#### 1700055N04Rik_ID226_4 --> 0 - 1 Original Alignment CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAG-CCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg cagtctgtctcctgcaaaactttgtgatttcctgcttccatcatacccagCTCACCAAACTGAGCACAGCCTTCATTTGGAAAGAACTCCTTTGGCCTGGTGCTTATCATCGCACCATGGAATTCTCATGTTAACCTG---ATCATACCCTCGGTGGGGGTCATTGCTATGggtgagtggtgcctcatgcaacaatcctgatcatccctattttaccatctg Alignment from CESAR CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAG-CCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg cagtctgtctcctgcaaaactttgtgatttcctgcttccatcatacccagCTCACCAAACTGAGCACAGCCTTCATTTGGAAAGAACTCCTTTGGCCTGGTGCTTATCATCGCACCATGGAATTCTCATGTTAACCTG---ATCATACCCTCGGTGGGGGTCATTGCTATGggtgagtggtgcctcatgcaacaatcctgatcatccctattttaccatctg Alignment from Spaln_aa2Genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAG-CCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG cagtctgtctcctgcaaaactttgtgatttcctgcttccatcatacccagCTCACCAAACTGAGCACAGCCTTCATTTGGAAAGAAcTCCTTTGGCCTGGTGCTTATCATCGCACCATGGAATTCTCATGTTAACCTG---ATCATACCCTCGGTGGGGGTCATTGCTATGGgtgagtggtgcctcatgcaacaatcctgatcatccctattttaccatctg Alignment from Spaln_nt2Genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGC-CCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG cagtctgtctcctgcaaaactttgtgatttcctgcttccatcatacccagCTCACCAAACTGAGCACAGCCTTCATTTGGAAAGAACTCCTTTGGCCTGGTGCTTATCATCGCACCATGGAATTCTCATGTTAAC---CTGATCATACCCTCGGTGGGGGTCATTGCTATGGgtgagtggtgcctcatgcaacaatcctgatcatccctattttaccatctg Alignment from Pairagon CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGC-CCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG cagtctgtctcctgcaaaactttgtgatttcctgcttccatcatacccagCTCACCAAACTGAGCACAGCCTTCATTTGGAAAGAACTCCTTTGGCCTGGTGCTTATCATCGCACCATGGAATTCTCATGTTAACC---TGATCATACCCTCGGTGGGGGTCATTGCTATGGgtgagtggtgcctcatgcaacaatcctgatcatccctattttaccatctg Alignment from Exonerate_protein2genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAG-CCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG cagtctgtctcctgcaaaactttgtgatttcctgcttccatcatacccagCTCACCAAACTGAGCACAGCCTTCATTTGGAAAGAACTCCTTTGGCCTGGTGCTTATCATCGCACCATGGAATTCTCATGTTAACCTG---ATCATACCCTCGGTGGGGGTCATTGCTATGGgtgagtggtgcctcatgcaacaatcctgatcatccctattttaccatctg Alignment from Exonerate_coding2genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAG-CCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG cagtctgtctcctgcaaaactttgtgatttcctgcttccatcatacccagCTCACCAAACTGAGCACAGCCTTCATTTGGAAAGAACTCCTTTGGCCTGGTGCTTATCATCGCACCATGGAATTCTCATGTTAACCTG---ATCATACCCTCGGTGGGGGTCATTGCTATGGgtgagtggtgcctcatgcaacaatcctgatcatccctattttaccatctg Alignment from GeneWise CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAG-CCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG cagtctgtctcctgcaaaactttgtgatttcctgcttccatcatacccagCTCACCAAACTGAGCACAGCCTTCATTTGGAAAGAACTCCTTTGGCCTGGTGCTTATCATCGCACCATGGAATTCTCATGTTAACCTG---ATCATACCCTCGGTGGGGGTCATTGCTATGGgtgagtggtgcctcatgcaacaatcctgatcatccctattttaccatctg #### 1700055N04Rik_ID227_5 --> 2 - 0 Original Alignment gaAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTG-CTGGCAGAGCTGCTACCCCAGTATCTGGACCAG attgaggggcacttaacccatcatgtgcctttttattggtttttcttcaggaAACTGTGTGGTGCTTAAAAGATCTGAAATTAGCAGGAATACAGAGAAGGTGCTTAGCAGAGCTTCCACCTCAGTATCTAGACCAAgtaagtttattttatgtggttaatttggtaaatggcaaagagagctgaat Alignment from CESAR gaAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTG-GCAGAGCTGCTACCCCAGTATCTGGACCAG attgaggggcacttaacccatcatgtgcctttttattggtttttcttcaggaAACTGTGTGGTGCTTAAAAGATCTGAAATTAGCAGGAATACAGAGAAGGTGCTTAGCAGAGCTTCCACCTCAGTATCTAGACCAAgtaagtttattttatgtggttaatttggtaaatggcaaagagagctgaat Alignment from Spaln_aa2Genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTG-CTGGCAGAGCTGCTACCCCAGTATCTGGACCAG attgaggggcacttaacccatcatgtgcctttttattggtttttcttcagGAAACTGTGTGGTGCTTAAAAGATCTGAAATTAGCAGGAATACAGAGAAGGTGcTTAGCAGAGCTTCCACCTCAGTATCTAGACCAAgtaagtttattttatgtggttaatttggtaaatggcaaagagagctgaat Alignment from Spaln_nt2Genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTG-GCAGAGCTGCTACCCCAGTATCTGGACCAG attgaggggcacttaacccatcatgtgcctttttattggtttttcttcagGAAACTGTGTGGTGCTTAAAAGATCTGAAATTAGCAGGAATACAGAGAAGGTGCTTAGCAGAGCTTCCACCTCAGTATCTAGACCAAgtaagtttattttatgtggttaatttggtaaatggcaaagagagctgaat Alignment from Pairagon GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGC-TGGCAGAGCTGCTACCCCAGTATCTGGACCAG attgaggggcacttaacccatcatgtgcctttttattggtttttcttcagGAAACTGTGTGGTGCTTAAAAGATCTGAAATTAGCAGGAATACAGAGAAGGTGCTTAGCAGAGCTTCCACCTCAGTATCTAGACCAAgtaagtttattttatgtggttaatttggtaaatggcaaagagagctgaat Alignment from Exonerate_protein2genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTG-CTGGCAGAGCTGCTACCCCAGTATCTGGACCAG attgaggggcacttaacccatcatgtgcctttttattggtttttcttcagGAAACTGTGTGGTGCTTAAAAGATCTGAAATTAGCAGGAATACAGAGAAGGTGCTTAGCAGAGCTTCCACCTCAGTATCTAGACCAAgtaagtttattttatgtggttaatttggtaaatggcaaagagagctgaat Alignment from Exonerate_coding2genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTG-CTGGCAGAGCTGCTACCCCAGTATCTGGACCAG attgaggggcacttaacccatcatgtgcctttttattggtttttcttcagGAAACTGTGTGGTGCTTAAAAGATCTGAAATTAGCAGGAATACAGAGAAGGTGCTTAGCAGAGCTTCCACCTCAGTATCTAGACCAAgtaagtttattttatgtggttaatttggtaaatggcaaagagagctgaat Alignment from GeneWise GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTG-GCAGAGCTGCTACCCCAGTATCTGGACCAG attgaggggcacttaacccatcatgtgcctttttattggtttttcttcagGAAACTGTGTGGTGCTTAAAAGATCTGAAATTAGCAGGAATACAGAGAAGGTGCTTAGCAGAGCTTCCACCTCAGTATCTAGACCAAgtaagtttattttatgtggttaatttggtaaatggcaaagagagctgaat #### 1700123I01Rik_ID1492_4 --> 2 - 1 Original Alignment atAAAAGCAAGTGGGAGAGAGTTTCCCACCTGAAGTTTAAACAT-GGGGAAAGCATCCTGACGCCCTACCCGTTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGACTTGCCTTCCg agccaacaccttgggttccttctacaaggatttgctgtgcttaatttcagacAAAAGTAAGTGGGAGAGAGTTTCCCATCTGAGGTTTAAATATCGGGGAAAGCATTTTGACACCCTACCCATTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGATTTGCCTTCGcgtgagtaactgaggtgggttgtaaaaaaaataatgaagagcactcaggac Alignment from CESAR atAAAAGCAAGTGGGAGAGAGTTTCCCACCTGAAGTTTAAACAT-GGGGAAAGCATCCTGACGCCCTACCCGTTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGACTTGCCTTCCg agccaacaccttgggttccttctacaaggatttgctgtgcttaatttcagacAAAAGTAAGTGGGAGAGAGTTTCCCATCTGAGGTTTAAATATCGGGGAAAGCATTTTGACACCCTACCCATTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGATTTGCCTTCGcgtgagtaactgaggtgggttgtaaaaaaaataatgaagagcactcaggac Alignment from Spaln_aa2Genome ATAAAAGCAAGTGGGAGAGAGTTTCCCACCTGAAGTTTAAACAT-GGGGAAAGCATCCTGACGCCCTACCCGTTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGACTTGCCTTCCG agccaacaccttgggttccttctacaaggatttgctgtgcttaatttcagACAAAAGTAAGTGGGAGAGAGTTTCCCATCTGAGGTTTAAATATcGGGGAAAGCATTTTGACACCCTACCCATTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGATTTGCCTTCGCgtgagtaactgaggtgggttgtaaaaaaaataatgaagagcactcaggac Alignment from Spaln_nt2Genome ATAAAAGCAAGTGGGAGAGAGTTTCCCACCTGAAGTTTAAACAT-GGGGAAAGCATCCTGACGCCCTACCCGTTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGACTTGCCTTCCG agccaacaccttgggttccttctacaaggatttgctgtgcttaatttcagACAAAAGTAAGTGGGAGAGAGTTTCCCATCTGAGGTTTAAATATCGGGGAAAGCATTTTGACACCCTACCCATTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGATTTGCCTTCGCgtgagtaactgaggtgggttgtaaaaaaaataatgaagagcactcaggac Alignment from Pairagon ATAAAAGCAAGTGGGAGAGAGTTTCCCACCTGAAGTTTAAACAT-GGGGAAAGCATCCTGACGCCCTACCCGTTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGACTTGCCTTCCG agccaacaccttgggttccttctacaaggatttgctgtgcttaatttcagACAAAAGTAAGTGGGAGAGAGTTTCCCATCTGAGGTTTAAATATCGGGGAAAGCATTTTGACACCCTACCCATTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGATTTGCCTTCGCgtgagtaactgaggtgggttgtaaaaaaaataatgaagagcactcaggac Alignment from Exonerate_protein2genome ATAAAAGCAAGTGGGAGAGAGTTTCCCACCTGAAGTTTAAACAT-GGGGAAAGCATCCTGACGCCCTACCCGTTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGACTTGCCTTCCG agccaacaccttgggttccttctacaaggatttgctgtgcttaatttcagACAAAAGTAAGTGGGAGAGAGTTTCCCATCTGAGGTTTAAATATCGGGGAAAGCATTTTGACACCCTACCCATTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGATTTGCCTTCGCgtgagtaactgaggtgggttgtaaaaaaaataatgaagagcactcaggac Alignment from Exonerate_coding2genome ATAAAAGCAAGTGGGAGAGAGTTTCCCACCTGAAGTTTAAACAT-GGGGAAAGCATCCTGACGCCCTACCCGTTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGACTTGCCTTCCG agccaacaccttgggttccttctacaaggatttgctgtgcttaatttcagACAAAAGTAAGTGGGAGAGAGTTTCCCATCTGAGGTTTAAATATCGGGGAAAGCATTTTGACACCCTACCCATTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGATTTGCCTTCGCgtgagtaactgaggtgggttgtaaaaaaaataatgaagagcactcaggac Alignment from GeneWise ATAAAAGCAAGTGGGAGAGAGTTTCCCACCTGAAGTTTAAA-CATGGGGAAAGCATCCTGACGCCCTACCCGTTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGACTTGCCTTCC- agccaacaccttgggttccttctacaaggatttgctgtgcttaatttcagACAAAAGTAAGTGGGAGAGAGTTTCCCATCTGAGGTTTAAATATCGGGGAAAGCATTTTGACACCCTACCCATTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGATTTGCCTTCGCgtgagtaactgaggtgggttgtaaaaaaaataatgaagagcactcaggac #### 1700123I01Rik_ID1493_5 --> 2 - 0 Original Alignment ggAAACCAGCAGATGATATT-CCTCTTGAGTTG aaaccagtattcatatcttgctggatctcaaactcttttctctttagcaggtAAACCTGCTGATGACATTCCCACTTGAGTTGgtcagttttaacacctctttttatgttttcatagcaaataaaatagtatg Alignment from CESAR ggAAACCAGCAGATGATATT-CCTCTTGAGTTG aaaccagtattcatatcttgctggatctcaaactcttttctctttagcaggtAAACCTGCTGATGACATTCCCACTTGAGTTGgtcagttttaacacctctttttatgttttcatagcaaataaaatagtatg Alignment from Spaln_aa2Genome GGAAACCAGCAGATGATATT-CCTCTTGAGTTG aaaccagtattcatatcttgctggatctcaaactcttttctctttagcagGTAAACCTGCTGATGACATTcCCACTTGAGTTGgtcagttttaacacctctttttatgttttcatagcaaataaaatagtatg Alignment from Spaln_nt2Genome GGAAACCAGCAGATGATATTCCT-CTTGAGTTG aaaccagtattcatatcttgctggatctcaaactcttttctctttagcagGTAAACCTGCTGATGACATTCCCACTTGAGTTGgtcagttttaacacctctttttatgttttcatagcaaataaaatagtatg Alignment from Pairagon GGAAACCAGCAGATGATATTCCT-CTTGAGTTG aaaccagtattcatatcttgctggatctcaaactcttttctctttagcagGTAAACCTGCTGATGACATTCCCACTTGAGTTGgtcagttttaacacctctttttatgttttcatagcaaataaaatagtatg Alignment from Exonerate_protein2genome GGAAACCAGCAGATGATATT-CCTCTTGAGTTG aaaccagtattcatatcttgctggatctcaaactcttttctctttagcagGTAAACCTGCTGATGACATTCCCACTTGAGTTGgtcagttttaacacctctttttatgttttcatagcaaataaaatagtatg Alignment from Exonerate_coding2genome aaaccagtattcatatcttgctggatctcaaactcttttctctttagcaggtaaacctgctgatgacattcccacttgagttggtcagttttaacacctctttttatgttttcatagcaaataaaatagtatg Alignment from GeneWise aaaccagtattcatatcttgctggatctcaaactcttttctctttagcaggtaaacctgctgatgacattcccacttgagttggtcagttttaacacctctttttatgttttcatagcaaataaaatagtatg #### 2010012O05Rik_ID10004_3 --> 0 - 2 Original Alignment AGTTTAAGGAAGATGGCAATAATA-ACAACACACCTTCAGTACca gagcaagagctcagatcgtaggagtatgtgcctatttctgatctttccagAGCTTGAGGAAGATGGCAATAATACACAACACACTTACAGTACcagtatgaatgcatggctaagtgggcagtggatgaaagtaaaacaggcacgg Alignment from CESAR AGTTTAAGGAAGATGGCAATAATA-ACAACACACCTTCAGTACca gagcaagagctcagatcgtaggagtatgtgcctatttctgatctttccagAGCTTGAGGAAGATGGCAATAATACACAACACACTTACAGTACcagtatgaatgcatggctaagtgggcagtggatgaaagtaaaacaggcacgg Alignment from Spaln_aa2Genome AGTTTAAGGAAGATGGCAATAATA-ACAACACACCTTCAGTACCA gagcaagagctcagatcgtaggagtatgtgcctatttctgatctttccagAGCTTGAGGAAGATGGCAATAATAcACAACACACTTACAGTACCAgtatgaatgcatggctaagtgggcagtggatgaaagtaaaacaggcacgg Alignment from Spaln_nt2Genome AGTTTAAGGAAGATGGCAATAATA-ACAACACACCTTCAGTACCA gagcaagagctcagatcgtaggagtatgtgcctatttctgatctttccagAGCTTGAGGAAGATGGCAATAATACACAACACACTTACAGTACCAgtatgaatgcatggctaagtgggcagtggatgaaagtaaaacaggcacgg Alignment from Pairagon AGTTTAAGGAAGATGGCAATAATA-ACAACACACCTTCAGTACCA gagcaagagctcagatcgtaggagtatgtgcctatttctgatctttccagAGCTTGAGGAAGATGGCAATAATACACAACACACTTACAGTACCAgtatgaatgcatggctaagtgggcagtggatgaaagtaaaacaggcacgg Alignment from Exonerate_protein2genome AGTTTAAGGAAGATGGCAATAATA-ACAACACACCTTCAGTACCAGCAAGAAGCTATTCAGAAGAA gagcaagagctcagatcgtaggagtatgtgcctatttctgatctttccagAGCTTGAGGAAGATGGCAATAATACACAACACACTTACAGTACCAGTATGAATGCATGGCTAAGTGggcagtggatgaaagtaaaacaggcacgg Alignment from Exonerate_coding2genome gagcaagagctcagatcgtaggagtatgtgcctatttctgatctttccagagcttgaggaagatggcaataatacacaacacacttacagtaccagtatgaatgcatggctaagtgggcagtggatgaaagtaaaacaggcacgg Alignment from GeneWise gagcaagagctcagatcgtaggagtatgtgcctatttctgatctttccagagcttgaggaagatggcaataatacacaacacacttacagtaccagtatgaatgcatggctaagtgggcagtggatgaaagtaaaacaggcacgg #### 9130011E15Rik_ID9675_6 --> 0 - 0 Original Alignment GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTC-GAAGCAATTTTACAG aacatgttgctctgcattgtaaaagtggttatttgtgttttgcttcaaagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGCATATTTCGAAGCCATTTTACAGgtacttggttcaactgtcattcaaaattttgcaatacccagaagcaaaag Alignment from CESAR GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATA-TTCGAAGCAATTTTACAG aacatgttgctctgcattgtaaaagtggttatttgtgttttgcttcaaagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGCATATTTCGAAGCCATTTTACAGgtacttggttcaactgtcattcaaaattttgcaatacccagaagcaaaag Alignment from Spaln_aa2Genome GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTC-GAAGCAATTTTACAG aacatgttgctctgcattgtaaaagtggttatttgtgttttgcttcaaagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGCATATTTcGAAGCCATTTTACAGgtacttggttcaactgtcattcaaaattttgcaatacccagaagcaaaag Alignment from Spaln_nt2Genome GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATT-CGAAGCAATTTTACAG aacatgttgctctgcattgtaaaagtggttatttgtgttttgcttcaaagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGCATATTTCGAAGCCATTTTACAGgtacttggttcaactgtcattcaaaattttgcaatacccagaagcaaaag Alignment from Pairagon GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATA-TTCGAAGCAATTTTACAG aacatgttgctctgcattgtaaaagtggttatttgtgttttgcttcaaagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGCATATTTCGAAGCCATTTTACAGgtacttggttcaactgtcattcaaaattttgcaatacccagaagcaaaag Alignment from Exonerate_protein2genome GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATA-TTCGAAGCAATTTTACAG aacatgttgctctgcattgtaaaagtggttatttgtgttttgcttcaaagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGCATATTTCGAAGCCATTTTACAGgtacttggttcaactgtcattcaaaattttgcaatacccagaagcaaaag Alignment from Exonerate_coding2genome GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATA-TTCGAAGCAATTTTACAG aacatgttgctctgcattgtaaaagtggttatttgtgttttgcttcaaagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGCATATTTCGAAGCCATTTTACAGgtacttggttcaactgtcattcaaaattttgcaatacccagaagcaaaag Alignment from GeneWise GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGT-ATATTCGAAGCAATTTTA----------------------------------------------------- aacatgttgctctgcattgtaaaagtggttatttgtgttttgcttcaaagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGCATATTTCGAAGCCATTTTACAGGTACTTGGTTCAACTGTCATTCAAAATTTTGCAATACCCAGAAGCAAAAG #### A630007B06Rik_ID12189_8 --> 0 - 0 Original Alignment ATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTAAAGAGGACATTTAAGGAGGGCATGGATGAG-CTACGGACATTGAGAACGAAG aagaccaaaccccatttatatccctggcctaccgtgctttactgttatagATGCATCATGCCAAAATAAAGGAGCTGGAAGATCTCAAGAGGACATTTAAGGAGGGCATGGATGAACTTGCAAACATTGAGAACGAAGgtaagaaagaggaactggtagattttataatcaataatagactactagag Alignment from CESAR ATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTA-CGGACATTGAGAACGAAG aagaccaaaccccatttatatccctggcctaccgtgctttactgttatagATGCATCATGCCAAAATAAAGGAGCTGGAAGATCTCAAGAGGACATTTAAGGAGGGCATGGATGAACTTGCAAACATTGAGAACGAAGgtaagaaagaggaactggtagattttataatcaataatagactactagag Alignment from Spaln_aa2Genome ATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTA-CGGACATTGAGAACGAAG aagaccaaaccccatttatatccctggcctaccgtgctttactgttatagATGCATCATGCCAAAATAAAGGAGCTGGAAGATCTCAAGAGGACATTTAAGGAGGGCATGGATGAACTTgCAAACATTGAGAACGAAGgtaagaaagaggaactggtagattttataatcaataatagactactagag Alignment from Spaln_nt2Genome ATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTA-CGGACATTGAGAACGAAG aagaccaaaccccatttatatccctggcctaccgtgctttactgttatagATGCATCATGCCAAAATAAAGGAGCTGGAAGATCTCAAGAGGACATTTAAGGAGGGCATGGATGAACTTGCAAACATTGAGAACGAAGgtaagaaagaggaactggtagattttataatcaataatagactactagag Alignment from Pairagon ATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTAAAGAGGACATTTAAGGAGGGCATGGATGAGC-TACGGACATTGAGAACGAAG aagaccaaaccccatttatatccctggcctaccgtgctttactgttatagATGCATCATGCCAAAATAAAGGAGCTGGAAGATCTCAAGAGGACATTTAAGGAGGGCATGGATGAACTTGCAAACATTGAGAACGAAGgtaagaaagaggaactggtagattttataatcaataatagactactagag Alignment from Exonerate_protein2genome ATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTAAAGAGGACATTTAAGGAGGGCATGGATGAG-CTACGGACATTGAGAACGAAG aagaccaaaccccatttatatccctggcctaccgtgctttactgttatagATGCATCATGCCAAAATAAAGGAGCTGGAAGATCTCAAGAGGACATTTAAGGAGGGCATGGATGAACTTGCAAACATTGAGAACGAAGgtaagaaagaggaactggtagattttataatcaataatagactactagag Alignment from Exonerate_coding2genome ATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTAAAGAGGACATTTAAGGAGGGCATGGATGAG-CTACGGACATTGAGAACGAAG aagaccaaaccccatttatatccctggcctaccgtgctttactgttatagATGCATCATGCCAAAATAAAGGAGCTGGAAGATCTCAAGAGGACATTTAAGGAGGGCATGGATGAACTTGCAAACATTGAGAACGAAGgtaagaaagaggaactggtagattttataatcaataatagactactagag Alignment from GeneWise ATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTA-CGGACATTGAGAACGAAG aagaccaaaccccatttatatccctggcctaccgtgctttactgttatagATGCATCATGCCAAAATAAAGGAGCTGGAAGATCTCAAGAGGACATTTAAGGAGGGCATGGATGAACTTGCAAACATTGAGAACGAAGgtaagaaagaggaactggtagattttataatcaataatagactactagag #### AI846148_ID2143_3 --> 2 - 1 Original Alignment agTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTG-GTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCg gtgggggtagcaagtgctaaggactatctcctgattctcggctgccgcagaaTCGGGCCAGGATGGACAGTCGGATCCCGTCTCTAACCCAGATCCAGTGAGGATGCCAGCTGAAATGATACGTGCTTTTAGATTCTCAAGGCAACCCATCTCTCCCCACAAGGCTACGGCCTAGAGGACTCCGACCT---GAGTTGCCAagtagggcatccagtattcttggcttcggtgggacatcataaagtagggca Alignment from CESAR agTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTG-GTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCg gtgggggtagcaagtgctaaggactatctcctgattctcggctgccgcagaaTCGGGCCAGGATGGACAGTCGGATCCCGTCTCTAACCCAGATCCAGTGAGGATGCCAGCTGAAATGATACGTGCTTTTAGATTCTCAAGGCAACCCATCTCTCCCCACAAGGCTACGGCCTAGAGGACTCCGACCT---GAGTTGCCAagtagggcatccagtattcttggcttcggtgggacatcataaagtagggca Alignment from Spaln_aa2Genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTG-GTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gtgggggtagcaagtgctaaggactatctcctgattctcggctgccgcagAATCGGGCCAGGATGGACAGTCGGATCCCGTCTCTAACCCAGATCCAGTGAGGATGCCAGCTGAAATGATAcGTGCTTTTAGATTCTCAAGGCAACCCATCTCTCCCCACAAGGCTACGGCCTAGAGGACTCCGACCT---GAGTTGCCAAgtagggcatccagtattcttggcttcggtgggacatcataaagtagggca Alignment from Spaln_nt2Genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTG-GTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gtgggggtagcaagtgctaaggactatctcctgattctcggctgccgcagAATCGGGCCAGGATGGACAGTCGGATCCCGTCTCTAACCCAGATCCAGTGAGGATGCCAGCTGAAATGATACGTGCTTTTAGATTCTCAAGGCAACCCATCTCTCCCCACAAGGCTACGGCCTAGAGGACTCCGACC---TGAGTTGCCAAgtagggcatccagtattcttggcttcggtgggacatcataaagtagggca Alignment from Pairagon AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTG-GTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gtgggggtagcaagtgctaaggactatctcctgattctcggctgccgcagAATCGGGCCAGGATGGACAGTCGGATCCCGTCTCTAACCCAGATCCAGTGAGGATGCCAGCTGAAATGATACGTGCTTTTAGATTCTCAAGGCAACCCATCTCTCCCCACAAGGCTACGGCCTAGAGGACTCCGACC---TGAGTTGCCAAgtagggcatccagtattcttggcttcggtgggacatcataaagtagggca Alignment from Exonerate_protein2genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTG-GTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gtgggggtagcaagtgctaaggactatctcctgattctcggctgccgcagAATCGGGCCAGGATGGACAGTCGGATCCCGTCTCTAACCCAGATCCAGTGAGGATGCCAGCTGAAATGATACGTGCTTTTAGATTCTCAAGGCAACCCATCTCTCCCCACAAGGCTACGGCCTAGAGGACTCCGACCT---GAGTTGCCAAgtagggcatccagtattcttggcttcggtgggacatcataaagtagggca Alignment from Exonerate_coding2genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTG-GTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gtgggggtagcaagtgctaaggactatctcctgattctcggctgccgcagAATCGGGCCAGGATGGACAGTCGGATCCCGTCTCTAACCCAGATCCAGTGAGGATGCCAGCTGAAATGATACGTGCTTTTAGATTCTCAAGGCAACCCATCTCTCCCCACAAGGCTACGGCCTAGAGGACTCCGACCT---GAGTTGCCAAgtagggcatccagtattcttggcttcggtgggacatcataaagtagggca Alignment from GeneWise AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATA-GTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gtgggggtagcaagtgctaaggactatctcctgattctcggctgccgcagAATCGGGCCAGGATGGACAGTCGGATCCCGTCTCTAACCCAGATCCAGTGAGGATGCCAGCTGAAATGATACGTGCTTTTAGATTCTCAAGGCAACCCATCTCTCCCCACAAGGCTACGGCCTAGAGGACTCCGACCT---GAGTTGCCAAgtagggcatccagtattcttggcttcggtgggacatcataaagtagggca #### Acsl5_ID11603_8 --> 0 - 1 Original Alignment CCTCCGAAGCCAGAG-GATCTGAGCGTCATCTGTTTCACCAGTGGAACTACAg tcacctctgtaacttgtattgttggcttactttccaatgtctgcccacagCCACCAAAGCCAGAACGATCTTGGCCTGATTTGCTTTGCTAGTGGGACTACAagtacgtgctctgaaatcccacagtgctacagaaaaaatcacactccagct Alignment from CESAR CCTCCGAAGCCAGAG-GATCTGAGCGTCATCTGTTTCACCAGTGGAACTACAg tcacctctgtaacttgtattgttggcttactttccaatgtctgcccacagCCACCAAAGCCAGAACGATCTTGGCCTGATTTGCTTTGCTAGTGGGACTACAagtacgtgctctgaaatcccacagtgctacagaaaaaatcacactccagct Alignment from Spaln_aa2Genome CCTCCGAAGCCAGAG-GATCTGAGCGTCATCTGTTTCACCAGTGGAACTACAG tcacctctgtaacttgtattgttggcttactttccaatgtctgcccacagCCACCAAAGCCAGAAcGATCTTGGCCTGATTTGCTTTGCTAGTGGGACTACAAgtacgtgctctgaaatcccacagtgctacagaaaaaatcacactccagct Alignment from Spaln_nt2Genome CCTCCGAAGCCAGAG-GATCTGAGCGTCATCTGTTTCACCAGTGGAACTACAG tcacctctgtaacttgtattgttggcttactttccaatgtctgcccacagCCACCAAAGCCAGAACGATCTTGGCCTGATTTGCTTTGCTAGTGGGACTACAAgtacgtgctctgaaatcccacagtgctacagaaaaaatcacactccagct Alignment from Pairagon CCTCCGAAGCCAGAG-GATCTGAGCGTCATCTGTTTCACCAGTGGAACTACAG tcacctctgtaacttgtattgttggcttactttccaatgtctgcccacagCCACCAAAGCCAGAACGATCTTGGCCTGATTTGCTTTGCTAGTGGGACTACAAgtacgtgctctgaaatcccacagtgctacagaaaaaatcacactccagct Alignment from Exonerate_protein2genome tcacctctgtaacttgtattgttggcttactttccaatgtctgcccacagccaccaaagccagaacgatcttggcctgatttgctttgctagtgggactacaagtacgtgctctgaaatcccacagtgctacagaaaaaatcacactccagct Alignment from Exonerate_coding2genome CCTCCGAAGCCAGAG-GATCTGAGCGTCATCTGTTTCACCAGTGGAACTACAG tcacctctgtaacttgtattgttggcttactttccaatgtctgcccacagCCACCAAAGCCAGAACGATCTTGGCCTGATTTGCTTTGCTAGTGGGACTACAAgtacgtgctctgaaatcccacagtgctacagaaaaaatcacactccagct Alignment from GeneWise tcacctctgtaacttgtattgttggcttactttccaatgtctgcccacagccaccaaagccagaacgatcttggcctgatttgctttgctagtgggactacaagtacgtgctctgaaatcccacagtgctacagaaaaaatcacactccagct #### Acsl5_ID11611_16 --> 0 - 0 Original Alignment ATCTGCATCAAAGGTAACAATGTGTTCAAA-GGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA aagtaaatgtatgatatgcaggatatattttttttcttttttgactctagATCTGCATTAAAAGCAACAATGCATTCAAACGGTTACCTAAGGGGTGCGGAAAAAACACAAAAAGTAATTGACAAGGATGGGTGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCAgtgagcagctctcaacagtcagtggagccctatatacagtaacggaggat Alignment from CESAR ATCTGCATCAAAGGTAACAATGTGTTCAAA-GGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA aagtaaatgtatgatatgcaggatatattttttttcttttttgactctagATCTGCATTAAAAGCAACAATGCATTCAAACGGTTACCTAAGGGGTGCGGAAAAAACACAAAAAGTAATTGACAAGGATGGGTGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCAgtgagcagctctcaacagtcagtggagccctatatacagtaacggaggat Alignment from Spaln_aa2Genome ATCTGCATCAAAGGTAACAATGTGTTCAAA-GGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA aagtaaatgtatgatatgcaggatatattttttttcttttttgactctagATCTGCATTAAAAGCAACAATGCATTCAAAcGGTTACCTAAGGGGTGCGGAAAAAACACAAAAAGTAATTGACAAGGATGGGTGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCAgtgagcagctctcaacagtcagtggagccctatatacagtaacggaggat Alignment from Spaln_nt2Genome ATCTGCATCAAAGGTAACAATGTGTTCAAA-GGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA aagtaaatgtatgatatgcaggatatattttttttcttttttgactctagATCTGCATTAAAAGCAACAATGCATTCAAACGGTTACCTAAGGGGTGCGGAAAAAACACAAAAAGTAATTGACAAGGATGGGTGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCAgtgagcagctctcaacagtcagtggagccctatatacagtaacggaggat Alignment from Pairagon ATCTGCATCAAAGGTAACAATGTGTTCAAA-GGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA aagtaaatgtatgatatgcaggatatattttttttcttttttgactctagATCTGCATTAAAAGCAACAATGCATTCAAACGGTTACCTAAGGGGTGCGGAAAAAACACAAAAAGTAATTGACAAGGATGGGTGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCAgtgagcagctctcaacagtcagtggagccctatatacagtaacggaggat Alignment from Exonerate_protein2genome ATCTGCATCAAAGGTAACAATGTGTTCAAA-GGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA aagtaaatgtatgatatgcaggatatattttttttcttttttgactctagATCTGCATTAAAAGCAACAATGCATTCAAACGGTTACCTAAGGGGTGCGGAAAAAACACAAAAAGTAATTGACAAGGATGGGTGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCAgtgagcagctctcaacagtcagtggagccctatatacagtaacggaggat Alignment from Exonerate_coding2genome ATCTGCATCAAAGGTAACAATGTGTTCAAA-GGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA aagtaaatgtatgatatgcaggatatattttttttcttttttgactctagATCTGCATTAAAAGCAACAATGCATTCAAACGGTTACCTAAGGGGTGCGGAAAAAACACAAAAAGTAATTGACAAGGATGGGTGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCAgtgagcagctctcaacagtcagtggagccctatatacagtaacggaggat Alignment from GeneWise ATCTGCATCAAAGGTAACAATGTGTTC-AAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA aagtaaatgtatgatatgcaggatatattttttttcttttttgactctagATCTGCATTAAAAGCAACAATGCATTCAAACGGTTACCTAAGGGGTGCGGAAAAAACACAAAAAGTAATTGACAAGGATGGGTGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCAgtgagcagctctcaacagtcagtggagccctatatacagtaacggaggat #### Actn3_ID692_18 --> 0 - 0 Original Alignment CACATTCGTGTGGGCTGG-GAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGGA caaaaccatttcgcgatggatatgtttttttctcgatctccccttaacagCAGATTCGTGTGGGCTGGCGAGCAACTACTGACCTCCATTGCCCACACCATTAATGAAGTGGATAACCAAGTACTCACTAGAGATGCTAAGGGCCTAAGCCAGGAGCAACTCAACGAATTCCGTGCCTCATTCAATCACTTTGACCGGgtaatcggcttgacatgattagccttcacccttctggccgtagAAGCGGA Alignment from CESAR CACATTCGTGTGGGCTGG-GAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGGA caaaaccatttcgcgatggatatgtttttttctcgatctccccttaacagCAGATTCGTGTGGGCTGGCGAGCAACTACTGACCTCCATTGCCCACACCATTAATGAAGTGGATAACCAAGTACTCACTAGAGATGCTAAGGGCCTAAGCCAGGAGCAACTCAACGAATTCCGTGCCTCATTCAATCACTTTGACCGGgtaatcggcttgacatgattatctttgttgttgtgttttgtagAAGCGGA Alignment from Spaln_aa2Genome CACATTCGTGTGGGCTGG-GAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGGA caaaaccatttcgcgatggatatgtttttttctcgatctccccttaacagCAGATTCGTGTGGGCTGGcGAGCAACTACTGACCTCCATTGCCCACACCATTAATGAAGTGGATAACCAAGTACTCACTAGAGATGCTAAGGGCCTAAGCCAGGAGCAACTCAACGAATTCCGTGCCTCATTCAATCACTTTGACCGGgtaatcggcttgacatgattagccttcacccttctggccgtagAAGCGGA Alignment from Spaln_nt2Genome CACATTCGTGTGGGCTGG-GAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGGA caaaaccatttcgcgatggatatgtttttttctcgatctccccttaacagCAGATTCGTGTGGGCTGGCGAGCAACTACTGACCTCCATTGCCCACACCATTAATGAAGTGGATAACCAAGTACTCACTAGAGATGCTAAGGGCCTAAGCCAGGAGCAACTCAACGAATTCCGTGCCTCATTCAATCACTTTGACCGGgtaatcggcttgacatgattagccttcacccttctggccgtagAAGCGGA Alignment from Pairagon CACATTCGTGTGGGCTGG-GAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGGA caaaaccatttcgcgatggatatgtttttttctcgatctccccttaacagCAGATTCGTGTGGGCTGGCGAGCAACTACTGACCTCCATTGCCCACACCATTAATGAAGTGGATAACCAAGTACTCACTAGAGATGCTAAGGGCCTAAGCCAGGAGCAACTCAACGAATTCCGTGCCTCATTCAATCACTTTGACCGGgtaatcggcttgacatgattagccttcacccttctggccgtagAAGCGGA Alignment from Exonerate_protein2genome CACATTCGTGTGGGCTGG-GAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGGA caaaaccatttcgcgatggatatgtttttttctcgatctccccttaacagCAGATTCGTGTGGGCTGGCGAGCAACTACTGACCTCCATTGCCCACACCATTAATGAAGTGGATAACCAAGTACTCACTAGAGATGCTAAGGGCCTAAGCCAGGAGCAACTCAACGAATTCCGTGCCTCATTCAATCACTTTGACCGGgtaatcggcttgacatgattagccttcacccttctggccgtagAAGCGGA Alignment from Exonerate_coding2genome caaaaccatttcgcgatggatatgtttttttctcgatctccccttaacagcagattcgtgtgggctggcgagcaactactgacctccattgcccacaccattaatgaagtggataaccaagtactcactagagatgctaagggcctaagccaggagcaactcaacgaattccgtgcctcattcaatcactttgaccgggtaatcggcttgacatgattagccttcacccttctggccgtagaagcgga Alignment from GeneWise CACATTCGTGTGGGCTGG-GAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGGA caaaaccatttcgcgatggatatgtttttttctcgatctccccttaacagCAGATTCGTGTGGGCTGGCGAGCAACTACTGACCTCCATTGCCCACACCATTAATGAAGTGGATAACCAAGTACTCACTAGAGATGCTAAGGGCCTAAGCCAGGAGCAACTCAACGAATTCCGTGCCTCATTCAATCACTTTGACCGGgtaatcggcttgacatgattagccttcacccttctggccgtagAAGCGGA #### Actn3_ID693_17 --> 0 - 0 Original Alignment GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAAT-TACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gggcaaaatggtgagtcttgggactctactcccagatccttcccttctagGAAGTAGGACGACTAGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGTCAGCAGGAACAGAATATCATCAATCTACAAGAGCAACATCGACTGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTTTTTGACAACAAGCACACAGTCTACAGCATGGAGgtaagtacctaatggccaccagatagttgcagtttatgtcagctgactca Alignment from CESAR GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAAT-TACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gggcaaaatggtgagtcttgggactctactcccagatccttcccttctagGAAGTAGGACGACTAGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGTCAGCAGGAACAGAATATCATCAATCTACAAGAGCAACATCGACTGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTTTTTGACAACAAGCACACAGTCTACAGCATGGAGgtaagtacctaatggccaccagatagttgcagtttatgtcagctgactca Alignment from Spaln_aa2Genome GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAAT-TACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gggcaaaatggtgagtcttgggactctactcccagatccttcccttctagGAAGTAGGACGACTAGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGTCAGCAGGAACAGAATATCATCAATcTACAAGAGCAACATCGACTGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTTTTTGACAACAAGCACACAGTCTACAGCATGGAGgtaagtacctaatggccaccagatagttgcagtttatgtcagctgactca Alignment from Spaln_nt2Genome GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAAT-TACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gggcaaaatggtgagtcttgggactctactcccagatccttcccttctagGAAGTAGGACGACTAGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGTCAGCAGGAACAGAATATCATCAATCTACAAGAGCAACATCGACTGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTTTTTGACAACAAGCACACAGTCTACAGCATGGAGgtaagtacctaatggccaccagatagttgcagtttatgtcagctgactca Alignment from Pairagon GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAAT-TACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gggcaaaatggtgagtcttgggactctactcccagatccttcccttctagGAAGTAGGACGACTAGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGTCAGCAGGAACAGAATATCATCAATCTACAAGAGCAACATCGACTGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTTTTTGACAACAAGCACACAGTCTACAGCATGGAGgtaagtacctaatggccaccagatagttgcagtttatgtcagctgactca Alignment from Exonerate_protein2genome GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAAT-TACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gggcaaaatggtgagtcttgggactctactcccagatccttcccttctagGAAGTAGGACGACTAGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGTCAGCAGGAACAGAATATCATCAATCTACAAGAGCAACATCGACTGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTTTTTGACAACAAGCACACAGTCTACAGCATGGAGgtaagtacctaatggccaccagatagttgcagtttatgtcagctgactca Alignment from Exonerate_coding2genome gggcaaaatggtgagtcttgggactctactcccagatccttcccttctaggaagtaggacgactagcagcagggctagctggctctctggaggagcagatggcaggtctgcgtcagcaggaacagaatatcatcaatctacaagagcaacatcgactggctagagggtgaccaccagttgctgcaggagagcctagtttttgacaacaagcacacagtctacagcatggaggtaagtacctaatggccaccagatagttgcagtttatgtcagctgactca Alignment from GeneWise GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATC-AATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gggcaaaatggtgagtcttgggactctactcccagatccttcccttctagGAAGTAGGACGACTAGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGTCAGCAGGAACAGAATATCATCAATCTACAAGAGCAACATCGACTGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTTTTTGACAACAAGCACACAGTCTACAGCATGGAGgtaagtacctaatggccaccagatagttgcagtttatgtcagctgactca #### Actn3_ID694_16 --> 0 - 0 Original Alignment GTCAGA---AAGCTG-GTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG tgcagcccaaggaacaccttgctgtagaaactttttttttttctttgtagGTTAGAAAAAAGCTTCGCCCCTGCTCATGAGCAGACATTCCAAGAGAAGCTC---TGGCAGCAAGTTAATGAGAGGTCACAGTGGCAGTTCACAGCTCCGGCTAATGCTATAGGCCCTTGGATCCAGGCAAAGGTCAAGgtatccattgggagactgtgctcatggagatcagtccagggcaaaatggt Alignment from CESAR GTCAGA---AAGCTG-GTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG tgcagcccaaggaacaccttgctgtagaaactttttttttttctttgtagGTTAGAAAAAAGCTTCGCCCCTGCTCATGAGCAGACATTCCAAGAGAAGCTC---TGGCAGCAAGTTAATGAGAGGTCACAGTGGCAGTTCACAGCTCCGGCTAATGCTATAGGCCCTTGGATCCAGGCAAAGGTCAAGgtatccattgggagactgtgctcatggagatcagtccagggcaaaatggt Alignment from Spaln_aa2Genome GAAAG---CTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG tgcagcccaaggaacaccttgctgtagaaactttttttttttctttgtaggttagAAAAAAGCTTCGCCCCTGCTCATGAGCAGACATTCCAAGAGAAGCTC---TGGCAGCAAGTTAATGAGAGGTCACAGTGGCAGTTCACAGCTCCGGCTAATGCTATAGGCCCTTGGATCCAGGCAAAGGTCAAGgtatccattgggagactgtgctcatggagatcagtccagggcaaaatggt Alignment from Spaln_nt2Genome GTCAGAAA---GCTGGTACCCAGC-CGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG tgcagcccaaggaacaccttgctgtagaaactttttttttttctttgtagGTTAGAAAAAAGCTTCGCCCCTGCTCATGAGCAGACATTCCAAGAGAAGCT---CTGGCAGCAAGTTAATGAGAGGTCACAGTGGCAGTTCACAGCTCCGGCTAATGCTATAGGCCCTTGGATCCAGGCAAAGGTCAAGgtatccattgggagactgtgctcatggagatcagtccagggcaaaatggt Alignment from Pairagon GTCAGAAA--------------GCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG tgcagcccaaggaacaccttgctgtagaaactttttttttttctttgtagGTTAGAAAAAAGCTTCGCCCCTGCT----------CATGAGCAGACATTCCAAGAGAAGCT---CTGGCAGCAAGTTAATGAGAGGTCACAGTGGCAGTTCACAGCTCCGGCTAATGCTATAGGCCCTTGGATCCAGGCAAAGGTCAAGgtatccattgggagactgtgctcatggagatcagtccagggcaaaatggt Alignment from Exonerate_protein2genome GTCAGAAAG----CTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG tgcagcccaaggaacaccttgctgtagaaactttttttttttctttgtagGTTAGAAAAAAGCTTCGCCCCTGCTCATGAGCAGACATTCCAAGAGAAGCTC---TGGCAGCAAGTTAATGAGAGGTCACAGTGGCAGTTCACAGCTCCGGCTAATGCTATAGGCCCTTGGATCCAGGCAAAGGTCAAGgtatccattgggagactgtgctcatggagatcagtccagggcaaaatggt Alignment from Exonerate_coding2genome tgcagcccaaggaacaccttgctgtagaaactttttttttttctttgtaggttagaaaaaagcttcgcccctgctcatgagcagacattccaagagaagctctggcagcaagttaatgagaggtcacagtggcagttcacagctccggctaatgctataggcccttggatccaggcaaaggtcaaggtatccattgggagactgtgctcatggagatcagtccagggcaaaatggt Alignment from GeneWise --AGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG tgcagcccaaggaacaccttgctgtagaaactttttttttttctttgtaggttagAAAAAAGCTTCGCCCCTGCTCATGAGCAGACATTCCAAGAGAAGCTC---TGGCAGCAAGTTAATGAGAGGTCACAGTGGCAGTTCACAGCTCCGGCTAATGCTATAGGCCCTTGGATCCAGGCAAAGGTCAAGgtatccattgggagactgtgctcatggagatcagtccagggcaaaatggt #### Actn3_ID695_15 --> 0 - 0 Original Alignment AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACG-TTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacctacaggcaaatatggataatgcatcacctttcctttgtctccagAGCCTACTAACAGCACATGAACAATTCAAAGCAACTCTTACCTGAAGCTGATCGAGAGCCAGGGGCTGTCCCAGGCATCCAAGGAAAGATTTCAAAGATCTGCCAAACATATGGGTCACGCCCGAAATTTGGAAACCCCTACATTACCCTCAGTATGAGGGACATCAATAATAAGTGGGATACTgtgagctacctggctttatgctaagtgagagttctattgtggcaatacta Alignment from CESAR AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACG-TTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacctacaggcaaatatggataatgcatcacctttcctttgtctccagAGCCTACTAACAGCACATGAACAATTCAAAGCAACTCTTACCTGAAGCTGATCGAGAGCCAGGGGCTGTCCCAGGCATCCAAGGAAAGATTTCAAAGATCTGCCAAACATATGGGTCACGCCCGAAATTTGGAAACCCCTACATTACCCTCAGTATGAGGGACATCAATAATAAGTGGGATACTgtgagctacctggctttatgctaagtgagagttctattgtggcaatacta Alignment from Spaln_aa2Genome AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACG-TTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacctacaggcaaatatggataatgcatcacctttcctttgtctccagAGCCTACTAACAGCACATGAACAATTCAAAGCAACTcTTACCTGAAGCTGATCGAGAGCCAGGGGCTGTCCCAGGCATCCAAGGAAAGATTTCAAAGATCTGCCAAACATATGGGTCACGCCCGAAATTTGGAAACCCCTACATTACCCTCAGTATGAGGGACATCAATAATAAGTGGGATACTgtgagctacctggctttatgctaagtgagagttctattgtggcaatacta Alignment from Spaln_nt2Genome AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACG-TTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacctacaggcaaatatggataatgcatcacctttcctttgtctccagAGCCTACTAACAGCACATGAACAATTCAAAGCAACTCTTACCTGAAGCTGATCGAGAGCCAGGGGCTGTCCCAGGCATCCAAGGAAAGATTTCAAAGATCTGCCAAACATATGGGTCACGCCCGAAATTTGGAAACCCCTACATTACCCTCAGTATGAGGGACATCAATAATAAGTGGGATACTgtgagctacctggctttatgctaagtgagagttctattgtggcaatacta Alignment from Pairagon AGCCTGCTAACAGCACACGAACAGTTCAAGGCAAC-GTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacctacaggcaaatatggataatgcatcacctttcctttgtctccagAGCCTACTAACAGCACATGAACAATTCAAAGCAACTCTTACCTGAAGCTGATCGAGAGCCAGGGGCTGTCCCAGGCATCCAAGGAAAGATTTCAAAGATCTGCCAAACATATGGGTCACGCCCGAAATTTGGAAACCCCTACATTACCCTCAGTATGAGGGACATCAATAATAAGTGGGATACTgtgagctacctggctttatgctaagtgagagttctattgtggcaatacta Alignment from Exonerate_protein2genome AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACG-TTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacctacaggcaaatatggataatgcatcacctttcctttgtctccagAGCCTACTAACAGCACATGAACAATTCAAAGCAACTCTTACCTGAAGCTGATCGAGAGCCAGGGGCTGTCCCAGGCATCCAAGGAAAGATTTCAAAGATCTGCCAAACATATGGGTCACGCCCGAAATTTGGAAACCCCTACATTACCCTCAGTATGAGGGACATCAATAATAAGTGGGATACTgtgagctacctggctttatgctaagtgagagttctattgtggcaatacta Alignment from Exonerate_coding2genome AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACG-TTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACAGTCAGAAAGCTG catacctacaggcaaatatggataatgcatcacctttcctttgtctccagAGCCTACTAACAGCACATGAACAATTCAAAGCAACTCTTACCTGAAGCTGATCGAGAGCCAGGGGCTGTCCCAGGCATCCAAGGAAAGATTTCAAAGATCTGCCAAACATATGGGTCACGCCCGAAATTTGGAAACCCCTACATTACCCTCAGTATGAGGGACATCAATAATAAGTGGGATACTGTGAGCTACCTGgctttatgctaagtgagagttctattgtggcaatacta Alignment from GeneWise AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACG-TTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacctacaggcaaatatggataatgcatcacctttcctttgtctccagAGCCTACTAACAGCACATGAACAATTCAAAGCAACTCTTACCTGAAGCTGATCGAGAGCCAGGGGCTGTCCCAGGCATCCAAGGAAAGATTTCAAAGATCTGCCAAACATATGGGTCACGCCCGAAATTTGGAAACCCCTACATTACCCTCAGTATGAGGGACATCAATAATAAGTGGGATACTgtgagctacctggctttatgctaagtgagagttctattgtggcaatacta #### Actn3_ID702_8 --> 2 - 0 Original Alignment atATCGTGAACACCCCCAAACCAGATGAGAAAGCCATCATGACCTATGTTTCCTGCTTCTACCATGCG-TTTGCTGGGGCTGAGCAG tccatcagtgcccatggaatcctccatcatggttttcctttcccttctagatATTGGCAACACACCCAGACCAGATGAGAAAGCCATCATAACTTACCTTTCCTGTTTTTACGATGCACTTTGCTGGGGCTGAGCAGgtgagagagctgttgtaaacatgacatcatacagtatgtcctggcagttg Alignment from CESAR atATCGTGAACACCCCCAAACCAGATGAGAAAGCCATCATGACCTATGTTTCCTGCTTCTACCATGCG-TTTGCTGGGGCTGAGCAG tccatcagtgcccatggaatcctccatcatggttttcctttcccttctagatATTGGCAACACACCCAGACCAGATGAGAAAGCCATCATAACTTACCTTTCCTGTTTTTACGATGCACTTTGCTGGGGCTGAGCAGgtgagagagctgttgtaaacatgacatcatacagtatgtcctggcagttg Alignment from Spaln_aa2Genome ATATCGTGAACACCCCCAAACCAGATGAGAAAGCCATCATGACCTATGTTTCCTGCTTCTACCATGCG-TTTGCTGGGGCTGAGCAG tccatcagtgcccatggaatcctccatcatggttttcctttcccttctagATATTGGCAACACACCCAGACCAGATGAGAAAGCCATCATAACTTACCTTTCCTGTTTTTACGATGCAcTTTGCTGGGGCTGAGCAGgtgagagagctgttgtaaacatgacatcatacagtatgtcctggcagttg Alignment from Spaln_nt2Genome ATATCGTGAACACCCCCAAACCAGATGAGAAAGCCATCATGACCTATGTTTCCTGCTTCTACCATGCG-TTTGCTGGGGCTGAGCAG tccatcagtgcccatggaatcctccatcatggttttcctttcccttctagATATTGGCAACACACCCAGACCAGATGAGAAAGCCATCATAACTTACCTTTCCTGTTTTTACGATGCACTTTGCTGGGGCTGAGCAGgtgagagagctgttgtaaacatgacatcatacagtatgtcctggcagttg Alignment from Pairagon ATATCGTGAACACCCCCAAACCAGATGAGAAAGCCATCATGACCTATGTTTCCTGCTTCTACCATGCG-TTTGCTGGGGCTGAGCAG tccatcagtgcccatggaatcctccatcatggttttcctttcccttctagATATTGGCAACACACCCAGACCAGATGAGAAAGCCATCATAACTTACCTTTCCTGTTTTTACGATGCACTTTGCTGGGGCTGAGCAGgtgagagagctgttgtaaacatgacatcatacagtatgtcctggcagttg Alignment from Exonerate_protein2genome ATATCGTGAACACCCCCAAACCAGATGAGAAAGCCATCATGACCTATGTTTCCTGCTTCTACCATGCG-TTTGCTGGGGCTGAGCAG tccatcagtgcccatggaatcctccatcatggttttcctttcccttctagATATTGGCAACACACCCAGACCAGATGAGAAAGCCATCATAACTTACCTTTCCTGTTTTTACGATGCACTTTGCTGGGGCTGAGCAGgtgagagagctgttgtaaacatgacatcatacagtatgtcctggcagttg Alignment from Exonerate_coding2genome ATATCGTGAACACCCCCAAACCAGATGAGAAAGCCATCATGACCTATGTTTCCTGCTTCTACCATGCG-TTTGCTGGGGCTGAGCAG tccatcagtgcccatggaatcctccatcatggttttcctttcccttctagATATTGGCAACACACCCAGACCAGATGAGAAAGCCATCATAACTTACCTTTCCTGTTTTTACGATGCACTTTGCTGGGGCTGAGCAGgtgagagagctgttgtaaacatgacatcatacagtatgtcctggcagttg Alignment from GeneWise ATATCGTGAACACCCCCAAACCAGATGAGAAAGCCATCATGACCTATGTTTCCTGCTTCTACCAT-GCGTTTGCTGGGGCTGAGCAG tccatcagtgcccatggaatcctccatcatggttttcctttcccttctagATATTGGCAACACACCCAGACCAGATGAGAAAGCCATCATAACTTACCTTTCCTGTTTTTACGATGCACTTTGCTGGGGCTGAGCAGgtgagagagctgttgtaaacatgacatcatacagtatgtcctggcagttg #### Actn3_ID706_4 --> 2 - 1 Original Alignment aaATTGTTGACGGGAACCTGAAGATGACC-CTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAg acataacgcgggggaaaaaatactctcatgaatccatccattttctgtagaaATAGTTGATGGCAACCTGAAGATGACCCCTTGGCATGATTGGGACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAggtaggttgatgccagatgccgagccaagccatgtcaactgtttcatttgt Alignment from CESAR aaATTGTTGACGGGAACCTGAAGATGACC-CTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAg acataacgcgggggaaaaaatactctcatgaatccatccattttctgtagaaATAGTTGATGGCAACCTGAAGATGACCCCTTGGCATGATTGGGACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAggtaggttgatgccagatgccgagccaagccatgtcagacactcatgtttt Alignment from Spaln_aa2Genome AAATTGTTGACGGGAACCTGAAGATGACC-CTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG acataacgcgggggaaaaaatactctcatgaatccatccattttctgtagAAATAGTTGATGGCAACCTGAAGATGACCcCTTGGCATGATTGGGACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgtaggttgatgccagatgccgagccaagccatgtcaactgtttcatttgt Alignment from Spaln_nt2Genome AAATTGTTGACGGGAACCTGAAGATGA-CCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG acataacgcgggggaaaaaatactctcatgaatccatccattttctgtagAAATAGTTGATGGCAACCTGAAGATGACCCCTTGGCATGATTGGGACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgtaggttgatgccagatgccgagccaagccatgtcaactgtttcatttgt Alignment from Pairagon AAATTGTTGACGGGAACCTGAAGATGA-CCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG acataacgcgggggaaaaaatactctcatgaatccatccattttctgtagAAATAGTTGATGGCAACCTGAAGATGACCCCTTGGCATGATTGGGACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgtaggttgatgccagatgccgagccaagccatgtcaactgtttcatttgt Alignment from Exonerate_protein2genome AAATTGTTGACGGGAACCTGAAGATGACC-CTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG acataacgcgggggaaaaaatactctcatgaatccatccattttctgtagAAATAGTTGATGGCAACCTGAAGATGACCCCTTGGCATGATTGGGACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgtaggttgatgccagatgccgagccaagccatgtcaactgtttcatttgt Alignment from Exonerate_coding2genome AAATTGTTGACGGGAACCTGAAGATGACC-CTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG acataacgcgggggaaaaaatactctcatgaatccatccattttctgtagAAATAGTTGATGGCAACCTGAAGATGACCCCTTGGCATGATTGGGACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgtaggttgatgccagatgccgagccaagccatgtcaactgtttcatttgt Alignment from GeneWise AAATTGTTGACGGGAACCTGAAGATGACC-CTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG acataacgcgggggaaaaaatactctcatgaatccatccattttctgtagAAATAGTTGATGGCAACCTGAAGATGACCCCTTGGCATGATTGGGACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgtaggttgatgccagatgccgagccaagccatgtcaactgtttcatttgt #### Actn3_ID707_3 --> 2 - 1 Original Alignment gaGAGAGGCTGCCTAGGCCC-GACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAg tggtcttcaactcatgacctttagcatgatttgggccttctctattttaggtGCTAGACTGCCCAGGCCGCGATAAGGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACCCTAGACTTCATAGCTACTAAAGGAGTGAAGCTAGTCTCAATTAGTGCTGAAggtacgtgagggtagttaaagaatactagtagctagatgttacttctacta Alignment from CESAR gaGAGAGGCTGCCTAGGCCC-GACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAg tggtcttcaactcatgacctttagcatgatttgggccttctctattttaggtGCTAGACTGCCCAGGCCGCGATAAGGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACCCTAGACTTCATAGCTACTAAAGGAGTGAAGCTAGTCTCAATTAGTGCTGAAggtacgtgagggtagttaaagaatactagtagctagatgttacttctacta Alignment from Spaln_aa2Genome GAGAGAGGCTGCCTAGGCCC-GACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG tggtcttcaactcatgacctttagcatgatttgggccttctctattttagGTGCTAGACTGCCCAGGCCGcGATAAGGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACCCTAGACTTCATAGCTACTAAAGGAGTGAAGCTAGTCTCAATTAGTGCTGAAGgtacgtgagggtagttaaagaatactagtagctagatgttacttctacta Alignment from Spaln_nt2Genome GAGAGAGGCTGCCTAGGCC-CGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG tggtcttcaactcatgacctttagcatgatttgggccttctctattttagGTGCTAGACTGCCCAGGCCGCGATAAGGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACCCTAGACTTCATAGCTACTAAAGGAGTGAAGCTAGTCTCAATTAGTGCTGAAGgtacgtgagggtagttaaagaatactagtagctagatgttacttctacta Alignment from Pairagon GAGAGAGGCTGCCTAGGCC-CGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG tggtcttcaactcatgacctttagcatgatttgggccttctctattttagGTGCTAGACTGCCCAGGCCGCGATAAGGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACCCTAGACTTCATAGCTACTAAAGGAGTGAAGCTAGTCTCAATTAGTGCTGAAGgtacgtgagggtagttaaagaatactagtagctagatgttacttctacta Alignment from Exonerate_protein2genome GAGAGAGGCTGCCTAGGCCC-GACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG tggtcttcaactcatgacctttagcatgatttgggccttctctattttagGTGCTAGACTGCCCAGGCCGCGATAAGGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACCCTAGACTTCATAGCTACTAAAGGAGTGAAGCTAGTCTCAATTAGTGCTGAAGgtacgtgagggtagttaaagaatactagtagctagatgttacttctacta Alignment from Exonerate_coding2genome GAGAGAGGCTGCCTAGGCCC-GACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG tggtcttcaactcatgacctttagcatgatttgggccttctctattttagGTGCTAGACTGCCCAGGCCGCGATAAGGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACCCTAGACTTCATAGCTACTAAAGGAGTGAAGCTAGTCTCAATTAGTGCTGAAGgtacgtgagggtagttaaagaatactagtagctagatgttacttctacta Alignment from GeneWise --CTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG tggtcttcaactcatgacctttagcatgatttgggccttctctattttaggtgctagACTGCCCAGGCCGCGATAAGGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACCCTAGACTTCATAGCTACTAAAGGAGTGAAGCTAGTCTCAATTAGTGCTGAAGgtacgtgagggtagttaaagaatactagtagctagatgttacttctacta #### Actr1a_ID9877_3 --> 1 - 0 Original Alignment tGTGGGCAGACCCAAACAT-GTTCGTGTCATGGCAGGAGCCCTGGAAGGTGACATCTTCATTGGCCCCAAAGCGGAG tgatgttctcctacacgacatgaagattccatgtgtgttctctcttgtagtGTAGGAAGGCCCAAACATCGTTCATGCAATGGCAGGGGCCCTGGAAGGTGACCTCTTCATTGGCTCCAAAGCAGAGgtaaagtttgtcctacaagaaaaagttggtataaggagctccccccacat Alignment from CESAR tGTGGGCAGACCCAAACAT-GTTCGTGTCATGGCAGGAGCCCTGGAAGGTGACATCTTCATTGGCCCCAAAGCGGAG tgatgttctcctacacgacatgaagattccatgtgtgttctctcttgtagtGTAGGAAGGCCCAAACATCGTTCATGCAATGGCAGGGGCCCTGGAAGGTGACCTCTTCATTGGCTCCAAAGCAGAGgtaaagtttgtcctacaagaaaaagttggtataaggagctccccccacat Alignment from Spaln_aa2Genome TGTGGGCAGACCCAAACAT-GTTCGTGTCATGGCAGGAGCCCTGGAAGGTGACATCTTCATTGGCCCCAAAGCGGAG tgatgttctcctacacgacatgaagattccatgtgtgttctctcttgtagTGTAGGAAGGCCCAAACATcGTTCATGCAATGGCAGGGGCCCTGGAAGGTGACCTCTTCATTGGCTCCAAAGCAGAGgtaaagtttgtcctacaagaaaaagttggtataaggagctccccccacat Alignment from Spaln_nt2Genome TGTGGGCAGACCCAAACAT-GTTCGTGTCATGGCAGGAGCCCTGGAAGGTGACATCTTCATTGGCCCCAAAGCGGAG tgatgttctcctacacgacatgaagattccatgtgtgttctctcttgtagTGTAGGAAGGCCCAAACATCGTTCATGCAATGGCAGGGGCCCTGGAAGGTGACCTCTTCATTGGCTCCAAAGCAGAGgtaaagtttgtcctacaagaaaaagttggtataaggagctccccccacat Alignment from Pairagon TGTGGGCAGACCCAAACAT-GTTCGTGTCATGGCAGGAGCCCTGGAAGGTGACATCTTCATTGGCCCCAAAGCGGAG tgatgttctcctacacgacatgaagattccatgtgtgttctctcttgtagTGTAGGAAGGCCCAAACATCGTTCATGCAATGGCAGGGGCCCTGGAAGGTGACCTCTTCATTGGCTCCAAAGCAGAGgtaaagtttgtcctacaagaaaaagttggtataaggagctccccccacat Alignment from Exonerate_protein2genome TGTGGGCAGACCCAAACAT-GTTCGTGTCATGGCAGGAGCCCTGGAAGGTGACATCTTCATTGGCCCCAAAGCGGAG tgatgttctcctacacgacatgaagattccatgtgtgttctctcttgtagTGTAGGAAGGCCCAAACATCGTTCATGCAATGGCAGGGGCCCTGGAAGGTGACCTCTTCATTGGCTCCAAAGCAGAGgtaaagtttgtcctacaagaaaaagttggtataaggagctccccccacat Alignment from Exonerate_coding2genome TGTGGGCAGACCCAAACAT-GTTCGTGTCATGGCAGGAGCCCTGGAAGGTGACATCTTCATTGGCCCCAAAGCGGAG tgatgttctcctacacgacatgaagattccatgtgtgttctctcttgtagTGTAGGAAGGCCCAAACATCGTTCATGCAATGGCAGGGGCCCTGGAAGGTGACCTCTTCATTGGCTCCAAAGCAGAGgtaaagtttgtcctacaagaaaaagttggtataaggagctccccccacat Alignment from GeneWise TGTGGGCAGACCCAAACAT-GTTCGTGTCATGGCAGGAGCCCTGGAAGGTGACATCTTCATTGGCCCCAAAGCGGAG tgatgttctcctacacgacatgaagattccatgtgtgttctctcttgtagTGTAGGAAGGCCCAAACATCGTTCATGCAATGGCAGGGGCCCTGGAAGGTGACCTCTTCATTGGCTCCAAAGCAGAGgtaaagtttgtcctacaagaaaaagttggtataaggagctccccccacat #### Acy3_ID250_4 --> 2 - 1 Original Alignment gtCTGGAGATGGGCCCACAGCCTCAGGGCGTGCTGCGG----------GCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACCAAg ctggtagaagcaattttcaaggctagccctctctacgttggcctgttcaggcCTCGAGATGGGCCCACAGCCCCAAGGGGTTCTGTGGCCTGATCTACTCTGATCTATTCTCACAGTTAAGAGCTTTAGTGGCATCAATTCTTGACTTCATTGAGCTCTTGAATCAAggtgagccattcctagtattttgtcaggcaggtcatgttgatgggagtgtt Alignment from CESAR gtCTGGAGATGGGCCCACAGCCTCAGGGCGTGCTGCGG------------GCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACCAAg ctggtagaagcaattttcaaggctagccctctctacgttggcctgttcaggcCTCGAGATGGGCCCACAGCCCCAAGGGGTTCTG--TGGCCTGATCTACTCTGATCTATTCTCACAGTTAAGAGCTTTAGTGGCATCAATTCTTGACTTCATTGAGCTCTTGAATCAAggtgagccattcctagtattttgtcaggcaggtcatgttgatgggagtgtt Alignment from Spaln_aa2Genome GTCTGGAGATGGGCCCACAGCCTCAGGGCGTGCTGCGG----------GCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACCAAG ctggtagaagcaattttcaaggctagccctctctacgttggcctgttcagGCCTCGAGATGGGCCCACAGCCCCAAGGGGTTCTGTGGCCTGATCTAcTCTGATCTATTCTCACAGTTAAGAGCTTTAGTGGCATCAATTCTTGACTTCATTGAGCTCTTGAATCAAGgtgagccattcctagtattttgtcaggcaggtcatgttgatgggagtgtt Alignment from Spaln_nt2Genome GTCTGGAGATGGGCCCACAGCCTCAGGGCGTGCTGCGGGCCGACCTG----------TTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACCAAG ctggtagaagcaattttcaaggctagccctctctacgttggcctgttcagGCCTCGAGATGGGCCCACAGCCCCAAGGGGTTCTGTGGCCTGATCTACTCTGATCTATTCTCACAGTTAAGAGCTTTAGTGGCATCAATTCTTGACTTCATTGAGCTCTTGAATCAAGgtgagccattcctagtattttgtcaggcaggtcatgttgatgggagtgtt Alignment from Pairagon GTCTGGAGATGGGCCCACAGCCTCAGGGCGTGCTGCGGG----------CCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACCAAG ctggtagaagcaattttcaaggctagccctctctacgttggcctgttcagGCCTCGAGATGGGCCCACAGCCCCAAGGGGTTCTGTGGCCTGATCTACTCTGATCTATTCTCACAGTTAAGAGCTTTAGTGGCATCAATTCTTGACTTCATTGAGCTCTTGAATCAAGgtgagccattcctagtattttgtcaggcaggtcatgttgatgggagtgtt Alignment from Exonerate_protein2genome GTCTGGAGATGGGC------CCACAG----CCTCAGGGCGTGCTGCGGGCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACCAAG ctggtagaagcaattttcaaggctagccctctctacgttggcctgttcagGCCTCGAGATGGGCCCACAGCCCCAAGGGGTTCTGTGGCCTGATCTACTCTGATCTATTCTCACAGTTAAGAGCTTTAGTGGCATCAATTCTTGACTTCATTGAGCTCTTGAATCAAGgtgagccattcctagtattttgtcaggcaggtcatgttgatgggagtgtt Alignment from Exonerate_coding2genome GTCTGGAGATGGGC------CCACAG----CCTCAGGGCGTGCTGCGGGCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACCAAG ctggtagaagcaattttcaaggctagccctctctacgttggcctgttcagGCCTCGAGATGGGCCCACAGCCCCAAGGGGTTCTGTGGCCTGATCTACTCTGATCTATTCTCACAGTTAAGAGCTTTAGTGGCATCAATTCTTGACTTCATTGAGCTCTTGAATCAAGgtgagccattcctagtattttgtcaggcaggtcatgttgatgggagtgtt Alignment from GeneWise GTCTGGAGATGGGCCCACAGCCTCAGGGCGTGCTG-CGG---------GCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACCAA- ctggtagaagcaattttcaaggctagccctctctacgttggcctgttcagGCCTCGAGATGGGCCCACAGCCCCAAGGGGTTCTGTGGCCTGATCTACTCTGATCTATTCTCACAGTTAAGAGCTTTAGTGGCATCAATTCTTGACTTCATTGAGCTCTTGAATCAAGgtgagccattcctagtattttgtcaggcaggtcatgttgatgggagtgtt #### Acy3_ID251_5 --> 2 - 0 Original Alignment gcATG------GACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGAC-TTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagtgttatctggaacaatagtgacaagtgtgtcccctacccttctgcaggtATGGACTCAGACTCTGCAGCATTTGAGATGGATATTTACTGGAACTTGGGAAGTGTAGACCTTCTCCTGCACTGCTGATGGTGATCTAGCCAGCATGGTGCACCCACAAATTCAAgtgtgcatactactggtaatcaggtgtgtcccaagcagtaatgtcacaac Alignment from CESAR gcATGGACTTA------CCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGAC-TTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagtgttatctggaacaatagtgacaagtgtgtcccctacccttctgcaggtATGGACTCAGACTCTGCAGCATTTGAGATGGATATTTACTGGAACTTGGGAAGTGTAGACCTTCTCCTGCACTGCTGATGGTGATCTAGCCAGCATGGTGCACCCACAAATTCAAgtgtgcatactactggtaatcaggtgtgtcccaagcagtaatgtcacaac Alignment from Spaln_aa2Genome GCATG------GACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGAC-TTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagtgttatctggaacaatagtgacaagtgtgtcccctacccttctgcagGTATGGACTCAGACTCTGCAGCATTTGAGATGGATATTTACTGGAACTTGGGAAGTGTAGACcTTCTCCTGCACTGCTGATGGTGATCTAGCCAGCATGGTGCACCCACAAATTCAAgtgtgcatactactggtaatcaggtgtgtcccaagcagtaatgtcacaac Alignment from Spaln_nt2Genome GCATGGACTTACCC------GCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGAC-TTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagtgttatctggaacaatagtgacaagtgtgtcccctacccttctgcagGTATGGACTCAGACTCTGCAGCATTTGAGATGGATATTTACTGGAACTTGGGAAGTGTAGACCTTCTCCTGCACTGCTGATGGTGATCTAGCCAGCATGGTGCACCCACAAATTCAAgtgtgcatactactggtaatcaggtgtgtcccaagcagtaatgtcacaac Alignment from Pairagon GCATGGACTTA------CCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGA-CTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagtgttatctggaacaatagtgacaagtgtgtcccctacccttctgcagGTATGGACTCAGACTCTGCAGCATTTGAGATGGATATTTACTGGAACTTGGGAAGTGTAGACCTTCTCCTGCACTGCTGATGGTGATCTAGCCAGCATGGTGCACCCACAAATTCAAgtgtgcatactactggtaatcaggtgtgtcccaagcagtaatgtcacaac Alignment from Exonerate_protein2genome GCATG------GACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGAC-TTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagtgttatctggaacaatagtgacaagtgtgtcccctacccttctgcagGTATGGACTCAGACTCTGCAGCATTTGAGATGGATATTTACTGGAACTTGGGAAGTGTAGACCTTCTCCTGCACTGCTGATGGTGATCTAGCCAGCATGGTGCACCCACAAATTCAAgtgtgcatactactggtaatcaggtgtgtcccaagcagtaatgtcacaac Alignment from Exonerate_coding2genome GCATG------GACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGAC-TTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagtgttatctggaacaatagtgacaagtgtgtcccctacccttctgcagGTATGGACTCAGACTCTGCAGCATTTGAGATGGATATTTACTGGAACTTGGGAAGTGTAGACCTTCTCCTGCACTGCTGATGGTGATCTAGCCAGCATGGTGCACCCACAAATTCAAgtgtgcatactactggtaatcaggtgtgtcccaagcagtaatgtcacaac Alignment from GeneWise -----GGCATGGACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTC-CCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagtgttatctggaacaatagtgacaagtgtgtcccctacccttctgcagGTATGGACTCAGACTCTGCAGCATTTGAGATGGATATTTACTGGAACTTGGGAAGTGTAGACCTTCTCCTGCACTGCTGATGGTGATCTAGCCAGCATGGTGCACCCACAAATTCAAgtgtgcatactactggtaatcaggtgtgtcccaagcagtaatgtcacaac #### Add3_ID11212_4 --> 0 - 0 Original Alignment GTACGAATAAGTAAGGAGCAAGACCACATTATAATAATTCCCAGAGGCCTCTCTTTT-TCTGAAGCGACAGCCTCCACTTTG atcccatccagagcaggtcatggttcatttatgtgttattttatatttagGTCCGAATCAGTAAGGAACAAGACCACATTATAATGATTCCT---GGACTGTCTTTTCTCTGAAACAACCGCATCCTCTTCAgtaagtttgtcaatcccatgtaactaatctttaatactctcaaaaggcag Alignment from CESAR GTACGAATAAGTAAGGAGCAAGACCACATTATAATAATTCCCAGAGGCCTCTCTTTT-TCTGAAGCGACAGCCTCCACTTTG atcccatccagagcaggtcatggttcatttatgtgttattttatatttagGTCCGAATCAGTAAGGAACAAGACCACATTATAATGATTCCT---GGACTGTCTTTTCTCTGAAACAACCGCATCCTCTTCAgtaagtttgtcaatcccatgtaactaatctttaatactctcaaaaggcag Alignment from Spaln_aa2Genome GTACGAATAAGTAAGGAGCAAGACCACATTATAATAATTCCCAGAGGCCTCTCT-TTTTCTGAAGCGACAGCCTCCACTTTG atcccatccagagcaggtcatggttcatttatgtgttattttatatttagGTCCGAATCAGTAAGGAACAAGACCACATTATAATGATTCCT---GGACTGTCTtTTCTCTGAAACAACCGCATCCTCTTCAgtaagtttgtcaatcccatgtaactaatctttaatactctcaaaaggcag Alignment from Spaln_nt2Genome GTACGAATAAGTAAGGAGCAAGACCACATTATAATAATTCCCAGAGGCCTCTCTTTT-TCTGAAGCGACAGCCTCCACTTTG atcccatccagagcaggtcatggttcatttatgtgttattttatatttagGTCCGAATCAGTAAGGAACAAGACCACATTATAATGATTCC---TGGACTGTCTTTTCTCTGAAACAACCGCATCCTCTTCAgtaagtttgtcaatcccatgtaactaatctttaatactctcaaaaggcag Alignment from Pairagon GTACGAATAAGTAAGGAGCAAGACCACATTATAATAATTCCCAGAGGCCTCTCTTTT-TCTGAAGCGACAGCCTCCACTTTG atcccatccagagcaggtcatggttcatttatgtgttattttatatttagGTCCGAATCAGTAAGGAACAAGACCACATTATAATGATTCCTGGA---CTGTCTTTTCTCTGAAACAACCGCATCCTCTTCAgtaagtttgtcaatcccatgtaactaatctttaatactctcaaaaggcag Alignment from Exonerate_protein2genome GTACGAATAAGTAAGGAGCAAGACCACATTATAATAATTCCCAGAGGCCTCTCT-TTTTCTGAAGCGACAGCCTCCACTTTG atcccatccagagcaggtcatggttcatttatgtgttattttatatttagGTCCGAATCAGTAAGGAACAAGACCACATTATAATGATTCCT---GGACTGTCTTTTCTCTGAAACAACCGCATCCTCTTCAgtaagtttgtcaatcccatgtaactaatctttaatactctcaaaaggcag Alignment from Exonerate_coding2genome GTACGAATAAGTAAGGAGCAAGACCACATTATAATAATTCCCAGAGGCCTCTCT-TTTTCTGAAGCGACAGCCTCCACTTTG atcccatccagagcaggtcatggttcatttatgtgttattttatatttagGTCCGAATCAGTAAGGAACAAGACCACATTATAATGATTCCT---GGACTGTCTTTTCTCTGAAACAACCGCATCCTCTTCAgtaagtttgtcaatcccatgtaactaatctttaatactctcaaaaggcag Alignment from GeneWise GTACGAATAAGTAAGGAGCAAGACCACATTATAATAATTCCCAGAGGCCTCTCTTTT-TCTGAAGCGACAGCCTCCACTTTG atcccatccagagcaggtcatggttcatttatgtgttattttatatttagGTCCGAATCAGTAAGGAACAAGACCACATTATAATGATTCCT---GGACTGTCTTTTCTCTGAAACAACCGCATCCTCTTCAgtaagtttgtcaatcccatgtaactaatctttaatactctcaaaaggcag #### Adrbk1_ID478_17 --> 0 - 1 Original Alignment TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTG-GCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGg cttaattcctagatctgcctatagcagcccccgttcttcttcaccccaagTTACTGGACAGTGACCAGGAGTTGTATCGCATATTCCCTCTTAGCATTGCTGAGTGGTGGCAACAGGAGGTGCGCTGAGACCGTTTTT---ACCAGCAATGCTGAAACTGACCATCTTGAGCCACAA------------AACAAACAATTAGGTCAGGGGGAAggtgagcgcattccacctatattgcaggagcaaatgctagaatgcaagcat Alignment from CESAR TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTG-GCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGg cttaattcctagatctgcctatagcagcccccgttcttcttcaccccaagTTACTGGACAGTGACCAGGAGTTGTATCGCATATTCCCTCTTAGCATTGCTGAGTGGTGGCAACAGGAGGTGCGCTGAGACCGTTTTT---ACCAGCAATGCTGAAACTGACCATCTTGAGCCACAA------------AACAAACAATTAGGTCAGGGGGAAggtgagcgcattccacctatattgcaggagcaaatgctagaatgcaagcat Alignment from Spaln_aa2Genome TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTG-GCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGG cttaattcctagatctgcctatagcagcccccgttcttcttcaccccaagTTACTGGACAGTGACCAGGAGTTGTATCGCATATTCCCTCTTAGCATTGCTGAGTGGTGGCAACAGGAGGTGcGCTGAGACCGTTTTT---ACCAGCAATGCTGAAACTGACCATCTTGAG------------CCACAAAACAAACAATTAGGTCAGGGGGAAGgtgagcgcattccacctatattgcaggagcaaatgctagaatgcaagcat Alignment from Spaln_nt2Genome TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTG-GCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGG cttaattcctagatctgcctatagcagcccccgttcttcttcaccccaagTTACTGGACAGTGACCAGGAGTTGTATCGCATATTCCCTCTTAGCATTGCTGAGTGGTGGCAACAGGAGGTGCGCTGAGACCGTTTT---TACCAGCAATGCTGAAACTGACCATCTTGAGCCAC------------AAAACAAACAATTAGGTCAGGGGGAAGgtgagcgcattccacctatattgcaggagcaaatgctagaatgcaagcat Alignment from Pairagon TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTG-GCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGG cttaattcctagatctgcctatagcagcccccgttcttcttcaccccaagTTACTGGACAGTGACCAGGAGTTGTATCGCATATTCCCTCTTAGCATTGCTGAGTGGTGGCAACAGGAGGTGCGCTGAGACCGTTTT---TACCAGCAATGCTGAAACTGACCATCTTGAGCCAC------------AAAACAAACAATTAGGTCAGGGGGAAGgtgagcgcattccacctatattgcaggagcaaatgctagaatgcaagcat Alignment from Exonerate_protein2genome TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTG-GCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGG cttaattcctagatctgcctatagcagcccccgttcttcttcaccccaagTTACTGGACAGTGACCAGGAGTTGTATCGCATATTCCCTCTTAGCATTGCTGAGTGGTGGCAACAGGAGGTGCGCTGAGACCGTTTTT---ACCAGCAATGCTGAAACTGACCATCTTGAG------------CCACAAAACAAACAATTAGGTCAGGGGGAAGgtgagcgcattccacctatattgcaggagcaaatgctagaatgcaagcat Alignment from Exonerate_coding2genome TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTG-GCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGG cttaattcctagatctgcctatagcagcccccgttcttcttcaccccaagTTACTGGACAGTGACCAGGAGTTGTATCGCATATTCCCTCTTAGCATTGCTGAGTGGTGGCAACAGGAGGTGCGCTGAGACCGTTTTT---ACCAGCAATGCTGAAACTGACCATCTTGAG------------CCACAAAACAAACAATTAGGTCAGGGGGAAGgtgagcgcattccacctatattgcaggagcaaatgctagaatgcaagcat Alignment from GeneWise TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTG-GCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGG cttaattcctagatctgcctatagcagcccccgttcttcttcaccccaagTTACTGGACAGTGACCAGGAGTTGTATCGCATATTCCCTCTTAGCATTGCTGAGTGGTGGCAACAGGAGGTGCGCTGAGACCGTTTTT---ACCAGCAATGCTGAAACTGACCATCTTGAGCCACAA------------AACAAACAATTAGGTCAGGGGGAAGgtgagcgcattccacctatattgcaggagcaaatgctagaatgcaagcat #### Adrbk1_ID482_13 --> 1 - 0 Original Alignment aCACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAG-ATTGACCGCATGACGTTGACGATG ttctgatacacctccttttaacccaccttatgtgttctattctttcccagcCACAGTCACTTCCAGCAGCACAAGACAAAAGATACACATGACCATCGACCGCATGACACTTACTATGgtacgtctaatagaagcattgagaactatgtcaagctgagtcattgatcc Alignment from CESAR aCACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAG-ATTGACCGCATGACGTTGACGATG ttctgatacacctccttttaacccaccttatgtgttctattctttcccagcCACAGTCACTTCCAGCAGCACAAGACAAAAGATACACATGACCATCGACCGCATGACACTTACTATGgtacgtctaatagaagcattgagaactatgtcaagctgagtcattgatcc Alignment from Spaln_aa2Genome ACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAG-ATTGACCGCATGACGTTGACGATG ttctgatacacctccttttaacccaccttatgtgttctattctttcccagCCACAGTCACTTCCAGCAGCACAAGACAAAAGATACACATGACcATCGACCGCATGACACTTACTATGgtacgtctaatagaagcattgagaactatgtcaagctgagtcattgatcc Alignment from Spaln_nt2Genome ACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAG-ATTGACCGCATGACGTTGACGATG ttctgatacacctccttttaacccaccttatgtgttctattctttcccagCCACAGTCACTTCCAGCAGCACAAGACAAAAGATACACATGACCATCGACCGCATGACACTTACTATGgtacgtctaatagaagcattgagaactatgtcaagctgagtcattgatcc Alignment from Pairagon ACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGA-GATTGACCGCATGACGTTGACGATG ttctgatacacctccttttaacccaccttatgtgttctattctttcccagCCACAGTCACTTCCAGCAGCACAAGACAAAAGATACACATGACCATCGACCGCATGACACTTACTATGgtacgtctaatagaagcattgagaactatgtcaagctgagtcattgatcc Alignment from Exonerate_protein2genome ACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAG-ATTGACCGCATGACGTTGACGATG ttctgatacacctccttttaacccaccttatgtgttctattctttcccagCCACAGTCACTTCCAGCAGCACAAGACAAAAGATACACATGACCATCGACCGCATGACACTTACTATGgtacgtctaatagaagcattgagaactatgtcaagctgagtcattgatcc Alignment from Exonerate_coding2genome ttctgatacacctccttttaacccaccttatgtgttctattctttcccagccacagtcacttccagcagcacaagacaaaagatacacatgaccatcgaccgcatgacacttactatggtacgtctaatagaagcattgagaactatgtcaagctgagtcattgatcc Alignment from GeneWise ACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCAT-GAGATTGACCGCATGACGTTGACGATG ttctgatacacctccttttaacccaccttatgtgttctattctttcccagCCACAGTCACTTCCAGCAGCACAAGACAAAAGATACACATGACCATCGACCGCATGACACTTACTATGgtacgtctaatagaagcattgagaactatgtcaagctgagtcattgatcc #### Adrbk1_ID483_12 --> 1 - 2 Original Alignment GTgt gGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGAC-AGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGgg GGgtgtccacacctacagactcacttcaccttgcctgtcctctctttcaggGGCACACATGGGTACATAGCTCCCAAGGTACTTCAAAAAGGTATAGCCTATGATCAGCAGCGCCGACTGGTTCTCCCTGAGCTGCATGCTCTTTAAATTGTTGCGAgggtagccccaggggggagcccttacggctggctggcagaggcaatggcctg Alignment from CESAR GTgt gGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGAC-AGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGgg GGgtgtaggaacctacagactcacttcaccttgcctgtcctctctttcaggGGCACACATGGGTACATAGCTCCCAAGGTACTTCAAAAAGGTATAGCCTATGATCAGCAGCGCCGACTGGTTCTCCCTGAGCTGCATGCTCTTTAAATTGTTGCGAgggtagccccaggggggagcccttacggctggctggcagaggcaatggcctg Alignment from Spaln_aa2Genome GTGT GGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGAC-AGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG GGGTgtccacacctacagactcacttcaccttgcctgtcctctctttcagGGGCACACATGGGTACATAGCTCCCAAGGTACTTCAAAAAGGTATAGCCTATGATcAGCAGCGCCGACTGGTTCTCCCTGAGCTGCATGCTCTTTAAATTGTTGCGAGGgtagccccaggggggagcccttacggctggctggcagaggcaatggcctg Alignment from Spaln_nt2Genome GTGT GGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGA-CAGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG GGGTgtccacacctacagactcacttcaccttgcctgtcctctctttcagGGGCACACATGGGTACATAGCTCCCAAGGTACTTCAAAAAGGTATAGCCTATGATCAGCAGCGCCGACTGGTTCTCCCTGAGCTGCATGCTCTTTAAATTGTTGCGAGGgtagccccaggggggagcccttacggctggctggcagaggcaatggcctg Alignment from Pairagon GTGT----------------------------------------------GGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGA-CAGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG GGGTGTCCACACCTACAGACTCACTTCACCTTGCCTGTCCTCTCTTTCAGGGGCACACATGGGTACATAGCTCCCAAGGTACTTCAAAAAGGTATAGCCTATGATCAGCAGCGCCGACTGGTTCTCCCTGAGCTGCATGCTCTTTAAATTGTTGCGAGGgtagccccaggggggagcccttacggctggctggcagaggcaatggcctg Alignment from Exonerate_protein2genome GTGT GGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGAC-AGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG GGGTgtccacacctacagactcacttcaccttgcctgtcctctctttcagGGGCACACATGGGTACATAGCTCCCAAGGTACTTCAAAAAGGTATAGCCTATGATCAGCAGCGCCGACTGGTTCTCCCTGAGCTGCATGCTCTTTAAATTGTTGCGAGGgtagccccaggggggagcccttacggctggctggcagaggcaatggcctg Alignment from Exonerate_coding2genome GTGT GGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGAC-AGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG GGGTgtccacacctacagactcacttcaccttgcctgtcctctctttcagGGGCACACATGGGTACATAGCTCCCAAGGTACTTCAAAAAGGTATAGCCTATGATCAGCAGCGCCGACTGGTTCTCCCTGAGCTGCATGCTCTTTAAATTGTTGCGAGGgtagccccaggggggagcccttacggctggctggcagaggcaatggcctg Alignment from GeneWise GTGT GGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGAC-AGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG GGGTgtccacacctacagactcacttcaccttgcctgtcctctctttcagGGGCACACATGGGTACATAGCTCCCAAGGTACTTCAAAAAGGTATAGCCTATGATCAGCAGCGCCGACTGGTTCTCCCTGAGCTGCATGCTCTTTAAATTGTTGCGAGGgtagccccaggggggagcccttacggctggctggcagaggcaatggcctg #### Adrbk1_ID484_11 --> 0 - 2 Original Alignment CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGAC-TTCTCCAAGAAGAGGCCTCATGCCAGTgt gGGC cacaaggcaaccagcatgatgatgacatactctgtcactcattaccccagCCAGCTAACATTCTCCTAGAA---CATGGCCATGTGAGAATTTCTGATTTTAGCCTAGTATGTGACCTTCTCCAAGAAGAGACCCCCTGCCGGGgtgtaggaacctacagactcacttcaactcatctttctctttctgcaggGGC Alignment from CESAR CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGAC-TTCTCCAAGAAGAGGCCTCATGCCAGTgt gGGC cacaaggcaaccagcatgatgatgacatactctgtcactcattaccccagCCAGCTAACATTCTCCTA---GAACATGGCCATGTGAGAATTTCTGATTTTAGCCTAGTATGTGACCTTCTCCAAGAAGAGACCCCCTGCCGGGgtgtaggaacctacagactcacttcaccttgcctgtcctctctttcaggGGC Alignment from Spaln_aa2Genome CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGAC-TTCTCCAAGAAGAGGCCTCATGCCAGTGT GGGC cacaaggcaaccagcatgatgatgacatactctgtcactcattaccccagCCAGCTAACATTCTCCTA---GAACATGGCCATGTGAGAATTTCTGATTTTAGCCTAGTATGTGACcTTCTCCAAGAAGAGACCCCCTGCCGGGGTgtaggaacctacagactcacttcaactcatctttctctttctgcagGGGC Alignment from Spaln_nt2Genome CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGAC-TTCTCCAAGAAGAGGCCTCATGCCAGTGT GGGC cacaaggcaaccagcatgatgatgacatactctgtcactcattaccccagCCAGCTAACATTCTCCTA---GAACATGGCCATGTGAGAATTTCTGATTTTAGCCTAGTATGTGACCTTCTCCAAGAAGAGACCCCCTGCCGGGGTgtaggaacctacagactcacttcaactcatctttctctttctgcagGGGC Alignment from Pairagon CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGA-CTTCTCCAAGAAGAGGCCTCATGCCAGTGT GGGC cacaaggcaaccagcatgatgatgacatactctgtcactcattaccccagCCAGCTAACATTCTCCTA---GAACATGGCCATGTGAGAATTTCTGATTTTAGCCTAGTATGTGACCTTCTCCAAGAAGAGACCCCCTGCCGGGGTgtaggaacctacagactcacttcaactcatctttctctttctgcagGGGC Alignment from Exonerate_protein2genome CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGAC-TTCTCCAAGAAGAGGCCTCATGCCAGTGT GGGC cacaaggcaaccagcatgatgatgacatactctgtcactcattaccccagCCAGCTAACATTCTCCTA---GAACATGGCCATGTGAGAATTTCTGATTTTAGCCTAGTATGTGACCTTCTCCAAGAAGAGACCCCCTGCCGGGGTgtaggaacctacagactcacttcaactcatctttctctttctgcagGGGC Alignment from Exonerate_coding2genome CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGAC-TTCTCCAAGAAGAGGCCTCATGCCAGTGT GGGC cacaaggcaaccagcatgatgatgacatactctgtcactcattaccccagCCAGCTAACATTCTCCTA---GAACATGGCCATGTGAGAATTTCTGATTTTAGCCTAGTATGTGACCTTCTCCAAGAAGAGACCCCCTGCCGGGGTgtaggaacctacagactcacttcaactcatctttctctttctgcagGGGC Alignment from GeneWise CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGT-GACTTCTCCAAGAAGAGGCCTCATGCCAGTGT GGGC cacaaggcaaccagcatgatgatgacatactctgtcactcattaccccagCCAGCTAACATTCTCCTA---GAACATGGCCATGTGAGAATTTCTGATTTTAGCCTAGTATGTGACCTTCTCCAAGAAGAGACCCCCTGCCGGGGTgtaggaacctacagactcacttcaactcatctttctctttctgcagGGGC #### Adrbk1_ID489_6 --> 1 - 0 Original Alignment tGACAAGTTCACACGGTTCTGCCAGTGGAAG-AATGTTGAGCTCAACATCCAC aatcaacagtttggcatgcctagtagtgtcctccatccccctccactcagtGATCAGTTCACACATTTCTGTCAATGGAAGCAACATTGAACTTAACATTCATgtaaacaggagtacttcatgaatgcaactctacgtgtagtatgggtgggc Alignment from CESAR tGACAAGTTCACACGGTTCTGCCAGTGGAAG-AATGTTGAGCTCAACATCCAC aatcaacagtttggcatgcctagtagtgtcctccatccccctccactcagtGATCAGTTCACACATTTCTGTCAATGGAAGCAACATTGAACTTAACATTCATgtaaacaggagtacttcatgaatgcaactctacgtgtagtatgggtgggc Alignment from Spaln_aa2Genome TGACAAGTTCACACGGTTCTGCCAGTGGAAG-AATGTTGAGCTCAACATCCAC aatcaacagtttggcatgcctagtagtgtcctccatccccctccactcagTGATCAGTTCACACATTTCTGTCAATGGAAGcAACATTGAACTTAACATTCATgtaaacaggagtacttcatgaatgcaactctacgtgtagtatgggtgggc Alignment from Spaln_nt2Genome TGACAAGTTCACACGGTTCTGCCAGTGGAAG-AATGTTGAGCTCAACATCCAC aatcaacagtttggcatgcctagtagtgtcctccatccccctccactcagTGATCAGTTCACACATTTCTGTCAATGGAAGCAACATTGAACTTAACATTCATgtaaacaggagtacttcatgaatgcaactctacgtgtagtatgggtgggc Alignment from Pairagon TGACAAGTTCACACGGTTCTGCCAGTGGAAG-AATGTTGAGCTCAACATCCAC aatcaacagtttggcatgcctagtagtgtcctccatccccctccactcagTGATCAGTTCACACATTTCTGTCAATGGAAGCAACATTGAACTTAACATTCATgtaaacaggagtacttcatgaatgcaactctacgtgtagtatgggtgggc Alignment from Exonerate_protein2genome TGACAAGTTCACACGGTTCTGCCAGTGGAAG-AATGTTGAGCTCAACATCCACCTG aatcaacagtttggcatgcctagtagtgtcctccatccccctccactcagTGATCAGTTCACACATTTCTGTCAATGGAAGCAACATTGAACTTAACATTCAT---gtaaacaggagtacttcatgaatgcaactctacgtgtagtatgggtg Alignment from Exonerate_coding2genome aatcaacagtttggcatgcctagtagtgtcctccatccccctccactcagtgatcagttcacacatttctgtcaatggaagcaacattgaacttaacattcatgtaaacaggagtacttcatgaatgcaactctacgtgtagtatgggtgggc Alignment from GeneWise aatcaacagtttggcatgcctagtagtgtcctccatccccctccactcagtgatcagttcacacatttctgtcaatggaagcaacattgaacttaacattcatgtaaacaggagtacttcatgaatgcaactctacgtgtagtatgggtgggc #### Afap1l2_ID12247_16 --> 0 - 1 Original Alignment AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTG-AAGGAGAAGCTGAGAGTGACCAGTGCAg tgctcttcaaaccacctggaagtaaatcttcttacaatattttgcatcagAGGCAGCCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCATGGAGCACCATTGTTAAGTTGCAT---GATCAGCAAAGGATTTACTTCCCTGCTAACTGCCAAGATACAATGGCTTCCACCCCCATTTCTGCAAGTGCGCCTGCGCAAAGAGAAGTTAAGAGTTACTGGCGCAggtgcatgtagttcgcttgtgttgctgagttggtccagagcaggttcatat Alignment from CESAR AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTG-AAGGAGAAGCTGAGAGTGACCAGTGCAg tgctcttcaaaccacctggaagtaaatcttcttacaatattttgcatcagAGGCAGCCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCATGGAGCACCATTGTTAAGTTGCAT---GATCAGCAAAGGATTTACTTCCCTGCTAACTGCCAAGATACAATGGCTTCCACCCCCATTTCTGCAAGTGCGCCTGCGCAAAGAGAAGTTAAGAGTTACTGGCGCAggtgcatgtagttcgcttgtgttgctgagttggtccagagcaggttcatat Alignment from Spaln_aa2Genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTG-AAGGAGAAGCTGAGAGTGACCAGTGCAG tgctcttcaaaccacctggaagtaaatcttcttacaatattttgcatcagAGGCAGCCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCATGGAGCACCATTGTTAAGTTGCAT---GATCAGCAAAGGATTTACTTCCCTGCTAACTGCCAAGATACAATGGCTTCCACCCCCATTTCTGCAAGTGCGCCTGCGcAAAGAGAAGTTAAGAGTTACTGGCGCAGgtgcatgtagttcgcttgtgttgctgagttggtccagagcaggttcatat Alignment from Spaln_nt2Genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTG-AAGGAGAAGCTGAGAGTGACCAGTGCAG tgctcttcaaaccacctggaagtaaatcttcttacaatattttgcatcagAGGCAGCCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCATGGAGCACCATTGTTAAGTTGCA---TGATCAGCAAAGGATTTACTTCCCTGCTAACTGCCAAGATACAATGGCTTCCACCCCCATTTCTGCAAGTGCGCCTGCGCAAAGAGAAGTTAAGAGTTACTGGCGCAGgtgcatgtagttcgcttgtgttgctgagttggtccagagcaggttcatat Alignment from Pairagon AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTG-AAGGAGAAGCTGAGAGTGACCAGTGCAG tgctcttcaaaccacctggaagtaaatcttcttacaatattttgcatcagAGGCAGCCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCATGGAGCACCATTGTTAAGTTGCA---TGATCAGCAAAGGATTTACTTCCCTGCTAACTGCCAAGATACAATGGCTTCCACCCCCATTTCTGCAAGTGCGCCTGCGCAAAGAGAAGTTAAGAGTTACTGGCGCAGgtgcatgtagttcgcttgtgttgctgagttggtccagagcaggttcatat Alignment from Exonerate_protein2genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTG-AAGGAGAAGCTGAGAGTGACCAGTGCAG tgctcttcaaaccacctggaagtaaatcttcttacaatattttgcatcagAGGCAGCCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCATGGAGCACCATTGTTAAGTTGCAT---GATCAGCAAAGGATTTACTTCCCTGCTAACTGCCAAGATACAATGGCTTCCACCCCCATTTCTGCAAGTGCGCCTGCGCAAAGAGAAGTTAAGAGTTACTGGCGCAGgtgcatgtagttcgcttgtgttgctgagttggtccagagcaggttcatat Alignment from Exonerate_coding2genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTG-AAGGAGAAGCTGAGAGTGACCAGTGCAG tgctcttcaaaccacctggaagtaaatcttcttacaatattttgcatcagAGGCAGCCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCATGGAGCACCATTGTTAAGTTGCAT---GATCAGCAAAGGATTTACTTCCCTGCTAACTGCCAAGATACAATGGCTTCCACCCCCATTTCTGCAAGTGCGCCTGCGCAAAGAGAAGTTAAGAGTTACTGGCGCAGgtgcatgtagttcgcttgtgttgctgagttggtccagagcaggttcatat Alignment from GeneWise AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCT-GTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tgctcttcaaaccacctggaagtaaatcttcttacaatattttgcatcagAGGCAGCCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCATGGAGCACCATTGTTAAGTTGCAT---GATCAGCAAAGGATTTACTTCCCTGCTAACTGCCAAGATACAATGGCTTCCACCCCCATTTCTGCAAGTGCGCCTGCGCAAAGAGAAGTTAAGAGTTACTGGCGCAGgtgcatgtagttcgcttgtgttgctgagttggtccagagcaggttcatat #### Afap1l2_ID12248_15 --> 0 - 0 Original Alignment GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCT-CAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG agcagacaaaccctagcaacttcagagatgacccttccctccctccacagGTGGAACCTGCTGAAGAAGAGGCT---ACTGTCGACACGAACAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGAGAGGCTCCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGATGACATAGCTGAGACACTTACAGTAGATCCAGAGTCCATCACTACCCAAGAGGAGGCCCATACA---GCACCAGGAGATCCTGAGTTGCAGCAGgtaaataagtggtcagctacctaactacattacctgctcttcaaaccacc Alignment from CESAR GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCT-CAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG agcagacaaaccctagcaacttcagagatgacccttccctccctccacagGTGGAACCTGCTGAAGAAGAGGCT---ACTGTCGACACGAACAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGAGAGGCTCCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGATGACATAGCTGAGACACTTACAGTAGATCCAGAGTCCATCACTACCCAAGAGGAGGCCCATACA---GCACCAGGAGATCCTGAGTTGCAGCAGgtaaataagtggtcagctacctaactacattacctgctcttcaaaccacc Alignment from Spaln_aa2Genome GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCT-CAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG agcagacaaaccctagcaacttcagagatgacccttccctccctccacagGTGGAACCTGCTGAAGAAGAGGCT---ACTGTCGACACGAACAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGAGAGGCTcCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGATGACATAGCTGAGACACTTACAGTAGATCCAGAGTCCATCACTACCCAAGAGGAGGCCCATACA---GCACCAGGAGATCCTGAGTTGCAGCAGgtaaataagtggtcagctacctaactacattacctgctcttcaaaccacc Alignment from Spaln_nt2Genome GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCT-CAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG agcagacaaaccctagcaacttcagagatgacccttccctccctccacagGTGGAACCTGCTGAAGAAGAGG---CTACTGTCGACACGAACAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGAGAGGCTCCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGATGACATAGCTGAGACACTTACAGTAGATCCAGAGTCCATCACTACCCAAGAGGAGGCCCATACAG---CACCAGGAGATCCTGAGTTGCAGCAGgtaaataagtggtcagctacctaactacattacctgctcttcaaaccacc Alignment from Pairagon GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCT-CAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG agcagacaaaccctagcaacttcagagatgacccttccctccctccacagGTGGAACCTGCTGAAGAAGAGG---CTACTGTCGACACGAACAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGAGAGGCTCCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGATGACATAGCTGAGACACTTACAGTAGATCCAGAGTCCATCACTACCCAAGAGGAGGCCCATACAG---CACCAGGAGATCCTGAGTTGCAGCAGgtaaataagtggtcagctacctaactacattacctgctcttcaaaccacc Alignment from Exonerate_protein2genome GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCT-CAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG agcagacaaaccctagcaacttcagagatgacccttccctccctccacagGTGGAACCTGCTGAAGAAGAGGCT---ACTGTCGACACGAACAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGAGAGGCTCCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGATGACATAGCTGAGACACTTACAGTAGATCCAGAGTCCATCACTACCCAAGAGGAGGCCCATACA---GCACCAGGAGATCCTGAGTTGCAGCAGgtaaataagtggtcagctacctaactacattacctgctcttcaaaccacc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAG-GCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG agcagacaaaccctagcaacttcagagatgacccttccctccctccacagGTGGAACCTGCTGAAGAAGAGGCT---ACTGTCGACACGAACAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGAGAGGCTCCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGATGACATAGCTGAGACACTTACAGTAGATCCAGAGTCCATCACTACCCAAGAGGAGGCCCATACA---GCACCAGGAGATCCTGAGTTGCAGCAGgtaaataagtggtcagctacctaactacattacctgctcttcaaaccacc #### Aip_ID331_4 --> 0 - 0 Original Alignment GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAG-GCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG tggaagctatccatgggacatggcagagtctactatgatattttcactagGTAGAAAGTCCTGGTACCTATCAACATGACCCTTGGGCAATGACAGATGAGGAGAAAGCAAAGCGAAGTACCTGTTATCCACCAGGAAGGCAACCGGTTGTACCGTGAAAGCCAGGTGAGGGAGGCTGCTCCAAAGTACTATGATGCCATTGCTTCCCTCAAGAATCTGCAAATGAAAgtgagtctcatagatacagtagtaggcaataatgtacacatggctgtctt Alignment from CESAR GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAG-GCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG tggaagctatccatgggacatggcagagtctactatgatattttcactagGTAGAAAGTCCTGGTACCTATCAACATGACCCTTGGGCAATGACAGATGAGGAGAAAGCAAAGCGAAGTACCTGTTATCCACCAGGAAGGCAACCGGTTGTACCGTGAAAGCCAGGTGAGGGAGGCTGCTCCAAAGTACTATGATGCCATTGCTTCCCTCAAGAATCTGCAAATGAAAgtgagtctcatagatacagtagtaggcaataatgtacacatggctgtctt Alignment from Spaln_aa2Genome GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAG-GCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG tggaagctatccatgggacatggcagagtctactatgatattttcactagGTAGAAAGTCCTGGTACCTATCAACATGACCCTTGGGCAATGACAGATGAGGAGAAAGCAAAGcGAAGTACCTGTTATCCACCAGGAAGGCAACCGGTTGTACCGTGAAAGCCAGGTGAGGGAGGCTGCTCCAAAGTACTATGATGCCATTGCTTCCCTCAAGAATCTGCAAATGAAAgtgagtctcatagatacagtagtaggcaataatgtacacatggctgtctt Alignment from Spaln_nt2Genome GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGC-AAAGGCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG tggaagctatccatgggacatggcagagtctactatgatattttcactagGTAGAAAGTCCTGGTACCTATCAACATGACCCTTGGGCAATGACAGATGAGGAGAAAGCAAAGCGAAGTACCTGTTATCCACCAGGAAGGCAACCGGTTGTACCGTGAAAGCCAGGTGAGGGAGGCTGCTCCAAAGTACTATGATGCCATTGCTTCCCTCAAGAATCTGCAAATGAAAgtgagtctcatagatacagtagtaggcaataatgtacacatggctgtctt Alignment from Pairagon GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAG-GCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG tggaagctatccatgggacatggcagagtctactatgatattttcactagGTAGAAAGTCCTGGTACCTATCAACATGACCCTTGGGCAATGACAGATGAGGAGAAAGCAAAGCGAAGTACCTGTTATCCACCAGGAAGGCAACCGGTTGTACCGTGAAAGCCAGGTGAGGGAGGCTGCTCCAAAGTACTATGATGCCATTGCTTCCCTCAAGAATCTGCAAATGAAAgtgagtctcatagatacagtagtaggcaataatgtacacatggctgtctt Alignment from Exonerate_protein2genome GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAG-GCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG tggaagctatccatgggacatggcagagtctactatgatattttcactagGTAGAAAGTCCTGGTACCTATCAACATGACCCTTGGGCAATGACAGATGAGGAGAAAGCAAAGCGAAGTACCTGTTATCCACCAGGAAGGCAACCGGTTGTACCGTGAAAGCCAGGTGAGGGAGGCTGCTCCAAAGTACTATGATGCCATTGCTTCCCTCAAGAATCTGCAAATGAAAgtgagtctcatagatacagtagtaggcaataatgtacacatggctgtctt Alignment from Exonerate_coding2genome GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAG-GCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG tggaagctatccatgggacatggcagagtctactatgatattttcactagGTAGAAAGTCCTGGTACCTATCAACATGACCCTTGGGCAATGACAGATGAGGAGAAAGCAAAGCGAAGTACCTGTTATCCACCAGGAAGGCAACCGGTTGTACCGTGAAAGCCAGGTGAGGGAGGCTGCTCCAAAGTACTATGATGCCATTGCTTCCCTCAAGAATCTGCAAATGAAAgtgagtctcatagatacagtagtaggcaataatgtacacatggctgtctt Alignment from GeneWise GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAG-GCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG tggaagctatccatgggacatggcagagtctactatgatattttcactagGTAGAAAGTCCTGGTACCTATCAACATGACCCTTGGGCAATGACAGATGAGGAGAAAGCAAAGCGAAGTACCTGTTATCCACCAGGAAGGCAACCGGTTGTACCGTGAAAGCCAGGTGAGGGAGGCTGCTCCAAAGTACTATGATGCCATTGCTTCCCTCAAGAATCTGCAAATGAAAgtgagtctcatagatacagtagtaggcaataatgtacacatggctgtctt #### Aldh3b2_ID237_3 --> 0 - 0 Original Alignment TCAGGCTTCGAGTCA-GACATGAGTGAGATCATCCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG aatggtttgttagtaaactgagtctgtcttttattgtcctttcttcacagTCTGGCTTTGAGTCACGACATGAGTGAGGTTTTTCTGTGTGAAAATGAGGTGGACTTGGCCCTGAAGAATTTGCAGACGTGGATGAAGGATGAACCTGTACCCACAAATTTAgtgagacctgttggtgtactgtagctgcccccattcagaccctacccttg Alignment from CESAR TCAGGCTTCGAGTCA-GACATGAGTGAGATCATCCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG aatggtttgttagtaaactgagtctgtcttttattgtcctttcttcacagTCTGGCTTTGAGTCACGACATGAGTGAGGTTTTTCTGTGTGAAAATGAGGTGGACTTGGCCCTGAAGAATTTGCAGACGTGGATGAAGGATGAACCTGTACCCACAAATTTAgtgagacctgttggtgtactgtagctgcccccattcagaccctacccttg Alignment from Spaln_aa2Genome TCAGGCTTCGAGTCA-GACATGAGTGAGATCATCCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG aatggtttgttagtaaactgagtctgtcttttattgtcctttcttcacagTCTGGCTTTGAGTCAcGACATGAGTGAGGTTTTTCTGTGTGAAAATGAGGTGGACTTGGCCCTGAAGAATTTGCAGACGTGGATGAAGGATGAACCTGTACCCACAAATTTAgtgagacctgttggtgtactgtagctgcccccattcagaccctacccttg Alignment from Spaln_nt2Genome TCAGGCTTCGAGTCA-GACATGAGTGAGATCATCCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG aatggtttgttagtaaactgagtctgtcttttattgtcctttcttcacagTCTGGCTTTGAGTCACGACATGAGTGAGGTTTTTCTGTGTGAAAATGAGGTGGACTTGGCCCTGAAGAATTTGCAGACGTGGATGAAGGATGAACCTGTACCCACAAATTTAgtgagacctgttggtgtactgtagctgcccccattcagaccctacccttg Alignment from Pairagon TCAGGCTTCGAGTCA-GACATGAGTGAGATCATCCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG aatggtttgttagtaaactgagtctgtcttttattgtcctttcttcacagTCTGGCTTTGAGTCACGACATGAGTGAGGTTTTTCTGTGTGAAAATGAGGTGGACTTGGCCCTGAAGAATTTGCAGACGTGGATGAAGGATGAACCTGTACCCACAAATTTAgtgagacctgttggtgtactgtagctgcccccattcagaccctacccttg Alignment from Exonerate_protein2genome TCAGGCTTCGAGTCA-GACATGAGTGAGATCATCCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG aatggtttgttagtaaactgagtctgtcttttattgtcctttcttcacagTCTGGCTTTGAGTCACGACATGAGTGAGGTTTTTCTGTGTGAAAATGAGGTGGACTTGGCCCTGAAGAATTTGCAGACGTGGATGAAGGATGAACCTGTACCCACAAATTTAgtgagacctgttggtgtactgtagctgcccccattcagaccctacccttg Alignment from Exonerate_coding2genome aatggtttgttagtaaactgagtctgtcttttattgtcctttcttcacagtctggctttgagtcacgacatgagtgaggtttttctgtgtgaaaatgaggtggacttggccctgaagaatttgcagacgtggatgaaggatgaacctgtacccacaaatttagtgagacctgttggtgtactgtagctgcccccattcagaccctacccttg Alignment from GeneWise ----GACATGAGTGAGATCATCCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG aatggtttgttagtaaactgagtctgtcttttattgtcctttcttcacagtctggctttgagTCACGACATGAGTGAGGTTTTTCTGTGTGAAAATGAGGTGGACTTGGCCCTGAAGAATTTGCAGACGTGGATGAAGGATGAACCTGTACCCACAAATTTAgtgagacctgttggtgtactgtagctgcccccattcagaccctacccttg #### Aldh3b2_ID242_8 --> 2 - 0 Original Alignment ccCCCACAGTGCTGGTAGACGTGCAGGAG-ACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcctctgtacagtgctcgttgcattgactttctcttttaaagccCCGACAGATCTAGTAGATGTCCATGCACACAGAACCCCTTATGCAAGAGGAAATATTTGGGCCCATCCTTCCTTTAGTGACTGTAAGAAGTTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCCCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgaggtggtggtgagacaagttaaatgcagccagactggtcagaccttt Alignment from CESAR ccCCCACAGTGCTGGTAGACGTGCAGGAG-ACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcctctgtacagtgctcgttgcattgactttctcttttaaagccCCGACAGATCTAGTAGATGTCCATGCACACAGAACCCCTTATGCAAGAGGAAATATTTGGGCCCATCCTTCCTTTAGTGACTGTAAGAAGTTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCCCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgaggtggtggtgagacaagttaaatgcagccagactggtcagaccttt Alignment from Spaln_aa2Genome CCCCCACAGTGCTGGTAGACGTGCAG-GAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcctctgtacagtgctcgttgcattgactttctcttttaaagCCCCGACAGATCTAGTAGATGTCCATgCACACAGAACCCCTTATGCAAGAGGAAATATTTGGGCCCATCCTTCCTTTAGTGACTGTAAGAAGTTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCCCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgaggtggtggtgagacaagttaaatgcagccagactggtcagaccttt Alignment from Spaln_nt2Genome CCCCCACAGTGCTGGTAGACGTGCAGG-AGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcctctgtacagtgctcgttgcattgactttctcttttaaagCCCCGACAGATCTAGTAGATGTCCATGCACACAGAACCCCTTATGCAAGAGGAAATATTTGGGCCCATCCTTCCTTTAGTGACTGTAAGAAGTTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCCCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgaggtggtggtgagacaagttaaatgcagccagactggtcagaccttt Alignment from Pairagon CCCCCACAGTGCTGGTAGACGTGCA-GGAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcctctgtacagtgctcgttgcattgactttctcttttaaagCCCCGACAGATCTAGTAGATGTCCATGCACACAGAACCCCTTATGCAAGAGGAAATATTTGGGCCCATCCTTCCTTTAGTGACTGTAAGAAGTTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCCCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgaggtggtggtgagacaagttaaatgcagccagactggtcagaccttt Alignment from Exonerate_protein2genome CCCCCACAGTGCTGGTAGACGTG-CAGGAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcctctgtacagtgctcgttgcattgactttctcttttaaagCCCCGACAGATCTAGTAGATGTCCATGCACACAGAACCCCTTATGCAAGAGGAAATATTTGGGCCCATCCTTCCTTTAGTGACTGTAAGAAGTTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCCCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgaggtggtggtgagacaagttaaatgcagccagactggtcagaccttt Alignment from Exonerate_coding2genome CCCCCACAGTGCTGGTAGACGTG-CAGGAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcctctgtacagtgctcgttgcattgactttctcttttaaagCCCCGACAGATCTAGTAGATGTCCATGCACACAGAACCCCTTATGCAAGAGGAAATATTTGGGCCCATCCTTCCTTTAGTGACTGTAAGAAGTTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCCCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgaggtggtggtgagacaagttaaatgcagccagactggtcagaccttt Alignment from GeneWise CCCCCACAGTGCTGGTAGACGTGCAG-GAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcctctgtacagtgctcgttgcattgactttctcttttaaagCCCCGACAGATCTAGTAGATGTCCATGCACACAGAACCCCTTATGCAAGAGGAAATATTTGGGCCCATCCTTCCTTTAGTGACTGTAAGAAGTTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCCCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgaggtggtggtgagacaagttaaatgcagccagactggtcagaccttt #### Ankrd13d_ID460_13 --> 2 - 0 Original Alignment gaAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCA-GGCACAGAGGCAGAGCAG gccatctggatttctgtcaaatctttgttgcatctgtttgttttgaacagggGGCCTTTATCCTTGTGAGGTAGATTCCACAGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAGGATGATGAGCTTCTGCAGTTTGCTATCCAACAAAGCCTCTTGGAGGCACGCAATACAGGCAGAGCAGgtaactagtgatacagttagctaatgcttcaggcccatggggacagggtg Alignment from CESAR gaAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCA-GGCACAGAGGCAGAGCAG gccatctggatttctgtcaaatctttgttgcatctgtttgttttgaacagggGGCCTTTATCCTTGTGAGGTAGATTCCACAGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAGGATGATGAGCTTCTGCAGTTTGCTATCCAACAAAGCCTCTTGGAGGCACGCAATACAGGCAGAGCAGgtaactagtgatacagttagctaatgcttcaggcccatggggacagttgg Alignment from Spaln_aa2Genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG gccatctggatttctgtcaaatctttgttgcatctgtttgttttgaacagGGGGCCTTTATCCTTGTGAGGTAGATTCCACAGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAGGATGATGAGCTTCTGCAGTTTGCTATCCAACAAAGCCTCTTGGAGGCACGCAAT---ACAGGCAGAgcaggtaactagtgatacagttagctaatgcttcaggcccatggggacagggtg Alignment from Spaln_nt2Genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCAC-AGAGGCAGAGCAG gccatctggatttctgtcaaatctttgttgcatctgtttgttttgaacagGGGGCCTTTATCCTTGTGAGGTAGATTCCACAGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAGGATGATGAGCTTCTGCAGTTTGCTATCCAACAAAGCCTCTTGGAGGCACGCAATACAGGCAGAGCAGgtaactagtgatacagttagctaatgcttcaggcccatggggacagggtg Alignment from Pairagon -----------------------------------------------CAGGAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGC-ACAGAGGCAGAGCAG GCCATCTGGATTTCTGTCAAATCTTTGTTGCATCTGTTTGTTTTGAACAGGGGGCCTTTATCCTTGTGAGGTAGATTCCACAGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAGGATGATGAGCTTCTGCAGTTTGCTATCCAACAAAGCCTCTTGGAGGCACGCAATACAGGCAGAGCAGgtaactagtgatacagttagctaatgcttcaggcccatggggacagggtg Alignment from Exonerate_protein2genome gccatctggatttctgtcaaatctttgttgcatctgtttgttttgaacagggggcctttatccttgtgaggtagattccacagtgtttgaggcatctgagggatacagtgccttaggtgccaagcacagtgagcctctccaggataaggatgatgagcttctgcagtttgctatccaacaaagcctcttggaggcacgcaatacaggcagagcaggtaactagtgatacagttagctaatgcttcaggcccatggggacagggtg Alignment from Exonerate_coding2genome gccatctggatttctgtcaaatctttgttgcatctgtttgttttgaacagggggcctttatccttgtgaggtagattccacagtgtttgaggcatctgagggatacagtgccttaggtgccaagcacagtgagcctctccaggataaggatgatgagcttctgcagtttgctatccaacaaagcctcttggaggcacgcaatacaggcagagcaggtaactagtgatacagttagctaatgcttcaggcccatggggacagggtg Alignment from GeneWise GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCA-GGCACAGAGGCAGAGCAGGTGACGG gccatctggatttctgtcaaatctttgttgcatctgtttgttttgaacagGGGGCCTTTATCCTTGTGAGGTAGATTCCACAGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAGGATGATGAGCTTCTGCAGTTTGCTATCCAACAAAGCCTCTTGGAGGCACGCAATACAGGCAGAGCAGGTAACTAgtgatacagttagctaatgcttcaggcccatggggacagggtg #### Ankrd13d_ID465_8 --> 0 - 1 Original Alignment GTGTACAGTGCCACCAATGTGGAG-CTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAg cttacatcactctgctgtccactcagtcttaattcttctcatttatgcagGTATACAGTGCTACGAATGTTGAGCCTGGTGACACGCACGAGAACAGAACATCTCTCTGACCAGGACAAGTTAAGGAACAAAggtgagtactcttgctgcagggttctggttgagcccctcaggcaatgtacc Alignment from CESAR GTGTACAGTGCCACCAATGTGGAG-CTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAg cttacatcactctgctgtccactcagtcttaattcttctcatttatgcagGTATACAGTGCTACGAATGTTGAGCCTGGTGACACGCACGAGAACAGAACATCTCTCTGACCAGGACAAGTTAAGGAACAAAggtgagtactcttgctgcagggttctggttgagcccctcaggcaatgtacc Alignment from Spaln_aa2Genome GTGTACAGTGCCACCAATGTGGAG-CTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG cttacatcactctgctgtccactcagtcttaattcttctcatttatgcagGTATACAGTGCTACGAATGTTGAGcCTGGTGACACGCACGAGAACAGAACATCTCTCTGACCAGGACAAGTTAAGGAACAAAGgtgagtactcttgctgcagggttctggttgagcccctcaggcaatgtacc Alignment from Spaln_nt2Genome GTGTACAGTGCCACCAATGTGGAGC-TGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG cttacatcactctgctgtccactcagtcttaattcttctcatttatgcagGTATACAGTGCTACGAATGTTGAGCCTGGTGACACGCACGAGAACAGAACATCTCTCTGACCAGGACAAGTTAAGGAACAAAGgtgagtactcttgctgcagggttctggttgagcccctcaggcaatgtacc Alignment from Pairagon GTGTACAGTGCCACCAATGTGGAG-CTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG cttacatcactctgctgtccactcagtcttaattcttctcatttatgcagGTATACAGTGCTACGAATGTTGAGCCTGGTGACACGCACGAGAACAGAACATCTCTCTGACCAGGACAAGTTAAGGAACAAAGgtgagtactcttgctgcagggttctggttgagcccctcaggcaatgtacc Alignment from Exonerate_protein2genome GTGTACAGTGCCACCAATGTGGAG-CTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG cttacatcactctgctgtccactcagtcttaattcttctcatttatgcagGTATACAGTGCTACGAATGTTGAGCCTGGTGACACGCACGAGAACAGAACATCTCTCTGACCAGGACAAGTTAAGGAACAAAGgtgagtactcttgctgcagggttctggttgagcccctcaggcaatgtacc Alignment from Exonerate_coding2genome GTGTACAGTGCCACCAATGTGGAG-CTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG cttacatcactctgctgtccactcagtcttaattcttctcatttatgcagGTATACAGTGCTACGAATGTTGAGCCTGGTGACACGCACGAGAACAGAACATCTCTCTGACCAGGACAAGTTAAGGAACAAAGgtgagtactcttgctgcagggttctggttgagcccctcaggcaatgtacc Alignment from GeneWise GTGTACAGTGCCACCAATGTGGAG-CTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG cttacatcactctgctgtccactcagtcttaattcttctcatttatgcagGTATACAGTGCTACGAATGTTGAGCCTGGTGACACGCACGAGAACAGAACATCTCTCTGACCAGGACAAGTTAAGGAACAAAGgtgagtactcttgctgcagggttctggttgagcccctcaggcaatgtacc #### Ankrd1_ID7101_4 --> 0 - 0 Original Alignment ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAACTGCCAGTTGTAGAGAAATTCCTGTCA-GACAAGAACAGCCCCGACGTCTGCGATGAG ggatggaaggataggaaaacaatcagtacattcggttgcattcccaacagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATAACAAACTTCCAGTTGTAGAAAAGTTCCTCTCACGAGAAGAACAGTCCTGATGTCTGTGATGAAgtaaggagtagtactgtgccctgccactttctggcctgccatttgcctgg Alignment from CESAR ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAACTGCCAGTTGTAGAGAAATTCCTGTCA-GACAAGAACAGCCCCGACGTCTGCGATGAG ggatggaaggataggaaaacaatcagtacattcggttgcattcccaacagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATAACAAACTTCCAGTTGTAGAAAAGTTCCTCTCACGAGAAGAACAGTCCTGATGTCTGTGATGAAgtaaggagtagtactgtgccctgccactttctggcctgccatttgcctgg Alignment from Spaln_aa2Genome ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAACTGCCAGTTGTAGAGAAATTCCTGTCA-GACAAGAACAGCCCCGACGTCTGCGATGAG ggatggaaggataggaaaacaatcagtacattcggttgcattcccaacagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATAACAAACTTCCAGTTGTAGAAAAGTTCCTCTCAcGAGAAGAACAGTCCTGATGTCTGTGATGAAgtaaggagtagtactgtgccctgccactttctggcctgccatttgcctgg Alignment from Spaln_nt2Genome ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAACTGCCAGTTGTAGAGAAATTCCTGTCA-GACAAGAACAGCCCCGACGTCTGCGATGAG ggatggaaggataggaaaacaatcagtacattcggttgcattcccaacagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATAACAAACTTCCAGTTGTAGAAAAGTTCCTCTCACGAGAAGAACAGTCCTGATGTCTGTGATGAAgtaaggagtagtactgtgccctgccactttctggcctgccatttgcctgg Alignment from Pairagon ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAACTGCCAGTTGTAGAGAAATTCCTGTCA-GACAAGAACAGCCCCGACGTCTGCGATGAG ggatggaaggataggaaaacaatcagtacattcggttgcattcccaacagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATAACAAACTTCCAGTTGTAGAAAAGTTCCTCTCACGAGAAGAACAGTCCTGATGTCTGTGATGAAgtaaggagtagtactgtgccctgccactttctggcctgccatttgcctgg Alignment from Exonerate_protein2genome ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAACTGCCAGTTGTAGAGAAATTCCTGTCA-GACAAGAACAGCCCCGACGTCTGCGATGAG ggatggaaggataggaaaacaatcagtacattcggttgcattcccaacagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATAACAAACTTCCAGTTGTAGAAAAGTTCCTCTCACGAGAAGAACAGTCCTGATGTCTGTGATGAAgtaaggagtagtactgtgccctgccactttctggcctgccatttgcctgg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAACTGCCAGTTGTAGAGAAATTCCTGTCA-GACAAGAACAGCCCCGACGTCTGCGATGAG ggatggaaggataggaaaacaatcagtacattcggttgcattcccaacagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATAACAAACTTCCAGTTGTAGAAAAGTTCCTCTCACGAGAAGAACAGTCCTGATGTCTGTGATGAAgtaaggagtagtactgtgccctgccactttctggcctgccatttgcctgg #### B3gat3_ID2492_4 --> 0 - 0 Original Alignment ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTA-GATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG agtcagtcttttcagactaaccttcccttttctgtgtctcactttgaaagATGCGCTGGACGCGTGGTGTCTCCGTGTGGCCTGTTGGCTTGGTGGGTGGCCTACGATTTGAAAGTCCCCAAGTACAGGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATCGCCCTGCCCTTACTATTAGCTAAACCCAATGCCCGATTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGTCACCTTGTACGATCCAACAGATTTGGAATCGCGGGCCGCCAATTGTACTCAGgtaagaggtcagttagcaggtcagaaaaatgggggatggtgggctaagca Alignment from CESAR ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTA-GATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG agtcagtcttttcagactaaccttcccttttctgtgtctcactttgaaagATGCGCTGGACGCGTGGTGTCTCCGTGTGGCCTGTTGGCTTGGTGGGTGGCCTACGATTTGAAAGTCCCCAAGTACAGGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATCGCCCTGCCCTTACTATTAGCTAAACCCAATGCCCGATTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGTCACCTTGTACGATCCAACAGATTTGGAATCGCGGGCCGCCAATTGTACTCAGgtaagaggtcagttagcaggtcagaaaaatgggggatggtgggctaagca Alignment from Spaln_aa2Genome ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTA-GATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG agtcagtcttttcagactaaccttcccttttctgtgtctcactttgaaagATGCGCTGGACGCGTGGTGTCTCCGTGTGGCCTGTTGGCTTGGTGGGTGGCCTACGATTTGAAAGTCCCCAAGTACAGGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATCGCCCTGCCCTTACTATTAGCTAAACCCAATGCCCGATTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGTCACCTTGTAcGATCCAACAGATTTGGAATCGCGGGCCGCCAATTGTACTCAGgtaagaggtcagttagcaggtcagaaaaatgggggatggtgggctaagca Alignment from Spaln_nt2Genome ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTA-GATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG agtcagtcttttcagactaaccttcccttttctgtgtctcactttgaaagATGCGCTGGACGCGTGGTGTCTCCGTGTGGCCTGTTGGCTTGGTGGGTGGCCTACGATTTGAAAGTCCCCAAGTACAGGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATCGCCCTGCCCTTACTATTAGCTAAACCCAATGCCCGATTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGTCACCTTGTACGATCCAACAGATTTGGAATCGCGGGCCGCCAATTGTACTCAGgtaagaggtcagttagcaggtcagaaaaatgggggatggtgggctaagca Alignment from Pairagon ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTA-GATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG agtcagtcttttcagactaaccttcccttttctgtgtctcactttgaaagATGCGCTGGACGCGTGGTGTCTCCGTGTGGCCTGTTGGCTTGGTGGGTGGCCTACGATTTGAAAGTCCCCAAGTACAGGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATCGCCCTGCCCTTACTATTAGCTAAACCCAATGCCCGATTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGTCACCTTGTACGATCCAACAGATTTGGAATCGCGGGCCGCCAATTGTACTCAGgtaagaggtcagttagcaggtcagaaaaatgggggatggtgggctaagca Alignment from Exonerate_protein2genome ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTA-GATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG agtcagtcttttcagactaaccttcccttttctgtgtctcactttgaaagATGCGCTGGACGCGTGGTGTCTCCGTGTGGCCTGTTGGCTTGGTGGGTGGCCTACGATTTGAAAGTCCCCAAGTACAGGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATCGCCCTGCCCTTACTATTAGCTAAACCCAATGCCCGATTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGTCACCTTGTACGATCCAACAGATTTGGAATCGCGGGCCGCCAATTGTACTCAGgtaagaggtcagttagcaggtcagaaaaatgggggatggtgggctaagca Alignment from Exonerate_coding2genome ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTA-GATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAGGTA agtcagtcttttcagactaaccttcccttttctgtgtctcactttgaaagATGCGCTGGACGCGTGGTGTCTCCGTGTGGCCTGTTGGCTTGGTGGGTGGCCTACGATTTGAAAGTCCCCAAGTACAGGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATCGCCCTGCCCTTACTATTAGCTAAACCCAATGCCCGATTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGTCACCTTGTACGATCCAACAGATTTGGAATCGCGGGCCGCCAATTGTACTCAGGTAagaggtcagttagcaggtcagaaaaatgggggatggtgggctaagca Alignment from GeneWise ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTT-GTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG agtcagtcttttcagactaaccttcccttttctgtgtctcactttgaaagATGCGCTGGACGCGTGGTGTCTCCGTGTGGCCTGTTGGCTTGGTGGGTGGCCTACGATTTGAAAGTCCCCAAGTACAGGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATCGCCCTGCCCTTACTATTAGCTAAACCCAATGCCCGATTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGTCACCTTGTACGATCCAACAGATTTGGAATCGCGGGCCGCCAATTGTACTCAGgtaagaggtcagttagcaggtcagaaaaatgggggatggtgggctaagca #### BC048609_ID1423_2 --> 0 - 1 Original Alignment TTCTCCCAGGTGATCAGCATCGGCTGGGCTGCCATGGGGTCACTCTACGCAGAGATGACCGGTGACAAGTTTCTTAGATGCTTTGCT-TTGACCATTCTGa tgcaatgattgtgcacccatcaggtatctaaattgtgcttttaaattcagTTCTCTCAAGTAATCAGTATTGGTTGGGCTACCATGGGACCACTGTACCAGGAGATGACTGGTGACAAGTTTCTTAGATGCTTTGCACCTGACCATCCTCagtgtgtgggggcaggagcatgaagggggggcatttttccctacctctaga Alignment from CESAR TTCTCCCAGGTGATCAGCATCGGCTGGGCTGCCATGGGGTCACTCTACGCAGAGATGACCGGTGACAAGTTTCTTAGATGCTTTGCT-TTGACCATTCTGa tgcaatgattgtgcacccatcaggtatctaaattgtgcttttaaattcagTTCTCTCAAGTAATCAGTATTGGTTGGGCTACCATGGGACCACTGTACCAGGAGATGACTGGTGACAAGTTTCTTAGATGCTTTGCACCTGACCATCCTCagtgtgtgggggcaggagcatgaagggggggcatttttccctacctctaga Alignment from Spaln_aa2Genome TTCTCCCAGGTGATCAGCATCGGCTGGGCTGCCATGGGGTCACTCTACGCAGAGATGACCGGTGACAAGTTTCTTAGATGCTTTGCT-TTGACCATTCTGA tgcaatgattgtgcacccatcaggtatctaaattgtgcttttaaattcagTTCTCTCAAGTAATCAGTATTGGTTGGGCTACCATGGGACCACTGTACCAGGAGATGACTGGTGACAAGTTTCTTAGATGCTTTGCAcCTGACCATCCTCAgtgtgtgggggcaggagcatgaagggggggcatttttccctacctctaga Alignment from Spaln_nt2Genome TTCTCCCAGGTGATCAGCATCGGCTGGGCTGCCATGGGGTCACTCTACGCAGAGATGACCGGTGACAAGTTTCTTAGATGCTTTGCTT-TGACCATTCTGA tgcaatgattgtgcacccatcaggtatctaaattgtgcttttaaattcagTTCTCTCAAGTAATCAGTATTGGTTGGGCTACCATGGGACCACTGTACCAGGAGATGACTGGTGACAAGTTTCTTAGATGCTTTGCACCTGACCATCCTCAgtgtgtgggggcaggagcatgaagggggggcatttttccctacctctaga Alignment from Pairagon TTCTCCCAGGTGATCAGCATCGGCTGGGCTGCCATGGGGTCACTCTACGCAGAGATGACCGGTGACAAGTTTCTTAGATGCTTTGC-TTTGACCATTCTGA tgcaatgattgtgcacccatcaggtatctaaattgtgcttttaaattcagTTCTCTCAAGTAATCAGTATTGGTTGGGCTACCATGGGACCACTGTACCAGGAGATGACTGGTGACAAGTTTCTTAGATGCTTTGCACCTGACCATCCTCAgtgtgtgggggcaggagcatgaagggggggcatttttccctacctctaga Alignment from Exonerate_protein2genome TTCTCCCAGGTGATCAGCATCGGCTGGGCTGCCATGGGGTCACTCTACGCAGAGATGACCGGTGACAAGTTTCTTAGATGCTTTGCT-TTGACCATTCTGA tgcaatgattgtgcacccatcaggtatctaaattgtgcttttaaattcagTTCTCTCAAGTAATCAGTATTGGTTGGGCTACCATGGGACCACTGTACCAGGAGATGACTGGTGACAAGTTTCTTAGATGCTTTGCACCTGACCATCCTCAgtgtgtgggggcaggagcatgaagggggggcatttttccctacctctaga Alignment from Exonerate_coding2genome TTCTCCCAGGTGATCAGCATCGGCTGGGCTGCCATGGGGTCACTCTACGCAGAGATGACCGGTGACAAGTTTCTTAGATGCTTTGCT-TTGACCATTCTGA tgcaatgattgtgcacccatcaggtatctaaattgtgcttttaaattcagTTCTCTCAAGTAATCAGTATTGGTTGGGCTACCATGGGACCACTGTACCAGGAGATGACTGGTGACAAGTTTCTTAGATGCTTTGCACCTGACCATCCTCAgtgtgtgggggcaggagcatgaagggggggcatttttccctacctctaga Alignment from GeneWise TTCTCCCAGGTGATCAGCATCGGCTGGGCTGCCATGGGGTCACTCTACGCAGAGATGACCGGTGACAAGTTTCTTAGATGCTTTGCTTTGACCATTCTGATC- tgcaatgattgtgcacccatcaggtatctaaattgtgcttttaaattcagTTCTCTCAAGTAATCAGTATTGGTTGGGCTACCATGGGACCACTGTACCAGGAGATGACTGGTGACAAGTTTCTTAGATGCTTTGCACCTGACCATCCTCAGTgtgtgggggcaggagcatgaagggggggcatttttccctacctctaga #### Bbs1_ID729_5 --> 0 - 2 Original Alignment GACCAGATTGACCCCTTAACCCTGAAGGAGATG-CTGGAGGACATCag aaacttcagggtgctactactggctgcatatatctttcttctctccccagGATCAT---GACCCATTGACCTTGAAAGATATGCTTGGAACATATCaggtaccggttcaattttttcatggtggcccttcgttgttccttgataatag Alignment from CESAR GACCAGATTGACCCCTTAACCCTGAAGGAGATG-CTGGAGGACATCag aaacttcagggtgctactactggctgcatatatctttcttctctccccagGATCAT---GACCCATTGACCTTGAAAGATATGCTTGGAACATATCaggtaccggttcaattttttcatggtggcccttcgttgttccttgactcgtt Alignment from Spaln_aa2Genome GACCAGATTGACCCCTTAACCCTGAAGGAGAT aaacttcagggtgctactactggctgcatatatctttcttctctccccagGATCAT---GACCCATTGACCTTGAAAGATATgcttggaacatatcaggtaccggttcaattttttcatggtggcccttcgttgttccttgataatag Alignment from Spaln_nt2Genome GACCAGATTGACCCCTTAACCCTGAAGGAGATGCT-GGAGGACATCAG aaacttcagggtgctactactggctgcatatatctttcttctctccccagGATCA---TGACCCATTGACCTTGAAAGATATGCTTGGAACATATCAGgtaccggttcaattttttcatggtggcccttcgttgttccttgataatag Alignment from Pairagon GACCAGATTGACCCCTTAACCCTGAAGGAGATGC-TGGAGGACATCAGG------------------------------------------------- aaacttcagggtgctactactggctgcatatatctttcttctctccccagGATCA---TGACCCATTGACCTTGAAAGATATGCTTGGAACATATCAGGTACCGGTTCAATTTTTTCATGGTGGCCCTTCGTTGTTCCTTGATAATAG Alignment from Exonerate_protein2genome GACCAGATTGACCCCTTAACCCTGAAGGAGATG-CTGGAGGACATCAG aaacttcagggtgctactactggctgcatatatctttcttctctccccagGATCAT---GACCCATTGACCTTGAAAGATATGCTTGGAACATATCAGgtaccggttcaattttttcatggtggcccttcgttgttccttgataatag Alignment from Exonerate_coding2genome aaacttcagggtgctactactggctgcatatatctttcttctctccccaggatcatgacccattgaccttgaaagatatgcttggaacatatcaggtaccggttcaattttttcatggtggcccttcgttgttccttgataatag Alignment from GeneWise aaacttcagggtgctactactggctgcatatatctttcttctctccccaggatcatgacccattgaccttgaaagatatgcttggaacatatcaggtaccggttcaattttttcatggtggcccttcgttgttccttgataatag #### Bbs1_ID732_2 --> 1 - 1 Original Alignment cAACGAAGCCAATTCTAAATGGCTG-GACGCACACTACGACCCCATGGCCAACATCCACACCTTC---TCCTCCTGCCTGt cataccttttaaacccatctccccttcttcagaaacattgttctcccaaggAACGAGGTAAATTCCAAGTGGCTGCGATGCACACTATGACCCTATGGCTAACAACCATACTTTCTCGTCTTCTTGTCTGtgtgagtcctgatgccttacttgcagcccaggatataacgagactgcaaac Alignment from CESAR cAACGAAGCCAATTCTAAATGGCTG-GACGCACACTACGACCCCATGGCCAACATCCACACCTTC---TCCTCCTGCCTGt cataccttttaaacccatctccccttcttcagaaacattgttctcccaaggAACGAGGTAAATTCCAAGTGGCTGCGATGCACACTATGACCCTATGGCTAACAACCATACTTTCTCGTCTTCTTGTCTGtgtgagtcctgatgccttacttgcagcccaggatataacgagactgcctgt Alignment from Spaln_aa2Genome CAACGAAGCCAATTCTAAATGGCTG-GACGCACACTACGACCCCATGGCCAACATCCACACCTTC---TCCTCCTGCCTGT cataccttttaaacccatctccccttcttcagaaacattgttctcccaagGAACGAGGTAAATTCCAAGTGGCTGcGATGCACACTATGACCCTATGGCTAACAACCATACTTTCTCGTCTTCTTGTCTGTgtgagtcctgatgccttacttgcagcccaggatataacgagactgcaaac Alignment from Spaln_nt2Genome CAACGAAGCCAATTCTAAATGGCTG-GACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCT---GCCTGT cataccttttaaacccatctccccttcttcagaaacattgttctcccaagGAACGAGGTAAATTCCAAGTGGCTGCGATGCACACTATGACCCTATGGCTAACAACCATACTTTCTCGTCTTCTTGTCTGTgtgagtcctgatgccttacttgcagcccaggatataacgagactgcaaac Alignment from Pairagon CAACGAAGCCAATTCTAAATGGCTG-GACGCACACTACGACCCCATGGCCAACATCCACACCTTC---TCCTCCTGCCTGT cataccttttaaacccatctccccttcttcagaaacattgttctcccaagGAACGAGGTAAATTCCAAGTGGCTGCGATGCACACTATGACCCTATGGCTAACAACCATACTTTCTCGTCTTCTTGTCTGTgtgagtcctgatgccttacttgcagcccaggatataacgagactgcaaac Alignment from Exonerate_protein2genome CAACGAAGCCAATTCTAAATGGCTG-GACGCACACTACGACCCCATGGCCAACATCCACACCTTC---TCCTCCTGCCTGT cataccttttaaacccatctccccttcttcagaaacattgttctcccaagGAACGAGGTAAATTCCAAGTGGCTGCGATGCACACTATGACCCTATGGCTAACAACCATACTTTCTCGTCTTCTTGTCTGTgtgagtcctgatgccttacttgcagcccaggatataacgagactgcaaac Alignment from Exonerate_coding2genome cataccttttaaacccatctccccttcttcagaaacattgttctcccaaggaacgaggtaaattccaagtggctgcgatgcacactatgaccctatggctaacaaccatactttctcgtcttcttgtctgtgtgagtcctgatgccttacttgcagcccaggatataacgagactgcaaac Alignment from GeneWise GACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCC---TGCCTGTCACT cataccttttaaacccatctccccttcttcagaaacattgttctcccaaggaacgaggtaaattccaagtggctgcGATGCACACTATGACCCTATGGCTAACAACCATACTTTCTCGTCTTCTTGTCTGTGTGAgtcctgatgccttacttgcagcccaggatataacgagactgcaaac #### Blnk_ID8061_10 --> 1 - 0 Original Alignment gAAGAAGCCAGCTACA-CCACTTAAGACT attaatgtaggccaatgagtcttttgctcctcagccctgtacctccacaggAAGAAGCCAGCAACACCCCCTCAAGACTgtacgttaacaacaaaataccctctagcaccaattgactctcttgagtga Alignment from CESAR gAAGAAGCCAGCTACA-CCACTTAAGACT attaatgtaggccaatgagtcttttgctcctcagccctgtacctccacaggAAGAAGCCAGCAACACCCCCTCAAGACTgtacgttaacaacaaaataccctctagcaccaattgactctcttgagtga Alignment from Spaln_aa2Genome GAAGAAGCCAGCTACACCA-CTTAAGACT attaatgtaggccaatgagtcttttgctcctcagccctgtacctccacagGAAGAAGCCAGCAACACCCcCTCAAGACTgtacgttaacaacaaaataccctctagcaccaattgactctcttgagtga Alignment from Spaln_nt2Genome GAAGAAGCCAGCTACACCACTT-AAGACT attaatgtaggccaatgagtcttttgctcctcagccctgtacctccacagGAAGAAGCCAGCAACACCCCCTCAAGACTgtacgttaacaacaaaataccctctagcaccaattgactctcttgagtga Alignment from Pairagon GAAGAAGCCAGCTACA-CCACTTAAGACT attaatgtaggccaatgagtcttttgctcctcagccctgtacctccacagGAAGAAGCCAGCAACACCCCCTCAAGACTgtacgttaacaacaaaataccctctagcaccaattgactctcttgagtga Alignment from Exonerate_protein2genome GAAGAAGCCAGCTACA-CCACTTAAGACT attaatgtaggccaatgagtcttttgctcctcagccctgtacctccacagGAAGAAGCCAGCAACACCCCCTCAAGACTgtacgttaacaacaaaataccctctagcaccaattgactctcttgagtga Alignment from Exonerate_coding2genome attaatgtaggccaatgagtcttttgctcctcagccctgtacctccacaggaagaagccagcaacaccccctcaagactgtacgttaacaacaaaataccctctagcaccaattgactctcttgagtga Alignment from GeneWise attaatgtaggccaatgagtcttttgctcctcagccctgtacctccacaggaagaagccagcaacaccccctcaagactgtacgttaacaacaaaataccctctagcaccaattgactctcttgagtga #### Bscl2_ID2424_7 --> 1 - 0 Original Alignment gTACCTGCTGTACAACTTCCCCATGACCTGCGCC-TTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctaacagccatgtgtttctttttcccccctaccccacaggTACCTGCTTTACAATTTTCCTATGACTTGTGCCCTTTGTGGGTGTAGCAAGCAACTTCACATTTCTCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaaatgttcttgggctcattttctctcactagacaaaggaacctatatc Alignment from CESAR gTACCTGCTGTACAACTTCCCCATGACCTGCGCC-TTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctaacagccatgtgtttctttttcccccctaccccacaggTACCTGCTTTACAATTTTCCTATGACTTGTGCCCTTTGTGGGTGTAGCAAGCAACTTCACATTTCTCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaaatgttcttgggctcattttctctcactagacaaaggaacctatatc Alignment from Spaln_aa2Genome GTACCTGCTGTACAACTTCCCCATGACCTGCGCC-TTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctaacagccatgtgtttctttttcccccctaccccacagGTACCTGCTTTACAATTTTCCTATGACTTGTGCCcTTTGTGGGTGTAGCAAGCAACTTCACATTTCTCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaaatgttcttgggctcattttctctcactagacaaaggaacctatatc Alignment from Spaln_nt2Genome GTACCTGCTGTACAACTTCCCCATGACCTGCGCC-TTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctaacagccatgtgtttctttttcccccctaccccacagGTACCTGCTTTACAATTTTCCTATGACTTGTGCCCTTTGTGGGTGTAGCAAGCAACTTCACATTTCTCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaaatgttcttgggctcattttctctcactagacaaaggaacctatatc Alignment from Pairagon GTACCTGCTGTACAACTTCCCCATGACCTGCG-CCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctaacagccatgtgtttctttttcccccctaccccacagGTACCTGCTTTACAATTTTCCTATGACTTGTGCCCTTTGTGGGTGTAGCAAGCAACTTCACATTTCTCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaaatgttcttgggctcattttctctcactagacaaaggaacctatatc Alignment from Exonerate_protein2genome GTACCTGCTGTACAACTTCCCCATGACCTGCGCC-TTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAGGTTAATATCCGACAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGAT ccaacttaactctaacagccatgtgtttctttttcccccctaccccacagGTACCTGCTTTACAATTTTCCTATGACTTGTGCCCTTTGTGGGTGTAGCAAGCAACTTCACATTTCTCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGCAGGTAAATGTTCTTGGGCTCATTTTCTCTCACTAGACAAAGGAACCTATATC Alignment from Exonerate_coding2genome GTACCTGCTGTACAACTTCCCCATGACCTGCGCC-TTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAGGTTAATATCCGACAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGAT ccaacttaactctaacagccatgtgtttctttttcccccctaccccacagGTACCTGCTTTACAATTTTCCTATGACTTGTGCCCTTTGTGGGTGTAGCAAGCAACTTCACATTTCTCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGCAGGTAAATGTTCTTGGGCTCATTTTCTCTCACTAGACAAAGGAACCTATATC Alignment from GeneWise GTACCTGCTGTACAACTTCCCCATGACCTGC-GCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctaacagccatgtgtttctttttcccccctaccccacagGTACCTGCTTTACAATTTTCCTATGACTTGTGCCCTTTGTGGGTGTAGCAAGCAACTTCACATTTCTCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaaatgttcttgggctcattttctctcactagacaaaggaacctatatc #### Bscl2_ID2426_9 --> 2 - 1 Original Alignment gtCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGATGGTGAG-AGCCCTGAAGATCCCTCAGGAACAg agtgttaggtccttgtgttgggggtaaaaataaagtcttttactgcacaggtCAGAAATCCACCCAGCAGTCAGATGTTATGGAGGATGGTGAGCAGCCCTGAAGATCCCTCAAGAACAggtaaggtcaggctccctaacatctttattgagatagattttcagttctgg Alignment from CESAR gtCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGATGGTGAG-AGCCCTGAAGATCCCTCAGGAACAg agtgttaggtccttgtgttgggggtaaaaataaagtcttttactgcacaggtCAGAAATCCACCCAGCAGTCAGATGTTATGGAGGATGGTGAGCAGCCCTGAAGATCCCTCAAGAACAggtaaggtcaggctccctaacatctttattgagatagattttcagttctgg Alignment from Spaln_aa2Genome GTCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGATGGTGAG-AGCCCTGAAGATCCCTCAGGAACAG agtgttaggtccttgtgttgggggtaaaaataaagtcttttactgcacagGTCAGAAATCCACCCAGCAGTCAGATGTTATGGAGGATGGTGAGcAGCCCTGAAGATCCCTCAAGAACAGgtaaggtcaggctccctaacatctttattgagatagattttcagttctgg Alignment from Spaln_nt2Genome GTCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGATGGTGAG-AGCCCTGAAGATCCCTCAGGAACAG agtgttaggtccttgtgttgggggtaaaaataaagtcttttactgcacagGTCAGAAATCCACCCAGCAGTCAGATGTTATGGAGGATGGTGAGCAGCCCTGAAGATCCCTCAAGAACAGgtaaggtcaggctccctaacatctttattgagatagattttcagttctgg Alignment from Pairagon GTCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGATGGTGAG-AGCCCTGAAGATCCCTCAGGAACAG agtgttaggtccttgtgttgggggtaaaaataaagtcttttactgcacagGTCAGAAATCCACCCAGCAGTCAGATGTTATGGAGGATGGTGAGCAGCCCTGAAGATCCCTCAAGAACAGgtaaggtcaggctccctaacatctttattgagatagattttcagttctgg Alignment from Exonerate_protein2genome agtgttaggtccttgtgttgggggtaaaaataaagtcttttactgcacaggtcagaaatccacccagcagtcagatgttatggaggatggtgagcagccctgaagatccctcaagaacaggtaaggtcaggctccctaacatctttattgagatagattttcagttctgg Alignment from Exonerate_coding2genome agtgttaggtccttgtgttgggggtaaaaataaagtcttttactgcacaggtcagaaatccacccagcagtcagatgttatggaggatggtgagcagccctgaagatccctcaagaacaggtaaggtcaggctccctaacatctttattgagatagattttcagttctgg Alignment from GeneWise agtgttaggtccttgtgttgggggtaaaaataaagtcttttactgcacaggtcagaaatccacccagcagtcagatgttatggaggatggtgagcagccctgaagatccctcaagaacaggtaaggtcaggctccctaacatctttattgagatagattttcagttctgg #### Bscl2_ID2427_10 --> 2 - 1 Original Alignment agGGCCAGCTGTCTGAGGAAGAGAAA-CCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATg aatttctaatactcccacccccattgcagctccatttcttttctcctcagagGGCCAA---CCAGAAGAGATGAAACGCAAAGAAGTGGCCGCTGAATAGGGAGGACAAGCGGGAACCGGATGCTGGTGCTggtacagactgcttggggggtcgcttgcttaacataatgtagtcgagaaga Alignment from CESAR agGGCCAGCTGTCTGAGGAAGAGAAA-CCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATg aatttctaatactcccacccccattgcagctccatttcttttctcctcagagGGCCAA---CCAGAAGAGATGAAACGCAAAGAAGTGGCCGCTGAATAGGGAGGACAAGCGGGAACCGGATGCTGGTGCTggtacagactgcttggggggtcgcttgcttaacataatgtagtcgagaaga Alignment from Spaln_aa2Genome AGGGCCAGCTGTCTGAGGAAGAGAAA-CCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG aatttctaatactcccacccccattgcagctccatttcttttctcctcagAGGGCCAA---CCAGAAGAGATGAAAcGCAAAGAAGTGGCCGCTGAATAGGGAGGACAAGCGGGAACCGGATGCTGGTGCTGgtacagactgcttggggggtcgcttgcttaacataatgtagtcgagaaga Alignment from Spaln_nt2Genome AGGGCCAGCTGTCTGAGGAAGAGAAAC-CAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG aatttctaatactcccacccccattgcagctccatttcttttctcctcagAGGGCCAAC---CAGAAGAGATGAAACGCAAAGAAGTGGCCGCTGAATAGGGAGGACAAGCGGGAACCGGATGCTGGTGCTGgtacagactgcttggggggtcgcttgcttaacataatgtagtcgagaaga Alignment from Pairagon AGGGCCAGCTGTCTGAGGAAGAGAAACCAG----------------AGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG aatttctaatactcccacccccattgcagctccatttcttttctcctcagAGGGCC------------------AACCAGAAGAGATGAAACGCAAAGAAGTGGCCGCTGAATAGGGAGGACAAGCGGGAACCGGATGCTGGTGCTGgtacagactgcttggggggtcgcttgcttaacataatgtagtcgagaaga Alignment from Exonerate_protein2genome aatttctaatactcccacccccattgcagctccatttcttttctcctcagagggccaaccagaagagatgaaacgcaaagaagtggccgctgaatagggaggacaagcgggaaccggatgctggtgctggtacagactgcttggggggtcgcttgcttaacataatgtagtcgagaaga Alignment from Exonerate_coding2genome aatttctaatactcccacccccattgcagctccatttcttttctcctcagagggccaaccagaagagatgaaacgcaaagaagtggccgctgaatagggaggacaagcgggaaccggatgctggtgctggtacagactgcttggggggtcgcttgcttaacataatgtagtcgagaaga Alignment from GeneWise AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG aatttctaatactcccacccccattgcagctccatttcttttctcctcagAGGGCCAACCAGAAGAGATGAAACGCA--AAGAAGTGGCCGCTGAATAGGGAGGACAAGCGGGAACCGGATGCTGGTGCTGgtacagactgcttggggggtcgcttgcttaacataatgtagtcgagaaga #### Btaf1_ID7227_10 --> 0 - 0 Original Alignment ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTC-GTTTCTGATGAA tctttctctagtacagagttaacattggaacatcaatttgattccttcagATCATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGACTTTCGTTTCTGATGAAgtaagtgcaggttaaagctatggatgtacatacccactccatatcagttt Alignment from CESAR ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGAC-TTCGTTTCTGATGAA tctttctctagtacagagttaacattggaacatcaatttgattccttcagATCATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGACTTTCGTTTCTGATGAAgtaagtgcaggttaaagctatggatgtacatacccactccatatacttcc Alignment from Spaln_aa2Genome GATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTC-GTTTCTGATGA tctttctctagtacagagttaacattggaacatcaatttgattccttcagATCATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGACTTTcGTTTCTGATGAAgtaagtgcaggttaaagctatggatgtacatacccactccatatcagttt Alignment from Spaln_nt2Genome ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACT-TCGTTTCTGATGAA tctttctctagtacagagttaacattggaacatcaatttgattccttcagATCATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGACTTTCGTTTCTGATGAAgtaagtgcaggttaaagctatggatgtacatacccactccatatcagttt Alignment from Pairagon ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGAC-TTCGTTTCTGATGAA tctttctctagtacagagttaacattggaacatcaatttgattccttcagATCATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGACTTTCGTTTCTGATGAAgtaagtgcaggttaaagctatggatgtacatacccactccatatcagttt Alignment from Exonerate_protein2genome ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGAC-TTCGTTTCTGATGAA tctttctctagtacagagttaacattggaacatcaatttgattccttcagATCATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGACTTTCGTTTCTGATGAAgtaagtgcaggttaaagctatggatgtacatacccactccatatcagttt Alignment from Exonerate_coding2genome ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGAC-TTCGTTTCTGATGAA tctttctctagtacagagttaacattggaacatcaatttgattccttcagATCATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGACTTTCGTTTCTGATGAAgtaagtgcaggttaaagctatggatgtacatacccactccatatcagttt Alignment from GeneWise ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTC-GTTTCTGATGAA tctttctctagtacagagttaacattggaacatcaatttgattccttcagATCATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGACTTTCGTTTCTGATGAAgtaagtgcaggttaaagctatggatgtacatacccactccatatcagttt #### Btaf1_ID7249_28 --> 1 - 2 Original Alignment gGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCTTCCTTGGTGGTTTGTCCACCAACA-TTAACAGGTCATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAag gcttaaaacctgatcaatctaatgataacctttcaaacttatttcgccaggGCCCAGGAATATGCAAGATCAAGATTAGCAGAGTGTATGTCACTCCCTTCCCTAGTGGTTTGTCCTCCATCACTTGACAGGTCACTGGGTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTACATTATACCGGCCCTTCCACTGAAAGGATAaggtaagtgggtggattatctaacaatccatagctaaagctaaggtcctttg Alignment from CESAR gGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCTTCCTTGGTGGTTTGTCCACCAACA-TTAACAGGTCATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAag gcttaaaacctgatcaatctaatgataacctttcaaacttatttcgccaggGCCCAGGAATATGCAAGATCAAGATTAGCAGAGTGTATGTCACTCCCTTCCCTAGTGGTTTGTCCTCCATCACTTGACAGGTCACTGGGTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTACATTATACCGGCCCTTCCACTGAAAGGATAaggtaagtgggtggattatctaacaatccatagctaaagctaaggtcctttg Alignment from Spaln_aa2Genome GGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCTTCCTTGGTGGTTTGTCCACCAACA-TTAACAGGTCATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAAG gcttaaaacctgatcaatctaatgataacctttcaaacttatttcgccagGGCCCAGGAATATGCAAGATCAAGATTAGCAGAGTGTATGTCACTCCCTTCCCTAGTGGTTTGTCCTCCATCAcTTGACAGGTCACTGGGTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTACATTATACCGGCCCTTCCACTGAAAGGATAAGgtaagtgggtggattatctaacaatccatagctaaagctaaggtcctttg Alignment from Spaln_nt2Genome GGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCTTCCTTGGTGGTTTGTCCACCAACA-TTAACAGGTCATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAAG gcttaaaacctgatcaatctaatgataacctttcaaacttatttcgccagGGCCCAGGAATATGCAAGATCAAGATTAGCAGAGTGTATGTCACTCCCTTCCCTAGTGGTTTGTCCTCCATCACTTGACAGGTCACTGGGTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTACATTATACCGGCCCTTCCACTGAAAGGATAAGgtaagtgggtggattatctaacaatccatagctaaagctaaggtcctttg Alignment from Pairagon GGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCTTCCTTGGTGGTTTGTCCACCAACA-TTAACAGGTCATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAAG gcttaaaacctgatcaatctaatgataacctttcaaacttatttcgccagGGCCCAGGAATATGCAAGATCAAGATTAGCAGAGTGTATGTCACTCCCTTCCCTAGTGGTTTGTCCTCCATCACTTGACAGGTCACTGGGTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTACATTATACCGGCCCTTCCACTGAAAGGATAAGgtaagtgggtggattatctaacaatccatagctaaagctaaggtcctttg Alignment from Exonerate_protein2genome GGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCTTCCTTGGTGGTTTGTCCACCAACA-TTAACAGGTCATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAAG gcttaaaacctgatcaatctaatgataacctttcaaacttatttcgccagGGCCCAGGAATATGCAAGATCAAGATTAGCAGAGTGTATGTCACTCCCTTCCCTAGTGGTTTGTCCTCCATCACTTGACAGGTCACTGGGTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTACATTATACCGGCCCTTCCACTGAAAGGATAAGgtaagtgggtggattatctaacaatccatagctaaagctaaggtcctttg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCTTCCTTGGTGGTTTGTCCACCA-ACATTAACAGGTCATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAAG gcttaaaacctgatcaatctaatgataacctttcaaacttatttcgccagGGCCCAGGAATATGCAAGATCAAGATTAGCAGAGTGTATGTCACTCCCTTCCCTAGTGGTTTGTCCTCCATCACTTGACAGGTCACTGGGTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTACATTATACCGGCCCTTCCACTGAAAGGATAAGgtaagtgggtggattatctaacaatccatagctaaagctaaggtcctttg #### Btrc_ID9458_8 --> 0 - 0 Original Alignment ACAATAGAGTCCAAT-TGGAGATGTGGGCGACATAGTTTACAGAGAATCCACTGCCGGAGTGAAACAAGTAAAGGGGTTTACTGTTTACAGTACGACGACCAGAAGATAGTCAGCGGCCTTCGAGACAACACCATCAAG tgcgatgggtcgttaggatgtttcactgctgagccctcttcatcttccagACAATAGAGTCCAATCTGGAGATGTGGGCGACATAGTTTACAGAGGATTTACTGCCGGAGTGAAACAAGCAAAGGGGTTTATTGTTTACAGTATGATGATCAGAAGATAGTCAGTGGTCTTCAAGACAACACCATCAAGgtatgctaagctgcttgtatcgccataagatttgacttttggggtcagag Alignment from CESAR ACAATAGAGTCCAAT-TGGAGATGTGGGCGACATAGTTTACAGAGAATCCACTGCCGGAGTGAAACAAGTAAAGGGGTTTACTGTTTACAGTACGACGACCAGAAGATAGTCAGCGGCCTTCGAGACAACACCATCAAG tgcgatgggtcgttaggatgtttcactgctgagccctcttcatcttccagACAATAGAGTCCAATCTGGAGATGTGGGCGACATAGTTTACAGAGGATTTACTGCCGGAGTGAAACAAGCAAAGGGGTTTATTGTTTACAGTATGATGATCAGAAGATAGTCAGTGGTCTTCAAGACAACACCATCAAGgtatgctaagctgcttgtatcgccataagatttgacttttggggtcagag Alignment from Spaln_aa2Genome ACAATAGAGTCCAAT-TGGAGATGTGGGCGACATAGTTTACAGAGAATCCACTGCCGGAGTGAAACAAGTAAAGGGGTTTACTGTTTACAGTACGACGACCAGAAGATAGTCAGCGGCCTTCGAGACAACACCATCAAG tgcgatgggtcgttaggatgtttcactgctgagccctcttcatcttccagACAATAGAGTCCAATcTGGAGATGTGGGCGACATAGTTTACAGAGGATTTACTGCCGGAGTGAAACAAGCAAAGGGGTTTATTGTTTACAGTATGATGATCAGAAGATAGTCAGTGGTCTTCAAGACAACACCATCAAGgtatgctaagctgcttgtatcgccataagatttgacttttggggtcagag Alignment from Spaln_nt2Genome ACAATAGAGTCCAAT-TGGAGATGTGGGCGACATAGTTTACAGAGAATCCACTGCCGGAGTGAAACAAGTAAAGGGGTTTACTGTTTACAGTACGACGACCAGAAGATAGTCAGCGGCCTTCGAGACAACACCATCAAG tgcgatgggtcgttaggatgtttcactgctgagccctcttcatcttccagACAATAGAGTCCAATCTGGAGATGTGGGCGACATAGTTTACAGAGGATTTACTGCCGGAGTGAAACAAGCAAAGGGGTTTATTGTTTACAGTATGATGATCAGAAGATAGTCAGTGGTCTTCAAGACAACACCATCAAGgtatgctaagctgcttgtatcgccataagatttgacttttggggtcagag Alignment from Pairagon ACAATAGAGTCCAAT-TGGAGATGTGGGCGACATAGTTTACAGAGAATCCACTGCCGGAGTGAAACAAGTAAAGGGGTTTACTGTTTACAGTACGACGACCAGAAGATAGTCAGCGGCCTTCGAGACAACACCATCAAG tgcgatgggtcgttaggatgtttcactgctgagccctcttcatcttccagACAATAGAGTCCAATCTGGAGATGTGGGCGACATAGTTTACAGAGGATTTACTGCCGGAGTGAAACAAGCAAAGGGGTTTATTGTTTACAGTATGATGATCAGAAGATAGTCAGTGGTCTTCAAGACAACACCATCAAGgtatgctaagctgcttgtatcgccataagatttgacttttggggtcagag Alignment from Exonerate_protein2genome ACAATAGAGTCCAAT-TGGAGATGTGGGCGACATAGTTTACAGAGAATCCACTGCCGGAGTGAAACAAGTAAAGGGGTTTACTGTTTACAGTACGACGACCAGAAGATAGTCAGCGGCCTTCGAGACAACACCATCAAG tgcgatgggtcgttaggatgtttcactgctgagccctcttcatcttccagACAATAGAGTCCAATCTGGAGATGTGGGCGACATAGTTTACAGAGGATTTACTGCCGGAGTGAAACAAGCAAAGGGGTTTATTGTTTACAGTATGATGATCAGAAGATAGTCAGTGGTCTTCAAGACAACACCATCAAGgtatgctaagctgcttgtatcgccataagatttgacttttggggtcagag Alignment from Exonerate_coding2genome ACAATAGAGTCCAAT-TGGAGATGTGGGCGACATAGTTTACAGAGAATCCACTGCCGGAGTGAAACAAGTAAAGGGGTTTACTGTTTACAGTACGACGACCAGAAGATAGTCAGCGGCCTTCGAGACAACACCATCAAG tgcgatgggtcgttaggatgtttcactgctgagccctcttcatcttccagACAATAGAGTCCAATCTGGAGATGTGGGCGACATAGTTTACAGAGGATTTACTGCCGGAGTGAAACAAGCAAAGGGGTTTATTGTTTACAGTATGATGATCAGAAGATAGTCAGTGGTCTTCAAGACAACACCATCAAGgtatgctaagctgcttgtatcgccataagatttgacttttggggtcagag Alignment from GeneWise ---ACAATAGAGTCCAATTGGAGATGTGGGCGACATAGTTTACAGAGAATCCACTGCCGGAGTGAAACAAGTAAAGGGGTTTACTGTTTACAGTACGACGACCAGAAGATAGTCAGCGGCCTTCGAGACAACACCATCAAG tgcgatgggtcgttaggatgtttcactgctgagccctcttcatcttccagacaatagAGTCCAATC---------TGGAGATGTGGGCGACATAGTTTACAGAGGATTTACTGCCGGAGTGAAACAAGCAAAGGGGTTTATTGTTTACAGTATGATGATCAGAAGATAGTCAGTGGTCTTCAAGACAACACCATCAAGgtatgctaagctgcttgtatcgccataagatttgacttttggggtcagag #### Cabp2_ID288_3 --> 0 - 1 Original Alignment GATCGAGAGCTG-AGACCAGAAGAGATCGAAg ttgttatactagagattggaacgcaaccagcgtgtgtgtttctcatttagGAGCGAGAG---CAGACCAGAA------AAAggtaagttattatagttgatactatagctgaggtacagtgtgtacccagga Alignment from CESAR GATCGAGAGCTGAGACCAGAAGAGATCGAAg ttgttatactagagattggaacgcaaccagcgtgtgtgtttctcatttagGAGCGAGAG--CAGACCAGAA------AAAggtaagttattatagttgatactatagctgaggtacagtgtgtacccagga Alignment from Spaln_aa2Genome AGACCAGAAGAGATCGAAG ttgttatactagAGATTGGAACGCAACCAGCgtgtgtgtttctcatttaggagcgagagcagaccagaaaaaggtaagttattatagttgatactatagctgaggtacagtgtgtacccagga Alignment from Spaln_nt2Genome GATCGAGAGCTGAGACCAGAAGAGATCGAAG ttgttatactagagattggaacgcaaccagcgtgtgtgtttctcatttagGAGCGAGAGC--AGACCAGAA------AAAGgtaagttattatagttgatactatagctgaggtacagtgtgtacccagga Alignment from Pairagon GATCGAGAGCTGAGACCAGAAGAGATCGAAG ttgttatactagagattggaacgcaaccagcgtgtgtgtttctcatttagGAGCGAGAGC--AGACCAGAA------AAAGgtaagttattatagttgatactatagctgaggtacagtgtgtacccagga Alignment from Exonerate_protein2genome ttgttatactagagattggaacgcaaccagcgtgtgtgtttctcatttaggagcgagagcagaccagaaaaaggtaagttattatagttgatactatagctgaggtacagtgtgtacccagga Alignment from Exonerate_coding2genome ttgttatactagagattggaacgcaaccagcgtgtgtgtttctcatttaggagcgagagcagaccagaaaaaggtaagttattatagttgatactatagctgaggtacagtgtgtacccagga Alignment from GeneWise ttgttatactagagattggaacgcaaccagcgtgtgtgtttctcatttaggagcgagagcagaccagaaaaaggtaagttattatagttgatactatagctgaggtacagtgtgtacccagga #### Cabp2_ID289_4 --> 2 - 1 Original Alignment agCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACA-CTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCa tcacccccttataacagctagggtggaatttttcattgtttttccattagagCTGCAGATAGGCTTCCAGGAGTTTGACCGAGACAGGGACGGCTACATCGGGTACCGAGAGCTGGGTGACTGCATGCAGACACCTGGGATACATGCCCACAGAGATGGCGCTCATAGAGATATCACAACAGGTTagtaattgtgattcttgtggccagtgcacatagccccctggcacatgggtg Alignment from CESAR agCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACA-CTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCa tcacccccttataacagctagggtggaatttttcattgtttttccattagagCTGCAGATAGGCTTCCAGGAGTTTGACCGAGACAGGGACGGCTACATCGGGTACCGAGAGCTGGGTGACTGCATGCAGACACCTGGGATACATGCCCACAGAGATGGCGCTCATAGAGATATCACAACAGGTTagtaattgtgattcttgtggccagtgcacatagccccctggcacatgggtg Alignment from Spaln_aa2Genome ATCGAAGAGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACA-CTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA ccttataacagctagggtggaatttttcattgtttttccatta gAGCTGCAGATAGGCTTCCAGGAGTTTGACCGAGACAGGGACGGCTACATCGGGTACCGAGAGCTGGGTGACTGCATGCAGACAcCTGGGATACATGCCCACAGAGATGGCGCTCATAGAGATATCACAACAGGTTAgtaattgtgattcttgtggccagtgcacatagccccctggcacatgggtg Alignment from Spaln_nt2Genome AGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACA-CTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAG tcacccccttataacagctagggtggaatttttcattgtttttccattagAGCTGCAGATAGGCTTCCAGGAGTTTGACCGAGACAGGGACGGCTACATCGGGTACCGAGAGCTGGGTGACTGCATGCAGACACCTGGGATACATGCCCACAGAGATGGCGCTCATAGAGATATCACAACAGgttagtaattgtgattcttgtggccagtgcacatagccccctggcacatgggtg Alignment from Pairagon AGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACA-CTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA tcacccccttataacagctagggtggaatttttcattgtttttccattagAGCTGCAGATAGGCTTCCAGGAGTTTGACCGAGACAGGGACGGCTACATCGGGTACCGAGAGCTGGGTGACTGCATGCAGACACCTGGGATACATGCCCACAGAGATGGCGCTCATAGAGATATCACAACAGGTTAgtaattgtgattcttgtggccagtgcacatagccccctggcacatgggtg Alignment from Exonerate_protein2genome AGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACA-CTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA tcacccccttataacagctagggtggaatttttcattgtttttccattagAGCTGCAGATAGGCTTCCAGGAGTTTGACCGAGACAGGGACGGCTACATCGGGTACCGAGAGCTGGGTGACTGCATGCAGACACCTGGGATACATGCCCACAGAGATGGCGCTCATAGAGATATCACAACAGGTTAgtaattgtgattcttgtggccagtgcacatagccccctggcacatgggtg Alignment from Exonerate_coding2genome AGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACA-CTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA tcacccccttataacagctagggtggaatttttcattgtttttccattagAGCTGCAGATAGGCTTCCAGGAGTTTGACCGAGACAGGGACGGCTACATCGGGTACCGAGAGCTGGGTGACTGCATGCAGACACCTGGGATACATGCCCACAGAGATGGCGCTCATAGAGATATCACAACAGGTTAgtaattgtgattcttgtggccagtgcacatagccccctggcacatgggtg Alignment from GeneWise CTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACA-CTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA tcacccccttataacagctagggtggaatttttcattgtttttccattagagCTGCAGATAGGCTTCCAGGAGTTTGACCGAGACAGGGACGGCTACATCGGGTACCGAGAGCTGGGTGACTGCATGCAGACACCTGGGATACATGCCCACAGAGATGGCGCTCATAGAGATATCACAACAGGTTAgtaattgtgattcttgtggccagtgcacatagccccctggcacatgggtg #### Cabp4_ID342_2 --> 0 - 1 Original Alignment GATCGTGAACTG-GGCCCTGAGGAGTTGGAGg ccataatcaggctctgcatggatggcggaaagtttcctccttaaactcagGATCGTGAGCTGCGGGCCTGAGGAGTTGGAAggtgagtgactcttcctctttatgagaagcctcggagttgataaaatatct Alignment from CESAR GATCGTGAACTG-GGCCCTGAGGAGTTGGAGg ccataatcaggctctgcatggatggcggaaagtttcctccttaaactcagGATCGTGAGCTGCGGGCCTGAGGAGTTGGAAggtgagtgactcttcctctttatgagaagcctcggagttgataaaatatct Alignment from Spaln_aa2Genome GATCGTGAACTG-GGCCCTGAGGAGTTGGAGG ccataatcaggctctgcatggatggcggaaagtttcctccttaaactcagGATCGTGAGCTGcGGGCCTGAGGAGTTGGAAGgtgagtgactcttcctctttatgagaagcctcggagttgataaaatatct Alignment from Spaln_nt2Genome GATCGTGAACTG-GGCCCTGAGGAGTTGGAGG ccataatcaggctctgcatggatggcggaaagtttcctccttaaactcagGATCGTGAGCTGCGGGCCTGAGGAGTTGGAAGgtgagtgactcttcctctttatgagaagcctcggagttgataaaatatct Alignment from Pairagon GATCGTGAACTG-GGCCCTGAGGAGTTGGAGG ccataatcaggctctgcatggatggcggaaagtttcctccttaaactcagGATCGTGAGCTGCGGGCCTGAGGAGTTGGAAGgtgagtgactcttcctctttatgagaagcctcggagttgataaaatatct Alignment from Exonerate_protein2genome GATCGTGAACTG-GGCCCTGAGGAGTTGGAGG ccataatcaggctctgcatggatggcggaaagtttcctccttaaactcagGATCGTGAGCTGCGGGCCTGAGGAGTTGGAAGgtgagtgactcttcctctttatgagaagcctcggagttgataaaatatct Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ccataatcaggctctgcatggatggcggaaagtttcctccttaaactcaggatcgtgagctgcgggcctgaggagttggaaggtgagtgactcttcctctttatgagaagcctcggagttgataaaatatct #### Capn1_ID1356_20 --> 2 - 0 Original Alignment ggTTTTTCAAACTTCTGGACACA-GACCTGGATGGTGTTGTGACCTTTGATCTATTTAAG atcagggtaacaaggagaaaccagccagaccgcttgcctccctcccacagggTTTTCCAAACTACTAGACCGACGGCCTGGATGGTGTTGTTACCTTTGATCTTTTTAGAgtaattaaataagaacgaattctaccccatctgatcagcatggggggtgc Alignment from CESAR ggTTTTTCAAACTTCTGGACACAGAC---CTGGATGGTGTTGTGACCTTTGATCTATTTAAG atcagggtaacaaggagaaaccagccagaccgcttgcctccctcccacagggTTTTCCAAACTACTAG--ACCGACGGCCTGGATGGTGTTGTTACCTTTGATCTTTTTAGAgtaattaaataagaacgaattctaccccatctgatcagcatggggggtgc Alignment from Spaln_aa2Genome GGTTTTTCAAACTTCTGGACACA-GACCTGGATGGTGTTGTGACCTTTGATCTATTTAAG atcagggtaacaaggagaaaccagccagaccgcttgcctccctcccacagGGTTTTCCAAACTACTAGACCGAcGGCCTGGATGGTGTTGTTACCTTTGATCTTTTTAGAgtaattaaataagaacgaattctaccccatctgatcagcatggggggtgc Alignment from Spaln_nt2Genome GGTTTTTCAAACTTCTGGACACA-GACCTGGATGGTGTTGTGACCTTTGATCTATTTAAG atcagggtaacaaggagaaaccagccagaccgcttgcctccctcccacagGGTTTTCCAAACTACTAGACCGACGGCCTGGATGGTGTTGTTACCTTTGATCTTTTTAGAgtaattaaataagaacgaattctaccccatctgatcagcatggggggtgc Alignment from Pairagon GGTTTTTCAAACTTCTGGACACA-GACCTGGATGGTGTTGTGACCTTTGATCTATTTA atcagggtaacaaggagaaaccagccagaccgcttgcctccctcccacagGGTTTTCCAAACTACTAGACCGACGGCCTGGATGGTGTTGTTACCTTTGATCTTTTTAgagtaattaaataagaacgaattctaccccatctgatcagcatggggggtgc Alignment from Exonerate_protein2genome GGTTTTTCAAACTTCTGGAC-ACAGACCTGGATGGTGTTGTGACCTTTGATCTATTTAAG atcagggtaacaaggagaaaccagccagaccgcttgcctccctcccacagGGTTTTCCAAACTACTAGACCGACGGCCTGGATGGTGTTGTTACCTTTGATCTTTTTAGAgtaattaaataagaacgaattctaccccatctgatcagcatggggggtgc Alignment from Exonerate_coding2genome atcagggtaacaaggagaaaccagccagaccgcttgcctccctcccacagggttttccaaactactagaccgacggcctggatggtgttgttacctttgatctttttagagtaattaaataagaacgaattctaccccatctgatcagcatggggggtgc Alignment from GeneWise atcagggtaacaaggagaaaccagccagaccgcttgcctccctcccacagggttttccaaactactagaccgacggcctggatggtgttgttacctttgatctttttagagtaattaaataagaacgaattctaccccatctgatcagcatggggggtgc #### Carns1_ID389_3 --> 2 - 1 Original Alignment gcTGCCCTGGGGCAGAGGTG-ACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTg gcaaggagtaacaatatggaggatatgatcagttccacttccttccccaggcTTCCCTGGGGCAGAAGTCCACCTTGTGTGTTCTAGGGTCACTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTCCAAAGCCCTggtgtgatattgcttccaaatgcccccttgtcctacaaaattggaacatgg Alignment from CESAR gcTGCCCTGGGGCAGAGGTG-ACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTg gcaaggagtaacaatatggaggatatgatcagttccacttccttccccaggcTTCCCTGGGGCAGAAGTCCACCTTGTGTGTTCTAGGGTCACTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTCCAAAGCCCTggtgtgatattgcttccaaatgcccccttgtcctacaaaattggaacatgg Alignment from Spaln_aa2Genome GCTGCCCTGGGGCAGAGGTG-ACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG gcaaggagtaacaatatggaggatatgatcagttccacttccttccccagGCTTCCCTGGGGCAGAAGTCcACCTTGTGTGTTCTAGGGTCACTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTCCAAAGCCCTGgtgtgatattgcttccaaatgcccccttgtcctacaaaattggaacatgg Alignment from Spaln_nt2Genome GCTGCCCTGGGGCAGAGGTG-ACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG gcaaggagtaacaatatggaggatatgatcagttccacttccttccccagGCTTCCCTGGGGCAGAAGTCCACCTTGTGTGTTCTAGGGTCACTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTCCAAAGCCCTGgtgtgatattgcttccaaatgcccccttgtcctacaaaattggaacatgg Alignment from Pairagon GCTGCCCTGGGGCAGAGGT-GACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG gcaaggagtaacaatatggaggatatgatcagttccacttccttccccagGCTTCCCTGGGGCAGAAGTCCACCTTGTGTGTTCTAGGGTCACTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTCCAAAGCCCTGgtgtgatattgcttccaaatgcccccttgtcctacaaaattggaacatgg Alignment from Exonerate_protein2genome GCTGCCCTGGGGCAGAGGTG-ACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG gcaaggagtaacaatatggaggatatgatcagttccacttccttccccagGCTTCCCTGGGGCAGAAGTCCACCTTGTGTGTTCTAGGGTCACTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTCCAAAGCCCTGgtgtgatattgcttccaaatgcccccttgtcctacaaaattggaacatgg Alignment from Exonerate_coding2genome GCTGCCCTGGGGCAGAGGTG-ACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG gcaaggagtaacaatatggaggatatgatcagttccacttccttccccagGCTTCCCTGGGGCAGAAGTCCACCTTGTGTGTTCTAGGGTCACTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTCCAAAGCCCTGgtgtgatattgcttccaaatgcccccttgtcctacaaaattggaacatgg Alignment from GeneWise ---ACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG gcaaggagtaacaatatggaggatatgatcagttccacttccttccccaggcttccctggggcagaagTCCACCTTGTGTGTTCTAGGGTCACTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTCCAAAGCCCTGgtgtgatattgcttccaaatgcccccttgtcctacaaaattggaacatgg #### Catsper1_ID929_6 --> 2 - 1 Original Alignment tcCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTC-CAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAg gcGCCT ttggactttcccttcgctatgttagatgttctttttttttctctctctagtcCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATCCAGATCCCAAGCGTTTCCCAGAATGTCTTTACAACACTCTTCACCCTTTTCATGATGCTTAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAAGGCCCAGggtgagatagcctaagtctccagtcatgtggcccaccctttccagctGCCT Alignment from CESAR tcCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTC-CAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAg gcGCCT ttggactttcccttcgctatgttagatgttctttttttttctctctctagtcCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATCCAGATCCCAAGCGTTTCCCAGAATGTCTTTACAACACTCTTCACCCTTTTCATGATGCTTAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAAGGCCCAGggtgagatagcctaagtctccaggccaatgtctcttgcttttcagctGCCT Alignment from Spaln_aa2Genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTC-CAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGCCT ttggactttcccttcgctatgttagatgttctttttttttctctctctagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATCCAGATCCCAAGCGTTTCcCAGAATGTCTTTACAACACTCTTCACCCTTTTCATGATGCTTAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAAGGCCCAGGgtgagatagcctaagtctccagtcatgtggcccaccctttccagCTGCCT Alignment from Spaln_nt2Genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCC-AGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGCCT ttggactttcccttcgctatgttagatgttctttttttttctctctctagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATCCAGATCCCAAGCGTTTCCCAGAATGTCTTTACAACACTCTTCACCCTTTTCATGATGCTTAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAAGGCCCAGGgtgagatagcctaagtctccagtcatgtggcccaccctttccagCTGCCT Alignment from Pairagon TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTT-CCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGCCT ttggactttcccttcgctatgttagatgttctttttttttctctctctagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATCCAGATCCCAAGCGTTTCCCAGAATGTCTTTACAACACTCTTCACCCTTTTCATGATGCTTAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAAGGCCCAGGgtgagatagcctaagtctccagtcatgtggcccaccctttccagCTGCCT Alignment from Exonerate_protein2genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTC-CAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGCCT ttggactttcccttcgctatgttagatgttctttttttttctctctctagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATCCAGATCCCAAGCGTTTCCCAGAATGTCTTTACAACACTCTTCACCCTTTTCATGATGCTTAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAAGGCCCAGGgtgagatagcctaagtctccagtcatgtggcccaccctttccagCTGCCT Alignment from Exonerate_coding2genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTC-CAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGCCT ttggactttcccttcgctatgttagatgttctttttttttctctctctagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATCCAGATCCCAAGCGTTTCCCAGAATGTCTTTACAACACTCTTCACCCTTTTCATGATGCTTAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAAGGCCCAGGgtgagatagcctaagtctccagtcatgtggcccaccctttccagCTGCCT Alignment from GeneWise TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTC-CAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGCCT ttggactttcccttcgctatgttagatgttctttttttttctctctctagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATCCAGATCCCAAGCGTTTCCCAGAATGTCTTTACAACACTCTTCACCCTTTTCATGATGCTTAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAAGGCCCAGGgtgagatagcctaagtctccagtcatgtggcccaccctttccagCTGCCT #### Catsper1_ID930_7 --> 2 - 2 Original Alignment CCCAAg gcGCCTGGTACATCATACCGATCCTCATGATTTACATT-GTCATCCAGTACTTCATCTTCCTCaa CCCAGggtgagttagcctaagtctccaggccaatgtctcttgcttttcagctGCCTGGTACATCATCCCAATCCTCATGATCTATATTCGTTATCCAATACTTTACATTCCTCaagtatatcattgaactcttccaatcagcacccgccaagcactaacaatcct Alignment from CESAR CCCAAg gcGCCTGGTACATCATACCGATCCTCATGATTTACATT-GTCATCCAGTACTTCATCTTCCTCaa CCCAGggtgagatagcctaagtctccaggccaatgtctcttgcttttcagctGCCTGGTACATCATCCCAATCCTCATGATCTATATTCGTTATCCAATACTTTACATTCCTCaagtatatcattgaactcttccaatcagcacccgccaagcactaacaatcct Alignment from Spaln_aa2Genome CCCAAG GCGCCTGGTACATCATACCGATCCTCATGATTTACATT-GTCATCCAGTACTTCATCTTCCTCAA CCCAGGgtgagttagcctaagtctccaggccaatgtctcttgcttttcagCTGCCTGGTACATCATCCCAATCCTCATGATCTATATTcGTTATCCAATACTTTACATTCCTCAAgtatatcattgaactcttccaatcagcacccgccaagcactaacaatcct Alignment from Spaln_nt2Genome CCCAAG GCGCCTGGTACATCATACCGATCCTCATGATTTACATT-GTCATCCAGTACTTCATCTTCCTCAA CCCAGGgtgagttagcctaagtctccaggccaatgtctcttgcttttcagCTGCCTGGTACATCATCCCAATCCTCATGATCTATATTCGTTATCCAATACTTTACATTCCTCAAgtatatcattgaactcttccaatcagcacccgccaagcactaacaatcct Alignment from Pairagon CCCAAG GCGCCTGGTACATCATACCGATCCTCATGATTTACATT-GTCATCCAGTACTTCATCTTCCTCAA CCCAGGgtgagttagcctaagtctccaggccaatgtctcttgcttttcagCTGCCTGGTACATCATCCCAATCCTCATGATCTATATTCGTTATCCAATACTTTACATTCCTCAAgtatatcattgaactcttccaatcagcacccgccaagcactaacaatcct Alignment from Exonerate_protein2genome CCCAAG GCGCCTGGTACATCATACCGATCCTCATGATTTACATT-GTCATCCAGTACTTCATCTTCCTCAA CCCAGGgtgagttagcctaagtctccaggccaatgtctcttgcttttcagCTGCCTGGTACATCATCCCAATCCTCATGATCTATATTCGTTATCCAATACTTTACATTCCTCAAgtatatcattgaactcttccaatcagcacccgccaagcactaacaatcct Alignment from Exonerate_coding2genome CCCAAG GCGCCTGGTACATCATACCGATCCTCATGATTTACATT-GTCATCCAGTACTTCATCTTCCTCAA CCCAGGgtgagttagcctaagtctccaggccaatgtctcttgcttttcagCTGCCTGGTACATCATCCCAATCCTCATGATCTATATTCGTTATCCAATACTTTACATTCCTCAAgtatatcattgaactcttccaatcagcacccgccaagcactaacaatcct Alignment from GeneWise CCCAAG GCGCCTGGTACAT CCCAGGgtgagttagcctaagtctccaggccaatgtctcttgcttttcagctgcctggtacatcatcccaatcctcatgatctatattcgttatccaatactttacattcctcaagtatatcattgaactcttccaatcagcacccgccaagCACTAACAATCCT #### Catsper1_ID931_8 --> 1 - 0 Original Alignment cCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTA-GAGAAAGTGAAGCTGGAG atcctcattcctaagccccatttatgcaattgtgttgcctgtcattacagtCTAGTAATTGCAGCTCTAGTAGACAACTTCCTAATGGTCCTGCTCAAAGGCCTGCGAGAAAGTGAAGCTGGAAgtacttacgatgtagaagggtagataatccagatgtgctgtgcaaaggtg Alignment from CESAR cCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTA-GAGAAAGTGAAGCTGGAG atcctcattcctaagccccatttatgcaattgtgttgcctgtcattacagtCTAGTAATTGCAGCTCTAGTAGACAACTTCCTAATGGTCCTGCTCAAAGGCCTGCGAGAAAGTGAAGCTGGAAgtacttacgatgtagaagggtagataatccagatgtgctgtgcaaaggtg Alignment from Spaln_aa2Genome CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTA-GAGAAAGTGAAGCTGGAG atcctcattcctaagccccatttatgcaattgtgttgcctgtcattacagTCTAGTAATTGCAGCTCTAGTAGACAACTTCCTAATGGTCCTGCTCAAAGGCCTGcGAGAAAGTGAAGCTGGAAgtacttacgatgtagaagggtagataatccagatgtgctgtgcaaaggtg Alignment from Spaln_nt2Genome CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTA-GAGAAAGTGAAGCTGGAG atcctcattcctaagccccatttatgcaattgtgttgcctgtcattacagTCTAGTAATTGCAGCTCTAGTAGACAACTTCCTAATGGTCCTGCTCAAAGGCCTGCGAGAAAGTGAAGCTGGAAgtacttacgatgtagaagggtagataatccagatgtgctgtgcaaaggtg Alignment from Pairagon CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTA-GAGAAAGTGAAGCTGGAG atcctcattcctaagccccatttatgcaattgtgttgcctgtcattacagTCTAGTAATTGCAGCTCTAGTAGACAACTTCCTAATGGTCCTGCTCAAAGGCCTGCGAGAAAGTGAAGCTGGAAgtacttacgatgtagaagggtagataatccagatgtgctgtgcaaaggtg Alignment from Exonerate_protein2genome CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTA-GAGAAAGTGAAGCTGGAG atcctcattcctaagccccatttatgcaattgtgttgcctgtcattacagTCTAGTAATTGCAGCTCTAGTAGACAACTTCCTAATGGTCCTGCTCAAAGGCCTGCGAGAAAGTGAAGCTGGAAgtacttacgatgtagaagggtagataatccagatgtgctgtgcaaaggtg Alignment from Exonerate_coding2genome CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTA-GAGAAAGTGAAGCTGGAG atcctcattcctaagccccatttatgcaattgtgttgcctgtcattacagTCTAGTAATTGCAGCTCTAGTAGACAACTTCCTAATGGTCCTGCTCAAAGGCCTGCGAGAAAGTGAAGCTGGAAgtacttacgatgtagaagggtagataatccagatgtgctgtgcaaaggtg Alignment from GeneWise CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAA- atcctcattcctaagccccatttatgcaattgtgttgcctgtcattacagTCTAGTAATTGCAGCTCTAGTAGACAACTTCCTAATGGTCCTGCTCAAAGGCCTGCGAGAAAgtgaagctggaagtacttacgatgtagaagggtagataatccagatgtgctgtgcaaaggtg #### Ccdc88b_ID1824_25 --> 2 - 1 Original Alignment ggTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCC-CTGGGGGCACCCAGTACCCACAGCAAAg tgtcatgatgacctgcctgatccatacactgccagcctcctcccttctagggTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCCGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTATTGGACGAAGTCCAGCTTCATTCAGTCCCAGC---ACCTCACAGCAATGGTTCAAACAGCAGAGGCCAGGCCCCCCTTGGGGCACTGAGTACCTACAGCAAAggtaataggtgttttactataatttcaatttcgatagttttaagttgtcaa Alignment from CESAR ggTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGC-CCCCTGGGGGCACCCAGTACCCACAGCAAAg tgtcatgatgacctgcctgatccatacactgccagcctcctcccttctagggTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCCGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTATTGGACGAAGTCCAGCTTCATTCAGTCCCAGC---ACCTCACAGCAATGGTTCAAACAGCAGAGGCCAGGCCCCCCTTGGGGCACTGAGTACCTACAGCAAAggtaataggtgttttactataatttcaatttcgatagttttaagttgtcaa Alignment from Spaln_aa2Genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGC-CCCCTGGGGGCACCCAGTACCCACAGCAAAG tgtcatgatgacctgcctgatccatacactgccagcctcctcccttctagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCCGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTATTGGACGAAGTCCAGCTTCATTCAGTCCCAGC---ACCTCACAGCAATGGTTCAAACAGCAGAGGCCAGGCcCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtaataggtgttttactataatttcaatttcgatagttttaagttgtcaa Alignment from Spaln_nt2Genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCC-TGGGGGCACCCAGTACCCACAGCAAAG tgtcatgatgacctgcctgatccatacactgccagcctcctcccttctagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCCGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTATTGGACGAAGTCCAGCTTCATTCAGTCCCAG---CACCTCACAGCAATGGTTCAAACAGCAGAGGCCAGGCCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtaataggtgttttactataatttcaatttcgatagttttaagttgtcaa Alignment from Pairagon GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGG-CCCCCTGGGGGCACCCAGTACCCACAGCAAAG tgtcatgatgacctgcctgatccatacactgccagcctcctcccttctagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCCGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTATTGGACGAAGTCCAGCTTCATTCAGTCCCAG---CACCTCACAGCAATGGTTCAAACAGCAGAGGCCAGGCCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtaataggtgttttactataatttcaatttcgatagttttaagttgtcaa Alignment from Exonerate_protein2genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGC-CCCCTGGGGGCACCCAGTACCCACAGCAAAG tgtcatgatgacctgcctgatccatacactgccagcctcctcccttctagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCCGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTATTGGACGAAGTCCAGCTTCATTCAGTCCC---AGCACCTCACAGCAATGGTTCAAACAGCAGAGGCCAGGCCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtaataggtgttttactataatttcaatttcgatagttttaagttgtcaa Alignment from Exonerate_coding2genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGC-CCCCTGGGGGCACCCAGTACCCACAGCAAAG tgtcatgatgacctgcctgatccatacactgccagcctcctcccttctagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCCGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTATTGGACGAAGTCCAGCTTCATTCAGTCCC---AGCACCTCACAGCAATGGTTCAAACAGCAGAGGCCAGGCCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtaataggtgttttactataatttcaatttcgatagttttaagttgtcaa Alignment from GeneWise GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCC-CTGGGGGCACCCAGTACCCACAGCAAAG tgtcatgatgacctgcctgatccatacactgccagcctcctcccttctagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCCGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTATTGGACGAAGTCCAGCTTCATTCAGTCCC---AGCACCTCACAGCAATGGTTCAAACAGCAGAGGCCAGGCCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtaataggtgttttactataatttcaatttcgatagttttaagttgtcaa #### Ccdc88b_ID1825_24 --> 1 - 1 Original Alignment gAAGGGCAGCTGGCTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGC-AGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAg tcttaactgcccctttgtatggagcttcaaatgtccctttttctctctaggAGGGGCAGCTGGCTAGCAGAAAAGGTCAGGAGGCTCATTCGACCCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTTGGGGCTGATGGGGCTGGCCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGATTGAATTGCCAGAAGGCAGGGAGGTTGATGGGACAggtaaggaaaaccatctaacaggtagagtacccctggttgaaatttaatgg Alignment from CESAR gAAGGGCAGCTGGCTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGC-AGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAg tcttaactgcccctttgtatggagcttcaaatgtccctttttctctctaggAGGGGCAGCTGGCTAGCAGAAAAGGTCAGGAGGCTCATTCGACCCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTTGGGGCTGATGGGGCTGGCCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGATTGAATTGCCAGAAGGCAGGGAGGTTGATGGGACAggtaaggaaaaccatctaacaggtagagtacccctggttgaaatttaatgg Alignment from Spaln_aa2Genome GAAGGGCAGCTGGCTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGC-AGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAG tcttaactgcccctttgtatggagcttcaaatgtccctttttctctctagGAGGGGCAGCTGGCTAGCAGAAAAGGTCAGGAGGCTCATTCGACCCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTTGGGGCTGATGGGGCTGGCcAGTACTGAAAGTTTGGGAGGCCCTCTAGAGATTGAATTGCCAGAAGGCAGGGAGGTTGATGGGACAGgtaaggaaaaccatctaacaggtagagtacccctggttgaaatttaatgg Alignment from Spaln_nt2Genome GAAGGGCAGCTGGCTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGC-AGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAG tcttaactgcccctttgtatggagcttcaaatgtccctttttctctctagGAGGGGCAGCTGGCTAGCAGAAAAGGTCAGGAGGCTCATTCGACCCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTTGGGGCTGATGGGGCTGGCCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGATTGAATTGCCAGAAGGCAGGGAGGTTGATGGGACAGgtaaggaaaaccatctaacaggtagagtacccctggttgaaatttaatgg Alignment from Pairagon GAAGGGCAGCTGGCTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGG-CAGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAG tcttaactgcccctttgtatggagcttcaaatgtccctttttctctctagGAGGGGCAGCTGGCTAGCAGAAAAGGTCAGGAGGCTCATTCGACCCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTTGGGGCTGATGGGGCTGGCCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGATTGAATTGCCAGAAGGCAGGGAGGTTGATGGGACAGgtaaggaaaaccatctaacaggtagagtacccctggttgaaatttaatgg Alignment from Exonerate_protein2genome GAAGGGCAGCTGGCTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGC-AGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAG tcttaactgcccctttgtatggagcttcaaatgtccctttttctctctagGAGGGGCAGCTGGCTAGCAGAAAAGGTCAGGAGGCTCATTCGACCCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTTGGGGCTGATGGGGCTGGCCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGATTGAATTGCCAGAAGGCAGGGAGGTTGATGGGACAGgtaaggaaaaccatctaacaggtagagtacccctggttgaaatttaatgg Alignment from Exonerate_coding2genome GAAGGGCAGCTGGCTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGC-AGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAG tcttaactgcccctttgtatggagcttcaaatgtccctttttctctctagGAGGGGCAGCTGGCTAGCAGAAAAGGTCAGGAGGCTCATTCGACCCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTTGGGGCTGATGGGGCTGGCCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGATTGAATTGCCAGAAGGCAGGGAGGTTGATGGGACAGgtaaggaaaaccatctaacaggtagagtacccctggttgaaatttaatgg Alignment from GeneWise GAAGGGCAGCTGGCTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGC-AGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAG tcttaactgcccctttgtatggagcttcaaatgtccctttttctctctagGAGGGGCAGCTGGCTAGCAGAAAAGGTCAGGAGGCTCATTCGACCCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTTGGGGCTGATGGGGCTGGCCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGATTGAATTGCCAGAAGGCAGGGAGGTTGATGGGACAGgtaaggaaaaccatctaacaggtagagtacccctggttgaaatttaatgg #### Ccdc88b_ID1829_20 --> 1 - 2 Original Alignment gCATGAGCAGTTG-CAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGag ctcaaaaagccaatgagccaatggtcaggaaaattgctctctctttacagtCGTGGACAGTTGCCATGCCCAGTGGGCAAATGTTGAGGCTCAAGATGTAGCACTGCTGGCAGAA---GAACAACTGATGCAGGATGGGCAGTGCCAGTGTGGGCTCGATGAGGAGCTGCGCAGGCTTCATAATGAACATCAAcggtagtcttgttagctctggcttacctccccccctaccatagcattatcat Alignment from CESAR gCATGAGCAGTTG-CAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGag ctcaaaaagccaatgagccaatggtcaggaaaattgctctctctttacagtCGTGGACAGTTGCCATGCCCAGTGGGCAAATGTTGAGGCTCAAGATGTAGCACTGCTGGCAGAA---GAACAACTGATGCAGGATGGGCAGTGCCAGTGTGGGCTCGATGAGGAGCTGCGCAGGCTTCATAATGAACATCAAcggtagtcttgttagctctggcttacctccccccctaccatagcattatcat Alignment from Spaln_aa2Genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagccaatgagccaatggtcaggaaaattgctctctctttacagtcgtggacagTTGC---------CATGCCCAGTGGGCAAATGTTGAGGCTCAAGATGTAGCACTGCTGGCAGAA---GAACAACTGATGCAGGATGGGCAGTGCCAGTGTGGGCTCGATGAGGAGCTGCGCAGGCTTCATAATGAACATCAACGgtagtcttgttagctctggcttacctccccccctaccatagcattatcat Alignment from Spaln_nt2Genome GCATGAGCAGTTGC-AGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagccaatgagccaatggtcaggaaaattgctctctctttacagTCGTGGACAGTTGCCATGCCCAGTGGGCAAATGTTGAGGCTCAAGATGTAGCACTGCTGGCAGA---AGAACAACTGATGCAGGATGGGCAGTGCCAGTGTGGGCTCGATGAGGAGCTGCGCAGGCTTCATAATGAACATCAACGgtagtcttgttagctctggcttacctccccccctaccatagcattatcat Alignment from Pairagon GCATGAGCAGTTG-CAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagccaatgagccaatggtcaggaaaattgctctctctttacagTCGTGGACAGTTGCCATGCCCAGTGGGCAAATGTTGAGGCTCAAGATGTAGCACTGCTGGCAGAA---GAACAACTGATGCAGGATGGGCAGTGCCAGTGTGGGCTCGATGAGGAGCTGCGCAGGCTTCATAATGAACATCAACGgtagtcttgttagctctggcttacctccccccctaccatagcattatcat Alignment from Exonerate_protein2genome GCATGAGCAGTTG-CAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagccaatgagccaatggtcaggaaaattgctctctctttacagTCGTGGACAGTTGCCATGCCCAGTGGGCAAATGTTGAGGCTCAAGATGTAGCACTGCTGGCAGAA---GAACAACTGATGCAGGATGGGCAGTGCCAGTGTGGGCTCGATGAGGAGCTGCGCAGGCTTCATAATGAACATCAACGgtagtcttgttagctctggcttacctccccccctaccatagcattatcat Alignment from Exonerate_coding2genome GCATGAGCAGTTG-CAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagccaatgagccaatggtcaggaaaattgctctctctttacagTCGTGGACAGTTGCCATGCCCAGTGGGCAAATGTTGAGGCTCAAGATGTAGCACTGCTGGCAGAA---GAACAACTGATGCAGGATGGGCAGTGCCAGTGTGGGCTCGATGAGGAGCTGCGCAGGCTTCATAATGAACATCAACGgtagtcttgttagctctggcttacctccccccctaccatagcattatcat Alignment from GeneWise GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAGA-- ctcaaaaagccaatgagccaatggtcaggaaaattgctctctctttacagtcgtggacagT---------TGCCATGCCCAGTGGGCAAATGTTGAGGCTCAAGATGTAGCACTGCTGGCAGAA---GAACAACTGATGCAGGATGGGCAGTGCCAGTGTGGGCTCGATGAGGAGCTGCGCAGGCTTCATAATGAACATCAACGGTAgtcttgttagctctggcttacctccccccctaccatagcattatcat #### Ccdc88b_ID1831_18 --> 0 - 0 Original Alignment AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGG-CAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gagctaatagggctcacaacattaatatagaaataacatatcattttcagAATGCCACATTGGTGGCAGAGAAAGTGGCTCTGCAGGGACCAATTGCAGCATCTCGAGGGCCAGCTGGGGAGCCTACATGGTCGTGCACAGGAATTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtactgttgggtgattgaatgggttgggtcatgcaccttgaaacaatgta Alignment from CESAR AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGG-CAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gagctaatagggctcacaacattaatatagaaataacatatcattttcagAATGCCACATTGGTGGCAGAGAAAGTGGCTCTGCAGGGACCAATTGCAGCATCTCGAGGGCCAGCTGGGGAGCCTACATGGTCGTGCACAGGAATTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtactgttgggtgattgaatgggttgggtcatgcaccttgaaacaatgta Alignment from Spaln_aa2Genome AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGG-CAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gagctaatagggctcacaacattaatatagaaataacatatcattttcagAATGCCACATTGGTGGCAGAGAAAGTGGCTCTGCAGGGAcCAATTGCAGCATCTCGAGGGCCAGCTGGGGAGCCTACATGGTCGTGCACAGGAATTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtactgttgggtgattgaatgggttgggtcatgcaccttgaaacaatgta Alignment from Spaln_nt2Genome AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGC-AGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gagctaatagggctcacaacattaatatagaaataacatatcattttcagAATGCCACATTGGTGGCAGAGAAAGTGGCTCTGCAGGGACCAATTGCAGCATCTCGAGGGCCAGCTGGGGAGCCTACATGGTCGTGCACAGGAATTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtactgttgggtgattgaatgggttgggtcatgcaccttgaaacaatgta Alignment from Pairagon AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGG-CAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gagctaatagggctcacaacattaatatagaaataacatatcattttcagAATGCCACATTGGTGGCAGAGAAAGTGGCTCTGCAGGGACCAATTGCAGCATCTCGAGGGCCAGCTGGGGAGCCTACATGGTCGTGCACAGGAATTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtactgttgggtgattgaatgggttgggtcatgcaccttgaaacaatgta Alignment from Exonerate_protein2genome GGACTGTGGAGACCCAGAATGGACGGCTC---ATCGAAGTGGAGCGAAATAATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGG-CAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG GAGCTAATAGGGCTCACAACATTAATATAGAAATAACATATCATTTTCAGAATGCCACATTGGTGGCAGAGAAAGTGGCTCTGCAGGGACCAATTGCAGCATCTCGAGGGCCAGCTGGGGAGCCTACATGGTCGTGCACAGGAATTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtactgttgggtgattgaatgggttgggtcatgcaccttgaaacaatgta Alignment from Exonerate_coding2genome GGACTGTGGAGACCCAGAATGGACGGCTC---ATCGAAGTGGAGCGAAATAATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGG-CAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG GAGCTAATAGGGCTCACAACATTAATATAGAAATAACATATCATTTTCAGAATGCCACATTGGTGGCAGAGAAAGTGGCTCTGCAGGGACCAATTGCAGCATCTCGAGGGCCAGCTGGGGAGCCTACATGGTCGTGCACAGGAATTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtactgttgggtgattgaatgggttgggtcatgcaccttgaaacaatgta Alignment from GeneWise --------------------------------------------------AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGG-CAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG GAGCTAATAGGGCTCACAACATTAATATAGAAATAACATATCATTTTCAGAATGCCACATTGGTGGCAGAGAAAGTGGCTCTGCAGGGACCAATTGCAGCATCTCGAGGGCCAGCTGGGGAGCCTACATGGTCGTGCACAGGAATTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtactgttgggtgattgaatgggttgggtcatgcaccttgaaacaatgta #### Ccdc88b_ID1836_13 --> 2 - 0 Original Alignment ccTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAA-GCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggcaacatgaccagacagaatctgttttgtttttctttaaagcgTCCCTTCCTGGCCCAGCACCCTCACTGCAGGATGAGGTGAGGAAACGTAGAGGGTGGCCGTCTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---CATATG------GCACAGCTTGGGAGCCAGgtaattcctctgttgtttcatctctgagtaatccagttccttgtggatac Alignment from CESAR ccTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAA-GCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggcaacatgaccagacagaatctgttttgtttttctttaaagcgTCCCTTCCTGGCCCAGCACCCTCACTGCAGGATGAGGTGAGGAAACGTAGAGGGTGGCCGTCTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---CATATG------GCACAGCTTGGGAGCCAGgtaattcctctgttgtttcatctctgagtaatccagttccttgtggatac Alignment from Spaln_aa2Genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAA-GCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggcaacatgaccagacagaatctgttttgtttttctttaaagCGTCCCTTCCTGGCCCAGCACCCTCACTGCAGGATGAGGTGAGGAAAcGTAGAGGGTGGCCGTCTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---CATATG------GCACAGCTTGGGAGCCAGgtaattcctctgttgtttcatctctgagtaatccagttccttgtggatac Alignment from Spaln_nt2Genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAA-GCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggcaacatgaccagacagaatctgttttgtttttctttaaagCGTCCCTTCCTGGCCCAGCACCCTCACTGCAGGATGAGGTGAGGAAACGTAGAGGGTGGCCGTCTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCA---ACATAT------GGCACAGCTTGGGAGCCAGgtaattcctctgttgtttcatctctgagtaatccagttccttgtggatac Alignment from Pairagon CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAA-GCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggcaacatgaccagacagaatctgttttgtttttctttaaagCGTCCCTTCCTGGCCCAGCACCCTCACTGCAGGATGAGGTGAGGAAACGTAGAGGGTGGCCGTCTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---------CATATGGCACAGCTTGGGAGCCAGgtaattcctctgttgtttcatctctgagtaatccagttccttgtggatac Alignment from Exonerate_protein2genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAA-GCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggcaacatgaccagacagaatctgttttgtttttctttaaagCGTCCCTTCCTGGCCCAGCACCCTCACTGCAGGATGAGGTGAGGAAACGTAGAGGGTGGCCGTCTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---------CATATGGCACAGCTTGGGAGCCAGgtaattcctctgttgtttcatctctgagtaatccagttccttgtggatac Alignment from Exonerate_coding2genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAA-GCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggcaacatgaccagacagaatctgttttgtttttctttaaagCGTCCCTTCCTGGCCCAGCACCCTCACTGCAGGATGAGGTGAGGAAACGTAGAGGGTGGCCGTCTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---------CATATGGCACAGCTTGGGAGCCAGgtaattcctctgttgtttcatctctgagtaatccagttccttgtggatac Alignment from GeneWise CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAA-GCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggcaacatgaccagacagaatctgttttgtttttctttaaagCGTCCCTTCCTGGCCCAGCACCCTCACTGCAGGATGAGGTGAGGAAACGTAGAGGGTGGCCGTCTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAACAT---------ATGGCACAGCTTGGGAGCCAGgtaattcctctgttgtttcatctctgagtaatccagttccttgtggatac #### Ccdc88b_ID1837_12 --> 0 - 1 Original Alignment GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAG-AATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGg aggcctaatggacagacagctctggcacaattccatcatttgtttcttagGACCTGGACTCACTGCGGCATCAGTTGGAACAGTTAGTGGAAGAGCAATGTAGAGCTAGAGTTGGAACTACAAAGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGggtactgtgtagcagacaggatttggcaaggaacctttagtcttaagaaga Alignment from CESAR GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAG-AATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGg aggcctaatggacagacagctctggcacaattccatcatttgtttcttagGACCTGGACTCACTGCGGCATCAGTTGGAACAGTTAGTGGAAGAGCAATGTAGAGCTAGAGTTGGAACTACAAAGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGggtactgtgtagcagacaggatttggcaaggaacctttagtcttaagaaga