatcttcttctagGTTAGGCTGCCTGATGTCACTTCACTGACCCAGACTTTCCGGATCCAGGAAGAGTTGGCAGCTGTGAGGCTTTATGTAGAGCTCCATCACGGTGAGGAACCCGGACAGGATCAGGACCCTCGTACAATTGCTCAGTGGATTCCCCAGACGGGCTTCTCTGAAGCTGACATGGAGCGGCCTTTACAGAGACTGGgtaggctttgtattcctacatttatgcacattgtcttgaggcacatgcta Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTTAGGCTGCCTGATGGGACTTCACTGACCCAGACTTTCCGGGCCCGGGAACAGCTGGCAGCTGTGAGGCTCTACGTGGAGCTTCACCGTGGGGAGGAGCCTGGACAGGACCAGGACCCTGTGCAGTTGCTCAGTGGCTTCCCCAGACGGGCTTTCTCAGAGGCTGATATGGAACGGCCTCTGCAGGAACTGG ggcaactacagaaaatgccgctcattggaatgacaagcatcttcttctagGTTAGGCTGCCTGATGTCACTTCACTGACCCAGACTTTCCGGATCCAGGAAGAGTTGGCAGCTGTGAGGCTTTATGTAGAGCTCCATCACGGTGAGGAACCCGGACAGGATCAGGACCCTCGTACAATTGCTCAGTGGATTCCCCAGACGGGCTTCTCTGAAGCTGACATGGAGCGGCCTTTACAGAGACTGGgtaggctttgtattcctacatttatgcacattgtcttgaggcacatgcta #### Uhrf2_ID6376_7 --> 1 - 0 Original Alignment gTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTG-GTAAAGGCTGGAGAGAGACTCAAGCTGAGTAAGAAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG ctcattttcttaccagttttaatgaagtacctggcatgtccccgttccaggTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTACGTAAAGGCTGGAGAGAGGCTCAAGCTGACCAAGA-AAAATTGAAGATGCCTTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaagagaatccttacactattatcaccactatgtcagcagttcaaaaag Alignment from CESAR gTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTG-GTAAAGGCTGGAGAGAGACTCAAGCTGAGTAAGAAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG ctcattttcttaccagttttaatgaagtacctggcatgtccccgttccaggTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTACGTAAAGGCTGGAGAGAGGCTCAAGCTGACCAAGA-AAAATTGAAGATGCCTTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaagagaatccttacactattatcaccactatgtcagcagttcaaaaag Alignment from Spaln_aa2Genome GTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCTGGAGAGAGACTCAAGCTGAGTAAGAAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG ctcattttcttaccagttttaatgaagtacctggcatgtccccgttccagGTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTACGTAAAGGCTGGAGAGAGGCTCAAGCTGACCAAGAAAAATTGAAGATGCCTTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaagagaatccttacactattatcaccactatgtcagcagttcaaaaag Alignment from Spaln_nt2Genome GTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTG-GTAAAGGCTGGAGAGAGACTCAAGCTGAGTAAGAAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG ctcattttcttaccagttttaatgaagtacctggcatgtccccgttccagGTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTACGTAAAGGCTGGAGAGAGGCTCAAGCTGACCAAGAA-AAATTGAAGATGCCTTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaagagaatccttacactattatcaccactatgtcagcagttcaaaaag Alignment from Pairagon GTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTG-GTAAAGGCTGGAGAGAGACTCAAGCTGAGTAAGAAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG ctcattttcttaccagttttaatgaagtacctggcatgtccccgttccagGTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTACGTAAAGGCTGGAGAGAGGCTCAAGCTGACCAAGAA-AAATTGAAGATGCCTTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaagagaatccttacactattatcaccactatgtcagcagttcaaaaag Alignment from Exonerate_protein2genome GTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCTGGAGAGAGACTCAAGCTGAGTAAGAAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG ctcattttcttaccagttttaatgaagtacctggcatgtccccgttccagGTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTACGTAAAGGCTGGAGAGAGGCTCAAGCTGACCAAGAAAAATTGAAGATGCCTTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaagagaatccttacactattatcaccactatgtcagcagttcaaaaag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCTGGAGAGAGACTCAAGCTGAGTAAGAAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG ctcattttcttaccagttttaatgaagtacctggcatgtccccgttccagGTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTACGTAAAGGCTGGAGAGAGGCTCAAGCTGACCAAGAAAAATTGAAGATGCCTTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaagagaatccttacactattatcaccactatgtcagcagttcaaaaag #### Unc93b1_ID214_5 --> 1 - 0 Original Alignment gATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAG-CAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC aaggaaaaaactgtcatagtgtgcagtttctgagcacctttctcccacaggATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACCAACACCCACCACATGGACTACACACACCTTTTCTGC-GGTCTTCCATACTAACTTTTACAGTTTCTTGCATgtaggcgtgcttcaggaagcccttgtagtgggtgggcataacagactggg Alignment from CESAR gATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAG-CAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC aaggaaaaaactgtcatagtgtgcagtttctgagcacctttctcccacaggATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACCAACACCCACCACATGGACTACACACACCTTTTCTG-CGGTCTTCCATACTAACTTTTACAGTTTCTTGCATgtaggcgtgcttcaggaagcccttgtagtgggtgggcataacagactggg Alignment from Spaln_aa2Genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCACTTGAGCTTCGCGTGTGCCCAGCTGCCC aaggaaaaaactgtcatagtgtgcagtttctgagcacctttctcccacagGATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACCAACACCCACCACATGGACTACACACACCTTTTCTGCGGTCTTCCATACTAACTTTTACAGTTTCTTGCATGTAGGCGTGCTTCAGGAAGCCCTTGTAgtgggtgggcataacagactggg Alignment from Spaln_nt2Genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGC-AGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC aaggaaaaaactgtcatagtgtgcagtttctgagcacctttctcccacagGATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACCAACACCCACCACATGGACTACACACACCTTTTCTGC-GGTCTTCCATACTAACTTTTACAGTTTCTTGCATgtaggcgtgcttcaggaagcccttgtagtgggtgggcataacagactggg Alignment from Pairagon GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAG-CAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC aaggaaaaaactgtcatagtgtgcagtttctgagcacctttctcccacagGATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACCAACACCCACCACATGGACTACACACACCTTTTCTGC-GGTCTTCCATACTAACTTTTACAGTTTCTTGCATgtaggcgtgcttcaggaagcccttgtagtgggtgggcataacagactggg Alignment from Exonerate_protein2genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCACTTGAGCTTCGCGTGTGCCCAGCTGCCC aaggaaaaaactgtcatagtgtgcagtttctgagcacctttctcccacagGATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACCAACACCCACCACATGGACTACACACACCTTTTCTGCGGTCTTCCATACTAACTTTTACAGTTTCTTGCATGTAGGCGTGCTTCAGGAAGCCCTTGTAgtgggtgggcataacagactggg Alignment from Exonerate_coding2genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCACTTGAGCTTCGCGTGTGCCCAGCTGCCC aaggaaaaaactgtcatagtgtgcagtttctgagcacctttctcccacagGATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACCAACACCCACCACATGGACTACACACACCTTTTCTGCGGTCTTCCATACTAACTTTTACAGTTTCTTGCATGTAGGCGTGCTTCAGGAAGCCCTTGTAgtgggtgggcataacagactggg Alignment from GeneWise GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC aaggaaaaaactgtcatagtgtgcagtttctgagcacctttctcccacagGATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACCAACACCCACCACATGGACTACACACACCTTTTCTGCGGTCTTCCATACTAACTTTTACAGTTTCTTGCATgtaggcgtgcttcaggaagcccttgtagtgggtgggcataacagactggg #### Unc93b1_ID215_6 --> 0 - 1 Original Alignment TTGAGCTTCGCGTGTGCC-CAGCTGCCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCg cctactgcaatgacagacttctctcatatcttagcttcgtcattcctcagTTGAGCTTC---TTTGCTCCAG------ATGATTTACTTCCTCAACA-CTATCTGTATGACCTAAACCATACACTTATCAATGTACAGATATGTggtgagcttgtgatatcctagtaagttagtctttgttccatattcagtcca Alignment from CESAR TTGAGCTTCGCGTGTGCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCg cctactgcaatgacagacttctctcatatcttagcttcgtcattcctcagTTGAGCT--TCT------TTGCTCCAGATGATTTACTTCCTCA-ACACTATCTGTATGACCTAAACCATACACTTATCAATGTACAGATATGTggtgagcttgtgatatcctagtaagttagtctttgttccatattcagtcca Alignment from Spaln_aa2Genome TTGAGCTTCGCGTGTGCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG cctactgcaatgacagacttctctcatatcttagcttcgtcattcctcagTTGAGCTTCTTTGCT---------CCAGATGATTTACTTCCTCAACACTATCTGTATGACCTAAACCATACACTTATCAATGTACAGATATGTGgtgagcttgtgatatcctagtaagttagtctttgttccatattcagtcca Alignment from Spaln_nt2Genome TTGAGCTTCGCGTGTGCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG cctactgcaatgacagacttctctcatatcttagcttcgtcattcctcagTTGAGCTTC---TTT-----GCTCCAGATGATTTACTTCCTCAAC-ACTATCTGTATGACCTAAACCATACACTTATCAATGTACAGATATGTGgtgagcttgtgatatcctagtaagttagtctttgttccatattcagtcca