Alignment from Spaln_aa2Genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAG-AATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG aggcctaatggacagacagctctggcacaattccatcatttgtttcttagGACCTGGACTCACTGCGGCATCAGTTGGAACAGTTAGTGGAAGAGcAATGTAGAGCTAGAGTTGGAACTACAAAGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGGgtactgtgtagcagacaggatttggcaaggaacctttagtcttaagaaga Alignment from Spaln_nt2Genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGA-ATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG aggcctaatggacagacagctctggcacaattccatcatttgtttcttagGACCTGGACTCACTGCGGCATCAGTTGGAACAGTTAGTGGAAGAGCAATGTAGAGCTAGAGTTGGAACTACAAAGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGGgtactgtgtagcagacaggatttggcaaggaacctttagtcttaagaaga Alignment from Pairagon GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAG-AATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG aggcctaatggacagacagctctggcacaattccatcatttgtttcttagGACCTGGACTCACTGCGGCATCAGTTGGAACAGTTAGTGGAAGAGCAATGTAGAGCTAGAGTTGGAACTACAAAGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGGgtactgtgtagcagacaggatttggcaaggaacctttagtcttaagaaga Alignment from Exonerate_protein2genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAG-AATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG aggcctaatggacagacagctctggcacaattccatcatttgtttcttagGACCTGGACTCACTGCGGCATCAGTTGGAACAGTTAGTGGAAGAGCAATGTAGAGCTAGAGTTGGAACTACAAAGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGGgtactgtgtagcagacaggatttggcaaggaacctttagtcttaagaaga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAA-GAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG aggcctaatggacagacagctctggcacaattccatcatttgtttcttagGACCTGGACTCACTGCGGCATCAGTTGGAACAGTTAGTGGAAGAGCAATGTAGAGCTAGAGTTGGAACTACAAAGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGGgtactgtgtagcagacaggatttggcaaggaacctttagtcttaagaaga #### Ccdc88b_ID1838_11 --> 0 - 0 Original Alignment GAGGAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAG-CGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taagaaccagggaggcttgacctctccacaaaaatgtttcctttatatagGAGAAGGAGGTCCTCTCCCAAGCTGTAGAAGCTTCAACTGGCCTTCTTGAAGAACAGTTGGAAGTTGCACAGAAGCCGTGCTGCAAGACTGCATGAAACCCAGAGAGAAAATCTCCTGGTGCGTACACGATTGGGGGAAACCCATGTGgtgagtggtaagacaggttgcaaagggttgtgaagggaccatgactaaac Alignment from CESAR GAGGAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCC-CGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taagaaccagggaggcttgacctctccacaaaaatgtttcctttatatagGAGAAGGAGGTCCTCTCCCAAGCTGTAGAAGCTTCAACTGGCCTTCTTGAAGAACAGTTGGAAGTTGCACAGAAGCCGTGCTGCAAGACTGCATGAAACCCAGAGAGAAAATCTCCTGGTGCGTACACGATTGGGGGAAACCCATGTGgtgagtggtaagacaggttgcaaagggttgtgaagggaccatgactaaac Alignment from Spaln_aa2Genome GAGGAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCC-CGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taagaaccagggaggcttgacctctccacaaaaatgtttcctttatatagGAGAAGGAGGTCCTCTCCCAAGCTGTAGAAGCTTCAACTGGCCTTCTTGAAGAACAGTTGGAAGTTGCAcAGAAGCCGTGCTGCAAGACTGCATGAAACCCAGAGAGAAAATCTCCTGGTGCGTACACGATTGGGGGAAACCCATGTGgtgagtggtaagacaggttgcaaagggttgtgaagggaccatgactaaac Alignment from Spaln_nt2Genome GAGGAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCT-CAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taagaaccagggaggcttgacctctccacaaaaatgtttcctttatatagGAGAAGGAGGTCCTCTCCCAAGCTGTAGAAGCTTCAACTGGCCTTCTTGAAGAACAGTTGGAAGTTGCACAGAAGCCGTGCTGCAAGACTGCATGAAACCCAGAGAGAAAATCTCCTGGTGCGTACACGATTGGGGGAAACCCATGTGgtgagtggtaagacaggttgcaaagggttgtgaagggaccatgactaaac Alignment from Pairagon GAGGAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGC-------CCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taagaaccagggaggcttgacctctccacaaaaatgtttcctttatatagGAGAAGGAGGTCCTCTCCCAAGCTGTAGAAGCTTCAACTGGCCTTCTTGAAGAACAGTTGGAAGTTGCACAGAAGCCGTG------CTGCAAGACTGCATGAAACCCAGAGAGAAAATCTCCTGGTGCGTACACGATTGGGGGAAACCCATGTGgtgagtggtaagacaggttgcaaagggttgtgaagggaccatgactaaac Alignment from Exonerate_protein2genome GAGGAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCC-CGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taagaaccagggaggcttgacctctccacaaaaatgtttcctttatatagGAGAAGGAGGTCCTCTCCCAAGCTGTAGAAGCTTCAACTGGCCTTCTTGAAGAACAGTTGGAAGTTGCACAGAAGCCGTGCTGCAAGACTGCATGAAACCCAGAGAGAAAATCTCCTGGTGCGTACACGATTGGGGGAAACCCATGTGgtgagtggtaagacaggttgcaaagggttgtgaagggaccatgactaaac Alignment from Exonerate_coding2genome taagaaccagggaggcttgacctctccacaaaaatgtttcctttatataggagaaggaggtcctctcccaagctgtagaagcttcaactggccttcttgaagaacagttggaagttgcacagaagccgtgctgcaagactgcatgaaacccagagagaaaatctcctggtgcgtacacgattgggggaaacccatgtggtgagtggtaagacaggttgcaaagggttgtgaagggaccatgactaaac Alignment from GeneWise GAGGAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTT-GCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taagaaccagggaggcttgacctctccacaaaaatgtttcctttatatagGAGAAGGAGGTCCTCTCCCAAGCTGTAGAAGCTTCAACTGGCCTTCTTGAAGAACAGTTGGAAGTTGCACAGAAGCCGTGCTGCAAGACTGCATGAAACCCAGAGAGAAAATCTCCTGGTGCGTACACGATTGGGGGAAACCCATGTGgtgagtggtaagacaggttgcaaagggttgtgaagggaccatgactaaac #### Ccdc88b_ID1845_4 --> 0 - 1 Original Alignment GAGGAGCTACAGCTGCTGATCCTATCACCA-CCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAg ggacccaggcacctagcccagacacatcgctttttacattcctctctcagGAGGAGCTACAGCTTTTAATCTTATCTACACTCACCAGACCTCCAGCCTACGGGGTGTGAACCCTTTTCAggtaagagttctaacctcgtctatcacttgactaccatgtataccctcatc Alignment from CESAR GAGGAGCTACAGCTGCTGATCCTATCACCA-CCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAg ggacccaggcacctagcccagacacatcgctttttacattcctctctcagGAGGAGCTACAGCTTTTAATCTTATCTACACTCACCAGACCTCCAGCCTACGGGGTGTGAACCCTTTTCAggtaagagttctaacctcgtctatcacttgactaccatgtataccctcatc Alignment from Spaln_aa2Genome GAGGAGCTACAGCTGCTGATCCTATCACCA-CCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG ggacccaggcacctagcccagacacatcgctttttacattcctctctcagGAGGAGCTACAGCTTTTAATCTTATCTACAcTCACCAGACCTCCAGCCTACGGGGTGTGAACCCTTTTCAGgtaagagttctaacctcgtctatcacttgactaccatgtataccctcatc Alignment from Spaln_nt2Genome GAGGAGCTACAGCTGCTGATCCTATCACCAC-CTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG ggacccaggcacctagcccagacacatcgctttttacattcctctctcagGAGGAGCTACAGCTTTTAATCTTATCTACACTCACCAGACCTCCAGCCTACGGGGTGTGAACCCTTTTCAGgtaagagttctaacctcgtctatcacttgactaccatgtataccctcatc Alignment from Pairagon GAGGAGCTACAGCTGCTGATCCTATCACCAC-CTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG ggacccaggcacctagcccagacacatcgctttttacattcctctctcagGAGGAGCTACAGCTTTTAATCTTATCTACACTCACCAGACCTCCAGCCTACGGGGTGTGAACCCTTTTCAGgtaagagttctaacctcgtctatcacttgactaccatgtataccctcatc Alignment from Exonerate_protein2genome GAGGAGCTACAGCTGCTGATCCTATCACCA-CCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG ggacccaggcacctagcccagacacatcgctttttacattcctctctcagGAGGAGCTACAGCTTTTAATCTTATCTACACTCACCAGACCTCCAGCCTACGGGGTGTGAACCCTTTTCAGgtaagagttctaacctcgtctatcacttgactaccatgtataccctcatc Alignment from Exonerate_coding2genome ggacccaggcacctagcccagacacatcgctttttacattcctctctcaggaggagctacagcttttaatcttatctacactcaccagacctccagcctacggggtgtgaacccttttcaggtaagagttctaacctcgtctatcacttgactaccatgtataccctcatc Alignment from GeneWise GAGGAGCTACAGCTGCTGATCCTATCACCA-CCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG ggacccaggcacctagcccagacacatcgctttttacattcctctctcagGAGGAGCTACAGCTTTTAATCTTATCTACACTCACCAGACCTCCAGCCTACGGGGTGTGAACCCTTTTCAGgtaagagttctaacctcgtctatcacttgactaccatgtataccctcatc #### Cdc42bpg_ID1574_4 --> 0 - 0 Original Alignment ACGGCCTGTTTCCGGGAGGAGCGAGATGTT-CTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG tacatgtttgcttgtatacagacaacctgttctttccctactccctgcagACAACCTGTCTCCGCGAGGAGCGAGATGTTCCTAGTGAAGGAAGACCATTGTTGGGTGACAGTTTTACATTACTCATTCCAGGATGAGGAGTTCTTAgtaaaatgccctatgtcacaagggagccaccctgacagtactgtcttttt Alignment from CESAR ACGGCCTGTTTCCGGGAGGAGCGAGATGTT-CTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG tacatgtttgcttgtatacagacaacctgttctttccctactccctgcagACAACCTGTCTCCGCGAGGAGCGAGATGTTCCTAGTGAAGGAAGACCATTGTTGGGTGACAGTTTTACATTACTCATTCCAGGATGAGGAGTTCTTAgtaaaatgccctatgtcacaagggagccaccctgacagtactgtcttttt Alignment from Spaln_aa2Genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTT-CTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG tacatgtttgcttgtatacagacaacctgttctttccctactccctgcagACAACCTGTCTCCGCGAGGAGCGAGATGTTcCTAGTGAAGGAAGACCATTGTTGGGTGACAGTTTTACATTACTCATTCCAGGATGAGGAGTTCTTAgtaaaatgccctatgtcacaagggagccaccctgacagtactgtcttttt Alignment from Spaln_nt2Genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTT-CTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG tacatgtttgcttgtatacagacaacctgttctttccctactccctgcagACAACCTGTCTCCGCGAGGAGCGAGATGTTCCTAGTGAAGGAAGACCATTGTTGGGTGACAGTTTTACATTACTCATTCCAGGATGAGGAGTTCTTAgtaaaatgccctatgtcacaagggagccaccctgacagtactgtcttttt Alignment from Pairagon ACGGCCTGTTTCCGGGAGGAGCGAGATGTT-CTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG tacatgtttgcttgtatacagacaacctgttctttccctactccctgcagACAACCTGTCTCCGCGAGGAGCGAGATGTTCCTAGTGAAGGAAGACCATTGTTGGGTGACAGTTTTACATTACTCATTCCAGGATGAGGAGTTCTTAgtaaaatgccctatgtcacaagggagccaccctgacagtactgtcttttt Alignment from Exonerate_protein2genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTT-CTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG tacatgtttgcttgtatacagacaacctgttctttccctactccctgcagACAACCTGTCTCCGCGAGGAGCGAGATGTTCCTAGTGAAGGAAGACCATTGTTGGGTGACAGTTTTACATTACTCATTCCAGGATGAGGAGTTCTTAgtaaaatgccctatgtcacaagggagccaccctgacagtactgtcttttt Alignment from Exonerate_coding2genome tacatgtttgcttgtatacagacaacctgttctttccctactccctgcagacaacctgtctccgcgaggagcgagatgttcctagtgaaggaagaccattgttgggtgacagttttacattactcattccaggatgaggagttcttagtaaaatgccctatgtcacaagggagccaccctgacagtactgtcttttt Alignment from GeneWise ACGGCCTGTTTCCGGGAGGAGCGAGAT-GTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG tacatgtttgcttgtatacagacaacctgttctttccctactccctgcagACAACCTGTCTCCGCGAGGAGCGAGATGTTCCTAGTGAAGGAAGACCATTGTTGGGTGACAGTTTTACATTACTCATTCCAGGATGAGGAGTTCTTAgtaaaatgccctatgtcacaagggagccaccctgacagtactgtcttttt #### Cdc42bpg_ID1575_5 --> 0 - 2 Original Alignment TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTC---ACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTAT-CTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGC------------TATGTCCACag tgcaatcagacttctggttggataactactgactgtctcctctacctcagTACCTGCTGATGGATTTTTATGCTGGTGGTGATCTTCTAAAAAGATTACTGAGCTGCTTTGAAGACCGTCTCCCGCCTGAACTAGCTCAAATATATCTTGGCTGAGATGGTGTTGGCTATTCACTCCTTGCACCAGCTAGGCTATGCCCACAGCTATGCCCACaggtaactaagctagaggtgtgttgttgaggtattgggatcattccttctat Alignment from CESAR TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACG---CTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTAT-CTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTC------------CACag tgcaatcagacttctggttggataactactgactgtctcctctacctcagTACCTGCTGATGGATTTTTATGCTGGTGGTGATCTTCTAAAAAGATTACTGAGCTGCTTTGAAGACCGTCTCCCGCCTGAACTAGCTCAAATATATCTTGGCTGAGATGGTGTTGGCTATTCACTCCTTGCACCAGCTAGGCTATGCCCACAGCTATGCCCACaggtaactaagctagaggtgtgttgttgaggtattgggatcattccttctat Alignment from Spaln_aa2Genome TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACG---CTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTAT-CTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGC------------TATGTCCACAG tgcaatcagacttctggttggataactactgactgtctcctctacctcagTACCTGCTGATGGATTTTTATGCTGGTGGTGATCTTCTAAAAAGATTACTGAGCTGCTTTGAAGACCGTCTCCCGCCTGAACTAGCTCAAATATATcTTGGCTGAGATGGTGTTGGCTATTCACTCCTTGCACCAGCTAGGCTATGCCCACAGCTATGCCCACAGgtaactaagctagaggtgtgttgttgaggtattgggatcattccttctat Alignment from Spaln_nt2Genome TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACGC---TGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCT-GGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACA tgcaatcagacttctggttggataactactgactgtctcctctacctcagTACCTGCTGATGGATTTTTATGCTGGTGGTGATCTTCTAAAAAGATTACTGAGCTGCTTTGAAGACCGTCTCCCGCCTGAACTAGCTCAAATATATCTTGGCTGAGATGGTGTTGGCTATTCACTCCTTGCACCAGCTAGGCTATGCCCACAgctatgcccacaggtaactaagctagaggtgtgttgttgaggtattgggatcattccttctat Alignment from Pairagon TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCT---CACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATC-TGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACAG------------ tgcaatcagacttctggttggataactactgactgtctcctctacctcagTACCTGCTGATGGATTTTTATGCTGGTGGTGATCTTCTAAAAAGATTACTGAGCTGCTTTGAAGACCGTCTCCCGCCTGAACTAGCTCAAATATATCTTGGCTGAGATGGTGTTGGCTATTCACTCCTTGCACCAGCTAGGCTATGCCCACAGCTATGCCCACAGgtaactaagctagaggtgtgttgttgaggtattgggatcattccttctat Alignment from Exonerate_protein2genome TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTC---ACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTAT-CTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACAG tgcaatcagacttctggttggataactactgactgtctcctctacctcagTACCTGCTGATGGATTTTTATGCTGGTGGTGATCTTCTAAAAAGATTACTGAGCTGCTTTGAAGACCGTCTCCCGCCTGAACTAGCTCAAATATATCTTGGCTGAGATGGTGTTGGCTATTCACTCCTTGCACCAGCTAGGCTATGCCCACAGctatgcccacaggtaactaagctagaggtgtgttgttgaggtattgggatcattccttctat Alignment from Exonerate_coding2genome tgcaatcagacttctggttggataactactgactgtctcctctacctcagtacctgctgatggatttttatgctggtggtgatcttctaaaaagattactgagctgctttgaagaccgtctcccgcctgaactagctcaaatatatcttggctgagatggtgttggctattcactccttgcaccagctaggctatgcccacagctatgcccacaggtaactaagctagaggtgtgttgttgaggtattgggatcattccttctat Alignment from GeneWise TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTC---ACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTG-GCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCAC------------AG tgcaatcagacttctggttggataactactgactgtctcctctacctcagTACCTGCTGATGGATTTTTATGCTGGTGGTGATCTTCTAAAAAGATTACTGAGCTGCTTTGAAGACCGTCTCCCGCCTGAACTAGCTCAAATATATCTTGGCTGAGATGGTGTTGGCTATTCACTCCTTGCACCAGCTAGGCTATGCCCACAGCTATGCCCACAGgtaactaagctagaggtgtgttgttgaggtattgggatcattccttctat #### Cdc42bpg_ID1578_8 --> 0 - 0 Original Alignment GACCACCTCCAG-TTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttatagttaggtccctccatgtagctcattttgatgtcacagGACCATCTCCAGCTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGACTGGATGACTTCCACAAGCATGCGTTCTTTGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGACGATGACACCCTCAACCGCTCAgtgagttgcagagactattaagacacatttgtccaaaaatgtactgagct Alignment from CESAR GACCACCTCCAG-TTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttatagttaggtccctccatgtagctcattttgatgtcacagGACCATCTCCAGCTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGACTGGATGACTTCCACAAGCATGCGTTCTTTGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGACGATGACACCCTCAACCGCTCAgtgagttgcagagactattaagacacatttgtccaaaaatgtactgagct Alignment from Spaln_aa2Genome GACCACCTCCAG-TTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttatagttaggtccctccatgtagctcattttgatgtcacagGACCATCTCCAGcTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGACTGGATGACTTCCACAAGCATGCGTTCTTTGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGACGATGACACCCTCAACCGCTCAgtgagttgcagagactattaagacacatttgtccaaaaatgtactgagct Alignment from Spaln_nt2Genome GACCACCTCCAG-TTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttatagttaggtccctccatgtagctcattttgatgtcacagGACCATCTCCAGCTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGACTGGATGACTTCCACAAGCATGCGTTCTTTGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGACGATGACACCCTCAACCGCTCAgtgagttgcagagactattaagacacatttgtccaaaaatgtactgagct Alignment from Pairagon GACCACCTCCAG-TTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttatagttaggtccctccatgtagctcattttgatgtcacagGACCATCTCCAGCTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGACTGGATGACTTCCACAAGCATGCGTTCTTTGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGACGATGACACCCTCAACCGCTCAgtgagttgcagagactattaagacacatttgtccaaaaatgtactgagct Alignment from Exonerate_protein2genome GACCACCTCCAG-TTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttatagttaggtccctccatgtagctcattttgatgtcacagGACCATCTCCAGCTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGACTGGATGACTTCCACAAGCATGCGTTCTTTGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGACGATGACACCCTCAACCGCTCAgtgagttgcagagactattaagacacatttgtccaaaaatgtactgagct Alignment from Exonerate_coding2genome GACCACCTCCAG-TTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGC-CGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttatagttaggtccctccatgtagctcattttgatgtcacagGACCATCTCCAGCTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGACTGGATGACTTCCACAAGCATGCGTTCTTTGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCTTCGA-GGCCCAATGGACACTTCCAACTTTGATGTGGACGATGACACCCTCAACCGCTCAgtgagttgcagagactattaagacacatttgtccaaaaatgtactgagct Alignment from GeneWise GACCACCTC-CAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttatagttaggtccctccatgtagctcattttgatgtcacagGACCATCTCCAGCTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGACTGGATGACTTCCACAAGCATGCGTTCTTTGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGACGATGACACCCTCAACCGCTCAgtgagttgcagagactattaagacacatttgtccaaaaatgtactgagct #### Cdc42bpg_ID1581_11 --> 2 - 1 Original Alignment agCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTT-CTTCAGGAGAAACTGGCAg tcctaactgttctggtactacaattgcagtcctgtctgtcctgcccccaggtCATCTTCATGGTCCGCTACAACCACAGGGGTTAGTACATCTTCATAAAGAGGTTCAGGTTCCTTCAGGAGAAACTGACAggtgagtctggccagctattagaggtggctgggttccctgtcatgtcccag Alignment from CESAR agCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTT-CTTCAGGAGAAACTGGCAg tcctaactgttctggtactacaattgcagtcctgtctgtcctgcccccaggtCATCTTCATGGTCCGCTACAACCACAGGGGTTAGTACATCTTCATAAAGAGGTTCAGGTTCCTTCAGGAGAAACTGACAggtgagtctggccagctattagaggtggctgggttccctgtcatgtcccag Alignment from Spaln_aa2Genome AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTT-CTTCAGGAGAAACTGGCAG tcctaactgttctggtactacaattgcagtcctgtctgtcctgcccccagGTCATCTTCATGGTCCGCTACAACCACAGGGGTTAGTACATCTTCATAAAGAGGTTCAGGTTcCTTCAGGAGAAACTGACAGgtgagtctggccagctattagaggtggctgggttccctgtcatgtcccag Alignment from Spaln_nt2Genome AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTC-TTCAGGAGAAACTGGCAG tcctaactgttctggtactacaattgcagtcctgtctgtcctgcccccagGTCATCTTCATGGTCCGCTACAACCACAGGGGTTAGTACATCTTCATAAAGAGGTTCAGGTTCCTTCAGGAGAAACTGACAGgtgagtctggccagctattagaggtggctgggttccctgtcatgtcccag Alignment from Pairagon AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTT-CTTCAGGAGAAACTGGCAG tcctaactgttctggtactacaattgcagtcctgtctgtcctgcccccagGTCATCTTCATGGTCCGCTACAACCACAGGGGTTAGTACATCTTCATAAAGAGGTTCAGGTTCCTTCAGGAGAAACTGACAGgtgagtctggccagctattagaggtggctgggttccctgtcatgtcccag Alignment from Exonerate_protein2genome AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTT-CTTCAGGAGAAACTGGCAG tcctaactgttctggtactacaattgcagtcctgtctgtcctgcccccagGTCATCTTCATGGTCCGCTACAACCACAGGGGTTAGTACATCTTCATAAAGAGGTTCAGGTTCCTTCAGGAGAAACTGACAGgtgagtctggccagctattagaggtggctgggttccctgtcatgtcccag Alignment from Exonerate_coding2genome tcctaactgttctggtactacaattgcagtcctgtctgtcctgcccccaggtcatcttcatggtccgctacaaccacaggggttagtacatcttcataaagaggttcaggttccttcaggagaaactgacaggtgagtctggccagctattagaggtggctgggttccctgtcatgtcccag Alignment from GeneWise AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAG tcctaactgttctggtactacaattgcagtcctgtctgtcctgcccccagGTCATCTTCATGGTCCGCTACAACCACAGGGGTTAGTACATCTTCATAAAGAGGTTCAGgttccttcaggagaaactgacaggtgagtctggccagctattagaggtggctgggttccctgtcatgtcccag #### Cdc42bpg_ID1582_12 --> 2 - 0 Original Alignment agACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGAC-CGCCTCCAGCAG gcttgtgacgttttagggcaatgacggacctctctcctccttttcccaagaaACTTTGAAGGACAGTGAGGCTTCTCTTGCCCAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCAAACATTCAGTTACAGCAGGAGAAGGATCCGCCTTCAACAGgtatgaattgtgatgggaattatacagtgtgtcatttgtttatataagcc Alignment from CESAR agACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGAC-CGCCTCCAGCAG gcttgtgacgttttagggcaatgacggacctctctcctccttttcccaagaaACTTTGAAGGACAGTGAGGCTTCTCTTGCCCAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCAAACATTCAGTTACAGCAGGAGAAGGATCCGCCTTCAACAGgtatgaattgtgatgggaattatacagtgtgtcatttgtttatataagcc Alignment from Spaln_aa2Genome AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGAC-CGCCTCCAGCAG gcttgtgacgttttagggcaatgacggacctctctcctccttttcccaagAAACTTTGAAGGACAGTGAGGCTTCTCTTGCCCAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCAAACATTCAGTTACAGCAGGAGAAGGATcCGCCTTCAACAGgtatgaattgtgatgggaattatacagtgtgtcatttgtttatataagcc Alignment from Spaln_nt2Genome AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGA-CCGCCTCCAGCAG gcttgtgacgttttagggcaatgacggacctctctcctccttttcccaagAAACTTTGAAGGACAGTGAGGCTTCTCTTGCCCAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCAAACATTCAGTTACAGCAGGAGAAGGATCCGCCTTCAACAGgtatgaattgtgatgggaattatacagtgtgtcatttgtttatataagcc Alignment from Pairagon AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGA-CCGCCTCCAGCAG gcttgtgacgttttagggcaatgacggacctctctcctccttttcccaagAAACTTTGAAGGACAGTGAGGCTTCTCTTGCCCAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCAAACATTCAGTTACAGCAGGAGAAGGATCCGCCTTCAACAGgtatgaattgtgatgggaattatacagtgtgtcatttgtttatataagcc Alignment from Exonerate_protein2genome AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGAC-CGCCTCCAGCAG gcttgtgacgttttagggcaatgacggacctctctcctccttttcccaagAAACTTTGAAGGACAGTGAGGCTTCTCTTGCCCAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCAAACATTCAGTTACAGCAGGAGAAGGATCCGCCTTCAACAGgtatgaattgtgatgggaattatacagtgtgtcatttgtttatataagcc Alignment from Exonerate_coding2genome gcttgtgacgttttagggcaatgacggacctctctcctccttttcccaagaaactttgaaggacagtgaggcttctcttgcccaagctgatgggcctgatgctagaagccctgtcccaaacattcagttacagcaggagaaggatccgccttcaacaggtatgaattgtgatgggaattatacagtgtgtcatttgtttatataagcc Alignment from GeneWise AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGAC-CGCCTCCAGCAG gcttgtgacgttttagggcaatgacggacctctctcctccttttcccaagAAACTTTGAAGGACAGTGAGGCTTCTCTTGCCCAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCAAACATTCAGTTACAGCAGGAGAAGGATCCGCCTTCAACAGgtatgaattgtgatgggaattatacagtgtgtcatttgtttatataagcc #### Cdc42bpg_ID1584_14 --> 0 - 0 Original Alignment CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAATGTAAACAAGAATCT-TCACAGGCCAAG ggagctaagaaaatcatggtggtctctactaatggcaattttctttgtagCTTGAAGGACAGGTGACAACCCTAAGTGATGTGGTGACTCGGCTCCAGGGTCGGTGTAAAGAAGAATCTCTCA---GCAAAGgtaggaatggtgggtggtcgtaatacagcagtcagctacctaaaaacttt Alignment from CESAR CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAATGTAAACAAGAATCTTCACAGGCCAAG ggagctaagaaaatcatggtggtctctactaatggcaattttctttgtagCTTGAAGGACAGGTGACAACCCTAAGTGATGTGGTGACTCGGCTCCAGGGTCGGTGTAAAGAAGAATCT--CTCAGCAAAGgtaggaatggtgggtggtcgtaatacagcagtcagctacctaaaaacttt Alignment from Spaln_aa2Genome CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAATGTAAACAAGAATCTTCACAGGCCA ggagctaagaaaatcatggtggtctctactaatggcaattttctttgtagCTTGAAGGACAGGTGACAACCCTAAGTGATGTGGTGACTCGGCTCCAGGGTCGGTGTAAAGAAGAATCTCTCAGCAAAGgtaggaatggtgggtggtcgtaatacagcagtcagctacctaaaaacttt Alignment from Spaln_nt2Genome CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAATGTAAACAAGAATCTTCACAGGCCAAG ggagctaagaaaatcatggtggtctctactaatggcaattttctttgtagCTTGAAGGACAGGTGACAACCCTAAGTGATGTGGTGACTCGGCTCCAGGGTCGGTGTAAAGAAGAATC-TCTCA-GCAAAGgtaggaatggtgggtggtcgtaatacagcagtcagctacctaaaaacttt Alignment from Pairagon CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAATGTAAACAAGAATCT-TCACAGGCCAAG ggagctaagaaaatcatggtggtctctactaatggcaattttctttgtagCTTGAAGGACAGGTGACAACCCTAAGTGATGTGGTGACTCGGCTCCAGGGTCGGTGTAAAGAAGAATCTCTCA---GCAAAGgtaggaatggtgggtggtcgtaatacagcagtcagctacctaaaaacttt Alignment from Exonerate_protein2genome CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAATGTAAACAAGAATCTTCACAGGCCA ggagctaagaaaatcatggtggtctctactaatggcaattttctttgtagCTTGAAGGACAGGTGACAACCCTAAGTGATGTGGTGACTCGGCTCCAGGGTCGGTGTAAAGAAGAATCTCTCAGCAAAGgtaggaatggtgggtggtcgtaatacagcagtcagctacctaaaaacttt Alignment from Exonerate_coding2genome ggagctaagaaaatcatggtggtctctactaatggcaattttctttgtagcttgaaggacaggtgacaaccctaagtgatgtggtgactcggctccagggtcggtgtaaagaagaatctctcagcaaaggtaggaatggtgggtggtcgtaatacagcagtcagctacctaaaaacttt Alignment from GeneWise CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAATGTAAACAAGAATCTTCACAGGCCAAG ggagctaagaaaatcatggtggtctctactaatggcaattttctttgtagCTTGAAGGACAGGTGACAACCCTAAGTGATGTGGTGACTCGGCTCCAGGGTCGGTGTAAAGAAGAATCTC--TCAGCAAAGgtaggaatggtgggtggtcgtaatacagcagtcagctacctaaaaacttt #### Cdc42bpg_ID1587_17 --> 0 - 2 Original Alignment CTGGCAGGAGAGCTG-GAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCtg gaaaccattgggtaatgaggattaacatatgatttcttttccctctgtagTTGGCAGGTGAGCTGCGAACTGGAGCTCCAGACTAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGTtggtatgtctacacagctggatggaaccagcgatactgtgggcttgtttgtt Alignment from CESAR CTGGCAGGAGAGCTG-GAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCtg gaaaccattgggtaatgaggattaacatatgatttcttttccctctgtagTTGGCAGGTGAGCTGCGAACTGGAGCTCCAGACTAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGTtggtatgtctacacagctggatggaaccagcgatactgtgggcatatatttt Alignment from Spaln_aa2Genome GCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gaaaccattgggtaatgaggattaacatatgatttcttttccctctgtagttggcaggtgagCTGCGAACTGGAGCTCCAGACTAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGTTGgtatgtctacacagctggatggaaccagcgatactgtgggcttgtttgtt Alignment from Spaln_nt2Genome CTGGCAGGAGAGCTG-GAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gaaaccattgggtaatgaggattaacatatgatttcttttccctctgtagTTGGCAGGTGAGCTGCGAACTGGAGCTCCAGACTAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGTTGgtatgtctacacagctggatggaaccagcgatactgtgggcttgtttgtt Alignment from Pairagon CTGGCAGGAGAGCTG-GAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gaaaccattgggtaatgaggattaacatatgatttcttttccctctgtagTTGGCAGGTGAGCTGCGAACTGGAGCTCCAGACTAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGTTGgtatgtctacacagctggatggaaccagcgatactgtgggcttgtttgtt Alignment from Exonerate_protein2genome CTGGCAGGAGAGCTG-GAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gaaaccattgggtaatgaggattaacatatgatttcttttccctctgtagTTGGCAGGTGAGCTGCGAACTGGAGCTCCAGACTAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGTTGgtatgtctacacagctggatggaaccagcgatactgtgggcttgtttgtt Alignment from Exonerate_coding2genome gaaaccattgggtaatgaggattaacatatgatttcttttccctctgtagttggcaggtgagctgcgaactggagctccagactaagcaacgtctggagggcgaacggcgggagactgagagcaactgggaggctcagattgctgacatcctcagttggtatgtctacacagctggatggaaccagcgatactgtgggcttgtttgtt Alignment from GeneWise GCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTGG------------------------------------------------- gaaaccattgggtaatgaggattaacatatgatttcttttccctctgtagttggcaggtgagCTGCGAACTGGAGCTCCAGACTAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGTTGGTATGTCTACACAGCTGGATGGAACCAGCGATACTGTGGGCTTGTTTGTT #### Cdc42bpg_ID1593_23 --> 0 - 0 Original Alignment AGTGTGTTCCCCAGGGTGCCCGCAGCCACCACCACC-CCTGCCGAAGGTCCTCCTGCTAAG tacaggggatttctgcattgacaattcactttttcccccctaccccacagTGCGTGTTCCCACGTGTGCATGCACCCACCACCACCCCCCGCCAAAGGTCCACCTGCTAAGgtgagggtccagagtggtctgagcactcaagtgatagatcacagccatta Alignment from CESAR AGTGTGTTCCCCAGGGTGCCCGCAGCCACCACCACC-CCTGCCGAAGGTCCTCCTGCTAAG tacaggggatttctgcattgacaattcactttttcccccctaccccacagTGCGTGTTCCCACGTGTGCATGCACCCACCACCACCCCCCGCCAAAGGTCCACCTGCTAAGgtgagggtccagagtggtctgagcactcaagtgatagatcacagccatta Alignment from Spaln_aa2Genome AGTGTGTTCCCCAGGGTGCCCGCAGCCACCACCACCCCT-GCCGAAGGTCCTCCTGCTAAG tacaggggatttctgcattgacaattcactttttcccccctaccccacagTGCGTGTTCCCACGTGTGCATGCACCCACCACCACCCCCcGCCAAAGGTCCACCTGCTAAGgtgagggtccagagtggtctgagcactcaagtgatagatcacagccatta Alignment from Spaln_nt2Genome AGTGTGTTCCCCAGGGTGCCCGCAGCCACCACCACCCCT-GCCGAAGGTCCTCCTGCTAAG tacaggggatttctgcattgacaattcactttttcccccctaccccacagTGCGTGTTCCCACGTGTGCATGCACCCACCACCACCCCCCGCCAAAGGTCCACCTGCTAAGgtgagggtccagagtggtctgagcactcaagtgatagatcacagccatta Alignment from Pairagon AGTGTGTTCCCCAGGGTGCCCGCAGCCACCACCA-CCCCTGCCGAAGGTCCTCCTGCTAAG tacaggggatttctgcattgacaattcactttttcccccctaccccacagTGCGTGTTCCCACGTGTGCATGCACCCACCACCACCCCCCGCCAAAGGTCCACCTGCTAAGgtgagggtccagagtggtctgagcactcaagtgatagatcacagccatta Alignment from Exonerate_protein2genome AGTGTGTTCCCCAGGGTGCCCGCAGCCACCACCACC-CCTGCCGAAGGTCCTCCTGCTAAG tacaggggatttctgcattgacaattcactttttcccccctaccccacagTGCGTGTTCCCACGTGTGCATGCACCCACCACCACCCCCCGCCAAAGGTCCACCTGCTAAGgtgagggtccagagtggtctgagcactcaagtgatagatcacagccatta Alignment from Exonerate_coding2genome tacaggggatttctgcattgacaattcactttttcccccctaccccacagtgcgtgttcccacgtgtgcatgcacccaccaccaccccccgccaaaggtccacctgctaaggtgagggtccagagtggtctgagcactcaagtgatagatcacagccatta Alignment from GeneWise tacaggggatttctgcattgacaattcactttttcccccctaccccacagtgcgtgttcccacgtgtgcatgcacccaccaccaccccccgccaaaggtccacctgctaaggtgagggtccagagtggtctgagcactcaagtgatagatcacagccatta #### Cdc42bpg_ID1595_25 --> 2 - 0 Original Alignment ccTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCT-TGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC acattatttaatgcacatatgtgtgtgttgactattatttatctttgcagcaTGTGGTTATTTCTGT------GCCTGTGCCTCGCAAACCCCTCCTCTGCCCTGTGCCCCCTGAACTTCTTCGCACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGTCAGCCTATGAGGGGTTTTTGTCAgtgagttgggggggttgtcgtgtaaattttttttgtttagGTACGACAGC Alignment from CESAR ccTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCT-TGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC acattatttaatgcacatatgtgtgtgttgactattatttatctttgcagcaTGTGGTTATTTCTGT------GCCTGTGCCTCGCAAACCCCTCCTCTGCCCTGTGCCCCCTGAACTTCTTCGCACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGTCAGCCTATGAGGGGTTTTTGTCAgtgagttgggggggttgttgtggtaacatggtttttgtagGTACGACAGC Alignment from Spaln_aa2Genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCT-TGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC acattatttaatgcacatatgtgtgtgttgactattatttatctttgcagCATGTGGTTATTTCTGT------GCCTGTGCCTCGCAAACCCCTCCTcTGCCCTGTGCCCCCTGAACTTCTTCGCACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGTCAGCCTATGAGGGGTTTTTGTCAgtgagttgggggggttgtcgtgtaaattttttttgtttagGTACGACAGC Alignment from Spaln_nt2Genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCT-TGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC acattatttaatgcacatatgtgtgtgttgactattatttatctttgcagCATGTGGTTATTTCTGT------GCCTGTGCCTCGCAAACCCCTCCTCTGCCCTGTGCCCCCTGAACTTCTTCGCACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGTCAGCCTATGAGGGGTTTTTGTCAgtgagttgggggggttgtcgtgtaaattttttttgtttagGTACGACAGC Alignment from Pairagon CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCT-TGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTC----------------------------------------GGTGCCGCGGC acattatttaatgcacatatgtgtgtgttgactattatttatctttgcagCATGTGGTTATTTCTGT------GCCTGTGCCTCGCAAACCCCTCCTCTGCCCTGTGCCCCCTGAACTTCTTCGCACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGTCAGCCTATGAGGGGTTTTTGTCAGTGAGTTGGGGGGGTTGTCGTGTAAATTTTTTTTGTTTAGGTACGACAGC Alignment from Exonerate_protein2genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCT-TGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC acattatttaatgcacatatgtgtgtgttgactattatttatctttgcagCATGTGGTTATTTCTGT------GCCTGTGCCTCGCAAACCCCTCCTCTGCCCTGTGCCCCCTGAACTTCTTCGCACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGTCAGCCTATGAGGGGTTTTTGTCAgtgagttgggggggttgtcgtgtaaattttttttgtttagGTACGACAGC Alignment from Exonerate_coding2genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCT-TGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC acattatttaatgcacatatgtgtgtgttgactattatttatctttgcagCATGTGGTTATTTCTGT------GCCTGTGCCTCGCAAACCCCTCCTCTGCCCTGTGCCCCCTGAACTTCTTCGCACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGTCAGCCTATGAGGGGTTTTTGTCAgtgagttgggggggttgtcgtgtaaattttttttgtttagGTACGACAGC Alignment from GeneWise CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCA-CCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC acattatttaatgcacatatgtgtgtgttgactattatttatctttgcagCATGTGGTTATTTCTGT------GCCTGTGCCTCGCAAACCCCTCCTCTGCCCTGTGCCCCCTGAACTTCTTCGCACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGTCAGCCTATGAGGGGTTTTTGTCAgtgagttgggggggttgtcgtgtaaattttttttgtttagGTACGACAGC #### Cdc42bpg_ID1596_26 --> 0 - 2 Original Alignment CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGG-CAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAag GTTTTTGTCAgtaagatgggggggttgttgtggtaacatggtttttgtagGTACGACAGCCATCATGTGTTCGATGGGACTGGCCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCATGGTAGCCTAGCAAGTAGCATTCTTCTTCAGGCCTTAGATCTAaggtgagtgtccgcctagaggacatagggtgcccaaagcacattggaaccct Alignment from CESAR CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGG-CAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAag GTTTTTGTCAgtgagttgggggggttgttgtggtaacatggtttttgtagGTACGACAGCCATCATGTGTTCGATGGGACTGGCCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCATGGTAGCCTAGCAAGTAGCATTCTTCTTCAGGCCTTAGATCTAaggtgagtgtccgcctagaggacatagggtgcccaaagcacattggaaccct Alignment from Spaln_aa2Genome CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGG-CAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG GTTTTTGTCAgtaagatgggggggttgttgtggtaacatggtttttgtagGTACGACAGCCATCATGTGTTCGATGGGACTGGcCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCATGGTAGCCTAGCAAGTAGCATTCTTCTTCAGGCCTTAGATCTAAGgtgagtgtccgcctagaggacatagggtgcccaaagcacattggaaccct Alignment from Spaln_nt2Genome CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGC-AGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG GTTTTTGTCAgtaagatgggggggttgttgtggtaacatggtttttgtagGTACGACAGCCATCATGTGTTCGATGGGACTGGCCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCATGGTAGCCTAGCAAGTAGCATTCTTCTTCAGGCCTTAGATCTAAGgtgagtgtccgcctagaggacatagggtgcccaaagcacattggaaccct Alignment from Pairagon CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGG-CAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG GTTTTTGTCAgtaagatgggggggttgttgtggtaacatggtttttgtagGTACGACAGCCATCATGTGTTCGATGGGACTGGCCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCATGGTAGCCTAGCAAGTAGCATTCTTCTTCAGGCCTTAGATCTAAGgtgagtgtccgcctagaggacatagggtgcccaaagcacattggaaccct Alignment from Exonerate_protein2genome CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGG-CAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG GTTTTTGTCAgtaagatgggggggttgttgtggtaacatggtttttgtagGTACGACAGCCATCATGTGTTCGATGGGACTGGCCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCATGGTAGCCTAGCAAGTAGCATTCTTCTTCAGGCCTTAGATCTAAGgtgagtgtccgcctagaggacatagggtgcccaaagcacattggaaccct Alignment from Exonerate_coding2genome CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGG-CAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG GTTTTTGTCAgtaagatgggggggttgttgtggtaacatggtttttgtagGTACGACAGCCATCATGTGTTCGATGGGACTGGCCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCATGGTAGCCTAGCAAGTAGCATTCTTCTTCAGGCCTTAGATCTAAGgtgagtgtccgcctagaggacatagggtgcccaaagcacattggaaccct Alignment from GeneWise CCTGTCGGTGCCGCGGCCCTCAGGT------------------------------------------GTCCGTCGGGGC--TGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG TTTGTCAGTA---AGATGGGGGGGTTGTTGTGGTAACATGGTTTTTGTAGGTACGACAGCCATCATGTGTTCGATGGGACTGGCCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCATGGTAGCCTAGCAAGTAGCATTCTTCTTCAGGCCTTAGATCTAAGgtgagtgtccgcctagaggacatagggtgcccaaagcacattggaaccct #### Cdc42bpg_ID1602_32 --> 0 - 1 Original Alignment GTGAGACCCCTGAATCCAGAAGGCTCC-TTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAg tggttgtcaaattagtacattgagtggacttgtgtttgacttttcattagGTGAGACCCCTCAATCCAGAAGGCTTGCTTATTCCTTTATGGGACTGAAAAACTGCGCCTGACTTACCTCAGAAACCCACTGGCAagtaggggtacacaatgccaactggctgtcagagcgataagtgaacagcca Alignment from CESAR GTGAGACCCCTGAATCCAGAAGGC-TCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAg tggttgtcaaattagtacattgagtggacttgtgtttgacttttcattagGTGAGACCCCTCAATCCAGAAGGCTTGCTTATTCCTTTATGGGACTGAAAAACTGCGCCTGACTTACCTCAGAAACCCACTGGCAagtaggggtacacaatgccaactggctgtcagagcgataagtgaacagcca Alignment from Spaln_aa2Genome GTGAGACCCCTGAATCCAGAAGGC-TCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAG tggttgtcaaattagtacattgagtggacttgtgtttgacttttcattagGTGAGACCCCTCAATCCAGAAGGCtTGCTTATTCCTTTATGGGACTGAAAAACTGCGCCTGACTTACCTCAGAAACCCACTGGCAAgtaggggtacacaatgccaactggctgtcagagcgataagtgaacagcca Alignment from Spaln_nt2Genome GTGAGACCCCTGAATCCAGAAGGCTC-CTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAG tggttgtcaaattagtacattgagtggacttgtgtttgacttttcattagGTGAGACCCCTCAATCCAGAAGGCTTGCTTATTCCTTTATGGGACTGAAAAACTGCGCCTGACTTACCTCAGAAACCCACTGGCAAgtaggggtacacaatgccaactggctgtcagagcgataagtgaacagcca Alignment from Pairagon GTGAGACCCCTGAATCCAGAAGGCTC-CTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAG tggttgtcaaattagtacattgagtggacttgtgtttgacttttcattagGTGAGACCCCTCAATCCAGAAGGCTTGCTTATTCCTTTATGGGACTGAAAAACTGCGCCTGACTTACCTCAGAAACCCACTGGCAAgtaggggtacacaatgccaactggctgtcagagcgataagtgaacagcca Alignment from Exonerate_protein2genome GTGAGACCCCTGAATCCAGAAGGC-TCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAG tggttgtcaaattagtacattgagtggacttgtgtttgacttttcattagGTGAGACCCCTCAATCCAGAAGGCTTGCTTATTCCTTTATGGGACTGAAAAACTGCGCCTGACTTACCTCAGAAACCCACTGGCAAgtaggggtacacaatgccaactggctgtcagagcgataagtgaacagcca Alignment from Exonerate_coding2genome tggttgtcaaattagtacattgagtggacttgtgtttgacttttcattaggtgagacccctcaatccagaaggcttgcttattcctttatgggactgaaaaactgcgcctgacttacctcagaaacccactggcaagtaggggtacacaatgccaactggctgtcagagcgataagtgaacagcca Alignment from GeneWise GTGAGACCCCTGAATCCAGAAGGC-TCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAG tggttgtcaaattagtacattgagtggacttgtgtttgacttttcattagGTGAGACCCCTCAATCCAGAAGGCTTGCTTATTCCTTTATGGGACTGAAAAACTGCGCCTGACTTACCTCAGAAACCCACTGGCAAgtaggggtacacaatgccaactggctgtcagagcgataagtgaacagcca #### Cdca5_ID1429_3 --> 0 - 0 Original Alignment ACAACTCCAGCGGTCCCAGTCAGAAAGGCC-ATCGTCTTGAAGAAGATCGTAGCTCATGCAGTAGAG cactatcttacaactcccagacaacaccaggtcctcaccccactctgtagATGACTCCCACTGTCCCAGTTAGAAAAGCCCATCATCTTGAAAAAGATAGTTGCACATGCAGTCGAAgtgagtggggcagaattggccactgagatgtccaaaaaggttcaagctaa Alignment from CESAR ACAACTCCAGCGGTCCCAGTCAGAAAGGCC-ATCGTCTTGAAGAAGATCGTAGCTCATGCAGTAGAG cactatcttacaactcccagacaacaccaggtcctcaccccactctgtagATGACTCCCACTGTCCCAGTTAGAAAAGCCCATCATCTTGAAAAAGATAGTTGCACATGCAGTCGAAgtgagtggggcagaattggccactgagatgtccaaaaaggttcaagctaa Alignment from Spaln_aa2Genome ACAACTCCAGCGGTCCCAGTCAGAAAGGCC-ATCGTCTTGAAGAAGATCGTAGCTCATGCAGTAGAG cactatcttacaactcccagacaacaccaggtcctcaccccactctgtagATGACTCCCACTGTCCCAGTTAGAAAAGCCcATCATCTTGAAAAAGATAGTTGCACATGCAGTCGAAgtgagtggggcagaattggccactgagatgtccaaaaaggttcaagctaa Alignment from Spaln_nt2Genome ACAACTCCAGCGGTCCCAGTCAGAAAGGCC-ATCGTCTTGAAGAAGATCGTAGCTCATGCAGTAGAG cactatcttacaactcccagacaacaccaggtcctcaccccactctgtagATGACTCCCACTGTCCCAGTTAGAAAAGCCCATCATCTTGAAAAAGATAGTTGCACATGCAGTCGAAgtgagtggggcagaattggccactgagatgtccaaaaaggttcaagctaa Alignment from Pairagon ACAACTCCAG------------------------------CGGTCCCAGTCAGAAAGGC-CATCGTCTTGAAGAAGATCGTAGCTCATGCAGTAGAG cactatcttacaactcccagACAACACCAGGTCCTCACCCCACTCTGTAGATGACTCCCACTGTCCCAGTTAGAAAAGCCCATCATCTTGAAAAAGATAGTTGCACATGCAGTCGAAgtgagtggggcagaattggccactgagatgtccaaaaaggttcaagctaa Alignment from Exonerate_protein2genome CAACTCCAGCGGTCCCAGTCAGAAAGGCCATCGTCTTGAAGAAGATCGTAGCTCATGCAGTAGAG cactatcttacaactcccagacaacaccaggtcctcaccccactctgtagatGACTCCCACTGTCCCAGTTAGAAAAGCCCATCATCTTGAAAAAGATAGTTGCACATGCAGTCGAAgtgagtggggcagaattggccactgagatgtccaaaaaggttcaagctaa Alignment from Exonerate_coding2genome cactatcttacaactcccagacaacaccaggtcctcaccccactctgtagatgactcccactgtcccagttagaaaagcccatcatcttgaaaaagatagttgcacatgcagtcgaagtgagtggggcagaattggccactgagatgtccaaaaaggttcaagctaa Alignment from GeneWise cactatcttacaactcccagacaacaccaggtcctcaccccactctgtagatgactcccactgtcccagttagaaaagcccatcatcttgaaaaagatagttgcacatgcagtcgaagtgagtggggcagaattggccactgagatgtccaaaaaggttcaagctaa #### Cep78_ID3982_4 --> 2 - 0 Original Alignment ttATTTGTCAAGGTATAAAGAACTCTGTCACTCTCAAGACCGTC-AACTTTACAGGGTGTAATCTGACATGGCAAGGAGCCTGTCATATGGCCAAGATCTTAAAG tgtcagctttagagaaaggtggacaactggatatttgcctgtcattgcagttATCTGTCAAGGCATAAAAAATTCTGTTGCCCTTAAAACTGTCCAATTTTACTGGGTGTAATCGAACATGGCAGGGAGCCTGTCAGATGGCCAAGATCATAAAAgtaagcaatgttcaaattcagtgttactgcagttcatatactgacaagac Alignment from CESAR ttATTTGTCAAGGTATAAAGAACTCTGTCACTCTCAAGACCGTC-AACTTTACAGGGTGTAATCTGACATGGCAAGGAGCCTGTCATATGGCCAAGATCTTAAAG tgtcagctttagagaaaggtggacaactggatatttgcctgtcattgcagttATCTGTCAAGGCATAAAAAATTCTGTTGCCCTTAAAACTGTCCAATTTTACTGGGTGTAATCGAACATGGCAGGGAGCCTGTCAGATGGCCAAGATCATAAAAgtaagcaatgttcaaattcagtgttactgcagttcatatactgacaagac Alignment from Spaln_aa2Genome TTATTTGTCAAGGTATAAAGAACTCTGTCACTCTCAAGACCGTCAAC-TTTACAGGGTGTAATCTGACATGGCAAGGAGCCTGTCATATGGCCAAGATCTTAAAG tgtcagctttagagaaaggtggacaactggatatttgcctgtcattgcagTTATCTGTCAAGGCATAAAAAATTCTGTTGCCCTTAAAACTGTCCAAtTTTACTGGGTGTAATCGAACATGGCAGGGAGCCTGTCAGATGGCCAAGATCATAAAAgtaagcaatgttcaaattcagtgttactgcagttcatatactgacaagac Alignment from Spaln_nt2Genome TTATTTGTCAAGGTATAAAGAACTCTGTCACTCTCAAGACCGTC-AACTTTACAGGGTGTAATCTGACATGGCAAGGAGCCTGTCATATGGCCAAGATCTTAAAG tgtcagctttagagaaaggtggacaactggatatttgcctgtcattgcagTTATCTGTCAAGGCATAAAAAATTCTGTTGCCCTTAAAACTGTCCAATTTTACTGGGTGTAATCGAACATGGCAGGGAGCCTGTCAGATGGCCAAGATCATAAAAgtaagcaatgttcaaattcagtgttactgcagttcatatactgacaagac Alignment from Pairagon TTATTTGTCAAGGTATAAAGAACTCTGTCACTCTCAAGACCGT-CAACTTTACAGGGTGTAATCTGACATGGCAAGGAGCCTGTCATATGGCCAAGATCTTAAAG tgtcagctttagagaaaggtggacaactggatatttgcctgtcattgcagTTATCTGTCAAGGCATAAAAAATTCTGTTGCCCTTAAAACTGTCCAATTTTACTGGGTGTAATCGAACATGGCAGGGAGCCTGTCAGATGGCCAAGATCATAAAAgtaagcaatgttcaaattcagtgttactgcagttcatatactgacaagac Alignment from Exonerate_protein2genome TTATTTGTCAAGGTATAAAGAACTCTGTCACTCTCAAGACCGTC-AACTTTACAGGGTGTAATCTGACATGGCAAGGAGCCTGTCATATGGCCAAGATCTTAAAG tgtcagctttagagaaaggtggacaactggatatttgcctgtcattgcagTTATCTGTCAAGGCATAAAAAATTCTGTTGCCCTTAAAACTGTCCAATTTTACTGGGTGTAATCGAACATGGCAGGGAGCCTGTCAGATGGCCAAGATCATAAAAgtaagcaatgttcaaattcagtgttactgcagttcatatactgacaagac Alignment from Exonerate_coding2genome TTATTTGTCAAGGTATAAAGAACTCTGTCACTCTCAAGACCGTC-AACTTTACAGGGTGTAATCTGACATGGCAAGGAGCCTGTCATATGGCCAAGATCTTAAAG tgtcagctttagagaaaggtggacaactggatatttgcctgtcattgcagTTATCTGTCAAGGCATAAAAAATTCTGTTGCCCTTAAAACTGTCCAATTTTACTGGGTGTAATCGAACATGGCAGGGAGCCTGTCAGATGGCCAAGATCATAAAAgtaagcaatgttcaaattcagtgttactgcagttcatatactgacaagac Alignment from GeneWise TTATTTGTCAAGGTATAAAGAACTCTGTCACTCTCAAGACC-GTCAACTTTACAGGGTGTAATCTGACATGGCAAGGAGCCTGTCATATGGCCAAGATCTTAAAG tgtcagctttagagaaaggtggacaactggatatttgcctgtcattgcagTTATCTGTCAAGGCATAAAAAATTCTGTTGCCCTTAAAACTGTCCAATTTTACTGGGTGTAATCGAACATGGCAGGGAGCCTGTCAGATGGCCAAGATCATAAAAgtaagcaatgttcaaattcagtgttactgcagttcatatactgacaagac #### Chuk_ID8921_7 --> 0 - 2 Original Alignment GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGG-CCTTTTTTGCATCATCTGCAGCCATTTACCtg ttttcaaaagtctgaactttatagttccttttacctgttctcttccccagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTGTTGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCCTTTTTTGCATCATCTACAGCCATTTACCtggtaagtcagtgctatttgttgttggggagaactcccagttaaatgaggta Alignment from CESAR GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGG-CCTTTTTTGCATCATCTGCAGCCATTTACCtg ttttcaaaagtctgaactttatagttccttttacctgttctcttccccagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTGTTGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCCTTTTTTGCATCATCTACAGCCATTTACCtggtaagtcagtgctatttgttgttggggagaactcccagttaaatgaggta Alignment from Spaln_aa2Genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTT-TTGCATCATCTGCAGCCATTTACCTG ttttcaaaagtctgaactttatagttccttttacctgttctcttccccagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTGTTGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCCTTTtTTGCATCATCTACAGCCATTTACCTGgtaagtcagtgctatttgttgttggggagaactcccagttaaatgaggta Alignment from Spaln_nt2Genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTT-TGCATCATCTGCAGCCATTTACCTG ttttcaaaagtctgaactttatagttccttttacctgttctcttccccagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTGTTGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCCTTTTTTGCATCATCTACAGCCATTTACCTGgtaagtcagtgctatttgttgttggggagaactcccagttaaatgaggta Alignment from Pairagon GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGG-CCTTTTTTGCATCATCTGCAGCCATTTACCTG ttttcaaaagtctgaactttatagttccttttacctgttctcttccccagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTGTTGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCCTTTTTTGCATCATCTACAGCCATTTACCTGgtaagtcagtgctatttgttgttggggagaactcccagttaaatgaggta Alignment from Exonerate_protein2genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGG-CCTTTTTTGCATCATCTGCAGCCATTTACCTG ttttcaaaagtctgaactttatagttccttttacctgttctcttccccagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTGTTGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCCTTTTTTGCATCATCTACAGCCATTTACCTGgtaagtcagtgctatttgttgttggggagaactcccagttaaatgaggta Alignment from Exonerate_coding2genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGG-CCTTTTTTGCATCATCTGCAGCCATTTACCTG ttttcaaaagtctgaactttatagttccttttacctgttctcttccccagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTGTTGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCCTTTTTTGCATCATCTACAGCCATTTACCTGgtaagtcagtgctatttgttgttggggagaactcccagttaaatgaggta Alignment from GeneWise GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTT-TTGCATCATCTGCAGCCATTTACCTG ttttcaaaagtctgaactttatagttccttttacctgttctcttccccagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTGTTGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCCTTTTTTGCATCATCTACAGCCATTTACCTGgtaagtcagtgctatttgttgttggggagaactcccagttaaatgaggta #### Col17a1_ID10287_35 --> 2 - 1 Original Alignment gtCCAGCTGGCCCTGCTGGT-CTCCCAGGACAACAAg caaatacacatggatggcaaaactgtttgattcttcttctctctgactaggtCCGGCTAGCCCTGGTGGTCCTACCAGGAGAGCAAggtgagcatctgcatgactgacagtgtcaggctctgaggagtgagtgcagg Alignment from CESAR gtCCAGCTGGCCCTGCTGGT-CTCCCAGGACAACAAg caaatacacatggatggcaaaactgtttgattcttcttctctctgactaggtCCGGCTAGCCCTGGTGGTCCTACCAGGAGAGCAAggtgagcatctgcatgactgacagtgtcaggctctgaggagtgagtgcagg Alignment from Spaln_aa2Genome GTCCAGCTGGCCCTGCTGGT-CTCCCAGGACAACAAG caaatacacatggatggcaaaactgtttgattcttcttctctctgactagGTCCGGCTAGCCCTGGTGGTcCTACCAGGAGAGCAAGgtgagcatctgcatgactgacagtgtcaggctctgaggagtgagtgcagg Alignment from Spaln_nt2Genome GTCCAGCTGGCCCTGCTGGTC-TCCCAGGACAACAAG caaatacacatggatggcaaaactgtttgattcttcttctctctgactagGTCCGGCTAGCCCTGGTGGTCCTACCAGGAGAGCAAGgtgagcatctgcatgactgacagtgtcaggctctgaggagtgagtgcagg Alignment from Pairagon ---------------------------------------------GCCAGGTCCAGCTGGCCCTGCTGGT-CTCCCAGGACAACAAG CAAATACACATGGATGGCAAAACTGTTTGATTCTTCTTCTCTCTGACTAGGTCCGGCTAGCCCTGGTGGTCCTACCAGGAGAGCAAGgtgagcatctgcatgactgacagtgtcaggctctgaggagtgagtgcagg Alignment from Exonerate_protein2genome GTCCAGCTGGCCCTGCTGGT-CTCCCAGGACAACAAG caaatacacatggatggcaaaactgtttgattcttcttctctctgactagGTCCGGCTAGCCCTGGTGGTCCTACCAGGAGAGCAAGgtgagcatctgcatgactgacagtgtcaggctctgaggagtgagtgcagg Alignment from Exonerate_coding2genome caaatacacatggatggcaaaactgtttgattcttcttctctctgactaggtccggctagccctggtggtcctaccaggagagcaaggtgagcatctgcatgactgacagtgtcaggctctgaggagtgagtgcagg Alignment from GeneWise caaatacacatggatggcaaaactgtttgattcttcttctctctgactaggtccggctagccctggtggtcctaccaggagagcaaggtgagcatctgcatgactgacagtgtcaggctctgaggagtgagtgcagg #### Col17a1_ID10293_29 --> 2 - 1 Original Alignment gtCCGGCTGGCGCTGATGGA-CAGCAAGGTTCCAGAg tcagaaagcccattgatcagttaacacatcttcctgttttcattcatcaggtCCAGCTGGCGCTGATGGACCAACAAGGTTCACGGggtatcccaatcccttgtagtttccttgatgactggttgccctttgtcctc Alignment from CESAR gtCCGGCTGGCGCTGATGGA-CAGCAAGGTTCCAGAg tcagaaagcccattgatcagttaacacatcttcctgttttcattcatcaggtCCAGCTGGCGCTGATGGACCAACAAGGTTCACGGggtatcccaatcccttgtagtttccttgatgactggttgccctttgtcctc Alignment from Spaln_aa2Genome GTCCGGCTGGCGCTGATGGA-CAGCAAGGTTCCAGAG tcagaaagcccattgatcagttaacacatcttcctgttttcattcatcagGTCCAGCTGGCGCTGATGGAcCAACAAGGTTCACGGGgtatcccaatcccttgtagtttccttgatgactggttgccctttgtcctc Alignment from Spaln_nt2Genome GTCCGGCTGGCGCTGATGGAC-AGCAAGGTTCCAGAG tcagaaagcccattgatcagttaacacatcttcctgttttcattcatcagGTCCAGCTGGCGCTGATGGACCAACAAGGTTCACGGGgtatcccaatcccttgtagtttccttgatgactggttgccctttgtcctc Alignment from Pairagon GTCCGGCTGGCGCTGATGGA-CAGCAAGGTTCCAGAG tcagaaagcccattgatcagttaacacatcttcctgttttcattcatcagGTCCAGCTGGCGCTGATGGACCAACAAGGTTCACGGGgtatcccaatcccttgtagtttccttgatgactggttgccctttgtcctc Alignment from Exonerate_protein2genome GTCCGGCTGGCGCTGATGGA-CAGCAAGGTTCCAGAG tcagaaagcccattgatcagttaacacatcttcctgttttcattcatcagGTCCAGCTGGCGCTGATGGACCAACAAGGTTCACGGGgtatcccaatcccttgtagtttccttgatgactggttgccctttgtcctc Alignment from Exonerate_coding2genome tcagaaagcccattgatcagttaacacatcttcctgttttcattcatcaggtccagctggcgctgatggaccaacaaggttcacggggtatcccaatcccttgtagtttccttgatgactggttgccctttgtcctc Alignment from GeneWise tcagaaagcccattgatcagttaacacatcttcctgttttcattcatcaggtccagctggcgctgatggaccaacaaggttcacggggtatcccaatcccttgtagtttccttgatgactggttgccctttgtcctc #### Col17a1_ID10297_25 --> 2 - 1 Original Alignment gtGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGA-CTTCCTGGTGTCAAAg acataggaaaggaatatcattgtctgaggtgactggtgattctgttctaggtGCTGTTGGAACCCAGGGACTTCGGGGTGACGTGGGACTTGCCTGGTGTGAAAggtaatgcgggtagtgaaaggtgagggctcatttgagaaggtattttaagc Alignment from CESAR gtGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTT-CCTGGTGTCAAAg acataggaaaggaatatcattgtctgaggtgactggtgattctgttctaggtGCTGTTGGAACCCAGGGACTTCGGGGTGACGTGGGACTTGCCTGGTGTGAAAggtaatgcgggtagtgaaaggtgagggctcatttgagaaggtattttaagc Alignment from Spaln_aa2Genome GTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGA-CTTCCTGGTGTCAAAG acataggaaaggaatatcattgtctgaggtgactggtgattctgttctagGTGCTGTTGGAACCCAGGGACTTCGGGGTGACGTGGGAcTTGCCTGGTGTGAAAGgtaatgcgggtagtgaaaggtgagggctcatttgagaaggtattttaagc Alignment from Spaln_nt2Genome GTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTT-CCTGGTGTCAAAG acataggaaaggaatatcattgtctgaggtgactggtgattctgttctagGTGCTGTTGGAACCCAGGGACTTCGGGGTGACGTGGGACTTGCCTGGTGTGAAAGgtaatgcgggtagtgaaaggtgagggctcatttgagaaggtattttaagc Alignment from Pairagon GTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTT-CCTGGTGTCAAAG acataggaaaggaatatcattgtctgaggtgactggtgattctgttctagGTGCTGTTGGAACCCAGGGACTTCGGGGTGACGTGGGACTTGCCTGGTGTGAAAGgtaatgcgggtagtgaaaggtgagggctcatttgagaaggtattttaagc Alignment from Exonerate_protein2genome GTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGA-CTTCCTGGTGTCAAAGGTGACAAAGGACTCATGGG acataggaaaggaatatcattgtctgaggtgactggtgattctgttctagGTGCTGTTGGAACCCAGGGACTTCGGGGTGACGTGGGACTTGCCTGGTGTGAAAGGTAATGCGGGTAGTGAAAGgtgagggctcatttgagaaggtattttaagc Alignment from Exonerate_coding2genome acataggaaaggaatatcattgtctgaggtgactggtgattctgttctaggtgctgttggaacccagggacttcggggtgacgtgggacttgcctggtgtgaaaggtaatgcgggtagtgaaaggtgagggctcatttgagaaggtattttaagc Alignment from GeneWise acataggaaaggaatatcattgtctgaggtgactggtgattctgttctaggtgctgttggaacccagggacttcggggtgacgtgggacttgcctggtgtgaaaggtaatgcgggtagtgaaaggtgagggctcatttgagaaggtattttaagc #### Coro1b_ID352_2 --> 0 - 0 Original Alignment ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGG-CACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG ctagatgagccaaaacgcttaagatgagtctcatcctggttatctcctagACTGGCCATGTGGACAAGGCATTCCCAACAGTCTGTGGACCACACAGGGTCTGTTCTAGATATAGACTGGTGTCCGCACAATGATGAAGTCATTGCCAGCGGAGCAGAAGATTGTACTGTTACAgtaaaaaaaacctgttcagtttttattgtttcaagtgcaccaacttctag Alignment from CESAR ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGG-CACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG ctagatgagccaaaacgcttaagatgagtctcatcctggttatctcctagACTGGCCATGTGGACAAGGCATTCCCAACAGTCTGTGGACCACACAGGGTCTGTTCTAGATATAGACTGGTGTCCGCACAATGATGAAGTCATTGCCAGCGGAGCAGAAGATTGTACTGTTACAgtaaaaaaaacctgttcagtttttattgtttcaagtgcaccaacttctag Alignment from Spaln_aa2Genome ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGG-CACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG ctagatgagccaaaacgcttaagatgagtctcatcctggttatctcctagACTGGCCATGTGGACAAGGCATTCCCAACAGTCTGTGGAcCACACAGGGTCTGTTCTAGATATAGACTGGTGTCCGCACAATGATGAAGTCATTGCCAGCGGAGCAGAAGATTGTACTGTTACAgtaaaaaaaacctgttcagtttttattgtttcaagtgcaccaacttctag Alignment from Spaln_nt2Genome ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGC-ACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG ctagatgagccaaaacgcttaagatgagtctcatcctggttatctcctagACTGGCCATGTGGACAAGGCATTCCCAACAGTCTGTGGACCACACAGGGTCTGTTCTAGATATAGACTGGTGTCCGCACAATGATGAAGTCATTGCCAGCGGAGCAGAAGATTGTACTGTTACAgtaaaaaaaacctgttcagtttttattgtttcaagtgcaccaacttctag Alignment from Pairagon ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGG-CACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATGGTA----------------------------------------------- ctagatgagccaaaacgcttaagatgagtctcatcctggttatctcctagACTGGCCATGTGGACAAGGCATTCCCAACAGTCTGTGGACCACACAGGGTCTGTTCTAGATATAGACTGGTGTCCGCACAATGATGAAGTCATTGCCAGCGGAGCAGAAGATTGTACTGTTACAGTAAAAAAAACCTGTTCAGTTTTTATTGTTTCAAGTGCACCAACTTCTAG Alignment from Exonerate_protein2genome ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGG-CACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG ctagatgagccaaaacgcttaagatgagtctcatcctggttatctcctagACTGGCCATGTGGACAAGGCATTCCCAACAGTCTGTGGACCACACAGGGTCTGTTCTAGATATAGACTGGTGTCCGCACAATGATGAAGTCATTGCCAGCGGAGCAGAAGATTGTACTGTTACAgtaaaaaaaacctgttcagtttttattgtttcaagtgcaccaacttctag Alignment from Exonerate_coding2genome ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGG-CACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG ctagatgagccaaaacgcttaagatgagtctcatcctggttatctcctagACTGGCCATGTGGACAAGGCATTCCCAACAGTCTGTGGACCACACAGGGTCTGTTCTAGATATAGACTGGTGTCCGCACAATGATGAAGTCATTGCCAGCGGAGCAGAAGATTGTACTGTTACAgtaaaaaaaacctgttcagtttttattgtttcaagtgcaccaacttctag Alignment from GeneWise ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGT-GGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG ctagatgagccaaaacgcttaagatgagtctcatcctggttatctcctagACTGGCCATGTGGACAAGGCATTCCCAACAGTCTGTGGACCACACAGGGTCTGTTCTAGATATAGACTGGTGTCCGCACAATGATGAAGTCATTGCCAGCGGAGCAGAAGATTGTACTGTTACAgtaaaaaaaacctgttcagtttttattgtttcaagtgcaccaacttctag #### Coro1b_ID354_4 --> 2 - 0 Original Alignment gtTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGC-AAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA atttaattcgttacaaactcatttgcacatgtctgtccttgcctctccaggaTGTGACAATGTGCTACTTATCTGGAATGTGGATGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCTTATAATGTCAGTTGGAACCACATTGGCAGCTTCTTTTGTTCAGCCTGCCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtaggcacaaatgagtattctgtttttgacttttgtcttcgtctctttgc Alignment from CESAR gtTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGC-AAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA atttaattcgttacaaactcatttgcacatgtctgtccttgcctctccaggaTGTGACAATGTGCTACTTATCTGGAATGTGGATGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCTTATAATGTCAGTTGGAACCACATTGGCAGCTTCTTTTGTTCAGCCTGCCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtaggcacaaatgagtattctgtttttgactctttccttcttccctgtga Alignment from Spaln_aa2Genome GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGC-AAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA atttaattcgttacaaactcatttgcacatgtctgtccttgcctctccagGATGTGACAATGTGCTACTTATCTGGAATGTGGATGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCTTATAATGTCAGTTGGAACCACATTGGCAGCTTCTTTTGTTCAGCCTGCcAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtaggcacaaatgagtattctgtttttgacttttgtcttcgtctctttgc Alignment from Spaln_nt2Genome GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTG-CAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA atttaattcgttacaaactcatttgcacatgtctgtccttgcctctccagGATGTGACAATGTGCTACTTATCTGGAATGTGGATGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCTTATAATGTCAGTTGGAACCACATTGGCAGCTTCTTTTGTTCAGCCTGCCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtaggcacaaatgagtattctgtttttgacttttgtcttcgtctctttgc Alignment from Pairagon GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTG-CAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA atttaattcgttacaaactcatttgcacatgtctgtccttgcctctccagGATGTGACAATGTGCTACTTATCTGGAATGTGGATGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCTTATAATGTCAGTTGGAACCACATTGGCAGCTTCTTTTGTTCAGCCTGCCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtaggcacaaatgagtattctgtttttgacttttgtcttcgtctctttgc Alignment from Exonerate_protein2genome GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGC-AAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA atttaattcgttacaaactcatttgcacatgtctgtccttgcctctccagGATGTGACAATGTGCTACTTATCTGGAATGTGGATGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCTTATAATGTCAGTTGGAACCACATTGGCAGCTTCTTTTGTTCAGCCTGCCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtaggcacaaatgagtattctgtttttgacttttgtcttcgtctctttgc Alignment from Exonerate_coding2genome GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGC-AAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA atttaattcgttacaaactcatttgcacatgtctgtccttgcctctccagGATGTGACAATGTGCTACTTATCTGGAATGTGGATGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCTTATAATGTCAGTTGGAACCACATTGGCAGCTTCTTTTGTTCAGCCTGCCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtaggcacaaatgagtattctgtttttgacttttgtcttcgtctctttgc Alignment from GeneWise GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGC-AAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA atttaattcgttacaaactcatttgcacatgtctgtccttgcctctccagGATGTGACAATGTGCTACTTATCTGGAATGTGGATGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCTTATAATGTCAGTTGGAACCACATTGGCAGCTTCTTTTGTTCAGCCTGCCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtaggcacaaatgagtattctgtttttgacttttgtcttcgtctctttgc #### Coro1b_ID359_9 --> 0 - 0 Original Alignment TCTGACCTCTTCCAGGATGATCTGTACCCTGACACAGCCGGGCCTGAGGCTGCTCTTGAAGCAGAGGATTGGGTGAGCGGTCAGGATGCTAATCCAATCCTCATCTCACTACGG-GAAGCCTATGTGCCCAGTAAACAACGGGACCTGAAGGTCAGCCGGCGCAACGTGCTATCAGACAGCAGGCCTGCCAGTTACAGCCGCTCCGGAGCCTCCACAGCTACTGCAGTTACTGATGTCCCCAGTGGCAACCTTGCTGGGGCTGGT ccaagatgtaacattggtatgtcttaatcctgacagcctgtcctacccagTCTGACCTCTACCAAGATGATCTGTACCCT---------GTGCCCGAGGCACTGCTTGGAGCAAAGGAGTGGGTAAGCAGTCAGGATGCTAATCCAAATTTTATCCCACTGCAACGAAGCCTACATACCAAGTAAACAACATGACTTAAAAGGTAGCCGGCACAATGTGCTCTCAGATAGCCGACCAGCCAGCTACAGCCGTTTTGGCTCCTCTACAGCTACAGCAATTACAGATGTGCCCAGTGGTAATTTTGCTGGTGCTGGCgtaaggcagtctttaaagatctgttgctcaggcactgagaagatgccctg Alignment from CESAR TCTGACCTCTTCCAGGATGATCTGTACCCTGACACAGCCGGGCCTGAGGCTGCTCTTGAAGCAGAGGATTGGGTGAGCGGTCAGGATGCTAATCCAATCCTCATCTCACTACGG-GAAGCCTATGTGCCCAGTAAACAACGGGACCTGAAGGTCAGCCGGCGCAACGTGCTATCAGACAGCAGGCCTGCCAGTTACAGCCGCTCCGGAGCCTCCACAGCTACTGCAGTTACTGATGTCCCCAGTGGCAACCTTGCTGGGGCTGGT ccaagatgtaacattggtatgtcttaatcctgacagcctgtcctacccagTCTGACCTCTACCAAGATGATCTGTACCCT---------GTGCCCGAGGCACTGCTTGGAGCAAAGGAGTGGGTAAGCAGTCAGGATGCTAATCCAAATTTTATCCCACTGCAACGAAGCCTACATACCAAGTAAACAACATGACTTAAAAGGTAGCCGGCACAATGTGCTCTCAGATAGCCGACCAGCCAGCTACAGCCGTTTTGGCTCCTCTACAGCTACAGCAATTACAGATGTGCCCAGTGGTAATTTTGCTGGTGCTGGCgtaaggcagtctttaaagatctgttgctcaggcactgagaagatgccctg Alignment from Spaln_aa2Genome TCTGACCTCTTCCAGGATGATCTGTACCCTGACACAGCCGGGCCTGAGGCTGCTCTTGAAGCAGAGGATTGGGTGAGCGGTCAGGATGCTAATCCAATCCTCATCTCACTACGG-GAAGCCTATGTGCCCAGTAAACAACGGGACCTGAAGGTCAGCCGGCGCAACGTGCTATCAGACAGCAGGCCTGCCAGTTACAGCCGCTCCGGAGCCTCCACAGCTACTGCAGTTACTGATGTCCCCAGTGGCAACCTTGCTGGGGCTGGT ccaagatgtaacattggtatgtcttaatcctgacagcctgtcctacccagTCTGACCTCTACCAAGATGATCTGTACCCT---------GTGCCCGAGGCACTGCTTGGAGCAAAGGAGTGGGTAAGCAGTCAGGATGCTAATCCAAATTTTATCCCACTGCAAcGAAGCCTACATACCAAGTAAACAACATGACTTAAAAGGTAGCCGGCACAATGTGCTCTCAGATAGCCGACCAGCCAGCTACAGCCGTTTTGGCTCCTCTACAGCTACAGCAATTACAGATGTGCCCAGTGGTAATTTTGCTGGTGCTGGCgtaaggcagtctttaaagatctgttgctcaggcactgagaagatgccctg Alignment from Spaln_nt2Genome TCTGACCTCTTCCAGGATGATCTGTACCCTGACACAGCCGGGCCTGAGGCTGCTCTTGAAGCAGAGGATTGGGTGAGCGGTCAGGATGCTAATCCAATCCTCATCTCACTACGG-GAAGCCTATGTGCCCAGTAAACAACGGGACCTGAAGGTCAGCCGGCGCAACGTGCTATCAGACAGCAGGCCTGCCAGTTACAGCCGCTCCGGAGCCTCCACAGCTACTGCAGTTACTGATGTCCCCAGTGGCAACCTTGCTGGGGCTGGT ccaagatgtaacattggtatgtcttaatcctgacagcctgtcctacccagTCTGACCTCTACCAAGATGATCTGTACCCT---------GTGCCCGAGGCACTGCTTGGAGCAAAGGAGTGGGTAAGCAGTCAGGATGCTAATCCAAATTTTATCCCACTGCAACGAAGCCTACATACCAAGTAAACAACATGACTTAAAAGGTAGCCGGCACAATGTGCTCTCAGATAGCCGACCAGCCAGCTACAGCCGTTTTGGCTCCTCTACAGCTACAGCAATTACAGATGTGCCCAGTGGTAATTTTGCTGGTGCTGGCgtaaggcagtctttaaagatctgttgctcaggcactgagaagatgccctg Alignment from Pairagon TCTGACCTCTTCCAGGATGATCTGTACCCTGACACAGCCGGGCCTGAGGCTGCTCTTGAAGCAGAGGATTGGGTGAGCGGTCAGGATGCTAATCCAATCCTCATCTCACTACGG-GAAGCCTATGTGCCCAGTAAACAACGGGACCTGAAGGTCAGCCGGCGCAACGTGCTATCAGACAGCAGGCCTGCCAGTTACAGCCGCTCCGGAGCCTCCACAGCTACTGCAGTTACTGATGTCCCCAGTGGCAACCTTGCTGGGGCTGGT ccaagatgtaacattggtatgtcttaatcctgacagcctgtcctacccagTCTGACCTCTACCAAGATGATCTGTACCCT---------GTGCCCGAGGCACTGCTTGGAGCAAAGGAGTGGGTAAGCAGTCAGGATGCTAATCCAAATTTTATCCCACTGCAACGAAGCCTACATACCAAGTAAACAACATGACTTAAAAGGTAGCCGGCACAATGTGCTCTCAGATAGCCGACCAGCCAGCTACAGCCGTTTTGGCTCCTCTACAGCTACAGCAATTACAGATGTGCCCAGTGGTAATTTTGCTGGTGCTGGCgtaaggcagtctttaaagatctgttgctcaggcactgagaagatgccctg Alignment from Exonerate_protein2genome TCTGACCTCTTCCAGGATGATCTGTACCCTGACACAGCCGGGCCTGAGGCTGCTCTTGAAGCAGAGGATTGGGTGAGCGGTCAGGATGCTAATCCAATCCTCATCTCACTACGG-GAAGCCTATGTGCCCAGTAAACAACGGGACCTGAAGGTCAGCCGGCGCAACGTGCTATCAGACAGCAGGCCTGCCAGTTACAGCCGCTCCGGAGCCTCCACAGCTACTGCAGTTACTGATGTCCCCAGTGGCAACCTTGCTGGGGCTGGT ccaagatgtaacattggtatgtcttaatcctgacagcctgtcctacccagTCTGACCTCTACCAAGATGATCTGTACCCT---------GTGCCCGAGGCACTGCTTGGAGCAAAGGAGTGGGTAAGCAGTCAGGATGCTAATCCAAATTTTATCCCACTGCAACGAAGCCTACATACCAAGTAAACAACATGACTTAAAAGGTAGCCGGCACAATGTGCTCTCAGATAGCCGACCAGCCAGCTACAGCCGTTTTGGCTCCTCTACAGCTACAGCAATTACAGATGTGCCCAGTGGTAATTTTGCTGGTGCTGGCgtaaggcagtctttaaagatctgttgctcaggcactgagaagatgccctg Alignment from Exonerate_coding2genome TCTGACCTCTTCCAGGATGATCTGTACCCTGACACAGCCGGGCCTGAGGCTGCTCTTGAAGCAGAGGATTGGGTGAGCGGTCAGGATGCTAATCCAATCCTCATCTCACTACGG-GAAGCCTATGTGCCCAGTAAACAACGGGACCTGAAGGTCAGCCGGCGCAACGTGCTATCAGACAGCAGGCCTGCCAGTTACAGCCGCTCCGGAGCCTCCACAGCTACTGCAGTTACTGATGTCCCCAGTGGCAACCTTGCTGGGGCTGGT ccaagatgtaacattggtatgtcttaatcctgacagcctgtcctacccagTCTGACCTCTACCAAGATGATCTGTACCCT---------GTGCCCGAGGCACTGCTTGGAGCAAAGGAGTGGGTAAGCAGTCAGGATGCTAATCCAAATTTTATCCCACTGCAACGAAGCCTACATACCAAGTAAACAACATGACTTAAAAGGTAGCCGGCACAATGTGCTCTCAGATAGCCGACCAGCCAGCTACAGCCGTTTTGGCTCCTCTACAGCTACAGCAATTACAGATGTGCCCAGTGGTAATTTTGCTGGTGCTGGCgtaaggcagtctttaaagatctgttgctcaggcactgagaagatgccctg Alignment from GeneWise TCTGACCTCTTCCAGGATGATCTGTACCCTGACACAGCCGGGCCTGAGGCTGCTCTTGAAGCAGAGGATTGGGTGAGCGGTCAGGATGCTAATCCAATCCTCATCTCACTA-CGGGAAGCCTATGTGCCCAGTAAACAACGGGACCTGAAGGTCAGCCGGCGCAACGTGCTATCAGACAGCAGGCCTGCCAGTTACAGCCGCTCCGGAGCCTCCACAGCTACTGCAGTTACTGATGTCCCCAGTGGCAACCTTGCTGGGGCTGGT ccaagatgtaacattggtatgtcttaatcctgacagcctgtcctacccagTCTGACCTCTACCAAGATGATCTGTACCCTGTG---------CCCGAGGCACTGCTTGGAGCAAAGGAGTGGGTAAGCAGTCAGGATGCTAATCCAAATTTTATCCCACTGCAACGAAGCCTACATACCAAGTAAACAACATGACTTAAAAGGTAGCCGGCACAATGTGCTCTCAGATAGCCGACCAGCCAGCTACAGCCGTTTTGGCTCCTCTACAGCTACAGCAATTACAGATGTGCCCAGTGGTAATTTTGCTGGTGCTGGCgtaaggcagtctttaaagatctgttgctcaggcactgagaagatgccctg #### Cpsf7_ID2863_3 --> 0 - 2 Original Alignment TGGACCACAGACCAGCAGCTGATCCAGGTTATCCGCTCTATAGGAGTCTATGATGTGGTGGAGTTGAAATTT-GCAGAGAATCGTGCAAATGGCCAGTCTAAAgg ctgccaagtttgacctgtcatctgatcttccatattctgtttgctgatagTGGACTACAGATCAGCAACTGATTCAGGTTATCCACTCTATAGGCATATATGACGTGGTGGAGTTGAAATTTCGCAGAGAACCGGGCTAATGGCCCATCTAAGgggtaaaaatcaaaactgtgggggaacccttggcctatcctttgagtgaaca Alignment from CESAR TGGACCACAGACCAGCAGCTGATCCAGGTTATCCGCTCTATAGGAGTCTATGATGTGGTGGAGTTGAAATTT-GCAGAGAATCGTGCAAATGGCCAGTCTAAAgg ctgccaagtttgacctgtcatctgatcttccatattctgtttgctgatagTGGACTACAGATCAGCAACTGATTCAGGTTATCCACTCTATAGGCATATATGACGTGGTGGAGTTGAAATTTCGCAGAGAACCGGGCTAATGGCCCATCTAAGgggtaaaaatcaaaactgtgggggaacccttggcctatcctttgagtgaaca Alignment from Spaln_aa2Genome TGGACCACAGACCAGCAGCTGATCCAGGTTATCCGCTCTATAGGAGTCTATGATGTGGTGGAGTTGAAATTT-GCAGAGAATCGTGCAAATGGCCAGTCTAAAGG ctgccaagtttgacctgtcatctgatcttccatattctgtttgctgatagTGGACTACAGATCAGCAACTGATTCAGGTTATCCACTCTATAGGCATATATGACGTGGTGGAGTTGAAATTTcGCAGAGAACCGGGCTAATGGCCCATCTAAGGGgtaaaaatcaaaactgtgggggaacccttggcctatcctttgagtgaaca Alignment from Spaln_nt2Genome TGGACCACAGACCAGCAGCTGATCCAGGTTATCCGCTCTATAGGAGTCTATGATGTGGTGGAGTTGAAATTT-GCAGAGAATCGTGCAAATGGCCAGTCTAAAGG ctgccaagtttgacctgtcatctgatcttccatattctgtttgctgatagTGGACTACAGATCAGCAACTGATTCAGGTTATCCACTCTATAGGCATATATGACGTGGTGGAGTTGAAATTTCGCAGAGAACCGGGCTAATGGCCCATCTAAGGGgtaaaaatcaaaactgtgggggaacccttggcctatcctttgagtgaaca Alignment from Pairagon TGGACCACAGACCAGCAGCTGATCCAGGTTATCCGCTCTATAGGAGTCTATGATGTGGTGGAGTTGAAATTT-GCAGAGAATCGTGCAAATGGCCAGTCTAAAGG ctgccaagtttgacctgtcatctgatcttccatattctgtttgctgatagTGGACTACAGATCAGCAACTGATTCAGGTTATCCACTCTATAGGCATATATGACGTGGTGGAGTTGAAATTTCGCAGAGAACCGGGCTAATGGCCCATCTAAGGGgtaaaaatcaaaactgtgggggaacccttggcctatcctttgagtgaaca Alignment from Exonerate_protein2genome TGGACCACAGACCAGCAGCTGATCCAGGTTATCCGCTCTATAGGAGTCTATGATGTGGTGGAGTTGAAA-TTTGCAGAGAATCGTGCAAATGGCCAGTCTAAAGG ctgccaagtttgacctgtcatctgatcttccatattctgtttgctgatagTGGACTACAGATCAGCAACTGATTCAGGTTATCCACTCTATAGGCATATATGACGTGGTGGAGTTGAAATTTCGCAGAGAACCGGGCTAATGGCCCATCTAAGGGgtaaaaatcaaaactgtgggggaacccttggcctatcctttgagtgaaca Alignment from Exonerate_coding2genome TGGACCACAGACCAGCAGCTGATCCAGGTTATCCGCTCTATAGGAGTCTATGATGTGGTGGAGTTGAAA-TTTGCAGAGAATCGTGCAAATGGCCAGTCTAAAGG ctgccaagtttgacctgtcatctgatcttccatattctgtttgctgatagTGGACTACAGATCAGCAACTGATTCAGGTTATCCACTCTATAGGCATATATGACGTGGTGGAGTTGAAATTTCGCAGAGAACCGGGCTAATGGCCCATCTAAGGGgtaaaaatcaaaactgtgggggaacccttggcctatcctttgagtgaaca Alignment from GeneWise TGGACCACAGACCAGCAGCTGATCCAGGTTATCCGCTCTATAGGAGTCTATGATGTGGTGGAGTTGAAATTT-GCAGAGAATCGTGCAAATGGCCAGTCTAAAGG ctgccaagtttgacctgtcatctgatcttccatattctgtttgctgatagTGGACTACAGATCAGCAACTGATTCAGGTTATCCACTCTATAGGCATATATGACGTGGTGGAGTTGAAATTTCGCAGAGAACCGGGCTAATGGCCCATCTAAGGGgtaaaaatcaaaactgtgggggaacccttggcctatcctttgagtgaaca #### Csf2ra_ID13432_8 --> 0 - 1 Original Alignment GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCC-GCCCATCCTCTCg ggtccacaaagatatgttcttactcccatctctctctctttttgttgcagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGGTGATACTAGGATGAAGCACTGGGGGAAATGG------CGTGCAGCCTCTCggtaagtcaactgttatgttttcatgcaaaagatatacctgctgtccaaca Alignment from CESAR GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCg ggtccacaaagatatgttcttactcccatctctctctctttttgttgcagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGGTGATACTAGGATGAAGCACTGGGGGAAATGGCGT---G--CAGCCTCTCggtaagtcaactgttatgttttcatgcaaaagatatacctgctgtccaaca Alignment from Spaln_aa2Genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGA ggtccacaaagatatgttcttactcccatctctctctctttttgttgcagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGGTGATACTAGGATGAAGCACTGGGGGAAATGGCgtgcagcctctcggtaagtcaactgttatgttttcatgcaaaagatatacctgctgtccaaca Alignment from Spaln_nt2Genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG ggtccacaaagatatgttcttactcccatctctctctctttttgttgcagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGGTGATACTAGGATGAAGCACTGGGGGAAATGG-----CGTGCAGCCTCTCGgtaagtcaactgttatgttttcatgcaaaagatatacctgctgtccaaca Alignment from Pairagon GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG ggtccacaaagatatgttcttactcccatctctctctctttttgttgcagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGGTGATACTAGGATGAAGCACTGGGGGAAATGG-----CGTGCAGCCTCTCGgtaagtcaactgttatgttttcatgcaaaagatatacctgctgtccaaca Alignment from Exonerate_protein2genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCC ggtccacaaagatatgttcttactcccatctctctctctttttgttgcagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGGTGATACTAGGATGAAGCACTGGGGGAAATGGCGTGCAGCCTCTCGgtaagtcaactgttatgttttcatgcaaaagatatacctgctgtccaaca Alignment from Exonerate_coding2genome CGGAAGGTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCC ggtccacaaagatatgttcttactcccatctctctctctttttgTTGCAGGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGGTGATACTAGGATGAAGCACTGGGGGAAATGGCGTGCAGCCtctcggtaagtcaactgttatgttttcatgcaaaagatatacctgctgtccaaca Alignment from GeneWise GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGA ggtccacaaagatatgttcttactcccatctctctctctttttgttgcagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGGTGATACTAGGATGAAGCACTGGGGGAAATGGCgtgcagcctctcggtaagtcaactgttatgttttcatgcaaaagatatacctgctgtccaaca #### Csf2ra_ID13436_4 --> 2 - 2 Original Alignment gcGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCC-GCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCac tgatagaggtagtgttgaattgcacccaggtcactcccaccactccacaggcACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGATTCGAGCTCTCACGCTTTCTTTCCTGTGCTTGGCGAGAGGGGCCAGCTGCACCTGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAacgtaaggtgtaaacacccagttgtctgtccgcagcacattgccactatctt Alignment from CESAR gcGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCC-GCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCac tgatagaggtagtgttgaattgcacccaggtcactcccaccactccacaggcACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGATTCGAGCTCTCACGCTTTCTTTCCTGTGCTTGGCGAGAGGGGCCAGCTGCACCTGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAacgtaaggtgtaaacacccagttgtctgtccgcagcacattgccactatctt Alignment from Spaln_aa2Genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCC-GCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC tgatagaggtagtgttgaattgcacccaggtcactcccaccactccacagGCACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGATTCGAGCTcTCACGCTTTCTTTCCTGTGCTTGGCGAGAGGGGCCAGCTGCACCTGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAACgtaaggtgtaaacacccagttgtctgtccgcagcacattgccactatctt Alignment from Spaln_nt2Genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGC-CGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC tgatagaggtagtgttgaattgcacccaggtcactcccaccactccacagGCACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGATTCGAGCTCTCACGCTTTCTTTCCTGTGCTTGGCGAGAGGGGCCAGCTGCACCTGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAACgtaaggtgtaaacacccagttgtctgtccgcagcacattgccactatctt Alignment from Pairagon GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGC-CGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC tgatagaggtagtgttgaattgcacccaggtcactcccaccactccacagGCACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGATTCGAGCTCTCACGCTTTCTTTCCTGTGCTTGGCGAGAGGGGCCAGCTGCACCTGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAACgtaaggtgtaaacacccagttgtctgtccgcagcacattgccactatctt Alignment from Exonerate_protein2genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCC-GCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC tgatagaggtagtgttgaattgcacccaggtcactcccaccactccacagGCACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGATTCGAGCTCTCACGCTTTCTTTCCTGTGCTTGGCGAGAGGGGCCAGCTGCACCTGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAACgtaaggtgtaaacacccagttgtctgtccgcagcacattgccactatctt Alignment from Exonerate_coding2genome tgatagaggtagtgttgaattgcacccaggtcactcccaccactccacaggcactgcaggcactggggcagagaacctaatctgtgagattcgagctctcacgctttctttcctgtgcttggcgagaggggccagctgcacctgcagatgtccagcactcactgcaggtccttaactcaacgtaaggtgtaaacacccagttgtctgtccgcagcacattgccactatctt Alignment from GeneWise GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCC-GCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC tgatagaggtagtgttgaattgcacccaggtcactcccaccactccacagGCACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGATTCGAGCTCTCACGCTTTCTTTCCTGTGCTTGGCGAGAGGGGCCAGCTGCACCTGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAACgtaaggtgtaaacacccagttgtctgtccgcagcacattgccactatctt #### Csf2ra_ID13437_3 --> 0 - 1 Original Alignment CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTC-AATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAg atagaatgctccgtgcattaccttaaccgcctctgtgtgtctgtccccagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTAGACGTCCAATGGCACAGTTGGAGGTGCAGCTGCACATTGGAAGCTCAGCTTTGTTAATGAGggtcagcgtagatgttgtggactccaggttacactttctagctatcatatc Alignment from CESAR CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTC-AATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAg atagaatgctccgtgcattaccttaaccgcctctgtgtgtctgtccccagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTAGACGTCCAATGGCACAGTTGGAGGTGCAGCTGCACATTGGAAGCTCAGCTTTGTTAATGAGggtcagcgtagatgttgtggactccaggttacactttctagctatcatatc Alignment from Spaln_aa2Genome CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTC-AATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAG atagaatgctccgtgcattaccttaaccgcctctgtgtgtctgtccccagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTAGACGTCcAATGGCACAGTTGGAGGTGCAGCTGCACATTGGAAGCTCAGCTTTGTTAATGAGGgtcagcgtagatgttgtggactccaggttacactttctagctatcatatc Alignment from Spaln_nt2Genome CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTC-AATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAG atagaatgctccgtgcattaccttaaccgcctctgtgtgtctgtccccagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTAGACGTCCAATGGCACAGTTGGAGGTGCAGCTGCACATTGGAAGCTCAGCTTTGTTAATGAGGgtcagcgtagatgttgtggactccaggttacactttctagctatcatatc Alignment from Pairagon CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTC-AATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAG atagaatgctccgtgcattaccttaaccgcctctgtgtgtctgtccccagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTAGACGTCCAATGGCACAGTTGGAGGTGCAGCTGCACATTGGAAGCTCAGCTTTGTTAATGAGGgtcagcgtagatgttgtggactccaggttacactttctagctatcatatc Alignment from Exonerate_protein2genome CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTC-AATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAG atagaatgctccgtgcattaccttaaccgcctctgtgtgtctgtccccagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTAGACGTCCAATGGCACAGTTGGAGGTGCAGCTGCACATTGGAAGCTCAGCTTTGTTAATGAGGgtcagcgtagatgttgtggactccaggttacactttctagctatcatatc Alignment from Exonerate_coding2genome atagaatgctccgtgcattaccttaaccgcctctgtgtgtctgtccccagccctttggttgccgctgctggttcagaaggatgatggcactgcaccatggtgtaacactagacgtccaatggcacagttggaggtgcagctgcacattggaagctcagctttgttaatgagggtcagcgtagatgttgtggactccaggttacactttctagctatcatatc Alignment from GeneWise CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGAT-GTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAG atagaatgctccgtgcattaccttaaccgcctctgtgtgtctgtccccagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTAGACGTCCAATGGCACAGTTGGAGGTGCAGCTGCACATTGGAAGCTCAGCTTTGTTAATGAGGgtcagcgtagatgttgtggactccaggttacactttctagctatcatatc #### Ctsf_ID674_2 --> 0 - 0 Original Alignment GCCGGCCAGGGCTCTCTGTTCTCCCTG-GAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG tagtaaagggaaaggcagcattggccataagattgttgcttatttttcagGCTGGCCAGGGCTCACTGTTTTCTCTGCGAATCCACGCTAGATGAGCCCCCTTGCAATGATCCTTTGGTGTGCTCTCTCCCCGAGACAAAGAAGACTGTGgtactgtagtggttagattgttgcagccctctgtaggagaggcttactcc Alignment from CESAR GCCGGCCAGGGCTCTCTGTTCTCCCTG-GAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG tagtaaagggaaaggcagcattggccataagattgttgcttatttttcagGCTGGCCAGGGCTCACTGTTTTCTCTGCGAATCCACGCTAGATGAGCCCCCTTGCAATGATCCTTTGGTGTGCTCTCTCCCCGAGACAAAGAAGACTGTGgtactgtagtggttagattgttgcagccctctgtaggagaggcttactcc Alignment from Spaln_aa2Genome GCCGGCCAGGGCTCTCTGTTCTCCCTG-GAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG tagtaaagggaaaggcagcattggccataagattgttgcttatttttcagGCTGGCCAGGGCTCACTGTTTTCTCTGcGAATCCACGCTAGATGAGCCCCCTTGCAATGATCCTTTGGTGTGCTCTCTCCCCGAGACAAAGAAGACTGTGgtactgtagtggttagattgttgcagccctctgtaggagaggcttactcc Alignment from Spaln_nt2Genome GCCGGCCAGGGCTCTCTGTTCTCCCTG-GAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG tagtaaagggaaaggcagcattggccataagattgttgcttatttttcagGCTGGCCAGGGCTCACTGTTTTCTCTGCGAATCCACGCTAGATGAGCCCCCTTGCAATGATCCTTTGGTGTGCTCTCTCCCCGAGACAAAGAAGACTGTGgtactgtagtggttagattgttgcagccctctgtaggagaggcttactcc Alignment from Pairagon GCCGGCCAGGGCTCTCTGTTCTCCCTG-GAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG tagtaaagggaaaggcagcattggccataagattgttgcttatttttcagGCTGGCCAGGGCTCACTGTTTTCTCTGCGAATCCACGCTAGATGAGCCCCCTTGCAATGATCCTTTGGTGTGCTCTCTCCCCGAGACAAAGAAGACTGTGgtactgtagtggttagattgttgcagccctctgtaggagaggcttactcc Alignment from Exonerate_protein2genome GCCGGCCAGGGCTCTCTGTTCTCCCTG-GAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG tagtaaagggaaaggcagcattggccataagattgttgcttatttttcagGCTGGCCAGGGCTCACTGTTTTCTCTGCGAATCCACGCTAGATGAGCCCCCTTGCAATGATCCTTTGGTGTGCTCTCTCCCCGAGACAAAGAAGACTGTGgtactgtagtggttagattgttgcagccctctgtaggagaggcttactcc Alignment from Exonerate_coding2genome GCCGGCCAGGGCTCTCTGTTCTCCCTG-GAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG tagtaaagggaaaggcagcattggccataagattgttgcttatttttcagGCTGGCCAGGGCTCACTGTTTTCTCTGCGAATCCACGCTAGATGAGCCCCCTTGCAATGATCCTTTGGTGTGCTCTCTCCCCGAGACAAAGAAGACTGTGgtactgtagtggttagattgttgcagccctctgtaggagaggcttactcc Alignment from GeneWise GCCGGCCAGGGCTCTCTGTTCTCC-CTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG tagtaaagggaaaggcagcattggccataagattgttgcttatttttcagGCTGGCCAGGGCTCACTGTTTTCTCTGCGAATCCACGCTAGATGAGCCCCCTTGCAATGATCCTTTGGTGTGCTCTCTCCCCGAGACAAAGAAGACTGTGgtactgtagtggttagattgttgcagccctctgtaggagaggcttactcc #### Ctsf_ID675_3 --> 0 - 1 Original Alignment CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTG-AATGCCAAGGTCACAg tagggtatatcacatctgtgactcaatatatttttacttttaatttttagCTTTGCAGCTTTGAAGCCCTTGAAGCACTTAAGGAACACTTGCTCCTCACAAGGGACTGCAGCTCTGTGCAATGCCCAGATGACTggtgagtgattgctcaagcagatggacagaaagagataatacccaagtaag Alignment from CESAR CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTG-AATGCCAAGGTCACAg tagggtatatcacatctgtgactcaatatatttttacttttaatttttagCTTTGCAGCTTTGAAGCCCTTGAAGCACTTAAGGAACACTTGCTCCTCACAAGGGACTGCAGCTCTGTGCAATGCCCAGATGACTggtgagtgattgctcaagcagatggacagaaagagataatacccaagtaag Alignment from Spaln_aa2Genome CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTG-AATGCCAAGGTCACAG tagggtatatcacatctgtgactcaatatatttttacttttaatttttagCTTTGCAGCTTTGAAGCCCTTGAAGCACTTAAGGAACACTTGCTCCTCACAAGGGACTGCAGCTCTGTGcAATGCCCAGATGACTGgtgagtgattgctcaagcagatggacagaaagagataatacccaagtaag Alignment from Spaln_nt2Genome CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTG-AATGCCAAGGTCACAG tagggtatatcacatctgtgactcaatatatttttacttttaatttttagCTTTGCAGCTTTGAAGCCCTTGAAGCACTTAAGGAACACTTGCTCCTCACAAGGGACTGCAGCTCTGTGCAATGCCCAGATGACTGgtgagtgattgctcaagcagatggacagaaagagataatacccaagtaag Alignment from Pairagon CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTG-AATGCCAAGGTCACAG tagggtatatcacatctgtgactcaatatatttttacttttaatttttagCTTTGCAGCTTTGAAGCCCTTGAAGCACTTAAGGAACACTTGCTCCTCACAAGGGACTGCAGCTCTGTGCAATGCCCAGATGACTGgtgagtgattgctcaagcagatggacagaaagagataatacccaagtaag Alignment from Exonerate_protein2genome CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTG-AATGCCAAGGTCACAG tagggtatatcacatctgtgactcaatatatttttacttttaatttttagCTTTGCAGCTTTGAAGCCCTTGAAGCACTTAAGGAACACTTGCTCCTCACAAGGGACTGCAGCTCTGTGCAATGCCCAGATGACTGgtgagtgattgctcaagcagatggacagaaagagataatacccaagtaag Alignment from Exonerate_coding2genome CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTG-AATGCCAAGGTCACAG tagggtatatcacatctgtgactcaatatatttttacttttaatttttagCTTTGCAGCTTTGAAGCCCTTGAAGCACTTAAGGAACACTTGCTCCTCACAAGGGACTGCAGCTCTGTGCAATGCCCAGATGACTGgtgagtgattgctcaagcagatggacagaaagagataatacccaagtaag Alignment from GeneWise CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACAGAG tagggtatatcacatctgtgactcaatatatttttacttttaatttttagCTTTGCAGCTTTGAAGCCCTTGAAGCACTTAAGGAACACTTGCTCCTCACAAGGGACTGCAGC---------------------TCTgtgcaatgcccagatgactggtgagtgattgctcaagcagatggacagaaagagataatacccaagtaag #### Ctsf_ID676_4 --> 2 - 0 Original Alignment agTTTAGAAATGCGACTTTCAGCTCATTCCTTCCA-TTGTTGGACAAGGATCCCCTGCCCCAG tgaactaaggcttgactggagaaagtgatgttcgtttctctcttctttagagTTTCGAAATGTTACCCTTGGCTCACTCCTACCACTTGTTAGACAAAGGTCCCCTACCCCAGgtcagcgggagaatgtcacatagggagaaagtaaatccaaaatttctact Alignment from CESAR agTTTAGAAATGCGACTTTCAGCTCATTCCTTCCA-TTGTTGGACAAGGATCCCCTGCCCCAG tgaactaaggcttgactggagaaagtgatgttcgtttctctcttctttagagTTTCGAAATGTTACCCTTGGCTCACTCCTACCACTTGTTAGACAAAGGTCCCCTACCCCAGgtcagcgggagaatgtcacatagggagaaagtaaatccaaaatttctact Alignment from Spaln_aa2Genome AGTTTAGAAATGCGACTTTCAGCTCATTCCTTCCA-TTGTTGGACAAGGATCCCCTGCCCCAG tgaactaaggcttgactggagaaagtgatgttcgtttctctcttctttagAGTTTCGAAATGTTACCCTTGGCTCACTCCTACCAcTTGTTAGACAAAGGTCCCCTACCCCAGgtcagcgggagaatgtcacatagggagaaagtaaatccaaaatttctact Alignment from Spaln_nt2Genome AGTTTAGAAATGCGACTTTCAGCTCATTCCTTCCA-TTGTTGGACAAGGATCCCCTGCCCCAG tgaactaaggcttgactggagaaagtgatgttcgtttctctcttctttagAGTTTCGAAATGTTACCCTTGGCTCACTCCTACCACTTGTTAGACAAAGGTCCCCTACCCCAGgtcagcgggagaatgtcacatagggagaaagtaaatccaaaatttctact Alignment from Pairagon AGTTTAGAAATGCGACTTTCAGCTCATTCCTTCCA-TTGTTGGACAAGGATCCCCTGCCCCAG tgaactaaggcttgactggagaaagtgatgttcgtttctctcttctttagAGTTTCGAAATGTTACCCTTGGCTCACTCCTACCACTTGTTAGACAAAGGTCCCCTACCCCAGgtcagcgggagaatgtcacatagggagaaagtaaatccaaaatttctact Alignment from Exonerate_protein2genome AGTTTAGAAATGCGACTTTCAGCTCATTCCTTCCA-TTGTTGGACAAGGATCCCCTGCCCCAG tgaactaaggcttgactggagaaagtgatgttcgtttctctcttctttagAGTTTCGAAATGTTACCCTTGGCTCACTCCTACCACTTGTTAGACAAAGGTCCCCTACCCCAGgtcagcgggagaatgtcacatagggagaaagtaaatccaaaatttctact Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AGTTTAGAAATGCGACTTTCAGCTCATTCCTTCCATTG-TTGGACAAGGATCCCCTGCCCCAG tgaactaaggcttgactggagaaagtgatgttcgtttctctcttctttagAGTTTCGAAATGTTACCCTTGGCTCACTCCTACCACTTGTTAGACAAAGGTCCCCTACCCCAGgtcagcgggagaatgtcacatagggagaaagtaaatccaaaatttctact #### Ctsf_ID680_8 --> 0 - 1 Original Alignment GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGC-AACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGg cctcagagaaacccattaggaggctctggactgtacctgtttccccccagAGCAGTATGTGCAGCTCTTGCTGGGCCTTCTCTGTCACTGGCCAATGGGGAGGGCCAGTGG---TTGATTCGAGGAACTCTTCTATCA---TCAGAACAGggtatttatatgatccactctggatatatcagacaaactcctccatagggt Alignment from CESAR GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGC-AACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGg cctcagagaaacccattaggaggctctggactgtacctgtttccccccagAGCAGTATGTGCAGCTCTTGCTGGGCCTTCTCTGTCACTGGCCAATGGGGAGGGCCAGTGG---TTGATTCGAGGAACTCTTCTATCA---TCAGAACAGggtatttatatgatccactctggatatatcagacaaactcctccatagggt Alignment from Spaln_aa2Genome ---GGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGC-AACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAG cctcagagaaacccattaggaggctctggactgtacctgtttccccccagAGCAGTATGTGCAGCTCTTGCTGGGCCTTCTCTGTCACTGGCcAATGGGGAGGGCCAGTGGTTGATT---CGAGGAACTCTTCTATCA---TCAGAACAGGgtatttatatgatccactctggatatatcagacaaactcctccatagggt Alignment from Spaln_nt2Genome GGCA---TGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGC-AACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cctcagagaaacccattaggaggctctggactgtacctgtttccccccagAGCAGTATGTGCAGCTCTTGCTGGGCCTTCTCTGTCACTGGCCAATGGGGAGGGCCAGTGGT---TGATTCGAGGAACTCTTCTATC---ATCAGAACAGGgtatttatatgatccactctggatatatcagacaaactcctccatagggt Alignment from Pairagon ----------------------------------------------CCAGGGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGG-CAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG CCTCAGAGAAACCCATTAGGAGGCTCTGGACTGTACCTGTTTCCCCCCAGAGCAGTATGTGCAGCTCTTGCTGGGCCTTCTCTGTCACTGGCCAATGGGGAGGGCCAGTGGT---TGATTCGAGGAACTCTTCTATC---ATCAGAACAGGgtatttatatgatccactctggatatatcagacaaactcctccatagggt Alignment from Exonerate_protein2genome CAGGGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGC-AACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cctcagagaaacccattaggaggctctggactgtacctgtttccccccagAGCAGTATGTGCAGCTCTTGCTGGGCCTTCTCTGTCACTGGCCAATGGGGAGGGCCAGTGGTTGATT---CGAGGAACTCTTCTATCA---TCAGAACAGGgtatttatatgatccactctggatatatcagacaaactcctccatagggt Alignment from Exonerate_coding2genome CAGGGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGC-AACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cctcagagaaacccattaggaggctctggactgtacctgtttccccccagAGCAGTATGTGCAGCTCTTGCTGGGCCTTCTCTGTCACTGGCCAATGGGGAGGGCCAGTGGTTGATT---CGAGGAACTCTTCTATCA---TCAGAACAGGgtatttatatgatccactctggatatatcagacaaactcctccatagggt Alignment from GeneWise ---GGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAAC-GTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cctcagagaaacccattaggaggctctggactgtacctgtttccccccagAGCAGTATGTGCAGCTCTTGCTGGGCCTTCTCTGTCACTGGCCAATGGGGAGGGCCAGTGGTTGATT---CGAGGAACTCTTCTATCA---TCAGAACAGGgtatttatatgatccactctggatatatcagacaaactcctccatagggt #### Ctsf_ID682_10 --> 2 - 1 Original Alignment gaGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCAT-GTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATa gagcttttgtagcagtgcatgaggttgtgtgtttctgtttcgacccacagggGGTTTGGAGACAGAAGATGACTATGGCTATCAGGACCATCGTTCAGACCTGTAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCGGTGGAGCTGAGTCAAAATGAAAATagtatccgagggctaccataagtaacttaggtaacacaactttctccattc Alignment from CESAR gaGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCAT-GTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATa gagcttttgtagcagtgcatgaggttgtgtgtttctgtttcgacccacagggGGTTTGGAGACAGAAGATGACTATGGCTATCAGGACCATCGTTCAGACCTGTAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCGGTGGAGCTGAGTCAAAATGAAAATagtatccgagggctaccataagtaacttaggtaacacaacttttttttttt Alignment from Spaln_aa2Genome GGAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCAT-GTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAAT gagcttttgtagcagtgcatgaggttgtgtgtttctgtttcgacccacagGGGGTTTGGAGACAGAAGATGACTATGGCTATCAGGACCATcGTTCAGACCTGTAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCGGTGGAGCTGAGTCAAAATGAAAATAgtatccgagggctaccataagtaacttaggtaacacaactttctccattc Alignment from Spaln_nt2Genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCAT-GTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA gagcttttgtagcagtgcatgaggttgtgtgtttctgtttcgacccacagGGGGTTTGGAGACAGAAGATGACTATGGCTATCAGGACCATCGTTCAGACCTGTAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCGGTGGAGCTGAGTCAAAATGAAAATAgtatccgagggctaccataagtaacttaggtaacacaactttctccattc Alignment from Pairagon GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCAT-GTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA gagcttttgtagcagtgcatgaggttgtgtgtttctgtttcgacccacagGGGGTTTGGAGACAGAAGATGACTATGGCTATCAGGACCATCGTTCAGACCTGTAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCGGTGGAGCTGAGTCAAAATGAAAATAgtatccgagggctaccataagtaacttaggtaacacaactttctccattc Alignment from Exonerate_protein2genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCAT-GTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA gagcttttgtagcagtgcatgaggttgtgtgtttctgtttcgacccacagGGGGTTTGGAGACAGAAGATGACTATGGCTATCAGGACCATCGTTCAGACCTGTAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCGGTGGAGCTGAGTCAAAATGAAAATAgtatccgagggctaccataagtaacttaggtaacacaactttctccattc Alignment from Exonerate_coding2genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCAT-GTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA gagcttttgtagcagtgcatgaggttgtgtgtttctgtttcgacccacagGGGGTTTGGAGACAGAAGATGACTATGGCTATCAGGACCATCGTTCAGACCTGTAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCGGTGGAGCTGAGTCAAAATGAAAATAgtatccgagggctaccataagtaacttaggtaacacaactttctccattc Alignment from GeneWise GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCAT-GTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA gagcttttgtagcagtgcatgaggttgtgtgtttctgtttcgacccacagGGGGTTTGGAGACAGAAGATGACTATGGCTATCAGGACCATCGTTCAGACCTGTAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCGGTGGAGCTGAGTCAAAATGAAAATAgtatccgagggctaccataagtaacttaggtaacacaactttctccattc #### Ctsf_ID683_11 --> 2 - 0 Original Alignment agATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCC-ATTAACGCCTTCGGCATGCAG accataagtaacttaggtaacacaacttttttttttttaattctttccagagACAGCAGCCTGGCTAGCCCAAAAAGGTCCTATTTCAGTTGCCCATCAATGCCTTTGGAATGCAGgtaatgatgtttcatttgaatccagccacagggcttctggcctccctgtg Alignment from CESAR agATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCC-ATTAACGCCTTCGGCATGCAG accataagtaacttaggtaacacaacttttttttttttaattctttccagagACAGCAGCCTGGCTAGCCCAAAAAGGTCCTATTTCAGTTGCCCATCAATGCCTTTGGAATGCAGgtaatgatgtttcatttgaatccagccacagggcttctggcctccctgtg Alignment from Spaln_aa2Genome AAGATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCC-ATTAACGCCTTCGGCATGCA accataagtaacttaggtaacacaacttttttttttttaattctttccagAGACAGCAGCCTGGCTAGCCCAAAAAGGTCCTATTTCAGTTGCCcATCAATGCCTTTGGAATGCAGgtaatgatgtttcatttgaatccagccacagggcttctggcctccctgtg Alignment from Spaln_nt2Genome AGATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCC-ATTAACGCCTTCGGCATGCAG accataagtaacttaggtaacacaacttttttttttttaattctttccagAGACAGCAGCCTGGCTAGCCCAAAAAGGTCCTATTTCAGTTGCCCATCAATGCCTTTGGAATGCAGgtaatgatgtttcatttgaatccagccacagggcttctggcctccctgtg Alignment from Pairagon AGATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTG-CCATTAACGCCTTCGGCATGCAG accataagtaacttaggtaacacaacttttttttttttaattctttccagAGACAGCAGCCTGGCTAGCCCAAAAAGGTCCTATTTCAGTTGCCCATCAATGCCTTTGGAATGCAGgtaatgatgtttcatttgaatccagccacagggcttctggcctccctgtg Alignment from Exonerate_protein2genome AGATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCC-ATTAACGCCTTCGGCATGCAG accataagtaacttaggtaacacaacttttttttttttaattctttccagAGACAGCAGCCTGGCTAGCCCAAAAAGGTCCTATTTCAGTTGCCCATCAATGCCTTTGGAATGCAGgtaatgatgtttcatttgaatccagccacagggcttctggcctccctgtg Alignment from Exonerate_coding2genome AGATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCC-ATTAACGCCTTCGGCATGCAG accataagtaacttaggtaacacaacttttttttttttaattctttccagAGACAGCAGCCTGGCTAGCCCAAAAAGGTCCTATTTCAGTTGCCCATCAATGCCTTTGGAATGCAGgtaatgatgtttcatttgaatccagccacagggcttctggcctccctgtg Alignment from GeneWise AGATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTT-GCCATTAACGCCTTCGGCATGCAG accataagtaacttaggtaacacaacttttttttttttaattctttccagAGACAGCAGCCTGGCTAGCCCAAAAAGGTCCTATTTCAGTTGCCCATCAATGCCTTTGGAATGCAGgtaatgatgtttcatttgaatccagccacagggcttctggcctccctgtg #### Ctsw_ID1017_9 --> 0 - 0 Original Alignment CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTC------TTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTC-TTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctcattacactggtaccccatgtgatcgctgcagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGTTCCTGTGACCCTCGTCAAGAAGACCACCCCGTTCTGCTATTGTTGGTTGGTTTTGGTAAAAGGGAAGAGGGCATGCAAATGGGGACAGTCCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCATTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAGgtatgggtacaggaacacaatgaagcatagaaaagcaatgaagcaaatcc Alignment from CESAR CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTC------TTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTC-TTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctcattacactggtaccccatgtgatcgctgcagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGTTCCTGTGACCCTCGTCAAGAAGACCACCCCGTTCTGCTATTGTTGGTTGGTTTTGGTAAAAGGGAAGAGGGCATGCAAATGGGGACAGTCCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCATTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAGgtatgggtacaggaacacaatgaagcatagaaaagcaatgaagcaaatcc Alignment from Spaln_aa2Genome CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTC------TTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTC-TTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctcattacactggtaccccatgtgatcgctgcagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGTTCCTGTGACCCTCGTCAAGAAGACCACCCCGTTCTGCTATTGTTGGTTGGTTTTGGTAAAAGGGAAGAGGGCATGCAAATGGGGACAGTCcTTAACACATTCTCATAAACGTTGTCATTCCTTCTCATTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAGgtatgggtacaggaacacaatgaagcatagaaaagcaatgaagcaaatcc Alignment from Spaln_nt2Genome CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCAC-----TCTG-TCTTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTC-TTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctcattacactggtaccccatgtgatcgctgcagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGTTCCTGTGACCCTCGTCAAGAAGACCACCCCGTTCTGCTATTGTTGGTTGGTTTTGGTAAAAGGGAAGAGGGCATGCAAATGGGGACAGTCCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCATTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAGgtatgggtacaggaacacaatgaagcatagaaaagcaatgaagcaaatcc Alignment from Pairagon CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTCTTGC------TGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGT-CTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctcattacactggtaccccatgtgatcgctgcagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGTTCCTGTGACCCTCGTCAAGAAGACCACCCCGTTCTGCTATTGTTGGTTGGTTTTGGTAAAAGGGAAGAGGGCATGCAAATGGGGACAGTCCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCATTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAGgtatgggtacaggaacacaatgaagcatagaaaagcaatgaagcaaatcc Alignment from Exonerate_protein2genome CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTC------TTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTC-TTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctcattacactggtaccccatgtgatcgctgcagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGTTCCTGTGACCCTCGTCAAGAAGACCACCCCGTTCTGCTATTGTTGGTTGGTTTTGGTAAAAGGGAAGAGGGCATGCAAATGGGGACAGTCCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCATTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAGgtatgggtacaggaacacaatgaagcatagaaaagcaatgaagcaaatcc Alignment from Exonerate_coding2genome CCGTGCATGGACCTATCACCGTGACCATCAACA---TGAAACTACTCCAGCATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACT------CTGTCTTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTC---TTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG AAATCAATCCAGAGATCTCATTACACTGGTACCCCATGTGATCGCTGCAGTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGTTCCTGTGACCCTCGTCAAGAAGACCACCCCGTTCTGCTATTGTTGGTTGGTTTTGGTAAAAGGGAAGAGGGCATGCAAATGGGGACAG--TCCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCATTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAGgtatgggtacaggaacacaatgaagcatagaaaagcaatgaagcaaatcc Alignment from GeneWise CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTCTTGCTG------GTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTG-TCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctcattacactggtaccccatgtgatcgctgcagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGTTCCTGTGACCCTCGTCAAGAAGACCACCCCGTTCTGCTATTGTTGGTTGGTTTTGGTAAAAGGGAAGAGGGCATGCAAATGGGGACAGTCCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCATTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAGgtatgggtacaggaacacaatgaagcatagaaaagcaatgaagcaaatcc #### Ctsw_ID1018_8 --> 2 - 0 Original Alignment caATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATG-AAACTACTCCAG tggaggtagatatgccaccctctaaaattggggatttggcttcctttcagtgATTGGACACTACCTCACTGCACATGGGCCCATCACTGTGACTATTAACATGCAAGCTGCTTCTGgtacagtgtccagcacaataagaggaaggggggctctaggagctctcttc Alignment from CESAR caATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATG-AAACTACTCCAG tggaggtagatatgccaccctctaaaattggggatttggcttcctttcagtgATTGGACACTACCTCACTGCACATGGGCCCATCACTGTGACTATTAACATGCAAGCTGCTTCTGgtacagtgtccagcacaataagaggaaggggggctctaggagctctcttc Alignment from Spaln_aa2Genome CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG tggaggtagatatgccaccctctaaaattggggatttggcttcctttcagTGATTGGACACTACCTCACTGCACATGGGCCCATCACTGTGACTATTAACATG---------CAAgctgcttctggtacagtgtccagcacaataagaggaaggggggctctaggagctctcttc Alignment from Spaln_nt2Genome CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAA-CTACTCCAG tggaggtagatatgccaccctctaaaattggggatttggcttcctttcagTGATTGGACACTACCTCACTGCACATGGGCCCATCACTGTGACTATTAACATGCAAGCTGCTTCTGgtacagtgtccagcacaataagaggaaggggggctctaggagctctcttc Alignment from Pairagon CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACAT tggaggtagatatgccaccctctaaaattggggatttggcttcctttcagTGATTGGACACTACCTCACTGCACATGGGCCCATCACTGTGACTATTAACATgcaagctgcttctggtacagtgtccagcacaataagaggaaggggggctctaggagctctcttc Alignment from Exonerate_protein2genome CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATG-AAACTACTCCAG tggaggtagatatgccaccctctaaaattggggatttggcttcctttcagTGATTGGACACTACCTCACTGCACATGGGCCCATCACTGTGACTATTAACATGCAAGCTGCTTCTGgtacagtgtccagcacaataagaggaaggggggctctaggagctctcttc Alignment from Exonerate_coding2genome tggaggtagatatgccaccctctaaaattggggatttggcttcctttcagtgattggacactacctcactgcacatgggcccatcactgtgactattaacatgcaagctgcttctggtacagtgtccagcacaataagaggaaggggggctctaggagctctcttc Alignment from GeneWise CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAGCATTAC tggaggtagatatgccaccctctaaaattggggatttggcttcctttcagTGATTGGACACTACCTCACTGCACATGGGCCCATCACTGTGACTATTAACATGCAAGCTGCTTCTGGTACAgtgtccagcacaataagaggaaggggggctctaggagctctcttc #### Ctsw_ID1019_7 --> 2 - 1 Original Alignment gtGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTA-GCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGg agtgtacttgacatcaaagtttcttgcttgattttaccccatctcctcaggtAGTCTGGCCACTGAAAAGGAATTTCCATTTCAGAAGGAAAGAAAGCCTCACAGATGCCTGCGCAAAAAAGTATAAGGAAGTGGCATGGATCCCA------GCCACATTGTCTAATAATGAGCAGggtatcaccagggtcagatgaggtagctctgtgactgctcacctgacctgt Alignment from CESAR gtGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTA-GCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGg agtgtacttgacatcaaagtttcttgcttgattttaccccatctcctcaggtAGTCTGGCCACTGAAAAGGAATTTCCATTTCAGAAGGAAAGAAAGCCTCACAGATGCCTGCGCAAAAAAGTATAAGGAAGTGGCATGGATCCCA------GCCACATTGTCTAATAATGAGCAGggtatcaccagggtcagatgaggtagctctgtgactgctcacctgacctgt Alignment from Spaln_aa2Genome CCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTA-GCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG agtgtacttgacatcaaagtttcttgcttgattttaccccatctcctcaggtagTCTGGCCACTGAAAAGGAATTTCCATTTCAGAAGGAAAGAAAGCCTCACAGATGCCTGcGCAAAAAAGTATAAGGAAGTGGCATGGATCCCA------GCCACATTGTCTAATAATGAGCAGGgtatcaccagggtcagatgaggtagctctgtgactgctcacctgacctgt Alignment from Spaln_nt2Genome GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTA-GCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG agtgtacttgacatcaaagtttcttgcttgattttaccccatctcctcagGTAGTCTGGCCACTGAAAAGGAATTTCCATTTCAGAAGGAAAGAAAGCCTCACAGATGCCTGCGCAAAAAAGTATAAGGAAGTGGCATGGATCCCAG------CCACATTGTCTAATAATGAGCAGGgtatcaccagggtcagatgaggtagctctgtgactgctcacctgacctgt Alignment from Pairagon GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTA-GCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG agtgtacttgacatcaaagtttcttgcttgattttaccccatctcctcagGTAGTCTGGCCACTGAAAAGGAATTTCCATTTCAGAAGGAAAGAAAGCCTCACAGATGCCTGCGCAAAAAAGTATAAGGAAGTGGCATGGATCCCAG------CCACATTGTCTAATAATGAGCAGGgtatcaccagggtcagatgaggtagctctgtgactgctcacctgacctgt Alignment from Exonerate_protein2genome GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTA-GCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG agtgtacttgacatcaaagtttcttgcttgattttaccccatctcctcagGTAGTCTGGCCACTGAAAAGGAATTTCCATTTCAGAAGGAAAGAAAGCCTCACAGATGCCTGCGCAAAAAAGTATAAGGAAGTGGCATGGATCCCA------GCCACATTGTCTAATAATGAGCAGGgtatcaccagggtcagatgaggtagctctgtgactgctcacctgacctgt Alignment from Exonerate_coding2genome GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTA-GCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAG agtgtacttgacatcaaagtttcttgcttgattttaccccatctcctcagGTAGTCTGGCCACTGAAAAGGAATTTCCATTTCAGAAGGAAAGAAAGCCTCACAGATGCCTGCGCAAAAAAGTATAAGGAAGTGGCATGGATCCCA------GCCACATTGTCTAATAATGAGCAGggtatcaccagggtcagatgaggtagctctgtgactgctcacctgacctgt Alignment from GeneWise CCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTA-GCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG agtgtacttgacatcaaagtttcttgcttgattttaccccatctcctcaggtagTCTGGCCACTGAAAAGGAATTTCCATTTCAGAAGGAAAGAAAGCCTCACAGATGCCTGCGCAAAAAAGTATAAGGAAGTGGCATGGATCCCA------GCCACATTGTCTAATAATGAGCAGGgtatcaccagggtcagatgaggtagctctgtgactgctcacctgacctgt #### Ctsw_ID1021_5 --> 0 - 1 Original Alignment GGAAGCTGCAAA---------------------------TGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCT-CTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGg tggtttccgttcatccaactcaaggacatgtattttttctctgtttatagAGAGGGTGCAATCATTTCCCTGGGCGATGGATCAGTGTGTGCTGTTGGGCAATGGCAGCTGCTGACAACATTCAGTCTCTTGTGGTGCATAAAGCACCAGAAGTTTGTGGATGTCTCAGTCCAGggtaattggggtttccaagtggttagctgtattctctctttgcataccagc Alignment from CESAR GGAAGCTGCAAA---------------------------TGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCT-CTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGg tggtttccgttcatccaactcaaggacatgtattttttctctgtttatagAGAGGGTGCAATCATTTCCCTGGGCGATGGATCAGTGTGTGCTGTTGGGCAATGGCAGCTGCTGACAACATTCAGTCTCTTGTGGTGCATAAAGCACCAGAAGTTTGTGGATGTCTCAGTCCAGggtaattggggtttccaagtggttagctgtattctctctttgcataccagc Alignment from Spaln_aa2Genome TG CAAATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTG-TGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGG TGgtttccgttcatccaactcaaggacatgtattttttctctgtttatagagagggtgcaatcatttccctgggcgatggatcagTGTGTGCTGTTGGGCAATGGCAGCTGCTGACAACATTCAGTCTCTTgTGGTGCATAAAGCACCAGAAGTTTGTGGATGTCTCAGTCCAGGgtaattggggtttccaagtggttagctgtattctctctttgcataccagc Alignment from Spaln_nt2Genome GGAAGCTGCAAATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCT-GTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGG tggtttccgttcatccaactcaaggacatgtattttttctctgtttatagagagggtgcaatcatttccctgggcgatggatcagTG----TG----TGCTGTTGGGCAATGGCAGCTGCTGACAACATTCAGTCTCTTGTGGTGCATAAAGCACCAGAAGTTTGTGGATGTCTCAGTCCAGGgtaattggggtttccaagtggttagctgtattctctctttgcataccagc Alignment from Pairagon GGAAGCTGCAA---------------------------ATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTC-TGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGG tggtttccgttcatccaactcaaggacatgtattttttctctgtttatagAGAGGGTGCAATCATTTCCCTGGGCGATGGATCAGTGTGTGCTGTTGGGCAATGGCAGCTGCTGACAACATTCAGTCTCTTGTGGTGCATAAAGCACCAGAAGTTTGTGGATGTCTCAGTCCAGGgtaattggggtttccaagtggttagctgtattctctctttgcataccagc Alignment from Exonerate_protein2genome GGAAGCTGCAAATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCT-CTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGG tggtttccgttcatccaactcaaggacatgtattttttctctgtttatagagagggtgcaatcatttccctgggcgaTGGATCAGTGTGTGCTGTTGGGCAATGGCAGCTGCTGACAACATTCAGTCTCTTGTGGTGCATAAAGCACCAGAAGTTTGTGGATGTCTCAGTCCAGGgtaattggggtttccaagtggttagctgtattctctctttgcataccagc Alignment from Exonerate_coding2genome tggtttccgttcatccaactcaaggacatgtattttttctctgtttatagagagggtgcaatcatttccctgggcgatggatcagtgtgtgctgttgggcaatggcagctgctgacaacattcagtctcttgtggtgcataaagcaccagaagtttgtggatgtctcagtccagggtaattggggtttccaagtggttagctgtattctctctttgcataccagc Alignment from GeneWise TG CAAATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAG-GCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGG TGgtttccgttcatccaactcaaggacatgtattttttctctgtttatagagagggtgcaatcatttccctgggcgatggatcagTGTGTGCTGTTGGGCAATGGCAGCTGCTGACAACATTCAGTCTCTTGTGGTGCATAAAGCACCAGAAGTTTGTGGATGTCTCAGTCCAGGgtaattggggtttccaagtggttagctgtattctctctttgcataccagc #### Ctsw_ID1023_3 --> 2 - 1 Original Alignment agTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGT-ACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAg tctactggctcttatctgactcaaatgactttaccccctgtgcttttcagagTACACTCATCATCTGAGCATCTTTGCCCACAATCTAGCTCAGGCGCAGAGGCTTCAGCAGGAAGACTTGGGTCACTGCTGAGCTTGGAGAGACACCTTTCAGCGACCTCAACagtctgtgggtttgtgtggtgaggcgccctcttctgtgtgctcccaatcat Alignment from CESAR agTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGT-ACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAg tctactggctcttatctgactcaaatgactttaccccctgtgcttttcagagTACACTCATCATCTGAGCATCTTTGCCCACAATCTAGCTCAGGCGCAGAGGCTTCAGCAGGAAGACTTGGGTCACTGCTGAGCTTGGAGAGACACCTTTCAGCGACCTCAACagtctgtgggtttgtgtggtgaggcgccctcttctgtgtgctcccaatcat Alignment from Spaln_aa2Genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGT-ACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tctactggctcttatctgactcaaatgactttaccccctgtgcttttcagAGTACACTCATCATCTGAGCATCTTTGCCCACAATCTAGCTCAGGCGCAGAGGCTTCAGCAGGAAGACTTGGGTcACTGCTGAGCTTGGAGAGACACCTTTCAGCGACCTCAACAgtctgtgggtttgtgtggtgaggcgccctcttctgtgtgctcccaatcat Alignment from Spaln_nt2Genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGT-ACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tctactggctcttatctgactcaaatgactttaccccctgtgcttttcagAGTACACTCATCATCTGAGCATCTTTGCCCACAATCTAGCTCAGGCGCAGAGGCTTCAGCAGGAAGACTTGGGTCACTGCTGAGCTTGGAGAGACACCTTTCAGCGACCTCAACAgtctgtgggtttgtgtggtgaggcgccctcttctgtgtgctcccaatcat Alignment from Pairagon AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGT-ACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tctactggctcttatctgactcaaatgactttaccccctgtgcttttcagAGTACACTCATCATCTGAGCATCTTTGCCCACAATCTAGCTCAGGCGCAGAGGCTTCAGCAGGAAGACTTGGGTCACTGCTGAGCTTGGAGAGACACCTTTCAGCGACCTCAACAgtctgtgggtttgtgtggtgaggcgccctcttctgtgtgctcccaatcat Alignment from Exonerate_protein2genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGT-ACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tctactggctcttatctgactcaaatgactttaccccctgtgcttttcagAGTACACTCATCATCTGAGCATCTTTGCCCACAATCTAGCTCAGGCGCAGAGGCTTCAGCAGGAAGACTTGGGTCACTGCTGAGCTTGGAGAGACACCTTTCAGCGACCTCAACAgtctgtgggtttgtgtggtgaggcgccctcttctgtgtgctcccaatcat Alignment from Exonerate_coding2genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGT-ACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tctactggctcttatctgactcaaatgactttaccccctgtgcttttcagAGTACACTCATCATCTGAGCATCTTTGCCCACAATCTAGCTCAGGCGCAGAGGCTTCAGCAGGAAGACTTGGGTCACTGCTGAGCTTGGAGAGACACCTTTCAGCGACCTCAACAgtctgtgggtttgtgtggtgaggcgccctcttctgtgtgctcccaatcat Alignment from GeneWise AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGT-ACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tctactggctcttatctgactcaaatgactttaccccctgtgcttttcagAGTACACTCATCATCTGAGCATCTTTGCCCACAATCTAGCTCAGGCGCAGAGGCTTCAGCAGGAAGACTTGGGTCACTGCTGAGCTTGGAGAGACACCTTTCAGCGACCTCAACAgtctgtgggtttgtgtggtgaggcgccctcttctgtgtgctcccaatcat #### Ctsw_ID1024_2 --> 0 - 1 Original Alignment GATGCAGGTCCCCGGCCACTGGAGCTGAAGGAAGTCTTCAAGCTGTTCCAGATCCGGTTC-AACCGGAGTTACTGGAACCCAGCAg aatcaggatgacagatgagaaccatgacctggctcacctctgcacagcagGATACAGGTCCCCGACCACTTGAGGTGAAGGAAGTCTTTAGACTGTTTGACATACGGCTCCAACCAGAGCTACTGGAACCCAGCAggtaaatccaggcatagatgtttctggtacaactcctgttgttggctgcaa Alignment from CESAR GATGCAGGTCCCCGGCCACTGGAGCTGAAGGAAGTCTTCAAGCTGTTCCAGATCCGGTTC-AACCGGAGTTACTGGAACCCAGCAg aatcaggatgacagatgagaaccatgacctggctcacctctgcacagcagGATACAGGTCCCCGACCACTTGAGGTGAAGGAAGTCTTTAGACTGTTTGACATACGGCTCCAACCAGAGCTACTGGAACCCAGCAggtaaatccaggcatagatgtttctggtacaactcctgttgttggctgcaa Alignment from Spaln_aa2Genome GATGCAGGTCCCCGGCCACTGGAGCTGAAGGAAGTCTTCAAGCTGTTCCAGATCCGGTTC-AACCGGAGTTACTGGAACCCAGCAG aatcaggatgacagatgagaaccatgacctggctcacctctgcacagcagGATACAGGTCCCCGACCACTTGAGGTGAAGGAAGTCTTTAGACTGTTTGACATACGGCTCcAACCAGAGCTACTGGAACCCAGCAGgtaaatccaggcatagatgtttctggtacaactcctgttgttggctgcaa Alignment from Spaln_nt2Genome GATGCAGGTCCCCGGCCACTGGAGCTGAAGGAAGTCTTCAAGCTGTTCCAGATCCGGTTC-AACCGGAGTTACTGGAACCCAGCAG aatcaggatgacagatgagaaccatgacctggctcacctctgcacagcagGATACAGGTCCCCGACCACTTGAGGTGAAGGAAGTCTTTAGACTGTTTGACATACGGCTCCAACCAGAGCTACTGGAACCCAGCAGgtaaatccaggcatagatgtttctggtacaactcctgttgttggctgcaa Alignment from Pairagon GATGCAGGTCCCCGGCCACTGGAGCTGAAGGAAGTCTTCAAGCTGTTCCAGATCCGG-TTCAACCGGAGTTACTGGAACCCAGCAG aatcaggatgacagatgagaaccatgacctggctcacctctgcacagcagGATACAGGTCCCCGACCACTTGAGGTGAAGGAAGTCTTTAGACTGTTTGACATACGGCTCCAACCAGAGCTACTGGAACCCAGCAGgtaaatccaggcatagatgtttctggtacaactcctgttgttggctgcaa Alignment from Exonerate_protein2genome GATGCAGGTCCCCGGCCACTGGAGCTGAAGGAAGTCTTCAAGCTGTTCCAGATCCGGTTC-AACCGGAGTTACTGGAACCCAGCAG aatcaggatgacagatgagaaccatgacctggctcacctctgcacagcagGATACAGGTCCCCGACCACTTGAGGTGAAGGAAGTCTTTAGACTGTTTGACATACGGCTCCAACCAGAGCTACTGGAACCCAGCAGgtaaatccaggcatagatgtttctggtacaactcctgttgttggctgcaa Alignment from Exonerate_coding2genome GATGCAGGTCCCCGGCCACTGGAGCTGAAGGAAGTCTTCAAGCTGTTCCAGATCCGGTTC-AACCGGAGTTACTGGAACCCAGCAG aatcaggatgacagatgagaaccatgacctggctcacctctgcacagcagGATACAGGTCCCCGACCACTTGAGGTGAAGGAAGTCTTTAGACTGTTTGACATACGGCTCCAACCAGAGCTACTGGAACCCAGCAGgtaaatccaggcatagatgtttctggtacaactcctgttgttggctgcaa Alignment from GeneWise GATGCAGGTCCCCGGCCACTGGAGCTGAAGGAAGTCTTCAAGCTGTTCCAGATCCGG-TTCAACCGGAGTTACTGGAACCCAGCAG aatcaggatgacagatgagaaccatgacctggctcacctctgcacagcagGATACAGGTCCCCGACCACTTGAGGTGAAGGAAGTCTTTAGACTGTTTGACATACGGCTCCAACCAGAGCTACTGGAACCCAGCAGgtaaatccaggcatagatgtttctggtacaactcctgttgttggctgcaa #### Cyp17a1_ID9996_4 --> 0 - 0 Original Alignment ATTTTTCCCAATAAA-AACTTGGAAATGATAAAGGAACACACTAAAATTCGAGAAAAAACACTGGTTGAAATGTTTGAAAAATGCAAG attccccgcctacttgtcaatgcccttttgcccctctttgtcacccgcagATTTTGCCCAATAAGCAACTTGGAAATGATAAAAGAGCATACTAAGATCCAGGATAAG------GTTGATATGTTCGAAAAATGCAAAgttggtagtcagagtttcagatgttgggctgagagagtgagaggattacc Alignment from CESAR ATTTTTCCCAATAAA-AACTTGGAAATGATAAAGGAACACACTAAAATTCGAGAAAAAACACTGGTTGAAATGTTTGAAAAATGCAAG attccccgcctacttgtcaatgcccttttgcccctctttgtcacccgcagATTTTGCCCAATAAGCAACTTGGAAATGATAAAAGAGCATACTAAGATCCAGGATAAG------GTTGATATGTTCGAAAAATGCAAAgttggtagtcagagtttcagatgttgggctgagagagtgagaggattacc Alignment from Spaln_aa2Genome GATTTTTCCCAATAAAAACTTGGAAATGATAAAGGAACACACTAAAATTCGAGAAAAAACACTGGTTGAAATGTTTGAAAAATGCAAG attccccgcctacttgtcaatgcccttttgcccctctttgtcacccgcagATTTTGCCCAATAAGCAACTTGGAAATGATAAAAGAGCATACTAAGATCCAGGATAAG------GTTGATATGTTCGAAAAATGCAAAgttggtagtcagagtttcagatgttgggctgagagagtgagaggattacc Alignment from Spaln_nt2Genome ATTTTTCCCAATAAA-AACTTGGAAATGATAAAGGAACACACTAAAATTCGAGAAAAAACACTGGTTGAAATGTTTGAAAAATGCAAG attccccgcctacttgtcaatgcccttttgcccctctttgtcacccgcagATTTTGCCCAATAAGCAACTTGGAAATGATAAAAGAGCATACTAAGATCCAGGATAA------GGTTGATATGTTCGAAAAATGCAAAgttggtagtcagagtttcagatgttgggctgagagagtgagaggattacc Alignment from Pairagon ATTTTTCCCAATAAA-AACTTGGAAATGATAAAGGAACACACTAAAATTCGAGAAAAAACACTGGTTGAAATGTTTGAAAAATGCAAG attccccgcctacttgtcaatgcccttttgcccctctttgtcacccgcagATTTTGCCCAATAAGCAACTTGGAAATGATAAAAGAGCATACTAAGATCCAGGATAA------GGTTGATATGTTCGAAAAATGCAAAgttggtagtcagagtttcagatgttgggctgagagagtgagaggattacc Alignment from Exonerate_protein2genome GATTTTTCCCAATAAAAACTTGGAAATGATAAAGGAACACACTAAAATTCGAGAAAAAACACTGGTTGAAATGTTTGAAAAATGCAAG attccccgcctacttgtcaatgcccttttgcccctctttgtcacccgcagATTTTGCCCAATAAGCAACTTGGAAATGATAAAAGAGCATACTAAGATCCAGGATAAG------GTTGATATGTTCGAAAAATGCAAAgttggtagtcagagtttcagatgttgggctgagagagtgagaggattacc Alignment from Exonerate_coding2genome GATTTTTCCCAATAAAAACTTGGAAATGATAAAGGAACACACTAAAATTCGAGAAAAAACACTGGTTGAAATGTTTGAAAAATGCAAG attccccgcctacttgtcaatgcccttttgcccctctttgtcacccgcagATTTTGCCCAATAAGCAACTTGGAAATGATAAAAGAGCATACTAAGATCCAGGATAAG------GTTGATATGTTCGAAAAATGCAAAgttggtagtcagagtttcagatgttgggctgagagagtgagaggattacc Alignment from GeneWise TAAAAACTTGGAAATGATAAAGGAACACACTAAAATTCGAGAAAAAACACTGGTTGAAATGTTTGAAAAATGCAAG attccccgcctacttgtcaatgcccttttgcccctctttgtcacccgcagattttgcccaataagC---AACTTGGAAATGATAAAAGAGCATACTAAGATCCAGGATAAG------GTTGATATGTTCGAAAAATGCAAAgttggtagtcagagtttcagatgttgggctgagagagtgagaggattacc #### Cyp17a1_ID9997_3 --> 2 - 0 Original Alignment taTGTCAGGAAGCCAACTCACTGTGTGACTTGATACTTACATACGACGGGGAGTCCCGAGATCTGTCTACGCTCATCTTCAAGTCAGTAATCAATATCATC-TGTACCATCTGCTTCAACATCTCTTTTGAGAACAAGGATCCGATACTGACTACCATACAGACCTTTACAGAGGGTATTGTGGATGTCCTGGGCCACAGC---------------------------GATCTGGTGGACATATTCCCGTGGTTGAAG cgtcaagctactcctgtgctctattccattaatgccaacccatctttcagtaTGCCAAGAGGCCAACTCACTGTGTGACTTGATACTTTCTTATGACGGGGAGTCCCAAGATCTATCTACACTCATTTTCAAATCAGCAATTAACATCATCCTGTACCATATGTTTTAACATCTCTTTTGAGAACATGGATCCAATATTGACTATGAGA---------ATGGAATCCATTGTTGTGGTCTTGGGCCACAGTGATCTTGTTAAGAACACTCCATGGTTTGATCTAGTGGAGATAATCCCATGGTTAAAGgtaggcggagggaatttttatgaaagagtgacccactccccattttggca Alignment from CESAR taTGTCAGGAAGCCAACTCACTGTGTGACTTGATACTTACATACGACGGGGAGTCCCGAGATCTGTCTACGCTCATCTTCAAGTCAGTAATCAATATCATC-TGTACCATCTGCTTCAACATCTCTTTTGAGAACAAGGATCCGATACTGACTACCATACAGACCTTTACAGAGGGTATTGTGGATGTCCTGGGCCACAGCGAT---------------------------CTGGTGGACATATTCCCGTGGTTGAAG cgtcaagctactcctgtgctctattccattaatgccaacccatctttcagtaTGCCAAGAGGCCAACTCACTGTGTGACTTGATACTTTCTTATGACGGGGAGTCCCAAGATCTATCTACACTCATTTTCAAATCAGCAATTAACATCATCCTGTACCATATGTTTTAACATCTCTTTTGAGAACATGGATCCAATATTGACTATGAGA---------ATGGAATCCATTGTTGTGGTCTTGGGCCACAGTGATCTTGTTAAGAACACTCCATGGTTTGATCTAGTGGAGATAATCCCATGGTTAAAGgtaggcggagggaatttttatgaaagagtgacccactccccattttggca Alignment from Spaln_aa2Genome TATGTCAGGAAGCCAACTCACTGTGTGACTTGATACTTACATACGACGGGGAGTCCCGAGATCTGTCTACGCTCATCTTCAAGTCAGTAATCAATATCATC-TGTACCATCTGCTTCAACATCTCTTTTGAGAACAAGGATCCGATACTGACTACCATACAGACCTTTACAGAGGGTATTGTGGATGTCCTGGGCCACAGCGATCTGGTGGACATATTCCCGTGGTTGAAG--- cgtcaagctactcctgtgctctattccattaatgccaacccatctttcagTATGCCAAGAGGCCAACTCACTGTGTGACTTGATACTTTCTTATGACGGGGAGTCCCAAGATCTATCTACACTCATTTTCAAATCAGCAATTAACATCATCcTGTACCATATGTTTTAACATCTCTTTTGAGAACATGGATCCAATATTGACTATGAGA---------ATGGAATCCATTGTTGTGGTCTTGGGCCACAGTGATCTTGTTAAGAACACTCCATGGTTTGATCTAgtggagataatcccatggttaaaggtaggcggagggaatttttatgaaagagtgacccactccccattttggca Alignment from Spaln_nt2Genome TATGTCAGGAAGCCAACTCACTGTGTGACTTGATACTTACATACGACGGGGAGTCCCGAGATCTGTCTACGCTCATCTTCAAGTCAGTAATCAATATCAT-CTGTACCATCTGCTTCAACATCTCTTTTGAGAACAAGGATCCGATACTGACTACCATACAGACCTTTACAGAGGGTATTGTGGATGTCCTGGGCCACA GCGATCTGGTGGACATATTCCCGTGGTTGAAG cgtcaagctactcctgtgctctattccattaatgccaacccatctttcagTATGCCAAGAGGCCAACTCACTGTGTGACTTGATACTTTCTTATGACGGGGAGTCCCAAGATCTATCTACACTCATTTTCAAATCAGCAATTAACATCATCCTGTACCATATGTTTTAACATCTCTTTTGAGAACATGGATCCAATATTGACTATGAGA---------ATGGAATCCATTGTTGTGGTCTTGGGCCACAgtgatcttgttaagaacactccatggtttgatctag---------TGGAGATAATCCCATGGTTAAAGgtaggcggagggaatttttatgaaagagtgacccactccccattttggca Alignment from Pairagon TATGTCAGGAAGCCAACTCACTGTGTGACTTGATACTTACATACGACGGGGAGTCCCGAGATCTGTCTACGCTCATCTTCAAGTCAGTAATCAATATCAT-CTGTACCATCTGCTTCAACATCTCTTTTGAGAACAAGGATCCGATACTGACTA------------CCATACAGACCTTTACAGAGGGTATTGTGGATGTCCTGGGCCACAG---------------------------CGATCTGGTGGACATATTCCCGTGGTTGAAG cgtcaagctactcctgtgctctattccattaatgccaacccatctttcagTATGCCAAGAGGCCAACTCACTGTGTGACTTGATACTTTCTTATGACGGGGAGTCCCAAGATCTATCTACACTCATTTTCAAATCAGCAATTAACATCATCCTGTACCATATGTTTTAACATCTCTTTTGAGAACATGGATCCAATATTGACTATGAGAATGGAATCC---------------------ATTGTTGTGGTCTTGGGCCACAGTGATCTTGTTAAGAACACTCCATGGTTTGATCTAGTGGAGATAATCCCATGGTTAAAGgtaggcggagggaatttttatgaaagagtgacccactccccattttggca Alignment from Exonerate_protein2genome TATGTCAGGAAGCCAACTCACTGTGTGACTTGATACTTACATACGACGGGGAGTCCCGAGATCTGTCTACGCTCATCTTCAAGTCAGTAATCAATATCATC-TGTACCATCTGCTTCAACATCTCTTTTGAGAACAAGGATCCGATACTGACTACCATACAGACCTTTACAGAGGGTATTGTGGATGTCCTGGGCCACAGCGATCTGGTGGACATATTCCCGTGGTTGAAG cgtcaagctactcctgtgctctattccattaatgccaacccatctttcagTATGCCAAGAGGCCAACTCACTGTGTGACTTGATACTTTCTTATGACGGGGAGTCCCAAGATCTATCTACACTCATTTTCAAATCAGCAATTAACATCATCCTGTACCATATGTTTTAACATCTCTTTTGAGAACATGGATCCAATATTGACTATGAGAATG---------GAATCCATTGTTGTGGTCTTGGGCCACAGTGATCTTGTTAAGAACACTCCATGGTTTGATctagtggagataatcccatggttaaaggtaggcggagggaatttttatgaaagagtgacccactccccattttggca Alignment from Exonerate_coding2genome TATGTCAGGAAGCCAACTCACTGTGTGACTTGATACTTACATACGACGGGGAGTCCCGAGATCTGTCTACGCTCATCTTCAAGTCAGTAATCAATATCATC-TGTACCATCTGCTTCAACATCTCTTTTGAGAACAAGGATCCGATACTGACTACCATACAGACCTTTACAGAGGGTATTGTGGATGTCCTGGGCCACAGCGATCTGGTGGACATATTCCCGTGGTTGAAG cgtcaagctactcctgtgctctattccattaatgccaacccatctttcagTATGCCAAGAGGCCAACTCACTGTGTGACTTGATACTTTCTTATGACGGGGAGTCCCAAGATCTATCTACACTCATTTTCAAATCAGCAATTAACATCATCCTGTACCATATGTTTTAACATCTCTTTTGAGAACATGGATCCAATATTGACTATGAGAATG---------GAATCCATTGTTGTGGTCTTGGGCCACAGTGATCTTGTTAAGAACACTCCATGGTTTGATctagtggagataatcccatggttaaaggtaggcggagggaatttttatgaaagagtgacccactccccattttggca Alignment from GeneWise TATGTCAGGAAGCCAACTCACTGTGTGACTTGATACTTACATACGACGGGGAGTCCCGAGATCTGTCTACGCTCATCTTCAAGTCAGTAATCAATATC-ATCTGTACCATCTGCTTCAACATCTCTTTTGAGAACAAGGATCCGATACTGACTACCATACAGACCTTTACAGAGGGTATTGTGGATGTCCTGGGCCACAGCGATCTGGTGGACATATTCCCGTGGTTGAAGATT cgtcaagctactcctgtgctctattccattaatgccaacccatctttcagTATGCCAAGAGGCCAACTCACTGTGTGACTTGATACTTTCTTATGACGGGGAGTCCCAAGATCTATCTACACTCATTTTCAAATCAGCAATTAACATCATCCTGTACCATATGTTTTAACATCTCTTTTGAGAACATGGATCCAATATTGACTATGAGAATG---------GAATCCATTGTTGTGGTCTTGGGCCACAGTGATCTTGTTAAGAACACTCCATGGTTTGATCTAgtggagataatcccatggttaaaggtaggcggagggaatttttatgaaagagtgacccactccccattttggca #### Cyp2c50_ID7863_4 --> 2 - 0 Original Alignment gcTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCTT-AATTTGATGGAAAAACTGAATGAAATAACCAAGATAATGAGCACCCCTTGGTTGCAG tttcatacctagctttagtcagtggattgttcacttttctgtctttccaggcTCACTGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAAGATCGGGATTTTCTCCAATTTGATGGAAAAGTTAAATAAAATATCTAAAATAATGAGTATGCCATGGCTT---gtaagatcagatatttggaatgacacccgtttgctgttattattaagcgt Alignment from CESAR gcTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCTT-AATTTGATGGAAAAACTGAATGAAATAACCAAGATAATGAGCACCCCTTGGTTGCAG tttcatacctagctttagtcagtggattgttcacttttctgtctttccaggcTCACTGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAAGATCGGGATTTTCTCCAATTTGATGGAAAAGTTAAATAAAATATCTAAAATAATGAGTATGCCATGGCTT---gtaagatcagatatttggaatgacacccgtttgctgttattattaag Alignment from Spaln_aa2Genome GCTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCTT-AATTTGATGGAAAAACTGAATGAAATAACCAAGATAATGAGCACCCCTTGGTTG tttcatacctagctttagtcagtggattgttcacttttctgtctttccagGCTCACTGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAAGATCGGGATTTTCTCcAATTTGATGGAAAAGTTAAATAAAATATCTAAAATAATGAGTATGCCATGGCTTgtaagatcagatatttggaatgacacccgtttgctgttattattaagcgt Alignment from Spaln_nt2Genome GCTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCTT-AATTTGATGGAAAAACTGAATGAAATAACCAAGATAATGAGCACCCCTTGGTTG tttcatacctagctttagtcagtggattgttcacttttctgtctttccagGCTCACTGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAAGATCGGGATTTTCTCCAATTTGATGGAAAAGTTAAATAAAATATCTAAAATAATGAGTATGCCATGGCTTgtaagatcagatatttggaatgacacccgtttgctgttattattaagcgt Alignment from Pairagon GCTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCT-TAATTTGATGGAAAAACTGAATGAAATAACCAAGATAATGA tttcatacctagctttagtcagtggattgttcacttttctgtctttccagGCTCACTGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAAGATCGGGATTTTCTCCAATTTGATGGAAAAGTTAAATAAAATATCTAAAATAATGAgtatgccatggcttgtaagatcagatatttggaatgacacccgtttgctgttattattaagcgt Alignment from Exonerate_protein2genome GCTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCTT-AATTTGATGGAAAAACTGAATGAAATAACCAAGATAATGAGCACCCCTTGGTTG tttcatacctagctttagtcagtggattgttcacttttctgtctttccagGCTCACTGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAAGATCGGGATTTTCTCCAATTTGATGGAAAAGTTAAATAAAATATCTAAAATAATGAGTATGCCATGGCTTgtaagatcagatatttggaatgacacccgtttgctgttattattaagcgt Alignment from Exonerate_coding2genome GCTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCTT-AATTTGATGGAAAAACTGAATGAAATAACCAAGATAATGAGCACCCCTTGGTTG tttcatacctagctttagtcagtggattgttcacttttctgtctttccagGCTCACTGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAAGATCGGGATTTTCTCCAATTTGATGGAAAAGTTAAATAAAATATCTAAAATAATGAGTATGCCATGGCTTgtaagatcagatatttggaatgacacccgtttgctgttattattaagcgt Alignment from GeneWise GCTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTT-CTTAATTTGATGGAAAAACTGAATGAAATAACCAAGATAATGAGCACCCCTTGGTTG tttcatacctagctttagtcagtggattgttcacttttctgtctttccagGCTCACTGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAAGATCGGGATTTTCTCCAATTTGATGGAAAAGTTAAATAAAATATCTAAAATAATGAGTATGCCATGGCTTgtaagatcagatatttggaatgacacccgtttgctgttattattaagcgt #### Cyp2c54_ID7856_2 --> 0 - 1 Original Alignment TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAA-GCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg gggtgacttcatatggttacttcatattcatttcatctgtatatttgcagTTATCACGAGTTTATGGTCCATTTTATACTTTATATCTAGGGAGGAAGCCAACTGTTGTTTTACATGGGTATGAGGCTGTGAAGGAGGAACGTTCTTGCTGACCAAGGGGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGggtgagctctggggcgtgtaccatgcatggttgcactactatgatatccaa Alignment from CESAR TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAA----GCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg gggtgacttcatatggttacttcatattcatttcatctgtatatttgcagTTATCACGAGTTTATGGTCCATTTTATACTTTATATCTAGGGAGGAAGCCAACTGTTGTTTTACATGGGTATGAGGCTGTGAAGGAGGAACGTTCTTGCTGACCAAGGGGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGggtgagctctggggcgtgtaccatgcatggttgcactactatgatatccaa Alignment from Spaln_aa2Genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAA----GCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG gggtgacttcatatggttacttcatattcatttcatctgtatatttgcagTTATCACGAGTTTATGGTCCATTTTATACTTTATATCTAGGGAGGAAGCCAACTGTTGTTTTACATGGGTATGAGGCTGTGAAGGAGGAAcGTTCTTGCTGACCAAGGGGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGGgtgagctctggggcgtgtaccatgcatggttgcactactatgatatccaa Alignment from Spaln_nt2Genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGC----TCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG gggtgacttcatatggttacttcatattcatttcatctgtatatttgcagTTATCACGAGTTTATGGTCCATTTTATACTTTATATCTAGGGAGGAAGCCAACTGTTGTTTTACATGGGTATGAGGCTGTGAAGGAGGAACGTTCTTGCTGACCAAGGGGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGGgtgagctctggggcgtgtaccatgcatggttgcactactatgatatccaa Alignment from Pairagon TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAA----GCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG gggtgacttcatatggttacttcatattcatttcatctgtatatttgcagTTATCACGAGTTTATGGTCCATTTTATACTTTATATCTAGGGAGGAAGCCAACTGTTGTTTTACATGGGTATGAGGCTGTGAAGGAGGAACGTTCTTGCTGACCAAGGGGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGGgtgagctctggggcgtgtaccatgcatggttgcactactatgatatccaa Alignment from Exonerate_protein2genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAA----GCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG gggtgacttcatatggttacttcatattcatttcatctgtatatttgcagTTATCACGAGTTTATGGTCCATTTTATACTTTATATCTAGGGAGGAAGCCAACTGTTGTTTTACATGGGTATGAGGCTGTGAAGGAGGAACGTTCTTGCTGACCAAGGGGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGGgtgagctctggggcgtgtaccatgcatggttgcactactatgatatccaa Alignment from Exonerate_coding2genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAA----GCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG gggtgacttcatatggttacttcatattcatttcatctgtatatttgcagTTATCACGAGTTTATGGTCCATTTTATACTTTATATCTAGGGAGGAAGCCAACTGTTGTTTTACATGGGTATGAGGCTGTGAAGGAGGAACGTTCTTGCTGACCAAGGGGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGGgtgagctctggggcgtgtaccatgcatggttgcactactatgatatccaa Alignment from GeneWise TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAA-GCT---CTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG gggtgacttcatatggttacttcatattcatttcatctgtatatttgcagTTATCACGAGTTTATGGTCCATTTTATACTTTATATCTAGGGAGGAAGCCAACTGTTGTTTTACATGGGTATGAGGCTGTGAAGGAGGAACGTTCTTGCTGACCAAGGGGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGGgtgagctctggggcgtgtaccatgcatggttgcactactatgatatccaa #### D19Ertd737e_ID13191_3 --> 2 - 2 Original Alignment gcAAATTGAAGAATGAA-AAGGAATCTCACag tttgcgacacagaagtctatatgtcagttcaacccaccttgctcttacaggcAAGTTGAAAAATGAGCAGAGAATCTCACaggtctgtatataatatgtgtcctaactaaccttttagcatggccagacgag Alignment from CESAR gcAAATTGAAGAATGAAAAG-GAATCTCACag tttgcgacacagaagtctatatgtcagttcaacccaccttgctcttacaggcAAGTTGAAAAATGAGCAGAGAATCTCACaggtctgtatataatatgtgtcctaactaaccttttagcatggccagacgag Alignment from Spaln_aa2Genome GCAAATTGAAGAATGAAAAGGAATCTCACAGTGAG tttgcgacacagaagtctatatgtcagttcaacccaccttgctcttacagGCAAGTTGAAAAATGAGCAGAGAATC---TCACAGgtctgtatataatatgtgtcctaactaaccttttagcatggccagacgag Alignment from Spaln_nt2Genome GCAAATTGAAGAATGAAAAG-GAATCTCACAG tttgcgacacagaagtctatatgtcagttcaacccaccttgctcttacagGCAAGTTGAAAAATGAGCAGAGAATCTCACAGgtctgtatataatatgtgtcctaactaaccttttagcatggccagacgag Alignment from Pairagon GCAAATTGAAGAATGAAAAG-GAATCTCACAG tttgcgacacagaagtctatatgtcagttcaacccaccttgctcttacagGCAAGTTGAAAAATGAGCAGAGAATCTCACAGgtctgtatataatatgtgtcctaactaaccttttagcatggccagacgag Alignment from Exonerate_protein2genome GCAAATTGAAGAATGAA-AAGGAATCTCACAG tttgcgacacagaagtctatatgtcagttcaacccaccttgctcttacagGCAAGTTGAAAAATGAGCAGAGAATCTCACAGgtctgtatataatatgtgtcctaactaaccttttagcatggccagacgag Alignment from Exonerate_coding2genome tttgcgacacagaagtctatatgtcagttcaacccaccttgctcttacaggcaagttgaaaaatgagcagagaatctcacaggtctgtatataatatgtgtcctaactaaccttttagcatggccagacgag Alignment from GeneWise tttgcgacacagaagtctatatgtcagttcaacccaccttgctcttacaggcaagttgaaaaatgagcagagaatctcacaggtctgtatataatatgtgtcctaactaaccttttagcatggccagacgag #### Dagla_ID2755_15 --> 1 - 0 Original Alignment gATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGG-AGCACCAAGCCCAAA ggacagagatgttggtaaagaaggaaacaaatgttttgatgattctccaggGTTGGCCTTTCCCAACTAGAAGGATTTTGCAGGCAGCTTTTAGATGTCTTGCAACGGCAGTACTAAACCCAAGgtaaatactggtcagagctacagaaccaaaaaacgcctgtctatatgtgg Alignment from CESAR gATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGG-AGCACCAAGCCCAAA ggacagagatgttggtaaagaaggaaacaaatgttttgatgattctccaggGTTGGCCTTTCCCAACTAGAAGGATTTTGCAGGCAGCTTTTAGATGTCTTGCAACGGCAGTACTAAACCCAAGgtaaatactggtcagagctacagaaccaaaaaacgcctgtctatatgtgg Alignment from Spaln_aa2Genome GATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGG-AGCACCAAGCCCAAA ggacagagatgttggtaaagaaggaaacaaatgttttgatgattctccagGGTTGGCCTTTCCCAACTAGAAGGATTTTGCAGGCAGCTTTTAGATGTCTTGCAACGGcAGTACTAAACCCAAGgtaaatactggtcagagctacagaaccaaaaaacgcctgtctatatgtgg Alignment from Spaln_nt2Genome GATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGG-AGCACCAAGCCCAAA ggacagagatgttggtaaagaaggaaacaaatgttttgatgattctccagGGTTGGCCTTTCCCAACTAGAAGGATTTTGCAGGCAGCTTTTAGATGTCTTGCAACGGCAGTACTAAACCCAAGgtaaatactggtcagagctacagaaccaaaaaacgcctgtctatatgtgg Alignment from Pairagon GATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGG-AGCACCAAGCCCAAA ggacagagatgttggtaaagaaggaaacaaatgttttgatgattctccagGGTTGGCCTTTCCCAACTAGAAGGATTTTGCAGGCAGCTTTTAGATGTCTTGCAACGGCAGTACTAAACCCAAGgtaaatactggtcagagctacagaaccaaaaaacgcctgtctatatgtgg Alignment from Exonerate_protein2genome GATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGG-AGCACCAAGCCCAAA ggacagagatgttggtaaagaaggaaacaaatgttttgatgattctccagGGTTGGCCTTTCCCAACTAGAAGGATTTTGCAGGCAGCTTTTAGATGTCTTGCAACGGCAGTACTAAACCCAAGgtaaatactggtcagagctacagaaccaaaaaacgcctgtctatatgtgg Alignment from Exonerate_coding2genome GATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGG-AGCACCAAGCCCAAA ggacagagatgttggtaaagaaggaaacaaatgttttgatgattctccagGGTTGGCCTTTCCCAACTAGAAGGATTTTGCAGGCAGCTTTTAGATGTCTTGCAACGGCAGTACTAAACCCAAGgtaaatactggtcagagctacagaaccaaaaaacgcctgtctatatgtgg Alignment from GeneWise GATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGG-AGCACCAAGCCCAAA ggacagagatgttggtaaagaaggaaacaaatgttttgatgattctccagGGTTGGCCTTTCCCAACTAGAAGGATTTTGCAGGCAGCTTTTAGATGTCTTGCAACGGCAGTACTAAACCCAAGgtaaatactggtcagagctacagaaccaaaaaacgcctgtctatatgtgg #### Dagla_ID2760_10 --> 0 - 0 Original Alignment GTCTATGAAACTCCCTTCTACGTAGCTGTGGACCATGACAAGAAGAAAGTGGTGATCAGT-ATCCGGGGAACACTGTCCCCCAAG tcgcttatcagctttccaaaattccttcgttttaatgtcattttctgtagGTCTATGAAACTCCCTTTTATGTTGCTGTTGACCATGATAAGAAGAAAGTAGTGGTCAGCCATCAGGGGGACTTTATCCCCGAAAgtgctagccattgtattcaaatttacacttcacttttgttacactaccac Alignment from CESAR GTCTATGAAACTCCCTTCTACGTAGCTGTGGACCATGACAAGAAGAAAGTGGTGATCAGT-ATCCGGGGAACACTGTCCCCCAAG tcgcttatcagctttccaaaattccttcgttttaatgtcattttctgtagGTCTATGAAACTCCCTTTTATGTTGCTGTTGACCATGATAAGAAGAAAGTAGTGGTCAGCCATCAGGGGGACTTTATCCCCGAAAgtgctagccattgtattcaaatttacacttcacttttgttacactaccac Alignment from Spaln_aa2Genome GTCTATGAAACTCCCTTCTACGTAGCTGTGGACCATGACAAGAAGAAAGTGGTGATCAGT-ATCCGGGGAACACTGTCCCCCAAG tcgcttatcagctttccaaaattccttcgttttaatgtcattttctgtagGTCTATGAAACTCCCTTTTATGTTGCTGTTGACCATGATAAGAAGAAAGTAGTGGTCAGCcATCAGGGGGACTTTATCCCCGAAAgtgctagccattgtattcaaatttacacttcacttttgttacactaccac Alignment from Spaln_nt2Genome GTCTATGAAACTCCCTTCTACGTAGCTGTGGACCATGACAAGAAGAAAGTGGTGATCAGT-ATCCGGGGAACACTGTCCCCCAAG tcgcttatcagctttccaaaattccttcgttttaatgtcattttctgtagGTCTATGAAACTCCCTTTTATGTTGCTGTTGACCATGATAAGAAGAAAGTAGTGGTCAGCCATCAGGGGGACTTTATCCCCGAAAgtgctagccattgtattcaaatttacacttcacttttgttacactaccac Alignment from Pairagon GTCTATGAAACTCCCTTCTACGTAGCTGTGGACCATGACAAGAAGAAAGTGGTGATCAG-TATCCGGGGAACACTGTCCCCCA---------------------------------------------------- tcgcttatcagctttccaaaattccttcgttttaatgtcattttctgtagGTCTATGAAACTCCCTTTTATGTTGCTGTTGACCATGATAAGAAGAAAGTAGTGGTCAGCCATCAGGGGGACTTTATCCCCGAAAGTGCTAGCCATTGTATTCAAATTTACACTTCACTTTTGTTACACTACCAC Alignment from Exonerate_protein2genome GTCTATGAAACTCCCTTCTACGTAGCTGTGGACCATGACAAGAAGAAAGTGGTGATCAGT-ATCCGGGGAACACTGTCCCCCAAG tcgcttatcagctttccaaaattccttcgttttaatgtcattttctgtagGTCTATGAAACTCCCTTTTATGTTGCTGTTGACCATGATAAGAAGAAAGTAGTGGTCAGCCATCAGGGGGACTTTATCCCCGAAAgtgctagccattgtattcaaatttacacttcacttttgttacactaccac Alignment from Exonerate_coding2genome tcgcttatcagctttccaaaattccttcgttttaatgtcattttctgtaggtctatgaaactcccttttatgttgctgttgaccatgataagaagaaagtagtggtcagccatcagggggactttatccccgaaagtgctagccattgtattcaaatttacacttcacttttgttacactaccac Alignment from GeneWise GTCTATGAAACTCCCTTCTACGTAGCTGTGGACCATGACAAGAAGAAAGTGGTGATC-AGTATCCGGGGAACACTGTCCCCCAAG-------------------------------------------------- tcgcttatcagctttccaaaattccttcgttttaatgtcattttctgtagGTCTATGAAACTCCCTTTTATGTTGCTGTTGACCATGATAAGAAGAAAGTAGTGGTCAGCCATCAGGGGGACTTTATCCCCGAAAGTGCTAGCCATTGTATTCAAATTTACACTTCACTTTTGTTACACTACCAC #### Dak_ID2897_16 --> 0 - 0 Original Alignment CTGGATTCTCTGTGGGCAGCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTC-CCAGTCCTGACTAAAGCAGTCAAG ttggccccccctatggtgctaagattggctgcagtctctgatccctgcagCTAGACTCCCTGTGGTCAGCAGCACAGGAGTTCCAAGCCTGGAAAAGTCCCGGCGCTAGCCTCCTTCCCAGTCCTTACAAAAGCTGTCAAGgtgagtcactcactagtaagtcagctcaccattaaggacctaaggattct Alignment from CESAR CTGGATTCTCTGTGGGCAGCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTC-CCAGTCCTGACTAAAGCAGTCAAG ttggccccccctatggtgctaagattggctgcagtctctgatccctgcagCTAGACTCCCTGTGGTCAGCAGCACAGGAGTTCCAAGCCTGGAAAAGTCCCGGCGCTAGCCTCCTTCCCAGTCCTTACAAAAGCTGTCAAGgtgagtcactcactagtaagtcagctcaccattaaggacctaaggattct Alignment from Spaln_aa2Genome CTGGATTCTCTGTGGGCAGCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTC-CCAGTCCTGACTAAAGCAGTCAAG ttggccccccctatggtgctaagattggctgcagtctctgatccctgcagCTAGACTCCCTGTGGTCAGCAGCACAGGAGTTCCAAGCCTGGAAAAGTCCCGGCGCTAGCCTCCTTcCCAGTCCTTACAAAAGCTGTCAAGgtgagtcactcactagtaagtcagctcaccattaaggacctaaggattct Alignment from Spaln_nt2Genome CTGGATTCTCTGTGGGCAGCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCT-CCCAGTCCTGACTAAAGCAGTCAAG ttggccccccctatggtgctaagattggctgcagtctctgatccctgcagCTAGACTCCCTGTGGTCAGCAGCACAGGAGTTCCAAGCCTGGAAAAGTCCCGGCGCTAGCCTCCTTCCCAGTCCTTACAAAAGCTGTCAAGgtgagtcactcactagtaagtcagctcaccattaaggacctaaggattct Alignment from Pairagon CTGGATTCTCTGTGGGCAGCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCC-TCCCAGTCCTGACTAAAGCAGTCAAG ttggccccccctatggtgctaagattggctgcagtctctgatccctgcagCTAGACTCCCTGTGGTCAGCAGCACAGGAGTTCCAAGCCTGGAAAAGTCCCGGCGCTAGCCTCCTTCCCAGTCCTTACAAAAGCTGTCAAGgtgagtcactcactagtaagtcagctcaccattaaggacctaaggattct Alignment from Exonerate_protein2genome CTGGATTCTCTGTGGGCAGCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTC-CCAGTCCTGACTAAAGCAGTCAAG ttggccccccctatggtgctaagattggctgcagtctctgatccctgcagCTAGACTCCCTGTGGTCAGCAGCACAGGAGTTCCAAGCCTGGAAAAGTCCCGGCGCTAGCCTCCTTCCCAGTCCTTACAAAAGCTGTCAAGgtgagtcactcactagtaagtcagctcaccattaaggacctaaggattct Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CTGGATTCTCTGTGGGCAGCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAGAGT-- ttggccccccctatggtgctaagattggctgcagtctctgatccctgcagCTAGACTCCCTGTGGTCAGCAGCACAGGAGTTCCAAGCCTGGAAAAGTCCCGGCGCTAGCCTCCTTCCCAGTCCTTACAAAAGCTGTCAAGGTGAgtcactcactagtaagtcagctcaccattaaggacctaaggattct #### Dak_ID2900_13 --> 2 - 0 Original Alignment ccATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTA-ACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtggttcagatatatatctttttctctttccagccATCCAGGGGTGGTTGAAAGAGGGCCCATCACTGCACCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtgcgaagaacagttcttaggaccattataggaagccttactacagctag Alignment from CESAR ccATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTA-ACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtggttcagatatatatctttttctctttccagccATCCAGGGGTGGTTGAAAGAGGGCCCATCACTGCACCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtgcgaagaacagttcttaggaccattataggaagccttactacagctag Alignment from Spaln_aa2Genome CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTA-ACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtggttcagatatatatctttttctctttccagCCATCCAGGGGTGGTTGAAAGAGGGCCCATCACTGcACCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtgcgaagaacagttcttaggaccattataggaagccttactacagctag Alignment from Spaln_nt2Genome CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTA-ACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtggttcagatatatatctttttctctttccagCCATCCAGGGGTGGTTGAAAGAGGGCCCATCACTGCACCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtgcgaagaacagttcttaggaccattataggaagccttactacagctag Alignment from Pairagon CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTA-ACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtggttcagatatatatctttttctctttccagCCATCCAGGGGTGGTTGAAAGAGGGCCCATCACTGCACCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtgcgaagaacagttcttaggaccattataggaagccttactacagctag Alignment from Exonerate_protein2genome CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTA-ACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtggttcagatatatatctttttctctttccagCCATCCAGGGGTGGTTGAAAGAGGGCCCATCACTGCACCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtgcgaagaacagttcttaggaccattataggaagccttactacagctag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCATTCAGGGCTGGCTAAAGGAAGGCCCATCT-CTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtggttcagatatatatctttttctctttccagCCATCCAGGGGTGGTTGAAAGAGGGCCCATCACTGCACCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtgcgaagaacagttcttaggaccattataggaagccttactacagctag #### Dak_ID2902_11 --> 2 - 1 Original Alignment atGCTGAAACTACTGCAAAAGCCTGGCCTCAC-ATGGCCAAGGTCTCTGTG------------------ACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAg atcaaggcactactgctgtatgaatgggactgtcttttccttgtcctcagatGCTGAGTCAACTGCAAAACGT---TAT---CATGACCAAAGTCTCTGTCATGACCAAAGTCTCCATAACTGGGAGGAAACAGATCCGGGCATCCCCCACAGAGCCACCTGAGTCCCCGGAAGCTACTGTTGCAGGGggtgagtagtccagatgtgaatactaaggacaaggaaggcttacctagcag Alignment from CESAR atGCTGAAACTACTGCAAAAGCCTGGCCT---------------CACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAg atcaaggcactactgctgtatgaatgggactgtcttttccttgtcctcagatGCTGAGTCAACTGCAAAACGTTATCATGACCAAAGTCTCTGTC--ATGACCAAAGTCTCCATAACTGGGAGGAAACAGATCCGGGCATCCCCCACAGAGCCACCTGAGTCCCCGGAAGCTACTGTTGCAGGGggtgagtagtccagatgtgaatactaaggacaaggaaggcttacctagcag Alignment from Spaln_aa2Genome ATGCTGAAACTACTGCAAAAGCCTGGCCTCAC-------------ATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAG atcaaggcactactgctgtatgaatgggactgtcttttccttgtcctcagATGCTGAGTCAACTGCAAAACGTTATCATGACCAAAGTCTCTGTcATGACCAAAGTCTCCATAACTGGGAGGAAACAGATCCGGGCATCCCCCACAGAGCCACCTGAGTCCCCGGAAGCTACTGTTGCAGGGGgtgagtagtccagatgtgaatactaaggacaaggaaggcttacctagcag Alignment from Spaln_nt2Genome ATGCTGAAACTACTGCAAAAG-----CCTGGCCTCA--------CATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAG atcaaggcactactgctgtatgaatgggactgtcttttccttgtcctcagATGCTGAGTCAACTGCAAAACGTTATCATGACCAAAGTCTCTGTCATGACCAAAGTCTCCATAACTGGGAGGAAACAGATCCGGGCATCCCCCACAGAGCCACCTGAGTCCCCGGAAGCTACTGTTGCAGGGGgtgagtagtccagatgtgaatactaaggacaaggaaggcttacctagcag Alignment from Pairagon ATGCTGAAACTACTGCA----------------AAAGCCTGGCCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAG atcaaggcactactgctgtatgaatgggactgtcttttccttgtcctcagATGCTGAGTCAACTGCAAAACGTTATCATGACCAAAGTCT---CTGTCATGACCAAAGTCTCCATAACTGGGAGGAAACAGATCCGGGCATCCCCCACAGAGCCACCTGAGTCCCCGGAAGCTACTGTTGCAGGGGgtgagtagtccagatgtgaatactaaggacaaggaaggcttacctagcag Alignment from Exonerate_protein2genome ATGCTGAAACTACTGCAAAAGCCTGGCCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAG atcaaggcactactgctgtatgaatgggactgtcttttccttgtcctcagatgctgagtcaacTGCAAAACGTTATCATGACCAAAGTCTCTGTCATGACCAAAGTCTCCATAACTGGGAGGAAACAGATCCGGGCATCCCCCACAGAGCCACCTGAGTCCCCGGAAGCTACTGTTGCAGGGGgtgagtagtccagatgtgaatactaaggacaaggaaggcttacctagcag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise -------GCTGAAACTACTGCAAAAGCCTGGCCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAG atcaaggcactactgctgtatgaatgggactgtcttttccttgtcctcagatgctgagTCAACTGCAAAACGTTATCATGACCAAAGTCTCTGTCATGACCAAAGTCTCCATAACTGGGAGGAAACAGATCCGGGCATCCCCCACAGAGCCACCTGAGTCCCCGGAAGCTACTGTTGCAGGGGgtgagtagtccagatgtgaatactaaggacaaggaaggcttacctagcag #### Dak_ID2904_9 --> 2 - 1 Original Alignment gcTCTTCAGTGGTGCTGATAGTCAACAAT-CTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGg gtgtgtctaggcatgctccaagcatgctctaaagtatttttgtcttctaggtTCATCAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCCGGGAACTGGGTATCACTGCTGATGCTGCCATACATTTGCTTggtaaagaacctcatcaggcatccatatggaaaccctttaatgcctatgcc Alignment from CESAR gcTCTTCAGTGGTGCTGATAGTCAACAAT-CTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGg gtgtgtctaggcatgctccaagcatgctctaaagtatttttgtcttctaggtTCATCAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCCGGGAACTGGGTATCACTGCTGATGCTGCCATACATTTGCTTggtaaagaacctcatcaggcatccatatggaaaccctttaatgcctatgcc Alignment from Spaln_aa2Genome GCTCTTCAGTGGTGCTGATAGTCAACAAT-CTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gtgtgtctaggcatgctccaagcatgctctaaagtatttttgtcttctagGTTCATCAGTGGTACTGATAGTGAATAATcCTTGGTGGTCTGTCCTTCCGGGAACTGGGTATCACTGCTGATGCTGCCATACATTTGCTTGgtaaagaacctcatcaggcatccatatggaaaccctttaatgcctatgcc Alignment from Spaln_nt2Genome GCTCTTCAGTGGTGCTGATAGTCAACAATC-TGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gtgtgtctaggcatgctccaagcatgctctaaagtatttttgtcttctagGTTCATCAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCCGGGAACTGGGTATCACTGCTGATGCTGCCATACATTTGCTTGgtaaagaacctcatcaggcatccatatggaaaccctttaatgcctatgcc Alignment from Pairagon GCTCTTCAGTGGTGCTGATAGTCAACAAT-CTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gtgtgtctaggcatgctccaagcatgctctaaagtatttttgtcttctagGTTCATCAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCCGGGAACTGGGTATCACTGCTGATGCTGCCATACATTTGCTTGgtaaagaacctcatcaggcatccatatggaaaccctttaatgcctatgcc Alignment from Exonerate_protein2genome GCTCTTCAGTGGTGCTGATAGTCAACAAT-CTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gtgtgtctaggcatgctccaagcatgctctaaagtatttttgtcttctagGTTCATCAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCCGGGAACTGGGTATCACTGCTGATGCTGCCATACATTTGCTTGgtaaagaacctcatcaggcatccatatggaaaccctttaatgcctatgcc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GCTCTTCAGTGGTGCTGATAGTCAACAAT-CTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gtgtgtctaggcatgctccaagcatgctctaaagtatttttgtcttctagGTTCATCAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCCGGGAACTGGGTATCACTGCTGATGCTGCCATACATTTGCTTGgtaaagaacctcatcaggcatccatatggaaaccctttaatgcctatgcc #### Dak_ID2910_3 --> 2 - 1 Original Alignment gtTTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCT-GTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAg tgcaactttggggctactatgcataccttccccttgatgccccactccaggcTTTATTGGCAAAGGG---CTGACAGGTATTATTGTAGGATTGGTGTTTACCTCTCCCCCTCGTAGGCAGCATCTTAGCAGCCATTAGAGCTGTGGCGCAGGCAGGCACAggtgggttgtgtatcccactggataggttgtagaggggagcacattgatct Alignment from CESAR gtTTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCT-GTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAg tgcaactttggggctactatgcataccttccccttgatgccccactccaggcTTTATTGGCAAAGGG---CTGACAGGTATTATTGTAGGATTGGTGTTTACCTCTCCCCCTCGTAGGCAGCATCTTAGCAGCCATTAGAGCTGTGGCGCAGGCAGGCACAggtgggttgtgtatcccactggataggttgtagaggggagcacattgaccc Alignment from Spaln_aa2Genome GTTTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCT-GTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAG tgcaactttggggctactatgcataccttccccttgatgccccactccagGCTTTATTGGCAAAGGG---CTGACAGGTATTATTGTAGGATTGGTGTTTACCTCTCCCCCTcGTAGGCAGCATCTTAGCAGCCATTAGAGCTGTGGCGCAGGCAGGCACAGgtgggttgtgtatcccactggataggttgtagaggggagcacattgatct Alignment from Spaln_nt2Genome GTTTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCT-GTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAG tgcaactttggggctactatgcataccttccccttgatgccccactccagGCTTTATTGGCAAAGG---GCTGACAGGTATTATTGTAGGATTGGTGTTTACCTCTCCCCCTCGTAGGCAGCATCTTAGCAGCCATTAGAGCTGTGGCGCAGGCAGGCACAGgtgggttgtgtatcccactggataggttgtagaggggagcacattgatct Alignment from Pairagon GTTTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCT-GTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAG tgcaactttggggctactatgcataccttccccttgatgccccactccagGCTTTATTGGCAAAGG---GCTGACAGGTATTATTGTAGGATTGGTGTTTACCTCTCCCCCTCGTAGGCAGCATCTTAGCAGCCATTAGAGCTGTGGCGCAGGCAGGCACAGgtgggttgtgtatcccactggataggttgtagaggggagcacattgatct Alignment from Exonerate_protein2genome GTTTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCT-GTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAG tgcaactttggggctactatgcataccttccccttgatgccccactccagGCTTTATTGGCAAAGGG---CTGACAGGTATTATTGTAGGATTGGTGTTTACCTCTCCCCCTCGTAGGCAGCATCTTAGCAGCCATTAGAGCTGTGGCGCAGGCAGGCACAGgtgggttgtgtatcccactggataggttgtagaggggagcacattgatct Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTTTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCT-GTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAG tgcaactttggggctactatgcataccttccccttgatgccccactccagGCTTTATTGGCAAAGGG---CTGACAGGTATTATTGTAGGATTGGTGTTTACCTCTCCCCCTCGTAGGCAGCATCTTAGCAGCCATTAGAGCTGTGGCGCAGGCAGGCACAGgtgggttgtgtatcccactggataggttgtagaggggagcacattgatct #### Ddb1_ID2930_15 --> 2 - 1 Original Alignment agATCATTCCTCGATCCATCCTGATGACCACTTTT-GAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAg ccatagagcttattccttggtcaccctatggtgaactatttatccttcagagATCATTCCTCGATCCATATTGATGACCACCTTTCGAAGGTGGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATTGAGACAggtaggtctgtagatgatttgaatgctgggtattctctagaatacagatcc Alignment from CESAR agATCATTCCTCGATCCATCCTGATGACCACTTTT-GAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAg ccatagagcttattccttggtcaccctatggtgaactatttatccttcagagATCATTCCTCGATCCATATTGATGACCACCTTTCGAAGGTGGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATTGAGACAggtaggtctgtagatgatttgaatgctgggtattctctagaatacagatcc Alignment from Spaln_aa2Genome AGATCATTCCTCGATCCATCCTGATGACCACTTTT-GAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG ccatagagcttattccttggtcaccctatggtgaactatttatccttcagAGATCATTCCTCGATCCATATTGATGACCACCTTTcGAAGGTGGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATTGAGACAGgtaggtctgtagatgatttgaatgctgggtattctctagaatacagatcc Alignment from Spaln_nt2Genome AGATCATTCCTCGATCCATCCTGATGACCACTTTT-GAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG ccatagagcttattccttggtcaccctatggtgaactatttatccttcagAGATCATTCCTCGATCCATATTGATGACCACCTTTCGAAGGTGGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATTGAGACAGgtaggtctgtagatgatttgaatgctgggtattctctagaatacagatcc Alignment from Pairagon AGATCATTCCTCGATCCATCCTGATGACCA-CTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG ccatagagcttattccttggtcaccctatggtgaactatttatccttcagAGATCATTCCTCGATCCATATTGATGACCACCTTTCGAAGGTGGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATTGAGACAGgtaggtctgtagatgatttgaatgctgggtattctctagaatacagatcc Alignment from Exonerate_protein2genome AGATCATTCCTCGATCCATCCTGATGACCACT-TTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG ccatagagcttattccttggtcaccctatggtgaactatttatccttcagAGATCATTCCTCGATCCATATTGATGACCACCTTTCGAAGGTGGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATTGAGACAGgtaggtctgtagatgatttgaatgctgggtattctctagaatacagatcc Alignment from Exonerate_coding2genome AGATCATTCCTCGATCCATCCTGATGACCACT-TTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG ccatagagcttattccttggtcaccctatggtgaactatttatccttcagAGATCATTCCTCGATCCATATTGATGACCACCTTTCGAAGGTGGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATTGAGACAGgtaggtctgtagatgatttgaatgctgggtattctctagaatacagatcc Alignment from GeneWise AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAG-AGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG ccatagagcttattccttggtcaccctatggtgaactatttatccttcagAGATCATTCCTCGATCCATATTGATGACCACCTTTCGAAGGTGGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATTGAGACAGgtaggtctgtagatgatttgaatgctgggtattctctagaatacagatcc #### Ddb1_ID2931_16 --> 2 - 2 Original Alignment gtTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAAT-GTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACag gtaacaacttcgccctattttgcttcccatttttcctctttttcttttaggtTTATTGAGCGACCGTAAAAAGGTAACCTTGGGCACCCAGCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATCGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACaggtgggtgttcctaggtgtcccaagcagaggtcacatatcattttctgatt Alignment from CESAR gtTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAAT-GTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACag gtaacaacttcgccctattttgcttcccatttttcctctttttcttttaggtTTATTGAGCGACCGTAAAAAGGTAACCTTGGGCACCCAGCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATCGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACaggtgggtgttcctaggtgtcccaagcagaggtcacatatcattttctgatt Alignment from Spaln_aa2Genome GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAAT-GTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaacaacttcgccctattttgcttcccatttttcctctttttcttttagGTTTATTGAGCGACCGTAAAAAGGTAACCTTGGGCACCCAGCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATcGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtgggtgttcctaggtgtcccaagcagaggtcacatatcattttctgatt Alignment from Spaln_nt2Genome GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAAT-GTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaacaacttcgccctattttgcttcccatttttcctctttttcttttagGTTTATTGAGCGACCGTAAAAAGGTAACCTTGGGCACCCAGCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATCGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtgggtgttcctaggtgtcccaagcagaggtcacatatcattttctgatt Alignment from Pairagon GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAAT-GTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaacaacttcgccctattttgcttcccatttttcctctttttcttttagGTTTATTGAGCGACCGTAAAAAGGTAACCTTGGGCACCCAGCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATCGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtgggtgttcctaggtgtcccaagcagaggtcacatatcattttctgatt Alignment from Exonerate_protein2genome GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAAT-GTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaacaacttcgccctattttgcttcccatttttcctctttttcttttagGTTTATTGAGCGACCGTAAAAAGGTAACCTTGGGCACCCAGCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATCGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtgggtgttcctaggtgtcccaagcagaggtcacatatcattttctgatt Alignment from Exonerate_coding2genome GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAAT-GTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaacaacttcgccctattttgcttcccatttttcctctttttcttttagGTTTATTGAGCGACCGTAAAAAGGTAACCTTGGGCACCCAGCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATCGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtgggtgttcctaggtgtcccaagcagaggtcacatatcattttctgatt Alignment from GeneWise GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAAT-GTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaacaacttcgccctattttgcttcccatttttcctctttttcttttagGTTTATTGAGCGACCGTAAAAAGGTAACCTTGGGCACCCAGCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATCGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtgggtgttcctaggtgtcccaagcagaggtcacatatcattttctgatt #### Ddb1_ID2932_17 --> 1 - 2 Original Alignment tCTGGCATTGGCCAATAACAGCACTCTCACCATTGGCACCATCGATGAGATC-CAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCag gacactggagttgtacatcatggtggggctcgctcattcattttctgcagtCTGGCATTGGCCAATAACAGTACTCTCACAATTGGTACCATTGATGAAATGCCAGAAGCTCCACATCCGGACAGTCCCCCTCTATGAGTCTCCTaggtaacattacacctgagatttacacctaagaagtgggaatggggcagggt Alignment from CESAR tCTGGCATTGGCCAATAACAGCACTCTCACCATTGGCACCATCGATGAGATC-CAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCag gacactggagttgtacatcatggtggggctcgctcattcattttctgcagtCTGGCATTGGCCAATAACAGTACTCTCACAATTGGTACCATTGATGAAATGCCAGAAGCTCCACATCCGGACAGTCCCCCTCTATGAGTCTCCTaggtaacattacacctgagatttacacctaagaagtgggaatggggcagggt Alignment from Spaln_aa2Genome TCTGGCATTGGCCAATAACAGCACTCTCACCATTGGCACCATCGATGAGATC-CAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG gacactggagttgtacatcatggtggggctcgctcattcattttctgcagTCTGGCATTGGCCAATAACAGTACTCTCACAATTGGTACCATTGATGAAATGcCAGAAGCTCCACATCCGGACAGTCCCCCTCTATGAGTCTCCTAGgtaacattacacctgagatttacacctaagaagtgggaatggggcagggt Alignment from Spaln_nt2Genome TCTGGCATTGGCCAATAACAGCACTCTCACCATTGGCACCATCGATGAGAT-CCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG gacactggagttgtacatcatggtggggctcgctcattcattttctgcagTCTGGCATTGGCCAATAACAGTACTCTCACAATTGGTACCATTGATGAAATGCCAGAAGCTCCACATCCGGACAGTCCCCCTCTATGAGTCTCCTAGgtaacattacacctgagatttacacctaagaagtgggaatggggcagggt Alignment from Pairagon TCTGGCATTGGCCAATAACAGCACTCTCACCATTGGCACCATCGATGAGAT-CCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG gacactggagttgtacatcatggtggggctcgctcattcattttctgcagTCTGGCATTGGCCAATAACAGTACTCTCACAATTGGTACCATTGATGAAATGCCAGAAGCTCCACATCCGGACAGTCCCCCTCTATGAGTCTCCTAGgtaacattacacctgagatttacacctaagaagtgggaatggggcagggt Alignment from Exonerate_protein2genome TCTGGCATTGGCCAATAACAGCACTCTCACCATTGGCACCATCGATGAGATC-CAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG gacactggagttgtacatcatggtggggctcgctcattcattttctgcagTCTGGCATTGGCCAATAACAGTACTCTCACAATTGGTACCATTGATGAAATGCCAGAAGCTCCACATCCGGACAGTCCCCCTCTATGAGTCTCCTAGgtaacattacacctgagatttacacctaagaagtgggaatggggcagggt Alignment from Exonerate_coding2genome TCTGGCATTGGCCAATAACAGCACTCTCACCATTGGCACCATCGATGAGATC-CAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG gacactggagttgtacatcatggtggggctcgctcattcattttctgcagTCTGGCATTGGCCAATAACAGTACTCTCACAATTGGTACCATTGATGAAATGCCAGAAGCTCCACATCCGGACAGTCCCCCTCTATGAGTCTCCTAGgtaacattacacctgagatttacacctaagaagtgggaatggggcagggt Alignment from GeneWise TCTGGCATTGGCCAATAACAGCACTCTCACCATTGGCACCATCGATGAG-ATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG gacactggagttgtacatcatggtggggctcgctcattcattttctgcagTCTGGCATTGGCCAATAACAGTACTCTCACAATTGGTACCATTGATGAAATGCCAGAAGCTCCACATCCGGACAGTCCCCCTCTATGAGTCTCCTAGgtaacattacacctgagatttacacctaagaagtgggaatggggcagggt #### Ddb1_ID2935_20 --> 2 - 1 Original Alignment tgCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATG-GTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATg cggccagaacctgtgtagatagcagatctttatctcatttctacatctagtgCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACTTCATTGTTGGTACAGCAATGCGTGTATCCAGAAGAGGCAGAGCCCAAGCAAGGTCATATTGTGGTTTTCCAATATTCTGATggtgcgatgatgaatttgaggctccttttttttttttagaggcctgtttgt Alignment from CESAR tgCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATG-GTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATg cggccagaacctgtgtagatagcagatctttatctcatttctacatctagtgCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACTTCATTGTTGGTACAGCAATGCGTGTATCCAGAAGAGGCAGAGCCCAAGCAAGGTCATATTGTGGTTTTCCAATATTCTGATggtgcgatgatgaatttgaggctccttttttttttttagaggcctgtttgt Alignment from Spaln_aa2Genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATG-GTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG cggccagaacctgtgtagatagcagatctttatctcatttctacatctagTGCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACTTCATTGTTGGTACAGCAATGcGTGTATCCAGAAGAGGCAGAGCCCAAGCAAGGTCATATTGTGGTTTTCCAATATTCTGATGgtgcgatgatgaatttgaggctccttttttttttttagaggcctgtttgt Alignment from Spaln_nt2Genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATG-GTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG cggccagaacctgtgtagatagcagatctttatctcatttctacatctagTGCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACTTCATTGTTGGTACAGCAATGCGTGTATCCAGAAGAGGCAGAGCCCAAGCAAGGTCATATTGTGGTTTTCCAATATTCTGATGgtgcgatgatgaatttgaggctccttttttttttttagaggcctgtttgt Alignment from Pairagon TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATG-GTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG cggccagaacctgtgtagatagcagatctttatctcatttctacatctagTGCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACTTCATTGTTGGTACAGCAATGCGTGTATCCAGAAGAGGCAGAGCCCAAGCAAGGTCATATTGTGGTTTTCCAATATTCTGATGgtgcgatgatgaatttgaggctccttttttttttttagaggcctgtttgt Alignment from Exonerate_protein2genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATG-GTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG cggccagaacctgtgtagatagcagatctttatctcatttctacatctagTGCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACTTCATTGTTGGTACAGCAATGCGTGTATCCAGAAGAGGCAGAGCCCAAGCAAGGTCATATTGTGGTTTTCCAATATTCTGATGgtgcgatgatgaatttgaggctccttttttttttttagaggcctgtttgt Alignment from Exonerate_coding2genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATG-GTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG cggccagaacctgtgtagatagcagatctttatctcatttctacatctagTGCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACTTCATTGTTGGTACAGCAATGCGTGTATCCAGAAGAGGCAGAGCCCAAGCAAGGTCATATTGTGGTTTTCCAATATTCTGATGgtgcgatgatgaatttgaggctccttttttttttttagaggcctgtttgt Alignment from GeneWise TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATG-GTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG cggccagaacctgtgtagatagcagatctttatctcatttctacatctagTGCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACTTCATTGTTGGTACAGCAATGCGTGTATCCAGAAGAGGCAGAGCCCAAGCAAGGTCATATTGTGGTTTTCCAATATTCTGATGgtgcgatgatgaatttgaggctccttttttttttttagaggcctgtttgt #### Dock8_ID5396_17 --> 1 - 0 Original Alignment gTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGC-CTTCTGGGGTACTCG gcctgcgcttcagatcacgattgcttgcaggtgtcttttgtttttgacaggTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCGAAGCTGACAGTGAATCATCATCTTCTCTTCACTTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCCTTCTGGGGTACTCAgtaagttctggtggtttccaaccttccaatttaggttcacatgtgttagc Alignment from CESAR gTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGC-CTTCTGGGGTACTCG gcctgcgcttcagatcacgattgcttgcaggtgtcttttgtttttgacaggTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCGAAGCTGACAGTGAATCATCATCTTCTCTTCACTTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCCTTCTGGGGTACTCAgtaagttctggtggtttccaaccttccaatttaggttcacatgtgttagc Alignment from Spaln_aa2Genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGG gcctgcgcttcagatcacgattgcttgcaggtgtcttttgtttttgacagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCGAAGCTGACAGTGAATCATCATCTTCTCTTCACTTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCCTTCTGGGgtactcagtaagttctggtggtttccaaccttccaatttaggttcacatgtgttagc Alignment from Spaln_nt2Genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCC-TTCTGGGGTACTCG gcctgcgcttcagatcacgattgcttgcaggtgtcttttgtttttgacagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCGAAGCTGACAGTGAATCATCATCTTCTCTTCACTTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCCTTCTGGGGTACTCAgtaagttctggtggtttccaaccttccaatttaggttcacatgtgttagc Alignment from Pairagon GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAG-CCTTCTGGGGTACTCG gcctgcgcttcagatcacgattgcttgcaggtgtcttttgtttttgacagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCGAAGCTGACAGTGAATCATCATCTTCTCTTCACTTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCCTTCTGGGGTACTCAgtaagttctggtggtttccaaccttccaatttaggttcacatgtgttagc Alignment from Exonerate_protein2genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGC-CTTCTGGGGTACTCG gcctgcgcttcagatcacgattgcttgcaggtgtcttttgtttttgacagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCGAAGCTGACAGTGAATCATCATCTTCTCTTCACTTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCCTTCTGGGGTACTCAgtaagttctggtggtttccaaccttccaatttaggttcacatgtgttagc Alignment from Exonerate_coding2genome gcctgcgcttcagatcacgattgcttgcaggtgtcttttgtttttgacaggtctcctgacttttatgaagaagtgaaaatcaagctaccagcgaagctgacagtgaatcatcatcttctcttcactttctatcacatcagctgtcagcagaagcaaggggcctccggagagagcccttctggggtactcagtaagttctggtggtttccaaccttccaatttaggttcacatgtgttagc Alignment from GeneWise GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgcgcttcagatcacgattgcttgcaggtgtcttttgtttttgacagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCGAAGCTGACAGTGAATCATCATCTTCTCTTCACTTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGC------CCTTCTGGGgtactcagtaagttctggtggtttccaaccttccaatttaggttcacatgtgttagc #### Dock8_ID5412_31 --> 0 - 0 Original Alignment CCCTATAAGCAGTACAACATGCTGAATGCAGACACCACCCGCCACCTCATGATTTGCTTCCTGTGGATCATGAAAAATGCTGATCAGAGCCTC-ATCAGGAAGTGGATCGCTGACCTGCCTTCCATGCAGCTCAATAGGATTCTGGACCTGCTGTTCATCTGTGTCTCCTGCTTTGAATACAAG ttctatactctggccttaccactccaaggtttcttttccttgtctttcagCCCTATAAGCAGTATAATATGCTGAATGCAGATGCTACTCACCACCTCATGATCTGCTTTCTCTGGATCATGAGGAATGCTGATCAGAGCCTCCATCAGGAGGTGGATTGCTGACCTGCCTTCCATGCAGCTCAACAGGGTTTTAGACCTACTGTTCATCTGTGTCTCCTGTTTTGAATACAAGgtgagcactgggaatgaaacactagttattcttccattccaaccttcttc Alignment from CESAR CCCTATAAGCAGTACAACATGCTGAATGCAGACACCACCCGCCACCTCATGATTTGCTTCCTGTGGATCATGAAAAATGCTGATCAGAGCCTC-ATCAGGAAGTGGATCGCTGACCTGCCTTCCATGCAGCTCAATAGGATTCTGGACCTGCTGTTCATCTGTGTCTCCTGCTTTGAATACAAG ttctatactctggccttaccactccaaggtttcttttccttgtctttcagCCCTATAAGCAGTATAATATGCTGAATGCAGATGCTACTCACCACCTCATGATCTGCTTTCTCTGGATCATGAGGAATGCTGATCAGAGCCTCCATCAGGAGGTGGATTGCTGACCTGCCTTCCATGCAGCTCAACAGGGTTTTAGACCTACTGTTCATCTGTGTCTCCTGTTTTGAATACAAGgtgagcactgggaatgaaacactagttattcttccattccaaccttcttc Alignment from Spaln_aa2Genome TTGCCCTATAAGCAGTACAACATGCTGAATGCAGACACCACCCGCCACCTCATGATTTGCTTCCTGTGGATCATGAAAAATGCTGATCAGAGCCTC-ATCAGGAAGTGGATCGCTGACCTGCCTTCCATGCAGCTCAATAGGATTCTGGACCTGCTGTTCATCTGTGTCTCCTGCTTTGAATACAAG ttctatactctggccttaccactccaaggtttcttttccttgtctttcag---CCCTATAAGCAGTATAATATGCTGAATGCAGATGCTACTCACCACCTCATGATCTGCTTTCTCTGGATCATGAGGAATGCTGATCAGAGCCTCcATCAGGAGGTGGATTGCTGACCTGCCTTCCATGCAGCTCAACAGGGTTTTAGACCTACTGTTCATCTGTGTCTCCTGTTTTGAATACAAGgtgagcactgggaatgaaacactagttattcttccattccaaccttcttc Alignment from Spaln_nt2Genome -CCTATAAGCAGTACAACATGCTGAATGCAGACACCACCCGCCACCTCATGATTTGCTTCCTGTGGATCATGAAAAATGCTGATCAGAGCCT-CATCAGGAAGTGGATCGCTGACCTGCCTTCCATGCAGCTCAATAGGATTCTGGACCTGCTGTTCATCTGTGTCTCCTGCTTTGAATACAAG ttctatactctggccttaccactccaaggtttcttttccttgtctttcagCCCTATAAGCAGTATAATATGCTGAATGCAGATGCTACTCACCACCTCATGATCTGCTTTCTCTGGATCATGAGGAATGCTGATCAGAGCCTCCATCAGGAGGTGGATTGCTGACCTGCCTTCCATGCAGCTCAACAGGGTTTTAGACCTACTGTTCATCTGTGTCTCCTGTTTTGAATACAAGgtgagcactgggaatgaaacactagttattcttccattccaaccttcttc Alignment from Pairagon CCCTATAAGCAGTACAACATGCTGAATGCAGACACCACCCGCCACCTCATGATTTGCTTCCTGTGGATCATGAAAAATGCTGATCAGAGCCT-CATCAGGAAGTGGATCGCTGACCTGCCTTCCATGCAGCTCAATAGGATTCTGGACCTGCTGTTCATCTGTGTCTCCTGCTTTGAATACAAG ttctatactctggccttaccactccaaggtttcttttccttgtctttcagCCCTATAAGCAGTATAATATGCTGAATGCAGATGCTACTCACCACCTCATGATCTGCTTTCTCTGGATCATGAGGAATGCTGATCAGAGCCTCCATCAGGAGGTGGATTGCTGACCTGCCTTCCATGCAGCTCAACAGGGTTTTAGACCTACTGTTCATCTGTGTCTCCTGTTTTGAATACAAGgtgagcactgggaatgaaacactagttattcttccattccaaccttcttc Alignment from Exonerate_protein2genome CCCTATAAGCAGTACAACATGCTGAATGCAGACACCACCCGCCACCTCATGATTTGCTTCCTGTGGATCATGAAAAATGCTGATCAGAGCCTC-ATCAGGAAGTGGATCGCTGACCTGCCTTCCATGCAGCTCAATAGGATTCTGGACCTGCTGTTCATCTGTGTCTCCTGCTTTGAATACAAG ttctatactctggccttaccactccaaggtttcttttccttgtctttcagCCCTATAAGCAGTATAATATGCTGAATGCAGATGCTACTCACCACCTCATGATCTGCTTTCTCTGGATCATGAGGAATGCTGATCAGAGCCTCCATCAGGAGGTGGATTGCTGACCTGCCTTCCATGCAGCTCAACAGGGTTTTAGACCTACTGTTCATCTGTGTCTCCTGTTTTGAATACAAGgtgagcactgggaatgaaacactagttattcttccattccaaccttcttc Alignment from Exonerate_coding2genome CCCTATAAGCAGTACAACATGCTGAATGCAGACACCACCCGCCACCTCATGATTTGCTTCCTGTGGATCATGAAAAATGCTGATCAGAGCCTC-ATCAGGAAGTGGATCGCTGACCTGCCTTCCATGCAGCTCAATAGGATTCTGGACCTGCTGTTCATCTGTGTCTCCTGCTTTGAATACAAG ttctatactctggccttaccactccaaggtttcttttccttgtctttcagCCCTATAAGCAGTATAATATGCTGAATGCAGATGCTACTCACCACCTCATGATCTGCTTTCTCTGGATCATGAGGAATGCTGATCAGAGCCTCCATCAGGAGGTGGATTGCTGACCTGCCTTCCATGCAGCTCAACAGGGTTTTAGACCTACTGTTCATCTGTGTCTCCTGTTTTGAATACAAGgtgagcactgggaatgaaacactagttattcttccattccaaccttcttc Alignment from GeneWise CCCTATAAGCAGTACAACATGCTGAATGCAGACACCACCCGCCACCTCATGATTTGCTTCCTGTGGATCATGAAAAATGCTGATCAGAGC-CTCATCAGGAAGTGGATCGCTGACCTGCCTTCCATGCAGCTCAATAGGATTCTGGACCTGCTGTTCATCTGTGTCTCCTGCTTTGAATACAAG ttctatactctggccttaccactccaaggtttcttttccttgtctttcagCCCTATAAGCAGTATAATATGCTGAATGCAGATGCTACTCACCACCTCATGATCTGCTTTCTCTGGATCATGAGGAATGCTGATCAGAGCCTCCATCAGGAGGTGGATTGCTGACCTGCCTTCCATGCAGCTCAACAGGGTTTTAGACCTACTGTTCATCTGTGTCTCCTGTTTTGAATACAAGgtgagcactgggaatgaaacactagttattcttccattccaaccttcttc #### Dpf2_ID1305_8 --> 2 - 1 Original Alignment ccAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGAC-TGTGGCCGCTCAg ataacaaactagagatcagcaaaaaaaagataaaacctctgcttctatagccAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTTGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACCTGTGGCCGCTCAggtaagtaactcactatacaccccatgcaaaaggcttgactctatatcgct Alignment from CESAR ccAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGAC-TGTGGCCGCTCAg ataacaaactagagatcagcaaaaaaaagataaaacctctgcttctatagccAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTTGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACCTGTGGCCGCTCAggtaagtaactcactatacaccccatgcaaaaggcttgactctatatcgct Alignment from Spaln_aa2Genome CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGAC-TGTGGCCGCTCAG ataacaaactagagatcagcaaaaaaaagataaaacctctgcttctatagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTTGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACcTGTGGCCGCTCAGgtaagtaactcactatacaccccatgcaaaaggcttgactctatatcgct Alignment from Spaln_nt2Genome CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGAC-TGTGGCCGCTCAG ataacaaactagagatcagcaaaaaaaagataaaacctctgcttctatagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTTGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACCTGTGGCCGCTCAGgtaagtaactcactatacaccccatgcaaaaggcttgactctatatcgct Alignment from Pairagon CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGA-CTGTGGCCGCTCAG ataacaaactagagatcagcaaaaaaaagataaaacctctgcttctatagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTTGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACCTGTGGCCGCTCAGgtaagtaactcactatacaccccatgcaaaaggcttgactctatatcgct Alignment from Exonerate_protein2genome CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGAC-TGTGGCCGCTCAG ataacaaactagagatcagcaaaaaaaagataaaacctctgcttctatagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTTGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACCTGTGGCCGCTCAGgtaagtaactcactatacaccccatgcaaaaggcttgactctatatcgct Alignment from Exonerate_coding2genome CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGAC-TGTGGCCGCTCAG ataacaaactagagatcagcaaaaaaaagataaaacctctgcttctatagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTTGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACCTGTGGCCGCTCAGgtaagtaactcactatacaccccatgcaaaaggcttgactctatatcgct Alignment from GeneWise CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCC-GACTGTGGCCGCTCAG ataacaaactagagatcagcaaaaaaaagataaaacctctgcttctatagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTTGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACCTGTGGCCGCTCAGgtaagtaactcactatacaccccatgcaaaaggcttgactctatatcgct #### Dpf2_ID1309_5 --> 0 - 0 Original Alignment CGGATCATTGAACCCGATGAC-TTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG AGTAAGGGTGTG tgatgagctatctgtgagctatacatgtcgttttgtctttcctgtttaagCGGGTCATTGAACCTGATGACCTTCTTTGATGACCTAGATGATGAGGACTATGATGAAGATACACCAAAGCGTCGGGGTAAGGGCAAGTCCAAAgtgaaaagtttcttctctgctcctcccttctcctgcagGGGACAGGTGTC Alignment from CESAR CGGATCATTGAACCCGATGAC-TTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG AGTAAGGGTGTG tgatgagctatctgtgagctatacatgtcgttttgtctttcctgtttaagCGGGTCATTGAACCTGATGACCTTCTTTGATGACCTAGATGATGAGGACTATGATGAAGATACACCAAAGCGTCGGGGTAAGGGCAAGTCCAAAgtgaaaagtttcttctctatttgcccctcccctcccagGGGACAGGTGTC Alignment from Spaln_aa2Genome CGGATCATTGAACCCGATGAC-TTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAGAGTAAGG GTGTG tgatgagctatctgtgagctatacatgtcgttttgtctttcctgtttaagCGGGTCATTGAACCTGATGACcTTCTTTGATGACCTAGATGATGAGGACTATGATGAAGATACACCAAAGCGTCGGGGTAAGGGCAAGTCCAAAGTGAAAAgtttcttctctgctcctcccttctcctgcaggggacagGTGTC Alignment from Spaln_nt2Genome CGGATCATTGAACCCGATGAC-TTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG AGTAAGGGTGTG tgatgagctatctgtgagctatacatgtcgttttgtctttcctgtttaagCGGGTCATTGAACCTGATGACCTTCTTTGATGACCTAGATGATGAGGACTATGATGAAGATACACCAAAGCGTCGGGGTAAGGGCAAGTCCAAAgtgaaaagtttcttctctgctcctcccttctcctgcagGGGACAGGTGTC Alignment from Pairagon CGGATCATTGAACCCGATGA-CTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCA--------------------------------------AGAGTAAGGGTGTG tgatgagctatctgtgagctatacatgtcgttttgtctttcctgtttaagCGGGTCATTGAACCTGATGACCTTCTTTGATGACCTAGATGATGAGGACTATGATGAAGATACACCAAAGCGTCGGGGTAAGGGCAAGTCCAAAGTGAAAAGTTTCTTCTCTGCTCCTCCCTTCTCCTGCAGGGGACAGGTGTC Alignment from Exonerate_protein2genome CGGATCATTGAACCCGATGAC-TTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG AGTAAGGGTGTG tgatgagctatctgtgagctatacatgtcgttttgtctttcctgtttaagCGGGTCATTGAACCTGATGACCTTCTTTGATGACCTAGATGATGAGGACTATGATGAAGATACACCAAAGCGTCGGGGTAAGGGCAAGTCCAAAgtgaaaagtttcttctctgctcctcccttctcctgcagGGGACAGGTGTC Alignment from Exonerate_coding2genome CGGATCATTGAACCCGATGAC-TTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG AGTAAGGGTGTG tgatgagctatctgtgagctatacatgtcgttttgtctttcctgtttaagCGGGTCATTGAACCTGATGACCTTCTTTGATGACCTAGATGATGAGGACTATGATGAAGATACACCAAAGCGTCGGGGTAAGGGCAAGTCCAAAgtgaaaagtttcttctctgctcctcccttctcctgcagGGGACAGGTGTC Alignment from GeneWise CGGATCATTGAACCCGAT-GACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG AGTAAGGGTGTG tgatgagctatctgtgagctatacatgtcgttttgtctttcctgtttaagCGGGTCATTGAACCTGATGACCTTCTTTGATGACCTAGATGATGAGGACTATGATGAAGATACACCAAAGCGTCGGGGTAAGGGCAAGTCCAAAgtgaaaagtttcttctctgctcctcccttctcctgcagGGGACAGGTGTC #### Dpp3_ID741_12 --> 0 - 0 Original Alignment GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCA-GAGACTGGGGAACAG gagagccatcccaatagatcaagagtgactgcctttcttatttcctttagGATGAGAAAGGAGCTTTCAATTTTGACGAGGAAACGGTGATCAACCCTCGAGACCAGCGAGCAGgtcagtagaacattcgttatgaggaaattgcaattgggtacatggccaag Alignment from CESAR GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCA-GAGACTGGGGAACAG gagagccatcccaatagatcaagagtgactgcctttcttatttcctttagGATGAGAAAGGAGCTTTCAATTTTGACGAGGAAACGGTGATCAACCCTCGAGACCAGCGAGCAGgtcagtagaacattcgttatgaggaaattgcaattgggtacatggccaag Alignment from Spaln_aa2Genome GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAACAG gagagccatcccaatagatcaagagtgactgcctttcttatttcctttagGATGAGAAAGGAGCTTTCAATTTTGACGAGGAAACGGTGATCAACCCTCGA---GACCAGCGAgcaggtcagtagaacattcgttatgaggaaattgcaattgggtacatggccaag Alignment from Spaln_nt2Genome GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCA-GAGACTGGGGAACAG gagagccatcccaatagatcaagagtgactgcctttcttatttcctttagGATGAGAAAGGAGCTTTCAATTTTGACGAGGAAACGGTGATCAACCCTCGAGACCAGCGAGCAGgtcagtagaacattcgttatgaggaaattgcaattgggtacatggccaag Alignment from Pairagon GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCC-AGAGACTGGGGAACAG gagagccatcccaatagatcaagagtgactgcctttcttatttcctttagGATGAGAAAGGAGCTTTCAATTTTGACGAGGAAACGGTGATCAACCCTCGAGACCAGCGAGCAGgtcagtagaacattcgttatgaggaaattgcaattgggtacatggccaag Alignment from Exonerate_protein2genome GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCA-GAGACTGGGGAACAG gagagccatcccaatagatcaagagtgactgcctttcttatttcctttagGATGAGAAAGGAGCTTTCAATTTTGACGAGGAAACGGTGATCAACCCTCGAGACCAGCGAGCAGgtcagtagaacattcgttatgaggaaattgcaattgggtacatggccaag Alignment from Exonerate_coding2genome GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCA-GAGACTGGGGAACAG gagagccatcccaatagatcaagagtgactgcctttcttatttcctttagGATGAGAAAGGAGCTTTCAATTTTGACGAGGAAACGGTGATCAACCCTCGAGACCAGCGAGCAGgtcagtagaacattcgttatgaggaaattgcaattgggtacatggccaag Alignment from GeneWise GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAACAGATCCAGAG gagagccatcccaatagatcaagagtgactgcctttcttatttcctttagGATGAGAAAGGAGCTTTCAATTTTGACGAGGAAACGGTGATCAACCCTCGAGAC---CAGCGAGCAGGTCAgtagaacattcgttatgaggaaattgcaattgggtacatggccaag #### Dpp3_ID746_7 --> 0 - 2 Original Alignment GCTTATGCAGCCAACAGC-CACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGag gaatatgtggatagatcaaaatgaagattttgttttgtgtttccttgtagGCATATGCAGCCAACTGCCCACCAAAAGCAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAAGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTTGTAAAGaggtatgtcgtcacccaatcttctcaatatctctttcaatataccctttagg Alignment from CESAR GCTTATGCAGCCAAC-AGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGag gaatatgtggatagatcaaaatgaagattttgttttgtgtttccttgtagGCATATGCAGCCAACTGCCCACCAAAAGCAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAAGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTTGTAAAGaggtatgtcgtcacccaatcttctcaatatctctttcaatataccctttagg Alignment from Spaln_aa2Genome GCTTATGCAGCCAAC-AGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gaatatgtggatagatcaaaatgaagattttgttttgtgtttccttgtagGCATATGCAGCCAACtGCCCACCAAAAGCAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAAGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTTGTAAAGAGgtatgtcgtcacccaatcttctcaatatctctttcaatataccctttagg Alignment from Spaln_nt2Genome GCTTATGCAGCCAACAGCC-ACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gaatatgtggatagatcaaaatgaagattttgttttgtgtttccttgtagGCATATGCAGCCAACTGCCCACCAAAAGCAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAAGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTTGTAAAGAGgtatgtcgtcacccaatcttctcaatatctctttcaatataccctttagg Alignment from Pairagon GCTTATGCAGCCAACAG-CCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gaatatgtggatagatcaaaatgaagattttgttttgtgtttccttgtagGCATATGCAGCCAACTGCCCACCAAAAGCAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAAGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTTGTAAAGAGgtatgtcgtcacccaatcttctcaatatctctttcaatataccctttagg Alignment from Exonerate_protein2genome GCTTATGCAGCCAAC-AGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gaatatgtggatagatcaaaatgaagattttgttttgtgtttccttgtagGCATATGCAGCCAACTGCCCACCAAAAGCAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAAGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTTGTAAAGAGgtatgtcgtcacccaatcttctcaatatctctttcaatataccctttagg Alignment from Exonerate_coding2genome gaatatgtggatagatcaaaatgaagattttgttttgtgtttccttgtaggcatatgcagccaactgcccaccaaaagcaaatgctgtcccagtatgtggaaagcttcactgaaggatccattgatgcccataagaggggttcccatttctggatccaggacaaaggccctgttgtaaagaggtatgtcgtcacccaatcttctcaatatctctttcaatataccctttagg Alignment from GeneWise -------GCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gaatatgtggatagatcaaaatgaagattttgttttgtgtttccttgtagGCATATGCAGCCAACTGCCCACCAAAAGCAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAAGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTTGTAAAGAGgtatgtcgtcacccaatcttctcaatatctctttcaatataccctttagg #### Drap1_ID985_5 --> 1 - 0 Original Alignment CCTCGAag gGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCC-GGGACAGACTCTGAGCAGGAG CCTCGAaggtacagggctagggacctgctaaccatgcactttcttcctagaGGCTGTAAACCAGGTAGCAGTGGAAAGAAAAATGGCGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTCGGGACAGATTCCGAACAAGAGgtaactggactagctagtgatgagttatggtttttgtagccaagctaatt Alignment from CESAR CCTCGAag gGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCC-GGGACAGACTCTGAGCAGGAG CCTCGAaggcaagtggctagggacctgctaaccatgcactttcttcctagaGGCTGTAAACCAGGTAGCAGTGGAAAGAAAAATGGCGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTCGGGACAGATTCCGAACAAGAGgtaactggactagctagtgatgagttatggtttttgtagccaagctaatt Alignment from Spaln_aa2Genome CCTCGAAG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCC-GGGACAGACTCTGAGCAGGAG CCTCGAAGgtacagggctagggacctgctaaccatgcactttcttcctagAGGCTGTAAACCAGGTAGCAGTGGAAAGAAAAATGGCGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTcGGGACAGATTCCGAACAAGAGgtaactggactagctagtgatgagttatggtttttgtagccaagctaatt Alignment from Spaln_nt2Genome CCTCGAAG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTC-CGGGACAGACTCTGAGCAGGAG CCTCGAAGgtacagggctagggacctgctaaccatgcactttcttcctagAGGCTGTAAACCAGGTAGCAGTGGAAAGAAAAATGGCGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTCGGGACAGATTCCGAACAAGAGgtaactggactagctagtgatgagttatggtttttgtagccaagctaatt Alignment from Pairagon CCTCGAAGG------------------------------------------GGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTC-CGGGACAGACTCTGAGCAGGAG CCTCGAAGGTACAGGGCTAGGGACCTGCTAACCATGCACTTTCTTCCTAGAGGCTGTAAACCAGGTAGCAGTGGAAAGAAAAATGGCGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTCGGGACAGATTCCGAACAAGAGgtaactggactagctagtgatgagttatggtttttgtagccaagctaatt Alignment from Exonerate_protein2genome CCTCGAAG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCC-GGGACAGACTCTGAGCAGGAG CCTCGAAGgtacagggctagggacctgctaaccatgcactttcttcctagAGGCTGTAAACCAGGTAGCAGTGGAAAGAAAAATGGCGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTCGGGACAGATTCCGAACAAGAGgtaactggactagctagtgatgagttatggtttttgtagccaagctaatt Alignment from Exonerate_coding2genome CCTCGAAGGGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAA------GGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGC CCTCGAAGGTACAGGGCTAGGGACCTGCTAACCATGCACTTTCTTCCTAGAGGCTGTAAACCAGGTAGCAGTGGAAAGAAAAATGGCGGCACAGGAAGCAAGGgtaaagataaaaagctctctcgggacagattccgaacaagaggtaactggactagctagtgatgagttatggtttttgtagccaagctaatt Alignment from GeneWise CCTCGAAGG------------------------------------------GGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTG-TCCGGGACAGACTCTGAGCAGGAG CCTCGAAGGTACAGGGCTAGGGACCTGCTAACCATGCACTTTCTTCCTAGAGGCTGTAAACCAGGTAGCAGTGGAAAGAAAAATGGCGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTCGGGACAGATTCCGAACAAGAGgtaactggactagctagtgatgagttatggtttttgtagccaagctaatt #### Efemp2_ID1032_5 --> 2 - 1 Original Alignment acATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCT-TTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGg gatacatccaagttgtttggctgggctacagactgtcatttgttttccagacATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTGTGATCCTACCAGGCTCACTTCCGATGTCAATGTGAGCCAGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGTGggtagggcagtgtgtcccgcaagtctttaaccttcaagtggaaccactatg Alignment from CESAR acATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCT-TTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGg gatacatccaagttgtttggctgggctacagactgtcatttgttttccagacATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTGTGATCCTACCAGGCTCACTTCCGATGTCAATGTGAGCCAGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGTGggtagggcagtgtgtcccgcaagtctttaaccttcaagtggaaccactatg Alignment from Spaln_aa2Genome ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCT-TTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gatacatccaagttgtttggctgggctacagactgtcatttgttttccagACATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTGTGATCCTACCAGGCTCAcTTCCGATGTCAATGTGAGCCAGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGTGGgtagggcagtgtgtcccgcaagtctttaaccttcaagtggaaccactatg Alignment from Spaln_nt2Genome ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTC-GATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gatacatccaagttgtttggctgggctacagactgtcatttgttttccagACATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTGTGATCCTACCAGGCTCACTTCCGATGTCAATGTGAGCCAGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGTGGgtagggcagtgtgtcccgcaagtctttaaccttcaagtggaaccactatg Alignment from Pairagon ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTC-TTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gatacatccaagttgtttggctgggctacagactgtcatttgttttccagACATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTGTGATCCTACCAGGCTCACTTCCGATGTCAATGTGAGCCAGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGTGGgtagggcagtgtgtcccgcaagtctttaaccttcaagtggaaccactatg Alignment from Exonerate_protein2genome ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCT-TTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gatacatccaagttgtttggctgggctacagactgtcatttgttttccagACATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTGTGATCCTACCAGGCTCACTTCCGATGTCAATGTGAGCCAGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGTGGgtagggcagtgtgtcccgcaagtctttaaccttcaagtggaaccactatg Alignment from Exonerate_coding2genome ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCT-TTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gatacatccaagttgtttggctgggctacagactgtcatttgttttccagACATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTGTGATCCTACCAGGCTCACTTCCGATGTCAATGTGAGCCAGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGTGGgtagggcagtgtgtcccgcaagtctttaaccttcaagtggaaccactatg Alignment from GeneWise ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGC-TCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gatacatccaagttgtttggctgggctacagactgtcatttgttttccagACATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTGTGATCCTACCAGGCTCACTTCCGATGTCAATGTGAGCCAGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGTGGgtagggcagtgtgtcccgcaagtctttaaccttcaagtggaaccactatg #### Efemp2_ID1033_6 --> 2 - 1 Original Alignment atGTGAATGAGTGTGACATGGGAGCCCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGT-CGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCg tgtaatccacaactttcactttctatctttgctttgtccttgaattccagatGTTAATGAATGTGACATGGGAGCCCCTTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTTTGTGCCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTggtatgggtcaactgtgatatcccctctatgctacacagcataatttacat Alignment from CESAR atGTGAATGAGTGTGACATGGGAGCCCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGT-CGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCg tgtaatccacaactttcactttctatctttgctttgtccttgaattccagatGTTAATGAATGTGACATGGGAGCCCCTTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTTTGTGCCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTggtatgggtcaactgtgatatcccctctatgctacacagcataatttacat Alignment from Spaln_aa2Genome ATGTGAATGAGTGTGACATGGGAGCCCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGT-CGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG tgtaatccacaactttcactttctatctttgctttgtccttgaattccagATGTTAATGAATGTGACATGGGAGCCCCTTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTTTGTGCcCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTGgtatgggtcaactgtgatatcccctctatgctacacagcataatttacat Alignment from Spaln_nt2Genome ATGTGAATGAGTGTGACATGGGAGCCCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTC-GCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG tgtaatccacaactttcactttctatctttgctttgtccttgaattccagATGTTAATGAATGTGACATGGGAGCCCCTTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTTTGTGCCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTGgtatgggtcaactgtgatatcccctctatgctacacagcataatttacat Alignment from Pairagon ATGTGAATGAGTGTGACATGGGAGCCCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTG-TCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG tgtaatccacaactttcactttctatctttgctttgtccttgaattccagATGTTAATGAATGTGACATGGGAGCCCCTTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTTTGTGCCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTGgtatgggtcaactgtgatatcccctctatgctacacagcataatttacat Alignment from Exonerate_protein2genome ATGTGAATGAGTGTGACATGGGAGCCCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGT-CGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG tgtaatccacaactttcactttctatctttgctttgtccttgaattccagATGTTAATGAATGTGACATGGGAGCCCCTTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTTTGTGCCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTGgtatgggtcaactgtgatatcccctctatgctacacagcataatttacat Alignment from Exonerate_coding2genome ATGTGAATGAGTGTGACATGGGAGCCCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGT-CGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG tgtaatccacaactttcactttctatctttgctttgtccttgaattccagATGTTAATGAATGTGACATGGGAGCCCCTTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTTTGTGCCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTGgtatgggtcaactgtgatatcccctctatgctacacagcataatttacat Alignment from GeneWise ATGTGAATGAGTGTGACATGGGAGCCCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGT-CGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG tgtaatccacaactttcactttctatctttgctttgtccttgaattccagATGTTAATGAATGTGACATGGGAGCCCCTTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTTTGTGCCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTGgtatgggtcaactgtgatatcccctctatgctacacagcataatttacat #### Ehbp1l1_ID1217_18 --> 2 - 2 Original Alignment agTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAA-CTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGat tttttcatagtaggccagaaaggagcacatactttcctctttctttttagaaTGGCATACAACAGTTGCACAGCAGCACTGTGAACAACCTCCTCCTTGAGGGACTTGTGTCTTTAGTAAACCAGAGGGAAGAGCTAGTTGGGGATTTAGATCAGAAGGAGCAGgtgtaagaacatgaacatgttttggccaggggaatgcctattgaggcccaag Alignment from CESAR agTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAA-CTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGat tttttcatagtaggccagaaaggagcacatactttcctctttctttttagaaTGGCATACAACAGTTGCACAGCAGCACTGTGAACAACCTCCTCCTTGAGGGACTTGTGTCTTTAGTAAACCAGAGGGAAGAGCTAGTTGGGGATTTAGATCAGAAGGAGCAGgtgtaagaacatgaacatgttttggccaggggaatgcctattgaggcccaag Alignment from Spaln_aa2Genome AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAA-CTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGAT tttttcatagtaggccagaaaggagcacatactttcctctttctttttagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAAcCTCCTCCTTGAGGGACTTGTGTCTTTAGTAAACCAGAGGGAAGAGCTAGTTGGGGATTTAGATCAGAAGGAGCAGGTgtaagaacatgaacatgttttggccaggggaatgcctattgaggcccaag Alignment from Spaln_nt2Genome AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAAC-TCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGAT tttttcatagtaggccagaaaggagcacatactttcctctttctttttagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAACCTCCTCCTTGAGGGACTTGTGTCTTTAGTAAACCAGAGGGAAGAGCTAGTTGGGGATTTAGATCAGAAGGAGCAGGTgtaagaacatgaacatgttttggccaggggaatgcctattgaggcccaag Alignment from Pairagon AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAA-CTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGAT tttttcatagtaggccagaaaggagcacatactttcctctttctttttagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAACCTCCTCCTTGAGGGACTTGTGTCTTTAGTAAACCAGAGGGAAGAGCTAGTTGGGGATTTAGATCAGAAGGAGCAGGTgtaagaacatgaacatgttttggccaggggaatgcctattgaggcccaag Alignment from Exonerate_protein2genome AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAA-CTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGAT tttttcatagtaggccagaaaggagcacatactttcctctttctttttagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAACCTCCTCCTTGAGGGACTTGTGTCTTTAGTAAACCAGAGGGAAGAGCTAGTTGGGGATTTAGATCAGAAGGAGCAGGTgtaagaacatgaacatgttttggccaggggaatgcctattgaggcccaag Alignment from Exonerate_coding2genome tttttcatagtaggccagaaaggagcacatactttcctctttctttttagaatggcatacaacagttgcacagcagcactgtgaacaacctcctccttgagggacttgtgtctttagtaaaccagagggaagagctagttggggatttagatcagaaggagcaggtgtaagaacatgaacatgttttggccaggggaatgcctattgaggcccaag Alignment from GeneWise AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAA-CTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGAT tttttcatagtaggccagaaaggagcacatactttcctctttctttttagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAACCTCCTCCTTGAGGGACTTGTGTCTTTAGTAAACCAGAGGGAAGAGCTAGTTGGGGATTTAGATCAGAAGGAGCAGGTgtaagaacatgaacatgttttggccaggggaatgcctattgaggcccaag #### Ehbp1l1_ID1221_14 --> 2 - 0 Original Alignment gtGGGCCCCCTCCTACT-GAGGAGTCATCACCCAGCCTGGGGGAAGAGACAGGCCTG gactagaatttctttttttcactggaaaaaatgatttctttttccttcaggtGGGCCACCACCTACTCGAAAAGTCGTCTCGTAGCTTGGAAGAAGAGACAGGGCTGgtgagtattgctacactgaatggtggttattactttcctgagtagcttag Alignment from CESAR gtGGGCCCCCTCCTACT-GAGGAGTCATCACCCAGCCTGGGGGAAGAGACAGGCCTG gactagaatttctttttttcactggaaaaaatgatttctttttccttcaggtGGGCCACCACCTACTCGAAAAGTCGTCTCGTAGCTTGGAAGAAGAGACAGGGCTGgtgagtattgctacactgaatggtggttattactttcctgagtagcttag Alignment from Spaln_aa2Genome GTGGGCCCCCTCCTACT-GAGGAGTCATCACCCAGCCTGGGGGAAGAGACAGGCCTG gactagaatttctttttttcactggaaaaaatgatttctttttccttcagGTGGGCCACCACCTACTcGAAAAGTCGTCTCGTAGCTTGGAAGAAGAGACAGGGCTGgtgagtattgctacactgaatggtggttattactttcctgagtagcttag Alignment from Spaln_nt2Genome GTGGGCCCCCTCCTACT-GAGGAGTCATCACCCAGCCTGGGGGAAGAGACAGGCCTG gactagaatttctttttttcactggaaaaaatgatttctttttccttcagGTGGGCCACCACCTACTCGAAAAGTCGTCTCGTAGCTTGGAAGAAGAGACAGGGCTGgtgagtattgctacactgaatggtggttattactttcctgagtagcttag Alignment from Pairagon GTGGGCCCCCTCCTACT-GAGGAGTCATCACCCAGCCTGGGGGAAGAGACAGGCCTG gactagaatttctttttttcactggaaaaaatgatttctttttccttcagGTGGGCCACCACCTACTCGAAAAGTCGTCTCGTAGCTTGGAAGAAGAGACAGGGCTGgtgagtattgctacactgaatggtggttattactttcctgagtagcttag Alignment from Exonerate_protein2genome GTGGGCCCCCTCCTACT-GAGGAGTCATCACCCAGCCTGGGGGAAGAGACAGGCCTG gactagaatttctttttttcactggaaaaaatgatttctttttccttcagGTGGGCCACCACCTACTCGAAAAGTCGTCTCGTAGCTTGGAAGAAGAGACAGGGCTGgtgagtattgctacactgaatggtggttattactttcctgagtagcttag Alignment from Exonerate_coding2genome CCCCCTCCTA gactagaatttctttttttcactggaaaaaatgatttctttttccttcaggtgggccaccacctactcgaaaagtcgtctcgtagcttggaagaagagacagggctggtgagtattgctacactgaatggtggttattactttcctgAGTAGCTTAG Alignment from GeneWise GTGGGCCCCCTCCT-ACTGAGGAGTCATCACCCAGCCTGGGGGAAGAGACAGGCCTG gactagaatttctttttttcactggaaaaaatgatttctttttccttcagGTGGGCCACCACCTACTCGAAAAGTCGTCTCGTAGCTTGGAAGAAGAGACAGGGCTGgtgagtattgctacactgaatggtggttattactttcctgagtagcttag #### Ehbp1l1_ID1229_6 --> 1 - 1 Original Alignment gGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGAT-GAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAg tcatagatgatgtgtgaaccatctggctctttttatcccttaaaaaacagaGACGATGATATGCAAAGTCTTGCCAGCCTCATGAGTGTGAAGCCTAGTGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATCGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTTCAGACCAGAGGCCCCCAGTCAggtaaggatactgttattcaggttgcaggtacctgaggcggatacttgtcc Alignment from CESAR gGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGAT-GAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAg tcatagatgatgtgtgaaccatctggctctttttatcccttaaaaaacagaGACGATGATATGCAAAGTCTTGCCAGCCTCATGAGTGTGAAGCCTAGTGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATCGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTTCAGACCAGAGGCCCCCAGTCAggtaaggatactgttattcaggttgcaggtacctgaggcggatacttgtcc Alignment from Spaln_aa2Genome GGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGAT-GAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAG tcatagatgatgtgtgaaccatctggctctttttatcccttaaaaaacagAGACGATGATATGCAAAGTCTTGCCAGCCTCATGAGTGTGAAGCCTAGTGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATcGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTTCAGACCAGAGGCCCCCAGTCAGgtaaggatactgttattcaggttgcaggtacctgaggcggatacttgtcc Alignment from Spaln_nt2Genome GGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGAT-GAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAG tcatagatgatgtgtgaaccatctggctctttttatcccttaaaaaacagAGACGATGATATGCAAAGTCTTGCCAGCCTCATGAGTGTGAAGCCTAGTGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATCGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTTCAGACCAGAGGCCCCCAGTCAGgtaaggatactgttattcaggttgcaggtacctgaggcggatacttgtcc Alignment from Pairagon GGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGAT-GAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAG tcatagatgatgtgtgaaccatctggctctttttatcccttaaaaaacagAGACGATGATATGCAAAGTCTTGCCAGCCTCATGAGTGTGAAGCCTAGTGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATCGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTTCAGACCAGAGGCCCCCAGTCAGgtaaggatactgttattcaggttgcaggtacctgaggcggatacttgtcc Alignment from Exonerate_protein2genome tcatagatgatgtgtgaaccatctggctctttttatcccttaaaaaacagagacgatgatatgcaaagtcttgccagcctcatgagtgtgaagcctagtgatgtgggaaacctggatgactttgctgagagtgatcgaggaggaagctaatggccctggggctcctgaggttcagaccagaggcccccagtcaggtaaggatactgttattcaggttgcaggtacctgaggcggatacttgtcc Alignment from Exonerate_coding2genome tcatagatgatgtgtgaaccatctggctctttttatcccttaaaaaacagagacgatgatatgcaaagtcttgccagcctcatgagtgtgaagcctagtgatgtgggaaacctggatgactttgctgagagtgatcgaggaggaagctaatggccctggggctcctgaggttcagaccagaggcccccagtcaggtaaggatactgttattcaggttgcaggtacctgaggcggatacttgtcc Alignment from GeneWise GGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGAT-GAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAG tcatagatgatgtgtgaaccatctggctctttttatcccttaaaaaacagAGACGATGATATGCAAAGTCTTGCCAGCCTCATGAGTGTGAAGCCTAGTGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATCGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTTCAGACCAGAGGCCCCCAGTCAGgtaaggatactgttattcaggttgcaggtacctgaggcggatacttgtcc #### Eif1ad_ID950_3 --> 2 - 2 Original Alignment ggGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCT-TTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACtg aatgatgcctcatgctgctcaacacaaagactatgtcttcatgatcttagggGACTTTCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTCAAGGCAGAGATCTCGCTTTGTACTCTGCAAGAACCATGTTCACACCCTGCAGAAGGAGGGCCAAtggtgagtcagtctccctgtgcccctgctcagtgaagcagtgagagagttgt Alignment from CESAR ggGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCT-TTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACtg aatgatgcctcatgctgctcaacacaaagactatgtcttcatgatcttagggGACTTTCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTCAAGGCAGAGATCTCGCTTTGTACTCTGCAAGAACCATGTTCACACCCTGCAGAAGGAGGGCCAAtggtgagtcagtctccctgtgcccctgctcagtgaagcagtgagagagttgt Alignment from Spaln_aa2Genome GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCT-TTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aatgatgcctcatgctgctcaacacaaagactatgtcttcatgatcttagGGGACTTTCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTCAAGGCAGAGATCTCGcTTTGTACTCTGCAAGAACCATGTTCACACCCTGCAGAAGGAGGGCCAATGgtgagtcagtctccctgtgcccctgctcagtgaagcagtgagagagttgt Alignment from Spaln_nt2Genome GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCT-TTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aatgatgcctcatgctgctcaacacaaagactatgtcttcatgatcttagGGGACTTTCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTCAAGGCAGAGATCTCGCTTTGTACTCTGCAAGAACCATGTTCACACCCTGCAGAAGGAGGGCCAATGgtgagtcagtctccctgtgcccctgctcagtgaagcagtgagagagttgt Alignment from Pairagon GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTC-TTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aatgatgcctcatgctgctcaacacaaagactatgtcttcatgatcttagGGGACTTTCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTCAAGGCAGAGATCTCGCTTTGTACTCTGCAAGAACCATGTTCACACCCTGCAGAAGGAGGGCCAATGgtgagtcagtctccctgtgcccctgctcagtgaagcagtgagagagttgt Alignment from Exonerate_protein2genome GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCT-TTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aatgatgcctcatgctgctcaacacaaagactatgtcttcatgatcttagGGGACTTTCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTCAAGGCAGAGATCTCGCTTTGTACTCTGCAAGAACCATGTTCACACCCTGCAGAAGGAGGGCCAATGgtgagtcagtctccctgtgcccctgctcagtgaagcagtgagagagttgt Alignment from Exonerate_coding2genome GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCT-TTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aatgatgcctcatgctgctcaacacaaagactatgtcttcatgatcttagGGGACTTTCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTCAAGGCAGAGATCTCGCTTTGTACTCTGCAAGAACCATGTTCACACCCTGCAGAAGGAGGGCCAATGgtgagtcagtctccctgtgcccctgctcagtgaagcagtgagagagttgt Alignment from GeneWise GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATC-TCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aatgatgcctcatgctgctcaacacaaagactatgtcttcatgatcttagGGGACTTTCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTCAAGGCAGAGATCTCGCTTTGTACTCTGCAAGAACCATGTTCACACCCTGCAGAAGGAGGGCCAATGgtgagtcagtctccctgtgcccctgctcagtgaagcagtgagagagttgt #### Eif3a_ID13320_10 --> 0 - 0 Original Alignment GTGGCACAGATTTATCAGAGCATTGAGTTT-TCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAG tctctactaatgcttttgtgctaaaaccatctgtccctgtccttctccagGTGGCACAGATTTATCAGAGCATTGAGTTTCTCCCGTTTAACTTCTTTAGTGCCTTTTGTTGATGCTTTTCAACTGGAGCGGGCAATAGTAGATGCCGCCCGGCACTGTGACCTGCAGgtaaaatttacaaatatggtttgcattgtatggtctgaaaaatttgagta Alignment from CESAR GTGGCACAGATTTATCAGAGCATTGAGTTT-TCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAG tctctactaatgcttttgtgctaaaaccatctgtccctgtccttctccagGTGGCACAGATTTATCAGAGCATTGAGTTTCTCCCGTTTAACTTCTTTAGTGCCTTTTGTTGATGCTTTTCAACTGGAGCGGGCAATAGTAGATGCCGCCCGGCACTGTGACCTGCAGgtaaaatttacaaatatggtttgcattgtatggtctgaaaaatttgagta Alignment from Spaln_aa2Genome GTGGCACAGATTTATCAGAGCATTGAG-TTTTCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAG tctctactaatgcttttgtgctaaaaccatctgtccctgtccttctccagGTGGCACAGATTTATCAGAGCATTGAGtTTCTCCCGTTTAACTTCTTTAGTGCCTTTTGTTGATGCTTTTCAACTGGAGCGGGCAATAGTAGATGCCGCCCGGCACTGTGACCTGCAGgtaaaatttacaaatatggtttgcattgtatggtctgaaaaatttgagta Alignment from Spaln_nt2Genome GTGGCACAGATTTATCAGAGCATTGAGTTT-TCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAG tctctactaatgcttttgtgctaaaaccatctgtccctgtccttctccagGTGGCACAGATTTATCAGAGCATTGAGTTTCTCCCGTTTAACTTCTTTAGTGCCTTTTGTTGATGCTTTTCAACTGGAGCGGGCAATAGTAGATGCCGCCCGGCACTGTGACCTGCAGgtaaaatttacaaatatggtttgcattgtatggtctgaaaaatttgagta Alignment from Pairagon GTGGCACAGATTTATCAGAGCATTGAGTTT-TCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAG tctctactaatgcttttgtgctaaaaccatctgtccctgtccttctccagGTGGCACAGATTTATCAGAGCATTGAGTTTCTCCCGTTTAACTTCTTTAGTGCCTTTTGTTGATGCTTTTCAACTGGAGCGGGCAATAGTAGATGCCGCCCGGCACTGTGACCTGCAGgtaaaatttacaaatatggtttgcattgtatggtctgaaaaatttgagta Alignment from Exonerate_protein2genome GTGGCACAGATTTATCAGAGCATTGAG-TTTTCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAG tctctactaatgcttttgtgctaaaaccatctgtccctgtccttctccagGTGGCACAGATTTATCAGAGCATTGAGTTTCTCCCGTTTAACTTCTTTAGTGCCTTTTGTTGATGCTTTTCAACTGGAGCGGGCAATAGTAGATGCCGCCCGGCACTGTGACCTGCAGgtaaaatttacaaatatggtttgcattgtatggtctgaaaaatttgagta Alignment from Exonerate_coding2genome GTGGCACAGATTTATCAGAGCATTGAG-TTTTCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAG tctctactaatgcttttgtgctaaaaccatctgtccctgtccttctccagGTGGCACAGATTTATCAGAGCATTGAGTTTCTCCCGTTTAACTTCTTTAGTGCCTTTTGTTGATGCTTTTCAACTGGAGCGGGCAATAGTAGATGCCGCCCGGCACTGTGACCTGCAGgtaaaatttacaaatatggtttgcattgtatggtctgaaaaatttgagta Alignment from GeneWise GATTTATCAGAGCATTGAGTTTTCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAG tctctactaatgcttttgtgctaaaaccatctgtccctgtccttctccaggtggcacagATTTATCAGAGCATTGAGTTTCTCCCGTTTAACTTCTTTAGTGCCTTTTGTTGATGCTTTTCAACTGGAGCGGGCAATAGTAGATGCCGCCCGGCACTGTGACCTGCAGgtaaaatttacaaatatggtttgcattgtatggtctgaaaaatttgagta #### Eif3a_ID13327_3 --> 0 - 2 Original Alignment GTAAACATTAAATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCT-GCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGag ccttagactagaaatctgggagtcattacacgtgggtcatgtctcaccagGTAAACATTAAGTCTTTAAAGGACGTTGTTAGGGCATATTTGAAGTTAGCAGAGGAAAAAACAGAAGCTCGCTAGAGAAGAGTCTCAACAAATGGTGTTGGATATAGAAGATCTGGATAATATCCAGACTCCTGAGaggtgagccccaggacactaatctcacatttgcaaatcaataaacatgttac Alignment from CESAR GTAAACATTAAATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCT-GCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGag ccttagactagaaatctgggagtcattacacgtgggtcatgtctcaccagGTAAACATTAAGTCTTTAAAGGACGTTGTTAGGGCATATTTGAAGTTAGCAGAGGAAAAAACAGAAGCTCGCTAGAGAAGAGTCTCAACAAATGGTGTTGGATATAGAAGATCTGGATAATATCCAGACTCCTGAGaggtgagccccaggacactaatctcacatttgcaaatcaataaacatgttac Alignment from Spaln_aa2Genome GTAAACATTAAATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCT-GCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGAG ccttagactagaaatctgggagtcattacacgtgggtcatgtctcaccagGTAAACATTAAGTCTTTAAAGGACGTTGTTAGGGCATATTTGAAGTTAGCAGAGGAAAAAACAGAAGCTcGCTAGAGAAGAGTCTCAACAAATGGTGTTGGATATAGAAGATCTGGATAATATCCAGACTCCTGAGAGgtgagccccaggacactaatctcacatttgcaaatcaataaacatgttac Alignment from Spaln_nt2Genome GTAAACATTAAATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCT-GCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGAG ccttagactagaaatctgggagtcattacacgtgggtcatgtctcaccagGTAAACATTAAGTCTTTAAAGGACGTTGTTAGGGCATATTTGAAGTTAGCAGAGGAAAAAACAGAAGCTCGCTAGAGAAGAGTCTCAACAAATGGTGTTGGATATAGAAGATCTGGATAATATCCAGACTCCTGAGAGgtgagccccaggacactaatctcacatttgcaaatcaataaacatgttac Alignment from Pairagon GTAAACATTAAATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCT-GCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGAG ccttagactagaaatctgggagtcattacacgtgggtcatgtctcaccagGTAAACATTAAGTCTTTAAAGGACGTTGTTAGGGCATATTTGAAGTTAGCAGAGGAAAAAACAGAAGCTCGCTAGAGAAGAGTCTCAACAAATGGTGTTGGATATAGAAGATCTGGATAATATCCAGACTCCTGAGAGgtgagccccaggacactaatctcacatttgcaaatcaataaacatgttac Alignment from Exonerate_protein2genome GTAAACATTAAATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCT-GCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGAG ccttagactagaaatctgggagtcattacacgtgggtcatgtctcaccagGTAAACATTAAGTCTTTAAAGGACGTTGTTAGGGCATATTTGAAGTTAGCAGAGGAAAAAACAGAAGCTCGCTAGAGAAGAGTCTCAACAAATGGTGTTGGATATAGAAGATCTGGATAATATCCAGACTCCTGAGAGgtgagccccaggacactaatctcacatttgcaaatcaataaacatgttac Alignment from Exonerate_coding2genome GTAAACATTAAATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCT-GCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGAG ccttagactagaaatctgggagtcattacacgtgggtcatgtctcaccagGTAAACATTAAGTCTTTAAAGGACGTTGTTAGGGCATATTTGAAGTTAGCAGAGGAAAAAACAGAAGCTCGCTAGAGAAGAGTCTCAACAAATGGTGTTGGATATAGAAGATCTGGATAATATCCAGACTCCTGAGAGgtgagccccaggacactaatctcacatttgcaaatcaataaacatgttac Alignment from GeneWise GTAAACATTAAATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCT-GCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGAG ccttagactagaaatctgggagtcattacacgtgggtcatgtctcaccagGTAAACATTAAGTCTTTAAAGGACGTTGTTAGGGCATATTTGAAGTTAGCAGAGGAAAAAACAGAAGCTCGCTAGAGAAGAGTCTCAACAAATGGTGTTGGATATAGAAGATCTGGATAATATCCAGACTCCTGAGAGgtgagccccaggacactaatctcacatttgcaaatcaataaacatgttac #### Eml3_ID2504_4 --> 1 - 2 Original Alignment TGCAGCCTCTTCAGCGTTCTGACac gCCCCGAAGAAATTCTTCCTCCTCCTCCTCCCCCTCAGAGCGGCCCAGGCAG-AAACTCTCCAGGAAGGCAGCTTCCTCAGCTAACCTGCTATTGCGGTCAGGGAGCACAGAGag TGCAGCCGCTTGAATGTTCAGATacgtaagacctcctctctcctccacagaCCCCGAAGAAATTCTTTGTCCTCACCTTCCCCTTCCAAGCGGCCCAGACAACAAGCTCTCTAAGAAAGCACCTTCTTCCGCTAACCTATTGCTAAGGTCAGGGAGGACAGAAaggtaaggcagcttaggttgcccatttgtgattactataacataacttcctc Alignment from CESAR TGCAGCCTCTTCAGCGTTCTGACac gCCCCGAAGAAATTCTTCCTCCTCCTCCTCCCCCTCAGAGCGGCCCAGGCAG-AAACTCTCCAGGAAGGCAGCTTCCTCAGCTAACCTGCTATTGCGGTCAGGGAGCACAGAGag TGCAGCCGCTTGAATGTTCAGATacgtgccgcctcctctctcctccacagaCCCCGAAGAAATTCTTTGTCCTCACCTTCCCCTTCCAAGCGGCCCAGACAACAAGCTCTCTAAGAAAGCACCTTCTTCCGCTAACCTATTGCTAAGGTCAGGGAGGACAGAAaggtaaggcagcttaggttgcccatttgtgattactataacataacttcctc Alignment from Spaln_aa2Genome TGCAGCCTCTTCAGCGTTCTGACAC GCCCCGAAGAAATTCTTCCTCCTCCTCCTCCCCCTCAGAGCGGCCCAGGCAG-AAACTCTCCAGGAAGGCAGCTTCCTCAGCTAACCTGCTATTGCGGTCAGGGAGCACAGAGAG TGCAGCCGCTTGAATGTTCAGATACgtaagacctcctctctcctccacagaccccgaagA---------AATTCTTTGTCCTCACCTTCCCCTTCCAAGCGGCCCAGACAAcAAGCTCTCTAAGAAAGCACCTTCTTCCGCTAACCTATTGCTAAGGTCAGGGAGGACAGAAAGgtaaggcagcttaggttgcccatttgtgattactataacataacttcctc Alignment from Spaln_nt2Genome TGCAGCCTCTTCAGCGTTCTGACACG-------------------------CCCCGAAGAAATTCTTCCTCCTCCTCCTCCCCCTCAGAGCGGCCCAGGCAGAAA-CTCTCCAGGAAGGCAGCTTCCTCAGCTAACCTGCTATTGCGGTCAGGGAGCACAGAGAG TGCAGCCGCTTGAATGTTCAGATACGTAAGACCTCCTCTCTCCTCCACAGACCCCGAAGAAATTCTTTGTCCTCACCTTCCCCTTCCAAGCGGCCCAGACAACAAGCTCTCTAAGAAAGCACCTTCTTCCGCTAACCTATTGCTAAGGTCAGGGAGGACAGAAAGgtaaggcagcttaggttgcccatttgtgattactataacataacttcctc Alignment from Pairagon TGCAGCCTCTTCAGCGTTCTGACACG-------------------------CCCCGAAGAAATTCTTCCTCCTCCTCCTCCCCCTCAGAGCGGCCCAGGCAG-AAACTCTCCAGGAAGGCAGCTTCCTCAGCTAACCTGCTATTGC---GGTCAGGGAGCACAGAGAG TGCAGCCGCTTGAATGTTCAGATACGTAAGACCTCCTCTCTCCTCCACAGACCCCGAAGAAATTCTTTGTCCTCACCTTCCCCTTCCAAGCGGCCCAGACAACAAGCTCTCTAAGAAAGCACCTTCTTCCGCTAAC---CTATTGCTAAGGTCAGGGAGGACAGAAAGgtaaggcagcttaggttgcccatttgtgattactataacataacttcctc Alignment from Exonerate_protein2genome TGCAGCCTCTTCAGCGTTCTGACAC GCCCCGAAGAAATTCTTCCTCCTCCTCCTCCCCCTCAGAGCGGCCCAGGCAG-AAACTCTCCAGGAAGGCAGCTTCCTCAGCTAACCTGCTATTGCGGTCAGGGAGCACAGAGAG TGCAGCCGCTTGAATGTTCAGATACgtaagacctcctctctcctccacagaccccgA------AGAAATTCTTTGTCCTCACCTTCCCCTTCCAAGCGGCCCAGACAACAAGCTCTCTAAGAAAGCACCTTCTTCCGCTAACCTATTGCTAAGGTCAGGGAGGACAGAAAGgtaaggcagcttaggttgcccatttgtgattactataacataacttcctc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TGCAGCCTCTTCAGCGTTCTGACAC GCCCCGAAGAAATTCTTCCTCCTCCTCCTCCCCCTCAGAGCGGCCCAGGCAG-AAACTCTCCAGGAAGGCAGCTTCCTCAGCTAACCTGCTATTGCGGTCAGGGAGCACAGAGAG TGCAGCCGCTTGAATGTTCAGATACgtaagacctcctctctcctccacagACCCCGAAGAAATTCTTTGTCCTCACCTTCCCCTTCCAAGCGGCCCAGACAACAAGCTCTCTAAGAAAGCACCTTCTTCCGCTAACCTATTGCTAAGGTCAGGGAGGACAGAAAGgtaaggcagcttaggttgcccatttgtgattactataacataacttcctc #### Eml3_ID2507_6 --> 2 - 2 Original Alignment aaGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACC-ATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGgt gtgccaagtgctctcctaaaagaagggtcccctttgcattccattcttagaaGGGATCTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATTACACATGTACATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCTTGACCCTTGAATGGgtgtaagcggttgaaactgtcacacacagcagaaaggctggcatttttgtgg Alignment from CESAR aaGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACC-ATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGgt gtgccaagtgctctcctaaaagaagggtcccctttgcattccattcttagaaGGGATCTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATTACACATGTACATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCTTGACCCTTGAATGGgtgtaagcggttgaaactgtcacacacagcagaaaggctggcatttttgtgg Alignment from Spaln_aa2Genome AAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACC-ATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT gtgccaagtgctctcctaaaagaagggtcccctttgcattccattcttagAAGGGATCTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATTACAcATGTACATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCTTGACCCTTGAATGGGTgtaagcggttgaaactgtcacacacagcagaaaggctggcatttttgtgg Alignment from Spaln_nt2Genome AAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCAC-CATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT gtgccaagtgctctcctaaaagaagggtcccctttgcattccattcttagAAGGGATCTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATTACACATGTACATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCTTGACCCTTGAATGGGTgtaagcggttgaaactgtcacacacagcagaaaggctggcatttttgtgg Alignment from Pairagon AAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCAC-CATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT gtgccaagtgctctcctaaaagaagggtcccctttgcattccattcttagAAGGGATCTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATTACACATGTACATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCTTGACCCTTGAATGGGTgtaagcggttgaaactgtcacacacagcagaaaggctggcatttttgtgg Alignment from Exonerate_protein2genome AAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACC-ATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT gtgccaagtgctctcctaaaagaagggtcccctttgcattccattcttagAAGGGATCTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATTACACATGTACATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCTTGACCCTTGAATGGGTgtaagcggttgaaactgtcacacacagcagaaaggctggcatttttgtgg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATC-ACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT gtgccaagtgctctcctaaaagaagggtcccctttgcattccattcttagAAGGGATCTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATTACACATGTACATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCTTGACCCTTGAATGGGTgtaagcggttgaaactgtcacacacagcagaaaggctggcatttttgtgg #### Eml3_ID2508_7 --> 1 - 2 Original Alignment tTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTG-CTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGAtg ttacttctgctaatccccccccatagcctattctcttctctgcctcgcagtTATGGATATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACTTTATTGCCTGTGTAGTGGTACCTGTACCGGCCGGGAGGAGGCCCAGGTGGGCCAGGAGGTGGTGGTCAGAGACATTATCGGGGCCACACAGACTGTGTTCGAtggtaagaaccgtggtagtggtaaacacttaattcctgttgacttcaaggaa Alignment from CESAR tTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTG-CTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGAtg ttacttctgctaatccccccccatagcctattctcttctctgcctcgcagtTATGGATATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACTTTATTGCCTGTGTAGTGGTACCTGTACCGGCCGGGAGGAGGCCCAGGTGGGCCAGGAGGTGGTGGTCAGAGACATTATCGGGGCCACACAGACTGTGTTCGAtggtaagaaccgtggtagtggtaaacacttaattcctgttgacttcaaggaa Alignment from Spaln_aa2Genome TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTG-CTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttacttctgctaatccccccccatagcctattctcttctctgcctcgcagTTATGGATATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACTTTATTGCCTGTGTAGTGGTAcCTGTACCGGCCGGGAGGAGGCCCAGGTGGGCCAGGAGGTGGTGGTCAGAGACATTATCGGGGCCACACAGACTGTGTTCGATGgtaagaaccgtggtagtggtaaacacttaattcctgttgacttcaaggaa Alignment from Spaln_nt2Genome TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGC-TGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttacttctgctaatccccccccatagcctattctcttctctgcctcgcagTTATGGATATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACTTTATTGCCTGTGTAGTGGTACCTGTACCGGCCGGGAGGAGGCCCAGGTGGGCCAGGAGGTGGTGGTCAGAGACATTATCGGGGCCACACAGACTGTGTTCGATGgtaagaaccgtggtagtggtaaacacttaattcctgttgacttcaaggaa Alignment from Pairagon TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTG-CTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttacttctgctaatccccccccatagcctattctcttctctgcctcgcagTTATGGATATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACTTTATTGCCTGTGTAGTGGTACCTGTACCGGCCGGGAGGAGGCCCAGGTGGGCCAGGAGGTGGTGGTCAGAGACATTATCGGGGCCACACAGACTGTGTTCGATGgtaagaaccgtggtagtggtaaacacttaattcctgttgacttcaaggaa Alignment from Exonerate_protein2genome TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTG-CTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttacttctgctaatccccccccatagcctattctcttctctgcctcgcagTTATGGATATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACTTTATTGCCTGTGTAGTGGTACCTGTACCGGCCGGGAGGAGGCCCAGGTGGGCCAGGAGGTGGTGGTCAGAGACATTATCGGGGCCACACAGACTGTGTTCGATGgtaagaaccgtggtagtggtaaacacttaattcctgttgacttcaaggaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTG-GTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttacttctgctaatccccccccatagcctattctcttctctgcctcgcagTTATGGATATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACTTTATTGCCTGTGTAGTGGTACCTGTACCGGCCGGGAGGAGGCCCAGGTGGGCCAGGAGGTGGTGGTCAGAGACATTATCGGGGCCACACAGACTGTGTTCGATGgtaagaaccgtggtagtggtaaacacttaattcctgttgacttcaaggaa #### Eml3_ID2509_8 --> 1 - 0 Original Alignment cCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCT-GGAGTGGACAAGGATGGAAAG gtacttcagtgtaaccggtgattttatgatttttttccttctactcttagtCTTGCTGTACATCCTGATGGAGTTCATGTTGCTTCAGGGCAGACAGCTCGGCGTGGACAAGGATGGAAAGgtaagcgccagcatgcagatggcaatgagatcattgatcaagttttctgt Alignment from CESAR cCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCT-GGAGTGGACAAGGATGGAAAG gtacttcagtgtaaccggtgattttatgatttttttccttctactcttagtCTTGCTGTACATCCTGATGGAGTTCATGTTGCTTCAGGGCAGACAGCTCGGCGTGGACAAGGATGGAAAGgtaagcgccagcatgcagatggcaatgagatcattgatcaagttttctgt Alignment from Spaln_aa2Genome CCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCT-GGAGTGGACAAGGATGGAAAG gtacttcagtgtaaccggtgattttatgatttttttccttctactcttagTCTTGCTGTACATCCTGATGGAGTTCATGTTGCTTCAGGGCAGACAGCTcGGCGTGGACAAGGATGGAAAGgtaagcgccagcatgcagatggcaatgagatcattgatcaagttttctgt Alignment from Spaln_nt2Genome CCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCTG-GAGTGGACAAGGATGGAAAG gtacttcagtgtaaccggtgattttatgatttttttccttctactcttagTCTTGCTGTACATCCTGATGGAGTTCATGTTGCTTCAGGGCAGACAGCTCGGCGTGGACAAGGATGGAAAGgtaagcgccagcatgcagatggcaatgagatcattgatcaagttttctgt Alignment from Pairagon CCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCT-GGAGTGGACAAGGATGGAAAG gtacttcagtgtaaccggtgattttatgatttttttccttctactcttagTCTTGCTGTACATCCTGATGGAGTTCATGTTGCTTCAGGGCAGACAGCTCGGCGTGGACAAGGATGGAAAGgtaagcgccagcatgcagatggcaatgagatcattgatcaagttttctgt Alignment from Exonerate_protein2genome CCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCT-GGAGTGGACAAGGATGGAAAG gtacttcagtgtaaccggtgattttatgatttttttccttctactcttagTCTTGCTGTACATCCTGATGGAGTTCATGTTGCTTCAGGGCAGACAGCTCGGCGTGGACAAGGATGGAAAGgtaagcgccagcatgcagatggcaatgagatcattgatcaagttttctgt Alignment from Exonerate_coding2genome CCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCT-GGAGTGGACAAGGATGGAAAG gtacttcagtgtaaccggtgattttatgatttttttccttctactcttagTCTTGCTGTACATCCTGATGGAGTTCATGTTGCTTCAGGGCAGACAGCTCGGCGTGGACAAGGATGGAAAGgtaagcgccagcatgcagatggcaatgagatcattgatcaagttttctgt Alignment from GeneWise CCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACA-GCTGGAGTGGACAAGGATGGAAAG gtacttcagtgtaaccggtgattttatgatttttttccttctactcttagTCTTGCTGTACATCCTGATGGAGTTCATGTTGCTTCAGGGCAGACAGCTCGGCGTGGACAAGGATGGAAAGgtaagcgccagcatgcagatggcaatgagatcattgatcaagttttctgt #### Eml3_ID2515_14 --> 0 - 0 Original Alignment ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCA-TTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG ggatggggagacatgggaaatagtataatgacattgtgttttatttctagGTGCCAGAACATTTCGGTTCAGTAAGTGCGATTGCTGATGGACTTGGAGCTGAACTACTGGTGGGGACCACAAAGAATGCCCTTACTAAGAGCAGATCTTGCCCAAGGTTTCTCTCCAGTAATCCAGgtaataactctgtaagacactgagggagggacccccactgttgccccagc Alignment from CESAR ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCA-TTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG ggatggggagacatgggaaatagtataatgacattgtgttttatttctagGTGCCAGAACATTTCGGTTCAGTAAGTGCGATTGCTGATGGACTTGGAGCTGAACTACTGGTGGGGACCACAAAGAATGCCCTTACTAAGAGCAGATCTTGCCCAAGGTTTCTCTCCAGTAATCCAGgtaataactctgtaagacactgagggagggacccccactgttgccccagc Alignment from Spaln_aa2Genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTA-CTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG ggatggggagacatgggaaatagtataatgacattgtgttttatttctagGTGCCAGAACATTTCGGTTCAGTAAGTGCGATTGCTGATGGACTTGGAGCTGAACTACTGGTGGGGACCACAAAGAATGCCCTTaCTAAGAGCAGATCTTGCCCAAGGTTTCTCTCCAGTAATCCAGgtaataactctgtaagacactgagggagggacccccactgttgccccagc Alignment from Spaln_nt2Genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCA-TTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG ggatggggagacatgggaaatagtataatgacattgtgttttatttctagGTGCCAGAACATTTCGGTTCAGTAAGTGCGATTGCTGATGGACTTGGAGCTGAACTACTGGTGGGGACCACAAAGAATGCCCTTACTAAGAGCAGATCTTGCCCAAGGTTTCTCTCCAGTAATCCAGgtaataactctgtaagacactgagggagggacccccactgttgccccagc Alignment from Pairagon ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATG-CATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG ggatggggagacatgggaaatagtataatgacattgtgttttatttctagGTGCCAGAACATTTCGGTTCAGTAAGTGCGATTGCTGATGGACTTGGAGCTGAACTACTGGTGGGGACCACAAAGAATGCCCTTACTAAGAGCAGATCTTGCCCAAGGTTTCTCTCCAGTAATCCAGgtaataactctgtaagacactgagggagggacccccactgttgccccagc Alignment from Exonerate_protein2genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCA-TTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG ggatggggagacatgggaaatagtataatgacattgtgttttatttctagGTGCCAGAACATTTCGGTTCAGTAAGTGCGATTGCTGATGGACTTGGAGCTGAACTACTGGTGGGGACCACAAAGAATGCCCTTACTAAGAGCAGATCTTGCCCAAGGTTTCTCTCCAGTAATCCAGgtaataactctgtaagacactgagggagggacccccactgttgccccagc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAAT-GCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG ggatggggagacatgggaaatagtataatgacattgtgttttatttctagGTGCCAGAACATTTCGGTTCAGTAAGTGCGATTGCTGATGGACTTGGAGCTGAACTACTGGTGGGGACCACAAAGAATGCCCTTACTAAGAGCAGATCTTGCCCAAGGTTTCTCTCCAGTAATCCAGgtaataactctgtaagacactgagggagggacccccactgttgccccagc #### Eml3_ID2518_17 --> 1 - 1 Original Alignment gTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTA-TCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAg aagtgtaaggcaagatcttatctctatgtgacatctctctctttcaacaggTGGTTGGTCTTGGACACCGAGACCAGGGAAATTGTGCTCTGATGTCACAGATGGCAATGAGCAACTCTCAGTTGTCCGGTACAGCCCGggtagccacacttccccatgcctgaatgctgctcggaatcctggcttgttc Alignment from CESAR gTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTA-TCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAg aagtgtaaggcaagatcttatctctatgtgacatctctctctttcaacaggTGGTTGGTCTTGGACACCGAGACCAGGGAAATTGTGCTCTGATGTCACAGATGGCAATGAGCAACTCTCAGTTGTCCGGTACAGCCCGggtagccacacttccccatgcctgaatgctgctcggaatcctggcttgttc Alignment from Spaln_aa2Genome GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTA-TCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAG aagtgtaaggcaagatcttatctctatgtgacatctctctctttcaacagGTGGTTGGTCTTGGACACCGAGACCAGGGAAATTGTGcTCTGATGTCACAGATGGCAATGAGCAACTCTCAGTTGTCCGGTACAGCCCGGgtagccacacttccccatgcctgaatgctgctcggaatcctggcttgttc Alignment from Spaln_nt2Genome GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTA-TCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAG aagtgtaaggcaagatcttatctctatgtgacatctctctctttcaacagGTGGTTGGTCTTGGACACCGAGACCAGGGAAATTGTGCTCTGATGTCACAGATGGCAATGAGCAACTCTCAGTTGTCCGGTACAGCCCGGgtagccacacttccccatgcctgaatgctgctcggaatcctggcttgttc Alignment from Pairagon GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTA-TCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAG aagtgtaaggcaagatcttatctctatgtgacatctctctctttcaacagGTGGTTGGTCTTGGACACCGAGACCAGGGAAATTGTGCTCTGATGTCACAGATGGCAATGAGCAACTCTCAGTTGTCCGGTACAGCCCGGgtagccacacttccccatgcctgaatgctgctcggaatcctggcttgttc Alignment from Exonerate_protein2genome GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTA-TCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAG aagtgtaaggcaagatcttatctctatgtgacatctctctctttcaacagGTGGTTGGTCTTGGACACCGAGACCAGGGAAATTGTGCTCTGATGTCACAGATGGCAATGAGCAACTCTCAGTTGTCCGGTACAGCCCGGgtagccacacttccccatgcctgaatgctgctcggaatcctggcttgttc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTA-TCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAG aagtgtaaggcaagatcttatctctatgtgacatctctctctttcaacagGTGGTTGGTCTTGGACACCGAGACCAGGGAAATTGTGCTCTGATGTCACAGATGGCAATGAGCAACTCTCAGTTGTCCGGTACAGCCCGGgtagccacacttccccatgcctgaatgctgctcggaatcctggcttgttc #### Eml3_ID2522_21 --> 2 - 0 Original Alignment gtGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGT-GCTCGAGCCAAG gaagaaactttaagtggaagctaaaggatgttgggcatgctttgttttaggtGTATGGCCTGGGGGCTGTGATGGTACAGGCATCAATTCCCTGTGCCCTTCACACAATGAACGAGTGGTAGCTGTGGCAGATGATTGCTGTAAAGTACATGTCTTTCAGTACCCCTGTCGCCCGGGCCAAAgtaaggctttatcagcctattgtgtcaactagtgacaatcatggttgatt Alignment from CESAR gtGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGT-GCTCGAGCCAAG gaagaaactttaagtggaagctaaaggatgttgggcatgctttgttttaggtGTATGGCCTGGGGGCTGTGATGGTACAGGCATCAATTCCCTGTGCCCTTCACACAATGAACGAGTGGTAGCTGTGGCAGATGATTGCTGTAAAGTACATGTCTTTCAGTACCCCTGTCGCCCGGGCCAAAgtaaggctttatcagcctattgtgtcaactagtgacaatcatggttgatt Alignment from Spaln_aa2Genome GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGT------GCTCGAGCCAAG gaagaaactttaagtggaagctaaaggatgttgggcatgctttgttttagGTGTATGGCCTGGGGGCTGTGATGGTACAGGCATCAATTCCCTGTGCCCTTCACACAATGAACGAGTGGTAGCTGTGGCAGATGATTGCTGTAAAGTACATGTCTTTCAGTACCCCTGTCGCCCGGGCCAAAGTAAGgctttatcagcctattgtgtcaactagtgacaatcatggttgatt Alignment from Spaln_nt2Genome GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGT-GCTCGAGCCAAG gaagaaactttaagtggaagctaaaggatgttgggcatgctttgttttagGTGTATGGCCTGGGGGCTGTGATGGTACAGGCATCAATTCCCTGTGCCCTTCACACAATGAACGAGTGGTAGCTGTGGCAGATGATTGCTGTAAAGTACATGTCTTTCAGTACCCCTGTCGCCCGGGCCAAAgtaaggctttatcagcctattgtgtcaactagtgacaatcatggttgatt Alignment from Pairagon GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGT-GCTCGAGCCAAG gaagaaactttaagtggaagctaaaggatgttgggcatgctttgttttagGTGTATGGCCTGGGGGCTGTGATGGTACAGGCATCAATTCCCTGTGCCCTTCACACAATGAACGAGTGGTAGCTGTGGCAGATGATTGCTGTAAAGTACATGTCTTTCAGTACCCCTGTCGCCCGGGCCAAAgtaaggctttatcagcctattgtgtcaactagtgacaatcatggttgatt Alignment from Exonerate_protein2genome GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGT-GCTCGAGCCAAG gaagaaactttaagtggaagctaaaggatgttgggcatgctttgttttagGTGTATGGCCTGGGGGCTGTGATGGTACAGGCATCAATTCCCTGTGCCCTTCACACAATGAACGAGTGGTAGCTGTGGCAGATGATTGCTGTAAAGTACATGTCTTTCAGTACCCCTGTCGCCCGGGCCAAAgtaaggctttatcagcctattgtgtcaactagtgacaatcatggttgatt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGT------GCTCGAGCCAAGGCG--------------- gaagaaactttaagtggaagctaaaggatgttgggcatgctttgttttagGTGTATGGCCTGGGGGCTGTGATGGTACAGGCATCAATTCCCTGTGCCCTTCACACAATGAACGAGTGGTAGCTGTGGCAGATGATTGCTGTAAAGTACATGTCTTTCAGTACCCCTGTCGCCCGGGCCAAAGTAAGGCTTTATCAGCCTATTGTgtcaactagtgacaatcatggttgatt #### Eno4_ID12833_5 --> 2 - 0 Original Alignment gaCGGAGGGATACGCTTTTGGAG-AAACCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG tttccagttttctacttccaaaaagacatgatttggggctggtcccacaggaCGGAGGGATATGCTTTTGGAGCAGACCTGTGTCGCCCCAAGAGCCACCTGAACCAGTTCAGCATGGAAGTATGGCCCTAGGTGCTGTGTTACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCCATGACCCTCTCTACTCAGCCCTGGCATCACTGAAGCAAGATCAAgtgagttaatattgtgggcatgagtgtggaaaaagagttggtggcagtat Alignment from CESAR gaCGGAGGGATACGCTTTTGGAG-AAACCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG tttccagttttctacttccaaaaagacatgatttggggctggtcccacaggaCGGAGGGATATGCTTTTGGAGCAGACCTGTGTCGCCCCAAGAGCCACCTGAACCAGTTCAGCATGGAAGTATGGCCCTAGGTGCTGTGTTACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCCATGACCCTCTCTACTCAGCCCTGGCATCACTGAAGCAAGATCAAgtgagttaatattgtgggcatgagtgtggaaaaagagttggtggcagtat Alignment from Spaln_aa2Genome GACGGAGGGATACGCTTTTGGAG-AAACCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG tttccagttttctacttccaaaaagacatgatttggggctggtcccacagGACGGAGGGATATGCTTTTGGAGcAGACCTGTGTCGCCCCAAGAGCCACCTGAACCAGTTCAGCATGGAAGTATGGCCCTAGGTGCTGTGTTACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCCATGACCCTCTCTACTCAGCCCTGGCATCACTGAAGCAAGATCAAgtgagttaatattgtgggcatgagtgtggaaaaagagttggtggcagtat Alignment from Spaln_nt2Genome GACGGAGGGATACGCTTTTGGAGAA-ACCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG tttccagttttctacttccaaaaagacatgatttggggctggtcccacagGACGGAGGGATATGCTTTTGGAGCAGACCTGTGTCGCCCCAAGAGCCACCTGAACCAGTTCAGCATGGAAGTATGGCCCTAGGTGCTGTGTTACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCCATGACCCTCTCTACTCAGCCCTGGCATCACTGAAGCAAGATCAAgtgagttaatattgtgggcatgagtgtggaaaaagagttggtggcagtat Alignment from Pairagon GACGGAGGGATACGCTTTTGGAG-AAACCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG tttccagttttctacttccaaaaagacatgatttggggctggtcccacagGACGGAGGGATATGCTTTTGGAGCAGACCTGTGTCGCCCCAAGAGCCACCTGAACCAGTTCAGCATGGAAGTATGGCCCTAGGTGCTGTGTTACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCCATGACCCTCTCTACTCAGCCCTGGCATCACTGAAGCAAGATCAAgtgagttaatattgtgggcatgagtgtggaaaaagagttggtggcagtat Alignment from Exonerate_protein2genome GACGGAGGGATACGCTTTTGGAG-AAACCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG tttccagttttctacttccaaaaagacatgatttggggctggtcccacagGACGGAGGGATATGCTTTTGGAGCAGACCTGTGTCGCCCCAAGAGCCACCTGAACCAGTTCAGCATGGAAGTATGGCCCTAGGTGCTGTGTTACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCCATGACCCTCTCTACTCAGCCCTGGCATCACTGAAGCAAGATCAAgtgagttaatattgtgggcatgagtgtggaaaaagagttggtggcagtat Alignment from Exonerate_coding2genome GACGGAGGGATACGCTTTTGGAG-AAACCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG tttccagttttctacttccaaaaagacatgatttggggctggtcccacagGACGGAGGGATATGCTTTTGGAGCAGACCTGTGTCGCCCCAAGAGCCACCTGAACCAGTTCAGCATGGAAGTATGGCCCTAGGTGCTGTGTTACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCCATGACCCTCTCTACTCAGCCCTGGCATCACTGAAGCAAGATCAAgtgagttaatattgtgggcatgagtgtggaaaaagagttggtggcagtat Alignment from GeneWise -----ACGCTTTTGGAGAAACCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG tttccagttttctacttccaaaaagacatgatttggggctggtcccacaggacggagGGATATGCTTTTGGAGCAGACCTGTGTCGCCCCAAGAGCCACCTGAACCAGTTCAGCATGGAAGTATGGCCCTAGGTGCTGTGTTACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCCATGACCCTCTCTACTCAGCCCTGGCATCACTGAAGCAAGATCAAgtgagttaatattgtgggcatgagtgtggaaaaagagttggtggcagtat #### Exosc1_ID8332_7 --> 0 - 1 Original Alignment ATCTCCCTAGGCGATGCACAGTCCAATTAC-CTGCTGACTACT---GCTGAAAACGAGCTGGGCGTTGTGGTGGCCCACAGTGAGTCAg taatggttatataagaaaggtcaaacactcctcgttcctctcttccccagATATCGCTAGGGGCTGCACAGTCCAATTATCCTGTTAACCACTGCTGCCGAAAACGAGCTGGGTGTTGTAGTGGCCCACAGTGAGTCAggtgagccagtaactaaatttgctgtcccaggaaggttgtcttatttttct Alignment from CESAR ATCTCCCTAGGCGATGCACAGTCCAATTAC-CTGCTGACTACTGCT---GAAAACGAGCTGGGCGTTGTGGTGGCCCACAGTGAGTCAg taatggttatataagaaaggtcaaacactcctcgttcctctcttccccagATATCGCTAGGGGCTGCACAGTCCAATTATCCTGTTAACCACTGCTGCCGAAAACGAGCTGGGTGTTGTAGTGGCCCACAGTGAGTCAggtgagccagtaactaaatttgctgtcccaggaaggttgtctttgtttatc Alignment from Spaln_aa2Genome ATCTCCCTAGGCGATGCACAGTCCAATTAC----CTGCTGACTACTGCTGAAAACGAGCTGGGCGTTGTGGTGGCCCACAGTGAGTCAG taatggttatataagaaaggtcaaacactcctcgttcctctcttccccagATATCGCTAGGGGCTGCACAGTCCAATTATCCTgTTAACCACTGCTGCCGAAAACGAGCTGGGTGTTGTAGTGGCCCACAGTGAGTCAGgtgagccagtaactaaatttgctgtcccaggaaggttgtcttatttttct Alignment from Spaln_nt2Genome ATCTCCCTAGGCGATGCACAGTCCAATTA-CCTGCTGACTACTGCTG---AAAACGAGCTGGGCGTTGTGGTGGCCCACAGTGAGTCAG taatggttatataagaaaggtcaaacactcctcgttcctctcttccccagATATCGCTAGGGGCTGCACAGTCCAATTATCCTGTTAACCACTGCTGCCGAAAACGAGCTGGGTGTTGTAGTGGCCCACAGTGAGTCAGgtgagccagtaactaaatttgctgtcccaggaaggttgtcttatttttct Alignment from Pairagon ATCTCCCTAGGCGATGCACAGTCCAATTA-CCTGCTGACTACTGCT---GAAAACGAGCTGGGCGTTGTGGTGGCCCACAGTGAGTCAG taatggttatataagaaaggtcaaacactcctcgttcctctcttccccagATATCGCTAGGGGCTGCACAGTCCAATTATCCTGTTAACCACTGCTGCCGAAAACGAGCTGGGTGTTGTAGTGGCCCACAGTGAGTCAGgtgagccagtaactaaatttgctgtcccaggaaggttgtcttatttttct Alignment from Exonerate_protein2genome ATCTCCCTAGGCGATGCACAGTCCAATTAC----CTGCTGACTACTGCTGAAAACGAGCTGGGCGTTGTGGTGGCCCACAGTGAGTCAG taatggttatataagaaaggtcaaacactcctcgttcctctcttccccagATATCGCTAGGGGCTGCACAGTCCAATTATCCTGTTAACCACTGCTGCCGAAAACGAGCTGGGTGTTGTAGTGGCCCACAGTGAGTCAGgtgagccagtaactaaatttgctgtcccaggaaggttgtcttatttttct Alignment from Exonerate_coding2genome ATCTCCCTAGGCGATGCACAGTCCAATTAC----CTGCTGACTACTGCTGAAAACGAGCTGGGCGTTGTGGTGGCCCACAGTGAGTCAG taatggttatataagaaaggtcaaacactcctcgttcctctcttccccagATATCGCTAGGGGCTGCACAGTCCAATTATCCTGTTAACCACTGCTGCCGAAAACGAGCTGGGTGTTGTAGTGGCCCACAGTGAGTCAGgtgagccagtaactaaatttgctgtcccaggaaggttgtcttatttttct Alignment from GeneWise ATCTCCCTAGGCGATGCACAGTCCAATTAC-CTGCTGACTACTGCT---GAAAACGAGCTGGGCGTTGTGGTGGCCCACAGTGAGTCAGGT------------------------------------------------ taatggttatataagaaaggtcaaacactcctcgttcctctcttccccagATATCGCTAGGGGCTGCACAGTCCAATTATCCTGTTAACCACTGCTGCCGAAAACGAGCTGGGTGTTGTAGTGGCCCACAGTGAGTCAGGTGAGCCAGTAACTAAATTTGCTGTCCCAGGAAGGTTGTCTTATTTTTCT #### Fads1_ID2689_3 --> 0 - 0 Original Alignment AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGAT-GTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gcactttgagattagttaggctgatgttttatttctgtttttcttctcagAAAGTAATATCTGATGAATTTCGAGAACTGCGGGCCACTGTAGAGCGAATAGGTCTCATGAAAGCTAATCATCTCTTCCTTTTGGTATACCTGCTTCGCATTCCCCTGCTTGATCGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACATCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGCACTGTTCAGgtgaggcctacttctcagcctaaaccacaaatactgaagagtggtttgta Alignment from CESAR AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGAT-GTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gcactttgagattagttaggctgatgttttatttctgtttttcttctcagAAAGTAATATCTGATGAATTTCGAGAACTGCGGGCCACTGTAGAGCGAATAGGTCTCATGAAAGCTAATCATCTCTTCCTTTTGGTATACCTGCTTCGCATTCCCCTGCTTGATCGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACATCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGCACTGTTCAGgtgaggcctacttctcagcctaaaccacaaatactgaagagtggtttgta Alignment from Spaln_aa2Genome AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGAT-GTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gcactttgagattagttaggctgatgttttatttctgtttttcttctcagAAAGTAATATCTGATGAATTTCGAGAACTGCGGGCCACTGTAGAGCGAATAGGTCTCATGAAAGCTAATCATCTCTTCCTTTTGGTATACCTGCTTCGCATTCCCCTGCTTGATcGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACATCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGCACTGTTCAGgtgaggcctacttctcagcctaaaccacaaatactgaagagtggtttgta Alignment from Spaln_nt2Genome AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGAT-GTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gcactttgagattagttaggctgatgttttatttctgtttttcttctcagAAAGTAATATCTGATGAATTTCGAGAACTGCGGGCCACTGTAGAGCGAATAGGTCTCATGAAAGCTAATCATCTCTTCCTTTTGGTATACCTGCTTCGCATTCCCCTGCTTGATCGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACATCCTTGGTGCC---CATACTTTGTGCAGTATTACTCAGCACTGTTCAGgtgaggcctacttctcagcctaaaccacaaatactgaagagtggtttgta Alignment from Pairagon AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGAT-GTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gcactttgagattagttaggctgatgttttatttctgtttttcttctcagAAAGTAATATCTGATGAATTTCGAGAACTGCGGGCCACTGTAGAGCGAATAGGTCTCATGAAAGCTAATCATCTCTTCCTTTTGGTATACCTGCTTCGCATTCCCCTGCTTGATCGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACATCCTTGGTGCC---CATACTTTGTGCAGTATTACTCAGCACTGTTCAGgtgaggcctacttctcagcctaaaccacaaatactgaagagtggtttgta Alignment from Exonerate_protein2genome AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGAT-GTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gcactttgagattagttaggctgatgttttatttctgtttttcttctcagAAAGTAATATCTGATGAATTTCGAGAACTGCGGGCCACTGTAGAGCGAATAGGTCTCATGAAAGCTAATCATCTCTTCCTTTTGGTATACCTGCTTCGCATTCCCCTGCTTGATCGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACATCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGCACTGTTCAGgtgaggcctacttctcagcctaaaccacaaatactgaagagtggtttgta Alignment from Exonerate_coding2genome AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGAT-GTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gcactttgagattagttaggctgatgttttatttctgtttttcttctcagAAAGTAATATCTGATGAATTTCGAGAACTGCGGGCCACTGTAGAGCGAATAGGTCTCATGAAAGCTAATCATCTCTTCCTTTTGGTATACCTGCTTCGCATTCCCCTGCTTGATCGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACATCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGCACTGTTCAGgtgaggcctacttctcagcctaaaccacaaatactgaagagtggtttgta Alignment from GeneWise AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGAT-GTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gcactttgagattagttaggctgatgttttatttctgtttttcttctcagAAAGTAATATCTGATGAATTTCGAGAACTGCGGGCCACTGTAGAGCGAATAGGTCTCATGAAAGCTAATCATCTCTTCCTTTTGGTATACCTGCTTCGCATTCCCCTGCTTGATCGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACATCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGCACTGTTCAGgtgaggcctacttctcagcctaaaccacaaatactgaagagtggtttgta #### Fads1_ID2690_4 --> 0 - 0 Original Alignment GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACC---TCGACATGGAATCACCTG-CTACATCATTTTGTGATTGGCCACCTGAAG ttttgactccagcattggtatctaggggggatttgttttgtcctttcaagGGTCAGGCAGGTTGGCTGCAGCATGACTTTGGGCGTTTGTCACTCTTTGGCACCTCATCAATGTGGAATTACCTGCCTCCACCATTTTGTGATTGGACACCTAAAGgtaagtactgaagttatgtcagtatatcgttaagtctttgtacactgcag Alignment from CESAR GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTG-CTACATCATTTTGTGATTGGCCACCTGAAG ttttgactccagcattggtatctaggggggatttgttttgtcctttcaagGGTCAGGCAGGTTGGCTGCAGCATGACTTTGGGCGTTTGTCACTCTTTGGCACCTCATCAATGTGGAATTACCTGCCTCCACCATTTTGTGATTGGACACCTAAAGgtaagtactgaagttatgtcagtatatcgttaagtctttgtacactgcag Alignment from Spaln_aa2Genome GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTG-CTACATCATTTTGTGATTGGCCACCTGAAG ttttgactccagcattggtatctaggggggatttgttttgtcctttcaagGGTCAGGCAGGTTGGCTGCAGCATGACTTTGGGCGTTTGTCACTCTTTGGCACCTCATCAATGTGGAATTACCTGcCTCCACCATTTTGTGATTGGACACCTAAAGgtaagtactgaagttatgtcagtatatcgttaagtctttgtacactgcag Alignment from Spaln_nt2Genome GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTGC-TACATCATTTTGTGATTGGCCACCTGAAG ttttgactccagcattggtatctaggggggatttgttttgtcctttcaagGGTCAGGCAGGTTGGCTGCAGCATGACTTTGGGCGTTTGTCACTCTTTGGCACCTCATCAATGTGGAATTACCTGCCTCCACCATTTTGTGATTGGACACCTAAAGgtaagtactgaagttatgtcagtatatcgttaagtctttgtacactgcag Alignment from Pairagon GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTG-CTACATCATTTTGTGATTGGCCACCTGAAG ttttgactccagcattggtatctaggggggatttgttttgtcctttcaagGGTCAGGCAGGTTGGCTGCAGCATGACTTTGGGCGTTTGTCACTCTTTGGCACCTCATCAATGTGGAATTACCTGCCTCCACCATTTTGTGATTGGACACCTAAAGgtaagtactgaagttatgtcagtatatcgttaagtctttgtacactgcag Alignment from Exonerate_protein2genome GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTG-CTACATCATTTTGTGATTGGCCACCTGAAG ttttgactccagcattggtatctaggggggatttgttttgtcctttcaagGGTCAGGCAGGTTGGCTGCAGCATGACTTTGGGCGTTTGTCACTCTTTGGCACCTCATCAATGTGGAATTACCTGCCTCCACCATTTTGTGATTGGACACCTAAAGgtaagtactgaagttatgtcagtatatcgttaagtctttgtacactgcag Alignment from Exonerate_coding2genome GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTG-CTACATCATTTTGTGATTGGCCACCTGAAG ttttgactccagcattggtatctaggggggatttgttttgtcctttcaagGGTCAGGCAGGTTGGCTGCAGCATGACTTTGGGCGTTTGTCACTCTTTGGCACCTCATCAATGTGGAATTACCTGCCTCCACCATTTTGTGATTGGACACCTAAAGgtaagtactgaagttatgtcagtatatcgttaagtctttgtacactgcag Alignment from GeneWise GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTG-CTACATCATTTTGTGATTGGCCACCTGAAG ttttgactccagcattggtatctaggggggatttgttttgtcctttcaagGGTCAGGCAGGTTGGCTGCAGCATGACTTTGGGCGTTTGTCACTCTTTGGCACCTCATCAATGTGGAATTACCTGCCTCCACCATTTTGTGATTGGACACCTAAAGgtaagtactgaagttatgtcagtatatcgttaagtctttgtacactgcag #### Fads1_ID2696_10 --> 0 - 2 Original Alignment CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAAC-TGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACca taatccctacactgatacatggaaatttctttgtcctctttccccgccagCTGCAGGCAACATGCAATGTCCACCAATCTGCCTTCAACAACCTGGTTCAGTGGACATCTGAATTTCCAGATTGAACACcagtgcggtgatagtgcaaggaaacatgggatggcacagggtctaggtgagg Alignment from CESAR CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAAC-TGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACca taatccctacactgatacatggaaatttctttgtcctctttccccgccagCTGCAGGCAACATGCAATGTCCACCAATCTGCCTTCAACAACCTGGTTCAGTGGACATCTGAATTTCCAGATTGAACACcagtgcggtgatagtgcaaggaaacatgggatggcacagggtctaggtgagg Alignment from Spaln_aa2Genome CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAAC-TGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA taatccctacactgatacatggaaatttctttgtcctctttccccgccagCTGCAGGCAACATGCAATGTCCACCAATCTGCCTTCAACAACcTGGTTCAGTGGACATCTGAATTTCCAGATTGAACACCAgtgcggtgatagtgcaaggaaacatgggatggcacagggtctaggtgagg Alignment from Spaln_nt2Genome CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAA-CTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA taatccctacactgatacatggaaatttctttgtcctctttccccgccagCTGCAGGCAACATGCAATGTCCACCAATCTGCCTTCAACAACCTGGTTCAGTGGACATCTGAATTTCCAGATTGAACACCAgtgcggtgatagtgcaaggaaacatgggatggcacagggtctaggtgagg Alignment from Pairagon CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAA-CTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA taatccctacactgatacatggaaatttctttgtcctctttccccgccagCTGCAGGCAACATGCAATGTCCACCAATCTGCCTTCAACAACCTGGTTCAGTGGACATCTGAATTTCCAGATTGAACACCAgtgcggtgatagtgcaaggaaacatgggatggcacagggtctaggtgagg Alignment from Exonerate_protein2genome CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAAC-TGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA taatccctacactgatacatggaaatttctttgtcctctttccccgccagCTGCAGGCAACATGCAATGTCCACCAATCTGCCTTCAACAACCTGGTTCAGTGGACATCTGAATTTCCAGATTGAACACCAgtgcggtgatagtgcaaggaaacatgggatggcacagggtctaggtgagg Alignment from Exonerate_coding2genome CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAAC-TGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCACCTCTTCCCCACCATGCCGCGGCAC taatccctacactgatacatggaaatttctttgtcctctttccccgccagCTGCAGGCAACATGCAATGTCCACCAATCTGCCTTCAACAACCTGGTTCAGTGGACATCTGAATTTCCAGATTGAACACCAGTGCGGTGATAGTGCAAGGAAACATgggatggcacagggtctaggtgagg Alignment from GeneWise CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAAC-AACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA taatccctacactgatacatggaaatttctttgtcctctttccccgccagCTGCAGGCAACATGCAATGTCCACCAATCTGCCTTCAACAACCTGGTTCAGTGGACATCTGAATTTCCAGATTGAACACCAgtgcggtgatagtgcaaggaaacatgggatggcacagggtctaggtgagg #### Fads3_ID2662_5 --> 0 - 0 Original Alignment GGCTTTTCCGCC-CACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tgcacacttgcacacaacaatgcaagcatctccctgtcctctctcaacagGAC---TCTGCCCCACTGGTGGAATTTCCGGCACTTGAAGCATCATGCCAAGCCCAACATATTCCACAAAGACCCTGACGTAACTGTTACACCTGTCTTCCTACTTGGTGTATCATCTGTGGAAgtaggtaggtccctgcaatctacaggatgtctctttcccctgggactgtt Alignment from CESAR GGCTTTTCCGCC-CACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tgcacacttgcacacaacaatgcaagcatctccctgtcctctctcaacagGAC---TCTGCCCCACTGGTGGAATTTCCGGCACTTGAAGCATCATGCCAAGCCCAACATATTCCACAAAGACCCTGACGTAACTGTTACACCTGTCTTCCTACTTGGTGTATCATCTGTGGAAgtaggtaggtccctgcaatctacaggatgtctctttcccctggctctctt Alignment from Spaln_aa2Genome GGCTTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tgcacacttgcacacaacaatgcaagcatctccctgtcctctctcaacAGGACTCTGCCCCACTGGTGGAATTTCCGGCACTTGAAGCATCATGCCAAGCCCAACATATTCCACAAAGACCCTGACGTAACTGTTACACCTGTCTTCCTACTTGGTGTATCATCTGTGGAAgtaggtaggtccctgcaatctacaggatgtctctttcccctgggactgtt Alignment from Spaln_nt2Genome GGCTTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tgcacacttgcacacaacaatgcaagcatctccctgtcctctctcaacagGACTCTGC--CCCACTGGTGGAATTTCCGGCACTTGAAGCATCATGCCAAGCCCAACATATTCCACAAAGACCCTGACGTAACTGTTACACCTGTCTTCCTACTTGGTGTATCATCTGTGGAAgtaggtaggtccctgcaatctacaggatgtctctttcccctgggactgtt Alignment from Pairagon GGCTTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tgcacacttgcacacaacaatgcaagcatctccctgtcctctctcaacagGACTCTGC--CCCACTGGTGGAATTTCCGGCACTTGAAGCATCATGCCAAGCCCAACATATTCCACAAAGACCCTGACGTAACTGTTACACCTGTCTTCCTACTTGGTGTATCATCTGTGGAAgtaggtaggtccctgcaatctacaggatgtctctttcccctgggactgtt Alignment from Exonerate_protein2genome CTTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tgcacacttgcacacaacaatgcaagcatctccctgtcctctctcaacagGACTCTGCCCCACTGGTGGAATTTCCGGCACTTGAAGCATCATGCCAAGCCCAACATATTCCACAAAGACCCTGACGTAACTGTTACACCTGTCTTCCTACTTGGTGTATCATCTGTGGAAgtaggtaggtccctgcaatctacaggatgtctctttcccctgggactgtt Alignment from Exonerate_coding2genome CTTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tgcacacttgcacacaacaatgcaagcatctccctgtcctctctcaacagGACTCTGCCCCACTGGTGGAATTTCCGGCACTTGAAGCATCATGCCAAGCCCAACATATTCCACAAAGACCCTGACGTAACTGTTACACCTGTCTTCCTACTTGGTGTATCATCTGTGGAAgtaggtaggtccctgcaatctacaggatgtctctttcccctgggactgtt Alignment from GeneWise ------------------------------------------------------------CACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG TGCACACTTGCACACAACAATGCAAGCATCTCCCTGTCCTCTCTCAACAGGACTCTGCCCCACTGGTGGAATTTCCGGCACTTGAAGCATCATGCCAAGCCCAACATATTCCACAAAGACCCTGACGTAACTGTTACACCTGTCTTCCTACTTGGTGTATCATCTGTGGAAgtaggtaggtccctgcaatctacaggatgtctctttcccctgggactgtt #### Fads3_ID2664_7 --> 2 - 0 Original Alignment ttGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAA-AATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG tatcatttgtataccccatggctgagggctttgtaccactcaccccacagttGGCCCACCACTCTTCACTTTAGTGAATTATGAAGTTGAACAATCTGGCTTACATGTTGGTATGCATGCAGTGGACTgtaagtgactcgacttcaaaagctaaggcatgaaagctttcaacagacca Alignment from CESAR ttGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAA-AATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG tatcatttgtataccccatggctgagggctttgtaccactcaccccacagttGGCCCACCACTCTTCACTTTAGTGAATTATGAAGTTGAACAATCTGGCTTACATGTTGGTATGCATGCAGTGGACTgtaagtgactcgacttcaaaagctaaggcatgaaagctttcaacagacca Alignment from Spaln_aa2Genome TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAA-AATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG tatcatttgtataccccatggctgagggctttgtaccactcaccccacagTTGGCCCACCACTCTTCACTTTAGTGAATTATGAAGTTGAAcAATCTGGCTTACATGTTGGTATGCATGCAGTGGACTgtaagtgactcgacttcaaaagctaaggcatgaaagctttcaacagacca Alignment from Spaln_nt2Genome TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAA-AATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG tatcatttgtataccccatggctgagggctttgtaccactcaccccacagTTGGCCCACCACTCTTCACTTTAGTGAATTATGAAGTTGAACAATCTGGCTTACATGTTGGTATGCATGCAGTGGACTgtaagtgactcgacttcaaaagctaaggcatgaaagctttcaacagacca Alignment from Pairagon TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAA-AATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG tatcatttgtataccccatggctgagggctttgtaccactcaccccacagTTGGCCCACCACTCTTCACTTTAGTGAATTATGAAGTTGAACAATCTGGCTTACATGTTGGTATGCATGCAGTGGACTgtaagtgactcgacttcaaaagctaaggcatgaaagctttcaacagacca Alignment from Exonerate_protein2genome TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAA-AATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG tatcatttgtataccccatggctgagggctttgtaccactcaccccacagTTGGCCCACCACTCTTCACTTTAGTGAATTATGAAGTTGAACAATCTGGCTTACATGTTGGTATGCATGCAGTGGACTgtaagtgactcgacttcaaaagctaaggcatgaaagctttcaacagacca Alignment from Exonerate_coding2genome TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAA-AATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG tatcatttgtataccccatggctgagggctttgtaccactcaccccacagTTGGCCCACCACTCTTCACTTTAGTGAATTATGAAGTTGAACAATCTGGCTTACATGTTGGTATGCATGCAGTGGACTgtaagtgactcgacttcaaaagctaaggcatgaaagctttcaacagacca Alignment from GeneWise TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTT-GAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG tatcatttgtataccccatggctgagggctttgtaccactcaccccacagTTGGCCCACCACTCTTCACTTTAGTGAATTATGAAGTTGAACAATCTGGCTTACATGTTGGTATGCATGCAGTGGACTgtaagtgactcgacttcaaaagctaaggcatgaaagctttcaacagacca #### Fads3_ID2667_10 --> 0 - 2 Original Alignment CTGGCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGC-GGGCACCTCAATTTCCAGATTGAGCACca caaggcagtgcaacagccgtcttcaattttcaccataaactttttttcagCTGGCTGCAACT------------TCATCGCTCTTTATTGACTGGTTCAGCCGGTCACCTTAATTTTCAAATTGAACACttgtgagaattgcatcgaggggtgagtggcaaacatagctgctgttagtgta Alignment from CESAR CTGGCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGC-GGGCACCTCAATTTCCAGATTGAGCACca caaggcagtgcaacagccgtcttcaattttcaccataaactttttttcagCTGGCTGCAACT------------TCATCGCTCTTTATTGACTGGTTCAGCCGGTCACCTTAATTTTCAAATTGAACACttgtgagaattgcatcgaggggtgagtggcaaacatagctgctgttagtgta Alignment from Spaln_aa2Genome CTGGCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGC-GGGCACCTCAATTTCCAGATTGAGCACCA caaggcagtgcaacagccgtcttcaattttcaccataaactttttttcagCTGGCTGCAACT------------TCATCGCTCTTTATTGACTGGTTCAGCcGGTCACCTTAATTTTCAAATTGAACACTTgtgagaattgcatcgaggggtgagtggcaaacatagctgctgttagtgta Alignment from Spaln_nt2Genome CTGGCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGCGGG-CACCTCAATTTCCAGATTGAGCACCA caaggcagtgcaacagccgtcttcaattttcaccataaactttttttcagCTGGCTGCAACTT------------CATCGCTCTTTATTGACTGGTTCAGCCGGTCACCTTAATTTTCAAATTGAACACTTgtgagaattgcatcgaggggtgagtggcaaacatagctgctgttagtgta Alignment from Pairagon CTGGCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGCGGG-CACCTCAATTTCCAGATTGAGCACCA caaggcagtgcaacagccgtcttcaattttcaccataaactttttttcagCTGGCTGCAACTT------------CATCGCTCTTTATTGACTGGTTCAGCCGGTCACCTTAATTTTCAAATTGAACACTTgtgagaattgcatcgaggggtgagtggcaaacatagctgctgttagtgta Alignment from Exonerate_protein2genome CTGGCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGC-GGGCACCTCAATTTCCAGATTGAGCACCA caaggcagtgcaacagccgtcttcaattttcaccataaACTTTTTTTCAGCTGGCTGCAACTTCATCGCTCTTTATTGACTGGTTCAGCCGGTCACCTTAATTTTCAAATTGAACACTTgtgagaattgcatcgaggggtgagtggcaaacatagctgctgttagtgta Alignment from Exonerate_coding2genome caaggcagtgcaacagccgtcttcaattttcaccataaactttttttcagctggctgcaacttcatcgctctttattgactggttcagccggtcaccttaattttcaaattgaacacttgtgagaattgcatcgaggggtgagtggcaaacatagctgctgttagtgta Alignment from GeneWise CTGGCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTC-AGCGGGCACCTCAATTTCCAGATTGAGCACCA caaggcagtgcaacagccgtcttcaattttcaccataaactttttttcagCTGGCTGCAACT------------TCATCGCTCTTTATTGACTGGTTCAGCCGGTCACCTTAATTTTCAAATTGAACACTTgtgagaattgcatcgaggggtgagtggcaaacatagctgctgttagtgta #### Fads3_ID2668_11 --> 1 - 2 Original Alignment cCTCTTCCCCACGATGCCAAGGCACAACTACCGGAGGGTGGCCCCCCTGGTCAAGGCGTTCTGCGCCAAGCACGGCCTACACTACGAGGTGAAGCCTTTCCTCACC-GCTCTGGTGGATATCATCgg caagataacatcattatgggggtatcacctgtggttgctggctgccgcagcCTTGTTCCTACTATGTCCAGGCACAACTACCGGAGAGTGGCACCCCTTGTTGAGGCATTCTGTGCTACACATGGACTACACCGTAAGGTAAAGCCATTTCTTATGCGCATTGGTGGAGATCATTgggtaagcagatgtttggagccaagcaacctgggtccaacttcataagtatt Alignment from CESAR cCTCTTCCCCACGATGCCAAGGCACAACTACCGGAGGGTGGCCCCCCTGGTCAAGGCGTTCTGCGCCAAGCACGGCCTACACTACGAGGTGAAGCCTTTCCTCACC-GCTCTGGTGGATATCATCgg caagataacatcattatgggggtatcacctgtggttgctggctgccgcagcCTTGTTCCTACTATGTCCAGGCACAACTACCGGAGAGTGGCACCCCTTGTTGAGGCATTCTGTGCTACACATGGACTACACCGTAAGGTAAAGCCATTTCTTATGCGCATTGGTGGAGATCATTgggtaagcagatgtttggagccaagcaacctgggtccaacttcataagtatt Alignment from Spaln_aa2Genome CCTCTTCCCCACGATGCCAAGGCACAACTACCGGAGGGTGGCCCCCCTGGTCAAGGCGTTCTGCGCCAAGCACGGCCTACACTACGAGGTGAAGCCTTTCCTCACC-GCTCTGGTGGATATCATCGG caagataacatcattatgggggtatcacctgtggttgctggctgccgcagCCTTGTTCCTACTATGTCCAGGCACAACTACCGGAGAGTGGCACCCCTTGTTGAGGCATTCTGTGCTACACATGGACTACACCGTAAGGTAAAGCCATTTCTTATGcGCATTGGTGGAGATCATTGGgtaagcagatgtttggagccaagcaacctgggtccaacttcataagtatt Alignment from Spaln_nt2Genome CCTCTTCCCCACGATGCCAAGGCACAACTACCGGAGGGTGGCCCCCCTGGTCAAGGCGTTCTGCGCCAAGCACGGCCTACACTACGAGGTGAAGCCTTTCCTCAC-CGCTCTGGTGGATATCATCGG caagataacatcattatgggggtatcacctgtggttgctggctgccgcagCCTTGTTCCTACTATGTCCAGGCACAACTACCGGAGAGTGGCACCCCTTGTTGAGGCATTCTGTGCTACACATGGACTACACCGTAAGGTAAAGCCATTTCTTATGCGCATTGGTGGAGATCATTGGgtaagcagatgtttggagccaagcaacctgggtccaacttcataagtatt Alignment from Pairagon CCTCTTCCCCACGATGCCAAGGCACAACTACCGGAGGGTGGCCCCCCTGGTCAAGGCGTTCTGCGCCAAGCACGGCCTACACTACGAGGTGAAGCCTTTCCTCAC-CGCTCTGGTGGATATCATCGG caagataacatcattatgggggtatcacctgtggttgctggctgccgcagCCTTGTTCCTACTATGTCCAGGCACAACTACCGGAGAGTGGCACCCCTTGTTGAGGCATTCTGTGCTACACATGGACTACACCGTAAGGTAAAGCCATTTCTTATGCGCATTGGTGGAGATCATTGGgtaagcagatgtttggagccaagcaacctgggtccaacttcataagtatt Alignment from Exonerate_protein2genome CCTCTTCCCCACGATGCCAAGGCACAACTACCGGAGGGTGGCCCCCCTGGTCAAGGCGTTCTGCGCCAAGCACGGCCTACACTACGAGGTGAAGCCT-TTCCTCACCGCTCTGGTGGATATCATCGG caagataacatcattatgggggtatcacctgtggttgctggctgccgcagCCTTGTTCCTACTATGTCCAGGCACAACTACCGGAGAGTGGCACCCCTTGTTGAGGCATTCTGTGCTACACATGGACTACACCGTAAGGTAAAGCCATTTCTTATGCGCATTGGTGGAGATCATTGGgtaagcagatgtttggagccaagcaacctgggtccaacttcataagtatt Alignment from Exonerate_coding2genome CCTCTTCCCCACGATGCCAAGGCACAACTACCGGAGGGTGGCCCCCCTGGTCAAGGCGTTCTGCGCCAAGCACGGCCTACACTACGAGGTGAAGCCT-TTCCTCACCGCTCTGGTGGATATCATCGG caagataacatcattatgggggtatcacctgtggttgctggctgccgcagCCTTGTTCCTACTATGTCCAGGCACAACTACCGGAGAGTGGCACCCCTTGTTGAGGCATTCTGTGCTACACATGGACTACACCGTAAGGTAAAGCCATTTCTTATGCGCATTGGTGGAGATCATTGGgtaagcagatgtttggagccaagcaacctgggtccaacttcataagtatt Alignment from GeneWise CCTCTTCCCCACGATGCCAAGGCACAACTACCGGAGGGTGGCCCCCCTGGTCAAGGCGTTCTGCGCCAAGCACGGCCTACACTACGAGGTGAAGCCTTTCCTCACCGCTCTGGTGGATATCATCGGGTCCCTGAAGAAGTCTGGCGACATCTGGCTGGATGCATACCTCCATCAA caagataacatcattatgggggtatcacctgtggttgctggctgccgcagCCTTGTTCCTACTATGTCCAGGCACAACTACCGGAGAGTGGCACCCCTTGTTGAGGCATTCTGTGCTACACATGGACTACACCGTAAGGTAAAGCCATTTCTT---------------------------ATGCGCATTGGTGGAGATCATTGGGTAAGCAGATGTTTGGAGCCAagcaacctgggtccaacttcataagtatt #### Fam160b1_ID12353_4 --> 0 - 0 Original Alignment TGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTGGGACGAATCCGGCAGCCC------CTGCTTCCA-CACATCAACGTACACAGGCCTGTGCAG AAATTA ataaatgtaggttcaccttgtctgtaatggatttttatttttacaattagTGCCCTCCAGGAATGAAACAGCAGGTGTTACTACTTTACACCAAACTACTTGAACAAATCCAGCAGCCCCAACCACTACTCCCACCATGTCAATGTGCACAGGCCAGTGCAGgtaaggaagtatagttgaatattcatcttttattttgcttctagCAGTTG Alignment from CESAR TGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTGGGACGAATCCGGCAGCCC------CTGCTTCCA-CACATCAACGTACACAGGCCTGTGCAG AAATTA ataaatgtaggttcaccttgtctgtaatggatttttatttttacaattagTGCCCTCCAGGAATGAAACAGCAGGTGTTACTACTTTACACCAAACTACTTGAACAAATCCAGCAGCCCCAACCACTACTCCCACCATGTCAATGTGCACAGGCCAGTGCAGgtaaggaagtatagttgaatataatgttctactttttgtcccagCAGTTG Alignment from Spaln_aa2Genome TGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTGGGACGAATCCGG------CAGCCCCTGCTTCCA-CACATCAACGTACACAGGCCTGTGCAG AAATTA ataaatgtaggttcaccttgtctgtaatggatttttatttttacaattagTGCCCTCCAGGAATGAAACAGCAGGTGTTACTACTTTACACCAAACTACTTGAACAAATCCAGCAGCCCCAACCACTACTCCCAcCATGTCAATGTGCACAGGCCAGTGCAGgtaaggaagtatagttgaatattcatcttttattttgcttctagCAGTTG Alignment from Spaln_nt2Genome TGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTGGGACGAATCCGGCAGCCCC------TGCTTCCAC-ACATCAACGTACACAGGCCTGTGCAG AAATTA ataaatgtaggttcaccttgtctgtaatggatttttatttttacaattagTGCCCTCCAGGAATGAAACAGCAGGTGTTACTACTTTACACCAAACTACTTGAACAAATCCAGCAGCCCCAACCACTACTCCCACCATGTCAATGTGCACAGGCCAGTGCAGgtaaggaagtatagttgaatattcatcttttattttgcttctagCAGTTG Alignment from Pairagon TGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTGGGACGAATCCGGCAGCCC------CTGCTTCCA-CACATCAACGTACACAGGCCTGTGCAG AAATTA ataaatgtaggttcaccttgtctgtaatggatttttatttttacaattagTGCCCTCCAGGAATGAAACAGCAGGTGTTACTACTTTACACCAAACTACTTGAACAAATCCAGCAGCCCCAACCACTACTCCCACCATGTCAATGTGCACAGGCCAGTGCAGgtaaggaagtatagttgaatattcatcttttattttgcttctagCAGTTG Alignment from Exonerate_protein2genome TGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTGGGACGAATCCGG------CAGCCCCTGCTTCCA-CACATCAACGTACACAGGCCTGTGCAG AAATTA ataaatgtaggttcaccttgtctgtaatggatttttatttttacaattagTGCCCTCCAGGAATGAAACAGCAGGTGTTACTACTTTACACCAAACTACTTGAACAAATCCAGCAGCCCCAACCACTACTCCCACCATGTCAATGTGCACAGGCCAGTGCAGgtaaggaagtatagttgaatattcatcttttattttgcttctagCAGTTG Alignment from Exonerate_coding2genome TGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTGGGACGAATCCGG------CAGCCCCTGCTTCCA-CACATCAACGTACACAGGCCTGTGCAG AAATTA ataaatgtaggttcaccttgtctgtaatggatttttatttttacaattagTGCCCTCCAGGAATGAAACAGCAGGTGTTACTACTTTACACCAAACTACTTGAACAAATCCAGCAGCCCCAACCACTACTCCCACCATGTCAATGTGCACAGGCCAGTGCAGgtaaggaagtatagttgaatattcatcttttattttgcttctagCAGTTG Alignment from GeneWise TGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTGGGACGAATCCGGCAGCCC------CTGCTT-CCACACATCAACGTACACAGGCCTGTGCAG AAATTA ataaatgtaggttcaccttgtctgtaatggatttttatttttacaattagTGCCCTCCAGGAATGAAACAGCAGGTGTTACTACTTTACACCAAACTACTTGAACAAATCCAGCAGCCCCAACCACTACTCCCACCATGTCAATGTGCACAGGCCAGTGCAGgtaaggaagtatagttgaatattcatcttttattttgcttctagCAGTTG #### Fam160b1_ID12356_7 --> 0 - 2 Original Alignment GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTG-AGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGgg agaagaagaaatgctgctatagtcattttccgttttgttttgtttttcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGCAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGGCTCACTTCCTTGTACAAGTCATTACCACAGTCAGTAGACCCTTTAGACATTGAAACAGTGGAGGCAGTAAACTGGgggtaagtatccatttgatagactgcttggacagtgactgcttagactgtga Alignment from CESAR GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTG-AGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGgg agaagaagaaatgctgctatagtcattttccgttttgttttgtttttcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGCAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGGCTCACTTCCTTGTACAAGTCATTACCACAGTCAGTAGACCCTTTAGACATTGAAACAGTGGAGGCAGTAAACTGGgggtaagtatccatttgatagactgcttggacagtgactgcttagactgtga Alignment from Spaln_aa2Genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTG-AGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG agaagaagaaatgctgctatagtcattttccgttttgttttgtttttcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGcAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGGCTCACTTCCTTGTACAAGTCATTACCACAGTCAGTAGACCCTTTAGACATTGAAACAGTGGAGGCAGTAAACTGGGGgtaagtatccatttgatagactgcttggacagtgactgcttagactgtga Alignment from Spaln_nt2Genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTG-AGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG agaagaagaaatgctgctatagtcattttccgttttgttttgtttttcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGCAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGGCTCACTTCCTTGTACAAGTCATTACCACAGTCAGTAGACCCTTTAGACATTGAAACAGTGGAGGCAGTAAACTGGGGgtaagtatccatttgatagactgcttggacagtgactgcttagactgtga Alignment from Pairagon GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTG-AGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG agaagaagaaatgctgctatagtcattttccgttttgttttgtttttcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGCAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGGCTCACTTCCTTGTACAAGTCATTACCACAGTCAGTAGACCCTTTAGACATTGAAACAGTGGAGGCAGTAAACTGGGGgtaagtatccatttgatagactgcttggacagtgactgcttagactgtga Alignment from Exonerate_protein2genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTG-AGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG agaagaagaaatgctgctatagtcattttccgttttgttttgtttttcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGCAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGGCTCACTTCCTTGTACAAGTCATTACCACAGTCAGTAGACCCTTTAGACATTGAAACAGTGGAGGCAGTAAACTGGGGgtaagtatccatttgatagactgcttggacagtgactgcttagactgtga Alignment from Exonerate_coding2genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTG-AGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG agaagaagaaatgctgctatagtcattttccgttttgttttgtttttcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGCAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGGCTCACTTCCTTGTACAAGTCATTACCACAGTCAGTAGACCCTTTAGACATTGAAACAGTGGAGGCAGTAAACTGGGGgtaagtatccatttgatagactgcttggacagtgactgcttagactgtga Alignment from GeneWise GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTG-GTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG agaagaagaaatgctgctatagtcattttccgttttgttttgtttttcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGCAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGGCTCACTTCCTTGTACAAGTCATTACCACAGTCAGTAGACCCTTTAGACATTGAAACAGTGGAGGCAGTAAACTGGGGgtaagtatccatttgatagactgcttggacagtgactgcttagactgtga #### Fam160b1_ID12358_9 --> 0 - 2 Original Alignment ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTC-TTTGTTGGTGTCATGGAACCCCAGCTGATGCAGac gtcatagtatggatgtcatatgtcttctactaaccctgctgctattgcagACAGCTGCTGTAGCTCTTGCCAAAGCTATCCACAAAAGGTTCCTTTGTTGGTGTTACAGAACCCCAACTAATGCAAacgtactggtttactaactttgtagaagacgaaacgttgctgaatctttttc Alignment from CESAR ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTC-TTTGTTGGTGTCATGGAACCCCAGCTGATGCAGac gtcatagtatggatgtcatatgtcttctactaaccctgctgctattgcagACAGCTGCTGTAGCTCTTGCCAAAGCTATCCACAAAAGGTTCCTTTGTTGGTGTTACAGAACCCCAACTAATGCAAacgtactggtttactaactttgtagaagacgaaacgttgctgaatctttttc Alignment from Spaln_aa2Genome ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTC-TTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gtcatagtatggatgtcatatgtcttctactaaccctgctgctattgcagACAGCTGCTGTAGCTCTTGCCAAAGCTATCCACAAAAGGTTCcTTTGTTGGTGTTACAGAACCCCAACTAATGCAAACgtactggtttactaactttgtagaagacgaaacgttgctgaatctttttc Alignment from Spaln_nt2Genome ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACG-AAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gtcatagtatggatgtcatatgtcttctactaaccctgctgctattgcagACAGCTGCTGTAGCTCTTGCCAAAGCTATCCACAAAAGGTTCCTTTGTTGGTGTTACAGAACCCCAACTAATGCAAACgtactggtttactaactttgtagaagacgaaacgttgctgaatctttttc Alignment from Pairagon ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTT-CTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gtcatagtatggatgtcatatgtcttctactaaccctgctgctattgcagACAGCTGCTGTAGCTCTTGCCAAAGCTATCCACAAAAGGTTCCTTTGTTGGTGTTACAGAACCCCAACTAATGCAAACgtactggtttactaactttgtagaagacgaaacgttgctgaatctttttc Alignment from Exonerate_protein2genome ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTC-TTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gtcatagtatggatgtcatatgtcttctactaaccctgctgctattgcagACAGCTGCTGTAGCTCTTGCCAAAGCTATCCACAAAAGGTTCCTTTGTTGGTGTTACAGAACCCCAACTAATGCAAACgtactggtttactaactttgtagaagacgaaacgttgctgaatctttttc Alignment from Exonerate_coding2genome ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTC-TTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gtcatagtatggatgtcatatgtcttctactaaccctgctgctattgcagACAGCTGCTGTAGCTCTTGCCAAAGCTATCCACAAAAGGTTCCTTTGTTGGTGTTACAGAACCCCAACTAATGCAAACgtactggtttactaactttgtagaagacgaaacgttgctgaatctttttc Alignment from GeneWise ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTC-TTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gtcatagtatggatgtcatatgtcttctactaaccctgctgctattgcagACAGCTGCTGTAGCTCTTGCCAAAGCTATCCACAAAAGGTTCCTTTGTTGGTGTTACAGAACCCCAACTAATGCAAACgtactggtttactaactttgtagaagacgaaacgttgctgaatctttttc #### Fam160b1_ID12363_14 --> 0 - 0 Original Alignment TTCCGAGACTACTGTGCTATCTGCTCACGATGGGAGTGGCCAGGAGCCCCCAAACCACTGGAGAAGTGTGACCTA-GAAGCAGCCTTCTTTGAAGGACATTTTTTGAAAGTTTTATTTGACAGAATGGGAAGAATTCTCGATCAG tgaagtacttttcatacttactgtttggttgcttgttgtgtttcttccagTACCGAGATTTCTGTGCAATCTGCTCACGATGGGAATGGCCAGGAGCCCCTAAACCACTG------TGTGACCTACGAGGCAGCTTTCTTTGAAGGACATTTTTTAAAAGTTTTGTACAGGCGGATGGGAAGAAATCTTGATCAAgtaagtacttgaaagctcaacctccattgtcttcctgaaggtacaaaaaa Alignment from CESAR TTCCGAGACTACTGTGCTATCTGCTCACGATGGGAGTGGCCAGGAGCCCCCAAACCACTGGAGAAGTGTGACCTA-GAAGCAGCCTTCTTTGAAGGACATTTTTTGAAAGTTTTATTTGACAGAATGGGAAGAATTCTCGATCAG tgaagtacttttcatacttactgtttggttgcttgttgtgtttcttccagTACCGAGATTTCTGTGCAATCTGCTCACGATGGGAATGGCCAGGAGCCCCTAAACCACTG------TGTGACCTACGAGGCAGCTTTCTTTGAAGGACATTTTTTAAAAGTTTTGTACAGGCGGATGGGAAGAAATCTTGATCAAgtaagtacttgaaagctcaacctccattgtcttcctgaaggtacaaaaaa Alignment from Spaln_aa2Genome TTCCGAGACTACTGTGCTATCTGCTCACGATGGGAGTGGCCAGGAGCCCCCAAACCACTGGAGAAGTGTGACCTA-GAAGCAGCCTTCTTTGAAGGACATTTTTTGAAAGTTTTATTTGACAGAATGGGAAGAATTCTCGATCAG tgaagtacttttcatacttactgtttggttgcttgttgtgtttcttccagTACCGAGATTTCTGTGCAATCTGCTCACGATGGGAATGGCCAGGAGCCCCTAAACCACTG------TGTGACCTAcGAGGCAGCTTTCTTTGAAGGACATTTTTTAAAAGTTTTGTACAGGCGGATGGGAAGAAATCTTGATCAAgtaagtacttgaaagctcaacctccattgtcttcctgaaggtacaaaaaa Alignment from Spaln_nt2Genome TTCCGAGACTACTGTGCTATCTGCTCACGATGGGAGTGGCCAGGAGCCCCCAAACCACTGGAGAAGTGTGACCTA-GAAGCAGCCTTCTTTGAAGGACATTTTTTGAAAGTTTTATTTGACAGAATGGGAAGAATTCTCGATCAG tgaagtacttttcatacttactgtttggttgcttgttgtgtttcttccagTACCGAGATTTCTGTGCAATCTGCTCACGATGGGAATGGCCAGGAGCCCCTAAACCACT------GTGTGACCTACGAGGCAGCTTTCTTTGAAGGACATTTTTTAAAAGTTTTGTACAGGCGGATGGGAAGAAATCTTGATCAAgtaagtacttgaaagctcaacctccattgtcttcctgaaggtacaaaaaa Alignment from Pairagon TTCCGAGACTACTGTGCTATCTGCTCACGATGGGAGTGGCCAGGAGCCCCCAAACCACTGGAGAAGTGTGACCTA-GAAGCAGCCTTCTTTGAAGGACATTTTTTGAAAGTTTTATTTGACA---GAATGGGAAGAATTCTCGATCAG tgaagtacttttcatacttactgtttggttgcttgttgtgtttcttccagTACCGAGATTTCTGTGCAATCTGCTCACGATGGGAATGGCCAGGAGCCCCTAAACCACT------GTGTGACCTACGAGGCAGCTTTCTTTGAAGGACATTTTTTAAAAGTTTTGT---ACAGGCGGATGGGAAGAAATCTTGATCAAgtaagtacttgaaagctcaacctccattgtcttcctgaaggtacaaaaaa Alignment from Exonerate_protein2genome TTCCGAGACTACTGTGCTATCTGCTCACGATGGGAGTGGCCAGGAGCCCCCAAACCACTGGAGAAGTGTGACCTA-GAAGCAGCCTTCTTTGAAGGACATTTTTTGAAAGTTTTATTTGACAGAATGGGAAGAATTCTCGATCAG tgaagtacttttcatacttactgtttggttgcttgttgtgtttcttccagTACCGAGATTTCTGTGCAATCTGCTCACGATGGGAATGGCCAGGAGCCCCTAAACCACTG------TGTGACCTACGAGGCAGCTTTCTTTGAAGGACATTTTTTAAAAGTTTTGTACAGGCGGATGGGAAGAAATCTTGATCAAgtaagtacttgaaagctcaacctccattgtcttcctgaaggtacaaaaaa Alignment from Exonerate_coding2genome tgaagtacttttcatacttactgtttggttgcttgttgtgtttcttccagtaccgagatttctgtgcaatctgctcacgatgggaatggccaggagcccctaaaccactgtgtgacctacgaggcagctttctttgaaggacattttttaaaagttttgtacaggcggatgggaagaaatcttgatcaagtaagtacttgaaagctcaacctccattgtcttcctgaaggtacaaaaaa Alignment from GeneWise TTCCGAGACTACTGTGCTATCTGCTCACGATGGGAGTGGCCAGGAGCCCCCAAACCACTGGAGAAGTGTGAC-CTAGAAGCAGCCTTCTTTGAAGGACATTTTTTGAAAGTTTTATTTGACAGAATGGGAAGAATTCTCGATCAG tgaagtacttttcatacttactgtttggttgcttgttgtgtttcttccagTACCGAGATTTCTGTGCAATCTGCTCACGATGGGAATGGCCAGGAGCCCCTAAACCACTG------TGTGACCTACGAGGCAGCTTTCTTTGAAGGACATTTTTTAAAAGTTTTGTACAGGCGGATGGGAAGAAATCTTGATCAAgtaagtacttgaaagctcaacctccattgtcttcctgaaggtacaaaaaa #### Fas_ID6925_6 --> 2 - 1 Original Alignment gtCCCAGAAATCGCCTATGGTTGTTGACC-ATCCTTGTTTTGTTAATTCCACTTg tagttgaaaagtcctagccatctgtcctcaatgcctttttctacctgcaggtCCCAGAAATTGCCTGTGGTTGTTGACCCATCCTTGTTTTGCTGATTCCACTTggtaagaaggaatgttcggagattattacagtagtgtgaggaagtaagccc Alignment from CESAR gtCCCAGAAATCGCCTATGGTTGTTGACC-ATCCTTGTTTTGTTAATTCCACTTg tagttgaaaagtcctagccatctgtcctcaatgcctttttctacctgcaggtCCCAGAAATTGCCTGTGGTTGTTGACCCATCCTTGTTTTGCTGATTCCACTTggtaagaaggaatgttcggagattattacagtagtgtgaggaagtaagccc Alignment from Spaln_aa2Genome GTCCCAGAAATCGCCTATGGTTGTTGACC-ATCCTTGTTTTGTTAATTCCACTTG tagttgaaaagtcctagccatctgtcctcaatgcctttttctacctgcagGTCCCAGAAATTGCCTGTGGTTGTTGACCcATCCTTGTTTTGCTGATTCCACTTGgtaagaaggaatgttcggagattattacagtagtgtgaggaagtaagccc Alignment from Spaln_nt2Genome GTCCCAGAAATCGCCTATGGTTGTTGA-CCATCCTTGTTTTGTTAATTCCACTTG tagttgaaaagtcctagccatctgtcctcaatgcctttttctacctgcagGTCCCAGAAATTGCCTGTGGTTGTTGACCCATCCTTGTTTTGCTGATTCCACTTGgtaagaaggaatgttcggagattattacagtagtgtgaggaagtaagccc Alignment from Pairagon GTCCCAGAAATCGCCTATGGTTGTTGA-CCATCCTTGTTTTGTTAATTCCACTTG tagttgaaaagtcctagccatctgtcctcaatgcctttttctacctgcagGTCCCAGAAATTGCCTGTGGTTGTTGACCCATCCTTGTTTTGCTGATTCCACTTGgtaagaaggaatgttcggagattattacagtagtgtgaggaagtaagccc Alignment from Exonerate_protein2genome GTCCCAGAAATCGCCTATGGTTGTTGACC-ATCCTTGTTTTGTTAATTCCACTTG tagttgaaaagtcctagccatctgtcctcaatgcctttttctacctgcagGTCCCAGAAATTGCCTGTGGTTGTTGACCCATCCTTGTTTTGCTGATTCCACTTGgtaagaaggaatgttcggagattattacagtagtgtgaggaagtaagccc Alignment from Exonerate_coding2genome tagttgaaaagtcctagccatctgtcctcaatgcctttttctacctgcaggtcccagaaattgcctgtggttgttgacccatccttgttttgctgattccacttggtaagaaggaatgttcggagattattacagtagtgtgaggaagtaagccc Alignment from GeneWise GTCCCAGAAATCGCCTATGGTTGTTGACC-ATCCTTGTTTTGTTAATTCCACTTG tagttgaaaagtcctagccatctgtcctcaatgcctttttctacctgcagGTCCCAGAAATTGCCTGTGGTTGTTGACCCATCCTTGTTTTGCTGATTCCACTTGgtaagaaggaatgttcggagattattacagtagtgtgaggaagtaagccc #### Fas_ID6926_7 --> 2 - 0 Original Alignment taTTTATATATCGAAAGTACCGGAAAAGAAAGTGCTGGAAAAGGAGACAG-GATGACCCTGAATCTAGAACCTCCAGTCGT atgagatatacagtgacaactactgacactctcgcttctcccacctctagtaTTTATATATAGAAAGTACCGAAAAAGAAAGTGCTGGAAAAGGAGACAACGATGACCCCGAATCTAGAACCTCGAGTCGTgtaagaatctagtgcaatacagggatgccctttccaatactcccaatcaa Alignment from CESAR taTTTATATATCGAAAGTACCGGAAAAGAAAGTGCTGGAAAAGGAGACAG-GATGACCCTGAATCTAGAACCTCCAGTCGT atgagatatacagtgacaactactgacactctcgcttctcccacctctagtaTTTATATATAGAAAGTACCGAAAAAGAAAGTGCTGGAAAAGGAGACAACGATGACCCCGAATCTAGAACCTCGAGTCGTgtaagaatctagtgcaatacagggatgccctttccaatactcccaatcaa Alignment from Spaln_aa2Genome TATTTATATATCGAAAGTACCGGAAAAGAAAGTGCTGGAAAAGGAGACAG-GATGACCCTGAATCTAGAACCTCCAGTCGT atgagatatacagtgacaactactgacactctcgcttctcccacctctagTATTTATATATAGAAAGTACCGAAAAAGAAAGTGCTGGAAAAGGAGACAAcGATGACCCCGAATCTAGAACCTCGAGTCGTgtaagaatctagtgcaatacagggatgccctttccaatactcccaatcaa Alignment from Spaln_nt2Genome TATTTATATATCGAAAGTACCGGAAAAGAAAGTGCTGGAAAAGGAGACAG-GATGACCCTGAATCTAGAACCTCCAGTCGT atgagatatacagtgacaactactgacactctcgcttctcccacctctagTATTTATATATAGAAAGTACCGAAAAAGAAAGTGCTGGAAAAGGAGACAACGATGACCCCGAATCTAGAACCTCGAGTCGTgtaagaatctagtgcaatacagggatgccctttccaatactcccaatcaa Alignment from Pairagon TATTTATATATCGAAAGTACCGGAAAAGAAAGTGCTGGAAAAGGAGACAG-GATGACCCTGAATCTAGAACCTCCAGTCGT atgagatatacagtgacaactactgacactctcgcttctcccacctctagTATTTATATATAGAAAGTACCGAAAAAGAAAGTGCTGGAAAAGGAGACAACGATGACCCCGAATCTAGAACCTCGAGTCGTgtaagaatctagtgcaatacagggatgccctttccaatactcccaatcaa Alignment from Exonerate_protein2genome TATTTATATATCGAAAGTACCGGAAAAGAAAGTGCTGGAAAAGGAGACAG-GATGACCCTGAATCTAGAACCTCCAGTCGTGAAACCATACCAATGAATGCCTCA atgagatatacagtgacaactactgacactctcgcttctcccacctctagTATTTATATATAGAAAGTACCGAAAAAGAAAGTGCTGGAAAAGGAGACAACGATGACCCCGAATCTAGAACCTCGAGTCGTGTAAGAATCTAGTGCAATACAGGGatgccctttccaatactcccaatcaa Alignment from Exonerate_coding2genome TATTTATATATCGAAAGTACCGGAAAAGAAAGTGCTGGAAAAGGAGACAG-GATGACCCTGAATCTAGAACCTCCAGTCGTGAAACCATACCAATGAATGCCTCA atgagatatacagtgacaactactgacactctcgcttctcccacctctagTATTTATATATAGAAAGTACCGAAAAAGAAAGTGCTGGAAAAGGAGACAACGATGACCCCGAATCTAGAACCTCGAGTCGTGTAAGAATCTAGTGCAATACAGGGatgccctttccaatactcccaatcaa Alignment from GeneWise TATTTATATATCGAAAGTACCGGAAAAGAAAGTGCTGGAAAAGGAGA-CAGGATGACCCTGAATCTAGAACCTCCAGTCGTGAAACCATACC atgagatatacagtgacaactactgacactctcgcttctcccacctctagTATTTATATATAGAAAGTACCGAAAAAGAAAGTGCTGGAAAAGGAGACAACGATGACCCCGAATCTAGAACCTCGAGTCGTGTAAGAATCTAgtgcaatacagggatgccctttccaatactcccaatcaa #### Fau_ID1402_2 --> 0 - 1 Original Alignment GATCATGTGGCCTCCCTGGAAGGCATTGCCCCCGAAGATCAAGTCGTGCTTCTGGCAGGCTCGCCGCTGGAGGATGAGGCCACCCTAGGCCAGTGTGGCGTAGAGGCCCTGACCACTCTGGAAGTA-GCAGGCCGCATGCTGGGAg ttcacttactgactacataggaccagatactggctgtgtgtgccctttagGATCATGTTGCATCACTTGAAGGCATGGCTCCTGAGGATCAGGCTGTACTCTTGGCAGGTTCCCCACTGGAAGATGATGCAACCCTGGGCCAGTGTGGTGTAAAAGCACCAACTACTCTAGAGGTGCGCAGGTCGCATGCTTGGTggtatgtgataccctgtgagctatcacaaggtaactgccagtgcatgtata Alignment from CESAR GATCATGTGGCCTCCCTGGAAGGCATTGCCCCCGAAGATCAAGTCGTGCTTCTGGCAGGCTCGCCGCTGGAGGATGAGGCCACCCTAGGCCAGTGTGGCGTAGAGGCCCTGACCACTCTGGAAGTA-GCAGGCCGCATGCTGGGAg ttcacttactgactacataggaccagatactggctgtgtgtgccctttagGATCATGTTGCATCACTTGAAGGCATGGCTCCTGAGGATCAGGCTGTACTCTTGGCAGGTTCCCCACTGGAAGATGATGCAACCCTGGGCCAGTGTGGTGTAAAAGCACCAACTACTCTAGAGGTGCGCAGGTCGCATGCTTGGTggtatgtgataccctgtgagctatcacaaggtaactgccagtgcatgtata Alignment from Spaln_aa2Genome GATCATGTGGCCTCCCTGGAAGGCATTGCCCCCGAAGATCAAGTCGTGCTTCTGGCAGGCTCGCCGCTGGAGGATGAGGCCACCCTAGGCCAGTGTGGCGTAGAGGCCCTGACCACTCTGGAAGTA-GCAGGCCGCATGCTGGGAG ttcacttactgactacataggaccagatactggctgtgtgtgccctttagGATCATGTTGCATCACTTGAAGGCATGGCTCCTGAGGATCAGGCTGTACTCTTGGCAGGTTCCCCACTGGAAGATGATGCAACCCTGGGCCAGTGTGGTGTAAAAGCACCAACTACTCTAGAGGTGcGCAGGTCGCATGCTTGGTGgtatgtgataccctgtgagctatcacaaggtaactgccagtgcatgtata Alignment from Spaln_nt2Genome GATCATGTGGCCTCCCTGGAAGGCATTGCCCCCGAAGATCAAGTCGTGCTTCTGGCAGGCTCGCCGCTGGAGGATGAGGCCACCCTAGGCCAGTGTGGCGTAGAGGCCCTGACCACTCTGGAAGTA-GCAGGCCGCATGCTGGGAG ttcacttactgactacataggaccagatactggctgtgtgtgccctttagGATCATGTTGCATCACTTGAAGGCATGGCTCCTGAGGATCAGGCTGTACTCTTGGCAGGTTCCCCACTGGAAGATGATGCAACCCTGGGCCAGTGTGGTGTAAAAGCACCAACTACTCTAGAGGTGCGCAGGTCGCATGCTTGGTGgtatgtgataccctgtgagctatcacaaggtaactgccagtgcatgtata Alignment from Pairagon GATCATGTGGCCTCCCTGGAAGGCATTGCCCCCGAAGATCAAGTCGTGCTTCTGGCAGGCTCGCCGCTGGAGGATGAGGCCACCCTAGGCCAGTGTGGCGTAGAGGCCCTGACCACTCTGGAAGTA-GCAGGCCGCATGCTGGGAG ttcacttactgactacataggaccagatactggctgtgtgtgccctttagGATCATGTTGCATCACTTGAAGGCATGGCTCCTGAGGATCAGGCTGTACTCTTGGCAGGTTCCCCACTGGAAGATGATGCAACCCTGGGCCAGTGTGGTGTAAAAGCACCAACTACTCTAGAGGTGCGCAGGTCGCATGCTTGGTGgtatgtgataccctgtgagctatcacaaggtaactgccagtgcatgtata Alignment from Exonerate_protein2genome GATCATGTGGCCTCCCTGGAAGGCATTGCCCCCGAAGATCAAGTCGTGCTTCTGGCAGGCTCGCCGCTGGAGGATGAGGCCACCCTAGGCCAGTGTGGCGTAGAGGCCCTGACCACTCTGGAAGTA-GCAGGCCGCATGCTGGGAG ttcacttactgactacataggaccagatactggctgtgtgtgccctttagGATCATGTTGCATCACTTGAAGGCATGGCTCCTGAGGATCAGGCTGTACTCTTGGCAGGTTCCCCACTGGAAGATGATGCAACCCTGGGCCAGTGTGGTGTAAAAGCACCAACTACTCTAGAGGTGCGCAGGTCGCATGCTTGGTGgtatgtgataccctgtgagctatcacaaggtaactgccagtgcatgtata Alignment from Exonerate_coding2genome GATCATGTGGCCTCCCTGGAAGGCATTGCCCCCGAAGATCAAGTCGTGCTTCTGGCAGGCTCGCCGCTGGAGGATGAGGCCACCCTAGGCCAGTGTGGCGTAGAGGCCCTGACCACTCTGGAAGTA-GCAGGCCGCATGCTGGGAG ttcacttactgactacataggaccagatactggctgtgtgtgccctttagGATCATGTTGCATCACTTGAAGGCATGGCTCCTGAGGATCAGGCTGTACTCTTGGCAGGTTCCCCACTGGAAGATGATGCAACCCTGGGCCAGTGTGGTGTAAAAGCACCAACTACTCTAGAGGTGCGCAGGTCGCATGCTTGGTGgtatgtgataccctgtgagctatcacaaggtaactgccagtgcatgtata Alignment from GeneWise GATCATGTGGCCTCCCTGGAAGGCATTGCCCCCGAAGATCAAGTCGTGCTTCTGGCAGGCTCGCCGCTGGAGGATGAGGCCACCCTAGGCCAGTGTGGCGTAGAGGCCCTGACCACTCTGGAAGTA-GCAGGCCGCATGCTGGGAG ttcacttactgactacataggaccagatactggctgtgtgtgccctttagGATCATGTTGCATCACTTGAAGGCATGGCTCCTGAGGATCAGGCTGTACTCTTGGCAGGTTCCCCACTGGAAGATGATGCAACCCTGGGCCAGTGTGGTGTAAAAGCACCAACTACTCTAGAGGTGCGCAGGTCGCATGCTTGGTGgtatgtgataccctgtgagctatcacaaggtaactgccagtgcatgtata #### Fibp_ID1010_7 --> 1 - 0 Original Alignment cCTGGTGTGCACTGCCCTCCGG-GGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG cagaacttactatactcagtctacagaaacttcctcctctctcctttcagcCTAGTCTGCACTGCCCTTCGTCGGAAAACTTGGTGTCTTTTCTGAGATGGAATCCAACTTCAAGgtgagtttacttggcaatcataatcccttggttagatcactgaacacctg Alignment from CESAR cCTGGTGTGCACTGCCCTCCGG-GGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG cagaacttactatactcagtctacagaaacttcctcctctctcctttcagcCTAGTCTGCACTGCCCTTCGTCGGAAAACTTGGTGTCTTTTCTGAGATGGAATCCAACTTCAAGgtgagtttacttggcaatcataatcccttggttagatcactgaacacctg Alignment from Spaln_aa2Genome CCTGGTGTGCACTGCCCTCCGG-GGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG cagaacttactatactcagtctacagaaacttcctcctctctcctttcagCCTAGTCTGCACTGCCCTTCGTcGGAAAACTTGGTGTCTTTTCTGAGATGGAATCCAACTTCAAGgtgagtttacttggcaatcataatcccttggttagatcactgaacacctg Alignment from Spaln_nt2Genome CCTGGTGTGCACTGCCCTCCGG-GGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG cagaacttactatactcagtctacagaaacttcctcctctctcctttcagCCTAGTCTGCACTGCCCTTCGTCGGAAAACTTGGTGTCTTTTCTGAGATGGAATCCAACTTCAAGgtgagtttacttggcaatcataatcccttggttagatcactgaacacctg Alignment from Pairagon CCTGGTGTGCACTGCCCTCCG-GGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG cagaacttactatactcagtctacagaaacttcctcctctctcctttcagCCTAGTCTGCACTGCCCTTCGTCGGAAAACTTGGTGTCTTTTCTGAGATGGAATCCAACTTCAAGgtgagtttacttggcaatcataatcccttggttagatcactgaacacctg Alignment from Exonerate_protein2genome CCTGGTGTGCACTGCCCTCCGG-GGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG cagaacttactatactcagtctacagaaacttcctcctctctcctttcagCCTAGTCTGCACTGCCCTTCGTCGGAAAACTTGGTGTCTTTTCTGAGATGGAATCCAACTTCAAGgtgagtttacttggcaatcataatcccttggttagatcactgaacacctg Alignment from Exonerate_coding2genome CCTGGTGTGCACTGCCCTCCGG-GGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG cagaacttactatactcagtctacagaaacttcctcctctctcctttcagCCTAGTCTGCACTGCCCTTCGTCGGAAAACTTGGTGTCTTTTCTGAGATGGAATCCAACTTCAAGgtgagtttacttggcaatcataatcccttggttagatcactgaacacctg Alignment from GeneWise CCTGGTGTGCACTGCCCTC-CGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG cagaacttactatactcagtctacagaaacttcctcctctctcctttcagCCTAGTCTGCACTGCCCTTCGTCGGAAAACTTGGTGTCTTTTCTGAGATGGAATCCAACTTCAAGgtgagtttacttggcaatcataatcccttggttagatcactgaacacctg #### Fkbp2_ID1946_3 --> 1 - 1 Original Alignment gATGTGTGAAGGGGAAAAGCGG-AAGTTGGTGATCCCATCCGAGCTGg gttgactttcggctagctttttttatacccactttctccctgatccacaggATGTGTGAAGGAGAGAGGCAGCAAGTTGTTCATCCTGTCAGAACTGggtaagctaacgtagtgtccagaacaaatttagaactaggccagtttaatg Alignment from CESAR gATGTGTGAAGGGGAAAAGCGG-AAGTTGGTGATCCCATCCGAGCTGg gttgactttcggctagctttttttatacccactttctccctgatccacaggATGTGTGAAGGAGAGAGGCAGCAAGTTGTTCATCCTGTCAGAACTGggtaagctaacgtagtgtccagaacaaatttagaactaggccagtttaatg Alignment from Spaln_aa2Genome GATGTGTGAAGGGGAAAAGCGG-AAGTTGGTGATCCCATCCGAGCTGG gttgactttcggctagctttttttatacccactttctccctgatccacagGATGTGTGAAGGAGAGAGGCAGcAAGTTGTTCATCCTGTCAGAACTGGgtaagctaacgtagtgtccagaacaaatttagaactaggccagtttaatg Alignment from Spaln_nt2Genome GATGTGTGAAGGGGAAAAGCGG-AAGTTGGTGATCCCATCCGAGCTGG gttgactttcggctagctttttttatacccactttctccctgatccacagGATGTGTGAAGGAGAGAGGCAGCAAGTTGTTCATCCTGTCAGAACTGGgtaagctaacgtagtgtccagaacaaatttagaactaggccagtttaatg Alignment from Pairagon GATGTGTGAAGGGGAAAAGCGG-AAGTTGGTGATCCCATCCGAGCTGG gttgactttcggctagctttttttatacccactttctccctgatccacagGATGTGTGAAGGAGAGAGGCAGCAAGTTGTTCATCCTGTCAGAACTGGgtaagctaacgtagtgtccagaacaaatttagaactaggccagtttaatg Alignment from Exonerate_protein2genome GATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCA-TCCGAGCTGG gttgactttcggctagctttttttatacccactttctccctgatccacagGATGTGTGAAGGAGAGAGGCAGCAAGTTGTTCATCCTGTCAGAACTGGgtaagctaacgtagtgtccagaacaaatttagaactaggccagtttaatg Alignment from Exonerate_coding2genome gttgactttcggctagctttttttatacccactttctccctgatccacaggatgtgtgaaggagagaggcagcaagttgttcatcctgtcagaactgggtaagctaacgtagtgtccagaacaaatttagaactaggccagtttaatg Alignment from GeneWise gttgactttcggctagctttttttatacccactttctccctgatccacaggatgtgtgaaggagagaggcagcaagttgttcatcctgtcagaactgggtaagctaacgtagtgtccagaacaaatttagaactaggccagtttaatg #### Frmd8_ID1284_4 --> 2 - 0 Original Alignment atGAGCCTTCCCTTCAGTTCCGAAGGAAT-GTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tatctttgaaggcttaggaaacaatgaagggcttctgtccctccctgcagatGAACCTTCCCTTCACTTCCGAAGGAATCGTCTTTTTCCCCAGACAGCGTGAGCTCCAGgtgaggcaggacttatctaaggtcacactattttagtatgtccatatttg Alignment from CESAR atGAGCCTTCCCTTCAGTTCCGAAGGAAT-GTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tatctttgaaggcttaggaaacaatgaagggcttctgtccctccctgcagatGAACCTTCCCTTCACTTCCGAAGGAATCGTCTTTTTCCCCAGACAGCGTGAGCTCCAGgtgaggcaggacttatctaaggtcacactattttagtatgtccatatttg Alignment from Spaln_aa2Genome ATGAGCCTTCCCTTCAGTTCCGAAGGAAT-GTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tatctttgaaggcttaggaaacaatgaagggcttctgtccctccctgcagATGAACCTTCCCTTCACTTCCGAAGGAATcGTCTTTTTCCCCAGACAGCGTGAGCTCCAGgtgaggcaggacttatctaaggtcacactattttagtatgtccatatttg Alignment from Spaln_nt2Genome ATGAGCCTTCCCTTCAGTTCCGAAGGAAT-GTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tatctttgaaggcttaggaaacaatgaagggcttctgtccctccctgcagATGAACCTTCCCTTCACTTCCGAAGGAATCGTCTTTTTCCCCAGACAGCGTGAGCTCCAGgtgaggcaggacttatctaaggtcacactattttagtatgtccatatttg Alignment from Pairagon ATGAGCCTTCCCTTCAGTTCCGAAGGAAT-GTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tatctttgaaggcttaggaaacaatgaagggcttctgtccctccctgcagATGAACCTTCCCTTCACTTCCGAAGGAATCGTCTTTTTCCCCAGACAGCGTGAGCTCCAGgtgaggcaggacttatctaaggtcacactattttagtatgtccatatttg Alignment from Exonerate_protein2genome ATGAGCCTTCCCTTCAGTTCCGAAGGAAT-GTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tatctttgaaggcttaggaaacaatgaagggcttctgtccctccctgcagATGAACCTTCCCTTCACTTCCGAAGGAATCGTCTTTTTCCCCAGACAGCGTGAGCTCCAGgtgaggcaggacttatctaaggtcacactattttagtatgtccatatttg Alignment from Exonerate_coding2genome GATGAGCCTTCCCTTCAGTTCCGAAGGAAT-GTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tatctttgaaggcttaggaaacaatgaagggcttctgtccctccctgcaGATGAACCTTCCCTTCACTTCCGAAGGAATCGTCTTTTTCCCCAGACAGCGTGAGCTCCAGgtgaggcaggacttatctaaggtcacactattttagtatgtccatatttg Alignment from GeneWise ATGAGCCTTCCCTT tatctttgaaggcttaggaaacaatgaagggcttctgtccctccctgcagatgaaccttcccttcacttccgaaggaatcgtctttttccccagacagcgtgagctccaggtgaggcaggacttatctaaggtcacactattttagTATGTCCATATTTG #### Fth1_ID2624_3 --> 0 - 0 Original Alignment AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAA-CTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacacggtaactgaggcccttctgcagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGTGCACTACACTTGGAAAAGAGTGTGAACCAGTCCCTACTGGAGCTGCATGAACCTGGCAACTGATAAGAATGACCCCCATgtaagcttcaataggctgcatatagatggcttgctattatgaggagaaaa Alignment from CESAR AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAA-CTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacacggtaactgaggcccttctgcagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGTGCACTACACTTGGAAAAGAGTGTGAACCAGTCCCTACTGGAGCTGCATGAACCTGGCAACTGATAAGAATGACCCCCATgtaagcttcaataggctgcatatagatggcttgctattatgaggagaaaa Alignment from Spaln_aa2Genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCAC-AAACTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacacggtaactgaggcccttctgcagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGTGCACTACACTTGGAAAAGAGTGTGAACCAGTCCCTACTGGAGCTGCATgAACCTGGCAACTGATAAGAATGACCCCCATgtaagcttcaataggctgcatatagatggcttgctattatgaggagaaaa Alignment from Spaln_nt2Genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAAC-TGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacacggtaactgaggcccttctgcagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGTGCACTACACTTGGAAAAGAGTGTGAACCAGTCCCTACTGGAGCTGCATGAACCTGGCAACTGATAAGAATGACCCCCATgtaagcttcaataggctgcatatagatggcttgctattatgaggagaaaa Alignment from Pairagon AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAA-CTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacacggtaactgaggcccttctgcagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGTGCACTACACTTGGAAAAGAGTGTGAACCAGTCCCTACTGGAGCTGCATGAACCTGGCAACTGATAAGAATGACCCCCATgtaagcttcaataggctgcatatagatggcttgctattatgaggagaaaa Alignment from Exonerate_protein2genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAA-CTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacacggtaactgaggcccttctgcagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGTGCACTACACTTGGAAAAGAGTGTGAACCAGTCCCTACTGGAGCTGCATGAACCTGGCAACTGATAAGAATGACCCCCATgtaagcttcaataggctgcatatagatggcttgctattatgaggagaaaa Alignment from Exonerate_coding2genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAA-CTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacacggtaactgaggcccttctgcagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGTGCACTACACTTGGAAAAGAGTGTGAACCAGTCCCTACTGGAGCTGCATGAACCTGGCAACTGATAAGAATGACCCCCATgtaagcttcaataggctgcatatagatggcttgctattatgaggagaaaa Alignment from GeneWise AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCAC-AAACTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacacggtaactgaggcccttctgcagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGTGCACTACACTTGGAAAAGAGTGTGAACCAGTCCCTACTGGAGCTGCATGAACCTGGCAACTGATAAGAATGACCCCCATgtaagcttcaataggctgcatatagatggcttgctattatgaggagaaaa #### Ganab_ID2467_6 --> 1 - 2 Original Alignment tTTCTCGGATAAAGTTAGTCTCGCGCTCGGTAGC-GTGTGGGATAAGATCAAGAACCTTTTCTCTag tggtagtaagacaatggtgggacagaaatctcggtcacattgtgctgcagtTTCTCTGATAAAGTTAGCCTGACACTCAGCAGTCGTGTGGGATAAGATCAAGAACCTTTTTTCCaggtgagcgcctcattatatacctattgtgttctgcactggccaccagcctc Alignment from CESAR tTTCTCGGATAAAGTTAGTCTCGCGCTCGGTAGC-GTGTGGGATAAGATCAAGAACCTTTTCTCTag tggtagtaagacaatggtgggacagaaatctcggtcacattgtgctgcagtTTCTCTGATAAAGTTAGCCTGACACTCAGCAGTCGTGTGGGATAAGATCAAGAACCTTTTTTCCaggtgagcgcctcattatatacctattgtgttctgcactggccaccagcctc Alignment from Spaln_aa2Genome TTTCTCGGATAAAGTTAGTCTCGCGCTCGGTAGC-GTGTGGGATAAGATCAAGAACCTTTTCTCTAG tggtagtaagacaatggtgggacagaaatctcggtcacattgtgctgcagTTTCTCTGATAAAGTTAGCCTGACACTCAGCAGTcGTGTGGGATAAGATCAAGAACCTTTTTTCCAGgtgagcgcctcattatatacctattgtgttctgcactggccaccagcctc Alignment from Spaln_nt2Genome TTTCTCGGATAAAGTTAGTCTCGCGCTCGGTAG-CGTGTGGGATAAGATCAAGAACCTTTTCTCTAG tggtagtaagacaatggtgggacagaaatctcggtcacattgtgctgcagTTTCTCTGATAAAGTTAGCCTGACACTCAGCAGTCGTGTGGGATAAGATCAAGAACCTTTTTTCCAGgtgagcgcctcattatatacctattgtgttctgcactggccaccagcctc Alignment from Pairagon TTTCTCGGATAAAGTTAGTCTCGCGCTCGGTAG-CGTGTGGGATAAGATCAAGAACCTTTTCTCTAG tggtagtaagacaatggtgggacagaaatctcggtcacattgtgctgcagTTTCTCTGATAAAGTTAGCCTGACACTCAGCAGTCGTGTGGGATAAGATCAAGAACCTTTTTTCCAGgtgagcgcctcattatatacctattgtgttctgcactggccaccagcctc Alignment from Exonerate_protein2genome TTTCTCGGATAAAGTTAGTCTCGCGCTCGGTAGC-GTGTGGGATAAGATCAAGAACCTTTTCTCTAG tggtagtaagacaatggtgggacagaaatctcggtcacattgtgctgcagTTTCTCTGATAAAGTTAGCCTGACACTCAGCAGTCGTGTGGGATAAGATCAAGAACCTTTTTTCCAGgtgagcgcctcattatatacctattgtgttctgcactggccaccagcctc Alignment from Exonerate_coding2genome TTTCTCGGATAAAGTTAGTCTCGCGCTCGGTAGC-GTGTGGGATAAGATCAAGAACCTTTTCTCTAG tggtagtaagacaatggtgggacagaaatctcggtcacattgtgctgcagTTTCTCTGATAAAGTTAGCCTGACACTCAGCAGTCGTGTGGGATAAGATCAAGAACCTTTTTTCCAGgtgagcgcctcattatatacctattgtgttctgcactggccaccagcctc Alignment from GeneWise TTTCTCGGATAAAGTTAGTCTCGCGCTCGGT-AGCGTGTGGGATAAGATCAAGAACCTTTTCTCTAG tggtagtaagacaatggtgggacagaaatctcggtcacattgtgctgcagTTTCTCTGATAAAGTTAGCCTGACACTCAGCAGTCGTGTGGGATAAGATCAAGAACCTTTTTTCCAGgtgagcgcctcattatatacctattgtgttctgcactggccaccagcctc #### Ganab_ID2468_7 --> 1 - 0 Original Alignment gCAAGAATCAAAAGACCCAGCTGAAGGC-AATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtgaacatcctaacttcactataggttaaataaataatttcttcttaggCAAGAATCAAAAGACCCTGCGGAGGGCCAATGGGGCCCAGCCCGAGGCGACACCTGGGGATGGCGACAAGgtgggttgaatgtgagatttttacctctttaggaggcggcaagttggtat Alignment from CESAR gCAAGAATCAAAAGACCCAGCTGAAGGC-AATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtgaacatcctaacttcactataggttaaataaataatttcttcttaggCAAGAATCAAAAGACCCTGCGGAGGGCCAATGGGGCCCAGCCCGAGGCGACACCTGGGGATGGCGACAAGgtgggttgaatgtgagatttttacctctttaggaggcggcaagttggtat Alignment from Spaln_aa2Genome GCAAGAATCAAAAGACCCAGCTGAAGGC-AATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtgaacatcctaacttcactataggttaaataaataatttcttcttagGCAAGAATCAAAAGACCCTGCGGAGGGCcAATGGGGCCCAGCCCGAGGCGACACCTGGGGATGGCGACAAGgtgggttgaatgtgagatttttacctctttaggaggcggcaagttggtat Alignment from Spaln_nt2Genome GCAAGAATCAAAAGACCCAGCTGAAGGC-AATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtgaacatcctaacttcactataggttaaataaataatttcttcttagGCAAGAATCAAAAGACCCTGCGGAGGGCCAATGGGGCCCAGCCCGAGGCGACACCTGGGGATGGCGACAAGgtgggttgaatgtgagatttttacctctttaggaggcggcaagttggtat Alignment from Pairagon GCAAGAATCAAAAGACCCAGCTGAAGG-CAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtgaacatcctaacttcactataggttaaataaataatttcttcttagGCAAGAATCAAAAGACCCTGCGGAGGGCCAATGGGGCCCAGCCCGAGGCGACACCTGGGGATGGCGACAAGgtgggttgaatgtgagatttttacctctttaggaggcggcaagttggtat Alignment from Exonerate_protein2genome GCAAGAATCAAAAGACCCAGCTGAAGGC-AATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtgaacatcctaacttcactataggttaaataaataatttcttcttagGCAAGAATCAAAAGACCCTGCGGAGGGCCAATGGGGCCCAGCCCGAGGCGACACCTGGGGATGGCGACAAGgtgggttgaatgtgagatttttacctctttaggaggcggcaagttggtat Alignment from Exonerate_coding2genome GCAAGAATCAAAAGACCCAGCTGAAGGC-AATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtgaacatcctaacttcactataggttaaataaataatttcttcttagGCAAGAATCAAAAGACCCTGCGGAGGGCCAATGGGGCCCAGCCCGAGGCGACACCTGGGGATGGCGACAAGgtgggttgaatgtgagatttttacctctttaggaggcggcaagttggtat Alignment from GeneWise GCAAGAATCAAAAGACCCAGCTGAA-GGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtgaacatcctaacttcactataggttaaataaataatttcttcttagGCAAGAATCAAAAGACCCTGCGGAGGGCCAATGGGGCCCAGCCCGAGGCGACACCTGGGGATGGCGACAAGgtgggttgaatgtgagatttttacctctttaggaggcggcaagttggtat #### Ganab_ID2469_8 --> 0 - 1 Original Alignment CCAGAGGAGACCCAGGAAAAGGCTGAGAAG-GATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATg tttaggaggcggcaagttggtatgaatttgcctttgccctctaactgcagCCAGAGGAGACCCAAGAAAAGGCTGAGAAGCGATGAGCCAGGAGCTTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATggtatggaattggcaagccttgatgctaattttggaattgtcttctcttag Alignment from CESAR CCAGAGGAGACCCAGGAAAAGGCTGAGAAG-GATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATg tttaggaggcggcaagttggtatgaatttgcctttgccctctaactgcagCCAGAGGAGACCCAAGAAAAGGCTGAGAAGCGATGAGCCAGGAGCTTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATggtatggaattggcaagccttgatgctaattttggaattgtcttctcttag Alignment from Spaln_aa2Genome CCAGAGGAGACCCAGGAAAAGGCTGAGAAG-GATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG tttaggaggcggcaagttggtatgaatttgcctttgccctctaactgcagCCAGAGGAGACCCAAGAAAAGGCTGAGAAGcGATGAGCCAGGAGCTTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtatggaattggcaagccttgatgctaattttggaattgtcttctcttag Alignment from Spaln_nt2Genome CCAGAGGAGACCCAGGAAAAGGCTGAGAAG-GATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG tttaggaggcggcaagttggtatgaatttgcctttgccctctaactgcagCCAGAGGAGACCCAAGAAAAGGCTGAGAAGCGATGAGCCAGGAGCTTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtatggaattggcaagccttgatgctaattttggaattgtcttctcttag Alignment from Pairagon CCAGAGGAGACCCAGGAAAAGGCTGAGAAG-GATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG tttaggaggcggcaagttggtatgaatttgcctttgccctctaactgcagCCAGAGGAGACCCAAGAAAAGGCTGAGAAGCGATGAGCCAGGAGCTTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtatggaattggcaagccttgatgctaattttggaattgtcttctcttag Alignment from Exonerate_protein2genome CCAGAGGAGACCCAGGAAAAGGCTGAGAAG-GATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG tttaggaggcggcaagttggtatgaatttgcctttgccctctaactgcagCCAGAGGAGACCCAAGAAAAGGCTGAGAAGCGATGAGCCAGGAGCTTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtatggaattggcaagccttgatgctaattttggaattgtcttctcttag Alignment from Exonerate_coding2genome CCAGAGGAGACCCAGGAAAAGGCTGAGAAG-GATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG tttaggaggcggcaagttggtatgaatttgcctttgccctctaactgcagCCAGAGGAGACCCAAGAAAAGGCTGAGAAGCGATGAGCCAGGAGCTTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtatggaattggcaagccttgatgctaattttggaattgtcttctcttag Alignment from GeneWise CCAGAGGAGACCCAGGAAAAGGCTGAG-AAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG tttaggaggcggcaagttggtatgaatttgcctttgccctctaactgcagCCAGAGGAGACCCAAGAAAAGGCTGAGAAGCGATGAGCCAGGAGCTTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtatggaattggcaagccttgatgctaattttggaattgtcttctcttag #### Ganab_ID2473_12 --> 2 - 0 Original Alignment ggACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTT-GAGCACTTGGCTTCCAAGAGGCGGAAG acaaagcatttatactcttaccagaccaccgtctaccttctgccctgcaggcTCCCAGACATTGCCCCCCCCCTCATCCCTTGGCTACCATCAAAGTCGCTGGAACTACCGTGATGAAGCAGATACCTTAGAGGTAGGCCAGGGTTTTGACGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGATCCCACCCAATTCCCCCAGCCACTTAATATGCTTCGATCACTTGACTTCAAAGCGACGGAAGgtaactggtgttacagctatccatattttttgtccagggttgggaaatgg Alignment from CESAR ggACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTT-GAGCACTTGGCTTCCAAGAGGCGGAAG acaaagcatttatactcttaccagaccaccgtctaccttctgccctgcaggcTCCCAGACATTGCCCCCCCCCTCATCCCTTGGCTACCATCAAAGTCGCTGGAACTACCGTGATGAAGCAGATACCTTAGAGGTAGGCCAGGGTTTTGACGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGATCCCACCCAATTCCCCCAGCCACTTAATATGCTTCGATCACTTGACTTCAAAGCGACGGAAGgtaactggtgttacagctatccatattttttgtccagggttgggaaatgg Alignment from Spaln_aa2Genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTT-GAGCACTTGGCTTCCAAGAGGCGGAAG acaaagcatttatactcttaccagaccaccgtctaccttctgccctgcagGCTCCCAGACATTGCCCCCCCCCTCATCCCTTGGCTACCATCAAAGTCGCTGGAACTACCGTGATGAAGCAGATACCTTAGAGGTAGGCCAGGGTTTTGACGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGATCCCACCCAATTCCCCCAGCCACTTAATATGCTTcGATCACTTGACTTCAAAGCGACGGAAGgtaactggtgttacagctatccatattttttgtccagggttgggaaatgg Alignment from Spaln_nt2Genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTT-GAGCACTTGGCTTCCAAGAGGCGGAAG acaaagcatttatactcttaccagaccaccgtctaccttctgccctgcagGCTCCCAGACATTGCCCCCCCCCTCATCCCTTGGCTACCATCAAAGTCGCTGGAACTACCGTGATGAAGCAGATACCTTAGAGGTAGGCCAGGGTTTTGACGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGATCCCACCCAATTCCCCCAGCCACTTAATATGCTTCGATCACTTGACTTCAAAGCGACGGAAGgtaactggtgttacagctatccatattttttgtccagggttgggaaatgg Alignment from Pairagon GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTT-GAGCACTTGGCTTCCAAGAGGCGGAAG acaaagcatttatactcttaccagaccaccgtctaccttctgccctgcagGCTCCCAGACATTGCCCCCCCCCTCATCCCTTGGCTACCATCAAAGTCGCTGGAACTACCGTGATGAAGCAGATACCTTAGAGGTAGGCCAGGGTTTTGACGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGATCCCACCCAATTCCCCCAGCCACTTAATATGCTTCGATCACTTGACTTCAAAGCGACGGAAGgtaactggtgttacagctatccatattttttgtccagggttgggaaatgg Alignment from Exonerate_protein2genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTT-GAGCACTTGGCTTCCAAGAGGCGGAAG acaaagcatttatactcttaccagaccaccgtctaccttctgccctgcagGCTCCCAGACATTGCCCCCCCCCTCATCCCTTGGCTACCATCAAAGTCGCTGGAACTACCGTGATGAAGCAGATACCTTAGAGGTAGGCCAGGGTTTTGACGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGATCCCACCCAATTCCCCCAGCCACTTAATATGCTTCGATCACTTGACTTCAAAGCGACGGAAGgtaactggtgttacagctatccatattttttgtccagggttgggaaatgg Alignment from Exonerate_coding2genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTT-GAGCACTTGGCTTCCAAGAGGCGGAAG acaaagcatttatactcttaccagaccaccgtctaccttctgccctgcagGCTCCCAGACATTGCCCCCCCCCTCATCCCTTGGCTACCATCAAAGTCGCTGGAACTACCGTGATGAAGCAGATACCTTAGAGGTAGGCCAGGGTTTTGACGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGATCCCACCCAATTCCCCCAGCCACTTAATATGCTTCGATCACTTGACTTCAAAGCGACGGAAGgtaactggtgttacagctatccatattttttgtccagggttgggaaatgg Alignment from GeneWise GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTT-GAGCACTTGGCTTCCAAGAGGCGGAAG acaaagcatttatactcttaccagaccaccgtctaccttctgccctgcagGCTCCCAGACATTGCCCCCCCCCTCATCCCTTGGCTACCATCAAAGTCGCTGGAACTACCGTGATGAAGCAGATACCTTAGAGGTAGGCCAGGGTTTTGACGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGATCCCACCCAATTCCCCCAGCCACTTAATATGCTTCGATCACTTGACTTCAAAGCGACGGAAGgtaactggtgttacagctatccatattttttgtccagggttgggaaatgg #### Ganab_ID2476_15 --> 0 - 0 Original Alignment GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTG-AAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG gttactgtaatctttttttccttctccaatctattatcttttaattacagGGTTCTGCCCCCAATCTGTATGTATGGATAGAAATGAATGAACCTTCTGTCTTCAATGGTCCTGAGGTCACCATGTTACAAGGATGCAGTGCACTATGGAGGCTGGGAGCACCGGGATATCCACAATTTTTATGGATTATATGTGgtgagctgagtaaatcacaaggcagtcaagcaaagaggacaaaaaagttg Alignment from CESAR GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTG-AAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG gttactgtaatctttttttccttctccaatctattatcttttaattacagGGTTCTGCCCCCAATCTGTATGTATGGATAGAAATGAATGAACCTTCTGTCTTCAATGGTCCTGAGGTCACCATGTTACAAGGATGCAGTGCACTATGGAGGCTGGGAGCACCGGGATATCCACAATTTTTATGGATTATATGTGgtgagctgagtaaatcacaaggcagtcaagcaaagaggacaaaaaagttg Alignment from Spaln_aa2Genome GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTG-AAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG gttactgtaatctttttttccttctccaatctattatcttttaattacagGGTTCTGCCCCCAATCTGTATGTATGGATAGAAATGAATGAACCTTCTGTCTTCAATGGTCCTGAGGTCACCATGTTAcAAGGATGCAGTGCACTATGGAGGCTGGGAGCACCGGGATATCCACAATTTTTATGGATTATATGTGgtgagctgagtaaatcacaaggcagtcaagcaaagaggacaaaaaagttg Alignment from Spaln_nt2Genome GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTG-AAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG gttactgtaatctttttttccttctccaatctattatcttttaattacagGGTTCTGCCCCCAATCTGTATGTATGGATAGAAATGAATGAACCTTCTGTCTTCAATGGTCCTGAGGTCACCATGTTACAAGGATGCAGTGCACTATGGAGGCTGGGAGCACCGGGATATCCACAATTTTTATGGATTATATGTGgtgagctgagtaaatcacaaggcagtcaagcaaagaggacaaaaaagttg Alignment from Pairagon GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTG-AAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG gttactgtaatctttttttccttctccaatctattatcttttaattacagGGTTCTGCCCCCAATCTGTATGTATGGATAGAAATGAATGAACCTTCTGTCTTCAATGGTCCTGAGGTCACCATGTTACAAGGATGCAGTGCACTATGGAGGCTGGGAGCACCGGGATATCCACAATTTTTATGGATTATATGTGgtgagctgagtaaatcacaaggcagtcaagcaaagaggacaaaaaagttg Alignment from Exonerate_protein2genome GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTG-AAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG gttactgtaatctttttttccttctccaatctattatcttttaattacagGGTTCTGCCCCCAATCTGTATGTATGGATAGAAATGAATGAACCTTCTGTCTTCAATGGTCCTGAGGTCACCATGTTACAAGGATGCAGTGCACTATGGAGGCTGGGAGCACCGGGATATCCACAATTTTTATGGATTATATGTGgtgagctgagtaaatcacaaggcagtcaagcaaagaggacaaaaaagttg Alignment from Exonerate_coding2genome GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTG-AAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG gttactgtaatctttttttccttctccaatctattatcttttaattacagGGTTCTGCCCCCAATCTGTATGTATGGATAGAAATGAATGAACCTTCTGTCTTCAATGGTCCTGAGGTCACCATGTTACAAGGATGCAGTGCACTATGGAGGCTGGGAGCACCGGGATATCCACAATTTTTATGGATTATATGTGgtgagctgagtaaatcacaaggcagtcaagcaaagaggacaaaaaagttg Alignment from GeneWise GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATG-TTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG gttactgtaatctttttttccttctccaatctattatcttttaattacagGGTTCTGCCCCCAATCTGTATGTATGGATAGAAATGAATGAACCTTCTGTCTTCAATGGTCCTGAGGTCACCATGTTACAAGGATGCAGTGCACTATGGAGGCTGGGAGCACCGGGATATCCACAATTTTTATGGATTATATGTGgtgagctgagtaaatcacaaggcagtcaagcaaagaggacaaaaaagttg #### Ganab_ID2478_17 --> 2 - 1 Original Alignment gaGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTG-GTGGGGCTTTCCTTCTGTGGAg cagtgtctactattttgtgggtgcagtcaatatgtgtctaattttctcaggaGCTGTGTGGGCAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGCCTCAGCTTGGCATTGCGTGGGGCTTTCATTCTGTGGAggtgagtgcagttatcatctgggctcttgcattgggtgggtgtgttggtac Alignment from CESAR gaGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTG-GTGGGGCTTTCCTTCTGTGGAg cagtgtctactattttgtgggtgcagtcaatatgtgtctaattttctcaggaGCTGTGTGGGCAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGCCTCAGCTTGGCATTGCGTGGGGCTTTCATTCTGTGGAggtgagtgcagttatcatctgggctcttgcattgggtgggtgtgttggtac Alignment from Spaln_aa2Genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTG-GTGGGGCTTTCCTTCTGTGGAG cagtgtctactattttgtgggtgcagtcaatatgtgtctaattttctcagGAGCTGTGTGGGCAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGCCTCAGCTTGGCATTGcGTGGGGCTTTCATTCTGTGGAGgtgagtgcagttatcatctgggctcttgcattgggtgggtgtgttggtac Alignment from Spaln_nt2Genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTG-GTGGGGCTTTCCTTCTGTGGAG cagtgtctactattttgtgggtgcagtcaatatgtgtctaattttctcagGAGCTGTGTGGGCAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGCCTCAGCTTGGCATTGCGTGGGGCTTTCATTCTGTGGAGgtgagtgcagttatcatctgggctcttgcattgggtgggtgtgttggtac Alignment from Pairagon GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTG-GTGGGGCTTTCCTTCTGTGGAG cagtgtctactattttgtgggtgcagtcaatatgtgtctaattttctcagGAGCTGTGTGGGCAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGCCTCAGCTTGGCATTGCGTGGGGCTTTCATTCTGTGGAGgtgagtgcagttatcatctgggctcttgcattgggtgggtgtgttggtac Alignment from Exonerate_protein2genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTG-GTGGGGCTTTCCTTCTGTGGAG cagtgtctactattttgtgggtgcagtcaatatgtgtctaattttctcagGAGCTGTGTGGGCAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGCCTCAGCTTGGCATTGCGTGGGGCTTTCATTCTGTGGAGgtgagtgcagttatcatctgggctcttgcattgggtgggtgtgttggtac Alignment from Exonerate_coding2genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTG-GTGGGGCTTTCCTTCTGTGGAG cagtgtctactattttgtgggtgcagtcaatatgtgtctaattttctcagGAGCTGTGTGGGCAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGCCTCAGCTTGGCATTGCGTGGGGCTTTCATTCTGTGGAGgtgagtgcagttatcatctgggctcttgcattgggtgggtgtgttggtac Alignment from GeneWise GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTG- cagtgtctactattttgtgggtgcagtcaatatgtgtctaattttctcagGAGCTGTGTGGGCAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGCCTCAGCTTGGCATTGCgtggggctttcattctgtggaggtgagtgcagttatcatctgggctcttgcattgggtgggtgtgttggtac #### Ganab_ID2483_22 --> 0 - 0 Original Alignment ATCCCCGTGTTCCAGCGTGGCGGA-ACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtatagcataaaagaaatgaagtcatgatctgtcttctgtgtggcctcagATCCCTGTGTTCCAGTGTGGTGGCCACCATTGTCCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGCATGAAGGATGATCCTATCACTCTTTTTGTTGCTCTCAGTCCCCAGgtaagcatttaatcaccaggactgggtccattatagatttattttaaatc Alignment from CESAR ATCCCCGTGTTCCAGCGTGGCGGA-ACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtatagcataaaagaaatgaagtcatgatctgtcttctgtgtggcctcagATCCCTGTGTTCCAGTGTGGTGGCCACCATTGTCCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGCATGAAGGATGATCCTATCACTCTTTTTGTTGCTCTCAGTCCCCAGgtaagcatttaatcaccaggactgggtccattatagatttattttaaatc Alignment from Spaln_aa2Genome ATCCCCGTGTTCCAGCGTGGCGGA-ACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtatagcataaaagaaatgaagtcatgatctgtcttctgtgtggcctcagATCCCTGTGTTCCAGTGTGGTGGCcACCATTGTCCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGCATGAAGGATGATCCTATCACTCTTTTTGTTGCTCTCAGTCCCCAGgtaagcatttaatcaccaggactgggtccattatagatttattttaaatc Alignment from Spaln_nt2Genome ATCCCCGTGTTCCAGCGTGGCGGA-ACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtatagcataaaagaaatgaagtcatgatctgtcttctgtgtggcctcagATCCCTGTGTTCCAGTGTGGTGGCCACCATTGTCCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGCATGAAGGATGATCCTATCACTCTTTTTGTTGCTCTCAGTCCCCAGgtaagcatttaatcaccaggactgggtccattatagatttattttaaatc Alignment from Pairagon ATCCCCGTGTTCCAGCGTGGCGG-AACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtatagcataaaagaaatgaagtcatgatctgtcttctgtgtggcctcagATCCCTGTGTTCCAGTGTGGTGGCCACCATTGTCCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGCATGAAGGATGATCCTATCACTCTTTTTGTTGCTCTCAGTCCCCAGgtaagcatttaatcaccaggactgggtccattatagatttattttaaatc Alignment from Exonerate_protein2genome ATCCCCGTGTTCCAGCGTGGCGGA-ACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtatagcataaaagaaatgaagtcatgatctgtcttctgtgtggcctcagATCCCTGTGTTCCAGTGTGGTGGCCACCATTGTCCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGCATGAAGGATGATCCTATCACTCTTTTTGTTGCTCTCAGTCCCCAGgtaagcatttaatcaccaggactgggtccattatagatttattttaaatc Alignment from Exonerate_coding2genome ATCCCCGTGTTCCAGCGTGGCGGA-ACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtatagcataaaagaaatgaagtcatgatctgtcttctgtgtggcctcagATCCCTGTGTTCCAGTGTGGTGGCCACCATTGTCCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGCATGAAGGATGATCCTATCACTCTTTTTGTTGCTCTCAGTCCCCAGgtaagcatttaatcaccaggactgggtccattatagatttattttaaatc Alignment from GeneWise ATCCCCGTGTTCCAGCGTGGCGGA-ACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtatagcataaaagaaatgaagtcatgatctgtcttctgtgtggcctcagATCCCTGTGTTCCAGTGTGGTGGCCACCATTGTCCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGCATGAAGGATGATCCTATCACTCTTTTTGTTGCTCTCAGTCCCCAGgtaagcatttaatcaccaggactgggtccattatagatttattttaaatc #### Ganab_ID2485_24 --> 1 - 1 Original Alignment tTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATT-GAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAg gccctgcctccagtttctgctacctgtgattgagtctttgtctctcccagcCTAGCCGACCCTAAAGGCCATCAGGAGACTCCTATCTGGGTGCGAGCAAGTTATTATAATGGGGGCTGGGAAGCCAGCTGCTGTGGTGCACCAAGCAAAGggtaggaagatgcaatatgaattgatagaaacagtattagagatgaccagc Alignment from CESAR tTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATT-GAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAg gccctgcctccagtttctgctacctgtgattgagtctttgtctctcccagcCTAGCCGACCCTAAAGGCCATCAGGAGACTCCTATCTGGGTGCGAGCAAGTTATTATAATGGGGGCTGGGAAGCCAGCTGCTGTGGTGCACCAAGCAAAGggtaggaagatgcaatatgaattgatagaaacagtattagagatgaccagc Alignment from Spaln_aa2Genome TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATT-GAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG gccctgcctccagtttctgctacctgtgattgagtctttgtctctcccagCCTAGCCGACCCTAAAGGCCATCAGGAGACTCCTATCTGGGTGcGAGCAAGTTATTATAATGGGGGCTGGGAAGCCAGCTGCTGTGGTGCACCAAGCAAAGGgtaggaagatgcaatatgaattgatagaaacagtattagagatgaccagc Alignment from Spaln_nt2Genome TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATT-GAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG gccctgcctccagtttctgctacctgtgattgagtctttgtctctcccagCCTAGCCGACCCTAAAGGCCATCAGGAGACTCCTATCTGGGTGCGAGCAAGTTATTATAATGGGGGCTGGGAAGCCAGCTGCTGTGGTGCACCAAGCAAAGGgtaggaagatgcaatatgaattgatagaaacagtattagagatgaccagc Alignment from Pairagon TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGAT-TGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG gccctgcctccagtttctgctacctgtgattgagtctttgtctctcccagCCTAGCCGACCCTAAAGGCCATCAGGAGACTCCTATCTGGGTGCGAGCAAGTTATTATAATGGGGGCTGGGAAGCCAGCTGCTGTGGTGCACCAAGCAAAGGgtaggaagatgcaatatgaattgatagaaacagtattagagatgaccagc Alignment from Exonerate_protein2genome TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATT-GAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG gccctgcctccagtttctgctacctgtgattgagtctttgtctctcccagCCTAGCCGACCCTAAAGGCCATCAGGAGACTCCTATCTGGGTGCGAGCAAGTTATTATAATGGGGGCTGGGAAGCCAGCTGCTGTGGTGCACCAAGCAAAGGgtaggaagatgcaatatgaattgatagaaacagtattagagatgaccagc Alignment from Exonerate_coding2genome TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATT-GAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG gccctgcctccagtttctgctacctgtgattgagtctttgtctctcccagCCTAGCCGACCCTAAAGGCCATCAGGAGACTCCTATCTGGGTGCGAGCAAGTTATTATAATGGGGGCTGGGAAGCCAGCTGCTGTGGTGCACCAAGCAAAGGgtaggaagatgcaatatgaattgatagaaacagtattagagatgaccagc Alignment from GeneWise TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGG-ATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG gccctgcctccagtttctgctacctgtgattgagtctttgtctctcccagCCTAGCCGACCCTAAAGGCCATCAGGAGACTCCTATCTGGGTGCGAGCAAGTTATTATAATGGGGGCTGGGAAGCCAGCTGCTGTGGTGCACCAAGCAAAGGgtaggaagatgcaatatgaattgatagaaacagtattagagatgaccagc #### Gbf1_ID9796_15 --> 2 - 1 Original Alignment ctGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGA-GGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGg ccacccagccacaagcattaggagaatgtgacctccgcgtctttctctagctGAAGGAGCAACCATTGATGGGAAATCCACAGGGGTTGCCTTGGATTCTCGCGGGCTTTACTTTCCCACTGGACGGGTGGTTG---ACAGATTATGGTAAACCAGGGTGCAGAGACCTAGAAGAATCAGGTGATTCTAGCcgtatgtaacacaatacgttcatcccacttgaactaccagtcaatgtttta Alignment from CESAR ctGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGA-GGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGg ccacccagccacaagcattaggagaatgtgacctccgcgtctttctctagctGAAGGAGCAACCATTGATGGGAAATCCACAGGGGTTGCCTTGGATTCTCGCGGGCTTTACTTTCCCACTGGACGGGTGGTTG---ACAGATTATGGTAAACCAGGGTGCAGAGACCTAGAAGAATCAGGTGATTCTAGCcgtatgtaacacaatacgttcatcccacttgaactaccagtcaatgtttta Alignment from Spaln_aa2Genome CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGA-GGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG ccacccagccacaagcattaggagaatgtgacctccgcgtctttctctagCTGAAGGAGCAACCATTGATGGGAAATCCACAGGGGTTGCCTTGGATTCTCGCGGGCTTTACTTTCCCACTGGAcGGGTGGTTG---ACAGATTATGGTAAACCAGGGTGCAGAGACCTAGAAGAATCAGGTGATTCTAGCCgtatgtaacacaatacgttcatcccacttgaactaccagtcaatgtttta Alignment from Spaln_nt2Genome CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG ccacccagccacaagcattaggagaatgtgacctccgcgtctttctctagCTGAAGGAGCAACCATTGATGGGAAATCCACAGGGGTTGCCTTGGATTCTCGCGGGCTTTACTTTCCCACTGGACG--GGTGGTTGACAGATTATGGTAAACCAGGGTGCAGAGACCTAGAAGAATCAGGTGATTCTAGCCgtatgtaacacaatacgttcatcccacttgaactaccagtcaatgtttta Alignment from Pairagon CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGA-GGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG ccacccagccacaagcattaggagaatgtgacctccgcgtctttctctagCTGAAGGAGCAACCATTGATGGGAAATCCACAGGGGTTGCCTTGGATTCTCGCGGGCTTTACTTTCCCACTGGACGGGTGGTTG---ACAGATTATGGTAAACCAGGGTGCAGAGACCTAGAAGAATCAGGTGATTCTAGCCgtatgtaacacaatacgttcatcccacttgaactaccagtcaatgtttta Alignment from Exonerate_protein2genome CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGA-GGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG ccacccagccacaagcattaggagaatgtgacctccgcgtctttctctagCTGAAGGAGCAACCATTGATGGGAAATCCACAGGGGTTGCCTTGGATTCTCGCGGGCTTTACTTTCCCACTGGACGGGTGGTTG---ACAGATTATGGTAAACCAGGGTGCAGAGACCTAGAAGAATCAGGTGATTCTAGCCgtatgtaacacaatacgttcatcccacttgaactaccagtcaatgtttta Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGA-GGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG ccacccagccacaagcattaggagaatgtgacctccgcgtctttctctagCTGAAGGAGCAACCATTGATGGGAAATCCACAGGGGTTGCCTTGGATTCTCGCGGGCTTTACTTTCCCACTGGACGGGTGGTTG---ACAGATTATGGTAAACCAGGGTGCAGAGACCTAGAAGAATCAGGTGATTCTAGCCgtatgtaacacaatacgttcatcccacttgaactaccagtcaatgtttta #### Gbf1_ID9797_16 --> 2 - 0 Original Alignment ctGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCA-CGGGAACTAATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtgttgtaagcttctgttttctcttgcagcaGACAAAAAGTTCACCAGGAAGCCACCTCGTTATTCCTGCCTCCTGCCAGATCCACTGGGAATTAATTGAAATTAAAAACAAAAAAAAGgtattggtagtgaacctattcaactatctccaatgctcacctgtctcagc Alignment from CESAR ctGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGG-GAACTAATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtgttgtaagcttctgttttctcttgcagcaGACAAAAAGTTCACCAGGAAGCCACCTCGTTATTCCTGCCTCCTGCCAGATCCACTGGGAATTAATTGAAATTAAAAACAAAAAAAAGgtattggtagtgaacctattcaactatctccaatgctcacctgtctcagc Alignment from Spaln_aa2Genome CTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCA-CGGGAACTAATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtgttgtaagcttctgttttctcttgcagCAGACAAAAAGTTCACCAGGAAGCCACCTCGTTATTCCTGCCTCCTGCCAGATCCAcTGGGAATTAATTGAAATTAAAAACAAAAAAAAGgtattggtagtgaacctattcaactatctccaatgctcacctgtctcagc Alignment from Spaln_nt2Genome CTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCAC-GGGAACTAATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtgttgtaagcttctgttttctcttgcagCAGACAAAAAGTTCACCAGGAAGCCACCTCGTTATTCCTGCCTCCTGCCAGATCCACTGGGAATTAATTGAAATTAAAAACAAAAAAAAGgtattggtagtgaacctattcaactatctccaatgctcacctgtctcagc Alignment from Pairagon CTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCAC-GGGAACTAATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtgttgtaagcttctgttttctcttgcagCAGACAAAAAGTTCACCAGGAAGCCACCTCGTTATTCCTGCCTCCTGCCAGATCCACTGGGAATTAATTGAAATTAAAAACAAAAAAAAGgtattggtagtgaacctattcaactatctccaatgctcacctgtctcagc Alignment from Exonerate_protein2genome CTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGG-GAACTAATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtgttgtaagcttctgttttctcttgcagCAGACAAAAAGTTCACCAGGAAGCCACCTCGTTATTCCTGCCTCCTGCCAGATCCACTGGGAATTAATTGAAATTAAAAACAAAAAAAAGgtattggtagtgaacctattcaactatctccaatgctcacctgtctcagc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCA-CGGGAACTAATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtgttgtaagcttctgttttctcttgcagCAGACAAAAAGTTCACCAGGAAGCCACCTCGTTATTCCTGCCTCCTGCCAGATCCACTGGGAATTAATTGAAATTAAAAACAAAAAAAAGgtattggtagtgaacctattcaactatctccaatgctcacctgtctcagc #### Gbf1_ID9804_23 --> 0 - 0 Original Alignment TCTATTGAGAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCAT-GGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG agggtttcctagactgaacctggctaacatgttcgctctattatttttagTCTATAGAAAACCTTCCCAGTGTTTTTGGTAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATCGGTGACATCCTTCGAGAGGGGTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCTCAACTTTTACCTAAAGCTATGGTTGAGgtgagggctaatcaaggctccttggcatactatagcctcatgtcccacta Alignment from CESAR TCTATTGAGAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCAT-GGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG agggtttcctagactgaacctggctaacatgttcgctctattatttttagTCTATAGAAAACCTTCCCAGTGTTTTTGGTAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATCGGTGACATCCTTCGAGAGGGGTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCTCAACTTTTACCTAAAGCTATGGTTGAGgtgagggctaatcaaggctccttggcatactatagcctcatgtcccacta Alignment from Spaln_aa2Genome TCTATTGAGAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCAT-GGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG agggtttcctagactgaacctggctaacatgttcgctctattatttttagTCTATAGAAAACCTTCCCAGTGTTTTTGGTAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATcGGTGACATCCTTCGAGAGGGGTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCTCAACTTTTACCTAAAGCTATGGTTGAGgtgagggctaatcaaggctccttggcatactatagcctcatgtcccacta Alignment from Spaln_nt2Genome TCTATTGAGAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCAT-GGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG agggtttcctagactgaacctggctaacatgttcgctctattatttttagTCTATAGAAAACCTTCCCAGTGTTTTTGGTAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATCGGTGACATCCTTCGAGAGGGGTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCTCAACTTTTACCTAAAGCTATGGTTGAGgtgagggctaatcaaggctccttggcatactatagcctcatgtcccacta Alignment from Pairagon TCTATTGAGAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCAT-GGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG agggtttcctagactgaacctggctaacatgttcgctctattatttttagTCTATAGAAAACCTTCCCAGTGTTTTTGGTAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATCGGTGACATCCTTCGAGAGGGGTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCTCAACTTTTACCTAAAGCTATGGTTGAGgtgagggctaatcaaggctccttggcatactatagcctcatgtcccacta Alignment from Exonerate_protein2genome TCTATTGAGAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCAT-GGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG agggtttcctagactgaacctggctaacatgttcgctctattatttttagTCTATAGAAAACCTTCCCAGTGTTTTTGGTAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATCGGTGACATCCTTCGAGAGGGGTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCTCAACTTTTACCTAAAGCTATGGTTGAGgtgagggctaatcaaggctccttggcatactatagcctcatgtcccacta Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TCTATTGAGAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCAT-GGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG agggtttcctagactgaacctggctaacatgttcgctctattatttttagTCTATAGAAAACCTTCCCAGTGTTTTTGGTAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATCGGTGACATCCTTCGAGAGGGGTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCTCAACTTTTACCTAAAGCTATGGTTGAGgtgagggctaatcaaggctccttggcatactatagcctcatgtcccacta #### Gbf1_ID9806_25 --> 1 - 0 Original Alignment aGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAAC-CAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatactatcagtactatttaatctttgtggtcttttcagaGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTGGCCCTCAACAGTCAAGTGTCCAGGGCCCTTCTACAGAGAACCCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtgagttgttgacccaatgtcacaaggataaccatgcacagattttatag Alignment from CESAR aGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAAC-CAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatactatcagtactatttaatctttgtggtcttttcagaGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTGGCCCTCAACAGTCAAGTGTCCAGGGCCCTTCTACAGAGAACCCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtgagttgttgacccaatgtcacaaggataaccatgcacagattttatag Alignment from Spaln_aa2Genome AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAAC-CAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatactatcagtactatttaatctttgtggtcttttcagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTGGCCCTCAACAGTCAAGTGTCCAGGGCCCTTCTACAGAGAACcCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtgagttgttgacccaatgtcacaaggataaccatgcacagattttatag Alignment from Spaln_nt2Genome AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAA-GAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatactatcagtactatttaatctttgtggtcttttcagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTGGCCCTCAACAGTCAAGTGTCCAGGGCCCTTCTACAGAGAACCCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtgagttgttgacccaatgtcacaaggataaccatgcacagattttatag Alignment from Pairagon AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAA-CCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatactatcagtactatttaatctttgtggtcttttcagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTGGCCCTCAACAGTCAAGTGTCCAGGGCCCTTCTACAGAGAACCCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtgagttgttgacccaatgtcacaaggataaccatgcacagattttatag Alignment from Exonerate_protein2genome AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAAC-CAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatactatcagtactatttaatctttgtggtcttttcagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTGGCCCTCAACAGTCAAGTGTCCAGGGCCCTTCTACAGAGAACCCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtgagttgttgacccaatgtcacaaggataaccatgcacagattttatag Alignment from Exonerate_coding2genome AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAAC-CAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatactatcagtactatttaatctttgtggtcttttcagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTGGCCCTCAACAGTCAAGTGTCCAGGGCCCTTCTACAGAGAACCCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtgagttgttgacccaatgtcacaaggataaccatgcacagattttatag Alignment from GeneWise AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAAC-CAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatactatcagtactatttaatctttgtggtcttttcagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTGGCCCTCAACAGTCAAGTGTCCAGGGCCCTTCTACAGAGAACCCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtgagttgttgacccaatgtcacaaggataaccatgcacagattttatag #### Gbf1_ID9808_27 --> 0 - 2 Original Alignment GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCT-GCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACag aagtgtgctagaatcccaacccctttatttgtcctgtttttcctttgcagGCTCTGGTCTCAGTAACCCCAGATGAAGAGACATATGATGAAGAAGATGCCCGCTTTTTGTCTTGAAATGCTGCTAAGGATTGTTCTAGAGAACaggtacaataagtttagcctgtagaagtcagaaggtcctaaagtggcttccc Alignment from CESAR GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCT-GCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACag aagtgtgctagaatcccaacccctttatttgtcctgtttttcctttgcagGCTCTGGTCTCAGTAACCCCAGATGAAGAGACATATGATGAAGAAGATGCCCGCTTTTTGTCTTGAAATGCTGCTAAGGATTGTTCTAGAGAACaggtacaataagtttagcctgtagaagtcagaaggtcctaaagtggcttccc Alignment from Spaln_aa2Genome GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTC-TGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACAG aagtgtgctagaatcccaacccctttatttgtcctgtttttcctttgcagGCTCTGGTCTCAGTAACCCCAGATGAAGAGACATATGATGAAGAAGATGCCCGCTTTtTGTCTTGAAATGCTGCTAAGGATTGTTCTAGAGAACAGgtacaataagtttagcctgtagaagtcagaaggtcctaaagtggcttccc Alignment from Spaln_nt2Genome GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCT-GCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACAG aagtgtgctagaatcccaacccctttatttgtcctgtttttcctttgcagGCTCTGGTCTCAGTAACCCCAGATGAAGAGACATATGATGAAGAAGATGCCCGCTTTTTGTCTTGAAATGCTGCTAAGGATTGTTCTAGAGAACAGgtacaataagtttagcctgtagaagtcagaaggtcctaaagtggcttccc Alignment from Pairagon GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATG-CTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACAG aagtgtgctagaatcccaacccctttatttgtcctgtttttcctttgcagGCTCTGGTCTCAGTAACCCCAGATGAAGAGACATATGATGAAGAAGATGCCCGCTTTTTGTCTTGAAATGCTGCTAAGGATTGTTCTAGAGAACAGgtacaataagtttagcctgtagaagtcagaaggtcctaaagtggcttccc Alignment from Exonerate_protein2genome GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCT-GCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACAG aagtgtgctagaatcccaacccctttatttgtcctgtttttcctttgcagGCTCTGGTCTCAGTAACCCCAGATGAAGAGACATATGATGAAGAAGATGCCCGCTTTTTGTCTTGAAATGCTGCTAAGGATTGTTCTAGAGAACAGgtacaataagtttagcctgtagaagtcagaaggtcctaaagtggcttccc Alignment from Exonerate_coding2genome GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCT-GCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACAG aagtgtgctagaatcccaacccctttatttgtcctgtttttcctttgcagGCTCTGGTCTCAGTAACCCCAGATGAAGAGACATATGATGAAGAAGATGCCCGCTTTTTGTCTTGAAATGCTGCTAAGGATTGTTCTAGAGAACAGgtacaataagtttagcctgtagaagtcagaaggtcctaaagtggcttccc Alignment from GeneWise GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGAT-GCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACAG aagtgtgctagaatcccaacccctttatttgtcctgtttttcctttgcagGCTCTGGTCTCAGTAACCCCAGATGAAGAGACATATGATGAAGAAGATGCCCGCTTTTTGTCTTGAAATGCTGCTAAGGATTGTTCTAGAGAACAGgtacaataagtttagcctgtagaagtcagaaggtcctaaagtggcttccc #### Gbf1_ID9812_31 --> 0 - 1 Original Alignment GTGGGGAAGGATGACATTGATAACTCCAAACCAGGA-GCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTg tatcactcctaacctgaaatatgggcacgtataatttggtcttgccctagGTGGGGAAGGATGATATTGATAATTCTAAGCCAGGGCGCAGGACTCAGTAAGCCAGGTACTTCTCCACTGGTCAACCAGTATAGCCTCACAGTAGGCTTGGATCTGGGCCCACATGACACTAAGTCCTTACTTAAGTGTGTTGAATCTCTGTCCTTTATTATCAAAGATGCTGCCCACATCACACCTGATAATTTTGAACTGGGTGTCAAGACCCTCTGTATCTTTGTAGAGGCCAGTCTGAATGATggtgagctatcctacacaccagtgagtacatcatgagtgacatggaggaat Alignment from CESAR GTGGGGAAGGATGACATTGATAACTCCAAACCAGGA-GCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTg tatcactcctaacctgaaatatgggcacgtataatttggtcttgccctagGTGGGGAAGGATGATATTGATAATTCTAAGCCAGGGCGCAGGACTCAGTAAGCCAGGTACTTCTCCACTGGTCAACCAGTATAGCCTCACAGTAGGCTTGGATCTGGGCCCACATGACACTAAGTCCTTACTTAAGTGTGTTGAATCTCTGTCCTTTATTATCAAAGATGCTGCCCACATCACACCTGATAATTTTGAACTGGGTGTCAAGACCCTCTGTATCTTTGTAGAGGCCAGTCTGAATGATggtgagctatcctacacaccagtgagtacatcatgagtgacatggaggaat Alignment from Spaln_aa2Genome GTGGGGAAGGATGACATTGATAACTCCAAACCA-GGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTG tatcactcctaacctgaaatatgggcacgtataatttggtcttgccctagGTGGGGAAGGATGATATTGATAATTCTAAGCCAgGGCGCAGGACTCAGTAAGCCAGGTACTTCTCCACTGGTCAACCAGTATAGCCTCACAGTAGGCTTGGATCTGGGCCCACATGACACTAAGTCCTTACTTAAGTGTGTTGAATCTCTGTCCTTTATTATCAAAGATGCTGCCCACATCACACCTGATAATTTTGAACTGGGTGTCAAGACCCTCTGTATCTTTGTAGAGGCCAGTCTGAATGATGgtgagctatcctacacaccagtgagtacatcatgagtgacatggaggaat Alignment from Spaln_nt2Genome GTGGGGAAGGATGACATTGATAACTCCAAACCAGGA-GCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTG tatcactcctaacctgaaatatgggcacgtataatttggtcttgccctagGTGGGGAAGGATGATATTGATAATTCTAAGCCAGGGCGCAGGACTCAGTAAGCCAGGTACTTCTCCACTGGTCAACCAGTATAGCCTCACAGTAGGCTTGGATCTGGGCCCACATGACACTAAGTCCTTACTTAAGTGTGTTGAATCTCTGTCCTTTATTATCAAAGATGCTGCCCACATCACACCTGATAATTTTGAACTGGGTGTCAAGACCCTCTGTATCTTTGTAGAGGCCAGTCTGAATGATGgtgagctatcctacacaccagtgagtacatcatgagtgacatggaggaat Alignment from Pairagon GTGGGGAAGGATGACATTGATAACTCCAAACCAGGA-GCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTG tatcactcctaacctgaaatatgggcacgtataatttggtcttgccctagGTGGGGAAGGATGATATTGATAATTCTAAGCCAGGGCGCAGGACTCAGTAAGCCAGGTACTTCTCCACTGGTCAACCAGTATAGCCTCACAGTAGGCTTGGATCTGGGCCCACATGACACTAAGTCCTTACTTAAGTGTGTTGAATCTCTGTCCTTTATTATCAAAGATGCTGCCCACATCACACCTGATAATTTTGAACTGGGTGTCAAGACCCTCTGTATCTTTGTAGAGGCCAGTCTGAATGATGgtgagctatcctacacaccagtgagtacatcatgagtgacatggaggaat Alignment from Exonerate_protein2genome GTGGGGAAGGATGACATTGATAACTCCAAACCA-GGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTG tatcactcctaacctgaaatatgggcacgtataatttggtcttgccctagGTGGGGAAGGATGATATTGATAATTCTAAGCCAGGGCGCAGGACTCAGTAAGCCAGGTACTTCTCCACTGGTCAACCAGTATAGCCTCACAGTAGGCTTGGATCTGGGCCCACATGACACTAAGTCCTTACTTAAGTGTGTTGAATCTCTGTCCTTTATTATCAAAGATGCTGCCCACATCACACCTGATAATTTTGAACTGGGTGTCAAGACCCTCTGTATCTTTGTAGAGGCCAGTCTGAATGATGgtgagctatcctacacaccagtgagtacatcatgagtgacatggaggaat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTGGGGAAGGATGACATTGATAACTCCAAACCAGGA-GCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTG tatcactcctaacctgaaatatgggcacgtataatttggtcttgccctagGTGGGGAAGGATGATATTGATAATTCTAAGCCAGGGCGCAGGACTCAGTAAGCCAGGTACTTCTCCACTGGTCAACCAGTATAGCCTCACAGTAGGCTTGGATCTGGGCCCACATGACACTAAGTCCTTACTTAAGTGTGTTGAATCTCTGTCCTTTATTATCAAAGATGCTGCCCACATCACACCTGATAATTTTGAACTGGGTGTCAAGACCCTCTGTATCTTTGTAGAGGCCAGTCTGAATGATGgtgagctatcctacacaccagtgagtacatcatgagtgacatggaggaat #### Gbf1_ID9816_35 --> 0 - 0 Original Alignment GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTG-GGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG tcacaacatacaccccaaagggttgatacttctatttcttctctgcccagGTGCTATTTCCCCTTCTTTCCAAGCTCTTAGAGAATATTAGTCCTGCAGAGGTACGGTGGGATGGAAGAGACACGAATGCGGGCATCTACACTCCTTTCAAAGgtgtgttaccttgtttgcacactgacaagatggttatctcatcactggag Alignment from CESAR GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTG-GGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG tcacaacatacaccccaaagggttgatacttctatttcttctctgcccagGTGCTATTTCCCCTTCTTTCCAAGCTCTTAGAGAATATTAGTCCTGCAGAGGTACGGTGGGATGGAAGAGACACGAATGCGGGCATCTACACTCCTTTCAAAGgtgtgttaccttgtttgcacactgacaagatggttatctcatcactggag Alignment from Spaln_aa2Genome GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTG-GGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG tcacaacatacaccccaaagggttgatacttctatttcttctctgcccagGTGCTATTTCCCCTTCTTTCCAAGCTCTTAGAGAATATTAGTCCTGCAGAGGTAcGGTGGGATGGAAGAGACACGAATGCGGGCATCTACACTCCTTTCAAAGgtgtgttaccttgtttgcacactgacaagatggttatctcatcactggag Alignment from Spaln_nt2Genome GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTG-GGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG tcacaacatacaccccaaagggttgatacttctatttcttctctgcccagGTGCTATTTCCCCTTCTTTCCAAGCTCTTAGAGAATATTAGTCCTGCAGAGGTACGGTGGGATGGAAGAGACACGAATGCGGGCATCTACACTCCTTTCAAAGgtgtgttaccttgtttgcacactgacaagatggttatctcatcactggag Alignment from Pairagon GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTG-GGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG tcacaacatacaccccaaagggttgatacttctatttcttctctgcccagGTGCTATTTCCCCTTCTTTCCAAGCTCTTAGAGAATATTAGTCCTGCAGAGGTACGGTGGGATGGAAGAGACACGAATGCGGGCATCTACACTCCTTTCAAAGgtgtgttaccttgtttgcacactgacaagatggttatctcatcactggag Alignment from Exonerate_protein2genome GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTG-GGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG tcacaacatacaccccaaagggttgatacttctatttcttctctgcccagGTGCTATTTCCCCTTCTTTCCAAGCTCTTAGAGAATATTAGTCCTGCAGAGGTACGGTGGGATGGAAGAGACACGAATGCGGGCATCTACACTCCTTTCAAAGgtgtgttaccttgtttgcacactgacaagatggttatctcatcactggag Alignment from Exonerate_coding2genome TGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAGGTCTTCCTGCAGCATCTGTCTCCACTGCTG TCACAACATACACCCCAAAGGGTTGATACTTCTATTTCTTCTCTGCCCAGGTGCTATTTCCCCTTCTTTCCAAGCTC---TTAGAGAATATTAGTCCTGCAGAGgtacggtgggatggaagagacacgaatgcgggcatctacactcctttcaaaggtgtgttaccttgtttgcacactgacaagatggttatctcatcactggag Alignment from GeneWise GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGAT-GTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG tcacaacatacaccccaaagggttgatacttctatttcttctctgcccagGTGCTATTTCCCCTTCTTTCCAAGCTCTTAGAGAATATTAGTCCTGCAGAGGTACGGTGGGATGGAAGAGACACGAATGCGGGCATCTACACTCCTTTCAAAGgtgtgttaccttgtttgcacactgacaagatggttatctcatcactggag #### Gbf1_ID9818_37 --> 0 - 1 Original Alignment TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGC-CCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGg agtgtccattcaaactactacttctcctgctgcgtcctcttccttcttagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCTGATGCTAGAGGAGGAGGTCCCTACTACCCTCTGGGAGATAACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTAATCCAAggtaatggcagatttgataaccaagcagtttatgaactaacagaactaccc Alignment from CESAR TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCC-TCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGg agtgtccattcaaactactacttctcctgctgcgtcctcttccttcttagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCTGATGCTAGAGGAGGAGGTCCCTACTACCCTCTGGGAGATAACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTAATCCAAggtaatggcagatttgataaccaagcagtttatgaactaacagaactaccc Alignment from Spaln_aa2Genome TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCC-TCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtgtccattcaaactactacttctcctgctgcgtcctcttccttcttagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCTGATGCTAGAGGAGGAGGTCCCtACTACCCTCTGGGAGATAACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTAATCCAAGgtaatggcagatttgataaccaagcagtttatgaactaacagaactaccc Alignment from Spaln_nt2Genome TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCT-CTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtgtccattcaaactactacttctcctgctgcgtcctcttccttcttagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCTGATGCTAGAGGAGGAGGTCCCTACTACCCTCTGGGAGATAACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTAATCCAAGgtaatggcagatttgataaccaagcagtttatgaactaacagaactaccc Alignment from Pairagon TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCT-CTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtgtccattcaaactactacttctcctgctgcgtcctcttccttcttagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCTGATGCTAGAGGAGGAGGTCCCTACTACCCTCTGGGAGATAACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTAATCCAAGgtaatggcagatttgataaccaagcagtttatgaactaacagaactaccc Alignment from Exonerate_protein2genome TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGC-CCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtgtccattcaaactactacttctcctgctgcgtcctcttccttcttagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCTGATGCTAGAGGAGGAGGTCCCTACTACCCTCTGGGAGATAACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTAATCCAAGgtaatggcagatttgataaccaagcagtttatgaactaacagaactaccc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCC-TCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtgtccattcaaactactacttctcctgctgcgtcctcttccttcttagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCTGATGCTAGAGGAGGAGGTCCCTACTACCCTCTGGGAGATAACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTAATCCAAGgtaatggcagatttgataaccaagcagtttatgaactaacagaactaccc #### Gif_ID3279_3 --> 2 - 1 Original Alignment acCTGACAAGTGGGCAGCTTGCCCTCACCGTTATGGCTCTC-ACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAa tcctccctctgtcttgtgtagtttgtctcctcccctcccccactttgcagacTTGACAAGTGGGCAGCTGGCCCTCACTGTTATGGCTTTCCACATCCTCTTGCAGAGATCCAGGTAGTAAGGTTTCTACTCTG---AGGAAAATGGAAAACTGGTCACCTTCAagtacgtgtggcttgtgggggcattgagagggagagagtgtcatgcatgaa Alignment from CESAR acCTGACAAGTGGGCAGCTTGCCCTCACCGTTATGGCTCTC-ACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAa tcctccctctgtcttgtgtagtttgtctcctcccctcccccactttgcagacTTGACAAGTGGGCAGCTGGCCCTCACTGTTATGGCTTTCCACATCCTCTTGCAGAGATCCAGGTAGTAAGGTTTCTACT---CTGAGGAAAATGGAAAACTGGTCACCTTCAagtacgtgtggcttgtgggggcattgagagggagagagtgtcatgcatgaa Alignment from Spaln_aa2Genome ACCTGACAAGTGGGCAGCTTGCCCTCACCGTTATGGCTCTC-ACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAA tcctccctctgtcttgtgtagtttgtctcctcccctcccccactttgcagACTTGACAAGTGGGCAGCTGGCCCTCACTGTTATGGCTTTCcACATCCTCTTGCAGAGATCCAGGTAGTAAGGTTTCTACTCTGAGGAAA---ATGGAAAACTGGTCACCTTCAAgtacgtgtggcttgtgggggcattgagagggagagagtgtcatgcatgaa Alignment from Spaln_nt2Genome ACCTGACAAGTGGGCAGCTTGCCCTCACCGTTATGGCTCTC-ACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAA tcctccctctgtcttgtgtagtttgtctcctcccctcccccactttgcagACTTGACAAGTGGGCAGCTGGCCCTCACTGTTATGGCTTTCCACATCCTCTTGCAGAGATCCAGGTAGTAAGGTTTCTACT---CTGAGGAAAATGGAAAACTGGTCACCTTCAAgtacgtgtggcttgtgggggcattgagagggagagagtgtcatgcatgaa Alignment from Pairagon ACCTGACAAGTGGGCAGCTTGCCCTCACCGTTATGGCTCT-CACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAA tcctccctctgtcttgtgtagtttgtctcctcccctcccccactttgcagACTTGACAAGTGGGCAGCTGGCCCTCACTGTTATGGCTTTCCACATCCTCTTGCAGAGATCCAGGTAGTAAGGTTTCTACT---CTGAGGAAAATGGAAAACTGGTCACCTTCAAgtacgtgtggcttgtgggggcattgagagggagagagtgtcatgcatgaa Alignment from Exonerate_protein2genome ACCTGACAAGTGGGCAGCTTGCCCTCACCGTTATGGCTCTC-ACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAA tcctccctctgtcttgtgtagtttgtctcctcccctcccccactttgcagACTTGACAAGTGGGCAGCTGGCCCTCACTGTTATGGCTTTCCACATCCTCTTGCAGAGATCCAGGTAGTAAGGTTTCTACT---CTGAGGAAAATGGAAAACTGGTCACCTTCAAgtacgtgtggcttgtgggggcattgagagggagagagtgtcatgcatgaa Alignment from Exonerate_coding2genome ACCTGACAAGTGGGCAGCTTGCCCTCACCGTTATGGCTCTC-ACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAA tcctccctctgtcttgtgtagtttgtctcctcccctcccccactttgcagACTTGACAAGTGGGCAGCTGGCCCTCACTGTTATGGCTTTCCACATCCTCTTGCAGAGATCCAGGTAGTAAGGTTTCTACT---CTGAGGAAAATGGAAAACTGGTCACCTTCAAgtacgtgtggcttgtgggggcattgagagggagagagtgtcatgcatgaa Alignment from GeneWise