Alignment from Pairagon TTGAGCTTC---------GCGTGTGCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG cctactgcaatgacagacttctctcatatcttagcttcgtcattcctcagTTGAGCTTCTTTGCTCCAG-----------------ATGATTTACTTCCTCAAC-ACTATCTGTATGACCTAAACCATACACTTATCAATGTACAGATATGTGgtgagcttgtgatatcctagtaagttagtctttgttccatattcagtcca Alignment from Exonerate_protein2genome ATGATTTACTTCCTCAAC--AACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG cctactgcaatgacagacttctctcatatcttagcttcgtcattcctcagttgagcttctttgctccagATGATTTACTTCCTCAACAC---TATCTGTATGACCTAAACCATACACTTATCAATGTACAGATATGTGgtgagcttgtgatatcctagtaagttagtctttgttccatattcagtcca Alignment from Exonerate_coding2genome cctactgcaatgacagacttctctcatatcttagcttcgtcattcctcagttgagcttctttgctccagatgatttacttcctcaacactatctgtatgacctaaaccatacacttatcaatgtacagatatgtggtgagcttgtgatatcctagtaagttagtctttgttccatattcagtcca Alignment from GeneWise TTGAGCTTCGCGTGTGCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG cctactgcaatgacagacttctctcatatcttagcttcgtcattcctcagTTGAGCTTCTTTGCT---------CCAGATGATTTACTTCCTCAACACTATCTGTATGACCTAAACCATACACTTATCAATGTACAGATATGTGgtgagcttgtgatatcctagtaagttagtctttgttccatattcagtcca #### Vegfb_ID1956_4 --> 0 - 2 Original Alignment ATCCTCATGATC-CAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCag aagtttacctcttagcttcttgggaacataacatttctgttttccttcagATCCTCATGATCCCAGTACCCAAGCAGTCAGCTGGGGGAGATGT-CCTGGAAGAACACAGCCAATGTGAATGCaggtctgagacaattccaggacccatggtctggcatgtgttagggccgcatg Alignment from CESAR ATCCTCATGATC-CAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCag aagtttacctcttagcttcttgggaacataacatttctgttttccttcagATCCTCATGATCCCAGTACCCAAGCAGTCAGCTGGGGGAGATGT-CCTGGAAGAACACAGCCAATGTGAATGCaggtctgagacaattccaggacccatggtctggcatgtgttagggccgcatg Alignment from Spaln_aa2Genome ATCCTCATGATC-CAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG aagtttacctcttagcttcttgggaacataacatttctgttttccttcagATCCTCATGATCcCAGTACCCAAGCAGTCAGCTGGGGGAGATGTC-CTGGAAGAACACAGCCAATGTGAATGCAGgtctgagacaattccaggacccatggtctggcatgtgttagggccgcatg Alignment from Spaln_nt2Genome ATCCTCATGATCC-AGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG aagtttacctcttagcttcttgggaacataacatttctgttttccttcagATCCTCATGATCCCAGTACCCAAGCAGTCAGCTGGGGGAGATGT-CCTGGAAGAACACAGCCAATGTGAATGCAGgtctgagacaattccaggacccatggtctggcatgtgttagggccgcatg Alignment from Pairagon ATCCTCATGAT-CCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG aagtttacctcttagcttcttgggaacataacatttctgttttccttcagATCCTCATGATCCCAGTACCCAAGCAGTCAGCTGGGGGAGATGT-CCTGGAAGAACACAGCCAATGTGAATGCAGgtctgagacaattccaggacccatggtctggcatgtgttagggccgcatg Alignment from Exonerate_protein2genome ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG aagtttacctcttagcttcttgggaacataacatttctgttttccttcagATCCTCATGATCCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCTGGAAGAACACAGCCAATGTGAATGCAGgtctgagacaattccaggacccatggtctggcatgtgttagggccgcatg Alignment from Exonerate_coding2genome ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG aagtttacctcttagcttcttgggaacataacatttctgttttccttcagATCCTCATGATCCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCTGGAAGAACACAGCCAATGTGAATGCAGgtctgagacaattccaggacccatggtctggcatgtgttagggccgcatg Alignment from GeneWise ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAGA------------------CCAAAA aagtttacctcttagcttcttgggaacataacatttctgttttccttcagATCCTCATGATCCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCTGGAAGAACACAGCCAATGTGAATGCAGGTCTGAGACAATTCCAGGACCCATGgtctggcatgtgttagggccgcatg #### Vegfb_ID1957_3 --> 2 - 0 Original Alignment tgGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTG-GTCAAACAACTAGTGCCCAGCTGT---GTGACTGTGCAGCGCTGTGGTGGCTGC---TGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaaggtttttgggtattgtgttgtttctttgtagtgGTACCATGGATCGATGTCTATGCACGGTCTGTATGCCAACCGAGGGAGGTGGCAGCTCCACTGAGTATGAAACTTATGGGTAATATCCGTCAAACAGCTGGTGCCAAGCTGTGTTGGAACTGTGC-GCGCTGTAGTGGGTGCTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgtaagtgactaatttgtatgtaagtacttggtagtatcagtctgatacgc Alignment from CESAR tgGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTG-GTCAAACAACTAGTGCCCAGCTGTGTG---ACTGTGCAGCGCTGTGGTGGCTGCTGC---CCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaaggtttttgggtattgtgttgtttctttgtagtgGTACCATGGATCGATGTCTATGCACGGTCTGTATGCCAACCGAGGGAGGTGGCAGCTCCACTGAGTATGAAACTTATGGGTAATATCCGTCAAACAGCTGGTGCCAAGCTGTGTTGGAACTGTG-CGCGCTGTAGTGGGTGCTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgtaagtgactaatttgtatgtaagtacttggtagtatcagtctgatacgc Alignment from Spaln_aa2Genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTG-GTCAAACAACTAGTGCCCAGCTGTGTG---ACTGTGCAGCGCTGTGGTGGC---TGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaaggtttttgggtattgtgttgtttctttgtagTGGTACCATGGATCGATGTCTATGCACGGTCTGTATGCCAACCGAGGGAGGTGGCAGCTCCACTGAGTATGAAACTTATGGGTAATATCcGTCAAACAGCTGGTGCCAAGCTGTGTTGGAACTGTGCG-CGCTGTAGTGGGTGCTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgtaagtgactaatttgtatgtaagtacttggtagtatcagtctgatacgc Alignment from Spaln_nt2Genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTG-GTCAAACAACTAGTGCCCAGCTGTGTG---ACTGTGCAGCGCTGTGGTGG---CTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaaggtttttgggtattgtgttgtttctttgtagTGGTACCATGGATCGATGTCTATGCACGGTCTGTATGCCAACCGAGGGAGGTGGCAGCTCCACTGAGTATGAAACTTATGGGTAATATCCGTCAAACAGCTGGTGCCAAGCTGTGTTGGAACTGTGC-GCGCTGTAGTGGGTGCTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgtaagtgactaatttgtatgtaagtacttggtagtatcagtctgatacgc Alignment from Pairagon TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGT-GGTCAAACAACTAGTGCCCAGCTGTGT---GACTGTGCAGCGCTGTGGTG---GCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaaggtttttgggtattgtgttgtttctttgtagTGGTACCATGGATCGATGTCTATGCACGGTCTGTATGCCAACCGAGGGAGGTGGCAGCTCCACTGAGTATGAAACTTATGGGTAATATCCGTCAAACAGCTGGTGCCAAGCTGTGTTGGAACTGTGC-GCGCTGTAGTGGGTGCTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgtaagtgactaatttgtatgtaagtacttggtagtatcagtctgatacgc Alignment from Exonerate_protein2genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTG-GTCAAACAACTAGTGCCCAGCTGTGTGACTGTGCAGCGCTGT-----GGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaaggtttttgggtattgtgttgtttctttgtagTGGTACCATGGATCGATGTCTATGCACGGTCTGTATGCCAACCGAGGGAGGTGGCAGCTCCACTGAGTATGAAACTTATGGGTAATATCCGTCAAACAGCTGGTGCCAAGCTGTGTTGGAACTGTGCGCGCTGTAGTGGGTGCTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgtaagtgactaatttgtatgtaagtacttggtagtatcagtctgatacgc Alignment from Exonerate_coding2genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTG-GTCAAACAACTAGTGCCCAGCTGTGTGACTGTGCAGCGCTGT-----GGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaaggtttttgggtattgtgttgtttctttgtagTGGTACCATGGATCGATGTCTATGCACGGTCTGTATGCCAACCGAGGGAGGTGGCAGCTCCACTGAGTATGAAACTTATGGGTAATATCCGTCAAACAGCTGGTGCCAAGCTGTGTTGGAACTGTGCGCGCTGTAGTGGGTGCTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgtaagtgactaatttgtatgtaagtacttggtagtatcagtctgatacgc Alignment from GeneWise TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTA---GTGCCCAGCTGTGTGACTGTGCAGCGCTGTGGTGGCTGCTGC---CCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaaggtttttgggtattgtgttgtttctttgtagTGGTACCATGGATCGATGTCTATGCACGGTCTGTATGCCAACCGAGGGAGGTGGCAGCTCCACTGAGTATGAAACTTATGGGTAATATCCGTCAAACAGCTGGTGCCAAGCTGTGTTGGAACTGTGCGCGCTGTAGTGGGTGCTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgtaagtgactaatttgtatgtaagtacttggtagtatcagtctgatacgc #### Vldlr_ID5807_6 --> 2 - 1 Original Alignment ctTCTCGAACCTGCCGACCTGACCAGTTTGAATGTGAAGATGGTAGCTGTATCCACGGC-AGCAGGCAATGCAATGGCATCCGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACg cttcacttctgatgtctctagcagtctctatttttatgtttgtcttaaagcaTCTCAAACTTGCCGACCTGACCACTTTGAATGTGAGGATGGTACTTGCATCCATGGTCAGCAGACAATGCAATGGGATCCAGGCTTGTG-TGATGGGTCTGATGAACTAAACTGTAGAAACagtgagcgtctctttgagattgacaggtctgttcctttgccagaagagtga Alignment from CESAR ctTCTCGAACCTGCCGACCTGACCAGTTTGAATGTGAAGATGGTAGCTGTATCCACGGC-AGCAGGCAATGCAATGGCATCCGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACg cttcacttctgatgtctctagcagtctctatttttatgtttgtcttaaagcaTCTCAAACTTGCCGACCTGACCACTTTGAATGTGAGGATGGTACTTGCATCCATGGTCAGCAGACAATGCAATGGGATCCAGGCTTGTG-TGATGGGTCTGATGAACTAAACTGTAGAAACagtgagcgtctctttgagattgacaggtctgttcctttgccagaagagtga Alignment from Spaln_aa2Genome CTTCTCGAACCTGCCGACCTGACCAGTTTGAATGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATCCGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACG cttcacttctgatgtctctagcagtctctatttttatgtttgtcttaaagCATCTCAAACTTGCCGACCTGACCACTTTGAATGTGAGGATGGTACTTGCATCCATGGTCAGCAGACAATGCAATGGGATCCAGGCTTGTGTGATGGGTCTGATGAACTAAACTGTAGAAACAgtgagcgtctctttgagattgacaggtctgttcctttgccagaagagtga Alignment from Spaln_nt2Genome CTTCTCGAACCTGCCGACCTGACCAGTTTGAATGTGAAGATGGTAGCTGTATCCACGG-CAGCAGGCAATGCAATGGCATCCGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACG cttcacttctgatgtctctagcagtctctatttttatgtttgtcttaaagCATCTCAAACTTGCCGACCTGACCACTTTGAATGTGAGGATGGTACTTGCATCCATGGTCAGCAGACAATGCAATGGGATCCAGGCTTGTG-TGATGGGTCTGATGAACTAAACTGTAGAAACAgtgagcgtctctttgagattgacaggtctgttcctttgccagaagagtga Alignment from Pairagon CTTCTCGAACCTGCCGACCTGACCAGTTTGAATGTGAAGATGGTAGCTGTATCCACGG-CAGCAGGCAATGCAATGGCATCCGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACG cttcacttctgatgtctctagcagtctctatttttatgtttgtcttaaagCATCTCAAACTTGCCGACCTGACCACTTTGAATGTGAGGATGGTACTTGCATCCATGGTCAGCAGACAATGCAATGGGATCCAGGCTTGTG-TGATGGGTCTGATGAACTAAACTGTAGAAACAgtgagcgtctctttgagattgacaggtctgttcctttgccagaagagtga Alignment from Exonerate_protein2genome CTTCTCGAACCTGCCGACCTGACCAGTTTGAATGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATCCGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACG cttcacttctgatgtctctagcagtctctatttttatgtttgtcttaaagCATCTCAAACTTGCCGACCTGACCACTTTGAATGTGAGGATGGTACTTGCATCCATGGTCAGCAGACAATGCAATGGGATCCAGGCTTGTGTGATGGGTCTGATGAACTAAACTGTAGAAACAgtgagcgtctctttgagattgacaggtctgttcctttgccagaagagtga Alignment from Exonerate_coding2genome CTTCTCGAACCTGCCGACCTGACCAGTTTGAATGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATCCGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACG cttcacttctgatgtctctagcagtctctatttttatgtttgtcttaaagCATCTCAAACTTGCCGACCTGACCACTTTGAATGTGAGGATGGTACTTGCATCCATGGTCAGCAGACAATGCAATGGGATCCAGGCTTGTGTGATGGGTCTGATGAACTAAACTGTAGAAACAgtgagcgtctctttgagattgacaggtctgttcctttgccagaagagtga Alignment from GeneWise CTTCTCGAACCTGCCGACCTGACCAGTTTGAATGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATCCGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACG cttcacttctgatgtctctagcagtctctatttttatgtttgtcttaaagCATCTCAAACTTGCCGACCTGACCACTTTGAATGTGAGGATGGTACTTGCATCCATGGTCAGCAGACAATGCAATGGGATCCAGGCTTGTGTGATGGGTCTGATGAACTAAACTGTAGAAACAgtgagcgtctctttgagattgacaggtctgttcctttgccagaagagtga #### Vldlr_ID5810_9 --> 2 - 1 Original Alignment atATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAA-ATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAg aaatggatatagaaaacaagcaattgggcagtggctcttctctctctcagacATTGATGAATGCCAAAACCCAGGTATCTGTGGCCAGCATCTGTATCAACTTAAAAGACGGTTACAAGTGCG-ATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAggtagtaaagtaactgagcaataatacgaggtttggagtgtaacttactgt Alignment from CESAR atATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAA-ATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAg aaatggatatagaaaacaagcaattgggcagtggctcttctctctctcagacATTGATGAATGCCAAAACCCAGGTATCTGTGGCCAGCATCTGTATCAACTTAAAAGACGGTTACAAGTGCG-ATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAggtagtaaagtaactgagcaataatacgaggtttggagtgtaacttactgt Alignment from Spaln_aa2Genome ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aaatggatatagaaaacaagcaattgggcagtggctcttctctctctcagACATTGATGAATGCCAAAACCCAGGTATCTGTGGCCAGCATCTGTATCAACTTAAAAGACGGTTACAAGTGCGATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAGgtagtaaagtaactgagcaataatacgaggtttggagtgtaacttactgt Alignment from Spaln_nt2Genome ATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAA-ATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aaatggatatagaaaacaagcaattgggcagtggctcttctctctctcagacATTGATGAATGCCAAAACCCAGGTATCTGTGGCCAGCATCTGTATCAACTTAAAAGACGGTTACAAGTGCG-ATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAGgtagtaaagtaactgagcaataatacgaggtttggagtgtaacttactgt Alignment from Pairagon ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAA-ATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aaatggatatagaaaacaagcaattgggcagtggctcttctctctctcagACATTGATGAATGCCAAAACCCAGGTATCTGTGGCCAGCATCTGTATCAACTTAAAAGACGGTTACAAGTGCG-ATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAGgtagtaaagtaactgagcaataatacgaggtttggagtgtaacttactgt Alignment from Exonerate_protein2genome ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aaatggatatagaaaacaagcaattgggcagtggctcttctctctctcagACATTGATGAATGCCAAAACCCAGGTATCTGTGGCCAGCATCTGTATCAACTTAAAAGACGGTTACAAGTGCGATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAGgtagtaaagtaactgagcaataatacgaggtttggagtgtaacttactgt Alignment from Exonerate_coding2genome ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aaatggatatagaaaacaagcaattgggcagtggctcttctctctctcagACATTGATGAATGCCAAAACCCAGGTATCTGTGGCCAGCATCTGTATCAACTTAAAAGACGGTTACAAGTGCGATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAGgtagtaaagtaactgagcaataatacgaggtttggagtgtaacttactgt Alignment from GeneWise ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAGGC- aaatggatatagaaaacaagcaattgggcagtggctcttctctctctcagACATTGATGAATGCCAAAACCCAGGTATCTGTGGCCAGCATCTGTATCAACTTAAAAGACGGTTACAAGTGCGATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAGGTAgtaaagtaactgagcaataatacgaggtttggagtgtaacttactgt #### Vldlr_ID5811_10 --> 2 - 2 Original Alignment gcAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAG-AGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCag atggcacttttcaagtaaataaatttttttcttccccgcccgcctcccaggcAAAGAGCCAAGTCTGATATTCACTAATCGAAGAGACATCAGAAAGATCGGCTTAGAACAGAAAAGAGTATATCCAACTTGTAGATC-ATTGAGAAACACAGTGGCTCTTGATGCAGAAATTGCAGCTCAAAAGCTATTTTGGGCTGATTTTAGCCAGCAGGCTATTTTCaggtaaggtaaatcagcctttcacagatgtctgggaagcatgcttagtggca Alignment from CESAR gcAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAG-AGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCag atggcacttttcaagtaaataaatttttttcttccccgcccgcctcccaggcAAAGAGCCAAGTCTGATATTCACTAATCGAAGAGACATCAGAAAGATCGGCTTAGAACAGAAAAGAGTATATCCAACTTGTAGATC-ATTGAGAAACACAGTGGCTCTTGATGCAGAAATTGCAGCTCAAAAGCTATTTTGGGCTGATTTTAGCCAGCAGGCTATTTTCaggtaaggtaaatcagcctttcacagatgtctgggaagcatgcttagtggca Alignment from Spaln_aa2Genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG atggcacttttcaagtaaataaatttttttcttccccgcccgcctcccagGCAAAGAGCCAAGTCTGATATTCACTAATCGAAGAGACATCAGAAAGATCGGCTTAGAACAGAAAAGAGTATATCCAACTTGTAGATCATTGAGAAACACAGTGGCTCTTGATGCAGAAATTGCAGCTCAAAAGCTATTTTGGGCTGATTTTAGCCAGCAGGCTATTTTCAGgtaaggtaaatcagcctttcacagatgtctgggaagcatgcttagtggca Alignment from Spaln_nt2Genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAG-AGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG atggcacttttcaagtaaataaatttttttcttccccgcccgcctcccagGCAAAGAGCCAAGTCTGATATTCACTAATCGAAGAGACATCAGAAAGATCGGCTTAGAACAGAAAAGAGTATATCCAACTTGTAGATC-ATTGAGAAACACAGTGGCTCTTGATGCAGAAATTGCAGCTCAAAAGCTATTTTGGGCTGATTTTAGCCAGCAGGCTATTTTCAGgtaaggtaaatcagcctttcacagatgtctgggaagcatgcttagtggca Alignment from Pairagon GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAG-AGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG atggcacttttcaagtaaataaatttttttcttccccgcccgcctcccagGCAAAGAGCCAAGTCTGATATTCACTAATCGAAGAGACATCAGAAAGATCGGCTTAGAACAGAAAAGAGTATATCCAACTTGTAGATC-ATTGAGAAACACAGTGGCTCTTGATGCAGAAATTGCAGCTCAAAAGCTATTTTGGGCTGATTTTAGCCAGCAGGCTATTTTCAGgtaaggtaaatcagcctttcacagatgtctgggaagcatgcttagtggca Alignment from Exonerate_protein2genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG atggcacttttcaagtaaataaatttttttcttccccgcccgcctcccagGCAAAGAGCCAAGTCTGATATTCACTAATCGAAGAGACATCAGAAAGATCGGCTTAGAACAGAAAAGAGTATATCCAACTTGTAGATCATTGAGAAACACAGTGGCTCTTGATGCAGAAATTGCAGCTCAAAAGCTATTTTGGGCTGATTTTAGCCAGCAGGCTATTTTCAGgtaaggtaaatcagcctttcacagatgtctgggaagcatgcttagtggca