ACCTGACAAGTGGGCAGCTTGCCCTCACCGTTATGGCT-CTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAA tcctccctctgtcttgtgtagtttgtctcctcccctcccccactttgcagACTTGACAAGTGGGCAGCTGGCCCTCACTGTTATGGCTTTCCACATCCTCTTGCAGAGATCCAGGTAGTAAGGTTTCTACTCTG---AGGAAAATGGAAAACTGGTCACCTTCAAgtacgtgtggcttgtgggggcattgagagggagagagtgtcatgcatgaa #### Gldc_ID6401_14 --> 0 - 0 Original Alignment GGATCCTGCACCATGAAGCTCAATAGC-TCCTCCGAACTTGCA gtatgtctatagcattgctgagtatgtcttactggcgttctttattgcagGGATCTTGCACCATGAAGCTTAATAGCCTCAGCTGAGCTTGGTgtcagtccagtaattaccatatgatgtcatgcttcacttcatgagttcaa Alignment from CESAR GGATCCTGCACCATGAAGCTCAATAGC-TCCTCCGAACTTGCA gtatgtctatagcattgctgagtatgtcttactggcgttctttattgcagGGATCTTGCACCATGAAGCTTAATAGCCTCAGCTGAGCTTGGTgtcagtccagtaattaccatatgatgtcatgcttcacttcatgagttcaa Alignment from Spaln_aa2Genome GGATCCTGCACCATGAAGCTCAATAGC-TCCTCCGAACTTGCA gtatgtctatagcattgctgagtatgtcttactggcgttctttattgcagGGATCTTGCACCATGAAGCTTAATAGCcTCAGCTGAGCTTGGTgtcagtccagtaattaccatatgatgtcatgcttcacttcatgagttcaa Alignment from Spaln_nt2Genome GGATCCTGCACCATGAAGCTCAATAGC-TCCTCCGAACTTGCA gtatgtctatagcattgctgagtatgtcttactggcgttctttattgcagGGATCTTGCACCATGAAGCTTAATAGCCTCAGCTGAGCTTGGTgtcagtccagtaattaccatatgatgtcatgcttcacttcatgagttcaa Alignment from Pairagon GGATCCTGCACCATGAAGCTCAATAGC---------------T gtatgtctatagcattgctgagtatgtcttactggcgttctttattgcagGGATCTTGCACCATGAAGCTTAATAGCCTCAGCTGAGCTTGGTgtcagtccagtaattaccatatgatgtcatgcttcacttcatgagttcaa Alignment from Exonerate_protein2genome GGATCCTGCACCATGAAGCTCAATAGC-TCCTCCGAACTTGCA gtatgtctatagcattgctgagtatgtcttactggcgttctttattgcagGGATCTTGCACCATGAAGCTTAATAGCCTCAGCTGAGCTTGGTgtcagtccagtaattaccatatgatgtcatgcttcacttcatgagttcaa Alignment from Exonerate_coding2genome GGATCCTGCACCATGAAGCTCAATAGC-TCCTCCGAACTTGCA gtatgtctatagcattgctgagtatgtcttactggcgttctttattgcagGGATCTTGCACCATGAAGCTTAATAGCCTCAGCTGAGCTTGGTgtcagtccagtaattaccatatgatgtcatgcttcacttcatgagttcaa Alignment from GeneWise gtatgtctatagcattgctgagtatgtcttactggcgttctttattgcagggatcttgcaccatgaagcttaatagcctcagctgagcttggtgtcagtccagtaattaccatatgatgtcatgcttcacttcatgagttcaa #### Gldc_ID6402_13 --> 1 - 0 Original Alignment cTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATC-TCCCTCGTTCACAGCATGATCCCACTG cctgtggaatggctaatctctgtgtttatttgcctctcttgcttgtgaagtTACCACTCAGAAACTAATCTTGTTCCGTACATGAAGAGATTGGAGAACCAAGATATTCTCCCTTTTACACAGTATGATTCCTCTAgtaacagcagtatgactggttaccatgtacattggtatctatcaggtgtg Alignment from CESAR cTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATC-TCCCTCGTTCACAGCATGATCCCACTG cctgtggaatggctaatctctgtgtttatttgcctctcttgcttgtgaagtTACCACTCAGAAACTAATCTTGTTCCGTACATGAAGAGATTGGAGAACCAAGATATTCTCCCTTTTACACAGTATGATTCCTCTAgtaacagcagtatgactggttaccatgtacattggtatctatcaggtgtg Alignment from Spaln_aa2Genome CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATC-TCCCTCGTTCACAGCATGATCCCACTG cctgtggaatggctaatctctgtgtttatttgcctctcttgcttgtgaagTTACCACTCAGAAACTAATCTTGTTCCGTACATGAAGAGATTGGAGAACCAAGATATTcTCCCTTTTACACAGTATGATTCCTCTAgtaacagcagtatgactggttaccatgtacattggtatctatcaggtgtg Alignment from Spaln_nt2Genome CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACAT-CTCCCTCGTTCACAGCATGATCCCACTG cctgtggaatggctaatctctgtgtttatttgcctctcttgcttgtgaagTTACCACTCAGAAACTAATCTTGTTCCGTACATGAAGAGATTGGAGAACCAAGATATTCTCCCTTTTACACAGTATGATTCCTCTAgtaacagcagtatgactggttaccatgtacattggtatctatcaggtgtg Alignment from Pairagon CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACA-TCTCCCTCGTTCACAGCATGATCCCACTG cctgtggaatggctaatctctgtgtttatttgcctctcttgcttgtgaagTTACCACTCAGAAACTAATCTTGTTCCGTACATGAAGAGATTGGAGAACCAAGATATTCTCCCTTTTACACAGTATGATTCCTCTAgtaacagcagtatgactggttaccatgtacattggtatctatcaggtgtg Alignment from Exonerate_protein2genome CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATC-TCCCTCGTTCACAGCATGATCCCACTG cctgtggaatggctaatctctgtgtttatttgcctctcttgcttgtgaagTTACCACTCAGAAACTAATCTTGTTCCGTACATGAAGAGATTGGAGAACCAAGATATTCTCCCTTTTACACAGTATGATTCCTCTAgtaacagcagtatgactggttaccatgtacattggtatctatcaggtgtg Alignment from Exonerate_coding2genome CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATC-TCCCTCGTTCACAGCATGATCCCACTG cctgtggaatggctaatctctgtgtttatttgcctctcttgcttgtgaagTTACCACTCAGAAACTAATCTTGTTCCGTACATGAAGAGATTGGAGAACCAAGATATTCTCCCTTTTACACAGTATGATTCCTCTAgtaacagcagtatgactggttaccatgtacattggtatctatcaggtgtg Alignment from GeneWise CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATC-TCCCTCGTTCACAGCATGATCCCACTG cctgtggaatggctaatctctgtgtttatttgcctctcttgcttgtgaagTTACCACTCAGAAACTAATCTTGTTCCGTACATGAAGAGATTGGAGAACCAAGATATTCTCCCTTTTACACAGTATGATTCCTCTAgtaacagcagtatgactggttaccatgtacattggtatctatcaggtgtg #### Gm815_ID5778_2 --> 0 - 1 Original Alignment TCCTTAGGAACGATGCTTCTGTGCTGCGTAGAAGCCCATGCCATGGGATTCCAGAACACTTCCTTCTCTACGTTTAGAACTGCT-TCCCATACTTTTTTCCCCCACt cagcttttttttacaccacaccttattcctgtattatttgtgttttgcagTCCTTAGGGACCATGCTTCTATGT------------------------------------------------------------CTCACAGACC------CACCACtgtctgtaaaaaaaaagatgagcccgtaatcttagtaaagttgatgggtta Alignment from CESAR TCCTTAGGAACGATGCTTCTGTGCTGCGTAGAAGCCCATGCCATGGGATTC-CAGAACACTTCCTTCTCTACGTTTAGAACTGCTTCCCATACTTTTTTCCCCCACt cagcttttttttacaccacaccttattcctgtattatttgtgttttgcagTCCTTAGGGACCATGCTTCTATGT------------------------CTCACAG------------------------------ACCCAC------------CACtgtctgtaaaaaaaaagatgagcccgtaatcttagtaaagttgatgggtta Alignment from Spaln_aa2Genome TCCTTAGGAACGATGCTTCTGTGCTGCGTAGAAGCCCATGC cagcttttttttacaccacaccttattcctgtattatttgtgttttgcagTCCTTAGGGACCATGCTTCTATGTCTCACAGACCCACCACTgtctgtaaaaaaaaagatgagcccgtaatcttagtaaagttgatgggtta Alignment from Spaln_nt2Genome TCCTTAGGAACGATGCTTCTGTGCTGCGTAGAAGCCCATGCCATGGG cagcttttttttacaccacaccttattcctgtattatttgtgttttgcagTCCTTAGGGACCATGCTTCTATGTCTCACAGA--CCCACCACTGTCTgtaaaaaaaaagatgagcccgtaatcttagtaaagttgatgggtta Alignment from Pairagon TCCTTAGGAACGATGCTTCTGTGCTGCGTAGAAGCCCATGCCATGGGATTCCAGAACACTTCCTTCTCTACGTTTAGAACTGCTTCCCATACTTTTTTCCC---------CCACT cagcttttttttacaccacaccttattcctgtattatttgtgttttgcagTCCTTAGGGACCATGCTTCTATG--------------------------------------------------------------------------TCTCACAGACCCACCACTgtctgtaaaaaaaaagatgagcccgtaatcttagtaaagttgatgggtta Alignment from Exonerate_protein2genome cagcttttttttacaccacaccttattcctgtattatttgtgttttgcagtccttagggaccatgcttctatgtctcacagacccaccactgtctgtaaaaaaaaagatgagcccgtaatcttagtaaagttgatgggtta Alignment from Exonerate_coding2genome cagcttttttttacaccacaccttattcctgtattatttgtgttttgcagtccttagggaccatgcttctatgtctcacagacccaccactgtctgtaaaaaaaaagatgagcccgtaatcttagtaaagttgatgggtta Alignment from GeneWise cagcttttttttacaccacaccttattcctgtattatttgtgttttgcagtccttagggaccatgcttctatgtctcacagacccaccactgtctgtaaaaaaaaagatgagcccgtaatcttagtaaagttgatgggtta #### Got1_ID8751_4 --> 2 - 0 Original Alignment agAACCATAATGCTGTGTTTTCTGCCGCCGGTTTT-AAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG gttttatatctccattaataatggataaagcctcctctctctgtccacagagAACCATAATGCTGTATTCTCTGCTGCTGGTTTCCAAGGATATTCGTCCCTATTGCTACTGGGATGCTGAGAAAAGAGGATTAGACCTTCAGGGTTTCCTTAATGATCTGGAGgtaacagaagataagaatagatgcccaggcttagtgcaggagggttttcc Alignment from CESAR agAACCATAATGCTGTGTTTTCTGCCGCCGGTTTT-AAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG gttttatatctccattaataatggataaagcctcctctctctgtccacagagAACCATAATGCTGTATTCTCTGCTGCTGGTTTCCAAGGATATTCGTCCCTATTGCTACTGGGATGCTGAGAAAAGAGGATTAGACCTTCAGGGTTTCCTTAATGATCTGGAGgtaacagaagataagaatagatgcccaggcttagtgcaggagggttttcc Alignment from Spaln_aa2Genome AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTT-AAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG gttttatatctccattaataatggataaagcctcctctctctgtccacagAGAACCATAATGCTGTATTCTCTGCTGCTGGTTTCcAAGGATATTCGTCCCTATTGCTACTGGGATGCTGAGAAAAGAGGATTAGACCTTCAGGGTTTCCTTAATGATCTGGAGgtaacagaagataagaatagatgcccaggcttagtgcaggagggttttcc Alignment from Spaln_nt2Genome AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTT-AAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG gttttatatctccattaataatggataaagcctcctctctctgtccacagAGAACCATAATGCTGTATTCTCTGCTGCTGGTTTCCAAGGATATTCGTCCCTATTGCTACTGGGATGCTGAGAAAAGAGGATTAGACCTTCAGGGTTTCCTTAATGATCTGGAGgtaacagaagataagaatagatgcccaggcttagtgcaggagggttttcc Alignment from Pairagon AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTT-TAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG gttttatatctccattaataatggataaagcctcctctctctgtccacagAGAACCATAATGCTGTATTCTCTGCTGCTGGTTTCCAAGGATATTCGTCCCTATTGCTACTGGGATGCTGAGAAAAGAGGATTAGACCTTCAGGGTTTCCTTAATGATCTGGAGgtaacagaagataagaatagatgcccaggcttagtgcaggagggttttcc Alignment from Exonerate_protein2genome AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTT-AAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG gttttatatctccattaataatggataaagcctcctctctctgtccacagAGAACCATAATGCTGTATTCTCTGCTGCTGGTTTCCAAGGATATTCGTCCCTATTGCTACTGGGATGCTGAGAAAAGAGGATTAGACCTTCAGGGTTTCCTTAATGATCTGGAGgtaacagaagataagaatagatgcccaggcttagtgcaggagggttttcc Alignment from Exonerate_coding2genome AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTT-AAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG gttttatatctccattaataatggataaagcctcctctctctgtccacagAGAACCATAATGCTGTATTCTCTGCTGCTGGTTTCCAAGGATATTCGTCCCTATTGCTACTGGGATGCTGAGAAAAGAGGATTAGACCTTCAGGGTTTCCTTAATGATCTGGAGgtaacagaagataagaatagatgcccaggcttagtgcaggagggttttcc Alignment from GeneWise AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTT-AAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG gttttatatctccattaataatggataaagcctcctctctctgtccacagAGAACCATAATGCTGTATTCTCTGCTGCTGGTTTCCAAGGATATTCGTCCCTATTGCTACTGGGATGCTGAGAAAAGAGGATTAGACCTTCAGGGTTTCCTTAATGATCTGGAGgtaacagaagataagaatagatgcccaggcttagtgcaggagggttttcc #### Gpha2_ID1505_2 --> 2 - 0 Original Alignment ccTTCAATGTG---ACGGTGCGCAGTGATCGCCTCGGCACT-TGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG tgataggtagtttattttagtttgtcaaggcaagctgctgtctgctgtagcaTTCAATATTGCAGCAGTGCATAGTGACCACCTTGGAGAACTGTCAGGCATCCCAATTATCACAGGCCTGTGTGGGATATTGTGAGTCCAGTGCTTTTCCTTCCCAGTATTCTGTATTGGTGGTCAGTGGTTATTGGCACAATACTACATCATCATCACCCTGCTGCACTATTAGCAGTCTTAGGAAGgtaagtgcactgagtctctgtgtcttcaaagttacactttgaacacacat Alignment from CESAR ccTTCAATGTG---ACGGTGCGCAGTGATCGCCTCGGC-ACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG tgataggtagtttattttagtttgtcaaggcaagctgctgtctgctgtagcaTTCAATATTGCAGCAGTGCATAGTGACCACCTTGGAGAACTGTCAGGCATCCCAATTATCACAGGCCTGTGTGGGATATTGTGAGTCCAGTGCTTTTCCTTCCCAGTATTCTGTATTGGTGGTCAGTGGTTATTGGCACAATACTACATCATCATCACCCTGCTGCACTATTAGCAGTCTTAGGAAGgtaagtgcactgagtctctgtgtcttcaaagttacactttgaacacacat Alignment from Spaln_aa2Genome CCTTCAATGTG---ACGGTGCGCAGTGATCGCCTCGGC-ACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG tgataggtagtttattttagtttgtcaaggcaagctgctgtctgctgtagCATTCAATATTGCAGCAGTGCATAGTGACCACCTTGGAgAACTGTCAGGCATCCCAATTATCACAGGCCTGTGTGGGATATTGTGAGTCCAGTGCTTTTCCTTCCCAGTATTCTGTATTGGTGGTCAGTGGTTATTGGCACAATACTACATCATCATCACCCTGCTGCACTATTAGCAGTCTTAGGAAGgtaagtgcactgagtctctgtgtcttcaaagttacactttgaacacacat Alignment from Spaln_nt2Genome CCTTCAATGTGACGG---TGCGCAGTGATCGCCTCGGC-ACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG tgataggtagtttattttagtttgtcaaggcaagctgctgtctgctgtagCATTCAATATTGCAGCAGTGCATAGTGACCACCTTGGAGAACTGTCAGGCATCCCAATTATCACAGGCCTGTGTGGGATATTGTGAGTCCAGTGCTTTTCCTTCCCAGTATTCTGTATTGGTGGTCAGTGGTTATTGGCACAATACTACATCATCATCACCCTGCTGCACTATTAGCAGTCTTAGGAAGgtaagtgcactgagtctctgtgtcttcaaagttacactttgaacacacat Alignment from Pairagon GCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG tgataggtagtttattttagtttgtcaaggcaagctgctgtctgctgtagcattcaatattgcagcagtgcatagtgaccaccttggagaactgtcaggcatcccaattatcacagGCCTGTGTGGGATATTGTGAGTCCAGTGCTTTTCCTTCCCAGTATTCTGTATTGGTGGTCAGTGGTTATTGGCACAATACTACATCATCATCACCCTGCTGCACTATTAGCAGTCTTAGGAAGgtaagtgcactgagtctctgtgtcttcaaagttacactttgaacacacat Alignment from Exonerate_protein2genome CCTTCAATGTG---ACGGTGCGCAGTGATCGCCTCGGC-ACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG tgataggtagtttattttagtttgtcaaggcaagctgctgtctgctgtagCATTCAATATTGCAGCAGTGCATAGTGACCACCTTGGAGAACTGTCAGGCATCCCAATTATCACAGGCCTGTGTGGGATATTGTGAGTCCAGTGCTTTTCCTTCCCAGTATTCTGTATTGGTGGTCAGTGGTTATTGGCACAATACTACATCATCATCACCCTGCTGCACTATTAGCAGTCTTAGGAAGgtaagtgcactgagtctctgtgtcttcaaagttacactttgaacacacat Alignment from Exonerate_coding2genome CCTTCAATGTG---ACGGTGCGCAGTGATCGCCTCGGC-ACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG tgataggtagtttattttagtttgtcaaggcaagctgctgtctgctgtagCATTCAATATTGCAGCAGTGCATAGTGACCACCTTGGAGAACTGTCAGGCATCCCAATTATCACAGGCCTGTGTGGGATATTGTGAGTCCAGTGCTTTTCCTTCCCAGTATTCTGTATTGGTGGTCAGTGGTTATTGGCACAATACTACATCATCATCACCCTGCTGCACTATTAGCAGTCTTAGGAAGgtaagtgcactgagtctctgtgtcttcaaagttacactttgaacacacat Alignment from GeneWise CCTTCAATGTGACG---GTGCGCAGTGATCGCCTCGGC-ACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG tgataggtagtttattttagtttgtcaaggcaagctgctgtctgctgtagCATTCAATATTGCAGCAGTGCATAGTGACCACCTTGGAGAACTGTCAGGCATCCCAATTATCACAGGCCTGTGTGGGATATTGTGAGTCCAGTGCTTTTCCTTCCCAGTATTCTGTATTGGTGGTCAGTGGTTATTGGCACAATACTACATCATCATCACCCTGCTGCACTATTAGCAGTCTTAGGAAGgtaagtgcactgagtctctgtgtcttcaaagttacactttgaacacacat #### Gpr137_ID1885_6 --> 0 - 2 Original Alignment AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGG-AGTGAGAGCACCag ggttgtagtagaaagggtggaaccccagttaccattaatttgcctaacagAGCACCAGTCAAATCCTTAATGGCCAAGTCTTTGGTTCCCGATCGTACTTCTTTGATAGGGCTGGACACTGTGAGGATGACAGCTGCTCCGGTGAGCACAGCCAACAGCAAGAGCACCaggtaagtacccagctctttacccaaataggagaggctgctctttacccaaa Alignment from CESAR AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGG-AGTGAGAGCACCag ggttgtagtagaaagggtggaaccccagttaccattaatttgcctaacagAGCACCAGTCAAATCCTTAATGGCCAAGTCTTTGGTTCCCGATCGTACTTCTTTGATAGGGCTGGACACTGTGAGGATGACAGCTGCTCCGGTGAGCACAGCCAACAGCAAGAGCACCaggtaagtacccagctctttacccaaataggagaggctgctctttacccaaa Alignment from Spaln_aa2Genome AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAG ggttgtagtagaaagggtggaaccccagttaccattaatttgcctaacagAGCACCAGTCAAATCCTTAATGGCCAAGTCTTTGGTTCCCGATCGTACTTCTTTGATAGGGCTGGACACTGTGAGGATGACAGCTGCTCCGGTGAGCACAGCCAACAgcaagagcaccaggtaagtacccagctctttacccaaataggagaggctgctctttacccaaa Alignment from Spaln_nt2Genome AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGG-AGTGAGAGCACCAG ggttgtagtagaaagggtggaaccccagttaccattaatttgcctaacagAGCACCAGTCAAATCCTTAATGGCCAAGTCTTTGGTTCCCGATCGTACTTCTTTGATAGGGCTGGACACTGTGAGGATGACAGCTGCTCCGGTGAGCACAGCCAACAGCAAGAGCACCAGgtaagtacccagctctttacccaaataggagaggctgctctttacccaaa Alignment from Pairagon AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGG-AGTGAGAGCACCAG ggttgtagtagaaagggtggaaccccagttaccattaatttgcctaacagAGCACCAGTCAAATCCTTAATGGCCAAGTCTTTGGTTCCCGATCGTACTTCTTTGATAGGGCTGGACACTGTGAGGATGACAGCTGCTCCGGTGAGCACAGCCAACAGCAAGAGCACCAGgtaagtacccagctctttacccaaataggagaggctgctctttacccaaa Alignment from Exonerate_protein2genome AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAG ggttgtagtagaaagggtggaaccccagttaccattaatttgcctaacagAGCACCAGTCAAATCCTTAATGGCCAAGTCTTTGGTTCCCGATCGTACTTCTTTGATAGGGCTGGACACTGTGAGGATGACAGCTGCTCCGGTGAGCACAGCCAACAgcaagagcaccaggtaagtacccagctctttacccaaataggagaggctgctctttacccaaa Alignment from Exonerate_coding2genome AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAG ggttgtagtagaaagggtggaaccccagttaccattaatttgcctaacagAGCACCAGTCAAATCCTTAATGGCCAAGTCTTTGGTTCCCGATCGTACTTCTTTGATAGGGCTGGACACTGTGAGGATGACAGCTGCTCCGGTGAGCACAGCCAACAgcaagagcaccaggtaagtacccagctctttacccaaataggagaggctgctctttacccaaa Alignment from GeneWise AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAGC ggttgtagtagaaagggtggaaccccagttaccattaatttgcctaacagAGCACCAGTCAAATCCTTAATGGCCAAGTCTTTGGTTCCCGATCGTACTTCTTTGATAGGGCTGGACACTGTGAGGATGACAGCTGCTCCGGTGAGCACAGCCAACAGCAAGAGCACCAGgtaagtacccagctctttacccaaataggagaggctgctctttacccaaa #### Gpr137_ID1887_4 --> 0 - 0 Original Alignment GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTAC-AACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaacatacctagaatcctgggacccctacatctctttcctttttctcagGGAACAAGTGTATGTCAGGTAGCAGCAATAGGG---CCCATGATCTTGATTTATGCCAGCCGGGCCTGTTACCAACCTAGCAGCCTTGGCCTTGGCACCTCAGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTCTCAGACCAGgcaggttatatagtattctgggctaacagggttgcacattagcaaattca Alignment from CESAR GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTAC-AACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaacatacctagaatcctgggacccctacatctctttcctttttctcagGGAACAAGTGTATGTCAGGTAGCAGCAATAGGG---CCCATGATCTTGATTTATGCCAGCCGGGCCTGTTACCAACCTAGCAGCCTTGGCCTTGGCACCTCAGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTCTCAGACCAGgcaggttatatagtattctgggctaacagggttgcacattagcaaattaa Alignment from Spaln_aa2Genome GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTAC-AACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaacatacctagaatcctgggacccctacatctctttcctttttctcagGGAACAAGTGTATGTCAGGTAGCAGCAATA---GGGCCCATGATCTTGATTTATGCCAGCCGGGCCTGTTACcAACCTAGCAGCCTTGGCCTTGGCACCTCAGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTCTCAGACCAGgcaggttatatagtattctgggctaacagggttgcacattagcaaattca Alignment from Spaln_nt2Genome GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTAC-AACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaacatacctagaatcctgggacccctacatctctttcctttttctcagGGAACAAGTGTATGTCAGGTAGCAGCAATAGGG---CCCATGATCTTGATTTATGCCAGCCGGGCCTGTTACCAACCTAGCAGCCTTGGCCTTGGCACCTCAGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTCTCAGACCAGgcaggttatatagtattctgggctaacagggttgcacattagcaaattca Alignment from Pairagon GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTA-CAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaacatacctagaatcctgggacccctacatctctttcctttttctcagGGAACAAGTGTATGTCAGGTAGCAGCAATAGGG---CCCATGATCTTGATTTATGCCAGCCGGGCCTGTTACCAACCTAGCAGCCTTGGCCTTGGCACCTCAGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTCTCAGACCAGgcaggttatatagtattctgggctaacagggttgcacattagcaaattca Alignment from Exonerate_protein2genome GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTAC-AACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaacatacctagaatcctgggacccctacatctctttcctttttctcagGGAACAAGTGTATGTCAGGTAGCAGCAATA---GGGCCCATGATCTTGATTTATGCCAGCCGGGCCTGTTACCAACCTAGCAGCCTTGGCCTTGGCACCTCAGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTCTCAGACCAGgcaggttatatagtattctgggctaacagggttgcacattagcaaattca Alignment from Exonerate_coding2genome GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTAC-AACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaacatacctagaatcctgggacccctacatctctttcctttttctcagGGAACAAGTGTATGTCAGGTAGCAGCAATA---GGGCCCATGATCTTGATTTATGCCAGCCGGGCCTGTTACCAACCTAGCAGCCTTGGCCTTGGCACCTCAGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTCTCAGACCAGgcaggttatatagtattctgggctaacagggttgcacattagcaaattca Alignment from GeneWise GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTAC-AACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAGGCAG taaacatacctagaatcctgggacccctacatctctttcctttttctcagGGAACAAGTGTATGTCAGGTAGCAGCAATAGGG---CCCATGATCTTGATTTATGCCAGCCGGGCCTGTTACCAACCTAGCAGCCTTGGCCTTGGCACCTCAGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTCTCAGACCAGGCAGgttatatagtattctgggctaacagggttgcacattagcaaattca #### Hectd2_ID7146_4 --> 1 - 0 Original Alignment gGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAG-ACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG tggctgagttcgcctgcctctttttggtttttgtctgtctgtccatccaggGAAGATCTAGAAAAAGCTGAAGCTACAGGGAATTGGAAACGCAGTACATGCTTTCTATATTACGGCATTTGATTCCTTTACAGAGCTAAACACTGCATTTAAGgtagctatgcaaaaaaaagtttcctctcactctttggtggcacacataag Alignment from CESAR gGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAG-ACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG tggctgagttcgcctgcctctttttggtttttgtctgtctgtccatccaggGAAGATCTAGAAAAAGCTGAAGCTACAGGGAATTGGAAACGCAGTACATGCTTTCTATATTACGGCATTTGATTCCTTTACAGAGCTAAACACTGCATTTAAGgtagctatgcaaaaaaaagtttcctctcactctttggtggcacacataag Alignment from Spaln_aa2Genome GGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAG-ACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG tggctgagttcgcctgcctctttttggtttttgtctgtctgtccatccagGGAAGATCTAGAAAAAGCTGAAGCTACAGGGAATTGGAAAcGCAGTACATGCTTTCTATATTACGGCATTTGATTCCTTTACAGAGCTAAACACTGCATTTAAGgtagctatgcaaaaaaaagtttcctctcactctttggtggcacacataag Alignment from Spaln_nt2Genome GGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGG-AAGACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG tggctgagttcgcctgcctctttttggtttttgtctgtctgtccatccagGGAAGATCTAGAAAAAGCTGAAGCTACAGGGAATTGGAAACGCAGTACATGCTTTCTATATTACGGCATTTGATTCCTTTACAGAGCTAAACACTGCATTTAAGgtagctatgcaaaaaaaagtttcctctcactctttggtggcacacataag Alignment from Pairagon GGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAG-ACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG tggctgagttcgcctgcctctttttggtttttgtctgtctgtccatccagGGAAGATCTAGAAAAAGCTGAAGCTACAGGGAATTGGAAACGCAGTACATGCTTTCTATATTACGGCATTTGATTCCTTTACAGAGCTAAACACTGCATTTAAGgtagctatgcaaaaaaaagtttcctctcactctttggtggcacacataag Alignment from Exonerate_protein2genome GGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAG-ACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG tggctgagttcgcctgcctctttttggtttttgtctgtctgtccatccagGGAAGATCTAGAAAAAGCTGAAGCTACAGGGAATTGGAAACGCAGTACATGCTTTCTATATTACGGCATTTGATTCCTTTACAGAGCTAAACACTGCATTTAAGgtagctatgcaaaaaaaagtttcctctcactctttggtggcacacataag Alignment from Exonerate_coding2genome GGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAG-ACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG tggctgagttcgcctgcctctttttggtttttgtctgtctgtccatccagGGAAGATCTAGAAAAAGCTGAAGCTACAGGGAATTGGAAACGCAGTACATGCTTTCTATATTACGGCATTTGATTCCTTTACAGAGCTAAACACTGCATTTAAGgtagctatgcaaaaaaaagtttcctctcactctttggtggcacacataag Alignment from GeneWise GGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAG-ACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG tggctgagttcgcctgcctctttttggtttttgtctgtctgtccatccagGGAAGATCTAGAAAAAGCTGAAGCTACAGGGAATTGGAAACGCAGTACATGCTTTCTATATTACGGCATTTGATTCCTTTACAGAGCTAAACACTGCATTTAAGgtagctatgcaaaaaaaagtttcctctcactctttggtggcacacataag #### Hectd2_ID7162_18 --> 2 - 0 Original Alignment agTATGTACAGCTTTATACTGACTTCCTGTTGAACAAATCTATC-TATAAGCAATTTGCTGCATTTTACTGTGGATTTCATAGTGTGTGTGCTTCAAATGCCCTAATG tgttctccttttagacccaatgtccttcacctcaactctggcacttccagagTACATACAACTCTATACTGACTTCCTGTTAAACAAGTCTATTCTATAAGCAATTTGCTGCATTCTACTGTGGCTTTCATAGTGTGTGTGCTTCCAATGCATTGATGgtaagtttagatttcaattgaacgggtctaataattgataactgatccca Alignment from CESAR agTATGTACAGCTTTATACTGACTTCCTGTTGAACAAATCTATC-TATAAGCAATTTGCTGCATTTTACTGTGGATTTCATAGTGTGTGTGCTTCAAATGCCCTAATG tgttctccttttagacccaatgtccttcacctcaactctggcacttccagagTACATACAACTCTATACTGACTTCCTGTTAAACAAGTCTATTCTATAAGCAATTTGCTGCATTCTACTGTGGCTTTCATAGTGTGTGTGCTTCCAATGCATTGATGgtaagtttagatttcaattgaacgggtctaataattgataactgatccca Alignment from Spaln_aa2Genome AGTATGTACAGCTTTATACTGACTTCCTGTTGAACAAATCTATC-TATAAGCAATTTGCTGCATTTTACTGTGGATTTCATAGTGTGTGTGCTTCAAATGCCCTAATG tgttctccttttagacccaatgtccttcacctcaactctggcacttccagAGTACATACAACTCTATACTGACTTCCTGTTAAACAAGTCTATTcTATAAGCAATTTGCTGCATTCTACTGTGGCTTTCATAGTGTGTGTGCTTCCAATGCATTGATGgtaagtttagatttcaattgaacgggtctaataattgataactgatccca Alignment from Spaln_nt2Genome AGTATGTACAGCTTTATACTGACTTCCTGTTGAACAAATCTAT-CTATAAGCAATTTGCTGCATTTTACTGTGGATTTCATAGTGTGTGTGCTTCAAATGCCCTAATG tgttctccttttagacccaatgtccttcacctcaactctggcacttccagAGTACATACAACTCTATACTGACTTCCTGTTAAACAAGTCTATTCTATAAGCAATTTGCTGCATTCTACTGTGGCTTTCATAGTGTGTGTGCTTCCAATGCATTGATGgtaagtttagatttcaattgaacgggtctaataattgataactgatccca Alignment from Pairagon AGTATGTACAGCTTTATACTGACTTCCTGTTGAACAAATCTA-TCTATAAGCAATTTGCTGCATTTTACTGTGGATTTCATAGTGTGTGTGCTTCAAATGCCCTAATG tgttctccttttagacccaatgtccttcacctcaactctggcacttccagAGTACATACAACTCTATACTGACTTCCTGTTAAACAAGTCTATTCTATAAGCAATTTGCTGCATTCTACTGTGGCTTTCATAGTGTGTGTGCTTCCAATGCATTGATGgtaagtttagatttcaattgaacgggtctaataattgataactgatccca Alignment from Exonerate_protein2genome AGTATGTACAGCTTTATACTGACTTCCTGTTGAACAAATCTATC-TATAAGCAATTTGCTGCATTTTACTGTGGATTTCATAGTGTGTGTGCTTCAAATGCCCTAATG tgttctccttttagacccaatgtccttcacctcaactctggcacttccagAGTACATACAACTCTATACTGACTTCCTGTTAAACAAGTCTATTCTATAAGCAATTTGCTGCATTCTACTGTGGCTTTCATAGTGTGTGTGCTTCCAATGCATTGATGgtaagtttagatttcaattgaacgggtctaataattgataactgatccca Alignment from Exonerate_coding2genome AGTATGTACAGCTTTATACTGACTTCCTGTTGAACAAATCTATC-TATAAGCAATTTGCTGCATTTTACTGTGGATTTCATAGTGTGTGTGCTTCAAATGCCCTAATG tgttctccttttagacccaatgtccttcacctcaactctggcacttccagAGTACATACAACTCTATACTGACTTCCTGTTAAACAAGTCTATTCTATAAGCAATTTGCTGCATTCTACTGTGGCTTTCATAGTGTGTGTGCTTCCAATGCATTGATGgtaagtttagatttcaattgaacgggtctaataattgataactgatccca Alignment from GeneWise AGTATGTACAGCTTTATACTGACTTCCTGTTGAACAAATCT-ATCTATAAGCAATTTGCTGCATTTTACTGTGGATTTCATAGTGTGTGTGCTTCAAATGCCCTAATG tgttctccttttagacccaatgtccttcacctcaactctggcacttccagAGTACATACAACTCTATACTGACTTCCTGTTAAACAAGTCTATTCTATAAGCAATTTGCTGCATTCTACTGTGGCTTTCATAGTGTGTGTGCTTCCAATGCATTGATGgtaagtttagatttcaattgaacgggtctaataattgataactgatccca #### Hells_ID7706_13 --> 0 - 2 Original Alignment AAGGAAACAGTTGAGCTA-AGTCCTACTGGAAGACCAAAACGACGAAGTAGAAAGTCAATAAATTACAGCGAACTAGATCAGTTCCCTAGTGAATTAGAAAAACTAATAAGTCAAATACAGCCAGAAGTAAACAGAGAGag ccttgccatctgtgcactaagaacaaacctttctggcctttttgatcaagAAAGATACAGTAGAGCTTCAGCCCAATTGGAAGGCCTAAAAGACGAAGTAGAAAG---ATAAATTACAGTGAACTAGATCAGTTTCCCAGTGAACTTGAGAAACTGATAAGCCAAATACAG---CAAGCTAACAGAGATaggtaagtcactataataacctataaactagggttatgtgtgggctttttcc Alignment from CESAR AAGGAAACAGTTGAGCTA-AGTCCTACTGGAAGACCAAAACGACGAAGTAGAAAGTCAATAAATTACAGCGAACTAGATCAGTTCCCTAGTGAATTAGAAAAACTAATAAGTCAAATACAGCCAGAAGTAAACAGAGAGag ccttgccatctgtgcactaagaacaaacctttctggcctttttgatcaagAAAGATACAGTAGAGCTTCAGCCCAATTGGAAGGCCTAAAAGACGAAGTAGAAAG---ATAAATTACAGTGAACTAGATCAGTTTCCCAGTGAACTTGAGAAACTGATAAGCCAAATACAGCAA---GCTAACAGAGATaggtaagtcactataataacctataaactagggagttcgttttcttgtttcc Alignment from Spaln_aa2Genome AAGGAAACAGTTGAGCTA-AGTCCTACTGGAAGACCAAAACGACGAAGTAGAAAGTCAATAAATTACAGCGAACTAGATCAGTTCCCTAGTGAATTAGAAAAACTAATAAGTCAAATACAGCCAGAAGTAAACAGAGAGAG ccttgccatctgtgcactaagaacaaacctttctggcctttttgatcaagAAAGATACAGTAGAGCTTcAGCCCAATTGGAAGGCCTAAAAGACGAAGTAGAAAG---ATAAATTACAGTGAACTAGATCAGTTTCCCAGTGAACTTGAGAAACTGATAAGCCAAATACAG---CAAGCTAACAGAGATAGgtaagtcactataataacctataaactagggttatgtgtgggctttttcc Alignment from Spaln_nt2Genome AAGGAAACAGTTGAGCTA-AGTCCTACTGGAAGACCAAAACGACGAAGTAGAAAGTCAATAAATTACAGCGAACTAGATCAGTTCCCTAGTGAATTAGAAAAACTAATAAGTCAAATACAGCCAGAAGTAAACAGAGAGAG ccttgccatctgtgcactaagaacaaacctttctggcctttttgatcaagAAAGATACAGTAGAGCTTCAGCCCAATTGGAAGGCCTAAAAGACGAAGTAGAAAG---ATAAATTACAGTGAACTAGATCAGTTTCCCAGTGAACTTGAGAAACTGATAAGCCAAATACAGC---AAGCTAACAGAGATAGgtaagtcactataataacctataaactagggttatgtgtgggctttttcc Alignment from Pairagon AAGGAAACAGTTGAGC-TAAGTCCTACTGGAAGACCAAAACGACGAAGTAGAAAGTCAATAAATTACAGCGAACTAGATCAGTTCCCTAGTGAATTAGAAAAACTAATAAGTCAAATACAGCCAGAAGTAAACAGAGAGAG ccttgccatctgtgcactaagaacaaacctttctggcctttttgatcaagAAAGATACAGTAGAGCTTCAGCCCAATTGGAAGGCCTAAAAGACGAAGTAGAAAG---ATAAATTACAGTGAACTAGATCAGTTTCCCAGTGAACTTGAGAAACTGATAAGCCAAATACAGC---AAGCTAACAGAGATAGgtaagtcactataataacctataaactagggttatgtgtgggctttttcc Alignment from Exonerate_protein2genome AAGGAAACAGTTGAGCTA-AGTCCTACTGGAAGACCAAAACGACGAAGTAGAAAGTCAATAAATTACAGCGAACTAGATCAGTTCCCTAGTGAATTAGAAAAACTAATAAGTCAAATACAGCCAGAAGTAAACAGAGAGAG ccttgccatctgtgcactaagaacaaacctttctggcctttttgatcaagAAAGATACAGTAGAGCTTCAGCCCAATTGGAAGGCCTAAAAGACGAAGTAGAAAG---ATAAATTACAGTGAACTAGATCAGTTTCCCAGTGAACTTGAGAAACTGATAAGCCAAATACAG---CAAGCTAACAGAGATAGgtaagtcactataataacctataaactagggttatgtgtgggctttttcc Alignment from Exonerate_coding2genome AAGGAAACAGTTGAGCTA-AGTCCTACTGGAAGACCAAAACGACGAAGTAGAAAGTCAATAAATTACAGCGAACTAGATCAGTTCCCTAGTGAATTAGAAAAACTAATAAGTCAAATACAGCCAGAAGTAAACAGAGAGAG ccttgccatctgtgcactaagaacaaacctttctggcctttttgatcaagAAAGATACAGTAGAGCTTCAGCCCAATTGGAAGGCCTAAAAGACGAAGTAGAAAG---ATAAATTACAGTGAACTAGATCAGTTTCCCAGTGAACTTGAGAAACTGATAAGCCAAATACAG---CAAGCTAACAGAGATAGgtaagtcactataataacctataaactagggttatgtgtgggctttttcc Alignment from GeneWise GCTAAGTCCTACTGGAAGACCAAAACGACGAAGTAGAAAGTCAATAAATTACAGCGAACTAGATCAGTTCCCTAGTGAATTAGAAAAACTAATAAGTCAAATACAGCCAGAAGTAAACAGAGAGAG ccttgccatctgtgcactaagaacaaacctttctggcctttttgatcaagaaagatacagtagagCTTCAGCCCAATTGGAAGGCCTAAAAGACGAAGTAGAAAG---ATAAATTACAGTGAACTAGATCAGTTTCCCAGTGAACTTGAGAAACTGATAAGCCAAATACAG---CAAGCTAACAGAGATAGgtaagtcactataataacctataaactagggttatgtgtgggctttttcc #### Hells_ID7707_14 --> 1 - 0 Original Alignment gACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATT-GACCCTGTCACACAAGAATTTAAG agtcactataataacctataaactagggagttcgttttcttgtttcctagaACAGCTGTGCAAGGTAATATTCCTATAGAATCAGAAGTGAATTTGAAGCTGCGGAATATCATGATGTTACTCCAGAGATGCTATAACCACCCTTACATGATTGAATATCCCATTCGACCCAGTCACACAGGAGTTTAAAgtgagtgtgacaaatgaaccaaccagattgacttggtacagaagacaaga Alignment from CESAR gACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATT-GACCCTGTCACACAAGAATTTAAG agtcactataataacctataaactagggagttcgttttcttgtttcctagaACAGCTGTGCAAGGTAATATTCCTATAGAATCAGAAGTGAATTTGAAGCTGCGGAATATCATGATGTTACTCCAGAGATGCTATAACCACCCTTACATGATTGAATATCCCATTCGACCCAGTCACACAGGAGTTTAAAgtgagtgtgacaaatgaaccaaccagattgacttggtacagaagacaaga Alignment from Spaln_aa2Genome GACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATT-GACCCTGTCACACAAGAATTTAAG agtcactataataacctataaactagggagttcgttttcttgtttcctagAACAGCTGTGCAAGGTAATATTCCTATAGAATCAGAAGTGAATTTGAAGCTGCGGAATATCATGATGTTACTCCAGAGATGCTATAACCACCCTTACATGATTGAATATCCCATTcGACCCAGTCACACAGGAGTTTAAAgtgagtgtgacaaatgaaccaaccagattgacttggtacagaagacaaga Alignment from Spaln_nt2Genome GACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATT-GACCCTGTCACACAAGAATTTAAG agtcactataataacctataaactagggagttcgttttcttgtttcctagAACAGCTGTGCAAGGTAATATTCCTATAGAATCAGAAGTGAATTTGAAGCTGCGGAATATCATGATGTTACTCCAGAGATGCTATAACCACCCTTACATGATTGAATATCCCATTCGACCCAGTCACACAGGAGTTTAAAgtgagtgtgacaaatgaaccaaccagattgacttggtacagaagacaaga Alignment from Pairagon GACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATT-GACCCTGTCACACAAGAATTTAAG agtcactataataacctataaactagggagttcgttttcttgtttcctagAACAGCTGTGCAAGGTAATATTCCTATAGAATCAGAAGTGAATTTGAAGCTGCGGAATATCATGATGTTACTCCAGAGATGCTATAACCACCCTTACATGATTGAATATCCCATTCGACCCAGTCACACAGGAGTTTAAAgtgagtgtgacaaatgaaccaaccagattgacttggtacagaagacaaga Alignment from Exonerate_protein2genome GACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATT-GACCCTGTCACACAAGAATTTAAG agtcactataataacctataaactagggagttcgttttcttgtttcctagAACAGCTGTGCAAGGTAATATTCCTATAGAATCAGAAGTGAATTTGAAGCTGCGGAATATCATGATGTTACTCCAGAGATGCTATAACCACCCTTACATGATTGAATATCCCATTCGACCCAGTCACACAGGAGTTTAAAgtgagtgtgacaaatgaaccaaccagattgacttggtacagaagacaaga Alignment from Exonerate_coding2genome GACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATT-GACCCTGTCACACAAGAATTTAAG agtcactataataacctataaactagggagttcgttttcttgtttcctagAACAGCTGTGCAAGGTAATATTCCTATAGAATCAGAAGTGAATTTGAAGCTGCGGAATATCATGATGTTACTCCAGAGATGCTATAACCACCCTTACATGATTGAATATCCCATTCGACCCAGTCACACAGGAGTTTAAAgtgagtgtgacaaatgaaccaaccagattgacttggtacagaagacaaga Alignment from GeneWise GACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCT-ATTGACCCTGTCACACAAGAATTTAAG agtcactataataacctataaactagggagttcgttttcttgtttcctagAACAGCTGTGCAAGGTAATATTCCTATAGAATCAGAAGTGAATTTGAAGCTGCGGAATATCATGATGTTACTCCAGAGATGCTATAACCACCCTTACATGATTGAATATCCCATTCGACCCAGTCACACAGGAGTTTAAAgtgagtgtgacaaatgaaccaaccagattgacttggtacagaagacaaga #### Hells_ID7708_15 --> 0 - 0 Original Alignment ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTA-ATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gtttcattcaaaattacaagctgtgatttaatgaaaatctccatccccagAATGATGAAGAGTTTGTAACAAATTCTGGGAGGTTCTTACATTTCAGATCGAATGCTGCCAGAACTTAAGAAAAGAGGTCATAAGgtaattacagctaaaatttatgctgtccagtgcagtctggatcagcttag Alignment from CESAR ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTA-ATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gtttcattcaaaattacaagctgtgatttaatgaaaatctccatccccagAATGATGAAGAGTTTGTAACAAATTCTGGGAGGTTCTTACATTTCAGATCGAATGCTGCCAGAACTTAAGAAAAGAGGTCATAAGgtaattacagctaaaatttatgctgtccagtgcagtctggatcagcttag Alignment from Spaln_aa2Genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTA-ATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gtttcattcaaaattacaagctgtgatttaatgaaaatctccatccccagAATGATGAAGAGTTTGTAACAAATTCTGGGAGGTTCTTAcATTTCAGATCGAATGCTGCCAGAACTTAAGAAAAGAGGTCATAAGgtaattacagctaaaatttatgctgtccagtgcagtctggatcagcttag Alignment from Spaln_nt2Genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTA-ATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gtttcattcaaaattacaagctgtgatttaatgaaaatctccatccccagAATGATGAAGAGTTTGTAACAAATTCTGGGAGGTTCTTACATTTCAGATCGAATGCTGCCAGAACTTAAGAAAAGAGGTCATAAGgtaattacagctaaaatttatgctgtccagtgcagtctggatcagcttag Alignment from Pairagon ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTA-ATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gtttcattcaaaattacaagctgtgatttaatgaaaatctccatccccagAATGATGAAGAGTTTGTAACAAATTCTGGGAGGTTCTTACATTTCAGATCGAATGCTGCCAGAACTTAAGAAAAGAGGTCATAAGgtaattacagctaaaatttatgctgtccagtgcagtctggatcagcttag Alignment from Exonerate_protein2genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTA-ATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gtttcattcaaaattacaagctgtgatttaatgaaaatctccatccccagAATGATGAAGAGTTTGTAACAAATTCTGGGAGGTTCTTACATTTCAGATCGAATGCTGCCAGAACTTAAGAAAAGAGGTCATAAGgtaattacagctaaaatttatgctgtccagtgcagtctggatcagcttag Alignment from Exonerate_coding2genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTA-ATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gtttcattcaaaattacaagctgtgatttaatgaaaatctccatccccagAATGATGAAGAGTTTGTAACAAATTCTGGGAGGTTCTTACATTTCAGATCGAATGCTGCCAGAACTTAAGAAAAGAGGTCATAAGgtaattacagctaaaatttatgctgtccagtgcagtctggatcagcttag Alignment from GeneWise ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTC-TTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAGGTT----------------------------------------------- gtttcattcaaaattacaagctgtgatttaatgaaaatctccatccccagAATGATGAAGAGTTTGTAACAAATTCTGGGAGGTTCTTACATTTCAGATCGAATGCTGCCAGAACTTAAGAAAAGAGGTCATAAGGTAATTACAGCTAAAATTTATGCTGTCCAGTGCAGTCTGGATCAGCTTAG #### Hif1an_ID9067_5 --> 0 - 2 Original Alignment GTGGACTTTGACAATCCTGACTACGAGAGGTTCCCCAATTTCCGAAATGTGGTTGGTTATGAGACAGTG-GTTGGCCCTGGGGATGTTCTTTACATCCCAATGTACtg ttgccacttgtgtgaagtgacagcttgtctctttcttttctgtgtggaagGTGGACTTTGATAATCCAGACTATGAGAGGTTCCCCAACTTTCGTAATGTGGTTGGTTATGAGACAGTGCGTTGGCCCTGGGGATGTACTATACATCCCCATGTATtggtaagatgcaaatgaataaagcagtgctttctcctccccacaacagtatt Alignment from CESAR GTGGACTTTGACAATCCTGACTACGAGAGGTTCCCCAATTTCCGAAATGTGGTTGGTTATGAGACAGTG-GTTGGCCCTGGGGATGTTCTTTACATCCCAATGTACtg ttgccacttgtgtgaagtgacagcttgtctctttcttttctgtgtggaagGTGGACTTTGATAATCCAGACTATGAGAGGTTCCCCAACTTTCGTAATGTGGTTGGTTATGAGACAGTGCGTTGGCCCTGGGGATGTACTATACATCCCCATGTATtggtaagatgcaaatgaataaagcagtgctttctcctccccacaacagtatt Alignment from Spaln_aa2Genome GTGGACTTTGACAATCCTGACTACGAGAGGTTCCCCAATTTCCGAAATGTGGTTGGTTATGAGACAGTG-GTTGGCCCTGGGGATGTTCTTTACATCCCAATGTACTG ttgccacttgtgtgaagtgacagcttgtctctttcttttctgtgtggaagGTGGACTTTGATAATCCAGACTATGAGAGGTTCCCCAACTTTCGTAATGTGGTTGGTTATGAGACAGTGcGTTGGCCCTGGGGATGTACTATACATCCCCATGTATTGgtaagatgcaaatgaataaagcagtgctttctcctccccacaacagtatt Alignment from Spaln_nt2Genome GTGGACTTTGACAATCCTGACTACGAGAGGTTCCCCAATTTCCGAAATGTGGTTGGTTATGAGACAGTG-GTTGGCCCTGGGGATGTTCTTTACATCCCAATGTACTG ttgccacttgtgtgaagtgacagcttgtctctttcttttctgtgtggaagGTGGACTTTGATAATCCAGACTATGAGAGGTTCCCCAACTTTCGTAATGTGGTTGGTTATGAGACAGTGCGTTGGCCCTGGGGATGTACTATACATCCCCATGTATTGgtaagatgcaaatgaataaagcagtgctttctcctccccacaacagtatt Alignment from Pairagon GTGGACTTTGACAATCCTGACTACGAGAGGTTCCCCAATTTCCGAAATGTGGTTGGTTATGAGACAGTG-GTTGGCCCTGGGGATGTTCTTTACATCCCAATGTACTG ttgccacttgtgtgaagtgacagcttgtctctttcttttctgtgtggaagGTGGACTTTGATAATCCAGACTATGAGAGGTTCCCCAACTTTCGTAATGTGGTTGGTTATGAGACAGTGCGTTGGCCCTGGGGATGTACTATACATCCCCATGTATTGgtaagatgcaaatgaataaagcagtgctttctcctccccacaacagtatt Alignment from Exonerate_protein2genome GTGGACTTTGACAATCCTGACTACGAGAGGTTCCCCAATTTCCGAAATGTGGTTGGTTATGAGACAGTG-GTTGGCCCTGGGGATGTTCTTTACATCCCAATGTACTG ttgccacttgtgtgaagtgacagcttgtctctttcttttctgtgtggaagGTGGACTTTGATAATCCAGACTATGAGAGGTTCCCCAACTTTCGTAATGTGGTTGGTTATGAGACAGTGCGTTGGCCCTGGGGATGTACTATACATCCCCATGTATTGgtaagatgcaaatgaataaagcagtgctttctcctccccacaacagtatt Alignment from Exonerate_coding2genome GTGGACTTTGACAATCCTGACTACGAGAGGTTCCCCAATTTCCGAAATGTGGTTGGTTATGAGACAGTG-GTTGGCCCTGGGGATGTTCTTTACATCCCAATGTACTG ttgccacttgtgtgaagtgacagcttgtctctttcttttctgtgtggaagGTGGACTTTGATAATCCAGACTATGAGAGGTTCCCCAACTTTCGTAATGTGGTTGGTTATGAGACAGTGCGTTGGCCCTGGGGATGTACTATACATCCCCATGTATTGgtaagatgcaaatgaataaagcagtgctttctcctccccacaacagtatt Alignment from GeneWise GTGGACTTTGACAATCCTGACTACGAGAGGTTCCCCAATTTCCGAAATGTGGTTGGTTATGAGACAGTG-GTTGGCCCTGGGGATGTTCTTTACATCCCAATGTACTG ttgccacttgtgtgaagtgacagcttgtctctttcttttctgtgtggaagGTGGACTTTGATAATCCAGACTATGAGAGGTTCCCCAACTTTCGTAATGTGGTTGGTTATGAGACAGTGCGTTGGCCCTGGGGATGTACTATACATCCCCATGTATTGgtaagatgcaaatgaataaagcagtgctttctcctccccacaacagtatt #### Hnrnpul2_ID2408_12 --> 2 - 0 Original Alignment tgGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGG-GGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgagtttgcaacggctgaccagtttcccctttagtgGGTGGACAGCACCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGCGGGCAGCCTGGAACCAGAGGAgtacgtgcacatccttcgtcactcatccttccaccctgttcctctaactg Alignment from CESAR tgGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGG-GGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgagtttgcaacggctgaccagtttcccctttagtgGGTGGACAGCACCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGCGGGCAGCCTGGAACCAGAGGAgtacgtgcacatccttcgtcactcatccttccaccctgttcctctaactg Alignment from Spaln_aa2Genome TGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGG-GGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgagtttgcaacggctgaccagtttcccctttagTGGGTGGACAGCACCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGcGGGCAGCCTGGAACCAGAGGAgtacgtgcacatccttcgtcactcatccttccaccctgttcctctaactg Alignment from Spaln_nt2Genome TGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGG-GGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgagtttgcaacggctgaccagtttcccctttagTGGGTGGACAGCACCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGCGGGCAGCCTGGAACCAGAGGAgtacgtgcacatccttcgtcactcatccttccaccctgttcctctaactg Alignment from Pairagon TGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGG-GGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgagtttgcaacggctgaccagtttcccctttagTGGGTGGACAGCACCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGCGGGCAGCCTGGAACCAGAGGAgtacgtgcacatccttcgtcactcatccttccaccctgttcctctaactg Alignment from Exonerate_protein2genome TGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGG-GGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgagtttgcaacggctgaccagtttcccctttagTGGGTGGACAGCACCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGCGGGCAGCCTGGAACCAGAGGAgtacgtgcacatccttcgtcactcatccttccaccctgttcctctaactg Alignment from Exonerate_coding2genome TGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGG-GGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgagtttgcaacggctgaccagtttcccctttagTGGGTGGACAGCACCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGCGGGCAGCCTGGAACCAGAGGAgtacgtgcacatccttcgtcactcatccttccaccctgttcctctaactg Alignment from GeneWise TGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGG-GGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgagtttgcaacggctgaccagtttcccctttagTGGGTGGACAGCACCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGCGGGCAGCCTGGAACCAGAGGAgtacgtgcacatccttcgtcactcatccttccaccctgttcctctaactg #### Hnrnpul2_ID2409_13 --> 0 - 0 Original Alignment GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTAC-AGACAATACAACCGGGAT tgatcttaaatgcctataaaggattgagcccatgtcctttctccttccagGGCTACCGCAATTTCTATGATCGATACAAGGGTGACTATGAACGATTCTATAGTCGGGATTACAAATACAATAGATATAGGGGATATTATCAGAGAATACAACCAAGATgtgagtttatgggatagggagcagaagaaagggatagggagcagaagaaa Alignment from CESAR GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTAC-AGACAATACAACCGGGAT tgatcttaaatgcctataaaggattgagcccatgtcctttctccttccagGGCTACCGCAATTTCTATGATCGATACAAGGGTGACTATGAACGATTCTATAGTCGGGATTACAAATACAATAGATATAGGGGATATTATCAGAGAATACAACCAAGATgtgagtttatgggatagggagcagaagaaagggatagggagcagaagaaa Alignment from Spaln_aa2Genome GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTAC-AGACAATACAACCGGGAT tgatcttaaatgcctataaaggattgagcccatgtcctttctccttccagGGCTACCGCAATTTCTATGATCGATACAAGGGTGACTATGAACGATTCTATAGTCGGGATTACAAATACAATAGATATAGGGGATATTATcAGAGAATACAACCAAGATgtgagtttatgggatagggagcagaagaaagggatagggagcagaagaaa Alignment from Spaln_nt2Genome GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTA-CAGACAATACAACCGGGAT tgatcttaaatgcctataaaggattgagcccatgtcctttctccttccagGGCTACCGCAATTTCTATGATCGATACAAGGGTGACTATGAACGATTCTATAGTCGGGATTACAAATACAATAGATATAGGGGATATTATCAGAGAATACAACCAAGATgtgagtttatgggatagggagcagaagaaagggatagggagcagaagaaa Alignment from Pairagon GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTA-CAGACAATACAACCGGGAT tgatcttaaatgcctataaaggattgagcccatgtcctttctccttccagGGCTACCGCAATTTCTATGATCGATACAAGGGTGACTATGAACGATTCTATAGTCGGGATTACAAATACAATAGATATAGGGGATATTATCAGAGAATACAACCAAGATgtgagtttatgggatagggagcagaagaaagggatagggagcagaagaaa Alignment from Exonerate_protein2genome GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTAC-AGACAATACAACCGGGAT tgatcttaaatgcctataaaggattgagcccatgtcctttctccttccagGGCTACCGCAATTTCTATGATCGATACAAGGGTGACTATGAACGATTCTATAGTCGGGATTACAAATACAATAGATATAGGGGATATTATCAGAGAATACAACCAAGATgtgagtttatgggatagggagcagaagaaagggatagggagcagaagaaa Alignment from Exonerate_coding2genome GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTAC-AGACAATACAACCGGGAT tgatcttaaatgcctataaaggattgagcccatgtcctttctccttccagGGCTACCGCAATTTCTATGATCGATACAAGGGTGACTATGAACGATTCTATAGTCGGGATTACAAATACAATAGATATAGGGGATATTATCAGAGAATACAACCAAGATgtgagtttatgggatagggagcagaagaaagggatagggagcagaagaaa Alignment from GeneWise GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTAC-AGACAATACAACCGGGAT tgatcttaaatgcctataaaggattgagcccatgtcctttctccttccagGGCTACCGCAATTTCTATGATCGATACAAGGGTGACTATGAACGATTCTATAGTCGGGATTACAAATACAATAGATATAGGGGATATTATCAGAGAATACAACCAAGATgtgagtttatgggatagggagcagaagaaagggatagggagcagaagaaa #### Hoga1_ID8380_3 --> 2 - 0 Original Alignment ccACGCAAGCCACAGTAGAGATGACT-GTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG agtaaatcaacctatccaattgtggctgctttcttacccccactttgtagctATGCAAGCTACAGTAGAGATGACTCGTCAGCATGGCTCAAGTTGGTGCTGATGTCGCCATGGTGGTGACTCCATGTTACTATCATGGCCATATGAGCAGTGCAGCAATTATTCACCACTACACTAAGgttagaaggaatggttgagatatgctttaagtattgattgaaggaagcta Alignment from CESAR ccACGCAAGCCACAGTAGAGATGACT-GTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG agtaaatcaacctatccaattgtggctgctttcttacccccactttgtagctATGCAAGCTACAGTAGAGATGACTCGTCAGCATGGCTCAAGTTGGTGCTGATGTCGCCATGGTGGTGACTCCATGTTACTATCATGGCCATATGAGCAGTGCAGCAATTATTCACCACTACACTAAGgttagaaggaatggttgagatatgctttaagtattgattgaaggaagcta Alignment from Spaln_aa2Genome CCACGCAAGCCACAGTAGAGATGACT-GTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG agtaaatcaacctatccaattgtggctgctttcttacccccactttgtagCTATGCAAGCTACAGTAGAGATGACTcGTCAGCATGGCTCAAGTTGGTGCTGATGTCGCCATGGTGGTGACTCCATGTTACTATCATGGCCATATGAGCAGTGCAGCAATTATTCACCACTACACTAAGgttagaaggaatggttgagatatgctttaagtattgattgaaggaagcta Alignment from Spaln_nt2Genome CCACGCAAGCCACAGTAGAGATGACT-GTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG agtaaatcaacctatccaattgtggctgctttcttacccccactttgtagCTATGCAAGCTACAGTAGAGATGACTCGTCAGCATGGCTCAAGTTGGTGCTGATGTCGCCATGGTGGTGACTCCATGTTACTATCATGGCCATATGAGCAGTGCAGCAATTATTCACCACTACACTAAGgttagaaggaatggttgagatatgctttaagtattgattgaaggaagcta Alignment from Pairagon CCACGCAAGCCACAGTAGAGATGACT-GTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG agtaaatcaacctatccaattgtggctgctttcttacccccactttgtagCTATGCAAGCTACAGTAGAGATGACTCGTCAGCATGGCTCAAGTTGGTGCTGATGTCGCCATGGTGGTGACTCCATGTTACTATCATGGCCATATGAGCAGTGCAGCAATTATTCACCACTACACTAAGgttagaaggaatggttgagatatgctttaagtattgattgaaggaagcta Alignment from Exonerate_protein2genome CCACGCAAGCCACAGTAGAGATGACT-GTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG agtaaatcaacctatccaattgtggctgctttcttacccccactttgtagCTATGCAAGCTACAGTAGAGATGACTCGTCAGCATGGCTCAAGTTGGTGCTGATGTCGCCATGGTGGTGACTCCATGTTACTATCATGGCCATATGAGCAGTGCAGCAATTATTCACCACTACACTAAGgttagaaggaatggttgagatatgctttaagtattgattgaaggaagcta Alignment from Exonerate_coding2genome CCCAAGGACAAGTTCCTGATAGCCGGCTCTGGCTGCGAGTCCACGCAAGCCACAGTAGAGATGACT-GTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG agtaaatcaaCCTATCCAATTGTGGCTGCTTTCTTACCCCCACTTTGTAGCTATGCAAGCTACAGTAGAGATGACTCGTCAGCATGGCTCAAGTTGGTGCTGATGTCGCCATGGTGGTGACTCCATGTTACTATCATGGCCATATGAGCAGTGCAGCAATTATTCACCACTACACTAAGgttagaaggaatggttgagatatgctttaagtattgattgaaggaagcta Alignment from GeneWise CCACGCAAGCCACAGTAGAGATGACT-GTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG agtaaatcaacctatccaattgtggctgctttcttacccccactttgtagCTATGCAAGCTACAGTAGAGATGACTCGTCAGCATGGCTCAAGTTGGTGCTGATGTCGCCATGGTGGTGACTCCATGTTACTATCATGGCCATATGAGCAGTGCAGCAATTATTCACCACTACACTAAGgttagaaggaatggttgagatatgctttaagtattgattgaaggaagcta #### Hoga1_ID8381_4 --> 0 - 0 Original Alignment GTTGCTGACGTTTCTCCAATCCCTGTG-GTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaggggttgacatgggaaatggccatgcattctgctctgttgtagATTGCTGATGTTTCCCCAATCCCTGTACGTGTTATACAGTGTCCCAGCCAATACAGGACTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGTCAGTGGTGGAGATgtaatgtgttgtagcatccaatttgctcaagcacccacaacctcaggtca Alignment from CESAR GTTGCTGACGTTTCTCCAATCCCTGTG-GTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaggggttgacatgggaaatggccatgcattctgctctgttgtagATTGCTGATGTTTCCCCAATCCCTGTACGTGTTATACAGTGTCCCAGCCAATACAGGACTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGTCAGTGGTGGAGATgtaatgtgttgtagcatccaatttgctcaagcacccacaacctcaggtca Alignment from Spaln_aa2Genome GTTGCTGACGTTTCTCCAATCCCTGTG-GTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaggggttgacatgggaaatggccatgcattctgctctgttgtagATTGCTGATGTTTCCCCAATCCCTGTAcGTGTTATACAGTGTCCCAGCCAATACAGGACTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGTCAGTGGTGGAGATgtaatgtgttgtagcatccaatttgctcaagcacccacaacctcaggtca Alignment from Spaln_nt2Genome GTTGCTGACGTTTCTCCAATCCCTGTG-GTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaggggttgacatgggaaatggccatgcattctgctctgttgtagATTGCTGATGTTTCCCCAATCCCTGTACGTGTTATACAGTGTCCCAGCCAATACAGGACTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGTCAGTGGTGGAGATgtaatgtgttgtagcatccaatttgctcaagcacccacaacctcaggtca Alignment from Pairagon GTTGCTGACGTTTCTCCAATCCCTGTG-GTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaggggttgacatgggaaatggccatgcattctgctctgttgtagATTGCTGATGTTTCCCCAATCCCTGTACGTGTTATACAGTGTCCCAGCCAATACAGGACTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGTCAGTGGTGGAGATgtaatgtgttgtagcatccaatttgctcaagcacccacaacctcaggtca Alignment from Exonerate_protein2genome GTTGCTGACGTTTCTCCAATCCCTGTG-GTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaggggttgacatgggaaatggccatgcattctgctctgttgtagATTGCTGATGTTTCCCCAATCCCTGTACGTGTTATACAGTGTCCCAGCCAATACAGGACTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGTCAGTGGTGGAGATgtaatgtgttgtagcatccaatttgctcaagcacccacaacctcaggtca Alignment from Exonerate_coding2genome GTTGCTGACGTTTCTCCAATCCCTGTG-GTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaggggttgacatgggaaatggccatgcattctgctctgttgtagATTGCTGATGTTTCCCCAATCCCTGTACGTGTTATACAGTGTCCCAGCCAATACAGGACTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGTCAGTGGTGGAGATgtaatgtgttgtagcatccaatttgctcaagcacccacaacctcaggtca Alignment from GeneWise GTTGCTGACGTTTCTCCAATCCCTGTG-GTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaggggttgacatgggaaatggccatgcattctgctctgttgtagATTGCTGATGTTTCCCCAATCCCTGTACGTGTTATACAGTGTCCCAGCCAATACAGGACTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGTCAGTGGTGGAGATgtaatgtgttgtagcatccaatttgctcaagcacccacaacctcaggtca #### Hoga1_ID8382_5 --> 0 - 1 Original Alignment GTGACCAGGATTGGACTGATAGTTCAC---AAGACCAGCAAGCAGGATTTCCAGGTG-TTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGg agatagatgtactggggagacaatcatttttataattcctgtatttttagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATTTTCAGGTACCTGGCAGGGTCTGTTGGCTCCCTCCTAGCTAGCTATTCTGTAggtaagcttgccgtcagttctaaaccaccagctccaactgcgccctgttgc Alignment from CESAR GTGACCAGGATTGGACTGATAGTT---CACAAGACCAGCAAGCAGGATTTCCAGGTG-TTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGg agatagatgtactggggagacaatcatttttataattcctgtatttttagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATTTTCAGGTACCTGGCAGGGTCTGTTGGCTCCCTCCTAGCTAGCTATTCTGTAggtaagcttgccgtcagttctaaaccaccagctccaactgcgccctgttgc Alignment from Spaln_aa2Genome GTGACCAGGATTGGACTGATAGTT---CACAAGACCAGCAAGCAGGATTTCCAGGTG-TTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGG agatagatgtactggggagacaatcatttttataattcctgtatttttagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATTTTCAGGTAcCTGGCAGGGTCTGTTGGCTCCCTCCTAGCTAGCTATTCTGTAGgtaagcttgccgtcagttctaaaccaccagctccaactgcgccctgttgc Alignment from Spaln_nt2Genome GTGACCAGGATTGGACTGATAGT---TCACAAGACCAGCAAGCAGGATTTCCAGGTGT-TGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGG agatagatgtactggggagacaatcatttttataattcctgtatttttagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATTTTCAGGTACCTGGCAGGGTCTGTTGGCTCCCTCCTAGCTAGCTATTCTGTAGgtaagcttgccgtcagttctaaaccaccagctccaactgcgccctgttgc Alignment from Pairagon GTGACCAGGATTGGACTGATAGT---TCACAAGACCAGCAAGCAGGATTTCCAGGTG-TTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGG agatagatgtactggggagacaatcatttttataattcctgtatttttagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATTTTCAGGTACCTGGCAGGGTCTGTTGGCTCCCTCCTAGCTAGCTATTCTGTAGgtaagcttgccgtcagttctaaaccaccagctccaactgcgccctgttgc Alignment from Exonerate_protein2genome GTGACCAGGATTGGACTGATAGTT---CACAAGACCAGCAAGCAGGATTTCCAGGTG-TTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGG agatagatgtactggggagacaatcatttttataattcctgtatttttagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATTTTCAGGTACCTGGCAGGGTCTGTTGGCTCCCTCCTAGCTAGCTATTCTGTAGgtaagcttgccgtcagttctaaaccaccagctccaactgcgccctgttgc Alignment from Exonerate_coding2genome GTGACCAGGATTGGACTGATAGTT---CACAAGACCAGCAAGCAGGATTTCCAGGTG-TTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGG agatagatgtactggggagacaatcatttttataattcctgtatttttagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATTTTCAGGTACCTGGCAGGGTCTGTTGGCTCCCTCCTAGCTAGCTATTCTGTAGgtaagcttgccgtcagttctaaaccaccagctccaactgcgccctgttgc Alignment from GeneWise GTGACCAGGATTGGACTGATAGTTCAC---AAGACCAGCAAGCAGGATTTCCAG-GTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGG agatagatgtactggggagacaatcatttttataattcctgtatttttagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATTTTCAGGTACCTGGCAGGGTCTGTTGGCTCCCTCCTAGCTAGCTATTCTGTAGgtaagcttgccgtcagttctaaaccaccagctccaactgcgccctgttgc #### Hps1_ID8615_13 --> 1 - 2 Original Alignment gCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCC-CAGAAACTCATGaa gccaatatattttctgtggagtacatcttccccatccccccggcccccaggTTTCTCCAAGTCTGCGGGAAGTTAAAGCGACAATTGTGTATAATGTACCAGCTCAGCTACCTGGTCACAGCACCCAGCAGAGGAGGGCCACACCTGCCCCAGCATATACAGGAC---CCCCCAAAAA---ATGaagtgagtggaccatgcccaaaaacttgtcaagctaggtcattacgtctgtg Alignment from CESAR gCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGaa gccaatatattttctgtggagtacatcttccccatccccccggcccccaggTTTCTCCAAGTCTGCGGGAAGTTAAAGCGACAATTGTGTATAATGTACCAGCTCAGCTACCTGGTCACAGCACCCAGCAGAGGAGGGCCACACCTGCCCCAGCATATACAGGAC--CCCCCAAAAA---ATGaagtgagtggaccatgcccaaaaacttgtcaagctaggtcattacgtctgtg Alignment from Spaln_aa2Genome GCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTC gccaatatattttctgtggagtacatcttccccatccccccggcccccagGTTTCTCCAAGTCTGCGGGAAGTTAAAGCGACAATTGTGTATAATGTACCAGCTCAGCTACCTGGTCACAGCACCCAGCAGAGGAGGGCCACACCTGCCCCAGCATATACAGGACCCCCCAAAAAATGAAgtgagtggaccatgcccaaaaacttgtcaagctaggtcattacgtctgtg Alignment from Spaln_nt2Genome GCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGAA gccaatatattttctgtggagtacatcttccccatccccccggcccccagGTTTCTCCAAGTCTGCGGGAAGTTAAAGCGACAATTGTGTATAATGTACCAGCTCAGCTACCTGGTCACAGCACCCAGCAGAGGAGGGCCACACCTGCCCCAGCATATACAGGACC--CCCCAAAAA---ATGAAgtgagtggaccatgcccaaaaacttgtcaagctaggtcattacgtctgtg Alignment from Pairagon GCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGAA gccaatatattttctgtggagtacatcttccccatccccccggcccccagGTTTCTCCAAGTCTGCGGGAAGTTAAAGCGACAATTGTGTATAATGTACCAGCTCAGCTACCTGGTCACAGCACCCAGCAGAGGAGGGCCACACCTGCCCCAGCATATACAGGACC--CCCCAAAAA---ATGAAgtgagtggaccatgcccaaaaacttgtcaagctaggtcattacgtctgtg Alignment from Exonerate_protein2genome GCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTC gccaatatattttctgtggagtacatcttccccatccccccggcccccagGTTTCTCCAAGTCTGCGGGAAGTTAAAGCGACAATTGTGTATAATGTACCAGCTCAGCTACCTGGTCACAGCACCCAGCAGAGGAGGGCCACACCTGCCCCAGCATATACAGGACCCCCCAAAAAATGAAgtgagtggaccatgcccaaaaacttgtcaagctaggtcattacgtctgtg Alignment from Exonerate_coding2genome gccaatatattttctgtggagtacatcttccccatccccccggcccccaggtttctccaagtctgcgggaagttaaagcgacaattgtgtataatgtaccagctcagctacctggtcacagcacccagcagaggagggccacacctgccccagcatatacaggaccccccaaaaaatgaagtgagtggaccatgcccaaaaacttgtcaagctaggtcattacgtctgtg Alignment from GeneWise GAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGGAGCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGAAGGAG AATATATTTTCTGTGGAGTACATCTTCCCCATCCCCCCGGCCCCC---AGGTTTCTCCAAGTCTGCGGGAAGTTAAAGCGACAATTGTGTATAATGTACCAGCTCAGCTACCTGGTCACAGCACCCAGCAGAGGAGGGCCACACCTGCCCCAGCATATACAGGACCCCCCAAAA---------AATGAAgtgagtggaccatgcccaaaaacttgtcaagctaggtcattacgtctgtg #### Hps1_ID8616_12 --> 0 - 2 Original Alignment AACACCTGGCTGGAGTTTAAGAGCAAAGCCTTC-TCTAGAAGTGAGCCAGGATCGTCCTGGga tttgtggggaacactcccctatgcacttcaacctgagctctctgctgcagAATGCCTGGCTGGAATTTAAGAGTAAAGTC---CTCTAAGGGTCAGCAAGGA------CGGgagtaagtctattatgtcaaaaattatatacagtcattggtgttccttgttt Alignment from CESAR AACACCTGGCTGGAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGga tttgtggggaacactcccctatgcacttcaacctgagctctctgctgcagAATGCCTGGCTGGAATTTAAGAGTAAAGTCC--TCTAAGGGTCAGCAAGGA------CGGgagtaagtctattatgtcaaaaattatatacagtcattggtgttccttgttt Alignment from Spaln_aa2Genome AACACCTGGCTGGAGTTTAAGA tttgtggggaacactcccctatgcacttcaacctgagctctctgctgcagAATGCCTGGCTGGAATTTAAGAgtaaagtcctctaagggtcagcaaggacgggagtaagtctattatgtcaaaaattatatacagtcattggtgttccttgttt Alignment from Spaln_nt2Genome AACACCTGGCTGGAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGGA tttgtggggaacactcccctatgcacttcaacctgagctctctgctgcagAATGCCTGGCTGGAATTTAAGAGTAAAG--TCCTCTAAGGGTCAGCAAGGA------CGGGAgtaagtctattatgtcaaaaattatatacagtcattggtgttccttgttt Alignment from Pairagon AACACCTGGCTGGAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCT------------------GGGA tttgtggggaacactcccctatgcacttcaacctgagctctctgctgcagAATGCCTGGCTGGAATTTAAGAGTAAA--------------------------GTCCTCTAAGGGTCAGCAAGGACGGGAgtaagtctattatgtcaaaaattatatacagtcattggtgttccttgttt Alignment from Exonerate_protein2genome AACACCTGGCTGGAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGG tttgtggggaacactcccctatgcacttcaacctgagctctctgctgcagAATGCCTGGCTGGAATTTAAGAGTAAAGTCCTCTAAGGGTCAGCAAGGACgggagtaagtctattatgtcaaaaattatatacagtcattggtgttccttgttt Alignment from Exonerate_coding2genome tttgtggggaacactcccctatgcacttcaacctgagctctctgctgcagaatgcctggctggaatttaagagtaaagtcctctaagggtcagcaaggacgggagtaagtctattatgtcaaaaattatatacagtcattggtgttccttgttt Alignment from GeneWise tttgtggggaacactcccctatgcacttcaacctgagctctctgctgcagaatgcctggctggaatttaagagtaaagtcctctaagggtcagcaaggacgggagtaagtctattatgtcaaaaattatatacagtcattggtgttccttgttt #### Hps1_ID8620_8 --> 0 - 1 Original Alignment GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCT-TCCCCAGGCGATCAGAGTTCAg tggtaagcaaactagggtgtactctctgttcggtgttggtccatgggcagGATACTGAT---AATTCC---CCGGAAGAGTATTTCACTCCCTCTCCTCTCCCCAAGT------GGTCCAggtaagcggagcaggtgtggcgccctgttatgtcacttagctaagtacaga Alignment from CESAR GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCT-TCCCCAGGCGATCAGAGTTCAg tggtaagcaaactagggtgtactctctgttcggtgttggtccatgggcagGATACTGATAAT---TCC---CCGGAAGAGTATTTCACTCCCTCTCCTCTCCCCAAGT------GGTCCAggtaagcggagcaggtgtggcgccctgttatgtcacttagctaagtacaga Alignment from Spaln_aa2Genome GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGG tggtaagcaaactagggtgtactctctgttcggtgttggtccatgggcagGATACTGATAATTCC------CCGGAAGAGTATTTCACTCCCTCTCCTCTCCCCAAgtggtccaggtaagcggagcaggtgtggcgccctgttatgtcacttagctaagtacaga Alignment from Spaln_nt2Genome GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCT-TCCCCAGGCGATCAGAGTTCAG tggtaagcaaactagggtgtactctctgttcggtgttggtccatgggcagGATACTGATA--AT-TC---CCCGGAAGAGTATTTCACTCCCTCTCCTCTCCCCAAGTG------GTCCAGgtaagcggagcaggtgtggcgccctgttatgtcacttagctaagtacaga Alignment from Pairagon ----------------------------------------------------------------CCCTGAAGAGTACTTCACTCCTGCTCCT-TCCCCAGGCGATCAGAGTTCAG TGGTAAGCAAACTAGGGTGTACTCTCTGTTCGGTGTTGGTCCATGGGCAGGATACTGATAATTCCCCGGAAGAGTATTTCACTCCCTCTCCTCTCCCCAAGTG------GTCCAGgtaagcggagcaggtgtggcgccctgttatgtcacttagctaagtacaga Alignment from Exonerate_protein2genome GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAG tggtaagcaaactagggtgtactctctgttcggtgttggtccatGGGCAGGATACTGATAATTCCCCGGAAGAGTATTTCACTCCCTCTCCTCTCCCCAAGTGGTCCAGgtaagcggagcaggtgtggcgccctgttatgtcacttagctaagtacaga Alignment from Exonerate_coding2genome tggtaagcaaactagggtgtactctctgttcggtgttggtccatgggcaggatactgataattccccggaagagtatttcactccctctcctctccccaagtggtccaggtaagcggagcaggtgtggcgccctgttatgtcacttagctaagtacaga Alignment from GeneWise --------------------------------------------GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCA-- TGGTAAGCAAACTAGGGTGTACTCTCTGTTCGGTGTTGGTCCATGGGCAGGATACTGATAATTCCCCGGAAGAGTATTTCACTCCCTCTCCTCTCCCCAAgtggtccaggtaagcggagcaggtgtggcgccctgttatgtcacttagctaagtacaga #### Hps1_ID8625_3 --> 0 - 2 Original Alignment TTTGGAGAGTACCTGTTCGTCGCCATCAACGGAGACCACAGTGAG-AGCGAGGGGGACCTGCGGAGGAAACTGTGTGTGCTCAAGTATCTATTCGAGGTGCACTTCGGGCTGGTGACTGTGGACGGCCAGCTCATCCGGAAGga tgatattaaatacacattttgactgcctcttgtgcctttactttttgcagTTTGAAGAGTACCTGTTTGCTGTAATCAATGGAGACCACACTGAGCAGTAAAGGGGAGCTACTGAGA---CTGTGTGTGCTTAAGTACTTATTTGGGGTGCACTTTGGGCTCGTGACTGTTGATGGCCAACTTATCTGGAAAgagtgagtggccagatcaacctctaattccttactgcttcagataacatctg Alignment from CESAR TTTGGAGAGTACCTGTTCGTCGCCATCAACGGAGACCACAGTGAG-AGCGAGGGGGACCTGCGGAGGAAACTGTGTGTGCTCAAGTATCTATTCGAGGTGCACTTCGGGCTGGTGACTGTGGACGGCCAGCTCATCCGGAAGga tgatattaaatacacattttgactgcctcttgtgcctttactttttgcagTTTGAAGAGTACCTGTTTGCTGTAATCAATGGAGACCACACTGAGCAGTAAAGGGGAGCTACTGAGA---CTGTGTGTGCTTAAGTACTTATTTGGGGTGCACTTTGGGCTCGTGACTGTTGATGGCCAACTTATCTGGAAAgagtgagtggccagatcaacctctaattccttactgcttcagataacatctg Alignment from Spaln_aa2Genome TTTGGAGAGTACCTGTTCGTCGCCATCAACGGAGACCACAGTGAG-AGCGAGGGGGACCTGCGGAGGAAACTGTGTGTGCTCAAGTATCTATTCGAGGTGCACTTCGGGCTGGTGACTGTGGACGGCCAGCTCATCCGGAAGGA tgatattaaatacacattttgactgcctcttgtgcctttactttttgcagTTTGAAGAGTACCTGTTTGCTGTAATCAATGGAGACCACACTGAGcAGTAAAGGGGAGCTACTGAGA---CTGTGTGTGCTTAAGTACTTATTTGGGGTGCACTTTGGGCTCGTGACTGTTGATGGCCAACTTATCTGGAAAGAgtgagtggccagatcaacctctaattccttactgcttcagataacatctg Alignment from Spaln_nt2Genome TTTGGAGAGTACCTGTTCGTCGCCATCAACGGAGACCACAGTGAG-AGCGAGGGGGACCTGCGGAGGAAACTGTGTGTGCTCAAGTATCTATTCGAGGTGCACTTCGGGCTGGTGACTGTGGACGGCCAGCTCATCCGGAAGGA tgatattaaatacacattttgactgcctcttgtgcctttactttttgcagTTTGAAGAGTACCTGTTTGCTGTAATCAATGGAGACCACACTGAGCAGTAAAGGGGAGCTACTGAG---ACTGTGTGTGCTTAAGTACTTATTTGGGGTGCACTTTGGGCTCGTGACTGTTGATGGCCAACTTATCTGGAAAGAgtgagtggccagatcaacctctaattccttactgcttcagataacatctg Alignment from Pairagon TTTGGAGAGTACCTGTTCGTCGCCATCAACGGAGACCACAGTGAG-AGCGAGGGGGACCTGCGGAGGAAACTGTGTGTGCTCAAGTATCTATTCGAGGTGCACTTCGGGCTGGTGACTGTGGACGGCCAGCTCATCCGGAAGGA tgatattaaatacacattttgactgcctcttgtgcctttactttttgcagTTTGAAGAGTACCTGTTTGCTGTAATCAATGGAGACCACACTGAGCAGTAAAGGGGAGCTACTGAG---ACTGTGTGTGCTTAAGTACTTATTTGGGGTGCACTTTGGGCTCGTGACTGTTGATGGCCAACTTATCTGGAAAGAgtgagtggccagatcaacctctaattccttactgcttcagataacatctg Alignment from Exonerate_protein2genome tgatattaaatacacattttgactgcctcttgtgcctttactttttgcagtttgaagagtacctgtttgctgtaatcaatggagaccacactgagcagtaaaggggagctactgagactgtgtgtgcttaagtacttatttggggtgcactttgggctcgtgactgttgatggccaacttatctggaaagagtgagtggccagatcaacctctaattccttactgcttcagataacatctg Alignment from Exonerate_coding2genome TTTGGAGAGTACCTGTTCGTCGCCATCAACGGAGACCACAGTGAG-AGCGAGGGGGACCTGCGGAGGAAACTGTGTGTGCTCAAGTATCTATTCGAGGTGCACTTCGGGCTGGTGACTGTGGACGGCCAGCTCATCCGGAAGGA tgatattaaatacacattttgactgcctcttgtgcctttactttttgcagTTTGAAGAGTACCTGTTTGCTGTAATCAATGGAGACCACACTGAGCAGTAAAGGGGAGCTACTGAGA---CTGTGTGTGCTTAAGTACTTATTTGGGGTGCACTTTGGGCTCGTGACTGTTGATGGCCAACTTATCTGGAAAGAgtgagtggccagatcaacctctaattccttactgcttcagataacatctg Alignment from GeneWise TTTGGAGAGTACCTGTTCGTCGCCATCAACGGAGACCACAGTGAG-AGCGAGGGGGACCTGCGGAGGAAACTGTGTGTGCTCAAGTATCTATTCGAGGTGCACTTCGGGCTGGTGACTGTGGACGGCCAGCTCATCCGGAAGGA tgatattaaatacacattttgactgcctcttgtgcctttactttttgcagTTTGAAGAGTACCTGTTTGCTGTAATCAATGGAGACCACACTGAGCAGTAAAGGGGAGCTACTGAGA---CTGTGTGTGCTTAAGTACTTATTTGGGGTGCACTTTGGGCTCGTGACTGTTGATGGCCAACTTATCTGGAAAGAgtgagtggccagatcaacctctaattccttactgcttcagataacatctg #### Il33_ID6361_4 --> 2 - 1 Original Alignment gaACTTCACTTTTAACACAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTTAGTTTTGTTTTG-GAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAg ctggttgggctggtagacacataaaatgccatttattttctcttctaaaggaACTGCACTTTTAACTCAAACACCAGCTTCCCTAAGTACATACAATGACCAGTCTGAGAGTTTTGTGTTACGAAAATGGATGTTATGTGCTAAATATTGATGATTCTGGTAAAGACCAGGAACATggtgagtcttaaccatgccagaggtccctgggtttatgcttaatgagaatg Alignment from CESAR gaACTTCACTTTTAACACAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTTAGTTTTGTTTTG-GAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAg ctggttgggctggtagacacataaaatgccatttattttctcttctaaaggaACTGCACTTTTAACTCAAACACCAGCTTCCCTAAGTACATACAATGACCAGTCTGAGAGTTTTGTGTTACGAAAATGGATGTTATGTGCTAAATATTGATGATTCTGGTAAAGACCAGGAACATggtgagtcttaaccatgccagaggtccctgggtttatgcttaatgagaatg Alignment from Spaln_aa2Genome GAACTTCACTTTTAACACAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTTAGTTTTGTTTTG-GAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAG ctggttgggctggtagacacataaaatgccatttattttctcttctaaagGAACTGCACTTTTAACTCAAACACCAGCTTCCCTAAGTACATACAATGACCAGTCTGAGAGTTTTGTGTTAcGAAAATGGATGTTATGTGCTAAATATTGATGATTCTGGTAAAGACCAGGAACATGgtgagtcttaaccatgccagaggtccctgggtttatgcttaatgagaatg Alignment from Spaln_nt2Genome GAACTTCACTTTTAACACAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTTAGTTTTGTTTTG-GAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAG ctggttgggctggtagacacataaaatgccatttattttctcttctaaagGAACTGCACTTTTAACTCAAACACCAGCTTCCCTAAGTACATACAATGACCAGTCTGAGAGTTTTGTGTTACGAAAATGGATGTTATGTGCTAAATATTGATGATTCTGGTAAAGACCAGGAACATGgtgagtcttaaccatgccagaggtccctgggtttatgcttaatgagaatg Alignment from Pairagon GAACTTCACTTTTAACACAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTTAGTTTTGTTTTG-GAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAG ctggttgggctggtagacacataaaatgccatttattttctcttctaaagGAACTGCACTTTTAACTCAAACACCAGCTTCCCTAAGTACATACAATGACCAGTCTGAGAGTTTTGTGTTACGAAAATGGATGTTATGTGCTAAATATTGATGATTCTGGTAAAGACCAGGAACATGgtgagtcttaaccatgccagaggtccctgggtttatgcttaatgagaatg Alignment from Exonerate_protein2genome GAACTTCACTTTTAACACAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTTAGTTTTGTTTTG-GAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAG ctggttgggctggtagacacataaaatgccatttattttctcttctaaagGAACTGCACTTTTAACTCAAACACCAGCTTCCCTAAGTACATACAATGACCAGTCTGAGAGTTTTGTGTTACGAAAATGGATGTTATGTGCTAAATATTGATGATTCTGGTAAAGACCAGGAACATGgtgagtcttaaccatgccagaggtccctgggtttatgcttaatgagaatg Alignment from Exonerate_coding2genome GAACTTCACTTTTAACACAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTTAGTTTTGTTTTG-GAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAG ctggttgggctggtagacacataaaatgccatttattttctcttctaaagGAACTGCACTTTTAACTCAAACACCAGCTTCCCTAAGTACATACAATGACCAGTCTGAGAGTTTTGTGTTACGAAAATGGATGTTATGTGCTAAATATTGATGATTCTGGTAAAGACCAGGAACATGgtgagtcttaaccatgccagaggtccctgggtttatgcttaatgagaatg Alignment from GeneWise GAACTTCACTTTTAACACAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTTAGTTTTGTT-TTGGAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAG ctggttgggctggtagacacataaaatgccatttattttctcttctaaagGAACTGCACTTTTAACTCAAACACCAGCTTCCCTAAGTACATACAATGACCAGTCTGAGAGTTTTGTGTTACGAAAATGGATGTTATGTGCTAAATATTGATGATTCTGGTAAAGACCAGGAACATGgtgagtcttaaccatgccagaggtccctgggtttatgcttaatgagaatg #### Il33_ID6362_5 --> 2 - 1 Original Alignment acCAGGTGCTACTACGCTACTATGAGTCT-CCCTGTCCTGCAAGTCAATCAg tatcccatagtcttatgtttatgagttcatggtaatatttgttatttcagacCAAGTGCTGTTATGTTATTATGAGTCACCCCTGTCCTGCAAGTCAGTCTggtgaggtagtcacaagggtagaatggtgctcagagtgtctatatagatct Alignment from CESAR acCAGGTGCTACTACGCTACTATGAGTCT-CCCTGTCCTGCAAGTCAATCAg tatcccatagtcttatgtttatgagttcatggtaatatttgttatttcagacCAAGTGCTGTTATGTTATTATGAGTCACCCCTGTCCTGCAAGTCAGTCTggtgaggtagtcacaagggtagaatggtgctcagagtgtctatatagatct Alignment from Spaln_aa2Genome ACCAGGTGCTACTACGCTACTATGAGTCTCCC-TGTCCTGCAAGTCAATCAG tatcccatagtcttatgtttatgagttcatggtaatatttgttatttcagACCAAGTGCTGTTATGTTATTATGAGTCACCCcTGTCCTGCAAGTCAGTCTGgtgaggtagtcacaagggtagaatggtgctcagagtgtctatatagatct Alignment from Spaln_nt2Genome ACCAGGTGCTACTACGCTACTATGAGTCTCCC-TGTCCTGCAAGTCAATCAG tatcccatagtcttatgtttatgagttcatggtaatatttgttatttcagACCAAGTGCTGTTATGTTATTATGAGTCACCCCTGTCCTGCAAGTCAGTCTGgtgaggtagtcacaagggtagaatggtgctcagagtgtctatatagatct Alignment from Pairagon ACCAGGTGCTACTACGCTACTATGAGTC-TCCCTGTCCTGCAAGTCAATCAG tatcccatagtcttatgtttatgagttcatggtaatatttgttatttcagACCAAGTGCTGTTATGTTATTATGAGTCACCCCTGTCCTGCAAGTCAGTCTGgtgaggtagtcacaagggtagaatggtgctcagagtgtctatatagatct Alignment from Exonerate_protein2genome ACCAGGTGCTACTACGCTACTATGAGTCT-CCCTGTCCTGCAAGTCAATCAG tatcccatagtcttatgtttatgagttcatggtaatatttgttatttcagACCAAGTGCTGTTATGTTATTATGAGTCACCCCTGTCCTGCAAGTCAGTCTGgtgaggtagtcacaagggtagaatggtgctcagagtgtctatatagatct Alignment from Exonerate_coding2genome tatcccatagtcttatgtttatgagttcatggtaatatttgttatttcagaccaagtgctgttatgttattatgagtcacccctgtcctgcaagtcagtctggtgaggtagtcacaagggtagaatggtgctcagagtgtctatatagatct Alignment from GeneWise ACCAGGTGCTACTACGCTACTATGAG-TCTCCCTGTCCTGCAAGTCAATCAG tatcccatagtcttatgtttatgagttcatggtaatatttgttatttcagACCAAGTGCTGTTATGTTATTATGAGTCACCCCTGTCCTGCAAGTCAGTCTGgtgaggtagtcacaagggtagaatggtgctcagagtgtctatatagatct #### Incenp_ID2605_14 --> 1 - 0 Original Alignment gGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAG-GAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tcccctgcattgttggggactagcagactaacgctgatttcttctcccaggGAGATGCAAGAGAGAGAAAAGGCCTTGAGACTCCAAAAACGAACGGCTTCAAAAGGAACTGGGGGAAAAGAAGCAGAAGgtgtgtgccctgcagacatatattccgcacagtaagtccgatctggagca Alignment from CESAR gGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAG-GAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tcccctgcattgttggggactagcagactaacgctgatttcttctcccaggGAGATGCAAGAGAGAGAAAAGGCCTTGAGACTCCAAAAACGAACGGCTTCAAAAGGAACTGGGGGAAAAGAAGCAGAAGgtgtgtgccctgcagacatatattccgcacagtaagtccgatctggagca Alignment from Spaln_aa2Genome GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAG-GAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tcccctgcattgttggggactagcagactaacgctgatttcttctcccagGGAGATGCAAGAGAGAGAAAAGGCCTTGAGACTCCAAAAAcGAACGGCTTCAAAAGGAACTGGGGGAAAAGAAGCAGAAGgtgtgtgccctgcagacatatattccgcacagtaagtccgatctggagca Alignment from Spaln_nt2Genome GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCC-AAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tcccctgcattgttggggactagcagactaacgctgatttcttctcccagGGAGATGCAAGAGAGAGAAAAGGCCTTGAGACTCCAAAAACGAACGGCTTCAAAAGGAACTGGGGGAAAAGAAGCAGAAGgtgtgtgccctgcagacatatattccgcacagtaagtccgatctggagca Alignment from Pairagon GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAG-GAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tcccctgcattgttggggactagcagactaacgctgatttcttctcccagGGAGATGCAAGAGAGAGAAAAGGCCTTGAGACTCCAAAAACGAACGGCTTCAAAAGGAACTGGGGGAAAAGAAGCAGAAGgtgtgtgccctgcagacatatattccgcacagtaagtccgatctggagca Alignment from Exonerate_protein2genome GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAG-GAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tcccctgcattgttggggactagcagactaacgctgatttcttctcccagGGAGATGCAAGAGAGAGAAAAGGCCTTGAGACTCCAAAAACGAACGGCTTCAAAAGGAACTGGGGGAAAAGAAGCAGAAGgtgtgtgccctgcagacatatattccgcacagtaagtccgatctggagca Alignment from Exonerate_coding2genome GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAG-GAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tcccctgcattgttggggactagcagactaacgctgatttcttctcccagGGAGATGCAAGAGAGAGAAAAGGCCTTGAGACTCCAAAAACGAACGGCTTCAAAAGGAACTGGGGGAAAAGAAGCAGAAGgtgtgtgccctgcagacatatattccgcacagtaagtccgatctggagca Alignment from GeneWise GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAA-AAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tcccctgcattgttggggactagcagactaacgctgatttcttctcccagGGAGATGCAAGAGAGAGAAAAGGCCTTGAGACTCCAAAAACGAACGGCTTCAAAAGGAACTGGGGGAAAAGAAGCAGAAGgtgtgtgccctgcagacatatattccgcacagtaagtccgatctggagca #### Incenp_ID2611_8 --> 1 - 0 Original Alignment gAGGAAACGCAGTTACAAACAGGCAATAAGTGAA-CCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG ggcagtgacatgcagagtgatattctagtgtgtgtctgtgtgatctctaggAGGAAGCGTAGTTACAAAAAGGCTACAAGTAAGCCCCGATGAGGATCAGCTGGAAGATGAAGACCGTAAGCCATGTCAGAATAAAACACTTTCAGCC------CCACCCAACAAGgtatccgtctgctcatcttttatgcccttattccgtattctatccaagcc Alignment from CESAR gAGGAAACGCAGTTACAAACAGGCAATAAGTGAA-CCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG ggcagtgacatgcagagtgatattctagtgtgtgtctgtgtgatctctaggAGGAAGCGTAGTTACAAAAAGGCTACAAGTAAGCCCCGATGAGGATCAGCTGGAAGATGAAGACCGTAAGCCATGTCAGAATAAAACACTTTCAGCC------CCACCCAACAAGgtatccgtctgctcatcttttatgcccttattccgtattctatccaagcc Alignment from Spaln_aa2Genome GAGGAAACGCAGTTACAAACAGGCAATAAGTGAA-CCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG ggcagtgacatgcagagtgatattctagtgtgtgtctgtgtgatctctagGAGGAAGCGTAGTTACAAAAAGGCTACAAGTAAGcCCCGATGAGGATCAGCTGGAAGATGAAGACCGTAAGCCATGTCAGAATAAAACACTTTCAGCC------CCACCCAACAAGgtatccgtctgctcatcttttatgcccttattccgtattctatccaagcc Alignment from Spaln_nt2Genome GAGGAAACGCAGTTACAAACAGGCAATAAGTGAA-CCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG ggcagtgacatgcagagtgatattctagtgtgtgtctgtgtgatctctagGAGGAAGCGTAGTTACAAAAAGGCTACAAGTAAGCCCCGATGAGGATCAGCTGGAAGATGAAGACCGTAAGCCATGTCAGAATAAAACACTTT---CAGCC---CCACCCAACAAGgtatccgtctgctcatcttttatgcccttattccgtattctatccaagcc Alignment from Pairagon GAGGAAACGCAGTTACAAACAGGCAATAAGTGAA-CCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTT---CCCCACCCTGTCCAGCCAACAAG ggcagtgacatgcagagtgatattctagtgtgtgtctgtgtgatctctagGAGGAAGCGTAGTTACAAAAAGGCTACAAGTAAGCCCCGATGAGGATCAGCTGGAAGATGAAGACCGTAAGCCATGTCAGAATAAAACACTTTCAGCCCCAC---------CCAACAAGgtatccgtctgctcatcttttatgcccttattccgtattctatccaagcc Alignment from Exonerate_protein2genome GAGGAAACGCAGTTACAAACAGGCAATAAGTGAA-CCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG ggcagtgacatgcagagtgatattctagtgtgtgtctgtgtgatctctagGAGGAAGCGTAGTTACAAAAAGGCTACAAGTAAGCCCCGATGAGGATCAGCTGGAAGATGAAGACCGTAAGCCATGTCAGAATAAAACACTTTCA------GCCCCACCCAACAAGgtatccgtctgctcatcttttatgcccttattccgtattctatccaagcc Alignment from Exonerate_coding2genome GAGGAAACGCAGTTACAAACAGGCAATAAGTGAA-CCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG ggcagtgacatgcagagtgatattctagtgtgtgtctgtgtgatctctagGAGGAAGCGTAGTTACAAAAAGGCTACAAGTAAGCCCCGATGAGGATCAGCTGGAAGATGAAGACCGTAAGCCATGTCAGAATAAAACACTTTCA------GCCCCACCCAACAAGgtatccgtctgctcatcttttatgcccttattccgtattctatccaagcc Alignment from GeneWise GAGGAAACGCAGTTACAAACAGGCAATAAGT-GAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCC------------------TGT------------------------------------CC ggcagtgacatgcagagtgatattctagtgtgtgtctgtgtgatctctagGAGGAAGCGTAGTTACAAAAAGGCTACAAGTAAGCCCCGATGAGGATCAGCTGGAAGATGAAGACCGTAAGCCATGTCAGAATAAAACACTTTCAGCCCCACCCAACAAGGTATCCGTCTGCTCATCTTTTATGCCCTTATTCCGTATTCTATCCAAGCC #### Kat5_ID1109_13 --> 1 - 0 Original Alignment tGAGATCAGTGAAATCACTAGTATC-AAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtgctatggatctcacagatgtaaactgtgggactctgtctaacctgcagtGAGATTAGTGAAATTACTAGTATTCAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGgtaagtgggcataattcacttgatgccaaaacttgcttatacttagatgt Alignment from CESAR tGAGATCAGTGAAATCACTAGTATC-AAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtgctatggatctcacagatgtaaactgtgggactctgtctaacctgcagtGAGATTAGTGAAATTACTAGTATTCAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGgtaagtgggcataattcacttgatgccaaaacttgcttatacttagatgt Alignment from Spaln_aa2Genome TGAGATCAGTGAAATCACTAGTATC-AAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtgctatggatctcacagatgtaaactgtgggactctgtctaacctgcagTGAGATTAGTGAAATTACTAGTATTcAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGgtaagtgggcataattcacttgatgccaaaacttgcttatacttagatgt Alignment from Spaln_nt2Genome TGAGATCAGTGAAATCACTAGTA-TCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtgctatggatctcacagatgtaaactgtgggactctgtctaacctgcagTGAGATTAGTGAAATTACTAGTATTCAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGgtaagtgggcataattcacttgatgccaaaacttgcttatacttagatgt Alignment from Pairagon TGAGATCAGTGAAATCACTAGTA-TCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtgctatggatctcacagatgtaaactgtgggactctgtctaacctgcagTGAGATTAGTGAAATTACTAGTATTCAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGgtaagtgggcataattcacttgatgccaaaacttgcttatacttagatgt Alignment from Exonerate_protein2genome TGAGATCAGTGAAATCACTAGTATC-AAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtgctatggatctcacagatgtaaactgtgggactctgtctaacctgcagTGAGATTAGTGAAATTACTAGTATTCAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGgtaagtgggcataattcacttgatgccaaaacttgcttatacttagatgt Alignment from Exonerate_coding2genome TGAGATCAGTGAAATCACTAGTATC-AAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtgctatggatctcacagatgtaaactgtgggactctgtctaacctgcagTGAGATTAGTGAAATTACTAGTATTCAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGgtaagtgggcataattcacttgatgccaaaacttgcttatacttagatgt Alignment from GeneWise TGAGATCAGTGAAATCACTAGT-ATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtgctatggatctcacagatgtaaactgtgggactctgtctaacctgcagTGAGATTAGTGAAATTACTAGTATTCAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGgtaagtgggcataattcacttgatgccaaaacttgcttatacttagatgt #### Kat5_ID1114_8 --> 0 - 0 Original Alignment GATTCTCAGGACAGC-TCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG gctccccccagtactcacccgctgacacaagcctgtcctgtcccttccagGATCCTCAGGATAGCCTCAGATGGGATACCAACAGCTCCACAAATGACAGGTAGTCTAGTATCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCTTAAGCCATGGTATTTCTCCCCATAC---CAGGTGCTCACCATCATACCTATCCTCTATCTGTGTGAATCTTGCCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTgtaaggggtgacttagacatcagtgtggtttagcgctagttattggtgga Alignment from CESAR GATTCTCAGGACAGC-TCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG gctccccccagtactcacccgctgacacaagcctgtcctgtcccttccagGATCCTCAGGATAGCCTCAGATGGGATACCAACAGCTCCACAAATGACAGGTAGTCTAGTATCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCTTAAGCCATGGTATTTCTCCCCATAC---CAGGTGCTCACCATCATACCTATCCTCTATCTGTGTGAATCTTGCCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTgtaaggggtgacttagacatcagtgtggtttagcgctagttattggtgga Alignment from Spaln_aa2Genome TCCAAGTGTCTGCACTTCACTCCCAAAGACTGGAGCAAGAGAGGAAAGTGG catgaattggtcgtcagtcctcaggaacccctcctcctcctcctatcacag Alignment from Spaln_nt2Genome GATTCTCAGGACAGC-TCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG gctccccccagtactcacccgctgacacaagcctgtcctgtcccttccagGATCCTCAGGATAGCCTCAGATGGGATACCAACAGCTCCACAAATGACAGGTAGTCTAGTATCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCTTAAGCCATGGTATTTCTCCCCATAC---CAGGTGCTCACCATCATACCTATCCTCTATCTGTGTGAATCTTGCCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTgtaaggggtgacttagacatcagtgtggtttagcgctagttattggtgga Alignment from Pairagon GATTCTCAGGACAG-CTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG gctccccccagtactcacccgctgacacaagcctgtcctgtcccttccagGATCCTCAGGATAGCCTCAGATGGGATACCAACAGCTCCACAAATGACAGGTAGTCTAGTATCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCTTAAGCCATGGTATTTCTCCCCATAC---CAGGTGCTCACCATCATACCTATCCTCTATCTGTGTGAATCTTGCCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTgtaaggggtgacttagacatcagtgtggtttagcgctagttattggtgga Alignment from Exonerate_protein2genome GATTCTCAGGACAGC-TCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG gctccccccagtactcacccgctgacacaagcctgtcctgtcccttccagGATCCTCAGGATAGCCTCAGATGGGATACCAACAGCTCCACAAATGACAGGTAGTCTAGTATCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCTTAAGCCATGGTATTTCTCCCCATAC---CAGGTGCTCACCATCATACCTATCCTCTATCTGTGTGAATCTTGCCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTgtaaggggtgacttagacatcagtgtggtttagcgctagttattggtgga Alignment from Exonerate_coding2genome GATTCTCAGGACAGC-TCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG gctccccccagtactcacccgctgacacaagcctgtcctgtcccttccagGATCCTCAGGATAGCCTCAGATGGGATACCAACAGCTCCACAAATGACAGGTAGTCTAGTATCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCTTAAGCCATGGTATTTCTCCCCATAC---CAGGTGCTCACCATCATACCTATCCTCTATCTGTGTGAATCTTGCCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTgtaaggggtgacttagacatcagtgtggtttagcgctagttattggtgga Alignment from GeneWise GATTCTCAGGACAGC-TCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG gctccccccagtactcacccgctgacacaagcctgtcctgtcccttccagGATCCTCAGGATAGCCTCAGATGGGATACCAACAGCTCCACAAATGACAGGTAGTCTAGTATCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCTTAAGCCATGGTATTTCTCCCCATAC---CAGGTGCTCACCATCATACCTATCCTCTATCTGTGTGAATCTTGCCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTgtaaggggtgacttagacatcagtgtggtttagcgctagttattggtgga #### Kat5_ID1115_7 --> 0 - 0 Original Alignment AATGGGTCAGCCCGT-AGG---GCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG taaaatctcatgcatgctgtacgacctttgatccctccctgacctcccagAATGGGTCAACTTGTCCGAGCGGCTGTAGCAGCTCAGGCTGGATGGAAATGTAAGTCAAACTGCTTAGGCACTGATGAGgtaaggcaaggcacccaagcagggctggatgtagatctgatttctgattg Alignment from CESAR AATGGGTCA----GCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG taaaatctcatgcatgctgtacgacctttgatccctccctgacctcccagAATGGGTCAACTTGTCCGAGCGGCTGTAGCAGCTCAGGCTGGATGGAAATGTAAGTCAAACTGCTTAGGCACTGATGAGgtaaggcaaggcacccaagcagggctggatgtagatctgatttctgattg Alignment from Spaln_aa2Genome AATGGGTCAGCC----CGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG taaaatctcatgcatgctgtacgacctttgatccctccctgacctcccagAATGGGTCAACTTGTcCGAGCGGCTGTAGCAGCTCAGGCTGGATGGAAATGTAAGTCAAACTGCTTAGGCACTGATGAGgtaaggcaaggcacccaagcagggctggatgtagatctgatttctgattg Alignment from Spaln_nt2Genome AATGGGTCAGC----CCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG taaaatctcatgcatgctgtacgacctttgatccctccctgacctcccagAATGGGTCAACTTGTCCGAGCGGCTGTAGCAGCTCAGGCTGGATGGAAATGTAAGTCAAACTGCTTAGGCACTGATGAGgtaaggcaaggcacccaagcagggctggatgtagatctgatttctgattg Alignment from Pairagon AATGGGTCA----GCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG taaaatctcatgcatgctgtacgacctttgatccctccctgacctcccagAATGGGTCAACTTGTCCGAGCGGCTGTAGCAGCTCAGGCTGGATGGAAATGTAAGTCAAACTGCTTAGGCACTGATGAGgtaaggcaaggcacccaagcagggctggatgtagatctgatttctgattg Alignment from Exonerate_protein2genome AATGGGTCA----GCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG taaaatctcatgcatgctgtacgacctttgatccctccctgacctcccagAATGGGTCAACTTGTCCGAGCGGCTGTAGCAGCTCAGGCTGGATGGAAATGTAAGTCAAACTGCTTAGGCACTGATGAGgtaaggcaaggcacccaagcagggctggatgtagatctgatttctgattg Alignment from Exonerate_coding2genome GCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG taaaatctcatgcatgctgtacgacctttgatccctccctgacctcccagaatgggtcaacttGTCCGAGCGGCTGTAGCAGCTCAGGCTGGATGGAAATGTAAGTCAAACTGCTTAGGCACTGATGAGgtaaggcaaggcacccaagcagggctggatgtagatctgatttctgattg Alignment from GeneWise AATGGGTCAGCC-CGTAGGGCA---GTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG taaaatctcatgcatgctgtacgacctttgatccctccctgacctcccagAATGGGTCAACTTGTCCGAGCGGCTGTAGCAGCTCAGGCTGGATGGAAATGTAAGTCAAACTGCTTAGGCACTGATGAGgtaaggcaaggcacccaagcagggctggatgtagatctgatttctgattg #### Kazald1_ID9301_3 --> 0 - 1 Original Alignment TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTG-CGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAg acggggttattgcccacaaggttatgggttcttacttgctactcatacagTTCAGAGGTGGACCACAAGAATTTAAGGTGACTAGTTCACTACAGATTCAGGCATTGCCACCATAGTGATGAAGGCACATACCGCTGTCTCACCCGAAATGTTCTCAGCCAAGCTGAAGCCTCAGCAACTCTGATAGTGCTTACACCAggcaaacattaattgtgggtagtagcatgtggcaggcgtcatattttaaga Alignment from CESAR TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCT-AGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAg acggggttattgcccacaaggttatgggttcttacttgctactcatacagTTCAGAGGTGGACCACAAGAATTTAAGGTGACTAGTTCACTACAGATTCAGGCATTGCCACCATAGTGATGAAGGCACATACCGCTGTCTCACCCGAAATGTTCTCAGCCAAGCTGAAGCCTCAGCAACTCTGATAGTGCTTACACCAggcaaacattaattgtgggtagtagcatgtggcaggcgtcatattttaaga Alignment from Spaln_aa2Genome TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCT-AGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG acggggttattgcccacaaggttatgggttcttacttgctactcatacagTTCAGAGGTGGACCACAAGAATTTAAGGTGACTAGTTCACTACAGATTCAGGCATTGCCACCAtAGTGATGAAGGCACATACCGCTGTCTCACCCGAAATGTTCTCAGCCAAGCTGAAGCCTCAGCAACTCTGATAGTGCTTACACCAGgcaaacattaattgtgggtagtagcatgtggcaggcgtcatattttaaga Alignment from Spaln_nt2Genome TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCC-TAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG acggggttattgcccacaaggttatgggttcttacttgctactcatacagTTCAGAGGTGGACCACAAGAATTTAAGGTGACTAGTTCACTACAGATTCAGGCATTGCCACCATAGTGATGAAGGCACATACCGCTGTCTCACCCGAAATGTTCTCAGCCAAGCTGAAGCCTCAGCAACTCTGATAGTGCTTACACCAGgcaaacattaattgtgggtagtagcatgtggcaggcgtcatattttaaga Alignment from Pairagon TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTG-CGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG acggggttattgcccacaaggttatgggttcttacttgctactcatacagTTCAGAGGTGGACCACAAGAATTTAAGGTGACTAGTTCACTACAGATTCAGGCATTGCCACCATAGTGATGAAGGCACATACCGCTGTCTCACCCGAAATGTTCTCAGCCAAGCTGAAGCCTCAGCAACTCTGATAGTGCTTACACCAGgcaaacattaattgtgggtagtagcatgtggcaggcgtcatattttaaga Alignment from Exonerate_protein2genome TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCT-AGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG acggggttattgcccacaaggttatgggttcttacttgctactcatacagTTCAGAGGTGGACCACAAGAATTTAAGGTGACTAGTTCACTACAGATTCAGGCATTGCCACCATAGTGATGAAGGCACATACCGCTGTCTCACCCGAAATGTTCTCAGCCAAGCTGAAGCCTCAGCAACTCTGATAGTGCTTACACCAGgcaaacattaattgtgggtagtagcatgtggcaggcgtcatattttaaga Alignment from Exonerate_coding2genome TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCT-AGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG acggggttattgcccacaaggttatgggttcttacttgctactcatacagTTCAGAGGTGGACCACAAGAATTTAAGGTGACTAGTTCACTACAGATTCAGGCATTGCCACCATAGTGATGAAGGCACATACCGCTGTCTCACCCGAAATGTTCTCAGCCAAGCTGAAGCCTCAGCAACTCTGATAGTGCTTACACCAGgcaaacattaattgtgggtagtagcatgtggcaggcgtcatattttaaga Alignment from GeneWise --------------------------------------------GTGCAGTTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCT-AGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACA ACGGGGTTATTGCCCACAAGGTTATGGGTTCTTACTTGCTACTCATACAGTTCAGAGGTGGACCACAAGAATTTAAGGTGACTAGTTCACTACAGATTCAGGCATTGCCACCATAGTGATGAAGGCACATACCGCTGTCTCACCCGAAATGTTCTCAGCCAAGCTGAAGCCTCAGCAACTCTGATAgtgcttacaccaggcaaacattaattgtgggtagtagcatgtggcaggcgtcatattttaaga #### Kcnip2_ID9604_8 --> 0 - 0 Original Alignment GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGG-GAACACGTGGAGAGCTTCTTCCAG ctcagtggtgcggggtgttatgctacccctcctctactttgttgtcccagGACATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTACCCTGCACTCCGGGAGGAAGCCCCACGGCGAACACGTGGAAAGCTTCTTCCAAgtaagcgttgcaacttctggaatagtgggacatgtccagtctaggagtta Alignment from CESAR GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGG-GAACACGTGGAGAGCTTCTTCCAG ctcagtggtgcggggtgttatgctacccctcctctactttgttgtcccagGACATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTACCCTGCACTCCGGGAGGAAGCCCCACGGCGAACACGTGGAAAGCTTCTTCCAAgtaagcgttgcaacttctggaatagtgggacatgtccagtctaggagtta Alignment from Spaln_aa2Genome GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGG-GAACACGTGGAGAGCTTCTTCCAG ctcagtggtgcggggtgttatgctacccctcctctactttgttgtcccagGACATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTACCCTGCACTCCGGGAGGAAGCCCCACGGcGAACACGTGGAAAGCTTCTTCCAAgtaagcgttgcaacttctggaatagtgggacatgtccagtctaggagtta Alignment from Spaln_nt2Genome GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGG-GAACACGTGGAGAGCTTCTTCCAG ctcagtggtgcggggtgttatgctacccctcctctactttgttgtcccagGACATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTACCCTGCACTCCGGGAGGAAGCCCCACGGCGAACACGTGGAAAGCTTCTTCCAAgtaagcgttgcaacttctggaatagtgggacatgtccagtctaggagtta Alignment from Pairagon GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGG-GAACACGTGGAGAGCTTCTTCCAG ctcagtggtgcggggtgttatgctacccctcctctactttgttgtcccagGACATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTACCCTGCACTCCGGGAGGAAGCCCCACGGCGAACACGTGGAAAGCTTCTTCCAAgtaagcgttgcaacttctggaatagtgggacatgtccagtctaggagtta Alignment from Exonerate_protein2genome GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGG-GAACACGTGGAGAGCTTCTTCCAG ctcagtggtgcggggtgttatgctacccctcctctactttgttgtcccagGACATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTACCCTGCACTCCGGGAGGAAGCCCCACGGCGAACACGTGGAAAGCTTCTTCCAAgtaagcgttgcaacttctggaatagtgggacatgtccagtctaggagtta Alignment from Exonerate_coding2genome GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGG-GAACACGTGGAGAGCTTCTTCCAG ctcagtggtgcggggtgttatgctacccctcctctactttgttgtcccagGACATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTACCCTGCACTCCGGGAGGAAGCCCCACGGCGAACACGTGGAAAGCTTCTTCCAAgtaagcgttgcaacttctggaatagtgggacatgtccagtctaggagtta Alignment from GeneWise GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGG-GAACACGTGGAGAGCTTCTTCCAG ctcagtggtgcggggtgttatgctacccctcctctactttgttgtcccagGACATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTACCCTGCACTCCGGGAGGAAGCCCCACGGCGAACACGTGGAAAGCTTCTTCCAAgtaagcgttgcaacttctggaatagtgggacatgtccagtctaggagtta #### Kcnip2_ID9605_7 --> 0 - 0 Original Alignment GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGG-GGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG attgattattattcagtgtcttaagtgcatcttttctctctgtcccacagGACTTTGTGGCAGGTTTGTCAGTGATCCTTCGACGCAACTATAGATGACAGA---TATTGGGCTTTCAATTTATATGACCTCAATAAGGATGGCTGTATCACAAGGGAGgtaagttccatgtaacagactatgctgtgtgagtgcttggttggaattct Alignment from CESAR GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGG-GGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG attgattattattcagtgtcttaagtgcatcttttctctctgtcccacagGACTTTGTGGCAGGTTTGTCAGTGATCCTTCGACGCAACTATAGATGACAGA---TATTGGGCTTTCAATTTATATGACCTCAATAAGGATGGCTGTATCACAAGGGAGgtaagttccatgtaacagactatgctgtgtgagtgcttggttggaattct Alignment from Spaln_aa2Genome GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGG-GGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG attgattattattcagtgtcttaagtgcatcttttctctctgtcccacagGACTTTGTGGCAGGTTTGTCAGTGATCCTTCGAcGCAACTATAGATGACAGA---TATTGGGCTTTCAATTTATATGACCTCAATAAGGATGGCTGTATCACAAGGGAGgtaagttccatgtaacagactatgctgtgtgagtgcttggttggaattct Alignment from Spaln_nt2Genome GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGG-AACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG attgattattattcagtgtcttaagtgcatcttttctctctgtcccacagGACTTTGTGGCAGGTTTGTCAGTGATCCTTCGACGCAACTATAGATGACAGA---TATTGGGCTTTCAATTTATATGACCTCAATAAGGATGGCTGTATCACAAGGGAGgtaagttccatgtaacagactatgctgtgtgagtgcttggttggaattct Alignment from Pairagon GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGG-GGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG attgattattattcagtgtcttaagtgcatcttttctctctgtcccacagGACTTTGTGGCAGGTTTGTCAGTGATCCTTCGACGCAACTATAGATGACAGAT---ATTGGGCTTTCAATTTATATGACCTCAATAAGGATGGCTGTATCACAAGGGAGgtaagttccatgtaacagactatgctgtgtgagtgcttggttggaattct Alignment from Exonerate_protein2genome GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGG-GGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG attgattattattcagtgtcttaagtgcatcttttctctctgtcccacagGACTTTGTGGCAGGTTTGTCAGTGATCCTTCGACGCAACTATAGATGACAGATAT---TGGGCTTTCAATTTATATGACCTCAATAAGGATGGCTGTATCACAAGGGAGgtaagttccatgtaacagactatgctgtgtgagtgcttggttggaattct Alignment from Exonerate_coding2genome GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGG-GGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG attgattattattcagtgtcttaagtgcatcttttctctctgtcccacagGACTTTGTGGCAGGTTTGTCAGTGATCCTTCGACGCAACTATAGATGACAGATAT---TGGGCTTTCAATTTATATGACCTCAATAAGGATGGCTGTATCACAAGGGAGgtaagttccatgtaacagactatgctgtgtgagtgcttggttggaattct Alignment from GeneWise GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGG-GGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG attgattattattcagtgtcttaagtgcatcttttctctctgtcccacagGACTTTGTGGCAGGTTTGTCAGTGATCCTTCGACGCAACTATAGATGACAGATAT---TGGGCTTTCAATTTATATGACCTCAATAAGGATGGCTGTATCACAAGGGAGgtaagttccatgtaacagactatgctgtgtgagtgcttggttggaattct #### Kcnip2_ID9608_4 --> 2 - 0 Original Alignment acAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAG----TTGCAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggctagtgccagtcatgaagtattttctctctctccaatatttagatAGTGTTGAGGATGAGTTTGAACTGTCAATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAAACACGCCAAGTTTGCACATAGAGAGTTGCCTGCAAGTCTTGTATAGAGGATTCAAAAATgtgaggggggaatgaaaccacctgcggtagaccctccaaacttctaagct Alignment from CESAR acAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAG----TTGCAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggctagtgccagtcatgaagtattttctctctctccaatatttagatAGTGTTGAGGATGAGTTTGAACTGTCAATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAAACACGCCAAGTTTGCACATAGAGAGTTGCCTGCAAGTCTTGTATAGAGGATTCAAAAATgtgaggggggaatgaaaccacctgcggtagaccctccaaacttctaagct Alignment from Spaln_aa2Genome ACAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAG----TTGCAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggctagtgccagtcatgaagtattttctctctctccaatatttagATAGTGTTGAGGATGAGTTTGAACTGTCAATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAAACACGCCAAGTTTGCACATAGAGAGTTGcCTGCAAGTCTTGTATAGAGGATTCAAAAATgtgaggggggaatgaaaccacctgcggtagaccctccaaacttctaagct Alignment from Spaln_nt2Genome ACAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAGTTGC----AGGTCCTGTACAGAGGCTTCAAGAAC tgaagggctagtgccagtcatgaagtattttctctctctccaatatttagATAGTGTTGAGGATGAGTTTGAACTGTCAATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAAACACGCCAAGTTTGCACATAGAGAGTTGCCTGCAAGTCTTGTATAGAGGATTCAAAAATgtgaggggggaatgaaaccacctgcggtagaccctccaaacttctaagct Alignment from Pairagon ACAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAGT----TGCAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggctagtgccagtcatgaagtattttctctctctccaatatttagATAGTGTTGAGGATGAGTTTGAACTGTCAATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAAACACGCCAAGTTTGCACATAGAGAGTTGCCTGCAAGTCTTGTATAGAGGATTCAAAAATgtgaggggggaatgaaaccacctgcggtagaccctccaaacttctaagct Alignment from Exonerate_protein2genome ACAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAG----TTGCAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggctagtgccagtcatgaagtattttctctctctccaatatttagATAGTGTTGAGGATGAGTTTGAACTGTCAATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAAACACGCCAAGTTTGCACATAGAGAGTTGCCTGCAAGTCTTGTATAGAGGATTCAAAAATgtgaggggggaatgaaaccacctgcggtagaccctccaaacttctaagct Alignment from Exonerate_coding2genome ACAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAG----TTGCAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggctagtgccagtcatgaagtattttctctctctccaatatttagATAGTGTTGAGGATGAGTTTGAACTGTCAATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAAACACGCCAAGTTTGCACATAGAGAGTTGCCTGCAAGTCTTGTATAGAGGATTCAAAAATgtgaggggggaatgaaaccacctgcggtagaccctccaaacttctaagct Alignment from GeneWise ACAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAGTTG------CAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggctagtgccagtcatgaagtattttctctctctccaatatttagATAGTGTTGAGGATGAGTTTGAACTGTCAATGATTTGTCACCGGCCAGAAAGTTTGGAACAGCTACAGAAACACGCCAAGTTTGCACATAGAGAGTTGCCTG--CAAGTCTTGTATAGAGGATTCAAAAATgtgaggggggaatgaaaccacctgcggtagaccctccaaacttctaagct #### Kcnip2_ID9609_3 --> 2 - 1 Original Alignment caTTAGCTGCCCCAGCCTCCCTCCGCCCCCAC-AGACCCCGCCCGCTGGACCCAg gtcggggtttcaggttgcttgcccaatttatgagcaatttctaattctagcaTTAGCTGCCCCAGCCTCCCTTCGCCCCCATCAGACCCCGACCACTGGACCCAggtaggctagacccttggctgttactggttgatatcaaatttaggacccag Alignment from CESAR caTTAGCTGCCCCAGCCTCCCTCCGCCCCCAC-AGACCCCGCCCGCTGGACCCAg gtcggggtttcaggttgcttgcccaatttatgagcaatttctaattctagcaTTAGCTGCCCCAGCCTCCCTTCGCCCCCATCAGACCCCGACCACTGGACCCAggtaggctagacccttggctgttactggttgatatcaaatttaggacccag Alignment from Spaln_aa2Genome CATTAGCTGCCCCAGCCTCCCTCCGCCCCCAC-AGACCCCGCCCGCTGGACCCAG gtcggggtttcaggttgcttgcccaatttatgagcaatttctaattctagCATTAGCTGCCCCAGCCTCCCTTCGCCCCCATcAGACCCCGACCACTGGACCCAGgtaggctagacccttggctgttactggttgatatcaaatttaggacccag Alignment from Spaln_nt2Genome CATTAGCTGCCCCAGCCTCCCTCCGCCCCCA-CAGACCCCGCCCGCTGGACCCAG gtcggggtttcaggttgcttgcccaatttatgagcaatttctaattctagCATTAGCTGCCCCAGCCTCCCTTCGCCCCCATCAGACCCCGACCACTGGACCCAGgtaggctagacccttggctgttactggttgatatcaaatttaggacccag Alignment from Pairagon CATTAGCTGCCCCAGCCTCCCTCCGCCCCCA-CAGACCCCGCCCGCTGGACCCAG gtcggggtttcaggttgcttgcccaatttatgagcaatttctaattctagCATTAGCTGCCCCAGCCTCCCTTCGCCCCCATCAGACCCCGACCACTGGACCCAGgtaggctagacccttggctgttactggttgatatcaaatttaggacccag Alignment from Exonerate_protein2genome CATTAGCTGCCCCAGCCTCCCTCCGCCCCCAC-AGACCCCGCCCGCTGGACCCAG gtcggggtttcaggttgcttgcccaatttatgagcaatttctaattctagCATTAGCTGCCCCAGCCTCCCTTCGCCCCCATCAGACCCCGACCACTGGACCCAGgtaggctagacccttggctgttactggttgatatcaaatttaggacccag Alignment from Exonerate_coding2genome CATTAGCTGCCCCAGCCTCCCTCCGCCCCCAC-AGACCCCGCCCGCTGGACCCAG gtcggggtttcaggttgcttgcccaatttatgagcaatttctaattctagCATTAGCTGCCCCAGCCTCCCTTCGCCCCCATCAGACCCCGACCACTGGACCCAGgtaggctagacccttggctgttactggttgatatcaaatttaggacccag Alignment from GeneWise gtcggggtttcaggttgcttgcccaatttatgagcaatttctaattctagcattagctgccccagcctcccttcgcccccatcagaccccgaccactggacccaggtaggctagacccttggctgttactggttgatatcaaatttaggacccag #### Kif11_ID7318_8 --> 0 - 0 Original Alignment GTTGATCTTGCAGGAAGTGAAAATATTGGGCGT-TCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG tcaaactatggaagctgcagcttgaccagcccacctttcttctgttgaagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATCTCTGGAGCGGTAGTCAAGAGAGCACGCAAAGCTGGAAATATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATTACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGTGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAAgtgagtcagatagtagccatgacacacaaactcattggtctcttcagcca Alignment from CESAR GTTGATCTTGCAGGAAGTGAAAATATTGGGCGT-TCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG tcaaactatggaagctgcagcttgaccagcccacctttcttctgttgaagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATCTCTGGAGCGGTAGTCAAGAGAGCACGCAAAGCTGGAAATATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATTACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGTGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAAgtgagtcagatagtagccatgacacacaaactcattggtctcttcagcca Alignment from Spaln_aa2Genome GTTGATCTTGCAGGAAGTGAAAATATTGGGCGT-TCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG tcaaactatggaagctgcagcttgaccagcccacctttcttctgttgaagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATcTCTGGAGCGGTAGTCAAGAGAGCACGCAAAGCTGGAAATATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATTACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGTGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAAgtgagtcagatagtagccatgacacacaaactcattggtctcttcagcca Alignment from Spaln_nt2Genome GTTGATCTTGCAGGAAGTGAAAATATTGGGCGT-TCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG tcaaactatggaagctgcagcttgaccagcccacctttcttctgttgaagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATCTCTGGAGCGGTAGTCAAGAGAGCACGCAAAGCTGGAAATATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATTACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGTGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAAgtgagtcagatagtagccatgacacacaaactcattggtctcttcagcca Alignment from Pairagon GTTGATCTTGCAGGAAGTGAAAATATTGGGCGT-TCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG tcaaactatggaagctgcagcttgaccagcccacctttcttctgttgaagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATCTCTGGAGCGGTAGTCAAGAGAGCACGCAAAGCTGGAAATATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATTACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGTGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAAgtgagtcagatagtagccatgacacacaaactcattggtctcttcagcca Alignment from Exonerate_protein2genome GTTGATCTTGCAGGAAGTGAAAATATTGGGCGT-TCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG tcaaactatggaagctgcagcttgaccagcccacctttcttctgttgaagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATCTCTGGAGCGGTAGTCAAGAGAGCACGCAAAGCTGGAAATATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATTACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGTGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAAgtgagtcagatagtagccatgacacacaaactcattggtctcttcagcca Alignment from Exonerate_coding2genome GTTGATCTTGCAGGAAGTGAAAATATTGGGCGT-TCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG tcaaactatggaagctgcagcttgaccagcccacctttcttctgttgaagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATCTCTGGAGCGGTAGTCAAGAGAGCACGCAAAGCTGGAAATATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATTACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGTGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAAgtgagtcagatagtagccatgacacacaaactcattggtctcttcagcca Alignment from GeneWise GTTGATCTTGCAGGAAGTGAAAATATTGGG-CGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG tcaaactatggaagctgcagcttgaccagcccacctttcttctgttgaagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATCTCTGGAGCGGTAGTCAAGAGAGCACGCAAAGCTGGAAATATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATTACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGTGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAAgtgagtcagatagtagccatgacacacaaactcattggtctcttcagcca #### Kif11_ID7322_12 --> 0 - 0 Original Alignment GCTACAGAGTTATTTATGGATAGTAAGAACGAACTTGACCAGTGTAAATCTGACCTGCAAACCAAGACACAGGAACTTGAAACCACTCAGAAACATTTGCAAGAAACAAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGAACCGAGAAGACACTGCATGAC-ACGGCCAGCAAG aatgcccttctattttgcaataaatgaaccccttctctttctcttctcagGCTACAGAGTTATTTATGGATAGTAAGAATGAACTTGACCAGTGTAAGTCCGACCTACAAACAAAGACACAGGAACTTGAAACCACTCAGAAACATTTGCAAGAAACTAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGGACCGAGAAGACACTGCATGACCACGGCCAGCAAGgtaaggcttgaaaatttttagattgatttccttgccatgcgtcatgatac Alignment from CESAR GCTACAGAGTTATTTATGGATAGTAAGAACGAACTTGACCAGTGTAAATCTGACCTGCAAACCAAGACACAGGAACTTGAAACCACTCAGAAACATTTGCAAGAAACAAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGAACCGAGAAGACACTGCATGAC-ACGGCCAGCAAG aatgcccttctattttgcaataaatgaaccccttctctttctcttctcagGCTACAGAGTTATTTATGGATAGTAAGAATGAACTTGACCAGTGTAAGTCCGACCTACAAACAAAGACACAGGAACTTGAAACCACTCAGAAACATTTGCAAGAAACTAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGGACCGAGAAGACACTGCATGACCACGGCCAGCAAGgtaaggcttgaaaatttttagattgatttccttgccatgcgtcatgatac Alignment from Spaln_aa2Genome GCTACAGAGTTATTTATGGATAGTAAGAACGAACTTGACCAGTGTAAATCTGACCTGCAAACCAAGACACAGGAACTTGAAACCACTCAGAAACATTTGCAAGAAACAAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGAACCGAGAAGACACTGCATGACACGGCC------AGCAAG aatgcccttctattttgcaataaatgaaccccttctctttctcttctcagGCTACAGAGTTATTTATGGATAGTAAGAATGAACTTGACCAGTGTAAGTCCGACCTACAAACAAAGACACAGGAACTTGAAACCACTCAGAAACATTTGCAAGAAACTAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGGACCGAGAAGACACTGCATGACCACGGCCAGCAAGGTAAGgcttgaaaatttttagattgatttccttgccatgcgtcatgatac Alignment from Spaln_nt2Genome GCTACAGAGTTATTTATGGATAGTAAGAACGAACTTGACCAGTGTAAATCTGACCTGCAAACCAAGACACAGGAACTTGAAACCACTCAGAAACATTTGCAAGAAACAAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGAACCGAGAAGACACTGCATGAC-ACGGCCAGCAAG aatgcccttctattttgcaataaatgaaccccttctctttctcttctcagGCTACAGAGTTATTTATGGATAGTAAGAATGAACTTGACCAGTGTAAGTCCGACCTACAAACAAAGACACAGGAACTTGAAACCACTCAGAAACATTTGCAAGAAACTAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGGACCGAGAAGACACTGCATGACCACGGCCAGCAAGgtaaggcttgaaaatttttagattgatttccttgccatgcgtcatgatac Alignment from Pairagon GCTACAGAGTTATTTATGGATAGTAAGAACGAACTTGACCAGTGTAAATCTGACCTGCAAACCAAGACACAGGAACTTGAAACCACTCAGAAACATTTGCAAGAAACAAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGAACCGAGAAGACACTGCATGA-CACGGCCAGCAAG aatgcccttctattttgcaataaatgaaccccttctctttctcttctcagGCTACAGAGTTATTTATGGATAGTAAGAATGAACTTGACCAGTGTAAGTCCGACCTACAAACAAAGACACAGGAACTTGAAACCACTCAGAAACATTTGCAAGAAACTAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGGACCGAGAAGACACTGCATGACCACGGCCAGCAAGgtaaggcttgaaaatttttagattgatttccttgccatgcgtcatgatac Alignment from Exonerate_protein2genome GCTACAGAGTTATTTATGGATAGTAAGAACGAACTTGACCAGTGTAAATCTGACCTGCAAACCAAGACACAGGAACTTGAAACCACTCAGAAACATTTGCAAGAAACAAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGAACCGAGAAGACACTGCATGAC-ACGGCCAGCAAG aatgcccttctattttgcaataaatgaaccccttctctttctcttctcagGCTACAGAGTTATTTATGGATAGTAAGAATGAACTTGACCAGTGTAAGTCCGACCTACAAACAAAGACACAGGAACTTGAAACCACTCAGAAACATTTGCAAGAAACTAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGGACCGAGAAGACACTGCATGACCACGGCCAGCAAGgtaaggcttgaaaatttttagattgatttccttgccatgcgtcatgatac Alignment from Exonerate_coding2genome GCTACAGAGTTATTTATGGATAGTAAGAACGAACTTGACCAGTGTAAATCTGACCTGCAAACCAAGACACAGGAACTTGAAACCACTCAGAAACATTTGCAAGAAACAAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGAACCGAGAAGACACTGCATGAC-ACGGCCAGCAAG aatgcccttctattttgcaataaatgaaccccttctctttctcttctcagGCTACAGAGTTATTTATGGATAGTAAGAATGAACTTGACCAGTGTAAGTCCGACCTACAAACAAAGACACAGGAACTTGAAACCACTCAGAAACATTTGCAAGAAACTAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGGACCGAGAAGACACTGCATGACCACGGCCAGCAAGgtaaggcttgaaaatttttagattgatttccttgccatgcgtcatgatac Alignment from GeneWise GCTACAGAGTTATTTATGGATAGTAAGAACGAACTTGACCAGTGTAAATCTGACCTGCAAACCAAGACACAGGAACTTGAAACCACTCAGAAACATTTGCAAGAAACAAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGAACCGAGAAGACACTGCATGAC-ACGGCCAGCAAG aatgcccttctattttgcaataaatgaaccccttctctttctcttctcagGCTACAGAGTTATTTATGGATAGTAAGAATGAACTTGACCAGTGTAAGTCCGACCTACAAACAAAGACACAGGAACTTGAAACCACTCAGAAACATTTGCAAGAAACTAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGGACCGAGAAGACACTGCATGACCACGGCCAGCAAGgtaaggcttgaaaatttttagattgatttccttgccatgcgtcatgatac #### Kif20b_ID6998_3 --> 0 - 0 Original Alignment GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTA---AGTGAGAAGAGCTCTGGACAGGTGGCA---------CAGAAATTC-AGTTTTTCTAAG ctggctataaacacagtctctcacgagatatatattccccccacccacag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCACAGAGTATGCTTGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTA---CGCCAGGTACAGGAATTTCAGCTTTTCTAAGgtaagtgtaagtatggtggattgaccacgttgaacgctctatcaagaggt Alignment from CESAR GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTA---AGTGAGAAGAGCTCTGGACAGGTG------GCACAGAAA-TTCAGTTTTTCTAAG ctggctataaacacagtctctcacgagatatatattccccccacccacag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCACAGAGTATGCTTGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTACGCCAGGTACAGGAATTTCAGCTTTTCTAAGgtaagtgtaagtatggtggattgaccacgttgaacgctctatcaagaggt Alignment from Spaln_aa2Genome GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCAC---TTAAGTGAGAAGAGCTCTGGACAGGTGGCACAG-------AAATTCAGTTTTTCTAAG ctggctataaacacagtctctcacgagatatatattccccccacccacag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCACAGAGTATGCTTGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTACGCCAGGTACAGgAATTTCAGCTTTTCTAAGgtaagtgtaagtatggtggattgaccacgttgaacgctctatcaagaggt Alignment from Spaln_nt2Genome TGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTA---AGTGAGAAGAGCTCTGGACAGGT------GGCACAGAAATT-CAGTTTTTCTAAG ctggctataaacacagtctctcacgagatatatattccccccacccacag-GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCACAGAGTATGCTTGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTACGCCAGGTACAGGAATTTCAGCTTTTCTAAGgtaagtgtaagtatggtggattgaccacgttgaacgctctatcaagaggt Alignment from Pairagon GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCAC---TTAAGTGAGAAGAGCTCTGGACAGGT------GGCACAGAAA-TTCAGTTTTTCTAAG ctggctataaacacagtctctcacgagatatatattccccccacccacag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCACAGAGTATGCTTGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTACGCCAGGTACAGGAATTTCAGCTTTTCTAAGgtaagtgtaagtatggtggattgaccacgttgaacgctctatcaagaggt Alignment from Exonerate_protein2genome GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCAC---TTAAGTGAGAAGAGCTCTGGACAGGTGGCACAG----AAA---TTCAGTTTTTCTAAG ctggctataaacacagtctctcacgagatatatattccccccacCCACAGGTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCACAGAGTATGCTTGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTACGCCAGGTACAGGAATTTCAGCTTTTCTAAGgtaagtgtaagtatggtggattgaccacgttgaacgctctatcaagaggt Alignment from Exonerate_coding2genome GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCAC---TTAAGTGAGAAGAGCTCTGGACAGGTGGCACAG----AAA---TTCAGTTTTTCTAAG ctggctataaacacagtctctcacgagatatatattccccccacCCACAGGTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCACAGAGTATGCTTGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTACGCCAGGTACAGGAATTTCAGCTTTTCTAAGgtaagtgtaagtatggtggattgaccacgttgaacgctctatcaagaggt Alignment from GeneWise GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCAC---TTAAGTGAGAAGAGCTCTGGACAGGTGGCACAG ctggctataaacacagtctctcacgagatatatattccccccacccacagGTG------CAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCACAGAGTATGCTTGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTACGCCAGgtacaggaatttcagcttttctaaggtaagtgtaagtatggtggattgaccacgttgaacgctctatcaagaggt #### Kif20b_ID7001_6 --> 0 - 1 Original Alignment GTTACCATACATAATGACAGT-TATGACGTTCTTTGTg cagaggattcaaagaacattcaatattaagtctctctgtttctcttttagGTTCCAATACATAATGAGAGTCTATGATATACTGTGCggtgaactctttcccctacttatgttcttttacttctttggagattttctg Alignment from CESAR GTTACCATACATAATGACAGT-TATGACGTTCTTTGTg cagaggattcaaagaacattcaatattaagtctctctgtttctcttttagGTTCCAATACATAATGAGAGTCTATGATATACTGTGCggtgaactctttcccctacttatgttcttttacttctttggagattttctg Alignment from Spaln_aa2Genome GTTACCATACATAATGACAGT-TATGACGTTCTTTGTG cagaggattcaaagaacattcaatattaagtctctctgtttctcttttagGTTCCAATACATAATGAGAGTcTATGATATACTGTGCGgtgaactctttcccctacttatgttcttttacttctttggagattttctg Alignment from Spaln_nt2Genome GTTACCATACATAATGACAGT-TATGACGTTCTTTGTG cagaggattcaaagaacattcaatattaagtctctctgtttctcttttagGTTCCAATACATAATGAGAGTCTATGATATACTGTGCGgtgaactctttcccctacttatgttcttttacttctttggagattttctg Alignment from Pairagon GTTACCATACATAATGACAGT-TATGACGTTCTTTGTG cagaggattcaaagaacattcaatattaagtctctctgtttctcttttagGTTCCAATACATAATGAGAGTCTATGATATACTGTGCGgtgaactctttcccctacttatgttcttttacttctttggagattttctg Alignment from Exonerate_protein2genome GTTACCATACATAATGACAGT-TATGACGTTCTTTGTG cagaggattcaaagaacattcaatattaagtctctctgtttctcttttagGTTCCAATACATAATGAGAGTCTATGATATACTGTGCGgtgaactctttcccctacttatgttcttttacttctttggagattttctg Alignment from Exonerate_coding2genome cagaggattcaaagaacattcaatattaagtctctctgtttctcttttaggttccaatacataatgagagtctatgatatactgtgcggtgaactctttcccctacttatgttcttttacttctttggagattttctg Alignment from GeneWise cagaggattcaaagaacattcaatattaagtctctctgtttctcttttaggttccaatacataatgagagtctatgatatactgtgcggtgaactctttcccctacttatgttcttttacttctttggagattttctg #### Kif20b_ID7008_13 --> 0 - 2 Original Alignment GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGG-AGCCAACGGGAAGCCGATTTTaa tacaaggcttggttataaaatgtaaacaatgttgttttctttatttttagGAGCTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAAAATCAAGAAAAATTGTCATTAGAACTTAAGATCCGGGAAGATGTTACACAAAAATTCACTCAGTATTGGCAGCCATCGGGAAGCTGATTATaagtaagttatgtctaaattcttgtcatgatagcacaaacatcagtgtgtaa Alignment from CESAR GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGG-AGCCAACGGGAAGCCGATTTTaa tacaaggcttggttataaaatgtaaacaatgttgttttctttatttttagGAGCTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAAAATCAAGAAAAATTGTCATTAGAACTTAAGATCCGGGAAGATGTTACACAAAAATTCACTCAGTATTGGCAGCCATCGGGAAGCTGATTATaagtaagttatgtctaaattcttgtcatgatagcacaaacatcagtgtgtaa Alignment from Spaln_aa2Genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGG-AGCCAACGGGAAGCCGATTTTAA tacaaggcttggttataaaatgtaaacaatgttgttttctttatttttagGAGCTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAAAATCAAGAAAAATTGTCATTAGAACTTAAGATCCGGGAAGATGTTACACAAAAATTCACTCAGTATTGGcAGCCATCGGGAAGCTGATTATAAgtaagttatgtctaaattcttgtcatgatagcacaaacatcagtgtgtaa Alignment from Spaln_nt2Genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGG-AGCCAACGGGAAGCCGATTTTAA tacaaggcttggttataaaatgtaaacaatgttgttttctttatttttagGAGCTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAAAATCAAGAAAAATTGTCATTAGAACTTAAGATCCGGGAAGATGTTACACAAAAATTCACTCAGTATTGGCAGCCATCGGGAAGCTGATTATAAgtaagttatgtctaaattcttgtcatgatagcacaaacatcagtgtgtaa Alignment from Pairagon GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGG-AGCCAACGGGAAGCCGATTTTAA tacaaggcttggttataaaatgtaaacaatgttgttttctttatttttagGAGCTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAAAATCAAGAAAAATTGTCATTAGAACTTAAGATCCGGGAAGATGTTACACAAAAATTCACTCAGTATTGGCAGCCATCGGGAAGCTGATTATAAgtaagttatgtctaaattcttgtcatgatagcacaaacatcagtgtgtaa Alignment from Exonerate_protein2genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGG-AGCCAACGGGAAGCCGATTTTAA tacaaggcttggttataaaatgtaaacaatgttgttttctttatttttagGAGCTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAAAATCAAGAAAAATTGTCATTAGAACTTAAGATCCGGGAAGATGTTACACAAAAATTCACTCAGTATTGGCAGCCATCGGGAAGCTGATTATAAgtaagttatgtctaaattcttgtcatgatagcacaaacatcagtgtgtaa Alignment from Exonerate_coding2genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGG-AGCCAACGGGAAGCCGATTTTAA tacaaggcttggttataaaatgtaaacaatgttgttttctttatttttagGAGCTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAAAATCAAGAAAAATTGTCATTAGAACTTAAGATCCGGGAAGATGTTACACAAAAATTCACTCAGTATTGGCAGCCATCGGGAAGCTGATTATAAgtaagttatgtctaaattcttgtcatgatagcacaaacatcagtgtgtaa Alignment from GeneWise GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGG-AGCCAACGGGAAGCCGATTTTAA tacaaggcttggttataaaatgtaaacaatgttgttttctttatttttagGAGCTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAAAATCAAGAAAAATTGTCATTAGAACTTAAGATCCGGGAAGATGTTACACAAAAATTCACTCAGTATTGGCAGCCATCGGGAAGCTGATTATAAgtaagttatgtctaaattcttgtcatgatagcacaaacatcagtgtgtaa #### Kif20b_ID7009_14 --> 1 - 0 Original Alignment gGAGACACTTCTT---CATGAACGAGAGATATTAGAAGAAAACGCTGAACGTCGCTTGGCAATCTTCAAAGATTTGGTTGGAAAATGTGACAGTCAAGATGAACCAACAAATAGAATTTGT---GACATAGAA-CTTGAAACTGAA tggtgtttttgactaagtcctctattagtctaaactatcctcctcttcagaGAAACAGTTATTATTCATCAGCAGGAAATATTGGGAGAAAATACCGAACGGTGTGTGTGTATTTTTGAAGACCTGGCAGGGAAGTGTGACAGTCAGGATGACCCAACAAATAAAACTTGCTGTGATATAGAGCCTAGACACTGGGgtgagtattacattgacatgcaactacactctctgacgtggcccccttgt Alignment from CESAR gGAGACA---CTTCTTCATGAACGAGAGATATTAGAAGAAAACGCTGAACGTCGCTTGGCAATCTTCAAAGATTTGGTTGGAAAATGTGACAGTCAAGATGAACCAACAAATAGAATT---TGTGACATAGAA-CTTGAAACTGAA tggtgtttttgactaagtcctctattagtctaaactatcctcctcttcagaGAAACAGTTATTATTCATCAGCAGGAAATATTGGGAGAAAATACCGAACGGTGTGTGTGTATTTTTGAAGACCTGGCAGGGAAGTGTGACAGTCAGGATGACCCAACAAATAAAACTTGCTGTGATATAGAGCCTAGACACTGGGgtgagtattacattgacatgcaactacactctctgacgtggcccccttgt Alignment from Spaln_aa2Genome GGAGACA---CTTCTTCATGAACGAGAGATATTAGAAGAAAACGCTGAACGTCGCTTGGCAATCTTCAAAGATTTGGTTGGAAAATGTGACAGTCAAGATGAACCAACAAATAGAATTTGTG tggtgtttttgactaagtcctctattagtctaaactatcctcctcttcagAGAAACAGTTATTATTCATCAGCAGGAAATATTGGGAGAAAATACCGAACGGTGTGTGTGTATTTTTGAAGACCTGGCAGGGAAGTGTGACAGTCAGGATGACCCAACAAATAAAACTTGCTgtgatatagagcctagacactggggtgagtattacattgacatgcaactacactctctgacgtggcccccttgt Alignment from Spaln_nt2Genome GGAGACACTTCTT---CATGAACGAGAGATATTAGAAGAAAACGCTGAACGTCGCTTGGCAATCTTCAAAGATTTGGTTGGAAAATGTGACAGTCAAGATGAACCAACAAATAGAATTTG---TGACATAGAACTT-GAAACTGAA tggtgtttttgactaagtcctctattagtctaaactatcctcctcttcagAGAAACAGTTATTATTCATCAGCAGGAAATATTGGGAGAAAATACCGAACGGTGTGTGTGTATTTTTGAAGACCTGGCAGGGAAGTGTGACAGTCAGGATGACCCAACAAATAAAACTTGCTGTGATATAGAGCCTAGACACTGGGgtgagtattacattgacatgcaactacactctctgacgtggcccccttgt Alignment from Pairagon GGAGACACTTCTTCATGAACGAGAGATATTAGAAGAAAACGCTGAACGTCGCTTGGCAATCTTCAAAGATTTGGTTGGAAAATGTGACAGTCAAGATGAACCAACAAATAGAATT---TGTGACATAGAACTT-GAAACTGAA tggtgtttttgactaagtcctctattagtctaaactatcctcctcttcagagaaacagttattattcatcagcaggaaatattgggagaaaataccgaacggtgtgtgtgtatttttgaagacctggcagGG-----------------------------------------------------------------------------AAGTGTGACAGTCAGGATGACCCAACAAATAAAACTTGCTGTGATATAGAGCCTAGACACTGGGgtgagtattacattgacatgcaactacactctctgacgtggcccccttgt Alignment from Exonerate_protein2genome GGAGACA---CTTCTTCATGAACGAGAGATATTAGAAGAAAACGCTGAACGTCGCTTGGCAATCTTCAAAGATTTGGTTGGAAAATGTGACAGTCAAGATGAACCAACAAATAGA---ATTTGTGACATAGAA-CTTGAAACTGAA tggtgtttttgactaagtcctctattagtctaaactatcctcctcttcagAGAAACAGTTATTATTCATCAGCAGGAAATATTGGGAGAAAATACCGAACGGTGTGTGTGTATTTTTGAAGACCTGGCAGGGAAGTGTGACAGTCAGGATGACCCAACAAATAAAACTTGCTGTGATATAGAGCCTAGACACTGGGgtgagtattacattgacatgcaactacactctctgacgtggcccccttgt Alignment from Exonerate_coding2genome GGAGACA---CTTCTTCATGAACGAGAGATATTAGAAGAAAACGCTGAACGTCGCTTGGCAATCTTCAAAGATTTGGTTGGAAAATGTGACAGTCAAGATGAACCAACAAATAGA---ATTTGTGACATAGAA-CTTGAAACTGAA tggtgtttttgactaagtcctctattagtctaaactatcctcctcttcagAGAAACAGTTATTATTCATCAGCAGGAAATATTGGGAGAAAATACCGAACGGTGTGTGTGTATTTTTGAAGACCTGGCAGGGAAGTGTGACAGTCAGGATGACCCAACAAATAAAACTTGCTGTGATATAGAGCCTAGACACTGGGgtgagtattacattgacatgcaactacactctctgacgtggcccccttgt Alignment from GeneWise GGAGACA---CTTCTTCATGAACGAGAGATATTAGAAGAAAACGCTGAACGTCGCTTGGCAATCTTCAAAGATTTGGTTGGAAAATGTGACAGTCAAGATGAACCAACAAATAGAATTTGTG tggtgtttttgactaagtcctctattagtctaaactatcctcctcttcagAGAAACAGTTATTATTCATCAGCAGGAAATATTGGGAGAAAATACCGAACGGTGTGTGTGTATTTTTGAAGACCTGGCAGGGAAGTGTGACAGTCAGGATGACCCAACAAATAAAACTTGCTgtgatatagagcctagacactggggtgagtattacattgacatgcaactacactctctgacgtggcccccttgt #### Klc2_ID854_12 --> 0 - 0 Original Alignment GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGC-AGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG tcttgtgtatatttttgcagggcctaacgtatcattatgtttctgtgcagGGCCTAGACCCTGCCAGTCAGACAAAGGTCATCAAGCTATTAAAGGATGGTAGCAGTGGACACAGCCAATGCCGTGGTAGTCAGAGATGTGATTGGGCCT---CCTGAACTAGATTTGGAAGAGTCAGAGCCAATGGCTCACTGGGGTGGTgtaggagcataaccaatctcttttgagcctgtcccttttccctgaccgtc Alignment from CESAR GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGC-AGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG tcttgtgtatatttttgcagggcctaacgtatcattatgtttctgtgcagGGCCTAGACCCTGCCAGTCAGACAAAGGTCATCAAGCTATTAAAGGATGGTAGCAGTGGACACAGCCAATGCCGTGGTAGTCAGAGATGTGATTGGGCCT---CCTGAACTAGATTTGGAAGAGTCAGAGCCAATGGCTCACTGGGGTGGTgtaggagcataaccaatctcttttgagcctgctggctcccttcctcttca Alignment from Spaln_aa2Genome GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGC-AGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG tcttgtgtatatttttgcagggcctaacgtatcattatgtttctgtgcagGGCCTAGACCCTGCCAGTCAGACAAAGGTCATCAAGCTATTAAAGGATGGTAGCAGTGGACACAGCCAATGCCGTGGTAGTcAGAGATGTGATTGGGCCT---CCTGAACTAGATTTGGAAGAGTCAGAGCCAATGGCTCACTGGGGTGGTgtaggagcataaccaatctcttttgagcctgtcccttttccctgaccgtc Alignment from Spaln_nt2Genome GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAG-CAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG tcttgtgtatatttttgcagggcctaacgtatcattatgtttctgtgcagGGCCTAGACCCTGCCAGTCAGACAAAGGTCATCAAGCTATTAAAGGATGGTAGCAGTGGACACAGCCAATGCCGTGGTAGTCAGAGATGTGATTGGGCCTC---CTGAACTAGATTTGGAAGAGTCAGAGCCAATGGCTCACTGGGGTGGTgtaggagcataaccaatctcttttgagcctgtcccttttccctgaccgtc Alignment from Pairagon GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAG-CAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGG--------------------------------------------------- tcttgtgtatatttttgcagggcctaacgtatcattatgtttctgtgcagGGCCTAGACCCTGCCAGTCAGACAAAGGTCATCAAGCTATTAAAGGATGGTAGCAGTGGACACAGCCAATGCCGTGGTAGTCAGAGATGTGATTGGGCCTC---CTGAACTAGATTTGGAAGAGTCAGAGCCAATGGCTCACTGGGGTGGTGTAGGAGCATAACCAATCTCTTTTGAGCCTGTCCCTTTTCCCTGACCGTC Alignment from Exonerate_protein2genome GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGC-AGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG tcttgtgtatatttttgcagggcctaacgtatcattatgtttctgtgcagGGCCTAGACCCTGCCAGTCAGACAAAGGTCATCAAGCTATTAAAGGATGGTAGCAGTGGACACAGCCAATGCCGTGGTAGTCAGAGATGTGATTGGGCCT---CCTGAACTAGATTTGGAAGAGTCAGAGCCAATGGCTCACTGGGGTGGTgtaggagcataaccaatctcttttgagcctgtcccttttccctgaccgtc Alignment from Exonerate_coding2genome tcttgtgtatatttttgcagggcctaacgtatcattatgtttctgtgcagggcctagaccctgccagtcagacaaaggtcatcaagctattaaaggatggtagcagtggacacagccaatgccgtggtagtcagagatgtgattgggcctcctgaactagatttggaagagtcagagccaatggctcactggggtggtgtaggagcataaccaatctcttttgagcctgtcccttttccctgaccgtc Alignment from GeneWise GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGC-AGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG tcttgtgtatatttttgcagggcctaacgtatcattatgtttctgtgcagGGCCTAGACCCTGCCAGTCAGACAAAGGTCATCAAGCTATTAAAGGATGGTAGCAGTGGACACAGCCAATGCCGTGGTAGTCAGAGATGTGATTGGGCCTCCT---GAACTAGATTTGGAAGAGTCAGAGCCAATGGCTCACTGGGGTGGTgtaggagcataaccaatctcttttgagcctgtcccttttccctgaccgtc #### Klc2_ID860_6 --> 0 - 0 Original Alignment GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAA-CGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAG agtccttcagtggccatgaagagaggtactcactgcctctctgcctgcagGTA------GCCCTTAATAATCTGGCGGTGCTTTATGGCAAACCGGGGTAACTACCAGGAAGCTGAGCCTCACTGCAGAAGATCACTGGAGATCCAAGAGAAGgtcagtgtgggcataatagtgccacatgaatgccatacagcaccatgact Alignment from CESAR GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAA-CGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAG agtccttcagtggccatgaagagaggtactcactgcctctctgcctgcagGTAGCC------CTTAATAATCTGGCGGTGCTTTATGGCAAACCGGGGTAACTACCAGGAAGCTGAGCCTCACTGCAGAAGATCACTGGAGATCCAAGAGAAGgtcagtgtgggcataatagtgccacatgaatgccatacagcaccatgact Alignment from Spaln_aa2Genome GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAA-CGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAG agtccttcagtggccatgaagagaggtactcactgcctctctgcctgcagGTAGCC------CTTAATAATCTGGCGGTGCTTTATGGCAAAcCGGGGTAACTACCAGGAAGCTGAGCCTCACTGCAGAAGATCACTGGAGATCCAAGAGAAGgtcagtgtgggcataatagtgccacatgaatgccatacagcaccatgact Alignment from Spaln_nt2Genome GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAAC-GGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAG agtccttcagtggccatgaagagaggtactcactgcctctctgcctgcagGTAG------CCCTTAATAATCTGGCGGTGCTTTATGGCAAACCGGGGTAACTACCAGGAAGCTGAGCCTCACTGCAGAAGATCACTGGAGATCCAAGAGAAGgtcagtgtgggcataatagtgccacatgaatgccatacagcaccatgact Alignment from Pairagon GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAA-CGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAG agtccttcagtggccatgaagagaggtactcactgcctctctgcctgcagGTAG------CCCTTAATAATCTGGCGGTGCTTTATGGCAAACCGGGGTAACTACCAGGAAGCTGAGCCTCACTGCAGAAGATCACTGGAGATCCAAGAGAAGgtcagtgtgggcataatagtgccacatgaatgccatacagcaccatgact Alignment from Exonerate_protein2genome GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAA-CGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAG agtccttcagtggccatgaagagaggtactcactgcctctctgcctgcagGTAGCC------CTTAATAATCTGGCGGTGCTTTATGGCAAACCGGGGTAACTACCAGGAAGCTGAGCCTCACTGCAGAAGATCACTGGAGATCCAAGAGAAGgtcagtgtgggcataatagtgccacatgaatgccatacagcaccatgact Alignment from Exonerate_coding2genome GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAA-CGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAG agtccttcagtggccatgaagagaggtactcactgcctctctgcctgcagGTAGCC------CTTAATAATCTGGCGGTGCTTTATGGCAAACCGGGGTAACTACCAGGAAGCTGAGCCTCACTGCAGAAGATCACTGGAGATCCAAGAGAAGgtcagtgtgggcataatagtgccacatgaatgccatacagcaccatgact Alignment from GeneWise --CTCAACAATCTGGCTGTTCTCTACGGC-AAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAG agtccttcagtggccatgaagagaggtactcactgcctctctgcctgcaggtagCCCTTAATAATCTGGCGGTGCTTTATGGCAAACCGGGGTAACTACCAGGAAGCTGAGCCTCACTGCAGAAGATCACTGGAGATCCAAGAGAAGgtcagtgtgggcataatagtgccacatgaatgccatacagcaccatgact #### Klc2_ID861_5 --> 1 - 0 Original Alignment gGACCAGAATAAGTACAAG-GATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCT catatatagttgaggagtagtatttgccaaactgaattatcacactttagaGACCAGAACAAATATAGGCGATGCTGCGCACTTACTCAATGAAGCCCTGGCTATCCGAGAAAAGACACTAGGCAAGGATCAGCCTGCTgtaaggtgcctaagtagtctccctgtccttgtaaccaagcttccagtccc Alignment from CESAR gGACCAGAATAAGTACAAG-GATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCT catatatagttgaggagtagtatttgccaaactgaattatcacactttagaGACCAGAACAAATATAGGCGATGCTGCGCACTTACTCAATGAAGCCCTGGCTATCCGAGAAAAGACACTAGGCAAGGATCAGCCTGCTgtaaggtgcctaagtagtctccctgtccttgtaaccaagcttccagtccc Alignment from Spaln_aa2Genome GGACCAGAATAAGTACAAG-GATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCT catatatagttgaggagtagtatttgccaaactgaattatcacactttagAGACCAGAACAAATATAGGcGATGCTGCGCACTTACTCAATGAAGCCCTGGCTATCCGAGAAAAGACACTAGGCAAGGATCAGCCTGCTgtaaggtgcctaagtagtctccctgtccttgtaaccaagcttccagtccc Alignment from Spaln_nt2Genome GGACCAGAATAAGTACAAG-GATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCT catatatagttgaggagtagtatttgccaaactgaattatcacactttagAGACCAGAACAAATATAGGCGATGCTGCGCACTTACTCAATGAAGCCCTGGCTATCCGAGAAAAGACACTAGGCAAGGATCAGCCTGCTgtaaggtgcctaagtagtctccctgtccttgtaaccaagcttccagtccc Alignment from Pairagon GGACCAGAATAAGTACAAG-GATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCT catatatagttgaggagtagtatttgccaaactgaattatcacactttagAGACCAGAACAAATATAGGCGATGCTGCGCACTTACTCAATGAAGCCCTGGCTATCCGAGAAAAGACACTAGGCAAGGATCAGCCTGCTgtaaggtgcctaagtagtctccctgtccttgtaaccaagcttccagtccc Alignment from Exonerate_protein2genome GGACCAGAATAAGTACAAG-GATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCTGTGGC catatatagttgaggagtagtatttgccaaactgaattatcacactttagAGACCAGAACAAATATAGGCGATGCTGCGCACTTACTCAATGAAGCCCTGGCTATCCGAGAAAAGACACTAGGCAAGGATCAGCCTGCTGTAAGgtgcctaagtagtctccctgtccttgtaaccaagcttccagtccc Alignment from Exonerate_coding2genome GGACCAGAATAAGTACAAG-GATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCTGTGGC catatatagttgaggagtagtatttgccaaactgaattatcacactttagAGACCAGAACAAATATAGGCGATGCTGCGCACTTACTCAATGAAGCCCTGGCTATCCGAGAAAAGACACTAGGCAAGGATCAGCCTGCTGTAAGgtgcctaagtagtctccctgtccttgtaaccaagcttccagtccc Alignment from GeneWise GGACCAGAATAAGTAC-AAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCTGTGGCTGCGACC- catatatagttgaggagtagtatttgccaaactgaattatcacactttagAGACCAGAACAAATATAGGCGATGCTGCGCACTTACTCAATGAAGCCCTGGCTATCCGAGAAAAGACACTAGGCAAGGATCAGCCTGCTGTAAGGTGCCTAAgtagtctccctgtccttgtaaccaagcttccagtccc #### Klc2_ID863_3 --> 0 - 1 Original Alignment GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAAT-GAAGATGAACAGAGCCCAg ctttatgagcattcaaggctagaaggtgtccttgctgtggtgattctcagAAAGAGAAA------GTCCCCAAAGACTCCCTTGATGATCTATTTCCCAATCGAAGATGAAGAGAGGTCAggtaagtacggtgaattaatcaaggtgaggaccagcttgttaggagtctag Alignment from CESAR GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAAT-GAAGATGAACAGAGCCCAg ctttatgagcattcaaggctagaaggtgtccttgctgtggtgattctcagAAAGAGAAA------GTCCCCAAAGACTCCCTTGATGATCTATTTCCCAATCGAAGATGAAGAGAGGTCAggtaagtacggtgaattaatcaaggtgaggaccagcttgttaggagtctag Alignment from Spaln_aa2Genome GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAAT-GAAGATGAACAGAGCCCAG ctttatgagcattcaaggctagaaggtgtccttgctgtggtgattctcagAAAGAGAAA------GTCCCCAAAGACTCCCTTGATGATCTATTTCCCAATcGAAGATGAAGAGAGGTCAGgtaagtacggtgaattaatcaaggtgaggaccagcttgttaggagtctag Alignment from Spaln_nt2Genome GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAAT-GAAGATGAACAGAGCCCAG ctttatgagcattcaaggctagaaggtgtccttgctgtggtgattctcagAAAGAGA------AAGTCCCCAAAGACTCCCTTGATGATCTATTTCCCAATCGAAGATGAAGAGAGGTCAGgtaagtacggtgaattaatcaaggtgaggaccagcttgttaggagtctag Alignment from Pairagon GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAAT-GAAGATGAACAGAGCCCAG ctttatgagcattcaaggctagaaggtgtccttgctgtggtgattctcagAAAGAGAAA------GTCCCCAAAGACTCCCTTGATGATCTATTTCCCAATCGAAGATGAAGAGAGGTCAGgtaagtacggtgaattaatcaaggtgaggaccagcttgttaggagtctag Alignment from Exonerate_protein2genome GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAAT-GAAGATGAACAGAGCCCAG ctttatgagcattcaaggctagaaggtgtccttgctgtggtgatTCTCAGAAAGAGAAAGTCCCCAAAGACTCCCTTGATGATCTATTTCCCAATCGAAGATGAAGAGAGGTCAGgtaagtacggtgaattaatcaaggtgaggaccagcttgttaggagtctag Alignment from Exonerate_coding2genome GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAAT-GAAGATGAACAGAGCCCAG ctttatgagcattcaaggctagaaggtgtccttgctgtggtgatTCTCAGAAAGAGAAAGTCCCCAAAGACTCCCTTGATGATCTATTTCCCAATCGAAGATGAAGAGAGGTCAGgtaagtacggtgaattaatcaaggtgaggaccagcttgttaggagtctag Alignment from GeneWise CCCAATGAAGATGAACAGAGCCCAG CTTTATGAGCATTCAAGGCTAGAAGgtgtccttgctgtggtgattctcagaaagagaaagtccccaaagactcccttgatgatctatttcccaatcgaagatgaagagaggtcaggtaagtacggtgaattaatcaaggtgaggaccagcttgttaggagtctag #### Ldb1_ID9692_8 --> 0 - 0 Original Alignment GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTG-TCCAATTCCACTCTCAACTACCTCCGA tttggagtccacatcttaatcaggtgaagagaatgtgttgtgttttctagGCTCAGGACCCCCAGATGCTGGATCAGCTATCCAAAAACATTACTCGATGCGGATTTCTCAAATACAGCTATTAAGTACTTTCGGgtaggcgtggagggccacaatataaattagcttttgttaccattacaggc Alignment from CESAR GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTG-TCCAATTCCACTCTCAACTACCTCCGA tttggagtccacatcttaatcaggtgaagagaatgtgttgtgttttctagGCTCAGGACCCCCAGATGCTGGATCAGCTATCCAAAAACATTACTCGATGCGGATTTCTCAAATACAGCTATTAAGTACTTTCGGgtaggcgtggagggccacaatataaattagcttttgttaccattacaggc Alignment from Spaln_aa2Genome GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTG-TCCAATTCCACTCTCAACTACCTCCGA tttggagtccacatcttaatcaggtgaagagaatgtgttgtgttttctagGCTCAGGACCCCCAGATGCTGGATCAGCTATCCAAAAACATTACTCGATGCGGATTTcTCAAATACAGCTATTAAGTACTTTCGGgtaggcgtggagggccacaatataaattagcttttgttaccattacaggc Alignment from Spaln_nt2Genome GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCA-CTCTCAACTACCTCCGA tttggagtccacatcttaatcaggtgaagagaatgtgttgtgttttctagGCTCAGGACCCCCAGATGCTGGATCAGCTATCCAAAAACATTACTCGATGCGGATTTCTCAAATACAGCTATTAAGTACTTTCGGgtaggcgtggagggccacaatataaattagcttttgttaccattacaggc Alignment from Pairagon GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGT tttggagtccacatcttaatcaggtgaagagaatgtgttgtgttttctagGCTCAGGACCCCCAGATGCTGGATCAGCTATCCAAAAACATTACTCGATgcggatttctcaaatacagctattaagtactttcgggtaggcgtggagggccacaatataaattagcttttgttaccattacaggc Alignment from Exonerate_protein2genome GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGG-CTGTCCAATTCCACTCTCAACTACCTCCGA tttggagtccacatcttaatcaggtgaagagaatgtgttgtgttttctagGCTCAGGACCCCCAGATGCTGGATCAGCTATCCAAAAACATTACTCGATGCGGATTTCTCAAATACAGCTATTAAGTACTTTCGGgtaggcgtggagggccacaatataaattagcttttgttaccattacaggc Alignment from Exonerate_coding2genome GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGG-CTGTCCAATTCCACTCTCAACTACCTCCGA tttggagtccacatcttaatcaggtgaagagaatgtgttgtgttttctagGCTCAGGACCCCCAGATGCTGGATCAGCTATCCAAAAACATTACTCGATGCGGATTTCTCAAATACAGCTATTAAGTACTTTCGGgtaggcgtggagggccacaatataaattagcttttgttaccattacaggc Alignment from GeneWise GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGG-CTGTCCAATTCCACTCTCAACTACCTCCGA tttggagtccacatcttaatcaggtgaagagaatgtgttgtgttttctagGCTCAGGACCCCCAGATGCTGGATCAGCTATCCAAAAACATTACTCGATGCGGATTTCTCAAATACAGCTATTAAGTACTTTCGGgtaggcgtggagggccacaatataaattagcttttgttaccattacaggc #### Ldb1_ID9694_6 --> 2 - 0 Original Alignment ccATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTG-ACCCAGCACGGCAAACCCATGTTTACCCAG ggctctgggtgagatgctttctctctttaccaaggtgccttgtcccctagccATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTTGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGCACCCAGCATGGCAAACCCATGTTTACCCAGgtatgcaaagtgcagggatagcgtaacctaataccatgagacagcttttc Alignment from CESAR ccATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTG-ACCCAGCACGGCAAACCCATGTTTACCCAG ggctctgggtgagatgctttctctctttaccaaggtgccttgtcccctagccATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTTGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGCACCCAGCATGGCAAACCCATGTTTACCCAGgtatgcaaagtgcagggatagcgtaacctaataccatgagacagcttttc Alignment from Spaln_aa2Genome CCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTG-ACCCAGCACGGCAAACCCATGTTTACCCAG ggctctgggtgagatgctttctctctttaccaaggtgccttgtcccctagCCATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTTGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGcACCCAGCATGGCAAACCCATGTTTACCCAGgtatgcaaagtgcagggatagcgtaacctaataccatgagacagcttttc Alignment from Spaln_nt2Genome CCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTG-ACCCAGCACGGCAAACCCATGTTTACCCAG ggctctgggtgagatgctttctctctttaccaaggtgccttgtcccctagCCATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTTGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGCACCCAGCATGGCAAACCCATGTTTACCCAGgtatgcaaagtgcagggatagcgtaacctaataccatgagacagcttttc Alignment from Pairagon CCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTG-ACCCAGCACGGCAAACCCATGTTTACCCAG ggctctgggtgagatgctttctctctttaccaaggtgccttgtcccctagCCATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTTGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGCACCCAGCATGGCAAACCCATGTTTACCCAGgtatgcaaagtgcagggatagcgtaacctaataccatgagacagcttttc Alignment from Exonerate_protein2genome CCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTG-ACCCAGCACGGCAAACCCATGTTTACCCAG ggctctgggtgagatgctttctctctttaccaaggtgccttgtcccctagCCATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTTGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGCACCCAGCATGGCAAACCCATGTTTACCCAGgtatgcaaagtgcagggatagcgtaacctaataccatgagacagcttttc Alignment from Exonerate_coding2genome CCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTG-ACCCAGCACGGCAAACCCATGTTTACCCAG ggctctgggtgagatgctttctctctttaccaaggtgccttgtcccctagCCATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTTGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGCACCCAGCATGGCAAACCCATGTTTACCCAGgtatgcaaagtgcagggatagcgtaacctaataccatgagacagcttttc Alignment from GeneWise ----------------------------------------------------ATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATG-GTGACCCAGCACGGCAAACCCATGTTTACCCAG GGCTCTGGGTGAGATGCTTTCTCTCTTTACCAAGGTGCCTTGTCCCCTAGCCATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTTGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGCACCCAGCATGGCAAACCCATGTTTACCCAGgtatgcaaagtgcagggatagcgtaacctaataccatgagacagcttttc #### Ldb1_ID9695_5 --> 0 - 1 Original Alignment GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGAT-GGACCAAAGAGATATa aggatgagaggttgatgggggtgtgcctttcactcttctacatcctttagGAATGTGATAATCTTTGGTGGGATGCTTTCACAACTGAGTTCTTTGAGGATGATACCATGCTCACTTTAACCTTTTGTTTGAAGGATCGGGCCAAACAGGTACagtgagttggctctgggtgagatgctttctctctttaaatcactaaattgt Alignment from CESAR GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGAT-GGACCAAAGAGATATa aggatgagaggttgatgggggtgtgcctttcactcttctacatcctttagGAATGTGATAATCTTTGGTGGGATGCTTTCACAACTGAGTTCTTTGAGGATGATACCATGCTCACTTTAACCTTTTGTTTGAAGGATCGGGCCAAACAGGTACagtgagttggctctgggtgagatgctttctctctttaccaaggtgccttgt Alignment from Spaln_aa2Genome GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGAT-GGACCAAAGAGATATA aggatgagaggttgatgggggtgtgcctttcactcttctacatcctttagGAATGTGATAATCTTTGGTGGGATGCTTTCACAACTGAGTTCTTTGAGGATGATACCATGCTCACTTTAACCTTTTGTTTGAAGGATcGGGCCAAACAGGTACAgtgagttggctctgggtgagatgctttctctctttaaatcactaaattgt Alignment from Spaln_nt2Genome GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGAT-GGACCAAAGAGATATA aggatgagaggttgatgggggtgtgcctttcactcttctacatcctttagGAATGTGATAATCTTTGGTGGGATGCTTTCACAACTGAGTTCTTTGAGGATGATACCATGCTCACTTTAACCTTTTGTTTGAAGGATCGGGCCAAACAGGTACAgtgagttggctctgggtgagatgctttctctctttaaatcactaaattgt Alignment from Pairagon GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGAT-GGACCAAAGAGATATA aggatgagaggttgatgggggtgtgcctttcactcttctacatcctttagGAATGTGATAATCTTTGGTGGGATGCTTTCACAACTGAGTTCTTTGAGGATGATACCATGCTCACTTTAACCTTTTGTTTGAAGGATCGGGCCAAACAGGTACAgtgagttggctctgggtgagatgctttctctctttaaatcactaaattgt Alignment from Exonerate_protein2genome GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGAT-GGACCAAAGAGATATA aggatgagaggttgatgggggtgtgcctttcactcttctacatcctttagGAATGTGATAATCTTTGGTGGGATGCTTTCACAACTGAGTTCTTTGAGGATGATACCATGCTCACTTTAACCTTTTGTTTGAAGGATCGGGCCAAACAGGTACAgtgagttggctctgggtgagatgctttctctctttaaatcactaaattgt Alignment from Exonerate_coding2genome GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGAT-GGACCAAAGAGATATA aggatgagaggttgatgggggtgtgcctttcactcttctacatcctttagGAATGTGATAATCTTTGGTGGGATGCTTTCACAACTGAGTTCTTTGAGGATGATACCATGCTCACTTTAACCTTTTGTTTGAAGGATCGGGCCAAACAGGTACAgtgagttggctctgggtgagatgctttctctctttaaatcactaaattgt Alignment from GeneWise GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGAT-GGACCAAAGAGATATACC------------------------------------------------ aggatgagaggttgatgggggtgtgcctttcactcttctacatcctttagGAATGTGATAATCTTTGGTGGGATGCTTTCACAACTGAGTTCTTTGAGGATGATACCATGCTCACTTTAACCTTTTGTTTGAAGGATCGGGCCAAACAGGTACAGTGAGTTGGCTCTGGGTGAGATGCTTTCTCTCTTTAAATCACTAAATTGT #### Lipa_ID6938_5 --> 2 - 0 Original Alignment gtTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCT-CCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ggtagggatggctcaagctcaggtcaatctacctcctttgtgcactgcaggtTTCATAGCTTTTTCACAAATGCCTGAGTTAGCTAAAAAGATCAAAATGTTTTTAGCACTGTCCCCCAGTATTGTCTCTCAATTTTGCTTCCAGCCCATTATTACAATCAGGACACTTGCCTGATCCATTGCTCAAGgtaaccgagttgacattttaaacatttaatactcaattgtaagtgtctgt Alignment from CESAR gtTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCC-GTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ggtagggatggctcaagctcaggtcaatctacctcctttgtgcactgcaggtTTCATAGCTTTTTCACAAATGCCTGAGTTAGCTAAAAAGATCAAAATGTTTTTAGCACTGTCCCCCAGTATTGTCTCTCAATTTTGCTTCCAGCCCATTATTACAATCAGGACACTTGCCTGATCCATTGCTCAAGgtaaccgagttgacattttaaacatttaatactcaattgtaagtgtctgt Alignment from Spaln_aa2Genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCC-GTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ggtagggatggctcaagctcaggtcaatctacctcctttgtgcactgcagGTTTCATAGCTTTTTCACAAATGCCTGAGTTAGCTAAAAAGATCAAAATGTTTTTAGCACTGTCCCCCaGTATTGTCTCTCAATTTTGCTTCCAGCCCATTATTACAATCAGGACACTTGCCTGATCCATTGCTCAAGgtaaccgagttgacattttaaacatttaatactcaattgtaagtgtctgt Alignment from Spaln_nt2Genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCC-GTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ggtagggatggctcaagctcaggtcaatctacctcctttgtgcactgcagGTTTCATAGCTTTTTCACAAATGCCTGAGTTAGCTAAAAAGATCAAAATGTTTTTAGCACTGTCCCCCAGTATTGTCTCTCAATTTTGCTTCCAGCCCATTATTACAATCAGGACACTTGCCTGATCCATTGCTCAAGgtaaccgagttgacattttaaacatttaatactcaattgtaagtgtctgt Alignment from Pairagon GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCC-GTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ggtagggatggctcaagctcaggtcaatctacctcctttgtgcactgcagGTTTCATAGCTTTTTCACAAATGCCTGAGTTAGCTAAAAAGATCAAAATGTTTTTAGCACTGTCCCCCAGTATTGTCTCTCAATTTTGCTTCCAGCCCATTATTACAATCAGGACACTTGCCTGATCCATTGCTCAAGgtaaccgagttgacattttaaacatttaatactcaattgtaagtgtctgt Alignment from Exonerate_protein2genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCT-CCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ggtagggatggctcaagctcaggtcaatctacctcctttgtgcactgcagGTTTCATAGCTTTTTCACAAATGCCTGAGTTAGCTAAAAAGATCAAAATGTTTTTAGCACTGTCCCCCAGTATTGTCTCTCAATTTTGCTTCCAGCCCATTATTACAATCAGGACACTTGCCTGATCCATTGCTCAAGgtaaccgagttgacattttaaacatttaatactcaattgtaagtgtctgt Alignment from Exonerate_coding2genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCT-CCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ggtagggatggctcaagctcaggtcaatctacctcctttgtgcactgcagGTTTCATAGCTTTTTCACAAATGCCTGAGTTAGCTAAAAAGATCAAAATGTTTTTAGCACTGTCCCCCAGTATTGTCTCTCAATTTTGCTTCCAGCCCATTATTACAATCAGGACACTTGCCTGATCCATTGCTCAAGgtaaccgagttgacattttaaacatttaatactcaattgtaagtgtctgt Alignment from GeneWise GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTG-GCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ggtagggatggctcaagctcaggtcaatctacctcctttgtgcactgcagGTTTCATAGCTTTTTCACAAATGCCTGAGTTAGCTAAAAAGATCAAAATGTTTTTAGCACTGTCCCCCAGTATTGTCTCTCAATTTTGCTTCCAGCCCATTATTACAATCAGGACACTTGCCTGATCCATTGCTCAAGgtaaccgagttgacattttaaacatttaatactcaattgtaagtgtctgt #### Lipf_ID6846_2 --> 0 - 1 Original Alignment AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTAT-GGGAAGAAAAATTCTGAGAATATCg gtccactcaatcacactactatttttctctcccactgtcttgtcttgcagAGTCAAATTGTAACTTATTGGGGATATCCAAGTGAAGAATATGAAGGGGCGTCTGAAGATGGATATATTCTGGGGATCTATAGAATTCCATATCAGCAAAAGGAACTCCGAAAACATAggtgataatatcctgtgaatgggaagaaaaatcttgagcaagtcaatccac Alignment from CESAR AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTAT-GGGAAGAAAAATTCTGAGAATATCg gtccactcaatcacactactatttttctctcccactgtcttgtcttgcagAGTCAAATTGTAACTTATTGGGGATATCCAAGTGAAGAATATGAAGGGGCGTCTGAAGATGGATATATTCTGGGGATCTATAGAATTCCATATCAGCAAAAGGAACTCCGAAAACATAggtgataatatcctgtgaatgggaagaaaaatcttgagcaagtcaatccac Alignment from Spaln_aa2Genome AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTAT-GGGAAGAAAAATTCTGAGAATATCG gtccactcaatcacactactatttttctctcccactgtcttgtcttgcagAGTCAAATTGTAACTTATTGGGGATATCCAAGTGAAGAATATGAAGGGGCGTCTGAAGATGGATATATTCTGGGGATCTATAGAATTCCATATcAGCAAAAGGAACTCCGAAAACATAGgtgataatatcctgtgaatgggaagaaaaatcttgagcaagtcaatccac Alignment from Spaln_nt2Genome AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAA-AATTCTGAGAATATCG gtccactcaatcacactactatttttctctcccactgtcttgtcttgcagAGTCAAATTGTAACTTATTGGGGATATCCAAGTGAAGAATATGAAGGGGCGTCTGAAGATGGATATATTCTGGGGATCTATAGAATTCCATATCAGCAAAAGGAACTCCGAAAACATAGgtgataatatcctgtgaatgggaagaaaaatcttgagcaagtcaatccac Alignment from Pairagon AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTT---------------------------------------------ATGGGAAGAAAAATTCTGA gtccactcaatcacactactatttttctctcccactgtcttgtcttgcagAGTCAAATTGTAACTTATTGGGGATATCCAAGTGAAGAATATGAAGGGGCGTCTGAAGATGGATATATTCTGGGGATCTATAGAATTCCATATCAGCAAAAGGAACTCCGAAAACATAGGTGATAATATCCTGTGAATGGGAAGAAAAATCTTGAgcaagtcaatccac Alignment from Exonerate_protein2genome AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTAT-GGGAAGAAAAATTCTGAGAATATCG gtccactcaatcacactactatttttctctcccactgtcttgtcttgcagAGTCAAATTGTAACTTATTGGGGATATCCAAGTGAAGAATATGAAGGGGCGTCTGAAGATGGATATATTCTGGGGATCTATAGAATTCCATATCAGCAAAAGGAACTCCGAAAACATAGgtgataatatcctgtgaatgggaagaaaaatcttgagcaagtcaatccac Alignment from Exonerate_coding2genome AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTAT-GGGAAGAAAAATTCTGAGAATATCG gtccactcaatcacactactatttttctctcccactgtcttgtcttgcagAGTCAAATTGTAACTTATTGGGGATATCCAAGTGAAGAATATGAAGGGGCGTCTGAAGATGGATATATTCTGGGGATCTATAGAATTCCATATCAGCAAAAGGAACTCCGAAAACATAGgtgataatatcctgtgaatgggaagaaaaatcttgagcaagtcaatccac Alignment from GeneWise AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTAT-GGGAAGAAAAATTCTGAGAATATCG gtccactcaatcacactactatttttctctcccactgtcttgtcttgcagAGTCAAATTGTAACTTATTGGGGATATCCAAGTGAAGAATATGAAGGGGCGTCTGAAGATGGATATATTCTGGGGATCTATAGAATTCCATATCAGCAAAAGGAACTCCGAAAACATAGgtgataatatcctgtgaatgggaagaaaaatcttgagcaagtcaatccac #### Lipo1_ID6825_8 --> 0 - 0 Original Alignment GTAGGAAGAAGTGGT------------ATACTTCAGGCTTATGATTGGGGAAGTCCATCTCTG-AATATGCAACACTACAATCAG aagtcctaagtatggcctgtcagtctcactatctctgcttctgtttttagGTAGGTAGAAGTGGGAGTAGAAGTGGGATTCTTCAAGCATATGACTGGGGAAGTCCATCTCTGCAATATGCAA---CTCAATCAAgtaagttcttcaaatctcctcaaggggtggaagctcctctgtatactatg Alignment from CESAR GTAGGAAGAAGTGGT------------ATACTTCAGGCTTATGATTGGGGAAGTCCATCTCTG-AATATGCAACACTACAATCAG aagtcctaagtatggcctgtcagtctcactatctctgcttctgtttttagGTAGGTAGAAGTGGGAGTAGAAGTGGGATTCTTCAAGCATATGACTGGGGAAGTCCATCTCTGCAATATGCAACTC---AATCAAgtaagttcttcaaatctcctcaaggggtggaagctcctctgtatactatg Alignment from Spaln_aa2Genome GTAGGAAGAAGTGGTATA------------CTTCAGGCTTATGATTGGGGAAGTCCATCTCTG-AATATGCAACACTACAATCAG aagtcctaagtatggcctgtcagtctcactatctctgcttctgtttttagGTAGGTAGAAGTGGGAGTAGAAGTGGGATTCTTCAAGCATATGACTGGGGAAGTCCATCTCTGcAATATGCAA---CTCAATCAAgtaagttcttcaaatctcctcaaggggtggaagctcctctgtatactatg Alignment from Spaln_nt2Genome GTAGGAAGAAGTGGTAT--------ACTTCAGGCTTATGATTGGGGAAGTCCATCTCTG-AATATGCAACACTACAATCAG aagtcctaagtatggcctgtcagtctcactatctctgcttctgtttttaggtagGTAGAAGTGGGAGTAGAAGTGGGATTCTTCAAGCATATGACTGGGGAAGTCCATCTCTGCAATATGCAAC---TCAATCAAgtaagttcttcaaatctcctcaaggggtggaagctcctctgtatactatg Alignment from Pairagon GTAG------------GAAGAAGTGGTATACTTCAGGCTTATGATTGGGGAAGTCCATCTCTG-AATATGCAACACTACAATCAG aagtcctaagtatggcctgtcagtctcactatctctgcttctgtttttagGTAGGTAGAAGTGGGAGTAGAAGTGGGATTCTTCAAGCATATGACTGGGGAAGTCCATCTCTGCAATATGCAAC---TCAATCAAgtaagttcttcaaatctcctcaaggggtggaagctcctctgtatactatg Alignment from Exonerate_protein2genome GTAGGA------------AGAAGTGGTATACTTCAGGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATC aagtcctaagtatggcctgtcagtctcactatctctgcttctgtttttagGTAGGTAGAAGTGGGAGTAGAAGTGGGATTCTTCAAGCATATGACTGGGGAAGTCCATCTCTGCAATATGCAACTCAATCAAgtaagttcttcaaatctcctcaaggggtggaagctcctctgtatactatg Alignment from Exonerate_coding2genome GTAGGA------------AGAAGTGGTATACTTCAGGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATC aagtcctaagtatggcctgtcagtctcactatctctgcttctgtttttagGTAGGTAGAAGTGGGAGTAGAAGTGGGATTCTTCAAGCATATGACTGGGGAAGTCCATCTCTGCAATATGCAACTCAATCAAgtaagttcttcaaatctcctcaaggggtggaagctcctctgtatactatg Alignment from GeneWise -GGTATACTTCAGGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG------------------------ aagtcctaagtatggcctgtcagtctcactatctctgcttctgtttttaggtaggtagaagtgggagtagaagTGGGATTCTTCAAGCATATGACTGGGGAAGTCCATCTCTGCAATATGCAACTCAATCAAGTAAGTTCTTCAAATCTCCTCAAGGGgtggaagctcctctgtatactatg #### Ltbp3_ID1251_3 --> 2 - 0 Original Alignment tgCAGGCTCCGCCCCCCGTGGTGAACGTGCGTGTCCATCACCCTCCTGAAGCTTCCGTTCAGGTGCACCGCATCGAGGGGCCGAACGCTGAAGGC-CCAGCCTCTTCCCAGCACTTGCTGCCGCATCCCAAGCCCCAGCACCCGAGGCCACCCACCCAAAAGCCACTGGGCCGCTGCTTCCAGGACACATTGCCCAAGCAGCCT gcagaaccgccttgctgcaggcagttcaatgtcatacactgtcctaccagttCAGGCTCCCCCTTCGCTTGTGAATGTGCGGGTCCATCATTCCTTAGAACCCTCTGTGCAGGAGCAGCGCATTGAAAGACCTAATACTGAAGGCCCCAGCCTCTTCACAGCATTTACTGCCTCACCTGACACCCCAGCACCCAAGAGCACCTACCCAAAAGCCACTTGGACATTGTTTTCAGGACACATTGCCCAAGCAGCCGgtacacaagggttctacccctcaagagttgcctccctgtcagaaagtgtt Alignment from CESAR tgCAGGCTCCGCCCCCCGTGGTGAACGTGCGTGTCCATCACCCTCCTGAAGCTTCCGTTCAGGTGCACCGCATCGAGGGGCCGAACGCTGAAGGC-CCAGCCTCTTCCCAGCACTTGCTGCCGCATCCCAAGCCCCAGCACCCGAGGCCACCCACCCAAAAGCCACTGGGCCGCTGCTTCCAGGACACATTGCCCAAGCAGCCT gcagaaccgccttgctgcaggcagttcaatgtcatacactgtcctaccagttCAGGCTCCCCCTTCGCTTGTGAATGTGCGGGTCCATCATTCCTTAGAACCCTCTGTGCAGGAGCAGCGCATTGAAAGACCTAATACTGAAGGCCCCAGCCTCTTCACAGCATTTACTGCCTCACCTGACACCCCAGCACCCAAGAGCACCTACCCAAAAGCCACTTGGACATTGTTTTCAGGACACATTGCCCAAGCAGCCGgtacacaagggttctacccctcaagagttgcctccctgtcagaaagtgtt Alignment from Spaln_aa2Genome TGCAGGCTCCGCCCCCCGTGGTGAACGTGCGTGTCCATCACCCTCCTGAAGCTTCCGTTCAGGTGCACCGCATCGAGGGGCCGAACGCTGAAGGCCCA-GCCTCTTCCCAGCACTTGCTGCCGCATCCCAAGCCCCAGCACCCGAGGCCACCCACCCAAAAGCCACTGGGCCGCTGCTTCCAGGACACATTGCCCAAGCAGCCT gcagaaccgccttgctgcaggcagttcaatgtcatacactgtcctaccagTTCAGGCTCCCCCTTCGCTTGTGAATGTGCGGGTCCATCATTCCTTAGAACCCTCTGTGCAGGAGCAGCGCATTGAAAGACCTAATACTGAAGGCCCCaGCCTCTTCACAGCATTTACTGCCTCACCTGACACCCCAGCACCCAAGAGCACCTACCCAAAAGCCACTTGGACATTGTTTTCAGGACACATTGCCCAAGCAGCCGgtacacaagggttctacccctcaagagttgcctccctgtcagaaagtgtt Alignment from Spaln_nt2Genome TGCAGGCTCCGCCCCCCGTGGTGAACGTGCGTGTCCATCACCCTCCTGAAGCTTCCGTTCAGGTGCACCGCATCGAGGGGCCGAACGCTGAAGGCCC-AGCCTCTTCCCAGCACTTGCTGCCGCATCCCAAGCCCCAGCACCCGAGGCCACCCACCCAAAAGCCACTGGGCCGCTGCTTCCAGGACACATTGCCCAAGCAGCCT gcagaaccgccttgctgcaggcagttcaatgtcatacactgtcctaccagTTCAGGCTCCCCCTTCGCTTGTGAATGTGCGGGTCCATCATTCCTTAGAACCCTCTGTGCAGGAGCAGCGCATTGAAAGACCTAATACTGAAGGCCCCAGCCTCTTCACAGCATTTACTGCCTCACCTGACACCCCAGCACCCAAGAGCACCTACCCAAAAGCCACTTGGACATTGTTTTCAGGACACATTGCCCAAGCAGCCGgtacacaagggttctacccctcaagagttgcctccctgtcagaaagtgtt Alignment from Pairagon TGCAGGCTCCGCCCCCCGTGGTGAACGTGCGTGTCCATCACCCTCCTGAAGCTTCCGTTCAGGTGCACCGCATCGAGGGGCCGAACGCTGAAGG-CCCAGCCTCTTCCCAGCACTTGCTGCCGCATCCCAAGCCCCAGCACCCGAGGCCACCCACCCAAAAGCCACTGGGCCGCTGCTTCCAGGACACATTGCCCAAGCAGCCT gcagaaccgccttgctgcaggcagttcaatgtcatacactgtcctaccagTTCAGGCTCCCCCTTCGCTTGTGAATGTGCGGGTCCATCATTCCTTAGAACCCTCTGTGCAGGAGCAGCGCATTGAAAGACCTAATACTGAAGGCCCCAGCCTCTTCACAGCATTTACTGCCTCACCTGACACCCCAGCACCCAAGAGCACCTACCCAAAAGCCACTTGGACATTGTTTTCAGGACACATTGCCCAAGCAGCCGgtacacaagggttctacccctcaagagttgcctccctgtcagaaagtgtt Alignment from Exonerate_protein2genome TGCAGGCTCCGCCCCCCGTGGTGAACGTGCGTGTCCATCACCCTCCTGAAGCTTCCGTTCAGGTGCACCGCATCGAGGGGCCGAACGCTGAAGGC-CCAGCCTCTTCCCAGCACTTGCTGCCGCATCCCAAGCCCCAGCACCCGAGGCCACCCACCCAAAAGCCACTGGGCCGCTGCTTCCAGGACACATTGCCCAAGCAGCCT gcagaaccgccttgctgcaggcagttcaatgtcatacactgtcctaccagTTCAGGCTCCCCCTTCGCTTGTGAATGTGCGGGTCCATCATTCCTTAGAACCCTCTGTGCAGGAGCAGCGCATTGAAAGACCTAATACTGAAGGCCCCAGCCTCTTCACAGCATTTACTGCCTCACCTGACACCCCAGCACCCAAGAGCACCTACCCAAAAGCCACTTGGACATTGTTTTCAGGACACATTGCCCAAGCAGCCGgtacacaagggttctacccctcaagagttgcctccctgtcagaaagtgtt Alignment from Exonerate_coding2genome TGCAGGCTCCGCCCCCCGTGGTGAACGTGCGTGTCCATCACCCTCCTGAAGCTTCCGTTCAGGTGCACCGCATCGAGGGGCCGAACGCTGAAGGC-CCAGCCTCTTCCCAGCACTTGCTGCCGCATCCCAAGCCCCAGCACCCGAGGCCACCCACCCAAAAGCCACTGGGCCGCTGCTTCCAGGACACATTGCCCAAGCAGCCT gcagaaccgccttgctgcaggcagttcaatgtcatacactgtcctaccagTTCAGGCTCCCCCTTCGCTTGTGAATGTGCGGGTCCATCATTCCTTAGAACCCTCTGTGCAGGAGCAGCGCATTGAAAGACCTAATACTGAAGGCCCCAGCCTCTTCACAGCATTTACTGCCTCACCTGACACCCCAGCACCCAAGAGCACCTACCCAAAAGCCACTTGGACATTGTTTTCAGGACACATTGCCCAAGCAGCCGgtacacaagggttctacccctcaagagttgcctccctgtcagaaagtgtt Alignment from GeneWise TGCAGGCTCCGCCCCCCGTGGTGAACGTGCGTGTCCATCACCCTCCTGAAGCTTCCGTTCAGGTGCACCGCATCGAGGGGCCGAACGCTGAAGGCCCA-GCCTCTTCCCAGCACTTGCTGCCGCATCCCAAGCCCCAGCACCCGAGGCCACCCACCCAAAAGCCACTGGGCCGCTGCTTCCAGGACACATTGCCCAAGCAGCCT gcagaaccgccttgctgcaggcagttcaatgtcatacactgtcctaccagTTCAGGCTCCCCCTTCGCTTGTGAATGTGCGGGTCCATCATTCCTTAGAACCCTCTGTGCAGGAGCAGCGCATTGAAAGACCTAATACTGAAGGCCCCAGCCTCTTCACAGCATTTACTGCCTCACCTGACACCCCAGCACCCAAGAGCACCTACCCAAAAGCCACTTGGACATTGTTTTCAGGACACATTGCCCAAGCAGCCGgtacacaagggttctacccctcaagagttgcctccctgtcagaaagtgtt #### Ltbp3_ID1253_5 --> 2 - 1 Original Alignment atACAGGGGTGCAGAAGCCT-GGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGg taccgagctcactctcttttttcactatcttatgcccatgtgtcttacagatACAGGAGTGCAAAAGCCTCGGACCTGTTCGAGGG---GTGGGCACTGACTGCCCCAAAGGCTATAAAAGACTTAATAGCACCCATTCCCAGggttaatatcaccaatcaccaaaggttccattaattgtgatgtgaggaagg Alignment from CESAR atACAGGGGTGCAGAAGCCT-GGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGg taccgagctcactctcttttttcactatcttatgcccatgtgtcttacagatACAGGAGTGCAAAAGCCTCGGACCTGTTCGAGGG---GTGGGCACTGACTGCCCCAAAGGCTATAAAAGACTTAATAGCACCCATTCCCAGggttaatatcaccaatcaccaaaggttccattaattgtgatgtgaggaagg Alignment from Spaln_aa2Genome ATACAGGGGTGCAGAAGCCT-GGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGG taccgagctcactctcttttttcactatcttatgcccatgtgtcttacagATACAGGAGTGCAAAAGCCTcGGACCTGTTCGAGGG---GTGGGCACTGACTGCCCCAAAGGCTATAAAAGACTTAATAGCACCCATTCCCAGGgttaatatcaccaatcaccaaaggttccattaattgtgatgtgaggaagg Alignment from Spaln_nt2Genome ATACAGGGGTGCAGAAGCCT-GGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGG taccgagctcactctcttttttcactatcttatgcccatgtgtcttacagATACAGGAGTGCAAAAGCCTCGGACCTGTTCGAGG---GGTGGGCACTGACTGCCCCAAAGGCTATAAAAGACTTAATAGCACCCATTCCCAGGgttaatatcaccaatcaccaaaggttccattaattgtgatgtgaggaagg Alignment from Pairagon ATACAGGGGTGCAGAAGCCT-GGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGG taccgagctcactctcttttttcactatcttatgcccatgtgtcttacagATACAGGAGTGCAAAAGCCTCGGACCTGTTCGAGG---GGTGGGCACTGACTGCCCCAAAGGCTATAAAAGACTTAATAGCACCCATTCCCAGGgttaatatcaccaatcaccaaaggttccattaattgtgatgtgaggaagg Alignment from Exonerate_protein2genome ATACAGGGGTGCAGAAGCCT-GGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGG taccgagctcactctcttttttcactatcttatgcccatgtgtcttacagATACAGGAGTGCAAAAGCCTCGGACCTGTTCGAGGG---GTGGGCACTGACTGCCCCAAAGGCTATAAAAGACTTAATAGCACCCATTCCCAGGgttaatatcaccaatcaccaaaggttccattaattgtgatgtgaggaagg Alignment from Exonerate_coding2genome taccgagctcactctcttttttcactatcttatgcccatgtgtcttacagatacaggagtgcaaaagcctcggacctgttcgaggggtgggcactgactgccccaaaggctataaaagacttaatagcacccattcccagggttaatatcaccaatcaccaaaggttccattaattgtgatgtgaggaagg Alignment from GeneWise ATACAGGGGTGCAGAAGCCT-GGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGG taccgagctcactctcttttttcactatcttatgcccatgtgtcttacagATACAGGAGTGCAAAAGCCTCGGACCTGTTCGAGGG---GTGGGCACTGACTGCCCCAAAGGCTATAAAAGACTTAATAGCACCCATTCCCAGGgttaatatcaccaatcaccaaaggttccattaattgtgatgtgaggaagg #### Ltbp3_ID1258_10 --> 0 - 1 Original Alignment CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGC-CACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAg tattacgacttggactaccaacatgaggtctatttttaccccgaccacagCCAGTGAGTGAGGAGCGATCTGTACAACAGAGCCCATCCTGCCACTGTTACCTCACCATCTCAACCTTTCCTTggtaatgtggttggtggagggcaagccataccaacaggggtaagcctagct Alignment from CESAR CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGC-CACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAg tattacgacttggactaccaacatgaggtctatttttaccccgaccacagCCAGTGAGTGAGGAGCGATCTGTACAACAGAGCCCATCCTGCCACTGTTACCTCACCATCTCAACCTTTCCTTggtaatgtggttggtggagggcaagccataccaacaggggtaagcctagct Alignment from Spaln_aa2Genome CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGC-CACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG tattacgacttggactaccaacatgaggtctatttttaccccgaccacagCCAGTGAGTGAGGAGCGATCTGTACAACAGAGCcCATCCTGCCACTGTTACCTCACCATCTCAACCTTTCCTTGgtaatgtggttggtggagggcaagccataccaacaggggtaagcctagct Alignment from Spaln_nt2Genome CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCC-ACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG tattacgacttggactaccaacatgaggtctatttttaccccgaccacagCCAGTGAGTGAGGAGCGATCTGTACAACAGAGCCCATCCTGCCACTGTTACCTCACCATCTCAACCTTTCCTTGgtaatgtggttggtggagggcaagccataccaacaggggtaagcctagct Alignment from Pairagon CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAGAGCTCATCTCTCGCCCCTCCCCACCTACCTTCCACCGGTTCCTGCCAGACTTGCCCCCATCCCGAAGTGCAGTGGAGATCGCCCCCACT tattacgacttggactaccaacatgaggtctatttttaccccgaccacagCCAGTGAGTGAGGAGCGATCTGTACAACAGAG------------------------------------------------------------------------------------------------CCCATCCTG--------------------CCACTgttacctcaccatctcaacctttccttggtaatgtggttggtggagggcaagccataccaacaggggtaagcctagct Alignment from Exonerate_protein2genome CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGC-CACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG tattacgacttggactaccaacatgaggtctatttttaccccgaccacagCCAGTGAGTGAGGAGCGATCTGTACAACAGAGCCCATCCTGCCACTGTTACCTCACCATCTCAACCTTTCCTTGgtaatgtggttggtggagggcaagccataccaacaggggtaagcctagct Alignment from Exonerate_coding2genome GAGTGACCATGGATCCACCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGC-CACCCCACTACCACCACCTCACCCCCCCGGCCTTAC tattacgacttggactaccaacatgaggtctatTTTTACCCCGACCACAGCCAGTGAGTGAGGAGCGATCTGTACAACAGAGCCCATCCTGCCACTGTTACCTCACCATCTCAACCTTTCcttggtaatgtggttggtggagggcaagccataccaacaggggtaagcctagct Alignment from GeneWise -----GGAGTGACCATGGATCCACCAGTGAGTGAGGAGCGATCGGTGCAGCAG-AGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG tattacgacttggactaccaacatgagGTCTATTTTTACCCCGACCACAGCCAGTGAGTGAGGAGCGATCTGTACAACAGAGCCCATCCTGCCACTGTTACCTCACCATCTCAACCTTTCCTTGgtaatgtggttggtggagggcaagccataccaacaggggtaagcctagct #### Ltbp3_ID1261_13 --> 2 - 1 Original Alignment atGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGC-TCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGg gatgtgactggtcaattctagacatatctaacaggcctgttcccctgcagatGTGACTGGGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACTACTGGTGGACTCATATAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCGACTCTGTGTGggtgagtatacttgggtagcacacacctgtgtgcatttctgacaccagacc Alignment from CESAR atGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGC-TCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGg gatgtgactggtcaattctagacatatctaacaggcctgttcccctgcagatGTGACTGGGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACTACTGGTGGACTCATATAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCGACTCTGTGTGggtgagtatacttgggtagcacacacctgtgtgcatttctgacaccagacc Alignment from Spaln_aa2Genome ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGC-TCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG gatgtgactggtcaattctagacatatctaacaggcctgttcccctgcagATGTGACTGGGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACTACTGGTGGAcTCATATAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCGACTCTGTGTGGgtgagtatacttgggtagcacacacctgtgtgcatttctgacaccagacc Alignment from Spaln_nt2Genome ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGG-CTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG gatgtgactggtcaattctagacatatctaacaggcctgttcccctgcagATGTGACTGGGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACTACTGGTGGACTCATATAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCGACTCTGTGTGGgtgagtatacttgggtagcacacacctgtgtgcatttctgacaccagacc Alignment from Pairagon ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGG-CTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG gatgtgactggtcaattctagacatatctaacaggcctgttcccctgcagATGTGACTGGGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACTACTGGTGGACTCATATAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCGACTCTGTGTGGgtgagtatacttgggtagcacacacctgtgtgcatttctgacaccagacc Alignment from Exonerate_protein2genome ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGC-TCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG gatgtgactggtcaattctagacatatctaacaggcctgttcccctgcagATGTGACTGGGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACTACTGGTGGACTCATATAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCGACTCTGTGTGGgtgagtatacttgggtagcacacacctgtgtgcatttctgacaccagacc Alignment from Exonerate_coding2genome gatgtgactggtcaattctagacatatctaacaggcctgttcccctgcagatgtgactgggtgtggggctgagccctgtggccctggaaaaggtatctgtatgactactggtggactcatataattgtcattgcaaccggggctaccgccttcatgtaggtgcagggggccgactctgtgtgggtgagtatacttgggtagcacacacctgtgtgcatttctgacaccagacc Alignment from GeneWise ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGC-TCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG gatgtgactggtcaattctagacatatctaacaggcctgttcccctgcagATGTGACTGGGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACTACTGGTGGACTCATATAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCGACTCTGTGTGGgtgagtatacttgggtagcacacacctgtgtgcatttctgacaccagacc #### Ltbp3_ID1262_14 --> 2 - 1 Original Alignment acCTGAACGAGTGCACCAAG-CCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAg atttctgacaccagaccctctccttcctgtgtgtgtgtgtgtgtatgtagatCTAAACGAGTGCACAAAGCCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAATTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAggtgagatgtcatcctacttctcctcctggccttaggttggatgagtgcat Alignment from CESAR acCTGAACGAGTGCACCAAGCCT-CACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAg atttctgacaccagaccctctccttcctgtgtgtgtgtgtgtgtatgtagatCTAAACGAGTGCACAAAGCCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAATTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAggtgagatgtcatcctacttctcctcctggccttaggttggatgagtgcat Alignment from Spaln_aa2Genome ACCTGAACGAGTGCACCAAGCCT-CACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG atttctgacaccagaccctctccttcctgtgtgtgtgtgtgtgtatgtagATCTAAACGAGTGCACAAAGCCCcCATCTGTGTGGTGATGGTGGCTTCTGCATCAATTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAGgtgagatgtcatcctacttctcctcctggccttaggttggatgagtgcat Alignment from Spaln_nt2Genome ACCTGAACGAGTGCACCAAGCCTC-ACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG atttctgacaccagaccctctccttcctgtgtgtgtgtgtgtgtatgtagATCTAAACGAGTGCACAAAGCCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAATTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAGgtgagatgtcatcctacttctcctcctggccttaggttggatgagtgcat Alignment from Pairagon ACCTGAACGAGTGCACCAAGC-CTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG atttctgacaccagaccctctccttcctgtgtgtgtgtgtgtgtatgtagATCTAAACGAGTGCACAAAGCCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAATTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAGgtgagatgtcatcctacttctcctcctggccttaggttggatgagtgcat Alignment from Exonerate_protein2genome ACCTGAACGAGTGCACCAAG-CCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG atttctgacaccagaccctctccttcctgtgtgtgtgtgtgtgtatgtagATCTAAACGAGTGCACAAAGCCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAATTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAGgtgagatgtcatcctacttctcctcctggccttaggttggatgagtgcat Alignment from Exonerate_coding2genome atttctgacaccagaccctctccttcctgtgtgtgtgtgtgtgtatgtagatctaaacgagtgcacaaagcccccatctgtgtggtgatggtggcttctgcatcaatttcccaggccactacacatgcaactgttatcctggttacaggctcaaggcctccagaccaccaatctgggaaggtgagatgtcatcctacttctcctcctggccttaggttggatgagtgcat Alignment from GeneWise ACCTGAACGAGTGCACC-AAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG atttctgacaccagaccctctccttcctgtgtgtgtgtgtgtgtatgtagATCTAAACGAGTGCACAAAGCCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAATTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAGgtgagatgtcatcctacttctcctcctggccttaggttggatgagtgcat #### Ltbp3_ID1263_15 --> 2 - 1 Original Alignment acATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGC-CAGGGGGGCGGGGCCTGTCGTg tggcaccatacttgtatcggaccatcctcactcaatgtgtgtcactgcagatATTGATGAATGTCATGATCCTAGCACTTGCCCAGATGGGAAGTGTGAAAATAAACTTGGGAGCTTCAGGTGCATTGCTTGCCAGCCTGGTTACCGAAGCCCAGGGAGGGGGGACATGCCATggtaagccaaagccagcctctcccatagggtttgtagggtcgcctgatgga Alignment from CESAR acATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGC-CAGGGGGGCGGGGCCTGTCGTg tggcaccatacttgtatcggaccatcctcactcaatgtgtgtcactgcagatATTGATGAATGTCATGATCCTAGCACTTGCCCAGATGGGAAGTGTGAAAATAAACTTGGGAGCTTCAGGTGCATTGCTTGCCAGCCTGGTTACCGAAGCCCAGGGAGGGGGGACATGCCATggtaagccaaagccagcctctcccatagggtttgtagggtcgcctgatgga Alignment from Spaln_aa2Genome ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGC-CAGGGGGGCGGGGCCTGTCGTG tggcaccatacttgtatcggaccatcctcactcaatgtgtgtcactgcagATATTGATGAATGTCATGATCCTAGCACTTGCCCAGATGGGAAGTGTGAAAATAAACTTGGGAGCTTCAGGTGCATTGCTTGCCAGCCTGGTTACCGAAGCcCAGGGAGGGGGGACATGCCATGgtaagccaaagccagcctctcccatagggtttgtagggtcgcctgatgga Alignment from Spaln_nt2Genome ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCC-AGGGGGGCGGGGCCTGTCGTG tggcaccatacttgtatcggaccatcctcactcaatgtgtgtcactgcagATATTGATGAATGTCATGATCCTAGCACTTGCCCAGATGGGAAGTGTGAAAATAAACTTGGGAGCTTCAGGTGCATTGCTTGCCAGCCTGGTTACCGAAGCCCAGGGAGGGGGGACATGCCATGgtaagccaaagccagcctctcccatagggtttgtagggtcgcctgatgga Alignment from Pairagon ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAG-CCAGGGGGGCGGGGCCTGTCGTG tggcaccatacttgtatcggaccatcctcactcaatgtgtgtcactgcagATATTGATGAATGTCATGATCCTAGCACTTGCCCAGATGGGAAGTGTGAAAATAAACTTGGGAGCTTCAGGTGCATTGCTTGCCAGCCTGGTTACCGAAGCCCAGGGAGGGGGGACATGCCATGgtaagccaaagccagcctctcccatagggtttgtagggtcgcctgatgga Alignment from Exonerate_protein2genome ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGC-CAGGGGGGCGGGGCCTGTCGTG tggcaccatacttgtatcggaccatcctcactcaatgtgtgtcactgcagATATTGATGAATGTCATGATCCTAGCACTTGCCCAGATGGGAAGTGTGAAAATAAACTTGGGAGCTTCAGGTGCATTGCTTGCCAGCCTGGTTACCGAAGCCCAGGGAGGGGGGACATGCCATGgtaagccaaagccagcctctcccatagggtttgtagggtcgcctgatgga Alignment from Exonerate_coding2genome tggcaccatacttgtatcggaccatcctcactcaatgtgtgtcactgcagatattgatgaatgtcatgatcctagcacttgcccagatgggaagtgtgaaaataaacttgggagcttcaggtgcattgcttgccagcctggttaccgaagcccagggaggggggacatgccatggtaagccaaagccagcctctcccatagggtttgtagggtcgcctgatgga Alignment from GeneWise ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTGATGT tggcaccatacttgtatcggaccatcctcactcaatgtgtgtcactgcagATATTGATGAATGTCATGATCCTAGCACTTGCCCAGATGGGAAGTGTGAAAATAAACTTGGGAGCTTCAGGTGCATTGCTTGCCAGCCTGGTTACCGAAGCCCAGGGAGGGGGGAC---ATGCCATGgtaagccaaagccagcctctcccatagggtttgtagggtcgcctgatgga #### Ltbp3_ID1268_20 --> 2 - 1 Original Alignment agGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGA-GACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAg gctatagcttagcagatattaattggaaaattgtaatgattttgatccagagGTGGAGCAGCCTCACCATAAGAAGGAATGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCATACTAGCTACTAATGTTACTCAACAGGAATGCTGCTGCTCTCTGGGAGCGGGATGGGGACGACCACTGTGAAATCTATCCCTGTCCTATCTTCAGCTCAggtgggtcaatgggctgaatcttggtcctatcaaacaggcctgtgaattct Alignment from CESAR agGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGA-GACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAg gctatagcttagcagatattaattggaaaattgtaatgattttgatccagagGTGGAGCAGCCTCACCATAAGAAGGAATGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCATACTAGCTACTAATGTTACTCAACAGGAATGCTGCTGCTCTCTGGGAGCGGGATGGGGACGACCACTGTGAAATCTATCCCTGTCCTATCTTCAGCTCAggtgggtcaatgggctgaatcttggtcctatcaaacaggcctgtgaattct Alignment from Spaln_aa2Genome AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGA-GACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG gctatagcttagcagatattaattggaaaattgtaatgattttgatccagAGGTGGAGCAGCCTCACCATAAGAAGGAATGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCATACTAGCTACTAATGTTACTCAACAGGAATGCTGCTGCTCTCTGGGAGCGGGATGGGGAcGACCACTGTGAAATCTATCCCTGTCCTATCTTCAGCTCAGgtgggtcaatgggctgaatcttggtcctatcaaacaggcctgtgaattct Alignment from Spaln_nt2Genome AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGA-GACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG gctatagcttagcagatattaattggaaaattgtaatgattttgatccagAGGTGGAGCAGCCTCACCATAAGAAGGAATGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCATACTAGCTACTAATGTTACTCAACAGGAATGCTGCTGCTCTCTGGGAGCGGGATGGGGACGACCACTGTGAAATCTATCCCTGTCCTATCTTCAGCTCAGgtgggtcaatgggctgaatcttggtcctatcaaacaggcctgtgaattct Alignment from Pairagon AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGA-GACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG gctatagcttagcagatattaattggaaaattgtaatgattttgatccagAGGTGGAGCAGCCTCACCATAAGAAGGAATGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCATACTAGCTACTAATGTTACTCAACAGGAATGCTGCTGCTCTCTGGGAGCGGGATGGGGACGACCACTGTGAAATCTATCCCTGTCCTATCTTCAGCTCAGgtgggtcaatgggctgaatcttggtcctatcaaacaggcctgtgaattct Alignment from Exonerate_protein2genome AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGA-GACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG gctatagcttagcagatattaattggaaaattgtaatgattttgatccagAGGTGGAGCAGCCTCACCATAAGAAGGAATGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCATACTAGCTACTAATGTTACTCAACAGGAATGCTGCTGCTCTCTGGGAGCGGGATGGGGACGACCACTGTGAAATCTATCCCTGTCCTATCTTCAGCTCAGgtgggtcaatgggctgaatcttggtcctatcaaacaggcctgtgaattct Alignment from Exonerate_coding2genome gctatagcttagcagatattaattggaaaattgtaatgattttgatccagaggtggagcagcctcaccataagaaggaatgctaccttaactttgatgacacagtgttctgtgacagcatactagctactaatgttactcaacaggaatgctgctgctctctgggagcgggatggggacgaccactgtgaaatctatccctgtcctatcttcagctcaggtgggtcaatgggctgaatcttggtcctatcaaacaggcctgtgaattct Alignment from GeneWise AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGG-GGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG gctatagcttagcagatattaattggaaaattgtaatgattttgatccagAGGTGGAGCAGCCTCACCATAAGAAGGAATGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCATACTAGCTACTAATGTTACTCAACAGGAATGCTGCTGCTCTCTGGGAGCGGGATGGGGACGACCACTGTGAAATCTATCCCTGTCCTATCTTCAGCTCAGgtgggtcaatgggctgaatcttggtcctatcaaacaggcctgtgaattct #### Ltbp3_ID1273_25 --> 2 - 1 Original Alignment ACGTGGCACCg ggTCCCAGTGCCCGACTTCACAGAGTGAGAGC---AATTCA-TTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAg ACGTGGTACTggtaagtatttttgaaggcccaacaccctgtgtcctgcagggTCCCAGTGCTCCACTTTACAGGGTGAGATGCTTAACTCACTTTTGGGATACTACCCCAGTGCTACTAGGG---------CGAggtaaggcaaggctggtgattgtatgcaaagtctatgataggcctctgttc Alignment from CESAR ACGTGGCACCg ggTCCCAGTGCCCGACTTCACAGAGTGAGAGC---AATTCA-TTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAg ACGTGGTACTggtaagtatttttgaaggcccaacaccctgtgtcctgcagggTCCCAGTGCTCCACTTTACAGGGTGAGATGCTTAACTCACTTTTGGGATACTACCCCAGTGCTACTAGGG---------CGAggtaaggcaaggctggtgattgtatgcaaagtctatgataggctctcttcc Alignment from Spaln_aa2Genome ACGTGGCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAG----AGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG ACGTGGTACTGgtaagtatttttgaaggcccaacaccctgtgtcctgcagGGTCCCAGTGCTCCACTTTACAGGGTGAGATGcTTAACTCACTTTTGGGATACTACCCCAGTGCTACTAGGG---------CGAGgtaaggcaaggctggtgattgtatgcaaagtctatgataggcctctgttc Alignment from Spaln_nt2Genome ACGTGGCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGA-GC--AATTCA-TTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG ACGTGGTACTGgtaagtatttttgaaggcccaacaccctgtgtcctgcagGGTCCCAGTGCTCCACTTTACAGGGTGAGATGCTTAACTCACTTTTGGGATACTACCCCAGTGCTACTAGG---------GCGAGgtaaggcaaggctggtgattgtatgcaaagtctatgataggcctctgttc Alignment from Pairagon ACGTGGCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGA---GCAATTCA-TTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG ACGTGGTACTGgtaagtatttttgaaggcccaacaccctgtgtcctgcagGGTCCCAGTGCTCCACTTTACAGGGTGAGATGCTTAACTCACTTTTGGGATACTACCCCAGTGCTACTAGG---------GCGAGgtaaggcaaggctggtgattgtatgcaaagtctatgataggcctctgttc Alignment from Exonerate_protein2genome ACGTGGCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAGC----AATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGT ACGTGGTACTGgtaagtatttttgaaggcccaacaccctgtgtcctgcagGGTCCCAGTGCTCCACTTTACAGGGTGAGATGCTTAACTCACTTTTGGGATACTACCCCAGTGCTACTAGGGCGAGgtaaggcaaggctggtgattgtatgcaaagtctatgataggcctctgttc Alignment from Exonerate_coding2genome acgtggtactggtaagtatttttgaaggcccaacaccctgtgtcctgcagggtcccagtgctccactttacagggtgagatgcttaactcacttttgggatactaccccagtgctactagggcgaggtaaggcaaggctggtgattgtatgcaaagtctatgataggcctctgttc Alignment from GeneWise ACGTGGCACCGGG-- -TCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG ACGTGGTACTGGTAAgtatttttgaaggcccaacaccctgtgtcctgcagggtcccagtgctccactttacagGGTGAGATGCTTAACTCAC------------------TTTTGGGATACTACCCCAGTGCTACTAGGG---------CGAGgtaaggcaaggctggtgattgtatgcaaagtctatgataggcctctgttc #### Macrod1_ID2053_8 --> 2 - 0 Original Alignment gcTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCG-CTGCGGGAATGGCTGGAGCAGCACAAGGACAAG aatgtggtgggacccaatatgcatttactttctctgacttcttactccaggcTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCACTTGCAGGAATGGTTGGAGCAACACAAGGACAAGgtaacaccaaattcatgacaggagtttggttagatgaagaggttttattg Alignment from CESAR gcTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCG-CTGCGGGAATGGCTGGAGCAGCACAAGGACAAG aatgtggtgggacccaatatgcatttactttctctgacttcttactccaggcTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCACTTGCAGGAATGGTTGGAGCAACACAAGGACAAGgtaacaccaaattcatgacaggagtttggttagatgaagaggttttattg Alignment from Spaln_aa2Genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCG-CTGCGGGAATGGCTGGAGCAGCACAAGGACAAG aatgtggtgggacccaatatgcatttactttctctgacttcttactccagGCTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCAcTTGCAGGAATGGTTGGAGCAACACAAGGACAAGgtaacaccaaattcatgacaggagtttggttagatgaagaggttttattg Alignment from Spaln_nt2Genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCT-GCGGGAATGGCTGGAGCAGCACAAGGACAAG aatgtggtgggacccaatatgcatttactttctctgacttcttactccagGCTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCACTTGCAGGAATGGTTGGAGCAACACAAGGACAAGgtaacaccaaattcatgacaggagtttggttagatgaagaggttttattg Alignment from Pairagon GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGC-TGCGGGAATGGCTGGAGCAGCACAAGGACAAG aatgtggtgggacccaatatgcatttactttctctgacttcttactccagGCTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCACTTGCAGGAATGGTTGGAGCAACACAAGGACAAGgtaacaccaaattcatgacaggagtttggttagatgaagaggttttattg Alignment from Exonerate_protein2genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCG-CTGCGGGAATGGCTGGAGCAGCACAAGGACAAG aatgtggtgggacccaatatgcatttactttctctgacttcttactccagGCTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCACTTGCAGGAATGGTTGGAGCAACACAAGGACAAGgtaacaccaaattcatgacaggagtttggttagatgaagaggttttattg Alignment from Exonerate_coding2genome aatgtggtgggacccaatatgcatttactttctctgacttcttactccaggctaccccaatgaggaggctgcagaggtagtgctggtttcacttgcaggaatggttggagcaacacaaggacaaggtaacaccaaattcatgacaggagtttggttagatgaagaggttttattg Alignment from GeneWise GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTG-CGGGAATGGCTGGAGCAGCACAAGGACAAG aatgtggtgggacccaatatgcatttactttctctgacttcttactccagGCTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCACTTGCAGGAATGGTTGGAGCAACACAAGGACAAGgtaacaccaaattcatgacaggagtttggttagatgaagaggttttattg #### Map3k11_ID1202_3 --> 1 - 1 Original Alignment cTTTGGAGTGCTGCTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCT-GAGCCCTTTGCACAACTCATGGCTg acTGCTGGGCACAGG taaaggctgataattccacttcgatcaatgtttttatggatttccttcagtTTTGGAGTGTTATTGTGGGAGCTGCTGACTGGCAAAGTGCCGTACCGGGGCATTGACTGTCTCACAGTGGTTTATGGTGTGGCTGTGAATAAATTAACATTACCTATTCCATCTACTTGTCCTCGAGCCCTTTGCACAACTAATGGCTggtaggctgagattaaaatccaatcttgacttgtagatTGCTGGGCACAGG Alignment from CESAR cTTTGGAGTGCTGCTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCT-GAGCCCTTTGCACAACTCATGGCTg acTGCTGGGCACAGG taaaggctgataattccacttcgatcaatgtttttatggatttccttcagtTTTGGAGTGTTATTGTGGGAGCTGCTGACTGGCAAAGTGCCGTACCGGGGCATTGACTGTCTCACAGTGGTTTATGGTGTGGCTGTGAATAAATTAACATTACCTATTCCATCTACTTGTCCTCGAGCCCTTTGCACAACTAATGGCTggtaggctgagattgctgcttctctctctgttgcagatTGCTGGGCACAGG Alignment from Spaln_aa2Genome CTTTGGAGTGCTGCTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCT-GAGCCCTTTGCACAACTCATGGCTG ACTGCTGGGCACAGG taaaggctgataattccacttcgatcaatgtttttatggatttccttcagTTTTGGAGTGTTATTGTGGGAGCTGCTGACTGGCAAAGTGCCGTACCGGGGCATTGACTGTCTCACAGTGGTTTATGGTGTGGCTGTGAATAAATTAACATTACCTATTCCATCTACTTGTCCTcGAGCCCTTTGCACAACTAATGGCTGgtaggctgagattaaaatccaatcttgacttgtagATTGCTGGGCACAGG Alignment from Spaln_nt2Genome CTTTGGAGTGCTGCTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCT-GAGCCCTTTGCACAACTCATGGCTG ACTGCTGGGCACAGG taaaggctgataattccacttcgatcaatgtttttatggatttccttcagTTTTGGAGTGTTATTGTGGGAGCTGCTGACTGGCAAAGTGCCGTACCGGGGCATTGACTGTCTCACAGTGGTTTATGGTGTGGCTGTGAATAAATTAACATTACCTATTCCATCTACTTGTCCTCGAGCCCTTTGCACAACTAATGGCTGgtaggctgagattaaaatccaatcttgacttgtagATTGCTGGGCACAGG Alignment from Pairagon CTTTGGAGTGCTGCTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCT-GAGCCCTTTGCACAACTCATGGCTG ACTGCTGGGCACAGG taaaggctgataattccacttcgatcaatgtttttatggatttccttcagTTTTGGAGTGTTATTGTGGGAGCTGCTGACTGGCAAAGTGCCGTACCGGGGCATTGACTGTCTCACAGTGGTTTATGGTGTGGCTGTGAATAAATTAACATTACCTATTCCATCTACTTGTCCTCGAGCCCTTTGCACAACTAATGGCTGgtaggctgagattaaaatccaatcttgacttgtagATTGCTGGGCACAGG Alignment from Exonerate_protein2genome CTTTGGAGTGCTGCTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCT-GAGCCCTTTGCACAACTCATGGCTG ACTGCTGGGCACAGG taaaggctgataattccacttcgatcaatgtttttatggatttccttcagTTTTGGAGTGTTATTGTGGGAGCTGCTGACTGGCAAAGTGCCGTACCGGGGCATTGACTGTCTCACAGTGGTTTATGGTGTGGCTGTGAATAAATTAACATTACCTATTCCATCTACTTGTCCTCGAGCCCTTTGCACAACTAATGGCTGgtaggctgagattaaaatccaatcttgacttgtagATTGCTGGGCACAGG Alignment from Exonerate_coding2genome CTTTGGAGTGCTGCTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCT-GAGCCCTTTGCACAACTCATGGCTG ACTGCTGGGCACAGG taaaggctgataattccacttcgatcaatgtttttatggatttccttcagTTTTGGAGTGTTATTGTGGGAGCTGCTGACTGGCAAAGTGCCGTACCGGGGCATTGACTGTCTCACAGTGGTTTATGGTGTGGCTGTGAATAAATTAACATTACCTATTCCATCTACTTGTCCTCGAGCCCTTTGCACAACTAATGGCTGgtaggctgagattaaaatccaatcttgacttgtagATTGCTGGGCACAGG Alignment from GeneWise CTTTGGAGTGCTGCTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCT-GAGCCCTTTGCACAACTCATGGCTG ACTGCTGGGCACAGG taaaggctgataattccacttcgatcaatgtttttatggatttccttcagTTTTGGAGTGTTATTGTGGGAGCTGCTGACTGGCAAAGTGCCGTACCGGGGCATTGACTGTCTCACAGTGGTTTATGGTGTGGCTGTGAATAAATTAACATTACCTATTCCATCTACTTGTCCTCGAGCCCTTTGCACAACTAATGGCTGgtaggctgagattaaaatccaatcttgacttgtagATTGCTGGGCACAGG #### Map4k2_ID1622_2 --> 0 - 1 Original Alignment GCCCGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAG-ATCGTCAAGCTAGACCCAg attcctacattttaagcaagtgatgtcattcattttcatttttctcttagGCTCATGACACCGTCACATCTGAGCTGGCTGCAGTGAAGCATTGTCAAGCTAGACCCAggtaagtggataggcacagagtgcttcgtccagctgggtaacacggaagta Alignment from CESAR GCCCGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAG-ATCGTCAAGCTAGACCCAg attcctacattttaagcaagtgatgtcattcattttcatttttctcttagGCTCATGACACCGTCACATCTGAGCTGGCTGCAGTGAAGCATTGTCAAGCTAGACCCAggtaagtggataggcacagagtgcttcgtccagctgggtaacacggaagta Alignment from Spaln_aa2Genome GCCCGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAG-ATCGTCAAGCTAGACCCAG attcctacattttaagcaagtgatgtcattcattttcatttttctcttagGCTCATGACACCGTCACATCTGAGCTGGCTGCAGTGAAGcATTGTCAAGCTAGACCCAGgtaagtggataggcacagagtgcttcgtccagctgggtaacacggaagta Alignment from Spaln_nt2Genome GCCCGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAG-ATCGTCAAGCTAGACCCAG attcctacattttaagcaagtgatgtcattcattttcatttttctcttagGCTCATGACACCGTCACATCTGAGCTGGCTGCAGTGAAGCATTGTCAAGCTAGACCCAGgtaagtggataggcacagagtgcttcgtccagctgggtaacacggaagta Alignment from Pairagon ------------------------------------------------AGGCCCGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAG-ATCGTCAAGCTAGACCCAG ATTCCTACATTTTAAGCAAGTGATGTCATTCATTTTCATTTTTCTCTTAGGCTCATGACACCGTCACATCTGAGCTGGCTGCAGTGAAGCATTGTCAAGCTAGACCCAGgtaagtggataggcacagagtgcttcgtccagctgggtaacacggaagta Alignment from Exonerate_protein2genome attcctacattttaagcaagtgatgtcattcattttcatttttctcttaggctcatgacaccgtcacatctgagctggctgcagtgaagcattgtcaagctagacccaggtaagtggataggcacagagtgcttcgtccagctgggtaacacggaagta Alignment from Exonerate_coding2genome attcctacattttaagcaagtgatgtcattcattttcatttttctcttaggctcatgacaccgtcacatctgagctggctgcagtgaagcattgtcaagctagacccaggtaagtggataggcacagagtgcttcgtccagctgggtaacacggaagta Alignment from GeneWise attcctacattttaagcaagtgatgtcattcattttcatttttctcttaggctcatgacaccgtcacatctgagctggctgcagtgaagcattgtcaagctagacccaggtaagtggataggcacagagtgcttcgtccagctgggtaacacggaagta #### Map4k2_ID1624_4 --> 1 - 1 Original Alignment gAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGG-TCACTGCAGGAGATTTACCACg caggtgcctcactcttagttgctcactgaccttctttttctctcctgtaggAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGGGCACTCACTACAGGAAGTTTACCATggtgaggaccaaaccccatggacctgtcattctttgattactataacatgt Alignment from CESAR gAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGG-TCACTGCAGGAGATTTACCACg caggtgcctcactcttagttgctcactgaccttctttttctctcctgtaggAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGGGCACTCACTACAGGAAGTTTACCATggtgaggaccaaaccccatggacctgtcattctttgattactataacatgt Alignment from Spaln_aa2Genome GAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGG-TCACTGCAGGAGATTTACCACG caggtgcctcactcttagttgctcactgaccttctttttctctcctgtagGAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGGGCAcTCACTACAGGAAGTTTACCATGgtgaggaccaaaccccatggacctgtcattctttgattactataacatgt Alignment from Spaln_nt2Genome GAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGG-TCACTGCAGGAGATTTACCACG caggtgcctcactcttagttgctcactgaccttctttttctctcctgtagGAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGGGCACTCACTACAGGAAGTTTACCATGgtgaggaccaaaccccatggacctgtcattctttgattactataacatgt Alignment from Pairagon GAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAG-GGTCACTGCAGGAGATTTACCACG caggtgcctcactcttagttgctcactgaccttctttttctctcctgtagGAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGGGCACTCACTACAGGAAGTTTACCATGgtgaggaccaaaccccatggacctgtcattctttgattactataacatgt Alignment from Exonerate_protein2genome caggtgcctcactcttagttgctcactgaccttctttttctctcctgtaggaatgaccgattgtggatctgtatggagttctgtggaggggcactcactacaggaagtttaccatggtgaggaccaaaccccatggacctgtcattctttgattactataacatgt Alignment from Exonerate_coding2genome caggtgcctcactcttagttgctcactgaccttctttttctctcctgtaggaatgaccgattgtggatctgtatggagttctgtggaggggcactcactacaggaagtttaccatggtgaggaccaaaccccatggacctgtcattctttgattactataacatgt Alignment from GeneWise GAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGA-GGGTCACTGCAGGAGATTTACCACG caggtgcctcactcttagttgctcactgaccttctttttctctcctgtagGAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGGGCACTCACTACAGGAAGTTTACCATGgtgaggaccaaaccccatggacctgtcattctttgattactataacatgt #### Map4k2_ID1625_5 --> 2 - 0 Original Alignment ccACTGGGCCCCTGGAA-GAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG cctcaatatgacaatttcttctatctaattgtcttttattcaatatatagctACTGGGCCACTTGAACGAGAGGCAAATTGCCTATGTTTGTTGGGCTGCCCTTAGGgtaagcgatttgcagtaagagtgcccattagaggtcacccacggaagagc Alignment from CESAR ccACTGGGCCCCTGGAA-GAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG cctcaatatgacaatttcttctatctaattgtcttttattcaatatatagctACTGGGCCACTTGAACGAGAGGCAAATTGCCTATGTTTGTTGGGCTGCCCTTAGGgtaagcgatttgcagtaagagtgcccattagaggtcacccacggaagagc Alignment from Spaln_aa2Genome CCACTGGGCCCCTGGAA-GAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG cctcaatatgacaatttcttctatctaattgtcttttattcaatatatagCTACTGGGCCACTTGAAcGAGAGGCAAATTGCCTATGTTTGTTGGGCTGCCCTTAGGgtaagcgatttgcagtaagagtgcccattagaggtcacccacggaagagc Alignment from Spaln_nt2Genome CCACTGGGCCCCTGGAA-GAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG cctcaatatgacaatttcttctatctaattgtcttttattcaatatatagCTACTGGGCCACTTGAACGAGAGGCAAATTGCCTATGTTTGTTGGGCTGCCCTTAGGgtaagcgatttgcagtaagagtgcccattagaggtcacccacggaagagc Alignment from Pairagon CCACTGGGCCCCTGGAA-GAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG cctcaatatgacaatttcttctatctaattgtcttttattcaatatatagCTACTGGGCCACTTGAACGAGAGGCAAATTGCCTATGTTTGTTGGGCTGCCCTTAGGgtaagcgatttgcagtaagagtgcccattagaggtcacccacggaagagc Alignment from Exonerate_protein2genome cctcaatatgacaatttcttctatctaattgtcttttattcaatatatagctactgggccacttgaacgagaggcaaattgcctatgtttgttgggctgcccttagggtaagcgatttgcagtaagagtgcccattagaggtcacccacggaagagc Alignment from Exonerate_coding2genome cctcaatatgacaatttcttctatctaattgtcttttattcaatatatagctactgggccacttgaacgagaggcaaattgcctatgtttgttgggctgcccttagggtaagcgatttgcagtaagagtgcccattagaggtcacccacggaagagc Alignment from GeneWise CCACTGGGCCCCTGGAA-GAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG cctcaatatgacaatttcttctatctaattgtcttttattcaatatatagCTACTGGGCCACTTGAACGAGAGGCAAATTGCCTATGTTTGTTGGGCTGCCCTTAGGgtaagcgatttgcagtaagagtgcccattagaggtcacccacggaagagc #### Map4k2_ID1628_7 --> 0 - 1 Original Alignment TAAG------ GGTGCCAACCTTCTGCTCACTCTGCAG-GGTGATGTCAAGCTGg TAAGGTAGGAgtagggatctaggtggtttctttgcttccatcgttcccagGGTGCAAACCTCCTGCTCACATTGCAGCGGAGAGGTGCAATTGtgtaagtgttgtgtggacttcagagtcaatcaatggcacaagctggggctc Alignment from CESAR TAAG GGTGCCAACCTTCTGCTCACTCTGCAG-GGTGATGTCAAGCTGg TAAGgtaggagtagaaatctaggtggtttctttgcttccatcgttcccagGGTGCAAACCTCCTGCTCACATTGCAGCGGAGAGGTGCAATTGtgtaagtgttgtgtggacttcagagtcaatcaatggcacaagctggggctc Alignment from Spaln_aa2Genome TAAG GGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAGCTGG TAAGgtaggagtagggatctaggtggtttctttgcttccatcgttcccagGGTGCAAACCTCCTGCTCACATTGCAG---------CGGAGAGgtgcaattgtgtaagtgttgtgtggacttcagagtcaatcaatggcacaagctggggctc Alignment from Spaln_nt2Genome TAAG GGTGCCAACCTTCTGCTCACTCTGCAG-GGTGATGTCAAGCTGG TAAGgtaggagtagggatctaggtggtttctttgcttccatcgttcccagGGTGCAAACCTCCTGCTCACATTGCAGCGGAGAGGTGCAATTGTgtaagtgttgtgtggacttcagagtcaatcaatggcacaagctggggctc Alignment from Pairagon TAAG GGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAGCTGGCGGACTTTGGGGTGTCAGGCGAG TAAGgtaggagtagggatctaggtggtttctttgcttccatcgttcccagGGTGCAAACCTCCTGCTCACATTGCAG--------------------------------CGGAGAGgtgcaattgtgtaagtgttgtgtggacttcagagtcaatcaatggcacaagctggggctc Alignment from Exonerate_protein2genome taaggtaggagtagggatctaggtggtttctttgcttccatcgttcccagggtgcaaacctcctgctcacattgcagcggagaggtgcaattgtgtaagtgttgtgtggacttcagagtcaatcaatggcacaagctggggctc Alignment from Exonerate_coding2genome taaggtaggagtagggatctaggtggtttctttgcttccatcgttcccagggtgcaaacctcctgctcacattgcagcggagaggtgcaattgtgtaagtgttgtgtggacttcagagtcaatcaatggcacaagctggggctc Alignment from GeneWise TCTGCAGGGT ----GTAGGAgtagggatctaggtggtttctttgcttccatcgttcccagggtgcaaacctcctgctcacattgcagcggagaggtgcaattgtgtaagtgttgtgtggacttcagagtcaatcaatggcacaagctggggctc #### Map4k2_ID1629_8 --> 2 - 2 Original Alignment cgGACTTTGGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATT-GGCACTCCATACtg cactctctcataggcagtccatactggttttccaggtgtttctttttcagctGATTTTGGGGTCACGGATGGAGCTACAACATCTGTTGCTAAGAGGCACTCTCTCATACGGCAGTCCATACtggtgagttgttccagagcatcggtgaagcctgctttataatgctatgtttc Alignment from CESAR cgGACTTTGGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATT-GGCACTCCATACtg cactctctcataggcagtccatactggttttccaggtgtttctttttcagctGATTTTGGGGTCACGGATGGAGCTACAACATCTGTTGCTAAGAGGCACTCTCTCATACGGCAGTCCATACtggtgagttgttccagagcatcggtgaagcctgctttattatttatttattt Alignment from Spaln_aa2Genome CGGACTTTGGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATT-GGCACTCCATACTG cactctctcataggcagtccatactggttttccaggtgtttctttttcagCTGATTTTGGGGTCACGGATGGAGCTACAACATCTGTTGCTAAGAGGCACTCTCTCATAcGGCAGTCCATACTGgtgagttgttccagagcatcggtgaagcctgctttataatgctatgtttc Alignment from Spaln_nt2Genome CGGACTTTGGGGTGTCAGGCG-AGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATT-GGCACTCCATACTG cactctctcataggcagtccatactggttttccaggtgtttctttttcagCTGATTTTGGGGTCACGGATGGAGCT-ACAACATCTGTTGCTAAGAGGCACTCTCTCATACGGCAGTCCATACTGgtgagttgttccagagcatcggtgaagcctgctttataatgctatgtttc Alignment from Pairagon CGTTCTTTCATTGGCACTCCATACTG CACTCTCTCATAGGCAGTCCATACTGgttttccaggtgtttctttttcagctgattttggggtcacggatggagctacaacatctgttgctaagaggcactctctcatacggcagtccatactggtgagttgttccagagcatcggtgaagcctgctttataatgctatgtttc Alignment from Exonerate_protein2genome cactctctcataggcagtccatactggttttccaggtgtttctttttcagctgattttggggtcacggatggagctacaacatctgttgctaagaggcactctctcatacggcagtccatactggtgagttgttccagagcatcggtgaagcctgctttataatgctatgtttc Alignment from Exonerate_coding2genome cactctctcataggcagtccatactggttttccaggtgtttctttttcagctgattttggggtcacggatggagctacaacatctgttgctaagaggcactctctcatacggcagtccatactggtgagttgttccagagcatcggtgaagcctgctttataatgctatgtttc Alignment from GeneWise CGTTCTTTCATTGGCACTCCATACTG CACTCTCTCATAGGCAGTCCATACTGgttttccaggtgtttctttttcagctgattttggggtcacggatggagctacaacatctgttgctaagaggcactctctcatacggcagtccatactggtgagttgttccagagcatcggtgaagcctgctttataatgctatgtttc #### Map4k2_ID1631_10 --> 1 - 2 Original Alignment gGCCTTGATGCTC-ATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGTtg gcagtgtgtctgttcttattccctccaccaatgctgttctttttctaaaggGCACTGATGCTCCATGTCAAAAAGCAGTTTCCAGCCACCAAAGCTAAGAGATAAGACACGCtggtgagtctccaccacaactggggacccactttctatatgagatagacttt Alignment from CESAR gGCCTTGATGCTC-ATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGTtg gcagtgtgtctgttcttattccctccaccaatgctgttctttttctaaaggGCACTGATGCTCCATGTCAAAAAGCAGTTTCCAGCCACCAAAGCTAAGAGATAAGACACGCtggtgagtctccaccacaactggggacccactttctatatgagatagacttt Alignment from Spaln_aa2Genome GGCCTTGATGCTC-ATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGTTG gcagtgtgtctgttcttattccctccaccaatgctgttctttttctaaagGGCACTGATGCTCcATGTCAAAAAGCAGTTTCCAGCCACCAAAGCTAAGAGATAAGACACGCTGgtgagtctccaccacaactggggacccactttctatatgagatagacttt Alignment from Spaln_nt2Genome GGCCTTGATGCTC-ATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGTTG gcagtgtgtctgttcttattccctccaccaatgctgttctttttctaaagGGCACTGATGCTCCATGTCAAAAAGCAGTTTCCAGCCACCAAAGCTAAGAGATAAGACACGCTGgtgagtctccaccacaactggggacccactttctatatgagatagacttt Alignment from Pairagon GGCCTTGATGCT-CATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGTTG gcagtgtgtctgttcttattccctccaccaatgctgttctttttctaaagGGCACTGATGCTCCATGTCAAAAAGCAGTTTCCAGCCACCAAAGCTAAGAGATAAGACACGCTGgtgagtctccaccacaactggggacccactttctatatgagatagacttt Alignment from Exonerate_protein2genome GGCCTTGATGCTC-ATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGTTG gcagtgtgtctgttcttattccctccaccaatgctgttctttttctaaagGGCACTGATGCTCCATGTCAAAAAGCAGTTTCCAGCCACCAAAGCTAAGAGATAAGACACGCTGgtgagtctccaccacaactggggacccactttctatatgagatagacttt Alignment from Exonerate_coding2genome gcagtgtgtctgttcttattccctccaccaatgctgttctttttctaaagggcactgatgctccatgtcaaaaagcagtttccagccaccaaagctaagagataagacacgctggtgagtctccaccacaactggggacccactttctatatgagatagacttt Alignment from GeneWise GGCCTTGATG-CTCATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGTTG gcagtgtgtctgttcttattccctccaccaatgctgttctttttctaaagGGCACTGATGCTCCATGTCAAAAAGCAGTTTCCAGCCACCAAAGCTAAGAGATAAGACACGCTGgtgagtctccaccacaactggggacccactttctatatgagatagacttt #### Map4k2_ID1632_11 --> 1 - 0 Original Alignment gACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTA-ACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG tgatacctcatctgcatatggatgggtggtttgtcccttgtgacacgaaggACTCAGAATTTTCACCACTTCCGCAAGCTAGCCCTGCACTAAGAATCCAAAGAAGAGGCCAACTGCTGAGAAGCTACTACAGgtaattaccagagaaaaggtgaaagattttgaaaaagggatccctgattg Alignment from CESAR gACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTA-ACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG tgatacctcatctgcatatggatgggtggtttgtcccttgtgacacgaaggACTCAGAATTTTCACCACTTCCGCAAGCTAGCCCTGCACTAAGAATCCAAAGAAGAGGCCAACTGCTGAGAAGCTACTACAGgtaattaccagagaaaaggtgaaagattttgaaaaagggaacttgtgcct Alignment from Spaln_aa2Genome GACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTA-ACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG tgatacctcatctgcatatggatgggtggtttgtcccttgtgacacgaagGACTCAGAATTTTCACCACTTCCGCAAGCTAGCCCTGcACTAAGAATCCAAAGAAGAGGCCAACTGCTGAGAAGCTACTACAGgtaattaccagagaaaaggtgaaagattttgaaaaagggatccctgattg Alignment from Spaln_nt2Genome GACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTA-ACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG tgatacctcatctgcatatggatgggtggtttgtcccttgtgacacgaagGACTCAGAATTTTCACCACTTCCGCAAGCTAGCCCTGCACTAAGAATCCAAAGAAGAGGCCAACTGCTGAGAAGCTACTACAGgtaattaccagagaaaaggtgaaagattttgaaaaagggatccctgattg Alignment from Pairagon GACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTA-ACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG tgatacctcatctgcatatggatgggtggtttgtcccttgtgacacgaagGACTCAGAATTTTCACCACTTCCGCAAGCTAGCCCTGCACTAAGAATCCAAAGAAGAGGCCAACTGCTGAGAAGCTACTACAGgtaattaccagagaaaaggtgaaagattttgaaaaagggatccctgattg Alignment from Exonerate_protein2genome tgatacctcatctgcatatggatgggtggtttgtcccttgtgacacgaaggactcagaattttcaccacttccgcaagctagccctgcactaagaatccaaagaagaggccaactgctgagaagctactacaggtaattaccagagaaaaggtgaaagattttgaaaaagggatccctgattg Alignment from Exonerate_coding2genome tgatacctcatctgcatatggatgggtggtttgtcccttgtgacacgaaggactcagaattttcaccacttccgcaagctagccctgcactaagaatccaaagaagaggccaactgctgagaagctactacaggtaattaccagagaaaaggtgaaagattttgaaaaagggatccctgattg Alignment from GeneWise GACCCAGAATTTCCACCACTTCCTCAAGCTGGCC-CTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG tgatacctcatctgcatatggatgggtggtttgtcccttgtgacacgaagGACTCAGAATTTTCACCACTTCCGCAAGCTAGCCCTGCACTAAGAATCCAAAGAAGAGGCCAACTGCTGAGAAGCTACTACAGgtaattaccagagaaaaggtgaaagattttgaaaaagggatccctgattg #### Map4k2_ID1634_13 --> 0 - 1 Original Alignment ACCCATGACATGTTTCCAGATACCATCCATTCCCGCAGCCAT-CATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGt aagtctactggtgcacagcacaagataattcctgtttgtctaacatccagACCCATGATATGTTCCCAGATACTATCCATTCCCACAGCCATCCATGGTCCAGCTGAAAGGACTCATTCAGAGATCCAGtgtaaggtatcagatggtgaaaaaatcctaatgagatgaggtaactgcaac Alignment from CESAR ACCCATGACATGTTTCCAGATACCATCCATTCCCGCAGCCAT-CATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGt aagtctactggtgcacagcacaagataattcctgtttgtctaacatccagACCCATGATATGTTCCCAGATACTATCCATTCCCACAGCCATCCATGGTCCAGCTGAAAGGACTCATTCAGAGATCCAGtgtaaggtatcagatggtgaaaaaatcctaatgagatgaggtaactgcaac Alignment from Spaln_aa2Genome ACCCATGACATGTTTCCAGATACCATCCATTCCCGCAGCCAT-CATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGT aagtctactggtgcacagcacaagataattcctgtttgtctaacatccagACCCATGATATGTTCCCAGATACTATCCATTCCCACAGCCATcCATGGTCCAGCTGAAAGGACTCATTCAGAGATCCAGTgtaaggtatcagatggtgaaaaaatcctaatgagatgaggtaactgcaac Alignment from Spaln_nt2Genome ACCCATGACATGTTTCCAGATACCATCCATTCCCGCAGCCAT-CATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGT aagtctactggtgcacagcacaagataattcctgtttgtctaacatccagACCCATGATATGTTCCCAGATACTATCCATTCCCACAGCCATCCATGGTCCAGCTGAAAGGACTCATTCAGAGATCCAGTgtaaggtatcagatggtgaaaaaatcctaatgagatgaggtaactgcaac Alignment from Pairagon ACCCATGACATGTTTCCAGATACCATCCATTCCCGCAGCCATC-ATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGT aagtctactggtgcacagcacaagataattcctgtttgtctaacatccagACCCATGATATGTTCCCAGATACTATCCATTCCCACAGCCATCCATGGTCCAGCTGAAAGGACTCATTCAGAGATCCAGTgtaaggtatcagatggtgaaaaaatcctaatgagatgaggtaactgcaac Alignment from Exonerate_protein2genome aagtctactggtgcacagcacaagataattcctgtttgtctaacatccagacccatgatatgttcccagatactatccattcccacagccatccatggtccagctgaaaggactcattcagagatccagtgtaaggtatcagatggtgaaaaaatcctaatgagatgaggtaactgcaac Alignment from Exonerate_coding2genome aagtctactggtgcacagcacaagataattcctgtttgtctaacatccagacccatgatatgttcccagatactatccattcccacagccatccatggtccagctgaaaggactcattcagagatccagtgtaaggtatcagatggtgaaaaaatcctaatgagatgaggtaactgcaac Alignment from GeneWise ACCCATGACATGTTTCCAGATACCATCCATTCCCGCAGC-CATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGT aagtctactggtgcacagcacaagataattcctgtttgtctaacatccagACCCATGATATGTTCCCAGATACTATCCATTCCCACAGCCATCCATGGTCCAGCTGAAAGGACTCATTCAGAGATCCAGTgtaaggtatcagatggtgaaaaaatcctaatgagatgaggtaactgcaac #### Map4k2_ID1635_14 --> 2 - 0 Original Alignment ttCACCAAGTGAAATTCGGT------------------GCT-CCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG aatgagatgaggtaactgcaacgggaccatcaatggtgttcactacttagttCACCAAGTGGAACTCACAGCTCCACACCAGAAGGAGACTCCCCCAACAGGAAGAGACAGAC------AATGATGCAgtaggctaaatgtacaggggggaaggctaagggcgactcctacgtcagaa Alignment from CESAR ttCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTC---------------AATGAACCG aatgagatgaggtaactgcaacgggaccatcaatggtgttcactacttagttCACCAAGTGGAACTCACAGCTCCACACCAGAAGGAGACT--CCCCCAACAGGAAGAGACAGACAATGATGCAgtaggctaaatgtacaggggggaaggctaagggcgactcctacgtcagaa Alignment from Spaln_aa2Genome TTCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTC-------------AATGAACCG aatgagatgaggtaactgcaacgggaccatcaatggtgttcactacttagTTCACCAAGTGGAACTCACAGCTCCACACCAGAAGGAGACTCCCCCAACAGGAAGAGACAGAcAATGATGCAgtaggctaaatgtacaggggggaaggctaagggcgactcctacgtcagaa Alignment from Spaln_nt2Genome TTCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGAC-------------AGATCCTCTCAATGAACCG aatgagatgaggtaactgcaacgggaccatcaatggtgttcactacttagTTCACCAAGTGGAACTCACAGCTCCACACCAGAAGGAGACTCCCCCAACAGGAAGAGACAGACAATGATGCAgtaggctaaatgtacaggggggaaggctaagggcgactcctacgtcagaa Alignment from Pairagon TTCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAG-------------------GAGACAGATCCTCTCAATGAACCG aatgagatgaggtaactgcaacgggaccatcaatggtgttcactacttagTTCACCAAGTGGAACTCACAGCTCCACACCAGAAGGAGACTCCCCCAACAGGAAGAGACAGA------CAATGATGCAgtaggctaaatgtacaggggggaaggctaagggcgactcctacgtcagaa Alignment from Exonerate_protein2genome aatgagatgaggtaactgcaacgggaccatcaatggtgttcactacttagttcaccaagtggaactcacagctccacaccagaaggagactcccccaacaggaagagacagacaatgatgcagtaggctaaatgtacaggggggaaggctaagggcgactcctacgtcagaa Alignment from Exonerate_coding2genome aatgagatgaggtaactgcaacgggaccatcaatggtgttcactacttagttcaccaagtggaactcacagctccacaccagaaggagactcccccaacaggaagagacagacaatgatgcagtaggctaaatgtacaggggggaaggctaagggcgactcctacgtcagaa Alignment from GeneWise aatgagatgaggtaactgcaacgggaccatcaatggtgttcactacttagttcaccaagtggaactcacagctccacaccagaaggagactcccccaacaggaagagacagacaatgatgcagtaggctaaatgtacaggggggaaggctaagggcgactcctacgtcagaa #### Map4k2_ID1638_17 --> 1 - 0 Original Alignment gAGCCTGACTATC-CGGCCAGCCTTAGAACTCCAG actatccccctcacacatagtaataccatttatatatttttttcttccaggAGCCTGGCTATCCCGGCCAGCCTTAGAACTGCAGgtgagccaggatctcatattatactaggtatggactcaagttctgcgtta Alignment from CESAR gAGCCTGACTATC-CGGCCAGCCTTAGAACTCCAG actatccccctcacacatagtaataccatttatatatttttttcttccaggAGCCTGGCTATCCCGGCCAGCCTTAGAACTGCAGgtgagccaggatctcatattatactaggtatggactcaagttctgcgtta Alignment from Spaln_aa2Genome GAGCCTGACTATC-CGGCCAGCCTTAGAACTCCAG actatccccctcacacatagtaataccatttatatatttttttcttccagGAGCCTGGCTATCcCGGCCAGCCTTAGAACTGCAGgtgagccaggatctcatattatactaggtatggactcaagttctgcgtta Alignment from Spaln_nt2Genome GAGCCTGACTATCC-GGCCAGCCTTAGAACTCCAG actatccccctcacacatagtaataccatttatatatttttttcttccagGAGCCTGGCTATCCCGGCCAGCCTTAGAACTGCAGgtgagccaggatctcatattatactaggtatggactcaagttctgcgtta Alignment from Pairagon GAGCCTGACTAT-CCGGCCAGCCTTAGAACTCCAG actatccccctcacacatagtaataccatttatatatttttttcttccagGAGCCTGGCTATCCCGGCCAGCCTTAGAACTGCAGgtgagccaggatctcatattatactaggtatggactcaagttctgcgtta Alignment from Exonerate_protein2genome GAGCCTGACTATC-CGGCCAGCCTTAGAACTCCAG actatccccctcacacatagtaataccatttatatatttttttcttccagGAGCCTGGCTATCCCGGCCAGCCTTAGAACTGCAGgtgagccaggatctcatattatactaggtatggactcaagttctgcgtta Alignment from Exonerate_coding2genome actatccccctcacacatagtaataccatttatatatttttttcttccaggagcctggctatcccggccagccttagaactgcaggtgagccaggatctcatattatactaggtatggactcaagttctgcgtta Alignment from GeneWise actatccccctcacacatagtaataccatttatatatttttttcttccaggagcctggctatcccggccagccttagaactgcaggtgagccaggatctcatattatactaggtatggactcaagttctgcgtta #### Map4k2_ID1639_18 --> 0 - 1 Original Alignment GAGCTGGACTCCCCG-GATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCAC---ACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAg gggccttcgggcattttaaggggtcagtaaaccaagcactccccatacagGAACTTGACTCCCCACGATGATGCCATAGGAACTATCAAGCAAGCACCATTCCTGGGCCTCCCCCACACTACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGT---CCAggtaagatcatggaatgataaggcacatgatatgtcatggacatcccaggg Alignment from CESAR GAGCTGGACTCCCCG-GATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACT---GAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAg gggccttcgggcattttaaggggtcagtaaaccaagcactccccatacagGAACTTGACTCCCCACGATGATGCCATAGGAACTATCAAGCAAGCACCATTCCTGGGCCTCCCCCACACTACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGT---CCAggtaagatcatggaatgataaggcacatgatatgtcatggacatcccaggg Alignment from Spaln_aa2Genome GAGCTGGACTCCCCG-GATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCAC---ACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAG gggccttcgggcattttaaggggtcagtaaaccaagcactccccatacagGAACTTGACTCCCCAcGATGATGCCATAGGAACTATCAAGCAAGCACCATTCCTGGGCCTCCCCCACACTACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGT---CCAGgtaagatcatggaatgataaggcacatgatatgtcatggacatcccaggg Alignment from Spaln_nt2Genome GAGCTGGACTCCCCG-GATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACT---GAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAG gggccttcgggcattttaaggggtcagtaaaccaagcactccccatacagGAACTTGACTCCCCACGATGATGCCATAGGAACTATCAAGCAAGCACCATTCCTGGGCCTCCCCCACACTACTGAGTCAACATCTGGTGATAATGCCCAGTCCTG---TCCAGgtaagatcatggaatgataaggcacatgatatgtcatggacatcccaggg Alignment from Pairagon GAGCTGGACTCCCCG-GATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCAC---ACTGAGTCAACATCTGGTGACAATGCCCAGTCCTG------------------------------------------------------- gggccttcgggcattttaaggggtcagtaaaccaagcactccccatacagGAACTTGACTCCCCACGATGATGCCATAGGAACTATCAAGCAAGCACCATTCCTGGGCCTCCCCCACACTACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGTCCAGGTAAGATCATGGAATGATAAGGCACATGATATGTCATGGACATCCCAGGG Alignment from Exonerate_protein2genome GAGCTGGACTCCCCG-GATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCAC---ACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAG gggccttcgggcattttaaggggtcagtaaaccaagcactccccatacagGAACTTGACTCCCCACGATGATGCCATAGGAACTATCAAGCAAGCACCATTCCTGGGCCTCCCCCACACTACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGT---CCAGgtaagatcatggaatgataaggcacatgatatgtcatggacatcccaggg Alignment from Exonerate_coding2genome gggccttcgggcattttaaggggtcagtaaaccaagcactccccatacaggaacttgactccccacgatgatgccataggaactatcaagcaagcaccattcctgggcctcccccacactactgagtcaacatctggtgataatgcccagtcctgtccaggtaagatcatggaatgataaggcacatgatatgtcatggacatcccaggg Alignment from GeneWise AGGCCCTGGAGGAAAGGAGCCTGACTATCCGGCCAGCCTTAGAACTCCAGGAGCTGGACTCCCCG-GATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACT---GAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAG --GCCTTCGGGCATTTTAAGGGGTCAGTAAACCAAGCACTCCCCATACAGGAACTTGACTCCCCACGATGATGCCATAGGAACTATCAAGCAAGCACCATTCCTGGGCCTCCCCCACACTACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGT---CCAGgtaagatcatggaatgataaggcacatgatatgtcatggacatcccaggg #### Map4k2_ID1640_19 --> 2 - 0 Original Alignment gtACCCTGTCAGCACCTCCAGCTGGCCCTGGCAGCCCCGCATTGCTGCCT-ACCGCCTGGGCTACTCTGAAGCAACAGGAGGATCGTGAG gtcatggacatcccaggggccggcaccacagtcactctcctgtctttcaggcACCTTGTCAGCCCCCCCAGCT---CCTGATAGCCATGCCCTGCTACCACACTGCTTGGGCTACCCTAAAGCAGCAAGAAGACCGTGAGgtacgtcaggtaactagatggtaagggggggaatcctatgttttgttttt Alignment from CESAR gtACCCTGTCAGCACCTCCAGCTGGCCCTGGCAGCCCCGCATTGCTGCCT-ACCGCCTGGGCTACTCTGAAGCAACAGGAGGATCGTGAG gtcatggacatcccaggggccggcaccacagtcactctcctgtctttcaggcACCTTGTCAGCCCCCCCAGCT---CCTGATAGCCATGCCCTGCTACCACACTGCTTGGGCTACCCTAAAGCAGCAAGAAGACCGTGAGgtacgtcaggtaactagatggtaagggggggaatcctatttccctctctc Alignment from Spaln_aa2Genome GTACCCTGTCAGCACCTCCAGCTGGCCCTGGCAGCCCCGCATTGCTGCCT-ACCGCCTGGGCTACTCTGAAGCAACAGGAGGATCGTGAG gtcatggacatcccaggggccggcaccacagtcactctcctgtctttcagGCACCTTGTCAGCCCCCCCAGCT---CCTGATAGCCATGCCCTGCTACCAcACTGCTTGGGCTACCCTAAAGCAGCAAGAAGACCGTGAGgtacgtcaggtaactagatggtaagggggggaatcctatgttttgttttt Alignment from Spaln_nt2Genome GTACCCTGTCAGCACCTCCAGCTGGCCCTGGCAGCCCCGCATTGCTGCCT-ACCGCCTGGGCTACTCTGAAGCAACAGGAGGATCGTGAG gtcatggacatcccaggggccggcaccacagtcactctcctgtctttcagGCACCTTGTCAGCCCCCCCAGCT---CCTGATAGCCATGCCCTGCTACCACACTGCTTGGGCTACCCTAAAGCAGCAAGAAGACCGTGAGgtacgtcaggtaactagatggtaagggggggaatcctatgttttgttttt Alignment from Pairagon ------------------------------------CTCC------CCAGGTACCCTGTCAGCACCTCCAGCTGGCCCTGGCAGCCCCGCATTGCTGCC-TACCGCCTGGGCTACTCTGAAGCAACAGGAGGATCGTGAG GTCATGGACATCCCAGGGGCCGGCACCACAGTCACTCTCCTGTCTTTCAGGCACCTTGTCAGCCCCCCCAGCT---CCTGATAGCCATGCCCTGCTACCACACTGCTTGGGCTACCCTAAAGCAGCAAGAAGACCGTGAGgtacgtcaggtaactagatggtaagggggggaatcctatgttttgttttt Alignment from Exonerate_protein2genome GTACCCTGTCAGCACCTCCAGCTGGCCCTGGCAGCCCCGCATTGCTGCCT-ACCGCCTGGGCTACTCTGAAGCAACAGGAGGATCGTGAG gtcatggacatcccaggggccggcaccacagtcactctcctgtctttcagGCACCTTGTCAGCCCCCCCAGCT---CCTGATAGCCATGCCCTGCTACCACACTGCTTGGGCTACCCTAAAGCAGCAAGAAGACCGTGAGgtacgtcaggtaactagatggtaagggggggaatcctatgttttgttttt Alignment from Exonerate_coding2genome gtcatggacatcccaggggccggcaccacagtcactctcctgtctttcaggcaccttgtcagcccccccagctcctgatagccatgccctgctaccacactgcttgggctaccctaaagcagcaagaagaccgtgaggtacgtcaggtaactagatggtaagggggggaatcctatgttttgttttt Alignment from GeneWise GTACCCTGTCAGCACCTCCAGCTGGCCCTGGCAGCCCCGCATTGCTGCCT-ACCGCCTGGGCTACTCTGAAGCAACAGGAGGATCGTGAG gtcatggacatcccaggggccggcaccacagtcactctcctgtctttcagGCACCTTGTCAGCCCCCCCAGCT---CCTGATAGCCATGCCCTGCTACCACACTGCTTGGGCTACCCTAAAGCAGCAAGAAGACCGTGAGgtacgtcaggtaactagatggtaagggggggaatcctatgttttgttttt #### Map4k2_ID1641_20 --> 0 - 0 Original Alignment CGATCATCCTGCCAT-GGGCTTCCTCCCACCCCCAAGGTGCAC taactagatggtaagggggggaatcctatttccctctctctgcccttcagCAGTCGTCCTGTTATCGGTCTCCCTCCCACCCCAAAGGTCCCTgtgagtggttccattgtcttagctcactggtgacaaatgttttgcttttc Alignment from CESAR CGATCATCCTGCCAT-GGGCTTCCTCCCACCCCCAAGGTGCAC taactagatggtaagggggggaatcctatttccctctctctgcccttcagCAGTCGTCCTGTTATCGGTCTCCCTCCCACCCCAAAGGTCCCTgtgagtggttccattgtcttagctcactggggatgttatgacactcctgt Alignment from Spaln_aa2Genome CGATCATCCTGCCAT-GGGCTTCCTCCCACCCCCAAGGTGCAC taactagatggtaagggggggaatcctatttccctctctctgcccttcagCAGTCGTCCTGTTATcGGTCTCCCTCCCACCCCAAAGGTCCCTgtgagtggttccattgtcttagctcactggtgacaaatgttttgcttttc Alignment from Spaln_nt2Genome CGATCATCCTGCCATGGG-CTTCCTCCCACCCCCAAGGTGCAC taactagatggtaagggggggaatcctatttccctctctctgcccttcagCAGTCGTCCTGTTATCGGTCTCCCTCCCACCCCAAAGGTCCCTgtgagtggttccattgtcttagctcactggtgacaaatgttttgcttttc Alignment from Pairagon CGATCATCCTGCCATGGG-CTTCCTCCCACCCCCAAGGTGCAC taactagatggtaagggggggaatcctatttccctctctctgcccttcagCAGTCGTCCTGTTATCGGTCTCCCTCCCACCCCAAAGGTCCCTgtgagtggttccattgtcttagctcactggtgacaaatgttttgcttttc Alignment from Exonerate_protein2genome CGATCATCCTGCCAT-GGGCTTCCTCCCACCCCCAAGGTGCAC taactagatggtaagggggggaatcctatttccctctctctgcccttcagCAGTCGTCCTGTTATCGGTCTCCCTCCCACCCCAAAGGTCCCTgtgagtggttccattgtcttagctcactggtgacaaatgttttgcttttc Alignment from Exonerate_coding2genome taactagatggtaagggggggaatcctatttccctctctctgcccttcagcagtcgtcctgttatcggtctccctcccaccccaaaggtccctgtgagtggttccattgtcttagctcactggtgacaaatgttttgcttttc Alignment from GeneWise TGCCATGGGCTTCCTCCCACCCCCAAGG taactagatggtaagggggggaatcctatttccctctctctgcccttcagcagtcgtcctgttatcggtctccctcccaccccaaaggtccctgtgagtggttccattgtcttagCTCACTGGT---GACAAATGTTTTGCTT #### Map4k2_ID1642_21 --> 0 - 1 Original Alignment ATGGGTGCCTGCTTCTCCAAGGTCTTC-AATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAg aagtggttccattgtcttagctcactggggatgttatgacactcctgtagATGGGGGCATGCTTCACAAAGGTCTCTCAACGGCTGTCCTCTGCAGATTCATGCCGCTGTTACTTGGGTCCACCCTGTGACACGAggtaagagtgggcaaactaaaggggataacttaggcacctatgaccatgat Alignment from CESAR ATGGGTGCCTGCTTCTCCAAGGTC-TTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAg gagtggttccattgtcttagctcactggggatgttatgacactcctgtagATGGGGGCATGCTTCACAAAGGTCTCTCAACGGCTGTCCTCTGCAGATTCATGCCGCTGTTACTTGGGTCCACCCTGTGACACGAggtaagagtgggcaaactaaaggggataacttaggcacctatgaccatgat Alignment from Spaln_aa2Genome ATGGGTGCCTGCTTCTCCAAGGTC-TTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAG aagtggttccattgtcttagctcactggggatgttatgacactcctgtagATGGGGGCATGCTTCACAAAGGTCtCTCAACGGCTGTCCTCTGCAGATTCATGCCGCTGTTACTTGGGTCCACCCTGTGACACGAGgtaagagtgggcaaactaaaggggataacttaggcacctatgaccatgat Alignment from Spaln_nt2Genome ATGGGTGCCTGCTTCTCCAAGGTCT-TCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAG aagtggttccattgtcttagctcactggggatgttatgacactcctgtagATGGGGGCATGCTTCACAAAGGTCTCTCAACGGCTGTCCTCTGCAGATTCATGCCGCTGTTACTTGGGTCCACCCTGTGACACGAGgtaagagtgggcaaactaaaggggataacttaggcacctatgaccatgat Alignment from Pairagon ATGGGTGCCTGCTTCTCCAAGGTCT-TCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAG aagtggttccattgtcttagctcactggggatgttatgacactcctgtagATGGGGGCATGCTTCACAAAGGTCTCTCAACGGCTGTCCTCTGCAGATTCATGCCGCTGTTACTTGGGTCCACCCTGTGACACGAGgtaagagtgggcaaactaaaggggataacttaggcacctatgaccatgat Alignment from Exonerate_protein2genome ATGGGTGCCTGCTTCTCCAAGGTC-TTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAG aagtggttccattgtcttagctcactggggatgttatgacactcctgtagATGGGGGCATGCTTCACAAAGGTCTCTCAACGGCTGTCCTCTGCAGATTCATGCCGCTGTTACTTGGGTCCACCCTGTGACACGAGgtaagagtgggcaaactaaaggggataacttaggcacctatgaccatgat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATGGGTGCCTGCTTCTCCAAGGTC-TTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAG aagtggttccattgtcttagctcactggggatgttatgacactcctgtagATGGGGGCATGCTTCACAAAGGTCTCTCAACGGCTGTCCTCTGCAGATTCATGCCGCTGTTACTTGGGTCCACCCTGTGACACGAGgtaagagtgggcaaactaaaggggataacttaggcacctatgaccatgat #### Map4k2_ID1643_22 --> 2 - 0 Original Alignment acCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCAC-GAACTGCACGAGGACACAATGGAGAAG CTCATCTCCCAGCGCTGCT tttgtaattcagaggcaagcatgatgtgaatctatggctcctcttctcagacCAGTTCTTGATAGTGGGAGCTAAGGAGGGTTTCTATACCCTCAACCTGCATCAAACTGCATGAAGATCGAATGGAAAAGgtgcgtctggtgatgccctctttccttgaagCTGATCTCTCAGCACTACA Alignment from CESAR acCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCAC-GAACTGCACGAGGACACAATGGAGAAG CTCATCTCCCAGCGCTGCT tttgtaattcagaggcaagcatgatgtgaatctatggctcctcttctcagacCAGTTCTTGATAGTGGGAGCTAAGGAGGGTTTCTATACCCTCAACCTGCATCAAACTGCATGAAGATCGAATGGAAAAGgtgcgtctgtccttagaatatctatttacagCTGATCTCTCAGCACTACA Alignment from Spaln_aa2Genome ACCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAA-CTGCACGAGGACACAATGGAGAAG CTCATCTCCCAGCGCTGCT tttgtaattcagaggcaagcatgatgtgaatctatggctcctcttctcagACCAGTTCTTGATAGTGGGAGCTAAGGAGGGTTTCTATACCCTCAACCTGCATCAAaCTGCATGAAGATCGAATGGAAAAGgtgcgtctggtgatgccctctttccttgaagCTGATCTCTCAGCACTACA Alignment from Spaln_nt2Genome ACCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCA-CGAACTGCACGAGGACACAATGGAGAAG-------------------------------CTCATCTCCCAGCGCTGCT tttgtaattcagaggcaagcatgatgtgaatctatggctcctcttctcagACCAGTTCTTGATAGTGGGAGCTAAGGAGGGTTTCTATACCCTCAACCTGCATCAAACTGCATGAAGATCGAATGGAAAAGGTGCGTCTGGTGATGCCCTCTTTCCTTGAAGCTGATCTCTCAGCACTACA Alignment from Pairagon ACCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCA-CGAACTGCACGAGGACACAATGGA-------------------------------GAAGCTCATCTCCCAGCGCTGCT tttgtaattcagaggcaagcatgatgtgaatctatggctcctcttctcagACCAGTTCTTGATAGTGGGAGCTAAGGAGGGTTTCTATACCCTCAACCTGCATCAAACTGCATGAAGATCGAATGGAAAAGGTGCGTCTGGTGATGCCCTCTTTCCTTGAAGCTGATCTCTCAGCACTACA Alignment from Exonerate_protein2genome ACCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAA-CTGCACGAGGACACAATGGAGAAG CTCATCTCCCAGCGCTGCT tttgtaattcagaggcaagcatgatgtgaatctatggctcctcttctcagACCAGTTCTTGATAGTGGGAGCTAAGGAGGGTTTCTATACCCTCAACCTGCATCAAACTGCATGAAGATCGAATGGAAAAGgtgcgtctggtgatgccctctttccttgaagCTGATCTCTCAGCACTACA Alignment from Exonerate_coding2genome GACCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAA-CTGCACGAGGACACAATGGAGAAG CTCATCTCCCAGCGCTGCT tttgtaattcagaggcaagcatgatgtgaatctatggctcctcttctcaGACCAGTTCTTGATAGTGGGAGCTAAGGAGGGTTTCTATACCCTCAACCTGCATCAAACTGCATGAAGATCGAATGGAAAAGgtgcgtctggtgatgccctctttccttgaagCTGATCTCTCAGCACTACA Alignment from GeneWise ACCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCAC-GAACTGCACGAGGACACAATGGAGAAG CTCATCTCCCAGCGCTGCT tttgtaattcagaggcaagcatgatgtgaatctatggctcctcttctcagACCAGTTCTTGATAGTGGGAGCTAAGGAGGGTTTCTATACCCTCAACCTGCATCAAACTGCATGAAGATCGAATGGAAAAGgtgcgtctggtgatgccctctttccttgaagCTGATCTCTCAGCACTACA #### Map4k2_ID1647_26 --> 2 - 0 Original Alignment ttCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCC-AGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gtgggagtgccatgcaactggccccaccgtgatgtttttctgtgttatagtcCACAATCCTTATACTAGCAGCACATTCCTGCTGGCTGCTCTACCTGCACAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTCCTGCTTAAGgtaagggactttttaatacatagagctgcatggcatttccttccctttcc Alignment from CESAR ttCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCC-AGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gtgggagtgccatgcaactggccccaccgtgatgtttttctgtgttatagtcCACAATCCTTATACTAGCAGCACATTCCTGCTGGCTGCTCTACCTGCACAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTCCTGCTTAAGgtaagggactttttaatacatagagctgcatggcatttcttggttggttt Alignment from Spaln_aa2Genome TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCC-AGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gtgggagtgccatgcaactggccccaccgtgatgtttttctgtgttatagTCCACAATCCTTATACTAGCAGCACATTCCTGCTGGCTGCTCTACCTGCAcAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTCCTGCTTAAGgtaagggactttttaatacatagagctgcatggcatttccttccctttcc Alignment from Spaln_nt2Genome TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGC-CAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gtgggagtgccatgcaactggccccaccgtgatgtttttctgtgttatagTCCACAATCCTTATACTAGCAGCACATTCCTGCTGGCTGCTCTACCTGCACAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTCCTGCTTAAGgtaagggactttttaatacatagagctgcatggcatttccttccctttcc Alignment from Pairagon TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGC-CAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gtgggagtgccatgcaactggccccaccgtgatgtttttctgtgttatagTCCACAATCCTTATACTAGCAGCACATTCCTGCTGGCTGCTCTACCTGCACAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTCCTGCTTAAGgtaagggactttttaatacatagagctgcatggcatttccttccctttcc Alignment from Exonerate_protein2genome TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCC-AGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gtgggagtgccatgcaactggccccaccgtgatgtttttctgtgttatagTCCACAATCCTTATACTAGCAGCACATTCCTGCTGGCTGCTCTACCTGCACAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTCCTGCTTAAGgtaagggactttttaatacatagagctgcatggcatttccttccctttcc Alignment from Exonerate_coding2genome TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCC-AGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gtgggagtgccatgcaactggccccaccgtgatgtttttctgtgttatagTCCACAATCCTTATACTAGCAGCACATTCCTGCTGGCTGCTCTACCTGCACAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTCCTGCTTAAGgtaagggactttttaatacatagagctgcatggcatttccttccctttcc Alignment from GeneWise -------------------------------------------------GTTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCC-AGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG GTGGGAGTGCCATGCAACTGGCCCCACCGTGATGTTTTTCTGTGTTATAGTCCACAATCCTTATACTAGCAGCACATTCCTGCTGGCTGCTCTACCTGCACAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTCCTGCTTAAGgtaagggactttttaatacatagagctgcatggcatttccttccctttcc #### Mark2_ID2107_14 --> 0 - 2 Original Alignment AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATC-CAGAATGGTAAAGACag gactaagtgcactactttagaggcaatacacttgcctcccctgggctcagAACGGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCAGTCTTGGCCAGGCTTCCATTCCAGAATGGAAAAGACaggtactgtaattaagtctggttccttttccaaagaagaatgcagtgcttta Alignment from CESAR AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATC-CAGAATGGTAAAGACag gactaagtgcactactttagaggcaatacacttgcctcccctgggctcagAACGGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCAGTCTTGGCCAGGCTTCCATTCCAGAATGGAAAAGACaggtactgtaattaagtctggttccttttccaaagaagaatgcagtgcttta Alignment from Spaln_aa2Genome AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATC-CAGAATGGTAAAGACAG gactaagtgcactactttagaggcaatacacttgcctcccctgggctcagAACGGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCAGTCTTGGCCAGGCTTCCATTcCAGAATGGAAAAGACAGgtactgtaattaagtctggttccttttccaaagaagaatgcagtgcttta Alignment from Spaln_nt2Genome AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCAT-CCAGAATGGTAAAGACAG gactaagtgcactactttagaggcaatacacttgcctcccctgggctcagAACGGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCAGTCTTGGCCAGGCTTCCATTCCAGAATGGAAAAGACAGgtactgtaattaagtctggttccttttccaaagaagaatgcagtgcttta Alignment from Pairagon AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCA-TCCAGAATGGTAAAGACAG gactaagtgcactactttagaggcaatacacttgcctcccctgggctcagAACGGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCAGTCTTGGCCAGGCTTCCATTCCAGAATGGAAAAGACAGgtactgtaattaagtctggttccttttccaaagaagaatgcagtgcttta Alignment from Exonerate_protein2genome AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATC-CAGAATGGTAAAGACAG gactaagtgcactactttagaggcaatacacttgcctcccctgggctcagAACGGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCAGTCTTGGCCAGGCTTCCATTCCAGAATGGAAAAGACAGgtactgtaattaagtctggttccttttccaaagaagaatgcagtgcttta Alignment from Exonerate_coding2genome AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATC-CAGAATGGTAAAGACAG gactaagtgcactactttagaggcaatacacttgcctcccctgggctcagAACGGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCAGTCTTGGCCAGGCTTCCATTCCAGAATGGAAAAGACAGgtactgtaattaagtctggttccttttccaaagaagaatgcagtgcttta Alignment from GeneWise AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAGCCTA-- gactaagtgcactactttagaggcaatacacttgcctcccctgggctcagAACGGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCAGTCTTGGCCAGGCTTCCATTCCAGAATGGAAAAGACAGGTACTgtaattaagtctggttccttttccaaagaagaatgcagtgcttta #### Mark2_ID2108_13 --> 2 - 0 Original Alignment ccGTCCCTGCCATTCCCACCTCG-AATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG gtgacatagagtatggtgccttgggggatagctccttctccacctcgcagctGTACCCGGCATTCCCACCTCCCAATTCCTATTCTAAAAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAGGAAACAGGACGAAGAGCCAGCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGGCCTGGATAGGAAGAAGACTACT---GCACCATCTACAgtgtgccctacagttactctccaagagactaagtgcactactttagaggc Alignment from CESAR ccGTCCCTGCCATTCCCACCTCG-AATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG gtgacatagagtatggtgccttgggggatagctccttctccacctcgcagctGTACCCGGCATTCCCACCTCCCAATTCCTATTCTAAAAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAGGAAACAGGACGAAGAGCCAGCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGGCCTGGATAGGAAGAAGACTACT---GCACCATCTACAgtgtgccctacagttactctccaagagactaagtgcactactttagaggc Alignment from Spaln_aa2Genome CCGTCCCTGCCATTCCCACCTCG-AATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG gtgacatagagtatggtgccttgggggatagctccttctccacctcgcagCTGTACCCGGCATTCCCACCTCCcAATTCCTATTCTAAAAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAGGAAACAGGACGAAGAGCCAGCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGGCCTGGATAGGAAGAAGACTACT---GCACCATCTACAgtgtgccctacagttactctccaagagactaagtgcactactttagaggc Alignment from Spaln_nt2Genome CCGTCCCTGCCATTCCCACCTCG-AATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG gtgacatagagtatggtgccttgggggatagctccttctccacctcgcagCTGTACCCGGCATTCCCACCTCCCAATTCCTATTCTAAAAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAGGAAACAGGACGAAGAGCCAGCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGGCCTGGATAGGAAGAAG---ACTACTGCACCATCTACAgtgtgccctacagttactctccaagagactaagtgcactactttagaggc Alignment from Pairagon CCGTCCCTGCCATTCCCACCT-CGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG gtgacatagagtatggtgccttgggggatagctccttctccacctcgcagCTGTACCCGGCATTCCCACCTCCCAATTCCTATTCTAAAAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAGGAAACAGGACGAAGAGCCAGCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGGCCTGGATAGGAAGAAGACTA---CTGCACCATCTACAgtgtgccctacagttactctccaagagactaagtgcactactttagaggc Alignment from Exonerate_protein2genome CCGTCCCTGCCATTCCCACCTCG-AATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG gtgacatagagtatggtgccttgggggatagctccttctccacctcgcagCTGTACCCGGCATTCCCACCTCCCAATTCCTATTCTAAAAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAGGAAACAGGACGAAGAGCCAGCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGGCCTGGATAGGAAGAAGACTACT---GCACCATCTACAgtgtgccctacagttactctccaagagactaagtgcactactttagaggc Alignment from Exonerate_coding2genome CCGTCCCTGCCATTCCCACCTCG-AATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG gtgacatagagtatggtgccttgggggatagctccttctccacctcgcagCTGTACCCGGCATTCCCACCTCCCAATTCCTATTCTAAAAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAGGAAACAGGACGAAGAGCCAGCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGGCCTGGATAGGAAGAAGACTACT---GCACCATCTACAgtgtgccctacagttactctccaagagactaagtgcactactttagaggc Alignment from GeneWise ----------------CAGGCCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG gtgacatagagtatggtgccttgggggatagCTCCTTCTCCACCTCGCAGCTGTACCCGGCATTCCCACCTCCCAATTCCTATTCTAAAAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAGGAAACAGGACGAAGAGCCAGCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGGCCTGGATAGGAAGAAGACTACT---GCACCATCTACAgtgtgccctacagttactctccaagagactaagtgcactactttagaggc #### Mark2_ID2111_10 --> 0 - 1 Original Alignment CAAATTATG---------------AAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTAT-GTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAg tttgaaaatagttacattttgctccctggatattgtgtgtatttctccagCAAATCATGGAGGATCAGTGGATGAAAGATCAGTGGATGAACGTGGGGCATGAGGATGTCGAACTAAAGATTTATCGTGCAACCCTTTCCTGACTATAGGGAACCACGGCAAACAggtgcggctgtgtggtgctgcatgtctgagataaggccacattgtgtcaat Alignment from CESAR CAAATT---------------ATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTAT-GTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAg tttgaaaatagttacattttgctccctggatattgtgtgtatttctccagCAAATCATGGAGGATCAGTGGATGAAAGATCAGTGGATGAACGTGGGGCATGAGGATGTCGAACTAAAGATTTATCGTGCAACCCTTTCCTGACTATAGGGAACCACGGCAAACAggtgcggctgtgtggtgctgcatgtctgagataaggccacattgtgtcaat Alignment from Spaln_aa2Genome CAAATT---------------ATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTAT-GTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAG tttgaaaatagttacattttgctccctggatattgtgtgtatttctccagCAAATCATGGAGGATCAGTGGATGAAAGATCAGTGGATGAACGTGGGGCATGAGGATGTCGAACTAAAGATTTATcGTGCAACCCTTTCCTGACTATAGGGAACCACGGCAAACAGgtgcggctgtgtggtgctgcatgtctgagataaggccacattgtgtcaat Alignment from Spaln_nt2Genome CAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTAT-GTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAG tttgaaaatagttacattttgctccctggatattgtgtgtatttctccagcaaatcatggaggatcag---TGGATGAAAGATCAGTGGATGAACGTGGGGCATGAGGATGTCGAACTAAAGATTTATCGTGCAACCCTTTCCTGACTATAGGGAACCACGGCAAACAGgtgcggctgtgtggtgctgcatgtctgagataaggccacattgtgtcaat Alignment from Pairagon CAAATT---------------ATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTAT-GTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAG tttgaaaatagttacattttgctccctggatattgtgtgtatttctccagCAAATCATGGAGGATCAGTGGATGAAAGATCAGTGGATGAACGTGGGGCATGAGGATGTCGAACTAAAGATTTATCGTGCAACCCTTTCCTGACTATAGGGAACCACGGCAAACAGgtgcggctgtgtggtgctgcatgtctgagataaggccacattgtgtcaat Alignment from Exonerate_protein2genome AGAGGCACTTTAGAGCAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTAT-GTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAG tttgaaaatagttacattttgctccctggatattgtgtgtatttctccagCAAATCATGGAGGATCAGTGGATGAAAGATCAGTGGATGAACGTGGGGCATGAGGATGTCGAACTAAAGATTTATCGTGCAACCCTTTCCTGACTATAGGGAACCACGGCAAACAGgtgcggctgtgtggtgctgcatgtctgagataaggccacattgtgtcaat Alignment from Exonerate_coding2genome AGAGGCACTTTAGAGCAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTAT-GTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAG tttgaaaatagttacattttgctccctggatattgtgtgtatttctccagCAAATCATGGAGGATCAGTGGATGAAAGATCAGTGGATGAACGTGGGGCATGAGGATGTCGAACTAAAGATTTATCGTGCAACCCTTTCCTGACTATAGGGAACCACGGCAAACAGgtgcggctgtgtggtgctgcatgtctgagataaggccacattgtgtcaat Alignment from GeneWise ---CAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTAT-GTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAG tttgaaaatagttacattttgctccctggatattgtgtgtatttctccagcaaatcatggagGATCAGTGGATGAAAGATCAGTGGATGAACGTGGGGCATGAGGATGTCGAACTAAAGATTTATCGTGCAACCCTTTCCTGACTATAGGGAACCACGGCAAACAGgtgcggctgtgtggtgctgcatgtctgagataaggccacattgtgtcaat #### Mark2_ID2112_9 --> 0 - 0 Original Alignment GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTG-CTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG atgctctgcaataacttatatgtcagataactgctcttctctttttccagGAGCTACGGGAACGGGTGTTGAGGGGGAAATACCGTATTCCGTTCTACATATCCACTGACTGTGAAAATCTACCTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATgtttgtaacctgagataacagtcaggaaaggagagcaatgtaccaattag Alignment from CESAR GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTG-CTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG atgctctgcaataacttatatgtcagataactgctcttctctttttccagGAGCTACGGGAACGGGTGTTGAGGGGGAAATACCGTATTCCGTTCTACATATCCACTGACTGTGAAAATCTACCTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATgtttgtaacctgagataacagtcaggaaaggagagcaatgtaccaattag Alignment from Spaln_aa2Genome GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTG-CTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG atgctctgcaataacttatatgtcagataactgctcttctctttttccagGAGCTACGGGAACGGGTGTTGAGGGGGAAATACCGTATTCCGTTCTACATATCCACTGACTGTGAAAATCTAcCTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATgtttgtaacctgagataacagtcaggaaaggagagcaatgtaccaattag Alignment from Spaln_nt2Genome GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGC-TTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG atgctctgcaataacttatatgtcagataactgctcttctctttttccagGAGCTACGGGAACGGGTGTTGAGGGGGAAATACCGTATTCCGTTCTACATATCCACTGACTGTGAAAATCTACCTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATgtttgtaacctgagataacagtcaggaaaggagagcaatgtaccaattag Alignment from Pairagon GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTG-CTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG atgctctgcaataacttatatgtcagataactgctcttctctttttccagGAGCTACGGGAACGGGTGTTGAGGGGGAAATACCGTATTCCGTTCTACATATCCACTGACTGTGAAAATCTACCTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATgtttgtaacctgagataacagtcaggaaaggagagcaatgtaccaattag Alignment from Exonerate_protein2genome GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTG-CTTAAGAAATTTCTCATACTTAATCCTAGTAAG atgctctgcaataacttatatgtcagataactgctcttctctttttccagGAGCTACGGGAACGGGTGTTGAGGGGGAAATACCGTATTCCGTTCTACATATCCACTGACTGTGAAAATCTACCTTAAGAAATTCCTTATACTTAATCCTAGTAAAagaggcactctagatgtttgtaacctgagataacagtcaggaaaggagagcaatgtaccaattag Alignment from Exonerate_coding2genome GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTG-CTTAAGAAATTTCTCATACTTAATCCTAGTAAG atgctctgcaataacttatatgtcagataactgctcttctctttttccagGAGCTACGGGAACGGGTGTTGAGGGGGAAATACCGTATTCCGTTCTACATATCCACTGACTGTGAAAATCTACCTTAAGAAATTCCTTATACTTAATCCTAGTAAAagaggcactctagatgtttgtaacctgagataacagtcaggaaaggagagcaatgtaccaattag Alignment from GeneWise GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTG-CTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG atgctctgcaataacttatatgtcagataactgctcttctctttttccagGAGCTACGGGAACGGGTGTTGAGGGGGAAATACCGTATTCCGTTCTACATATCCACTGACTGTGAAAATCTACCTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATgtttgtaacctgagataacagtcaggaaaggagagcaatgtaccaattag #### Mark2_ID2115_6 --> 2 - 0 Original Alignment gaGAGGTGTTTGATTACCTAGTGGCCCAT-GGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG atgagacaacccctacccttgactcttacattatttcccccatcccacaggtGAGCTGTTTGATTATCTAGTGGCTCATCGGCAGGATGAAAGAAAAAGAGGCTCGAGCCAAATACCACCAGgtaagggtgttgctaaatctgcaagtttggcaccagtgtgagaatacaga Alignment from CESAR gaGAGGTGTTTGATTACCTAGTGGCCCAT-GGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG atgagacaacccctacccttgactcttacattatttcccccatcccacaggtGAGCTGTTTGATTATCTAGTGGCTCATCGGCAGGATGAAAGAAAAAGAGGCTCGAGCCAAATACCACCAGgtaagggtgttgctaaatctgcaagtttggcaccagtgtgagaatacaga Alignment from Spaln_aa2Genome GAGAGGTGTTTGATTACCTAGTGGCCCAT-GGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG atgagacaacccctacccttgactcttacattatttcccccatcccacagGTGAGCTGTTTGATTATCTAGTGGCTCATcGGCAGGATGAAAGAAAAAGAGGCTCGAGCCAAATACCACCAGgtaagggtgttgctaaatctgcaagtttggcaccagtgtgagaatacaga Alignment from Spaln_nt2Genome GAGAGGTGTTTGATTACCTAGTGGCCCAT-GGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG atgagacaacccctacccttgactcttacattatttcccccatcccacagGTGAGCTGTTTGATTATCTAGTGGCTCATCGGCAGGATGAAAGAAAAAGAGGCTCGAGCCAAATACCACCAGgtaagggtgttgctaaatctgcaagtttggcaccagtgtgagaatacaga Alignment from Pairagon GAGAGGTGTTTGATTACCTAGTGGCCCAT-GGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG atgagacaacccctacccttgactcttacattatttcccccatcccacagGTGAGCTGTTTGATTATCTAGTGGCTCATCGGCAGGATGAAAGAAAAAGAGGCTCGAGCCAAATACCACCAGgtaagggtgttgctaaatctgcaagtttggcaccagtgtgagaatacaga Alignment from Exonerate_protein2genome GAGAGGTGTTTGATTACCTAGTGGCCCAT-GGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG atgagacaacccctacccttgactcttacattatttcccccatcccacagGTGAGCTGTTTGATTATCTAGTGGCTCATCGGCAGGATGAAAGAAAAAGAGGCTCGAGCCAAATACCACCAGgtaagggtgttgctaaatctgcaagtttggcaccagtgtgagaatacaga Alignment from Exonerate_coding2genome GAGAGGTGTTTGATTACCTAGTGGCCCAT-GGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG atgagacaacccctacccttgactcttacattatttcccccatcccacagGTGAGCTGTTTGATTATCTAGTGGCTCATCGGCAGGATGAAAGAAAAAGAGGCTCGAGCCAAATACCACCAGgtaagggtgttgctaaatctgcaagtttggcaccagtgtgagaatacaga Alignment from GeneWise GAGAGGTGTTTGATTACCTAGTGGCCCAT-GGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG atgagacaacccctacccttgactcttacattatttcccccatcccacagGTGAGCTGTTTGATTATCTAGTGGCTCATCGGCAGGATGAAAGAAAAAGAGGCTCGAGCCAAATACCACCAGgtaagggtgttgctaaatctgcaagtttggcaccagtgtgagaatacaga #### Mark2_ID2116_5 --> 2 - 1 Original Alignment ttAAGTTGTTTGAAGTGATCGAGACTGAGAAGACT-CTCTACCTTGTCATGGAGTATGCCAGTGGCg agagtggacttggtcacagatgtcgtcctacctttctctttcctatgtagtcAAGTGGTTTGATATC------ATTGAGAAGACACCTTTACTTAGTAATGGAGTATGCCAGTGGTggtgatgctcaagttgctcccattgtctgttggtgcttgcctatgtacaga Alignment from CESAR ttAAGTTGTTTGAAGTGATCGAGACTGAGAAGACT-CTCTACCTTGTCATGGAGTATGCCAGTGGCg agagtggacttggtcacagatgtcgtcctacctttctctttcctatgtagtcAAGTGGTTTGATATCATT------GAGAAGACACCTTTACTTAGTAATGGAGTATGCCAGTGGTggtgatgctcaagttgctcccattgtctgttggtgcttgcctatgtacaga Alignment from Spaln_aa2Genome TTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCG agagtggacttggtcacagatgtcgtcctacctttctctttcctatgtagTCAAGTGGTTTGATATCATTGAGAAGACACCTTTACTTAGTAATGGAGTATGCCAGTGGTGgtgatgctcaagttgctcccattgtctgttggtgcttgcctatgtacaga Alignment from Spaln_nt2Genome TTAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTC-TCTACCTTGTCATGGAGTATGCCAGTGGCG agagtggacttggtcacagatgtcgtcctacctttctctttcctatgtagTCAAGTGGTTTGATATCAT------TGAGAAGACACCTTTACTTAGTAATGGAGTATGCCAGTGGTGgtgatgctcaagttgctcccattgtctgttggtgcttgcctatgtacaga Alignment from Pairagon TTAAGTTGTTTGAAGTGATCGAGACTGAGAAGAC-TCTCTACCTTGTCATGGAGTATGCCAGTGGCG agagtggacttggtcacagatgtcgtcctacctttctctttcctatgtagTCAAGTGGTTTGATATCAT------TGAGAAGACACCTTTACTTAGTAATGGAGTATGCCAGTGGTGgtgatgctcaagttgctcccattgtctgttggtgcttgcctatgtacaga Alignment from Exonerate_protein2genome TTAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCG agagtggacttggtcacagatgtcgtcctacctttctctttcctaTGTAGTCAAGTGGTTTGATATCATTGAGAAGACACCTTTACTTAGTAATGGAGTATGCCAGTGGTGgtgatgctcaagttgctcccattgtctgttggtgcttgcctatgtacaga Alignment from Exonerate_coding2genome TTAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCG agagtggacttggtcacagatgtcgtcctacctttctctttcctaTGTAGTCAAGTGGTTTGATATCATTGAGAAGACACCTTTACTTAGTAATGGAGTATGCCAGTGGTGgtgatgctcaagttgctcccattgtctgttggtgcttgcctatgtacaga Alignment from GeneWise agagtggacttggtcacagatgtcgtcctacctttctctttcctatgtagtcaagtggtttgatatcattgagaagacacctttacttagtaatggagtatgccagtggtggtgatgctcaagttgctcccattgtctgttggtgcttgcctatgtacaga #### Mgea5_ID9593_8 --> 2 - 1 Original Alignment ctGACAGTGAAGACAGTACTGTATCAATACAGATAAAGTTAGAAAATGAAGGCAGTGACGAAGACATTGAGACTGATGTTCTCTACAGCCCA-CAGATGGCTTTAAAGCTGGCTTTAACTGAGTGGCTGCAGGAGTTCGGTGTCCCTCATCAGTACAGCa ccttaggagtcccctggaggggggatccccctctctgcttctgtctccagctGACAGTGAAGATAGTATGGTTTCAATACACATAAAGCTGGAGAATGAGGATGGTGACAAAGACATTGACACTGATGTCCTGTACAGTCCACCAGATGGCCTTTAAGTTAGCCCTAACTGAGTGGTTGCAAGAGATTGGTGTCCCTCACCAATACAGCagtaagttaagctgtgagcctcccaggccacagtatttgtataagtccctc Alignment from CESAR ctGACAGTGAAGACAGTACTGTATCAATACAGATAAAGTTAGAAAATGAAGGCAGTGACGAAGACATTGAGACTGATGTTCTCTACAGCCCA-CAGATGGCTTTAAAGCTGGCTTTAACTGAGTGGCTGCAGGAGTTCGGTGTCCCTCATCAGTACAGCa ccttaggagtcccctggaggggggatccccctctctgcttctgtctccagctGACAGTGAAGATAGTATGGTTTCAATACACATAAAGCTGGAGAATGAGGATGGTGACAAAGACATTGACACTGATGTCCTGTACAGTCCACCAGATGGCCTTTAAGTTAGCCCTAACTGAGTGGTTGCAAGAGATTGGTGTCCCTCACCAATACAGCagtaagttaagctgtgagcctcccaggccacagtatttgtataagtccctc Alignment from Spaln_aa2Genome CTGACAGTGAAGACAGTACTGTATCAATACAGATAAAGTTAGAAAATGAAGGCAGTGACGAAGACATTGAGACTGATGTTCTCTACAGCCCA-CAGATGGCTTTAAAGCTGGCTTTAACTGAGTGGCTGCAGGAGTTCGGTGTCCCTCATCAGTACAGCA ccttaggagtcccctggaggggggatccccctctctgcttctgtctccagCTGACAGTGAAGATAGTATGGTTTCAATACACATAAAGCTGGAGAATGAGGATGGTGACAAAGACATTGACACTGATGTCCTGTACAGTCCAcCAGATGGCCTTTAAGTTAGCCCTAACTGAGTGGTTGCAAGAGATTGGTGTCCCTCACCAATACAGCAgtaagttaagctgtgagcctcccaggccacagtatttgtataagtccctc Alignment from Spaln_nt2Genome CTGACAGTGAAGACAGTACTGTATCAATACAGATAAAGTTAGAAAATGAAGGCAGTGACGAAGACATTGAGACTGATGTTCTCTACAGCCCAC-AGATGGCTTTAAAGCTGGCTTTAACTGAGTGGCTGCAGGAGTTCGGTGTCCCTCATCAGTACAGCA ccttaggagtcccctggaggggggatccccctctctgcttctgtctccagCTGACAGTGAAGATAGTATGGTTTCAATACACATAAAGCTGGAGAATGAGGATGGTGACAAAGACATTGACACTGATGTCCTGTACAGTCCACCAGATGGCCTTTAAGTTAGCCCTAACTGAGTGGTTGCAAGAGATTGGTGTCCCTCACCAATACAGCAgtaagttaagctgtgagcctcccaggccacagtatttgtataagtccctc Alignment from Pairagon CTGACAGTGAAGACAGTACTGTATCAATACAGATAAAGTTAGAAAATGAAGGCAGTGACGAAGACATTGAGACTGATGTTCTCTACAGCCCA-CAGATGGCTTTAAAGCTGGCTTTAACTGAGTGGCTGCAGGAGTTCGGTGTCCCTCATCAGTACAGCA ccttaggagtcccctggaggggggatccccctctctgcttctgtctccagCTGACAGTGAAGATAGTATGGTTTCAATACACATAAAGCTGGAGAATGAGGATGGTGACAAAGACATTGACACTGATGTCCTGTACAGTCCACCAGATGGCCTTTAAGTTAGCCCTAACTGAGTGGTTGCAAGAGATTGGTGTCCCTCACCAATACAGCAgtaagttaagctgtgagcctcccaggccacagtatttgtataagtccctc Alignment from Exonerate_protein2genome CTGACAGTGAAGACAGTACTGTATCAATACAGATAAAGTTAGAAAATGAAGGCAGTGACGAAGACATTGAGACTGATGTTCTCTACAGCCCA-CAGATGGCTTTAAAGCTGGCTTTAACTGAGTGGCTGCAGGAGTTCGGTGTCCCTCATCAGTACAGCA ccttaggagtcccctggaggggggatccccctctctgcttctgtctccagCTGACAGTGAAGATAGTATGGTTTCAATACACATAAAGCTGGAGAATGAGGATGGTGACAAAGACATTGACACTGATGTCCTGTACAGTCCACCAGATGGCCTTTAAGTTAGCCCTAACTGAGTGGTTGCAAGAGATTGGTGTCCCTCACCAATACAGCAgtaagttaagctgtgagcctcccaggccacagtatttgtataagtccctc Alignment from Exonerate_coding2genome CTGACAGTGAAGACAGTACTGTATCAATACAGATAAAGTTAGAAAATGAAGGCAGTGACGAAGACATTGAGACTGATGTTCTCTACAGCCCA-CAGATGGCTTTAAAGCTGGCTTTAACTGAGTGGCTGCAGGAGTTCGGTGTCCCTCATCAGTACAGCA ccttaggagtcccctggaggggggatccccctctctgcttctgtctccagCTGACAGTGAAGATAGTATGGTTTCAATACACATAAAGCTGGAGAATGAGGATGGTGACAAAGACATTGACACTGATGTCCTGTACAGTCCACCAGATGGCCTTTAAGTTAGCCCTAACTGAGTGGTTGCAAGAGATTGGTGTCCCTCACCAATACAGCAgtaagttaagctgtgagcctcccaggccacagtatttgtataagtccctc Alignment from GeneWise CTGACAGTGAAGACAGTACTGTATCAATACAGATAAAGTTAGAAAATGAAGGCAGTGACGAAGACATTGAGACTGATGTTCTCTACAGCCCA-CAGATGGCTTTAAAGCTGGCTTTAACTGAGTGGCTGCAGGAGTTCGGTGTCCCTCATCAGTACAGCA ccttaggagtcccctggaggggggatccccctctctgcttctgtctccagCTGACAGTGAAGATAGTATGGTTTCAATACACATAAAGCTGGAGAATGAGGATGGTGACAAAGACATTGACACTGATGTCCTGTACAGTCCACCAGATGGCCTTTAAGTTAGCCCTAACTGAGTGGTTGCAAGAGATTGGTGTCCCTCACCAATACAGCAgtaagttaagctgtgagcctcccaggccacagtatttgtataagtccctc #### Mrpl11_ID768_3 --> 0 - 1 Original Alignment CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACT-GTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAg ctgactggggaatggactgagtatatgcggattggtatcctctcccttagCCTGATAGACCTCTGGAT---------------------CGTCTCCTACTTGCTTAAGGCAGCTTCTGGCATTGAGAAGGGAGCGCGGCATGCAggtgagtgttctggcaagccatgtgcggcaaggcaccaaggaccaaatagc Alignment from CESAR CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAg ctgactggggaatggactgagtatatgcggattggtatcctctcccttagCCTGATAGACCTCTGG--ATC------------------GTCTCCTACTTGCTTAAGGCAGCTTCTGGCATTGAGAAGGGAGCGCGGCATGCAggtgagtgttctggcaagccatgtgcggcaaggcaccaaggaccaaatagc Alignment from Spaln_aa2Genome CCCGACAGGACATTTGAGCTCAAG---------ATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ctgactggggaatggactgagTATATGCGGATTGGTATCCTCTCCCTTAGCCTGATAGACCTCTGGATCGTCTCCTACTTGCTTAAGGCAGCTTCTGGCATTGAGAAGGGAGCGCGGCATGCAGgtgagtgttctggcaagccatgtgcggcaaggcaccaaggaccaaatagc Alignment from Spaln_nt2Genome GC----AGCCCACTG-----TTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ctgactggggaatggactgagtatatgcggattggtatcctctcccttagCCTGATAGACCTCTGGATCGTCTCCTACTTGCTTAAGGCAGCTTCTGGCATTGAGAAGGGAGCGCGGCATGCAGgtgagtgttctggcaagccatgtgcggcaaggcaccaaggaccaaatagc Alignment from Pairagon CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ctgactggggaatggactgagtatatgcggattggtatcctctcccttagcctgatagacctctggatcgtctcctacttgcttaag---------------------------------------------------------GCAGCTTCTGGCATTGAGAAGGGAGCGCGGCATGCAGgtgagtgttctggcaagccatgtgcggcaaggcaccaaggaccaaatagc Alignment from Exonerate_protein2genome CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ctgactggggaatggactgagtatatgcggATTGGTATCCTCTCCCTTAGCCTGATAGACCTCTGGATCGTCTCCTACTTGCTTAAGGCAGCTTCTGGCATTGAGAAGGGAGCGCGGCATGCAGgtgagtgttctggcaagccatgtgcggcaaggcaccaaggaccaaatagc Alignment from Exonerate_coding2genome CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCT ctgactggggaatggactgagtatatgcggattggtatcctctcccttagcctgatagacctctggatcgtctcctacttgcttaaggcagcttctggcattgagaagGGAGCGCGGCATGCAGGTGAGTGTTCTGGCAAGCCATGTGCGGCAAGGCACCAAGGACCAAATAGC Alignment from GeneWise CCCGACAGGACATTTGAGCTCAAG---------ATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAGGG------------------------------------------------ ctgactggggaatggactgagTATATGCGGATTGGTATCCTCTCCCTTAGCCTGATAGACCTCTGGATCGTCTCCTACTTGCTTAAGGCAGCTTCTGGCATTGAGAAGGGAGCGCGGCATGCAGGTGAGTGTTCTGGCAAGCCATGTGCGGCAAGGCACCAAGGACCAAATAGC #### Mrpl43_ID9260_2 --> 1 - 1 Original Alignment gGAGTTCGTGGAACGCGAGGTGACC-GACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACc ggcacaaaacttagaactagcctaatacgtaattttattttcttttgtagaGAGTTAGTTGAACGTGAGGTTACTCGACTTTGCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACtgtacagccagctgagtgagggcaggggtatccagtacttaatctattaca Alignment from CESAR gGAGTTCGTGGAACGCGAGGTGACC-GACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACc ggcacaaaacttagaactagcctaatacgtaattttattttcttttgtagaGAGTTAGTTGAACGTGAGGTTACTCGACTTTGCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACtgtacagccagctgagtgagggcaggggtatccagtacttaatctattaca Alignment from Spaln_aa2Genome GGAGTTCGTGGAACGCGAGGTGACC-GACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcctaatacgtaattttattttcttttgtagAGAGTTAGTTGAACGTGAGGTTACTcGACTTTGCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtacagccagctgagtgagggcaggggtatccagtacttaatctattaca Alignment from Spaln_nt2Genome GGAGTTCGTGGAACGCGAGGTGAC-CGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcctaatacgtaattttattttcttttgtagAGAGTTAGTTGAACGTGAGGTTACTCGACTTTGCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtacagccagctgagtgagggcaggggtatccagtacttaatctattaca Alignment from Pairagon GGAGTTCGTGGAACGCGAGGTGAC-CGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcctaatacgtaattttattttcttttgtagAGAGTTAGTTGAACGTGAGGTTACTCGACTTTGCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtacagccagctgagtgagggcaggggtatccagtacttaatctattaca Alignment from Exonerate_protein2genome GGAGTTCGTGGAACGCGAGGTGACC-GACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcctaatacgtaattttattttcttttgtagAGAGTTAGTTGAACGTGAGGTTACTCGACTTTGCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtacagccagctgagtgagggcaggggtatccagtacttaatctattaca Alignment from Exonerate_coding2genome GGAGTTCGTGGAACGCGAGGTGACC-GACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcctaatacgtaattttattttcttttgtagAGAGTTAGTTGAACGTGAGGTTACTCGACTTTGCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtacagccagctgagtgagggcaggggtatccagtacttaatctattaca Alignment from GeneWise GGAGTTCGTGGAACGCGAGGTG-ACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcctaatacgtaattttattttcttttgtagAGAGTTAGTTGAACGTGAGGTTACTCGACTTTGCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtacagccagctgagtgagggcaggggtatccagtacttaatctattaca #### Mta2_ID2533_6 --> 0 - 1 Original Alignment GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAA-TTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGg accattaatatctgcactaaaccacattttttttgtcttctctgtccaagGAGTGTTTTTTTTATTCATTGGTGTTTGAGCCTGTGCAGAAAACACTACTGGCAGATCAAGGGGAGAGCAGGGTTGGTTGCACACTTCCAAGCTGCAATTCCAGATCACTTGGCAGAGggtaatcaaaagtctggtttgaacataattttttctctcaacgatatcaat Alignment from CESAR GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAA-TTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGg accattaatatctgcactaaaccacattttttttgtcttctctgtccaagGAGTGTTTTTTTTATTCATTGGTGTTTGAGCCTGTGCAGAAAACACTACTGGCAGATCAAGGGGAGAGCAGGGTTGGTTGCACACTTCCAAGCTGCAATTCCAGATCACTTGGCAGAGggtaatcaaaagtctggtttgaacataattttttctctcaacgatatcaat Alignment from Spaln_aa2Genome GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGC-AAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG accattaatatctgcactaaaccacattttttttgtcttctctgtccaagGAGTGTTTTTTTTATTCATTGGTGTTTGAGCCTGTGCAGAAAACACTACTGGCAGATCAAGGGGAGAGCAGGGTTGGTTGCaCACTTCCAAGCTGCAATTCCAGATCACTTGGCAGAGGgtaatcaaaagtctggtttgaacataattttttctctcaacgatatcaat Alignment from Spaln_nt2Genome GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAA-TTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG accattaatatctgcactaaaccacattttttttgtcttctctgtccaagGAGTGTTTTTTTTATTCATTGGTGTTTGAGCCTGTGCAGAAAACACTACTGGCAGATCAAGGGGAGAGCAGGGTTGGTTGCACACTTCCAAGCTGCAATTCCAGATCACTTGGCAGAGGgtaatcaaaagtctggtttgaacataattttttctctcaacgatatcaat Alignment from Pairagon GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCA-AATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG accattaatatctgcactaaaccacattttttttgtcttctctgtccaagGAGTGTTTTTTTTATTCATTGGTGTTTGAGCCTGTGCAGAAAACACTACTGGCAGATCAAGGGGAGAGCAGGGTTGGTTGCACACTTCCAAGCTGCAATTCCAGATCACTTGGCAGAGGgtaatcaaaagtctggtttgaacataattttttctctcaacgatatcaat Alignment from Exonerate_protein2genome GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGC-AAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG accattaatatctgcactaaaccacattttttttgtcttctctgtccaagGAGTGTTTTTTTTATTCATTGGTGTTTGAGCCTGTGCAGAAAACACTACTGGCAGATCAAGGGGAGAGCAGGGTTGGTTGCACACTTCCAAGCTGCAATTCCAGATCACTTGGCAGAGGgtaatcaaaagtctggtttgaacataattttttctctcaacgatatcaat Alignment from Exonerate_coding2genome GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGC-AAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG accattaatatctgcactaaaccacattttttttgtcttctctgtccaagGAGTGTTTTTTTTATTCATTGGTGTTTGAGCCTGTGCAGAAAACACTACTGGCAGATCAAGGGGAGAGCAGGGTTGGTTGCACACTTCCAAGCTGCAATTCCAGATCACTTGGCAGAGGgtaatcaaaagtctggtttgaacataattttttctctcaacgatatcaat Alignment from GeneWise GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGC-AAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG accattaatatctgcactaaaccacattttttttgtcttctctgtccaagGAGTGTTTTTTTTATTCATTGGTGTTTGAGCCTGTGCAGAAAACACTACTGGCAGATCAAGGGGAGAGCAGGGTTGGTTGCACACTTCCAAGCTGCAATTCCAGATCACTTGGCAGAGGgtaatcaaaagtctggtttgaacataattttttctctcaacgatatcaat #### Mta2_ID2538_11 --> 0 - 2 Original Alignment AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTC-TACATCCCCACTta gtgctcatgggatgactccaagtttggcacattctcttttgtttttgcagAAAAGGCTAAAAGCTGCCGAAGCAGACAGTATATTGAAACAGGTGCTATATCCCCACCtagtaagtctcattccaaaataagaacacctaatcatggtgacctaatgtct Alignment from CESAR AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTC-TACATCCCCACTta gtgctcatgggatgactccaagtttggcacattctcttttgtttttgcagAAAAGGCTAAAAGCTGCCGAAGCAGACAGTATATTGAAACAGGTGCTATATCCCCACCtagtaagtctcattccaaaataagaacacctaatcatggtgacctaatgtct Alignment from Spaln_aa2Genome AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTC-TACATCCCCACTTA gtgctcatgggatgactccaagtttggcacattctcttttgtttttgcagAAAAGGCTAAAAGCTGCCGAAGCAGACAGTATATTGAAACAGGTGcTATATCCCCACCTAgtaagtctcattccaaaataagaacacctaatcatggtgacctaatgtct Alignment from Spaln_nt2Genome AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGT-CTACATCCCCACTTA gtgctcatgggatgactccaagtttggcacattctcttttgtttttgcagAAAAGGCTAAAAGCTGCCGAAGCAGACAGTATATTGAAACAGGTGCTATATCCCCACCTAgtaagtctcattccaaaataagaacacctaatcatggtgacctaatgtct Alignment from Pairagon AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGT-CTACATCCCCACTTA gtgctcatgggatgactccaagtttggcacattctcttttgtttttgcagAAAAGGCTAAAAGCTGCCGAAGCAGACAGTATATTGAAACAGGTGCTATATCCCCACCTAgtaagtctcattccaaaataagaacacctaatcatggtgacctaatgtct Alignment from Exonerate_protein2genome AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTC-TACATCCCCACTTA gtgctcatgggatgactccaagtttggcacattctcttttgtttttgcagAAAAGGCTAAAAGCTGCCGAAGCAGACAGTATATTGAAACAGGTGCTATATCCCCACCTAgtaagtctcattccaaaataagaacacctaatcatggtgacctaatgtct Alignment from Exonerate_coding2genome gtgctcatgggatgactccaagtttggcacattctcttttgtttttgcagaaaaggctaaaagctgccgaagcagacagtatattgaaacaggtgctatatccccacctagtaagtctcattccaaaataagaacacctaatcatggtgacctaatgtct Alignment from GeneWise gtgctcatgggatgactccaagtttggcacattctcttttgtttttgcagaaaaggctaaaagctgccgaagcagacagtatattgaaacaggtgctatatccccacctagtaagtctcattccaaaataagaacacctaatcatggtgacctaatgtct #### Mta2_ID2539_12 --> 1 - 1 Original Alignment tACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGC-ATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACa atcgcggtaggagaaagtctagtggcctctctttctctcccttactttagcACAAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCAAAGCCTGGCCATGAATGGGGCTGGATTCCAGAAAGGACTGACTTGTGAGAGCTGTCATagtaagttacacatctgatatatcccttactattagatattcatggtttgt Alignment from CESAR tACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGC-ATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACa atcgcggtaggagaaagtctagtggcctctctttctctcccttactttagcACAAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCAAAGCCTGGCCATGAATGGGGCTGGATTCCAGAAAGGACTGACTTGTGAGAGCTGTCATagtaagttacacatctgatatatcccttactattagatattcatggtttgt Alignment from Spaln_aa2Genome TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGC-ATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA atcgcggtaggagaaagtctagtggcctctctttctctcccttactttagCACAAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCAAAGCCTGGCcATGAATGGGGCTGGATTCCAGAAAGGACTGACTTGTGAGAGCTGTCATAgtaagttacacatctgatatatcccttactattagatattcatggtttgt Alignment from Spaln_nt2Genome TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGC-ATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA atcgcggtaggagaaagtctagtggcctctctttctctcccttactttagCACAAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCAAAGCCTGGCCATGAATGGGGCTGGATTCCAGAAAGGACTGACTTGTGAGAGCTGTCATAgtaagttacacatctgatatatcccttactattagatattcatggtttgt Alignment from Pairagon TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGG-CATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA atcgcggtaggagaaagtctagtggcctctctttctctcccttactttagCACAAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCAAAGCCTGGCCATGAATGGGGCTGGATTCCAGAAAGGACTGACTTGTGAGAGCTGTCATAgtaagttacacatctgatatatcccttactattagatattcatggtttgt Alignment from Exonerate_protein2genome TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGC-ATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA atcgcggtaggagaaagtctagtggcctctctttctctcccttactttagCACAAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCAAAGCCTGGCCATGAATGGGGCTGGATTCCAGAAAGGACTGACTTGTGAGAGCTGTCATAgtaagttacacatctgatatatcccttactattagatattcatggtttgt Alignment from Exonerate_coding2genome TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGC-ATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA atcgcggtaggagaaagtctagtggcctctctttctctcccttactttagCACAAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCAAAGCCTGGCCATGAATGGGGCTGGATTCCAGAAAGGACTGACTTGTGAGAGCTGTCATAgtaagttacacatctgatatatcccttactattagatattcatggtttgt Alignment from GeneWise TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGC-ATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA atcgcggtaggagaaagtctagtggcctctctttctctcccttactttagCACAAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCAAAGCCTGGCCATGAATGGGGCTGGATTCCAGAAAGGACTGACTTGTGAGAGCTGTCATAgtaagttacacatctgatatatcccttactattagatattcatggtttgt #### Mta2_ID2542_15 --> 2 - 1 Original Alignment gcTCGATCCGACTTCCTAAGGCT-GCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGg gctggtgaccctggagacctttctctccacacatgtatggaatattttaggcTCAATCCGATTTCCTAAGTCTCGCCAAGACTCCATTGAAAATTCACCCTCTTGTGCGGCTGCCTTTGGCAACTATCATCAAAGATCTGggtgaggaggatcacattcccaagccaggtcagccacctgcctgtcttcct Alignment from CESAR gcTCGATCCGACTTCCTAAGGCT-GCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGg gctggtgaccctggagacctttctctccacacatgtatggaatattttaggcTCAATCCGATTTCCTAAGTCTCGCCAAGACTCCATTGAAAATTCACCCTCTTGTGCGGCTGCCTTTGGCAACTATCATCAAAGATCTGggtgaggaggatcacattcccaagccaggtcagattaatgtttttgttctt Alignment from Spaln_aa2Genome GCTCGATCCGACTTCCTAAGGCT-GCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG gctggtgaccctggagacctttctctccacacatgtatggaatattttagGCTCAATCCGATTTCCTAAGTCTcGCCAAGACTCCATTGAAAATTCACCCTCTTGTGCGGCTGCCTTTGGCAACTATCATCAAAGATCTGGgtgaggaggatcacattcccaagccaggtcagccacctgcctgtcttcct Alignment from Spaln_nt2Genome GCTCGATCCGACTTCCTAAGGCT-GCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG gctggtgaccctggagacctttctctccacacatgtatggaatattttagGCTCAATCCGATTTCCTAAGTCTCGCCAAGACTCCATTGAAAATTCACCCTCTTGTGCGGCTGCCTTTGGCAACTATCATCAAAGATCTGGgtgaggaggatcacattcccaagccaggtcagccacctgcctgtcttcct Alignment from Pairagon GCTCGATCCGACTTCCTAAGGCT-GCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG gctggtgaccctggagacctttctctccacacatgtatggaatattttagGCTCAATCCGATTTCCTAAGTCTCGCCAAGACTCCATTGAAAATTCACCCTCTTGTGCGGCTGCCTTTGGCAACTATCATCAAAGATCTGGgtgaggaggatcacattcccaagccaggtcagccacctgcctgtcttcct Alignment from Exonerate_protein2genome GCTCGATCCGACTTCCTAAGGCT-GCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG gctggtgaccctggagacctttctctccacacatgtatggaatattttagGCTCAATCCGATTTCCTAAGTCTCGCCAAGACTCCATTGAAAATTCACCCTCTTGTGCGGCTGCCTTTGGCAACTATCATCAAAGATCTGGgtgaggaggatcacattcccaagccaggtcagccacctgcctgtcttcct Alignment from Exonerate_coding2genome GCTCGATCCGACTTCCTAAGGCT-GCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG gctggtgaccctggagacctttctctccacacatgtatggaatattttagGCTCAATCCGATTTCCTAAGTCTCGCCAAGACTCCATTGAAAATTCACCCTCTTGTGCGGCTGCCTTTGGCAACTATCATCAAAGATCTGGgtgaggaggatcacattcccaagccaggtcagccacctgcctgtcttcct Alignment from GeneWise ----GCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTG--------------------------------------------------- gctggtgaccctggagacctttctctccacacatgtatggaatattttaggctcaatccgatttcctaagTCTCGCCAAGACTCCATTGAAAATTCACCCTCTTGTGCGGCTGCCTTTGGCAACTATCATCAAAGATCTGGGTGAGGAGGATCACATTCCCAAGCCAGGTCAGCCACCTGCCTGTCTTCCT #### Myrf_ID2723_14 --> 2 - 0 Original Alignment gtGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATA-GAGAACTTCCTTGTAGTGAACAAG gcctggcaaagtagagtcctgactgcagctgttgttttgtttctccttagggATCCTTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTCTTCACAAATGGAAAAAGTATACAAGAACTTCCTAGTAGTGAACAAAgtaagtttataggatctgcagcttaggcatggtatcttgaatctagctgt Alignment from CESAR gtGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATA-GAGAACTTCCTTGTAGTGAACAAG gcctggcaaagtagagtcctgactgcagctgttgttttgtttctccttagggATCCTTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTCTTCACAAATGGAAAAAGTATACAAGAACTTCCTAGTAGTGAACAAAgtaagtttataggatctgcagcttaggcatggtatcttgaatctagctgt Alignment from Spaln_aa2Genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAG-AACTTCCTTGTAGTGAACAAG gcctggcaaagtagagtcctgactgcagctgttgttttgtttctccttagGGATCCTTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTCTTCACAAATGGAAAAAGTATACAAgAACTTCCTAGTAGTGAACAAAgtaagtttataggatctgcagcttaggcatggtatcttgaatctagctgt Alignment from Spaln_nt2Genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGA-GAACTTCCTTGTAGTGAACAAG gcctggcaaagtagagtcctgactgcagctgttgttttgtttctccttagGGATCCTTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTCTTCACAAATGGAAAAAGTATACAAGAACTTCCTAGTAGTGAACAAAgtaagtttataggatctgcagcttaggcatggtatcttgaatctagctgt Alignment from Pairagon GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATA-GAGAACTTCCTTGTAGTGAACAAG gcctggcaaagtagagtcctgactgcagctgttgttttgtttctccttagGGATCCTTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTCTTCACAAATGGAAAAAGTATACAAGAACTTCCTAGTAGTGAACAAAgtaagtttataggatctgcagcttaggcatggtatcttgaatctagctgt Alignment from Exonerate_protein2genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAG-AACTTCCTTGTAGTGAACAAG gcctggcaaagtagagtcctgactgcagctgttgttttgtttctccttagGGATCCTTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTCTTCACAAATGGAAAAAGTATACAAGAACTTCCTAGTAGTGAACAAAgtaagtttataggatctgcagcttaggcatggtatcttgaatctagctgt Alignment from Exonerate_coding2genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAG-AACTTCCTTGTAGTGAACAAG gcctggcaaagtagagtcctgactgcagctgttgttttgtttctccttagGGATCCTTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTCTTCACAAATGGAAAAAGTATACAAGAACTTCCTAGTAGTGAACAAAgtaagtttataggatctgcagcttaggcatggtatcttgaatctagctgt Alignment from GeneWise GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATA-GAGAACTTCCTTGTAGTGAACAAG gcctggcaaagtagagtcctgactgcagctgttgttttgtttctccttagGGATCCTTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTCTTCACAAATGGAAAAAGTATACAAGAACTTCCTAGTAGTGAACAAAgtaagtttataggatctgcagcttaggcatggtatcttgaatctagctgt #### Naa40_ID2074_6 --> 1 - 2 Original Alignment cTATGAAGTGCAGCTGGAAAGCAAG-GTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACag ttacatgtctccattgtgtccaggtactatgtctttgcgatttttcttagcTACGAAGTACAGCTAGAAAGCAAGCGTAAGGCAGAAAGGCCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTAATGGCCAATaggtatttagcatcttggaagatttgaattgctggaggttggacctgagaat Alignment from CESAR cTATGAAGTGCAGCTGGAAAGCAAG-GTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACag ttacatgtctccattgtgtccaggtactatgtctttgcgatttttcttagcTACGAAGTACAGCTAGAAAGCAAGCGTAAGGCAGAAAGGCCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTAATGGCCAATaggtatttagcatcttggaagatttgaattgctggaggttggacctgagaat Alignment from Spaln_aa2Genome CTATGAAGTGCAGCTGGAAAGCAAG-GTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAG ttacatgtctccattgtgtccaggtactatgtctttgcgatttttcttagCTACGAAGTACAGCTAGAAAGCAAGcGTAAGGCAGAAAGGCCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTAATGGCCAATAGgtatttagcatcttggaagatttgaattgctggaggttggacctgagaat Alignment from Spaln_nt2Genome CTATGAAGTGCAGCTGGAAAGCAAG-GTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAG ttacatgtctccattgtgtccaggtactatgtctttgcgatttttcttagCTACGAAGTACAGCTAGAAAGCAAGCGTAAGGCAGAAAGGCCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTAATGGCCAATAGgtatttagcatcttggaagatttgaattgctggaggttggacctgagaat Alignment from Pairagon CTATGAAGTGCAGCTGGAAAGCAAG-GTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAG ttacatgtctccattgtgtccaggtactatgtctttgcgatttttcttagCTACGAAGTACAGCTAGAAAGCAAGCGTAAGGCAGAAAGGCCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTAATGGCCAATAGgtatttagcatcttggaagatttgaattgctggaggttggacctgagaat Alignment from Exonerate_protein2genome CTATGAAGTGCAGCTGGAAAGCAAG-GTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAG ttacatgtctccattgtgtccaggtactatgtctttgcgatttttcttagCTACGAAGTACAGCTAGAAAGCAAGCGTAAGGCAGAAAGGCCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTAATGGCCAATAGgtatttagcatcttggaagatttgaattgctggaggttggacctgagaat Alignment from Exonerate_coding2genome ttacatgtctccattgtgtccaggtactatgtctttgcgatttttcttagctacgaagtacagctagaaagcaagcgtaaggcagaaaggcctagagaagtttctcattcagattctccagctaatggccaataggtatttagcatcttggaagatttgaattgctggaggttggacctgagaat Alignment from GeneWise CTATGAAGTGCAGCTGGAAAGCAAG-GTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAG ttacatgtctccattgtgtccaggtactatgtctttgcgatttttcttagCTACGAAGTACAGCTAGAAAGCAAGCGTAAGGCAGAAAGGCCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTAATGGCCAATAGgtatttagcatcttggaagatttgaattgctggaggttggacctgagaat #### Naa40_ID2075_5 --> 1 - 2 Original Alignment gTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAA-ATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACtg aatcaaatctagggagcagtctacttatacaggcactggatattctgcaggTACGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGCATGACTGATGATCATGCCTGGTACCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAATGTGGGGACGAGGTTTTATATtggtacaagatttttgcctgtggtgtaggaggttatgccactgattgagtag Alignment from CESAR gTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAA-ATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACtg aatcaaatctagggagcagtctacttatacaggcactggatattctgcaggTACGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGCATGACTGATGATCATGCCTGGTACCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAATGTGGGGACGAGGTTTTATATtggtacaagatttttgcctgtggtgtaggaggttatgccactgattgagtag Alignment from Spaln_aa2Genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAA-ATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG aatcaaatctagggagcagtctacttatacaggcactggatattctgcagGTACGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGcATGACTGATGATCATGCCTGGTACCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAATGTGGGGACGAGGTTTTATATTGgtacaagatttttgcctgtggtgtaggaggttatgccactgattgagtag Alignment from Spaln_nt2Genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAA-ATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG aatcaaatctagggagcagtctacttatacaggcactggatattctgcagGTACGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGCATGACTGATGATCATGCCTGGTACCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAATGTGGGGACGAGGTTTTATATTGgtacaagatttttgcctgtggtgtaggaggttatgccactgattgagtag Alignment from Pairagon GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAA-ATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG aatcaaatctagggagcagtctacttatacaggcactggatattctgcagGTACGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGCATGACTGATGATCATGCCTGGTACCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAATGTGGGGACGAGGTTTTATATTGgtacaagatttttgcctgtggtgtaggaggttatgccactgattgagtag Alignment from Exonerate_protein2genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAA-ATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG aatcaaatctagggagcagtctacttatacaggcactggatattctgcagGTACGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGCATGACTGATGATCATGCCTGGTACCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAATGTGGGGACGAGGTTTTATATTGgtacaagatttttgcctgtggtgtaggaggttatgccactgattgagtag Alignment from Exonerate_coding2genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAA-ATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG aatcaaatctagggagcagtctacttatacaggcactggatattctgcagGTACGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGCATGACTGATGATCATGCCTGGTACCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAATGTGGGGACGAGGTTTTATATTGgtacaagatttttgcctgtggtgtaggaggttatgccactgattgagtag Alignment from GeneWise GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAG-GAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG aatcaaatctagggagcagtctacttatacaggcactggatattctgcagGTACGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGCATGACTGATGATCATGCCTGGTACCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAATGTGGGGACGAGGTTTTATATTGgtacaagatttttgcctgtggtgtaggaggttatgccactgattgagtag #### Naaladl1_ID1447_6 --> 1 - 2 Original Alignment tAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTAC-AAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGag aattggagctaatcacaaatcctgtcatcacgattgtctcttgtctgcagtAACCTCACAGGAACTTCTGCCCCTACTTTCTGGCAGAGAGCTCTAGGCTGTGAATATCAAGCTAGGTCCTGGGTTTGAGCCAAATGAAAGTTTCCCTGATGGAaggtgggtcacggagctgagtgcccttgagtgggcccccagaatcattgtcc Alignment from CESAR tAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTAC-AAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGag aattggagctaatcacaaatcctgtcatcacgattgtctcttgtctgcagtAACCTCACAGGAACTTCTGCCCCTACTTTCTGGCAGAGAGCTCTAGGCTGTGAATATCAAGCTAGGTCCTGGGTTTGAGCCAAATGAAAGTTTCCCTGATGGAaggtgggtcacggagctgagtgcccttgagtgggcccccagaatcattgtcc Alignment from Spaln_aa2Genome TAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTAC-AAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG aattggagctaatcacaaatcctgtcatcacgattgtctcttgtctgcagTAACCTCACAGGAACTTCTGCCCCTACTTTCTGGCAGAGAGCTCTAGGCTGTGAATATcAAGCTAGGTCCTGGGTTTGAGCCAAATGAAAGTTTCCCTGATGGAAGgtgggtcacggagctgagtgcccttgagtgggcccccagaatcattgtcc Alignment from Spaln_nt2Genome TAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTA-CAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG aattggagctaatcacaaatcctgtcatcacgattgtctcttgtctgcagTAACCTCACAGGAACTTCTGCCCCTACTTTCTGGCAGAGAGCTCTAGGCTGTGAATATCAAGCTAGGTCCTGGGTTTGAGCCAAATGAAAGTTTCCCTGATGGAAGgtgggtcacggagctgagtgcccttgagtgggcccccagaatcattgtcc Alignment from Pairagon TAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTA-CAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG aattggagctaatcacaaatcctgtcatcacgattgtctcttgtctgcagTAACCTCACAGGAACTTCTGCCCCTACTTTCTGGCAGAGAGCTCTAGGCTGTGAATATCAAGCTAGGTCCTGGGTTTGAGCCAAATGAAAGTTTCCCTGATGGAAGgtgggtcacggagctgagtgcccttgagtgggcccccagaatcattgtcc Alignment from Exonerate_protein2genome TAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTAC-AAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG aattggagctaatcacaaatcctgtcatcacgattgtctcttgtctgcagTAACCTCACAGGAACTTCTGCCCCTACTTTCTGGCAGAGAGCTCTAGGCTGTGAATATCAAGCTAGGTCCTGGGTTTGAGCCAAATGAAAGTTTCCCTGATGGAAGgtgggtcacggagctgagtgcccttgagtgggcccccagaatcattgtcc Alignment from Exonerate_coding2genome aattggagctaatcacaaatcctgtcatcacgattgtctcttgtctgcagtaacctcacaggaacttctgcccctactttctggcagagagctctaggctgtgaatatcaagctaggtcctgggtttgagccaaatgaaagtttccctgatggaaggtgggtcacggagctgagtgcccttgagtgggcccccagaatcattgtcc Alignment from GeneWise TAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTAC-AAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG aattggagctaatcacaaatcctgtcatcacgattgtctcttgtctgcagTAACCTCACAGGAACTTCTGCCCCTACTTTCTGGCAGAGAGCTCTAGGCTGTGAATATCAAGCTAGGTCCTGGGTTTGAGCCAAATGAAAGTTTCCCTGATGGAAGgtgggtcacggagctgagtgcccttgagtgggcccccagaatcattgtcc #### Naaladl1_ID1453_12 --> 0 - 2 Original Alignment ATCAGTGCACCAGGC-TCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCag taaattcgctagccattcaccagtggcacttctgcctttgtctcctgcagATCAGTGCACCAGGACTCCAGTGGTCTCAGGATCTATGATAATTGGATACGATATACTAACCGTGTGAGTCCAGTATACGGGCTAGTCCCAaggtgagttcagattaaggtccagggagactctttttacaacatgatctcat Alignment from CESAR ATCAGTGCACCAGGC-TCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCag taaattcgctagccattcaccagtggcacttctgcctttgtctcctgcagATCAGTGCACCAGGACTCCAGTGGTCTCAGGATCTATGATAATTGGATACGATATACTAACCGTGTGAGTCCAGTATACGGGCTAGTCCCAaggtgagttcagattaaggtccagggagactctttttacactaaccacattt Alignment from Spaln_aa2Genome TGCA------CCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG taaattcgctagccattcaccagtggcacttctgcctttgtctcctgcagATCAGTGCACCAGGACTCCAGTGGTCTCAGGATCTATGATAATTGGATACGATATACTAACCGTGTGAGTCCAGTATACGGGCTAGTCCCAAGgtgagttcagattaaggtccagggagactctttttacaacatgatctcat Alignment from Spaln_nt2Genome ATCAGTGCACCAGG-CTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG taaattcgctagccattcaccagtggcacttctgcctttgtctcctgcagATCAGTGCACCAGGACTCCAGTGGTCTCAGGATCTATGATAATTGGATACGATATACTAACCGTGTGAGTCCAGTATACGGGCTAGTCCCAAGgtgagttcagattaaggtccagggagactctttttacaacatgatctcat Alignment from Pairagon ATCAGTGCACCAGG-CTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG taaattcgctagccattcaccagtggcacttctgcctttgtctcctgcagATCAGTGCACCAGGACTCCAGTGGTCTCAGGATCTATGATAATTGGATACGATATACTAACCGTGTGAGTCCAGTATACGGGCTAGTCCCAAGgtgagttcagattaaggtccagggagactctttttacaacatgatctcat Alignment from Exonerate_protein2genome ATCAGTGCACCAGGC-TCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG taaattcgctagccattcaccagtggcacttctgcctttgtctcctgcagATCAGTGCACCAGGACTCCAGTGGTCTCAGGATCTATGATAATTGGATACGATATACTAACCGTGTGAGTCCAGTATACGGGCTAGTCCCAAGgtgagttcagattaaggtccagggagactctttttacaacatgatctcat Alignment from Exonerate_coding2genome taaattcgctagccattcaccagtggcacttctgcctttgtctcctgcagatcagtgcaccaggactccagtggtctcaggatctatgataattggatacgatatactaaccgtgtgagtccagtatacgggctagtcccaaggtgagttcagattaaggtccagggagactctttttacaacatgatctcat Alignment from GeneWise ATCAGTGCACCAGGC-TCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG taaattcgctagccattcaccagtggcacttctgcctttgtctcctgcagATCAGTGCACCAGGACTCCAGTGGTCTCAGGATCTATGATAATTGGATACGATATACTAACCGTGTGAGTCCAGTATACGGGCTAGTCCCAAGgtgagttcagattaaggtccagggagactctttttacaacatgatctcat #### Naaladl1_ID1456_15 --> 2 - 1 Original Alignment gtTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCT-GCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGg gg atgaaggtgaaacttggatttggcctctatcctgtgccttatttctgcaggcTTTAGTAGCCAGCAGGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCACGCGCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGggtgagtcccaacatcttgagactgtgatccaccatccttatcttccagga Alignment from CESAR gtTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCT-GCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGg gg atgaaggtgaaacttggatttggcctctatcctgtgccttatttctgcaggcTTTAGTAGCCAGCAGGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCACGCGCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGggtgagtcccaacatcttgagactgtggtttctgtgctcttccccgcagga Alignment from Spaln_aa2Genome GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCT-GCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG atgaaggtgaaacttggatttggcctctatcctgtgccttatttctgcagGCTTTAGTAGCCAGCAGGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAcGCGCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtgagtcccaacatcttgagactgtgatccaccatccttatcttccagGA Alignment from Spaln_nt2Genome GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCT-GCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG atgaaggtgaaacttggatttggcctctatcctgtgccttatttctgcagGCTTTAGTAGCCAGCAGGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCACGCGCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtgagtcccaacatcttgagactgtgatccaccatccttatcttccagGA Alignment from Pairagon GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGC-TGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG atgaaggtgaaacttggatttggcctctatcctgtgccttatttctgcagGCTTTAGTAGCCAGCAGGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCACGCGCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtgagtcccaacatcttgagactgtgatccaccatccttatcttccagGA Alignment from Exonerate_protein2genome GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCT-GCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG atgaaggtgaaacttggatttggcctctatcctgtgccttatttctgcagGCTTTAGTAGCCAGCAGGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCACGCGCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtgagtcccaacatcttgagactgtgatccaccatccttatcttccagGA Alignment from Exonerate_coding2genome atgaaggtgaaacttggatttggcctctatcctgtgccttatttctgcaggctttagtagccagcaggctgttgcccggactgctgggagtgtgcttctccagctcagtgatagcctcttcctgcccctaaatgttagtgactatagtgagaccttacaaagtttccttcaggcacgcgcaagaagccctaggtacccaattagaaaagcagaatgtaagcttgggtgagtcccaacatcttgagactgtgatccaccatccttatcttccagga Alignment from GeneWise GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAG-GCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTG------------------------------------------------GGG atgaaggtgaaacttggatttggcctctatcctgtgccttatttctgcagGCTTTAGTAGCCAGCAGGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCACGCGCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGGTGAGTCCCAACATCTTGAGACTGTGATCCACCATCCTTATCTTCCAGGA #### Naaladl1_ID1458_17 --> 1 - 2 Original Alignment tCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAG-GAGAGGCACTACag cagagatctagcccaatagaacagaacactgacaaatgtttctcttttagtCCTCTGCAGGTTCAGATGGTTAATGATCAACTAATGCTATTAGAGTGTGCATTTTTGAACCCTAGGGCATTCCCAGAGCGAGAGGCATTACaggtaagtccatgtaaattgagttgccgagtcccaggcttagaactagagtt Alignment from CESAR tCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAG-GAGAGGCACTACag cagagatctagcccaatagaacagaacactgacaaatgtttctcttttagtCCTCTGCAGGTTCAGATGGTTAATGATCAACTAATGCTATTAGAGTGTGCATTTTTGAACCCTAGGGCATTCCCAGAGCGAGAGGCATTACaggtaagtccatgtaaattgagttgccgagtcccaggcttagaactagagtt Alignment from Spaln_aa2Genome TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAG-GAGAGGCACTACAG cagagatctagcccaatagaacagaacactgacaaatgtttctcttttagTCCTCTGCAGGTTCAGATGGTTAATGATCAACTAATGCTATTAGAGTGTGCATTTTTGAACCCTAGGGCATTCCCAGAGcGAGAGGCATTACAGgtaagtccatgtaaattgagttgccgagtcccaggcttagaactagagtt Alignment from Spaln_nt2Genome TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAG-GAGAGGCACTACAG cagagatctagcccaatagaacagaacactgacaaatgtttctcttttagTCCTCTGCAGGTTCAGATGGTTAATGATCAACTAATGCTATTAGAGTGTGCATTTTTGAACCCTAGGGCATTCCCAGAGCGAGAGGCATTACAGgtaagtccatgtaaattgagttgccgagtcccaggcttagaactagagtt Alignment from Pairagon TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAG-GAGAGGCACTACAG cagagatctagcccaatagaacagaacactgacaaatgtttctcttttagTCCTCTGCAGGTTCAGATGGTTAATGATCAACTAATGCTATTAGAGTGTGCATTTTTGAACCCTAGGGCATTCCCAGAGCGAGAGGCATTACAGgtaagtccatgtaaattgagttgccgagtcccaggcttagaactagagtt Alignment from Exonerate_protein2genome TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAG-GAGAGGCACTACAG cagagatctagcccaatagaacagaacactgacaaatgtttctcttttagTCCTCTGCAGGTTCAGATGGTTAATGATCAACTAATGCTATTAGAGTGTGCATTTTTGAACCCTAGGGCATTCCCAGAGCGAGAGGCATTACAGgtaagtccatgtaaattgagttgccgagtcccaggcttagaactagagtt Alignment from Exonerate_coding2genome TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAG-GAGAGGCACTACAG cagagatctagcccaatagaacagaacactgacaaatgtttctcttttagTCCTCTGCAGGTTCAGATGGTTAATGATCAACTAATGCTATTAGAGTGTGCATTTTTGAACCCTAGGGCATTCCCAGAGCGAGAGGCATTACAGgtaagtccatgtaaattgagttgccgagtcccaggcttagaactagagtt Alignment from GeneWise TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAGCCAC cagagatctagcccaatagaacagaacactgacaaatgtttctcttttagTCCTCTGCAGGTTCAGATGGTTAATGATCAACTAATGCTATTAGAGTGTGCATTTTTGAACCCTAGGGCATTCCCAGAG---CGAGAGGCATTACAGgtaagtccatgtaaattgagttgccgagtcccaggcttagaactagagtt #### Ndufs8_ID193_3 --> 2 - 1 Original Alignment agTATGTGAATAAGAAG-GAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATT---CTGATGTGGACAGAACTCATCCGAg gattctaacgattaatctccttgttgctaccctactcactgtccttacagagTATGTAAACAAAAAACGAGCAAGAGGCAGAAGTAGACATGAAGGCAGGT---GACAATGCTGCACAGATTCTGATGATGTGGACAGAAATAATCCGGggtaaagtccaatgcaggatcgtaaggtgaaaatttaagactagtctggtg Alignment from CESAR agTATGTGAATAAGAAG-GAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTG---ATGTGGACAGAACTCATCCGAg gattctaacgattaatctccttgttgctaccctactcactgtccttacagagTATGTAAACAAAAAACGAGCAAGAGGCAGAAGTAGACATGAAG---GCAGGTGACAATGCTGCACAGATTCTGATGATGTGGACAGAAATAATCCGGggtaaagtccaatgcaggatcgtaaggtgaaaatttaagactagtctggtg Alignment from Spaln_aa2Genome AGTATGTGAATAAGAAG-GAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTGATGTGGACAGAACTCATCCGAG gattctaacgattaatctccttgttgctaccctactcactgtccttacagAGTATGTAAACAAAAAAcGAGCAAGAGGCAGAAGTAGACATGAAGGCAGGTGACAATGCTGCACAGATTCTGATGATGTGGACAGAAATAATCCGGGgtaaagtccaatgcaggatcgtaaggtgaaaatttaagactagtctggtg Alignment from Spaln_nt2Genome AGTATGTGAATAAGAAG-GAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTGATG---TGGACAGAACTCATCCGAG gattctaacgattaatctccttgttgctaccctactcactgtccttacagAGTATGTAAACAAAAAACGAGCAAGAGGCAGAAGTAGACATGAAG---GCAGGTGACAATGCTGCACAGATTCTGATGATGTGGACAGAAATAATCCGGGgtaaagtccaatgcaggatcgtaaggtgaaaatttaagactagtctggtg Alignment from Pairagon AGTATGTGAATAAGAAG-GAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTC---TGATGTGGACAGAACTCATCCGAG gattctaacgattaatctccttgttgctaccctactcactgtccttacagAGTATGTAAACAAAAAACGAGCAAGAGGCAGAAGTAGACATGAAG---GCAGGTGACAATGCTGCACAGATTCTGATGATGTGGACAGAAATAATCCGGGgtaaagtccaatgcaggatcgtaaggtgaaaatttaagactagtctggtg Alignment from Exonerate_protein2genome AGTATGTGAATAAGAAG-GAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTGATGTGGACAGAACTCATCCGAG gattctaacgattaatctccttgttgctaccctactcactgtccttacagAGTATGTAAACAAAAAACGAGCAAGAGGCAGAAGTAGACATGAAGGCAGGTGACAATGCTGCACAGATTCTGATGATGTGGACAGAAATAATCCGGGgtaaagtccaatgcaggatcgtaaggtgaaaatttaagactagtctggtg Alignment from Exonerate_coding2genome AGTATGTGAATAAGAAG-GAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTGATGTGGACAGAACTCATCCGAG gattctaacgattaatctccttgttgctaccctactcactgtccttacagAGTATGTAAACAAAAAACGAGCAAGAGGCAGAAGTAGACATGAAGGCAGGTGACAATGCTGCACAGATTCTGATGATGTGGACAGAAATAATCCGGGgtaaagtccaatgcaggatcgtaaggtgaaaatttaagactagtctggtg Alignment from GeneWise AGTATGTGAATAAG-AAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTGATG---TGGACAGAACTCATCCGAG gattctaacgattaatctccttgttgctaccctactcactgtccttacagAGTATGTAAACAAAAAACGAGCAAGAGGCAGAAGTAGACATGAAG---GCAGGTGACAATGCTGCACAGATTCTGATGATGTGGACAGAAATAATCCGGGgtaaagtccaatgcaggatcgtaaggtgaaaatttaagactagtctggtg #### Ndufv1_ID275_7 --> 2 - 0 Original Alignment gtGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTC-GATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaacacttacattatgtgtactctcttttataggtGGTGTCACAGGTGGCTGGGACAATCTGCTTGCTGTGACACCAGGTGGATCATCC---ACATTAATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTCGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTAATC---ATGGATCGTCTGgtaagtggtcataaacaccctcatacttgtcactatggtgtgtgtttttc Alignment from CESAR gtGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGAC-TTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaacacttacattatgtgtactctcttttataggtGGTGTCACAGGTGGCTGGGACAATCTGCTTGCTGTGACACCAGGTGGATCATCCACA---TTAATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTCGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTAATC---ATGGATCGTCTGgtaagtggtcataaacaccctcatacttgtcactatggtgtgtgtttttc Alignment from Spaln_aa2Genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGAC-TTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaacacttacattatgtgtactctcttttatagGTGGTGTCACAGGTGGCTGGGACAATCTGCTTGCTGTGACACCAGGTGGATCATCCACA---TTAATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATtTTCGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTAATC---ATGGATCGTCTGgtaagtggtcataaacaccctcatacttgtcactatggtgtgtgtttttc Alignment from Spaln_nt2Genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACT-TCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaacacttacattatgtgtactctcttttatagGTGGTGTCACAGGTGGCTGGGACAATCTGCTTGCTGTGACACCAGGTGGATCATCCA---CATTAATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTCGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTAA---TCATGGATCGTCTGgtaagtggtcataaacaccctcatacttgtcactatggtgtgtgtttttc Alignment from Pairagon GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGA-CTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaacacttacattatgtgtactctcttttatagGTGGTGTCACAGGTGGCTGGGACAATCTGCTTGCTGTGACACCAGGTGGATCATCCA---CATTAATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTCGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTAA---TCATGGATCGTCTGgtaagtggtcataaacaccctcatacttgtcactatggtgtgtgtttttc Alignment from Exonerate_protein2genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGAC-TTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaacacttacattatgtgtactctcttttatagGTGGTGTCACAGGTGGCTGGGACAATCTGCTTGCTGTGACACCAGGTGGATCATCCACA---TTAATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTCGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTAATC---ATGGATCGTCTGgtaagtggtcataaacaccctcatacttgtcactatggtgtgtgtttttc Alignment from Exonerate_coding2genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGAC-TTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaacacttacattatgtgtactctcttttatagGTGGTGTCACAGGTGGCTGGGACAATCTGCTTGCTGTGACACCAGGTGGATCATCCACA---TTAATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTCGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTAATC---ATGGATCGTCTGgtaagtggtcataaacaccctcatacttgtcactatggtgtgtgtttttc Alignment from GeneWise GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATG-GACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaacacttacattatgtgtactctcttttatagGTGGTGTCACAGGTGGCTGGGACAATCTGCTTGCTGTGACACCAGGTGGATCATCCACA---TTAATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTCGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTAATC---ATGGATCGTCTGgtaagtggtcataaacaccctcatacttgtcactatggtgtgtgtttttc #### Nfkb2_ID9825_3 --> 2 - 0 Original Alignment ctGATGGCCCCTATCTGGTG-ATTGTGGAACAGCCCAAACAG ctgcttttgggattaataaaagggggtactgtgttttgctgtgtcctcagctGATGGCCCCTATCTTGTGCATTGTGGAACAAACGAAACAGgtcagtgtacaataaaacaataagacaataaaacaataagaaaatgtgtg Alignment from CESAR ctGATGGCCCCTATCTGGTG-ATTGTGGAACAGCCCAAACAG ctgcttttgggattaataaaagggggtactgtgttttgctgtgtcctcagctGATGGCCCCTATCTTGTGCATTGTGGAACAAACGAAACAGgtcagtgtacaataaaacaataagacaataaaacaataagaaaatgtgtg Alignment from Spaln_aa2Genome CTGATGGCCCCTATCTGGTG-ATTGTGGAACAGCCCAAACAG ctgcttttgggattaataaaagggggtactgtgttttgctgtgtcctcagCTGATGGCCCCTATCTTGTGcATTGTGGAACAAACGAAACAGgtcagtgtacaataaaacaataagacaataaaacaataagaaaatgtgtg Alignment from Spaln_nt2Genome CTGATGGCCCCTATCTGGTG-ATTGTGGAACAGCCCAAACAG ctgcttttgggattaataaaagggggtactgtgttttgctgtgtcctcagCTGATGGCCCCTATCTTGTGCATTGTGGAACAAACGAAACAGgtcagtgtacaataaaacaataagacaataaaacaataagaaaatgtgtg Alignment from Pairagon CTGATGGCCCCTATCTGGTG-ATTGTGGAACAGCCCAAACAG ctgcttttgggattaataaaagggggtactgtgttttgctgtgtcctcagCTGATGGCCCCTATCTTGTGCATTGTGGAACAAACGAAACAGgtcagtgtacaataaaacaataagacaataaaacaataagaaaatgtgtg Alignment from Exonerate_protein2genome CTGATGGCCCCTATCTGGTG-ATTGTGGAACAGCCCAAACAG ctgcttttgggattaataaaagggggtactgtgttttgctgtgtcctcagCTGATGGCCCCTATCTTGTGCATTGTGGAACAAACGAAACAGgtcagtgtacaataaaacaataagacaataaaacaataagaaaatgtgtg Alignment from Exonerate_coding2genome ctgcttttgggattaataaaagggggtactgtgttttgctgtgtcctcagctgatggcccctatcttgtgcattgtggaacaaacgaaacaggtcagtgtacaataaaacaataagacaataaaacaataagaaaatgtgtg Alignment from GeneWise ctgcttttgggattaataaaagggggtactgtgttttgctgtgtcctcagctgatggcccctatcttgtgcattgtggaacaaacgaaacaggtcagtgtacaataaaacaataagacaataaaacaataagaaaatgtgtg #### Nfkb2_ID9829_7 --> 2 - 1 Original Alignment agGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCC-CTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCa agggcaatttattacttgccctacccataacttattctttctttttttagagGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATTTGAGCATTGTACGGCTACGCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCCTAAAGCCTGTAATCTCTCAACCAATCCATGATAGCagtgagtctgcacaaacataagcgataagatttcaggtaaaagatcggttt Alignment from CESAR agGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCC-CTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCa agggcaatttattacttgccctacccataacttattctttctttttttagagGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATTTGAGCATTGTACGGCTACGCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCCTAAAGCCTGTAATCTCTCAACCAATCCATGATAGCagtgagtctgcacaaacataagcgataagatttcaggtaaaagatcggttt Alignment from Spaln_aa2Genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTG-CCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA agggcaatttattacttgccctacccataacttattctttctttttttagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATTTGAGCATTGTACGGCTACGCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTAcCCCCTAAAGCCTGTAATCTCTCAACCAATCCATGATAGCAgtgagtctgcacaaacataagcgataagatttcaggtaaaagatcggttt Alignment from Spaln_nt2Genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCC-TGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA agggcaatttattacttgccctacccataacttattctttctttttttagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATTTGAGCATTGTACGGCTACGCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCCTAAAGCCTGTAATCTCTCAACCAATCCATGATAGCAgtgagtctgcacaaacataagcgataagatttcaggtaaaagatcggttt Alignment from Pairagon AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTG-CCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA agggcaatttattacttgccctacccataacttattctttctttttttagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATTTGAGCATTGTACGGCTACGCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCCTAAAGCCTGTAATCTCTCAACCAATCCATGATAGCAgtgagtctgcacaaacataagcgataagatttcaggtaaaagatcggttt Alignment from Exonerate_protein2genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTG-CCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA agggcaatttattacttgccctacccataacttattctttctttttttagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATTTGAGCATTGTACGGCTACGCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCCTAAAGCCTGTAATCTCTCAACCAATCCATGATAGCAgtgagtctgcacaaacataagcgataagatttcaggtaaaagatcggttt Alignment from Exonerate_coding2genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTG-CCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA agggcaatttattacttgccctacccataacttattctttctttttttagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATTTGAGCATTGTACGGCTACGCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCCTAAAGCCTGTAATCTCTCAACCAATCCATGATAGCAgtgagtctgcacaaacataagcgataagatttcaggtaaaagatcggttt Alignment from GeneWise AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCC-TTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA agggcaatttattacttgccctacccataacttattctttctttttttagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATTTGAGCATTGTACGGCTACGCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCCTAAAGCCTGTAATCTCTCAACCAATCCATGATAGCAgtgagtctgcacaaacataagcgataagatttcaggtaaaagatcggttt #### Nfkb2_ID9830_8 --> 2 - 1 Original Alignment agTCTCCAGGGGCCTCGAACCTGAAGATCTCC-CGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAg agattgtcacctgcaagtcaatcaagctctcactgtctctttggttgcagaaTCTTCAGGGGCCTTGAATTTGAAGATCTCTCGAGATGGATAAGGCAGCTGGGTCAGTGCAGGGGGGAGATGAGGTTTATTTGCTCTGTGAGAGGGTGCAAAGGggtcagtgcgtgtctaggcaagttctattttggcaggctgtaatggtgaaa Alignment from CESAR agTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGA-ATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAg agattgtcacctgcaagtcaatcaagctctcactgtctctttggttgcagaaTCTTCAGGGGCCTTGAATTTGAAGATCTCTCGAGATGGATAAGGCAGCTGGGTCAGTGCAGGGGGGAGATGAGGTTTATTTGCTCTGTGAGAGGGTGCAAAGGggtcagtgcgtgtctaggcaagttctattttggcaggctgtaatggtgaaa Alignment from Spaln_aa2Genome AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGA-ATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG agattgtcacctgcaagtcaatcaagctctcactgtctctttggttgcagAATCTTCAGGGGCCTTGAATTTGAAGATCTCTCGAgATGGATAAGGCAGCTGGGTCAGTGCAGGGGGGAGATGAGGTTTATTTGCTCTGTGAGAGGGTGCAAAGGGgtcagtgcgtgtctaggcaagttctattttggcaggctgtaatggtgaaa Alignment from Spaln_nt2Genome AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGA-ATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG agattgtcacctgcaagtcaatcaagctctcactgtctctttggttgcagAATCTTCAGGGGCCTTGAATTTGAAGATCTCTCGAGATGGATAAGGCAGCTGGGTCAGTGCAGGGGGGAGATGAGGTTTATTTGCTCTGTGAGAGGGTGCAAAGGGgtcagtgcgtgtctaggcaagttctattttggcaggctgtaatggtgaaa Alignment from Pairagon AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGA-ATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG agattgtcacctgcaagtcaatcaagctctcactgtctctttggttgcagAATCTTCAGGGGCCTTGAATTTGAAGATCTCTCGAGATGGATAAGGCAGCTGGGTCAGTGCAGGGGGGAGATGAGGTTTATTTGCTCTGTGAGAGGGTGCAAAGGGgtcagtgcgtgtctaggcaagttctattttggcaggctgtaatggtgaaa Alignment from Exonerate_protein2genome AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGA-ATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG agattgtcacctgcaagtcaatcaagctctcactgtctctttggttgcagAATCTTCAGGGGCCTTGAATTTGAAGATCTCTCGAGATGGATAAGGCAGCTGGGTCAGTGCAGGGGGGAGATGAGGTTTATTTGCTCTGTGAGAGGGTGCAAAGGGgtcagtgcgtgtctaggcaagttctattttggcaggctgtaatggtgaaa Alignment from Exonerate_coding2genome AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGA-ATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG agattgtcacctgcaagtcaatcaagctctcactgtctctttggttgcagAATCTTCAGGGGCCTTGAATTTGAAGATCTCTCGAGATGGATAAGGCAGCTGGGTCAGTGCAGGGGGGAGATGAGGTTTATTTGCTCTGTGAGAGGGTGCAAAGGGgtcagtgcgtgtctaggcaagttctattttggcaggctgtaatggtgaaa Alignment from GeneWise AGTCTCCAGGGGCCTCGAACCTGAAGATCTCC-CGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG agattgtcacctgcaagtcaatcaagctctcactgtctctttggttgcagAATCTTCAGGGGCCTTGAATTTGAAGATCTCTCGAGATGGATAAGGCAGCTGGGTCAGTGCAGGGGGGAGATGAGGTTTATTTGCTCTGTGAGAGGGTGCAAAGGGgtcagtgcgtgtctaggcaagttctattttggcaggctgtaatggtgaaa #### Nfkb2_ID9834_12 --> 2 - 1 Original Alignment gtGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGT-GGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAg tattgcctttgtaaggaccctgataagacactgttgtgtgtttccttcaggtGGAAGCCTTGGTTTTTTATCCCCCCCTTTGGCCTATAATCCCTATCAACCAGGTGCTTCCCCCATGGGTTATTATCTGGGTCGGGGGGGGTGGAACACAAATGGCCGGTTCTAGACGTGACACTGATGCTGGTGAAGGTCCTAAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACACTGCATCGAagtaagtgttggcacgaattcacacatgctattgaaagtgcaacgcaggat Alignment from CESAR gtGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGT-GGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAg tattgcctttgtaaggaccctgataagacactgttgtgtgtttccttcaggtGGAAGCCTTGGTTTTTTATCCCCCCCTTTGGCCTATAATCCCTATCAACCAGGTGCTTCCCCCATGGGTTATTATCTGGGTCGGGGGGGGTGGAACACAAATGGCCGGTTCTAGACGTGACACTGATGCTGGTGAAGGTCCTAAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACACTGCATCGAagtaagtgttggcacgaattcacacatgctattgaaagtgcaacgcaggat Alignment from Spaln_aa2Genome GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGT-GGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctttgtaaggaccctgataagacactgttgtgtgtttccttcagGTGGAAGCCTTGGTTTTTTATCCCCCCCTTTGGCCTATAATCCCTATCAACCAGGTGCTTCCCCCATGGGTTATTATCTGGGTcGGGGGGGGTGGAACACAAATGGCCGGTTCTAGACGTGACACTGATGCTGGTGAAGGTCCTAAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACACTGCATCGAAgtaagtgttggcacgaattcacacatgctattgaaagtgcaacgcaggat Alignment from Spaln_nt2Genome GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGT-GGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctttgtaaggaccctgataagacactgttgtgtgtttccttcagGTGGAAGCCTTGGTTTTTTATCCCCCCCTTTGGCCTATAATCCCTATCAACCAGGTGCTTCCCCCATGGGTTATTATCTGGGTCGGGGGGGGTGGAACACAAATGGCCGGTTCTAGACGTGACACTGATGCTGGTGAAGGTCCTAAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACACTGCATCGAAgtaagtgttggcacgaattcacacatgctattgaaagtgcaacgcaggat Alignment from Pairagon GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGT-GGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctttgtaaggaccctgataagacactgttgtgtgtttccttcagGTGGAAGCCTTGGTTTTTTATCCCCCCCTTTGGCCTATAATCCCTATCAACCAGGTGCTTCCCCCATGGGTTATTATCTGGGTCGGGGGGGGTGGAACACAAATGGCCGGTTCTAGACGTGACACTGATGCTGGTGAAGGTCCTAAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACACTGCATCGAAgtaagtgttggcacgaattcacacatgctattgaaagtgcaacgcaggat Alignment from Exonerate_protein2genome GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGT-GGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctttgtaaggaccctgataagacactgttgtgtgtttccttcagGTGGAAGCCTTGGTTTTTTATCCCCCCCTTTGGCCTATAATCCCTATCAACCAGGTGCTTCCCCCATGGGTTATTATCTGGGTCGGGGGGGGTGGAACACAAATGGCCGGTTCTAGACGTGACACTGATGCTGGTGAAGGTCCTAAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACACTGCATCGAAgtaagtgttggcacgaattcacacatgctattgaaagtgcaacgcaggat Alignment from Exonerate_coding2genome GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGT-GGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctttgtaaggaccctgataagacactgttgtgtgtttccttcagGTGGAAGCCTTGGTTTTTTATCCCCCCCTTTGGCCTATAATCCCTATCAACCAGGTGCTTCCCCCATGGGTTATTATCTGGGTCGGGGGGGGTGGAACACAAATGGCCGGTTCTAGACGTGACACTGATGCTGGTGAAGGTCCTAAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACACTGCATCGAAgtaagtgttggcacgaattcacacatgctattgaaagtgcaacgcaggat Alignment from GeneWise GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGT-GGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctttgtaaggaccctgataagacactgttgtgtgtttccttcagGTGGAAGCCTTGGTTTTTTATCCCCCCCTTTGGCCTATAATCCCTATCAACCAGGTGCTTCCCCCATGGGTTATTATCTGGGTCGGGGGGGGTGGAACACAAATGGCCGGTTCTAGACGTGACACTGATGCTGGTGAAGGTCCTAAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACACTGCATCGAAgtaagtgttggcacgaattcacacatgctattgaaagtgcaacgcaggat #### Nfkb2_ID9838_16 --> 2 - 0 Original Alignment gaCTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATG-GAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG tcagagtagccacttaggatgattaccaaagttatttcttgtctttttaggaCTATACCCTGTGCACCTGGCAGTACATGCACAAAGCCCTAAATGTCTGGATCTTTTAGTTGATTGTGGAGCAGTTGTGGAGGCTCCAGGGAGGCAAGGGAGCCGTAATGCCCTGCACCTGGCAACAGAGATGCGAAGAATTGGGGTTA---GCCCATTTGGTCACCAAGgtaggcatactgtttagactaaaaatcgtgataaaatgatatatgctgag Alignment from CESAR gaCTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATG-GAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG tcagagtagccacttaggatgattaccaaagttatttcttgtctttttaggaCTATACCCTGTGCACCTGGCAGTACATGCACAAAGCCCTAAATGTCTGGATCTTTTAGTTGATTGTGGAGCAGTTGTGGAGGCTCCAGGGAGGCAAGGGAGCCGTAATGCCCTGCACCTGGCAACAGAGATGCGAAGAATTGGGGTTA---GCCCATTTGGTCACCAAGgtaggcatactgtttagactaaaaatcgtgataaaatgatatatgctgag Alignment from Spaln_aa2Genome GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATG-GAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG tcagagtagccacttaggatgattaccaaagttatttcttgtctttttagGACTATACCCTGTGCACCTGGCAGTACATGCACAAAGCCCTAAATGTCTGGATCTTTTAGTTGATTGTGGAGCAGTTGTGGAGGCTCCAGGGAGGCAAGGGAGCCGTAATGCCCTGCACCTGGCAACAGAGATGcGAAGAATTGGGGTTA---GCCCATTTGGTCACCAAGgtaggcatactgtttagactaaaaatcgtgataaaatgatatatgctgag Alignment from Spaln_nt2Genome GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATG-GAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG tcagagtagccacttaggatgattaccaaagttatttcttgtctttttagGACTATACCCTGTGCACCTGGCAGTACATGCACAAAGCCCTAAATGTCTGGATCTTTTAGTTGATTGTGGAGCAGTTGTGGAGGCTCCAGGGAGGCAAGGGAGCCGTAATGCCCTGCACCTGGCAACAGAGATGCGAAGAATTGGGGTTAG---CCCATTTGGTCACCAAGgtaggcatactgtttagactaaaaatcgtgataaaatgatatatgctgag Alignment from Pairagon GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATG-GAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG tcagagtagccacttaggatgattaccaaagttatttcttgtctttttagGACTATACCCTGTGCACCTGGCAGTACATGCACAAAGCCCTAAATGTCTGGATCTTTTAGTTGATTGTGGAGCAGTTGTGGAGGCTCCAGGGAGGCAAGGGAGCCGTAATGCCCTGCACCTGGCAACAGAGATGCGAAGAATTGGGGTTAG---CCCATTTGGTCACCAAGgtaggcatactgtttagactaaaaatcgtgataaaatgatatatgctgag Alignment from Exonerate_protein2genome GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATG-GAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG tcagagtagccacttaggatgattaccaaagttatttcttgtctttttagGACTATACCCTGTGCACCTGGCAGTACATGCACAAAGCCCTAAATGTCTGGATCTTTTAGTTGATTGTGGAGCAGTTGTGGAGGCTCCAGGGAGGCAAGGGAGCCGTAATGCCCTGCACCTGGCAACAGAGATGCGAAGAATTGGGGTTA---GCCCATTTGGTCACCAAGgtaggcatactgtttagactaaaaatcgtgataaaatgatatatgctgag Alignment from Exonerate_coding2genome GGGACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATG-GAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG tcagagtagccacttaggatgattaccaaagttatttcttgtctttttAGGACTATACCCTGTGCACCTGGCAGTACATGCACAAAGCCCTAAATGTCTGGATCTTTTAGTTGATTGTGGAGCAGTTGTGGAGGCTCCAGGGAGGCAAGGGAGCCGTAATGCCCTGCACCTGGCAACAGAGATGCGAAGAATTGGGGTTA---GCCCATTTGGTCACCAAGgtaggcatactgtttagactaaaaatcgtgataaaatgatatatgctgag Alignment from GeneWise GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG tcagagtagccacttaggatgattaccaaagttatttcttgtctttttagGACTATACCCTGTGCACCTGGCAGTACATGCACAAAGCCCTAAATGTCTGGATCTTTTAGTTGATTGTGGAGCAGTTGTGGAGGCTCCAGGGAGGCAAGGGAGCCGTAATGCCCTGCACCTGGCAACAGAGATGCGAAGAATTGGGGTTA--GCCCATTTGGTCACCAAGgtaggcatactgtttagactaaaaatcgtgataaaatgatatatgctgag #### Nfkb2_ID9840_18 --> 2 - 0 Original Alignment gtGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGC-GACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtaatctttcaaaaactctattgtgtttttgcaggtGCTGACACCCATACAGAGAATGAAGAGCCACTGTGTCCTTTGCCATCTCCCTCAACTTCTGGGAGTCGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCACGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgtgactgttccgaaaggactcaggtggttgta Alignment from CESAR gtGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGC-GACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtaatctttcaaaaactctattgtgtttttgcaggtGCTGACACCCATACAGAGAATGAAGAGCCACTGTGTCCTTTGCCATCTCCCTCAACTTCTGGGAGTCGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCACGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgtgactgttccgaaaggactcaggtggttgta Alignment from Spaln_aa2Genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGC-GACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtaatctttcaaaaactctattgtgtttttgcagGTGCTGACACCCATACAGAGAATGAAGAGCCACTGTGTCCTTTGCCATCTCCCTCAACTTCTGGGAGTcGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCACGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgtgactgttccgaaaggactcaggtggttgta Alignment from Spaln_nt2Genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAG-CGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtaatctttcaaaaactctattgtgtttttgcagGTGCTGACACCCATACAGAGAATGAAGAGCCACTGTGTCCTTTGCCATCTCCCTCAACTTCTGGGAGTCGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCACGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgtgactgttccgaaaggactcaggtggttgta Alignment from Pairagon GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAG-CGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtaatctttcaaaaactctattgtgtttttgcagGTGCTGACACCCATACAGAGAATGAAGAGCCACTGTGTCCTTTGCCATCTCCCTCAACTTCTGGGAGTCGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCACGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgtgactgttccgaaaggactcaggtggttgta Alignment from Exonerate_protein2genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGC-GACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtaatctttcaaaaactctattgtgtttttgcagGTGCTGACACCCATACAGAGAATGAAGAGCCACTGTGTCCTTTGCCATCTCCCTCAACTTCTGGGAGTCGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCACGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgtgactgttccgaaaggactcaggtggttgta Alignment from Exonerate_coding2genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGC-GACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtaatctttcaaaaactctattgtgtttttgcagGTGCTGACACCCATACAGAGAATGAAGAGCCACTGTGTCCTTTGCCATCTCCCTCAACTTCTGGGAGTCGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCACGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgtgactgttccgaaaggactcaggtggttgta Alignment from GeneWise GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGG-AGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtaatctttcaaaaactctattgtgtttttgcagGTGCTGACACCCATACAGAGAATGAAGAGCCACTGTGTCCTTTGCCATCTCCCTCAACTTCTGGGAGTCGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCACGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgtgactgttccgaaaggactcaggtggttgta #### Nfkb2_ID9842_20 --> 2 - 0 Original Alignment ggCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAG-CAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG aggtctaggcttctgcacctaagcactgcccgtttctgttcctgtttcagagCCAGGCCTGTCCCTGGGAGATACAGCCCTCCAAAACTTGCAGCCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCTGAGCGTCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtgaggtaggtggactgctggggcctgaactactcttagtcttcagcact Alignment from CESAR ggCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAG-CAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG aggtctaggcttctgcacctaagcactgcccgtttctgttcctgtttcagagCCAGGCCTGTCCCTGGGAGATACAGCCCTCCAAAACTTGCAGCCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCTGAGCGTCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtgaggtaggtggactgctggggcctgaactactcttagtcttcagcact Alignment from Spaln_aa2Genome GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAG-CAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG aggtctaggcttctgcacctaagcactgcccgtttctgttcctgtttcagAGCCAGGCCTGTCCCTGGGAGATACAGCCCTCCAAAACTTGCAGcCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCTGAGCGTCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtgaggtaggtggactgctggggcctgaactactcttagtcttcagcact Alignment from Spaln_nt2Genome GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGC-AACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG aggtctaggcttctgcacctaagcactgcccgtttctgttcctgtttcagAGCCAGGCCTGTCCCTGGGAGATACAGCCCTCCAAAACTTGCAGCCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCTGAGCGTCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtgaggtaggtggactgctggggcctgaactactcttagtcttcagcact Alignment from Pairagon GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAG-CAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG aggtctaggcttctgcacctaagcactgcccgtttctgttcctgtttcagAGCCAGGCCTGTCCCTGGGAGATACAGCCCTCCAAAACTTGCAGCCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCTGAGCGTCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtgaggtaggtggactgctggggcctgaactactcttagtcttcagcact Alignment from Exonerate_protein2genome GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAG-CAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG aggtctaggcttctgcacctaagcactgcccgtttctgttcctgtttcagAGCCAGGCCTGTCCCTGGGAGATACAGCCCTCCAAAACTTGCAGCCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCTGAGCGTCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtgaggtaggtggactgctggggcctgaactactcttagtcttcagcact Alignment from Exonerate_coding2genome TGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAGGGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAG-CAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG TCTAGGCTTCTGCACCTAAGCACTGCCCGTTTCTGTTCCT---GTTTCAGAGCCAGGCCTGTCCCTGGGAGATACAGCCCTCCAAAACTTGCAGCCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCTGAGCGTCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtgaggtaggtggactgctggggcctgaactactcttagtcttcagcact Alignment from GeneWise GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTG-GAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG aggtctaggcttctgcacctaagcactgcccgtttctgttcctgtttcagAGCCAGGCCTGTCCCTGGGAGATACAGCCCTCCAAAACTTGCAGCCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCTGAGCGTCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtgaggtaggtggactgctggggcctgaactactcttagtcttcagcact #### Noc3l_ID7658_17 --> 2 - 0 Original Alignment gtGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGC-AAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT attttaccaatgaacaccttagatgaatacattcttaacactgatgttaggcACCACTAATGATGGCATAGAGATCGTACTCCACTGCTTGGATGTCATGGTTAGCCAAATGCAGAAAGCATGTCTCT---CAGAGGGCTATTGCCTTCATCAAGCATCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTCTACCAACCACAAGGGTACTGATGCATgtaaactcaagggacttgaggtggtgcaggtcaatcaggctacagtctag Alignment from CESAR gtGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGC-AAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT attttaccaatgaacaccttagatgaatacattcttaacactgatgttaggcACCACTAATGATGGCATAGAGATCGTACTCCACTGCTTGGATGTCATGGTTAGCCAAATGCAGAAAGCATGTCTCT---CAGAGGGCTATTGCCTTCATCAAGCATCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTCTACCAACCACAAGGGTACTGATGCATgtaaactcaagggacttgaggtggtgcaggtcaatcaggctacagtctag Alignment from Spaln_aa2Genome GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATG-CTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT attttaccaatgaacaccttagatgaatacattcttaacactgatgttagGCACCACTAATGATGGCATAGAGATCGTACTCCACTGCTTGGATGTCATGgTTAGCCAAATGCAGAAAGCATGTCTCT---CAGAGGGCTATTGCCTTCATCAAGCATCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTCTACCAACCACAAGGGTACTGATGCATgtaaactcaagggacttgaggtggtgcaggtcaatcaggctacagtctag Alignment from Spaln_nt2Genome GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGC-AAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT attttaccaatgaacaccttagatgaatacattcttaacactgatgttagGCACCACTAATGATGGCATAGAGATCGTACTCCACTGCTTGGATGTCATGGTTAGCCAAATGCAGAAAGCATGTCTC---TCAGAGGGCTATTGCCTTCATCAAGCATCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTCTACCAACCACAAGGGTACTGATGCATgtaaactcaagggacttgaggtggtgcaggtcaatcaggctacagtctag Alignment from Pairagon GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAG-CAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT attttaccaatgaacaccttagatgaatacattcttaacactgatgttagGCACCACTAATGATGGCATAGAGATCGTACTCCACTGCTTGGATGTCATGGTTAGCCAAATGCAGAAAGCATGTCTC---TCAGAGGGCTATTGCCTTCATCAAGCATCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTCTACCAACCACAAGGGTACTGATGCATgtaaactcaagggacttgaggtggtgcaggtcaatcaggctacagtctag Alignment from Exonerate_protein2genome GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATG-CTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT attttaccaatgaacaccttagatgaatacattcttaacactgatgttagGCACCACTAATGATGGCATAGAGATCGTACTCCACTGCTTGGATGTCATGGTTAGCCAAATGCAGAAAGCATGTCTCT---CAGAGGGCTATTGCCTTCATCAAGCATCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTCTACCAACCACAAGGGTACTGATGCATgtaaactcaagggacttgaggtggtgcaggtcaatcaggctacagtctag Alignment from Exonerate_coding2genome GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATG-CTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT attttaccaatgaacaccttagatgaatacattcttaacactgatgttagGCACCACTAATGATGGCATAGAGATCGTACTCCACTGCTTGGATGTCATGGTTAGCCAAATGCAGAAAGCATGTCTCT---CAGAGGGCTATTGCCTTCATCAAGCATCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTCTACCAACCACAAGGGTACTGATGCATgtaaactcaagggacttgaggtggtgcaggtcaatcaggctacagtctag Alignment from GeneWise GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAG-CGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT attttaccaatgaacaccttagatgaatacattcttaacactgatgttagGCACCACTAATGATGGCATAGAGATCGTACTCCACTGCTTGGATGTCATGGTTAGCCAAATGCAGAAAGCATGTCTCT---CAGAGGGCTATTGCCTTCATCAAGCATCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTCTACCAACCACAAGGGTACTGATGCATgtaaactcaagggacttgaggtggtgcaggtcaatcaggctacagtctag #### Npm3_ID9576_4 --> 0 - 1 Original Alignment CTCAGTGTGGATGATTTCCAA-CTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCg tgatcgttgatacccattaaaaagtactttacctctgctgtatctctcagCTTGGTGTTGATGATCTCCAACCTTCAACCACCAGTTTCCTTTCGATTGAGGTCAGGTTCAGGTCCAGTTCGAATC---------CATCACATTggtaagtgggcagaattgtgtggactattatgcagtgagttgtcagcaaca Alignment from CESAR CTCAGTGTGGATGATTTCCAA-CTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCg tgatcgttgatacccattaaaaagtactttacctctgctgtatctctcagCTTGGTGTTGATGATCTCCAACCTTCAACCACCAGTTTCCTTTCGATTGAGGTCAGGTTCAGGTCCAGTTCGAATC---------CATCACATTggtaagtgggcagaattgtgtggactattatgcagtgagttgtcagcaaca Alignment from Spaln_aa2Genome CTCAGTGTGGATGATTTCCAA-CTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG tgatcgttgatacccattaaaaagtactttacctctgctgtatctctcagCTTGGTGTTGATGATCTCCAAcCTTCAACCACCAGTTTCCTTTCGATTGAGGTCAGGTTCAGGTCCAGTTCGAATC---------CATCACATTGgtaagtgggcagaattgtgtggactattatgcagtgagttgtcagcaaca Alignment from Spaln_nt2Genome CTCAGTGTGGATGATTTCCAAC-TCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG tgatcgttgatacccattaaaaagtactttacctctgctgtatctctcagCTTGGTGTTGATGATCTCCAACCTTCAACCACCAGTTTCCTTTCGATTGAGGTCAGGTTCAGGTCCAGTTCGAATC---------CATCACATTGgtaagtgggcagaattgtgtggactattatgcagtgagttgtcagcaaca Alignment from Pairagon CTCAGTGTGGATGATTTCCAA-CTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG tgatcgttgatacccattaaaaagtactttacctctgctgtatctctcagCTTGGTGTTGATGATCTCCAACCTTCAACCACCAGTTTCCTTTCGATTGAGGTCAGGTTCAGGTCCAGTTCGAATC---------CATCACATTGgtaagtgggcagaattgtgtggactattatgcagtgagttgtcagcaaca Alignment from Exonerate_protein2genome CTCAGTGTGGATGATTTCCAA-CTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG tgatcgttgatacccattaaaaagtactttacctctgctgtatctctcagCTTGGTGTTGATGATCTCCAACCTTCAACCACCAGTTTCCTTTCGATTGAGGTCAGGTTCAGGTCCAGTTCGAATC---------CATCACATTGgtaagtgggcagaattgtgtggactattatgcagtgagttgtcagcaaca Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CTCAGTGTGGATGATTTCCAA-CTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG tgatcgttgatacccattaaaaagtactttacctctgctgtatctctcagCTTGGTGTTGATGATCTCCAACCTTCAACCACCAGTTTCCTTTCGATTGAGGTCAGGTTCAGGTCCAGTTCGAATC---------CATCACATTGgtaagtgggcagaattgtgtggactattatgcagtgagttgtcagcaaca #### Npm3_ID9577_3 --> 0 - 0 Original Alignment CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTG-GCCAACCTCAGGTTGTCTTGCCAGCCCATG tcttcttcagccagtattatcaaagacacgcttttgtggcttactcctagCTCTGTCTTACTGAGGCCGCCACAGATGAGTGTAACGTGATAGAAGTTGTTGCTAGGGACTATGGCAACCAGGAAATTGCAGTTTCTGTTCGCAAACCTCAGGCTGTCTTGCCAACCAATGgtactgttgaaacactcattactgtggggccctaacgttcaatgatcgtt Alignment from CESAR CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTG-GCCAACCTCAGGTTGTCTTGCCAGCCCATG tcttcttcagccagtattatcaaagacacgcttttgtggcttactcctagCTCTGTCTTACTGAGGCCGCCACAGATGAGTGTAACGTGATAGAAGTTGTTGCTAGGGACTATGGCAACCAGGAAATTGCAGTTTCTGTTCGCAAACCTCAGGCTGTCTTGCCAACCAATGgtactgttgaaacactcattactgtggggccctaacgttcaatgatcgtt Alignment from Spaln_aa2Genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTG-GCCAACCTCAGGTTGTCTTGCCAGCCCATG tcttcttcagccagtattatcaaagacacgcttttgtggcttactcctagCTCTGTCTTACTGAGGCCGCCACAGATGAGTGTAACGTGATAGAAGTTGTTGCTAGGGACTATGGCAACCAGGAAATTGCAGTTTCTGTTcGCAAACCTCAGGCTGTCTTGCCAACCAATGgtactgttgaaacactcattactgtggggccctaacgttcaatgatcgtt Alignment from Spaln_nt2Genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTG-GCCAACCTCAGGTTGTCTTGCCAGCCCATG tcttcttcagccagtattatcaaagacacgcttttgtggcttactcctagCTCTGTCTTACTGAGGCCGCCACAGATGAGTGTAACGTGATAGAAGTTGTTGCTAGGGACTATGGCAACCAGGAAATTGCAGTTTCTGTTCGCAAACCTCAGGCTGTCTTGCCAACCAATGgtactgttgaaacactcattactgtggggccctaacgttcaatgatcgtt Alignment from Pairagon CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTG-TGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcttcttcagccagtattatcaaagacacgcttttgtggcttactcctagCTCTGTCTTACTGAGGCCGCCACAGATGAGTGTAACGTGATAGAAGTTGTTGCTAGGGACTATGGCAACCAGGAAATTGCAGTTTCTGTTCGCAAACCTCAGGCTGTCTTGCCAACCAATGgtactgttgaaacactcattactgtggggccctaacgttcaatgatcgtt Alignment from Exonerate_protein2genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTG-GCCAACCTCAGGTTGTCTTGCCAGCCCATG tcttcttcagccagtattatcaaagacacgcttttgtggcttactcctagCTCTGTCTTACTGAGGCCGCCACAGATGAGTGTAACGTGATAGAAGTTGTTGCTAGGGACTATGGCAACCAGGAAATTGCAGTTTCTGTTCGCAAACCTCAGGCTGTCTTGCCAACCAATGgtactgttgaaacactcattactgtggggccctaacgttcaatgatcgtt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTT-CCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcttcttcagccagtattatcaaagacacgcttttgtggcttactcctagCTCTGTCTTACTGAGGCCGCCACAGATGAGTGTAACGTGATAGAAGTTGTTGCTAGGGACTATGGCAACCAGGAAATTGCAGTTTCTGTTCGCAAACCTCAGGCTGTCTTGCCAACCAATGgtactgttgaaacactcattactgtggggccctaacgttcaatgatcgtt #### Nrxn2_ID1761_12 --> 2 - 1 Original Alignment gtAAAGGCCCCGAGACACTGTTTGCGGGGCACAAGCTGAATGACAATGAATGG-CACACGGTGAGGGTGGTCCGGCGTGGCAAGAGCCTGCAGCTGTCCGTGGACAACGTGACTGTGGAGg tgcatcagagacttcctgctgatttctctattttctcatttctttgtcaggtAAAGGTCCTGAAACACTGTTTGCAGGGCACAAACTAAATGACAATGAGTGGCCACATGGTGAGGGTGGTCCAGCATGGCAAGAGCCTCCAGCTATTTGTTGACAATGTGACTGTGGAGggtgagcggctgagactgttcctgcctgggagtgctccaaagtctcattaa Alignment from CESAR gtAAAGGCCCCGAGACACTGTTTGCGGGGCACAAGCTGAATGACAATGAATGG-CACACGGTGAGGGTGGTCCGGCGTGGCAAGAGCCTGCAGCTGTCCGTGGACAACGTGACTGTGGAGg tgcatcagagacttcctgctgatttctctattttctcatttctttgtcaggtAAAGGTCCTGAAACACTGTTTGCAGGGCACAAACTAAATGACAATGAGTGGCCACATGGTGAGGGTGGTCCAGCATGGCAAGAGCCTCCAGCTATTTGTTGACAATGTGACTGTGGAGggtgagcggctgagactgttcctgcctgggagtgctccaaagtctcattaa Alignment from Spaln_aa2Genome GTAAAGGCCCCGAGACACTGTTTGCGGGGCACAAGCTGAATGACAATGAATGG-CACACGGTGAGGGTGGTCCGGCGTGGCAAGAGCCTGCAGCTGTCCGTGGACAACGTGACTGTGGAGG tgcatcagagacttcctgctgatttctctattttctcatttctttgtcagGTAAAGGTCCTGAAACACTGTTTGCAGGGCACAAACTAAATGACAATGAGTGGcCACATGGTGAGGGTGGTCCAGCATGGCAAGAGCCTCCAGCTATTTGTTGACAATGTGACTGTGGAGGgtgagcggctgagactgttcctgcctgggagtgctccaaagtctcattaa Alignment from Spaln_nt2Genome GTAAAGGCCCCGAGACACTGTTTGCGGGGCACAAGCTGAATGACAATGAATGGC-ACACGGTGAGGGTGGTCCGGCGTGGCAAGAGCCTGCAGCTGTCCGTGGACAACGTGACTGTGGAGG tgcatcagagacttcctgctgatttctctattttctcatttctttgtcagGTAAAGGTCCTGAAACACTGTTTGCAGGGCACAAACTAAATGACAATGAGTGGCCACATGGTGAGGGTGGTCCAGCATGGCAAGAGCCTCCAGCTATTTGTTGACAATGTGACTGTGGAGGgtgagcggctgagactgttcctgcctgggagtgctccaaagtctcattaa Alignment from Pairagon GTAAAGGCCCCGAGACACTGTTTGCGGGGCACAAGCTGAATGACAATGAATGG-CACACGGTGAGGGTGGTCCGGCGTGGCAAGAGCCTGCAGCTGTCCGTGGACAACGTGACTGTGGAGG tgcatcagagacttcctgctgatttctctattttctcatttctttgtcagGTAAAGGTCCTGAAACACTGTTTGCAGGGCACAAACTAAATGACAATGAGTGGCCACATGGTGAGGGTGGTCCAGCATGGCAAGAGCCTCCAGCTATTTGTTGACAATGTGACTGTGGAGGgtgagcggctgagactgttcctgcctgggagtgctccaaagtctcattaa Alignment from Exonerate_protein2genome GTAAAGGCCCCGAGACACTGTTTGCGGGGCACAAGCTGAATGACAATGAATGG-CACACGGTGAGGGTGGTCCGGCGTGGCAAGAGCCTGCAGCTGTCCGTGGACAACGTGACTGTGGAGG tgcatcagagacttcctgctgatttctctattttctcatttctttgtcagGTAAAGGTCCTGAAACACTGTTTGCAGGGCACAAACTAAATGACAATGAGTGGCCACATGGTGAGGGTGGTCCAGCATGGCAAGAGCCTCCAGCTATTTGTTGACAATGTGACTGTGGAGGgtgagcggctgagactgttcctgcctgggagtgctccaaagtctcattaa Alignment from Exonerate_coding2genome GTAAAGGCCCCGAGACACTGTTTGCGGGGCACAAGCTGAATGACAATGAATGG-CACACGGTGAGGGTGGTCCGGCGTGGCAAGAGCCTGCAGCTGTCCGTGGACAACGTGACTGTGGAGG tgcatcagagacttcctgctgatttctctattttctcatttctttgtcagGTAAAGGTCCTGAAACACTGTTTGCAGGGCACAAACTAAATGACAATGAGTGGCCACATGGTGAGGGTGGTCCAGCATGGCAAGAGCCTCCAGCTATTTGTTGACAATGTGACTGTGGAGGgtgagcggctgagactgttcctgcctgggagtgctccaaagtctcattaa Alignment from GeneWise GTAAAGGCCCCGAGACACTGTTTGCGGGGCACAAGCTGAATGACAATGAATGG-CACACGGTGAGGGTGGTCCGGCGTGGCAAGAGCCTGCAGCTGTCCGTGGACAACGTGACTGTGGAGG tgcatcagagacttcctgctgatttctctattttctcatttctttgtcagGTAAAGGTCCTGAAACACTGTTTGCAGGGCACAAACTAAATGACAATGAGTGGCCACATGGTGAGGGTGGTCCAGCATGGCAAGAGCCTCCAGCTATTTGTTGACAATGTGACTGTGGAGGgtgagcggctgagactgttcctgcctgggagtgctccaaagtctcattaa #### Nt5c2_ID10036_17 --> 0 - 0 Original Alignment AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGC-CTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggattgccaaaggactagatataggcacgtttttaactttcgctcaatagGAAGTAACTCATGATATGGATATGTGCTATGGCATGATGGGAAGTCCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTACTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCACGTCCTGgtgaggactggtccttatggctaacagatgatgcaacaccagagtcacta Alignment from CESAR AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGC-CTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggattgccaaaggactagatataggcacgtttttaactttcgctcaatagGAAGTAACTCATGATATGGATATGTGCTATGGCATGATGGGAAGTCCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTACTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCACGTCCTGgtgaggactggtccttatggctaacagatgatgcaacaccagagtcacta Alignment from Spaln_aa2Genome AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGC-CTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggattgccaaaggactagatataggcacgtttttaactttcgctcaatagGAAGTAACTCATGATATGGATATGTGCTATGGCATGATGGGAAGTcCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTACTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCACGTCCTGgtgaggactggtccttatggctaacagatgatgcaacaccagagtcacta Alignment from Spaln_nt2Genome AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAG-CCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggattgccaaaggactagatataggcacgtttttaactttcgctcaatagGAAGTAACTCATGATATGGATATGTGCTATGGCATGATGGGAAGTCCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTACTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCACGTCCTGgtgaggactggtccttatggctaacagatgatgcaacaccagagtcacta Alignment from Pairagon AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAG-CCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggattgccaaaggactagatataggcacgtttttaactttcgctcaatagGAAGTAACTCATGATATGGATATGTGCTATGGCATGATGGGAAGTCCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTACTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCACGTCCTGgtgaggactggtccttatggctaacagatgatgcaacaccagagtcacta Alignment from Exonerate_protein2genome AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGC-CTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggattgccaaaggactagatataggcacgtttttaactttcgctcaatagGAAGTAACTCATGATATGGATATGTGCTATGGCATGATGGGAAGTCCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTACTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCACGTCCTGgtgaggactggtccttatggctaacagatgatgcaacaccagagtcacta Alignment from Exonerate_coding2genome ggattgccaaaggactagatataggcacgtttttaactttcgctcaataggaagtaactcatgatatggatatgtgctatggcatgatgggaagtcctgttccggagtagctcccagcagacactctttgccagcctagttatgcgttatgcagacctctacacatcctcattcattaacctactgtactacccattcagctacctcttcagagctgcccacgtcctggtgaggactggtccttatggctaacagatgatgcaacaccagagtcacta Alignment from GeneWise AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGA-AGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggattgccaaaggactagatataggcacgtttttaactttcgctcaatagGAAGTAACTCATGATATGGATATGTGCTATGGCATGATGGGAAGTCCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTACTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCACGTCCTGgtgaggactggtccttatggctaacagatgatgcaacaccagagtcacta #### Nt5c2_ID10040_13 --> 0 - 1 Original Alignment AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGC-ATTGTCTACTCAGGGg tgagtaccagactaatgagaaaggtgagttctttttctccttccctgtagAAAACTGGAAAACTGAAAAATGGCTCCTACACAGGCCCTTTACAACAT---CGTTGTCTATTCTGGGggtagctatgccattggccttccaggggtcttttcatggaaggtactctct Alignment from CESAR AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGg tgagtaccagactaatgagaaaggtgagttctttttctccttccctgtagAAAACTGGAAAACTGAAAAATGGCTCCTACACAGGCCCTTTACAACAT--CGTTGTCTATTCTGGGggtagctatgccattggccttccaggggtcttttcatggaaggtactctct Alignment from Spaln_aa2Genome AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGGGTT tgagtaccagactaatgagaaaggtgagttctttttctccttccctgtagAAAACTGGAAAACTGAAAAATGGCTCCTACACAGGCCCTTTACAACATC--GTTGTCTATTCTGGGGGTAgctatgccattggccttccaggggtcttttcatggaaggtactctct Alignment from Spaln_nt2Genome AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgagtaccagactaatgagaaaggtgagttctttttctccttccctgtagAAAACTGGAAAACTGAAAAATGGCTCCTACACAGGCCCTTTACA--ACATCGTTGTCTATTCTGGGGgtagctatgccattggccttccaggggtcttttcatggaaggtactctct Alignment from Pairagon AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgagtaccagactaatgagaaaggtgagttctttttctccttccctgtagAAAACTGGAAAACTGAAAAATGGCTCCTACACAGGCCCTTTACAACAT--CGTTGTCTATTCTGGGGgtagctatgccattggccttccaggggtcttttcatggaaggtactctct Alignment from Exonerate_protein2genome AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGG tgagtaccagactaatgagaaaggtgagttctttttctccttccctgtagAAAACTGGAAAACTGAAAAATGGCTCCTACACAGGCCCTTTACAACATCGTTGTCTATTCTGGGGgtagctatgccattggccttccaggggtcttttcatggaaggtactctct Alignment from Exonerate_coding2genome AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgagtaccagactaatgagaaaggtgagttctttttctccttccctgtagAAAACTGGAAAACTGAAAAATGGCTCCTACACAGGCC--CTTTACAACATCGTTGTCTATTCTGGGGgtagctatgccattggccttccaggggtcttttcatggaaggtactctct Alignment from GeneWise AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACG tgagtaccagactaatgagaaaggtgagttctttttctccttccctgtagAAAACTGGAAAACTGAAAAATGGCTCCTACACAGGCCCTTTACAACATCgttgtctattctgggggtagctatgccattggccttccaggggtcttttcatggaaggtactctct #### Nudt8_ID268_3 --> 0 - 0 Original Alignment GAAAAGGCAACCATAGTCCCAGTACTTGCCAAC-GTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG attggcaacagacatctggacttgattgtaagaaacactttcttttccagGACAAGGCAAGCTTAGTCCCTGTTCTTGCAAATCGTGGGCCCTTTGGATTTACAGAGCCTGAGGCCCAACCTTGAGGAGgtaagtggagcactttttggactaggggacttaggagtggatgcgtgtcc Alignment from CESAR GAAAAGGCAACCATAGTCCCAGTACTTGCCAAC-GTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG attggcaacagacatctggacttgattgtaagaaacactttcttttccagGACAAGGCAAGCTTAGTCCCTGTTCTTGCAAATCGTGGGCCCTTTGGATTTACAGAGCCTGAGGCCCAACCTTGAGGAGgtaagtggagcactttttggactaggggacttaggagtggatgcgtgtcc Alignment from Spaln_aa2Genome GAAAAGGCAACCATAGTCCCAGTACTTGCCAAC-GTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG attggcaacagacatctggacttgattgtaagaaacactttcttttccagGACAAGGCAAGCTTAGTCCCTGTTCTTGCAAATcGTGGGCCCTTTGGATTTACAGAGCCTGAGGCCCAACCTTGAGGAGgtaagtggagcactttttggactaggggacttaggagtggatgcgtgtcc Alignment from Spaln_nt2Genome GAAAAGGCAACCATAGTCCCAGTACTTGCCAA-CGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG attggcaacagacatctggacttgattgtaagaaacactttcttttccagGACAAGGCAAGCTTAGTCCCTGTTCTTGCAAATCGTGGGCCCTTTGGATTTACAGAGCCTGAGGCCCAACCTTGAGGAGgtaagtggagcactttttggactaggggacttaggagtggatgcgtgtcc Alignment from Pairagon GAAAAGGCAACCATAGTCCCAGTACTTGCCAA-CGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG attggcaacagacatctggacttgattgtaagaaacactttcttttccagGACAAGGCAAGCTTAGTCCCTGTTCTTGCAAATCGTGGGCCCTTTGGATTTACAGAGCCTGAGGCCCAACCTTGAGGAGgtaagtggagcactttttggactaggggacttaggagtggatgcgtgtcc Alignment from Exonerate_protein2genome GAAAAGGCAACCATAGTCCCAGTACTTGCCAAC-GTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG attggcaacagacatctggacttgattgtaagaaacactttcttttccagGACAAGGCAAGCTTAGTCCCTGTTCTTGCAAATCGTGGGCCCTTTGGATTTACAGAGCCTGAGGCCCAACCTTGAGGAGgtaagtggagcactttttggactaggggacttaggagtggatgcgtgtcc Alignment from Exonerate_coding2genome CGGGAAAAGGCAACCATAGTCCCAGTACTTGCCAAC-GTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG attggcaacagacatctggacttgattgtaagaaacactttcttttcCAGGACAAGGCAAGCTTAGTCCCTGTTCTTGCAAATCGTGGGCCCTTTGGATTTACAGAGCCTGAGGCCCAACCTTGAGGAGgtaagtggagcactttttggactaggggacttaggagtggatgcgtgtcc Alignment from GeneWise GAAAAGGCAACCATAGTCCCAGTACTTGCCAAC-GTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG attggcaacagacatctggacttgattgtaagaaacactttcttttccagGACAAGGCAAGCTTAGTCCCTGTTCTTGCAAATCGTGGGCCCTTTGGATTTACAGAGCCTGAGGCCCAACCTTGAGGAGgtaagtggagcactttttggactaggggacttaggagtggatgcgtgtcc #### Nxf1_ID2344_4 --> 0 - 0 Original Alignment ATTCCTTATGGTAGAAAGTATGACAAAACGTGGCTTCTG-AGCATGATTCAGAGCAAATGCAGTGTCCCCTTCAATCCCATCGAG agcaaggaatctgaaaaaatagcatcccggttttactttttcttttgtagATACCCTATGGTAAAAAGCATGACAAAACTTGGCTTCTCCAGCATGATTCAGAGTAAATGTAGTGTACCTTTCAACCCCATTGAGgtaagaacaatagagccagatttgagtagcttcgttcagtgaggagtatg Alignment from CESAR ATTCCTTATGGTAGAAAGTATGACAAAACGTGGCTTCTG-AGCATGATTCAGAGCAAATGCAGTGTCCCCTTCAATCCCATCGAG agcaaggaatctgaaaaaatagcatcccggttttactttttcttttgtagATACCCTATGGTAAAAAGCATGACAAAACTTGGCTTCTCCAGCATGATTCAGAGTAAATGTAGTGTACCTTTCAACCCCATTGAGgtaagaacaatagagccagatttgagtagcttcgttcagtgaggagtatg Alignment from Spaln_aa2Genome ATTCCTTATGGTAGAAAGTATGACAAAACGTGGCTTCTG-AGCATGATTCAGAGCAAATGCAGTGTCCCCTTCAATCCCATCGAG agcaaggaatctgaaaaaatagcatcccggttttactttttcttttgtagATACCCTATGGTAAAAAGCATGACAAAACTTGGCTTCTCcAGCATGATTCAGAGTAAATGTAGTGTACCTTTCAACCCCATTGAGgtaagaacaatagagccagatttgagtagcttcgttcagtgaggagtatg Alignment from Spaln_nt2Genome ATTCCTTATGGTAGAAAGTATGACAAAACGTGGCTTCTG-AGCATGATTCAGAGCAAATGCAGTGTCCCCTTCAATCCCATCGAG agcaaggaatctgaaaaaatagcatcccggttttactttttcttttgtagATACCCTATGGTAAAAAGCATGACAAAACTTGGCTTCTCCAGCATGATTCAGAGTAAATGTAGTGTACCTTTCAACCCCATTGAGgtaagaacaatagagccagatttgagtagcttcgttcagtgaggagtatg Alignment from Pairagon ATTCCTTATGGTAGAAAGTATGACAAAACGTGGCTTCT-GAGCATGATTCAGAGCAAATGCAGTGTCCCCTTCAATCCCATCGAG agcaaggaatctgaaaaaatagcatcccggttttactttttcttttgtagATACCCTATGGTAAAAAGCATGACAAAACTTGGCTTCTCCAGCATGATTCAGAGTAAATGTAGTGTACCTTTCAACCCCATTGAGgtaagaacaatagagccagatttgagtagcttcgttcagtgaggagtatg Alignment from Exonerate_protein2genome ATTCCTTATGGTAGAAAGTATGACAAAACGTGGCTTCTG-AGCATGATTCAGAGCAAATGCAGTGTCCCCTTCAATCCCATCGAG agcaaggaatctgaaaaaatagcatcccggttttactttttcttttgtagATACCCTATGGTAAAAAGCATGACAAAACTTGGCTTCTCCAGCATGATTCAGAGTAAATGTAGTGTACCTTTCAACCCCATTGAGgtaagaacaatagagccagatttgagtagcttcgttcagtgaggagtatg Alignment from Exonerate_coding2genome ATTCCTTATGGTAGAAAGTATGACAAAACGTGGCTTCTG-AGCATGATTCAGAGCAAATGCAGTGTCCCCTTCAATCCCATCGAG agcaaggaatctgaaaaaatagcatcccggttttactttttcttttgtagATACCCTATGGTAAAAAGCATGACAAAACTTGGCTTCTCCAGCATGATTCAGAGTAAATGTAGTGTACCTTTCAACCCCATTGAGgtaagaacaatagagccagatttgagtagcttcgttcagtgaggagtatg Alignment from GeneWise ATTCCTTATGGTAGAAAGTATGACAAAACGTGGCTTCTG-AGCATGATTCAGAGCAAATGCAGTGTCCCCTTCAATCCCATCGAG agcaaggaatctgaaaaaatagcatcccggttttactttttcttttgtagATACCCTATGGTAAAAAGCATGACAAAACTTGGCTTCTCCAGCATGATTCAGAGTAAATGTAGTGTACCTTTCAACCCCATTGAGgtaagaacaatagagccagatttgagtagcttcgttcagtgaggagtatg #### Nxf1_ID2345_5 --> 0 - 0 Original Alignment TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATC---CAGGATCGA-GAAAACAGAAGG ttgagtagcttcgttcagtgaggagtatgtgttctttttccttcctctagTTTCACCATGAAAATACACGCAATCATTTCTTTGTAGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTGAACCATCAGATCATCCAGGATCGACGAGAACAGACGGgtagacgcagccaaaattaaagaatggactggtcgtatcaacttttctac Alignment from CESAR TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATC---CAGGATCGA-GAAAACAGAAGG ttgagtagcttcgttcagtgaggagtatgtgttctttttccttcctctagTTTCACCATGAAAATACACGCAATCATTTCTTTGTAGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTGAACCATCAGATCATCCAGGATCGACGAGAACAGACGGgtagacgcagccaaaattaaagaatggactggtcgtatcaacttttctac Alignment from Spaln_aa2Genome TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGA-GAAAACAGAAGG ttgagtagcttcgttcagtgaggagtatgtgttctttttccttcctctagTTTCACCATGAAAATACACGCAATCATTTCTTTGTAGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTGAACCATCAGATCATCCAGGATCGAcGAGAACAGACGGgtagacgcagccaaaattaaagaatggactggtcgtatcaacttttctac Alignment from Spaln_nt2Genome TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATC---CAGGATCGA-GAAAACAGAAGG ttgagtagcttcgttcagtgaggagtatgtgttctttttccttcctctagTTTCACCATGAAAATACACGCAATCATTTCTTTGTAGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTGAACCATCAGATCATCCAGGATCGACGAGAACAGACGGgtagacgcagccaaaattaaagaatggactggtcgtatcaacttttctac Alignment from Pairagon TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGA-GAAAACAGAAGG ttgagtagcttcgttcagtgaggagtatgtgttctttttccttcctctagTTTCACCATGAAAATACACGCAATCATTTCTTTGTAGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTGAACCATCAGATCATCCAGGATCGACGAGAACAGACGGgtagacgcagccaaaattaaagaatggactggtcgtatcaacttttctac Alignment from Exonerate_protein2genome TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGA-GAAAACAGAAGG ttgagtagcttcgttcagtgaggagtatgtgttctttttccttcctctagTTTCACCATGAAAATACACGCAATCATTTCTTTGTAGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTGAACCATCAGATCATCCAGGATCGACGAGAACAGACGGgtagacgcagccaaaattaaagaatggactggtcgtatcaacttttctac Alignment from Exonerate_coding2genome TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGA-GAAAACAGAAGG ttgagtagcttcgttcagtgaggagtatgtgttctttttccttcctctagTTTCACCATGAAAATACACGCAATCATTTCTTTGTAGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTGAACCATCAGATCATCCAGGATCGACGAGAACAGACGGgtagacgcagccaaaattaaagaatggactggtcgtatcaacttttctac Alignment from GeneWise TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATC---CAGGATCGA-GAAAACAGAAGG ttgagtagcttcgttcagtgaggagtatgtgttctttttccttcctctagTTTCACCATGAAAATACACGCAATCATTTCTTTGTAGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTGAACCATCAGATCATCCAGGATCGACGAGAACAGACGGgtagacgcagccaaaattaaagaatggactggtcgtatcaacttttctac #### Nxf1_ID2348_8 --> 2 - 0 Original Alignment atTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAG-AACATTCCTGAG tgggcccctattttgaattagttgtctgactcaggccacttgtcttgcagatTTGGTAGCTCAGAACATTGTCGTCATTCTAAACCGGAGGAGTTGCATGGCAGCAACGCTTCGCACCATCAAGGATCAACATTCCTGAGgtaagatttattctctctgtgataatttaatcgcgcttacttaattagat Alignment from CESAR atTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAG-AACATTCCTGAG tgggcccctattttgaattagttgtctgactcaggccacttgtcttgcagatTTGGTAGCTCAGAACATTGTCGTCATTCTAAACCGGAGGAGTTGCATGGCAGCAACGCTTCGCACCATCAAGGATCAACATTCCTGAGgtaagatttattctctctgtgataatttaatcgcgcttacttaattagat Alignment from Spaln_aa2Genome ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAG-AACATTCCTGAG tgggcccctattttgaattagttgtctgactcaggccacttgtcttgcagATTTGGTAGCTCAGAACATTGTCGTCATTCTAAACCGGAGGAGTTGCATGGCAGCAACGCTTCGCACCATCAAGGATcAACATTCCTGAGgtaagatttattctctctgtgataatttaatcgcgcttacttaattagat Alignment from Spaln_nt2Genome ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAG-AACATTCCTGAG CT tgggcccctattttgaattagttgtctgactcaggccacttgtcttgcagATTTGGTAGCTCAGAACATTGTCGTCATTCTAAACCGGAGGAGTTGCATGGCAGCAACGCTTCGCACCATCAAGGATCAACATTCCTGAGgtaagatttattctctctgtgataatttaatcgcgcttacttaattagAT Alignment from Pairagon ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGC----------GGATCATTGAAGAGAACATTCCTGAG tgggcccctattttgaattagttgtctgactcaggccacttgtcttgcagATTTGGTAGCTCAGAACATTGTCGTCATTCTAAACCGGAGGAGTTGCATGGCAGCAACGCTTCGCACCATCAAGGATC---------AACATTCCTGAGgtaagatttattctctctgtgataatttaatcgcgcttacttaattagat Alignment from Exonerate_protein2genome ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAG-AACATTCCTGAGCTA tgggcccctattttgaattagttgtctgactcaggccacttgtcttgcagATTTGGTAGCTCAGAACATTGTCGTCATTCTAAACCGGAGGAGTTGCATGGCAGCAACGCTTCGCACCATCAAGGATCAACATTCCTGAG---gtaagatttattctctctgtgataatttaatcgcgcttacttaatta Alignment from Exonerate_coding2genome tgggcccctattttgaattagttgtctgactcaggccacttgtcttgcagatttggtagctcagaacattgtcgtcattctaaaccggaggagttgcatggcagcaacgcttcgcaccatcaaggatcaacattcctgaggtaagatttattctctctgtgataatttaatcgcgcttacttaattagat Alignment from GeneWise ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAA-GAGAACATTCCTGAG tgggcccctattttgaattagttgtctgactcaggccacttgtcttgcagATTTGGTAGCTCAGAACATTGTCGTCATTCTAAACCGGAGGAGTTGCATGGCAGCAACGCTTCGCACCATCAAGGATCAACATTCCTGAGgtaagatttattctctctgtgataatttaatcgcgcttacttaattagat #### Nxf1_ID2349_9 --> 0 - 0 Original Alignment CTATTGTCTTTGAACTTGAGCAGCAAC-AGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatgtgttatagataggttaatattgattcttcttcctcccctag---TTGTCTTTGAACTTGAGTGGCAACCCGGCTATTCAAGCTGGATGACATGTCTGGTATTGTACAAACAGCTCCAAATATAAAAACCTTAAATCTTCCTGGAAAGGAGgtaagctggcattcaggataatcaatgatttttaattaggagtagttgaa Alignment from CESAR CTATTGTCTTTGAACTTGAGCAGCAAC-AGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatgtgttatagataggttaatattgattcttcttcctcccctag---TTGTCTTTGAACTTGAGTGGCAACCCGGCTATTCAAGCTGGATGACATGTCTGGTATTGTACAAACAGCTCCAAATATAAAAACCTTAAATCTTCCTGGAAAGGAGgtaagctggcattcaggataatcaatgatttttaattaggagtagttgaa Alignment from Spaln_aa2Genome CTATTGTCTTTGAACTTGAGCAGCAAC-AGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatgtgttatagataggttaatattgattcttcttcctcccctag---TTGTCTTTGAACTTGAGTGGCAACcCGGCTATTCAAGCTGGATGACATGTCTGGTATTGTACAAACAGCTCCAAATATAAAAACCTTAAATCTTCCTGGAAAGGAGgtaagctggcattcaggataatcaatgatttttaattaggagtagttgaa Alignment from Spaln_nt2Genome TTGTCTTTGAACTTGAGCAGCAACA-GGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatgtgttatagataggttaatattgattcttcttcctcccctagTTGTCTTTGAACTTGAGTGGCAACCCGGCTATTCAAGCTGGATGACATGTCTGGTATTGTACAAACAGCTCCAAATATAAAAACCTTAAATCTTCCTGGAAAGGAGgtaagctggcattcaggataatcaatgatttttaattaggagtagttgaa Alignment from Pairagon CTATTGTCTTTGAACTTGAGCAGCAA-CAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatgtgttatagataggttaatattgattcttcttcctcccctag---TTGTCTTTGAACTTGAGTGGCAACCCGGCTATTCAAGCTGGATGACATGTCTGGTATTGTACAAACAGCTCCAAATATAAAAACCTTAAATCTTCCTGGAAAGGAGgtaagctggcattcaggataatcaatgatttttaattaggagtagttgaa Alignment from Exonerate_protein2genome TTGTCTTTGAACTTGAGCAGCAAC-AGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatgtgttatagataggttaatattgattcttcttcctcccctagTTGTCTTTGAACTTGAGTGGCAACCCGGCTATTCAAGCTGGATGACATGTCTGGTATTGTACAAACAGCTCCAAATATAAAAACCTTAAATCTTCCTGGAAAGGAGgtaagctggcattcaggataatcaatgatttttaattaggagtagttgaa Alignment from Exonerate_coding2genome TTGTCTTTGAACTTGAGCAGCAAC-AGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatgtgttatagataggttaatattgattcttcttcctcccctagTTGTCTTTGAACTTGAGTGGCAACCCGGCTATTCAAGCTGGATGACATGTCTGGTATTGTACAAACAGCTCCAAATATAAAAACCTTAAATCTTCCTGGAAAGGAGgtaagctggcattcaggataatcaatgatttttaattaggagtagttgaa Alignment from GeneWise GCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatgtgttatagataggttaatattgattcttcttcctcccctagttgtctttgaacttgagTGGCAACCCGGCTATTCAAGCTGGATGACATGTCTGGTATTGTACAAACAGCTCCAAATATAAAAACCTTAAATCTTCCTGGAAAGGAGgtaagctggcattcaggataatcaatgatttttaattaggagtagttgaa #### Nxf1_ID2355_15 --> 1 - 1 Original Alignment aAAAAACTTAGCTGAATATGTCAAAGACAGCAGA-AATGTGAAGAAGCTTAAAGAACCCa cttaccatgtaccataaaattctctgagtaaccacctctcttcctgacagaAAAAACCTAGCAGAATATGCTAAAGACTGTAGACAATGTAAAGAAGCTTAAGGAACCCagtgtgtaggctctgtacaactcccttgctgaggaatttgaaggagagagt