Alignment from Exonerate_coding2genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG atggcacttttcaagtaaataaatttttttcttccccgcccgcctcccagGCAAAGAGCCAAGTCTGATATTCACTAATCGAAGAGACATCAGAAAGATCGGCTTAGAACAGAAAAGAGTATATCCAACTTGTAGATCATTGAGAAACACAGTGGCTCTTGATGCAGAAATTGCAGCTCAAAAGCTATTTTGGGCTGATTTTAGCCAGCAGGCTATTTTCAGgtaaggtaaatcagcctttcacagatgtctgggaagcatgcttagtggca Alignment from GeneWise CCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG atggcacttttcaagtaaataaatttttttcttccccgcccgcctcccaggcaaagagCCAAGTCTGATATTCACTAATCGAAGAGACATCAGAAAGATCGGCTTAGAACAGAAAAGAGTATATCCAACTTGTAGATCATTGAGAAACACAGTGGCTCTTGATGCAGAAATTGCAGCTCAAAAGCTATTTTGGGCTGATTTTAGCCAGCAGGCTATTTTCAGgtaaggtaaatcagcctttcacagatgtctgggaagcatgcttagtggca #### Vps13a_ID4059_64 --> 0 - 1 Original Alignment GGGGCTATCCAGGGTCCT-GAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTg gacagtggtgtcacctcagattttcatcctctcgcttctcccacctctagGGGGCTATCCAAGGTCCTCGAGGAATTTGTAGCAGGAATGGCATTAGGATTAAAAGCAC-GATTGGTGGAGCTGTTggtgagtgtaacaggattagtgatgcaagtatcaagtaacaccagtgagga Alignment from CESAR GGGGCTATCCAGGGTCCT-GAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTg gacagtggtgtcacctcagattttcatcctctcgcttctcccacctctagGGGGCTATCCAAGGTCCTCGAGGAATTTGTAGCAGGAATGGCATTAGGATTAAAAGCA-CGATTGGTGGAGCTGTTggtgagtgtaacaggattagtgatgcaagtatcaagtaacaccagtgagga Alignment from Spaln_aa2Genome GGGGCTATCCAGGGTCCT-GAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCA---CTAGTTGGTGGAGCCGTTG gacagtggtgtcacctcagattttcatcctctcgcttctcccacctctagGGGGCTATCCAAGGTCCTcGAGGAATTTGTAGCAGGAATGGCATTAGGATTAAAAGCACGATTGGTGGAGCTGTTGGTGAgtgtaacaggattagtgatgcaagtatcaagtaacaccagtgagga Alignment from Spaln_nt2Genome GGGGCTATCCAGGGTCCT-GAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTG gacagtggtgtcacctcagattttcatcctctcgcttctcccacctctagGGGGCTATCCAAGGTCCTCGAGGAATTTGTAGCAGGAATGGCATTAGGATTAAAAGCACGA-TTGGTGGAGCTGTTGgtgagtgtaacaggattagtgatgcaagtatcaagtaacaccagtgagga Alignment from Pairagon GGGGCTATCCAGGGTCCT-GAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTG gacagtggtgtcacctcagattttcatcctctcgcttctcccacctctagGGGGCTATCCAAGGTCCTCGAGGAATTTGTAGCAGGAATGGCATTAGGATTAAAAGCACGA-TTGGTGGAGCTGTTGgtgagtgtaacaggattagtgatgcaagtatcaagtaacaccagtgagga Alignment from Exonerate_protein2genome GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTG gacagtggtgtcacctcagattttcatcctctcgcttctcccacctctagGGGGCTATCCAAGGTCCTCGAGGAATTTGTAGCAGGAATGGCATTAGGATTAAAAGCACGATTGGTGGAGCTGTTGgtgagtgtaacaggattagtgatgcaagtatcaagtaacaccagtgagga Alignment from Exonerate_coding2genome gacagtggtgtcacctcagattttcatcctctcgcttctcccacctctagggggctatccaaggtcctcgaggaatttgtagcaggaatggcattaggattaaaagcacgattggtggagctgttggtgagtgtaacaggattagtgatgcaagtatcaagtaacaccagtgagga Alignment from GeneWise GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTG gacagtggtgtcacctcagattttcatcctctcgcttctcccacctctagGGGGCTATCCAAGGTCCTCGAGGAATTTGTAGCAGGAATGGCATTAGGATTAAAAGCACGATTGGTGGAGCTGTTGgtgagtgtaacaggattagtgatgcaagtatcaagtaacaccagtgagga #### Vps13a_ID4068_55 --> 1 - 0 Original Alignment tTCTGATGTGGTTTGGGAGGCAAAACCAAAG-AAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcaagtattgccctttttatccccctacagtACTGATGTGGTCTGGGAGGCAAAGCCAAAGCGAGAAGACCAGGTGGAAACCCATG---ATCAAGCACACAG-TAAGTTAGAGAAGGGGTTTAGGGCATACATGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtatgctctatcttgtgctgcttgtgtacaatacttgagtaatgatcttc Alignment from CESAR tTCTGATGTGGTTTGGGAGGCAAAACCAAAG-AAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcaagtattgccctttttatccccctacagtACTGATGTGGTCTGGGAGGCAAAGCCAAAGCGAGAAGACCAGGTGGAAACCCATG---ATCAAGCACACA-GTAAGTTAGAGAAGGGGTTTAGGGCATACATGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtatgctctatcttgtgctgcttgtgtacaatacttgagtaatgatcttc Alignment from Spaln_aa2Genome TTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcaagtattgccctttttatccccctacagTACTGATGTGGTCTGGGAGGCAAAGCCAAAGCGAGAAGACCAGGTGGAAACCCATGATCAAGCACACAGT---AAGTTAGAGAAGGGGTTTAGGGCATACATGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtatgctctatcttgtgctgcttgtgtacaatacttgagtaatgatcttc Alignment from Spaln_nt2Genome TTCTGATGTGGTTTGGGAGGCAAAACCAAAGA-AGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcaagtattgccctttttatccccctacagTACTGATGTGGTCTGGGAGGCAAAGCCAAAGCGAGAAGACCAGGTGGAAACCCATGA---TCAAGCACACAG-TAAGTTAGAGAAGGGGTTTAGGGCATACATGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtatgctctatcttgtgctgcttgtgtacaatacttgagtaatgatcttc Alignment from Pairagon TTCTGATGTGGTTTGGGAGGCAAAACCAAAG-AAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcaagtattgccctttttatccccctacagTACTGATGTGGTCTGGGAGGCAAAGCCAAAGCGAGAAGACCAGGTGGAAACCCATGA---TCAAGCACACAG-TAAGTTAGAGAAGGGGTTTAGGGCATACATGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtatgctctatcttgtgctgcttgtgtacaatacttgagtaatgatcttc Alignment from Exonerate_protein2genome TTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcaagtattgccctttttatccccctacagTACTGATGTGGTCTGGGAGGCAAAGCCAAAGCGAGAAGACCAGGTGGAAACCCATGATCAAGCACACAGT---AAGTTAGAGAAGGGGTTTAGGGCATACATGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtatgctctatcttgtgctgcttgtgtacaatacttgagtaatgatcttc Alignment from Exonerate_coding2genome cacctgtcaggattttctgtgcaagtattgccctttttatccccctacagtactgatgtggtctgggaggcaaagccaaagcgagaagaccaggtggaaacccatgatcaagcacacagtaagttagagaaggggtttagggcatacatggaggcctcaccattggaggacaaggtggtggagttggacaacatcccagtatgctctatcttgtgctgcttgtgtacaatacttgagtaatgatcttc Alignment from GeneWise TTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcaagtattgccctttttatccccctacagTACTGATGTGGTCTGGGAGGCAAAGCCAAAGCGAGAAGACCAGGTGGAAACCCATGATCAAGCACACAGT---AAGTTAGAGAAGGGGTTTAGGGCATACATGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtatgctctatcttgtgctgcttgtgtacaatacttgagtaatgatcttc #### Vps13a_ID4093_30 --> 2 - 1 Original Alignment ctTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAG-CTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAg aggtcatttgtaaatgatctctggtacctaggatatttccctccctatagcaCTAAAGGTACCTATAAATGAAGACATTATTACATTGCAGCCTTGTGGCAGAATTATCATGTTTAAAAATTCTCA-CCAGGATCAGAAACAGAATGTATCAGAAATTAAAATCGAAggtgagtataaatatttcctgtttaaggataaacaaaattcaaaaggcagc Alignment from CESAR ctTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAG-CTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAg aggtcatttgtaaatgatctctggtacctaggatatttccctccctatagcaCTAAAGGTACCTATAAATGAAGACATTATTACATTGCAGCCTTGTGGCAGAATTATCATGTTTAAAAATTCTC-ACCAGGATCAGAAACAGAATGTATCAGAAATTAAAATCGAAggtgagtataaatatttcctgtttaaggataaacaaaattcaaaaggcagc Alignment from Spaln_aa2Genome CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG aggtcatttgtaaatgatctctggtacctaggatatttccctccctatagCACTAAAGGTACCTATAAATGAAGACATTATTACATTGCAGCCTTGTGGCAGAATTATCATGTTTAAAAATTCTCACCAGGATCAGAAACAGAATGTATCAGAAATTAAAATCGAAGgtgagtataaatatttcctgtttaaggataaacaaaattcaaaaggcagc Alignment from Spaln_nt2Genome CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCT-TTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG aggtcatttgtaaatgatctctggtacctaggatatttccctccctatagCACTAAAGGTACCTATAAATGAAGACATTATTACATTGCAGCCTTGTGGCAGAATTATCATGTTTAAAAATTCTCA-CCAGGATCAGAAACAGAATGTATCAGAAATTAAAATCGAAGgtgagtataaatatttcctgtttaaggataaacaaaattcaaaaggcagc Alignment from Pairagon CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTT-TGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG aggtcatttgtaaatgatctctggtacctaggatatttccctccctatagCACTAAAGGTACCTATAAATGAAGACATTATTACATTGCAGCCTTGTGGCAGAATTATCATGTTTAAAAATTCTCA-CCAGGATCAGAAACAGAATGTATCAGAAATTAAAATCGAAGgtgagtataaatatttcctgtttaaggataaacaaaattcaaaaggcagc Alignment from Exonerate_protein2genome CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG aggtcatttgtaaatgatctctggtacctaggatatttccctccctatagCACTAAAGGTACCTATAAATGAAGACATTATTACATTGCAGCCTTGTGGCAGAATTATCATGTTTAAAAATTCTCACCAGGATCAGAAACAGAATGTATCAGAAATTAAAATCGAAGgtgagtataaatatttcctgtttaaggataaacaaaattcaaaaggcagc Alignment from Exonerate_coding2genome CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG aggtcatttgtaaatgatctctggtacctaggatatttccctccctatagCACTAAAGGTACCTATAAATGAAGACATTATTACATTGCAGCCTTGTGGCAGAATTATCATGTTTAAAAATTCTCACCAGGATCAGAAACAGAATGTATCAGAAATTAAAATCGAAGgtgagtataaatatttcctgtttaaggataaacaaaattcaaaaggcagc Alignment from GeneWise CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG aggtcatttgtaaatgatctctggtacctaggatatttccctccctatagCACTAAAGGTACCTATAAATGAAGACATTATTACATTGCAGCCTTGTGGCAGAATTATCATGTTTAAAAATTCTCACCAGGATCAGAAACAGAATGTATCAGAAATTAAAATCGAAGgtgagtataaatatttcctgtttaaggataaacaaaattcaaaaggcagc #### Vps13a_ID4119_4 --> 2 - 1 Original Alignment gtAGTCTTAAACTTAAAATTCCATGGAAA-AACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTa tagctaacattactggtgagaccaacccacttaacttcccatgtttctaggtAGCCTTAGACTTAAAATCCCATGGAAACAACCTTTATACTCAACCTGTTGGAGCGGTTCTGGAAGAAA-CTTTTTACTCATAATACCTTCTTCTagtgaggtacttaaagtaggtcaaagcttttgctttttcccaggtctagct Alignment from CESAR gtAGTCTTAAACTTAAAATTCCATGGAAA-AACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTa tagctaacattactggtgagaccaacccacttaacttcccatgtttctaggtAGCCTTAGACTTAAAATCCCATGGAAACAACCTTTATACTCAACCTGTTGGAGCGGTTCTGGAAGAA-ACTTTTTACTCATAATACCTTCTTCTagtgaggtacttaaagtaggtcaaagcttttgctttttcccaggtctagct Alignment from Spaln_aa2Genome GTAGTCTTAAACTTAAAATTCCATGGAAA-AACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA tagctaacattactggtgagaccaacccacttaacttcccatgtttctagGTAGCCTTAGACTTAAAATCCCATGGAAAcAACCTTTATACTCAACCTGTTGGAGCGGTTCTGGAAGAAAC-TTTTTACTCATAATACCTTCTTCTAgtgaggtacttaaagtaggtcaaagcttttgctttttcccaggtctagct Alignment from Spaln_nt2Genome GTAGTCTTAAACTTAAAATTCCATGG-AAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA tagctaacattactggtgagaccaacccacttaacttcccatgtttctagGTAGCCTTAGACTTAAAATCCCATGGAAACAACCTTTATACTCAACCTGTTGGAGCGGTTCTGGAAGAAACTTTTT-ACTCATAATACCTTCTTCTAgtgaggtacttaaagtaggtcaaagcttttgctttttcccaggtctagct Alignment from Pairagon GTAGTCTTAAACTTAAAATTCCATGGAAA-AACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA tagctaacattactggtgagaccaacccacttaacttcccatgtttctagGTAGCCTTAGACTTAAAATCCCATGGAAACAACCTTTATACTCAACCTGTTGGAGCGGTTCTGGAAGAAACTTTTT-ACTCATAATACCTTCTTCTAgtgaggtacttaaagtaggtcaaagcttttgctttttcccaggtctagct Alignment from Exonerate_protein2genome GTAGTCTTAAACTTAAAATTCCATGGAAA-AACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAA--ATTTTTTTACTCATAGTGCCTTCTTCTA tagctaacattactggtgagaccaacccacttaacttcccatgtttctagGTAGCCTTAGACTTAAAATCCCATGGAAACAACCTTTATACTCAACCTGTTGGAGCGGTTCTGGAAGAAAC---TTTTTACTCATAATACCTTCTTCTAgtgaggtacttaaagtaggtcaaagcttttgctttttcccaggtctagct Alignment from Exonerate_coding2genome tagctaacattactggtgagaccaacccacttaacttcccatgtttctaggtagccttagacttaaaatcccatggaaacaacctttatactcaacctgttggagcggttctggaagaaactttttactcataataccttcttctagtgaggtacttaaagtaggtcaaagcttttgctttttcccaggtctagct Alignment from GeneWise GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA tagctaacattactggtgagaccaacccacttaacttcccatgtttctagGTAGCCTTAGACTTAAAATCCCATGGAAACAACCTTTATACTCAACCTGTTGGAGCGGTTCTGGAAGAAACTTTTTACTCATAATACCTTCTTCTAgtgaggtacttaaagtaggtcaaagcttttgctttttcccaggtctagct #### Vps37c_ID2983_3 --> 2 - 0 Original Alignment agAAATTTTCCTCGGCACTGCAG-CCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG tttgttatcagatttaattaaggcaatgcactctgttctctgtcccccagagAAATTTTCCTCAGCCCTGCAGCCCTGGGACCTTATTGGACCTCCTGCAGA-TGAAGGTATGAAGATTGAGGAGGACTCAGAGgtaggtcaagcattgctccttgatttggcttattccaaactgtactgtct Alignment from CESAR agAAATTTTCCTCGGCACTGCAG-CCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG tttgttatcagatttaattaaggcaatgcactctgttctctgtcccccagagAAATTTTCCTCAGCCCTGCAGCCCTGGGACCTTATTGGACCTCCTGCAGA-TGAAGGTATGAAGATTGAGGAGGACTCAGAGgtaggtcaagcattgctccttgatttggcttattccaaactgtactgtct Alignment from Spaln_aa2Genome AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG tttgttatcagatttaattaaggcaatgcactctgttctctgtcccccagAGAAATTTTCCTCAGCCCTGCAGCCCTGGGACCTTATTGGACCTCCTGCAGATGAAGGTATGAAGATTGAGGAGGACTCAGAGgtaggtcaagcattgctccttgatttggcttattccaaactgtactgtct Alignment from Spaln_nt2Genome AGAAATTTTCCTCGGCACTGCAG-CCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG tttgttatcagatttaattaaggcaatgcactctgttctctgtcccccagAGAAATTTTCCTCAGCCCTGCAGCCCTGGGACCTTATTGGACCTCCTGCAGAT-GAAGGTATGAAGATTGAGGAGGACTCAGAGgtaggtcaagcattgctccttgatttggcttattccaaactgtactgtct Alignment from Pairagon AGAAATTTTCCTCGGCACTGCAG-CCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG tttgttatcagatttaattaaggcaatgcactctgttctctgtcccccagAGAAATTTTCCTCAGCCCTGCAGCCCTGGGACCTTATTGGACCTCCTGCAGAT-GAAGGTATGAAGATTGAGGAGGACTCAGAGgtaggtcaagcattgctccttgatttggcttattccaaactgtactgtct Alignment from Exonerate_protein2genome AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG tttgttatcagatttaattaaggcaatgcactctgttctctgtcccccagAGAAATTTTCCTCAGCCCTGCAGCCCTGGGACCTTATTGGACCTCCTGCAGATGAAGGTATGAAGATTGAGGAGGACTCAGAGgtaggtcaagcattgctccttgatttggcttattccaaactgtactgtct Alignment from Exonerate_coding2genome AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG tttgttatcagatttaattaaggcaatgcactctgttctctgtcccccagAGAAATTTTCCTCAGCCCTGCAGCCCTGGGACCTTATTGGACCTCCTGCAGATGAAGGTATGAAGATTGAGGAGGACTCAGAGgtaggtcaagcattgctccttgatttggcttattccaaactgtactgtct Alignment from GeneWise AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG tttgttatcagatttaattaaggcaatgcactctgttctctgtcccccagAGAAATTTTCCTCAGCCCTGCAGCCCTGGGACCTTATTGGACCTCCTGCAGATGAAGGTATGAAGATTGAGGAGGACTCAGAGgtaggtcaagcattgctccttgatttggcttattccaaactgtactgtct #### Vwce_ID2964_18 --> 2 - 0 Original Alignment acTGTAACTTCGAAGGGAGAAAGGTA-GTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG actgcctcgcagactcccctgcccttgctcttttgcttcactctggacagacTGTAATTTTGAAGGGAGAAAGGTACGTCAATGGTCAGGTTTTCACCTTAGATG-TGAGCCCTGTACCCGGTGCATCTGCCAGgtaaatgggagagggaacccggagctaacagtttgccctcatggacttac Alignment from CESAR acTGTAACTTCGAAGGGAGAAAGGTA-GTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG actgcctcgcagactcccctgcccttgctcttttgcttcactctggacagacTGTAATTTTGAAGGGAGAAAGGTACGTCAATGGTCAGGTTTTCACCTTAGAT-GTGAGCCCTGTACCCGGTGCATCTGCCAGgtaaatgggagagggaacccggagctaacagtttgccctcatggacttac Alignment from Spaln_aa2Genome ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG actgcctcgcagactcccctgcccttgctcttttgcttcactctggacagACTGTAATTTTGAAGGGAGAAAGGTACGTCAATGGTCAGGTTTTCACCTTAGATGTGAGCCCTGTACCCGGTGCATCTGCCAGgtaaatgggagagggaacccggagctaacagtttgccctcatggacttac Alignment from Spaln_nt2Genome ACTGTAACTTCGAAGGGAGAAAGGTA-GTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG actgcctcgcagactcccctgcccttgctcttttgcttcactctggacagACTGTAATTTTGAAGGGAGAAAGGTACGTCAATGGTCAGGTTTTCACCTTAGATG-TGAGCCCTGTACCCGGTGCATCTGCCAGgtaaatgggagagggaacccggagctaacagtttgccctcatggacttac Alignment from Pairagon ACTGTAACTTCGAAGGGAGAAAGGTA-GTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG actgcctcgcagactcccctgcccttgctcttttgcttcactctggacagACTGTAATTTTGAAGGGAGAAAGGTACGTCAATGGTCAGGTTTTCACCTTAGATG-TGAGCCCTGTACCCGGTGCATCTGCCAGgtaaatgggagagggaacccggagctaacagtttgccctcatggacttac Alignment from Exonerate_protein2genome ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG actgcctcgcagactcccctgcccttgctcttttgcttcactctggacagACTGTAATTTTGAAGGGAGAAAGGTACGTCAATGGTCAGGTTTTCACCTTAGATGTGAGCCCTGTACCCGGTGCATCTGCCAGgtaaatgggagagggaacccggagctaacagtttgccctcatggacttac Alignment from Exonerate_coding2genome actgcctcgcagactcccctgcccttgctcttttgcttcactctggacagactgtaattttgaagggagaaaggtacgtcaatggtcaggttttcaccttagatgtgagccctgtacccggtgcatctgccaggtaaatgggagagggaacccggagctaacagtttgccctcatggacttac Alignment from GeneWise ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG actgcctcgcagactcccctgcccttgctcttttgcttcactctggacagACTGTAATTTTGAAGGGAGAAAGGTACGTCAATGGTCAGGTTTTCACCTTAGATGTGAGCCCTGTACCCGGTGCATCTGCCAGgtaaatgggagagggaacccggagctaacagtttgccctcatggacttac #### Wdr74_ID2312_2 --> 2 - 0 Original Alignment ggGTGAACCTTCAGCGGAAACATGCGGCAAAT-TTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttcatgtattcagccacctcattatgttctttgttttcatcccttaggaGTGAACCTTCAGTGTAAACACACAGCCAATCTTTGCTCCATTGGGACAA---CGGAGGGAGCAGGCTG-GAATGCTCTGTGCTGGGGTACTGGCAGTGAGACCCAAgtgaggaggccatatctctgtaaaaggcacaagagttgtagaattttcaa Alignment from CESAR ggGTGAACCTTCAGCGGAAACATGCGGCAAAT-TTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttcatgtattcagccacctcattatgttctttgttttcatcccttaggaGTGAACCTTCAGTGTAAACACACAGCCAATCTTTGCTCCATTGGGACAA---CGGAGGGAGCAGGCT-GGAATGCTCTGTGCTGGGGTACTGGCAGTGAGACCCAAgtgaggaggccatatctctgtaaaaggcacaagagttgtagaattttcaa Alignment from Spaln_aa2Genome GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttcatgtattcagccacctcattatgttctttgttttcatcccttagGAGTGAACCTTCAGTGTAAACACACAGCCAATCTTTGCTCCATTGGG---ACAACGGAGGGAGCAGGCTGGAATGCTCTGTGCTGGGGTACTGGCAGTGAGACCCAAgtgaggaggccatatctctgtaaaaggcacaagagttgtagaattttcaa Alignment from Spaln_nt2Genome GGGTGAACCTTCAGCGGAAACATGCGGCAAAT-TTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttcatgtattcagccacctcattatgttctttgttttcatcccttagGAGTGAACCTTCAGTGTAAACACACAGCCAATCTTTGCTCCATTGGGACA---ACGGAGGGAGCAGGCTG-GAATGCTCTGTGCTGGGGTACTGGCAGTGAGACCCAAgtgaggaggccatatctctgtaaaaggcacaagagttgtagaattttcaa Alignment from Pairagon GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCG---------------------CGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttcatgtattcagccacctcattatgttctttgttttcatcccttagGAGTGAACCTTCAGTGTAAACAC-----------------------ACAGCCAATCTTTGCTCCATTGGGACAACGGAGGGAGCAGGCTG-GAATGCTCTGTGCTGGGGTACTGGCAGTGAGACCCAAgtgaggaggccatatctctgtaaaaggcacaagagttgtagaattttcaa Alignment from Exonerate_protein2genome GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttcatgtattcagccacctcattatgttctttgttttcatcccttagGAGTGAACCTTCAGTGTAAACACACAGCCAATCTTTGCTCCATTGGG---ACAACGGAGGGAGCAGGCTGGAATGCTCTGTGCTGGGGTACTGGCAGTGAGACCCAAgtgaggaggccatatctctgtaaaaggcacaagagttgtagaattttcaa Alignment from Exonerate_coding2genome GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttcatgtattcagccacctcattatgttctttgttttcatcccttagGAGTGAACCTTCAGTGTAAACACACAGCCAATCTTTGCTCCATTGGG---ACAACGGAGGGAGCAGGCTGGAATGCTCTGTGCTGGGGTACTGGCAGTGAGACCCAAgtgaggaggccatatctctgtaaaaggcacaagagttgtagaattttcaa Alignment from GeneWise ----------------------------------------------------GTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA AAGTTCATGTATTCAGCCACCTCATTATGTTCTTTGTTTTCATCCCTTAGGAGTGAACCTTCAGTGTAAACACACAGCCAATCTTTGCTCCATTGGGACA---ACGGAGGGAGCAGGCTGGAATGCTCTGTGCTGGGGTACTGGCAGTGAGACCCAAgtgaggaggccatatctctgtaaaaggcacaagagttgtagaattttcaa #### Wdr74_ID2313_3 --> 0 - 2 Original Alignment ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAG-GGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGATgg ctctctcaccctactcagctcaacatgataacacgtgcgttcttttaaagGTACTAGTGGGCTGTGCGGACAGAACTGTAAAGTATTTTAATGCAAAGGAACGGCACATTCCTAAGACAGAGATACTGTCCTGGTGGGGAAG-GACATTCCGAGGTCTTACCCAAGTGGATgggtgagtgtcaatgatagtcttgcctggaatgtctaaagcgtggtgtactc Alignment from CESAR ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAG-GGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGATgg ctctctcaccctactcagctcaacatgataacacgtgcgttcttttaaagGTACTAGTGGGCTGTGCGGACAGAACTGTAAAGTATTTTAATGCAAAGGAACGGCACATTCCTAAGACAGAGATACTGTCCTGGTGGGGAAG-GACATTCCGAGGTCTTACCCAAGTGGATgggtgagtgtcaatgatagtcttgcctggaatgtctaaagcgtggtgtactc Alignment from Spaln_aa2Genome ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGATGG ctctctcaccctactcagctcaacatgataacacgtgcgttcttttaaagGTACTAGTGGGCTGTGCGGACAGAACTGTAAAGTATTTTAATGCAAAGGAACGGCACATTCCTAAGACAGAGATACTGTCCTGGTGGGGAAGGACATTCCGAGGTCTTACCCAAGTGGATGGgtgagtgtcaatgatagtcttgcctggaatgtctaaagcgtggtgtactc Alignment from Spaln_nt2Genome ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAG-GGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGATGG ctctctcaccctactcagctcaacatgataacacgtgcgttcttttaaagGTACTAGTGGGCTGTGCGGACAGAACTGTAAAGTATTTTAATGCAAAGGAACGGCACATTCCTAAGACAGAGATACTGTCCTGGT-GGGGAAGGACATTCCGAGGTCTTACCCAAGTGGATGGgtgagtgtcaatgatagtcttgcctggaatgtctaaagcgtggtgtactc Alignment from Pairagon ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAG-GGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGATGG ctctctcaccctactcagctcaacatgataacacgtgcgttcttttaaagGTACTAGTGGGCTGTGCGGACAGAACTGTAAAGTATTTTAATGCAAAGGAACGGCACATTCCTAAGACAGAGATACTGTCCTGGTGGGGAAGG-ACATTCCGAGGTCTTACCCAAGTGGATGGgtgagtgtcaatgatagtcttgcctggaatgtctaaagcgtggtgtactc Alignment from Exonerate_protein2genome ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAG-GGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGC--ACGTTCCGAGGTCTCGCCCAGGCGGATGG ctctctcaccctactcagctcaacatgataacacgtgcgttcttttaaagGTACTAGTGGGCTGTGCGGACAGAACTGTAAAGTATTTTAATGCAAAGGAACGGCACATTCCTAAGACAGAGATACTGTCCTGGTGGGGAAGGACA---TTCCGAGGTCTTACCCAAGTGGATGGgtgagtgtcaatgatagtcttgcctggaatgtctaaagcgtggtgtactc Alignment from Exonerate_coding2genome ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAG-GGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGC--ACGTTCCGAGGTCTCGCCCAGGCGGATGG ctctctcaccctactcagctcaacatgataacacgtgcgttcttttaaagGTACTAGTGGGCTGTGCGGACAGAACTGTAAAGTATTTTAATGCAAAGGAACGGCACATTCCTAAGACAGAGATACTGTCCTGGTGGGGAAGGACA---TTCCGAGGTCTTACCCAAGTGGATGGgtgagtgtcaatgatagtcttgcctggaatgtctaaagcgtggtgtactc Alignment from GeneWise ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAG-GAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGATGGC-- ctctctcaccctactcagctcaacatgataacacgtgcgttcttttaaagGTACTAGTGGGCTGTGCGGACAGAACTGTAAAGTATTTTAATGCAAAGGAACGGCACATTCCTAAGACAGAGATACTGTCCTGGTGGGGAAGGACATTCCGAGGTCTTACCCAAGTGGATGGGTGAgtgtcaatgatagtcttgcctggaatgtctaaagcgtggtgtactc #### Wdr96_ID10345_26 --> 0 - 0 Original Alignment ATCTCTGATGAACGGCAGAGAGGCCTGATG-GATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATG aaattttaatcaaagcctgtatctatgtcccacagtgtctttctttacagATACCTGATGAACGGCATAGAGGGTTGATGCGATATGATGGGTGGTGTACTCGAGGTAAAGA-AGAGGACATCTTGAGAATGgtcggtgtttctggaagtctttactgttgagggagagtctagtaggttgt Alignment from CESAR ATCTCTGATGAACGGCAGAGAGGCCTGATG-GATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATG aaattttaatcaaagcctgtatctatgtcccacagtgtctttctttacagATACCTGATGAACGGCATAGAGGGTTGATGCGATATGATGGGTGGTGTACTCGAGGTAAAGA-AGAGGACATCTTGAGAATGgtcggtgtttctggaagtctttactgttgagggagagtctagtaggttgt Alignment from Spaln_aa2Genome ATCTCTGATGAACGGCAGAGAGGCCTGATG-GATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATG aaattttaatcaaagcctgtatctatgtcccacagtgtctttctttacagATACCTGATGAACGGCATAGAGGGTTGATGcGATATGATGGGTGGTGTACTCGAGGTAAAGAA-GAGGACATCTTGAGAATGgtcggtgtttctggaagtctttactgttgagggagagtctagtaggttgt Alignment from Spaln_nt2Genome ATCTCTGATGAACGGCAGAGAGGCCTGATG-GATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATG aaattttaatcaaagcctgtatctatgtcccacagtgtctttctttacagATACCTGATGAACGGCATAGAGGGTTGATGCGATATGATGGGTGGTGTACTCGAGGTAAAGAA-GAGGACATCTTGAGAATGgtcggtgtttctggaagtctttactgttgagggagagtctagtaggttgt Alignment from Pairagon ATCTCTGATGAACGGCAGAGAGGCCTGATG-GATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATG aaattttaatcaaagcctgtatctatgtcccacagtgtctttctttacagATACCTGATGAACGGCATAGAGGGTTGATGCGATATGATGGGTGGTGTACTCGAGGTAAAGAA-GAGGACATCTTGAGAATGgtcggtgtttctggaagtctttactgttgagggagagtctagtaggttgt Alignment from Exonerate_protein2genome ATCTCTGATGAACGGCAGAGAGGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATG aaattttaatcaaagcctgtatctatgtcccacagtgtctttctttacagATACCTGATGAACGGCATAGAGGGTTGATGCGATATGATGGGTGGTGTACTCGAGGTAAAGAAGAGGACATCTTGAGAATGgtcggtgtttctggaagtctttactgttgagggagagtctagtaggttgt Alignment from Exonerate_coding2genome ATCTCTGATGAACGGCAGAGAGGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATG aaattttaatcaaagcctgtatctatgtcccacagtgtctttctttacagATACCTGATGAACGGCATAGAGGGTTGATGCGATATGATGGGTGGTGTACTCGAGGTAAAGAAGAGGACATCTTGAGAATGgtcggtgtttctggaagtctttactgttgagggagagtctagtaggttgt Alignment from GeneWise ATCTCTGATGAACGGCAGAGAGGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATG aaattttaatcaaagcctgtatctatgtcccacagtgtctttctttacagATACCTGATGAACGGCATAGAGGGTTGATGCGATATGATGGGTGGTGTACTCGAGGTAAAGAAGAGGACATCTTGAGAATGgtcggtgtttctggaagtctttactgttgagggagagtctagtaggttgt #### Wnt8b_ID9022_5 --> 2 - 0 Original Alignment ggGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCC-CTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG ccataccaggatttccatgccttatagatccgtatctttgtgtcttgcagggGGGCAAGGCTGGCTATGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCCTCAAGTCAGGGCAGGATGCCCGAGCAG-CATAAACTTGCACAACAATGAAGCTGGCCACAAGgtaggtccaatagtggttgatggcatgcatcatgagacctgtcattgtag Alignment from CESAR ggGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCC-CTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG ccataccaggatttccatgccttatagatccgtatctttgtgtcttgcagggGGGCAAGGCTGGCTATGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCCTCAAGTCAGGGCAGGATGCCCGAGCAG-CATAAACTTGCACAACAATGAAGCTGGCCACAAGgtaggtccaatagtggttgatggcatgcatcatgagacctgtcattgtag Alignment from Spaln_aa2Genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG ccataccaggatttccatgccttatagatccgtatctttgtgtcttgcagGGGGGCAAGGCTGGCTATGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCCTCAAGTCAGGGCAGGATGCCCGAGCAGCATAAACTTGCACAACAATGAAGCTGGCCACAAGgtaggtccaatagtggttgatggcatgcatcatgagacctgtcattgtag Alignment from Spaln_nt2Genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGC-CCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG ccataccaggatttccatgccttatagatccgtatctttgtgtcttgcagGGGGGCAAGGCTGGCTATGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCCTCAAGTCAGGGCAGGATGCCCGAGCAG-CATAAACTTGCACAACAATGAAGCTGGCCACAAGgtaggtccaatagtggttgatggcatgcatcatgagacctgtcattgtag Alignment from Pairagon GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATG-CCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG ccataccaggatttccatgccttatagatccgtatctttgtgtcttgcagGGGGGCAAGGCTGGCTATGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCCTCAAGTCAGGGCAGGATGCCCGAGCAG-CATAAACTTGCACAACAATGAAGCTGGCCACAAGgtaggtccaatagtggttgatggcatgcatcatgagacctgtcattgtag Alignment from Exonerate_protein2genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG ccataccaggatttccatgccttatagatccgtatctttgtgtcttgcagGGGGGCAAGGCTGGCTATGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCCTCAAGTCAGGGCAGGATGCCCGAGCAGCATAAACTTGCACAACAATGAAGCTGGCCACAAGgtaggtccaatagtggttgatggcatgcatcatgagacctgtcattgtag Alignment from Exonerate_coding2genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG ccataccaggatttccatgccttatagatccgtatctttgtgtcttgcagGGGGGCAAGGCTGGCTATGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCCTCAAGTCAGGGCAGGATGCCCGAGCAGCATAAACTTGCACAACAATGAAGCTGGCCACAAGgtaggtccaatagtggttgatggcatgcatcatgagacctgtcattgtag Alignment from GeneWise GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG ccataccaggatttccatgccttatagatccgtatctttgtgtcttgcagGGGGGCAAGGCTGGCTATGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCCTCAAGTCAGGGCAGGATGCCCGAGCAGCATAAACTTGCACAACAATGAAGCTGGCCACAAGgtaggtccaatagtggttgatggcatgcatcatgagacctgtcattgtag #### Xpnpep1_ID11139_16 --> 2 - 1 Original Alignment gcCACCTTCTGGACTCCTTTGCCCGGTCAGCCTTGTGGGATTCTGGTCTG-GATTACCTGCATGGAACAGGACATGGCGTTGGGTCCTTTTTGAATGTTCACGAGGGGCCCTGTGGCATC---AGTTATAAAACATTCTCCGATGAG------------CCCTTGGAAGCGGGCATGATCGTCACTGATg aaacctacagttcctcagcatctcaattgccccttcttatcttacaacaggaCATCTCCTGGACTCATTTGCCTGGTCTGCCTTGTGGGACTCTGGACTTCGACTTTCTACATGGAACAGGGCATGGAATTGGACCCTTTT-GAATGTTCATGAGGGGCCTTGTGGCATAGTTAGTTATAAAACTCTCTCAGACAAGCCTTTAGAAGTGACTTTAGAAACA---------ATTACTGATggtaacacactgtatacttttgctgttgtgggtggaagcctcctttaattc Alignment from CESAR gcCACCTTCTGGACTCCTTTGCCCGGTCAGCCTTGTGGGATTCTGGTCTG-GATTACCTGCATGGAACAGGACATGGCGTTGGGTCCTTTTTGAATGTTCACGAGGGGCCCTGTGGCATC---AGTTATAAAACATTCTCCGATGAGCCCTTGGAAGCGGGCATG---ATCGTCACTGATg aaacctacagttcctcagcatctcaattgccccttcttatcttacaacaggaCATCTCCTGGACTCATTTGCCTGGTCTGCCTTGTGGGACTCTGGACTTCGACTTTCTACATGGAACAGGGCATGGAATTGGACCCT-TTTGAATGTTCATGAGGGGCCTTGTGGCATAGTTAGTTATAAAACTCTCTCAGACAAGCCTTTAGAAGTGACTTTAGAAACAATTACTGATggtaacacactgtatacttttgctgttgtgggtggaagcctcctttaattc Alignment from Spaln_aa2Genome GCCACCTTCTGGACTCCTTTGCCCGGTCAGCCTTGTGGGATTCTGGTCTGGATTACCTGCATGGAACAGGACATGGCGTTGGGTCCTTTTTGAATGTTCACGAGGGGCCCTGTGGCATC---AGTTATAAAACATTCTCCGATGAGCCCTTGGAAGCGGGCATG---ATCGTCACTGATG aaacctacagttcctcagcatctcaattgccccttcttatcttacaacagGACATCTCCTGGACTCATTTGCCTGGTCTGCCTTGTGGGACTCTGGACTTCGACTTTCTACATGGAACAGGGCATGGAATTGGACCCTTTTGAATGTTCATGAGGGGCCTTGTGGCATAGTTAGTTATAAAACTCTCTCAGACAAGCCTTTAGAAGTGACTTTAGAAACAATTACTGATGgtaacacactgtatacttttgctgttgtgggtggaagcctcctttaattc Alignment from Spaln_nt2Genome GCCACCTTCTGGACTCCTTTGCCCGGTCAGCCTTGTGGGATTCTGGTCTG-GATTACCTGCATGGAACAGGACATGGCGTTGGGTCCTTTTTGAATGTTCACGAGGGGCCCTGTGGCATC---AGTTATAAAACATTCTCCGATGAGCCCTTGGAAGCGGGCATG---ATCGTCACTGATG aaacctacagttcctcagcatctcaattgccccttcttatcttacaacagGACATCTCCTGGACTCATTTGCCTGGTCTGCCTTGTGGGACTCTGGACTTCGACTTTCTACATGGAACAGGGCATGGAATT-GGACCCTTTTGAATGTTCATGAGGGGCCTTGTGGCATAGTTAGTTATAAAACTCTCTCAGACAAGCCTTTAGAAGTGACTTTAGAAACAATTACTGATGgtaacacactgtatacttttgctgttgtgggtggaagcctcctttaattc Alignment from Pairagon GCCACCTTCTGGACTCCTTTGCCCGGTCAGCCTTGTGGGATTCTGGTC-TGGATTACCTGCATGGAACAGGACATGGCGTTGGGTCCTTTTTGAATGTTCACGAGGGGCCCTGTGGCA---TCAGTTATAAAACATTCTCCGATGAGCCCTTGGAA aaacctacagttcctcagcatctcaattgccccttcttatcttacaacagGACATCTCCTGGACTCATTTGCCTGGTCTGCCTTGTGGGACTCTGGACTTCGACTTTCTACATGGAACAGGGCATGGAATTGGA-CCCTTTTGAATGTTCATGAGGGGCCTTGTGGCATAGTTAGTTATAAAACTCTCTCAGACAAGCCTTTAGAAgtgactttagaaacaattactgatggtaacacactgtatacttttgctgttgtgggtggaagcctcctttaattc Alignment from Exonerate_protein2genome GCCACCTTCTGGACTCCTTTGCCCGGTCAGCCTTGTGGGATTCTGGTCTG-GATTACCTGCATGGAACAGGACATGGCGTTGGGTCCTTT--TTGAATGTTCACGAGGGGCCCTGTGGCATC---AGTTATAAAACATTCTCCGATGAGCCCTTGGAAGCGGGCATG---ATCGTCACTGATG aaacctacagttcctcagcatctcaattgccccttcttatcttacaacagGACATCTCCTGGACTCATTTGCCTGGTCTGCCTTGTGGGACTCTGGACTTCGACTTTCTACATGGAACAGGGCATGGAATTGGACCCTTTTG---AATGTTCATGAGGGGCCTTGTGGCATAGTTAGTTATAAAACTCTCTCAGACAAGCCTTTAGAAGTGACTTTAGAAACAATTACTGATGgtaacacactgtatacttttgctgttgtgggtggaagcctcctttaattc Alignment from Exonerate_coding2genome GCCACCTTCTGGACTCCTTTGCCCGGTCAGCCTTGTGGGATTCTGGTCTG-GATTACCTGCATGGAACAGGACATGGCGTTGGGTCCTTT--TTGAATGTTCACGAGGGGCCCTGTGGCATC---AGTTATAAAACATTCTCCGATGAGCCCTTGGAAGCGGGCATG---ATCGTCACTGATG aaacctacagttcctcagcatctcaattgccccttcttatcttacaacagGACATCTCCTGGACTCATTTGCCTGGTCTGCCTTGTGGGACTCTGGACTTCGACTTTCTACATGGAACAGGGCATGGAATTGGACCCTTTTG---AATGTTCATGAGGGGCCTTGTGGCATAGTTAGTTATAAAACTCTCTCAGACAAGCCTTTAGAAGTGACTTTAGAAACAATTACTGATGgtaacacactgtatacttttgctgttgtgggtggaagcctcctttaattc Alignment from GeneWise GCCACCTTCTGGACTCCTTTGCCCGGTCAGCCTTGTGGGATTCTGGTCTGGATTACCTGCATGGAACAGGACATGGCGTTGGGTCCTTTTTGAATGTTCACGAGGGGCCCTGTGGCATC---AGTTATAAAACATTCTCCGATGAGCCCTTGGAAGCGGGCATG---ATCGTCACTGATG aaacctacagttcctcagcatctcaattgccccttcttatcttacaacagGACATCTCCTGGACTCATTTGCCTGGTCTGCCTTGTGGGACTCTGGACTTCGACTTTCTACATGGAACAGGGCATGGAATTGGACCCTTTTGAATGTTCATGAGGGGCCTTGTGGCATAGTTAGTTATAAAACTCTCTCAGACAAGCCTTTAGAAGTGACTTTAGAAACAATTACTGATGgtaacacactgtatacttttgctgttgtgggtggaagcctcctttaattc #### Zdhhc16_ID8345_2 --> 0 - 0 Original Alignment GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTC-ATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG aaccatggggtacacctactctgacaaccctgattctgtctctccttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTACCTCCTTCGAACTTACTCAGTACCCCAACTCTGCT-GCATTTTCTTTATAGCCACTGGAATCTCATTCTCATTGTCTCCCAATATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaattactccacagtgcaagtttcactaaagacaatgctttcttgctgt Alignment from CESAR GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTC-ATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG aaccatggggtacacctactctgacaaccctgattctgtctctccttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTACCTCCTTCGAACTTACTCAGTACCCCAACTCTGC-TGCATTTTCTTTATAGCCACTGGAATCTCATTCTCATTGTCTCCCAATATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaattactccacagtgcaagtttcactaaagacaatgctttcttgctgt Alignment from Spaln_aa2Genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG aaccatggggtacacctactctgacaaccctgattctgtctctccttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTACCTCCTTCGAACTTACTCAGTACCCCAACTCTGCTGCATTTTCTTTATAGCCACTGGAATCTCATTCTCATTGTCTCCCAATATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaattactccacagtgcaagtttcactaaagacaatgctttcttgctgt