Alignment from CESAR aAAAAACTTAGCTGAATATGTCAAAGACAGCAGA-AATGTGAAGAAGCTTAAAGAACCCa cttaccatgtaccataaaattctctgagtaaccacctctcttcctgacagaAAAAACCTAGCAGAATATGCTAAAGACTGTAGACAATGTAAAGAAGCTTAAGGAACCCagtgtgtaggctctgtacaactcccttgctgaggaatttgaaggagagagt Alignment from Spaln_aa2Genome AAAAAACTTAGCTGAATATGTCAAAGACAGCAGA-AATGTGAAGAAGCTTAAAGAACCCA cttaccatgtaccataaaattctctgagtaaccacctctcttcctgacagAAAAAACCTAGCAGAATATGCTAAAGACTGTAGAcAATGTAAAGAAGCTTAAGGAACCCAgtgtgtaggctctgtacaactcccttgctgaggaatttgaaggagagagt Alignment from Spaln_nt2Genome AAAAAACTTAGCTGAATATGTCAAAGACAGCAGA-AATGTGAAGAAGCTTAAAGAACCCA cttaccatgtaccataaaattctctgagtaaccacctctcttcctgacagAAAAAACCTAGCAGAATATGCTAAAGACTGTAGACAATGTAAAGAAGCTTAAGGAACCCAgtgtgtaggctctgtacaactcccttgctgaggaatttgaaggagagagt Alignment from Pairagon AAAAAACTTAGCTGAATATGTCAAAGACAGCAGA-AATGTGAAGAAGCTTAAAGAACCCA cttaccatgtaccataaaattctctgagtaaccacctctcttcctgacagAAAAAACCTAGCAGAATATGCTAAAGACTGTAGACAATGTAAAGAAGCTTAAGGAACCCAgtgtgtaggctctgtacaactcccttgctgaggaatttgaaggagagagt Alignment from Exonerate_protein2genome AAAAAACTTAGCTGAATATGTCAAAGACAGCAGA-AATGTGAAGAAGCTTAAAGAACCCA cttaccatgtaccataaaattctctgagtaaccacctctcttcctgacagAAAAAACCTAGCAGAATATGCTAAAGACTGTAGACAATGTAAAGAAGCTTAAGGAACCCAgtgtgtaggctctgtacaactcccttgctgaggaatttgaaggagagagt Alignment from Exonerate_coding2genome cttaccatgtaccataaaattctctgagtaaccacctctcttcctgacagaaaaaacctagcagaatatgctaaagactgtagacaatgtaaagaagcttaaggaacccagtgtgtaggctctgtacaactcccttgctgaggaatttgaaggagagagt Alignment from GeneWise cttaccatgtaccataaaattctctgagtaaccacctctcttcctgacagaaaaaacctagcagaatatgctaaagactgtagacaatgtaaagaagcttaaggaacccagtgtgtaggctctgtacaactcccttgctgaggaatttgaaggagagagt #### Nxf1_ID2357_17 --> 0 - 1 Original Alignment AGCACATTACTGTGTTTTTCTGTC-AATGGAGTCTTCAAGGAAg acaaaagtagctataagcctctttggtttcaacatcctctctcctcatagAGCACATTACTAAGTCTATCCTTACAATGGAGTCCTCAAGGAAggtaattgtttttgcatactctttgcagactctgctgtatctcccttctta Alignment from CESAR AGCACATTACTGTGTTTTTCTGTC-AATGGAGTCTTCAAGGAAg acaaaagtagctataagcctctttggtttcaacatcctctctcctcatagAGCACATTACTAAGTCTATCCTTACAATGGAGTCCTCAAGGAAggtaattgtttttgcatactctttgcagactctgctgtatctcccttctta Alignment from Spaln_aa2Genome TGTGTTTTTCTGTCAATGGAGTCTTCAAGGAAG acaaaagtagctataagcctctttggtttcaacatcctctctcctcatagagcacattactaagTC---TATCCTTACAATGGAGTCCTCAAGGAAGgtaattgtttttgcatactctttgcagactctgctgtatctcccttctta Alignment from Spaln_nt2Genome AGCACATTACTGTGTTTTTCTGT-CAATGGAGTCTTCAAGGAAG acaaaagtagctataagcctctttggtttcaacatcctctctcctcatagAGCACATTACTAAGTCTATCCTTACAATGGAGTCCTCAAGGAAGgtaattgtttttgcatactctttgcagactctgctgtatctcccttctta Alignment from Pairagon AGCACATTACTGTGTTT-TTCTGTCAATGGAGTCTTCAAGGAAG acaaaagtagctataagcctctttggtttcaacatcctctctcctcatagAGCACATTACTAAGTCTATCCTTACAATGGAGTCCTCAAGGAAGgtaattgtttttgcatactctttgcagactctgctgtatctcccttctta Alignment from Exonerate_protein2genome acaaaagtagctataagcctctttggtttcaacatcctctctcctcatagagcacattactaagtctatccttacaatggagtcctcaaggaaggtaattgtttttgcatactctttgcagactctgctgtatctcccttctta Alignment from Exonerate_coding2genome acaaaagtagctataagcctctttggtttcaacatcctctctcctcatagagcacattactaagtctatccttacaatggagtcctcaaggaaggtaattgtttttgcatactctttgcagactctgctgtatctcccttctta Alignment from GeneWise acaaaagtagctataagcctctttggtttcaacatcctctctcctcatagagcacattactaagtctatccttacaatggagtcctcaaggaaggtaattgtttttgcatactctttgcagactctgctgtatctcccttctta #### Nxf1_ID2358_18 --> 2 - 2 Original Alignment tgGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATT-GCTGTTCCTGCCAGCAATTCAgg ccgtaactcttttgcacctcaaggcactgtgtgtgtgtcttctgacacagtaGATGGGAAGTTTCGAGATTCTTTACATGCCTATGCCAGGACATTCATTCGCAGTTCCTGCAAGTAATACGgggtaaggagatctgattgattaacaatgagaggaatggaggacagaacagt Alignment from CESAR tgGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATT-GCTGTTCCTGCCAGCAATTCAgg ccgtaactcttttgcacctcaaggcactgtgtgtgtgtcttctgacacagtaGATGGGAAGTTTCGAGATTCTTTACATGCCTATGCCAGGACATTCATTCGCAGTTCCTGCAAGTAATACGgggtaaggagatctgattgattaacaatgagaggaatggaggacagaacagt Alignment from Spaln_aa2Genome TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATT-GCTGTTCCTGCCAGCAATTCAGG ccgtaactcttttgcacctcaaggcactgtgtgtgtgtcttctgacacagTAGATGGGAAGTTTCGAGATTCTTTACATGCCTATGCCAGGACATTCATTcGCAGTTCCTGCAAGTAATACGGGgtaaggagatctgattgattaacaatgagaggaatggaggacagaacagt Alignment from Spaln_nt2Genome TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATT-GCTGTTCCTGCCAGCAATTCAGG ccgtaactcttttgcacctcaaggcactgtgtgtgtgtcttctgacacagTAGATGGGAAGTTTCGAGATTCTTTACATGCCTATGCCAGGACATTCATTCGCAGTTCCTGCAAGTAATACGGGgtaaggagatctgattgattaacaatgagaggaatggaggacagaacagt Alignment from Pairagon TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATT-GCTGTTCCTGCCAGCAATTCAGG ccgtaactcttttgcacctcaaggcactgtgtgtgtgtcttctgacacagTAGATGGGAAGTTTCGAGATTCTTTACATGCCTATGCCAGGACATTCATTCGCAGTTCCTGCAAGTAATACGGGgtaaggagatctgattgattaacaatgagaggaatggaggacagaacagt Alignment from Exonerate_protein2genome TTTTCTGTCAATGGAGTCTTCAAGGAAGTGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATT-GCTGTTCCTGCCAGCAATTCAGG ccgtaactcttttgcacctcaaGGCACTGTGTGTGTGTCTTCTGACACAGTAGATGGGAAGTTTCGAGATTCTTTACATGCCTATGCCAGGACATTCATTCGCAGTTCCTGCAAGTAATACGGGgtaaggagatctgattgattaacaatgagaggaatggaggacagaacagt Alignment from Exonerate_coding2genome TTTTCTGTCAATGGAGTCTTCAAGGAAGTGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATT-GCTGTTCCTGCCAGCAATTCAGG ccgtaactcttttgcacctcaaGGCACTGTGTGTGTGTCTTCTGACACAGTAGATGGGAAGTTTCGAGATTCTTTACATGCCTATGCCAGGACATTCATTCGCAGTTCCTGCAAGTAATACGGGgtaaggagatctgattgattaacaatgagaggaatggaggacagaacagt Alignment from GeneWise ccgtaactcttttgcacctcaaggcactgtgtgtgtgtcttctgacacagtagatgggaagtttcgagattctttacatgcctatgccaggacattcattcgcagttcctgcaagtaatacggggtaaggagatctgattgattaacaatgagaggaatggaggacagaacagt #### Opalin_ID8090_5 --> 0 - 0 Original Alignment GAGACTGAGATA-CCATGTGAAATTTCAGAACTCTATGACAATCCCAAAATATCTGAG atacatatgagtatcactcttttggatatgaaattcccttccctccgcagGAGACTGAGATACCCATGTGAAATTTCAGAGCTCTTTGACAATCCA---ATATCTGAGgtaattgtatgtgacagcttgtaagtactgatatgcctgtgagacaaata Alignment from CESAR GAGACTGAGATA-CCATGTGAAATTTCAGAACTCTATGACAATCCCAAAATATCTGAG atacatatgagtatcactcttttggatatgaaattcccttccctccgcagGAGACTGAGATACCCATGTGAAATTTCAGAGCTCTTTGACAATCCA---ATATCTGAGgtaattgtatgtgacagcttgtaagtactgatatgcctgtgagacaaata Alignment from Spaln_aa2Genome GAGACTGAGATA-CCATGTGAAATTTCAGAACTCTATGACAATCCCAAAATATCTGAG atacatatgagtatcactcttttggatatgaaattcccttccctccgcagGAGACTGAGATAcCCATGTGAAATTTCAGAGCTCTTTGACAATCCA---ATATCTGAGgtaattgtatgtgacagcttgtaagtactgatatgcctgtgagacaaata Alignment from Spaln_nt2Genome GAGACTGAGATACC-ATGTGAAATTTCAGAACTCTATGACAATCCCAAAATATCTGAG atacatatgagtatcactcttttggatatgaaattcccttccctccgcagGAGACTGAGATACCCATGTGAAATTTCAGAGCTCTTTGACAATCC---AATATCTGAGgtaattgtatgtgacagcttgtaagtactgatatgcctgtgagacaaata Alignment from Pairagon GAGACTGAGATA-CCATGTGAAATTTCAGAACTCTATGACAATCCCAAAATATCTGAG atacatatgagtatcactcttttggatatgaaattcccttccctccgcagGAGACTGAGATACCCATGTGAAATTTCAGAGCTCTTTGACAATCC---AATATCTGAGgtaattgtatgtgacagcttgtaagtactgatatgcctgtgagacaaata Alignment from Exonerate_protein2genome GAGACTGAGATA-CCATGTGAAATTTCAGAACTCTATGACAATCCCAAAATATCTGAG atacatatgagtatcactcttttggatatgaaattcccttccctccgcagGAGACTGAGATACCCATGTGAAATTTCAGAGCTCTTTGACAATCCA---ATATCTGAGgtaattgtatgtgacagcttgtaagtactgatatgcctgtgagacaaata Alignment from Exonerate_coding2genome GAGACTGAGATA-CCATGTGAAATTTCAGAACTCTATGACAATCCCAAAATATCTGAG atacatatgagtatcactcttttggatatgaaattcccttccctccgcagGAGACTGAGATACCCATGTGAAATTTCAGAGCTCTTTGACAATCCA---ATATCTGAGgtaattgtatgtgacagcttgtaagtactgatatgcctgtgagacaaata Alignment from GeneWise atacatatgagtatcactcttttggatatgaaattcccttccctccgcaggagactgagatacccatgtgaaatttcagagctctttgacaatccaatatctgaggtaattgtatgtgacagcttgtaagtactgatatgcctgtgagacaaata #### Osbp_ID3347_6 --> 1 - 0 Original Alignment aCGTACTGGCAGCAATATCAGTGGGGCCAGC-AGTGATGTCAGCCTTGATGAACAG gacctagaatcctgggtatagttcttattctgccctctgctttccttcagaCGTACTGGCAGCAATATCAGTGGGCCCAGCCAGTGATGTCAGCCTTGATGAGCAAgtaagactacatcctcccgaggtgtgttatgtcctggtaaccctttacaa Alignment from CESAR aCGTACTGGCAGCAATATCAGTGGGGCCAGC-AGTGATGTCAGCCTTGATGAACAG gacctagaatcctgggtatagttcttattctgccctctgctttccttcagaCGTACTGGCAGCAATATCAGTGGGCCCAGCCAGTGATGTCAGCCTTGATGAGCAAgtaagactacatcctcccgaggtgtgttatgtcctggtaaccctttacaa Alignment from Spaln_aa2Genome ACGTACTGGCAGCAATATCAGTGGGGCCAGCAG gacctagaatcctgggtatagttcttattctgccctctgctttccttcagACGTACTGGCAGCAATATCAGTGGGCCCAGCCAgtgatgtcagccttgatgagcaagtaagactacatcctcccgaggtgtgttatgtcctggtaaccctttacaa Alignment from Spaln_nt2Genome ACGTACTGGCAGCAATATCAGTGGGGCCAG-CAGTGATGTCAGCCTTGATGAACAG gacctagaatcctgggtatagttcttattctgccctctgctttccttcagACGTACTGGCAGCAATATCAGTGGGCCCAGCCAGTGATGTCAGCCTTGATGAGCAAgtaagactacatcctcccgaggtgtgttatgtcctggtaaccctttacaa Alignment from Pairagon ACGTACTGGCAGCAATATCAGTGGGGCCAG-CAGTGATGTCAGCCTTGATGAACAG gacctagaatcctgggtatagttcttattctgccctctgctttccttcagACGTACTGGCAGCAATATCAGTGGGCCCAGCCAGTGATGTCAGCCTTGATGAGCAAgtaagactacatcctcccgaggtgtgttatgtcctggtaaccctttacaa Alignment from Exonerate_protein2genome ACGTACTGGCAGCAATATCAGTGGGGCCAGC-AGTGATGTCAGCCTTGATGAACAG gacctagaatcctgggtatagttcttattctgccctctgctttccttcagACGTACTGGCAGCAATATCAGTGGGCCCAGCCAGTGATGTCAGCCTTGATGAGCAAgtaagactacatcctcccgaggtgtgttatgtcctggtaaccctttacaa Alignment from Exonerate_coding2genome ACGTACTGGCAGCAATATCAGTGGGGCCAGC-AGTGATGTCAGCCTTGATGAACAG gacctagaatcctgggtatagttcttattctgccctctgctttccttcagACGTACTGGCAGCAATATCAGTGGGCCCAGCCAGTGATGTCAGCCTTGATGAGCAAgtaagactacatcctcccgaggtgtgttatgtcctggtaaccctttacaa Alignment from GeneWise gacctagaatcctgggtatagttcttattctgccctctgctttccttcagacgtactggcagcaatatcagtgggcccagccagtgatgtcagccttgatgagcaagtaagactacatcctcccgaggtgtgttatgtcctggtaaccctttacaa #### Otub1_ID2060_6 --> 0 - 0 Original Alignment TTCATGGACCTTATCGAGCAGGTGGAGAAGCAG-ACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAAGGAGTTCTGCCAGCAG gaccatctccatactttgtcataccatgcaaggctgacttaccttctcagTTCATGGACTTTATTGAGCGTGTGGAGAAGAAGCACCTCTGTCACTGACCTGCTAGCTTCCTTCAATGACCAAAGTACATCAGACTACCTGGTGGTCTACCTGCAGCTGTTAACCTCAGGCTATGTACAACGAAAAAGCAAGTTCTTTGAACACTACATTGAGGGTGGTCAA---------------AGTCAGGAGgtatttcctcccccagcacctgtactgaggccccccttttttttcttggt Alignment from CESAR TTCATGGACCTTATCGAGCAGGTGGAGAAGCAG-ACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAAGGAGTTCTGCCAGCAG gaccatctccatactttgtcataccatgcaaggctgacttaccttctcagTTCATGGACTTTATTGAGCGTGTGGAGAAGAAGCACCTCTGTCACTGACCTGCTAGCTTCCTTCAATGACCAAAGTACATCAGACTACCTGGTGGTCTACCTGCAGCTGTTAACCTCAGGCTATGTACAACGAAAAAGCAAGTTCTTTGAACACTACATTGAGGGTGGTCAAAGT---------------CAGGAGgtatttcctcccccagcacctgtactgaggccccccttttttttcttggt Alignment from Spaln_aa2Genome TTCATGGACCTTATCGAGCAGGTGGAGAAGCAG-ACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAAGGAGTTCTGCCAGCAG gaccatctccatactttgtcataccatgcaaggctgacttaccttctcagTTCATGGACTTTATTGAGCGTGTGGAGAAGAAGcACCTCTGTCACTGACCTGCTAGCTTCCTTCAATGACCAAAGTACATCAGACTACCTGGTGGTCTACCTGCAGCTGTTAACCTCAGGCTATGTACAACGAAAAAGCAAGTTCTTTGAACACTACATTGAGGGTGGTCAAAGTCAGGAGGTATTTCCTCCCCCAgcacctgtactgaggccccccttttttttcttggt Alignment from Spaln_nt2Genome TTCATGGACCTTATCGAGCAGGTGGAGAAGCAG-ACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAAGGAG gaccatctccatactttgtcataccatgcaaggctgacttaccttctcagTTCATGGACTTTATTGAGCGTGTGGAGAAGAAGCACCTCTGTCACTGACCTGCTAGCTTCCTTCAATGACCAAAGTACATCAGACTACCTGGTGGTCTACCTGCAGCTGTTAACCTCAGGCTATGTACAACGAAAAAGCAAGTTCTTTGAACACTACATTGAGGGTGGTCAAA---GTCAGGAGgtatttcctcccccagcacctgtactgaggccccccttttttttcttggt Alignment from Pairagon TTCATGGACCTTATCGAGCAGGTGGAGAAGCAG-ACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTG gaccatctccatactttgtcataccatgcaaggctgacttaccttctcagTTCATGGACTTTATTGAGCGTGTGGAGAAGAAGCACCTCTGTCACTGACCTGCTAGCTTCCTTCAATGACCAAAGTACATCAGACTACCTGGTGGTCTACCTGCAGCTGTTAACCTCAGGCTATGTACAACGAAAAAGCAAGTTCTTTGAACACTACATTGAGGGTGgtcaaagtcaggaggtatttcctcccccagcacctgtactgaggccccccttttttttcttggt Alignment from Exonerate_protein2genome TTCATGGACCTTATCGAGCAGGTGGAGAAGCAG-ACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAAGGAGTTCTGCCAGCAG gaccatctccatactttgtcataccatgcaaggctgacttaccttctcagTTCATGGACTTTATTGAGCGTGTGGAGAAGAAGCACCTCTGTCACTGACCTGCTAGCTTCCTTCAATGACCAAAGTACATCAGACTACCTGGTGGTCTACCTGCAGCTGTTAACCTCAGGCTATGTACAACGAAAAAGCAAGTTCTTTGAACACTACATTGAGGGTGGTCAAAGTCAGGAGGTATTTCCTCCCCCAgcacctgtactgaggccccccttttttttcttggt Alignment from Exonerate_coding2genome TTCATGGACCTTATCGAGCAGGTGGAGAAGCAG-ACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAAGGAGTTCTGCCAGCAG gaccatctccatactttgtcataccatgcaaggctgacttaccttctcagTTCATGGACTTTATTGAGCGTGTGGAGAAGAAGCACCTCTGTCACTGACCTGCTAGCTTCCTTCAATGACCAAAGTACATCAGACTACCTGGTGGTCTACCTGCAGCTGTTAACCTCAGGCTATGTACAACGAAAAAGCAAGTTCTTTGAACACTACATTGAGGGTGGTCAAAGTCAGGAGGTATTTCCTCCCCCAgcacctgtactgaggccccccttttttttcttggt Alignment from GeneWise TTCATGGACCTTATCGAGCAGGTGGAGAAG-CAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGG- gaccatctccatactttgtcataccatgcaaggctgacttaccttctcagTTCATGGACTTTATTGAGCGTGTGGAGAAGAAGCACCTCTGTCACTGACCTGCTAGCTTCCTTCAATGACCAAAGTACATCAGACTACCTGGTGGTCTACCTGCAGCTGTTAACCTCAGGCTATGTACAACGAAAAAGCAAGTTCTTTGAACACTACATTGAGGGTGGTCAAAgtcaggaggtatttcctcccccagcacctgtactgaggccccccttttttttcttggt #### Pacs1_ID877_17 --> 2 - 1 Original Alignment gtTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTA-TTCAGTCGCTCAGAGCCTCCAGTGTCAg gtatgtttggaatgagtacattgtccttttcctcagagtttctgttataggcTCACATCCAGTAGCC------ATAGGCTCTGTAGACAGCAGGTATAGCAGTACTTTTCTAGATCCTGCATCAAAAGATCTACTTCAGCCAGTCAGAGCCCCTGGTGTCAggtgaggcccatcagtagcagtttgctacctttggtactatctcctatgac Alignment from CESAR gtTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTA-TTCAGTCGCTCAGAGCCTCCAGTGTCAg gtatgtttggaatgagtacattgtccttttcctcagagtttctgttataggcTCACATCCAGTAGCC------ATAGGCTCTGTAGACAGCAGGTATAGCAGTACTTTTCTAGATCCTGCATCAAAAGATCTACTTCAGCCAGTCAGAGCCCCTGGTGTCAggtgaggcccatcagtagcagtttgctacctttggtactatctcctatgac Alignment from Spaln_aa2Genome GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTA-TTCAGTCGCTCAGAGCCTCCAGTGTCAG gtatgtttggaatgagtacattgtccttttcctcagagtttctgttatagGCTCACATCCAGTAGCC------ATAGGCTCTGTAGACAGCAGGTATAGCAGTACTTTTCTAGATCCTGCATCAAAAGATCTAcTTCAGCCAGTCAGAGCCCCTGGTGTCAGgtgaggcccatcagtagcagtttgctacctttggtactatctcctatgac Alignment from Spaln_nt2Genome GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTA-TTCAGTCGCTCAGAGCCTCCAGTGTCAG gtatgtttggaatgagtacattgtccttttcctcagagtttctgttatagGCTCACATCCAGTAGCCA------TAGGCTCTGTAGACAGCAGGTATAGCAGTACTTTTCTAGATCCTGCATCAAAAGATCTACTTCAGCCAGTCAGAGCCCCTGGTGTCAGgtgaggcccatcagtagcagtttgctacctttggtactatctcctatgac Alignment from Pairagon GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTA-TTCAGTCGCTCAGAGCCTCCAGTGTCAG gtatgtttggaatgagtacattgtccttttcctcagagtttctgttatagGCTCACATCCAGTAGCCA------TAGGCTCTGTAGACAGCAGGTATAGCAGTACTTTTCTAGATCCTGCATCAAAAGATCTACTTCAGCCAGTCAGAGCCCCTGGTGTCAGgtgaggcccatcagtagcagtttgctacctttggtactatctcctatgac Alignment from Exonerate_protein2genome GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTA-TTCAGTCGCTCAGAGCCTCCAGTGTCAG gtatgtttggaatgagtacattgtccttttcctcagagtttctgttatagGCTCACATCCAGTAGCC------ATAGGCTCTGTAGACAGCAGGTATAGCAGTACTTTTCTAGATCCTGCATCAAAAGATCTACTTCAGCCAGTCAGAGCCCCTGGTGTCAGgtgaggcccatcagtagcagtttgctacctttggtactatctcctatgac Alignment from Exonerate_coding2genome gtatgtttggaatgagtacattgtccttttcctcagagtttctgttataggctcacatccagtagccataggctctgtagacagcaggtatagcagtacttttctagatcctgcatcaaaagatctacttcagccagtcagagcccctggtgtcaggtgaggcccatcagtagcagtttgctacctttggtactatctcctatgac Alignment from GeneWise GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAG gtatgtttggaatgagtacattgtccttttcctcagagtttctgttatagGCTCACATCCAGTAGCC------ATAGGCTCTGTAGACAGCAGGTATAGCAGTACTTTTCTAGATCCTGCATCAAAAGATCTACTTCAGCCAGTCAGAGCCCCTGgtgtcaggtgaggcccatcagtagcagtttgctacctttggtactatctcctatgac #### Pacs1_ID878_16 --> 1 - 1 Original Alignment cTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTG-GGTTACATGCGCTTCCTCATCATTCCCCTAg tctctcacctaaaacatcaccctgccccacctccttttctcttttcccagtTGCAATTGCAACTCATCGATGCCAAGGCCGGTTAAAGTAGCAGCCGTGGGTAGCCAGAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACACCAGACTGGCTTCGGTTATATGCATTTCCTCATTATTCTCTTAggtaagtttacaccatgctgactgtatgtttggaatgagtacattgtcctt Alignment from CESAR cTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTG-GGTTACATGCGCTTCCTCATCATTCCCCTAg tctctcacctaaaacatcaccctgccccacctccttttctcttttcccagtTGCAATTGCAACTCATCGATGCCAAGGCCGGTTAAAGTAGCAGCCGTGGGTAGCCAGAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACACCAGACTGGCTTCGGTTATATGCATTTCCTCATTATTCTCTTAggtaagtttacaccatgctgactgtatgtttggaatgagtacattgtcctt Alignment from Spaln_aa2Genome CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTG-GGTTACATGCGCTTCCTCATCATTCCCCTAG tctctcacctaaaacatcaccctgccccacctccttttctcttttcccagTTGCAATTGCAACTCATCGATGCCAAGGCCGGTTAAAGTAGCAGCCGTGGGTAGCCAGAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACACCAGACTGGCTTcGGTTATATGCATTTCCTCATTATTCTCTTAGgtaagtttacaccatgctgactgtatgtttggaatgagtacattgtcctt Alignment from Spaln_nt2Genome CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTG-GGTTACATGCGCTTCCTCATCATTCCCCTAG tctctcacctaaaacatcaccctgccccacctccttttctcttttcccagTTGCAATTGCAACTCATCGATGCCAAGGCCGGTTAAAGTAGCAGCCGTGGGTAGCCAGAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACACCAGACTGGCTTCGGTTATATGCATTTCCTCATTATTCTCTTAGgtaagtttacaccatgctgactgtatgtttggaatgagtacattgtcctt Alignment from Pairagon CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGC-TGGGTTACATGCGCTTCCTCATCATTCCCCTAG tctctcacctaaaacatcaccctgccccacctccttttctcttttcccagTTGCAATTGCAACTCATCGATGCCAAGGCCGGTTAAAGTAGCAGCCGTGGGTAGCCAGAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACACCAGACTGGCTTCGGTTATATGCATTTCCTCATTATTCTCTTAGgtaagtttacaccatgctgactgtatgtttggaatgagtacattgtcctt Alignment from Exonerate_protein2genome CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTG-GGTTACATGCGCTTCCTCATCATTCCCCTAG tctctcacctaaaacatcaccctgccccacctccttttctcttttcccagTTGCAATTGCAACTCATCGATGCCAAGGCCGGTTAAAGTAGCAGCCGTGGGTAGCCAGAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACACCAGACTGGCTTCGGTTATATGCATTTCCTCATTATTCTCTTAGgtaagtttacaccatgctgactgtatgtttggaatgagtacattgtcctt Alignment from Exonerate_coding2genome CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTG-GGTTACATGCGCTTCCTCATCATTCCCCTAGGT tctctcacctaaaacatcaccctgccccacctccttttctcttttcccagTTGCAATTGCAACTCATCGATGCCAAGGCCGGTTAAAGTAGCAGCCGTGGGTAGCCAGAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACACCAGACTGGCTTCGGTTATATGCATTTCCTCATTATTCTCTTAGGTaagtttacaccatgctgactgtatgtttggaatgagtacattgtcctt Alignment from GeneWise CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGG-CTGGGTTACATGCGCTTCCTCATCATTCCCCTAG tctctcacctaaaacatcaccctgccccacctccttttctcttttcccagTTGCAATTGCAACTCATCGATGCCAAGGCCGGTTAAAGTAGCAGCCGTGGGTAGCCAGAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACACCAGACTGGCTTCGGTTATATGCATTTCCTCATTATTCTCTTAGgtaagtttacaccatgctgactgtatgtttggaatgagtacattgtcctt #### Pacs1_ID888_6 --> 2 - 0 Original Alignment atCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAG-GAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG actggatcttgtgaaactctcatgcagtgttattttctgtgtttacccagacCGCTCCCCAGACATCGACAATTATTCAGAGGAGGAGCGAAGAAAGCTTCTTCTCAGCGCAGGATGACACTGATGAACCACTGCATGGACAAgtgaagatttggcagtgtggcagtgtacaagttgaaacagggtgaggcac Alignment from CESAR atCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAG-GAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG actggatcttgtgaaactctcatgcagtgttattttctgtgtttacccagacCGCTCCCCAGACATCGACAATTATTCAGAGGAGGAGCGAAGAAAGCTTCTTCTCAGCGCAGGATGACACTGATGAACCACTGCATGGACAAgtgaagatttggcagtgtggcagtgtacaagttgaaacagggtgaggcac Alignment from Spaln_aa2Genome ATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAG-GAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG actggatcttgtgaaactctcatgcagtgttattttctgtgtttacccagACCGCTCCCCAGACATCGACAATTATTCAGAGGAGGAGcGAAGAAAGCTTCTTCTCAGCGCAGGATGACACTGATGAACCACTGCATGGACAAgtgaagatttggcagtgtggcagtgtacaagttgaaacagggtgaggcac Alignment from Spaln_nt2Genome ATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAG-GAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG actggatcttgtgaaactctcatgcagtgttattttctgtgtttacccagACCGCTCCCCAGACATCGACAATTATTCAGAGGAGGAGCGAAGAAAGCTTCTTCTCAGCGCAGGATGACACTGATGAACCACTGCATGGACAAgtgaagatttggcagtgtggcagtgtacaagttgaaacagggtgaggcac Alignment from Pairagon ATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAG-GAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG actggatcttgtgaaactctcatgcagtgttattttctgtgtttacccagACCGCTCCCCAGACATCGACAATTATTCAGAGGAGGAGCGAAGAAAGCTTCTTCTCAGCGCAGGATGACACTGATGAACCACTGCATGGACAAgtgaagatttggcagtgtggcagtgtacaagttgaaacagggtgaggcac Alignment from Exonerate_protein2genome ATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAG-GAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG actggatcttgtgaaactctcatgcagtgttattttctgtgtttacccagACCGCTCCCCAGACATCGACAATTATTCAGAGGAGGAGCGAAGAAAGCTTCTTCTCAGCGCAGGATGACACTGATGAACCACTGCATGGACAAgtgaagatttggcagtgtggcagtgtacaagttgaaacagggtgaggcac Alignment from Exonerate_coding2genome actggatcttgtgaaactctcatgcagtgttattttctgtgtttacccagaccgctccccagacatcgacaattattcagaggaggagcgaagaaagcttcttctcagcgcaggatgacactgatgaaccactgcatggacaagtgaagatttggcagtgtggcagtgtacaagttgaaacagggtgaggcac Alignment from GeneWise ATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAG-GAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG actggatcttgtgaaactctcatgcagtgttattttctgtgtttacccagACCGCTCCCCAGACATCGACAATTATTCAGAGGAGGAGCGAAGAAAGCTTCTTCTCAGCGCAGGATGACACTGATGAACCACTGCATGGACAAgtgaagatttggcagtgtggcagtgtacaagttgaaacagggtgaggcac #### Patl1_ID3332_17 --> 0 - 2 Original Alignment TTTGGCTTGTCACTG-CTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGtg ctgaccatgtggttccatatctgaacattttgtctttttgtttgtttaagTTTGGGTTGTCACTGCCTCTTAATCCTACTGAGCCGAGGAGAAGACCTGCAGAGCTCTGATCCAGCTATAGAACTTATGCAAAATAATCAGtggtagggtattgtagcaggccgtgtgaatcaactctgttgccttccatgtc Alignment from CESAR TTTGGCTTGTCACTG-CTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGtg ctgaccatgtggttccatatctgaacattttgtctttttgtttgtttaagTTTGGGTTGTCACTGCCTCTTAATCCTACTGAGCCGAGGAGAAGACCTGCAGAGCTCTGATCCAGCTATAGAACTTATGCAAAATAATCAGtggtagggtattgtagcaggccgtgtgaatcaactctgttgccttccatgtc Alignment from Spaln_aa2Genome TTTGGCTTGTCACTG-CTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG ctgaccatgtggttccatatctgaacattttgtctttttgtttgtttaagTTTGGGTTGTCACTGcCTCTTAATCCTACTGAGCCGAGGAGAAGACCTGCAGAGCTCTGATCCAGCTATAGAACTTATGCAAAATAATCAGTGgtagggtattgtagcaggccgtgtgaatcaactctgttgccttccatgtc Alignment from Spaln_nt2Genome TTTGGCTTGTCACTG-CTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG ctgaccatgtggttccatatctgaacattttgtctttttgtttgtttaagTTTGGGTTGTCACTGCCTCTTAATCCTACTGAGCCGAGGAGAAGACCTGCAGAGCTCTGATCCAGCTATAGAACTTATGCAAAATAATCAGTGgtagggtattgtagcaggccgtgtgaatcaactctgttgccttccatgtc Alignment from Pairagon TTTGGCTTGTCACTG-CTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG ctgaccatgtggttccatatctgaacattttgtctttttgtttgtttaagTTTGGGTTGTCACTGCCTCTTAATCCTACTGAGCCGAGGAGAAGACCTGCAGAGCTCTGATCCAGCTATAGAACTTATGCAAAATAATCAGTGgtagggtattgtagcaggccgtgtgaatcaactctgttgccttccatgtc Alignment from Exonerate_protein2genome TTTGGCTTGTCACTG-CTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG ctgaccatgtggttccatatctgaacattttgtctttttgtttgtttaagTTTGGGTTGTCACTGCCTCTTAATCCTACTGAGCCGAGGAGAAGACCTGCAGAGCTCTGATCCAGCTATAGAACTTATGCAAAATAATCAGTGgtagggtattgtagcaggccgtgtgaatcaactctgttgccttccatgtc Alignment from Exonerate_coding2genome TTTGGCTTGTCACTG-CTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG ctgaccatgtggttccatatctgaacattttgtctttttgtttgtttaagTTTGGGTTGTCACTGCCTCTTAATCCTACTGAGCCGAGGAGAAGACCTGCAGAGCTCTGATCCAGCTATAGAACTTATGCAAAATAATCAGTGgtagggtattgtagcaggccgtgtgaatcaactctgttgccttccatgtc Alignment from GeneWise GTTTGGCTTGTCACTGCTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG ctgaccatgtggttccatatctgaacattttgtctttttgtttgtttaagTTTGGGTTGTCACTGCCTCTTAATCCTACTGAGCCGAGGAGAAGACCTGCAGAGCTCTGATCCAGCTATAGAACTTATGCAAAATAATCAGTGgtagggtattgtagcaggccgtgtgaatcaactctgttgccttccatgtc #### Patl1_ID3333_18 --> 1 - 2 Original Alignment gACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAA-GCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGca ctcctagttggtgtggctctggtctgtcttttcttttccctttgttgcaggACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGATCCTGCAACGTAGCCCTTTCCAACTCAACTTCTATTCCACCAAACCTAGCATCTTTTTTATCCCGCTTTGTTGACCGACAAAAACTGAATCTGTTAGAGACCAAACTCaagtatgcattgtcacactttttctgctttgtcgggtgagaaaaactgattg Alignment from CESAR gACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAA-GCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGca ctcctagttggtgtggctctggtctgtcttttcttttccctttgttgcaggACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGATCCTGCAACGTAGCCCTTTCCAACTCAACTTCTATTCCACCAAACCTAGCATCTTTTTTATCCCGCTTTGTTGACCGACAAAAACTGAATCTGTTAGAGACCAAACTCaagtatgcattgtcacactttttctgctttgtcgggtgagaaaaactgattg Alignment from Spaln_aa2Genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAA-GCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCA ctcctagttggtgtggctctggtctgtcttttcttttccctttgttgcagGACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGATCCTGCAAcGTAGCCCTTTCCAACTCAACTTCTATTCCACCAAACCTAGCATCTTTTTTATCCCGCTTTGTTGACCGACAAAAACTGAATCTGTTAGAGACCAAACTCAAgtatgcattgtcacactttttctgctttgtcgggtgagaaaaactgattg Alignment from Spaln_nt2Genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCT-GCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCA ctcctagttggtgtggctctggtctgtcttttcttttccctttgttgcagGACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGATCCTGCAACGTAGCCCTTTCCAACTCAACTTCTATTCCACCAAACCTAGCATCTTTTTTATCCCGCTTTGTTGACCGACAAAAACTGAATCTGTTAGAGACCAAACTCAAgtatgcattgtcacactttttctgctttgtcgggtgagaaaaactgattg Alignment from Pairagon GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAA-GCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCA ctcctagttggtgtggctctggtctgtcttttcttttccctttgttgcagGACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGATCCTGCAACGTAGCCCTTTCCAACTCAACTTCTATTCCACCAAACCTAGCATCTTTTTTATCCCGCTTTGTTGACCGACAAAAACTGAATCTGTTAGAGACCAAACTCAAgtatgcattgtcacactttttctgctttgtcgggtgagaaaaactgattg Alignment from Exonerate_protein2genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAA-GCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAG ctcctagttggtgtggctctggtctgtcttttcttttccctttgttgcagGACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGATCCTGCAACGTAGCCCTTTCCAACTCAACTTCTATTCCACCAAACCTAGCATCTTTTTTATCCCGCTTTGTTGACCGACAAAAACTGAATCTGTTAGAGACCAAACTCAAGtatgcattgtcacactttttctgctttgtcgggtgagaaaaactgattg Alignment from Exonerate_coding2genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAA-GCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAG ctcctagttggtgtggctctggtctgtcttttcttttccctttgttgcagGACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGATCCTGCAACGTAGCCCTTTCCAACTCAACTTCTATTCCACCAAACCTAGCATCTTTTTTATCCCGCTTTGTTGACCGACAAAAACTGAATCTGTTAGAGACCAAACTCAAGtatgcattgtcacactttttctgctttgtcgggtgagaaaaactgattg Alignment from GeneWise GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAA-GCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAGCTGGTTCAGGGGATACGG ctcctagttggtgtggctctggtctgtcttttcttttccctttgttgcagGACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGATCCTGCAACGTAGCCCTTTCCAACTCAACTTCTATTCCACCAAACCTAGCATCTTTTTTATCCCGCTTTGTTGACCGACAAAAACTGAATCTGTTAGAGACCAAACTCAAGTATGCATTGTCACACTTTttctgctttgtcgggtgagaaaaactgattg #### Pcnxl3_ID1162_31 --> 0 - 0 Original Alignment GACCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAG-CGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG gagcaggtgtttcctttaccttggaccactgatgtttcccctcccattagGGCCATTTCACATCACCTGATGAGTATGAGGAACTAGCAGCCCTATATGACACAATTGCC---AATGAGGAGCCGGCTTGTAATTTCACATGAGAGAGACCCTGCCTGGAGGAGTGCCATCCTCGGTAACACCCCCTCTCTCCTCTTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTATAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCATAAAGgtaagccaaatttaatgatgaatagcaacctaagatgtattgatgtccct Alignment from CESAR GACCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAG-CGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG gagcaggtgtttcctttaccttggaccactgatgtttcccctcccattagGGCCATTTCACATCACCTGATGAGTATGAGGAACTAGCAGCCCTATATGACACAATT---GCCAATGAGGAGCCGGCTTGTAATTTCACATGAGAGAGACCCTGCCTGGAGGAGTGCCATCCTCGGTAACACCCCCTCTCTCCTCTTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTATAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCATAAAGgtaagccaaatttaatgatgaatagcaacctaagatgtattgatgtccct Alignment from Spaln_aa2Genome GACCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG gagcaggtgtttcctttaccttggaccactgatgtttcccctcccattagGGCCATTTCACATCACCTGATGAGTATGAGGAACTAGCAGCCCTATATGACACAATTGCCAATGAGGAGC--CGGCTTGTAATTTCACATGAGAGAGACCCTGCCTGGAGGAGTGCCATCCTCGGTAACACCCCCTCTCTCCTCTTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTATAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCATAAAGgtaagccaaatttaatgatgaatagcaacctaagatgtattgatgtccct Alignment from Spaln_nt2Genome GACCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGC-GGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG gagcaggtgtttcctttaccttggaccactgatgtttcccctcccattagGGCCATTTCACATCACCTGATGAGTATGAGGAACTAGCAGCCCTATATGACACAAT---TGCCAATGAGGAGCCGGCTTGTAATTTCACATGAGAGAGACCCTGCCTGGAGGAGTGCCATCCTCGGTAACACCCCCTCTCTCCTCTTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTATAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCATAAAGgtaagccaaatttaatgatgaatagcaacctaagatgtattgatgtccct Alignment from Pairagon ------------------------------------------------AGGACCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAG-CGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG GAGCAGGTGTTTCCTTTACCTTGGACCACTGATGTTTCCCCTCCCATTAGGGCCATTTCACATCACCTGATGAGTATGAGGAACTAGCAGCCCTATATGACACAATT---GCCAATGAGGAGCCGGCTTGTAATTTCACATGAGAGAGACCCTGCCTGGAGGAGTGCCATCCTCGGTAACACCCCCTCTCTCCTCTTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTATAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCATAAAGgtaagccaaatttaatgatgaatagcaacctaagatgtattgatgtccct Alignment from Exonerate_protein2genome GACCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAG-CGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG gagcaggtgtttcctttaccttggaccactgatgtttcccctcccattagGGCCATTTCACATCACCTGATGAGTATGAGGAACTAGCAGCCCTATATGACACAATT---GCCAATGAGGAGCCGGCTTGTAATTTCACATGAGAGAGACCCTGCCTGGAGGAGTGCCATCCTCGGTAACACCCCCTCTCTCCTCTTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTATAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCATAAAGgtaagccaaatttaatgatgaatagcaacctaagatgtattgatgtccct Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GACCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG gagcaggtgtttcctttaccttggaccactgatgtttcccctcccattagGGCCATTTCACATCACCTGATGAGTATGAGGAACTAGCAGCCCTATATGACACAATTGCCAATGAGGAGC--CGGCTTGTAATTTCACATGAGAGAGACCCTGCCTGGAGGAGTGCCATCCTCGGTAACACCCCCTCTCTCCTCTTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTATAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCATAAAGgtaagccaaatttaatgatgaatagcaacctaagatgtattgatgtccct #### Pcnxl3_ID1163_30 --> 1 - 0 Original Alignment cCTGGAGCCCTTC-CTCTATGGCCTGCACGCCCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTTCACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTT------CACCAG cctcaatgatcctttgaaatggagaagccattaccttttcctacaaacagcTTAGAGCCCTTCCCTCTATGACCTACGAGCTCTGTTTAAGGGAGATTTCAGGATCACCTCCCCCCGTGATGAGTGG---------GACATAGATTTATTGCACCAGGTTGTGGCACCAGGGGTACGTATGGCCCTAAAGCTTCATCATCATCAGgtaagtataattaatgcagtgtaggagcaggtgtttcctttaccttggac Alignment from CESAR cCTGGAGCCCTTC-CTCTATGGCCTGCACGCCCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTTCACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTT------CACCAG cctcaatgatcctttgaaatggagaagccattaccttttcctacaaacagcTTAGAGCCCTTCCCTCTATGACCTACGAGCTCTGTTTAAGGGAGATTTCAGGATCACCTCCCCCCGTGATGAGTGG---------GACATAGATTTATTGCACCAGGTTGTGGCACCAGGGGTACGTATGGCCCTAAAGCTTCATCATCATCAGgtaagtataattaatgcagtgtaggagcaggtgtttcctttaccttggac Alignment from Spaln_aa2Genome GAGCCCTTCCTCTATGGCCTGCACGCCCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTTCACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTT------CACCAG cctcaatgatcctttgaaatggagaagccattaccttttcctacaaacagcttagAGCCCTTCCCTCTATGACCTACGAGCTCTGTTTAAGGGAGATTTCAGGATCACCTCCCCCCGTGATGAGTGG---------GACATAGATTTATTGCACCAGGTTGTGGCACCAGGGGTACGTATGGCCCTAAAGCTTCATCATCATCAGgtaagtataattaatgcagtgtaggagcaggtgtttcctttaccttggac Alignment from Spaln_nt2Genome CCTGGAGCCCTTCC-TCTATGGCCTGCACGCCCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTTCACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTTCACCA------G cctcaatgatcctttgaaatggagaagccattaccttttcctacaaacagCTTAGAGCCCTTCCCTCTATGACCTACGAGCTCTGTTTAAGGGAGATTTCAGGATCACCTCCCCCCGTGATGAGTGG---------GACATAGATTTATTGCACCAGGTTGTGGCACCAGGGGTACGTATGGCCCTAAAGCTTCATCATCATCAGgtaagtataattaatgcagtgtaggagcaggtgtttcctttaccttggac Alignment from Pairagon CCTGGAGCCCTT-CCTCTATGGCCTGCACGCCCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTTCACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTTCAC----------------------------------------------------------- cctcaatgatcctttgaaatggagaagccattaccttttcctacaaacagCTTAGAGCCCTTCCCTCTATGACCTACGAGCTCTGTTTAAGGGAGATTTCAGGATCACCTCCCCCCGTGATGAGTGG---------GACATAGATTTATTGCACCAGGTTGTGGCACCAGGGGTACGTATGGCCCTAAAGCTTCATCATCATCAGGTAAGTATAATTAATGCAGTGTAGGAGCAGGTGTTTCCTTTACCTTGGAC Alignment from Exonerate_protein2genome CCTGGAGCCCTTC-CTCTATGGCCTGCACGCCCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTTCACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTT------CACCAG cctcaatgatcctttgaaatggagaagccattaccttttcctacaaacagCTTAGAGCCCTTCCCTCTATGACCTACGAGCTCTGTTTAAGGGAGATTTCAGGATCACCTCCCCCCGTGATGAGTGG---------GACATAGATTTATTGCACCAGGTTGTGGCACCAGGGGTACGTATGGCCCTAAAGCTTCATCATCATCAGgtaagtataattaatgcagtgtaggagcaggtgtttcctttaccttggac Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GAGCCCTTCCTCTATGGCCTGCACGCCCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTTCACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTT------CACCAG cctcaatgatcctttgaaatggagaagccattaccttttcctacaaacagcttagAGCCCTTCCCTCTATGACCTACGAGCTCTGTTTAAGGGAGATTTCAGGATCACCTCCCCCCGTGATGAGTGG---------GACATAGATTTATTGCACCAGGTTGTGGCACCAGGGGTACGTATGGCCCTAAAGCTTCATCATCATCAGgtaagtataattaatgcagtgtaggagcaggtgtttcctttaccttggac #### Pcnxl3_ID1164_29 --> 0 - 2 Original Alignment CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTG-CTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCag agggatgttaccctgggctctttagtaatgccacctgatcctctccccagCCTGTGGACCAGGATTGGAATTCACCATTGGTTACATCATGCTTTGGCTTGTGTGTGCTTGGGTCGCCGGGCTCTGGGCACAGCAGCGCACAGCATGTCAGCCaggtgagagcctgcaggcagctaaagaagacccaacaacccattagtagact Alignment from CESAR CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTG-CTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCag agggatgttaccctgggctctttagtaatgccacctgatcctctccccagCCTGTGGACCAGGATTGGAATTCACCATTGGTTACATCATGCTTTGGCTTGTGTGTGCTTGGGTCGCCGGGCTCTGGGCACAGCAGCGCACAGCATGTCAGCCaggtgagagcctgcaggcagctaaagaagacccaacaacccattagtagact Alignment from Spaln_aa2Genome CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGT-CGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG agggatgttaccctgggctctttagtaatgccacctgatcctctccccagCCTGTGGACCAGGATTGGAATTCACCATTGGTTACATCATGCTTTGGCTTGTGTGTGCTTGGGtCGCCGGGCTCTGGGCACAGCAGCGCACAGCATGTCAGCCAGgtgagagcctgcaggcagctaaagaagacccaacaacccattagtagact Alignment from Spaln_nt2Genome CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCT-GGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG agggatgttaccctgggctctttagtaatgccacctgatcctctccccagCCTGTGGACCAGGATTGGAATTCACCATTGGTTACATCATGCTTTGGCTTGTGTGTGCTTGGGTCGCCGGGCTCTGGGCACAGCAGCGCACAGCATGTCAGCCAGgtgagagcctgcaggcagctaaagaagacccaacaacccattagtagact Alignment from Pairagon CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGC-TGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG agggatgttaccctgggctctttagtaatgccacctgatcctctccccagCCTGTGGACCAGGATTGGAATTCACCATTGGTTACATCATGCTTTGGCTTGTGTGTGCTTGGGTCGCCGGGCTCTGGGCACAGCAGCGCACAGCATGTCAGCCAGgtgagagcctgcaggcagctaaagaagacccaacaacccattagtagact Alignment from Exonerate_protein2genome CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTG-CTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG agggatgttaccctgggctctttagtaatgccacctgatcctctccccagCCTGTGGACCAGGATTGGAATTCACCATTGGTTACATCATGCTTTGGCTTGTGTGTGCTTGGGTCGCCGGGCTCTGGGCACAGCAGCGCACAGCATGTCAGCCAGgtgagagcctgcaggcagctaaagaagacccaacaacccattagtagact Alignment from Exonerate_coding2genome agggatgttaccctgggctctttagtaatgccacctgatcctctccccagcctgtggaccaggattggaattcaccattggttacatcatgctttggcttgtgtgtgcttgggtcgccgggctctgggcacagcagcgcacagcatgtcagccaggtgagagcctgcaggcagctaaagaagacccaacaacccattagtagact Alignment from GeneWise CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGT-GTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG agggatgttaccctgggctctttagtaatgccacctgatcctctccccagCCTGTGGACCAGGATTGGAATTCACCATTGGTTACATCATGCTTTGGCTTGTGTGTGCTTGGGTCGCCGGGCTCTGGGCACAGCAGCGCACAGCATGTCAGCCAGgtgagagcctgcaggcagctaaagaagacccaacaacccattagtagact #### Pcnxl3_ID1168_25 --> 1 - 1 Original Alignment cACTAAACGTGTGGACCAT-TCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAg agcagctaactcatgtttagactatggaattctcttatcatttcttacagtACAAAACCTGTAGACCACCTCTAACACTCGGCTAGTGACACAACTGGACCGGAATCCAggtaaggtacagccagccccagtcttcaaagcaacgcaatgcacttacttc Alignment from CESAR cACTAAACGTGTGGACCAT-TCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAg agcagctaactcatgtttagactatggaattctcttatcatttcttacagtACAAAACCTGTAGACCACCTCTAACACTCGGCTAGTGACACAACTGGACCGGAATCCAggtaaggtacagccagccccagtcttcaaagcaacgcaatgcacttacttc Alignment from Spaln_aa2Genome CACTAAACGTGTGGACCAT-TCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAG agcagctaactcatgtttagactatggaattctcttatcatttcttacagTACAAAACCTGTAGACCACcTCTAACACTCGGCTAGTGACACAACTGGACCGGAATCCAGgtaaggtacagccagccccagtcttcaaagcaacgcaatgcacttacttc Alignment from Spaln_nt2Genome CACTAAACGTGTGGACCAT-TCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAG agcagctaactcatgtttagactatggaattctcttatcatttcttacagTACAAAACCTGTAGACCACCTCTAACACTCGGCTAGTGACACAACTGGACCGGAATCCAGgtaaggtacagccagccccagtcttcaaagcaacgcaatgcacttacttc Alignment from Pairagon CACTAAACGTGTGGACCA-TTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAG agcagctaactcatgtttagactatggaattctcttatcatttcttacagTACAAAACCTGTAGACCACCTCTAACACTCGGCTAGTGACACAACTGGACCGGAATCCAGgtaaggtacagccagccccagtcttcaaagcaacgcaatgcacttacttc Alignment from Exonerate_protein2genome CACTAAACGTGTGGACCAT-TCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAG agcagctaactcatgtttagactatggaattctcttatcatttcttacagTACAAAACCTGTAGACCACCTCTAACACTCGGCTAGTGACACAACTGGACCGGAATCCAGgtaaggtacagccagccccagtcttcaaagcaacgcaatgcacttacttc Alignment from Exonerate_coding2genome agcagctaactcatgtttagactatggaattctcttatcatttcttacagtacaaaacctgtagaccacctctaacactcggctagtgacacaactggaccggaatccaggtaaggtacagccagccccagtcttcaaagcaacgcaatgcacttacttc Alignment from GeneWise CACTAAACGTGTGGACCAT-TCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAG agcagctaactcatgtttagactatggaattctcttatcatttcttacagTACAAAACCTGTAGACCACCTCTAACACTCGGCTAGTGACACAACTGGACCGGAATCCAGgtaaggtacagccagccccagtcttcaaagcaacgcaatgcacttacttc #### Pcnxl3_ID1169_24 --> 2 - 2 Original Alignment acTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAAC-CCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACaa ctgtctggccagactagctgtgaagaactctgtttctgctattgttatagacTCAGCCATGTTGTTCCTCCAAGCTTTGCTCTCAGGTCTGTTCTCTACTCCACTGAATCCCTCTACTGGGTAGTGCAGTATTCATTACGTCGTACACAAGCCCCCTCAAATATTGGGAGAGAGACTACaagtatgtcagtaagaaagagcactctagttccagagatacctttagggttg Alignment from CESAR acTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCC-CTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACaa ctgtctggccagactagctgtgaagaactctgtttctgctattgttatagacTCAGCCATGTTGTTCCTCCAAGCTTTGCTCTCAGGTCTGTTCTCTACTCCACTGAATCCCTCTACTGGGTAGTGCAGTATTCATTACGTCGTACACAAGCCCCCTCAAATATTGGGAGAGAGACTACaagtatgtcagtaagaaagagcactctagttccagagatacctttagggttg Alignment from Spaln_aa2Genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCC-CTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ctgtctggccagactagctgtgaagaactctgtttctgctattgttatagACTCAGCCATGTTGTTCCTCCAAGCTTTGCTCTCAGGTCTGTTCTCTACTCCACTGAATCCCtCTACTGGGTAGTGCAGTATTCATTACGTCGTACACAAGCCCCCTCAAATATTGGGAGAGAGACTACAAgtatgtcagtaagaaagagcactctagttccagagatacctttagggttg Alignment from Spaln_nt2Genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCC-CTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ctgtctggccagactagctgtgaagaactctgtttctgctattgttatagACTCAGCCATGTTGTTCCTCCAAGCTTTGCTCTCAGGTCTGTTCTCTACTCCACTGAATCCCTCTACTGGGTAGTGCAGTATTCATTACGTCGTACACAAGCCCCCTCAAATATTGGGAGAGAGACTACAAgtatgtcagtaagaaagagcactctagttccagagatacctttagggttg Alignment from Pairagon ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAA-CCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ctgtctggccagactagctgtgaagaactctgtttctgctattgttatagACTCAGCCATGTTGTTCCTCCAAGCTTTGCTCTCAGGTCTGTTCTCTACTCCACTGAATCCCTCTACTGGGTAGTGCAGTATTCATTACGTCGTACACAAGCCCCCTCAAATATTGGGAGAGAGACTACAAgtatgtcagtaagaaagagcactctagttccagagatacctttagggttg Alignment from Exonerate_protein2genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAAC-CCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ctgtctggccagactagctgtgaagaactctgtttctgctattgttatagACTCAGCCATGTTGTTCCTCCAAGCTTTGCTCTCAGGTCTGTTCTCTACTCCACTGAATCCCTCTACTGGGTAGTGCAGTATTCATTACGTCGTACACAAGCCCCCTCAAATATTGGGAGAGAGACTACAAgtatgtcagtaagaaagagcactctagttccagagatacctttagggttg Alignment from Exonerate_coding2genome T Ctgtctggccagactagctgtgaagaactctgtttctgctattgttatagactcagccatgttgttcctccaagctttgctctcaggtctgttctctactccactgaatccctctactgggtagtgcagtattcattacgtcgtacacaagccccctcaaatattgggagagagactacaagtatgtcagtaagaaagagcactctagttccagagatacctttagggttg Alignment from GeneWise ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCC-CTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ctgtctggccagactagctgtgaagaactctgtttctgctattgttatagACTCAGCCATGTTGTTCCTCCAAGCTTTGCTCTCAGGTCTGTTCTCTACTCCACTGAATCCCTCTACTGGGTAGTGCAGTATTCATTACGTCGTACACAAGCCCCCTCAAATATTGGGAGAGAGACTACAAgtatgtcagtaagaaagagcactctagttccagagatacctttagggttg #### Pcnxl3_ID1178_15 --> 2 - 1 Original Alignment GTGGCCACTg tgTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATG-CATGGCTTTGGAGGCACAg GTGGCAACTggtgaggcacctcaagataccaagcacttgtgcatacccagtaTTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCCCAGGTCAACACCTGCCTGACGTACCTCTCGGAACAAATTGATATGCCATGGTTTTGGAGGCACAggtgaagtgtgctcagaaaggtctatgccaggaatattgcatctaccaaat Alignment from CESAR GTGGCCACTg tgTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATG-CATGGCTTTGGAGGCACAg GTGGCAACTggtgggtcacctcaagataccaagcacttgtgcatacccagtaTTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCCCAGGTCAACACCTGCCTGACGTACCTCTCGGAACAAATTGATATGCCATGGTTTTGGAGGCACAggtgaagtgtgctcagaaaggtctatgccaggaatattgcatctaccaaat Alignment from Spaln_aa2Genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATG-CATGGCTTTGGAGGCACAG GTGGCAACTGgtgaggcacctcaagataccaagcacttgtgcatacccagTATTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCCCAGGTCAACACCTGCCTGACGTACCTCTCGGAACAAATTGATATGcCATGGTTTTGGAGGCACAGgtgaagtgtgctcagaaaggtctatgccaggaatattgcatctaccaaat Alignment from Spaln_nt2Genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGC-ATGGCTTTGGAGGCACAG GTGGCAACTGgtgaggcacctcaagataccaagcacttgtgcatacccagTATTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCCCAGGTCAACACCTGCCTGACGTACCTCTCGGAACAAATTGATATGCCATGGTTTTGGAGGCACAGgtgaagtgtgctcagaaaggtctatgccaggaatattgcatctaccaaat Alignment from Pairagon GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATG-CATGGCTTTGGAGGCACAG GTGGCAACTGgtgaggcacctcaagataccaagcacttgtgcatacccagTATTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCCCAGGTCAACACCTGCCTGACGTACCTCTCGGAACAAATTGATATGCCATGGTTTTGGAGGCACAGgtgaagtgtgctcagaaaggtctatgccaggaatattgcatctaccaaat Alignment from Exonerate_protein2genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATG-CATGGCTTTGGAGGCACAG GTGGCAACTGgtgaggcacctcaagataccaagcacttgtgcatacccagTATTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCCCAGGTCAACACCTGCCTGACGTACCTCTCGGAACAAATTGATATGCCATGGTTTTGGAGGCACAGgtgaagtgtgctcagaaaggtctatgccaggaatattgcatctaccaaat Alignment from Exonerate_coding2genome gtggcaactggtgaggcacctcaagataccaagcacttgtgcatacccagtattcaccttatgctttccctttgtcttcctgctggggctcctgccccaggtcaacacctgcctgacgtacctctcggaacaaattgatatgccatggttttggaggcacaggtgaagtgtgctcagaaaggtctatgccaggaatattgcatctaccaaat Alignment from GeneWise GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGAC-ATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtgaggcacctcaagataccaagcacttgtgcatacccagTATTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCCCAGGTCAACACCTGCCTGACGTACCTCTCGGAACAAATTGATATGCCATGGTTTTGGAGGCACAGgtgaagtgtgctcagaaaggtctatgccaggaatattgcatctaccaaat #### Pcnxl3_ID1179_14 --> 0 - 1 Original Alignment GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCT-TTCTTCTTTTGTGCCCGAGATGTGGCCACTg tgTTCACCTT caataacttatagttgcttggcctatgattgctccaaattgcgtccccagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTTTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCACTTGGGACAACTCAACCCTTCCCACCTGTCTCTCTGTATGGTCTAACCCTCTTTTCTGCCTCGCTTCTTCTTTTGTGCACGAGATGTGGCAACTggtgggtcacctcaagataagtctccctgtgttcatttcagtaTTCACCTT Alignment from CESAR GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCT-TTCTTCTTTTGTGCCCGAGATGTGGCCACTg tgTTCACCTT caataacttatagttgcttggcctatgattgctccaaattgcgtccccagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTTTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCACTTGGGACAACTCAACCCTTCCCACCTGTCTCTCTGTATGGTCTAACCCTCTTTTCTGCCTCGCTTCTTCTTTTGTGCACGAGATGTGGCAACTggtgggtcacctcaagataccaagcacttgtgcatacccagtaTTCACCTT Alignment from Spaln_aa2Genome GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCT-TTCTTCTTTTGTGCCCGAGATGTGGCCACTG TGTTCACCTT caataacttatagttgcttggcctatgattgctccaaattgcgtccccagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTTTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCACTTGGGACAACTCAACCCTTCCCACCTGTCTCTCTGTATGGTCTAACCCTCTTTTCTGCCTCGcTTCTTCTTTTGTGCACGAGATGTGGCAACTGgtgggtcacctcaagataagtctccctgtgttcatttcagTATTCACCTT Alignment from Spaln_nt2Genome GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCT-TTCTTCTTTTGTGCCCGAGATGTGGCCACTG TGTTCACCTT caataacttatagttgcttggcctatgattgctccaaattgcgtccccagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTTTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCACTTGGGACAACTCAACCCTTCCCACCTGTCTCTCTGTATGGTCTAACCCTCTTTTCTGCCTCGCTTCTTCTTTTGTGCACGAGATGTGGCAACTGgtgggtcacctcaagataagtctccctgtgttcatttcagTATTCACCTT Alignment from Pairagon GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTC-TTTCTTCTTTTGTGCCCGAGATGTGGCCACTG TGTTCACCTT caataacttatagttgcttggcctatgattgctccaaattgcgtccccagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTTTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCACTTGGGACAACTCAACCCTTCCCACCTGTCTCTCTGTATGGTCTAACCCTCTTTTCTGCCTCGCTTCTTCTTTTGTGCACGAGATGTGGCAACTGgtgggtcacctcaagataagtctccctgtgttcatttcagTATTCACCTT Alignment from Exonerate_protein2genome GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCT-TTCTTCTTTTGTGCCCGAGATGTGGCCACTG TGTTCACCTT caataacttatagttgcttggcctatgattgctccaaattgcgtccccagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTTTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCACTTGGGACAACTCAACCCTTCCCACCTGTCTCTCTGTATGGTCTAACCCTCTTTTCTGCCTCGCTTCTTCTTTTGTGCACGAGATGTGGCAACTGgtgggtcacctcaagataagtctccctgtgttcatttcagTATTCACCTT Alignment from Exonerate_coding2genome GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCT-TTCTTCTTTTGTGCCCGAGATGTGGCCACTG TGTTCACCTT caataacttatagttgcttggcctatgattgctccaaattgcgtccccagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTTTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCACTTGGGACAACTCAACCCTTCCCACCTGTCTCTCTGTATGGTCTAACCCTCTTTTCTGCCTCGCTTCTTCTTTTGTGCACGAGATGTGGCAACTGgtgggtcacctcaagataagtctccctgtgttcatttcagTATTCACCTT Alignment from GeneWise GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCC-TCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTG TGTTCACCTT caataacttatagttgcttggcctatgattgctccaaattgcgtccccagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTTTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCACTTGGGACAACTCAACCCTTCCCACCTGTCTCTCTGTATGGTCTAACCCTCTTTTCTGCCTCGCTTCTTCTTTTGTGCACGAGATGTGGCAACTGgtgggtcacctcaagataagtctccctgtgttcatttcagTATTCACCTT #### Pcnxl3_ID1180_13 --> 0 - 0 Original Alignment AGCGTGCAGCCTGATGCA-GCATCCCCAATGCAC atgggcctcaatactataccccaccaactgaaaagtgttgatttttgcagAGCATTCAACCTGATGCACGCATCACCCATGCATgtaaagatgtgaagaaagtgctgctgccaactaacaggtgatctagtatg Alignment from CESAR AGCGTGCAGCCTGATGCA-GCATCCCCAATGCAC atgggcctcaatactataccccaccaactgaaaagtgttgatttttgcagAGCATTCAACCTGATGCACGCATCACCCATGCATgtaaagatgtgaagaaagtgctgctgccaactaacaggtgatctagtatg Alignment from Spaln_aa2Genome AGCGTGCAGCCTGATGCAGCATCCCCAATGCAC atgggcctcaatactataccccaccaactgaaaagtgttgatttttgcagAGCATTCAACCTGATGCACGCATC---ACCCATgcatgtaaagatgtgaagaaagtgctgctgccaactaacaggtgatctagtatg Alignment from Spaln_nt2Genome AGCGTGCAGCCTGATGCA-GCATCCCCAATGCAC atgggcctcaatactataccccaccaactgaaaagtgttgatttttgcagAGCATTCAACCTGATGCACGCATCACCCATGCATgtaaagatgtgaagaaagtgctgctgccaactaacaggtgatctagtatg Alignment from Pairagon AGCGTGCAGCCTGATGCA-GCATCCCCAATGCAC atgggcctcaatactataccccaccaactgaaaagtgttgatttttgcagAGCATTCAACCTGATGCACGCATCACCCATGCATgtaaagatgtgaagaaagtgctgctgccaactaacaggtgatctagtatg Alignment from Exonerate_protein2genome AGCGTGCAGCCTGATGCA-GCATCCCCAATGCAC atgggcctcaatactataccccaccaactgaaaagtgttgatttttgcagAGCATTCAACCTGATGCACGCATCACCCATGCATgtaaagatgtgaagaaagtgctgctgccaactaacaggtgatctagtatg Alignment from Exonerate_coding2genome atgggcctcaatactataccccaccaactgaaaagtgttgatttttgcagagcattcaacctgatgcacgcatcacccatgcatgtaaagatgtgaagaaagtgctgctgccaactaacaggtgatctagtatg Alignment from GeneWise atgggcctcaatactataccccaccaactgaaaagtgttgatttttgcagagcattcaacctgatgcacgcatcacccatgcatgtaaagatgtgaagaaagtgctgctgccaactaacaggtgatctagtatg #### Pcsk5_ID4264_19 --> 2 - 2 Original Alignment ggGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGG-TGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGag gagtatgatatgtacgaactgattgcctaaggcgtttgctttgtctctagggGCTGGAGCAGATGGATTCATAAATTGCACTGAGGGGTATGTTATGGAAGAGGGAAAACTGCGTTCAGAGTTGTAGTGTGAGTTACTACTTGGATCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAaggtgagtttatcaatggtactctacccctgacactaagtatgattcagttt Alignment from CESAR ggGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGG-TGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGag gagtatgatatgtacgaactgattgcctaaggcgtttgctttgtctctagggGCTGGAGCAGATGGATTCATAAATTGCACTGAGGGGTATGTTATGGAAGAGGGAAAACTGCGTTCAGAGTTGTAGTGTGAGTTACTACTTGGATCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAaggtgagtttatcaatggtactctacccctgacactaagtatgattcagttt Alignment from Spaln_aa2Genome GGGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGG-TGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG gagtatgatatgtacgaactgattgcctaaggcgtttgctttgtctctagGGGCTGGAGCAGATGGATTCATAAATTGCACTGAGGGGTATGTTATGGAAGAGGGAAAAcTGCGTTCAGAGTTGTAGTGTGAGTTACTACTTGGATCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAAGgtgagtttatcaatggtactctacccctgacactaagtatgattcagttt Alignment from Spaln_nt2Genome GGGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGG-TGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG gagtatgatatgtacgaactgattgcctaaggcgtttgctttgtctctagGGGCTGGAGCAGATGGATTCATAAATTGCACTGAGGGGTATGTTATGGAAGAGGGAAAACTGCGTTCAGAGTTGTAGTGTGAGTTACTACTTGGATCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAAGgtgagtttatcaatggtactctacccctgacactaagtatgattcagttt Alignment from Pairagon GGGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGG-TGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG gagtatgatatgtacgaactgattgcctaaggcgtttgctttgtctctagGGGCTGGAGCAGATGGATTCATAAATTGCACTGAGGGGTATGTTATGGAAGAGGGAAAACTGCGTTCAGAGTTGTAGTGTGAGTTACTACTTGGATCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAAGgtgagtttatcaatggtactctacccctgacactaagtatgattcagttt Alignment from Exonerate_protein2genome CTTGCTCTGGGGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGG-TGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG gagtatgatatgtacgaactgattgcctaaggcgtttgcttTGTCTCTAGGGGCTGGAGCAGATGGATTCATAAATTGCACTGAGGGGTATGTTATGGAAGAGGGAAAACTGCGTTCAGAGTTGTAGTGTGAGTTACTACTTGGATCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAAGgtgagtttatcaatggtactctacccctgacactaagtatgattcagttt Alignment from Exonerate_coding2genome CTTGCTCTGGGGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGG-TGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG gagtatgatatgtacgaactgattgcctaaggcgtttgcttTGTCTCTAGGGGCTGGAGCAGATGGATTCATAAATTGCACTGAGGGGTATGTTATGGAAGAGGGAAAACTGCGTTCAGAGTTGTAGTGTGAGTTACTACTTGGATCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAAGgtgagtttatcaatggtactctacccctgacactaagtatgattcagttt Alignment from GeneWise GGGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGA-AGGTGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG gagtatgatatgtacgaactgattgcctaaggcgtttgctttgtctctagGGGCTGGAGCAGATGGATTCATAAATTGCACTGAGGGGTATGTTATGGAAGAGGGAAAACTGCGTTCAGAGTTGTAGTGTGAGTTACTACTTGGATCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAAGgtgagtttatcaatggtactctacccctgacactaagtatgattcagttt #### Pcx_ID553_3 --> 2 - 0 Original Alignment gtGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGG-CAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggaggggggttgcttcttctgtctccccaggtGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGTATTCGGAACAGGATACAGGGCTAACGCACAGGCCAGAAAACAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtaaggaccaattacctttacaggatagagttttttgtcaagtgttctgt Alignment from CESAR gtGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGG-CAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggaggggggttgcttcttctgtctccccaggtGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGTATTCGGAACAGGATACAGGGCTAACGCACAGGCCAGAAAACAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtaaggaccaattacctttacaggatagagttttttgtcaagtgttctgt Alignment from Spaln_aa2Genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGG-CAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggaggggggttgcttcttctgtctccccagGTGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGTATTCGGAACAGGATACAGGGCTAACGCACAGGcCAGAAAACAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtaaggaccaattacctttacaggatagagttttttgtcaagtgttctgt Alignment from Spaln_nt2Genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGC-AGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggaggggggttgcttcttctgtctccccagGTGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGTATTCGGAACAGGATACAGGGCTAACGCACAGGCCAGAAAACAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtaaggaccaattacctttacaggatagagttttttgtcaagtgttctgt Alignment from Pairagon GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGG-CAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggaggggggttgcttcttctgtctccccagGTGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGTATTCGGAACAGGATACAGGGCTAACGCACAGGCCAGAAAACAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtaaggaccaattacctttacaggatagagttttttgtcaagtgttctgt Alignment from Exonerate_protein2genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGG-CAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggaggggggttgcttcttctgtctccccagGTGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGTATTCGGAACAGGATACAGGGCTAACGCACAGGCCAGAAAACAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtaaggaccaattacctttacaggatagagttttttgtcaagtgttctgt Alignment from Exonerate_coding2genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGG-CAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggaggggggttgcttcttctgtctccccagGTGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGTATTCGGAACAGGATACAGGGCTAACGCACAGGCCAGAAAACAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtaaggaccaattacctttacaggatagagttttttgtcaagtgttctgt Alignment from GeneWise GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGG-CAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggaggggggttgcttcttctgtctccccagGTGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGTATTCGGAACAGGATACAGGGCTAACGCACAGGCCAGAAAACAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtaaggaccaattacctttacaggatagagttttttgtcaagtgttctgt #### Pcx_ID555_5 --> 2 - 0 Original Alignment gcGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATG-CGGGTCGTGCATAGCTATGAG aacttgaaccagaagtacaggtgttttggtctctgtttgcttttccctaggtGCCCCGGTAGTTCCTGGAACAGAGTCCCCCATCAGCTCCCTATATGAAGCCCATGAGTTCTCCAACACCTATGATCCTCCCTTTATTTTCAATGCAGCTTATGGAGATGGAGGTCATGATATGCAGGGTTGTGCAGAGCTATGAGgtgagtggggcagcatagggtaaggtggtcatggcagggccagtctttag Alignment from CESAR gcGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATG-CGGGTCGTGCATAGCTATGAG aacttgaaccagaagtacaggtgttttggtctctgtttgcttttccctaggtGCCCCGGTAGTTCCTGGAACAGAGTCCCCCATCAGCTCCCTATATGAAGCCCATGAGTTCTCCAACACCTATGATCCTCCCTTTATTTTCAATGCAGCTTATGGAGATGGAGGTCATGATATGCAGGGTTGTGCAGAGCTATGAGgtgagtggggcagcatagggtaaggtggtcatggcagggccagtctttag Alignment from Spaln_aa2Genome GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATG-CGGGTCGTGCATAGCTATGAG aacttgaaccagaagtacaggtgttttggtctctgtttgcttttccctagGTGCCCCGGTAGTTCCTGGAACAGAGTCCCCCATCAGCTCCCTATATGAAGCCCATGAGTTCTCCAACACCTATGATCCTCCCTTTATTTTCAATGCAGCTTATGGAGATGGAGGTCATGATATGcAGGGTTGTGCAGAGCTATGAGgtgagtggggcagcatagggtaaggtggtcatggcagggccagtctttag Alignment from Spaln_nt2Genome GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGC-GGGTCGTGCATAGCTATGAG aacttgaaccagaagtacaggtgttttggtctctgtttgcttttccctagGTGCCCCGGTAGTTCCTGGAACAGAGTCCCCCATCAGCTCCCTATATGAAGCCCATGAGTTCTCCAACACCTATGATCCTCCCTTTATTTTCAATGCAGCTTATGGAGATGGAGGTCATGATATGCAGGGTTGTGCAGAGCTATGAGgtgagtggggcagcatagggtaaggtggtcatggcagggccagtctttag Alignment from Pairagon GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGC-GGGTCGTGCATAGCTATGAG aacttgaaccagaagtacaggtgttttggtctctgtttgcttttccctagGTGCCCCGGTAGTTCCTGGAACAGAGTCCCCCATCAGCTCCCTATATGAAGCCCATGAGTTCTCCAACACCTATGATCCTCCCTTTATTTTCAATGCAGCTTATGGAGATGGAGGTCATGATATGCAGGGTTGTGCAGAGCTATGAGgtgagtggggcagcatagggtaaggtggtcatggcagggccagtctttag Alignment from Exonerate_protein2genome GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATG-CGGGTCGTGCATAGCTATGAG aacttgaaccagaagtacaggtgttttggtctctgtttgcttttccctagGTGCCCCGGTAGTTCCTGGAACAGAGTCCCCCATCAGCTCCCTATATGAAGCCCATGAGTTCTCCAACACCTATGATCCTCCCTTTATTTTCAATGCAGCTTATGGAGATGGAGGTCATGATATGCAGGGTTGTGCAGAGCTATGAGgtgagtggggcagcatagggtaaggtggtcatggcagggccagtctttag Alignment from Exonerate_coding2genome GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATG-CGGGTCGTGCATAGCTATGAG aacttgaaccagaagtacaggtgttttggtctctgtttgcttttccctagGTGCCCCGGTAGTTCCTGGAACAGAGTCCCCCATCAGCTCCCTATATGAAGCCCATGAGTTCTCCAACACCTATGATCCTCCCTTTATTTTCAATGCAGCTTATGGAGATGGAGGTCATGATATGCAGGGTTGTGCAGAGCTATGAGgtgagtggggcagcatagggtaaggtggtcatggcagggccagtctttag Alignment from GeneWise GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGC-GGCATGCGGGTCGTGCATAGCTATGAG aacttgaaccagaagtacaggtgttttggtctctgtttgcttttccctagGTGCCCCGGTAGTTCCTGGAACAGAGTCCCCCATCAGCTCCCTATATGAAGCCCATGAGTTCTCCAACACCTATGATCCTCCCTTTATTTTCAATGCAGCTTATGGAGATGGAGGTCATGATATGCAGGGTTGTGCAGAGCTATGAGgtgagtggggcagcatagggtaaggtggtcatggcagggccagtctttag #### Pcx_ID565_14 --> 1 - 0 Original Alignment gTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATC-CTGTGCATTAAG tgtgggaaaatctatagatcatgtcaatctgctttgctgtgtatttacaggTTCTGTGAAGTGGCCAAAGAGAATGACATGGATGTATTTCGTGTCTTCGACTCCCTCAACTATTTACCAAACATGCTGCTTGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATATCTTACACTGGTGAAGTAGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAGCTGGATCTCACATTCTTGTGTATTAGGgtaagtaggctattaggtgtgtctccatctttggatcatagctgaggatt Alignment from CESAR gTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATC-CTGTGCATTAAG tgtgggaaaatctatagatcatgtcaatctgctttgctgtgtatttacaggTTCTGTGAAGTGGCCAAAGAGAATGACATGGATGTATTTCGTGTCTTCGACTCCCTCAACTATTTACCAAACATGCTGCTTGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATATCTTACACTGGTGAAGTAGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAGCTGGATCTCACATTCTTGTGTATTAGGgtaagtaggctattaggtgtgtctccatctttggatcatagctgaggatc Alignment from Spaln_aa2Genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATC-CTGTGCATTAAG tgtgggaaaatctatagatcatgtcaatctgctttgctgtgtatttacagGTTCTGTGAAGTGGCCAAAGAGAATGACATGGATGTATTTCGTGTCTTCGACTCCCTCAACTATTTACCAAACATGCTGCTTGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATATCTTACACTGGTGAAGTAGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAGCTGGATCTCACATTcTTGTGTATTAGGgtaagtaggctattaggtgtgtctccatctttggatcatagctgaggatt Alignment from Spaln_nt2Genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCT-GTGCATTAAG tgtgggaaaatctatagatcatgtcaatctgctttgctgtgtatttacagGTTCTGTGAAGTGGCCAAAGAGAATGACATGGATGTATTTCGTGTCTTCGACTCCCTCAACTATTTACCAAACATGCTGCTTGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATATCTTACACTGGTGAAGTAGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAGCTGGATCTCACATTCTTGTGTATTAGGgtaagtaggctattaggtgtgtctccatctttggatcatagctgaggatt Alignment from Pairagon GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACA-TCCTGTGCATTAAG tgtgggaaaatctatagatcatgtcaatctgctttgctgtgtatttacagGTTCTGTGAAGTGGCCAAAGAGAATGACATGGATGTATTTCGTGTCTTCGACTCCCTCAACTATTTACCAAACATGCTGCTTGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATATCTTACACTGGTGAAGTAGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAGCTGGATCTCACATTCTTGTGTATTAGGgtaagtaggctattaggtgtgtctccatctttggatcatagctgaggatt Alignment from Exonerate_protein2genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATC-CTGTGCATTAAG tgtgggaaaatctatagatcatgtcaatctgctttgctgtgtatttacagGTTCTGTGAAGTGGCCAAAGAGAATGACATGGATGTATTTCGTGTCTTCGACTCCCTCAACTATTTACCAAACATGCTGCTTGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATATCTTACACTGGTGAAGTAGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAGCTGGATCTCACATTCTTGTGTATTAGGgtaagtaggctattaggtgtgtctccatctttggatcatagctgaggatt Alignment from Exonerate_coding2genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATC-CTGTGCATTAAG tgtgggaaaatctatagatcatgtcaatctgctttgctgtgtatttacagGTTCTGTGAAGTGGCCAAAGAGAATGACATGGATGTATTTCGTGTCTTCGACTCCCTCAACTATTTACCAAACATGCTGCTTGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATATCTTACACTGGTGAAGTAGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAGCTGGATCTCACATTCTTGTGTATTAGGgtaagtaggctattaggtgtgtctccatctttggatcatagctgaggatt Alignment from GeneWise GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTG tgtgggaaaatctatagatcatgtcaatctgctttgctgtgtatttacagGTTCTGTGAAGTGGCCAAAGAGAATGACATGGATGTATTTCGTGTCTTCGACTCCCTCAACTATTTACCAAACATGCTGCTTGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATATCTTACACTGGTGAAGTAGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAGCTGGATCTCACATTCTTgtgtattagggtaagtaggctattaggtgtgtctccatctttggatcatagctgaggatt #### Pcx_ID566_15 --> 0 - 1 Original Alignment GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACC-CATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAg tctccatctttggatcatagctgaggatccatctcttgtgtcacctctagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGCTCCCTGTGGGACCGATCACCTGACCTTCCTCTTCACATCCATACCCCACGATACTTTAGGAGCAGGTGTTGCAGCCACCCTAGCTTGCTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCATTAGTAACCTGCACAAAGGGGACTCCCTCTGAAACAggtaccgaagaagagttgctacaataacataatactactcccatctaatgg Alignment from CESAR GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACC-CATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAg tctccatctttggatcatagctgaggatccatctcttgtgtcacctctagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGCTCCCTGTGGGACCGATCACCTGACCTTCCTCTTCACATCCATACCCCACGATACTTTAGGAGCAGGTGTTGCAGCCACCCTAGCTTGCTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCATTAGTAACCTGCACAAAGGGGACTCCCTCTGAAACAggtaccgaagaagagttgctacaataacataatactactcccatctaatgg Alignment from Spaln_aa2Genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACC-CATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGAC---GTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG tctccatctttggatcatagctgaggatccatctcttgtgtcacctctagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGCTCCCTGTGGGACCGATCACCTGACCTTCCTCTTCACATCCATACCcCACGATACTTTAGGAGCAGGTGTTGCAGCCACCCTAGCTTGCTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCATTAGTAACCTGCACAAAGGGGACTCCCTCTGAAACAGgtaccgaagaagagttgctacaataacataatactactcccatctaatgg Alignment from Spaln_nt2Genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATA-CCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGAC---GTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG tctccatctttggatcatagctgaggatccatctcttgtgtcacctctagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGCTCCCTGTGGGACCGATCACCTGACCTTCCTCTTCACATCCATACCCCACGATACTTTAGGAGCAGGTGTTGCAGCCACCCTAGCTTGCTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCATTAGTAACCTGCACAAAGGGGACTCCCTCTGAAACAGgtaccgaagaagagttgctacaataacataatactactcccatctaatgg Alignment from Pairagon GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATA-CCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG tctccatctttggatcatagctgaggatccatctcttgtgtcacctctagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGCTCCCTGTGGGACCGATCACCTGACCTTCCTCTTCACATCCATACCCCACGATACTTTAGGAGCAGGTGTTGCAGCCACCCTAGCTTGCTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCATTAGTAACCTGCACAAAGGGGACTCCCTCTGAAACAGgtaccgaagaagagttgctacaataacataatactactcccatctaatgg Alignment from Exonerate_protein2genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACC-CATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGAC---GTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG tctccatctttggatcatagctgaggatccatctcttgtgtcacctctagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGCTCCCTGTGGGACCGATCACCTGACCTTCCTCTTCACATCCATACCCCACGATACTTTAGGAGCAGGTGTTGCAGCCACCCTAGCTTGCTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCATTAGTAACCTGCACAAAGGGGACTCCCTCTGAAACAGgtaccgaagaagagttgctacaataacataatactactcccatctaatgg Alignment from Exonerate_coding2genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACC-CATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGAC---GTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG tctccatctttggatcatagctgaggatccatctcttgtgtcacctctagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGCTCCCTGTGGGACCGATCACCTGACCTTCCTCTTCACATCCATACCCCACGATACTTTAGGAGCAGGTGTTGCAGCCACCCTAGCTTGCTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCATTAGTAACCTGCACAAAGGGGACTCCCTCTGAAACAGgtaccgaagaagagttgctacaataacataatactactcccatctaatgg Alignment from GeneWise GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCAT-ACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG tctccatctttggatcatagctgaggatccatctcttgtgtcacctctagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGCTCCCTGTGGGACCGATCACCTGACCTTCCTCTTCACATCCATACCCCACGATACTTTAGGAGCAGGTGTTGCAGCCACCCTAGCTTGCTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCATTAGTAACCTGCACAAAGGGGACTCCCTCTGAAACAGgtaccgaagaagagttgctacaataacataatactactcccatctaatgg #### Pcx_ID568_17 --> 0 - 0 Original Alignment GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGC-CGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctggtgcacttgcagaagccttgctttattctgtttgctttagGTAAAGCCATCTTCCAAGATCTTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCCGGACTGAAACAGAAGCTCAAGCAGAGGAGCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGGGACATATTGGTATCCCACAAGGAGGCTTCCCCAAGCCATTTCATTCTAAAgtagattaggttgatgtgggtgtaaatcagtcttttaattccctttttcc Alignment from CESAR GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGC-CGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctggtgcacttgcagaagccttgctttattctgtttgctttagGTAAAGCCATCTTCCAAGATCTTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCCGGACTGAAACAGAAGCTCAAGCAGAGGAGCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGGGACATATTGGTATCCCACAAGGAGGCTTCCCCAAGCCATTTCATTCTAAAgtagattaggttgatgtgggtgtaaatcagtctttctgtggtggatgtgt Alignment from Spaln_aa2Genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGC-CGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctggtgcacttgcagaagccttgctttattctgtttgctttagGTAAAGCCATCTTCCAAGATCTTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTcCGGACTGAAACAGAAGCTCAAGCAGAGGAGCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGGGACATATTGGTATCCCACAAGGAGGCTTCCCCAAGCCATTTCATTCTAAAgtagattaggttgatgtgggtgtaaatcagtcttttaattccctttttcc Alignment from Spaln_nt2Genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAG-CCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctggtgcacttgcagaagccttgctttattctgtttgctttagGTAAAGCCATCTTCCAAGATCTTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCCGGACTGAAACAGAAGCTCAAGCAGAGGAGCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGGGACATATTGGTATCCCACAAGGAGGCTTCCCCAAGCCATTTCATTCTAAAgtagattaggttgatgtgggtgtaaatcagtcttttaattccctttttcc Alignment from Pairagon GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAG-CCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTA---------------------------------------------------- tacttctctggtgcacttgcagaagccttgctttattctgtttgctttagGTAAAGCCATCTTCCAAGATCTTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCCGGACTGAAACAGAAGCTCAAGCAGAGGAGCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGGGACATATTGGTATCCCACAAGGAGGCTTCCCCAAGCCATTTCATTCTAAAGTAGATTAGGTTGATGTGGGTGTAAATCAGTCTTTTAATTCCCTTTTTCC Alignment from Exonerate_protein2genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGC-CGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctggtgcacttgcagaagccttgctttattctgtttgctttagGTAAAGCCATCTTCCAAGATCTTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCCGGACTGAAACAGAAGCTCAAGCAGAGGAGCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGGGACATATTGGTATCCCACAAGGAGGCTTCCCCAAGCCATTTCATTCTAAAgtagattaggttgatgtgggtgtaaatcagtcttttaattccctttttcc Alignment from Exonerate_coding2genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGC-CGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctggtgcacttgcagaagccttgctttattctgtttgctttagGTAAAGCCATCTTCCAAGATCTTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCCGGACTGAAACAGAAGCTCAAGCAGAGGAGCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGGGACATATTGGTATCCCACAAGGAGGCTTCCCCAAGCCATTTCATTCTAAAgtagattaggttgatgtgggtgtaaatcagtcttttaattccctttttcc Alignment from GeneWise GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTG-AGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctggtgcacttgcagaagccttgctttattctgtttgctttagGTAAAGCCATCTTCCAAGATCTTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCCGGACTGAAACAGAAGCTCAAGCAGAGGAGCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGGGACATATTGGTATCCCACAAGGAGGCTTCCCCAAGCCATTTCATTCTAAAgtagattaggttgatgtgggtgtaaatcagtcttttaattccctttttcc #### Pcx_ID570_19 --> 0 - 0 Original Alignment GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCC-CTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG GAGATGCA gaacatcatgcacccaattttgaaggagagctcaactgtatttctcccagGTTAAGCTAGAACAAGGAAAAACACTGCACATTAAAGCACTTAGCTATAAGTGACCTGAACCGCACTGGCCAGAGACAGGTGTTTTTTGAACTCAATGGCCAGCTTCGATCAATTTTGGTCAAAGACACGCAGGCCATGAAGgtaagaccaagtttgatttgtgtcttgtgtgttttcttgcagGAAATGCA Alignment from CESAR GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTG-GCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG GAGATGCA gaacatcatgcacccaattttgaaggagagctcaactgtatttctcccagGTTAAGCTAGAACAAGGAAAAACACTGCACATTAAAGCACTTAGCTATAAGTGACCTGAACCGCACTGGCCAGAGACAGGTGTTTTTTGAACTCAATGGCCAGCTTCGATCAATTTTGGTCAAAGACACGCAGGCCATGAAGgtaagaccaagtttgatttgatccccctaccactccccgcagGAAATGCA Alignment from Spaln_aa2Genome GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCC-CTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG GAGATGCA gaacatcatgcacccaattttgaaggagagctcaactgtatttctcccagGTTAAGCTAGAACAAGGAAAAACACTGCACATTAAAGCAcTTAGCTATAAGTGACCTGAACCGCACTGGCCAGAGACAGGTGTTTTTTGAACTCAATGGCCAGCTTCGATCAATTTTGGTCAAAGACACGCAGGCCATGAAGgtaagaccaagtttgatttgtgtcttgtgtgttttcttgcagGAAATGCA Alignment from Spaln_nt2Genome GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTG-GCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG GAGATGCA gaacatcatgcacccaattttgaaggagagctcaactgtatttctcccagGTTAAGCTAGAACAAGGAAAAACACTGCACATTAAAGCACTTAGCTATAAGTGACCTGAACCGCACTGGCCAGAGACAGGTGTTTTTTGAACTCAATGGCCAGCTTCGATCAATTTTGGTCAAAGACACGCAGGCCATGAAGgtaagaccaagtttgatttgtgtcttgtgtgttttcttgcagGAAATGCA Alignment from Pairagon GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGC-CCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG GAGATGCA gaacatcatgcacccaattttgaaggagagctcaactgtatttctcccagGTTAAGCTAGAACAAGGAAAAACACTGCACATTAAAGCACTTAGCTATAAGTGACCTGAACCGCACTGGCCAGAGACAGGTGTTTTTTGAACTCAATGGCCAGCTTCGATCAATTTTGGTCAAAGACACGCAGGCCATGAAGgtaagaccaagtttgatttgtgtcttgtgtgttttcttgcagGAAATGCA Alignment from Exonerate_protein2genome GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCC-CTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG GAGATGCA gaacatcatgcacccaattttgaaggagagctcaactgtatttctcccagGTTAAGCTAGAACAAGGAAAAACACTGCACATTAAAGCACTTAGCTATAAGTGACCTGAACCGCACTGGCCAGAGACAGGTGTTTTTTGAACTCAATGGCCAGCTTCGATCAATTTTGGTCAAAGACACGCAGGCCATGAAGgtaagaccaagtttgatttgtgtcttgtgtgttttcttgcagGAAATGCA Alignment from Exonerate_coding2genome GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCC-CTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG GAGATGCA gaacatcatgcacccaattttgaaggagagctcaactgtatttctcccagGTTAAGCTAGAACAAGGAAAAACACTGCACATTAAAGCACTTAGCTATAAGTGACCTGAACCGCACTGGCCAGAGACAGGTGTTTTTTGAACTCAATGGCCAGCTTCGATCAATTTTGGTCAAAGACACGCAGGCCATGAAGgtaagaccaagtttgatttgtgtcttgtgtgttttcttgcagGAAATGCA Alignment from GeneWise GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTG-GCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG------------------------------------------GAGATGCA gaacatcatgcacccaattttgaaggagagctcaactgtatttctcccagGTTAAGCTAGAACAAGGAAAAACACTGCACATTAAAGCACTTAGCTATAAGTGACCTGAACCGCACTGGCCAGAGACAGGTGTTTTTTGAACTCAATGGCCAGCTTCGATCAATTTTGGTCAAAGACACGCAGGCCATGAAGGTAAGACCAAGTTTGATTTGTGTCTTGTGTGTTTTCTTGCAGGAAATGCA #### Pdcd11_ID10111_5 --> 0 - 1 Original Alignment CTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGCTACCTAGTGGACATT-GGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAg catgtcttctgttagaaacatccaaaagtccctttctcctctgtctccagCTCCTGACAGGAACAGTTTCTAGCCTCGAAGACCATGGCTACCTTGTGGGCATTCGGTGTTGGCGCAACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGAGTACACTCGACAGAAGAACAAAggtatggcatcataaccttagtccttgtgtttcgggttagtagttcttatt Alignment from CESAR CTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGCTACCTAGTGGACATT-GGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAg catgtcttctgttagaaacatccaaaagtccctttctcctctgtctccagCTCCTGACAGGAACAGTTTCTAGCCTCGAAGACCATGGCTACCTTGTGGGCATTCGGTGTTGGCGCAACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGAGTACACTCGACAGAAGAACAAAggtatggcatcataaccttagtccttgtgtttcgggttagtagttcttatt Alignment from Spaln_aa2Genome CTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGCTACCTAGTGGACATT-GGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAG catgtcttctgttagaaacatccaaaagtccctttctcctctgtctccagCTCCTGACAGGAACAGTTTCTAGCCTCGAAGACCATGGCTACCTTGTGGGCATTcGGTGTTGGCGCAACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGAGTACACTCGACAGAAGAACAAAGgtatggcatcataaccttagtccttgtgtttcgggttagtagttcttatt Alignment from Spaln_nt2Genome CATGCTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGCTACCTAGTGGACATT-GGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAG catgtcttctgttagaaacatccaaaagtccctttctcctctgtctccag----CTCCTGACAGGAACAGTTTCTAGCCTCGAAGACCATGGCTACCTTGTGGGCATTCGGTGTTGGCGCAACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGAGTACACTCGACAGAAGAACAAAGgtatggcatcataaccttagtccttgtgtttcgggttagtagttcttatt Alignment from Pairagon CTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGCTACCTAGTGGACATT-GGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAG catgtcttctgttagaaacatccaaaagtccctttctcctctgtctccagCTCCTGACAGGAACAGTTTCTAGCCTCGAAGACCATGGCTACCTTGTGGGCATTCGGTGTTGGCGCAACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGAGTACACTCGACAGAAGAACAAAGgtatggcatcataaccttagtccttgtgtttcgggttagtagttcttatt Alignment from Exonerate_protein2genome CTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGCTACCTAGTGGACATT-GGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAG catgtcttctgttagaaacatccaaaagtccctttctcctctgtctccagCTCCTGACAGGAACAGTTTCTAGCCTCGAAGACCATGGCTACCTTGTGGGCATTCGGTGTTGGCGCAACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGAGTACACTCGACAGAAGAACAAAGgtatggcatcataaccttagtccttgtgtttcgggttagtagttcttatt Alignment from Exonerate_coding2genome catgtcttctgttagaaacatccaaaagtccctttctcctctgtctccagctcctgacaggaacagtttctagcctcgaagaccatggctaccttgtgggcattcggtgttggcgcaactagagcctttctattactgaagaaggcacaagagtacactcgacagaagaacaaaggtatggcatcataaccttagtccttgtgtttcgggttagtagttcttatt Alignment from GeneWise CTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGCTACCTAGTG-GACATTGGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAG catgtcttctgttagaaacatccaaaagtccctttctcctctgtctccagCTCCTGACAGGAACAGTTTCTAGCCTCGAAGACCATGGCTACCTTGTGGGCATTCGGTGTTGGCGCAACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGAGTACACTCGACAGAAGAACAAAGgtatggcatcataaccttagtccttgtgtttcgggttagtagttcttatt #### Pdcd11_ID10112_6 --> 2 - 0 Original Alignment gtGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTT-GTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG aggatctgcttggcatctggtgacaccaagaacccctttactttcattaggtGCTAAGTTCAAAGTTGGCCAATATCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGTGGTGTTCGTGAGTCTCTCTGTGGATCGCTCTGTGATCTCATTAGTCTTTACAACAGAAGACCAAAGTTGGAACCTCAATAACTTACTACCAGGATTACTAGTTAAAGCCCAAGTACAGAAGgtgaggtcctcactaacgaatgggaaatgggagaggagagagtagagtca Alignment from CESAR gtGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTT-GTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG aggatctgcttggcatctggtgacaccaagaacccctttactttcattaggtGCTAAGTTCAAAGTTGGCCAATATCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGTGGTGTTCGTGAGTCTCTCTGTGGATCGCTCTGTGATCTCATTAGTCTTTACAACAGAAGACCAAAGTTGGAACCTCAATAACTTACTACCAGGATTACTAGTTAAAGCCCAAGTACAGAAGgtgaggtcctcactaacgaatgggaaatgggagaggagagagtagagtca Alignment from Spaln_aa2Genome GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTT-GTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG aggatctgcttggcatctggtgacaccaagaacccctttactttcattagGTGCTAAGTTCAAAGTTGGCCAATATCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGTGGTGTTcGTGAGTCTCTCTGTGGATCGCTCTGTGATCTCATTAGTCTTTACAACAGAAGACCAAAGTTGGAACCTCAATAACTTACTACCAGGATTACTAGTTAAAGCCCAAGTACAGAAGgtgaggtcctcactaacgaatgggaaatgggagaggagagagtagagtca Alignment from Spaln_nt2Genome GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTT-GTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG aggatctgcttggcatctggtgacaccaagaacccctttactttcattagGTGCTAAGTTCAAAGTTGGCCAATATCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGTGGTGTTCGTGAGTCTCTCTGTGGATCGCTCTGTGATCTCATTAGTCTTTACAACAGAAGACCAAAGTTGGAACCTCAATAACTTACTACCAGGATTACTAGTTAAAGCCCAAGTACAGAAGgtgaggtcctcactaacgaatgggaaatgggagaggagagagtagagtca Alignment from Pairagon GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTT-GTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG aggatctgcttggcatctggtgacaccaagaacccctttactttcattagGTGCTAAGTTCAAAGTTGGCCAATATCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGTGGTGTTCGTGAGTCTCTCTGTGGATCGCTCTGTGATCTCATTAGTCTTTACAACAGAAGACCAAAGTTGGAACCTCAATAACTTACTACCAGGATTACTAGTTAAAGCCCAAGTACAGAAGgtgaggtcctcactaacgaatgggaaatgggagaggagagagtagagtca Alignment from Exonerate_protein2genome GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTT-GTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG aggatctgcttggcatctggtgacaccaagaacccctttactttcattagGTGCTAAGTTCAAAGTTGGCCAATATCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGTGGTGTTCGTGAGTCTCTCTGTGGATCGCTCTGTGATCTCATTAGTCTTTACAACAGAAGACCAAAGTTGGAACCTCAATAACTTACTACCAGGATTACTAGTTAAAGCCCAAGTACAGAAGgtgaggtcctcactaacgaatgggaaatgggagaggagagagtagagtca Alignment from Exonerate_coding2genome aggatctgcttggcatctggtgacaccaagaacccctttactttcattaggtgctaagttcaaagttggccaatatctaacttgtgtagtcaaggaggtgaagagtaatggtggtgttcgtgagtctctctgtggatcgctctgtgatctcattagtctttacaacagaagaccaaagttggaacctcaataacttactaccaggattactagttaaagcccaagtacagaaggtgaggtcctcactaacgaatgggaaatgggagaggagagagtagagtca Alignment from GeneWise GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTT-GTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG aggatctgcttggcatctggtgacaccaagaacccctttactttcattagGTGCTAAGTTCAAAGTTGGCCAATATCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGTGGTGTTCGTGAGTCTCTCTGTGGATCGCTCTGTGATCTCATTAGTCTTTACAACAGAAGACCAAAGTTGGAACCTCAATAACTTACTACCAGGATTACTAGTTAAAGCCCAAGTACAGAAGgtgaggtcctcactaacgaatgggaaatgggagaggagagagtagagtca #### Pdcd11_ID10115_9 --> 0 - 2 Original Alignment GTCAGCCATCTCTCT-GATTCTAAGAAAGCATTCAACGCTGAGGCCTTCAAACCGGGGAGCACTCACAAGTGTAGAATCATTGACTACAGCCAGATGGATGAGCTGGCCTTGCTCTCTCTGCGGaa caaatgaaccaaatgaacagctttactcactcttactgactgacccacagGTAAGCCATCTCTCTCGATTCTAAAAAAGCATTCAATGCCGAGGCCCTGAAACCAGGGAGCACTCATGAGTGTAGGATCATTGACTTTAGCCAGATGGATGAGCTGGCCCTGCTCTCACTGCGGaagtaagtgccatctaccacacatgtgcatgtgctagttgcagtgtctttaa Alignment from CESAR GTCAGCCATCTCTCT-GATTCTAAGAAAGCATTCAACGCTGAGGCCTTCAAACCGGGGAGCACTCACAAGTGTAGAATCATTGACTACAGCCAGATGGATGAGCTGGCCTTGCTCTCTCTGCGGaa caaatgaaccaaatgaacagctttactcactcttactgactgacccacagGTAAGCCATCTCTCTCGATTCTAAAAAAGCATTCAATGCCGAGGCCCTGAAACCAGGGAGCACTCATGAGTGTAGGATCATTGACTTTAGCCAGATGGATGAGCTGGCCCTGCTCTCACTGCGGaagtaagtgccatctaccacacatgtgcatgtgctagttgcagtgtctttaa Alignment from Spaln_aa2Genome GTCAGCCATCTCTCT-GATTCTAAGAAAGCATTCAACGCTGAGGCCTTCAAACCGGGGAGCACTCACAAGTGTAGAATCATTGACTACAGCCAGATGGATGAGCTGGCCTTGCTCTCTCTGCGGAA caaatgaaccaaatgaacagctttactcactcttactgactgacccacagGTAAGCCATCTCTCTcGATTCTAAAAAAGCATTCAATGCCGAGGCCCTGAAACCAGGGAGCACTCATGAGTGTAGGATCATTGACTTTAGCCAGATGGATGAGCTGGCCCTGCTCTCACTGCGGAAgtaagtgccatctaccacacatgtgcatgtgctagttgcagtgtctttaa Alignment from Spaln_nt2Genome GTCAGCCATCTCTCT-GATTCTAAGAAAGCATTCAACGCTGAGGCCTTCAAACCGGGGAGCACTCACAAGTGTAGAATCATTGACTACAGCCAGATGGATGAGCTGGCCTTGCTCTCTCTGCGGAA caaatgaaccaaatgaacagctttactcactcttactgactgacccacagGTAAGCCATCTCTCTCGATTCTAAAAAAGCATTCAATGCCGAGGCCCTGAAACCAGGGAGCACTCATGAGTGTAGGATCATTGACTTTAGCCAGATGGATGAGCTGGCCCTGCTCTCACTGCGGAAgtaagtgccatctaccacacatgtgcatgtgctagttgcagtgtctttaa Alignment from Pairagon GTCAGCCATCTCTCT-GATTCTAAGAAAGCATTCAACGCTGAGGCCTTCAAACCGGGGAGCACTCACAAGTGTAGAATCATTGACTACAGCCAGATGGATGAGCTGGCCTTGCTCTCTCTGCGGAA caaatgaaccaaatgaacagctttactcactcttactgactgacccacagGTAAGCCATCTCTCTCGATTCTAAAAAAGCATTCAATGCCGAGGCCCTGAAACCAGGGAGCACTCATGAGTGTAGGATCATTGACTTTAGCCAGATGGATGAGCTGGCCCTGCTCTCACTGCGGAAgtaagtgccatctaccacacatgtgcatgtgctagttgcagtgtctttaa Alignment from Exonerate_protein2genome GTCAGCCATCTCTCT-GATTCTAAGAAAGCATTCAACGCTGAGGCCTTCAAACCGGGGAGCACTCACAAGTGTAGAATCATTGACTACAGCCAGATGGATGAGCTGGCCTTGCTCTCTCTGCGGAA caaatgaaccaaatgaacagctttactcactcttactgactgacccacagGTAAGCCATCTCTCTCGATTCTAAAAAAGCATTCAATGCCGAGGCCCTGAAACCAGGGAGCACTCATGAGTGTAGGATCATTGACTTTAGCCAGATGGATGAGCTGGCCCTGCTCTCACTGCGGAAgtaagtgccatctaccacacatgtgcatgtgctagttgcagtgtctttaa Alignment from Exonerate_coding2genome caaatgaaccaaatgaacagctttactcactcttactgactgacccacaggtaagccatctctctcgattctaaaaaagcattcaatgccgaggccctgaaaccagggagcactcatgagtgtaggatcattgactttagccagatggatgagctggccctgctctcactgcggaagtaagtgccatctaccacacatgtgcatgtgctagttgcagtgtctttaa Alignment from GeneWise GTCAGCCATCTC-TCTGATTCTAAGAAAGCATTCAACGCTGAGGCCTTCAAACCGGGGAGCACTCACAAGTGTAGAATCATTGACTACAGCCAGATGGATGAGCTGGCCTTGCTCTCTCTGCGGAA caaatgaaccaaatgaacagctttactcactcttactgactgacccacagGTAAGCCATCTCTCTCGATTCTAAAAAAGCATTCAATGCCGAGGCCCTGAAACCAGGGAGCACTCATGAGTGTAGGATCATTGACTTTAGCCAGATGGATGAGCTGGCCCTGCTCTCACTGCGGAAgtaagtgccatctaccacacatgtgcatgtgctagttgcagtgtctttaa #### Pdcd11_ID10119_13 --> 0 - 0 Original Alignment GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGA-GCTGTGCGCATCGGGCAG acaaattgccttaaggaccagtgactgaaaggggcatcttctactcccagGTGGTAAAGGTGGCTGTGTTGAGCTGTGAACCTTCAAAGGAGAAAATGCCCCTCTCCTTTAGATTGTTAGGTGACTCTCAGCCCAAAGATCCTGGTGTTGAGACCAGTCAGAAAAAGACAGAACGGCGTGCACATTGGCCAGgtatctcccctatgattttgacagatggtaatatcatcacagcgtctgag Alignment from CESAR GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGA-GCTGTGCGCATCGGGCAG acaaattgccttaaggaccagtgactgaaaggggcatcttctactcccagGTGGTAAAGGTGGCTGTGTTGAGCTGTGAACCTTCAAAGGAGAAAATGCCCCTCTCCTTTAGATTGTTAGGTGACTCTCAGCCCAAAGATCCTGGTGTTGAGACCAGTCAGAAAAAGACAGAACGGCGTGCACATTGGCCAGgtatctcccctatgattttgacagatggtaatatcatcacagcgtctgag Alignment from Spaln_aa2Genome AGCACATCCCGGACCCAGAGACGGTCTTTTACACTGGCCAGGTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTG tgccttaagGACCAGTGACTGAAAGGGGC---ATCTTCTACTCC---CAGGTGGTAAAGGTGGCTGTGTTGAGCTGTGAACCTTCAAAGGAGAAAATGCCCCTCTCCTTTAGATTGTTAGGTGACTCTCAGCCCAAAGATCCTGGTGTTGAGACCAGTCAGAAAAAGACAGAACGGCgtgcacattggccaggtatctcccctatgattttgacagatggtaatatcatcacagcgtctgag Alignment from Spaln_nt2Genome --CCGGACCCAGAGACGGTCTTTTACACTGGCCAGGTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGA-GCTGTGCGCATCGGGCAG acaaattgccttaagGACCAGTGACTGAAAGGGGCATCTTCTACTCCCAGGTGGTAAAGGTGGCTGTGTTGAGCTGTGAACCTTCAAAGGAGAAAATGCCCCTCTCCTTTAGATTGTTAGGTGACTCTCAGCCCAAAGATCCTGGTGTTGAGACCAGTCAGAAAAAGACAGAACGGCGTGCACATTGGCCAGgtatctcccctatgattttgacagatggtaatatcatcacagcgtctgag Alignment from Pairagon GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGA-GCTGTGCGCATCGGGCAG acaaattgccttaaggaccagtgactgaaaggggcatcttctactcccagGTGGTAAAGGTGGCTGTGTTGAGCTGTGAACCTTCAAAGGAGAAAATGCCCCTCTCCTTTAGATTGTTAGGTGACTCTCAGCCCAAAGATCCTGGTGTTGAGACCAGTCAGAAAAAGACAGAACGGCGTGCACATTGGCCAGgtatctcccctatgattttgacagatggtaatatcatcacagcgtctgag Alignment from Exonerate_protein2genome AGCACCCAGCACATCCCGGACCCAGAGACGGTCTTTTACACTGGCCAGGTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACA-GGAGCTGTGCGCATCGGGCAG acAAATTGCCTTAAGGACCAGTGACTGAAAGGGGCATCTTCTACTCCCAGGTGGTAAAGGTGGCTGTGTTGAGCTGTGAACCTTCAAAGGAGAAAATGCCCCTCTCCTTTAGATTGTTAGGTGACTCTCAGCCCAAAGATCCTGGTGTTGAGACCAGTCAGAAAAAGACAGAACGGCGTGCACATTGGCCAGgtatctcccctatgattttgacagatggtaatatcatcacagcgtctgag Alignment from Exonerate_coding2genome CCGGACCCAGAGACGGTCTTTTACACTGGCCAGGTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACA-GGAGCTGTGCGCATCGGGCAG acaaattgccttaaggaCCAGTGACTGAAAGGGGCATCTTCTACTCCCAGGTGGTAAAGGTGGCTGTGTTGAGCTGTGAACCTTCAAAGGAGAAAATGCCCCTCTCCTTTAGATTGTTAGGTGACTCTCAGCCCAAAGATCCTGGTGTTGAGACCAGTCAGAAAAAGACAGAACGGCGTGCACATTGGCCAGgtatctcccctatgattttgacagatggtaatatcatcacagcgtctgag Alignment from GeneWise GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCT- acaaattgccttaaggaccagtgactgaaaggggcatcttctactcccagGTGGTAAAGGTGGCTGTGTTGAGCTGTGAACCTTCAAAGGAGAAAATGCCCCTCTCCTTTAGATTGTTAGGTGACTCTCAGCCCAAAGATCCTGGTGTTGAGACCAGTCAGAAAAAGACAGAACGGCgtgcacattggccaggtatctcccctatgattttgacagatggtaatatcatcacagcgtctgag #### Pdcd11_ID10134_28 --> 1 - 0 Original Alignment cGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAG-GAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctgaaacattctatttgccttctcaccgcgcgccgtccccagcATCAACCCCACAAAGAACTTGAGAGAGTTATCCCTCCTTCCAGGTGATACTGGGAGGCAAGATGTTTCCCCCCCTGCCCCAGAACCAGAACAAGAAGAGGGCAGTGGAGGGGCTGAACGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGGCGGGATGAGAAGGAGGAACCACAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaaggcaggcagtgtgtattgtgttttgttatgggacagctttgttgct Alignment from CESAR cGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAG-GAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctgaaacattctatttgccttctcaccgcgcgccgtccccagcATCAACCCCACAAAGAACTTGAGAGAGTTATCCCTCCTTCCAGGTGATACTGGGAGGCAAGATGTTTCCCCCCCTGCCCCAGAACCAGAACAAGAAGAGGGCAGTGGAGGGGCTGAACGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGGCGGGATGAGAAGGAGGAACCACAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaaggcaggcagtgtgtattgtgttttgttatgggacagctttgttgct Alignment from Spaln_aa2Genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAG-AAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctgaaacattctatttgccttctcaccgcgcgccgtccccagCATCAACCCCACAAAGAACTTGAGAGAGTTATCCCTCCTTCCAGGTGATACTGGGAGGCAAGATGTTTCCCCCCCTGCCCCAGAACCAGAACAAGAAGAGGGCAGTGGAGGGGCTGAACGGGGGCCAaAAACAGAAGGAAAAGAATCAGAAGAGGCGGGATGAGAAGGAGGAACCACAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaaggcaggcagtgtgtattgtgttttgttatgggacagctttgttgct Alignment from Spaln_nt2Genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAG-GAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctgaaacattctatttgccttctcaccgcgcgccgtccccagCATCAACCCCACAAAGAACTTGAGAGAGTTATCCCTCCTTCCAGGTGATACTGGGAGGCAAGATGTTTCCCCCCCTGCCCCAGAACCAGAACAAGAAGAGGGCAGTGGAGGGGCTGAACGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGGCGGGATGAGAAGGAGGAACCACAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaaggcaggcagtgtgtattgtgttttgttatgggacagctttgttgct Alignment from Pairagon CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAG-GAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctgaaacattctatttgccttctcaccgcgcgccgtccccagCATCAACCCCACAAAGAACTTGAGAGAGTTATCCCTCCTTCCAGGTGATACTGGGAGGCAAGATGTTTCCCCCCCTGCCCCAGAACCAGAACAAGAAGAGGGCAGTGGAGGGGCTGAACGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGGCGGGATGAGAAGGAGGAACCACAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaaggcaggcagtgtgtattgtgttttgttatgggacagctttgttgct Alignment from Exonerate_protein2genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAG-GGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctgaaacattctatttgccttctcaccgcgcgccgtccccagCATCAACCCCACAAAGAACTTGAGAGAGTTATCCCTCCTTCCAGGTGATACTGGGAGGCAAGATGTTTCCCCCCCTGCCCCAGAACCAGAACAAGAAGAGGGCAGTGGAGGGGCTGAACGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGGCGGGATGAGAAGGAGGAACCACAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaaggcaggcagtgtgtattgtgttttgttatgggacagctttgttgct Alignment from Exonerate_coding2genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAG-GGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctgaaacattctatttgccttctcaccgcgcgccgtccccagCATCAACCCCACAAAGAACTTGAGAGAGTTATCCCTCCTTCCAGGTGATACTGGGAGGCAAGATGTTTCCCCCCCTGCCCCAGAACCAGAACAAGAAGAGGGCAGTGGAGGGGCTGAACGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGGCGGGATGAGAAGGAGGAACCACAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaaggcaggcagtgtgtattgtgttttgttatgggacagctttgttgct Alignment from GeneWise CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAG-GAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctgaaacattctatttgccttctcaccgcgcgccgtccccagCATCAACCCCACAAAGAACTTGAGAGAGTTATCCCTCCTTCCAGGTGATACTGGGAGGCAAGATGTTTCCCCCCCTGCCCCAGAACCAGAACAAGAAGAGGGCAGTGGAGGGGCTGAACGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGGCGGGATGAGAAGGAGGAACCACAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaaggcaggcagtgtgtattgtgttttgttatgggacagctttgttgct #### Pdcd4_ID11402_9 --> 0 - 0 Original Alignment GCCATTGTAATGGTTTTAGAG-TCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA gaccttatattttgggagttgttccagtttttgttttttgttttttttagGCCATTGTGATAGTGTTAGAGCTCAAGTGGTGAGAGTGCATTCAAGATGATCTTAGATTTACTTAAGTCTCTGTGGAAGTCTTCTACAATTACTATAGACCAAATGAAACGAgtacagacagggagatgaggatctcgaacgatttactgcactgaaataag Alignment from CESAR GCCATTGTAATGGTTTTAGAG-TCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA gaccttatattttgggagttgttccagtttttgttttttgttttttttagGCCATTGTGATAGTGTTAGAGCTCAAGTGGTGAGAGTGCATTCAAGATGATCTTAGATTTACTTAAGTCTCTGTGGAAGTCTTCTACAATTACTATAGACCAAATGAAACGAgtacagacagggagatgaggatctcgaacgatttactgcactgaaataag Alignment from Spaln_aa2Genome GCCATTGTAATGGTTTTAGAG-TCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA gaccttatattttgggagttgttccagtttttgttttttgttttttttagGCCATTGTGATAGTGTTAGAGcTCAAGTGGTGAGAGTGCATTCAAGATGATCTTAGATTTACTTAAGTCTCTGTGGAAGTCTTCTACAATTACTATAGACCAAATGAAACGAgtacagacagggagatgaggatctcgaacgatttactgcactgaaataag Alignment from Spaln_nt2Genome GCCATTGTAATGGTTTTAGAG-TCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA gaccttatattttgggagttgttccagtttttgttttttgttttttttagGCCATTGTGATAGTGTTAGAGCTCAAGTGGTGAGAGTGCATTCAAGATGATCTTAGATTTACTTAAGTCTCTGTGGAAGTCTTCTACAATTACTATAGACCAAATGAAACGAgtacagacagggagatgaggatctcgaacgatttactgcactgaaataag Alignment from Pairagon GCCATTGTAATGGTTTTAGAG-TCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA gaccttatattttgggagttgttccagtttttgttttttgttttttttagGCCATTGTGATAGTGTTAGAGCTCAAGTGGTGAGAGTGCATTCAAGATGATCTTAGATTTACTTAAGTCTCTGTGGAAGTCTTCTACAATTACTATAGACCAAATGAAACGAgtacagacagggagatgaggatctcgaacgatttactgcactgaaataag Alignment from Exonerate_protein2genome GCCATTGTAATGGTTTTAGAG-TCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA gaccttatattttgggagttgttccagtttttgttttttgttttttttagGCCATTGTGATAGTGTTAGAGCTCAAGTGGTGAGAGTGCATTCAAGATGATCTTAGATTTACTTAAGTCTCTGTGGAAGTCTTCTACAATTACTATAGACCAAATGAAACGAgtacagacagggagatgaggatctcgaacgatttactgcactgaaataag Alignment from Exonerate_coding2genome GCCATTGTAATGGTTTTAGAG-TCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA gaccttatattttgggagttgttccagtttttgttttttgttttttttagGCCATTGTGATAGTGTTAGAGCTCAAGTGGTGAGAGTGCATTCAAGATGATCTTAGATTTACTTAAGTCTCTGTGGAAGTCTTCTACAATTACTATAGACCAAATGAAACGAgtacagacagggagatgaggatctcgaacgatttactgcactgaaataag Alignment from GeneWise GCCATTGTAATGGTTTTAGAG-TCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA gaccttatattttgggagttgttccagtttttgttttttgttttttttagGCCATTGTGATAGTGTTAGAGCTCAAGTGGTGAGAGTGCATTCAAGATGATCTTAGATTTACTTAAGTCTCTGTGGAAGTCTTCTACAATTACTATAGACCAAATGAAACGAgtacagacagggagatgaggatctcgaacgatttactgcactgaaataag #### Pde6c_ID7533_3 --> 0 - 0 Original Alignment GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAG-TCCCGGAGAAGCCAG agccatgggtgcaccattaaaattacctgggcccttacttaatattttagGTCATCTCAAGATACCTCAGCTTTGTTGCTGTTGCACTACGGCTGAAGCACACGAGTTATCTGTACAGTTTAGAGCTCCCGGAGGAGTCAAgttctggaatactactgaaagcctggcatttccacaactacacatcgtta Alignment from CESAR GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAG-TCCCGGAGAAGCCAG agccatgggtgcaccattaaaattacctgggcccttacttaatattttagGTCATCTCAAGATACCTCAGCTTTGTTGCTGTTGCACTACGGCTGAAGCACACGAGTTATCTGTACAGTTTAGAGCTCCCGGAGGAGTCAAgttctggaatactactgaaagcctggcatttccacaactacacatcgtta Alignment from Spaln_aa2Genome GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAG-TCCCGGAGAAGCCAG agccatgggtgcaccattaaaattacctgggcccttacttaatattttagGTCATCTCAAGATACCTCAGCTTTGTTGCTGTTGCACTACGGCTGAAGCACACGAGTTATCTGTACAGTTTAGAGcTCCCGGAGGAGTCAAgttctggaatactactgaaagcctggcatttccacaactacacatcgtta Alignment from Spaln_nt2Genome GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAG-TCCCGGAGAAGCCAG agccatgggtgcaccattaaaattacctgggcccttacttaatattttagGTCATCTCAAGATACCTCAGCTTTGTTGCTGTTGCACTACGGCTGAAGCACACGAGTTATCTGTACAGTTTAGAGCTCCCGGAGGAGTCAAgttctggaatactactgaaagcctggcatttccacaactacacatcgtta Alignment from Pairagon GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAG-TCCCGGAGAAGCCAG agccatgggtgcaccattaaaattacctgggcccttacttaatattttagGTCATCTCAAGATACCTCAGCTTTGTTGCTGTTGCACTACGGCTGAAGCACACGAGTTATCTGTACAGTTTAGAGCTCCCGGAGGAGTCAAgttctggaatactactgaaagcctggcatttccacaactacacatcgtta Alignment from Exonerate_protein2genome GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAG-TCCCGGAGAAGCCAG agccatgggtgcaccattaaaattacctgggcccttacttaatattttagGTCATCTCAAGATACCTCAGCTTTGTTGCTGTTGCACTACGGCTGAAGCACACGAGTTATCTGTACAGTTTAGAGCTCCCGGAGGAGTCAAgttctggaatactactgaaagcctggcatttccacaactacacatcgtta Alignment from Exonerate_coding2genome GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAG-TCCCGGAGAAGCCAG agccatgggtgcaccattaaaattacctgggcccttacttaatattttagGTCATCTCAAGATACCTCAGCTTTGTTGCTGTTGCACTACGGCTGAAGCACACGAGTTATCTGTACAGTTTAGAGCTCCCGGAGGAGTCAAgttctggaatactactgaaagcctggcatttccacaactacacatcgtta Alignment from GeneWise GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAG-TCCCGGAGAAGCCAG agccatgggtgcaccattaaaattacctgggcccttacttaatattttagGTCATCTCAAGATACCTCAGCTTTGTTGCTGTTGCACTACGGCTGAAGCACACGAGTTATCTGTACAGTTTAGAGCTCCCGGAGGAGTCAAgttctggaatactactgaaagcctggcatttccacaactacacatcgtta #### Pde6c_ID7543_13 --> 0 - 0 Original Alignment GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTC-ACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG ctctttaatgttggagtagtgaccatgacggttatgttttctccctctagATTCTTACAAAGTGGATGTACACCGTCCGAAAGGGATACCGACCTGCTCACATACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACAATATCTCCCCTGTTAATGgtgagtttagctgtggatagcttgaatgctctcttcctactaaatgccag Alignment from CESAR GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCT-GTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG ctctttaatgttggagtagtgaccatgacggttatgttttctccctctagATTCTTACAAAGTGGATGTACACCGTCCGAAAGGGATACCGACCTGCTCACATACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACAATATCTCCCCTGTTAATGgtgagtttagctgtggatagcttgaatgctctcttcctactaaatgccag Alignment from Spaln_aa2Genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTC-ACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG ctctttaatgttggagtagtgaccatgacggttatgttttctccctctagATTCTTACAAAGTGGATGTACACCGTCCGAAAGGGATACCGACCTGCTcACATACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACAATATCTCCCCTGTTAATGgtgagtttagctgtggatagcttgaatgctctcttcctactaaatgccag Alignment from Spaln_nt2Genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTG-TCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG ctctttaatgttggagtagtgaccatgacggttatgttttctccctctagATTCTTACAAAGTGGATGTACACCGTCCGAAAGGGATACCGACCTGCTCACATACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACAATATCTCCCCTGTTAATGgtgagtttagctgtggatagcttgaatgctctcttcctactaaatgccag Alignment from Pairagon GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTG-TCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG ctctttaatgttggagtagtgaccatgacggttatgttttctccctctagATTCTTACAAAGTGGATGTACACCGTCCGAAAGGGATACCGACCTGCTCACATACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACAATATCTCCCCTGTTAATGgtgagtttagctgtggatagcttgaatgctctcttcctactaaatgccag Alignment from Exonerate_protein2genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCT-GTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG ctctttaatgttggagtagtgaccatgacggttatgttttctccctctagATTCTTACAAAGTGGATGTACACCGTCCGAAAGGGATACCGACCTGCTCACATACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACAATATCTCCCCTGTTAATGgtgagtttagctgtggatagcttgaatgctctcttcctactaaatgccag Alignment from Exonerate_coding2genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCT-GTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG ctctttaatgttggagtagtgaccatgacggttatgttttctccctctagATTCTTACAAAGTGGATGTACACCGTCCGAAAGGGATACCGACCTGCTCACATACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACAATATCTCCCCTGTTAATGgtgagtttagctgtggatagcttgaatgctctcttcctactaaatgccag Alignment from GeneWise GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCT-GTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG ctctttaatgttggagtagtgaccatgacggttatgttttctccctctagATTCTTACAAAGTGGATGTACACCGTCCGAAAGGGATACCGACCTGCTCACATACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACAATATCTCCCCTGTTAATGgtgagtttagctgtggatagcttgaatgctctcttcctactaaatgccag #### Peo1_ID9266_3 --> 1 - 2 Original Alignment gTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTC-ATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACag catctgttaaggactttatctatatgatgttgtctgtctgtctggcgtaggTCTGTCATAGACACAATGCAACATGCAGTATATGTTTATGATATATGTCATGTGGTCCATTGACAACTTACCATTCATGATGGGTCATGAGCAGCTTTCTTCAGACaggtaagtatcagagatgagcttgagtggactggtaatgactccgagggtct Alignment from CESAR gTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTC-ATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACag catctgttaaggactttatctatatgatgttgtctgtctgtctggcgtaggTCTGTCATAGACACAATGCAACATGCAGTATATGTTTATGATATATGTCATGTGGTCCATTGACAACTTACCATTCATGATGGGTCATGAGCAGCTTTCTTCAGACaggtaagtatcagagatgagcttgagtggactggtaatgactccgagggtct Alignment from Spaln_aa2Genome GTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTC-ATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAG catctgttaaggactttatctatatgatgttgtctgtctgtctggcgtagGTCTGTCATAGACACAATGCAACATGCAGTATATGTTTATGATATATGTCATGTGGTCcATTGACAACTTACCATTCATGATGGGTCATGAGCAGCTTTCTTCAGACAGgtaagtatcagagatgagcttgagtggactggtaatgactccgagggtct Alignment from Spaln_nt2Genome GTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGT-CATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAG catctgttaaggactttatctatatgatgttgtctgtctgtctggcgtagGTCTGTCATAGACACAATGCAACATGCAGTATATGTTTATGATATATGTCATGTGGTCCATTGACAACTTACCATTCATGATGGGTCATGAGCAGCTTTCTTCAGACAGgtaagtatcagagatgagcttgagtggactggtaatgactccgagggtct Alignment from Pairagon GTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGT-CATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAG catctgttaaggactttatctatatgatgttgtctgtctgtctggcgtagGTCTGTCATAGACACAATGCAACATGCAGTATATGTTTATGATATATGTCATGTGGTCCATTGACAACTTACCATTCATGATGGGTCATGAGCAGCTTTCTTCAGACAGgtaagtatcagagatgagcttgagtggactggtaatgactccgagggtct Alignment from Exonerate_protein2genome GTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTC-ATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAG catctgttaaggactttatctatatgatgttgtctgtctgtctggcgtagGTCTGTCATAGACACAATGCAACATGCAGTATATGTTTATGATATATGTCATGTGGTCCATTGACAACTTACCATTCATGATGGGTCATGAGCAGCTTTCTTCAGACAGgtaagtatcagagatgagcttgagtggactggtaatgactccgagggtct Alignment from Exonerate_coding2genome GTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTC-ATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAG catctgttaaggactttatctatatgatgttgtctgtctgtctggcgtagGTCTGTCATAGACACAATGCAACATGCAGTATATGTTTATGATATATGTCATGTGGTCCATTGACAACTTACCATTCATGATGGGTCATGAGCAGCTTTCTTCAGACAGgtaagtatcagagatgagcttgagtggactggtaatgactccgagggtct Alignment from GeneWise GTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTA-GTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAG catctgttaaggactttatctatatgatgttgtctgtctgtctggcgtagGTCTGTCATAGACACAATGCAACATGCAGTATATGTTTATGATATATGTCATGTGGTCCATTGACAACTTACCATTCATGATGGGTCATGAGCAGCTTTCTTCAGACAGgtaagtatcagagatgagcttgagtggactggtaatgactccgagggtct #### Pga5_ID2972_6 --> 1 - 2 Original Alignment cAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAGCTTCACTGGGTA-CCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATag tcatacagtttgaagtaccctggagatttttatttttcctcacactatagtAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTGGACCCCTCCTACTACCATGGAGAACTTCATTGGGTACCCTGTCTCAAAGCCGAGTTACTGGCAGTTAGCTGCAGATaggtgacccataggcacttgttgccaataggcactgtctcagcagcatgcat Alignment from CESAR cAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAGCTTCACTGGGTA-CCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATag tcatacagtttgaagtaccctggagatttttatttttcctcacactatagtAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTGGACCCCTCCTACTACCATGGAGAACTTCATTGGGTACCCTGTCTCAAAGCCGAGTTACTGGCAGTTAGCTGCAGATaggtgacccataggcacttgttgccaataggcactgtctcagcagcatgcat Alignment from Spaln_aa2Genome CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAGCTTCACTGGGTACCA-GTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacagtttgaagtaccctggagatttttatttttcctcacactatagTAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTGGACCCCTCCTACTACCATGGAGAACTTCATTGGGTACCCtGTCTCAAAGCCGAGTTACTGGCAGTTAGCTGCAGATAGgtgacccataggcacttgttgccaataggcactgtctcagcagcatgcat Alignment from Spaln_nt2Genome CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAGCTTCACTGGGTACCA-GTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacagtttgaagtaccctggagatttttatttttcctcacactatagTAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTGGACCCCTCCTACTACCATGGAGAACTTCATTGGGTACCCTGTCTCAAAGCCGAGTTACTGGCAGTTAGCTGCAGATAGgtgacccataggcacttgttgccaataggcactgtctcagcagcatgcat Alignment from Pairagon CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAGCTTCACTGGGTACCA-GTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacagtttgaagtaccctggagatttttatttttcctcacactatagTAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTGGACCCCTCCTACTACCATGGAGAACTTCATTGGGTACCCTGTCTCAAAGCCGAGTTACTGGCAGTTAGCTGCAGATAGgtgacccataggcacttgttgccaataggcactgtctcagcagcatgcat Alignment from Exonerate_protein2genome CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAGCTTCACTGGGTA-CCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacagtttgaagtaccctggagatttttatttttcctcacactatagTAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTGGACCCCTCCTACTACCATGGAGAACTTCATTGGGTACCCTGTCTCAAAGCCGAGTTACTGGCAGTTAGCTGCAGATAGgtgacccataggcacttgttgccaataggcactgtctcagcagcatgcat Alignment from Exonerate_coding2genome CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAGCTTCACTGGGTA-CCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacagtttgaagtaccctggagatttttatttttcctcacactatagTAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTGGACCCCTCCTACTACCATGGAGAACTTCATTGGGTACCCTGTCTCAAAGCCGAGTTACTGGCAGTTAGCTGCAGATAGgtgacccataggcacttgttgccaataggcactgtctcagcagcatgcat Alignment from GeneWise CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAGCTTCACTGGGTACCA-GTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacagtttgaagtaccctggagatttttatttttcctcacactatagTAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTGGACCCCTCCTACTACCATGGAGAACTTCATTGGGTACCCTGTCTCAAAGCCGAGTTACTGGCAGTTAGCTGCAGATAGgtgacccataggcacttgttgccaataggcactgtctcagcagcatgcat #### Pitpnm1_ID312_9 --> 0 - 2 Original Alignment GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCC-TATGCTCTTGTCTCCaa attaggtggggtcaacatatgctcttgttttgatgttctcttccttgcagGGACTAGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGATCTTTTCCTCATACTGCACAGTGGTAGCATTCCAGACCCTGGCCCTGGGGACACCAATTCTAAGCAAGCTGACGTCCAAACTCTGAGCACTGCTTTTGAGGCTGTCTTTCGAGTTCATTCTCCCAAGGCCCTTGGACATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTCTATGCACTTGTCTCCaagtaagagcagagaggaatagtaaatacacataaataaagcaagtaatgat Alignment from CESAR GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCC-TATGCTCTTGTCTCCaa attaggtggggtcaacatatgctcttgttttgatgttctcttccttgcagGGACTAGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGATCTTTTCCTCATACTGCACAGTGGTAGCATTCCAGACCCTGGCCCTGGGGACACCAATTCTAAGCAAGCTGACGTCCAAACTCTGAGCACTGCTTTTGAGGCTGTCTTTCGAGTTCATTCTCCCAAGGCCCTTGGACATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTCTATGCACTTGTCTCCaagtaagagcagagaggaatagtaaatacacataaataaagcaagtaatgat Alignment from Spaln_aa2Genome GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCC-TATGCTCTTGTCTCCAA attaggtggggtcaacatatgctcttgttttgatgttctcttccttgcagGGACTAGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGATCTTTTCCTCATACTGCACAGTGGTAGCATTCCAGACCCTGGCCCTGGGGACACCAATTCTAAGCAAGCTGACGTCCAAACTCTGAGCACTGCTTTTGAGGCTGTCTTTCGAGTTCATTCTCCCAAGGCCCTTGGACATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTcTATGCACTTGTCTCCAAgtaagagcagagaggaatagtaaatacacataaataaagcaagtaatgat Alignment from Spaln_nt2Genome GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGC-CTATGCTCTTGTCTCCAA attaggtggggtcaacatatgctcttgttttgatgttctcttccttgcagGGACTAGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGATCTTTTCCTCATACTGCACAGTGGTAGCATTCCAGACCCTGGCCCTGGGGACACCAATTCTAAGCAAGCTGACGTCCAAACTCTGAGCACTGCTTTTGAGGCTGTCTTTCGAGTTCATTCTCCCAAGGCCCTTGGACATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTCTATGCACTTGTCTCCAAgtaagagcagagaggaatagtaaatacacataaataaagcaagtaatgat Alignment from Pairagon GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGC-CTATGCTCTTGTCTCCAA attaggtggggtcaacatatgctcttgttttgatgttctcttccttgcagGGACTAGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGATCTTTTCCTCATACTGCACAGTGGTAGCATTCCAGACCCTGGCCCTGGGGACACCAATTCTAAGCAAGCTGACGTCCAAACTCTGAGCACTGCTTTTGAGGCTGTCTTTCGAGTTCATTCTCCCAAGGCCCTTGGACATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTCTATGCACTTGTCTCCAAgtaagagcagagaggaatagtaaatacacataaataaagcaagtaatgat Alignment from Exonerate_protein2genome GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCC-TATGCTCTTGTCTCCAA attaggtggggtcaacatatgctcttgttttgatgttctcttccttgcagGGACTAGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGATCTTTTCCTCATACTGCACAGTGGTAGCATTCCAGACCCTGGCCCTGGGGACACCAATTCTAAGCAAGCTGACGTCCAAACTCTGAGCACTGCTTTTGAGGCTGTCTTTCGAGTTCATTCTCCCAAGGCCCTTGGACATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTCTATGCACTTGTCTCCAAgtaagagcagagaggaatagtaaatacacataaataaagcaagtaatgat Alignment from Exonerate_coding2genome GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCC-TATGCTCTTGTCTCCAA attaggtggggtcaacatatgctcttgttttgatgttctcttccttgcagGGACTAGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGATCTTTTCCTCATACTGCACAGTGGTAGCATTCCAGACCCTGGCCCTGGGGACACCAATTCTAAGCAAGCTGACGTCCAAACTCTGAGCACTGCTTTTGAGGCTGTCTTTCGAGTTCATTCTCCCAAGGCCCTTGGACATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTCTATGCACTTGTCTCCAAgtaagagcagagaggaatagtaaatacacataaataaagcaagtaatgat Alignment from GeneWise GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA attaggtggggtcaacatatgctcttgttttgatgttctcttccttgcagGGACTAGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGATCTTTTCCTCATACTGCACAGTGGTAGCATTCCAGACCCTGGCCCTGGGGACACCAATTCTAAGCAAGCTGACGTCCAAACTCTGAGCACTGCTTTTGAGGCTGTCTTTCGAGTTCATTCTCCCAAGGCCCTTGGACATGTAGCACTGCGGTTGATACCCTGTCCGTCCTGTGCAGCAGCTC--TATGCACTTGTCTCCAAgtaagagcagagaggaatagtaaatacacataaataaagcaagtaatgat #### Pitpnm1_ID314_11 --> 0 - 0 Original Alignment GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGT-GCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG cacacacaggtagaaaaaccagcatatttctcgccccccttttatattagGTGGTCTTGATTGGAGATGGAGTTGGTGGCATTCTTGGTTTTGACGCTCTCTGTCGCAGTGCCAGTCGCAGGCCCAGGGAGCCAGGGCAGCAGCCACCATGGGAGCATGgtactgttccatttcagggagtcaccagctaagggagccagggctgcagt Alignment from CESAR GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGT-GCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG cacacacaggtagaaaaaccagcatatttctcgccccccttttatattagGTGGTCTTGATTGGAGATGGAGTTGGTGGCATTCTTGGTTTTGACGCTCTCTGTCGCAGTGCCAGTCGCAGGCCCAGGGAGCCAGGGCAGCAGCCACCATGGGAGCATGgtactgttccatttcagggagtcaccagctaagggagccagggctgcagt Alignment from Spaln_aa2Genome GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGT-GCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG cacacacaggtagaaaaaccagcatatttctcgccccccttttatattagGTGGTCTTGATTGGAGATGGAGTTGGTGGCATTCTTGGTTTTGACGCTCTCTGTCGCAGTGCCAGTcGCAGGCCCAGGGAGCCAGGGCAGCAGCCACCATGGGAGCATGgtactgttccatttcagggagtcaccagctaagggagccagggctgcagt Alignment from Spaln_nt2Genome GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGT-GCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG cacacacaggtagaaaaaccagcatatttctcgccccccttttatattagGTGGTCTTGATTGGAGATGGAGTTGGTGGCATTCTTGGTTTTGACGCTCTCTGTCGCAGTGCCAGTCGCAGGCCCAGGGAGCCAGGGCAGCAGCCACCATGGGAGCATGgtactgttccatttcagggagtcaccagctaagggagccagggctgcagt Alignment from Pairagon GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGT-GCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG cacacacaggtagaaaaaccagcatatttctcgccccccttttatattagGTGGTCTTGATTGGAGATGGAGTTGGTGGCATTCTTGGTTTTGACGCTCTCTGTCGCAGTGCCAGTCGCAGGCCCAGGGAGCCAGGGCAGCAGCCACCATGGGAGCATGgtactgttccatttcagggagtcaccagctaagggagccagggctgcagt Alignment from Exonerate_protein2genome GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGT-GCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG cacacacaggtagaaaaaccagcatatttctcgccccccttttatattagGTGGTCTTGATTGGAGATGGAGTTGGTGGCATTCTTGGTTTTGACGCTCTCTGTCGCAGTGCCAGTCGCAGGCCCAGGGAGCCAGGGCAGCAGCCACCATGGGAGCATGgtactgttccatttcagggagtcaccagctaagggagccagggctgcagt Alignment from Exonerate_coding2genome GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGT-GCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG cacacacaggtagaaaaaccagcatatttctcgccccccttttatattagGTGGTCTTGATTGGAGATGGAGTTGGTGGCATTCTTGGTTTTGACGCTCTCTGTCGCAGTGCCAGTCGCAGGCCCAGGGAGCCAGGGCAGCAGCCACCATGGGAGCATGgtactgttccatttcagggagtcaccagctaagggagccagggctgcagt Alignment from GeneWise GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCC-AGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG cacacacaggtagaaaaaccagcatatttctcgccccccttttatattagGTGGTCTTGATTGGAGATGGAGTTGGTGGCATTCTTGGTTTTGACGCTCTCTGTCGCAGTGCCAGTCGCAGGCCCAGGGAGCCAGGGCAGCAGCCACCATGGGAGCATGgtactgttccatttcagggagtcaccagctaagggagccagggctgcagt #### Pitpnm1_ID315_12 --> 0 - 2 Original Alignment AACAATGAGATGCTCTCCCCTGAAGTTGGT---CCAGTACGGGACCCG-CTGGCAGAT------GGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCT---GATCCTGATGGCTCTCAGAACag agttagagagccagtattttgaagttggccttggttccttccctctgcagATCACTGAGACACTCTTACCTGAGGTTGGTTGCCCATTGCGCGACCCACCTGGCAGATGCAGATGGGGTGGAAGTGCTTGGTCATGCTAGTCCAGAACTAACAGCTCTACTAGGCCAGTGCACATTCAGTGACATTGCTAACCCTACTGATCCAGATGGCTCACAAAATaggtaggaagttctcttttatagcactttgaatataaaaacctggacctata Alignment from CESAR AACAATGAGATGCTCTCCCCTGAAGTTGGT---CCAGTACGGGACCCG-CTGGCAGAT------GGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCT---GATCCTGATGGCTCTCAGAACag agttagagagccagtattttgaagttggccttggttccttccctctgcagATCACTGAGACACTCTTACCTGAGGTTGGTTGCCCATTGCGCGACCCACCTGGCAGATGCAGATGGGGTGGAAGTGCTTGGTCATGCTAGTCCAGAACTAACAGCTCTACTAGGCCAGTGCACATTCAGTGACATTGCTAACCCTACTGATCCAGATGGCTCACAAAATaggtaggaagttctcttttatagcactttgaatataaaaacctggacctatt Alignment from Spaln_aa2Genome AACAATGAGATGCTCTCCCCTGAAGTTGGT---CCAGTACGGGACCCGCTG-------GCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCT---GATCCTGATGGCTCTCAGAACAG agttagagagccagtattttgaagttggccttggttccttccctctgcagATCACTGAGACACTCTTACCTGAGGTTGGTTGCCCATTGCGCGACCCACCTGGCAGAtGCAGATGGGGTGGAAGTGCTTGGTCATGCTAGTCCAGAACTAACAGCTCTACTAGGCCAGTGCACATTCAGTGACATTGCTAACCCTACTGATCCAGATGGCTCACAAAATAGgtaggaagttctcttttatagcactttgaatataaaaacctggacctata Alignment from Spaln_nt2Genome AACAATGAGATGCTCTCCCCTGAAGTTGGT---CCAGTACGGGACCCGC-TGGCAGATG------GGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCT---GATCCTGATGGCTCTCAGAACAG agttagagagccagtattttgaagttggccttggttccttccctctgcagATCACTGAGACACTCTTACCTGAGGTTGGTTGCCCATTGCGCGACCCACCTGGCAGATGCAGATGGGGTGGAAGTGCTTGGTCATGCTAGTCCAGAACTAACAGCTCTACTAGGCCAGTGCACATTCAGTGACATTGCTAACCCTACTGATCCAGATGGCTCACAAAATAGgtaggaagttctcttttatagcactttgaatataaaaacctggacctata Alignment from Pairagon AACAATGAGATGCTCTCCCCTGAAGTTGGT---CCAGTACGGGACCCGCT-------GGCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATC---CTGATCCTGATGGCTCTCAGAACAG agttagagagccagtattttgaagttggccttggttccttccctctgcagATCACTGAGACACTCTTACCTGAGGTTGGTTGCCCATTGCGCGACCCACCTGGCAGATGCAGATGGGGTGGAAGTGCTTGGTCATGCTAGTCCAGAACTAACAGCTCTACTAGGCCAGTGCACATTCAGTGACATTGCTAACCCTACTGATCCAGATGGCTCACAAAATAGgtaggaagttctcttttatagcactttgaatataaaaacctggacctata Alignment from Exonerate_protein2genome AACAATGAGATGCTCTCCCCTGAAGTTGGT---CCAGTACGGGACCCG----CTG---GCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCT---GATCCTGATGGCTCTCAGAACAGCCTCCAGGTAGCCTCCACAGCTACCTCCTCTGGGGAGCCCC agttagagagccagtattttgaagttggccttggttccttccctctgcagATCACTGAGACACTCTTACCTGAGGTTGGTTGCCCATTGCGCGACCCACCTGGCAGATGCAGATGGGGTGGAAGTGCTTGGTCATGCTAGTCCAGAACTAACAGCTCTACTAGGCCAGTGCACATTCAGTGACATTGCTAACCCTACTGATCCAGATGGCTCACAAAATAGGTAGGAAGTTCTCTTTTATAGCACTTTGAATATAAAAACCTggacctata Alignment from Exonerate_coding2genome AACAATGAGATGCTCTCCCCTGAAGTTGGT---CCAGTACGGGACCCG----CTG---GCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCT---GATCCTGATGGCTCTCAGAACAGCCTCCAGGTAGCCTCCACAGCTACCTCCTCTGGGGAGCCCC agttagagagccagtattttgaagttggccttggttccttccctctgcagATCACTGAGACACTCTTACCTGAGGTTGGTTGCCCATTGCGCGACCCACCTGGCAGATGCAGATGGGGTGGAAGTGCTTGGTCATGCTAGTCCAGAACTAACAGCTCTACTAGGCCAGTGCACATTCAGTGACATTGCTAACCCTACTGATCCAGATGGCTCACAAAATAGGTAGGAAGTTCTCTTTTATAGCACTTTGAATATAAAAACCTggacctata Alignment from GeneWise AACAATGAGATGCTCTCCCCTGAAGTTGGT---CCAGTACGGGACCCG-CTGGCAGAT------GGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCT---GATCCTGATGGCTCTCAGAACAG agttagagagccagtattttgaagttggccttggttccttccctctgcagATCACTGAGACACTCTTACCTGAGGTTGGTTGCCCATTGCGCGACCCACCTGGCAGATGCAGATGGGGTGGAAGTGCTTGGTCATGCTAGTCCAGAACTAACAGCTCTACTAGGCCAGTGCACATTCAGTGACATTGCTAACCCTACTGATCCAGATGGCTCACAAAATAGgtaggaagttctcttttatagcactttgaatataaaaacctggacctata #### Pitpnm1_ID320_17 --> 0 - 0 Original Alignment GTCATTGAGAAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGG-GAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG ccattgtagtatgggtgtatcttgtatgaagctttttgggttctttgcagATTATGGAGAAAGAATGGCCACAATTAACTGAGTGTCAAGAACCATCCATCTACAGCCCTGCCTTCCCTAAGCGAAAAGTGGCAGTGCAAGCAAACACAGGTCAAGATTCGGgtaatgatcctagtttgtttctcccttggctgtttacagttgtttgaaac Alignment from CESAR GTCATTGAGAAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGG-GAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG ccattgtagtatgggtgtatcttgtatgaagctttttgggttctttgcagATTATGGAGAAAGAATGGCCACAATTAACTGAGTGTCAAGAACCATCCATCTACAGCCCTGCCTTCCCTAAGCGAAAAGTGGCAGTGCAAGCAAACACAGGTCAAGATTCGGgtaatgatcctagtttgtttctcccttggctgtttacagttgtttgaaac Alignment from Spaln_aa2Genome GTCATTGAGAAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGG-GAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG ccattgtagtatgggtgtatcttgtatgaagctttttgggttctttgcagATTATGGAGAAAGAATGGCCACAATTAACTGAGTGTCAAGAACCATCCATCTACAGCCCTGCCTTCCCTAAGcGAAAAGTGGCAGTGCAAGCAAACACAGGTCAAGATTCGGgtaatgatcctagtttgtttctcccttggctgtttacagttgtttgaaac Alignment from Spaln_nt2Genome GTCATTGAGAAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGG-GAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG ccattgtagtatgggtgtatcttgtatgaagctttttgggttctttgcagATTATGGAGAAAGAATGGCCACAATTAACTGAGTGTCAAGAACCATCCATCTACAGCCCTGCCTTCCCTAAGCGAAAAGTGGCAGTGCAAGCAAACACAGGTCAAGATTCGGgtaatgatcctagtttgtttctcccttggctgtttacagttgtttgaaac Alignment from Pairagon GTCATTGAGAAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGG-GAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG ccattgtagtatgggtgtatcttgtatgaagctttttgggttctttgcagATTATGGAGAAAGAATGGCCACAATTAACTGAGTGTCAAGAACCATCCATCTACAGCCCTGCCTTCCCTAAGCGAAAAGTGGCAGTGCAAGCAAACACAGGTCAAGATTCGGgtaatgatcctagtttgtttctcccttggctgtttacagttgtttgaaac Alignment from Exonerate_protein2genome GTCATTGAGAAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGG-GAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG ccattgtagtatgggtgtatcttgtatgaagctttttgggttctttgcagATTATGGAGAAAGAATGGCCACAATTAACTGAGTGTCAAGAACCATCCATCTACAGCCCTGCCTTCCCTAAGCGAAAAGTGGCAGTGCAAGCAAACACAGGTCAAGATTCGGgtaatgatcctagtttgtttctcccttggctgtttacagttgtttgaaac Alignment from Exonerate_coding2genome GTCATTGAGAAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGG-GAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG ccattgtagtatgggtgtatcttgtatgaagctttttgggttctttgcagATTATGGAGAAAGAATGGCCACAATTAACTGAGTGTCAAGAACCATCCATCTACAGCCCTGCCTTCCCTAAGCGAAAAGTGGCAGTGCAAGCAAACACAGGTCAAGATTCGGgtaatgatcctagtttgtttctcccttggctgtttacagttgtttgaaac Alignment from GeneWise GTCATTGAGAAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCC-AGGGAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG ccattgtagtatgggtgtatcttgtatgaagctttttgggttctttgcagATTATGGAGAAAGAATGGCCACAATTAACTGAGTGTCAAGAACCATCCATCTACAGCCCTGCCTTCCCTAAGCGAAAAGTGGCAGTGCAAGCAAACACAGGTCAAGATTCGGgtaatgatcctagtttgtttctcccttggctgtttacagttgtttgaaac #### Pitpnm1_ID321_18 --> 0 - 0 Original Alignment AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTG-GATGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGC gctttgctgtcattcttcgtatagttgttttccttctccttatatttcagAATGTCACTTCTAACCACAAAGCAAGTGACACTGTGATATGTGAGGGCCACCCGCAAGTACTAAATGGCCATTTCATGTATGGACCACTGCGATGTAGTTACACTCACCAGAGAAGAGgtaggcctcccctgtgtgtggccagGTTGATGTCTATGTCATGACACAGC Alignment from CESAR AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTG-GATGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGC gctttgctgtcattcttcgtatagttgttttccttctccttatatttcagAATGTCACTTCTAACCACAAAGCAAGTGACACTGTGATATGTGAGGGCCACCCGCAAGTACTAAATGGCCATTTCATGTATGGACCACTGCGATGTAGTTACACTCACCAGAGAAGAGgtcatgttttttctcatgtgcacagGTTGATGTCTATGTCATGACACAGC Alignment from Spaln_aa2Genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTG-GATGTGGTCACGCTCACTGGAGAGAAGGTG-------------------------GATGTCTACGTCATGACACAGC gctttgctgtcattcttcgtatagttgttttccttctccttatatttcagAATGTCACTTCTAACCACAAAGCAAGTGACACTGTGATATGTGAGGGCCACCCGCAAGTACTAAATGGCCATTTCATGTATGGACCACTGcGATGTAGTTACACTCACCAGAGAAGAGGTAGGCCTCCCCTGTGTGTGGCCAGGTtGATGTCTATGTCATGACACAGC Alignment from Spaln_nt2Genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTG-GATGTGGTCACGCTCACTGGAGA-GA------------------------AGGTGGATGTCTACGTCATGACACAGC gctttgctgtcattcttcgtatagttgttttccttctccttatatttcagAATGTCACTTCTAACCACAAAGCAAGTGACACTGTGATATGTGAGGGCCACCCGCAAGTACTAAATGGCCATTTCATGTATGGACCACTGCGATGTAGTTACACTCACCAGAGAAGAGGTAGGCCTCCCCTGTGTGTGGCCAGGTTGATGTCTATGTCATGACACAGC Alignment from Pairagon AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTG-GATGTGGTCACGCTCACTGGAGAGAAGGTG-------------------------GATGTCTACGTCATGACACAGC gctttgctgtcattcttcgtatagttgttttccttctccttatatttcagAATGTCACTTCTAACCACAAAGCAAGTGACACTGTGATATGTGAGGGCCACCCGCAAGTACTAAATGGCCATTTCATGTATGGACCACTGCGATGTAGTTACACTCACCAGAGAAGAGGTAGGCCTCCCCTGTGTGTGGCCAGGTTGATGTCTATGTCATGACACAGC Alignment from Exonerate_protein2genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTG-GATGTGGTCACGCTCACTGGAGAGAAGGTG gctttgctgtcattcttcgtatagttgttttccttctccttatatttcagAATGTCACTTCTAACCACAAAGCAAGTGACACTGTGATATGTGAGGGCCACCCGCAAGTACTAAATGGCCATTTCATGTATGGACCACTGCGATGTAGTTACACTCACCAGAGAAGAGGTAggcctcccctgtgtgtggccaggttgatgtctatgtcatgacacagc Alignment from Exonerate_coding2genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTG-GATGTGGTCACGCTCACTGGAGAGAAGGTG gctttgctgtcattcttcgtatagttgttttccttctccttatatttcagAATGTCACTTCTAACCACAAAGCAAGTGACACTGTGATATGTGAGGGCCACCCGCAAGTACTAAATGGCCATTTCATGTATGGACCACTGCGATGTAGTTACACTCACCAGAGAAGAGGTAggcctcccctgtgtgtggccaggttgatgtctatgtcatgacacagc Alignment from GeneWise AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTG---------------------------GTCACGCTCACTGGAGAGAAGGTGGATGTCTACGTCATGACACAG gctttgctgtcattcttcgtatagttgttttccttctccttatatttcagAATGTCACTTCTAACCACAAAGCAAGTGACACTGTGATATGTGAGGGCCACCCGCAAGTACTAAATGGCCATTTCATGTATGGACCACTGCGATGTAGTTACACTCACCAGAGAAGAGGTAGGCCTCCCCTGTGTGT-GGCCAGGTTGATGTCTATGTCATGACACAG #### Pkd2l1_ID8957_11 --> 0 - 2 Original Alignment AGCTACAACAAGACCCTACTAAGGCTGCGCCTGAGGAAAGAGCGGGTTTCTGATGTGCAGAAGGTCCTGAAG-GGTGGGGAACCAGAGATCCAGTTTGAAGATTTCACCAGCACCTTGAGGga tggtaccaacaccacatctatcatattcgctcctttctgttccactctagAGCTATAACAAGACCCTATTACGGTTGCGCCTGAGAGAGGAGCGGGTTTCAGATGTGCAAAAGGTCCTTAAGCGGTGGAGAACCAGAGATCAAGTTTGAAGATTCCACAAGCACATTGAGAgagtgagtaagtccatgcctgccagatgttctgatcacactgggctaaggta Alignment from CESAR AGCTACAACAAGACCCTACTAAGGCTGCGCCTGAGGAAAGAGCGGGTTTCTGATGTGCAGAAGGTCCTGAAG-GGTGGGGAACCAGAGATCCAGTTTGAAGATTTCACCAGCACCTTGAGGga tggtaccaacaccacatctatcatattcgctcctttctgttccactctagAGCTATAACAAGACCCTATTACGGTTGCGCCTGAGAGAGGAGCGGGTTTCAGATGTGCAAAAGGTCCTTAAGCGGTGGAGAACCAGAGATCAAGTTTGAAGATTCCACAAGCACATTGAGAgagtgagtaagtccatgcctgccagatgttctgatcacactgggctaaggta Alignment from Spaln_aa2Genome AGCTACAACAAGACCCTACTAAGGCTGCGCCTGAGGAAAGAGCGGGTTTCTGATGTGCAGAAGGTCCTGAAG-GGTGGGGAACCAGAGATCCAGTTTGAAGATTTCACCAGCACCTTGAGGGA tggtaccaacaccacatctatcatattcgctcctttctgttccactctagAGCTATAACAAGACCCTATTACGGTTGCGCCTGAGAGAGGAGCGGGTTTCAGATGTGCAAAAGGTCCTTAAGcGGTGGAGAACCAGAGATCAAGTTTGAAGATTCCACAAGCACATTGAGAGAgtgagtaagtccatgcctgccagatgttctgatcacactgggctaaggta Alignment from Spaln_nt2Genome AGCTACAACAAGACCCTACTAAGGCTGCGCCTGAGGAAAGAGCGGGTTTCTGATGTGCAGAAGGTCCTGAAGG-GTGGGGAACCAGAGATCCAGTTTGAAGATTTCACCAGCACCTTGAGGGA tggtaccaacaccacatctatcatattcgctcctttctgttccactctagAGCTATAACAAGACCCTATTACGGTTGCGCCTGAGAGAGGAGCGGGTTTCAGATGTGCAAAAGGTCCTTAAGCGGTGGAGAACCAGAGATCAAGTTTGAAGATTCCACAAGCACATTGAGAGAgtgagtaagtccatgcctgccagatgttctgatcacactgggctaaggta Alignment from Pairagon AGCTACAACAAGACCCTACTAAGGCTGCGCCTGAGGAAAGAGCGGGTTTCTGATGTGCAGAAGGTCCTGAAG-GGTGGGGAACCAGAGATCCAGTTTGAAGATTTCACCAGCACCTTGAGGGA tggtaccaacaccacatctatcatattcgctcctttctgttccactctagAGCTATAACAAGACCCTATTACGGTTGCGCCTGAGAGAGGAGCGGGTTTCAGATGTGCAAAAGGTCCTTAAGCGGTGGAGAACCAGAGATCAAGTTTGAAGATTCCACAAGCACATTGAGAGAgtgagtaagtccatgcctgccagatgttctgatcacactgggctaaggta Alignment from Exonerate_protein2genome AGCTACAACAAGACCCTACTAAGGCTGCGCCTGAGGAAAGAGCGGGTTTCTGATGTGCAGAAGGTCCTGAAG-GGTGGGGAACCAGAGATCCAGTTTGAAGATTTCACCAGCACCTTGAGGGA tggtaccaacaccacatctatcatattcgctcctttctgttccactctagAGCTATAACAAGACCCTATTACGGTTGCGCCTGAGAGAGGAGCGGGTTTCAGATGTGCAAAAGGTCCTTAAGCGGTGGAGAACCAGAGATCAAGTTTGAAGATTCCACAAGCACATTGAGAGAgtgagtaagtccatgcctgccagatgttctgatcacactgggctaaggta Alignment from Exonerate_coding2genome AGCTACAACAAGACCCTACTAAGGCTGCGCCTGAGGAAAGAGCGGGTTTCTGATGTGCAGAAGGTCCTGAAG-GGTGGGGAACCAGAGATCCAGTTTGAAGATTTCACCAGCACCTTGAGGGAA tggtaccaacaccacatctatcatattcgctcctttctgttccactctagAGCTATAACAAGACCCTATTACGGTTGCGCCTGAGAGAGGAGCGGGTTTCAGATGTGCAAAAGGTCCTTAAGCGGTGGAGAACCAGAGATCAAGTTTGAAGATTCCACAAGCACATTGAGAGAGtgagtaagtccatgcctgccagatgttctgatcacactgggctaaggta Alignment from GeneWise AGCTACAACAAGACCCTACTAAGGCTGCGCCTGAGGAAAGAGCGGGTTTCTGATGTGCAGAAGGTCCTG-AAGGGTGGGGAACCAGAGATCCAGTTTGAAGATTTCACCAGCACCTTGAGGGA tggtaccaacaccacatctatcatattcgctcctttctgttccactctagAGCTATAACAAGACCCTATTACGGTTGCGCCTGAGAGAGGAGCGGGTTTCAGATGTGCAAAAGGTCCTTAAGCGGTGGAGAACCAGAGATCAAGTTTGAAGATTCCACAAGCACATTGAGAGAgtgagtaagtccatgcctgccagatgttctgatcacactgggctaaggta #### Pkd2l1_ID8960_8 --> 0 - 2 Original Alignment ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCC-TCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCat aggcctaccctttgagagtgtactccactgacttgctgtttatttcctagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCACTCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTCAGCACTTTTGTTAAGTGCatgtacgtacaaccattgtagacccttgggttttgagatcccagaatgtctg Alignment from CESAR ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCC-TCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCat aggcctaccctttgagagtgtactccactgacttgctgtttatttcctagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCACTCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTCAGCACTTTTGTTAAGTGCatgtacgtacaaccattgtagacccttgggttttgagatcccagaatgtctg Alignment from Spaln_aa2Genome ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCC-TCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT aggcctaccctttgagagtgtactccactgacttgctgtttatttcctagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCAcTCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTCAGCACTTTTGTTAAGTGCATgtacgtacaaccattgtagacccttgggttttgagatcccagaatgtctg Alignment from Spaln_nt2Genome ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTC-CTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT aggcctaccctttgagagtgtactccactgacttgctgtttatttcctagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCACTCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTCAGCACTTTTGTTAAGTGCATgtacgtacaaccattgtagacccttgggttttgagatcccagaatgtctg Alignment from Pairagon ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTC-CTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT aggcctaccctttgagagtgtactccactgacttgctgtttatttcctagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCACTCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTCAGCACTTTTGTTAAGTGCATgtacgtacaaccattgtagacccttgggttttgagatcccagaatgtctg Alignment from Exonerate_protein2genome ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCC-TCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT aggcctaccctttgagagtgtactccactgacttgctgtttatttcctagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCACTCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTCAGCACTTTTGTTAAGTGCATgtacgtacaaccattgtagacccttgggttttgagatcccagaatgtctg Alignment from Exonerate_coding2genome ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCC-TCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT aggcctaccctttgagagtgtactccactgacttgctgtttatttcctagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCACTCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTCAGCACTTTTGTTAAGTGCATgtacgtacaaccattgtagacccttgggttttgagatcccagaatgtctg Alignment from GeneWise ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCC-TCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT aggcctaccctttgagagtgtactccactgacttgctgtttatttcctagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCACTCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTCAGCACTTTTGTTAAGTGCATgtacgtacaaccattgtagacccttgggttttgagatcccagaatgtctg #### Plcb3_ID1902_29 --> 1 - 0 Original Alignment t gGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAAC-TCCATCAGACGG tgtgcgtaccctgagaagcaggccaatatggttgtgctaactttttacagaGAATTGACAGAGATTATCCGGCAACACATCACTGAGTCAATAAATCTCCAACAGACAGgtaaaagggacttgtctttgtcaataacttcctttgtcaccaacagagac Alignment from CESAR gGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAAC-TCCATCAGACGG tgtaggcaccctgagaagcaggccaatatggttgtgctaactttttacagaGAATTGACAGAGATTATCCGGCAACACATCACTGAGTCAATAAATCTCCAACAGACAGgtaaaagggacttgtctttgtcaataacttcctttgtcaccaacagagac Alignment from Spaln_aa2Genome GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGGCTGGAAG tgtgcgtaccctgagaagcaggccaatatggttgtgctaactttttacagAGAATTGACAGAGATTATCCGGCAACACATCACTGAGTCAATAAATCTC------CAACAGACAGgtaaaagggacttgtctttgtcaataacttcctttgtcaccaacagagac Alignment from Spaln_nt2Genome GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAA-CTCCATCAGACGG tgtgcgtaccctgagaagcaggccaatatggttgtgctaactttttacagAGAATTGACAGAGATTATCCGGCAACACATCACTGAGTCAATAAATCTCCAACAGACAGgtaaaagggacttgtctttgtcaataacttcctttgtcaccaacagagac Alignment from Pairagon GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAA-CTCCATCAGACGG tgtgcgtaccctgagaagcaggccaatatggttgtgctaactttttacagAGAATTGACAGAGATTATCCGGCAACACATCACTGAGTCAATAAATCTCCAACAGACAGgtaaaagggacttgtctttgtcaataacttcctttgtcaccaacagagac Alignment from Exonerate_protein2genome GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAAC-TCCATCAGACGG tgtgcgtaccctgagaagcaggccaatatggttgtgctaactttttacagAGAATTGACAGAGATTATCCGGCAACACATCACTGAGTCAATAAATCTCCAACAGACAGgtaaaagggacttgtctttgtcaataacttcctttgtcaccaacagagac Alignment from Exonerate_coding2genome GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAAC-TCCATCAGACGG tgtgcgtaccctgagaagcaggccaatatggttgtgctaactttttacagAGAATTGACAGAGATTATCCGGCAACACATCACTGAGTCAATAAATCTCCAACAGACAGgtaaaagggacttgtctttgtcaataacttcctttgtcaccaacagagac Alignment from GeneWise GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGGCTGGAAG tgtgcgtaccctgagaagcaggccaatatggttgtgctaactttttacagAGAATTGACAGAGATTATCCGGCAACACATCACTGAGTCAATAAAT------CTCCAACAGACAGgtaaaagggacttgtctttgtcaataacttcctttgtcaccaacagagac #### Plcb3_ID1903_28 --> 1 - 2 Original Alignment gGAGAAGAAGGAACTCCAGAAGATCCTGGACAGG-AAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAG---------------gt g ttggtatgattccttacatacaattcaactcttctgtttgtccccaacaggGAGAAAAGGGAGCCTCAAAAGATCCTGGATAGGCGAGCGCAACAATAGCATTTCAGAAGCCAAGACAAGGGAGAAACATAAGAAGGAAGTGTATGGTCACTGGatgtaggcaccctgagaagcaggccaatattggtgccctgtgcccggtcaga Alignment from CESAR gGAGAAGAAGGAACTCCAGAAGATCCTGGACAGG-AAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGgt g ttggtatgattccttacatacaattcaactcttctgtttgtccccaacaggGAGAAAAGGGAGCCTCAAAAGATCCTGGATAGGCGAGCGCAACAATAGCATTTCAGAAGCCAAGACAAGGGAGAAACATAAGAAGGAAgtgtatggtcactggatgtaggcaccctgagaagcaggccaatatggttgtgctaactttttacaga Alignment from Spaln_aa2Genome GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAG-CGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT G ttggtatgattccttacatacaattcaactcttctgtttgtccccaacagGGAGAAAAGGGAGCCTCAAAAGATCCTGGATAGGCGAgCGCAACAATAGCATTTCAGAAGCCAAGACAAGGGAGAAACATAAGAAGGAAGTgtatggtcactggatgtaggcaccctgagaagcaggccaatattggtgccctgtgcccggtcagA Alignment from Spaln_nt2Genome GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGA-AGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT G ttggtatgattccttacatacaattcaactcttctgtttgtccccaacagGGAGAAAAGGGAGCCTCAAAAGATCCTGGATAGGCGAGCGCAACAATAGCATTTCAGAAGCCAAGACAAGGGAGAAACATAAGAAGGAAGTgtatggtcactggatgtaggcaccctgagaagcaggccaatattggtgccctgtgcccggtcagA Alignment from Pairagon GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGG-AAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGTG---------------------------------------------------------------- ttggtatgattccttacatacaattcaactcttctgtttgtccccaacagGGAGAAAAGGGAGCCTCAAAAGATCCTGGATAGGCGAGCGCAACAATAGCATTTCAGAAGCCAAGACAAGGGAGAAACATAAGAAGGAAGTGTATGGTCACTGGATGTAGGCACCCTGAGAAGCAGGCCAATATTGGTGCCCTGTGCCCGGTCAGA Alignment from Exonerate_protein2genome GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAG-CGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT G ttggtatgattccttacatacaattcaactcttctgtttgtccccaacagGGAGAAAAGGGAGCCTCAAAAGATCCTGGATAGGCGAGCGCAACAATAGCATTTCAGAAGCCAAGACAAGGGAGAAACATAAGAAGGAAGTgtatggtcactggatgtaggcaccctgagaagcaggccaatattggtgccctgtgcccggtcagA Alignment from Exonerate_coding2genome CTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAGGGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAG-CGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT G TTGGTATGATTCCTTACATACAATTCAACTCTTCTGTTTGTCCCCAACAGGGAGAAAAGGGAGCCTCAAAAGATCCTGGATAGGCGAGCGCAACAATAGCATTTCAGAAGCCAAGACAAGGGAGAAACATAAGAAGGAAGTgtatggtcactggatgtaggcaccctgagaagcaggccaatattggtgccctgtgcccggtcagA Alignment from GeneWise GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGG-AAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT G ttggtatgattccttacatacaattcaactcttctgtttgtccccaacagGGAGAAAAGGGAGCCTCAAAAGATCCTGGATAGGCGAGCGCAACAATAGCATTTCAGAAGCCAAGACAAGGGAGAAACATAAGAAGGAAGTgtatggtcactggatgtaggcaccctgagaagcaggccaatattggtgccctgtgcccggtcagA #### Plcb3_ID1905_26 --> 1 - 0 Original Alignment gGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAG-GAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA tctcatttggttgtatcagttagagagttcacgggtgctctgtcctttaggGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAACGAATCCAAGCAGTATAGGGACTTGCAAAATCAAAAAGCACAAAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGATGTGGAGACCAACTGCAAGCTGGAACATCTACGACAGgtaagtgatcaatgtgggatggtaaatttgtattttctgttgtagGCACA Alignment from CESAR gGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAG-GAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA tctcatttggttgtatcagttagagagttcacgggtgctctgtcctttaggGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAACGAATCCAAGCAGTATAGGGACTTGCAAAATCAAAAAGCACAAAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGATGTGGAGACCAACTGCAAGCTGGAACATCTACGACAGgtaagtgatcaatgtgggatggtatcaccctgcgtggctttccagGCACA Alignment from Spaln_aa2Genome GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAG-GAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA tctcatttggttgtatcagttagagagttcacgggtgctctgtcctttagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAcGAATCCAAGCAGTATAGGGACTTGCAAAATCAAAAAGCACAAAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGATGTGGAGACCAACTGCAAGCTGGAACATCTACGACAGgtaagtgatcaatgtgggatggtaaatttgtattttctgttgtagGCACA Alignment from Spaln_nt2Genome GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAG-GAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA tctcatttggttgtatcagttagagagttcacgggtgctctgtcctttagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAACGAATCCAAGCAGTATAGGGACTTGCAAAATCAAAAAGCACAAAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGATGTGGAGACCAACTGCAAGCTGGAACATCTACGACAGgtaagtgatcaatgtgggatggtaaatttgtattttctgttgtagGCACA Alignment from Pairagon GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAG-GAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA tctcatttggttgtatcagttagagagttcacgggtgctctgtcctttagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAACGAATCCAAGCAGTATAGGGACTTGCAAAATCAAAAAGCACAAAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGATGTGGAGACCAACTGCAAGCTGGAACATCTACGACAGgtaagtgatcaatgtgggatggtaaatttgtattttctgttgtagGCACA Alignment from Exonerate_protein2genome GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAG-GAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA tctcatttggttgtatcagttagagagttcacgggtgctctgtcctttagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAACGAATCCAAGCAGTATAGGGACTTGCAAAATCAAAAAGCACAAAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGATGTGGAGACCAACTGCAAGCTGGAACATCTACGACAGgtaagtgatcaatgtgggatggtaaatttgtattttctgttgtagGCACA Alignment from Exonerate_coding2genome GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAG-GAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG tctcatttggttgtatcagttagagagttcacgggtgctctgtcctttagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAACGAATCCAAGCAGTATAGGGACTTGCAAAATCAAAAAGCACAAAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGATGTGGAGACCAACTGCAAGCTGGAACATCTACGACAGgtaagtgatcaatgtgggatggtaaatttgtattttctgttgtaggcaca Alignment from GeneWise GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAA-GAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA tctcatttggttgtatcagttagagagttcacgggtgctctgtcctttagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAACGAATCCAAGCAGTATAGGGACTTGCAAAATCAAAAAGCACAAAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGATGTGGAGACCAACTGCAAGCTGGAACATCTACGACAGgtaagtgatcaatgtgggatggtaaatttgtattttctgttgtagGCACA #### Plcb3_ID1906_25 --> 2 - 2 Original Alignment agGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGC-CGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCct ccagcctacaagctagcacaccaaccaagcttatttgtgtcctaccatagaaGTAATCCCCACACCCCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAGCTGCGCAGCCGACAGTGTGACCAAGACCTACAGGAATTACATAAGAAGCACCAGCGTAAGGTTATAGCACTCACACGCCCGTTTGCTGGATGGCCTGGCTCAGACAAGAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCctgtaagtacactccattacaccataacttggcagtatgtacttgctgcact Alignment from CESAR agGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGC-CGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCct ccagcctacaagctagcacaccaaccaagcttatttgtgtcctaccatagaaGTAATCCCCACACCCCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAGCTGCGCAGCCGACAGTGTGACCAAGACCTACAGGAATTACATAAGAAGCACCAGCGTAAGGTTATAGCACTCACACGCCCGTTTGCTGGATGGCCTGGCTCAGACAAGAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCctgtaagtacactccattacaccataacttggcagtatgtacttgctgcact Alignment from Spaln_aa2Genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGC-CGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ccagcctacaagctagcacaccaaccaagcttatttgtgtcctaccatagAAGTAATCCCCACACCCCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAGCTGCGCAGCCGACAGTGTGACCAAGACCTACAGGAATTACATAAGAAGCACCAGCGTAAGGTTATAGCACTCACACGCcCGTTTGCTGGATGGCCTGGCTCAGACAAGAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCCTgtaagtacactccattacaccataacttggcagtatgtacttgctgcact Alignment from Spaln_nt2Genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTT-CTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ccagcctacaagctagcacaccaaccaagcttatttgtgtcctaccatagAAGTAATCCCCACACCCCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAGCTGCGCAGCCGACAGTGTGACCAAGACCTACAGGAATTACATAAGAAGCACCAGCGTAAGGTTATAGCACTCACACGCCCGTTTGCTGGATGGCCTGGCTCAGACAAGAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCCTgtaagtacactccattacaccataacttggcagtatgtacttgctgcact Alignment from Pairagon AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCG-CCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ccagcctacaagctagcacaccaaccaagcttatttgtgtcctaccatagAAGTAATCCCCACACCCCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAGCTGCGCAGCCGACAGTGTGACCAAGACCTACAGGAATTACATAAGAAGCACCAGCGTAAGGTTATAGCACTCACACGCCCGTTTGCTGGATGGCCTGGCTCAGACAAGAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCCTgtaagtacactccattacaccataacttggcagtatgtacttgctgcact Alignment from Exonerate_protein2genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGC-CGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ccagcctacaagctagcacaccaaccaagcttatttgtgtcctaccatagAAGTAATCCCCACACCCCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAGCTGCGCAGCCGACAGTGTGACCAAGACCTACAGGAATTACATAAGAAGCACCAGCGTAAGGTTATAGCACTCACACGCCCGTTTGCTGGATGGCCTGGCTCAGACAAGAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCCTgtaagtacactccattacaccataacttggcagtatgtacttgctgcact Alignment from Exonerate_coding2genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGC-CGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ccagcctacaagctagcacaccaaccaagcttatttgtgtcctaccatagAAGTAATCCCCACACCCCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAGCTGCGCAGCCGACAGTGTGACCAAGACCTACAGGAATTACATAAGAAGCACCAGCGTAAGGTTATAGCACTCACACGCCCGTTTGCTGGATGGCCTGGCTCAGACAAGAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCCTgtaagtacactccattacaccataacttggcagtatgtacttgctgcact Alignment from GeneWise GGCAGCGAGATGATTTGATTGCCAGCATCCTCTCTGAGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGC-CGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT gcacaccaaccaagCTTATTTGTGTCCTACCATA---------------GAAGTAATCCCCACACCCCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAGCTGCGCAGCCGACAGTGTGACCAAGACCTACAGGAATTACATAAGAAGCACCAGCGTAAGGTTATAGCACTCACACGCCCGTTTGCTGGATGGCCTGGCTCAGACAAGAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCCTgtaagtacactccattacaccataacttggcagtatgtacttgctgcact #### Plcb3_ID1907_24 --> 2 - 1 Original Alignment ggCAGCGAGATGATTTGATTGCC-AGCATCCTCTCTg tcactccacggatttgattgcttcactcgctccccatgccctgtccacagggCAGCCAGATGATTTGATTGCACAGCACCCTTTCAggtgagtagcgtttatgggactaaggcaagttgttctaggggtctaccttt Alignment from CESAR ggCAGCGAGATGATTTGATTGCC-AGCATCCTCTCTg tcactccacggatttgattgcttcactcgctccccatgccctgtccacagggCAGCCAGATGATTTGATTGCACAGCACCCTTTCAggtgagtagcgtttatgggactaaggcaagttgttctaggggtctaccttt Alignment from Spaln_aa2Genome GGCAGCGAGATGATTTGATTGCCAG tcactccacggatttgattgcttcactcgctccccatgccctgtccacagGGCAGCCAGATGATTTGATTGCACAgcaccctttcaggtgagtagcgtttatgggactaaggcaagttgttctaggggtctaccttt Alignment from Spaln_nt2Genome GGCAGCGAGATGATTTGATTGC-CAGCATCCTCTCTG tcactccacggatttgattgcttcactcgctccccatgccctgtccacagGGCAGCCAGATGATTTGATTGCACAGCACCCTTTCAGgtgagtagcgtttatgggactaaggcaagttgttctaggggtctaccttt Alignment from Pairagon GGCAGCGAGATGATTTGATTGC-CAGCATCCTCTCTG tcactccacggatttgattgcttcactcgctccccatgccctgtccacagGGCAGCCAGATGATTTGATTGCACAGCACCCTTTCAGgtgagtagcgtttatgggactaaggcaagttgttctaggggtctaccttt Alignment from Exonerate_protein2genome GGCAGCGAGATGATTTGATTGCC-AGCATCCTCTCTG tcactccacggatttgattgcttcactcgctccccatgccctgtccacagGGCAGCCAGATGATTTGATTGCACAGCACCCTTTCAGgtgagtagcgtttatgggactaaggcaagttgttctaggggtctaccttt Alignment from Exonerate_coding2genome tcactccacggatttgattgcttcactcgctccccatgccctgtccacagggcagccagatgatttgattgcacagcaccctttcaggtgagtagcgtttatgggactaaggcaagttgttctaggggtctaccttt Alignment from GeneWise tcactccacggatttgattgcttcactcgctccccatgccctgtccacagggcagccagatgatttgattgcacagcaccctttcaggtgagtagcgtttatgggactaaggcaagttgttctaggggtctaccttt #### Plcb3_ID1912_19 --> 0 - 0 Original Alignment GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATAT-CGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG cacacgaaaattctctcatcaactttcatgactcctttctctctcattagGTGATCCCAGGGCAATTCCTTTCTCATAAGAAAGTCGGTATCTACGTTGAGGTGGATATGTTTGGTCTCCCACTAGATACTAGATGTAAATATCCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTATGGGAAGAAGAACCGTTTGACTTCCCCAAGgtgagttccagcagttgtgccctccatttcatgtaggacagcaagaccac Alignment from CESAR GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATAT-CGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG cacacgaaaattctctcatcaactttcatgactcctttctctctcattagGTGATCCCAGGGCAATTCCTTTCTCATAAGAAAGTCGGTATCTACGTTGAGGTGGATATGTTTGGTCTCCCACTAGATACTAGATGTAAATATCCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTATGGGAAGAAGAACCGTTTGACTTCCCCAAGgtgagttccagcagttgtgccctccatttcatgtaggacagcaagaccac Alignment from Spaln_aa2Genome GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATAT-CGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG cacacgaaaattctctcatcaactttcatgactcctttctctctcattagGTGATCCCAGGGCAATTCCTTTCTCATAAGAAAGTCGGTATCTACGTTGAGGTGGATATGTTTGGTCTCCCACTAGATACTAGATGTAAATATcCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTATGGGAAGAAGAACCGTTTGACTTCCCCAAGgtgagttccagcagttgtgccctccatttcatgtaggacagcaagaccac Alignment from Spaln_nt2Genome GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATAT-CGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG cacacgaaaattctctcatcaactttcatgactcctttctctctcattagGTGATCCCAGGGCAATTCCTTTCTCATAAGAAAGTCGGTATCTACGTTGAGGTGGATATGTTTGGTCTCCCACTAGATACTAGATGTAAATATCCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTATGGGAAGAAGAACCGTTTGACTTCCCCAAGgtgagttccagcagttgtgccctccatttcatgtaggacagcaagaccac Alignment from Pairagon GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATAT-CGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG cacacgaaaattctctcatcaactttcatgactcctttctctctcattagGTGATCCCAGGGCAATTCCTTTCTCATAAGAAAGTCGGTATCTACGTTGAGGTGGATATGTTTGGTCTCCCACTAGATACTAGATGTAAATATCCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTATGGGAAGAAGAACCGTTTGACTTCCCCAAGgtgagttccagcagttgtgccctccatttcatgtaggacagcaagaccac Alignment from Exonerate_protein2genome GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATAT-CGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG cacacgaaaattctctcatcaactttcatgactcctttctctctcattagGTGATCCCAGGGCAATTCCTTTCTCATAAGAAAGTCGGTATCTACGTTGAGGTGGATATGTTTGGTCTCCCACTAGATACTAGATGTAAATATCCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTATGGGAAGAAGAACCGTTTGACTTCCCCAAGgtgagttccagcagttgtgccctccatttcatgtaggacagcaagaccac Alignment from Exonerate_coding2genome GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATAT-CGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG cacacgaaaattctctcatcaactttcatgactcctttctctctcattagGTGATCCCAGGGCAATTCCTTTCTCATAAGAAAGTCGGTATCTACGTTGAGGTGGATATGTTTGGTCTCCCACTAGATACTAGATGTAAATATCCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTATGGGAAGAAGAACCGTTTGACTTCCCCAAGgtgagttccagcagttgtgccctccatttcatgtaggacagcaagaccac Alignment from GeneWise GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATAT-CGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG cacacgaaaattctctcatcaactttcatgactcctttctctctcattagGTGATCCCAGGGCAATTCCTTTCTCATAAGAAAGTCGGTATCTACGTTGAGGTGGATATGTTTGGTCTCCCACTAGATACTAGATGTAAATATCCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTATGGGAAGAAGAACCGTTTGACTTCCCCAAGgtgagttccagcagttgtgccctccatttcatgtaggacagcaagaccac #### Plcb3_ID1915_16 --> 2 - 2 Original Alignment aaAGGAACAAGTGCTTCGAGATGTCATCC-TTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGga catcaggttggtctttcaggtgattgctctttctaattctttttccttagaaAGGAACAAGTGTTTTAGAATGTCATCTCTTTGCAGAAACCAAAGCA------------ACCAAGAGCCCTATGGAGCTAGTGgagtgagttcatcaatgtgtagtgcgaggacgataactttgttgcctacaat Alignment from CESAR aaAGGAACAAGTGCTTCGAGATGTCATCC-TTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGga catcaggttggtctttcaggtgattgctctttctaattctttttccttagaaAGGAACAAGTGTTTTAGAATGTCATCTCTTTGCAGAAACCAAAGCA------------ACCAAGAGCCCTATGGAGCTAGTGgagtgagttcatcaatgtgtagtgcgaggacgataactttgttgcctacaat Alignment from Spaln_aa2Genome AAAGGAACAAGTGCTTCGAGATGTCATCC-TTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA catcaggttggtctttcaggtgattgctctttctaattctttttccttagAAAGGAACAAGTGTTTTAGAATGTCATCTcTTTGCAGAAACCAAAGCA------------ACCAAGAGCCCTATGGAGCTAGTGGAgtgagttcatcaatgtgtagtgcgaggacgataactttgttgcctacaat Alignment from Spaln_nt2Genome AAAGGAACAAGTGCTTCGAGATGTCATC-CTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA catcaggttggtctttcaggtgattgctctttctaattctttttccttagAAAGGAACAAGTGTTTTAGAATGTCATCTCTTTGCAGAAACCAAAGCA------------ACCAAGAGCCCTATGGAGCTAGTGGAgtgagttcatcaatgtgtagtgcgaggacgataactttgttgcctacaat Alignment from Pairagon AAAGGAACAAGTGCTTCGAGATGTCATC-CTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA catcaggttggtctttcaggtgattgctctttctaattctttttccttagAAAGGAACAAGTGTTTTAGAATGTCATCTCTTTGCAGAAACCAAAGCA------------ACCAAGAGCCCTATGGAGCTAGTGGAgtgagttcatcaatgtgtagtgcgaggacgataactttgttgcctacaat Alignment from Exonerate_protein2genome AAAGGAACAAGTGCTTCGAGATGTCATCC-TTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA catcaggttggtctttcaggtgattgctctttctaattctttttccttagAAAGGAACAAGTGTTTTAGAATGTCATCTCTTTGCAGAAACCAAAGCA------------ACCAAGAGCCCTATGGAGCTAGTGGAgtgagttcatcaatgtgtagtgcgaggacgataactttgttgcctacaat Alignment from Exonerate_coding2genome catcaggttggtctttcaggtgattgctctttctaattctttttccttagaaaggaacaagtgttttagaatgtcatctctttgcagaaaccaaagcaaccaagagccctatggagctagtggagtgagttcatcaatgtgtagtgcgaggacgataactttgttgcctacaat Alignment from GeneWise TCATCCTTCG CATCAGGTTGgtctttcaggtgattgctctttctaattctttttccttagaaaggaacaagtgttttagaatgtcatctctttgcagaaaccaaagcaaccaagagccctatggagctagtggagtgagttcatcaatgtgtagtgcgaggacgataactttgttgcctacaat #### Plcb3_ID1919_12 --> 1 - 0 Original Alignment gGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTG-CTCATTGACCCTCTCGACAAATACCCG gtcatatttcagttttcacaggtcatatttcttctgttttctgtctccagaGCAAAGCAGCAT---GAGATGGCTGAGTACTGCCGGTCGATCTTTGGGGATGCACTACCTTATTGATCCTATTGACAAGTATCCAgtgagcgacaggcatgaaactccagatgcatgggggggagggaagcccga Alignment from CESAR gGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTG-CTCATTGACCCTCTCGACAAATACCCG gtcatatttcagttttcacaggtcatatttcttctgttttctgtctccagaGCAAAGCAGCAT---GAGATGGCTGAGTACTGCCGGTCGATCTTTGGGGATGCACTACCTTATTGATCCTATTGACAAGTATCCAgtgagcgacaggcatgaaactccagatgcatgggggggagggaagcccga Alignment from Spaln_aa2Genome GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTG-CTCATTGACCCTCTCGACAAATACCCG gtcatatttcagttttcacaggtcatatttcttctgttttctgtctccagAGCAAAGCAGCAT---GAGATGGCTGAGTACTGCCGGTCGATCTTTGGGGATGCACTAcCTTATTGATCCTATTGACAAGTATCCAgtgagcgacaggcatgaaactccagatgcatgggggggagggaagcccga Alignment from Spaln_nt2Genome GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGC-TCATTGACCCTCTCGACAAATACCCG gtcatatttcagttttcacaggtcatatttcttctgttttctgtctccagAGCAAAGCAGCATG---AGATGGCTGAGTACTGCCGGTCGATCTTTGGGGATGCACTACCTTATTGATCCTATTGACAAGTATCCAgtgagcgacaggcatgaaactccagatgcatgggggggagggaagcccga Alignment from Pairagon GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTG-CTCATTGACCCTCTCGACAAATACCCG gtcatatttcagttttcacaggtcatatttcttctgttttctgtctccagAGCAAAGCAGCATG---AGATGGCTGAGTACTGCCGGTCGATCTTTGGGGATGCACTACCTTATTGATCCTATTGACAAGTATCCAgtgagcgacaggcatgaaactccagatgcatgggggggagggaagcccga Alignment from Exonerate_protein2genome GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTG-CTCATTGACCCTCTCGACAAATACCCG gtcatatttcagttttcacaggtcatatttcttctgttttctgtctccagAGCAAAGCAGCAT---GAGATGGCTGAGTACTGCCGGTCGATCTTTGGGGATGCACTACCTTATTGATCCTATTGACAAGTATCCAgtgagcgacaggcatgaaactccagatgcatgggggggagggaagcccga Alignment from Exonerate_coding2genome GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTG-CTCATTGACCCTCTCGACAAATACCCG gtcatatttcagttttcacaggtcatatttcttctgttttctgtctccagAGCAAAGCAGCAT---GAGATGGCTGAGTACTGCCGGTCGATCTTTGGGGATGCACTACCTTATTGATCCTATTGACAAGTATCCAgtgagcgacaggcatgaaactccagatgcatgggggggagggaagcccga Alignment from GeneWise GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTG-CTCATTGACCCTCTCGACAAATACCCG gtcatatttcagttttcacaggtcatatttcttctgttttctgtctccagAGCAAAGCAGCAT---GAGATGGCTGAGTACTGCCGGTCGATCTTTGGGGATGCACTACCTTATTGATCCTATTGACAAGTATCCAgtgagcgacaggcatgaaactccagatgcatgggggggagggaagcccga #### Plcb3_ID1922_9 --> 1 - 1 Original Alignment aGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAAC------CAGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAG-AAGTACGAGACGAACAAACAGTTCCTGGAGCGCg agtagtagggagctaccatcatgagtgtcttagcccacccttccccacagaGGCATGAAAGGCAAGCCTTACCTT---CTGGAGCAGCTTATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGACCCAAGACTG---------------------------TCCTCACAAGCTCGTCTACTAATAGAACGAGTATGAGGCTAACAGACAGTTTCTGGAGTGTggtaggtccacacaggtaagatagttgtacgtactagtgggatctgctttg Alignment from CESAR aGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAACCAG------AAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAG-AAGTACGAGACGAACAAACAGTTCCTGGAGCGCg agtagtagggagctaccatcatgagtgtcttagcccacccttccccacagaGGCATGAAAGGCAAGCCTTACCTT---CTGGAGCAGCTTATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGACCCAAGACTG---------------------------TCCTCACAAGCTCGTCTACTAATAGAACGAGTATGAGGCTAACAGACAGTTTCTGGAGTGTggtaggtccacacaggtaagatagttgtacgtactagtgggatctgctttg Alignment from Spaln_aa2Genome AGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAACCAG------AAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAG-TACGAGACGAACAAACAGTTCCTGGAGCGCG agtagtagggagctaccatcatgagtgtcttagcccacccttccccacagAGGCATGAAAGGCAAGCCTTACCTT---CTGGAGCAGCTTATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGACCCAAGACTG---------------------------TCCTCACAAGCTCGTCTACTAATAGAACGAgTATGAGGCTAACAGACAGTTTCTGGAGTGTGgtaggtccacacaggtaagatagttgtacgtactagtgggatctgctttg Alignment from Spaln_nt2Genome AGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAACC------AGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGA-AGTACGAGACGAACAAACAGTTCCTGGAGCGCG agtagtagggagctaccatcatgagtgtcttagcccacccttccccacagAGGCATGAAAGGCAAGCCTTACCT---TCTGGAGCAGCTTATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGACCCAAGACT---------------------------GTCCTCACAAGCTCGTCTACTAATAGAACGAGTATGAGGCTAACAGACAGTTTCTGGAGTGTGgtaggtccacacaggtaagatagttgtacgtactagtgggatctgctttg Alignment from Pairagon AGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAACC------AGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAG-AAGTACGAGACGAACAAACAGTTCCTGGAGCGCG agtagtagggagctaccatcatgagtgtcttagcccacccttccccacagAGGCATGAAAGGCAAGCCTTACCT---TCTGGAGCAGCTTATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGACCCAAGACT---------------------------GTCCTCACAAGCTCGTCTACTAATAGAACGAGTATGAGGCTAACAGACAGTTTCTGGAGTGTGgtaggtccacacaggtaagatagttgtacgtactagtgggatctgctttg Alignment from Exonerate_protein2genome CACTCTGGAGCAGCTCATGGACTTTATCAACCAGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAG-TACGAGACGAACAAACAGTTCCTGGAGCGCG agtagtagggagctaccatcatgagtgtcttagcccacccttccccacagAGGCATGAAAGGCAAGCCTTACCTTCTGGAGCAGCTTATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGACCCAAGACTGTCCTCACAAGCTCGTCTACTAATAGAACGAGTATGAGGCTAACAGACAGTTTCTGGAGTGTGgtaggtccacacaggtaagatagttgtacgtactagtgggatctgctttg Alignment from Exonerate_coding2genome agtagtagggagctaccatcatgagtgtcttagcccacccttccccacagaggcatgaaaggcaagccttaccttctggagcagcttatggactttgtgaaccaacaagagaagcagagagacccaagactgtcctcacaagctcgtctactaatagaacgagtatgaggctaacagacagtttctggagtgtggtaggtccacacaggtaagatagttgtacgtactagtgggatctgctttg Alignment from GeneWise AGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAACCAG------AAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAG-AAGTACGAGACGAACAAACAGTTCCTGGAGCGCG agtagtagggagctaccatcatgagtgtcttagcccacccttccccacagAGGCATGAAAGGCAAGCCTTACCTT---CTGGAGCAGCTTATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGACCCAAGACTG---------------------------TCCTCACAAGCTCGTCTACTAATAGAACGAGTATGAGGCTAACAGACAGTTTCTGGAGTGTGgtaggtccacacaggtaagatagttgtacgtactagtgggatctgctttg #### Plcb3_ID1923_8 --> 1 - 2 Original Alignment tGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGAT-ATTGACAAGATCCTGCTGGAGat tgttgggtcaatattctcatcctgccatacccccaatgtcttcggtgcagtGAATCCATTCGCCCTGATGAATTTCCTTTGGAAGTTTTTGAACGGTTCTTGAATAAACTGTGTCTGCGAGCAGATCATTGACAAGATTGTGCTGGAGatgtagggaagtcatcccaggtcatgggtggctgtgaaatcccattgaaaaa Alignment from CESAR tGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGAT-ATTGACAAGATCCTGCTGGAGat tgttgggtcaatattctcatcctgccatacccccaatgtcttcggtgcagtGAATCCATTCGCCCTGATGAATTTCCTTTGGAAGTTTTTGAACGGTTCTTGAATAAACTGTGTCTGCGAGCAGATCATTGACAAGATTGTGCTGGAGatgtagggaagtcatcccaggtcatgggtggctgtgaaatcccattgaaaaa Alignment from Spaln_aa2Genome TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGAT-ATTGACAAGATCCTGCTGGAGAT tgttgggtcaatattctcatcctgccatacccccaatgtcttcggtgcagTGAATCCATTCGCCCTGATGAATTTCCTTTGGAAGTTTTTGAACGGTTCTTGAATAAACTGTGTCTGCGAGCAGATcATTGACAAGATTGTGCTGGAGATgtagggaagtcatcccaggtcatgggtggctgtgaaatcccattgaaaaa Alignment from Spaln_nt2Genome TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGAT-ATTGACAAGATCCTGCTGGAGAT tgttgggtcaatattctcatcctgccatacccccaatgtcttcggtgcagTGAATCCATTCGCCCTGATGAATTTCCTTTGGAAGTTTTTGAACGGTTCTTGAATAAACTGTGTCTGCGAGCAGATCATTGACAAGATTGTGCTGGAGATgtagggaagtcatcccaggtcatgggtggctgtgaaatcccattgaaaaa Alignment from Pairagon TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGAT-ATTGACAAGATCCTGCTGGAGAT tgttgggtcaatattctcatcctgccatacccccaatgtcttcggtgcagTGAATCCATTCGCCCTGATGAATTTCCTTTGGAAGTTTTTGAACGGTTCTTGAATAAACTGTGTCTGCGAGCAGATCATTGACAAGATTGTGCTGGAGATgtagggaagtcatcccaggtcatgggtggctgtgaaatcccattgaaaaa Alignment from Exonerate_protein2genome TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGAT-ATTGACAAGATCCTGCTGGAGAT tgttgggtcaatattctcatcctgccatacccccaatgtcttcggtgcagTGAATCCATTCGCCCTGATGAATTTCCTTTGGAAGTTTTTGAACGGTTCTTGAATAAACTGTGTCTGCGAGCAGATCATTGACAAGATTGTGCTGGAGATgtagggaagtcatcccaggtcatgggtggctgtgaaatcccattgaaaaa Alignment from Exonerate_coding2genome tgttgggtcaatattctcatcctgccatacccccaatgtcttcggtgcagtgaatccattcgccctgatgaatttcctttggaagtttttgaacggttcttgaataaactgtgtctgcgagcagatcattgacaagattgtgctggagatgtagggaagtcatcccaggtcatgggtggctgtgaaatcccattgaaaaa Alignment from GeneWise TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGAT-ATTGACAAGATCCTGCTGGAGAT tgttgggtcaatattctcatcctgccatacccccaatgtcttcggtgcagTGAATCCATTCGCCCTGATGAATTTCCTTTGGAAGTTTTTGAACGGTTCTTGAATAAACTGTGTCTGCGAGCAGATCATTGACAAGATTGTGCTGGAGATgtagggaagtcatcccaggtcatgggtggctgtgaaatcccattgaaaaa #### Plcb3_ID1925_6 --> 1 - 2 Original Alignment aTACACGAAGCTGAAGCTG-CAGGTGAACCAGGATGGACGGATTCCGGTCAAGaa tttgtatcacagacacaacacatgatccttgtttatgccctgccattcagaTACACAAAGCTAAAGCTGCCAGGGCAATCAGGATGGGCGGATTCCAGTCAAGaagtcaggtcccatgcccatgttatcttcccagcatccctaacattcgtcta Alignment from CESAR aTACACGAAGCTGAAGCTG-CAGGTGAACCAGGATGGACGGATTCCGGTCAAGaa tttgtatcacagacacaacacatgatccttgtttatgccctgccattcagaTACACAAAGCTAAAGCTGCCAGGGCAATCAGGATGGGCGGATTCCAGTCAAGaagtcaggtcccatgcccatgttatcttcccagcatccctaacattcgtcta Alignment from Spaln_aa2Genome ATACACGAAGCTGAAGCTG-CAGGTGAACCAGGATGGACGGATTCCGGTCAAGAA tttgtatcacagacacaacacatgatccttgtttatgccctgccattcagATACACAAAGCTAAAGCTGcCAGGGCAATCAGGATGGGCGGATTCCAGTCAAGAAgtcaggtcccatgcccatgttatcttcccagcatccctaacattcgtcta Alignment from Spaln_nt2Genome ATACACGAAGCTGAAGCTGC-AGGTGAACCAGGATGGACGGATTCCGGTCAAGAA tttgtatcacagacacaacacatgatccttgtttatgccctgccattcagATACACAAAGCTAAAGCTGCCAGGGCAATCAGGATGGGCGGATTCCAGTCAAGAAgtcaggtcccatgcccatgttatcttcccagcatccctaacattcgtcta Alignment from Pairagon ATACACGAAGCTGAAGCTG-CAGGTGAACCAGGATGGACGGATTCCGGTCAAGAA tttgtatcacagacacaacacatgatccttgtttatgccctgccattcagATACACAAAGCTAAAGCTGCCAGGGCAATCAGGATGGGCGGATTCCAGTCAAGAAgtcaggtcccatgcccatgttatcttcccagcatccctaacattcgtcta Alignment from Exonerate_protein2genome ATACACGAAGCTGAAGCTG-CAGGTGAACCAGGATGGACGGATTCCGGTCAAGAA tttgtatcacagacacaacacatgatccttgtttatgccctgccattcagATACACAAAGCTAAAGCTGCCAGGGCAATCAGGATGGGCGGATTCCAGTCAAGAAgtcaggtcccatgcccatgttatcttcccagcatccctaacattcgtcta Alignment from Exonerate_coding2genome tttgtatcacagacacaacacatgatccttgtttatgccctgccattcagatacacaaagctaaagctgccagggcaatcaggatgggcggattccagtcaagaagtcaggtcccatgcccatgttatcttcccagcatccctaacattcgtcta Alignment from GeneWise ATACACGAAGCTGAAGCTGCAG-GTGAACCAGGATGGACGGATTCCGGTCAAGAA tttgtatcacagacacaacacatgatccttgtttatgccctgccattcagATACACAAAGCTAAAGCTGCCAGGGCAATCAGGATGGGCGGATTCCAGTCAAGAAgtcaggtcccatgcccatgttatcttcccagcatccctaacattcgtcta #### Pnlip_ID12752_11 --> 1 - 2 Original Alignment gGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCC-AAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAgt caccagggactaaacaaatggctcaagtctttcttttcttctttttccagg------------------------GATGGCAATGAATTTGAGTCTGAA------GTTGGAGATTTGCAGAGGGTCAAATTTATTGGC---AACAATGTAATTAACCCAACACTTCCGCAGAGTGGGGGCATCAGGGATTACTGTAGAAAGAAATGATGGGAGAgtgtaggttacttgtgtaccaaaagacagcagggcgtagcttaaagtcacat Alignment from CESAR gGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCC-AAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAgt caccagggactaaacaaatggctcaagtctttcttttcttctttttccaggGAT------------------------GGCAATGAATTTGAGTCT------GAAGTTGGAGATTTGCAGAGGGTCAAATTTATT---GGCAACAATGTAATTAACCCAACACTTCCGCAGAGTGGGGGCATCAGGGATTACTGTAGAAAGAAATGATGGGAGAgtgtaggttacttgtgtaccaaaagacagcagggcgtagcttaaagtcacat Alignment from Spaln_aa2Genome CAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCC-AAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT caccagggactaaacaaatggctcaagtctttcttttcttctttttccagGGATGGCAATGAATTTGAGTCTGAAGTTGGAGATTTGCAGAGGGTCAAATTTATTGGC---AACAATGTAATTAACCCAACACTTCCGcAGAGTGGGGGCATCAGGGATTACTGTAGAAAGAAATGATGGGAGAGTgtaggttacttgtgtaccaaaagacagcagggcgtagcttaaagtcacat Alignment from Spaln_nt2Genome TCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACC-CAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT caccagggactaaacaaatggctcaagtctttcttttcttctttttccagGGATGGCAATGAATTTGAGTCT------GAAGTTGGAGATTTGCAGAGGGTCAAATTTATTGG---CAACAATGTAATTAACCCAACACTTCCGCAGAGTGGGGGCATCAGGGATTACTGTAGAAAGAAATGATGGGAGAGTgtaggttacttgtgtaccaaaagacagcagggcgtagcttaaagtcacat Alignment from Pairagon GGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACC-CAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT caccagggactaaacaaatggctcaagtctttcttttcttctttttccagGG------------------------ATGGCAATGAATTTGAGTCT------GAAGTTGGAGATTTGCAGAGGGTCAAATTTATTGG---CAACAATGTAATTAACCCAACACTTCCGCAGAGTGGGGGCATCAGGGATTACTGTAGAAAGAAATGATGGGAGAGTgtaggttacttgtgtaccaaaagacagcagggcgtagcttaaagtcacat Alignment from Exonerate_protein2genome CAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCC-AAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT caccagggactaaacaaatggctcaagtctttcttttcttctttttccagGGATGGCAATGAATTTGAGTCTGAAGTTGGAGATTTGCAGAGGGTCAAATTTATTGGC---AACAATGTAATTAACCCAACACTTCCGCAGAGTGGGGGCATCAGGGATTACTGTAGAAAGAAATGATGGGAGAGTgtaggttacttgtgtaccaaaagacagcagggcgtagcttaaagtcacat Alignment from Exonerate_coding2genome CAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCC-AAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT caccagggactaaacaaatggctcaagtctttcttttcttctttttccagGGATGGCAATGAATTTGAGTCTGAAGTTGGAGATTTGCAGAGGGTCAAATTTATTGGC---AACAATGTAATTAACCCAACACTTCCGCAGAGTGGGGGCATCAGGGATTACTGTAGAAAGAAATGATGGGAGAGTgtaggttacttgtgtaccaaaagacagcagggcgtagcttaaagtcacat Alignment from GeneWise -AAGGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCC-AAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT caccagggactaaacaaatggctcaagtctttcttttcttctttttccagGGATGGC---------------------------AATGAATTTGAGTCTGAAGTT------GGAGATTTGCAGAGGGTCAAATTTATTGGC---AACAATGTAATTAACCCAACACTTCCGCAGAGTGGGGGCATCAGGGATTACTGTAGAAAGAAATGATGGGAGAGTgtaggttacttgtgtaccaaaagacagcagggcgtagcttaaagtcacat #### Pnliprp1_ID12769_6 --> 2 - 1 Original Alignment gaCTGGATCCTGTAGAAGCAAATTTTGAGGGA-ACCCCTGAAGAGGTCCGGCTCGACCCCTCGGATGCTGACTTTGTTGATGTGATTCACACAGATGCAGCTCCCTTGATCCCATTCTTGg aactctgtactctcatgctgctacatttgctgcttttcctcaatgaccaggaCTGGATTCTGTAGAAGCAAATTTTGAGGGACACCCCTGAAGAGATTCGGCTGGACCCCTCAGATGCTGACTTTGTCGATGTGATTCACACAGATGCAGCTGCCTTGGTCCCATCCTTGggtgagtcctggtaccctgtaatcatctaccaggtattgcaagacctaacc Alignment from CESAR gaCTGGATCCTGTAGAAGCAAATTTTGAGGGA-ACCCCTGAAGAGGTCCGGCTCGACCCCTCGGATGCTGACTTTGTTGATGTGATTCACACAGATGCAGCTCCCTTGATCCCATTCTTGg aactctgtactctcatgctgctacatttgctgcttttcctcaatgaccaggaCTGGATTCTGTAGAAGCAAATTTTGAGGGACACCCCTGAAGAGATTCGGCTGGACCCCTCAGATGCTGACTTTGTCGATGTGATTCACACAGATGCAGCTGCCTTGGTCCCATCCTTGggtgagtcctggtaccctgtaatcatctaccaggtattgcaagacctaacc Alignment from Spaln_aa2Genome GACTGGATCCTGTAGAAGCAAATTTTGAGGGA-ACCCCTGAAGAGGTCCGGCTCGACCCCTCGGATGCTGACTTTGTTGATGTGATTCACACAGATGCAGCTCCCTTGATCCCATTCTTGG aactctgtactctcatgctgctacatttgctgcttttcctcaatgaccagGACTGGATTCTGTAGAAGCAAATTTTGAGGGAcACCCCTGAAGAGATTCGGCTGGACCCCTCAGATGCTGACTTTGTCGATGTGATTCACACAGATGCAGCTGCCTTGGTCCCATCCTTGGgtgagtcctggtaccctgtaatcatctaccaggtattgcaagacctaacc Alignment from Spaln_nt2Genome GACTGGATCCTGTAGAAGCAAATTTTGA-GGGAACCCCTGAAGAGGTCCGGCTCGACCCCTCGGATGCTGACTTTGTTGATGTGATTCACACAGATGCAGCTCCCTTGATCCCATTCTTGG aactctgtactctcatgctgctacatttgctgcttttcctcaatgaccagGACTGGATTCTGTAGAAGCAAATTTTGAGGGACACCCCTGAAGAGATTCGGCTGGACCCCTCAGATGCTGACTTTGTCGATGTGATTCACACAGATGCAGCTGCCTTGGTCCCATCCTTGGgtgagtcctggtaccctgtaatcatctaccaggtattgcaagacctaacc Alignment from Pairagon GACTGGATCCTGTAGAAGCAAATTTTGAGGGA-ACCCCTGAAGAGGTCCGGCTCGACCCCTCGGATGCTGACTTTGTTGATGTGATTCACACAGATGCAGCTCCCTTGATCCCATTCTTGG aactctgtactctcatgctgctacatttgctgcttttcctcaatgaccagGACTGGATTCTGTAGAAGCAAATTTTGAGGGACACCCCTGAAGAGATTCGGCTGGACCCCTCAGATGCTGACTTTGTCGATGTGATTCACACAGATGCAGCTGCCTTGGTCCCATCCTTGGgtgagtcctggtaccctgtaatcatctaccaggtattgcaagacctaacc Alignment from Exonerate_protein2genome GACTGGATCCTGTAGAAGCAAATTTTGAGGGA-ACCCCTGAAGAGGTCCGGCTCGACCCCTCGGATGCTGACTTTGTTGATGTGATTCACACAGATGCAGCTCCCTTGATCCCATTCTTGG aactctgtactctcatgctgctacatttgctgcttttcctcaatgaccagGACTGGATTCTGTAGAAGCAAATTTTGAGGGACACCCCTGAAGAGATTCGGCTGGACCCCTCAGATGCTGACTTTGTCGATGTGATTCACACAGATGCAGCTGCCTTGGTCCCATCCTTGGgtgagtcctggtaccctgtaatcatctaccaggtattgcaagacctaacc Alignment from Exonerate_coding2genome GACTGGATCCTGTAGAAGCAAATTTTGAGGGA-ACCCCTGAAGAGGTCCGGCTCGACCCCTCGGATGCTGACTTTGTTGATGTGATTCACACAGATGCAGCTCCCTTGATCCCATTCTTGG aactctgtactctcatgctgctacatttgctgcttttcctcaatgaccagGACTGGATTCTGTAGAAGCAAATTTTGAGGGACACCCCTGAAGAGATTCGGCTGGACCCCTCAGATGCTGACTTTGTCGATGTGATTCACACAGATGCAGCTGCCTTGGTCCCATCCTTGGgtgagtcctggtaccctgtaatcatctaccaggtattgcaagacctaacc Alignment from GeneWise GACTGGATCCTGTAGAAGCAAATTTTGAGGGA-ACCCCTGAAGAGGTCCGGCTCGACCCCTCGGATGCTGACTTTGTTGATGTGATTCACACAGATGCAGCTCCCTTGATCCCATTCTTGG aactctgtactctcatgctgctacatttgctgcttttcctcaatgaccagGACTGGATTCTGTAGAAGCAAATTTTGAGGGACACCCCTGAAGAGATTCGGCTGGACCCCTCAGATGCTGACTTTGTCGATGTGATTCACACAGATGCAGCTGCCTTGGTCCCATCCTTGGgtgagtcctggtaccctgtaatcatctaccaggtattgcaagacctaacc #### Pola2_ID1323_17 --> 1 - 0 Original Alignment tTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCG-TCCGAGCTGAGATACTTTGTGAAG ggaggggtgacggtatggtcaggagatcaagttcttccttgcttttgcagcTACTATCCACTTTATCCACCCCATGTGGACATGGCCATAGACTATAAGAATTTTTACACCTATGCTCAATTGCCAGTGTTACCTGGTGTGTTCATAGTGCCACTCTGAGCTGAAATACTTTGTAAAGgtgagagttggattgctttctcctttgggtcttctgatatgccatctcac Alignment from CESAR tTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCG-TCCGAGCTGAGATACTTTGTGAAG ggaggggtgacggtatggtcaggagatcaagttcttccttgcttttgcagcTACTATCCACTTTATCCACCCCATGTGGACATGGCCATAGACTATAAGAATTTTTACACCTATGCTCAATTGCCAGTGTTACCTGGTGTGTTCATAGTGCCACTCTGAGCTGAAATACTTTGTAAAGgtgagagttggattgctttctcctttgggtcttctgatatgccatctcac Alignment from Spaln_aa2Genome TTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCG-TCCGAGCTGAGATACTTTGTGAAG ggaggggtgacggtatggtcaggagatcaagttcttccttgcttttgcagCTACTATCCACTTTATCCACCCCATGTGGACATGGCCATAGACTATAAGAATTTTTACACCTATGCTCAATTGCCAGTGTTACCTGGTGTGTTCATAGTGCCAcTCTGAGCTGAAATACTTTGTAAAGgtgagagttggattgctttctcctttgggtcttctgatatgccatctcac Alignment from Spaln_nt2Genome TTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCG-TCCGAGCTGAGATACTTTGTGAAG ggaggggtgacggtatggtcaggagatcaagttcttccttgcttttgcagCTACTATCCACTTTATCCACCCCATGTGGACATGGCCATAGACTATAAGAATTTTTACACCTATGCTCAATTGCCAGTGTTACCTGGTGTGTTCATAGTGCCACTCTGAGCTGAAATACTTTGTAAAGgtgagagttggattgctttctcctttgggtcttctgatatgccatctcac Alignment from Pairagon TTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCG-TCCGAGCTGAGATACTTTGTGAAG ggaggggtgacggtatggtcaggagatcaagttcttccttgcttttgcagCTACTATCCACTTTATCCACCCCATGTGGACATGGCCATAGACTATAAGAATTTTTACACCTATGCTCAATTGCCAGTGTTACCTGGTGTGTTCATAGTGCCACTCTGAGCTGAAATACTTTGTAAAGgtgagagttggattgctttctcctttgggtcttctgatatgccatctcac Alignment from Exonerate_protein2genome TTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCG-TCCGAGCTGAGATACTTTGTGAAG ggaggggtgacggtatggtcaggagatcaagttcttccttgcttttgcagCTACTATCCACTTTATCCACCCCATGTGGACATGGCCATAGACTATAAGAATTTTTACACCTATGCTCAATTGCCAGTGTTACCTGGTGTGTTCATAGTGCCACTCTGAGCTGAAATACTTTGTAAAGgtgagagttggattgctttctcctttgggtcttctgatatgccatctcac Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCG-TCCGAGCTGAGATACTTTGTGAAG ggaggggtgacggtatggtcaggagatcaagttcttccttgcttttgcagCTACTATCCACTTTATCCACCCCATGTGGACATGGCCATAGACTATAAGAATTTTTACACCTATGCTCAATTGCCAGTGTTACCTGGTGTGTTCATAGTGCCACTCTGAGCTGAAATACTTTGTAAAGgtgagagttggattgctttctcctttgggtcttctgatatgccatctcac #### Pola2_ID1332_9 --> 0 - 0 Original Alignment GTTGTAATTATG-GAAGGATTCAACACCACTGGTAGGAGACTTACTGCCACCAAACTCTATGAG atcctcaagtcgcccctgtcctggctactcctgctttttttaaatttaagGTTGTGATTATGCGAAGGATTCAACACTACTGGTAAAAGACTTACTGCCACCAAACTCTATGAGgtaactagtgagccaaccttcctctactccaaaatgagtcaggcagtcac Alignment from CESAR GTTGTAATTATG-GAAGGATTCAACACCACTGGTAGGAGACTTACTGCCACCAAACTCTATGAG atcctcaagtcgcccctgtcctggctactcctgctttttttaaatttaagGTTGTGATTATGCGAAGGATTCAACACTACTGGTAAAAGACTTACTGCCACCAAACTCTATGAGgtaactagtgagccaaccttcctctactccaaaatgagtcaggcagtcac Alignment from Spaln_aa2Genome GTTGTAATTATG-GAAGGATTCAACACCACTGGTAGGAGACTTACTGCCACCAAACTCTATGAG atcctcaagtcgcccctgtcctggctactcctgctttttttaaatttaagGTTGTGATTATGcGAAGGATTCAACACTACTGGTAAAAGACTTACTGCCACCAAACTCTATGAGgtaactagtgagccaaccttcctctactccaaaatgagtcaggcagtcac Alignment from Spaln_nt2Genome GTTGTAATTATG-GAAGGATTCAACACCACTGGTAGGAGACTTACTGCCACCAAACTCTATGAG atcctcaagtcgcccctgtcctggctactcctgctttttttaaatttaagGTTGTGATTATGCGAAGGATTCAACACTACTGGTAAAAGACTTACTGCCACCAAACTCTATGAGgtaactagtgagccaaccttcctctactccaaaatgagtcaggcagtcac Alignment from Pairagon GTTGTAATTATG-GAAGGATTCAACACCACTGGTAGGAGACTTACTGCCACCAAACTCTATGAG atcctcaagtcgcccctgtcctggctactcctgctttttttaaatttaagGTTGTGATTATGCGAAGGATTCAACACTACTGGTAAAAGACTTACTGCCACCAAACTCTATGAGgtaactagtgagccaaccttcctctactccaaaatgagtcaggcagtcac Alignment from Exonerate_protein2genome GTTGTAATTATG-GAAGGATTCAACACCACTGGTAGGAGACTTACTGCCACCAAACTCTATGAG atcctcaagtcgcccctgtcctggctactcctgctttttttaaatttaagGTTGTGATTATGCGAAGGATTCAACACTACTGGTAAAAGACTTACTGCCACCAAACTCTATGAGgtaactagtgagccaaccttcctctactccaaaatgagtcaggcagtcac Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTTGTAATTATG-GAAGGATTCAACACCACTGGTAGGAGACTTACTGCCACCAAACTCTATGAG atcctcaagtcgcccctgtcctggctactcctgctttttttaaatttaagGTTGTGATTATGCGAAGGATTCAACACTACTGGTAAAAGACTTACTGCCACCAAACTCTATGAGgtaactagtgagccaaccttcctctactccaaaatgagtcaggcagtcac #### Pold4_ID438_3 --> 2 - 2 Original Alignment gtATCACAAGG---CTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGC-TTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCag gggtacactaccaccccctgattgtctcccacatcctttgtctcccacagggATCTCAAGATTGTTGCAGTGC---AGCCGTGCAGAGCAGATGGGCCTTGACGCCCCCTCTAGAGGTGTATCCTGTGTTGAAAGCACGCCCTGAAGACCCTCACTATTGGTGTacgtacgcatgtacagcctgcctatctggaagctcatctggagtgtgttagc Alignment from CESAR gtATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGC-TTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCag gggtacactaccaccccctgattgtctcccacatcctttgtctcccacagggATCTCAAGATTGTTGCAGTGCAGCCGTGCAGAGCAGATGGGCCTTGACGCCCCCTCTAGAGGTGTATCCTGTGTTGAAAGCACGCCCTGAAGACCCTCACTATTGGTGTacgtacgcatgtacagcctgcctatctggaagctcatctggagtgtgttagc Alignment from Spaln_aa2Genome GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGC-TTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG gggtacactaccaccccctgattgtctcccacatcctttgtctcccacagGGATCTCAAGATTGTTGCAGTGCAGCCGTGCAGAGCAGATGGGCcTTGACGCCCCCTCTAGAGGTGTATCCTGTGTTGAAAGCACGCCCTGAAGACCCTCACTATTGGTGTACgtacgcatgtacagcctgcctatctggaagctcatctggagtgtgttagc Alignment from Spaln_nt2Genome GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGG-CTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG gggtacactaccaccccctgattgtctcccacatcctttgtctcccacagGGATCTCAAGATTGTTGCAGTGCAGCCGTGCAGAGCAGATGGGCCTTGACGCCCCCTCTAGAGGTGTATCCTGTGTTGAAAGCACGCCCTGAAGACCCTCACTATTGGTGTACgtacgcatgtacagcctgcctatctggaagctcatctggagtgtgttagc Alignment from Pairagon GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGG-CTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCAC------- gggtacactaccaccccctgattgtctcccacatcctttgtctcccacagGGATCTCAAGATTGTTGCAGTGCAGCCGTGCAGAGCAGATGGGCCTTGACGCCCCCTCTAGAGGTGTATCCTGTGTTGAAAGCACGCCCTGAAGACCCTCACTATTGGTgtacgtacgcatgtacagcctgcctatctggaagctcatctggagtgtgttagc Alignment from Exonerate_protein2genome GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGC-TTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG gggtacactaccaccccctgattgtctcccacatcctttgtctcccacagGGATCTCAAGATTGTTGCAGTGCAGCCGTGCAGAGCAGATGGGCCTTGACGCCCCCTCTAGAGGTGTATCCTGTGTTGAAAGCACGCCCTGAAGACCCTCACTATTGGTGTACgtacgcatgtacagcctgcctatctggaagctcatctggagtgtgttagc Alignment from Exonerate_coding2genome GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGC-TTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAGC gggtacactaccaccccctgattgtctcccacatcctttgtctcccacagGGATCTCAAGATTGTTGCAGTGCAGCCGTGCAGAGCAGATGGGCCTTGACGCCCCCTCTAGAGGTGTATCCTGTGTTGAAAGCACGCCCTGAAGACCCTCACTATTGGTGTACGtacgcatgtacagcctgcctatctggaagctcatctggagtgtgttagc Alignment from GeneWise GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTG-AAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAGCCTGTGGCATCTCTACCCACTC gggtacactaccaccccctgattgtctcccacatcctttgtctcccacagGGATCTCAAGATTGTTGCAGTGCAGCCGTGCAGAGCAGATGGGCCTTGACGCCCCCTCTAGAGGTGTATCCTGTGTTGAAAGCACGCCCTGAAGACCCTCACTATTGGTGTACGTACGCATGTACAGCCTGCCTAtctggaagctcatctggagtgtgttagc #### Polr2g_ID2378_5 --> 0 - 0 Original Alignment TCCATCCCTTCAGAG-ATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG ttcagtttctcatcttggaagtatgtcacaacatggcttttctcttctagTCCATACCATCTGAACATGGAATTTGACTCAAACTCAAACCCCCCCTGCTATAAGACCATGGATGAAgtaagacagcatgcactgggggatgagatgacaagagaggacagcaattc Alignment from CESAR TCCATCCCTTCAGAG-ATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG ttcagtttctcatcttggaagtatgtcacaacatggcttttctcttctagTCCATACCATCTGAACATGGAATTTGACTCAAACTCAAACCCCCCCTGCTATAAGACCATGGATGAAgtaagacagcatgcactgggggatgagatgacaagagaggacagcaattc Alignment from Spaln_aa2Genome TCCATCCCTTCAGAG-ATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG ttcagtttctcatcttggaagtatgtcacaacatggcttttctcttctagTCCATACCATCTGAAcATGGAATTTGACTCAAACTCAAACCCCCCCTGCTATAAGACCATGGATGAAgtaagacagcatgcactgggggatgagatgacaagagaggacagcaattc Alignment from Spaln_nt2Genome TCCATCCCTTCAGAG-ATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG ttcagtttctcatcttggaagtatgtcacaacatggcttttctcttctagTCCATACCATCTGAACATGGAATTTGACTCAAACTCAAACCCCCCCTGCTATAAGACCATGGATGAAgtaagacagcatgcactgggggatgagatgacaagagaggacagcaattc Alignment from Pairagon TCCATCCCTTCAGAG-ATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG ttcagtttctcatcttggaagtatgtcacaacatggcttttctcttctagTCCATACCATCTGAACATGGAATTTGACTCAAACTCAAACCCCCCCTGCTATAAGACCATGGATGAAgtaagacagcatgcactgggggatgagatgacaagagaggacagcaattc Alignment from Exonerate_protein2genome TCCATCCCTTCAGAG-ATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG ttcagtttctcatcttggaagtatgtcacaacatggcttttctcttctagTCCATACCATCTGAACATGGAATTTGACTCAAACTCAAACCCCCCCTGCTATAAGACCATGGATGAAgtaagacagcatgcactgggggatgagatgacaagagaggacagcaattc Alignment from Exonerate_coding2genome TCCATCCCTTCAGAG-ATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG ttcagtttctcatcttggaagtatgtcacaacatggcttttctcttctagTCCATACCATCTGAACATGGAATTTGACTCAAACTCAAACCCCCCCTGCTATAAGACCATGGATGAAgtaagacagcatgcactgggggatgagatgacaagagaggacagcaattc Alignment from GeneWise CT-- ----------TCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG TTCAgtttctcatcttggaagtatgtcacaacatggcttttctcttctagTCCATACCATCTGAACATGGAATTTGACTCAAACTCAAACCCCCCCTGCTATAAGACCATGGATGAAgtaagacagcatgcactgggggatgagatgacaagagaggacagcaattc #### Ppp1r32_ID2843_8 --> 0 - 0 Original Alignment GGAAGTGATTTCCTCCCTGTGCTGTCC-AGAGGCTCTGAT------CGGGACACTGGATTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA acactctgttgctccatgtggtgtgacttggatacttgtatctatttcagGGGAGTGATTTCCTGCCGGTGCTGTCCCAGGGGATCTGATCCCGATCGGGACACAGGATTTAGCCGAGTGAACGAAAGAACACTAAAGCTAAGAgtaagtattggggtaagacaatatatagttgtccctgtctagactcgctt Alignment from CESAR GGAAGTGATTTCCTCCCTGTGCTGTCC-AGAGGCTCTGAT------CGGGACACTGGATTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA acactctgttgctccatgtggtgtgacttggatacttgtatctatttcagGGGAGTGATTTCCTGCCGGTGCTGTCCCAGGGGATCTGATCCCGATCGGGACACAGGATTTAGCCGAGTGAACGAAAGAACACTAAAGCTAAGAgtaagtattggggtaagacaatatatagttgtccctgtctagactcgctt Alignment from Spaln_aa2Genome GGAAGTGATTTCCTCCCTGTGCTGTCCAGAGGC-------TCTGATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA acactctgttgctccatgtggtgtgacttggatacttgtatctatttcagGGGAGTGATTTCCTGCCGGTGCTGTCCCAGGGGATCTGAtCCCGATCGGGACACAGGATTTAGCCGAGTGAACGAAAGAACACTAAAGCTAAGAgtaagtattggggtaagacaatatatagttgtccctgtctagactcgctt Alignment from Spaln_nt2Genome GGAAGTGATTTCCTCCCTGTGCTGTCC-AGAGGCTCTGATC------GGGACACTGGATTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA acactctgttgctccatgtggtgtgacttggatacttgtatctatttcagGGGAGTGATTTCCTGCCGGTGCTGTCCCAGGGGATCTGATCCCGATCGGGACACAGGATTTAGCCGAGTGAACGAAAGAACACTAAAGCTAAGAgtaagtattggggtaagacaatatatagttgtccctgtctagactcgctt Alignment from Pairagon GGAAGTGATTTCCTCCCTGTGCTGT-CCAGAGGCTCT------GATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA acactctgttgctccatgtggtgtgacttggatacttgtatctatttcagGGGAGTGATTTCCTGCCGGTGCTGTCCCAGGGGATCTGATCCCGATCGGGACACAGGATTTAGCCGAGTGAACGAAAGAACACTAAAGCTAAGAgtaagtattggggtaagacaatatatagttgtccctgtctagactcgctt Alignment from Exonerate_protein2genome GGAAGTGATTTCCTCCCTGTGCTGTCCAGAGGC----TCT---GATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA acactctgttgctccatgtggtgtgacttggatacttgtatctatttcagGGGAGTGATTTCCTGCCGGTGCTGTCCCAGGGGATCTGATCCCGATCGGGACACAGGATTTAGCCGAGTGAACGAAAGAACACTAAAGCTAAGAgtaagtattggggtaagacaatatatagttgtccctgtctagactcgctt Alignment from Exonerate_coding2genome GGAAGTGATTTCCTCCCTGTGCTGTCCAGAGGC----TCT---GATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA acactctgttgctccatgtggtgtgacttggatacttgtatctatttcagGGGAGTGATTTCCTGCCGGTGCTGTCCCAGGGGATCTGATCCCGATCGGGACACAGGATTTAGCCGAGTGAACGAAAGAACACTAAAGCTAAGAgtaagtattggggtaagacaatatatagttgtccctgtctagactcgctt Alignment from GeneWise GGAAGTGATTTCCTCCCTGTGCTG-TCCAGAGGCTCTGAT------CGGGACACTGGATTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA acactctgttgctccatgtggtgtgacttggatacttgtatctatttcagGGGAGTGATTTCCTGCCGGTGCTGTCCCAGGGGATCTGATCCCGATCGGGACACAGGATTTAGCCGAGTGAACGAAAGAACACTAAAGCTAAGAgtaagtattggggtaagacaatatatagttgtccctgtctagactcgctt #### Ppp1r32_ID2844_7 --> 0 - 0 Original Alignment GTCCTCCATCCAGGA-CGGAGTATCACCAAGTCAGACTACCTCCCTGTAACTCACCCTCAG gctacaacacatgttcaccattaaatgttctcccttttttctttccccagGTTCTGCATCCAGGTCCGAAGTATCAGCAAGTCATACTACCTCCCTCTAACACACCCTCAGgtgagtattgcagtctgtcggaacaatatgtatgcaccaggtgttgaggt Alignment from CESAR GTCCTCCATCCAGGA-CGGAGTATCACCAAGTCAGACTACCTCCCTGTAACTCACCCTCAG gctacaacacatgttcaccattaaatgttctcccttttttctttccccagGTTCTGCATCCAGGTCCGAAGTATCAGCAAGTCATACTACCTCCCTCTAACACACCCTCAGgtgagtattgcagtctgtcggaacaatatgtatgcaccaggtgttgaggt Alignment from Spaln_aa2Genome CCCTGTCCTCCATCCAGGACGGAGTATCACCAAGTCAGACTACCTCCCTGTAACTCACCCTCAG gctacaacacatgttcaccattaaatgttctcccttttttctttccccagGTTCTGCATCCAG---GTCCGAAGTATCAGCAAGTCATACTACCTCCCTCTAACACACCCTCAGgtgagtattgcagtctgtcggaacaatatgtatgcaccaggtgttgaggt Alignment from Spaln_nt2Genome GTCCTCCATCCAGGACGGA-GTATCACCAAGTCAGACTACCTCCCTGTAACTCACCCTCAG gctacaacacatgttcaccattaaatgttctcccttttttctttccccagGTTCTGCATCCAGGTCCGAAGTATCAGCAAGTCATACTACCTCCCTCTAACACACCCTCAGgtgagtattgcagtctgtcggaacaatatgtatgcaccaggtgttgaggt Alignment from Pairagon GTCCTCCATCCAGG-ACGGAGTATCACCAAGTCAGACTACCTCCCTGTAACTCACCCTCAG gctacaacacatgttcaccattaaatgttctcccttttttctttccccagGTTCTGCATCCAGGTCCGAAGTATCAGCAAGTCATACTACCTCCCTCTAACACACCCTCAGgtgagtattgcagtctgtcggaacaatatgtatgcaccaggtgttgaggt Alignment from Exonerate_protein2genome GTCCTCCATCCAGGA-CGGAGTATCACCAAGTCAGACTACCTCCCTGTAACTCACCCTCAG gctacaacacatgttcaccattaaatgttctcccttttttctttccccagGTTCTGCATCCAGGTCCGAAGTATCAGCAAGTCATACTACCTCCCTCTAACACACCCTCAGgtgagtattgcagtctgtcggaacaatatgtatgcaccaggtgttgaggt Alignment from Exonerate_coding2genome gctacaacacatgttcaccattaaatgttctcccttttttctttccccaggttctgcatccaggtccgaagtatcagcaagtcatactacctccctctaacacaccctcaggtgagtattgcagtctgtcggaacaatatgtatgcaccaggtgttgaggt Alignment from GeneWise GTCCTCCATCCAGGACGGAGTATCACCAAGTCAGACTACCTCCCTGTAACTCACCCTCAG gctacaacacatgttcaccattaaatgttctcccttttttctttccccaggttctgcatccagGTC------------CGAAGTATCAGCAAGTCATACTACCTCCCTCTAACACACCCTCAGgtgagtattgcagtctgtcggaacaatatgtatgcaccaggtgttgaggt #### Ppp1r32_ID2845_6 --> 2 - 0 Original Alignment atCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGC-TTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttacttagccgcctattggtggttgaaatgttctctgcagatCTCTTGCTTAAGAAGACAATCGGATCTAAGGAGGAGATTGGGCTTCCTAGAAGAGTCCACAAAAAATCCTCTTGTTTTCCAGCCTCCTTCACATACCTTCCCTGGGAAGTCTgtaggagggaatggttaaaagtgcatcttgaacactcacaatgctgcaat Alignment from CESAR atCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACT-GGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttacttagccgcctattggtggttgaaatgttctctgcagatCTCTTGCTTAAGAAGACAATCGGATCTAAGGAGGAGATTGGGCTTCCTAGAAGAGTCCACAAAAAATCCTCTTGTTTTCCAGCCTCCTTCACATACCTTCCCTGGGAAGTCTgtaggagggaatggttaaaagtgcatcttgaacactcacaatgctgcaat Alignment from Spaln_aa2Genome ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACT-GGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttacttagccgcctattggtggttgaaatgttctctgcagATCTCTTGCTTAAGAAGACAATCGGATCTAAGGAGGAGATTgGGCTTCCTAGAAGAGTCCACAAAAAATCCTCTTGTTTTCCAGCCTCCTTCACATACCTTCCCTGGGAAGTCTgtaggagggaatggttaaaagtgcatcttgaacactcacaatgctgcaat Alignment from Spaln_nt2Genome ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGG-CTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttacttagccgcctattggtggttgaaatgttctctgcagATCTCTTGCTTAAGAAGACAATCGGATCTAAGGAGGAGATTGGGCTTCCTAGAAGAGTCCACAAAAAATCCTCTTGTTTTCCAGCCTCCTTCACATACCTTCCCTGGGAAGTCTgtaggagggaatggttaaaagtgcatcttgaacactcacaatgctgcaat Alignment from Pairagon ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACT-GGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttacttagccgcctattggtggttgaaatgttctctgcagATCTCTTGCTTAAGAAGACAATCGGATCTAAGGAGGAGATTGGGCTTCCTAGAAGAGTCCACAAAAAATCCTCTTGTTTTCCAGCCTCCTTCACATACCTTCCCTGGGAAGTCTgtaggagggaatggttaaaagtgcatcttgaacactcacaatgctgcaat Alignment from Exonerate_protein2genome ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAG-ACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttacttagccgcctattggtggttgaaatgttctctgcagATCTCTTGCTTAAGAAGACAATCGGATCTAAGGAGGAGATTGGGCTTCCTAGAAGAGTCCACAAAAAATCCTCTTGTTTTCCAGCCTCCTTCACATACCTTCCCTGGGAAGTCTgtaggagggaatggttaaaagtgcatcttgaacactcacaatgctgcaat Alignment from Exonerate_coding2genome ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAG-ACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCTGTCCTCCATCCAGGACGGAGTATCACCAAGTCAGACTACCTCCCTGTAAC cctgttggttttacttagccgcctattggtggttgaaatgttctctgcagATCTCTTGCTTAAGAAGACAATCGGATCTAAGGAGGAGATTGGGCTTCCTAGAAGAGTCCACAAAAAATCCTCTTGTTTTCCAGCCTCCTTCACATACCTTCCCTGGGAAGTCTGTAGGAGGGAATGGTTAAAAGTGCATCTTGAACACTCACAATGCTGCAAT Alignment from GeneWise ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAG-ACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttacttagccgcctattggtggttgaaatgttctctgcagATCTCTTGCTTAAGAAGACAATCGGATCTAAGGAGGAGATTGGGCTTCCTAGAAGAGTCCACAAAAAATCCTCTTGTTTTCCAGCCTCCTTCACATACCTTCCCTGGGAAGTCTgtaggagggaatggttaaaagtgcatcttgaacactcacaatgctgcaat #### Pprc1_ID9715_3 --> 0 - 0 Original Alignment AGCAGATTATCTCTG-GAGGACCAGAATGAAATGTCGCTGCTCACAGCTCTGACGGAGATCTTGGACAATGCAGATTCTGAGAACCTGTCCCCTTTTGACACCATTCCTGATTCAGAGCTGCTCGTGTCCCCTCGGGAGAGCTCCTCT CTGCACAAGCTGCTCAATCTCTCTCGGAC aagttataaaacaccttgtttgaggagtccctttgctgcttgctccacagAGCAGATTGTCACTTCAAGGACCAAAATGAAATGTCTCTGCTTACACCTCTGATGGAAATATTGGACAATGCAGACTCCGAGAACCTGTCCCCATTTGACACTATCTCCGATTCTGGGCTACTGGTGTCAGCTTGGGAGAGCTCTTCtttgtttgtttgtttgtttcaggtccccaccctacacacacagTTGCACAA Alignment from CESAR tgattggcattcaggaagactaattgggtgtgtcaagaaaacccaagaata Alignment from Spaln_aa2Genome AGCAGATTATCTCTGGAG-GACCAGAATGAAATGTCGCTGCTCACAGCTCTGACGGAGATCTTGGACAATGCAGATTCTGAGAACCTGTCCCCTTTTGACACCATTCCTGATTCAGAGCTGCTCGTGTCCCCTCGGGAGAGCTCCTCT------ CTGCACAA aagttataaaacaccttgtttgaggagtccctttgctgcttgctccacagAGCAGATTGTCACTTCAAgGACCAAAATGAAATGTCTCTGCTTACACCTCTGATGGAAATATTGGACAATGCAGACTCCGAGAACCTGTCCCCATTTGACACTATCTCCGATTCTGGGCTACTGGTGTCAGCTTGGGAGAGCTCTTCTTTGTTTgtttgtttgtttcaggtccccaccctacacacacagTTGCACAA Alignment from Spaln_nt2Genome AGCAGATTATCTCTGGA-GGACCAGAATGAAATGTCGCTGCTCACAGCTCTGACGGAGATCTTGGACAATGCAGATTCTGAGAACCTGTCCCCTTTTGACACCATTCCTGATTCAGAGCTGCTCGTGTCCCCTCGGGAGAGCTCCTCTCT --GCACAA aagttataaaacaccttgtttgaggagtccctttgctgcttgctccacagAGCAGATTGTCACTTCAAGGACCAAAATGAAATGTCTCTGCTTACACCTCTGATGGAAATATTGGACAATGCAGACTCCGAGAACCTGTCCCCATTTGACACTATCTCCGATTCTGGGCTACTGGTGTCAGCTTGGGAGAGCTCTTCTTTgtttgtttgtttgtttcaggtccccaccctacacacacagTTGCACAA Alignment from Pairagon AGCAGATTATCTCT-GGAGGACCAGAATGAAATGTCGCTGCTCACAGCTCTGACGGAGATCTTGGACAATGCAGATTCTGAGAACCTGTCCCCTTTTGACACCATTCCTGATTCAGAGCTGCTCGTGTCCCCTCGGGAGAGCTCCTCT------------------------------------------CTGCACAA aagttataaaacaccttgtttgaggagtccctttgctgcttgctccacagAGCAGATTGTCACTTCAAGGACCAAAATGAAATGTCTCTGCTTACACCTCTGATGGAAATATTGGACAATGCAGACTCCGAGAACCTGTCCCCATTTGACACTATCTCCGATTCTGGGCTACTGGTGTCAGCTTGGGAGAGCTCTTCTTTGTTTGTTTGTTTGTTTCAGGTCCCCACCCTACACACACAGTTGCACAA Alignment from Exonerate_protein2genome AGCAGATTATCTCTGGAG-GACCAGAATGAAATGTCGCTGCTCACAGCTCTGACGGAGATCTTGGACAATGCAGATTCTGAGAACCTGTCCCCTTTTGACACCATTCCTGATTCAGAGCTGCTCGTGTCCCCTCGGGAGAGCTCCTCT CTGCACAA aagttataaaacaccttgtttgaggagtccctttgctgcttgctccacagAGCAGATTGTCACTTCAAGGACCAAAATGAAATGTCTCTGCTTACACCTCTGATGGAAATATTGGACAATGCAGACTCCGAGAACCTGTCCCCATTTGACACTATCTCCGATTCTGGGCTACTGGTGTCAGCTTGGGAGAGCTCTTCTttgtttgtttgtttgtttcaggtccccaccctacacacacagTTGCACAA Alignment from Exonerate_coding2genome AGCAGATTATCTCTGGAG-GACCAGAATGAAATGTCGCTGCTCACAGCTCTGACGGAGATCTTGGACAATGCAGATTCTGAGAACCTGTCCCCTTTTGACACCATTCCTGATTCAGAGCTGCTCGTGTCCCCTCGGGAGAGCTCCTCT CTGCACAA aagttataaaacaccttgtttgaggagtccctttgctgcttgctccacagAGCAGATTGTCACTTCAAGGACCAAAATGAAATGTCTCTGCTTACACCTCTGATGGAAATATTGGACAATGCAGACTCCGAGAACCTGTCCCCATTTGACACTATCTCCGATTCTGGGCTACTGGTGTCAGCTTGGGAGAGCTCTTCTttgtttgtttgtttgtttcaggtccccaccctacacacacagTTGCACAA Alignment from GeneWise -------TTATCTCTGGAGGACCAGAATGAAATGTCGCTGCTCACAGCTCTGACGGAGATCTTGGACAATGCAGATTCTGAGAACCTGTCCCCTTTTGACACCATTCCTGATTCAGAGCTGCTCGTGTCCCCTCGGGAGAGCTCCTCT------------------------------------------CTGCACAA aagttataaaacaccttgtttgaggagtccctttgctgcttgctccacagAGCAGATTGTCACTTCAAGGACCAAAATGAAATGTCTCTGCTTACACCTCTGATGGAAATATTGGACAATGCAGACTCCGAGAACCTGTCCCCATTTGACACTATCTCCGATTCTGGGCTACTGGTGTCAGCTTGGGAGAGCTCTTCTTTGTTTGTTTGTTTGTTTCAGGTCCCCACCCTACACACACAGTTGCACAA #### Pprc1_ID9724_12 --> 0 - 2 Original Alignment GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTT-TTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAgg aatctgtgcctgctatataacaggtccaattgtgaacagtgtgggaatccttctctcctccccccacccagGAGGAGAGACGGGTGGTCTTCATTGGTAAAACACCTGGACGGATGACTCGGTCAGAACTTAAACAGAGGTTCTCTGTTCTTTGGCGAAATTGAGGAGTGTACCATCCACTTTAGGGTGCAAgggtaagacatatgagtcaacagtgatgtgt Alignment from CESAR GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTT-TTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAgg aatctgtgcctgctatataacaggtccaattgtgaacagtgtgggaatccttctctcctccccccacccagGAGGAGAGACGGGTGGTCTTCATTGGTAAAACACCTGGACGGATGACTCGGTCAGAACTTAAACAGAGGTTCTCTGTTCTTTGGCGAAATTGAGGAGTGTACCATCCACTTTAGGGTGCAAgggtaagacatatgagtcaacagtgatgtgt Alignment from Spaln_aa2Genome GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTT-TTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAGG aatctgtgcctgctatataacaggtccaattgtgaacagtgtgggaatccttctctcctccccccacccagGAGGAGAGACGGGTGGTCTTCATTGGTAAAACACCTGGACGGATGACTCGGTCAGAACTTAAACAGAGGTTCTCTGTTcTTTGGCGAAATTGAGGAGTGTACCATCCACTTTAGGGTGCAAGGgtaagacatatgagtcaacagtgatgtgt Alignment from Spaln_nt2Genome GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTT-TTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAGG aatctgtgcctgctatataacaggtccaattgtgaacagtgtgggaatccttctctcctccccccacccagGAGGAGAGACGGGTGGTCTTCATTGGTAAAACACCTGGACGGATGACTCGGTCAGAACTTAAACAGAGGTTCTCTGTTCTTTGGCGAAATTGAGGAGTGTACCATCCACTTTAGGGTGCAAGGgtaagacatatgagtcaacagtgatgtgt Alignment from Pairagon GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTT-TTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAGG aatctgtgcctgctatataacaggtccaattgtgaacagtgtgggaatccttctctcctccccccacccagGAGGAGAGACGGGTGGTCTTCATTGGTAAAACACCTGGACGGATGACTCGGTCAGAACTTAAACAGAGGTTCTCTGTTCTTTGGCGAAATTGAGGAGTGTACCATCCACTTTAGGGTGCAAGGgtaagacatatgagtcaacagtgatgtgt Alignment from Exonerate_protein2genome GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTT-TTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAGG aatctgtgcctgctatataacaggtccaattgtgaacagtgtgggaatccttctctcctccccccacccagGAGGAGAGACGGGTGGTCTTCATTGGTAAAACACCTGGACGGATGACTCGGTCAGAACTTAAACAGAGGTTCTCTGTTCTTTGGCGAAATTGAGGAGTGTACCATCCACTTTAGGGTGCAAGGgtaagacatatgagtcaacagtgatgtgt Alignment from Exonerate_coding2genome GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTT-TTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAGG aatctgtgcctgctatataacaggtccaattgtgaacagtgtgggaatccttctctcctccccccacccagGAGGAGAGACGGGTGGTCTTCATTGGTAAAACACCTGGACGGATGACTCGGTCAGAACTTAAACAGAGGTTCTCTGTTCTTTGGCGAAATTGAGGAGTGTACCATCCACTTTAGGGTGCAAGGgtaagacatatgagtcaacagtgatgtgt Alignment from GeneWise GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCT-GTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAGG aatctgtgcctgctatataacaggtccaattgtgaacagtgtgggaatccttctctcctccccccacccagGAGGAGAGACGGGTGGTCTTCATTGGTAAAACACCTGGACGGATGACTCGGTCAGAACTTAAACAGAGGTTCTCTGTTCTTTGGCGAAATTGAGGAGTGTACCATCCACTTTAGGGTGCAAGGgtaagacatatgagtcaacagtgatgtgt #### Prpf19_ID3044_3 --> 2 - 0 Original Alignment ttGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTG-AAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttgcatgcaaggaatatgttttattatgttttcttcttagttGCACACCCAATTCGACCCAAGCCTCCCTCTGCGACCAGTATTCCAGCTATCCTACAAGGCCTTACAAGATGAGTGGgtaagtaaactcgctttctctgcttactttcagGATGCAGTCATGCTGCA Alignment from CESAR ttGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTG-AAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttgcatgcaaggaatatgttttattatgttttcttcttagttGCACACCCAATTCGACCCAAGCCTCCCTCTGCGACCAGTATTCCAGCTATCCTACAAGGCCTTACAAGATGAGTGGgtaagtaaacttcgatgttccctctccccacagGATGCAGTCATGCTGCA Alignment from Spaln_aa2Genome TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTG-AAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttgcatgcaaggaatatgttttattatgttttcttcttagTTGCACACCCAATTCGACCCAAGCCTCCCTCTGCGACCAGTATTCCAGCTATCCTAcAAGGCCTTACAAGATGAGTGGgtaagtaaactcgctttctctgcttactttcagGATGCAGTCATGCTGCA Alignment from Spaln_nt2Genome TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAG-CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttgcatgcaaggaatatgttttattatgttttcttcttagTTGCACACCCAATTCGACCCAAGCCTCCCTCTGCGACCAGTATTCCAGCTATCCTACAAGGCCTTACAAGATGAGTGGgtaagtaaactcgctttctctgcttactttcagGATGCAGTCATGCTGCA Alignment from Pairagon TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTG-AAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttgcatgcaaggaatatgttttattatgttttcttcttagTTGCACACCCAATTCGACCCAAGCCTCCCTCTGCGACCAGTATTCCAGCTATCCTACAAGGCCTTACAAGATGAGTGGgtaagtaaactcgctttctctgcttactttcagGATGCAGTCATGCTGCA Alignment from Exonerate_protein2genome TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTG-AAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttgcatgcaaggaatatgttttattatgttttcttcttagTTGCACACCCAATTCGACCCAAGCCTCCCTCTGCGACCAGTATTCCAGCTATCCTACAAGGCCTTACAAGATGAGTGGgtaagtaaactcgctttctctgcttactttcagGATGCAGTCATGCTGCA Alignment from Exonerate_coding2genome TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTG-AAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttgcatgcaaggaatatgttttattatgttttcttcttagTTGCACACCCAATTCGACCCAAGCCTCCCTCTGCGACCAGTATTCCAGCTATCCTACAAGGCCTTACAAGATGAGTGGgtaagtaaactcgctttctctgcttactttcagGATGCAGTCATGCTGCA Alignment from GeneWise TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATT-CTGAAAGCCTTGCAGGATGAGTGG---------------------------------GATGCAGTCATGCTGCA atgtgagaggttgcatgcaaggaatatgttttattatgttttcttcttagTTGCACACCCAATTCGACCCAAGCCTCCCTCTGCGACCAGTATTCCAGCTATCCTACAAGGCCTTACAAGATGAGTGGGTAAGTAAACTCGCTTTCTCTGCTTACTTTCAGGATGCAGTCATGCTGCA #### Prpf19_ID3047_6 --> 0 - 0 Original Alignment GGTGCAGGAGAGCCCATGGATTTGGGT-GAGCTGGTGGGA---ATGACCCCTGAGATTATCCAGAAG ggtttttgttgtgggtgtctgtcatgtgatgaaatattctgtcccctcagGGGGCTGGAGATGCAATGGATTTGGGTCGAGCTTGCTGGGGAAATGACCCCAGAGATTATCCAGAAAgttatttgagatccatccacagcaagctgtgacctatcacattaaccaca Alignment from CESAR GGTGCAGGAGAGCCCATGGATTTGGGT-GAGCTGGTGGGA---ATGACCCCTGAGATTATCCAGAAG ggtttttgttgtgggtgtctgtcatgtgatgaaatattctgtcccctcagGGGGCTGGAGATGCAATGGATTTGGGTCGAGCTTGCTGGGGAAATGACCCCAGAGATTATCCAGAAAgttatttgagatccatccacagcaagctgtgacctatcacattaaccaca Alignment from Spaln_aa2Genome GGTGCAGGAGAGCCCATGGATTTGGGT-GAGCTGGTGGGA---ATGACCCCTGAGATTATCCAGAAG ggtttttgttgtgggtgtctgtcatgtgatgaaatattctgtcccctcagGGGGCTGGAGATGCAATGGATTTGGGTcGAGCTTGCTGGGGAAATGACCCCAGAGATTATCCAGAAAgttatttgagatccatccacagcaagctgtgacctatcacattaaccaca Alignment from Spaln_nt2Genome GGTGCAGGAGAGCCCATGGATTTGGGT-GAGCTGG-TGGG--AATGACCCCTGAGATTATCCAGAAG ggtttttgttgtgggtgtctgtcatgtgatgaaatattctgtcccctcagGGGGCTGGAGATGCAATGGATTTGGGTCGAGCTTGCTGGGGAAATGACCCCAGAGATTATCCAGAAAgttatttgagatccatccacagcaagctgtgacctatcacattaaccaca Alignment from Pairagon GGTGCAGGAGAGCCCATGGATTTGGGT-GAGCTGGT---GGGAATGACCCCTGAGATTATCCAGAAG ggtttttgttgtgggtgtctgtcatgtgatgaaatattctgtcccctcagGGGGCTGGAGATGCAATGGATTTGGGTCGAGCTTGCTGGGGAAATGACCCCAGAGATTATCCAGAAAgttatttgagatccatccacagcaagctgtgacctatcacattaaccaca Alignment from Exonerate_protein2genome GGTGCAGGAGAGCCCATGGATTTGGGT-GAGCTGGTGGGA---ATGACCCCTGAGATTATCCAGAAG ggtttttgttgtgggtgtctgtcatgtgatgaaatattctgtcccctcagGGGGCTGGAGATGCAATGGATTTGGGTCGAGCTTGCTGGGGAAATGACCCCAGAGATTATCCAGAAAgttatttgagatccatccacagcaagctgtgacctatcacattaaccaca Alignment from Exonerate_coding2genome ggtttttgttgtgggtgtctgtcatgtgatgaaatattctgtcccctcagggggctggagatgcaatggatttgggtcgagcttgctggggaaatgaccccagagattatccagaaagttatttgagatccatccacagcaagctgtgacctatcacattaaccaca Alignment from GeneWise GGTGCAGGAGAGCCCATGGATTTGGGTGAGCTGGTG---GGAATGACCCCTGAG---------------ATTATCCAGAAGCTTCAAGACAAGGC ggtttttgttgtgggtgtctgtcatgtgatgaaatattctgtcccctcagGGGGCTGGAGATGCAATGGATTTGGGTCGAGCTTGCTGGGGAAATGACCCCAGAGATTATCCAGAAAGTTATTTGAGATCCATCCACAGCAAGCTgtgacctatcacattaaccaca #### Prpf19_ID3048_7 --> 0 - 0 Original Alignment CTTCAAGACAAGGCTACTGTGCTA-ACCACGGAG------CGTAAGAAG ctaactaattagtgatgcccacttcatttctcttctcccaccatctccagCTTCAA---GAGGCCACTGTGTTACACCACAGACACAGGACAGAAGAAAgtaagtctggccaatgtggaaaactgcatctttagtgtgaagtgtgtgca Alignment from CESAR CTTCAAGACAAGGCTACTGTGCTA-ACCACGGAG------CGTAAGAAG ctaactaattagtgatgcccacttcatttctcttctcccaccatctccagCTTCAAGAG---GCCACTGTGTTACACCACAGACACAGGACAGAAGAAAgtaagtctggccaatgtggaaaactgcatctttagtgtgaagtgtgtgca Alignment from Spaln_aa2Genome CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGAAGAGAG ctaactaattagtgatgcccacttcatttctcttctcccaccatctccagCTTCAAGAGGCCACTGTGTTACACCACAGACACAGGACAGAAGAAAgtaagtctggccaatgtggaaaactgcatctttagtgtgaagtgtgtgca Alignment from Spaln_nt2Genome CTTCAAGACAAGGCTACTGTGCTA-ACCACGGAG------CGTAAGAAG ctaactaattagtgatgcccacttcatttctcttctcccaccatctccagCTTCAAG---AGGCCACTGTGTTACACCACAGACACAGGACAGAAGAAAgtaagtctggccaatgtggaaaactgcatctttagtgtgaagtgtgtgca Alignment from Pairagon CTTCAAGACAAGGCTACTGTG------------------------------------------------------------------------------ ctaactaattagtgatgcccacttcatttctcttctcccaccatctccagCTTCAAG---AGGCCACTGTGTTACACCACAGACACAGGACAGAAGAAAGTAAGTCTGGCCAATGTGGAAAACTGCATCTTTAGTGTGAAGTGTGTGCA Alignment from Exonerate_protein2genome ctaactaattagtgatgcccacttcatttctcttctcccaccatctccagcttcaagaggccactgtgttacaccacagacacaggacagaagaaagtaagtctggccaatgtggaaaactgcatctttagtgtgaagtgtgtgca Alignment from Exonerate_coding2genome ctaactaattagtgatgcccacttcatttctcttctcccaccatctccagcttcaagaggccactgtgttacaccacagacacaggacagaagaaagtaagtctggccaatgtggaaaactgcatctttagtgtgaagtgtgtgca Alignment from GeneWise ctaactaattagtgatgcccacttcatttctcttctcccaccatctccagcttcaagaggccactgtgttacaccacagacacaggacagaagaaagtaagtctggccaatgtggaaaactgcatctttagtgtgaagtgtgtgca #### Prpf19_ID3049_8 --> 0 - 0 Original Alignment AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGC-AAGTACCGGCAGGTGGCATCCCATGTG gaagtgtgtgcacaactacttctgctttatttgcctttttgttttggcagAGAGGAAAGACCGTCCCCAAGGAGCTGGTGAAACCTGAAGAGCTCAGCCAAGTACCGGCAGGTGGCATCCCATGTGgtgagtgctgtgtgttaagtggctctcactgttctgactaatgtggattg Alignment from CESAR AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGC-AAGTACCGGCAGGTGGCATCCCATGTG gaagtgtgtgcacaactacttctgctttatttgcctttttgttttggcagAGAGGAAAGACCGTCCCCAAGGAGCTGGTGAAACCTGAAGAGCTCAGCCAAGTACCGGCAGGTGGCATCCCATGTGgtgagtgctgtgtgttaagtggctctcactgttctgactaatgtggattg Alignment from Spaln_aa2Genome AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGC-AAGTACCGGCAGGTGGCATCCCATGTG gaagtgtgtgcacaactacttctgctttatttgcctttttgttttggcagAGAGGAAAGACCGTCCCCAAGGAGCTGGTGAAACCTGAAGAGCTCAGCcAAGTACCGGCAGGTGGCATCCCATGTGgtgagtgctgtgtgttaagtggctctcactgttctgactaatgtggattg Alignment from Spaln_nt2Genome AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAG-CAAGTACCGGCAGGTGGCATCCCATGTG gaagtgtgtgcacaactacttctgctttatttgcctttttgttttggcagAGAGGAAAGACCGTCCCCAAGGAGCTGGTGAAACCTGAAGAGCTCAGCCAAGTACCGGCAGGTGGCATCCCATGTGgtgagtgctgtgtgttaagtggctctcactgttctgactaatgtggattg Alignment from Pairagon AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAG-CAAGTACCGGCAGGTGGCATCCCATGTG gaagtgtgtgcacaactacttctgctttatttgcctttttgttttggcagAGAGGAAAGACCGTCCCCAAGGAGCTGGTGAAACCTGAAGAGCTCAGCCAAGTACCGGCAGGTGGCATCCCATGTGgtgagtgctgtgtgttaagtggctctcactgttctgactaatgtggattg Alignment from Exonerate_protein2genome AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGC-AAGTACCGGCAGGTGGCATCCCATGTG gaagtgtgtgcacaactacttctgctttatttgcctttttgttttggcagAGAGGAAAGACCGTCCCCAAGGAGCTGGTGAAACCTGAAGAGCTCAGCCAAGTACCGGCAGGTGGCATCCCATGTGgtgagtgctgtgtgttaagtggctctcactgttctgactaatgtggattg Alignment from Exonerate_coding2genome GAGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG gaagtgtgtgcacaactacttctgctttatttgcctttttgttttggcagAGAGGAAAGACCGTCCCCAAGGAGCTGGTGAAACCTGAAGAGCTCAGCCAAGTACCGGCAGGTGGCATCCCATGTGgtgagtgctgtgtgttaagtggctctcactgttctgactaatgtggattg Alignment from GeneWise AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTC-AGCAAGTACCGGCAGGTGGCATCCCATGTG gaagtgtgtgcacaactacttctgctttatttgcctttttgttttggcagAGAGGAAAGACCGTCCCCAAGGAGCTGGTGAAACCTGAAGAGCTCAGCCAAGTACCGGCAGGTGGCATCCCATGTGgtgagtgctgtgtgttaagtggctctcactgttctgactaatgtggattg #### Prpf19_ID3055_14 --> 0 - 0 Original Alignment GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGAC---TTACGCAAGTTGAAGAACTTCAAGACATTGCAG-CTGGACAACAACTTTGAG tagcactttctctcatagtcaattgacatcatgatcatccttgtccctagGAGCACACTAATGTGGTAATCTTCCCT------GCTGGGCCTATCACCACCATTGTGTTCTCTGAGAATGGGTACTACTTGGCCACAGCAACAGATGATTCTCCAGTCAAGCTTTGGGAAAACATACAGAAGCTGAAGAACTTTAAAATGTTGCAGCTTGCACAACAACTTTGAGgtgagtcacttgatcccttttcttctcttttgcagtttttgtgctacccc Alignment from CESAR GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGAC---TTACGCAAGTTGAAGAACTTCAAGACATTGCAG-CTGGACAACAACTTTGAG tagcactttctctcatagtcaattgacatcatgatcatccttgtccctagGAGCACACTAATGTGGTAATCTTCCCT------GCTGGGCCTATCACCACCATTGTGTTCTCTGAGAATGGGTACTACTTGGCCACAGCAACAGATGATTCTCCAGTCAAGCTTTGGGAAAACATACAGAAGCTGAAGAACTTTAAAATGTTGCAGCTTGCACAACAACTTTGAGgtgagtcacttgatcccttttcttctcttttgcagtttttgtgctacccc Alignment from Spaln_aa2Genome GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGAC---TTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTG-GACAACAACTTTGAG tagcactttctctcatagtcaattgacatcatgatcatccttgtccctagGAGCACACTAATGTGGTAATCTTCCCT------GCTGGGCCTATCACCACCATTGTGTTCTCTGAGAATGGGTACTACTTGGCCACAGCAACAGATGATTCTCCAGTCAAGCTTTGGGAAAACATACAGAAGCTGAAGAACTTTAAAATGTTGCAGCTTgCACAACAACTTTGAGgtgagtcacttgatcccttttcttctcttttgcagtttttgtgctacccc Alignment from Spaln_nt2Genome GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGA---CTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGG-ACAACAACTTTGAG tagcactttctctcatagtcaattgacatcatgatcatccttgtccctagGAGCACACTAATGTGGTAATCTTCCCTG------CTGGGCCTATCACCACCATTGTGTTCTCTGAGAATGGGTACTACTTGGCCACAGCAACAGATGATTCTCCAGTCAAGCTTTGGGAAAACATACAGAAGCTGAAGAACTTTAAAATGTTGCAGCTTGCACAACAACTTTGAGgtgagtcacttgatcccttttcttctcttttgcagtttttgtgctacccc Alignment from Pairagon GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGG---ACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGC-TGGACAACAACTTTGAG tagcactttctctcatagtcaattgacatcatgatcatccttgtccctagGAGCACACTAATGTGGTAATCTTCCCTG------CTGGGCCTATCACCACCATTGTGTTCTCTGAGAATGGGTACTACTTGGCCACAGCAACAGATGATTCTCCAGTCAAGCTTTGGGAAAACATACAGAAGCTGAAGAACTTTAAAATGTTGCAGCTTGCACAACAACTTTGAGgtgagtcacttgatcccttttcttctcttttgcagtttttgtgctacccc Alignment from Exonerate_protein2genome GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGAC---TTACGCAAGTTGAAGAACTTCAAGACATTGCAG-CTGGACAACAACTTTGAG tagcactttctctcatagtcaattgacatcatgatcatccttgtccctagGAGCACACTAATGTGGTAATCTTCCCT------GCTGGGCCTATCACCACCATTGTGTTCTCTGAGAATGGGTACTACTTGGCCACAGCAACAGATGATTCTCCAGTCAAGCTTTGGGAAAACATACAGAAGCTGAAGAACTTTAAAATGTTGCAGCTTGCACAACAACTTTGAGgtgagtcacttgatcccttttcttctcttttgcagtttttgtgctacccc Alignment from Exonerate_coding2genome GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGAC---TTACGCAAGTTGAAGAACTTCAAGACATTGCAG-CTGGACAACAACTTTGAG tagcactttctctcatagtcaattgacatcatgatcatccttgtccctagGAGCACACTAATGTGGTAATCTTCCCT------GCTGGGCCTATCACCACCATTGTGTTCTCTGAGAATGGGTACTACTTGGCCACAGCAACAGATGATTCTCCAGTCAAGCTTTGGGAAAACATACAGAAGCTGAAGAACTTTAAAATGTTGCAGCTTGCACAACAACTTTGAGgtgagtcacttgatcccttttcttctcttttgcagtttttgtgctacccc Alignment from GeneWise GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGAC---TTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTG-GACAACAACTTTGAG tagcactttctctcatagtcaattgacatcatgatcatccttgtccctagGAGCACACTAATGTGGTAATCTTCCCT------GCTGGGCCTATCACCACCATTGTGTTCTCTGAGAATGGGTACTACTTGGCCACAGCAACAGATGATTCTCCAGTCAAGCTTTGGGAAAACATACAGAAGCTGAAGAACTTTAAAATGTTGCAGCTTGCACAACAACTTTGAGgtgagtcacttgatcccttttcttctcttttgcagtttttgtgctacccc #### Pygm_ID1680_4 --> 2 - 0 Original Alignment ctTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGG-ATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG agtatttgtagtcttcaagtctttacaaatggtattctcttttccaaaagctTGCTTTTTGGACTCTATGGCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGACATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtaagtaattctgaccctaatatgttttggggtttagtcataataattag Alignment from CESAR ctTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGG-ATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG agtatttgtagtcttcaagtctttacaaatggtattctcttttccaaaagctTGCTTTTTGGACTCTATGGCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGACATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtaagtaattctgaccctaatatgttttggggtttagtcataataattag Alignment from Spaln_aa2Genome CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTT-AATCAGAAGATCTGTGGGGGCTGGCAG agtatttgtagtcttcaagtctttacaaatggtattctcttttccaaaagCTTGCTTTTTGGACTCTATGGCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGACATTTTtAATCAGAAGATCTGTGGGGGTTGGCAGgtaagtaattctgaccctaatatgttttggggtttagtcataataattag Alignment from Spaln_nt2Genome CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGG-ATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG agtatttgtagtcttcaagtctttacaaatggtattctcttttccaaaagCTTGCTTTTTGGACTCTATGGCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGACATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtaagtaattctgaccctaatatgttttggggtttagtcataataattag Alignment from Pairagon CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGG-ATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG agtatttgtagtcttcaagtctttacaaatggtattctcttttccaaaagCTTGCTTTTTGGACTCTATGGCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGACATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtaagtaattctgaccctaatatgttttggggtttagtcataataattag Alignment from Exonerate_protein2genome CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGG-ATTTTTAATCAGAAGATCTGTGGGGGCTGGCAGATGGAAGAAGCTGATGACTGG agtatttgtagtcttcaagtctttacaaatggtattctcttttccaaaagCTTGCTTTTTGGACTCTATGGCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGACATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGGTAAGTAATTCTGACCCTAATatgttttggggtttagtcataataattag Alignment from Exonerate_coding2genome agtatttgtagtcttcaagtctttacaaatggtattctcttttccaaaagcttgctttttggactctatggcccccctagggcttgctgcttatggctatgggatccgctatgagtttggacatttttaatcagaagatctgtgggggttggcaggtaagtaattctgaccctaatatgttttggggtttagtcataataattag Alignment from GeneWise CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGG-ATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG agtatttgtagtcttcaagtctttacaaatggtattctcttttccaaaagCTTGCTTTTTGGACTCTATGGCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGACATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtaagtaattctgaccctaatatgttttggggtttagtcataataattag #### Pygm_ID1684_8 --> 0 - 0 Original Alignment TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCT-GCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG agttgtgaccatctgacatgatatgatgcatgtctgtcacctccccacagTTCTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTCGCCAGCCTTCAAGACATCATCCGATGTTTCAAGTCCTCTAAGTTAGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtaccttctggttcaagttgttactttacccaccatctcacaatgtattt Alignment from CESAR TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCT-GCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG agttgtgaccatctgacatgatatgatgcatgtctgtcacctccccacagTTCTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTCGCCAGCCTTCAAGACATCATCCGATGTTTCAAGTCCTCTAAGTTAGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtaccttctggttcaagttgttactttacccaccatctcacaatgtattt Alignment from Spaln_aa2Genome TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCT-GCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG agttgtgaccatctgacatgatatgatgcatgtctgtcacctccccacagTTCTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTcGCCAGCCTTCAAGACATCATCCGATGTTTCAAGTCCTCTAAGTTAGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtaccttctggttcaagttgttactttacccaccatctcacaatgtattt Alignment from Spaln_nt2Genome TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCT-GCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG agttgtgaccatctgacatgatatgatgcatgtctgtcacctccccacagTTCTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTCGCCAGCCTTCAAGACATCATCCGATGTTTCAAGTCCTCTAAGTTAGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtaccttctggttcaagttgttactttacccaccatctcacaatgtattt Alignment from Pairagon TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCT-GCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG agttgtgaccatctgacatgatatgatgcatgtctgtcacctccccacagTTCTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTCGCCAGCCTTCAAGACATCATCCGATGTTTCAAGTCCTCTAAGTTAGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtaccttctggttcaagttgttactttacccaccatctcacaatgtattt Alignment from Exonerate_protein2genome TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCT-GCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG agttgtgaccatctgacatgatatgatgcatgtctgtcacctccccacagTTCTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTCGCCAGCCTTCAAGACATCATCCGATGTTTCAAGTCCTCTAAGTTAGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtaccttctggttcaagttgttactttacccaccatctcacaatgtattt Alignment from Exonerate_coding2genome TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCT-GCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG agttgtgaccatctgacatgatatgatgcatgtctgtcacctccccacagTTCTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTCGCCAGCCTTCAAGACATCATCCGATGTTTCAAGTCCTCTAAGTTAGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtaccttctggttcaagttgttactttacccaccatctcacaatgtattt Alignment from GeneWise TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCT-GCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG agttgtgaccatctgacatgatatgatgcatgtctgtcacctccccacagTTCTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTCGCCAGCCTTCAAGACATCATCCGATGTTTCAAGTCCTCTAAGTTAGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtaccttctggttcaagttgttactttacccaccatctcacaatgtattt #### Pygm_ID1687_11 --> 0 - 2 Original Alignment CGGGTGGCGGCTGCATTCCCTGGG-GACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCat gagagggaagagttctgaaccagggatcactataaccctctgctccctagCGGGTGGCAGCTGCATCCCCAGGGCGATGTAGACAGGCTGTGGCGCATGTCACTTGTCAAGGATGGAGCAGTAAGGCGCATCAACATGTCACATCTGTGCATTACAGGCTCACATGCTGTCAACAGTCTGGCCCGAATCCTTTCAGAGATCCTCAAAAAGACCatgtgagtattgagattgaggtaggcaacagggccccaagatagaaagctac Alignment from CESAR CGGGTGGCGGCTGCATTCCCTGGG-GACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCat gagagggaagagttctgaaccagggatcactataaccctctgctccctagCGGGTGGCAGCTGCATCCCCAGGGCGATGTAGACAGGCTGTGGCGCATGTCACTTGTCAAGGATGGAGCAGTAAGGCGCATCAACATGTCACATCTGTGCATTACAGGCTCACATGCTGTCAACAGTCTGGCCCGAATCCTTTCAGAGATCCTCAAAAAGACCatgtgagtattgagattgaggtaggcaacagggccccaagatagaaagctac Alignment from Spaln_aa2Genome CGGGTGGCGGCTGCATTCCCT-GGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gagagggaagagttctgaaccagggatcactataaccctctgctccctagCGGGTGGCAGCTGCATCCCCAgGGCGATGTAGACAGGCTGTGGCGCATGTCACTTGTCAAGGATGGAGCAGTAAGGCGCATCAACATGTCACATCTGTGCATTACAGGCTCACATGCTGTCAACAGTCTGGCCCGAATCCTTTCAGAGATCCTCAAAAAGACCATgtgagtattgagattgaggtaggcaacagggccccaagatagaaagctac Alignment from Spaln_nt2Genome CGGGTGGCGGCTGCATTCCCTGGG-GACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gagagggaagagttctgaaccagggatcactataaccctctgctccctagCGGGTGGCAGCTGCATCCCCAGGGCGATGTAGACAGGCTGTGGCGCATGTCACTTGTCAAGGATGGAGCAGTAAGGCGCATCAACATGTCACATCTGTGCATTACAGGCTCACATGCTGTCAACAGTCTGGCCCGAATCCTTTCAGAGATCCTCAAAAAGACCATgtgagtattgagattgaggtaggcaacagggccccaagatagaaagctac Alignment from Pairagon CGGGTGGCGGCTGCATTCCCTGGG-GACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gagagggaagagttctgaaccagggatcactataaccctctgctccctagCGGGTGGCAGCTGCATCCCCAGGGCGATGTAGACAGGCTGTGGCGCATGTCACTTGTCAAGGATGGAGCAGTAAGGCGCATCAACATGTCACATCTGTGCATTACAGGCTCACATGCTGTCAACAGTCTGGCCCGAATCCTTTCAGAGATCCTCAAAAAGACCATgtgagtattgagattgaggtaggcaacagggccccaagatagaaagctac Alignment from Exonerate_protein2genome CGGGTGGCGGCTGCATTCCCT-GGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gagagggaagagttctgaaccagggatcactataaccctctgctccctagCGGGTGGCAGCTGCATCCCCAGGGCGATGTAGACAGGCTGTGGCGCATGTCACTTGTCAAGGATGGAGCAGTAAGGCGCATCAACATGTCACATCTGTGCATTACAGGCTCACATGCTGTCAACAGTCTGGCCCGAATCCTTTCAGAGATCCTCAAAAAGACCATgtgagtattgagattgaggtaggcaacagggccccaagatagaaagctac Alignment from Exonerate_coding2genome CGGGTGGCGGCTGCATTCCCT-GGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gagagggaagagttctgaaccagggatcactataaccctctgctccctagCGGGTGGCAGCTGCATCCCCAGGGCGATGTAGACAGGCTGTGGCGCATGTCACTTGTCAAGGATGGAGCAGTAAGGCGCATCAACATGTCACATCTGTGCATTACAGGCTCACATGCTGTCAACAGTCTGGCCCGAATCCTTTCAGAGATCCTCAAAAAGACCATgtgagtattgagattgaggtaggcaacagggccccaagatagaaagctac Alignment from GeneWise CGGGTGGCGGCTGCATTCCCT-GGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gagagggaagagttctgaaccagggatcactataaccctctgctccctagCGGGTGGCAGCTGCATCCCCAGGGCGATGTAGACAGGCTGTGGCGCATGTCACTTGTCAAGGATGGAGCAGTAAGGCGCATCAACATGTCACATCTGTGCATTACAGGCTCACATGCTGTCAACAGTCTGGCCCGAATCCTTTCAGAGATCCTCAAAAAGACCATgtgagtattgagattgaggtaggcaacagggccccaagatagaaagctac #### Pygm_ID1692_16 --> 0 - 1 Original Alignment GCTGCACCCGGGTACCACATGGCTAAGATGATCATCAAGCTTATCACTGCCATT-GGGGATGTGGTCAACCACGACCCTGCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAg agaattaaacccaaagaagtgtacacatgatttttatataccattttcagGCAGCACCTGGGTATCACATGGCTGAGATGCTCATCAAGATTATCACTGCAATACGGAGATGTGGTTAATCATGACCCTACAGTAGGGGATCGTCTCCAAGTGCTCTTTCTGGAGAACTATCAGGTCACACTTGCTGAGAGGggtataaggcaccactgccgatggactactgctgctggctaagaagctctg Alignment from CESAR GCTGCACCCGGGTACCACATGGCTAAGATGATCATCAAGCTTATCACTGCCATT-GGGGATGTGGTCAACCACGACCCTGCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAg agaattaaacccaaagaagtgtacacatgatttttatataccattttcagGCAGCACCTGGGTATCACATGGCTGAGATGCTCATCAAGATTATCACTGCAATACGGAGATGTGGTTAATCATGACCCTACAGTAGGGGATCGTCTCCAAGTGCTCTTTCTGGAGAACTATCAGGTCACACTTGCTGAGAGGggtataaggcaccactgccgatggactactgctgctggctaagaagctctg Alignment from Spaln_aa2Genome GCTGCACCCGGGTACCACATGGCTAAGATGATCATCAAGCTTATCACTGCCATT-GGGGATGTGGTCAACCACGACCCTGCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAG agaattaaacccaaagaagtgtacacatgatttttatataccattttcagGCAGCACCTGGGTATCACATGGCTGAGATGCTCATCAAGATTATCACTGCAATAcGGAGATGTGGTTAATCATGACCCTACAGTAGGGGATCGTCTCCAAGTGCTCTTTCTGGAGAACTATCAGGTCACACTTGCTGAGAGGGgtataaggcaccactgccgatggactactgctgctggctaagaagctctg Alignment from Spaln_nt2Genome GCTGCACCCGGGTACCACATGGCTAAGATGATCATCAAGCTTATCACTGCCATTGGG-GATGTGGTCAACCACGACCCTGCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAG agaattaaacccaaagaagtgtacacatgatttttatataccattttcagGCAGCACCTGGGTATCACATGGCTGAGATGCTCATCAAGATTATCACTGCAATACGGAGATGTGGTTAATCATGACCCTACAGTAGGGGATCGTCTCCAAGTGCTCTTTCTGGAGAACTATCAGGTCACACTTGCTGAGAGGGgtataaggcaccactgccgatggactactgctgctggctaagaagctctg Alignment from Pairagon GCTGCACCCGGGTACCACATGGCTAAGATGATCATCAAGCTTATCACTGCCAT-TGGGGATGTGGTCAACCACGACCCTGCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAG agaattaaacccaaagaagtgtacacatgatttttatataccattttcagGCAGCACCTGGGTATCACATGGCTGAGATGCTCATCAAGATTATCACTGCAATACGGAGATGTGGTTAATCATGACCCTACAGTAGGGGATCGTCTCCAAGTGCTCTTTCTGGAGAACTATCAGGTCACACTTGCTGAGAGGGgtataaggcaccactgccgatggactactgctgctggctaagaagctctg Alignment from Exonerate_protein2genome GCTGCACCCGGGTACCACATGGCTAAGATGATCATCAAGCTTATCACTGCCATT-GGGGATGTGGTCAACCACGACCCTGCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAG agaattaaacccaaagaagtgtacacatgatttttatataccattttcagGCAGCACCTGGGTATCACATGGCTGAGATGCTCATCAAGATTATCACTGCAATACGGAGATGTGGTTAATCATGACCCTACAGTAGGGGATCGTCTCCAAGTGCTCTTTCTGGAGAACTATCAGGTCACACTTGCTGAGAGGGgtataaggcaccactgccgatggactactgctgctggctaagaagctctg Alignment from Exonerate_coding2genome GCTGCACCCGGGTACCACATGGCTAAGATGATCATCAAGCTTATCACTGCCATT-GGGGATGTGGTCAACCACGACCCTGCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAG agaattaaacccaaagaagtgtacacatgatttttatataccattttcagGCAGCACCTGGGTATCACATGGCTGAGATGCTCATCAAGATTATCACTGCAATACGGAGATGTGGTTAATCATGACCCTACAGTAGGGGATCGTCTCCAAGTGCTCTTTCTGGAGAACTATCAGGTCACACTTGCTGAGAGGGgtataaggcaccactgccgatggactactgctgctggctaagaagctctg Alignment from GeneWise GCTGCACCCGGGTACCACATGGCTAAGATGATCATCAAGCTTATCACTGCC-ATTGGGGATGTGGTCAACCACGACCCTGCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAG agaattaaacccaaagaagtgtacacatgatttttatataccattttcagGCAGCACCTGGGTATCACATGGCTGAGATGCTCATCAAGATTATCACTGCAATACGGAGATGTGGTTAATCATGACCCTACAGTAGGGGATCGTCTCCAAGTGCTCTTTCTGGAGAACTATCAGGTCACACTTGCTGAGAGGGgtataaggcaccactgccgatggactactgctgctggctaagaagctctg #### Pyroxd2_ID8597_11 --> 0 - 1 Original Alignment GAGTGGCTTCCCGGGGCTTTTGTGAAGAGAATCTCCCAGCTGGACACCCAGTCTCCT-GTCACCAAGATCAATg gcacaagcactacatctccgcagggtattgacatggtggcctcatcccagGAGTGGCTCCCTGGGGCATTTGGGAAGAGGATCTCGCAGTTGGACACCCAGTCGCCTCGTTACTAAAATCAATggtaagcggccatagctgattgattacaatctatgtaaaatttcatatgtg Alignment from CESAR GAGTGGCTTCCCGGGGCTTTTGTGAAGAGAATCTCCCAGCTGGACACCCAGTCTCCT-GTCACCAAGATCAATg gcacaagcactacatctccgcagggtattgacatggtggcctcatcccagGAGTGGCTCCCTGGGGCATTTGGGAAGAGGATCTCGCAGTTGGACACCCAGTCGCCTCGTTACTAAAATCAATggtaagcggccatagctgattgattacaatctatgtaaaatttcatatgtg Alignment from Spaln_aa2Genome GAGTGGCTTCCCGGGGCTTTTGTGAAGAGAATCTCCCAGCTGGACACCCAGTCTCCT-GTCACCAAGATCAATG gcacaagcactacatctccgcagggtattgacatggtggcctcatcccagGAGTGGCTCCCTGGGGCATTTGGGAAGAGGATCTCGCAGTTGGACACCCAGTCGCCTcGTTACTAAAATCAATGgtaagcggccatagctgattgattacaatctatgtaaaatttcatatgtg Alignment from Spaln_nt2Genome GAGTGGCTTCCCGGGGCTTTTGTGAAGAGAATCTCCCAGCTGGACACCCAGTCTCCT-GTCACCAAGATCAATG gcacaagcactacatctccgcagggtattgacatggtggcctcatcccagGAGTGGCTCCCTGGGGCATTTGGGAAGAGGATCTCGCAGTTGGACACCCAGTCGCCTCGTTACTAAAATCAATGgtaagcggccatagctgattgattacaatctatgtaaaatttcatatgtg Alignment from Pairagon GAGTGGCTTCCCGGGGCTTTTGTGAAGAGAATCTCCCAGCTGGACACCCAGTCTCCT-GTCACCAAGATCAATG gcacaagcactacatctccgcagggtattgacatggtggcctcatcccagGAGTGGCTCCCTGGGGCATTTGGGAAGAGGATCTCGCAGTTGGACACCCAGTCGCCTCGTTACTAAAATCAATGgtaagcggccatagctgattgattacaatctatgtaaaatttcatatgtg Alignment from Exonerate_protein2genome GAGTGGCTTCCCGGGGCTTTTGTGAAGAGAATCTCCCAGCTGGACACCCAGTCTCCT-GTCACCAAGATCAATG gcacaagcactacatctccgcagggtattgacatggtggcctcatcccagGAGTGGCTCCCTGGGGCATTTGGGAAGAGGATCTCGCAGTTGGACACCCAGTCGCCTCGTTACTAAAATCAATGgtaagcggccatagctgattgattacaatctatgtaaaatttcatatgtg Alignment from Exonerate_coding2genome GAGTGGCTTCCCGGGGCTTTTGTGAAGAGAATCTCCCAGCTGGACACCCAGTCTCCT-GTCACCAAGATCAATG gcacaagcactacatctccgcagggtattgacatggtggcctcatcccagGAGTGGCTCCCTGGGGCATTTGGGAAGAGGATCTCGCAGTTGGACACCCAGTCGCCTCGTTACTAAAATCAATGgtaagcggccatagctgattgattacaatctatgtaaaatttcatatgtg Alignment from GeneWise GAGTGGCTTCCCGGGGCTTTTGTGAAGAGAATCTCCCAGCTGGACACCCAGTCTCCTG gcacaagcactacatctccgcagggtattgacatggtggcctcatcccagGAGTGGCTCCCTGGGGCATTTGGGAAGAGGATCTCGCAGTTGGACACCCAGTCGCCTCgttactaaaatcaatggtaagcggccatagctgattgattacaatctatgtaaaatttcatatgtg #### Rasgrp2_ID1707_6 --> 0 - 0 Original Alignment TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATC-TCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgatattaactgttaacagtttcacacctgtgtcctctcttaccccagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGGAGCGATTTATCCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtaggaacagttctgtcatatgagaccaggtcctttattgaatgtacaga Alignment from CESAR TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATC-TCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgatattaactgttaacagtttcacacctgtgtcctctcttaccccagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGGAGCGATTTATCCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtaggaacagttctgtcatatgagaccaggtcctttattgaatgtacaga Alignment from Spaln_aa2Genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATC-TCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgatattaactgttaacagtttcacacctgtgtcctctcttaccccagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGGAGCGATTTATCcTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtaggaacagttctgtcatatgagaccaggtcctttattgaatgtacaga Alignment from Spaln_nt2Genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATC-TCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgatattaactgttaacagtttcacacctgtgtcctctcttaccccagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGGAGCGATTTATCCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtaggaacagttctgtcatatgagaccaggtcctttattgaatgtacaga Alignment from Pairagon TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCAT-CTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgatattaactgttaacagtttcacacctgtgtcctctcttaccccagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGGAGCGATTTATCCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtaggaacagttctgtcatatgagaccaggtcctttattgaatgtacaga Alignment from Exonerate_protein2genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATC-TCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgatattaactgttaacagtttcacacctgtgtcctctcttaccccagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGGAGCGATTTATCCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtaggaacagttctgtcatatgagaccaggtcctttattgaatgtacaga Alignment from Exonerate_coding2genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATC-TCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgatattaactgttaacagtttcacacctgtgtcctctcttaccccagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGGAGCGATTTATCCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtaggaacagttctgtcatatgagaccaggtcctttattgaatgtacaga Alignment from GeneWise TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATC-TCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgatattaactgttaacagtttcacacctgtgtcctctcttaccccagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGGAGCGATTTATCCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtaggaacagttctgtcatatgagaccaggtcctttattgaatgtacaga #### Rasgrp2_ID1711_10 --> 0 - 0 Original Alignment CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCA-GTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG atacccacttctactacaacccctcaggaacatcgtggccctgctttcagCCTACCAGTCCAACAAGTTGTATGTCACCTCCTCGACCT---GTGTTTGAAGAGTGGACATCACGCTGCTAAACCTAATCTTGATCAAGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtaaggccatgctaatttttctgagactctaccccgtccaatggaaatga Alignment from CESAR CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCA-GTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG atacccacttctactacaacccctcaggaacatcgtggccctgctttcagCCTACCAGTCCAACAAGTTGTATGTCACCTCCTCGA---CCTGTGTTTGAAGAGTGGACATCACGCTGCTAAACCTAATCTTGATCAAGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtaaggccatgctaatttttctgagactctaccccgtccaatggaaatga Alignment from Spaln_aa2Genome CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCA-GTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG atacccacttctactacaacccctcaggaacatcgtggccctgctttcagCCTACCAGTCCAACAAGTTGTATGTCACCTCCTCGA---CCTGTGTTTGAAGAGTGGACATCAcGCTGCTAAACCTAATCTTGATCAAGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtaaggccatgctaatttttctgagactctaccccgtccaatggaaatga Alignment from Spaln_nt2Genome CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCA-GTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG atacccacttctactacaacccctcaggaacatcgtggccctgctttcagCCTACCAGTCCAACAAGTTGTATGTCACCTCCTCG---ACCTGTGTTTGAAGAGTGGACATCACGCTGCTAAACCTAATCTTGATCAAGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtaaggccatgctaatttttctgagactctaccccgtccaatggaaatga Alignment from Pairagon CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCA-GTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG atacccacttctactacaacccctcaggaacatcgtggccctgctttcagCCTACCAGTCCAACAAGTTGTATGTCACCTCCTCGA---CCTGTGTTTGAAGAGTGGACATCACGCTGCTAAACCTAATCTTGATCAAGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtaaggccatgctaatttttctgagactctaccccgtccaatggaaatga Alignment from Exonerate_protein2genome CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCA-GTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG atacccacttctactacaacccctcaggaacatcgtggccctgctttcagCCTACCAGTCCAACAAGTTGTATGTCACCTCCTCGA---CCTGTGTTTGAAGAGTGGACATCACGCTGCTAAACCTAATCTTGATCAAGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtaaggccatgctaatttttctgagactctaccccgtccaatggaaatga Alignment from Exonerate_coding2genome CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCA-GTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG atacccacttctactacaacccctcaggaacatcgtggccctgctttcagCCTACCAGTCCAACAAGTTGTATGTCACCTCCTCGA---CCTGTGTTTGAAGAGTGGACATCACGCTGCTAAACCTAATCTTGATCAAGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtaaggccatgctaatttttctgagactctaccccgtccaatggaaatga Alignment from GeneWise CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCA-GTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG atacccacttctactacaacccctcaggaacatcgtggccctgctttcagCCTACCAGTCCAACAAGTTGTATGTCACCTCCTCGA---CCTGTGTTTGAAGAGTGGACATCACGCTGCTAAACCTAATCTTGATCAAGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtaaggccatgctaatttttctgagactctaccccgtccaatggaaatga #### Rbm20_ID11377_4 --> 1 - 1 Original Alignment tGCTGGCCTCCGG-AGTATACGTGCTTCA---GGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGg tagattcaaaactaataacgtaccatgactttcccttttaaaaaaataagtACTGGTCTCCAGCAGTATCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAGCTAATAGTACAGCCGTTTATAACCCAACAGGAAATGAGggttggtaaggtgaatggtagggctctgtggcatgttaaccattagttgta Alignment from CESAR tGCTGGCCTCCGG-AGTATACGT---GCTTCAGGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGg tagattcaaaactaataacgtaccatgactttcccttttaaaaaaataagtACTGGTCTCCAGCAGTATCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAGCTAATAGTACAGCCGTTTATAACCCAACAGGAAATGAGggttggtaaggtgaatggtagggctctgtggcatgttaaccattagttgta Alignment from Spaln_aa2Genome TATACGT---GCTTCAGGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGG tagattcaaaactaataacgtaccatgactttcccttttaaaaaaataagtactggtctccagcagTATCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAGCTAATAGTACAGCCGTTTATAACCCAACAGGAAATGAGGgttggtaaggtgaatggtagggctctgtggcatgttaaccattagttgta Alignment from Spaln_nt2Genome TGCTGGCCTCCGG-AGTATACGTG---CTTCAGGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGG tagattcaaaactaataacgtaccatgactttcccttttaaaaaaataagTACTGGTCTCCAGCAGTATCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAGCTAATAGTACAGCCGTTTATAACCCAACAGGAAATGAGGgttggtaaggtgaatggtagggctctgtggcatgttaaccattagttgta Alignment from Pairagon TGCTGGCCTCCGG-AGTATACGTG---CTTCAGGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGG tagattcaaaactaataacgtaccatgactttcccttttaaaaaaataagTACTGGTCTCCAGCAGTATCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAGCTAATAGTACAGCCGTTTATAACCCAACAGGAAATGAGGgttggtaaggtgaatggtagggctctgtggcatgttaaccattagttgta Alignment from Exonerate_protein2genome TATACGT---GCTTCAGGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGG tagattcaaaactaataacgtaccatgactttcccttttaaaaaaataagtactggtctccagcagTATCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAGCTAATAGTACAGCCGTTTATAACCCAACAGGAAATGAGGgttggtaaggtgaatggtagggctctgtggcatgttaaccattagttgta Alignment from Exonerate_coding2genome TATACGT---GCTTCAGGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGG tagattcaaaactaataacgtaccatgactttcccttttaaaaaaataagtactggtctccagcagTATCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAGCTAATAGTACAGCCGTTTATAACCCAACAGGAAATGAGGgttggtaaggtgaatggtagggctctgtggcatgttaaccattagttgta Alignment from GeneWise TATACGT---GCTTCAGGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGG tagattcaaaactaataacgtaccatgactttcccttttaaaaaaataagtactggtctccagcagTATCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAGCTAATAGTACAGCCGTTTATAACCCAACAGGAAATGAGGgttggtaaggtgaatggtagggctctgtggcatgttaaccattagttgta #### Rbp4_ID7524_3 --> 0 - 2 Original Alignment TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCT---GAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCC-ACAGCCAAGGGACGAGTCCGTCTTCTGag ctaatttagttggggggtgagcttaggctttttacttttctctccctcagTTTTCAGGTCTCTTGTATACTATTGCA---AAGGGTCCGAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGCTGAGTTTTCTGTAGATGAGAAGGGGCATATGAGTGCTCACTGCCAAGGGACAGGTACATCTCCTGaggtgagtgaacctgagtgcagtactgtcactttagcctaataaagcctttc Alignment from CESAR TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCT---GAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCC-ACAGCCAAGGGACGAGTCCGTCTTCTGag ctaatttagttggggggtgagcttaggctttttacttttctctccctcagTTTTCAGGTCTCTTGTATACTATTGCA---AAGGGTCCGAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGCTGAGTTTTCTGTAGATGAGAAGGGGCATATGAGTGCTCACTGCCAAGGGACAGGTACATCTCCTGaggtgagtgaacctgagtgcagtactgtcactttagcctaataaagcctttc Alignment from Spaln_aa2Genome TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCC-ACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaatttagttggggggtgagcttaggctttttacttttctctccctcagTTTTCAGGTCTCTTGTATACTATTGCAAAGGGTCCGAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGCTGAGTTTTCTGTAGATGAGAAGGGGCATATGAGTGCTcACTGCCAAGGGACAGGTACATCTCCTGAGgtgagtgaacctgagtgcagtactgtcactttagcctaataaagcctttc Alignment from Spaln_nt2Genome TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATC---GCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGC-CACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaatttagttggggggtgagcttaggctttttacttttctctccctcagTTTTCAGGTCTCTTGTATACTATTGC---AAAGGGTCCGAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGCTGAGTTTTCTGTAGATGAGAAGGGGCATATGAGTGCTCACTGCCAAGGGACAGGTACATCTCCTGAGgtgagtgaacctgagtgcagtactgtcactttagcctaataaagcctttc Alignment from Pairagon TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCAT---CGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGC-CACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaatttagttggggggtgagcttaggctttttacttttctctccctcagTTTTCAGGTCTCTTGTATACTATTGC---AAAGGGTCCGAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGCTGAGTTTTCTGTAGATGAGAAGGGGCATATGAGTGCTCACTGCCAAGGGACAGGTACATCTCCTGAGgtgagtgaacctgagtgcagtactgtcactttagcctaataaagcctttc Alignment from Exonerate_protein2genome TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATC---GCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCC-ACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaatttagttggggggtgagcttaggctttttacttttctctccctcagTTTTCAGGTCTCTTGTATACTATTGCA---AAGGGTCCGAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGCTGAGTTTTCTGTAGATGAGAAGGGGCATATGAGTGCTCACTGCCAAGGGACAGGTACATCTCCTGAGgtgagtgaacctgagtgcagtactgtcactttagcctaataaagcctttc Alignment from Exonerate_coding2genome TTCGACAAGGCTCGTTTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATC---GCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCC-ACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaatttagttggggggtgagcttaggctttttacTTTTCTCTCCCTCAGTTTTCAGGTCTCTTGTATACTATTGCA---AAGGGTCCGAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGCTGAGTTTTCTGTAGATGAGAAGGGGCATATGAGTGCTCACTGCCAAGGGACAGGTACATCTCCTGAGgtgagtgaacctgagtgcagtactgtcactttagcctaataaagcctttc Alignment from GeneWise TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCT---GAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGA- ctaatttagttggggggtgagcttaggctttttacttttctctccctcagTTTTCAGGTCTCTTGTATACTATTGCAAAG---GGTCCGAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGCTGAGTTTTCTGTAGATGAGAAGGGGCATATGAGTGCTCACTGCCAAGGGACAGgtacatctcctgaggtgagtgaacctgagtgcagtactgtcactttagcctaataaagcctttc #### Rce1_ID578_4 --> 0 - 1 Original Alignment ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTGACAGAT-GGGCTGAAGGTTGTCCTGg aaatgtgagaagtactgcaccttatgctctaatcccattctggatcctagATCCTTTTCCCAGGTCCACTGACACAGCTTTCTATGGACTGTCCCTGTGACTTGACAGATCGGATTGAAAGTTGTTCTGggtacgttccacgtcttgcgaggagagaagaatacaaaagcagtgcaaaag Alignment from CESAR ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTGACAGAT-GGGCTGAAGGTTGTCCTGg aaatgtgagaagtactgcaccttatgctctaatcccattctggatcctagATCCTTTTCCCAGGTCCACTGACACAGCTTTCTATGGACTGTCCCTGTGACTTGACAGATCGGATTGAAAGTTGTTCTGggtacgttccacgtcttgcgaggagagaagaatacaaaagcagtgcaaaag Alignment from Spaln_aa2Genome ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTGACAGAT-GGGCTGAAGGTTGTCCTGG aaatgtgagaagtactgcaccttatgctctaatcccattctggatcctagATCCTTTTCCCAGGTCCACTGACACAGCTTTCTATGGACTGTCCCTGTGACTTGACAGATcGGATTGAAAGTTGTTCTGGgtacgttccacgtcttgcgaggagagaagaatacaaaagcagtgcaaaag Alignment from Spaln_nt2Genome ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTGACAGATGGGCT-GAAGGTTGTCCTGG aaatgtgagaagtactgcaccttatgctctaatcccattctggatcctagATCCTTTTCCCAGGTCCACTGACACAGCTTTCTATGGACTGTCCCTGTGACTTGACAGATCGGATTGAAAGTTGTTCTGGgtacgttccacgtcttgcgaggagagaagaatacaaaagcagtgcaaaag Alignment from Pairagon ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTGACAGAT-GGGCTGAAGGTTGTCCTGG aaatgtgagaagtactgcaccttatgctctaatcccattctggatcctagATCCTTTTCCCAGGTCCACTGACACAGCTTTCTATGGACTGTCCCTGTGACTTGACAGATCGGATTGAAAGTTGTTCTGGgtacgttccacgtcttgcgaggagagaagaatacaaaagcagtgcaaaag Alignment from Exonerate_protein2genome ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTGACAGAT-GGGCTGAAGGTTGTCCTGG aaatgtgagaagtactgcaccttatgctctaatcccattctggatcctagATCCTTTTCCCAGGTCCACTGACACAGCTTTCTATGGACTGTCCCTGTGACTTGACAGATCGGATTGAAAGTTGTTCTGGgtacgttccacgtcttgcgaggagagaagaatacaaaagcagtgcaaaag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTGACAGATGGGCTGAAGGTTGTCCTGG aaatgtgagaagtactgcaccttatgctctaatcccattctggatcctagATCCTTTTCCCAGGTCCACTGACACAGCTTTCTATGGACTGTCCCTGTGACTTGACAGAT------CGGATTGAAAGTTgttctgggtacgttccacgtcttgcgaggagagaagaatacaaaagcagtgcaaaag #### Rce1_ID580_2 --> 1 - 0 Original Alignment gGACCACCCCGCTGTTATC-AAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG ctttaatcatgcttacctcccagatctgactttctgcttatgccttccaggGACCACCCTTCTGTAGTGCAGGCGGCATTTTACCGGTGTTCTGATTGTATCTAGCTTGTCACCTCTTTGTGTGCTACTG------GAACTCACTGGCATCCAGgtaagtagaagatgatgatatcctgagtagcataccgaggaatcttttat Alignment from CESAR gGACCACCCCGCTGTTATC-AAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG ctttaatcatgcttacctcccagatctgactttctgcttatgccttccaggGACCACCCTTCTGTAGTGCAGGCGGCATTTTACCGGTGTTCTGATTGTATCTAGCTTGTCACCTCTTTGTGTGCTACTG------GAACTCACTGGCATCCAGgtaagtagaagatgatgatatcctgagtagcataccgaggaatcttttat Alignment from Spaln_aa2Genome GGACCACCCCGCTGTTATC-AAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG ctttaatcatgcttacctcccagatctgactttctgcttatgccttccagGGACCACCCTTCTGTAGTGcAGGCGGCATTTTACCGGTGTTCTGATTGTATCTAGCTTGTCACCTCTTTGTGTGCTACTG------GAACTCACTGGCATCCAGgtaagtagaagatgatgatatcctgagtagcataccgaggaatcttttat Alignment from Spaln_nt2Genome GGACCACCCCGCTGTTAT-CAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG ctttaatcatgcttacctcccagatctgactttctgcttatgccttccagGGACCACCCTTCTGTAGTGCAGGCGGCATTTTACCGGTGTTCTGATTGTATCTAGCTTGTCACCTCTTTGTGTGCTACT------GGAACTCACTGGCATCCAGgtaagtagaagatgatgatatcctgagtagcataccgaggaatcttttat Alignment from Pairagon GGACCACCCCGCTGTTAT-CAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG ctttaatcatgcttacctcccagatctgactttctgcttatgccttccagGGACCACCCTTCTGTAGTGCAGGCGGCATTTTACCGGTGTTCTGATTGTATCTAGCTTGTCACCTCTTTGTGTGCTACT------GGAACTCACTGGCATCCAGgtaagtagaagatgatgatatcctgagtagcataccgaggaatcttttat Alignment from Exonerate_protein2genome GGACCACCCCGCTGTTATC-AAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG ctttaatcatgcttacctcccagatctgactttctgcttatgccttccagGGACCACCCTTCTGTAGTGCAGGCGGCATTTTACCGGTGTTCTGATTGTATCTAGCTTGTCACCTCTTTGTGTGCTACTG------GAACTCACTGGCATCCAGgtaagtagaagatgatgatatcctgagtagcataccgaggaatcttttat Alignment from Exonerate_coding2genome ctttaatcatgcttacctcccagatctgactttctgcttatgccttccagggaccacccttctgtagtgcaggcggcattttaccggtgttctgattgtatctagcttgtcacctctttgtgtgctactggaactcactggcatccaggtaagtagaagatgatgatatcctgagtagcataccgaggaatcttttat Alignment from GeneWise -GACCACCCCGCTGTTATC-AAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG ctttaatcatgcttacctcccagatctgactttctgcttatgccttccagGGACCACCCTTCTGTAGTGCAGGCGGCATTTTACCGGTGTTCTGATTGTATCTAGCTTGTCACCTCTTTGTGTGCTACTG------GAACTCACTGGCATCCAGgtaagtagaagatgatgatatcctgagtagcataccgaggaatcttttat #### Rcor2_ID2093_4 --> 0 - 0 Original Alignment GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAG-GACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG aagtttagcattgacctgcacagtccatgacccacttcatttgtccacagGCACTTGGTATGCTTCTGTGGCATAAACATGATGTTGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAACGATAAGGTGTTGTTAGAGCAAGCCTTTGGGTTCCATGGCAAGTGCTTTCAGCGTATCCAGCAAATGgtaagtattagttccccttgaataccccccagccttgatgcagatctact Alignment from CESAR GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAG-GACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG aagtttagcattgacctgcacagtccatgacccacttcatttgtccacagGCACTTGGTATGCTTCTGTGGCATAAACATGATGTTGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAACGATAAGGTGTTGTTAGAGCAAGCCTTTGGGTTCCATGGCAAGTGCTTTCAGCGTATCCAGCAAATGgtaagtattagttccccttgaataccccccagccttgatgcagatctact Alignment from Spaln_aa2Genome GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAG-GACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG aagtttagcattgacctgcacagtccatgacccacttcatttgtccacagGCACTTGGTATGCTTCTGTGGCATAAACATGATGTTGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAAcGATAAGGTGTTGTTAGAGCAAGCCTTTGGGTTCCATGGCAAGTGCTTTCAGCGTATCCAGCAAATGgtaagtattagttccccttgaataccccccagccttgatgcagatctact Alignment from Spaln_nt2Genome GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAG-GACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG aagtttagcattgacctgcacagtccatgacccacttcatttgtccacagGCACTTGGTATGCTTCTGTGGCATAAACATGATGTTGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAACGATAAGGTGTTGTTAGAGCAAGCCTTTGGGTTCCATGGCAAGTGCTTTCAGCGTATCCAGCAAATGgtaagtattagttccccttgaataccccccagccttgatgcagatctact Alignment from Pairagon GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAG-GACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG aagtttagcattgacctgcacagtccatgacccacttcatttgtccacagGCACTTGGTATGCTTCTGTGGCATAAACATGATGTTGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAACGATAAGGTGTTGTTAGAGCAAGCCTTTGGGTTCCATGGCAAGTGCTTTCAGCGTATCCAGCAAATGgtaagtattagttccccttgaataccccccagccttgatgcagatctact Alignment from Exonerate_protein2genome GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAG-GACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG aagtttagcattgacctgcacagtccatgacccacttcatttgtccacagGCACTTGGTATGCTTCTGTGGCATAAACATGATGTTGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAACGATAAGGTGTTGTTAGAGCAAGCCTTTGGGTTCCATGGCAAGTGCTTTCAGCGTATCCAGCAAATGgtaagtattagttccccttgaataccccccagccttgatgcagatctact Alignment from Exonerate_coding2genome GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAG-GACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG aagtttagcattgacctgcacagtccatgacccacttcatttgtccacagGCACTTGGTATGCTTCTGTGGCATAAACATGATGTTGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAACGATAAGGTGTTGTTAGAGCAAGCCTTTGGGTTCCATGGCAAGTGCTTTCAGCGTATCCAGCAAATGgtaagtattagttccccttgaataccccccagccttgatgcagatctact Alignment from GeneWise GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTG-GAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG aagtttagcattgacctgcacagtccatgacccacttcatttgtccacagGCACTTGGTATGCTTCTGTGGCATAAACATGATGTTGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAACGATAAGGTGTTGTTAGAGCAAGCCTTTGGGTTCCATGGCAAGTGCTTTCAGCGTATCCAGCAAATGgtaagtattagttccccttgaataccccccagccttgatgcagatctact #### Rcor2_ID2095_6 --> 1 - 0 Original Alignment tGATGAACTAGAAGAGGGACGA-GGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG tgtgacttgggggaatgataatggagtggatgagatatattgatttttagtGATGAAGTAGATGAGGGGCAGCCGGGCCATCAGTGAGGGGGATCCAGATACTGGGGATCCCAAGCAGAAGgtaagtgccatgccacattggatcccataccataccaaccctcttgccag Alignment from CESAR tGATGAACTAGAAGAGGGACGA-GGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG tgtgacttgggggaatgataatggagtggatgagatatattgatttttagtGATGAAGTAGATGAGGGGCAGCCGGGCCATCAGTGAGGGGGATCCAGATACTGGGGATCCCAAGCAGAAGgtaagtgccatgccacattggatcccataccataccaaccctcttgccag Alignment from Spaln_aa2Genome TGATGAACTAGAAGAGGGACGA-GGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG tgtgacttgggggaatgataatggagtggatgagatatattgatttttagTGATGAAGTAGATGAGGGGCAGcCGGGCCATCAGTGAGGGGGATCCAGATACTGGGGATCCCAAGCAGAAGgtaagtgccatgccacattggatcccataccataccaaccctcttgccag Alignment from Spaln_nt2Genome TGATGAACTAGAAGAGGGAC-GAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG tgtgacttgggggaatgataatggagtggatgagatatattgatttttagTGATGAAGTAGATGAGGGGCAGCCGGGCCATCAGTGAGGGGGATCCAGATACTGGGGATCCCAAGCAGAAGgtaagtgccatgccacattggatcccataccataccaaccctcttgccag Alignment from Pairagon TGATGAACTAGAAGAGGGACGAGGAGCTGTG-----AGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG tgtgacttgggggaatgataatggagtggatgagatatattgatttttagTGATGAAGTAGATGAGGGGC----AGCCGGGCCATCAGTGAGGGGGATCCAGATACTGGGGATCCCAAGCAGAAGgtaagtgccatgccacattggatcccataccataccaaccctcttgccag Alignment from Exonerate_protein2genome TGATGAACTAGAAGAGGGACGA-GGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG tgtgacttgggggaatgataatggagtggatgagatatattgatttttagTGATGAAGTAGATGAGGGGCAGCCGGGCCATCAGTGAGGGGGATCCAGATACTGGGGATCCCAAGCAGAAGgtaagtgccatgccacattggatcccataccataccaaccctcttgccag Alignment from Exonerate_coding2genome TGATGAACTAGAAGAGGGACGA-GGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG tgtgacttgggggaatgataatggagtggatgagatatattgatttttagTGATGAAGTAGATGAGGGGCAGCCGGGCCATCAGTGAGGGGGATCCAGATACTGGGGATCCCAAGCAGAAGgtaagtgccatgccacattggatcccataccataccaaccctcttgccag Alignment from GeneWise TGATGAACTAGAAGAGGGACGA-GGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG tgtgacttgggggaatgataatggagtggatgagatatattgatttttagTGATGAAGTAGATGAGGGGCAGCCGGGCCATCAGTGAGGGGGATCCAGATACTGGGGATCCCAAGCAGAAGgtaagtgccatgccacattggatcccataccataccaaccctcttgccag #### Rcor2_ID2098_9 --> 0 - 1 Original Alignment GCTAATACCAAGTTCAACTCCCGCTGGACC-ACTGATGAGCAACTTCTAGCTGTTCAAg cctcccttctcccattttttcattgatatggggtggtgcctgttttccagGCTAATACCAAATTCAACTCCCGCTGGACCCACTGATGAGGAACTTTTAGCAGTTCAAggtgagttacgctactgtgggtttccaagaatctcggagatgattgagacc Alignment from CESAR GCTAATACCAAGTTCAACTCCCGCTGGACC-ACTGATGAGCAACTTCTAGCTGTTCAAg cctcccttctcccattttttcattgatatggggtggtgcctgttttccagGCTAATACCAAATTCAACTCCCGCTGGACCCACTGATGAGGAACTTTTAGCAGTTCAAggtgagttacgctactgtgggtttccaagaatctcggagatgattgagacc Alignment from Spaln_aa2Genome GCTAATACCAAGTTCAACTCCCGCTGGACC-ACTGATGAGCAACTTCTAGCTGTTCAAG cctcccttctcccattttttcattgatatggggtggtgcctgttttccagGCTAATACCAAATTCAACTCCCGCTGGACCcACTGATGAGGAACTTTTAGCAGTTCAAGgtgagttacgctactgtgggtttccaagaatctcggagatgattgagacc Alignment from Spaln_nt2Genome GCTAATACCAAGTTCAACTCCCGCTGGAC-CACTGATGAGCAACTTCTAGCTGTTCAAG cctcccttctcccattttttcattgatatggggtggtgcctgttttccagGCTAATACCAAATTCAACTCCCGCTGGACCCACTGATGAGGAACTTTTAGCAGTTCAAGgtgagttacgctactgtgggtttccaagaatctcggagatgattgagacc Alignment from Pairagon GCTAATACCAAGTTCAACTCCCGCTGGA-CCACTGATGAGCAACTTCTAGCTGTTCAAG cctcccttctcccattttttcattgatatggggtggtgcctgttttccagGCTAATACCAAATTCAACTCCCGCTGGACCCACTGATGAGGAACTTTTAGCAGTTCAAGgtgagttacgctactgtgggtttccaagaatctcggagatgattgagacc Alignment from Exonerate_protein2genome GCTAATACCAAGTTCAACTCCCGCTGGACC-ACTGATGAGCAACTTCTAGCTGTTCAAG cctcccttctcccattttttcattgatatggggtggtgcctgttttccagGCTAATACCAAATTCAACTCCCGCTGGACCCACTGATGAGGAACTTTTAGCAGTTCAAGgtgagttacgctactgtgggtttccaagaatctcggagatgattgagacc Alignment from Exonerate_coding2genome GCTAATACCAAGTTCAACTCCCGCTGGACC-ACTGATGAGCAACTTCTAGCTGTTCAAG cctcccttctcccattttttcattgatatggggtggtgcctgttttccagGCTAATACCAAATTCAACTCCCGCTGGACCCACTGATGAGGAACTTTTAGCAGTTCAAGgtgagttacgctactgtgggtttccaagaatctcggagatgattgagacc Alignment from GeneWise GCTAATACCAAGTTCAACTCCCGCTGGACC-ACTGATGAGCAACTTCTAGCTGTTCAAG cctcccttctcccattttttcattgatatggggtggtgcctgttttccagGCTAATACCAAATTCAACTCCCGCTGGACCCACTGATGAGGAACTTTTAGCAGTTCAAGgtgagttacgctactgtgggtttccaagaatctcggagatgattgagacc #### Rcor2_ID2099_10 --> 2 - 0 Original Alignment ctATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAA-GAAGATGATGAG GTCCAGA agaggaggggccaactgttttgtccaaactttgtttttgtgaccttaaagccATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGAAACAAGACCCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCCCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAACGAGGATGATAAGgtaagagacctctccatggaatgttttgaaccgctcctttcagGTACAGA Alignment from CESAR ctATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAA-GAAGATGATGAG GTCCAGA agaggaggggccaactgttttgtccaaactttgtttttgtgaccttaaagccATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGAAACAAGACCCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCCCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAACGAGGATGATAAGgtaagagacctctccatggaaatttttcttttctgttttacagGTACAGA Alignment from Spaln_aa2Genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAA-GAAGATGATGAG GTCCAGA agaggaggggccaactgttttgtccaaactttgtttttgtgaccttaaagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGAAACAAGACCCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCCCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAAcGAGGATGATAAGgtaagagacctctccatggaatgttttgaaccgctcctttcagGTACAGA Alignment from Spaln_nt2Genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAA-GAAGATGATGAG GTCCAGA agaggaggggccaactgttttgtccaaactttgtttttgtgaccttaaagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGAAACAAGACCCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCCCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAACGAGGATGATAAGgtaagagacctctccatggaatgttttgaaccgctcctttcagGTACAGA Alignment from Pairagon CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAA-GAAGATGATGAG GTCCAGA agaggaggggccaactgttttgtccaaactttgtttttgtgaccttaaagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGAAACAAGACCCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCCCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAACGAGGATGATAAGgtaagagacctctccatggaatgttttgaaccgctcctttcagGTACAGA Alignment from Exonerate_protein2genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAA-GAAGATGATGAG GTCCAGA agaggaggggccaactgttttgtccaaactttgtttttgtgaccttaaagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGAAACAAGACCCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCCCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAACGAGGATGATAAGgtaagagacctctccatggaatgttttgaaccgctcctttcagGTACAGA Alignment from Exonerate_coding2genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAA-GAAGATGATGAG GTCCAGA agaggaggggccaactgttttgtccaaactttgtttttgtgaccttaaagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGAAACAAGACCCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCCCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAACGAGGATGATAAGgtaagagacctctccatggaatgttttgaaccgctcctttcagGTACAGA Alignment from GeneWise CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCT ---GTACCAGCCACAGCCCTAGAAGAAGATGATGAGGTCCAGA agaggaggggccaactgttttgtccaaactttgtttttgtgaccttaaagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGAAACAAGACCCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCCCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTgtttcaaccacagcccttgaacgaggatgataaggtaagagACCTCTCCATGGAATGTTTTGAACCGCTCCTTTCAGGTACAGA #### Rela_ID1127_4 --> 0 - 2 Original Alignment ATCAATGGCTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGGCCTCATCCACATGAACTTGTGGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGAC-CTCTGCCCAGACCGCAGTATCCATag ttggtatcatgtgcttaggtctcctgtctttatttctctgtcctgaacagATCAACGGCTACTCAGGTCCAGGAACAGTTCGAATCTCCCTGGTTACCAAGGACCCACCTCACCGCCCTCATCCACATGAACTTGTAGGGGAGGACTGTTGGGATGGCTACTATGAGGCTGATCCTATGCCCAGACCGCAGTATTCATaggtaagttatttgtggcatgatgcttctggcaagggaataccaaggtagac Alignment from CESAR ATCAATGGCTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGGCCTCATCCACATGAACTTGTGGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGAC-CTCTGCCCAGACCGCAGTATCCATag ttggtatcatgtgcttaggtctcctgtctttatttctctgtcctgaacagATCAACGGCTACTCAGGTCCAGGAACAGTTCGAATCTCCCTGGTTACCAAGGACCCACCTCACCGCCCTCATCCACATGAACTTGTAGGGGAGGACTGTTGGGATGGCTACTATGAGGCTGATCCTATGCCCAGACCGCAGTATTCATaggtaagttatttgtggcatgatgcttctggcaagggaataccaaggtagac Alignment from Spaln_aa2Genome ATCAATGGCTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGGCCTCATCCACATGAACTTGTGGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGAC-CTCTGCCCAGACCGCAGTATCCATAG ttggtatcatgtgcttaggtctcctgtctttatttctctgtcctgaacagATCAACGGCTACTCAGGTCCAGGAACAGTTCGAATCTCCCTGGTTACCAAGGACCCACCTCACCGCCCTCATCCACATGAACTTGTAGGGGAGGACTGTTGGGATGGCTACTATGAGGCTGATcCTATGCCCAGACCGCAGTATTCATAGgtaagttatttgtggcatgatgcttctggcaagggaataccaaggtagac Alignment from Spaln_nt2Genome ATCAATGGCTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGGCCTCATCCACATGAACTTGTGGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGA-CCTCTGCCCAGACCGCAGTATCCATAG ttggtatcatgtgcttaggtctcctgtctttatttctctgtcctgaacagATCAACGGCTACTCAGGTCCAGGAACAGTTCGAATCTCCCTGGTTACCAAGGACCCACCTCACCGCCCTCATCCACATGAACTTGTAGGGGAGGACTGTTGGGATGGCTACTATGAGGCTGATCCTATGCCCAGACCGCAGTATTCATAGgtaagttatttgtggcatgatgcttctggcaagggaataccaaggtagac Alignment from Pairagon ATCAATGGCTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGGCCTCATCCACATGAACTTGTGGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGA-CCTCTGCCCAGACCGCAGTATCCATAG ttggtatcatgtgcttaggtctcctgtctttatttctctgtcctgaacagATCAACGGCTACTCAGGTCCAGGAACAGTTCGAATCTCCCTGGTTACCAAGGACCCACCTCACCGCCCTCATCCACATGAACTTGTAGGGGAGGACTGTTGGGATGGCTACTATGAGGCTGATCCTATGCCCAGACCGCAGTATTCATAGgtaagttatttgtggcatgatgcttctggcaagggaataccaaggtagac Alignment from Exonerate_protein2genome ATCAATGGCTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGGCCTCATCCACATGAACTTGTGGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGAC-CTCTGCCCAGACCGCAGTATCCATAG ttggtatcatgtgcttaggtctcctgtctttatttctctgtcctgaacagATCAACGGCTACTCAGGTCCAGGAACAGTTCGAATCTCCCTGGTTACCAAGGACCCACCTCACCGCCCTCATCCACATGAACTTGTAGGGGAGGACTGTTGGGATGGCTACTATGAGGCTGATCCTATGCCCAGACCGCAGTATTCATAGgtaagttatttgtggcatgatgcttctggcaagggaataccaaggtagac Alignment from Exonerate_coding2genome ttggtatcatgtgcttaggtctcctgtctttatttctctgtcctgaacagatcaacggctactcaggtccaggaacagttcgaatctccctggttaccaaggacccacctcaccgccctcatccacatgaacttgtaggggaggactgttgggatggctactatgaggctgatcctatgcccagaccgcagtattcataggtaagttatttgtggcatgatgcttctggcaagggaataccaaggtagac Alignment from GeneWise ATCAATGGCTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGGCCTCATCCACATGAACTTGTGGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGAC-CTCTGCCCAGACCGCAGTATCCATAG ttggtatcatgtgcttaggtctcctgtctttatttctctgtcctgaacagATCAACGGCTACTCAGGTCCAGGAACAGTTCGAATCTCCCTGGTTACCAAGGACCCACCTCACCGCCCTCATCCACATGAACTTGTAGGGGAGGACTGTTGGGATGGCTACTATGAGGCTGATCCTATGCCCAGACCGCAGTATTCATAGgtaagttatttgtggcatgatgcttctggcaagggaataccaaggtagac #### Rin1_ID808_3 --> 0 - 1 Original Alignment G ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCC-AGCCACTATATCGAAGAGAGTACTGGCg GgtgagtctcttagttacaagacctaaacgttgctcttctgtctctgtagACATTTGTTATATGCAAATACAACACTCGACAGTGCCAGGCTCTGTGTGTACGGTTACCAGAACCTAGTGGCCCAGCTTTTGTCTCTCAGTCACTATATTGAGGAAGGTACTGGTggtgagcaggataataaggggggggtcaagacatgtgtccctaagcacatg Alignment from CESAR G ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCC-AGCCACTATATCGAAGAGAGTACTGGCg GgtaagcctcttagttacaagacctaaacgttgctcttctgtctctgtagACATTTGTTATATGCAAATACAACACTCGACAGTGCCAGGCTCTGTGTGTACGGTTACCAGAACCTAGTGGCCCAGCTTTTGTCTCTCAGTCACTATATTGAGGAAGGTACTGGTggtgagcaggataataaggggggggtcaagacatgtgtccctaagcacatg Alignment from Spaln_aa2Genome G ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCC-AGCCACTATATCGAAGAGAGTACTGGCG GgtgagtctcttagttacaagacctaaacgttgctcttctgtctctgtagACATTTGTTATATGCAAATACAACACTCGACAGTGCCAGGCTCTGTGTGTACGGTTACCAGAACCTAGTGGCCCAGCTTTTGTCTCTcAGTCACTATATTGAGGAAGGTACTGGTGgtgagcaggataataaggggggggtcaagacatgtgtccctaagcacatg Alignment from Spaln_nt2Genome G ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTC-CAGCCACTATATCGAAGAGAGTACTGGCG GgtgagtctcttagttacaagacctaaacgttgctcttctgtctctgtagACATTTGTTATATGCAAATACAACACTCGACAGTGCCAGGCTCTGTGTGTACGGTTACCAGAACCTAGTGGCCCAGCTTTTGTCTCTCAGTCACTATATTGAGGAAGGTACTGGTGgtgagcaggataataaggggggggtcaagacatgtgtccctaagcacatg Alignment from Pairagon G ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTC-CAGCCACTATATCGAAGAGAGTACTGGCGGTG----------------------------------------------- GgtgagtctcttagttacaagacctaaacgttgctcttctgtctctgtagACATTTGTTATATGCAAATACAACACTCGACAGTGCCAGGCTCTGTGTGTACGGTTACCAGAACCTAGTGGCCCAGCTTTTGTCTCTCAGTCACTATATTGAGGAAGGTACTGGTGGTGAGCAGGATAATAAGGGGGGGGTCAAGACATGTGTCCCTAAGCACATG Alignment from Exonerate_protein2genome G ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCC-AGCCACTATATCGAAGAGAGTACTGGCG GgtgagtctcttagttacaagacctaaacgttgctcttctgtctctgtagACATTTGTTATATGCAAATACAACACTCGACAGTGCCAGGCTCTGTGTGTACGGTTACCAGAACCTAGTGGCCCAGCTTTTGTCTCTCAGTCACTATATTGAGGAAGGTACTGGTGgtgagcaggataataaggggggggtcaagacatgtgtccctaagcacatg Alignment from Exonerate_coding2genome G ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCC-AGCCACTATATCGAAGAGAGTACTGGCG GgtgagtctcttagttacaagacctaaacgttgctcttctgtctctgtagACATTTGTTATATGCAAATACAACACTCGACAGTGCCAGGCTCTGTGTGTACGGTTACCAGAACCTAGTGGCCCAGCTTTTGTCTCTCAGTCACTATATTGAGGAAGGTACTGGTGgtgagcaggataataaggggggggtcaagacatgtgtccctaagcacatg Alignment from GeneWise G ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCC-AGCCACTATATCGAAGAGAGTACTGGCG GgtgagtctcttagttacaagacctaaacgttgctcttctgtctctgtagACATTTGTTATATGCAAATACAACACTCGACAGTGCCAGGCTCTGTGTGTACGGTTACCAGAACCTAGTGGCCCAGCTTTTGTCTCTCAGTCACTATATTGAGGAAGGTACTGGTGgtgagcaggataataaggggggggtcaagacatgtgtccctaagcacatg #### Rin1_ID809_4 --> 2 - 2 Original Alignment gtGTCTCTTTGGAGGGCTCA-GAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCag tgagatttgccctgatctagctggacagcctctgtgtgctgacttcacaggaATCTCTTTGGAGGTCTCACGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTGCTaggtaagtctgtctgtgcactgttgacccattaggccaacttagcttgttca Alignment from CESAR gtGTCTCTTTGGAGGGCTCA-GAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCag tgagatttgccctgatctagctggacagcctctgtgtgctgacttcacaggaATCTCTTTGGAGGTCTCACGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTGCTaggtaagtctgtctgtgcactgttgacccattaggccaacttagcttgttca Alignment from Spaln_aa2Genome GTGTCTCTTTGGAGGGCTCA-GAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgagatttgccctgatctagctggacagcctctgtgtgctgacttcacagGAATCTCTTTGGAGGTCTCAcGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTGCTAGgtaagtctgtctgtgcactgttgacccattaggccaacttagcttgttca Alignment from Spaln_nt2Genome GTGTCTCTTTGGAGGGCTCA-GAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgagatttgccctgatctagctggacagcctctgtgtgctgacttcacagGAATCTCTTTGGAGGTCTCACGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTGCTAGgtaagtctgtctgtgcactgttgacccattaggccaacttagcttgttca Alignment from Pairagon GTGTCTCTTTGGAGGGCTCA-GAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgagatttgccctgatctagctggacagcctctgtgtgctgacttcacagGAATCTCTTTGGAGGTCTCACGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTGCTAGgtaagtctgtctgtgcactgttgacccattaggccaacttagcttgttca Alignment from Exonerate_protein2genome GTGTCTCTTTGGAGGGCTCA-GAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgagatttgccctgatctagctggacagcctctgtgtgctgacttcacagGAATCTCTTTGGAGGTCTCACGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTGCTAGgtaagtctgtctgtgcactgttgacccattaggccaacttagcttgttca Alignment from Exonerate_coding2genome GTGTCTCTTTGGAGGGCTCA-GAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgagatttgccctgatctagctggacagcctctgtgtgctgacttcacagGAATCTCTTTGGAGGTCTCACGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTGCTAGgtaagtctgtctgtgcactgttgacccattaggccaacttagcttgttca Alignment from GeneWise ---------------------GAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACC-- tgagatttgccctgatctagctggacagcctctgtgtgctgacttcacagGAATCTCTTTGGAGGTCTCACGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTGCTAGgtaagtctgtctgtgcactgttgacccattaggccaacttagcttgttca #### Rin1_ID810_5 --> 1 - 1 Original Alignment aGCCATTCATCAGGCAGCCACCCAC-AAAGAGCTGGAGGCCATCTCCCATCTGGGCATGg ttcctccctgatggcttttcccccaggcctggaagccattcttcccacaggGCGATTCATCAGGCAGCCACCCACCAAAGAGCTAGAAGCTATCTCCCATCTGGGGATGggtgagtatccccagcagttacacaaaacatactgggattacttggttagg Alignment from CESAR aGCCATTCATCAGGCAGCCACCCAC-AAAGAGCTGGAGGCCATCTCCCATCTGGGCATGg ttcctccctgatggcttttcccccaggcctggaagccattcttcccacaggGCGATTCATCAGGCAGCCACCCACCAAAGAGCTAGAAGCTATCTCCCATCTGGGGATGggtgagtatccccagcagttacacaaaacatactgggattacttggttagg Alignment from Spaln_aa2Genome AGCCATTCATCAGGCAGCCACCCAC-AAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG ttcctccctgatggcttttcccccaggcctggaagccattcttcccacagGGCGATTCATCAGGCAGCCACCCACcAAAGAGCTAGAAGCTATCTCCCATCTGGGGATGGgtgagtatccccagcagttacacaaaacatactgggattacttggttagg Alignment from Spaln_nt2Genome AGCCATTCATCAGGCAGCCA-CCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG ttcctccctgatggcttttcccccaggcctggaagccattcttcccacagGGCGATTCATCAGGCAGCCACCCACCAAAGAGCTAGAAGCTATCTCCCATCTGGGGATGGgtgagtatccccagcagttacacaaaacatactgggattacttggttagg Alignment from Pairagon AGCCATTCATCAGGCAGCCACCCA-CAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG ttcctccctgatggcttttcccccaggcctggaagccattcttcccacagGGCGATTCATCAGGCAGCCACCCACCAAAGAGCTAGAAGCTATCTCCCATCTGGGGATGGgtgagtatccccagcagttacacaaaacatactgggattacttggttagg Alignment from Exonerate_protein2genome AGCCATTCATCAGGCAGCCACCCAC-AAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG ttcctccctgatggcttttcccccaggcctggaagccattcttcccacagGGCGATTCATCAGGCAGCCACCCACCAAAGAGCTAGAAGCTATCTCCCATCTGGGGATGGgtgagtatccccagcagttacacaaaacatactgggattacttggttagg Alignment from Exonerate_coding2genome AGCCATTCATCAGGCAGCCACCCAC-AAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG ttcctccctgatggcttttcccccaggcctggaagccattcttcccacagGGCGATTCATCAGGCAGCCACCCACCAAAGAGCTAGAAGCTATCTCCCATCTGGGGATGGgtgagtatccccagcagttacacaaaacatactgggattacttggttagg Alignment from GeneWise AGCCATTCATCAGGCAGCCACCCAC-AAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG ttcctccctgatggcttttcccccaggcctggaagccattcttcccacagGGCGATTCATCAGGCAGCCACCCACCAAAGAGCTAGAAGCTATCTCCCATCTGGGGATGGgtgagtatccccagcagttacacaaaacatactgggattacttggttagg #### Rin1_ID812_7 --> 2 - 1 Original Alignment aaTTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTC-GGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAg gaagtgattccaacataaaatccactggcttaaacttttattattttaagaaTTGGTGCTGGAGAAGTCCCAGCATCGCTCAGTTCTCAAACCACTTCGACCCATCCTAGCTGCTCGTCTACGCCATCGCCTTTCTACTGATGGTTCTCTTCGGTTGTCTAGCAGAGGGCTTTCTCCTCACCCAAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTTTGTCAGAAGCTTCTACAGCTCCTACGCGCATACTCACCAAGCGCACAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTAAAGAGCCAAGCAggtaagttaccaccaactcccccagggctagagcacatacacacctccaaa Alignment from CESAR aaTTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTC-GGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAg gaagtgattccaacataaaatccactggcttaaacttttattattttaagaaTTGGTGCTGGAGAAGTCCCAGCATCGCTCAGTTCTCAAACCACTTCGACCCATCCTAGCTGCTCGTCTACGCCATCGCCTTTCTACTGATGGTTCTCTTCGGTTGTCTAGCAGAGGGCTTTCTCCTCACCCAAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTTTGTCAGAAGCTTCTACAGCTCCTACGCGCATACTCACCAAGCGCACAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTAAAGAGCCAAGCAggtaagttaccaccaactcccccagggctagagcacatacacacctccaaa Alignment from Spaln_aa2Genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTC-GGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG gaagtgattccaacataaaatccactggcttaaacttttattattttaagAATTGGTGCTGGAGAAGTCCCAGCATCGCTCAGTTCTCAAACCACTTCGACCCATCCTAGCTGCTCGTCTACGCCATCGCCTTTCTACTGATGGTTCTCTTcGGTTGTCTAGCAGAGGGCTTTCTCCTCACCCAAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTTTGTCAGAAGCTTCTACAGCTCCTACGCGCATACTCACCAAGCGCACAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTAAAGAGCCAAGCAGgtaagttaccaccaactcccccagggctagagcacatacacacctccaaa Alignment from Spaln_nt2Genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCT-CGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG gaagtgattccaacataaaatccactggcttaaacttttattattttaagAATTGGTGCTGGAGAAGTCCCAGCATCGCTCAGTTCTCAAACCACTTCGACCCATCCTAGCTGCTCGTCTACGCCATCGCCTTTCTACTGATGGTTCTCTTCGGTTGTCTAGCAGAGGGCTTTCTCCTCACCCAAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTTTGTCAGAAGCTTCTACAGCTCCTACGCGCATACTCACCAAGCGCACAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTAAAGAGCCAAGCAGgtaagttaccaccaactcccccagggctagagcacatacacacctccaaa Alignment from Pairagon AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTC-CCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG gaagtgattccaacataaaatccactggcttaaacttttattattttaagAATTGGTGCTGGAGAAGTCCCAGCATCGCTCAGTTCTCAAACCACTTCGACCCATCCTAGCTGCTCGTCTACGCCATCGCCTTTCTACTGATGGTTCTCTTCGGTTGTCTAGCAGAGGGCTTTCTCCTCACCCAAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTTTGTCAGAAGCTTCTACAGCTCCTACGCGCATACTCACCAAGCGCACAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTAAAGAGCCAAGCAGgtaagttaccaccaactcccccagggctagagcacatacacacctccaaa Alignment from Exonerate_protein2genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTC-GGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG gaagtgattccaacataaaatccactggcttaaacttttattattttaagAATTGGTGCTGGAGAAGTCCCAGCATCGCTCAGTTCTCAAACCACTTCGACCCATCCTAGCTGCTCGTCTACGCCATCGCCTTTCTACTGATGGTTCTCTTCGGTTGTCTAGCAGAGGGCTTTCTCCTCACCCAAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTTTGTCAGAAGCTTCTACAGCTCCTACGCGCATACTCACCAAGCGCACAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTAAAGAGCCAAGCAGgtaagttaccaccaactcccccagggctagagcacatacacacctccaaa Alignment from Exonerate_coding2genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTC-GGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG gaagtgattccaacataaaatccactggcttaaacttttattattttaagAATTGGTGCTGGAGAAGTCCCAGCATCGCTCAGTTCTCAAACCACTTCGACCCATCCTAGCTGCTCGTCTACGCCATCGCCTTTCTACTGATGGTTCTCTTCGGTTGTCTAGCAGAGGGCTTTCTCCTCACCCAAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTTTGTCAGAAGCTTCTACAGCTCCTACGCGCATACTCACCAAGCGCACAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTAAAGAGCCAAGCAGgtaagttaccaccaactcccccagggctagagcacatacacacctccaaa Alignment from GeneWise AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCC-CTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG gaagtgattccaacataaaatccactggcttaaacttttattattttaagAATTGGTGCTGGAGAAGTCCCAGCATCGCTCAGTTCTCAAACCACTTCGACCCATCCTAGCTGCTCGTCTACGCCATCGCCTTTCTACTGATGGTTCTCTTCGGTTGTCTAGCAGAGGGCTTTCTCCTCACCCAAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTTTGTCAGAAGCTTCTACAGCTCCTACGCGCATACTCACCAAGCGCACAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTAAAGAGCCAAGCAGgtaagttaccaccaactcccccagggctagagcacatacacacctccaaa #### Rin1_ID813_8 --> 2 - 1 Original Alignment gaGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATG-TCAGAGCTCCTGGAACCCACCCTGCTC---ACTGGAGAGg tgactctaaattcaagacctctaacacaacactccgacttttctttctaggaGAAAATACAGGTGCTGATCAGTTCCTCCCCCTGTTAAGTCTTATTTTGGCACAGTGTGACCTGCCAGACCTCTTATTGGAAGCTGAGTATATGCTCAGAGCTTCTTGAACCAACTCTACTCACTGCAGGTGAGggtgagtatcattcttatatagtatgacctggtacttgttataggtcctta Alignment from CESAR gaGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATG-TCAGAGCTCCTGGAACCCACCCTGCTCACT---GGAGAGg tgactctaaattcaagacctctaacacaacactccgacttttctttctaggaGAAAATACAGGTGCTGATCAGTTCCTCCCCCTGTTAAGTCTTATTTTGGCACAGTGTGACCTGCCAGACCTCTTATTGGAAGCTGAGTATATGCTCAGAGCTTCTTGAACCAACTCTACTCACTGCAGGTGAGggtgagtatcattcttatatagtatgacctggtacttgttataggtcctta Alignment from Spaln_aa2Genome GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATG-TCAGAGCTCCTGGAACCCACCCTGCTCACT---GGAGAGG tgactctaaattcaagacctctaacacaacactccgacttttctttctagGAGAAAATACAGGTGCTGATCAGTTCCTCCCCCTGTTAAGTCTTATTTTGGCACAGTGTGACCTGCCAGACCTCTTATTGGAAGCTGAGTATATGcTCAGAGCTTCTTGAACCAACTCTACTCACTGCAGGTGAGGgtgagtatcattcttatatagtatgacctggtacttgttataggtcctta Alignment from Spaln_nt2Genome GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATG-TCAGAGCTCCTGGAACCCACCCTGCTCACTGGAG---AGG tgactctaaattcaagacctctaacacaacactccgacttttctttctagGAGAAAATACAGGTGCTGATCAGTTCCTCCCCCTGTTAAGTCTTATTTTGGCACAGTGTGACCTGCCAGACCTCTTATTGGAAGCTGAGTATATGCTCAGAGCTTCTTGAACCAACTCTACTCACTGCAGGTGAGGgtgagtatcattcttatatagtatgacctggtacttgttataggtcctta Alignment from Pairagon GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATG-TCAGAGCTCCTGGAACCCACCCTGCTCACTGGA---GAGG tgactctaaattcaagacctctaacacaacactccgacttttctttctagGAGAAAATACAGGTGCTGATCAGTTCCTCCCCCTGTTAAGTCTTATTTTGGCACAGTGTGACCTGCCAGACCTCTTATTGGAAGCTGAGTATATGCTCAGAGCTTCTTGAACCAACTCTACTCACTGCAGGTGAGGgtgagtatcattcttatatagtatgacctggtacttgttataggtcctta Alignment from Exonerate_protein2genome GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATG-TCAGAGCTCCTGGAACCCACCCTGCTCACT---GGAGAGG tgactctaaattcaagacctctaacacaacactccgacttttctttctagGAGAAAATACAGGTGCTGATCAGTTCCTCCCCCTGTTAAGTCTTATTTTGGCACAGTGTGACCTGCCAGACCTCTTATTGGAAGCTGAGTATATGCTCAGAGCTTCTTGAACCAACTCTACTCACTGCAGGTGAGGgtgagtatcattcttatatagtatgacctggtacttgttataggtcctta Alignment from Exonerate_coding2genome GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATG-TCAGAGCTCCTGGAACCCACCCTGCTCACT---GGAGAGG tgactctaaattcaagacctctaacacaacactccgacttttctttctagGAGAAAATACAGGTGCTGATCAGTTCCTCCCCCTGTTAAGTCTTATTTTGGCACAGTGTGACCTGCCAGACCTCTTATTGGAAGCTGAGTATATGCTCAGAGCTTCTTGAACCAACTCTACTCACTGCAGGTGAGGgtgagtatcattcttatatagtatgacctggtacttgttataggtcctta Alignment from GeneWise GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATG-TCAGAGCTCCTGGAACCCACCCTGCTCACT---GGAGAGG tgactctaaattcaagacctctaacacaacactccgacttttctttctagGAGAAAATACAGGTGCTGATCAGTTCCTCCCCCTGTTAAGTCTTATTTTGGCACAGTGTGACCTGCCAGACCTCTTATTGGAAGCTGAGTATATGCTCAGAGCTTCTTGAACCAACTCTACTCACTGCAGGTGAGGgtgagtatcattcttatatagtatgacctggtacttgttataggtcctta #### Rpp30_ID7088_8 --> 0 - 0 Original Alignment AATGTAATTCTGTCC-AGTGCTGCAGAAAGG cagtatgaaactgctcattggtttctcttcatgaccctatcccttggcagAATGTTATTCTGTCACAGTACAGCAGCAAGAgtatgcttagactggcagtggttaagacacttaacataggcaactctctt Alignment from CESAR AATGTAATTCTGTCC-AGTGCTGCAGAAAGG cagtatgaaactgctcattggtttctcttcatgaccctatcccttggcagAATGTTATTCTGTCACAGTACAGCAGCAAGAgtatgcttagactggcagtggttaagacacttaacataggcaactctctt Alignment from Spaln_aa2Genome AATGTAATTCTGTCCAGTGCTGCAG cagtatgaaactgctcattggtttctcttcatgaccctatcccttggcagAATGTTATTCTGTCACAGTACAGCAgcaagagtatgcttagactggcagtggttaagacacttaacataggcaactctctt Alignment from Spaln_nt2Genome AATGTAATTCTGTC-CAGTGCTGCAGAAAGG cagtatgaaactgctcattggtttctcttcatgaccctatcccttggcagAATGTTATTCTGTCACAGTACAGCAGCAAGAgtatgcttagactggcagtggttaagacacttaacataggcaactctctt Alignment from Pairagon AATGTAATTCTGTC-CAGTGCTGCAGAAAGG cagtatgaaactgctcattggtttctcttcatgaccctatcccttggcagAATGTTATTCTGTCACAGTACAGCAGCAAGAgtatgcttagactggcagtggttaagacacttaacataggcaactctctt Alignment from Exonerate_protein2genome cagtatgaaactgctcattggtttctcttcatgaccctatcccttggcagaatgttattctgtcacagtacagcagcaagagtatgcttagactggcagtggttaagacacttaacataggcaactctctt Alignment from Exonerate_coding2genome cagtatgaaactgctcattggtttctcttcatgaccctatcccttggcagaatgttattctgtcacagtacagcagcaagagtatgcttagactggcagtggttaagacacttaacataggcaactctctt Alignment from GeneWise cagtatgaaactgctcattggtttctcttcatgaccctatcccttggcagaatgttattctgtcacagtacagcagcaagagtatgcttagactggcagtggttaagacacttaacataggcaactctctt #### Rps6kb2_ID369_13 --> 0 - 0 Original Alignment CAATCAGAAGAGGATGTGAGCCAGTTTGATGCA-CGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG tattggggtcagcagtatgctagatcagtttactatctggcctcctctagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACCGCTTCATGCGACAAACTCCAGTTAGTACCCCAGATGACACACCACTAACTGAGTGCGCCAACCAAGCCGTCTTAgtgagatgctgggttacgagaaaagacggggtcgtgccacctggctttac Alignment from CESAR CAATCAGAAGAGGATGTGAGCCAGTTTGATGCA-CGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG tattggggtcagcagtatgctagatcagtttactatctggcctcctctagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACCGCTTCATGCGACAAACTCCAGTTAGTACCCCAGATGACACACCACTAACTGAGTGCGCCAACCAAGCCGTCTTAgtgagatgctgggttacgagaaaagacggggtcgtgccacctggctttac Alignment from Spaln_aa2Genome CAATCAGAAGAGGATGTGAGCCAGTTTGATGCA-CGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG tattggggtcagcagtatgctagatcagtttactatctggcctcctctagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCAcCGCTTCATGCGACAAACTCCAGTTAGTACCCCAGATGACACACCACTAACTGAGTGCGCCAACCAAGCCGTCTTAgtgagatgctgggttacgagaaaagacggggtcgtgccacctggctttac Alignment from Spaln_nt2Genome CAATCAGAAGAGGATGTGAGCCAGTTTGATGCAC-GATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG tattggggtcagcagtatgctagatcagtttactatctggcctcctctagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACCGCTTCATGCGACAAACTCCAGTTAGTACCCCAGATGACACACCACTAACTGAGTGCGCCAACCAAGCCGTCTTAgtgagatgctgggttacgagaaaagacggggtcgtgccacctggctttac Alignment from Pairagon CAATCAGAAGAGGATGTGAGCCAGTTTGATGCA-CGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG tattggggtcagcagtatgctagatcagtttactatctggcctcctctagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACCGCTTCATGCGACAAACTCCAGTTAGTACCCCAGATGACACACCACTAACTGAGTGCGCCAACCAAGCCGTCTTAgtgagatgctgggttacgagaaaagacggggtcgtgccacctggctttac Alignment from Exonerate_protein2genome CAATCAGAAGAGGATGTGAGCCAGTTTGATGCA-CGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG tattggggtcagcagtatgctagatcagtttactatctggcctcctctagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACCGCTTCATGCGACAAACTCCAGTTAGTACCCCAGATGACACACCACTAACTGAGTGCGCCAACCAAGCCGTCTTAgtgagatgctgggttacgagaaaagacggggtcgtgccacctggctttac Alignment from Exonerate_coding2genome CAATCAGAAGAGGATGTGAGCCAGTTTGATGCA-CGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG tattggggtcagcagtatgctagatcagtttactatctggcctcctctagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACCGCTTCATGCGACAAACTCCAGTTAGTACCCCAGATGACACACCACTAACTGAGTGCGCCAACCAAGCCGTCTTAgtgagatgctgggttacgagaaaagacggggtcgtgccacctggctttac Alignment from GeneWise CAATCAGAAGAGGATGTGAGCCAGTTTGAT-GCACGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG tattggggtcagcagtatgctagatcagtttactatctggcctcctctagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACCGCTTCATGCGACAAACTCCAGTTAGTACCCCAGATGACACACCACTAACTGAGTGCGCCAACCAAGCCGTCTTAgtgagatgctgggttacgagaaaagacggggtcgtgccacctggctttac #### Rps6kb2_ID372_10 --> 0 - 0 Original Alignment CCGCCCTTCACTGCAGAGAACCGGAAGAAA-ACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG agcgcaactgcattgagctcttccttgctcgtttctcaattctgtgtcagCCACCTTTCACTGCTGAGAACCGGAAGAAACCCAACTGATAATATAATTAAAAGTAAGTTA---CTCCCACCAGATCTTATGCCTGATGCTCGGGACCTTGCTAGAAAGgtgagctccattctcagtcaaaaaattacacacacctccttcagatttcc Alignment from CESAR CCGCCCTTCACTGCAGAGAACCGGAAGAAA-ACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG agcgcaactgcattgagctcttccttgctcgtttctcaattctgtgtcagCCACCTTTCACTGCTGAGAACCGGAAGAAACCCAACTGATAATATAATTAAAAGTAAGTTA---CTCCCACCAGATCTTATGCCTGATGCTCGGGACCTTGCTAGAAAGgtgagctccattctcagtcaaaaaattacacacacctccttcagatttcc Alignment from Spaln_aa2Genome CCGCCCTTCACTGCAGAGAACCGGAAGAAA-ACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG agcgcaactgcattgagctcttccttgctcgtttctcaattctgtgtcagCCACCTTTCACTGCTGAGAACCGGAAGAAAcCCAACTGATAATATAATTAAAAGTAAGTTA---CTCCCACCAGATCTTATGCCTGATGCTCGGGACCTTGCTAGAAAGgtgagctccattctcagtcaaaaaattacacacacctccttcagatttcc Alignment from Spaln_nt2Genome CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATG-GATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG agcgcaactgcattgagctcttccttgctcgtttctcaattctgtgtcagCCACCTTTCACTGCTGAGAACCGGAAGAAACCCAACTGATAATATAATTAAAAGTAA---GTTACTCCCACCAGATCTTATGCCTGATGCTCGGGACCTTGCTAGAAAGgtgagctccattctcagtcaaaaaattacacacacctccttcagatttcc Alignment from Pairagon CCGCCCTTCACTGCAGAGAACCGGAAGAAAAC-------------------------------------------TATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG agcgcaactgcattgagctcttccttgctcgtttctcaattctgtgtcagCCACCTTTCACTGCTGAGAACCGGAAGAAACCCAACTGATAATATAATTAAAAGTAAGTTACTCCCACCAGATCTTATG---------------------------------------------CCTGATGCTCGGGACCTTGCTAGAAAGgtgagctccattctcagtcaaaaaattacacacacctccttcagatttcc Alignment from Exonerate_protein2genome CCGCCCTTCACTGCAGAGAACCGGAAGAAA-ACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG agcgcaactgcattgagctcttccttgctcgtttctcaattctgtgtcagCCACCTTTCACTGCTGAGAACCGGAAGAAACCCAACTGATAATATAATTAAAAGTAAGTTA---CTCCCACCAGATCTTATGCCTGATGCTCGGGACCTTGCTAGAAAGgtgagctccattctcagtcaaaaaattacacacacctccttcagatttcc Alignment from Exonerate_coding2genome CCGCCCTTCACTGCAGAGAACCGGAAGAAA-ACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG agcgcaactgcattgagctcttccttgctcgtttctcaattctgtgtcagCCACCTTTCACTGCTGAGAACCGGAAGAAACCCAACTGATAATATAATTAAAAGTAAGTTA---CTCCCACCAGATCTTATGCCTGATGCTCGGGACCTTGCTAGAAAGgtgagctccattctcagtcaaaaaattacacacacctccttcagatttcc Alignment from GeneWise CCGCCCTTCACTGCAGAGAACCGGAAGAAA-ACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG agcgcaactgcattgagctcttccttgctcgtttctcaattctgtgtcagCCACCTTTCACTGCTGAGAACCGGAAGAAACCCAACTGATAATATAATTAAAAGTAAGTTA---CTCCCACCAGATCTTATGCCTGATGCTCGGGACCTTGCTAGAAAGgtgagctccattctcagtcaaaaaattacacacacctccttcagatttcc #### Rps6kb2_ID375_7 --> 1 - 1 Original Alignment cTTCTACCTGGCAGAGATCACACTAGCCCTG-GGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGg gtctgcaggatacctactgtagcgggtatcacagagccatttttccacagtTTCTACCTTGCAGAGATCACTTTGGCATTACGGCCATCTCCATTTCCATAGCATCATTTACCGTGATCACAAGCCAGGAAAA---ATGCTCACCAGTCAGggtggggttcacatcactgtgtggtgagcttaaaacttagttttgccagtg Alignment from CESAR cTTCTACCTGGCAGAGATCACACTAGCCCTG-GGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGg gtctgcaggatacctactgtagcgggtatcacagagccatttttccacagtTTCTACCTTGCAGAGATCACTTTGGCATTACGGCCATCTCCATTTCCATAGCATCATTTACCGTGATCACAAGCCAGGAAAA---ATGCTCACCAGTCAGggtggggttcacatcactgtgtggtgagcttaaaacttagttttgccagtg Alignment from Spaln_aa2Genome CTTCTACCTGGCAGAGATCACACTAGCCCTG-GGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGG gtctgcaggatacctactgtagcgggtatcacagagccatttttccacagTTTCTACCTTGCAGAGATCACTTTGGCATTAcGGCCATCTCCATTTCCATAGCATCATTTACCGTGATCACAAGCCAGGAAAA---ATGCTCACCAGTCAGGgtggggttcacatcactgtgtggtgagcttaaaacttagttttgccagtg Alignment from Spaln_nt2Genome CTTCTACCTGGCAGAGATCACACTAGCCCTG-GGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGG gtctgcaggatacctactgtagcgggtatcacagagccatttttccacagTTTCTACCTTGCAGAGATCACTTTGGCATTACGGCCATCTCCATTTCCATAGCATCATTTACCGTGATCACAAGCCAG-GAAAA--ATGCTCACCAGTCAGGgtggggttcacatcactgtgtggtgagcttaaaacttagttttgccagtg Alignment from Pairagon CTTCTACCTGGCAGAGATCAC---------ACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGG gtctgcaggatacctactgtagcgggtatcacagagccatttttccacagTTTCTACCTTGCAGAGATCACTTTGGCATTAC--------GGCCATCTCCATTTCCATAGCATCATTTACCGTGATCACAAGCCAGGAAA---AATGCTCACCAGTCAGGgtggggttcacatcactgtgtggtgagcttaaaacttagttttgccagtg Alignment from Exonerate_protein2genome CTTCTACCTGGCAGAGATCACACTAGCCCTG-GGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGG gtctgcaggatacctactgtagcgggtatcacagagccatttttccacagTTTCTACCTTGCAGAGATCACTTTGGCATTACGGCCATCTCCATTTCCATAGCATCATTTACCGTGATCACAAGCCAGGAAAA---ATGCTCACCAGTCAGGgtggggttcacatcactgtgtggtgagcttaaaacttagttttgccagtg Alignment from Exonerate_coding2genome CTTCTACCTGGCAGAGATCACACTAGCCCTG-GGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGG gtctgcaggatacctactgtagcgggtatcacagagccatttttccacagTTTCTACCTTGCAGAGATCACTTTGGCATTACGGCCATCTCCATTTCCATAGCATCATTTACCGTGATCACAAGCCAGGAAAA---ATGCTCACCAGTCAGGgtggggttcacatcactgtgtggtgagcttaaaacttagttttgccagtg Alignment from GeneWise CTTCTACCTGGCAGAGATCACACTAGCC-CTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGG gtctgcaggatacctactgtagcgggtatcacagagccatttttccacagTTTCTACCTTGCAGAGATCACTTTGGCATTACGGCCATCTCCATTTCCATAGCATCATTTACCGTGATCACAAGCCAGGAAAA---ATGCTCACCAGTCAGGgtggggttcacatcactgtgtggtgagcttaaaacttagttttgccagtg #### Rrp12_ID8295_28 --> 1 - 1 Original Alignment cATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTG-GCCCATCGAGTCCTTg gtaagttagggcagggttgcgtcctattctcacacgaccctcggccacagcATTGAGGAAATTTCAGCTGACTCAAAGGATGAGTTTGAGGAAGAACAAAGAGGCCGAGGCAAAGAGCAA------TTGGTC------AGGAGCCGATCATGG---AAGGATGGAGGTGGT---GCACCTCTCAATTTC------CCAAAAGTACGCACATCGTATCCAGggtgggaaggggtaaggatgccctactttgctcggggggtcaagggttagg Alignment from CESAR cATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTG-GCCCATCGAGTCCTTg gtaagttagggcagggttgcgtcctattctcacacgaccctcggccacagcATTGAGGAAATTTCAGCTGACTCAAAGGATGAGTTTGAGGAAGAACAAAGAGGCCGAGGCAAAGAGCAA------TTGGTC------AGGAGCCGATCATGG---AAGGATGGAGGTGGT---GCACCTCTCAATTTC------CCAAAAGTACGCACATCGTATCCAGggtgggaaggggtaaggatgccctactttgctcggggggtcaagggttagg Alignment from Spaln_aa2Genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAG gtaagttagggcagggttgcgtcctattctcacacgaccctcggccacagCATTGAGGAAATTTCAGCTGACTCAAAGGATGAGTTTGAGGAAGAACAAAGAGGCCGAGGCAAAGAGCAA------TTGGTC------AGGAGCCGATCATGG---AAGGATGGAGGTGGT---GCACCTCTCAATTTC------CCAAAAgtacgcacatcgtatccagggtgggaaggggtaaggatgccctactttgctcggggggtcaagggttagg Alignment from Spaln_nt2Genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG gtaagttagggcagggttgcgtcctattctcacacgaccctcggccacagCATTGAGGAAATTTCAGCTGACTCAAAGGATGAGTTTGAGGAAGAACAAAGAGGCCGAGGCAAAGAGC------AATTGG------TCAGGAGCCGATCATG---GAAGGATGGAGGTGG---TGCACCTCTCAATTTCC-----CAAAAGTACGCACATCGTATCCAGGgtgggaaggggtaaggatgccctactttgctcggggggtcaagggttagg Alignment from Pairagon CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG gtaagttagggcagggttgcgtcctattctcacacgaccctcggccacagCATTGAGGAAATTTCAGCTGACTCAAAGGATGAGTTTGAGGAAGAACAAAGAGGCCGAGGCAAAGAGCAA-------------------------------------------------------------------------------------------------TTGgtcaggagccgatcatggaaggatggaggtggtgcacctctcaatttcccaaaagtacgcacatcgtatccagggtgggaaggggtaaggatgccctactttgctcggggggtcaagggttagg Alignment from Exonerate_protein2genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTGCCACC gtaagttagggcagggttgcgtcctattctcacacgaccctcggccacagCATTGAGGAAATTTCAGCTGACTCAAAGGATGAGTTTGAGGAAGAACAAAGAGGCCGAGGCAAAGAGCAA------------TTGGTCAGGAGCCGATCATGG---AAGGATGGAGGTGGT---GCACCTCTCAATTTCCCAAAAGTACGCACATCGTATCCAGGGTGGGAAGGGgtaaggatgccctactttgctcggggggtcaagggttagg Alignment from Exonerate_coding2genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTGCCACC gtaagttagggcagggttgcgtcctattctcacacgaccctcggccacagCATTGAGGAAATTTCAGCTGACTCAAAGGATGAGTTTGAGGAAGAACAAAGAGGCCGAGGCAAAGAGCAA------------TTGGTCAGGAGCCGATCATGG---AAGGATGGAGGTGGT---GCACCTCTCAATTTCCCAAAAGTACGCACATCGTATCCAGGGTGGGAAGGGgtaaggatgccctactttgctcggggggtcaagggttagg Alignment from GeneWise CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAG gtaagttagggcagggttgcgtcctattctcacacgaccctcggccacagCATTGAGGAAATTTCAGCTGACTCAAAGGATGAGTTTGAGGAAGAACAAAGAGGCCGAGGCAAAGAGCAA------------TTGGTCAGGAGCCGATCATGG---AAGGATGGAGGTGGT---GCACCTCTCAATTTC------CCAAAAgtacgcacatcgtatccagggtgggaaggggtaaggatgccctactttgctcggggggtcaagggttagg #### Rrp12_ID8297_26 --> 0 - 2 Original Alignment ATGGAAGCCATTGGGAAGTTGTCAGATGACATG-CGACGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTTgg taatgatggatgacctaggtggataatgaaaaacatctgcttttttccagATGGAAGCAATAGGGAAACTGTCAGATGACATGCCAACGGCACTTCCGGATGAAACTCCAGAATCTGTTCATCAAGTTCACACGCAAGTTTgggtgggtcaaaagtagagggagaatggaacatggtgtatttgcagggtcct Alignment from CESAR ATGGAAGCCATTGGGAAGTTGTCAGATGACATG-CGACGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTTgg taatgatggatgacctaggtggataatgaaaaacatctgcttttttccagATGGAAGCAATAGGGAAACTGTCAGATGACATGCCAACGGCACTTCCGGATGAAACTCCAGAATCTGTTCATCAAGTTCACACGCAAGTTTgggtgggtcaaaagtagagggagaatggaacatggtgtatttgcagggtcct Alignment from Spaln_aa2Genome ATGGAAGCCATTGGGAAGTTGTCAGATGACATG-CGACGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTTGG taatgatggatgacctaggtggataatgaaaaacatctgcttttttccagATGGAAGCAATAGGGAAACTGTCAGATGACATGcCAACGGCACTTCCGGATGAAACTCCAGAATCTGTTCATCAAGTTCACACGCAAGTTTGGgtgggtcaaaagtagagggagaatggaacatggtgtatttgcagggtcct Alignment from Spaln_nt2Genome ATGGAAGCCATTGGGAAGTTGTCAGATGACATGCGA-CGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTTGG taatgatggatgacctaggtggataatgaaaaacatctgcttttttccagATGGAAGCAATAGGGAAACTGTCAGATGACATGCCAACGGCACTTCCGGATGAAACTCCAGAATCTGTTCATCAAGTTCACACGCAAGTTTGGgtgggtcaaaagtagagggagaatggaacatggtgtatttgcagggtcct Alignment from Pairagon ATGGAAGCCATTGGGAAGTTGTCAGATGACATG-CGACGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTTGG taatgatggatgacctaggtggataatgaaaaacatctgcttttttccagATGGAAGCAATAGGGAAACTGTCAGATGACATGCCAACGGCACTTCCGGATGAAACTCCAGAATCTGTTCATCAAGTTCACACGCAAGTTTGGgtgggtcaaaagtagagggagaatggaacatggtgtatttgcagggtcct Alignment from Exonerate_protein2genome ATGGAAGCCATTGGGAAGTTGTCAGATGACATG-CGACGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTTGG taatgatggatgacctaggtggataatgaaaaacatctgcttttttccagATGGAAGCAATAGGGAAACTGTCAGATGACATGCCAACGGCACTTCCGGATGAAACTCCAGAATCTGTTCATCAAGTTCACACGCAAGTTTGGgtgggtcaaaagtagagggagaatggaacatggtgtatttgcagggtcct Alignment from Exonerate_coding2genome ATGGAAGCCATTGGGAAGTTGTCAGATGACATG-CGACGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTTGG taatgatggatgacctaggtggataatgaaaaacatctgcttttttccagATGGAAGCAATAGGGAAACTGTCAGATGACATGCCAACGGCACTTCCGGATGAAACTCCAGAATCTGTTCATCAAGTTCACACGCAAGTTTGGgtgggtcaaaagtagagggagaatggaacatggtgtatttgcagggtcct Alignment from GeneWise ATGGAAGCCATTGGGAAGTTGTCAGATGACATG-CGACGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTTGG taatgatggatgacctaggtggataatgaaaaacatctgcttttttccagATGGAAGCAATAGGGAAACTGTCAGATGACATGCCAACGGCACTTCCGGATGAAACTCCAGAATCTGTTCATCAAGTTCACACGCAAGTTTGGgtgggtcaaaagtagagggagaatggaacatggtgtatttgcagggtcct #### Rrp12_ID8302_21 --> 0 - 0 Original Alignment AGCAAGGTCCACGGTGTACAGAAGAAGGCCTACCGCGTGCTGGAGGAGGTG-TGTGCCAGTTCTCAGGGCCCGGCAGCCCGCTTCGTGCAGAGCCACCTGGATGATCTGAAGAAGACTCTGCTGGACTCGCTTCGGACCACATCCTCGCCTGCTAAAAGG gattaacacttgagcctgatattacatgacagctttctgtcttcctatagAGTAAAGTGCATGGAATACAGAAAAAGGCTTTTCGGGTTCTGGAAGAAGTTCTGTGACAGCTCTCAGGGCCCAGCAGCTCACTTATTGCAAAGCCATCGTGATGATCTGAAGAAAACCCTCCTGGACTCACTTCGGACAACATCATCCCCAGCAAAAAGGgtaagtgctctaacttgatccaccaagtacgggtgaggttgtgtgcaagc Alignment from CESAR AGCAAGGTCCACGGTGTACAGAAGAAGGCCTACCGCGTGCTGGAGGAGGTG-TGTGCCAGTTCTCAGGGCCCGGCAGCCCGCTTCGTGCAGAGCCACCTGGATGATCTGAAGAAGACTCTGCTGGACTCGCTTCGGACCACATCCTCGCCTGCTAAAAGG gattaacacttgagcctgatattacatgacagctttctgtcttcctatagAGTAAAGTGCATGGAATACAGAAAAAGGCTTTTCGGGTTCTGGAAGAAGTTCTGTGACAGCTCTCAGGGCCCAGCAGCTCACTTATTGCAAAGCCATCGTGATGATCTGAAGAAAACCCTCCTGGACTCACTTCGGACAACATCATCCCCAGCAAAAAGGgtaagtgctctaacttgatccaccaagtacgggtgaggttgtgtgcaagc Alignment from Spaln_aa2Genome AGCAAGGTCCACGGTGTACAGAAGAAGGCCTACCGCGTGCTGGAGGAGGTG-TGTGCCAGTTCTCAGGGCCCGGCAGCCCGCTTCGTGCAGAGCCACCTGGATGATCTGAAGAAGACTCTGCTGGACTCGCTTCGGACCACATCCTCGCCTGCTAAAAGG gattaacacttgagcctgatattacatgacagctttctgtcttcctatagAGTAAAGTGCATGGAATACAGAAAAAGGCTTTTCGGGTTCTGGAAGAAGTTcTGTGACAGCTCTCAGGGCCCAGCAGCTCACTTATTGCAAAGCCATCGTGATGATCTGAAGAAAACCCTCCTGGACTCACTTCGGACAACATCATCCCCAGCAAAAAGGgtaagtgctctaacttgatccaccaagtacgggtgaggttgtgtgcaagc Alignment from Spaln_nt2Genome AGCAAGGTCCACGGTGTACAGAAGAAGGCCTACCGCGTGCTGGAGGAGGTG-TGTGCCAGTTCTCAGGGCCCGGCAGCCCGCTTCGTGCAGAGCCACCTGGATGATCTGAAGAAGACTCTGCTGGACTCGCTTCGGACCACATCCTCGCCTGCTAAAAGG gattaacacttgagcctgatattacatgacagctttctgtcttcctatagAGTAAAGTGCATGGAATACAGAAAAAGGCTTTTCGGGTTCTGGAAGAAGTTCTGTGACAGCTCTCAGGGCCCAGCAGCTCACTTATTGCAAAGCCATCGTGATGATCTGAAGAAAACCCTCCTGGACTCACTTCGGACAACATCATCCCCAGCAAAAAGGgtaagtgctctaacttgatccaccaagtacgggtgaggttgtgtgcaagc Alignment from Pairagon AGCAAGGTCCACGGTGTACAGAAGAAGGCCTACCGCGTGCTGGAGGAGG-TGTGTGCCAGTTCTCAGGGCCCGGCAGCCCGCTTCGTGCAGAGCCACCTGGATGATCTGAAGAAGACTCTGCTGGACTCGCTTCGGACCACATCCTCGCCTGCTAAAAGG gattaacacttgagcctgatattacatgacagctttctgtcttcctatagAGTAAAGTGCATGGAATACAGAAAAAGGCTTTTCGGGTTCTGGAAGAAGTTCTGTGACAGCTCTCAGGGCCCAGCAGCTCACTTATTGCAAAGCCATCGTGATGATCTGAAGAAAACCCTCCTGGACTCACTTCGGACAACATCATCCCCAGCAAAAAGGgtaagtgctctaacttgatccaccaagtacgggtgaggttgtgtgcaagc Alignment from Exonerate_protein2genome AGCAAGGTCCACGGTGTACAGAAGAAGGCCTACCGCGTGCTGGAGGAGGTG-TGTGCCAGTTCTCAGGGCCCGGCAGCCCGCTTCGTGCAGAGCCACCTGGATGATCTGAAGAAGACTCTGCTGGACTCGCTTCGGACCACATCCTCGCCTGCTAAAAGG gattaacacttgagcctgatattacatgacagctttctgtcttcctatagAGTAAAGTGCATGGAATACAGAAAAAGGCTTTTCGGGTTCTGGAAGAAGTTCTGTGACAGCTCTCAGGGCCCAGCAGCTCACTTATTGCAAAGCCATCGTGATGATCTGAAGAAAACCCTCCTGGACTCACTTCGGACAACATCATCCCCAGCAAAAAGGgtaagtgctctaacttgatccaccaagtacgggtgaggttgtgtgcaagc Alignment from Exonerate_coding2genome ATGAAGCTGCCATCAGTAAGCTATACTCTACCATCCGGCCCTACCTTGAGAGCAAGGTCCACGGTGTACAGAAGAAGGCCTACCGCGTGCTGGAGGAGGTG-TGTGCCAGTTCTCAGGGCCCGGCAGCCCGCTTCGTGCAGAGCCACCTGGATGATCTGAAGAAGACTCTGCTGGACTCGCTTCGGACCACATCCTCGCCTGCTAAAAGG GATTAACACTTGAGCCTGATATTACATGACAGCTTTCTGTCTTCCTATAGAGTAAAGTGCATGGAATACAGAAAAAGGCTTTTCGGGTTCTGGAAGAAGTTCTGTGACAGCTCTCAGGGCCCAGCAGCTCACTTATTGCAAAGCCATCGTGATGATCTGAAGAAAACCCTCCTGGACTCACTTCGGACAACATCATCCCCAGCAAAAAGGgtaagtgctctaacttgatccaccaagtacgggtgaggttgtgtgcaagc Alignment from GeneWise AGCAAGGTCCACGGTGTACAGAAGAAGGCCTACCGCGTGCTGGAGGAG-GTGTGTGCCAGTTCTCAGGGCCCGGCAGCCCGCTTCGTGCAGAGCCACCTGGATGATCTGAAGAAGACTCTGCTGGACTCGCTTCGGACCACATCCTCGCCTGCTAAAAGG gattaacacttgagcctgatattacatgacagctttctgtcttcctatagAGTAAAGTGCATGGAATACAGAAAAAGGCTTTTCGGGTTCTGGAAGAAGTTCTGTGACAGCTCTCAGGGCCCAGCAGCTCACTTATTGCAAAGCCATCGTGATGATCTGAAGAAAACCCTCCTGGACTCACTTCGGACAACATCATCCCCAGCAAAAAGGgtaagtgctctaacttgatccaccaagtacgggtgaggttgtgtgcaagc #### Rrp12_ID8308_15 --> 1 - 1 Original Alignment gGAGACTCTGGATTTCCCA-CGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAg aaccaaaacatcgactgagctaactacaggatgccccttcccacctgcaggGAAAATTTGGACTTT---CCAGAGCTGGTTGTTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGCTTCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAggtaagcaggtcttatctttataagatacaggtcacagaaggaatatcagc Alignment from CESAR gGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAg aaccaaaacatcgactgagctaactacaggatgccccttcccacctgcaggGAAAATTTGGACTTTC--CAGAGCTGGTTGTTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGCTTCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAggtaagcaggtcttatctttataagatacaggtcacagaaggaatatcagc Alignment from Spaln_aa2Genome GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG aaccaaaacatcgactgagctaactacaggatgccccttcccacctgcagGGAAAATTTGGACTTTCCAG--AGCTGGTTGTTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGCTTCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtaagcaggtcttatctttataagatacaggtcacagaaggaatatcagc Alignment from Spaln_nt2Genome GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG aaccaaaacatcgactgagctaactacaggatgccccttcccacctgcagGGAAAATTTGGACTTTCCA--GAGCTGGTTGTTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGCTTCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtaagcaggtcttatctttataagatacaggtcacagaaggaatatcagc Alignment from Pairagon GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG aaccaaaacatcgactgagctaactacaggatgccccttcccacctgcagGGAAAATTTGGACTTTCCA--GAGCTGGTTGTTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGCTTCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtaagcaggtcttatctttataagatacaggtcacagaaggaatatcagc Alignment from Exonerate_protein2genome GGAGACTCTGGATTTCCCA-CGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG aaccaaaacatcgactgagctaactacaggatgccccttcccacctgcagGGAAAATTTGGACTTTCCAG---AGCTGGTTGTTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGCTTCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtaagcaggtcttatctttataagatacaggtcacagaaggaatatcagc Alignment from Exonerate_coding2genome GGAGACTCTGGATTTCCCA-CGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG aaccaaaacatcgactgagctaactacaggatgccccttcccacctgcagGGAAAATTTGGACTTTCCAG---AGCTGGTTGTTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGCTTCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtaagcaggtcttatctttataagatacaggtcacagaaggaatatcagc Alignment from GeneWise GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG aaccaaaacatcgactgagctaactacaggatgccccttcccacctgcagGGAAAATTTGGACTTTCCAG--AGCTGGTTGTTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGCTTCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtaagcaggtcttatctttataagatacaggtcacagaaggaatatcagc #### Sart1_ID961_14 --> 0 - 0 Original Alignment GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAG-AAGCAGCATCAGGAT tgtgagatacaggtagaatctgtgcattatgctttgctttcttttcacagGACTTTGAGAGGGATGAGGAGCACTCAGCTAACGGAGGATCTGAATCAGATGGGGAAGAGAACATTGGTTGGAGCACAATCAACCTCGAC------CGAACAGCCTCAGGATgtaagtcctcatgtctataggtggagggcagtgggcatcccccataggtt Alignment from CESAR GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tgtgagatacaggtagaatctgtgcattatgctttgctttcttttcacagGACTTTGAGAGGGATGAGGAGCACTCAGCTAACGGAGGATCTGAATCAGATGGGGAAGAGAACATTGGTTGGAGCACAATCAACCTCGAC--CGAA---CAGCCTCAGGATgtaagtcctcatgtctataggtggagggcagtgggcatcccccataggtt Alignment from Spaln_aa2Genome GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tgtgagatacaggtagaatctgtgcattatgctttgctttcttttcacagGACTTTGAGAGGGATGAGGAGCACTCAGCTAACGGAGGATCTGAATCAGATGGGGAAGAGAACATTGGTTGGAGCACAATCAACCTCGACC-----GAACAGCCTCAGGATgtaagtcctcatgtctataggtggagggcagtgggcatcccccataggtt Alignment from Spaln_nt2Genome GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tgtgagatacaggtagaatctgtgcattatgctttgctttcttttcacagGACTTTGAGAGGGATGAGGAGCACTCAGCTAACGGAGGATCTGAATCAGATGGGGAAGAGAACATTGGTTGGAGCACAATCAACCTCGA----CCGAA-CAGCCTCAGGATgtaagtcctcatgtctataggtggagggcagtgggcatcccccataggtt Alignment from Pairagon GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tgtgagatacaggtagaatctgtgcattatgctttgctttcttttcacagGACTTTGAGAGGGATGAGGAGCACTCAGCTAACGGAGGATCTGAATCAGATGGGGAAGAGAACATTGGTTGGAGCACAATCAACCTCGAC-----CGAACAGCCTCAGGATgtaagtcctcatgtctataggtggagggcagtgggcatcccccataggtt Alignment from Exonerate_protein2genome GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATC tgtgagatacaggtagaatctgtgcattatgctttgctttcttttcacagGACTTTGAGAGGGATGAGGAGCACTCAGCTAACGGAGGATCTGAATCAGATGGGGAAGAGAACATTGGTTGGAGCACAATCAACCTCGACCGAACAGCCTCAGGATgtaagtcctcatgtctataggtggagggcagtgggcatcccccataggtt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tgtgagatacaggtagaatctgtgcattatgctttgctttcttttcacagGACTTTGAGAGGGATGAGGAGCACTCAGCTAACGGAGGATCTGAATCAGATGGGGAAGAGAACATTGGTTGGAGCACAATCAACCTCGACC--GAA---CAGCCTCAGGATgtaagtcctcatgtctataggtggagggcagtgggcatcccccataggtt #### Sart1_ID962_13 --> 0 - 0 Original Alignment GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGC-GGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG actcataccattccctactgcctataacctcccgatgctttgcgttacagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCATCGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAGGGGAACATCAGTTTTCAATGCCACATCGGAATTTTGCTGTATACTAGGGGAATCCCCCACATATGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtaggtcgattgattcttagatcaatcaattcttagctttcattgtaagt Alignment from CESAR GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGC-GGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG actcataccattccctactgcctataacctcccgatgctttgcgttacagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCATCGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAGGGGAACATCAGTTTTCAATGCCACATCGGAATTTTGCTGTATACTAGGGGAATCCCCCACATATGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtaggtcgattgattcttagatcaatcaattcttagctttcattgtaagt Alignment from Spaln_aa2Genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGC-GGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG actcataccattccctactgcctataacctcccgatgctttgcgttacagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCATcGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAGGGGAACATCAGTTTTCAATGCCACATCGGAATTTTGCTGTATACTAGGGGAATCCCCCACATATGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtaggtcgattgattcttagatcaatcaattcttagctttcattgtaagt Alignment from Spaln_nt2Genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCG-CGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG actcataccattccctactgcctataacctcccgatgctttgcgttacagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCATCGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAGGGGAACATCAGTTTTCAATGCCACATCGGAATTTTGCTGTATACTAGGGGAATCCCCCACATATGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtaggtcgattgattcttagatcaatcaattcttagctttcattgtaagt Alignment from Pairagon GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCG-CGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG actcataccattccctactgcctataacctcccgatgctttgcgttacagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCATCGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAGGGGAACATCAGTTTTCAATGCCACATCGGAATTTTGCTGTATACTAGGGGAATCCCCCACATATGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtaggtcgattgattcttagatcaatcaattcttagctttcattgtaagt Alignment from Exonerate_protein2genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGC-GGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG actcataccattccctactgcctataacctcccgatgctttgcgttacagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCATCGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAGGGGAACATCAGTTTTCAATGCCACATCGGAATTTTGCTGTATACTAGGGGAATCCCCCACATATGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtaggtcgattgattcttagatcaatcaattcttagctttcattgtaagt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAG-CGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG actcataccattccctactgcctataacctcccgatgctttgcgttacagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCATCGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAGGGGAACATCAGTTTTCAATGCCACATCGGAATTTTGCTGTATACTAGGGGAATCCCCCACATATGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtaggtcgattgattcttagatcaatcaattcttagctttcattgtaagt #### Sart1_ID963_12 --> 2 - 0 Original Alignment agGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAG-AAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG gggctaacacatgctagggtatcacaaatctgcccaatgtgtcttacaagaaGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAACAAGCAGCTAGAAAAGGGACGTCGGCTGCGGCAACTCCAGCAGTTACAGCAGCTCAGGGACAGTGGGGAGAAAgtagggcactaaattagttacaatgagaggactgtgcactgttgtaacaa Alignment from CESAR agGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAG-AAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG gggctaacacatgctagggtatcacaaatctgcccaatgtgtcttacaagaaGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAACAAGCAGCTAGAAAAGGGACGTCGGCTGCGGCAACTCCAGCAGTTACAGCAGCTCAGGGACAGTGGGGAGAAAgtagggcactaaattagttacaatgagaggactgtgcactgttgtaacaa Alignment from Spaln_aa2Genome AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAG-AAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG gggctaacacatgctagggtatcacaaatctgcccaatgtgtcttacaagAAGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAAcAAGCAGCTAGAAAAGGGACGTCGGCTGCGGCAACTCCAGCAGTTACAGCAGCTCAGGGACAGTGGGGAGAAAgtagggcactaaattagttacaatgagaggactgtgcactgttgtaacaa Alignment from Spaln_nt2Genome AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAG-AAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG gggctaacacatgctagggtatcacaaatctgcccaatgtgtcttacaagAAGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAACAAGCAGCTAGAAAAGGGACGTCGGCTGCGGCAACTCCAGCAGTTACAGCAGCTCAGGGACAGTGGGGAGAAAgtagggcactaaattagttacaatgagaggactgtgcactgttgtaacaa Alignment from Pairagon AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAG-AAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG gggctaacacatgctagggtatcacaaatctgcccaatgtgtcttacaagAAGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAACAAGCAGCTAGAAAAGGGACGTCGGCTGCGGCAACTCCAGCAGTTACAGCAGCTCAGGGACAGTGGGGAGAAAgtagggcactaaattagttacaatgagaggactgtgcactgttgtaacaa Alignment from Exonerate_protein2genome AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAG-AAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG gggctaacacatgctagggtatcacaaatctgcccaatgtgtcttacaagAAGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAACAAGCAGCTAGAAAAGGGACGTCGGCTGCGGCAACTCCAGCAGTTACAGCAGCTCAGGGACAGTGGGGAGAAAgtagggcactaaattagttacaatgagaggactgtgcactgttgtaacaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAG-AAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG gggctaacacatgctagggtatcacaaatctgcccaatgtgtcttacaagAAGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAACAAGCAGCTAGAAAAGGGACGTCGGCTGCGGCAACTCCAGCAGTTACAGCAGCTCAGGGACAGTGGGGAGAAAgtagggcactaaattagttacaatgagaggactgtgcactgttgtaacaa #### Sart1_ID966_9 --> 0 - 0 Original Alignment CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCC-GATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG tatgtctaatcagtctgtgagaacaagcttgtgtcccccgcttatcctagCGGAGACCTTGTTCAATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGGATGGCTCGATGGTCTAAGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCAGCCCAATCGCTAAGTTTAATGGGCCCCAGACTTAGTACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcagtgggttatggtcatcaatacagtcctgttcacaccccctag Alignment from CESAR CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCC-GATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG tgagcctaatcagtctgtgagaacaagcttgtgtcccccgcttatcctagCGGAGACCTTGTTCAATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGGATGGCTCGATGGTCTAAGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCAGCCCAATCGCTAAGTTTAATGGGCCCCAGACTTAGTACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcagtgggttatggtcatcaatacagtcctgttcacaccccctag Alignment from Spaln_aa2Genome CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCC-GATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG tatgtctaatcagtctgtgagaacaagcttgtgtcccccgcttatcctagCGGAGACCTTGTTCAATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGGATGGCTcGATGGTCTAAGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCAGCCCAATCGCTAAGTTTAATGGGCCCCAGACTTAGTACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcagtgggttatggtcatcaatacagtcctgttcacaccccctag Alignment from Spaln_nt2Genome CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGC-CGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG tatgtctaatcagtctgtgagaacaagcttgtgtcccccgcttatcctagCGGAGACCTTGTTCAATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGGATGGCTCGATGGTCTAAGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCAGCCCAATCGCTAAGTTTAATGGGCCCCAGACTTAGTACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcagtgggttatggtcatcaatacagtcctgttcacaccccctag Alignment from Pairagon CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGC-CGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG tatgtctaatcagtctgtgagaacaagcttgtgtcccccgcttatcctagCGGAGACCTTGTTCAATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGGATGGCTCGATGGTCTAAGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCAGCCCAATCGCTAAGTTTAATGGGCCCCAGACTTAGTACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcagtgggttatggtcatcaatacagtcctgttcacaccccctag Alignment from Exonerate_protein2genome CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCC-GATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG tatgtctaatcagtctgtgagaacaagcttgtgtcccccgcttatcctagCGGAGACCTTGTTCAATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGGATGGCTCGATGGTCTAAGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCAGCCCAATCGCTAAGTTTAATGGGCCCCAGACTTAGTACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcagtgggttatggtcatcaatacagtcctgttcacaccccctag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATG-GCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG tatgtctaatcagtctgtgagaacaagcttgtgtcccccgcttatcctagCGGAGACCTTGTTCAATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGGATGGCTCGATGGTCTAAGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCAGCCCAATCGCTAAGTTTAATGGGCCCCAGACTTAGTACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcagtgggttatggtcatcaatacagtcctgttcacaccccctag #### Sart1_ID967_8 --> 2 - 0 Original Alignment ggGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCG-GAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccagctaccctgtctcttaacttaaacaggtGTACTCCAGGATGGAGAAGATGTGCTGGTGAATGTGAATATGGTGGACAAAGAACGCGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCAGACTACCTAAGCTATGTTCGAGGATGAGGGTGTGGATGACCTAGCACAGgtgagcctaatcagtctgtgagaacaagcatgtccgactcctttccaaca Alignment from CESAR ggGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCG-GAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccagctaccctgtctcttaacttaaacaggtGTACTCCAGGATGGAGAAGATGTGCTGGTGAATGTGAATATGGTGGACAAAGAACGCGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCAGACTACCTAAGCTATGTTCGAGGATGAGGGTGTGGATGACCTAGCACAGgtgagcctaatcagtctgtgagaacaagcttgtgtcccccgcttatccta Alignment from Spaln_aa2Genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCG-GAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccagctaccctgtctcttaacttaaacagGTGTACTCCAGGATGGAGAAGATGTGCTGGTGAATGTGAATATGGTGGACAAAGAACGCGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCAGACTACCTAAGCTATGTTcGAGGATGAGGGTGTGGATGACCTAGCACAGgtgagcctaatcagtctgtgagaacaagcatgtccgactcctttccaaca Alignment from Spaln_nt2Genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCG-GAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccagctaccctgtctcttaacttaaacagGTGTACTCCAGGATGGAGAAGATGTGCTGGTGAATGTGAATATGGTGGACAAAGAACGCGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCAGACTACCTAAGCTATGTTCGAGGATGAGGGTGTGGATGACCTAGCACAGgtgagcctaatcagtctgtgagaacaagcatgtccgactcctttccaaca Alignment from Pairagon GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATG-CGGAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccagctaccctgtctcttaacttaaacagGTGTACTCCAGGATGGAGAAGATGTGCTGGTGAATGTGAATATGGTGGACAAAGAACGCGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCAGACTACCTAAGCTATGTTCGAGGATGAGGGTGTGGATGACCTAGCACAGgtgagcctaatcagtctgtgagaacaagcatgtccgactcctttccaaca Alignment from Exonerate_protein2genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCG-GAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccagctaccctgtctcttaacttaaacagGTGTACTCCAGGATGGAGAAGATGTGCTGGTGAATGTGAATATGGTGGACAAAGAACGCGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCAGACTACCTAAGCTATGTTCGAGGATGAGGGTGTGGATGACCTAGCACAGgtgagcctaatcagtctgtgagaacaagcatgtccgactcctttccaaca Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTAT-GCGGAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccagctaccctgtctcttaacttaaacagGTGTACTCCAGGATGGAGAAGATGTGCTGGTGAATGTGAATATGGTGGACAAAGAACGCGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCAGACTACCTAAGCTATGTTCGAGGATGAGGGTGTGGATGACCTAGCACAGgtgagcctaatcagtctgtgagaacaagcatgtccgactcctttccaaca #### Sec31b_ID9030_22 --> 0 - 0 Original Alignment CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCT-CCTGGAGCCCCAAGAGAATGCAGCCTGCAG cagatgctgagttggtgtgaacttatgagtaattctaaccttcatttcagCTGCCTGAAGCATTCATGACGCCTGCACCGACTACAGCCCCACTTCGAAGCCCTGGACCGGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCCCGGAGCCCCCAGAGAGTGTAGCTTGCAAgtgagtgaaagtctgcacttgccctagtcaaggcaacctgatctctctta Alignment from CESAR CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCT-CCTGGAGCCCCAAGAGAATGCAGCCTGCAG cagatgctgagttggtgtgaacttatgagtaattctaaccttcatttcagCTGCCTGAAGCATTCATGACGCCTGCACCGACTACAGCCCCACTTCGAAGCCCTGGACCGGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCCCGGAGCCCCCAGAGAGTGTAGCTTGCAAgtgagtgaaagtctgcacttgccctagtcaaggcaacctgatctctctta Alignment from Spaln_aa2Genome CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCT-GGAGCCCCAAGAGAATGCAGCCTGCAG cagatgctgagttggtgtgaacttatgagtaattctaaccttcatttcagCTGCCTGAAGCATTCATGACGCCTGCACCGACTACAGCCCCACTTCGAAGCCCTGGACCGGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCCcGGAGCCCCCAGAGAGTGTAGCTTGCAAgtgagtgaaagtctgcacttgccctagtcaaggcaacctgatctctctta Alignment from Spaln_nt2Genome CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCT-GGAGCCCCAAGAGAATGCAGCCTGCAG cagatgctgagttggtgtgaacttatgagtaattctaaccttcatttcagCTGCCTGAAGCATTCATGACGCCTGCACCGACTACAGCCCCACTTCGAAGCCCTGGACCGGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCCCGGAGCCCCCAGAGAGTGTAGCTTGCAAgtgagtgaaagtctgcacttgccctagtcaaggcaacctgatctctctta Alignment from Pairagon CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCT-CCTGGAGCCCCAAGAGAATGCAGCCTGCAG cagatgctgagttggtgtgaacttatgagtaattctaaccttcatttcagCTGCCTGAAGCATTCATGACGCCTGCACCGACTACAGCCCCACTTCGAAGCCCTGGACCGGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCCCGGAGCCCCCAGAGAGTGTAGCTTGCAAgtgagtgaaagtctgcacttgccctagtcaaggcaacctgatctctctta Alignment from Exonerate_protein2genome CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCT-CCTGGAGCCCCAAGAGAATGCAGCCTGCAG cagatgctgagttggtgtgaacttatgagtaattctaaccttcatttcagCTGCCTGAAGCATTCATGACGCCTGCACCGACTACAGCCCCACTTCGAAGCCCTGGACCGGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCCCGGAGCCCCCAGAGAGTGTAGCTTGCAAgtgagtgaaagtctgcacttgccctagtcaaggcaacctgatctctctta Alignment from Exonerate_coding2genome CTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCT-CCTGGAGCCCCAAGAGAATGCAGCCTGCAG cagatgctgagttggtgtgaacttatgagtaattctaaccttcatttcagctgcctgaagcattcatgacgcctgcaccgactacagCCCCACTTCGAAGCCCTGGACCGGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCCCGGAGCCCCCAGAGAGTGTAGCTTGCAAgtgagtgaaagtctgcacttgccctagtcaaggcaacctgatctctctta Alignment from GeneWise CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCT-GGAGCCCCAAGAGAATGCAGCCTGCAG cagatgctgagttggtgtgaacttatgagtaattctaaccttcatttcagCTGCCTGAAGCATTCATGACGCCTGCACCGACTACAGCCCCACTTCGAAGCCCTGGACCGGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCCCGGAGCCCCCAGAGAGTGTAGCTTGCAAgtgagtgaaagtctgcacttgccctagtcaaggcaacctgatctctctta #### Sec31b_ID9031_21 --> 2 - 0 Original Alignment gaCCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAGGGAAAC-CTCCAAAGGAAAAAG tgttaaagttgtcagtgatgagtaaccaccaagtctcttttcctttgtagggCCTCAGGACTCATGGAAAGTTACACCTGCCTCTGAGGGCAATCCTTCAAAGGAAGAAAgtaagtgcctttccataaccattagcctagtccatccctatgttcttact Alignment from CESAR gaCCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAGGGAAAC-CTCCAAAGGAAAAAG tgttaaagttgtcagtgatgagtaaccaccaagtctcttttcctttgtagggCCTCAGGACTCATGGAAAGTTACACCTGCCTCTGAGGGCAATCCTTCAAAGGAAGAAAgtaagtgcctttccataaccattagcctagtccatccctatgttcttact Alignment from Spaln_aa2Genome GACCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAGGGAAAC-CTCCAAAGGAAAAAG tgttaaagttgtcagtgatgagtaaccaccaagtctcttttcctttgtagGGCCTCAGGACTCATGGAAAGTTACACCTGCCTCTGAGGGCAATcCTTCAAAGGAAGAAAgtaagtgcctttccataaccattagcctagtccatccctatgttcttact Alignment from Spaln_nt2Genome GACCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAGGGAAA-CCTCCAAAGGAAAAAG tgttaaagttgtcagtgatgagtaaccaccaagtctcttttcctttgtagGGCCTCAGGACTCATGGAAAGTTACACCTGCCTCTGAGGGCAATCCTTCAAAGGAAGAAAgtaagtgcctttccataaccattagcctagtccatccctatgttcttact Alignment from Pairagon GACCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAGGGAAA-CCTCCAAAGGAAAAAG tgttaaagttgtcagtgatgagtaaccaccaagtctcttttcctttgtagGGCCTCAGGACTCATGGAAAGTTACACCTGCCTCTGAGGGCAATCCTTCAAAGGAAGAAAgtaagtgcctttccataaccattagcctagtccatccctatgttcttact Alignment from Exonerate_protein2genome GACCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAGGGAAAC-CTCCAAAGGAAAAAG tgttaaagttgtcagtgatgagtaaccaccaagtctcttttcctttgtagGGCCTCAGGACTCATGGAAAGTTACACCTGCCTCTGAGGGCAATCCTTCAAAGGAAGAAAgtaagtgcctttccataaccattagcctagtccatccctatgttcttact Alignment from Exonerate_coding2genome tgttaaagttgtcagtgatgagtaaccaccaagtctcttttcctttgtagggcctcaggactcatggaaagttacacctgcctctgagggcaatccttcaaaggaagaaagtaagtgcctttccataaccattagcctagtccatccctatgttcttact Alignment from GeneWise GACCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAGGGAAAC-CTCCAAAGGAAAAAG tgttaaagttgtcagtgatgagtaaccaccaagtctcttttcctttgtagGGCCTCAGGACTCATGGAAAGTTACACCTGCCTCTGAGGGCAATCCTTCAAAGGAAGAAAgtaagtgcctttccataaccattagcctagtccatccctatgttcttact #### Sec31b_ID9037_15 --> 0 - 1 Original Alignment CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAG-AAGTTCCCTGAGCTCTGTg cactcttccaatgcactagtccataggtaagaaaatgttttgtctttcagTTCCTAGCCTGTGTTATAAAAAAG---AGGAAGGACCTTGTGTGTGCTTTTTGCTTG---AACTGGAGAGACACACTGGCTTTGCTACTAACACATTCAGGGCCCAAACAAGTTCCCAGAACTTTGTggtaatggtgagattaatatgattcattgtatttatgccaagcaaggcagc Alignment from CESAR CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGG-CCAGAGAAGTTCCCTGAGCTCTGTg cactcttccaatgcactagtccataggtaagaaaatgttttgtctttcagTTCCTAGCCTGTGTTATAAAAAAG---AGGAAGGACCTTGTGTGTGCTTTTTGCTTG---AACTGGAGAGACACACTGGCTTTGCTACTAACACATTCAGGGCCCAAACAAGTTCCCAGAACTTTGTggtaatggtgagattaatatgattcattgtatttatgccaagcaaggcagc Alignment from Spaln_aa2Genome CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAG-AAGTTCCCTGAGCTCTGTG cactcttccaatgcactagtccataggtaagaaaatgttttgtctttcagTTCCTAGCCTGTGTTATAAAAAAG---AGGAAGGACCTTGTGTGTGCTTTTTGCTTG---AACTGGAGAGACACACTGGCTTTGCTACTAACACATTCAGGGCCCAAAcAAGTTCCCAGAACTTTGTGgtaatggtgagattaatatgattcattgtatttatgccaagcaaggcagc Alignment from Spaln_nt2Genome CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCC-AGAGAAGTTCCCTGAGCTCTGTG cactcttccaatgcactagtccataggtaagaaaatgttttgtctttcagTTCCTAGCCTGTGTTATAAAAAAGA---GGAAGGACCTTGTGTGTGCTTTTTGCTT---GAACTGGAGAGACACACTGGCTTTGCTACTAACACATTCAGGGCCCAAACAAGTTCCCAGAACTTTGTGgtaatggtgagattaatatgattcattgtatttatgccaagcaaggcagc Alignment from Pairagon CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGG-CCAGAGAAGTTCCCTGAGCTCTGTG cactcttccaatgcactagtccataggtaagaaaatgttttgtctttcagTTCCTAGCCTGTGTTATAAAAAAGA---GGAAGGACCTTGTGTGTGCTTTTTGCTT---GAACTGGAGAGACACACTGGCTTTGCTACTAACACATTCAGGGCCCAAACAAGTTCCCAGAACTTTGTGgtaatggtgagattaatatgattcattgtatttatgccaagcaaggcagc Alignment from Exonerate_protein2genome CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAG-AAGTTCCCTGAGCTCTGTG cactcttccaatgcactagtccataggtaagaaaatgttttgtctttcagTTCCTAGCCTGTGTTATAAAAAAGAGG---AAGGACCTTGTGTGTGCTTTTTGCTTG---AACTGGAGAGACACACTGGCTTTGCTACTAACACATTCAGGGCCCAAACAAGTTCCCAGAACTTTGTGgtaatggtgagattaatatgattcattgtatttatgccaagcaaggcagc Alignment from Exonerate_coding2genome CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAG-AAGTTCCCTGAGCTCTGTG cactcttccaatgcactagtccataggtaagaaaatgttttgtctttcagTTCCTAGCCTGTGTTATAAAAAAGAGG---AAGGACCTTGTGTGTGCTTTTTGCTTG---AACTGGAGAGACACACTGGCTTTGCTACTAACACATTCAGGGCCCAAACAAGTTCCCAGAACTTTGTGgtaatggtgagattaatatgattcattgtatttatgccaagcaaggcagc Alignment from GeneWise CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCA-GAGAAGTTCCCTGAGCTCTGTG cactcttccaatgcactagtccataggtaagaaaatgttttgtctttcagTTCCTAGCCTGTGTTATAAAAAAGAGG---AAGGACCTTGTGTGTGCTTTTTGCTTG---AACTGGAGAGACACACTGGCTTTGCTACTAACACATTCAGGGCCCAAACAAGTTCCCAGAACTTTGTGgtaatggtgagattaatatgattcattgtatttatgccaagcaaggcagc #### Sec31b_ID9038_14 --> 2 - 0 Original Alignment acACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAG-GAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG atacagtaaagcattgactgagtgagtgtctctctgttttgcctatgtagatACTGATGGGCTCCTAAGC---CCTTTGTTAATTGGGGAACTGCACTCTGCTGTAGATTTGTGTTTGAAGGAGCGAGCGATTTGCAGATGCTGTTATTTTGGCTCAT---GGGGATGCAGAGTGGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaagtcctgttgtccataattgtgttgctcacagccatgtcattcaaca Alignment from CESAR acACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAG-GAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG atacagtaaagcattgactgagtgagtgtctctctgttttgcctatgtagatACTGATGGGCTCCTAAGC---CCTTTGTTAATTGGGGAACTGCACTCTGCTGTAGATTTGTGTTTGAAGGAGCGAGCGATTTGCAGATGCTGTTATTTTGGCTCAT---GGGGATGCAGAGTGGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaagtcctgttgtccataattgtgttgctcacagccatgtcattcaaca Alignment from Spaln_aa2Genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAG-GAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG atacagtaaagcattgactgagtgagtgtctctctgttttgcctatgtagATACTGATGGGCTCCTAAGC---CCTTTGTTAATTGGGGAACTGCACTCTGCTGTAGATTTGTGTTTGAAGGAGcGAGCGATTTGCAGATGCTGTTATTTTGGCTCAT---GGGGATGCAGAGTGGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaagtcctgttgtccataattgtgttgctcacagccatgtcattcaaca Alignment from Spaln_nt2Genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAG-GAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG atacagtaaagcattgactgagtgagtgtctctctgttttgcctatgtagATACTGATGGGCTCCTAAGCC---CTTTGTTAATTGGGGAACTGCACTCTGCTGTAGATTTGTGTTTGAAGGAGCGAGCGATTTGCAGATGCTGTTATTTTGGCTCA---TGGGGATGCAGAGTGGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaagtcctgttgtccataattgtgttgctcacagccatgtcattcaaca Alignment from Pairagon ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAG-GAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG atacagtaaagcattgactgagtgagtgtctctctgttttgcctatgtagATACTGATGGGCTCCTAAGCC---CTTTGTTAATTGGGGAACTGCACTCTGCTGTAGATTTGTGTTTGAAGGAGCGAGCGATTTGCAGATGCTGTTATTTTGGCTCA---TGGGGATGCAGAGTGGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaagtcctgttgtccataattgtgttgctcacagccatgtcattcaaca Alignment from Exonerate_protein2genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAG-GAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG atacagtaaagcattgactgagtgagtgtctctctgttttgcctatgtagATACTGATGGGCTCCTAAGC---CCTTTGTTAATTGGGGAACTGCACTCTGCTGTAGATTTGTGTTTGAAGGAGCGAGCGATTTGCAGATGCTGTTATTTTGGCTCAT---GGGGATGCAGAGTGGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaagtcctgttgtccataattgtgttgctcacagccatgtcattcaaca Alignment from Exonerate_coding2genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAG-GAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG atacagtaaagcattgactgagtgagtgtctctctgttttgcctatgtagATACTGATGGGCTCCTAAGC---CCTTTGTTAATTGGGGAACTGCACTCTGCTGTAGATTTGTGTTTGAAGGAGCGAGCGATTTGCAGATGCTGTTATTTTGGCTCAT---GGGGATGCAGAGTGGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaagtcctgttgtccataattgtgttgctcacagccatgtcattcaaca Alignment from GeneWise ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAG-GAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG atacagtaaagcattgactgagtgagtgtctctctgttttgcctatgtagATACTGATGGGCTCCTAAGCCCT---TTGTTAATTGGGGAACTGCACTCTGCTGTAGATTTGTGTTTGAAGGAGCGAGCGATTTGCAGATGCTGTTATTTTGGCTCAT---GGGGATGCAGAGTGGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaagtcctgttgtccataattgtgttgctcacagccatgtcattcaaca #### Sema4g_ID9244_2 --> 2 - 0 Original Alignment agCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTG-GTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG cttgctcatgccttatccatcataactagactgtctgctcttgtccctagaaGTTTCACAAGTACAACGCTTTAGGGAGCAGGCCCAAATTCATTCGACATTGCTGTTGGAGGAGGCTTCTGAAAAGCTGTCACGCAGGCGCGCGGGGTCCATTGTTCTCCCTC------AGTGAAATCAGAGAGAGAACACATAAAGAGgtaccttgctgatactgggtttacaggaccccacattttgcgtctggtct Alignment from CESAR agCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTG-GTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG cttgctcatgccttatccatcataactagactgtctgctcttgtccctagaaGTTTCACAAGTACAACGCTTTAGGGAGCAGGCCCAAATTCATTCGACATTGCTGTTGGAGGAGGCTTCTGAAAAGCTGTCACGCAGGCGCGCGGGGTCCATTGTTCTCCCTCAGT------GAAATCAGAGAGAGAACACATAAAGAGgtaccttgctgatactgggtttacaggaccccacattttgcgtctggtct Alignment from Spaln_aa2Genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTG-GTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG cttgctcatgccttatccatcataactagactgtctgctcttgtccctagAAGTTTCACAAGTACAACGCTTTAGGGAGCAGGCCCAAATTCATTCGACATTGCTGTTGGAGGAGGCTTCTGAAAAGCTGTCAcGCAGGCGCGCGGGGTCCATTGTTCTCCCTCAGT------GAAATCAGAGAGAGAACACATAAAGAGgtaccttgctgatactgggtttacaggaccccacattttgcgtctggtct Alignment from Spaln_nt2Genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTG-CTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG cttgctcatgccttatccatcataactagactgtctgctcttgtccctagAAGTTTCACAAGTACAACGCTTTAGGGAGCAGGCCCAAATTCATTCGACATTGCTGTTGGAGGAGGCTTCTGAAAAGCTGTCACGCAGGCGCGCGGGGTCCATTGTTCTCCCTCA------GTGAAATCAGAGAGAGAACACATAAAGAGgtaccttgctgatactgggtttacaggaccccacattttgcgtctggtct Alignment from Pairagon AGAGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCT-----GCTGGTGGGGGCTCGAGGCGCCC---------TGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG cttgctcatgccttatccatcataactagactgtctgctcttgtccctagaagtttcacaagtacaacgctttagGGAGCAGGCCCAAATTC---------------------------ATTCGACATTGCTGTTGGAGGAGGCTTCTGAAAAGCTGTCACGC-------------AGGCGCGCGGGGTCCATTGTTCTCCCTCA------GTGAAATCAGAGAGAGAACACATAAAGAGgtaccttgctgatactgggtttacaggaccccacattttgcgtctggtct Alignment from Exonerate_protein2genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTG-GTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG cttgctcatgccttatccatcataactagactgtctgctcttgtccctagAAGTTTCACAAGTACAACGCTTTAGGGAGCAGGCCCAAATTCATTCGACATTGCTGTTGGAGGAGGCTTCTGAAAAGCTGTCACGCAGGCGCGCGGGGTCCATTGTTCTCCCTCAGT------GAAATCAGAGAGAGAACACATAAAGAGgtaccttgctgatactgggtttacaggaccccacattttgcgtctggtct Alignment from Exonerate_coding2genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTG-GTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG cttgctcatgccttatccatcataactagactgtctgctcttgtccctagAAGTTTCACAAGTACAACGCTTTAGGGAGCAGGCCCAAATTCATTCGACATTGCTGTTGGAGGAGGCTTCTGAAAAGCTGTCACGCAGGCGCGCGGGGTCCATTGTTCTCCCTCAGT------GAAATCAGAGAGAGAACACATAAAGAGgtaccttgctgatactgggtttacaggaccccacattttgcgtctggtct Alignment from GeneWise AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTG-CTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG cttgctcatgccttatccatcataactagactgtctgctcttgtccctagAAGTTTCACAAGTACAACGCTTTAGGGAGCAGGCCCAAATTCATTCGACATTGCTGTTGGAGGAGGCTTCTGAAAAGCTGTCACGCAGGCGCGCGGGGTCCATTGTTCTCCCTCAGT------GAAATCAGAGAGAGAACACATAAAGAGgtaccttgctgatactgggtttacaggaccccacattttgcgtctggtct #### Sema4g_ID9247_5 --> 0 - 1 Original Alignment GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGA-AAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTg tgtcctaaacctgctctcacctaacctgtagtaatatgttgctttctcagGATTCTGAAACCTTCATCTTGCCTACTAGTTTTGAGGAGGGACAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCATTATTATTggtgagaaaaatgtaaccaatccatcacaattctaagccctgaacattgtt Alignment from CESAR GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGA-AAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTg agccctaaacctgctctcacctaacctgtagtaatatgttgctttctcagGATTCTGAAACCTTCATCTTGCCTACTAGTTTTGAGGAGGGACAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCATTATTATTggtgagaaaaatgtaaccaatccatcacaattctaagccctgaacattgtt Alignment from Spaln_aa2Genome GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGA-AAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTG tgtcctaaacctgctctcacctaacctgtagtaatatgttgctttctcagGATTCTGAAACCTTCATCTTGCCTACTAGTTTTGAGGAGGGAcAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCATTATTATTGgtgagaaaaatgtaaccaatccatcacaattctaagccctgaacattgtt Alignment from Spaln_nt2Genome GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGA-AAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTG tgtcctaaacctgctctcacctaacctgtagtaatatgttgctttctcagGATTCTGAAACCTTCATCTTGCCTACTAGTTTTGAGGAGGGACAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCATTATTATTGgtgagaaaaatgtaaccaatccatcacaattctaagccctgaacattgtt Alignment from Pairagon GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGA-AAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTG tgtcctaaacctgctctcacctaacctgtagtaatatgttgctttctcagGATTCTGAAACCTTCATCTTGCCTACTAGTTTTGAGGAGGGACAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCATTATTATTGgtgagaaaaatgtaaccaatccatcacaattctaagccctgaacattgtt Alignment from Exonerate_protein2genome GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGA-AAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTG tgtcctaaacctgctctcacctaacctgtagtaatatgttgctttctcagGATTCTGAAACCTTCATCTTGCCTACTAGTTTTGAGGAGGGACAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCATTATTATTGgtgagaaaaatgtaaccaatccatcacaattctaagccctgaacattgtt Alignment from Exonerate_coding2genome GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGA-AAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTG tgtcctaaacctgctctcacctaacctgtagtaatatgttgctttctcagGATTCTGAAACCTTCATCTTGCCTACTAGTTTTGAGGAGGGACAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCATTATTATTGgtgagaaaaatgtaaccaatccatcacaattctaagccctgaacattgtt Alignment from GeneWise GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGA-AAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTG tgtcctaaacctgctctcacctaacctgtagtaatatgttgctttctcagGATTCTGAAACCTTCATCTTGCCTACTAGTTTTGAGGAGGGACAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCATTATTATTGgtgagaaaaatgtaaccaatccatcacaattctaagccctgaacattgtt #### Sema4g_ID9249_7 --> 2 - 0 Original Alignment atGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAG-CGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG gctcagtctgtgagtctgtgaaccaagagatcactctgctctgttttcagacGCAGAAATTGTGTTCTCTGTACTGGTGCGACAGAGTGAAACAAGTACTGTTGGCGGTGAGGACAGGATTTATTTCTTCTTCAAGGAACCATGAGGAAGGTTCCAGTAATTTCACACAGAGTTGCAGCAGCCACAGGGTAGCTAGAGCACCTCGAGTTTGCAAGgtgagtctgatgtacttctagaccagtgtaattcaaaaaggccttcactc Alignment from CESAR atGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAG-CGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG gctcagtctgtgagtctgtgaaccaagagatcactctgctctgttttcagacGCAGAAATTGTGTTCTCTGTACTGGTGCGACAGAGTGAAACAAGTACTGTTGGCGGTGAGGACAGGATTTATTTCTTCTTCAAGGAACCATGAGGAAGGTTCCAGTAATTTCACACAGAGTTGCAGCAGCCACAGGGTAGCTAGAGCACCTCGAGTTTGCAAGgtgagtctgatgtacttctagaccagtgtaattcaaaaaggccttcactc Alignment from Spaln_aa2Genome ATGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAG-CGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG gctcagtctgtgagtctgtgaaccaagagatcactctgctctgttttcagACGCAGAAATTGTGTTCTCTGTACTGGTGCGACAGAGTGAAACAAGTACTGTTGGCGGTGAGGACAGGATTTATTTCTTCTTCAAGGAAcCATGAGGAAGGTTCCAGTAATTTCACACAGAGTTGCAGCAGCCACAGGGTAGCTAGAGCACCTCGAGTTTGCAAGgtgagtctgatgtacttctagaccagtgtaattcaaaaaggccttcactc Alignment from Spaln_nt2Genome ATGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAGCG-TGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG gctcagtctgtgagtctgtgaaccaagagatcactctgctctgttttcagACGCAGAAATTGTGTTCTCTGTACTGGTGCGACAGAGTGAAACAAGTACTGTTGGCGGTGAGGACAGGATTTATTTCTTCTTCAAGGAACCATGAGGAAGGTTCCAGTAATTTCACACAGAGTTGCAGCAGCCACAGGGTAGCTAGAGCACCTCGAGTTTGCAAGgtgagtctgatgtacttctagaccagtgtaattcaaaaaggccttcactc Alignment from Pairagon ATGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAG-CGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG gctcagtctgtgagtctgtgaaccaagagatcactctgctctgttttcagACGCAGAAATTGTGTTCTCTGTACTGGTGCGACAGAGTGAAACAAGTACTGTTGGCGGTGAGGACAGGATTTATTTCTTCTTCAAGGAACCATGAGGAAGGTTCCAGTAATTTCACACAGAGTTGCAGCAGCCACAGGGTAGCTAGAGCACCTCGAGTTTGCAAGgtgagtctgatgtacttctagaccagtgtaattcaaaaaggccttcactc