Alignment from Spaln_nt2Genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCT-CATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG aaccatggggtacacctactctgacaaccctgattctgtctctccttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTACCTCCTTCGAACTTACTCAGTACCCCAACTCTGCT-GCATTTTCTTTATAGCCACTGGAATCTCATTCTCATTGTCTCCCAATATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaattactccacagtgcaagtttcactaaagacaatgctttcttgctgt Alignment from Pairagon GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCT-CATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG aaccatggggtacacctactctgacaaccctgattctgtctctccttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTACCTCCTTCGAACTTACTCAGTACCCCAACTCTGCT-GCATTTTCTTTATAGCCACTGGAATCTCATTCTCATTGTCTCCCAATATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaattactccacagtgcaagtttcactaaagacaatgctttcttgctgt Alignment from Exonerate_protein2genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG aaccatggggtacacctactctgacaaccctgattctgtctctccttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTACCTCCTTCGAACTTACTCAGTACCCCAACTCTGCTGCATTTTCTTTATAGCCACTGGAATCTCATTCTCATTGTCTCCCAATATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaattactccacagtgcaagtttcactaaagacaatgctttcttgctgt Alignment from Exonerate_coding2genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG aaccatggggtacacctactctgacaaccctgattctgtctctccttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTACCTCCTTCGAACTTACTCAGTACCCCAACTCTGCTGCATTTTCTTTATAGCCACTGGAATCTCATTCTCATTGTCTCCCAATATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaattactccacagtgcaagtttcactaaagacaatgctttcttgctgt Alignment from GeneWise GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATC---CTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG aaccatggggtacacctactctgacaaccctgattctgtctctccttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTACCTCCTTCGAACTTACTCAGTACCCCAACTCTGCTG---CATTTTCTTTATAGCCACTGGAATCTCATTCTCATTGTCTCCCAATATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaattactccacagtgcaagtttcactaaagacaatgctttcttgctgt #### Zdhhc16_ID8350_7 --> 1 - 0 Original Alignment tTCTGTGGCCCTGGCC-CTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG aacccaaaccccggcccaggagtttctgtcacctctccctttgcccacagtTCTGTGGCCCTGGCTCCTGGGCGCCCTTACCATGTGGCATGCTT-CCTGATTAGTCGGGGCAGGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGgtatgtggccaggggggctacacagcactcatggaatgcaagaagggggg Alignment from CESAR tTCTGTGGCCCTGGCC-CTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG aacccaaaccccggcccaggagtttctgtcacctctccctttgcccacagtTCTGTGGCCCTGGCTCCTGGGCGCCCTTACCATGTGGCATGCT-TCCTGATTAGTCGGGGCAGGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGgtatgtggccaggggggctacacagcactcatggaatgcaagaagggggg Alignment from Spaln_aa2Genome TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG aacccaaaccccggcccaggagtttctgtcacctctccctttgcccacagTTCTGTGGCCCTGGCTCCTGGGCGCCCTTACCATGTGGCATGCTTCCTGATTAGTCGGGGCAGGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGgtatgtggccaggggggctacacagcactcatggaatgcaagaagggggg Alignment from Spaln_nt2Genome TTCTGTGGCCCTGGC-CCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG aacccaaaccccggcccaggagtttctgtcacctctccctttgcccacagTTCTGTGGCCCTGGCTCCTGGGCGCCCTTACCATGTGGCATGCT-TCCTGATTAGTCGGGGCAGGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGgtatgtggccaggggggctacacagcactcatggaatgcaagaagggggg Alignment from Pairagon TTCTGTGGCCCTGGC-CCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG aacccaaaccccggcccaggagtttctgtcacctctccctttgcccacagTTCTGTGGCCCTGGCTCCTGGGCGCCCTTACCATGTGGCATGCT-TCCTGATTAGTCGGGGCAGGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGgtatgtggccaggggggctacacagcactcatggaatgcaagaagggggg Alignment from Exonerate_protein2genome TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG aacccaaaccccggcccaggagtttctgtcacctctccctttgcccacagTTCTGTGGCCCTGGCTCCTGGGCGCCCTTACCATGTGGCATGCTTCCTGATTAGTCGGGGCAGGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGgtatgtggccaggggggctacacagcactcatggaatgcaagaagggggg Alignment from Exonerate_coding2genome TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG aacccaaaccccggcccaggagtttctgtcacctctccctttgcccacagTTCTGTGGCCCTGGCTCCTGGGCGCCCTTACCATGTGGCATGCTTCCTGATTAGTCGGGGCAGGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGgtatgtggccaggggggctacacagcactcatggaatgcaagaagggggg Alignment from GeneWise TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG aacccaaaccccggcccaggagtttctgtcacctctccctttgcccacagTTCTGTGGCCCTGGCTCCTGGGCGCCCTTACCATGTGGCATGCTTCCTGATTAGTCGGGGCAGGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGgtatgtggccaggggggctacacagcactcatggaatgcaagaagggggg #### Zdhhc6_ID11621_8 --> 0 - 2 Original Alignment GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGA-GTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGcg ggggtgtcaaaggggcaccacagtgcaggcttctcaattgtcacctctagGTTCACTATAAGTTTATAGAGGACTACAACGGTGCTAGCTGCCCATTGAATATAGGACGTGAGAACCTTCTTTACAAGCCCCTGTACA---G-GCCCCGAGTCCAGCTACAACAAGGTGAATTCATACTAGCAATGAGGGGGTTGaggtaagtggagggggttctttatctagaaactaaaaagatcatccattttc Alignment from CESAR GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGA-GTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGcg ggggtgtcaaaggggcaccacagtgcaggcttctcaattgtcacctctagGTTCACTATAAGTTTATAGAGGACTACAACGGTGCTAGCTGCCCATTGAATATAGGACGTGAGAACCTTCTTTACAAGCCCCTGTACA----GGCCCCGAGTCCAGCTACAACAAGGTGAATTCATACTAGCAATGAGGGGGTTGaggtaagtggagggggttctttatctagaaactaaaattggctttgcgttgt Alignment from Spaln_aa2Genome GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGA-GTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGCG ggggtgtcaaaggggcaccacagtgcaggcttctcaattgtcacctctagGTTCACTATAAGTTTATAGAGGACTACAACGGTGCTAGCTGCCCATTGAATATAGGAcGTGAGAACCTTCTTTACAAGCCCCTGTACAGG----CCCCGAGTCCAGCTACAACAAGGTGAATTCATACTAGCAATGAGGGGGTTGAGgtaagtggagggggttctttatctagaaactaaaaagatcatccattttc Alignment from Spaln_nt2Genome GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGA-GTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGCG ggggtgtcaaaggggcaccacagtgcaggcttctcaattgtcacctctagGTTCACTATAAGTTTATAGAGGACTACAACGGTGCTAGCTGCCCATTGAATATAGGACGTGAGAACCTTCTTTACAAGCCCCTGTACAG----GCCCCGAGTCCAGCTACAACAAGGTGAATTCATACTAGCAATGAGGGGGTTGAGgtaagtggagggggttctttatctagaaactaaaaagatcatccattttc Alignment from Pairagon GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGA-GTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGCG ggggtgtcaaaggggcaccacagtgcaggcttctcaattgtcacctctagGTTCACTATAAGTTTATAGAGGACTACAACGGTGCTAGCTGCCCATTGAATATAGGACGTGAGAACCTTCTTTACAAGCCCCTGTACAG----GCCCCGAGTCCAGCTACAACAAGGTGAATTCATACTAGCAATGAGGGGGTTGAGgtaagtggagggggttctttatctagaaactaaaaagatcatccattttc Alignment from Exonerate_protein2genome GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGCG ggggtgtcaaaggggcaccacagtgcaggcttctcaattgtcacctctagGTTCACTATAAGTTTATAGAGGACTACAACGGTGCTAGCTGCCCATTGAATATAGGACGTGAGAACCTTCTTTACAAGCCC---CTGTACAGGCCCCGAGTCCAGCTACAACAAGGTGAATTCATACTAGCAATGAGGGGGTTGAGgtaagtggagggggttctttatctagaaactaaaaagatcatccattttc Alignment from Exonerate_coding2genome AACAGTTGAAGCAAAAGGCAGACAAGAGAGTCAGAAGTGTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGT-GAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGCG ggggtgtcaaagGGGCACCACAGTGCAGGCTTCTCAATTGTCACCTCTAGGTTCACTATAAGTTTATAGAGGACTACAACGGTGCTAGCTGCCCATTGAATATAGGACGTGAGAACCTTCTTTACAAGCCCCTGTAC----AGGCCCCGAGTCCAGCTACAACAAGGTGAATTCATACTAGCAATGAGGGGGTTGAGgtaagtggagggggttctttatctagaaactaaaaagatcatccattttc Alignment from GeneWise GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGCG ggggtgtcaaaggggcaccacagtgcaggcttctcaattgtcacctctagGTTCACTATAAGTTTATAGAGGACTACAACGGTGCTAGCTGCCCATTGAATATAGGACGTGAGAACCTTCTTTACAAGCCC---CTGTACAGGCCCCGAGTCCAGCTACAACAAGGTGAATTCATACTAGCAATGAGGGGGTTGAGgtaagtggagggggttctttatctagaaactaaaaagatcatccattttc ####