Alignment from Exonerate_protein2genome ATGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAG-CGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG gctcagtctgtgagtctgtgaaccaagagatcactctgctctgttttcagACGCAGAAATTGTGTTCTCTGTACTGGTGCGACAGAGTGAAACAAGTACTGTTGGCGGTGAGGACAGGATTTATTTCTTCTTCAAGGAACCATGAGGAAGGTTCCAGTAATTTCACACAGAGTTGCAGCAGCCACAGGGTAGCTAGAGCACCTCGAGTTTGCAAGgtgagtctgatgtacttctagaccagtgtaattcaaaaaggccttcactc Alignment from Exonerate_coding2genome ATGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAG-CGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG gctcagtctgtgagtctgtgaaccaagagatcactctgctctgttttcagACGCAGAAATTGTGTTCTCTGTACTGGTGCGACAGAGTGAAACAAGTACTGTTGGCGGTGAGGACAGGATTTATTTCTTCTTCAAGGAACCATGAGGAAGGTTCCAGTAATTTCACACAGAGTTGCAGCAGCCACAGGGTAGCTAGAGCACCTCGAGTTTGCAAGgtgagtctgatgtacttctagaccagtgtaattcaaaaaggccttcactc Alignment from GeneWise ATGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAG-CGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG gctcagtctgtgagtctgtgaaccaagagatcactctgctctgttttcagACGCAGAAATTGTGTTCTCTGTACTGGTGCGACAGAGTGAAACAAGTACTGTTGGCGGTGAGGACAGGATTTATTTCTTCTTCAAGGAACCATGAGGAAGGTTCCAGTAATTTCACACAGAGTTGCAGCAGCCACAGGGTAGCTAGAGCACCTCGAGTTTGCAAGgtgagtctgatgtacttctagaccagtgtaattcaaaaaggccttcactc #### Sema4g_ID9250_8 --> 0 - 2 Original Alignment GGAGATCTGGGAGGGAAG-AAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGtg ttagttctaccccctagttttatggactctttgttatttccgtttaccagGGAGATCTAGCTGGAGAACGAAATTTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCACGACTAATCTGCCATGTTCCTAAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCTTCTCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGtggtgtgtatggagaatgggtatatatagcaggtaagcacaagagagtcagc Alignment from CESAR GGAGATCTGGGAGGGAAG-AAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGtg ttagttctaccccctagttttatggactctttgttatttccgtttaccagGGAGATCTAGCTGGAGAACGAAATTTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCACGACTAATCTGCCATGTTCCTAAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCTTCTCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGtggtgtgtatggagaatgggtatatatagcaggtaagcacaagagagtcagc Alignment from Spaln_aa2Genome GGAGATCTGGGAGGGAAGAAG-ATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG ttagttctaccccctagttttatggactctttgttatttccgtttaccagGGAGATCTAGCTGGAGAACGAaATTTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCACGACTAATCTGCCATGTTCCTAAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCTTCTCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGTGgtgtgtatggagaatgggtatatatagcaggtaagcacaagagagtcagc Alignment from Spaln_nt2Genome GGAGATCTGGGAGG-GAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG ttagttctaccccctagttttatggactctttgttatttccgtttaccagGGAGATCTAGCTGGAGAACGAAATTTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCACGACTAATCTGCCATGTTCCTAAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCTTCTCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGTGgtgtgtatggagaatgggtatatatagcaggtaagcacaagagagtcagc Alignment from Pairagon GGAGATCTGGGAGG-GAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG ttagttctaccccctagttttatggactctttgttatttccgtttaccagGGAGATCTAGCTGGAGAACGAAATTTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCACGACTAATCTGCCATGTTCCTAAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCTTCTCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGTGgtgtgtatggagaatgggtatatatagcaggtaagcacaagagagtcagc Alignment from Exonerate_protein2genome GGAGATCTGGGAGGGAAGAAG-ATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG ttagttctaccccctagttttatggactctttgttatttccgtttaccagGGAGATCTAGCTGGAGAACGAAATTTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCACGACTAATCTGCCATGTTCCTAAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCTTCTCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGTGgtgtgtatggagaatgggtatatatagcaggtaagcacaagagagtcagc Alignment from Exonerate_coding2genome GGAGATCTGGGAGGGAAGAAG-ATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG ttagttctaccccctagttttatggactctttgttatttccgtttaccagGGAGATCTAGCTGGAGAACGAAATTTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCACGACTAATCTGCCATGTTCCTAAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCTTCTCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGTGgtgtgtatggagaatgggtatatatagcaggtaagcacaagagagtcagc Alignment from GeneWise GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG ttagttctaccccctagttttatggactctttgttatttccgtttaccagggagatctagctggagAACGAA---------------ATTTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCACGACTAATCTGCCATGTTCCTAAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCTTCTCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGTGgtgtgtatggagaatgggtatatatagcaggtaagcacaagagagtcagc #### Sema4g_ID9254_12 --> 0 - 2 Original Alignment CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGT-GGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACag tgacatgggaggactaatactgctcatctgcatttttgcctacatcatagCACAGCCTATATGTGGGGGCTGCAAGTGGAATT---CAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATTCTAGCACGAGACCCCTACTGTCGGCTGGGATTCTAGTATCCATGTGTGCATGGTGGCCACTACGGTAGCAAACaggtacctagacaaaatataacagcgccctgttcaccaactggtagtagtat Alignment from CESAR CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGT-GGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACag tgacatgggaggactaatactgctcatctgcatttttgcctacatcatagCACAGCCTATATGTGGGGGCTGCAAGTGGAATT---CAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATTCTAGCACGAGACCCCTACTGTCGGCTGGGATTCTAGTATCCATGTGTGCATGGTGGCCACTACGGTAGCAAACaggtacctagacaaaatataacagcgccctgttcaccaactggtagtagtat Alignment from Spaln_aa2Genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGT-GGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG tgacatgggaggactaatactgctcatctgcatttttgcctacatcatagCACAGCCTATATGTGGGGGCTGCAAGTGGAATT---CAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATTCTAGCACGAGACCCCTACTGTcGGCTGGGATTCTAGTATCCATGTGTGCATGGTGGCCACTACGGTAGCAAACAGgtacctagacaaaatataacagcgccctgttcaccaactggtagtagtat Alignment from Spaln_nt2Genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGT-GGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG tgacatgggaggactaatactgctcatctgcatttttgcctacatcatagCACAGCCTATATGTGGGGGCTGCAAGTGGA---ATTCAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATTCTAGCACGAGACCCCTACTGTCGGCTGGGATTCTAGTATCCATGTGTGCATGGTGGCCACTACGGTAGCAAACAGgtacctagacaaaatataacagcgccctgttcaccaactggtagtagtat Alignment from Pairagon CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGT-GGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG tgacatgggaggactaatactgctcatctgcatttttgcctacatcatagCACAGCCTATATGTGGGGGCTGCAAGTGGAA---TTCAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATTCTAGCACGAGACCCCTACTGTCGGCTGGGATTCTAGTATCCATGTGTGCATGGTGGCCACTACGGTAGCAAACAGgtacctagacaaaatataacagcgccctgttcaccaactggtagtagtat Alignment from Exonerate_protein2genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGT-GGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG tgacatgggaggactaatactgctcatctgcatttttgcctacatcatagCACAGCCTATATGTGGGGGCTGCAAGTGGAATT---CAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATTCTAGCACGAGACCCCTACTGTCGGCTGGGATTCTAGTATCCATGTGTGCATGGTGGCCACTACGGTAGCAAACAGgtacctagacaaaatataacagcgccctgttcaccaactggtagtagtat Alignment from Exonerate_coding2genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGT-GGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG tgacatgggaggactaatactgctcatctgcatttttgcctacatcatagCACAGCCTATATGTGGGGGCTGCAAGTGGAATT---CAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATTCTAGCACGAGACCCCTACTGTCGGCTGGGATTCTAGTATCCATGTGTGCATGGTGGCCACTACGGTAGCAAACAGgtacctagacaaaatataacagcgccctgttcaccaactggtagtagtat Alignment from GeneWise CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGT-GGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG tgacatgggaggactaatactgctcatctgcatttttgcctacatcatagCACAGCCTATATGTGGGGGCTGCAAGTGGAATT---CAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATTCTAGCACGAGACCCCTACTGTCGGCTGGGATTCTAGTATCCATGTGTGCATGGTGGCCACTACGGTAGCAAACAGgtacctagacaaaatataacagcgccctgttcaccaactggtagtagtat #### Sema4g_ID9255_13 --> 1 - 1 Original Alignment gACAGAATTGATACAGGACATAGAGAGAGGAAATCGAGGCTGT-GAGGGCAGCAGGGATGCAg ttcaccaactggtagtagtattgtaatactcacgacttcttcctctctagaACAGAACTAATACAAGACATTGAAAGAGGAAATCTAGGCTGTCGAGGACAGCCGGGATGCTggtgagtagaactgacacctaacttggattctaggccatttaaccatgcct Alignment from CESAR gACAGAATTGATACAGGACATAGAGAGAGGAAATCGAGGCTGT-GAGGGCAGCAGGGATGCAg ttcaccaactggtagtagtattgtaatactcacgacttcttcctctctagaACAGAACTAATACAAGACATTGAAAGAGGAAATCTAGGCTGTCGAGGACAGCCGGGATGCTggtgagtagaactgacacctaacttggattctaggccatttaaccatgcct Alignment from Spaln_aa2Genome GACAGAATTGATACAGGACATAGAGAGAGGAAATCGAGGCTGT-GAGGGCAGCAGGGATGCAG ttcaccaactggtagtagtattgtaatactcacgacttcttcctctctagAACAGAACTAATACAAGACATTGAAAGAGGAAATCTAGGCTGTcGAGGACAGCCGGGATGCTGgtgagtagaactgacacctaacttggattctaggccatttaaccatgcct Alignment from Spaln_nt2Genome GACAGAATTGATACAGGACATAGAGAGAGGAAATCGAGGCTGT-GAGGGCAGCAGGGATGCAG ttcaccaactggtagtagtattgtaatactcacgacttcttcctctctagAACAGAACTAATACAAGACATTGAAAGAGGAAATCTAGGCTGTCGAGGACAGCCGGGATGCTGgtgagtagaactgacacctaacttggattctaggccatttaaccatgcct Alignment from Pairagon GACAGAATTGATACAGGACATAGAGAGAGGAAATCGAGGCTGT-GAGGGCAGCAGGGATGCAG ttcaccaactggtagtagtattgtaatactcacgacttcttcctctctagAACAGAACTAATACAAGACATTGAAAGAGGAAATCTAGGCTGTCGAGGACAGCCGGGATGCTGgtgagtagaactgacacctaacttggattctaggccatttaaccatgcct Alignment from Exonerate_protein2genome GACAGAATTGATACAGGACATAGAGAGAGGAAATCGAGGCTGTGAGGGC-AGCAGGGATGCAG ttcaccaactggtagtagtattgtaatactcacgacttcttcctctctagAACAGAACTAATACAAGACATTGAAAGAGGAAATCTAGGCTGTCGAGGACAGCCGGGATGCTGgtgagtagaactgacacctaacttggattctaggccatttaaccatgcct Alignment from Exonerate_coding2genome ttcaccaactggtagtagtattgtaatactcacgacttcttcctctctagaacagaactaatacaagacattgaaagaggaaatctaggctgtcgaggacagccgggatgctggtgagtagaactgacacctaacttggattctaggccatttaaccatgcct Alignment from GeneWise GACAGAATTGATACAGGACATAGAGAGAGGAAATCGAGGC- ttcaccaactggtagtagtattgtaatactcacgacttcttcctctctagAACAGAACTAATACAAGACATTGAAAGAGGAAATCTAGGCTgtcgaggacagccgggatgctggtgagtagaactgacacctaacttggattctaggccatttaaccatgcct #### Sf1_ID1665_6 --> 1 - 0 Original Alignment aGGGAACACCCTGAAGAACATTGAGAAGGAATGCAACGCCAAGATC-ATGATTCGGGGGAAAGGATCAGTGAAAGAAGGGAAAGTTGGGCGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCTCTAGTCACTGCCAATACGATGGAGAATGTCAAAAAGGCAGTAGAACAG caatcagatcaactgaacaggggtgaccaacctctccctgcttcctacagaGGGAACACACTGAAGAACATTGATAAGGACTGCAATGCAAAGATCCATGATTCGGGGGAAAGGATCCGTGAAAGAGGGGAAGGTTGGACGTAAAGATGGACAGATGTTGCCAGGTGAAGATGAGCCTCTTCATGCTCTAGTTACAGCCAATACAATGGAGAATGTCAAAAAGGCAGTAGAACAGgttggtgttcagcctaggaaaggaagcctggcaatcaactcacagtaggg Alignment from CESAR aGGGAACACCCTGAAGAACATTGAGAAGGAATGCAACGCCAAGATC-ATGATTCGGGGGAAAGGATCAGTGAAAGAAGGGAAAGTTGGGCGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCTCTAGTCACTGCCAATACGATGGAGAATGTCAAAAAGGCAGTAGAACAG caatcagatcaactgaacaggggtgaccaacctctccctgcttcctacagaGGGAACACACTGAAGAACATTGATAAGGACTGCAATGCAAAGATCCATGATTCGGGGGAAAGGATCCGTGAAAGAGGGGAAGGTTGGACGTAAAGATGGACAGATGTTGCCAGGTGAAGATGAGCCTCTTCATGCTCTAGTTACAGCCAATACAATGGAGAATGTCAAAAAGGCAGTAGAACAGgttggtgttcagcctaggaaaggaagcctggcaatcaactcacagtaggg Alignment from Spaln_aa2Genome AGGGAACACCCTGAAGAACATTGAGAAGGAATGCAACGCCAAGATC-ATGATTCGGGGGAAAGGATCAGTGAAAGAAGGGAAAGTTGGGCGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCTCTAGTCACTGCCAATACGATGGAGAATGTCAAAAAGGCAGTAGAACAG caatcagatcaactgaacaggggtgaccaacctctccctgcttcctacagAGGGAACACACTGAAGAACATTGATAAGGACTGCAATGCAAAGATCcATGATTCGGGGGAAAGGATCCGTGAAAGAGGGGAAGGTTGGACGTAAAGATGGACAGATGTTGCCAGGTGAAGATGAGCCTCTTCATGCTCTAGTTACAGCCAATACAATGGAGAATGTCAAAAAGGCAGTAGAACAGgttggtgttcagcctaggaaaggaagcctggcaatcaactcacagtaggg Alignment from Spaln_nt2Genome AGGGAACACCCTGAAGAACATTGAGAAGGAATGCAACGCCAAGATC-ATGATTCGGGGGAAAGGATCAGTGAAAGAAGGGAAAGTTGGGCGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCTCTAGTCACTGCCAATACGATGGAGAATGTCAAAAAGGCAGTAGAACAG caatcagatcaactgaacaggggtgaccaacctctccctgcttcctacagAGGGAACACACTGAAGAACATTGATAAGGACTGCAATGCAAAGATCCATGATTCGGGGGAAAGGATCCGTGAAAGAGGGGAAGGTTGGACGTAAAGATGGACAGATGTTGCCAGGTGAAGATGAGCCTCTTCATGCTCTAGTTACAGCCAATACAATGGAGAATGTCAAAAAGGCAGTAGAACAGgttggtgttcagcctaggaaaggaagcctggcaatcaactcacagtaggg Alignment from Pairagon AGGGAACACCCTGAAGAACATTGAGAAGGAATGCAACGCCAAGAT-CATGATTCGGGGGAAAGGATCAGTGAAAGAAGGGAAAGTTGGGCGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCTCTAGTCACTGCCAATACGATGGAGAATGTCAAAAAGGCAGTAGAACAG caatcagatcaactgaacaggggtgaccaacctctccctgcttcctacagAGGGAACACACTGAAGAACATTGATAAGGACTGCAATGCAAAGATCCATGATTCGGGGGAAAGGATCCGTGAAAGAGGGGAAGGTTGGACGTAAAGATGGACAGATGTTGCCAGGTGAAGATGAGCCTCTTCATGCTCTAGTTACAGCCAATACAATGGAGAATGTCAAAAAGGCAGTAGAACAGgttggtgttcagcctaggaaaggaagcctggcaatcaactcacagtaggg Alignment from Exonerate_protein2genome AGGGAACACCCTGAAGAACATTGAGAAGGAATGCAACGCCAAGATC-ATGATTCGGGGGAAAGGATCAGTGAAAGAAGGGAAAGTTGGGCGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCTCTAGTCACTGCCAATACGATGGAGAATGTCAAAAAGGCAGTAGAACAG caatcagatcaactgaacaggggtgaccaacctctccctgcttcctacagAGGGAACACACTGAAGAACATTGATAAGGACTGCAATGCAAAGATCCATGATTCGGGGGAAAGGATCCGTGAAAGAGGGGAAGGTTGGACGTAAAGATGGACAGATGTTGCCAGGTGAAGATGAGCCTCTTCATGCTCTAGTTACAGCCAATACAATGGAGAATGTCAAAAAGGCAGTAGAACAGgttggtgttcagcctaggaaaggaagcctggcaatcaactcacagtaggg Alignment from Exonerate_coding2genome AGGGAACACCCTGAAGAACATTGAGAAGGAATGCAACGCCAAGATC-ATGATTCGGGGGAAAGGATCAGTGAAAGAAGGGAAAGTTGGGCGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCTCTAGTCACTGCCAATACGATGGAGAATGTCAAAAAGGCAGTAGAACAG caatcagatcaactgaacaggggtgaccaacctctccctgcttcctacagAGGGAACACACTGAAGAACATTGATAAGGACTGCAATGCAAAGATCCATGATTCGGGGGAAAGGATCCGTGAAAGAGGGGAAGGTTGGACGTAAAGATGGACAGATGTTGCCAGGTGAAGATGAGCCTCTTCATGCTCTAGTTACAGCCAATACAATGGAGAATGTCAAAAAGGCAGTAGAACAGgttggtgttcagcctaggaaaggaagcctggcaatcaactcacagtaggg Alignment from GeneWise AGGGAACACCCTGAAGAACATTGAGAAGGAATGCAACGCCAAG-ATCATGATTCGGGGGAAAGGATCAGTGAAAGAAGGGAAAGTTGGGCGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCTCTAGTCACTGCCAATACGATGGAGAATGTCAAAAAGGCAGTAGAACAG caatcagatcaactgaacaggggtgaccaacctctccctgcttcctacagAGGGAACACACTGAAGAACATTGATAAGGACTGCAATGCAAAGATCCATGATTCGGGGGAAAGGATCCGTGAAAGAGGGGAAGGTTGGACGTAAAGATGGACAGATGTTGCCAGGTGAAGATGAGCCTCTTCATGCTCTAGTTACAGCCAATACAATGGAGAATGTCAAAAAGGCAGTAGAACAGgttggtgttcagcctaggaaaggaagcctggcaatcaactcacagtaggg #### Sf1_ID1666_7 --> 0 - 2 Original Alignment ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAG-CTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATag agccaaactgccatgtttttgaataaggacactacatgtcttcattccagATCCGAAATATGCTAAAGCAAGGTATTAAAACCCCTAAAGGCCAAAATGATCTACACAAGATGCAGCCTTCGGGAGCTGGCTCACCTAAATGGCACTCTACGGGAGGAA---GCGcagtaatattgaatgttgaagaaaaggcatgggcaggtatcagttttaacgg Alignment from CESAR ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAG-CTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATag agccaaactgccatgtttttgaataaggacactacatgtcttcattccagATCCGAAATATGCTAAAGCAAGGTATTAAAACCCCTAAAGGCCAAAATGATCTACACAAGATGCAGCCTTCGGGAGCTGGCTCACCTAAATGGCACTCTACGGGAG---GAAGCGcagtaatattgaatgttgaagaaaaggcatgggcaggtatcagttttaacgg Alignment from Spaln_aa2Genome ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAG-CTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATAG agccaaactgccatgtttttgaataaggacactacatgtcttcattccagATCCGAAATATGCTAAAGCAAGGTATTAAAACCCCTAAAGGCCAAAATGATCTACACAAGATGCAGcCTTCGGGAGCTGGCTCACCTAAATGGCACTCTACGGGAG---GAAGCGCAgtaatattgaatgttgaagaaaaggcatgggcaggtatcagttttaacgg Alignment from Spaln_nt2Genome ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGC-TTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAA agccaaactgccatgtttttgaataaggacactacatgtcttcattccagATCCGAAATATGCTAAAGCAAGGTATTAAAACCCCTAAAGGCCAAAATGATCTACACAAGATGCAGCCTTCGGGAGCTGGCTCACCTAAATGGCACTCTACGGGAGGAAGCGCAgtaatattgaatgttgaagaaaaggcatgggcaggtatcagttttaacgg Alignment from Pairagon ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAG-CTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGA-------------------------------------------------------- agccaaactgccatgtttttgaataaggacactacatgtcttcattccagATCCGAAATATGCTAAAGCAAGGTATTAAAACCCCTAAAGGCCAAAATGATCTACACAAGATGCAGCCTTCGGGAGCTGGCTCACCTAAATGGCACTCTACGGGAGGAAGCGCAGTAATATTGAATGTTGAAGAAAAGGCATGGGCAGGTATCAGTTTTAACGG Alignment from Exonerate_protein2genome ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAG-CTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAA agccaaactgccatgtttttgaataaggacactacatgtcttcattccagATCCGAAATATGCTAAAGCAAGGTATTAAAACCCCTAAAGGCCAAAATGATCTACACAAGATGCAGCCTTCGGGAGCTGGCTCACCTAAATGGCACTCTACGGGAGGAAGCGCAgtaatattgaatgttgaagaaaaggcatgggcaggtatcagttttaacgg Alignment from Exonerate_coding2genome ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAG-CTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAA agccaaactgccatgtttttgaataaggacactacatgtcttcattccagATCCGAAATATGCTAAAGCAAGGTATTAAAACCCCTAAAGGCCAAAATGATCTACACAAGATGCAGCCTTCGGGAGCTGGCTCACCTAAATGGCACTCTACGGGAGGAAGCGCAgtaatattgaatgttgaagaaaaggcatgggcaggtatcagttttaacgg Alignment from GeneWise ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAG-CTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAA agccaaactgccatgtttttgaataaggacactacatgtcttcattccagATCCGAAATATGCTAAAGCAAGGTATTAAAACCCCTAAAGGCCAAAATGATCTACACAAGATGCAGCCTTCGGGAGCTGGCTCACCTAAATGGCACTCTACGGGAGGAAGCGCAgtaatattgaatgttgaagaaaaggcatgggcaggtatcagttttaacgg #### Sf1_ID1670_11 --> 2 - 1 Original Alignment atCAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTG-CATCAAGGAAAAg aagtctcagatgccctcctattgatttccgctgtccactcttgttctcagacCAGTATCAAGGGAGTACACCAGTGGCCTCTGGAGTTTATCGTCTGCCATCAAGGAAAGggtaagactattaccttttatggcatctctcatgattggggccaaatggca Alignment from CESAR atCAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTG-CATCAAGGAAAAg aagtctcagatgccctcctattgatttccgctgtccactcttgttctcagacCAGTATCAAGGGAGTACACCAGTGGCCTCTGGAGTTTATCGTCTGCCATCAAGGAAAGggtaagactattaccttttatggcatctctcatgattggggccaaatggca Alignment from Spaln_aa2Genome ATCAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTG-CATCAAGGAAAAG aagtctcagatgccctcctattgatttccgctgtccactcttgttctcagACCAGTATCAAGGGAGTACACCAGTGGCCTCTGGAGTTTATCGTCTGcCATCAAGGAAAGGgtaagactattaccttttatggcatctctcatgattggggccaaatggca Alignment from Spaln_nt2Genome ATCAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGC-ATCAAGGAAAAG aagtctcagatgccctcctattgatttccgctgtccactcttgttctcagACCAGTATCAAGGGAGTACACCAGTGGCCTCTGGAGTTTATCGTCTGCCATCAAGGAAAGGgtaagactattaccttttatggcatctctcatgattggggccaaatggca Alignment from Pairagon ATCAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTG-CATCAAGGAAAAG aagtctcagatgccctcctattgatttccgctgtccactcttgttctcagACCAGTATCAAGGGAGTACACCAGTGGCCTCTGGAGTTTATCGTCTGCCATCAAGGAAAGGgtaagactattaccttttatggcatctctcatgattggggccaaatggca Alignment from Exonerate_protein2genome ATCAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTG-CATCAAGGAAAAG aagtctcagatgccctcctattgatttccgctgtccactcttgttctcagACCAGTATCAAGGGAGTACACCAGTGGCCTCTGGAGTTTATCGTCTGCCATCAAGGAAAGGgtaagactattaccttttatggcatctctcatgattggggccaaatggca Alignment from Exonerate_coding2genome aagtctcagatgccctcctattgatttccgctgtccactcttgttctcagaccagtatcaagggagtacaccagtggcctctggagtttatcgtctgccatcaaggaaagggtaagactattaccttttatggcatctctcatgattggggccaaatggca Alignment from GeneWise ATCAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTAT- aagtctcagatgccctcctattgatttccgctgtccactcttgttctcagACCAGTATCAAGGGAGTACACCAGTGGCCTCTGGAGTTTATCgtctgccatcaaggaaagggtaagactattaccttttatggcatctctcatgattggggccaaatggca #### Sfxn3_ID9286_4 --> 1 - 0 Original Alignment gCAGTTGGGGACAGCCTATGTGAGTGCCACC-ACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG ctagtttccagcctaaacttggtagcttatgaactgttctgtctcttcaggCCGTTAGGGACAGCCTATGTGAGTGCCACCCACTGGAGCTGTGGCTACGGCCCTGGGACTAAAGTCTCTGACCAAGgtacgctttccctccttctttctaaagttccacctttacgaggtcaccac Alignment from CESAR gCAGTTGGGGACAGCCTATGTGAGTGCCACC-ACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG ctagtttccagcctaaacttggtagcttatgaactgttctgtctcttcaggCCGTTAGGGACAGCCTATGTGAGTGCCACCCACTGGAGCTGTGGCTACGGCCCTGGGACTAAAGTCTCTGACCAAGgtacgctttccctccttctttctaaagttccacctttacgaggtcaccac Alignment from Spaln_aa2Genome GCAGTTGGGGACAGCCTATGTGAGTGCCACC-ACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG ctagtttccagcctaaacttggtagcttatgaactgttctgtctcttcagGCCGTTAGGGACAGCCTATGTGAGTGCCACCcACTGGAGCTGTGGCTACGGCCCTGGGACTAAAGTCTCTGACCAAGgtacgctttccctccttctttctaaagttccacctttacgaggtcaccac Alignment from Spaln_nt2Genome GCAGTTGGGGACAGCCTATGTGAGTGCCAC-CACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG ctagtttccagcctaaacttggtagcttatgaactgttctgtctcttcagGCCGTTAGGGACAGCCTATGTGAGTGCCACCCACTGGAGCTGTGGCTACGGCCCTGGGACTAAAGTCTCTGACCAAGgtacgctttccctccttctttctaaagttccacctttacgaggtcaccac Alignment from Pairagon GTGCAGCAGTTGGGGACAGCCTATGTGAGTGCCA-CCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG ctagtttccagcctaaacttggtagcttatgaactgttctgtctcttcag-----GCCGTTAGGGACAGCCTATGTGAGTGCCACCCACTGGAGCTGTGGCTACGGCCCTGGGACTAAAGTCTCTGACCAAGgtacgctttccctccttctttctaaagttccacctttacgaggtcaccac Alignment from Exonerate_protein2genome GCAGTTGGGGACAGCCTATGTGAGTGCCACC-ACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG ctagtttccagcctaaacttggtagcttatgaactgttctgtctcttcagGCCGTTAGGGACAGCCTATGTGAGTGCCACCCACTGGAGCTGTGGCTACGGCCCTGGGACTAAAGTCTCTGACCAAGgtacgctttccctccttctttctaaagttccacctttacgaggtcaccac Alignment from Exonerate_coding2genome CAGCAGTTGGGGACAGCCTATGTGAGTGCCACC-ACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG ctagtttccagcctaaacttggtagcttatgaactgttctgtctcttcAGGCCGTTAGGGACAGCCTATGTGAGTGCCACCCACTGGAGCTGTGGCTACGGCCCTGGGACTAAAGTCTCTGACCAAGgtacgctttccctccttctttctaaagttccacctttacgaggtcaccac Alignment from GeneWise GCAGTTGGGGACAGCCTATGTGAGTGCCACC-ACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG ctagtttccagcctaaacttggtagcttatgaactgttctgtctcttcagGCCGTTAGGGACAGCCTATGTGAGTGCCACCCACTGGAGCTGTGGCTACGGCCCTGGGACTAAAGTCTCTGACCAAGgtacgctttccctccttctttctaaagttccacctttacgaggtcaccac #### Sfxn3_ID9290_8 --> 0 - 2 Original Alignment CGCCGTCCCTGG-CTGGGGGCGCCCCTGCAGGTGGGACTGGTAGGCTTCtg aggaaagtagtattagtgcacagcagcagtgacacccgcttgtctttcagGGCTGTCCCTGGCCTTGGGACACCTCTGCAGGTGGGTCTGGTAGACTTCtggtaagttggatggtgcttatcaagaagccctcactgtttaggaagccatg Alignment from CESAR CGCCGTCCCTGG-CTGGGGGCGCCCCTGCAGGTGGGACTGGTAGGCTTCtg aggaaagtagtattagtgcacagcagcagtgacacccgcttgtctttcagGGCTGTCCCTGGCCTTGGGACACCTCTGCAGGTGGGTCTGGTAGACTTCtggtaagttggatggtgcttatcaagaagccctcactgtttaggaagccatg Alignment from Spaln_aa2Genome CGCCGTCCCTGG-CTGGGGGCGCCCCTGCAGGTGGGACTGGTAGGCTTCTG aggaaagtagtattagtgcacagcagcagtgacacccgcttgtctttcagGGCTGTCCCTGGcCTTGGGACACCTCTGCAGGTGGGTCTGGTAGACTTCTGgtaagttggatggtgcttatcaagaagccctcactgtttaggaagccatg Alignment from Spaln_nt2Genome CGCCGTCCCTGGC-TGGGGGCGCCCCTGCAGGTGGGACTGGTAGGCTTCTG aggaaagtagtattagtgcacagcagcagtgacacccgcttgtctttcagGGCTGTCCCTGGCCTTGGGACACCTCTGCAGGTGGGTCTGGTAGACTTCTGgtaagttggatggtgcttatcaagaagccctcactgtttaggaagccatg Alignment from Pairagon CGCCGTCCCTGG-CTGGGGGCGCCCCTGCAGGTGGGACTGGTAGGCTTCTG aggaaagtagtattagtgcacagcagcagtgacacccgcttgtctttcagGGCTGTCCCTGGCCTTGGGACACCTCTGCAGGTGGGTCTGGTAGACTTCTGgtaagttggatggtgcttatcaagaagccctcactgtttaggaagccatg Alignment from Exonerate_protein2genome CGCCGTCCCTGGCTGGGGGCGCCCCTGCAGGTGGGACTGGTAGGCTTCTG aggaaagtagtattagtgcacagcagcagtgacacccgcttgtctttcaggGCTGTCCCTGGCCTTGGGACACCTCTGCAGGTGGGTCTGGTAGACTTCTGgtaagttggatggtgcttatcaagaagccctcactgtttaggaagccatg Alignment from Exonerate_coding2genome TCCCCCGGTGATCATGAACACTCTGGAGAAGAAAGACTTCCTGAAGCGCCGTCCCTGGCTGGGGGCGCCCCTGCAGGTGGGACTGGTAGGCTTCTG aggaaAGTAGTATTAGTGCACAGCAGCAGTGACACCCGCTTGTCTTTCAGGGCTGTCCCTGGCCTTGGGACACCTCTGCAGGTGGGTCTGGTAGACTTCTGgtaagttggatggtgcttatcaagaagccctcactgtttaggaagccatg Alignment from GeneWise aggaaagtagtattagtgcacagcagcagtgacacccgcttgtctttcagggctgtccctggccttgggacacctctgcaggtgggtctggtagacttctggtaagttggatggtgcttatcaagaagccctcactgtttaggaagccatg #### Sipa1_ID1139_13 --> 2 - 2 Original Alignment gaCAACCCATCTCAGAGAGCGGA-GACCCCAAGGAAGCTTTAAAGTGTGATTCTga ggtgatgctgttcattgggctttcgcaattcgtttttttttttctttcagggCAATCAATCTCTGAAAGTGGTCGATCTCAAGGAGGCTTCAAAGTGTGATTCTgagtaagtctcttgtgatcatgttgcttaattttctgttgggtgtggcatcc Alignment from CESAR gaCAACCCATCTCAGAGAGCGGA-GACCCCAAGGAAGCTTTAAAGTGTGATTCTga ggtgatgctgttcattgggctttcgcaattcgtttttttttttctttcagggCAATCAATCTCTGAAAGTGGTCGATCTCAAGGAGGCTTCAAAGTGTGATTCTgagtaagtctcttgtgatcatgttgcttaattttctgttgggtgtggcatcc Alignment from Spaln_aa2Genome GACAACCCATCTCAGAGAGCGGA-GACCCCAAGGAAGCTTTAAAGTGTGATTCTGA ggtgatgctgttcattgggctttcgcaattcgtttttttttttctttcagGGCAATCAATCTCTGAAAGTGGTcGATCTCAAGGAGGCTTCAAAGTGTGATTCTGAgtaagtctcttgtgatcatgttgcttaattttctgttgggtgtggcatcc Alignment from Spaln_nt2Genome GACAACCCATCTCAGAGAGCGGA-GACCCCAAGGAAGCTTTAAAGTGTGATTCTGA ggtgatgctgttcattgggctttcgcaattcgtttttttttttctttcagGGCAATCAATCTCTGAAAGTGGTCGATCTCAAGGAGGCTTCAAAGTGTGATTCTGAgtaagtctcttgtgatcatgttgcttaattttctgttgggtgtggcatcc Alignment from Pairagon GACAACCCATCTCAGAGAGCGG-AGACCCCAAGGAAGCTTTAAAGTGTGATTCTGA ggtgatgctgttcattgggctttcgcaattcgtttttttttttctttcagGGCAATCAATCTCTGAAAGTGGTCGATCTCAAGGAGGCTTCAAAGTGTGATTCTGAgtaagtctcttgtgatcatgttgcttaattttctgttgggtgtggcatcc Alignment from Exonerate_protein2genome ggtgatgctgttcattgggctttcgcaattcgtttttttttttctttcagggcaatcaatctctgaaagtggtcgatctcaaggaggcttcaaagtgtgattctgagtaagtctcttgtgatcatgttgcttaattttctgttgggtgtggcatcc Alignment from Exonerate_coding2genome ggtgatgctgttcattgggctttcgcaattcgtttttttttttctttcagggcaatcaatctctgaaagtggtcgatctcaaggaggcttcaaagtgtgattctgagtaagtctcttgtgatcatgttgcttaattttctgttgggtgtggcatcc Alignment from GeneWise ggtgatgctgttcattgggctttcgcaattcgtttttttttttctttcagggcaatcaatctctgaaagtggtcgatctcaaggaggcttcaaagtgtgattctgagtaagtctcttgtgatcatgttgcttaattttctgttgggtgtggcatcc #### Sipa1_ID1141_11 --> 0 - 1 Original Alignment GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTG-CGGAATTCCATCAGTAAGa gtcaaggtcacattgagtcccatactatatgtcaactacatgttttacagGATCAATCAGGAAGCCCTAGTAGTCATGGGGATACCAGTGACTCTGGTCCAGAATTAAGGGCCCCAATCTTGCCTAGAACCTTATCAGTACCGAAATACCATCAGTAAAagtaagacaggtgacacgggttaggaacagcctcctattcatgccctgcct Alignment from CESAR GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTG-CGGAATTCCATCAGTAAGa gtcaaggtcacattgagtcccatactatatgtcaactacatgttttacagGATCAATCAGGAAGCCCTAGTAGTCATGGGGATACCAGTGACTCTGGTCCAGAATTAAGGGCCCCAATCTTGCCTAGAACCTTATCAGTACCGAAATACCATCAGTAAAagtaagacaggtgacacgggttaggaacagcctcctattcatgccctgcct Alignment from Spaln_aa2Genome GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTG-CGGAATTCCATCAGTAAGA gtcaaggtcacattgagtcccatactatatgtcaactacatgttttacagGATCAATCAGGAAGCCCTAGTAGTCATGGGGATACCAGTGACTCTGGTCCAGAATTAAGGGCCCCAATCTTGCCTAGAACCTTATCAGTAcCGAAATACCATCAGTAAAAgtaagacaggtgacacgggttaggaacagcctcctattcatgccctgcct Alignment from Spaln_nt2Genome GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATT-CCATCAGTAAGA gtcaaggtcacattgagtcccatactatatgtcaactacatgttttacagGATCAATCAGGAAGCCCTAGTAGTCATGGGGATACCAGTGACTCTGGTCCAGAATTAAGGGCCCCAATCTTGCCTAGAACCTTATCAGTACCGAAATACCATCAGTAAAAgtaagacaggtgacacgggttaggaacagcctcctattcatgccctgcct Alignment from Pairagon GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTG-CGGAATTCCATCAGTAAGA gtcaaggtcacattgagtcccatactatatgtcaactacatgttttacagGATCAATCAGGAAGCCCTAGTAGTCATGGGGATACCAGTGACTCTGGTCCAGAATTAAGGGCCCCAATCTTGCCTAGAACCTTATCAGTACCGAAATACCATCAGTAAAAgtaagacaggtgacacgggttaggaacagcctcctattcatgccctgcct Alignment from Exonerate_protein2genome GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTG-CGGAATTCCATCAGTAAGA gtcaaggtcacattgagtcccatactatatgtcaactacatgttttacagGATCAATCAGGAAGCCCTAGTAGTCATGGGGATACCAGTGACTCTGGTCCAGAATTAAGGGCCCCAATCTTGCCTAGAACCTTATCAGTACCGAAATACCATCAGTAAAAgtaagacaggtgacacgggttaggaacagcctcctattcatgccctgcct Alignment from Exonerate_coding2genome gtcaaggtcacattgagtcccatactatatgtcaactacatgttttacaggatcaatcaggaagccctagtagtcatggggataccagtgactctggtccagaattaagggccccaatcttgcctagaaccttatcagtaccgaaataccatcagtaaaagtaagacaggtgacacgggttaggaacagcctcctattcatgccctgcct Alignment from GeneWise GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTG------------CG gtcaaggtcacattgagtcccatactatatgtcaactacatgttttacagGATCAATCAGGAAGCCCTAGTAGTCATGGGGATACCAGTGACTCTGGTCCAGAATTAAGGGCCCCAATCTTGCCTAGAACCTTATCAGTACCGAAATACCATCAgtaaaagtaagacaggtgacacgggttaggaacagcctcctattcatgccctgcct #### Sipa1_ID1142_10 --> 1 - 0 Original Alignment cTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCA-GACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ggagaggtgcttatgcaggagaatagtccgtttaccctctgcttctccagcTCCCTGACTGATGAGGTCCCTGTCCTACCCAAGATTACACCACGACCTCCTACTGATTACAACAGCTAACACTTCCGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtgtgtagggaggtgtaggctctactaacacatagcccactgtcaaggtc Alignment from CESAR cTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCA-GACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ggagaggtgcttatgcaggagaatagtccgtttaccctctgcttctccagcTCCCTGACTGATGAGGTCCCTGTCCTACCCAAGATTACACCACGACCTCCTACTGATTACAACAGCTAACACTTCCGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtgtgtagggaggtgtaggctctactaacacatagcccactgtcaaggtc Alignment from Spaln_aa2Genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCA-GACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ggagaggtgcttatgcaggagaatagtccgtttaccctctgcttctccagCTCCCTGACTGATGAGGTCCCTGTCCTACCCAAGATTACACCAcGACCTCCTACTGATTACAACAGCTAACACTTCCGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtgtgtagggaggtgtaggctctactaacacatagcccactgtcaaggtc Alignment from Spaln_nt2Genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCA-GACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ggagaggtgcttatgcaggagaatagtccgtttaccctctgcttctccagCTCCCTGACTGATGAGGTCCCTGTCCTACCCAAGATTACACCACGACCTCCTACTGATTACAACAGCTAACACTTCCGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtgtgtagggaggtgtaggctctactaacacatagcccactgtcaaggtc Alignment from Pairagon CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCA-----ACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ggagaggtgcttatgcaggagaatagtccgtttaccctctgcttctccagCTCCCTGACTGATGAGGTCCCTGTCCTACCCAAGATTACACCAC----GACCTCCTACTGATTACAACAGCTAACACTTCCGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtgtgtagggaggtgtaggctctactaacacatagcccactgtcaaggtc Alignment from Exonerate_protein2genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCA-GACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ggagaggtgcttatgcaggagaatagtccgtttaccctctgcttctccagCTCCCTGACTGATGAGGTCCCTGTCCTACCCAAGATTACACCACGACCTCCTACTGATTACAACAGCTAACACTTCCGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtgtgtagggaggtgtaggctctactaacacatagcccactgtcaaggtc Alignment from Exonerate_coding2genome ggagaggtgcttatgcaggagaatagtccgtttaccctctgcttctccagctccctgactgatgaggtccctgtcctacccaagattacaccacgacctcctactgattacaacagctaacacttccgcccctgatactgatagagaaacaccaccttcccaggtgtgtagggaggtgtaggctctactaacacatagcccactgtcaaggtc Alignment from GeneWise CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCA-GACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ggagaggtgcttatgcaggagaatagtccgtttaccctctgcttctccagCTCCCTGACTGATGAGGTCCCTGTCCTACCCAAGATTACACCACGACCTCCTACTGATTACAACAGCTAACACTTCCGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtgtgtagggaggtgtaggctctactaacacatagcccactgtcaaggtc #### Sipa1_ID1146_6 --> 0 - 2 Original Alignment CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCG-CATGCTCCCTGCACCCCACACACCTCATACag cttgagccactgaaactcaggtatttttacgaactttattttacacttagCTACTAAGGAAATGTCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTAAGACAGTATGCTCTCACTTCCCACACGTTTTCTTGGTGGTGCGAGCACTATGCATCTTGCACTCCCCACACATCATACaggtaataatttggttaagctggggtctcagggatgggtaagttgtcatggt Alignment from CESAR CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCG-CATGCTCCCTGCACCCCACACACCTCATACag cttgagccactgaaactcaggtatttttacgaactttattttacacttagCTACTAAGGAAATGTCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTAAGACAGTATGCTCTCACTTCCCACACGTTTTCTTGGTGGTGCGAGCACTATGCATCTTGCACTCCCCACACATCATACaggtaataatttggttaagctggggtctcagggatgggtaagttgtcatggt Alignment from Spaln_aa2Genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCG-CATGCTCCCTGCACCCCACACACCTCATACAG cttgagccactgaaactcaggtatttttacgaactttattttacacttagCTACTAAGGAAATGTCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTAAGACAGTATGCTCTCACTTCCCACACGTTTTCTTGGTGGTGCGAGCAcTATGCATCTTGCACTCCCCACACATCATACAGgtaataatttggttaagctggggtctcagggatgggtaagttgtcatggt Alignment from Spaln_nt2Genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGC-ATGCTCCCTGCACCCCACACACCTCATACAG cttgagccactgaaactcaggtatttttacgaactttattttacacttagCTACTAAGGAAATGTCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTAAGACAGTATGCTCTCACTTCCCACACGTTTTCTTGGTGGTGCGAGCACTATGCATCTTGCACTCCCCACACATCATACAGgtaataatttggttaagctggggtctcagggatgggtaagttgtcatggt Alignment from Pairagon CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGC-ATGCTCCCTGCACCCCACACACCTCATACAG cttgagccactgaaactcaggtatttttacgaactttattttacacttagCTACTAAGGAAATGTCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTAAGACAGTATGCTCTCACTTCCCACACGTTTTCTTGGTGGTGCGAGCACTATGCATCTTGCACTCCCCACACATCATACAGgtaataatttggttaagctggggtctcagggatgggtaagttgtcatggt Alignment from Exonerate_protein2genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCG-CATGCTCCCTGCACCCCACACACCTCATACAG cttgagccactgaaactcaggtatttttacgaactttattttacacttagCTACTAAGGAAATGTCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTAAGACAGTATGCTCTCACTTCCCACACGTTTTCTTGGTGGTGCGAGCACTATGCATCTTGCACTCCCCACACATCATACAGgtaataatttggttaagctggggtctcagggatgggtaagttgtcatggt Alignment from Exonerate_coding2genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCG-CATGCTCCCTGCACCCCACACACCTCATACAG cttgagccactgaaactcaggtatttttacgaactttattttacacttagCTACTAAGGAAATGTCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTAAGACAGTATGCTCTCACTTCCCACACGTTTTCTTGGTGGTGCGAGCACTATGCATCTTGCACTCCCCACACATCATACAGgtaataatttggttaagctggggtctcagggatgggtaagttgtcatggt Alignment from GeneWise CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCG-CATGCTCCCTGCACCCCACACACCTCATACAG cttgagccactgaaactcaggtatttttacgaactttattttacacttagCTACTAAGGAAATGTCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTAAGACAGTATGCTCTCACTTCCCACACGTTTTCTTGGTGGTGCGAGCACTATGCATCTTGCACTCCCCACACATCATACAGgtaataatttggttaagctggggtctcagggatgggtaagttgtcatggt #### Slc15a3_ID3029_4 --> 0 - 0 Original Alignment ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATC-TCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ctagggctctactgctaggtgtactgaccctttctttgtctggtctgtagATGCAGTCAACTTATATCCTCCAAGGACTACACCTCCATATCCCAAACATCTTTAGGACC---CCTAACATACTCTCTCTTGCTGAGATCAGACAGCAGTAACTACAGAgtgagttgcttgtccaaaactacatggttatatcacagtcactgaagaaa Alignment from CESAR ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATC-TCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ctagggctctactgctaggtgtactgaccctttctttgtctggtctgtagATGCAGTCAACTTATATCCTCCAAGGACTACACCTCCATATCCCAAACATCTTTAGGACC---CCTAACATACTCTCTCTTGCTGAGATCAGACAGCAGTAACTACAGAgtgagttgcttgtccaaaactacatggttatatcacagtcactgaagaaa Alignment from Spaln_aa2Genome ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATC-TCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ctagggctctactgctaggtgtactgaccctttctttgtctggtctgtagATGCAGTCAACTTATATCCTCCAAGGACTACACCTCCATATCCCAAACATCTTTAGGACC---CCTAACATAcTCTCTCTTGCTGAGATCAGACAGCAGTAACTACAGAgtgagttgcttgtccaaaactacatggttatatcacagtcactgaagaaa Alignment from Spaln_nt2Genome ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACAT-CTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ctagggctctactgctaggtgtactgaccctttctttgtctggtctgtagATGCAGTCAACTTATATCCTCCAAGGACTACACCTCCATATCCCAAACATCTTTAGGAC---CCCTAACATACTCTCTCTTGCTGAGATCAGACAGCAGTAACTACAGAgtgagttgcttgtccaaaactacatggttatatcacagtcactgaagaaa Alignment from Pairagon ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACAT-CTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ctagggctctactgctaggtgtactgaccctttctttgtctggtctgtagATGCAGTCAACTTATATCCTCCAAGGACTACACCTCCATATCCCAAACATCTTTAGGAC---CCCTAACATACTCTCTCTTGCTGAGATCAGACAGCAGTAACTACAGAgtgagttgcttgtccaaaactacatggttatatcacagtcactgaagaaa Alignment from Exonerate_protein2genome ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATC-TCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ctagggctctactgctaggtgtactgaccctttctttgtctggtctgtagATGCAGTCAACTTATATCCTCCAAGGACTACACCTCCATATCCCAAACATCTTTAGGACC---CCTAACATACTCTCTCTTGCTGAGATCAGACAGCAGTAACTACAGAgtgagttgcttgtccaaaactacatggttatatcacagtcactgaagaaa Alignment from Exonerate_coding2genome ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATC-TCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ctagggctctactgctaggtgtactgaccctttctttgtctggtctgtagATGCAGTCAACTTATATCCTCCAAGGACTACACCTCCATATCCCAAACATCTTTAGGACC---CCTAACATACTCTCTCTTGCTGAGATCAGACAGCAGTAACTACAGAgtgagttgcttgtccaaaactacatggttatatcacagtcactgaagaaa Alignment from GeneWise ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATC-TCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ctagggctctactgctaggtgtactgaccctttctttgtctggtctgtagATGCAGTCAACTTATATCCTCCAAGGACTACACCTCCATATCCCAAACATCTTTAGGACC---CCTAACATACTCTCTCTTGCTGAGATCAGACAGCAGTAACTACAGAgtgagttgcttgtccaaaactacatggttatatcacagtcactgaagaaa #### Slc18a2_ID12939_7 --> 2 - 0 Original Alignment ctATTCAGCTCTTTGTGCTCCAGCCA-TCCCGAGTGCAGCCAGAA gccaagtatgggatacccatggtatgattgcccattatctccctctccagctATTCAACTCTTTGTAATTCAA---CTCCTGCATACTTCCGGATgtaaggagctgggaattcagcctagtgtctttcccgagctatctgccaca Alignment from CESAR ctATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA gccaagtatgggatacccatggtatgattgcccattatctccctctccagctATTCAACTCTTTGTAATTCAA--CTCCTGCATACTTCCGGATgtaaggagctgggaattcagcctagtgtctttcccgagctatctgccaca Alignment from Spaln_aa2Genome CTATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCA---GAAAG gccaagtatgggatacccatggtatgattgcccattatctccctctccagCTATTCAACTCTTTGTAATTCAACTCCTGCATACTTCCGGATGTAAGGAgctgggaattcagcctagtgtctttcccgagctatctgccaca Alignment from Spaln_nt2Genome CTATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA gccaagtatgggatacccatggtatgattgcccattatctccctctccagCTATTCAACTCTTTGTAATTCAAC--TCCTGCATACTTCCGGATgtaaggagctgggaattcagcctagtgtctttcccgagctatctgccaca Alignment from Pairagon CTATTCAGCTCTTT gccaagtatgggatacccatggtatgattgcccattatctccctctccagCTATTCAACTCTTTgtaattcaactcctgcatacttccggatgtaaggagctgggaattcagcctagtgtctttcccgagctatctgccaca Alignment from Exonerate_protein2genome CTATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAAAG gccaagtatgggatacccatggtatgattgcccattatctccctctccagCTATTCAACTCTTTGTAATTCAACTCCTGCATACTTCCGGATGTAAggagctgggaattcagcctagtgtctttcccgagctatctgccaca Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise gccaagtatgggatacccatggtatgattgcccattatctccctctccagctattcaactctttgtaattcaactcctgcatacttccggatgtaaggagctgggaattcagcctagtgtctttcccgagctatctgccaca #### Slc22a20_ID1351_2 --> 0 - 2 Original Alignment TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTG-GGAGCCGCCTTGTTTGGTGGTCTTGCTGACag gcttaaccacacaaccatagcgcagtgagtccccttctctcccatcccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCATCTATCTATATGTCTGGAATATCAGTACGGCGCTGCCTTGTTTGGTTGTGTAGCAGACaggtagggaacttggacgggaacatctattcccttactcttaattgtaagtt Alignment from CESAR TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTG-GGAGCCGCCTTGTTTGGTGGTCTTGCTGACag gcttaaccacacaaccatagcgcagtgagtccccttctctcccatcccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCATCTATCTATATGTCTGGAATATCAGTACGGCGCTGCCTTGTTTGGTTGTGTAGCAGACaggtagggaacttggacgggaacatctattcccttactcttaattgtaagtt Alignment from Spaln_aa2Genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTG-GGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gcttaaccacacaaccatagcgcagtgagtccccttctctcccatcccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCATCTATCTATATGTCTGGAATATCAGTAcGGCGCTGCCTTGTTTGGTTGTGTAGCAGACAGgtagggaacttggacgggaacatctattcccttactcttaattgtaagtt Alignment from Spaln_nt2Genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTG-GGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gcttaaccacacaaccatagcgcagtgagtccccttctctcccatcccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCATCTATCTATATGTCTGGAATATCAGTACGGCGCTGCCTTGTTTGGTTGTGTAGCAGACAGgtagggaacttggacgggaacatctattcccttactcttaattgtaagtt Alignment from Pairagon TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTG------------GGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gcttaaccacacaaccatagcgcagtgagtccccttctctcccatcccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCATCTATCTATATGTC-----------TGGAATATCAGTACGGCGCTGCCTTGTTTGGTTGTGTAGCAGACAGgtagggaacttggacgggaacatctattcccttactcttaattgtaagtt Alignment from Exonerate_protein2genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTG-GGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gcttaaccacacaaccatagcgcagtgagtccccttctctcccatcccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCATCTATCTATATGTCTGGAATATCAGTACGGCGCTGCCTTGTTTGGTTGTGTAGCAGACAGgtagggaacttggacgggaacatctattcccttactcttaattgtaagtt Alignment from Exonerate_coding2genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTG-GGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gcttaaccacacaaccatagcgcagtgagtccccttctctcccatcccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCATCTATCTATATGTCTGGAATATCAGTACGGCGCTGCCTTGTTTGGTTGTGTAGCAGACAGgtagggaacttggacgggaacatctattcccttactcttaattgtaagtt Alignment from GeneWise TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTG-TTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gcttaaccacacaaccatagcgcagtgagtccccttctctcccatcccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCATCTATCTATATGTCTGGAATATCAGTACGGCGCTGCCTTGTTTGGTTGTGTAGCAGACAGgtagggaacttggacgggaacatctattcccttactcttaattgtaagtt #### Slc22a6_ID2281_2 --> 0 - 2 Original Alignment TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATG---ATGTTT-GGCTACCTGGCGGACag gctactaaaattgacatatttcagtgcagagttatgtttgttctgcccagTGGAACCTT---TGCTCCCATAGAGCCTTTCACCGATTGGCCCAGTCACTGTTCATGGTAGGAGTG---TTTGGTGCCATGATGTTGTTTCGGTTACCTTTCAGATaggttggctaacaagtattcatgcacggggtagatgaacccattatagccca Alignment from CESAR TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATG----TTTGGCTACCTGGCGGACag gctactaaaattgacatatttcagtgcagagttatgtttgttctgcccagTGGAACCTT---TGCTCCCATAGAGCCTTTCACCGATTGGCCCAGTCACTGTTCATGGTAGGAGTGTTT---GGTGCCATGATGTTGTTTCGGTTACCTTTCAGATaggttggctaacaagtattcatgcacggggtagatgaacccattatagccca Alignment from Spaln_aa2Genome TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATG----TTTGGCTACCTGGCGGACAG gctactaaaattgacatatttcagtgcagagttatgtttgttctgcccagTGGAACCTT---TGCTCCCATAGAGCCTTTCACCGATTGGCCCAGTCACTGTTCATGGTAGGAGTG---TTTGGTGCCATGATGTTGtTTCGGTTACCTTTCAGATAGgttggctaacaagtattcatgcacggggtagatgaacccattatagccca Alignment from Spaln_nt2Genome TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATGTTT----GGCTACCTGGCGGACAG gctactaaaattgacatatttcagtgcagagttatgtttgttctgcccagTGGAACCTT---TGCTCCCATAGAGCCTTTCACCGATTGGCCCAGTCACTGTTCATGGTAGGAGTGT---TTGGTGCCATGATGTTGTTTCGGTTACCTTTCAGATAGgttggctaacaagtattcatgcacggggtagatgaacccattatagccca Alignment from Pairagon TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATG----TTTGGCTACCTGGCGGACAG gctactaaaattgacatatttcagtgcagagttatgtttgttctgcccagTGGAACCTT---TGCTCCCATAGAGCCTTTCACCGATTGGCCCAGTCACTGTTCATGGTAGGAGTGT---TTGGTGCCATGATGTTGTTTCGGTTACCTTTCAGATAGgttggctaacaagtattcatgcacggggtagatgaacccattatagccca Alignment from Exonerate_protein2genome TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATG----TTTGGCTACCTGGCGGACAG gctactaaaattgacatatttcagtgcagagttatgtttgttctgcccagTGGAACCTT---TGCTCCCATAGAGCCTTTCACCGATTGGCCCAGTCACTGTTCATGGTAGGAGTG---TTTGGTGCCATGATGTTGTTTCGGTTACCTTTCAGATAGgttggctaacaagtattcatgcacggggtagatgaacccattatagccca Alignment from Exonerate_coding2genome gctactaaaattgacatatttcagtgcagagttatgtttgttctgcccagtggaacctttgctcccatagagcctttcaccgattggcccagtcactgttcatggtaggagtgtttggtgccatgatgttgtttcggttacctttcagataggttggctaacaagtattcatgcacggggtagatgaacccattatagccca Alignment from GeneWise TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATG-ATGTTTGGCTACCTGGCGGACAG gctactaaaattgacatatttcagtgcagagttatgtttgttctgcccagTGGAACCTT---TGCTCCCATAGAGCCTTTCACCGATTGGCCCAGTCACTGTTCATGGTAGGAGTGTTTGGTGCCATGATGTTGTTTCGGTTACCTTTCAGATAGgttggctaacaagtattcatgcacggggtagatgaacccattatagccca #### Slc22a6_ID2284_5 --> 1 - 0 Original Alignment gTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGAC-CTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaactaaataacttactatactgatttcgatttaatgtgctttattttaggTTCTTCATTGAGTCAACACGGTGGTACTCATCATCCGGTAGGCTAGACCTTCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTATCAATGCAAAACAAGAAGAAGGGCCTAAACTGTGCATTGAGgtaggatctagcactatcatgctcagacgggatctgcattactcctagac Alignment from CESAR gTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTC-ACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaactaaataacttactatactgatttcgatttaatgtgctttattttaggTTCTTCATTGAGTCAACACGGTGGTACTCATCATCCGGTAGGCTAGACCTTCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTATCAATGCAAAACAAGAAGAAGGGCCTAAACTGTGCATTGAGgtaggatctagcactatcatgctcagacgggatctgcattactcctagac Alignment from Spaln_aa2Genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTC-ACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaactaaataacttactatactgatttcgatttaatgtgctttattttagGTTCTTCATTGAGTCAACACGGTGGTACTCATCATCCGGTAGGCTAGACCTTcACCCTCCGAGCTTTGCAGAGAGTGGCTTGTATCAATGCAAAACAAGAAGAAGGGCCTAAACTGTGCATTGAGgtaggatctagcactatcatgctcagacgggatctgcattactcctagac Alignment from Spaln_nt2Genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCT-CACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaactaaataacttactatactgatttcgatttaatgtgctttattttagGTTCTTCATTGAGTCAACACGGTGGTACTCATCATCCGGTAGGCTAGACCTTCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTATCAATGCAAAACAAGAAGAAGGGCCTAAACTGTGCATTGAGgtaggatctagcactatcatgctcagacgggatctgcattactcctagac Alignment from Pairagon GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACC-TCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaactaaataacttactatactgatttcgatttaatgtgctttattttagGTTCTTCATTGAGTCAACACGGTGGTACTCATCATCCGGTAGGCTAGACCTTCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTATCAATGCAAAACAAGAAGAAGGGCCTAAACTGTGCATTGAGgtaggatctagcactatcatgctcagacgggatctgcattactcctagac Alignment from Exonerate_protein2genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTC-ACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaactaaataacttactatactgatttcgatttaatgtgctttattttagGTTCTTCATTGAGTCAACACGGTGGTACTCATCATCCGGTAGGCTAGACCTTCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTATCAATGCAAAACAAGAAGAAGGGCCTAAACTGTGCATTGAGgtaggatctagcactatcatgctcagacgggatctgcattactcctagac Alignment from Exonerate_coding2genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTC-ACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaactaaataacttactatactgatttcgatttaatgtgctttattttagGTTCTTCATTGAGTCAACACGGTGGTACTCATCATCCGGTAGGCTAGACCTTCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTATCAATGCAAAACAAGAAGAAGGGCCTAAACTGTGCATTGAGgtaggatctagcactatcatgctcagacgggatctgcattactcctagac Alignment from GeneWise GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGAC-CTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaactaaataacttactatactgatttcgatttaatgtgctttattttagGTTCTTCATTGAGTCAACACGGTGGTACTCATCATCCGGTAGGCTAGACCTTCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTATCAATGCAAAACAAGAAGAAGGGCCTAAACTGTGCATTGAGgtaggatctagcactatcatgctcagacgggatctgcattactcctagac #### Slc22a8_ID2270_3 --> 1 - 1 Original Alignment gTTTGGCCGCAAGCCCATCCTGACCTGGAGCTATCTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCC---AGCCTCACTGTC---TATATGATCTTCCGATTCCTGTGTGGCTGCAGCATC-TCGGGCATTTCTCTG---AGCACCATTATCTTGa gatggccccaaaagcatgttgtcaagccacctcctcctccttctcctcagaTTTGGTCACCAGCCCATTCTTACCTGGAGTTATTTGTTGCTAACTGCAAGTGCTTGCAGTGGTGTTTTTAGCCCCACTAGCCTTACCATTTTTTATATTCTTTTCCAAGTTCTATGCAGTTGCAGCATCCTCAGGCATTTCTTTGAGGTGTACAACTACTCTAagtgagaccatagtattgctagagcaggcactttatgtggccttgggtagg Alignment from CESAR gTTTGGCCGCAAGCCCATCCTGACCTGGAGCTATCTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCC---AGCCTCACTGTC---TATATGATCTTCCGATTCCTGTGTGGCTGCAGCATC-TCGGGCATTTCTCTG---AGCACCATTATCTTGa gatggccccaaaagcatgttgtcaagccacctcctcctccttctcctcagaTTTGGTCACCAGCCCATTCTTACCTGGAGTTATTTGTTGCTAACTGCAAGTGCTTGCAGTGGTGTTTTTAGCCCCACTAGCCTTACCATTTTTTATATTCTTTTCCAAGTTCTATGCAGTTGCAGCATCCTCAGGCATTTCTTTGAGGTGTACAACTACTCTAagtgagaccatagtattgctagagcaggcactttatgtggccttgggtagg Alignment from Spaln_aa2Genome GTTTGGCCGCAAGCCCATCCTGACCTGGAGCTATCTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCC---AGCCTCACTGTC---TATATGATCTTCCGATTCCTGTGTGGCTGCAGCATC-TCGGGCATTTCTCTG---AGCACCATTATCTTGA gatggccccaaaagcatgttgtcaagccacctcctcctccttctcctcagATTTGGTCACCAGCCCATTCTTACCTGGAGTTATTTGTTGCTAACTGCAAGTGCTTGCAGTGGTGTTTTTAGCCCCACTAGCCTTACCATTTTTTATATTCTTTTCCAAGTTCTATGCAGTTGCAGCATCcTCAGGCATTTCTTTGAGGTGTACAACTACTCTAAgtgagaccatagtattgctagagcaggcactttatgtggccttgggtagg Alignment from Spaln_nt2Genome GTTTGGCCGCAAGCCCATCCTGACCTGGAGCTATCTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCCA---GCCTCAC---TGTCTATATGATCTTCCGATTCCTGTGTGGCTGCAGCATC-TCGGGCATTTCTCTGAGC---ACCATTATCTTGA gatggccccaaaagcatgttgtcaagccacctcctcctccttctcctcagATTTGGTCACCAGCCCATTCTTACCTGGAGTTATTTGTTGCTAACTGCAAGTGCTTGCAGTGGTGTTTTTAGCCCCACTAGCCTTACCATTTTTTATATTCTTTTCCAAGTTCTATGCAGTTGCAGCATCCTCAGGCATTTCTTTGAGGTGTACAACTACTCTAAgtgagaccatagtattgctagagcaggcactttatgtggccttgggtagg Alignment from Pairagon GTTTGGCCGCAAGCCCATCCTGACCTGGAGCTATCTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCC---AGCCT---CACTGTCTATATGATCTTCCGATTCCTGTGTGGCTGCAGCAT-CTCGGGCATTTCTCTGAG gatggccccaaaagcatgttgtcaagccacctcctcctccttctcctcagATTTGGTCACCAGCCCATTCTTACCTGGAGTTATTTGTTGCTAACTGCAAGTGCTTGCAGTGGTGTTTTTAGCCCCACTAGCCTTACCATTTTTTATATTCTTTTCCAAGTTCTATGCAGTTGCAGCATCCTCAGGCATTTCTTTGAGgtgtacaactactctaagtgagaccatagtattgctagagcaggcactttatgtggccttgggtagg Alignment from Exonerate_protein2genome GTTTGGCCGCAAGCCCATCCTGACCTGGAGCTATCTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCC---AGCCTCACTGTC---TATATGATCTTCCGATTCCTGTGTGGCTGCAGCATC-TCGGGCATTTCTCTG---AGCACCATTATCTTGA gatggccccaaaagcatgttgtcaagccacctcctcctccttctcctcagATTTGGTCACCAGCCCATTCTTACCTGGAGTTATTTGTTGCTAACTGCAAGTGCTTGCAGTGGTGTTTTTAGCCCCACTAGCCTTACCATTTTTTATATTCTTTTCCAAGTTCTATGCAGTTGCAGCATCCTCAGGCATTTCTTTGAGGTGTACAACTACTCTAAgtgagaccatagtattgctagagcaggcactttatgtggccttgggtagg Alignment from Exonerate_coding2genome gatggccccaaaagcatgttgtcaagccacctcctcctccttctcctcagatttggtcaccagcccattcttacctggagttatttgttgctaactgcaagtgcttgcagtggtgtttttagccccactagccttaccattttttatattcttttccaagttctatgcagttgcagcatcctcaggcatttctttgaggtgtacaactactctaagtgagaccatagtattgctagagcaggcactttatgtggccttgggtagg Alignment from GeneWise GTTTGGCCGCAAGCCCATCCTGACCTGGAGCTATCTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCC---AGCCTCACTGTC---TATATGATCTTCCGATTCCTGTGTGGCTGCAGCATCTCGGGC------------ gatggccccaaaagcatgttgtcaagccacctcctcctccttctcctcagATTTGGTCACCAGCCCATTCTTACCTGGAGTTATTTGTTGCTAACTGCAAGTGCTTGCAGTGGTGTTTTTAGCCCCACTAGCCTTACCATTTTTTATATTCTTTTCCAAGTTCTATGCAGTTGCAGCATCCTCAGGCATTTCTTTGAGgtgtacaactactctaagtgagaccatagtattgctagagcaggcactttatgtggccttgggtagg #### Slc22a8_ID2276_9 --> 1 - 2 Original Alignment gCAAACAGGTATGGGTATCAGTAACATATGG-GCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACtg aaattcagtatgagtggaccagactctcttatttgggccttttcttccaggCAAACAGGCATGGGTATCAGTAATATATGGCGCTCGGGTAGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGTGAACTGCAGTTTTTCACTCCTAATGTCATCTTCGGTACCATG---CTACTTGGAGGCAGTGCTGCATTCTTTCTACTTGAAACCTTAAATAGATCTCTACCAGAGACCATAAAGGACATACAAGATtggtaagctcccttagccccttgacttttgttacacacagttaacccagtag Alignment from CESAR gCAAACAGGTATGGGTATCAGTAACATATGG-GCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACtg aaattcagtatgagtggaccagactctcttatttgggccttttcttccaggCAAACAGGCATGGGTATCAGTAATATATGGCGCTCGGGTAGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGTGAACTGCAGTTTTTCACTCCTAATGTCATCTTCGGTACCATG---CTACTTGGAGGCAGTGCTGCATTCTTTCTACTTGAAACCTTAAATAGATCTCTACCAGAGACCATAAAGGACATACAAGATtggtaagctcccttagccccttgacttttgttacacacagttaacccagtag Alignment from Spaln_aa2Genome GCAAACAGGTATGGGTATCAGTAACATATGG-GCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG aaattcagtatgagtggaccagactctcttatttgggccttttcttccagGCAAACAGGCATGGGTATCAGTAATATATGGcGCTCGGGTAGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGTGAACTGCAGTTTTTCACTCCTAATGTCATCTTCGGTACCATG---CTACTTGGAGGCAGTGCTGCATTCTTTCTACTTGAAACCTTAAATAGATCTCTACCAGAGACCATAAAGGACATACAAGATTGgtaagctcccttagccccttgacttttgttacacacagttaacccagtag Alignment from Spaln_nt2Genome GCAAACAGGTATGGGTATCAGTAACATATGG-GCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG aaattcagtatgagtggaccagactctcttatttgggccttttcttccagGCAAACAGGCATGGGTATCAGTAATATATGGCGCTCGGGTAGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGTGAACTGCAGTTTTTCACTCCTAATGTCATCTTCGGTACCATG---CTACTTGGAGGCAGTGCTGCATTCTTTCTACTTGAAACCTTAAATAGATCTCTACCAGAGACCATAAAGGACATACAAGATTGgtaagctcccttagccccttgacttttgttacacacagttaacccagtag Alignment from Pairagon GCAAACAGGTATGGGTATCAGTAACATATGG-GCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG aaattcagtatgagtggaccagactctcttatttgggccttttcttccagGCAAACAGGCATGGGTATCAGTAATATATGGCGCTCGGGTAGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGTGAACTGCAGTTTTTCACTCCTAATGTCATCTTCGGTACCATG---CTACTTGGAGGCAGTGCTGCATTCTTTCTACTTGAAACCTTAAATAGATCTCTACCAGAGACCATAAAGGACATACAAGATTGgtaagctcccttagccccttgacttttgttacacacagttaacccagtag Alignment from Exonerate_protein2genome GCAAACAGGTATGGGTATCAGTAACATATGG-GCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG aaattcagtatgagtggaccagactctcttatttgggccttttcttccagGCAAACAGGCATGGGTATCAGTAATATATGGCGCTCGGGTAGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGTGAACTGCAGTTTTTCACTCCTAATGTCATCTTCGGTACCATG---CTACTTGGAGGCAGTGCTGCATTCTTTCTACTTGAAACCTTAAATAGATCTCTACCAGAGACCATAAAGGACATACAAGATTGgtaagctcccttagccccttgacttttgttacacacagttaacccagtag Alignment from Exonerate_coding2genome GCAAACAGGTATGGGTATCAGTAACATATGG-GCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG aaattcagtatgagtggaccagactctcttatttgggccttttcttccagGCAAACAGGCATGGGTATCAGTAATATATGGCGCTCGGGTAGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGTGAACTGCAGTTTTTCACTCCTAATGTCATCTTCGGTACCATG---CTACTTGGAGGCAGTGCTGCATTCTTTCTACTTGAAACCTTAAATAGATCTCTACCAGAGACCATAAAGGACATACAAGATTGgtaagctcccttagccccttgacttttgttacacacagttaacccagtag Alignment from GeneWise GCAAACAGGTATGGGTATCAGTAACATATGG-GCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG aaattcagtatgagtggaccagactctcttatttgggccttttcttccagGCAAACAGGCATGGGTATCAGTAATATATGGCGCTCGGGTAGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGTGAACTGCAGTTTTTCACTCCTAATGTCATCTTCGGTACCATG---CTACTTGGAGGCAGTGCTGCATTCTTTCTACTTGAAACCTTAAATAGATCTCTACCAGAGACCATAAAGGACATACAAGATTGgtaagctcccttagccccttgacttttgttacacacagttaacccagtag #### Slc25a28_ID8782_3 --> 2 - 1 Original Alignment gtGCAGCCGGATGTGTGGCGACATTACTTCAT-GATGCAGCCATGAATCCAGCGGAAg ctcagtgtttagacaacatggtgtctggattccttgtgtgccggttttaggtGCAGCTGGATGTGTAGCAACACTGCTGCATCGATGCTGCAATGAATCCAGCAGAAggtaagtctccacttgctgtgttaagcttttagcctcgcctaacaggagac Alignment from CESAR gtGCAGCCGGATGTGTGGCGACATTACTTCAT-GATGCAGCCATGAATCCAGCGGAAg ctcagtgtttagacaacatggtgtctggattccttgtgtgccggttttaggtGCAGCTGGATGTGTAGCAACACTGCTGCATCGATGCTGCAATGAATCCAGCAGAAggtaagtctccacttgctgtgttaagcttttagcctcgcctaacaggagac Alignment from Spaln_aa2Genome GTGCAGCCGGATGTGTGGCGACATTACTTCAT-GATGCAGCCATGAATCCAGCGGAAG ctcagtgtttagacaacatggtgtctggattccttgtgtgccggttttagGTGCAGCTGGATGTGTAGCAACACTGCTGCATcGATGCTGCAATGAATCCAGCAGAAGgtaagtctccacttgctgtgttaagcttttagcctcgcctaacaggagac Alignment from Spaln_nt2Genome GTGCAGCCGGATGTGTGGCGACATTACTTCAT-GATGCAGCCATGAATCCAGCGGAAG ctcagtgtttagacaacatggtgtctggattccttgtgtgccggttttagGTGCAGCTGGATGTGTAGCAACACTGCTGCATCGATGCTGCAATGAATCCAGCAGAAGgtaagtctccacttgctgtgttaagcttttagcctcgcctaacaggagac Alignment from Pairagon GTGCAGCCGGATGTGTGGCGACATTACTTCAT-GATGCAGCCATGAATCCAGCGGAAG ctcagtgtttagacaacatggtgtctggattccttgtgtgccggttttagGTGCAGCTGGATGTGTAGCAACACTGCTGCATCGATGCTGCAATGAATCCAGCAGAAGgtaagtctccacttgctgtgttaagcttttagcctcgcctaacaggagac Alignment from Exonerate_protein2genome GTGCAGCCGGATGTGTGGCGACATTACTTCAT-GATGCAGCCATGAATCCAGCGGAAG ctcagtgtttagacaacatggtgtctggattccttgtgtgccggttttagGTGCAGCTGGATGTGTAGCAACACTGCTGCATCGATGCTGCAATGAATCCAGCAGAAGgtaagtctccacttgctgtgttaagcttttagcctcgcctaacaggagac Alignment from Exonerate_coding2genome ctcagtgtttagacaacatggtgtctggattccttgtgtgccggttttaggtgcagctggatgtgtagcaacactgctgcatcgatgctgcaatgaatccagcagaaggtaagtctccacttgctgtgttaagcttttagcctcgcctaacaggagac Alignment from GeneWise GTGCAGCCGGATGTGTGGCGACATTACTTCAT-GATGCAGCCATGAATCCAGCGGAAG ctcagtgtttagacaacatggtgtctggattccttgtgtgccggttttagGTGCAGCTGGATGTGTAGCAACACTGCTGCATCGATGCTGCAATGAATCCAGCAGAAGgtaagtctccacttgctgtgttaagcttttagcctcgcctaacaggagac #### Slc25a45_ID1291_2 --> 2 - 0 Original Alignment gaGCTGTGGGCCTGGTCCTGGGGCAC-CCATTCGACACTGTAAAG gaatcatgtccagggggtctggctagacccccaccccctctgctccccagggGCTGTGGGCCTGGTTCTGGGGCACCCCATTTGACACTGTAAAGgtacgcacctgctgggatgaaagcaaatatactgggatgaaggcgaatat Alignment from CESAR gaGCTGTGGGCCTGGTCCTGGGGCAC-CCATTCGACACTGTAAAG gaatcatgtccagggggtctggctagacccccaccccctctgctccccagggGCTGTGGGCCTGGTTCTGGGGCACCCCATTTGACACTGTAAAGgtacgcacctgctgggatgaaagcaaatatactgggatgaaggcgaatat Alignment from Spaln_aa2Genome GAGCTGTGGGCCTGGTCCTGGGGCAC-CCATTCGACACTGTAAAG gaatcatgtccagggggtctggctagacccccaccccctctgctccccagGGGCTGTGGGCCTGGTTCTGGGGCACcCCATTTGACACTGTAAAGgtacgcacctgctgggatgaaagcaaatatactgggatgaaggcgaatat Alignment from Spaln_nt2Genome GAGCTGTGGGCCTGGTCCTGGGGCA-CCCATTCGACACTGTAAAG gaatcatgtccagggggtctggctagacccccaccccctctgctccccagGGGCTGTGGGCCTGGTTCTGGGGCACCCCATTTGACACTGTAAAGgtacgcacctgctgggatgaaagcaaatatactgggatgaaggcgaatat Alignment from Pairagon GAGCTGTGGGCCTGGTCCTGGGGCACCC-ATTCGACACTGTAAAG gaatcatgtccagggggtctggctagacccccaccccctctgctccccagGGGCTGTGGGCCTGGTTCTGGGGCACCCCATTTGACACTGTAAAGgtacgcacctgctgggatgaaagcaaatatactgggatgaaggcgaatat Alignment from Exonerate_protein2genome GAGCTGTGGGCCTGGTCCTGGGGCAC-CCATTCGACACTGTAAAG gaatcatgtccagggggtctggctagacccccaccccctctgctccccagGGGCTGTGGGCCTGGTTCTGGGGCACCCCATTTGACACTGTAAAGgtacgcacctgctgggatgaaagcaaatatactgggatgaaggcgaatat Alignment from Exonerate_coding2genome gaatcatgtccagggggtctggctagacccccaccccctctgctccccaggggctgtgggcctggttctggggcaccccatttgacactgtaaaggtacgcacctgctgggatgaaagcaaatatactgggatgaaggcgaatat Alignment from GeneWise gaatcatgtccagggggtctggctagacccccaccccctctgctccccaggggctgtgggcctggttctggggcaccccatttgacactgtaaaggtacgcacctgctgggatgaaagcaaatatactgggatgaaggcgaatat #### Slc25a45_ID1293_4 --> 0 - 0 Original Alignment GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCC-ATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG cattccactaccaaagttttgctaatgactctctgtctcctctctcccagGTTCTAGGGTTCTTTAAAGGAATGAGTTTCCCACATAGCTACTGTAGCTCTGGTTAATTCTGTCTTGTTTGGAGTGTATAGCAACACACTCCTGGCATTAACAGCCACATCCCATCAGGAACACCAGGTTCAGCCTCCAAGCCACACAAATACCTTTATAGCAGGTTGTACAGGGGGTCTCCGGCAGgtgagtatatcatggttgaaggataactcacataccctgagtttgaagaa Alignment from CESAR GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCC-ATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG cattccactaccaaagttttgctaatgactctctgtctcctctctcccagGTTCTAGGGTTCTTTAAAGGAATGAGTTTCCCACATAGCTACTGTAGCTCTGGTTAATTCTGTCTTGTTTGGAGTGTATAGCAACACACTCCTGGCATTAACAGCCACATCCCATCAGGAACACCAGGTTCAGCCTCCAAGCCACACAAATACCTTTATAGCAGGTTGTACAGGGGGTCTCCGGCAGgtgagtatatcatggttgaaggataactcacataccctgagtttgaagaa Alignment from Spaln_aa2Genome GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCC-ATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG cattccactaccaaagttttgctaatgactctctgtctcctctctcccagGTTCTAGGGTTCTTTAAAGGAATGAGTTTCCCAcATAGCTACTGTAGCTCTGGTTAATTCTGTCTTGTTTGGAGTGTATAGCAACACACTCCTGGCATTAACAGCCACATCCCATCAGGAACACCAGGTTCAGCCTCCAAGCCACACAAATACCTTTATAGCAGGTTGTACAGGGGGTCTCCGGCAGgtgagtatatcatggttgaaggataactcacataccctgagtttgaagaa Alignment from Spaln_nt2Genome GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCC-CATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG cattccactaccaaagttttgctaatgactctctgtctcctctctcccagGTTCTAGGGTTCTTTAAAGGAATGAGTTTCCCACATAGCTACTGTAGCTCTGGTTAATTCTGTCTTGTTTGGAGTGTATAGCAACACACTCCTGGCATTAACAGCCACATCCCATCAGGAACACCAGGTTCAGCCTCCAAGCCACACAAATACCTTTATAGCAGGTTGTACAGGGGGTCTCCGGCAGgtgagtatatcatggttgaaggataactcacataccctgagtttgaagaa Alignment from Pairagon GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCC-CATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG cattccactaccaaagttttgctaatgactctctgtctcctctctcccagGTTCTAGGGTTCTTTAAAGGAATGAGTTTCCCACATAGCTACTGTAGCTCTGGTTAATTCTGTCTTGTTTGGAGTGTATAGCAACACACTCCTGGCATTAACAGCCACATCCCATCAGGAACACCAGGTTCAGCCTCCAAGCCACACAAATACCTTTATAGCAGGTTGTACAGGGGGTCTCCGGCAGgtgagtatatcatggttgaaggataactcacataccctgagtttgaagaa Alignment from Exonerate_protein2genome GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCC-ATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG cattccactaccaaagttttgctaatgactctctgtctcctctctcccagGTTCTAGGGTTCTTTAAAGGAATGAGTTTCCCACATAGCTACTGTAGCTCTGGTTAATTCTGTCTTGTTTGGAGTGTATAGCAACACACTCCTGGCATTAACAGCCACATCCCATCAGGAACACCAGGTTCAGCCTCCAAGCCACACAAATACCTTTATAGCAGGTTGTACAGGGGGTCTCCGGCAGgtgagtatatcatggttgaaggataactcacataccctgagtttgaagaa Alignment from Exonerate_coding2genome CGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCAGTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCC-ATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG CATTCCACTACCAAAGTTTTGCTAATGACTCTCTGTCTCCTCTCTCCCAGGTTCTAGGGTTCTTTAAAGGAATGAGTTTCCCACATAGCTACTGTAGCTCTGGTTAATTCTGTCTTGTTTGGAGTGTATAGCAACACACTCCTGGCATTAACAGCCACATCCCATCAGGAACACCAGGTTCAGCCTCCAAGCCACACAAATACCTTTATAGCAGGTTGTACAGGGGGTCTCCGGCAGgtgagtatatcatggttgaaggataactcacataccctgagtttgaagaa Alignment from GeneWise GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCC-ATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG cattccactaccaaagttttgctaatgactctctgtctcctctctcccagGTTCTAGGGTTCTTTAAAGGAATGAGTTTCCCACATAGCTACTGTAGCTCTGGTTAATTCTGTCTTGTTTGGAGTGTATAGCAACACACTCCTGGCATTAACAGCCACATCCCATCAGGAACACCAGGTTCAGCCTCCAAGCCACACAAATACCTTTATAGCAGGTTGTACAGGGGGTCTCCGGCAGgtgagtatatcatggttgaaggataactcacataccctgagtttgaagaa #### Slc29a2_ID794_8 --> 2 - 0 Original Alignment atGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACT-CTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatgatagtttttagggccataatgtatcttttcttgtcatcggttagatGCAAAGAATGGACTACCTGTCAGTCCACAGCAGGCAAGCCCAACTCCTTGAGCTGGACCCTGAAACGGAGCCAGAACCAGAGCAGCCACAAAAGCCAGGCAAACCCTCAGTCTTTGTGGTTCTCAAGAAAgtaagctgtaatgtacagacagggctgggagcagtgggttgtttgacctg Alignment from CESAR atGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACT-CTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatgatagtttttagggccataatgtatcttttcttgtcatcggttagatGCAAAGAATGGACTACCTGTCAGTCCACAGCAGGCAAGCCCAACTCCTTGAGCTGGACCCTGAAACGGAGCCAGAACCAGAGCAGCCACAAAAGCCAGGCAAACCCTCAGTCTTTGTGGTTCTCAAGAAAgtaagctgtaatgtacagacagggctgggagcagtgggttgtttgacctg Alignment from Spaln_aa2Genome ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACT-CTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatgatagtttttagggccataatgtatcttttcttgtcatcggttagATGCAAAGAATGGACTACCTGTCAGTCCACAGCAGGCAAGCCCAACTcCTTGAGCTGGACCCTGAAACGGAGCCAGAACCAGAGCAGCCACAAAAGCCAGGCAAACCCTCAGTCTTTGTGGTTCTCAAGAAAgtaagctgtaatgtacagacagggctgggagcagtgggttgtttgacctg Alignment from Spaln_nt2Genome ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTC-TGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatgatagtttttagggccataatgtatcttttcttgtcatcggttagATGCAAAGAATGGACTACCTGTCAGTCCACAGCAGGCAAGCCCAACTCCTTGAGCTGGACCCTGAAACGGAGCCAGAACCAGAGCAGCCACAAAAGCCAGGCAAACCCTCAGTCTTTGTGGTTCTCAAGAAAgtaagctgtaatgtacagacagggctgggagcagtgggttgtttgacctg Alignment from Pairagon ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACT-CTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatgatagtttttagggccataatgtatcttttcttgtcatcggttagATGCAAAGAATGGACTACCTGTCAGTCCACAGCAGGCAAGCCCAACTCCTTGAGCTGGACCCTGAAACGGAGCCAGAACCAGAGCAGCCACAAAAGCCAGGCAAACCCTCAGTCTTTGTGGTTCTCAAGAAAgtaagctgtaatgtacagacagggctgggagcagtgggttgtttgacctg Alignment from Exonerate_protein2genome ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACT-CTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatgatagtttttagggccataatgtatcttttcttgtcatcggttagATGCAAAGAATGGACTACCTGTCAGTCCACAGCAGGCAAGCCCAACTCCTTGAGCTGGACCCTGAAACGGAGCCAGAACCAGAGCAGCCACAAAAGCCAGGCAAACCCTCAGTCTTTGTGGTTCTCAAGAAAgtaagctgtaatgtacagacagggctgggagcagtgggttgtttgacctg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACT-CTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatgatagtttttagggccataatgtatcttttcttgtcatcggttagATGCAAAGAATGGACTACCTGTCAGTCCACAGCAGGCAAGCCCAACTCCTTGAGCTGGACCCTGAAACGGAGCCAGAACCAGAGCAGCCACAAAAGCCAGGCAAACCCTCAGTCTTTGTGGTTCTCAAGAAAgtaagctgtaatgtacagacagggctgggagcagtgggttgtttgacctg #### Slc29a2_ID796_10 --> 2 - 0 Original Alignment gtCTGTTCTTCAACCCTATCTGTTGCTTT-CTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG agttcacagtatggaccagaggagccagccctttggactttccatgtcaggtCTGTTCTTCAACCCTATCTGCTGCTTTCCCACTCTTCAACGTCATGGATTGGTTGGGCCGGAGCCTGACTTCCTACTTCCTGTGGgtatgtgcctcagccacagtgccattaatgaaaagcactagggaaccaga Alignment from CESAR gtCTGTTCTTCAACCCTATCTGTTGCTTT-CTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG agttcacagtatggaccagaggagccagccctttggactttccatgtcaggtCTGTTCTTCAACCCTATCTGCTGCTTTCCCACTCTTCAACGTCATGGATTGGTTGGGCCGGAGCCTGACTTCCTACTTCCTGTGGgtatgtgcctcagccacagtgccattaatgaaaagcactagggaaccaga Alignment from Spaln_aa2Genome GTCTGTTCTTCAACCCTATCTGTTGCTTTCTG-CTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG agttcacagtatggaccagaggagccagccctttggactttccatgtcagGTCTGTTCTTCAACCCTATCTGCTGCTTTCCCaCTCTTCAACGTCATGGATTGGTTGGGCCGGAGCCTGACTTCCTACTTCCTGTGGgtatgtgcctcagccacagtgccattaatgaaaagcactagggaaccaga Alignment from Spaln_nt2Genome GTCTGTTCTTCAACCCTATCTGTTGCTTTCTG-CTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG agttcacagtatggaccagaggagccagccctttggactttccatgtcagGTCTGTTCTTCAACCCTATCTGCTGCTTTCCCACTCTTCAACGTCATGGATTGGTTGGGCCGGAGCCTGACTTCCTACTTCCTGTGGgtatgtgcctcagccacagtgccattaatgaaaagcactagggaaccaga Alignment from Pairagon GTCTGTTCTTCAACCCTATCTGTTGCTTT-CTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG agttcacagtatggaccagaggagccagccctttggactttccatgtcagGTCTGTTCTTCAACCCTATCTGCTGCTTTCCCACTCTTCAACGTCATGGATTGGTTGGGCCGGAGCCTGACTTCCTACTTCCTGTGGgtatgtgcctcagccacagtgccattaatgaaaagcactagggaaccaga Alignment from Exonerate_protein2genome GTCTGTTCTTCAACCCTATCTGTTGC-TTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG agttcacagtatggaccagaggagccagccctttggactttccatgtcagGTCTGTTCTTCAACCCTATCTGCTGCTTTCCCACTCTTCAACGTCATGGATTGGTTGGGCCGGAGCCTGACTTCCTACTTCCTGTGGgtatgtgcctcagccacagtgccattaatgaaaagcactagggaaccaga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTCTGTTCTTCAACCCTATCTGTTGCTTT-CTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG agttcacagtatggaccagaggagccagccctttggactttccatgtcagGTCTGTTCTTCAACCCTATCTGCTGCTTTCCCACTCTTCAACGTCATGGATTGGTTGGGCCGGAGCCTGACTTCCTACTTCCTGTGGgtatgtgcctcagccacagtgccattaatgaaaagcactagggaaccaga #### Slit1_ID8208_30 --> 2 - 2 Original Alignment gaAGGGCCTGTGAGCAGCTGGTGGACTTCTGCTCCCCGGATATGAACCCGTGT-CAGCATGAGGCCCAATGTGTTGGCACCCCGGATGGGCCCag ccaaatgggtaacaataactggattgcttgttgtttggtaattattgcaggaCGC---TGTGAACAGCTAGTTGACTTTTGCTCCCCAGACATGAACCCATGTCCAACATGAGGCTCAATGTGTTAGCACCTTAGACGGCCCCaggtaggtattactaccactgttgatcatcagttcgctgccgggcatcttta Alignment from CESAR gaAGGGCCTGTGAGCAGCTGGTGGACTTCTGCTCCCCGGATATGAACCCGTGT-CAGCATGAGGCCCAATGTGTTGGCACCCCGGATGGGCCCag ccaaatgggtaacaataactggattgcttgttgtttggtaattattgcaggaCGC---TGTGAACAGCTAGTTGACTTTTGCTCCCCAGACATGAACCCATGTCCAACATGAGGCTCAATGTGTTAGCACCTTAGACGGCCCCaggtaggtattactaccactgttgatcatcagttcgctgccgggcatcttta Alignment from Spaln_aa2Genome GAAGGGCCTGTGAGCAGCTGGTGGACTTCTGCTCCCCGGATATGAACCCGTGT-CAGCATGAGGCCCAATGTGTTGGCACCCCGGATGGGCCCAG ccaaatgggtaacaataactggattgcttgttgtttggtaattattgcagGACGC---TGTGAACAGCTAGTTGACTTTTGCTCCCCAGACATGAACCCATGTcCAACATGAGGCTCAATGTGTTAGCACCTTAGACGGCCCCAGgtaggtattactaccactgttgatcatcagttcgctgccgggcatcttta Alignment from Spaln_nt2Genome GAAGGGCCTGTGAGCAGCTGGTGGACTTCTGCTCCCCGGATATGAACCCGTGTC-AGCATGAGGCCCAATGTGTTGGCACCCCGGATGGGCCCAG ccaaatgggtaacaataactggattgcttgttgtttggtaattattgcagGACG---CTGTGAACAGCTAGTTGACTTTTGCTCCCCAGACATGAACCCATGTCCAACATGAGGCTCAATGTGTTAGCACCTTAGACGGCCCCAGgtaggtattactaccactgttgatcatcagttcgctgccgggcatcttta Alignment from Pairagon GAAGGGCCTGTGAGCAGCTGGTGGACTTCTGCTCCCCGGATATGAACCCGTGT-CAGCATGAGGCCCAATGTGTTGGCACCCCGGATGGGCCCAG ccaaatgggtaacaataactggattgcttgttgtttggtaattattgcagGACG---CTGTGAACAGCTAGTTGACTTTTGCTCCCCAGACATGAACCCATGTCCAACATGAGGCTCAATGTGTTAGCACCTTAGACGGCCCCAGgtaggtattactaccactgttgatcatcagttcgctgccgggcatcttta Alignment from Exonerate_protein2genome GAAGGGCCTGTGAGCAGCTGGTGGACTTCTGCTCCCCGGATATGAACCCGTGT-CAGCATGAGGCCCAATGTGTTGGCACCCCGGATGGGCCCAG ccaaatgggtaacaataactggattgcttgttgtttggtaattattgcagGACGC---TGTGAACAGCTAGTTGACTTTTGCTCCCCAGACATGAACCCATGTCCAACATGAGGCTCAATGTGTTAGCACCTTAGACGGCCCCAGgtaggtattactaccactgttgatcatcagttcgctgccgggcatcttta Alignment from Exonerate_coding2genome ccaaatgggtaacaataactggattgcttgttgtttggtaattattgcaggacgctgtgaacagctagttgacttttgctccccagacatgaacccatgtccaacatgaggctcaatgtgttagcaccttagacggccccaggtaggtattactaccactgttgatcatcagttcgctgccgggcatcttta Alignment from GeneWise GAAGGGCCTGTGAGCAGCTGGTGGACTTCTGCTCCCCGGATATGAACCCGTGT-CAGCATGAGGCCCAATGTGTTGGCACCCCGGATGGGCCCAG ccaaatgggtaacaataactggattgcttgttgtttggtaattattgcagGACGC---TGTGAACAGCTAGTTGACTTTTGCTCCCCAGACATGAACCCATGTCCAACATGAGGCTCAATGTGTTAGCACCTTAGACGGCCCCAGgtaggtattactaccactgttgatcatcagttcgctgccgggcatcttta #### Slit1_ID8222_17 --> 1 - 2 Original Alignment aCGACTGAACAACAATGAGATTTCTATCCTAGAGGCC-ACTGGGTTGTTTAAGAAGCTCTCACATCTGAAGAAAat tgagatggaggggggagctaggggttgatgaccctcagtgccacccccagtCGGCTGAACAACAATGAGATCTCTATCCTAGAGGCCCACTGGTTTATTTAGGAAGCTCACACATCTGGAGAAAatgtactaacagatttgattctgaacagtggttgtatgaagcaggactaact Alignment from CESAR aCGACTGAACAACAATGAGATTTCTATCCTAGAGGCC-ACTGGGTTGTTTAAGAAGCTCTCACATCTGAAGAAAat tgagatggaggggggagctaggggttgatgaccctcagtgccacccccagtCGGCTGAACAACAATGAGATCTCTATCCTAGAGGCCCACTGGTTTATTTAGGAAGCTCACACATCTGGAGAAAatgtactaacagatttgattctgaacagtggttgtatgaagcaggactaact Alignment from Spaln_aa2Genome ACGACTGAACAACAATGAGATTTCTATCCTAGAGGCC-ACTGGGTTGTTTAAGAAGCTCTCACATCTGAAGAAAAT tgagatggaggggggagctaggggttgatgaccctcagtgccacccccagTCGGCTGAACAACAATGAGATCTCTATCCTAGAGGCCcACTGGTTTATTTAGGAAGCTCACACATCTGGAGAAAATgtactaacagatttgattctgaacagtggttgtatgaagcaggactaact Alignment from Spaln_nt2Genome ACGACTGAACAACAATGAGATTTCTATCCTAGAGGC-CACTGGGTTGTTTAAGAAGCTCTCACATCTGAAGAAAAT tgagatggaggggggagctaggggttgatgaccctcagtgccacccccagTCGGCTGAACAACAATGAGATCTCTATCCTAGAGGCCCACTGGTTTATTTAGGAAGCTCACACATCTGGAGAAAATgtactaacagatttgattctgaacagtggttgtatgaagcaggactaact Alignment from Pairagon ACGACTGAACAACAATGAGATTTCTATCCTAGAGG-CCACTGGGTTGTTTAAGAAGCTCTCACATCTGAAGAAAAT tgagatggaggggggagctaggggttgatgaccctcagtgccacccccagTCGGCTGAACAACAATGAGATCTCTATCCTAGAGGCCCACTGGTTTATTTAGGAAGCTCACACATCTGGAGAAAATgtactaacagatttgattctgaacagtggttgtatgaagcaggactaact Alignment from Exonerate_protein2genome ACGACTGAACAACAATGAGATTTCTATCCTAGAGGCC-ACTGGGTTGTTTAAGAAGCTCTCACATCTGAAGAAAAT tgagatggaggggggagctaggggttgatgaccctcagtgccacccccagTCGGCTGAACAACAATGAGATCTCTATCCTAGAGGCCCACTGGTTTATTTAGGAAGCTCACACATCTGGAGAAAATgtactaacagatttgattctgaacagtggttgtatgaagcaggactaact Alignment from Exonerate_coding2genome ACGACTGAACAACAATGAGATTTCTATCCTAGAGGCC-ACTGGGTTGTTTAAGAAGCTCTCACATCTGAAGAAAAT tgagatggaggggggagctaggggttgatgaccctcagtgccacccccagTCGGCTGAACAACAATGAGATCTCTATCCTAGAGGCCCACTGGTTTATTTAGGAAGCTCACACATCTGGAGAAAATgtactaacagatttgattctgaacagtggttgtatgaagcaggactaact Alignment from GeneWise ACGACTGAACAACAATGAGATTTCTATCCTAGAG-GCCACTGGGTTGTTTAAGAAGCTCTCACATCTGAAGAAAAT tgagatggaggggggagctaggggttgatgaccctcagtgccacccccagTCGGCTGAACAACAATGAGATCTCTATCCTAGAGGCCCACTGGTTTATTTAGGAAGCTCACACATCTGGAGAAAATgtactaacagatttgattctgaacagtggttgtatgaagcaggactaact #### Slit1_ID8233_6 --> 1 - 2 Original Alignment aCAGCTGGACAAGAACCGGATCAGCTGCATCGAGGAA-GGGGCCTTCCGTGCCCTACGGGGACTGGAGGTTct tgccaaaactgttcttatggtcactttccgtgtctgttgtttccccacagaCAGCTGGACAAGAACCGCATTAGCTGCATCAAGGAACGGGGCCCTCCGTGCCCTACGTGGATTGGATGTTctgtaagcggagtatgaagattaaattagtgcatcaatactgttattcaatg Alignment from CESAR aCAGCTGGACAAGAACCGGATCAGCTGCATCGAGGAA-GGGGCCTTCCGTGCCCTACGGGGACTGGAGGTTct tgccaaaactgttcttatggtcactttccgtgtctgttgtttccccacagaCAGCTGGACAAGAACCGCATTAGCTGCATCAAGGAACGGGGCCCTCCGTGCCCTACGTGGATTGGATGTTctgtaagcggagtatgaagattaaattagtgcatcaatactgttattcaatg Alignment from Spaln_aa2Genome ACAGCTGGACAAGAACCGGATCAGCTGCATCGAGGAA-GGGGCCTTCCGTGCCCTACGGGGACTGGAGGTTCT tgccaaaactgttcttatggtcactttccgtgtctgttgtttccccacagACAGCTGGACAAGAACCGCATTAGCTGCATCAAGGAAcGGGGCCCTCCGTGCCCTACGTGGATTGGATGTTCTgtaagcggagtatgaagattaaattagtgcatcaatactgttattcaatg Alignment from Spaln_nt2Genome ACAGCTGGACAAGAACCGGATCAGCTGCATCGAGGAA-GGGGCCTTCCGTGCCCTACGGGGACTGGAGGTTCT tgccaaaactgttcttatggtcactttccgtgtctgttgtttccccacagACAGCTGGACAAGAACCGCATTAGCTGCATCAAGGAACGGGGCCCTCCGTGCCCTACGTGGATTGGATGTTCTgtaagcggagtatgaagattaaattagtgcatcaatactgttattcaatg Alignment from Pairagon ACAGCTGGACAAGAACCGGATCAGCTGCATCGAGGAA-GGGGCCTTCCGTGCCCTACGGGGACTGGAGGTTCT tgccaaaactgttcttatggtcactttccgtgtctgttgtttccccacagACAGCTGGACAAGAACCGCATTAGCTGCATCAAGGAACGGGGCCCTCCGTGCCCTACGTGGATTGGATGTTCTgtaagcggagtatgaagattaaattagtgcatcaatactgttattcaatg Alignment from Exonerate_protein2genome ACAGCTGGACAAGAACCGGATCAGCTGCATCGAGGAA-GGGGCCTTCCGTGCCCTACGGGGACTGGAGGTTCT tgccaaaactgttcttatggtcactttccgtgtctgttgtttccccacagACAGCTGGACAAGAACCGCATTAGCTGCATCAAGGAACGGGGCCCTCCGTGCCCTACGTGGATTGGATGTTCTgtaagcggagtatgaagattaaattagtgcatcaatactgttattcaatg Alignment from Exonerate_coding2genome CAGCTGGACAAGAACCGGATCAGCTGCATCGAGGAA-GGGGCCTTCCGTGCCCTACGGGGACTGGAGGTTCTGACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACC tgccaaaactgttcttatggtcactttccgtgtctgttgtttccccacagaCAGCTGGACAAGAACCGCATTAGCTGCATCAAGGAACGGGGCCCTCCGTGCCCTACGTGGATTGGATGTTCTGTAAGCGGAGTATGAAGATTAAATTAGTGCATCAATACTGTTATTCAATG Alignment from GeneWise ACAGCTGGACAAGAACCGGATCAGCTGCATCGAG-GAAGGGGCCTTCCGTGCCCTACGGGGACTGGAGGTTCT tgccaaaactgttcttatggtcactttccgtgtctgttgtttccccacagACAGCTGGACAAGAACCGCATTAGCTGCATCAAGGAACGGGGCCCTCCGTGCCCTACGTGGATTGGATGTTCTgtaagcggagtatgaagattaaattagtgcatcaatactgttattcaatg #### Slk_ID10250_6 --> 1 - 2 Original Alignment gATGGCTCCTGAAGTAGTCATGTGTGAGACATCAAAGGACAGACCTTATGACTACAAAGCTGATGTTTGGTCCCTGGGTATTACTTTAATAGAAATGGCTGAGATAGAGCCACCTCATCATGAGTTAAATCCAATGCGCGTGCTGCTGAAAATTGCAAAA-TCTGAGCCCCCAACATTAGCACAGCCATCAAAAtg acttggtaactattttcaatacctcccccagactctgctttggtttttaggATGTCTCCTGAAGTGGTCATGTGTGAAACATCCAAGGACACACCTTATGATTACAAAGCTGATGTTTGGTCTCTGGGGATAACTTTAATAGAAATGGTTGAAATAGCACCACCTCATCATGACTTAAATCCTATGCGTGTGCTGCTGAAGATCGCAAAACTTTGCACCCCCAACACTGGCCCAGCCGTCCAAGctgtatgataatgctgttgaatgaaacctaagactggttttccagatgccta Alignment from CESAR gATGGCTCCTGAAGTAGTCATGTGTGAGACATCAAAGGACAGACCTTATGACTACAAAGCTGATGTTTGGTCCCTGGGTATTACTTTAATAGAAATGGCTGAGATAGAGCCACCTCATCATGAGTTAAATCCAATGCGCGTGCTGCTGAAAATTGCAAAA-TCTGAGCCCCCAACATTAGCACAGCCATCAAAAtg acttggtaactattttcaatacctcccccagactctgctttggtttttaggATGTCTCCTGAAGTGGTCATGTGTGAAACATCCAAGGACACACCTTATGATTACAAAGCTGATGTTTGGTCTCTGGGGATAACTTTAATAGAAATGGTTGAAATAGCACCACCTCATCATGACTTAAATCCTATGCGTGTGCTGCTGAAGATCGCAAAACTTTGCACCCCCAACACTGGCCCAGCCGTCCAAGctgtatgataatgctgttgaatgaaacctaagactggttttccagatgccta Alignment from Spaln_aa2Genome GATGGCTCCTGAAGTAGTCATGTGTGAGACATCAAAGGACAGACCTTATGACTACAAAGCTGATGTTTGGTCCCTGGGTATTACTTTAATAGAAATGGCTGAGATAGAGCCACCTCATCATGAGTTAAATCCAATGCGCGTGCTGCTGAAAATTGCAAAA-TCTGAGCCCCCAACATTAGCACAGCCATCAAAATG acttggtaactattttcaatacctcccccagactctgctttggtttttagGATGTCTCCTGAAGTGGTCATGTGTGAAACATCCAAGGACACACCTTATGATTACAAAGCTGATGTTTGGTCTCTGGGGATAACTTTAATAGAAATGGTTGAAATAGCACCACCTCATCATGACTTAAATCCTATGCGTGTGCTGCTGAAGATCGCAAAAcTTTGCACCCCCAACACTGGCCCAGCCGTCCAAGCTgtatgataatgctgttgaatgaaacctaagactggttttccagatgccta Alignment from Spaln_nt2Genome GATGGCTCCTGAAGTAGTCATGTGTGAGACATCAAAGGACAGACCTTATGACTACAAAGCTGATGTTTGGTCCCTGGGTATTACTTTAATAGAAATGGCTGAGATAGAGCCACCTCATCATGAGTTAAATCCAATGCGCGTGCTGCTGAAAATTGCAAAA-TCTGAGCCCCCAACATTAGCACAGCCATCAAAATG acttggtaactattttcaatacctcccccagactctgctttggtttttagGATGTCTCCTGAAGTGGTCATGTGTGAAACATCCAAGGACACACCTTATGATTACAAAGCTGATGTTTGGTCTCTGGGGATAACTTTAATAGAAATGGTTGAAATAGCACCACCTCATCATGACTTAAATCCTATGCGTGTGCTGCTGAAGATCGCAAAACTTTGCACCCCCAACACTGGCCCAGCCGTCCAAGCTgtatgataatgctgttgaatgaaacctaagactggttttccagatgccta Alignment from Pairagon GATGGCTCCTGAAGTAGTCATGTGTGAGACATCAAAGGACAGACCTTATGACTACAAAGCTGATGTTTGGTCCCTGGGTATTACTTTAATAGAAATGGCTGAGATAGAGCCACCTCATCATGAGTTAAATCCAATGCGCGTGCTGCTGAAAATTGCAAAA-TCTGAGCCCCCAACATTAGCACAGCCATCAAAATG acttggtaactattttcaatacctcccccagactctgctttggtttttagGATGTCTCCTGAAGTGGTCATGTGTGAAACATCCAAGGACACACCTTATGATTACAAAGCTGATGTTTGGTCTCTGGGGATAACTTTAATAGAAATGGTTGAAATAGCACCACCTCATCATGACTTAAATCCTATGCGTGTGCTGCTGAAGATCGCAAAACTTTGCACCCCCAACACTGGCCCAGCCGTCCAAGCTgtatgataatgctgttgaatgaaacctaagactggttttccagatgccta Alignment from Exonerate_protein2genome GATGGCTCCTGAAGTAGTCATGTGTGAGACATCAAAGGACAGACCTTATGACTACAAAGCTGATGTTTGGTCCCTGGGTATTACTTTAATAGAAATGGCTGAGATAGAGCCACCTCATCATGAGTTAAATCCAATGCGCGTGCTGCTGAAAATTGCAAAA-TCTGAGCCCCCAACATTAGCACAGCCATCAAAATG acttggtaactattttcaatacctcccccagactctgctttggtttttagGATGTCTCCTGAAGTGGTCATGTGTGAAACATCCAAGGACACACCTTATGATTACAAAGCTGATGTTTGGTCTCTGGGGATAACTTTAATAGAAATGGTTGAAATAGCACCACCTCATCATGACTTAAATCCTATGCGTGTGCTGCTGAAGATCGCAAAACTTTGCACCCCCAACACTGGCCCAGCCGTCCAAGCTgtatgataatgctgttgaatgaaacctaagactggttttccagatgccta Alignment from Exonerate_coding2genome GATGGCTCCTGAAGTAGTCATGTGTGAGACATCAAAGGACAGACCTTATGACTACAAAGCTGATGTTTGGTCCCTGGGTATTACTTTAATAGAAATGGCTGAGATAGAGCCACCTCATCATGAGTTAAATCCAATGCGCGTGCTGCTGAAAATTGCAAAA-TCTGAGCCCCCAACATTAGCACAGCCATCAAAATG acttggtaactattttcaatacctcccccagactctgctttggtttttagGATGTCTCCTGAAGTGGTCATGTGTGAAACATCCAAGGACACACCTTATGATTACAAAGCTGATGTTTGGTCTCTGGGGATAACTTTAATAGAAATGGTTGAAATAGCACCACCTCATCATGACTTAAATCCTATGCGTGTGCTGCTGAAGATCGCAAAACTTTGCACCCCCAACACTGGCCCAGCCGTCCAAGCTgtatgataatgctgttgaatgaaacctaagactggttttccagatgccta Alignment from GeneWise GATGGCTCCTGAAGTAGTCATGTGTGAGACATCAAAGGACAGACCTTATGACTACAAAGCTGATGTTTGGTCCCTGGGTATTACTTTAATAGAAATGGCTGAGATAGAGCCACCTCATCATGAGTTAAATCCAATGCGCGTGCTGCTGAAAATTGCAAAA-TCTGAGCCCCCAACATTAGCACAGCCATCAAAATG acttggtaactattttcaatacctcccccagactctgctttggtttttagGATGTCTCCTGAAGTGGTCATGTGTGAAACATCCAAGGACACACCTTATGATTACAAAGCTGATGTTTGGTCTCTGGGGATAACTTTAATAGAAATGGTTGAAATAGCACCACCTCATCATGACTTAAATCCTATGCGTGTGCTGCTGAAGATCGCAAAACTTTGCACCCCCAACACTGGCCCAGCCGTCCAAGCTgtatgataatgctgttgaatgaaacctaagactggttttccagatgccta #### Smarca2_ID5734_15 --> 1 - 0 Original Alignment gACTCTGTCTAACTGGACATATGAATTTGACAAATGGGCTCCT-TCTGTGGTGAAAATTTCTTACAAG atgtgttatgcctgctagttttttaactcccttgtgctctgtggtaccaggAGCTTGTTTAATTGGACATATGAGTTTGACAGATGGGCCCCTCACAGTGGTGAAAATTGCTTACAAGgtaatgatcacatgctataacatatgtgaaatagggcttgtttaggttat Alignment from CESAR gACTCTGTCTAACTGGACATATGAATTTGACAAATGGGCTCCT-TCTGTGGTGAAAATTTCTTACAAG atgtgttatgcctgctagttttttaactcccttgtgctctgtggtaccaggAGCTTGTTTAATTGGACATATGAGTTTGACAGATGGGCCCCTCACAGTGGTGAAAATTGCTTACAAGgtaatgatcacatgctataacatatgtgaaatagggcttgtttaggttat Alignment from Spaln_aa2Genome GACTCTGTCTAACTGGACATATGAATTTGACAAATGGGCTCCT-TCTGTGGTGAAAATTTCTTACAAG atgtgttatgcctgctagttttttaactcccttgtgctctgtggtaccagGAGCTTGTTTAATTGGACATATGAGTTTGACAGATGGGCCCCTcACAGTGGTGAAAATTGCTTACAAGgtaatgatcacatgctataacatatgtgaaatagggcttgtttaggttat Alignment from Spaln_nt2Genome GACTCTGTCTAACTGGACATATGAATTTGACAAATGGGCTCCTT-CTGTGGTGAAAATTTCTTACAAG atgtgttatgcctgctagttttttaactcccttgtgctctgtggtaccagGAGCTTGTTTAATTGGACATATGAGTTTGACAGATGGGCCCCTCACAGTGGTGAAAATTGCTTACAAGgtaatgatcacatgctataacatatgtgaaatagggcttgtttaggttat Alignment from Pairagon GACTCTGTCTAACTGGACATATGAATTTGACAAATGGGCTCCTT-CTGTGGTGAAAATTTCTTACAAG atgtgttatgcctgctagttttttaactcccttgtgctctgtggtaccagGAGCTTGTTTAATTGGACATATGAGTTTGACAGATGGGCCCCTCACAGTGGTGAAAATTGCTTACAAGgtaatgatcacatgctataacatatgtgaaatagggcttgtttaggttat Alignment from Exonerate_protein2genome GACTCTGTCTAACTGGACATATGAATTTGACAAATGGGCTCCT-TCTGTGGTGAAAATTTCTTACAAG atgtgttatgcctgctagttttttaactcccttgtgctctgtggtaccagGAGCTTGTTTAATTGGACATATGAGTTTGACAGATGGGCCCCTCACAGTGGTGAAAATTGCTTACAAGgtaatgatcacatgctataacatatgtgaaatagggcttgtttaggttat Alignment from Exonerate_coding2genome GACTCTGTCTAACTGGACATATGAATTTGACAAATGGGCTCCT-TCTGTGGTGAAAATTTCTTACAAG atgtgttatgcctgctagttttttaactcccttgtgctctgtggtaccagGAGCTTGTTTAATTGGACATATGAGTTTGACAGATGGGCCCCTCACAGTGGTGAAAATTGCTTACAAGgtaatgatcacatgctataacatatgtgaaatagggcttgtttaggttat Alignment from GeneWise GACTCTGTCTAACTGGACATATGAATTTGACAAATGGGCTCCT-TCTGTGGTGAAAATTTCTTACAAG atgtgttatgcctgctagttttttaactcccttgtgctctgtggtaccagGAGCTTGTTTAATTGGACATATGAGTTTGACAGATGGGCCCCTCACAGTGGTGAAAATTGCTTACAAGgtaatgatcacatgctataacatatgtgaaatagggcttgtttaggttat #### Smc3_ID11322_10 --> 0 - 0 Original Alignment CTTTCTGCTAAGCGAGAAACGAGTGGAGAGAAATCC-AGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG gtttttatccaatgttcagattagatagccctgtgtgtttgaccttgtagCTTTCAGCTAAGCAGGAAACAAGTGGAGAGAAATCACAGACAACTAAGGGATGCACAGCAGGATACAAGAGATAAAATGGAAgtaaggtgaagcctaaggtaatacctagatgttacttttactgataatct Alignment from CESAR CTTTCTGCTAAGCGAGAAACGAGTGGAGAGAAATCC-AGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG gtttttatccaatgttcagattagatagccctgtgtgtttgaccttgtagCTTTCAGCTAAGCAGGAAACAAGTGGAGAGAAATCACAGACAACTAAGGGATGCACAGCAGGATACAAGAGATAAAATGGAAgtaaggtgaagcctaaggtaatacctagatgttacttttactgataatct Alignment from Spaln_aa2Genome CTTTCTGCTAAGCGAGAAACGAGTGGAGAGAAATCC-AGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG gtttttatccaatgttcagattagatagccctgtgtgtttgaccttgtagCTTTCAGCTAAGCAGGAAACAAGTGGAGAGAAATCAcAGACAACTAAGGGATGCACAGCAGGATACAAGAGATAAAATGGAAgtaaggtgaagcctaaggtaatacctagatgttacttttactgataatct Alignment from Spaln_nt2Genome CTTTCTGCTAAGCGAGAAACGAGTGGAGAGAAATC-CAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG gtttttatccaatgttcagattagatagccctgtgtgtttgaccttgtagCTTTCAGCTAAGCAGGAAACAAGTGGAGAGAAATCACAGACAACTAAGGGATGCACAGCAGGATACAAGAGATAAAATGGAAgtaaggtgaagcctaaggtaatacctagatgttacttttactgataatct Alignment from Pairagon CTTTCTGCTAAGCGAGAAACGAGTGGAGAGAAATC-CAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG gtttttatccaatgttcagattagatagccctgtgtgtttgaccttgtagCTTTCAGCTAAGCAGGAAACAAGTGGAGAGAAATCACAGACAACTAAGGGATGCACAGCAGGATACAAGAGATAAAATGGAAgtaaggtgaagcctaaggtaatacctagatgttacttttactgataatct Alignment from Exonerate_protein2genome CTTTCTGCTAAGCGAGAAACGAGTGGAGAGAAATCC-AGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG gtttttatccaatgttcagattagatagccctgtgtgtttgaccttgtagCTTTCAGCTAAGCAGGAAACAAGTGGAGAGAAATCACAGACAACTAAGGGATGCACAGCAGGATACAAGAGATAAAATGGAAgtaaggtgaagcctaaggtaatacctagatgttacttttactgataatct Alignment from Exonerate_coding2genome CTTTCTGCTAAGCGAGAAACGAGTGGAGAGAAATCC-AGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG gtttttatccaatgttcagattagatagccctgtgtgtttgaccttgtagCTTTCAGCTAAGCAGGAAACAAGTGGAGAGAAATCACAGACAACTAAGGGATGCACAGCAGGATACAAGAGATAAAATGGAAgtaaggtgaagcctaaggtaatacctagatgttacttttactgataatct Alignment from GeneWise CTTTCTGCTAAGCGAGAAACGAGTGGAGAGAAA-TCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG gtttttatccaatgttcagattagatagccctgtgtgtttgaccttgtagCTTTCAGCTAAGCAGGAAACAAGTGGAGAGAAATCACAGACAACTAAGGGATGCACAGCAGGATACAAGAGATAAAATGGAAgtaaggtgaagcctaaggtaatacctagatgttacttttactgataatct #### Smc3_ID11323_11 --> 0 - 0 Original Alignment GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCA-GCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG ctcacctgcaactcagtagtgcactttctctttgtcggttgcccctacagGATACCGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCGCGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCAAAGGACAAAGTTGGAACTCAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGCgtctaccatagtgtacagcacaaaaagaaaactggtcagatttctgtgta Alignment from CESAR GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCA-GCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG ctcacctgcaactcagtagtgcactttctctttgtcggttgcccctacagGATACCGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCGCGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCAAAGGACAAAGTTGGAACTCAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGCgtctaccatagtgtacagcacaaaaagaaaactggtcagatttctgtgta Alignment from Spaln_aa2Genome GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCA-GCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG ctcacctgcaactcagtagtgcactttctctttgtcggttgcccctacagGATACCGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCGcGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCAAAGGACAAAGTTGGAACTCAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGCgtctaccatagtgtacagcacaaaaagaaaactggtcagatttctgtgta Alignment from Spaln_nt2Genome GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCA-GCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG ctcacctgcaactcagtagtgcactttctctttgtcggttgcccctacagGATACCGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCGCGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCAAAGGACAAAGTTGGAACTCAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGCgtctaccatagtgtacagcacaaaaagaaaactggtcagatttctgtgta Alignment from Pairagon GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCA-GCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG ctcacctgcaactcagtagtgcactttctctttgtcggttgcccctacagGATACCGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCGCGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCAAAGGACAAAGTTGGAACTCAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGCgtctaccatagtgtacagcacaaaaagaaaactggtcagatttctgtgta Alignment from Exonerate_protein2genome GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCA-GCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG ctcacctgcaactcagtagtgcactttctctttgtcggttgcccctacagGATACCGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCGCGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCAAAGGACAAAGTTGGAACTCAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGCgtctaccatagtgtacagcacaaaaagaaaactggtcagatttctgtgta Alignment from Exonerate_coding2genome GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCA-GCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG ctcacctgcaactcagtagtgcactttctctttgtcggttgcccctacagGATACCGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCGCGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCAAAGGACAAAGTTGGAACTCAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGCgtctaccatagtgtacagcacaaaaagaaaactggtcagatttctgtgta Alignment from GeneWise GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATT-TCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG ctcacctgcaactcagtagtgcactttctctttgtcggttgcccctacagGATACCGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCGCGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCAAAGGACAAAGTTGGAACTCAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGCgtctaccatagtgtacagcacaaaaagaaaactggtcagatttctgtgta #### Smc3_ID11338_26 --> 0 - 0 Original Alignment GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGAT-GTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG tcgtttataaaagaagcatgccacctagatgtctgcttctgtgtccacagGTATCTAAGAACTTTAGTGAAATCTTCCAGAAATTGGTACCTGGTGGCAAATCAACTTTGGTGATGAAGAAAGGTGATCGTGGAGAGCAGTGAATCTAAGGACAAAGGAGAGGGGAGTGGCGAGAGTGAGCGAGGATCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGTgtacgggacttattatacttagtttctcatgtacctttttactttaaaac Alignment from CESAR GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGAT-GTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG tcgtttataaaagaagcatgccacctagatgtctgcttctgtgtccacagGTATCTAAGAACTTTAGTGAAATCTTCCAGAAATTGGTACCTGGTGGCAAATCAACTTTGGTGATGAAGAAAGGTGATCGTGGAGAGCAGTGAATCTAAGGACAAAGGAGAGGGGAGTGGCGAGAGTGAGCGAGGATCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGTgtacgggacttattatacttagtttctcatgtacctttttactttaaaac Alignment from Spaln_aa2Genome GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGAT-GTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG tcgtttataaaagaagcatgccacctagatgtctgcttctgtgtccacagGTATCTAAGAACTTTAGTGAAATCTTCCAGAAATTGGTACCTGGTGGCAAATCAACTTTGGTGATGAAGAAAGGTGATcGTGGAGAGCAGTGAATCTAAGGACAAAGGAGAGGGGAGTGGCGAGAGTGAGCGAGGATCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGTgtacgggacttattatacttagtttctcatgtacctttttactttaaaac Alignment from Spaln_nt2Genome GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGAT-GTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG tcgtttataaaagaagcatgccacctagatgtctgcttctgtgtccacagGTATCTAAGAACTTTAGTGAAATCTTCCAGAAATTGGTACCTGGTGGCAAATCAACTTTGGTGATGAAGAAAGGTGATCGTGGAGAGCAGTGAATCTAAGGACAAAGGAGAGGGGAGTGGCGAGAGTGAGCGAGGATCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGTgtacgggacttattatacttagtttctcatgtacctttttactttaaaac Alignment from Pairagon GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGAT-GTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG tcgtttataaaagaagcatgccacctagatgtctgcttctgtgtccacagGTATCTAAGAACTTTAGTGAAATCTTCCAGAAATTGGTACCTGGTGGCAAATCAACTTTGGTGATGAAGAAAGGTGATCGTGGAGAGCAGTGAATCTAAGGACAAAGGAGAGGGGAGTGGCGAGAGTGAGCGAGGATCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGTgtacgggacttattatacttagtttctcatgtacctttttactttaaaac Alignment from Exonerate_protein2genome GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGAT-GTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG tcgtttataaaagaagcatgccacctagatgtctgcttctgtgtccacagGTATCTAAGAACTTTAGTGAAATCTTCCAGAAATTGGTACCTGGTGGCAAATCAACTTTGGTGATGAAGAAAGGTGATCGTGGAGAGCAGTGAATCTAAGGACAAAGGAGAGGGGAGTGGCGAGAGTGAGCGAGGATCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGTgtacgggacttattatacttagtttctcatgtacctttttactttaaaac Alignment from Exonerate_coding2genome GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGAT-GTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG tcgtttataaaagaagcatgccacctagatgtctgcttctgtgtccacagGTATCTAAGAACTTTAGTGAAATCTTCCAGAAATTGGTACCTGGTGGCAAATCAACTTTGGTGATGAAGAAAGGTGATCGTGGAGAGCAGTGAATCTAAGGACAAAGGAGAGGGGAGTGGCGAGAGTGAGCGAGGATCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGTgtacgggacttattatacttagtttctcatgtacctttttactttaaaac Alignment from GeneWise GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGAT-GTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGGGTG----------------------------------------------- tcgtttataaaagaagcatgccacctagatgtctgcttctgtgtccacagGTATCTAAGAACTTTAGTGAAATCTTCCAGAAATTGGTACCTGGTGGCAAATCAACTTTGGTGATGAAGAAAGGTGATCGTGGAGAGCAGTGAATCTAAGGACAAAGGAGAGGGGAGTGGCGAGAGTGAGCGAGGATCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGTGTACGGGACTTATTATACTTAGTTTCTCATGTACCTTTTTACTTTAAAAC #### Smc5_ID5110_21 --> 0 - 0 Original Alignment GTGGTTGAGGAG-TACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACATTTCGCAG ccaggacctaattttgtattattccatacctaaatccctgttcatgctagGTGGTTGAGAAGCTATTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGAGGAACTGCAAGGCAAAAAGGTGGAACTTGATGAATACAGGGAAAACATTCTACAGgtaagcaatagttataatgcttgattaccaaactaaccaattatcactgt Alignment from CESAR GTGGTTGAGGAG-TACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACATTTCGCAG ccaggacctaattttgtattattccatacctaaatccctgttcatgctagGTGGTTGAGAAGCTATTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGAGGAACTGCAAGGCAAAAAGGTGGAACTTGATGAATACAGGGAAAACATTCTACAGgtaagcaatagttataatgcttgattaccaaactaaccaattatcactgt Alignment from Spaln_aa2Genome GTGGTTGAGGAG-TACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACATTTCGCAG ccaggacctaattttgtattattccatacctaaatccctgttcatgctagGTGGTTGAGAAGcTATTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGAGGAACTGCAAGGCAAAAAGGTGGAACTTGATGAATACAGGGAAAACATTCTACAGgtaagcaatagttataatgcttgattaccaaactaaccaattatcactgt Alignment from Spaln_nt2Genome GTGGTTGAGGAG-TACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACATTTCGCAG ccaggacctaattttgtattattccatacctaaatccctgttcatgctagGTGGTTGAGAAGCTATTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGAGGAACTGCAAGGCAAAAAGGTGGAACTTGATGAATACAGGGAAAACATTCTACAGgtaagcaatagttataatgcttgattaccaaactaaccaattatcactgt Alignment from Pairagon GTGGTTGAGGAG-TACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACATTTCGCAG ccaggacctaattttgtattattccatacctaaatccctgttcatgctagGTGGTTGAGAAGCTATTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGAGGAACTGCAAGGCAAAAAGGTGGAACTTGATGAATACAGGGAAAACATTCTACAGgtaagcaatagttataatgcttgattaccaaactaaccaattatcactgt Alignment from Exonerate_protein2genome GTGGTTGAGGAG-TACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACATTTCGCAG ccaggacctaattttgtattattccatacctaaatccctgttcatgctagGTGGTTGAGAAGCTATTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGAGGAACTGCAAGGCAAAAAGGTGGAACTTGATGAATACAGGGAAAACATTCTACAGgtaagcaatagttataatgcttgattaccaaactaaccaattatcactgt Alignment from Exonerate_coding2genome GTGGTTGAGGAG-TACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACATTTCGCAG ccaggacctaattttgtattattccatacctaaatccctgttcatgctagGTGGTTGAGAAGCTATTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGAGGAACTGCAAGGCAAAAAGGTGGAACTTGATGAATACAGGGAAAACATTCTACAGgtaagcaatagttataatgcttgattaccaaactaaccaattatcactgt Alignment from GeneWise AGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACATTTCGCAG ccaggacctaattttgtattattccatacctaaatccctgttcatgctaggtggttgagaagctattcaaagAGAGAAGTAGAGATTCAGCAATTGACTGAGGAACTGCAAGGCAAAAAGGTGGAACTTGATGAATACAGGGAAAACATTCTACAGgtaagcaatagttataatgcttgattaccaaactaaccaattatcactgt #### Snx15_ID1466_6 --> 2 - 1 Original Alignment tgGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCT-CGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGg atatctccatcccctggataagtcttggtcttattctccccacctcccagtaGACCCTCTACCATCTGGTCCAGCTCATGAGGCCCTTGAACATCTCTTCAGCTGTGACAGTACAGAGGAGGCCTCTGGTACTCTGGCTCCGAGGTCCCCTCTCTGAGGCTGATCTCACACTTTTTGACCCTTACTCAAAAGTGagtgagattggatggaggggcagtcattaatgccctgcagaactccattag Alignment from CESAR tgGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCT-CGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGg atatctccatcccctggataagtcttggtcttattctccccacctcccagtaGACCCTCTACCATCTGGTCCAGCTCATGAGGCCCTTGAACATCTCTTCAGCTGTGACAGTACAGAGGAGGCCTCTGGTACTCTGGCTCCGAGGTCCCCTCTCTGAGGCTGATCTCACACTTTTTGACCCTTACTCAAAAGTGagtgagattggatggaggggcagtcattaatgccctgcagaactccattag Alignment from Spaln_aa2Genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCT-CGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atatctccatcccctggataagtcttggtcttattctccccacctcccagTAGACCCTCTACCATCTGGTCCAGCTCATGAGGCCCTTGAACATCTCTTCAGCTGTGACAGTACAGAGGAGGCCTCTGGTACTCTGGCTcCGAGGTCCCCTCTCTGAGGCTGATCTCACACTTTTTGACCCTTACTCAAAAGTGAgtgagattggatggaggggcagtcattaatgccctgcagaactccattag Alignment from Spaln_nt2Genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTC-GAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atatctccatcccctggataagtcttggtcttattctccccacctcccagTAGACCCTCTACCATCTGGTCCAGCTCATGAGGCCCTTGAACATCTCTTCAGCTGTGACAGTACAGAGGAGGCCTCTGGTACTCTGGCTCCGAGGTCCCCTCTCTGAGGCTGATCTCACACTTTTTGACCCTTACTCAAAAGTGAgtgagattggatggaggggcagtcattaatgccctgcagaactccattag Alignment from Pairagon TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCT-CGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atatctccatcccctggataagtcttggtcttattctccccacctcccagTAGACCCTCTACCATCTGGTCCAGCTCATGAGGCCCTTGAACATCTCTTCAGCTGTGACAGTACAGAGGAGGCCTCTGGTACTCTGGCTCCGAGGTCCCCTCTCTGAGGCTGATCTCACACTTTTTGACCCTTACTCAAAAGTGAgtgagattggatggaggggcagtcattaatgccctgcagaactccattag Alignment from Exonerate_protein2genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCT-CGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAA atatctccatcccctggataagtcttggtcttattctccccacctcccagTAGACCCTCTACCATCTGGTCCAGCTCATGAGGCCCTTGAACATCTCTTCAGCTGTGACAGTACAGAGGAGGCCTCTGGTACTCTGGCTCCGAGGTCCCCTCTCTGAGGCTGATCTCACACTTTTTGACCCTTACTCAAAAgtgagtgagattggatggaggggcagtcattaatgccctgcagaactccattag Alignment from Exonerate_coding2genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCT-CGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAA atatctccatcccctggataagtcttggtcttattctccccacctcccagTAGACCCTCTACCATCTGGTCCAGCTCATGAGGCCCTTGAACATCTCTTCAGCTGTGACAGTACAGAGGAGGCCTCTGGTACTCTGGCTCCGAGGTCCCCTCTCTGAGGCTGATCTCACACTTTTTGACCCTTACTCAAAAgtgagtgagattggatggaggggcagtcattaatgccctgcagaactccattag Alignment from GeneWise TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTG-GCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atatctccatcccctggataagtcttggtcttattctccccacctcccagTAGACCCTCTACCATCTGGTCCAGCTCATGAGGCCCTTGAACATCTCTTCAGCTGTGACAGTACAGAGGAGGCCTCTGGTACTCTGGCTCCGAGGTCCCCTCTCTGAGGCTGATCTCACACTTTTTGACCCTTACTCAAAAGTGAgtgagattggatggaggggcagtcattaatgccctgcagaactccattag #### Snx15_ID1469_3 --> 0 - 1 Original Alignment GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTAT-ACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTg gtcttacccagcccttgctaaggtctgcttctgtgtctccttctccacagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTAGCCTACCACCCACCGGAATCTCTTCCAGGATCTCGAGGAGTTCTCGGCGTTCCCACAAGCCCAGGTGTTTggtaaaatttagacaacatctccagctgatgacatccagaatctccaaatg Alignment from CESAR GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTAT-ACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTg gtcttacccagcccttgctaaggtctgcttctgtgtctccttctccacagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTAGCCTACCACCCACCGGAATCTCTTCCAGGATCTCGAGGAGTTCTCGGCGTTCCCACAAGCCCAGGTGTTTggtaaaatttagacaacatctccagctgatgacatccagaatctccaaatg Alignment from Spaln_aa2Genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTAT-ACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG gtcttacccagcccttgctaaggtctgcttctgtgtctccttctccacagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTAGCCTACcACCCACCGGAATCTCTTCCAGGATCTCGAGGAGTTCTCGGCGTTCCCACAAGCCCAGGTGTTTGgtaaaatttagacaacatctccagctgatgacatccagaatctccaaatg Alignment from Spaln_nt2Genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTAT-ACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG gtcttacccagcccttgctaaggtctgcttctgtgtctccttctccacagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTAGCCTACCACCCACCGGAATCTCTTCCAGGATCTCGAGGAGTTCTCGGCGTTCCCACAAGCCCAGGTGTTTGgtaaaatttagacaacatctccagctgatgacatccagaatctccaaatg Alignment from Pairagon GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTA-TACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG gtcttacccagcccttgctaaggtctgcttctgtgtctccttctccacagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTAGCCTACCACCCACCGGAATCTCTTCCAGGATCTCGAGGAGTTCTCGGCGTTCCCACAAGCCCAGGTGTTTGgtaaaatttagacaacatctccagctgatgacatccagaatctccaaatg Alignment from Exonerate_protein2genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTAT-ACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG gtcttacccagcccttgctaaggtctgcttctgtgtctccttctccacagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTAGCCTACCACCCACCGGAATCTCTTCCAGGATCTCGAGGAGTTCTCGGCGTTCCCACAAGCCCAGGTGTTTGgtaaaatttagacaacatctccagctgatgacatccagaatctccaaatg Alignment from Exonerate_coding2genome GAGGTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTAT-ACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG gtcttacccagcccttgctaaggtctgcttctgtgtctccttctccaCAGGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTAGCCTACCACCCACCGGAATCTCTTCCAGGATCTCGAGGAGTTCTCGGCGTTCCCACAAGCCCAGGTGTTTGgtaaaatttagacaacatctccagctgatgacatccagaatctccaaatg Alignment from GeneWise ---TTCATCTCAAAGAAGGACCCAGAGGATATCAAAGAGGTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTAT-ACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG gtcttacccagCCCTTGCTAAGGTCTGCTTCTGTGTCTCCTTCTCCACAGGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTAGCCTACCACCCACCGGAATCTCTTCCAGGATCTCGAGGAGTTCTCGGCGTTCCCACAAGCCCAGGTGTTTGgtaaaatttagacaacatctccagctgatgacatccagaatctccaaatg #### Snx32_ID1071_7 --> 0 - 1 Original Alignment GAGGTAGATGACTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATC-CGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGt ccaggtgtactgcccccctcaggcctggactttcctccaactctgactagGAGCTAGATGATTTTTTTGAACATGAAAGGCCTTTCCTAGTTCAATATAAAACCCGAATTCTGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAAcgtgagagatctttaggctagaacactgaatgtgcacataccttgaattgc Alignment from CESAR GAGGTAGATGACTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGA-GACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGt ccaggtgtactgcccccctcaggcctggactttcctccaactctgactagGAGCTAGATGATTTTTTTGAACATGAAAGGCCTTTCCTAGTTCAATATAAAACCCGAATTCTGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAAcgtgagagatctttaggctagaacactgaatgtgcacataccttgaattgc Alignment from Spaln_aa2Genome GAGGTAGATGACTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATC-CGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGT ccaggtgtactgcccccctcaggcctggactttcctccaactctgactagGAGCTAGATGATTTTTTTGAACATGAAAGGCCTTTCCTAGTTCAATATAAAACCCGAATTcTGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAACgtgagagatctttaggctagaacactgaatgtgcacataccttgaattgc Alignment from Spaln_nt2Genome GAGGTAGATGACTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCC-GAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGT ccaggtgtactgcccccctcaggcctggactttcctccaactctgactagGAGCTAGATGATTTTTTTGAACATGAAAGGCCTTTCCTAGTTCAATATAAAACCCGAATTCTGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAACgtgagagatctttaggctagaacactgaatgtgcacataccttgaattgc Alignment from Pairagon GAGGTAGATGACTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAA-TCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGT ccaggtgtactgcccccctcaggcctggactttcctccaactctgactagGAGCTAGATGATTTTTTTGAACATGAAAGGCCTTTCCTAGTTCAATATAAAACCCGAATTCTGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAACgtgagagatctttaggctagaacactgaatgtgcacataccttgaattgc Alignment from Exonerate_protein2genome GAGGTAGATGACTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGA-GACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGT ccaggtgtactgcccccctcaggcctggactttcctccaactctgactagGAGCTAGATGATTTTTTTGAACATGAAAGGCCTTTCCTAGTTCAATATAAAACCCGAATTCTGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAACgtgagagatctttaggctagaacactgaatgtgcacataccttgaattgc Alignment from Exonerate_coding2genome GCTCAAGGAGGTAGATGACTTCTTT---GAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGG ccaggtgtactgcccccctcaggcctggactttcctccaactctgactaggagctagatgatttttttgaacatgaaaggcctttcctagttcaatataaaacccgaattctgtgacagCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAACGTGAGAGATCTTTAGGCTAGAACACTGAATGTGCACATACCTTGAATTGC Alignment from GeneWise GAGGTAGATGACTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATC-CGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGT ccaggtgtactgcccccctcaggcctggactttcctccaactctgactagGAGCTAGATGATTTTTTTGAACATGAAAGGCCTTTCCTAGTTCAATATAAAACCCGAATTCTGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAACgtgagagatctttaggctagaacactgaatgtgcacataccttgaattgc #### Snx32_ID1072_6 --> 0 - 0 Original Alignment CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATC-GTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTCAAG acaacattattaagattatccaagtctcaacctcctctcttcctcttcagCTGAGTGTCCATGAGAAGAACAGAAAGGAGGTTTCTGGG------CTACGAGGT---CGTTAGGTATGCAGATGAAATCATCATCACTGGTGGCATTTCAGGGCTCAAAgtgagagtagcgtctgttgtgctgggggcgtcatgccaaactctccaggt Alignment from CESAR CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTCAAG acaacattattaagattatccaagtctcaacctcctctcttcctcttcagCTGAGTGTCCATGAGAAGAACAGAAAGGAGGTTTCTGGG------CTACGA--GGTCGTTAGGTATGCAGATGAAATCATCATCACTGGTGGCATTTCAGGGCTCAAAgtgagagtagcgtctgttgtgctgggggcgtcatgccaaactctccaggt Alignment from Spaln_aa2Genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTCAAG acaacattattaagattatccaagtctcaacctcctctcttcctcttcagCTGAGTGTCCATGAGAAGAACAGAAAGGAGGTTTCTGGG------CTACGAG--GTCGTTAGGTATGCAGATGAAATCATCATCACTGGTGGCATTTCAGGGCTCAAAgtgagagtagcgtctgttgtgctgggggcgtcatgccaaactctccaggt Alignment from Spaln_nt2Genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACCGG---CATATCAGGGCTCAAG acaacattattaagattatccaagtctcaacctcctctcttcctcttcagCTGAGTGTCCATGAGAAGAACAGAAAGGAGGTTT---CTGGGCTAC-GAGG----TCGTTAGGTATGCAGATGAAATCATCATCACTGGTGGCATTTCAGGGCTCAAAgtgagagtagcgtctgttgtgctgggggcgtcatgccaaactctccaggt Alignment from Pairagon CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGG------GAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCAC---CGGCATATCAGGGCTCAAG acaacattattaagattatccaagtctcaacctcctctcttcctcttcagCTGAGTGTCCATGAGAAGAACAGAAAGGAGGTTTCTGGGCTACGAGG--------------TCGTTAGGTATGCAGATGAAATCATCATCACTGGTGGCATTTCAGGGCTCAAAgtgagagtagcgtctgttgtgctgggggcgtcatgccaaactctccaggt Alignment from Exonerate_protein2genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGC-ATCGTCAGGTCTGCAGATGAAGTCCTCATCACCGGCATATCAGGGCTCAAG acaacattattaagattatccaagtctcaacctcctctcttcctcttcagCTGAGTGTCCATGAGAAGAACAGAAAGGAGGTTTCTGGG------CTACGAGGTCGTTAGGTATGCAGATGAAATCATCATCACTGGTGGCATTTCAGGGCTCAAAgtgagagtagcgtctgttgtgctgggggcgtcatgccaaactctccaggt Alignment from Exonerate_coding2genome acaacattattaagattatccaagtctcaacctcctctcttcctcttcagctgagtgtccatgagaagaacagaaaggaggtttctgggctacgaggtcgttaggtatgcagatgaaatcatcatcactggtggcatttcagggctcaaagtgagagtagcgtctgttgtgctgggggcgtcatgccaaactctccaggt Alignment from GeneWise CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACCGGC---ATATCAGGGCTCAAG acaacattattaagattatccaagtctcaacctcctctcttcctcttcagCTGAGTGTCCATGAGAAGAACAGAAAGGAGGTTTCTGGG------CTACGAG--GTCGTTAGGTATGCAGATGAAATCATCATCACTGGTGGCATTTCAGGGCTCAAAgtgagagtagcgtctgttgtgctgggggcgtcatgccaaactctccaggt #### Snx32_ID1074_4 --> 0 - 2 Original Alignment ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAA-AAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAgc tctagctggaaatgttgtgttaatttgggaaaatcaggctctgattccagCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAAGCCTCAAGGGAACAAACTGCAGAGGTTAGGTGAAGGTAATAGTTCAATCACCCGGGAAGAGTTCTCCAAGATGAAACCAGAGTTAGAAgcgttagtatttccctccatctccttgattctagtagagttttcaaagtctc Alignment from CESAR ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAA-AAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAgc tctagctggaaatgttgtgttaatttgggaaaatcaggctctgattccagCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAAGCCTCAAGGGAACAAACTGCAGAGGTTAGGTGAAGGTAATAGTTCAATCACCCGGGAAGAGTTCTCCAAGATGAAACCAGAGTTAGAAgcgttagtatttccctccatctccttgattctagtagagttttcaaagtctc Alignment from Spaln_aa2Genome ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAA-AAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC tctagctggaaatgttgtgttaatttgggaaaatcaggctctgattccagCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAAGCCTCAAGGGAAcAAACTGCAGAGGTTAGGTGAAGGTAATAGTTCAATCACCCGGGAAGAGTTCTCCAAGATGAAACCAGAGTTAGAAGCgttagtatttccctccatctccttgattctagtagagttttcaaagtctc Alignment from Spaln_nt2Genome ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAA-AAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC tctagctggaaatgttgtgttaatttgggaaaatcaggctctgattccagCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAAGCCTCAAGGGAACAAACTGCAGAGGTTAGGTGAAGGTAATAGTTCAATCACCCGGGAAGAGTTCTCCAAGATGAAACCAGAGTTAGAAGCgttagtatttccctccatctccttgattctagtagagttttcaaagtctc Alignment from Pairagon GTACGCCGGCCTCATCATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAA-AAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC tctagctggaaatgttgtgttaatttgggaaaatcaggctctgattccag----------------CTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAAGCCTCAAGGGAACAAACTGCAGAGGTTAGGTGAAGGTAATAGTTCAATCACCCGGGAAGAGTTCTCCAAGATGAAACCAGAGTTAGAAGCgttagtatttccctccatctccttgattctagtagagttttcaaagtctc Alignment from Exonerate_protein2genome CATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC tctagctggaaatgttgtgttaatttgggaaaatcaggctctgattccagCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAAGCCTCAAGGGAACAAACTGCAGAGGTTAGGTGAAGGTAATAGTTCAATCACCCGGGAAGAGTTCTCCAAGATGAAACCAGAGTTAGAAGCgttagtatttccctccatctccttgattctagtagagttttcaaagtctc Alignment from Exonerate_coding2genome CATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC tctagctggaaatgttgtgttaatttgggaaaatcaggctctgattccagCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAAGCCTCAAGGGAACAAACTGCAGAGGTTAGGTGAAGGTAATAGTTCAATCACCCGGGAAGAGTTCTCCAAGATGAAACCAGAGTTAGAAGCgttagtatttccctccatctccttgattctagtagagttttcaaagtctc Alignment from GeneWise ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAA-AAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC tctagctggaaatgttgtgttaatttgggaaaatcaggctctgattccagCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAAGCCTCAAGGGAACAAACTGCAGAGGTTAGGTGAAGGTAATAGTTCAATCACCCGGGAAGAGTTCTCCAAGATGAAACCAGAGTTAGAAGCgttagtatttccctccatctccttgattctagtagagttttcaaagtctc #### Sptbn2_ID610_5 --> 1 - 2 Original Alignment GATGAAGACTGCAgg aTACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATT-GTGCACAAACACcg GATGAAAACAGCTgggtacatgatgtgaaggttgccccctttcccctcaggTACCCCAATGTCAATGTGCATAACTTCACCACCAGCTGGAGAGATGGGCTAGCCTTCAATGCCATCCATACATAAACACcggtgggcgtgtgaggtcctagctcctgacttacctatttgttcggatgtat Alignment from CESAR GATGAAGACTGCAgg aTACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATT-GTGCACAAACACcg GATGAAAACAGCTgggtaagagatgtgaaggttgccccctttcccctcaggTACCCCAATGTCAATGTGCATAACTTCACCACCAGCTGGAGAGATGGGCTAGCCTTCAATGCCATCCATACATAAACACcggtgggcgtgtgaggtcctagctcctgacttacctatttgttcggatgtat Alignment from Spaln_aa2Genome GATGAAGACTGCAGG ATACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATT-GTGCACAAACACCG GATGAAAACAGCTGGgtacatgatgtgaaggttgccccctttcccctcagGTACCCCAATGTCAATGTGCATAACTTCACCACCAGCTGGAGAGATGGGCTAGCCTTCAATGCCATCcATACATAAACACCGgtgggcgtgtgaggtcctagctcctgacttacctatttgttcggatgtat Alignment from Spaln_nt2Genome GATGAAGACTGCAGGATAC-----------------------------------CCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTG-TGCACAAACACCG GATGAAAACAGCTGGGTACATGATGTGAAGGTTGCCCCCTTTCCCCTCAGGTACCCCAATGTCAATGTGCATAACTTCACCACCAGCTGGAGAGATGGGCTAGCCTTCAATGCCATCCATACATAAACACCGgtgggcgtgtgaggtcctagctcctgacttacctatttgttcggatgtat Alignment from Pairagon GATGAAGACTGCAGG ATACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCAT-TGTGCACAAACACCG GATGAAAACAGCTGGgtacatgatgtgaaggttgccccctttcccctcagGTACCCCAATGTCAATGTGCATAACTTCACCACCAGCTGGAGAGATGGGCTAGCCTTCAATGCCATCCATACATAAACACCGgtgggcgtgtgaggtcctagctcctgacttacctatttgttcggatgtat Alignment from Exonerate_protein2genome gatgaaaacagctgggtacatgatgtgaaggttgccccctttcccctcaggtaccccaatgtcaatgtgcataacttcaccaccagctggagagatgggctagccttcaatgccatccatacataaacaccggtgggcgtgtgaggtcctagctcctgacttacctatttgttcggatgtat Alignment from Exonerate_coding2genome gatgaaaacagctgggtacatgatgtgaaggttgccccctttcccctcaggtaccccaatgtcaatgtgcataacttcaccaccagctggagagatgggctagccttcaatgccatccatacataaacaccggtgggcgtgtgaggtcctagctcctgacttacctatttgttcggatgtat Alignment from GeneWise GATGAAGACTGCAGG ATACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATT-GTGCACAAACACCG GATGAAAACAGCTGGgtacatgatgtgaaggttgccccctttcccctcagGTACCCCAATGTCAATGTGCATAACTTCACCACCAGCTGGAGAGATGGGCTAGCCTTCAATGCCATCCATACATAAACACCGgtgggcgtgtgaggtcctagctcctgacttacctatttgttcggatgtat #### Sptbn2_ID612_7 --> 2 - 0 Original Alignment atGTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTACGTGGCCACTTACTACCACTACTTCTCCAAGATGAAG-GCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaagttattgaatgttgctgttttaaatacagatGTGAATGTAGATCAGCCTGATGAGCAGTCTGTCATTACCTATGTG------TACTACCACTACTTCTCCAGGATGAAGCGCTCTTTCAGTGGAAGGGAAAAGAACTGGGAAGgtgatgtctccattgtaatctatctgtaagttccagtaaggaccagatta Alignment from CESAR atGTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTACGTGGCCACTTACTACCACTACTTCTCCAAGATGAAG-GCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaagttattgaatgttgctgttttaaatacagatGTGAATGTAGATCAGCCTGATGAGCAGTCTGTCATTACCTATGTG------TACTACCACTACTTCTCCAGGATGAAGCGCTCTTTCAGTGGAAGGGAAAAGAACTGGGAAGgtgatgtctccattgtaatctatctgtaagttccagtaaggaccagatta Alignment from Spaln_aa2Genome ATGTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTACGTGGCCACTTACTACCACTACTTCTCCAAGATGAAG-GCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaagttattgaatgttgctgttttaaatacagATGTGAATGTAGATCAGCCTGATGAGCAGTCTGTCATTACCTATGTG------TACTACCACTACTTCTCCAGGATGAAGcGCTCTTTCAGTGGAAGGGAAAAGAACTGGGAAGgtgatgtctccattgtaatctatctgtaagttccagtaaggaccagatta Alignment from Spaln_nt2Genome ATGTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTACGTGGCCACTTACTACCACTACTTCTCCAAGATGAAG-GCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaagttattgaatgttgctgttttaaatacagATGTGAATGTAGATCAGCCTGATGAGCAGTCTGTCATTACCTATGTG------TACTACCACTACTTCTCCAGGATGAAGCGCTCTTTCAGTGGAAGGGAAAAGAACTGGGAAGgtgatgtctccattgtaatctatctgtaagttccagtaaggaccagatta Alignment from Pairagon ATGTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTACGTGGCCACTTACTACCACTACTTCTCCAAGATGAAG-GCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaagttattgaatgttgctgttttaaatacagATGTGAATGTAGATCAGCCTGATGAGCAGTCTGTCATTACCTATGTG------TACTACCACTACTTCTCCAGGATGAAGCGCTCTTTCAGTGGAAGGGAAAAGAACTGGGAAGgtgatgtctccattgtaatctatctgtaagttccagtaaggaccagatta Alignment from Exonerate_protein2genome agggacatggggggaacacaagttattgaatgttgctgttttaaatacagatgtgaatgtagatcagcctgatgagcagtctgtcattacctatgtgtactaccactacttctccaggatgaagcgctctttcagtggaagggaaaagaactgggaaggtgatgtctccattgtaatctatctgtaagttccagtaaggaccagatta Alignment from Exonerate_coding2genome agggacatggggggaacacaagttattgaatgttgctgttttaaatacagatgtgaatgtagatcagcctgatgagcagtctgtcattacctatgtgtactaccactacttctccaggatgaagcgctctttcagtggaagggaaaagaactgggaaggtgatgtctccattgtaatctatctgtaagttccagtaaggaccagatta Alignment from GeneWise ATGTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTACGTGGCCACTTACTACCACTACTTCTCCAAGATGAAG-GCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaagttattgaatgttgctgttttaaatacagATGTGAATGTAGATCAGCCTGATGAGCAGTCTGTCATTACCTATGTG------TACTACCACTACTTCTCCAGGATGAAGCGCTCTTTCAGTGGAAGGGAAAAGAACTGGGAAGgtgatgtctccattgtaatctatctgtaagttccagtaaggaccagatta #### Sptbn2_ID615_10 --> 0 - 0 Original Alignment GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGC-AAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ctaacccattctgccactacccccactttccttgtgccttgttcctgcagGCCTGGGAGCGATTGGAGAAATCCGAACATGAGAGAGAGCTAGCATTGCGCACAGAGCTCATTCGTCAGAAAAAGCTAGAGAAATTAGCTGCTCGATTTGACCACCAAGGCTTCTATGCGGAAGACTTGGCTCAGAGAGAATCAGCGTCTTGTTTCTCAAgtgaggtttctccaccagcctaaaaggtgtatattaatgagatctgtgca Alignment from CESAR GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGC-AAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ctaacccattctgccactacccccactttccttgtgccttgttcctgcagGCCTGGGAGCGATTGGAGAAATCCGAACATGAGAGAGAGCTAGCATTGCGCACAGAGCTCATTCGTCAGAAAAAGCTAGAGAAATTAGCTGCTCGATTTGACCACCAAGGCTTCTATGCGGAAGACTTGGCTCAGAGAGAATCAGCGTCTTGTTTCTCAAgtgaggtttctccaccagcctaaaaggtgtatattaatgagatctgtgca Alignment from Spaln_aa2Genome GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGC-AAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ctaacccattctgccactacccccactttccttgtgccttgttcctgcagGCCTGGGAGCGATTGGAGAAATCCGAACATGAGAGAGAGCTAGCATTGCGCACAGAGCTCATTCGTCAGAAAAAGCTAGAGAAATTAGCTGCTCGATTTGACCACcAAGGCTTCTATGCGGAAGACTTGGCTCAGAGAGAATCAGCGTCTTGTTTCTCAAgtgaggtttctccaccagcctaaaaggtgtatattaatgagatctgtgca Alignment from Spaln_nt2Genome GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCA-AGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ctaacccattctgccactacccccactttccttgtgccttgttcctgcagGCCTGGGAGCGATTGGAGAAATCCGAACATGAGAGAGAGCTAGCATTGCGCACAGAGCTCATTCGTCAGAAAAAGCTAGAGAAATTAGCTGCTCGATTTGACCACCAAGGCTTCTATGCGGAAGACTTGGCTCAGAGAGAATCAGCGTCTTGTTTCTCAAgtgaggtttctccaccagcctaaaaggtgtatattaatgagatctgtgca Alignment from Pairagon GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCG-CAAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ctaacccattctgccactacccccactttccttgtgccttgttcctgcagGCCTGGGAGCGATTGGAGAAATCCGAACATGAGAGAGAGCTAGCATTGCGCACAGAGCTCATTCGTCAGAAAAAGCTAGAGAAATTAGCTGCTCGATTTGACCACCAAGGCTTCTATGCGGAAGACTTGGCTCAGAGAGAATCAGCGTCTTGTTTCTCAAgtgaggtttctccaccagcctaaaaggtgtatattaatgagatctgtgca Alignment from Exonerate_protein2genome ctaacccattctgccactacccccactttccttgtgccttgttcctgcaggcctgggagcgattggagaaatccgaacatgagagagagctagcattgcgcacagagctcattcgtcagaaaaagctagagaaattagctgctcgatttgaccaccaaggcttctatgcggaagacttggctcagagagaatcagcgtcttgtttctcaagtgaggtttctccaccagcctaaaaggtgtatattaatgagatctgtgca Alignment from Exonerate_coding2genome ctaacccattctgccactacccccactttccttgtgccttgttcctgcaggcctgggagcgattggagaaatccgaacatgagagagagctagcattgcgcacagagctcattcgtcagaaaaagctagagaaattagctgctcgatttgaccaccaaggcttctatgcggaagacttggctcagagagaatcagcgtcttgtttctcaagtgaggtttctccaccagcctaaaaggtgtatattaatgagatctgtgca Alignment from GeneWise GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGAC-CGCAAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ctaacccattctgccactacccccactttccttgtgccttgttcctgcagGCCTGGGAGCGATTGGAGAAATCCGAACATGAGAGAGAGCTAGCATTGCGCACAGAGCTCATTCGTCAGAAAAAGCTAGAGAAATTAGCTGCTCGATTTGACCACCAAGGCTTCTATGCGGAAGACTTGGCTCAGAGAGAATCAGCGTCTTGTTTCTCAAgtgaggtttctccaccagcctaaaaggtgtatattaatgagatctgtgca #### Sptbn2_ID632_27 --> 1 - 0 Original Alignment gGATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGGCAGGAGCTG-CTGGCCCGGAGCCACTATGCTGCTGAGGAG ggttgggccagacttcaagattagctttggttggtttctggttctctcagtGAAGTGTCATCTGCAGACTTAGTCATCAAGAACCAGCCAGGCATCAAGGCAGAAATTGAGGCTAGAGCAGACAGGTTTTCTTCCTGCATTGACATGGGCCAGGAACTGCCTGGCTAGGAGCCATTATGCTGCCCAGGAAgtaagtaagggctggaaaatatcaatcctactaccaagcaagcaagccca Alignment from CESAR gGATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGGCAGGAGCTG-CTGGCCCGGAGCCACTATGCTGCTGAGGAG ggttgggccagacttcaagattagctttggttggtttctggttctctcagtGAAGTGTCATCTGCAGACTTAGTCATCAAGAACCAGCCAGGCATCAAGGCAGAAATTGAGGCTAGAGCAGACAGGTTTTCTTCCTGCATTGACATGGGCCAGGAACTGCCTGGCTAGGAGCCATTATGCTGCCCAGGAAgtaagtaagggctggaaaatatcaatcctactaccaagcaagcaagccca Alignment from Spaln_aa2Genome GGATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGGCAGGAGCTG-CTGGCCCGGAGCCACTATGCTGCTGAGGAG ggttgggccagacttcaagattagctttggttggtttctggttctctcagTGAAGTGTCATCTGCAGACTTAGTCATCAAGAACCAGCCAGGCATCAAGGCAGAAATTGAGGCTAGAGCAGACAGGTTTTCTTCCTGCATTGACATGGGCCAGGAACTGcCTGGCTAGGAGCCATTATGCTGCCCAGGAAgtaagtaagggctggaaaatatcaatcctactaccaagcaagcaagccca Alignment from Spaln_nt2Genome GGATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGGCAGGAGCTGC-TGGCCCGGAGCCACTATGCTGCTGAGGAG ggttgggccagacttcaagattagctttggttggtttctggttctctcagTGAAGTGTCATCTGCAGACTTAGTCATCAAGAACCAGCCAGGCATCAAGGCAGAAATTGAGGCTAGAGCAGACAGGTTTTCTTCCTGCATTGACATGGGCCAGGAACTGCCTGGCTAGGAGCCATTATGCTGCCCAGGAAgtaagtaagggctggaaaatatcaatcctactaccaagcaagcaagccca Alignment from Pairagon GGATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGGCAGGAGCTG-CTGGCCCGGAGCCACTATGCTGCTGAGGAG ggttgggccagacttcaagattagctttggttggtttctggttctctcagTGAAGTGTCATCTGCAGACTTAGTCATCAAGAACCAGCCAGGCATCAAGGCAGAAATTGAGGCTAGAGCAGACAGGTTTTCTTCCTGCATTGACATGGGCCAGGAACTGCCTGGCTAGGAGCCATTATGCTGCCCAGGAAgtaagtaagggctggaaaatatcaatcctactaccaagcaagcaagccca Alignment from Exonerate_protein2genome GGATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGGCAGGAGCTG-CTGGCCCGGAGCCACTATGCTGCTGAGGAG ggttgggccagacttcaagattagctttggttggtttctggttctctcagTGAAGTGTCATCTGCAGACTTAGTCATCAAGAACCAGCCAGGCATCAAGGCAGAAATTGAGGCTAGAGCAGACAGGTTTTCTTCCTGCATTGACATGGGCCAGGAACTGCCTGGCTAGGAGCCATTATGCTGCCCAGGAAgtaagtaagggctggaaaatatcaatcctactaccaagcaagcaagccca Alignment from Exonerate_coding2genome GGATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGGCAGGAGCTG-CTGGCCCGGAGCCACTATGCTGCTGAGGAG ggttgggccagacttcaagattagctttggttggtttctggttctctcagTGAAGTGTCATCTGCAGACTTAGTCATCAAGAACCAGCCAGGCATCAAGGCAGAAATTGAGGCTAGAGCAGACAGGTTTTCTTCCTGCATTGACATGGGCCAGGAACTGCCTGGCTAGGAGCCATTATGCTGCCCAGGAAgtaagtaagggctggaaaatatcaatcctactaccaagcaagcaagccca Alignment from GeneWise GGATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGGCAGGAGCTG-CTGGCCCGGAGCCACTATGCTGCTGAGGAG ggttgggccagacttcaagattagctttggttggtttctggttctctcagTGAAGTGTCATCTGCAGACTTAGTCATCAAGAACCAGCCAGGCATCAAGGCAGAAATTGAGGCTAGAGCAGACAGGTTTTCTTCCTGCATTGACATGGGCCAGGAACTGCCTGGCTAGGAGCCATTATGCTGCCCAGGAAgtaagtaagggctggaaaatatcaatcctactaccaagcaagcaagccca #### Sptbn2_ID634_29 --> 2 - 0 Original Alignment ttTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACT-GTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG aatgaacctttaaagtctctatataaccctcatagctgctctccctttagtaTTAGAGGTACTTGTATTTGGGAAAGATGCGGGGATGTCAGAGGCATGGCTGTGCAGCCAGGCACCAGTGGTGCGAAGTCCAGAATTGGGTTGTACTCGTGGATGAAGTAGAGGCTCTCATGAAGCGGCATGAGGCCTATCAGAAATCAGCTGTAGCATGGGAAGAGCGATTTGGTGCATTAGATAAGCTCACTGCAgtaagtctaccggtacatgttcatagacccttgattgttgtgcttcatct Alignment from CESAR ttTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACT-GTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG aatgaacctttaaagtctctatataaccctcatagctgctctccctttagtaTTAGAGGTACTTGTATTTGGGAAAGATGCGGGGATGTCAGAGGCATGGCTGTGCAGCCAGGCACCAGTGGTGCGAAGTCCAGAATTGGGTTGTACTCGTGGATGAAGTAGAGGCTCTCATGAAGCGGCATGAGGCCTATCAGAAATCAGCTGTAGCATGGGAAGAGCGATTTGGTGCATTAGATAAGCTCACTGCAgtaagtctaccggtacatgttcatagacccttgattgttgtgcttcatct Alignment from Spaln_aa2Genome TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACT-GTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG aatgaacctttaaagtctctatataaccctcatagctgctctccctttagTATTAGAGGTACTTGTATTTGGGAAAGATGCGGGGATGTCAGAGGCATGGCTGTGCAGCCAGGCACCAGTGGTGCGAAGTCCAGAATTGGGTTGTACTcGTGGATGAAGTAGAGGCTCTCATGAAGCGGCATGAGGCCTATCAGAAATCAGCTGTAGCATGGGAAGAGCGATTTGGTGCATTAGATAAGCTCACTGCAgtaagtctaccggtacatgttcatagacccttgattgttgtgcttcatct Alignment from Spaln_nt2Genome TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACT-GTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG aatgaacctttaaagtctctatataaccctcatagctgctctccctttagTATTAGAGGTACTTGTATTTGGGAAAGATGCGGGGATGTCAGAGGCATGGCTGTGCAGCCAGGCACCAGTGGTGCGAAGTCCAGAATTGGGTTGTACTCGTGGATGAAGTAGAGGCTCTCATGAAGCGGCATGAGGCCTATCAGAAATCAGCTGTAGCATGGGAAGAGCGATTTGGTGCATTAGATAAGCTCACTGCAgtaagtctaccggtacatgttcatagacccttgattgttgtgcttcatct Alignment from Pairagon TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACT-GTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG aatgaacctttaaagtctctatataaccctcatagctgctctccctttagTATTAGAGGTACTTGTATTTGGGAAAGATGCGGGGATGTCAGAGGCATGGCTGTGCAGCCAGGCACCAGTGGTGCGAAGTCCAGAATTGGGTTGTACTCGTGGATGAAGTAGAGGCTCTCATGAAGCGGCATGAGGCCTATCAGAAATCAGCTGTAGCATGGGAAGAGCGATTTGGTGCATTAGATAAGCTCACTGCAgtaagtctaccggtacatgttcatagacccttgattgttgtgcttcatct Alignment from Exonerate_protein2genome TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACT-GTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG aatgaacctttaaagtctctatataaccctcatagctgctctccctttagTATTAGAGGTACTTGTATTTGGGAAAGATGCGGGGATGTCAGAGGCATGGCTGTGCAGCCAGGCACCAGTGGTGCGAAGTCCAGAATTGGGTTGTACTCGTGGATGAAGTAGAGGCTCTCATGAAGCGGCATGAGGCCTATCAGAAATCAGCTGTAGCATGGGAAGAGCGATTTGGTGCATTAGATAAGCTCACTGCAgtaagtctaccggtacatgttcatagacccttgattgttgtgcttcatct Alignment from Exonerate_coding2genome TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACT-GTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG aatgaacctttaaagtctctatataaccctcatagctgctctccctttagTATTAGAGGTACTTGTATTTGGGAAAGATGCGGGGATGTCAGAGGCATGGCTGTGCAGCCAGGCACCAGTGGTGCGAAGTCCAGAATTGGGTTGTACTCGTGGATGAAGTAGAGGCTCTCATGAAGCGGCATGAGGCCTATCAGAAATCAGCTGTAGCATGGGAAGAGCGATTTGGTGCATTAGATAAGCTCACTGCAgtaagtctaccggtacatgttcatagacccttgattgttgtgcttcatct Alignment from GeneWise TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACT-GTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG aatgaacctttaaagtctctatataaccctcatagctgctctccctttagTATTAGAGGTACTTGTATTTGGGAAAGATGCGGGGATGTCAGAGGCATGGCTGTGCAGCCAGGCACCAGTGGTGCGAAGTCCAGAATTGGGTTGTACTCGTGGATGAAGTAGAGGCTCTCATGAAGCGGCATGAGGCCTATCAGAAATCAGCTGTAGCATGGGAAGAGCGATTTGGTGCATTAGATAAGCTCACTGCAgtaagtctaccggtacatgttcatagacccttgattgttgtgcttcatct #### Ssh3_ID443_13 --> 1 - 0 Original Alignment cCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTG------GCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGA-GGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagttaattattacagcacttagggttatctgactgtctttctcttatagcCAACAGAGCCGTGTTTGGGAGCAAAAAGTAGGTGGTGTT---CCTGAGGAACCCTTAGCACCAGCACCTGAAGTTTCCACCCCATTGCCATCTTTTCCTCCTGAACCAGGAGGAAGTGGGGAGGTTATGGTGATGGGCCTGGAAGGAAGCCAAGAGATGCCAAAAGAAGATCTGGGACTGCAGCCTAGAATCAACCTCCGGCGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGTAGAGAGTACACCAGAGGCAGGGGGTCTGCCAGAGgtaagctcagaccagaggtatgtgccattccagtaatcaccctgtcaccc Alignment from CESAR cCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCG------CCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGA-GGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagttaattattacagcacttagggttatctgactgtctttctcttatagcCAACAGAGCCGTGTTTGGGAGCAAAAAGTAGGTGGTGTT---CCTGAGGAACCCTTAGCACCAGCACCTGAAGTTTCCACCCCATTGCCATCTTTTCCTCCTGAACCAGGAGGAAGTGGGGAGGTTATGGTGATGGGCCTGGAAGGAAGCCAAGAGATGCCAAAAGAAGATCTGGGACTGCAGCCTAGAATCAACCTCCGGCGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGTAGAGAGTACACCAGAGGCAGGGGGTCTGCCAGAGgtaagctcagaccagaggtatgtgccattccagtaatcaccctgtcaccc Alignment from Spaln_aa2Genome CCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTG------GCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGA-GGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagttaattattacagcacttagggttatctgactgtctttctcttatagCCAACAGAGCCGTGTTTGGGAGCAAAAAGTAGGTGGTGTT---CCTGAGGAACCCTTAGCACCAGCACCTGAAGTTTCCACCCCATTGCCATCTTTTCCTCCTGAACCAGGAGGAAGTGGGGAGGTTATGGTGATGGGCCTGGAAGGAAGCCAAGAGATGCCAAAAGAAGATCTGGGACTGCAGCCTAGAATCAACCTCCGGcGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGTAGAGAGTACACCAGAGGCAGGGGGTCTGCCAGAGgtaagctcagaccagaggtatgtgccattccagtaatcaccctgtcaccc Alignment from Spaln_nt2Genome CCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCC------TGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGA-GGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagttaattattacagcacttagggttatctgactgtctttctcttatagCCAACAGAGCCGTGTTTGGGAGCAAAAAGTAGGTGGTGT---TCCTGAGGAACCCTTAGCACCAGCACCTGAAGTTTCCACCCCATTGCCATCTTTTCCTCCTGAACCAGGAGGAAGTGGGGAGGTTATGGTGATGGGCCTGGAAGGAAGCCAAGAGATGCCAAAAGAAGATCTGGGACTGCAGCCTAGAATCAACCTCCGGCGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGTAGAGAGTACACCAGAGGCAGGGGGTCTGCCAGAGgtaagctcagaccagaggtatgtgccattccagtaatcaccctgtcaccc Alignment from Pairagon CCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCC------CTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGA-GGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagttaattattacagcacttagggttatctgactgtctttctcttatagCCAACAGAGCCGTGTTTGGGAGCAAAAAGTAGGTGGTGT---TCCTGAGGAACCCTTAGCACCAGCACCTGAAGTTTCCACCCCATTGCCATCTTTTCCTCCTGAACCAGGAGGAAGTGGGGAGGTTATGGTGATGGGCCTGGAAGGAAGCCAAGAGATGCCAAAAGAAGATCTGGGACTGCAGCCTAGAATCAACCTCCGGCGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGTAGAGAGTACACCAGAGGCAGGGGGTCTGCCAGAGgtaagctcagaccagaggtatgtgccattccagtaatcaccctgtcaccc Alignment from Exonerate_protein2genome CCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTG------GCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGA-GGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagttaattattacagcacttagggttatctgactgtctttctcttatagCCAACAGAGCCGTGTTTGGGAGCAAAAAGTAGGTGGTGTT---CCTGAGGAACCCTTAGCACCAGCACCTGAAGTTTCCACCCCATTGCCATCTTTTCCTCCTGAACCAGGAGGAAGTGGGGAGGTTATGGTGATGGGCCTGGAAGGAAGCCAAGAGATGCCAAAAGAAGATCTGGGACTGCAGCCTAGAATCAACCTCCGGCGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGTAGAGAGTACACCAGAGGCAGGGGGTCTGCCAGAGgtaagctcagaccagaggtatgtgccattccagtaatcaccctgtcaccc Alignment from Exonerate_coding2genome CCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTG------GCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGA-GGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagttaattattacagcacttagggttatctgactgtctttctcttatagCCAACAGAGCCGTGTTTGGGAGCAAAAAGTAGGTGGTGTT---CCTGAGGAACCCTTAGCACCAGCACCTGAAGTTTCCACCCCATTGCCATCTTTTCCTCCTGAACCAGGAGGAAGTGGGGAGGTTATGGTGATGGGCCTGGAAGGAAGCCAAGAGATGCCAAAAGAAGATCTGGGACTGCAGCCTAGAATCAACCTCCGGCGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGTAGAGAGTACACCAGAGGCAGGGGGTCTGCCAGAGgtaagctcagaccagaggtatgtgccattccagtaatcaccctgtcaccc Alignment from GeneWise CCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTG------GCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTT-CGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagttaattattacagcacttagggttatctgactgtctttctcttatagCCAACAGAGCCGTGTTTGGGAGCAAAAAGTAGGTGGTGTT---CCTGAGGAACCCTTAGCACCAGCACCTGAAGTTTCCACCCCATTGCCATCTTTTCCTCCTGAACCAGGAGGAAGTGGGGAGGTTATGGTGATGGGCCTGGAAGGAAGCCAAGAGATGCCAAAAGAAGATCTGGGACTGCAGCCTAGAATCAACCTCCGGCGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGTAGAGAGTACACCAGAGGCAGGGGGTCTGCCAGAGgtaagctcagaccagaggtatgtgccattccagtaatcaccctgtcaccc #### Ssh3_ID446_10 --> 0 - 2 Original Alignment TTG GGCTCTGAGTGGAAT-GCTGCCAACCTGGAGGAACTTCAGAAAAACag TTAgtacctggtcttctattcattcttcaatgatctcttccctctgacagGGCACTGAATGGAATCGCTGCCAACCTAGAAGAGCTCCAAAAGAACaggtaccattgcttgctaactgtgagcccttattgacctcccctctcagctt Alignment from CESAR TTG GGCTCTGAGTGGAAT-GCTGCCAACCTGGAGGAACTTCAGAAAAACag TTAgtaaacggtcttctattcattcttcaatgatctcttccctctgacagGGCACTGAATGGAATCGCTGCCAACCTAGAAGAGCTCCAAAAGAACaggtaccattgcttgctaactgtgagcccttattgacctcccctctcagctt Alignment from Spaln_aa2Genome TTG GGCTCTGAGTGGAAT-GCTGCCAACCTGGAGGAACTTCAGAAAAACAG TTAgtacctggtcttctattcattcttcaatgatctcttccctctgacagGGCACTGAATGGAATcGCTGCCAACCTAGAAGAGCTCCAAAAGAACAGgtaccattgcttgctaactgtgagcccttattgacctcccctctcagctt Alignment from Spaln_nt2Genome TTG GGCTCTGAGTGGAAT-GCTGCCAACCTGGAGGAACTTCAGAAAAACAG TTAgtacctggtcttctattcattcttcaatgatctcttccctctgacagGGCACTGAATGGAATCGCTGCCAACCTAGAAGAGCTCCAAAAGAACAGgtaccattgcttgctaactgtgagcccttattgacctcccctctcagctt Alignment from Pairagon TT-----------------------------------------------GGGCTCTGAGTGGAAT-GCTGCCAACCTGGAGGAACTTCAGAAAAACAG TTAGTACCTGGTCTTCTATTCATTCTTCAATGATCTCTTCCCTCTGACAGGGCACTGAATGGAATCGCTGCCAACCTAGAAGAGCTCCAAAAGAACAGgtaccattgcttgctaactgtgagcccttattgacctcccctctcagctt Alignment from Exonerate_protein2genome TTG GGCTCTGAGTGGAAT-GCTGCCAACCTGGAGGAACTTCAGAAAAACAG TTAgtacctggtcttctattcattcttcaatgatctcttccctctgacagGGCACTGAATGGAATCGCTGCCAACCTAGAAGAGCTCCAAAAGAACAGgtaccattgcttgctaactgtgagcccttattgacctcccctctcagctt Alignment from Exonerate_coding2genome ttagtacctggtcttctattcattcttcaatgatctcttccctctgacagggcactgaatggaatcgctgccaacctagaagagctccaaaagaacaggtaccattgcttgctaactgtgagcccttattgacctcccctctcagctt Alignment from GeneWise TTGGGCTCT- TTAGTACCTGgtcttctattcattcttcaatgatctcttccctctgacagggcactgaatggaatcgctgccaacctagaagagctccaaaagaacaggtaccattgcttgctaactgtgagcccttattgacctcccctctcagctt #### Ssh3_ID449_7 --> 1 - 2 Original Alignment gGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTC-AATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGAca tatctggttggtcatctagggccaaggtctctgactcatcccattgccaggGCCACATTGCAAGTATTGCATCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGGAGTGCTCTAGCATGGGCTACTTACTATCAGGTGAAGCTTAACTCTGATCAGGGCTGCCTACAATGAATGGATGGCAATGTCTGACCTGGAAACATTTCGACCACCCAATGCTGAGCCCACAcagtaaggggcaggacagggcaaagcagaaaaataatgtggagggtgtttac Alignment from CESAR gGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTC-AATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGAca tatctggttggtcatctagggccaaggtctctgactcatcccattgccaggGCCACATTGCAAGTATTGCATCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGGAGTGCTCTAGCATGGGCTACTTACTATCAGGTGAAGCTTAACTCTGATCAGGGCTGCCTACAATGAATGGATGGCAATGTCTGACCTGGAAACATTTCGACCACCCAATGCTGAGCCCACAcagtaaggggcaggacagggcaaagcagaaaaataatgtggagggtgtttac Alignment from Spaln_aa2Genome GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTC-AATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA tatctggttggtcatctagggccaaggtctctgactcatcccattgccagGGCCACATTGCAAGTATTGCATCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGGAGTGCTCTAGCATGGGCTACTTACTATCAGGTGAAGCTTAACTCTGATCAGGGCTGCCTAcAATGAATGGATGGCAATGTCTGACCTGGAAACATTTCGACCACCCAATGCTGAGCCCACACAgtaaggggcaggacagggcaaagcagaaaaataatgtggagggtgtttac Alignment from Spaln_nt2Genome GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCT-CAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA tatctggttggtcatctagggccaaggtctctgactcatcccattgccagGGCCACATTGCAAGTATTGCATCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGGAGTGCTCTAGCATGGGCTACTTACTATCAGGTGAAGCTTAACTCTGATCAGGGCTGCCTACAATGAATGGATGGCAATGTCTGACCTGGAAACATTTCGACCACCCAATGCTGAGCCCACACAgtaaggggcaggacagggcaaagcagaaaaataatgtggagggtgtttac Alignment from Pairagon GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCT-CAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA tatctggttggtcatctagggccaaggtctctgactcatcccattgccagGGCCACATTGCAAGTATTGCATCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGGAGTGCTCTAGCATGGGCTACTTACTATCAGGTGAAGCTTAACTCTGATCAGGGCTGCCTACAATGAATGGATGGCAATGTCTGACCTGGAAACATTTCGACCACCCAATGCTGAGCCCACACAgtaaggggcaggacagggcaaagcagaaaaataatgtggagggtgtttac Alignment from Exonerate_protein2genome GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTC-AATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACAGGCTTCAGAGCAGGA tatctggttggtcatctagggccaaggtctctgactcatcccattgccagGGCCACATTGCAAGTATTGCATCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGGAGTGCTCTAGCATGGGCTACTTACTATCAGGTGAAGCTTAACTCTGATCAGGGCTGCCTACAATGAATGGATGGCAATGTCTGACCTGGAAACATTTCGACCACCCAATGCTGAGCCCACACAGTAAGGGGCAGGACAgggcaaagcagaaaaataatgtggagggtgtttac Alignment from Exonerate_coding2genome tatctggttggtcatctagggccaaggtctctgactcatcccattgccagggccacattgcaagtattgcatcaggcatgtgaggtagctcttggtagtggccttgtgcctggtgggagtgctctagcatgggctacttactatcaggtgaagcttaactctgatcagggctgcctacaatgaatggatggcaatgtctgacctggaaacatttcgaccacccaatgctgagcccacacagtaaggggcaggacagggcaaagcagaaaaataatgtggagggtgtttac Alignment from GeneWise GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGC-CTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA tatctggttggtcatctagggccaaggtctctgactcatcccattgccagGGCCACATTGCAAGTATTGCATCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGGAGTGCTCTAGCATGGGCTACTTACTATCAGGTGAAGCTTAACTCTGATCAGGGCTGCCTACAATGAATGGATGGCAATGTCTGACCTGGAAACATTTCGACCACCCAATGCTGAGCCCACACAgtaaggggcaggacagggcaaagcagaaaaataatgtggagggtgtttac #### Ssh3_ID451_5 --> 1 - 2 Original Alignment tTCCCAC---------AGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTG-TACCTGGACGGCGATgg ctattgacattatgcggggagacaaattgcaagtctgcatctcattccagtTGTCATAGCTGCACAAGTTGCACGCTTGGACTTGTTGTGCCCCTTTGGAGTGTTACTCATGTACTACCTATACGGAGATgggtaagggggtctccgtcggggaaacaagatagggctgagaaaattgggcc Alignment from CESAR tTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTG-TACCTGGACGGCGATgg aacaggctgctattgacattatgcggggagacaactgcatctcattccagttgtcatagcTGCACAAGTTGCACGCTTGGACTTGTTGTGCCCCTTTGGAGTGTTACTCATGTACTACCTATACGGAGATgggtaagggggtctccgtcggggaaacaagatagggctgagaaaattgggcc Alignment from Spaln_aa2Genome TTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTG-TACCTGGACGGCGATGG ctattgacattatgcggggagacaaattgcaagtctgcatctcattccagttgtcatagCTGCACAAGTTGCACGCTTGGACTTGTTGTGCCCCTTTGGAGTGTTACTCATGTAcTACCTATACGGAGATGGgtaagggggtctccgtcggggaaacaagatagggctgagaaaattgggcc Alignment from Spaln_nt2Genome TTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTG-TACCTGGACGGCGATGG ctattgacattatgcggggagacaaattgcaagtctgcatctcattccagttgtcatagCTGCACAAGTTGCACGCTTGGACTTGTTGTGCCCCTTTGGAGTGTTACTCATGTACTACCTATACGGAGATGGgtaagggggtctccgtcggggaaacaagatagggctgagaaaattgggcc Alignment from Pairagon TTCCCACAGC---------TGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTG-TACCTGGACGGCGATGG ctattgacattatgcggggagacaaattgcaagtctgcatctcattccagTTGTCATAGCTGCACAAGTTGCACGCTTGGACTTGTTGTGCCCCTTTGGAGTGTTACTCATGTACTACCTATACGGAGATGGgtaagggggtctccgtcggggaaacaagatagggctgagaaaattgggcc Alignment from Exonerate_protein2genome TTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTG-TACCTGGACGGCGATGG ctattgacattatgcggggagacaaattgcaagtctgcatctcattccagttgtcatagCTGCACAAGTTGCACGCTTGGACTTGTTGTGCCCCTTTGGAGTGTTACTCATGTACTACCTATACGGAGATGGgtaagggggtctccgtcggggaaacaagatagggctgagaaaattgggcc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTG---------------TACCTGGACGGCGATGG ctattgacattatgcggggagacaaattgcaagtctgcatctcattccagttgtcatagCTGCACAAGTTGCACGCTTGGACTTGTTGTGCCCCTTTGGAGTGTTACTCATGTACTACCTATACGGAGATGGGTAAGGGGGTCTCCgtcggggaaacaagatagggctgagaaaattgggcc #### Stambpl1_ID6902_9 --> 1 - 0 Original Alignment cACCGGCATTTTC-AGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tgttcctgactggttccttctgatgtgctttgttgtctttcctcttaaagcACTGGTATCTTCCAGGCTGACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAAGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtatgaggacaccatgagaataggaatgggaagttgttcaaccatataaa Alignment from CESAR cACCGGCATTTTC-AGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tgttcctgactggttccttctgatgtgctttgttgtctttcctcttaaagcACTGGTATCTTCCAGGCTGACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAAGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtatgaggacaccatgagaataggaatgggaagttgttcaaccatataaa Alignment from Spaln_aa2Genome CACCGGCATTTTC-AGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tgttcctgactggttccttctgatgtgctttgttgtctttcctcttaaagCACTGGTATCTTCcAGGCTGACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAAGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtatgaggacaccatgagaataggaatgggaagttgttcaaccatataaa Alignment from Spaln_nt2Genome CACCGGCATTTTC-AGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tgttcctgactggttccttctgatgtgctttgttgtctttcctcttaaagCACTGGTATCTTCCAGGCTGACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAAGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtatgaggacaccatgagaataggaatgggaagttgttcaaccatataaa Alignment from Pairagon CACCGGCAT-TTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tgttcctgactggttccttctgatgtgctttgttgtctttcctcttaaagCACTGGTATCTTCCAGGCTGACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAAGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtatgaggacaccatgagaataggaatgggaagttgttcaaccatataaa Alignment from Exonerate_protein2genome CACCGGCATTTTC-AGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tgttcctgactggttccttctgatgtgctttgttgtctttcctcttaaagCACTGGTATCTTCCAGGCTGACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAAGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtatgaggacaccatgagaataggaatgggaagttgttcaaccatataaa Alignment from Exonerate_coding2genome tgttcctgactggttccttctgatgtgctttgttgtctttcctcttaaagcactggtatcttccaggctgaccaacgctggcatgcttgaggtttctacttgtaaaaagaaaggcttccatcctcacaccaaggaccccaagctcttcagtgtatgaggacaccatgagaataggaatgggaagttgttcaaccatataaa Alignment from GeneWise CACCGGCATTTTC-AGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tgttcctgactggttccttctgatgtgctttgttgtctttcctcttaaagCACTGGTATCTTCCAGGCTGACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAAGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtatgaggacaccatgagaataggaatgggaagttgttcaaccatataaa #### Stip1_ID1988_13 --> 0 - 2 Original Alignment GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCT------------GAGGATGTGAAGCGGCGGGCCATGGCTGAC-CCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCga caaacacaaattagggctaaagtcctccgaattgtctttttttctcctagCAAGCAGCAGACAAATACCAGCGATGCATGATGGCACAGTACAACAGACATGACAGGTCACATGACAGCCCTGAGGAAGTTACA------------------CCTTGAGGTTCAGCAAATAATGAGTGACCCATCCATGAGACTCATACTGGAGCAAATGCAAAAAGACCCCCAGGCTTTGAGTgagtaccataaacaacaatggaagaatggatgggatagaaatttttgtttgc Alignment from CESAR GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGA------------CATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCT-GAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCga caaacacaaattagggctaaagtcctccgaattgtctttttttctcctagCAAGCAGCAGACAAATACCAGCGATGCATGATGGCACAGTACAACAGACATGACAGGTCACATGACAGCCCTGAGGAAGTTACA------------------CCTTGAGGTTCAGCAAATAATGAGTGACCCATCCATGAGACTCATACTGGAGCAAATGCAAAAAGACCCCCAGGCTTTGAGTgagtaccataaacaacaatggaagaatggatgggatagaaatttttgtttgc Alignment from Spaln_aa2Genome GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGA caaacacaaattagggctaaagtcctccgaattgtctttttttctcctagCAAGCAGCAGACAAATACCAGCGATGCATGATGGCACAGTACAACAGACATGACAGGTCACATGACAGCCCTGAGGAAGTTACACCTT-----GAGGTTCAGCAAATAATGAGTGACCCATCCATGAGACTCATACTGGAGCAAATGCAAAAAGACCCCCAGGCTTTGAGTGAgtaccataaacaacaatggaagaatggatgggatagaaatttttgtttgc Alignment from Spaln_nt2Genome GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGA caaacacaaattagggctaaagtcctccgaattgtctttttttctcctagCAAGCAGCAGACAAATACCAGCGATGCATGATGGCACAGTACAACAGACATGACAGGTCACATGA----CAGC-CCTGAGGAAGTTACACCTTGAGGTTCAGCAAATAATGAGTGACCCATCCATGAGACTCATACTGGAGCAAATGCAAAAAGACCCCCAGGCTTTGAGTGAgtaccataaacaacaatggaagaatggatgggatagaaatttttgtttgc Alignment from Pairagon GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAG------------ACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGA caaacacaaattagggctaaagtcctccgaattgtctttttttctcctagCAAGCAGCAGACAAATACCAGCGATGCATGATGGCACAGTACAACAGACATGACAGGTCACATGACAGCCCTGAGGAAGTTAC-----------------ACCTTGAGGTTCAGCAAATAATGAGTGACCCATCCATGAGACTCATACTGGAGCAAATGCAAAAAGACCCCCAGGCTTTGAGTGAgtaccataaacaacaatggaagaatggatgggatagaaatttttgtttgc Alignment from Exonerate_protein2genome GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGAT caaacacaaattagggctaaagtcctccgaattgtctttttttctcctagCAAGCAGCAGACAAATACCAGCGATGCATGATGGCACAGTACAACAGACATGACAGGTCACATGACagccctgaggaagttacaccttgaggttcagcaaataatgagtgacccatccatgagactcatactggagcaaatgcaaaaagacccccaggctttgagtgagtaccataaacaacaatggaagaatggatgggatagaaatttttgtttgc Alignment from Exonerate_coding2genome GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGA caaacacaaattagggctaaagtcctccgaattgtctttttttctcctagCAAGCAGCAGACAAATACCAGCGATGCATGATGGCACAGTACAACAGACATGACAGGTCACATGACAGCCCTGAGGAAGTTACA-----CCTTGAGGTTCAGCAAATAATGAGTGACCCATCCATGAGACTCATACTGGAGCAAATGCAAAAAGACCCCCAGGCTTTGAgtgagtaccataaacaacaatggaagaatggatgggatagaaatttttgtttgc Alignment from GeneWise GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTG-AAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGA caaacacaaattagggctaaagtcctccgaattgtctttttttctcctagCAAGCAGCAGACAAATACCAGCGATGCATGATGGCACAGTACAACAGACATGACAGGTCACATGACAGCCCTGAGGAAGTTACACCTT------GAGGTTCAGCAAATAATGAGTGACCCATCCATGAGACTCATACTGGAGCAAATGCAAAAAGACCCCCAGGCTTTGAGTGAgtaccataaacaacaatggaagaatggatgggatagaaatttttgtttgc #### Stip1_ID1989_12 --> 2 - 0 Original Alignment tcAAGGGTTATACACGGAAAGCA-GCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG gtttctccattatatttcgacaaatcgttgagccagatgacccaccctagacAAGGGTTATACCCGACAAGCACGCTGCTTTAGAAGCCATGAAGGACTATACAAAAGCAATGCAT------CAAAAGGCATTAGACCTAGACTCCTGTTGCAAGgtaaggtagtgataccttgcatacagaccgtgtttatgtaactgagggtt Alignment from CESAR tcAAGGGTTATACACGGAAAGCA-GCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG gtttctccattatatttcgacaaatcgttgagccagatgacccaccctagacAAGGGTTATACCCGACAAGCACGCTGCTTTAGAAGCCATGAAGGACTATACAAAAGCAATG------CATCAAAAGGCATTAGACCTAGACTCCTGTTGCAAGgtaaggtagtgataccttgcatacagaccgtgtttatgtaactgagggtt Alignment from Spaln_aa2Genome TCAAGGGTTATACACGGAAAGCA-GCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG gtttctccattatatttcgacaaatcgttgagccagatgacccaccctagACAAGGGTTATACCCGACAAGCAcGCTGCTTTAGAAGCCATGAAGGACTATACAAAAGCAATG------CATCAAAAGGCATTAGACCTAGACTCCTGTTGCAAGgtaaggtagtgataccttgcatacagaccgtgtttatgtaactgagggtt Alignment from Spaln_nt2Genome TCAAGGGTTATACACGGAAAGCA-GCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG gtttctccattatatttcgacaaatcgttgagccagatgacccaccctagACAAGGGTTATACCCGACAAGCACGCTGCTTTAGAAGCCATGAAGGACTATACAAAAGCAATGCAT------CAAAAGGCATTAGACCTAGACTCCTGTTGCAAGgtaaggtagtgataccttgcatacagaccgtgtttatgtaactgagggtt Alignment from Pairagon TCAAGGGTTATACACGGAAAGCA-GCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG gtttctccattatatttcgacaaatcgttgagccagatgacccaccctagACAAGGGTTATACCCGACAAGCACGCTGCTTTAGAAGCCATGAAGGACTATACAAAAGCAATGCAT------CAAAAGGCATTAGACCTAGACTCCTGTTGCAAGgtaaggtagtgataccttgcatacagaccgtgtttatgtaactgagggtt Alignment from Exonerate_protein2genome TCAAGGGTTATACACGGAAAGCA-GCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG gtttctccattatatttcgacaaatcgttgagccagatgacccaccctagACAAGGGTTATACCCGACAAGCACGCTGCTTTAGAAGCCATGAAGGACTATACAAAAGCAATG------CATCAAAAGGCATTAGACCTAGACTCCTGTTGCAAGgtaaggtagtgataccttgcatacagaccgtgtttatgtaactgagggtt Alignment from Exonerate_coding2genome TCAAGGGTTATACACGGAAAGCA-GCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG gtttctccattatatttcgacaaatcgttgagccagatgacccaccctagACAAGGGTTATACCCGACAAGCACGCTGCTTTAGAAGCCATGAAGGACTATACAAAAGCAATG------CATCAAAAGGCATTAGACCTAGACTCCTGTTGCAAGgtaaggtagtgataccttgcatacagaccgtgtttatgtaactgagggtt Alignment from GeneWise ------GGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG gtttctccattatatttcgacaaatcgttgagccagatgacccaccctagACAAGGGTTATACCCGACAAGCACGCTGCTTTAGAAGCCATGAAGGACTATACAAAAGCAATG------CATCAAAAGGCATTAGACCTAGACTCCTGTTGCAAGgtaaggtagtgataccttgcatacagaccgtgtttatgtaactgagggtt #### Stx3_ID3299_7 --> 2 - 0 Original Alignment ctGGCAAGAAGACAACAGATGAGGAGCTGGAA-GAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agtaaaccagactctccttcttactaaaccccccctttccttcctctcagctGGCAAAAAAACAACAGATGAAGAGCTAGAGCGAGATGTTGGAGAGTAGTAACCCAGCTATCTTTACTTCTGGGgtgaggtacatacatgcttggttatagtccaggtatcaagcatattgcca Alignment from CESAR ctGGCAAGAAGACAACAGATGAGGAGCTGGAA-GAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agtaaaccagactctccttcttactaaaccccccctttccttcctctcagctGGCAAAAAAACAACAGATGAAGAGCTAGAGCGAGATGTTGGAGAGTAGTAACCCAGCTATCTTTACTTCTGGGgtgaggtacatacatgcttggttatagtccaggtatcaagcatattgcca Alignment from Spaln_aa2Genome CTGGCAAGAAGACAACAGATGAGGAGCTGGAA-GAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agtaaaccagactctccttcttactaaaccccccctttccttcctctcagCTGGCAAAAAAACAACAGATGAAGAGCTAGAGcGAGATGTTGGAGAGTAGTAACCCAGCTATCTTTACTTCTGGGgtgaggtacatacatgcttggttatagtccaggtatcaagcatattgcca Alignment from Spaln_nt2Genome CTGGCAAGAAGACAACAGATGAGGAGCTGGAA-GAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agtaaaccagactctccttcttactaaaccccccctttccttcctctcagCTGGCAAAAAAACAACAGATGAAGAGCTAGAGCGAGATGTTGGAGAGTAGTAACCCAGCTATCTTTACTTCTGGGgtgaggtacatacatgcttggttatagtccaggtatcaagcatattgcca Alignment from Pairagon CTGGCAAGAAGACAACAGATGAGGAGCTGGAA-GAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agtaaaccagactctccttcttactaaaccccccctttccttcctctcagCTGGCAAAAAAACAACAGATGAAGAGCTAGAGCGAGATGTTGGAGAGTAGTAACCCAGCTATCTTTACTTCTGGGgtgaggtacatacatgcttggttatagtccaggtatcaagcatattgcca Alignment from Exonerate_protein2genome CTGGCAAGAAGACAACAGATGAGGAGCTGGAA-GAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agtaaaccagactctccttcttactaaaccccccctttccttcctctcagCTGGCAAAAAAACAACAGATGAAGAGCTAGAGCGAGATGTTGGAGAGTAGTAACCCAGCTATCTTTACTTCTGGGgtgaggtacatacatgcttggttatagtccaggtatcaagcatattgcca Alignment from Exonerate_coding2genome CTGGCAAGAAGACAACAGATGAGGAGCTGGAA-GAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agtaaaccagactctccttcttactaaaccccccctttccttcctctcagCTGGCAAAAAAACAACAGATGAAGAGCTAGAGCGAGATGTTGGAGAGTAGTAACCCAGCTATCTTTACTTCTGGGgtgaggtacatacatgcttggttatagtccaggtatcaagcatattgcca Alignment from GeneWise CTGGCAAGAAGACAACAGATGAGGAGCTGGAA-GAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agtaaaccagactctccttcttactaaaccccccctttccttcctctcagCTGGCAAAAAAACAACAGATGAAGAGCTAGAGCGAGATGTTGGAGAGTAGTAACCCAGCTATCTTTACTTCTGGGgtgaggtacatacatgcttggttatagtccaggtatcaagcatattgcca #### Stx5a_ID2331_3 --> 1 - 1 Original Alignment gCGCATTGGGAAAGATCTCAGCAATACATTT-GCCAAGCTGGAGAAGCTAACAATCt catggtgtcacctcactttttcacacaccattctgctcctctggttccagaCGCATAGGGAAAGATCTGAGTAATACATTTCGCCAAACTTGAGAAATTAACAATCtgtagggtctaagactacccaggcaatcagggtctggggtggacctccagc Alignment from CESAR gCGCATTGGGAAAGATCTCAGCAATACATTT-GCCAAGCTGGAGAAGCTAACAATCt catggtgtcacctcactttttcacacaccattctgctcctctggttccagaCGCATAGGGAAAGATCTGAGTAATACATTTCGCCAAACTTGAGAAATTAACAATCtgtagggtctaagactacccaggcaatcagggtctggggtggacctccagc Alignment from Spaln_aa2Genome GCGCATTGGGAAAGATCTCAGCAATACA-TTTGCCAAGCTGGAGAAGCTAACAATCT catggtgtcacctcactttttcacacaccattctgctcctctggttccagACGCATAGGGAAAGATCTGAGTAATACAtTTCGCCAAACTTGAGAAATTAACAATCTgtagggtctaagactacccaggcaatcagggtctggggtggacctccagc Alignment from Spaln_nt2Genome GCGCATTGGGAAAGATCTCAGCAATACATTT-GCCAAGCTGGAGAAGCTAACAATCT catggtgtcacctcactttttcacacaccattctgctcctctggttccagACGCATAGGGAAAGATCTGAGTAATACATTTCGCCAAACTTGAGAAATTAACAATCTgtagggtctaagactacccaggcaatcagggtctggggtggacctccagc Alignment from Pairagon GCGCATTGGGAAAGATCTCAGCAATACATTT-GCCAAGCTGGAGAAGCTAACAATCT catggtgtcacctcactttttcacacaccattctgctcctctggttccagACGCATAGGGAAAGATCTGAGTAATACATTTCGCCAAACTTGAGAAATTAACAATCTgtagggtctaagactacccaggcaatcagggtctggggtggacctccagc Alignment from Exonerate_protein2genome GCGCATTGGGAAAGATCTCAGCAATACA-TTTGCCAAGCTGGAGAAGCTAACAATCT catggtgtcacctcactttttcacacaccattctgctcctctggttccagACGCATAGGGAAAGATCTGAGTAATACATTTCGCCAAACTTGAGAAATTAACAATCTgtagggtctaagactacccaggcaatcagggtctggggtggacctccagc Alignment from Exonerate_coding2genome catggtgtcacctcactttttcacacaccattctgctcctctggttccagacgcatagggaaagatctgagtaatacatttcgccaaacttgagaaattaacaatctgtagggtctaagactacccaggcaatcagggtctggggtggacctccagc Alignment from GeneWise GCGCATTGGGAAAGATCTCAGCAATACATTT-GCCAAGCTGGAGAAGCTAACAATCT catggtgtcacctcactttttcacacaccattctgctcctctggttccagACGCATAGGGAAAGATCTGAGTAATACATTTCGCCAAACTTGAGAAATTAACAATCTgtagggtctaagactacccaggcaatcagggtctggggtggacctccagc #### Stx5a_ID2336_8 --> 2 - 0 Original Alignment gaGGTGGTCCCATAATTTTGGGAGCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGAC-ATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aatgtcaaacttccacaaagtgccagaagcttgcatgtgttctgttacaggaGGGGGTACCATAATCCTGGGGGCAGAATCACAAGCATCCAGAGATGTAGCAATTGATCATGATGGACCCTAGAACAAGCCAACAGCTGCAGGTCATTGATGAGCAGgtaaggtacaccacattgtgaagctgacctataaccagggttcccttagg Alignment from CESAR gaGGTGGTCCCATAATTTTGGGAGCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGAC-ATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aatgtcaaacttccacaaagtgccagaagcttgcatgtgttctgttacaggaGGGGGTACCATAATCCTGGGGGCAGAATCACAAGCATCCAGAGATGTAGCAATTGATCATGATGGACCCTAGAACAAGCCAACAGCTGCAGGTCATTGATGAGCAGgtaaggtacaccacattgtgaagctgacctataaccagggttcccttagg Alignment from Spaln_aa2Genome GAGGTGGTCCCATAATTTTGGGAGCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGAC-ATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aatgtcaaacttccacaaagtgccagaagcttgcatgtgttctgttacagGAGGGGGTACCATAATCCTGGGGGCAGAATCACAAGCATCCAGAGATGTAGCAATTGATcATGATGGACCCTAGAACAAGCCAACAGCTGCAGGTCATTGATGAGCAGgtaaggtacaccacattgtgaagctgacctataaccagggttcccttagg Alignment from Spaln_nt2Genome GAGGTGGTCCCATAATTTTGGGAGCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGA-CATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aatgtcaaacttccacaaagtgccagaagcttgcatgtgttctgttacagGAGGGGGTACCATAATCCTGGGGGCAGAATCACAAGCATCCAGAGATGTAGCAATTGATCATGATGGACCCTAGAACAAGCCAACAGCTGCAGGTCATTGATGAGCAGgtaaggtacaccacattgtgaagctgacctataaccagggttcccttagg Alignment from Pairagon GAGGTGGTCCCATAATTTTGGGAGCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGA-CATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aatgtcaaacttccacaaagtgccagaagcttgcatgtgttctgttacagGAGGGGGTACCATAATCCTGGGGGCAGAATCACAAGCATCCAGAGATGTAGCAATTGATCATGATGGACCCTAGAACAAGCCAACAGCTGCAGGTCATTGATGAGCAGgtaaggtacaccacattgtgaagctgacctataaccagggttcccttagg Alignment from Exonerate_protein2genome GAGGTGGTCCCATAATTTTGGGAGCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGAC-ATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aatgtcaaacttccacaaagtgccagaagcttgcatgtgttctgttacagGAGGGGGTACCATAATCCTGGGGGCAGAATCACAAGCATCCAGAGATGTAGCAATTGATCATGATGGACCCTAGAACAAGCCAACAGCTGCAGGTCATTGATGAGCAGgtaaggtacaccacattgtgaagctgacctataaccagggttcccttagg Alignment from Exonerate_coding2genome GAGGTGGTCCCATAATTTTGGGAGCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGAC-ATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aatgtcaaacttccacaaagtgccagaagcttgcatgtgttctgttacagGAGGGGGTACCATAATCCTGGGGGCAGAATCACAAGCATCCAGAGATGTAGCAATTGATCATGATGGACCCTAGAACAAGCCAACAGCTGCAGGTCATTGATGAGCAGgtaaggtacaccacattgtgaagctgacctataaccagggttcccttagg Alignment from GeneWise GAGGTGGTCCCATAATTTTGGGAGCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGAC-ATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aatgtcaaacttccacaaagtgccagaagcttgcatgtgttctgttacagGAGGGGGTACCATAATCCTGGGGGCAGAATCACAAGCATCCAGAGATGTAGCAATTGATCATGATGGACCCTAGAACAAGCCAACAGCTGCAGGTCATTGATGAGCAGgtaaggtacaccacattgtgaagctgacctataaccagggttcccttagg #### Suv420h1_ID146_8 --> 0 - 2 Original Alignment TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAA-AATAATGAGTTCTGCGAATGTTATACTTGTGAAag ttatttgggctggttaagtcaatggttattgtcccttttggtcaattcagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAGCCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAACAATAATGAGTTCTGTGAGTGTTATACTTGTGAAaggtaaggacctaagtcctagacccgacttccgtggagaagtgtttattgtg Alignment from CESAR TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAA-AATAATGAGTTCTGCGAATGTTATACTTGTGAAag ttatttgggctggttaagtcaatggttattgtcccttttggtcaattcagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAGCCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAACAATAATGAGTTCTGTGAGTGTTATACTTGTGAAaggtaaggacctaagtcctagacccgacttccgtggagaagtgtttattgtg Alignment from Spaln_aa2Genome TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAA-AATAATGAGTTCTGCGAATGTTATACTTGTGAAAG ttatttgggctggttaagtcaatggttattgtcccttttggtcaattcagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAGCCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAcAATAATGAGTTCTGTGAGTGTTATACTTGTGAAAGgtaaggacctaagtcctagacccgacttccgtggagaagtgtttattgtg Alignment from Spaln_nt2Genome TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAA-AATAATGAGTTCTGCGAATGTTATACTTGTGAAAG ttatttgggctggttaagtcaatggttattgtcccttttggtcaattcagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAGCCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAACAATAATGAGTTCTGTGAGTGTTATACTTGTGAAAGgtaaggacctaagtcctagacccgacttccgtggagaagtgtttattgtg Alignment from Pairagon TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAA-AATAATGAGTTCTGCGAATGTTATACTTGTGAAAG ttatttgggctggttaagtcaatggttattgtcccttttggtcaattcagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAGCCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAACAATAATGAGTTCTGTGAGTGTTATACTTGTGAAAGgtaaggacctaagtcctagacccgacttccgtggagaagtgtttattgtg Alignment from Exonerate_protein2genome TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAA-AATAATGAGTTCTGCGAATGTTATACTTGTGAAAG ttatttgggctggttaagtcaatggttattgtcccttttggtcaattcagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAGCCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAACAATAATGAGTTCTGTGAGTGTTATACTTGTGAAAGgtaaggacctaagtcctagacccgacttccgtggagaagtgtttattgtg Alignment from Exonerate_coding2genome GTAAGTTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAA-AATAATGAGTTCTGCGAATGTTATACTTGTGAAAG ttatttgggctggttaagtcaatggttattgtcccttttggtcaaTTCAGTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAGCCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAACAATAATGAGTTCTGTGAGTGTTATACTTGTGAAAGgtaaggacctaagtcctagacccgacttccgtggagaagtgtttattgtg Alignment from GeneWise TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGA-GAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAG ttatttgggctggttaagtcaatggttattgtcccttttggtcaattcagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAGCCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAACAATAATGAGTTCTGTGAGTGTTATACTTGTGAAAGgtaaggacctaagtcctagacccgacttccgtggagaagtgtttattgtg #### Syvn1_ID1384_3 --> 0 - 0 Original Alignment CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCC-TTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT attgccatgctggctgtcttgcagcttcatgcccatgcctgccccgtcagCACCTGCTGGAACAGTCTTGGTATGCTGTCACAGAAATCTGTTTGACCCTTTACAGTTATTGGCGATGACTCAAGTCCCCAATTTGTGGCACTCTTCATGCTTCTTCTCTTCCTCAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTTGATTCTgtaagttcaaatctcctgatgaatatgcaggtgctcttgtagtttcacag Alignment from CESAR CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCC-TTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT attgccatgctggctgtcttgcagcttcatgcccatgcctgccccgtcagCACCTGCTGGAACAGTCTTGGTATGCTGTCACAGAAATCTGTTTGACCCTTTACAGTTATTGGCGATGACTCAAGTCCCCAATTTGTGGCACTCTTCATGCTTCTTCTCTTCCTCAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTTGATTCTgtaagttcaaatctcctgatgaatatgcaggtgctcttgtagtttcacag Alignment from Spaln_aa2Genome CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCC-TTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT attgccatgctggctgtcttgcagcttcatgcccatgcctgccccgtcagCACCTGCTGGAACAGTCTTGGTATGCTGTCACAGAAATCTGTTTGACCcTTTACAGTTATTGGCGATGACTCAAGTCCCCAATTTGTGGCACTCTTCATGCTTCTTCTCTTCCTCAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTTGATTCTgtaagttcaaatctcctgatgaatatgcaggtgctcttgtagtttcacag Alignment from Spaln_nt2Genome CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCC-TTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT attgccatgctggctgtcttgcagcttcatgcccatgcctgccccgtcagCACCTGCTGGAACAGTCTTGGTATGCTGTCACAGAAATCTGTTTGACCCTTTACAGTTATTGGCGATGACTCAAGTCCCCAATTTGTGGCACTCTTCATGCTTCTTCTCTTCCTCAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTTGATTCTgtaagttcaaatctcctgatgaatatgcaggtgctcttgtagtttcacag Alignment from Pairagon CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGG-CCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT attgccatgctggctgtcttgcagcttcatgcccatgcctgccccgtcagCACCTGCTGGAACAGTCTTGGTATGCTGTCACAGAAATCTGTTTGACCCTTTACAGTTATTGGCGATGACTCAAGTCCCCAATTTGTGGCACTCTTCATGCTTCTTCTCTTCCTCAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTTGATTCTgtaagttcaaatctcctgatgaatatgcaggtgctcttgtagtttcacag Alignment from Exonerate_protein2genome CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCC-TTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT attgccatgctggctgtcttgcagcttcatgcccatgcctgccccgtcagCACCTGCTGGAACAGTCTTGGTATGCTGTCACAGAAATCTGTTTGACCCTTTACAGTTATTGGCGATGACTCAAGTCCCCAATTTGTGGCACTCTTCATGCTTCTTCTCTTCCTCAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTTGATTCTgtaagttcaaatctcctgatgaatatgcaggtgctcttgtagtttcacag Alignment from Exonerate_coding2genome CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCC-TTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT attgccatgctggctgtcttgcagcttcatgcccatgcctgccccgtcagCACCTGCTGGAACAGTCTTGGTATGCTGTCACAGAAATCTGTTTGACCCTTTACAGTTATTGGCGATGACTCAAGTCCCCAATTTGTGGCACTCTTCATGCTTCTTCTCTTCCTCAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTTGATTCTgtaagttcaaatctcctgatgaatatgcaggtgctcttgtagtttcacag Alignment from GeneWise CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTG-GCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT attgccatgctggctgtcttgcagcttcatgcccatgcctgccccgtcagCACCTGCTGGAACAGTCTTGGTATGCTGTCACAGAAATCTGTTTGACCCTTTACAGTTATTGGCGATGACTCAAGTCCCCAATTTGTGGCACTCTTCATGCTTCTTCTCTTCCTCAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTTGATTCTgtaagttcaaatctcctgatgaatatgcaggtgctcttgtagtttcacag #### Syvn1_ID1385_4 --> 0 - 1 Original Alignment ATGGAACGCAGC-CCCAACATCTCCTGGCTCTTCCACTGCCGCATCGTCt gacctacatgtgaggcttagttgactctaaaatatgtcatctcattgtagATGGAGCGTAGTCCCCAACATTCCCTGGCTCTTCCATTGCAGGATTGTCtgtgcgtgtagcttcatacaccagaggaattttgttaatgggagatcatcc Alignment from CESAR ATGGAACGCAGCCCC-AACATCTCCTGGCTCTTCCACTGCCGCATCGTCt gacctacatgtgaggcttagttgactctaaaatatgtcatctcattgtagATGGAGCGTAGTCCCCAACATTCCCTGGCTCTTCCATTGCAGGATTGTCtgtgcgtgtagcttcatacaccagaggaattttgttaatgggagatcatcc Alignment from Spaln_aa2Genome ATGGAACGCAGC-CCCAACATCTCCTGGCTCTTCCACTGCCGCATCGTCT gacctacatgtgaggcttagttgactctaaaatatgtcatctcattgtagATGGAGCGTAGTcCCCAACATTCCCTGGCTCTTCCATTGCAGGATTGTCTgtgcgtgtagcttcatacaccagaggaattttgttaatgggagatcatcc Alignment from Spaln_nt2Genome ATGGAACGCAG-CCCCAACATCTCCTGGCTCTTCCACTGCCGCATCGTCT gacctacatgtgaggcttagttgactctaaaatatgtcatctcattgtagATGGAGCGTAGTCCCCAACATTCCCTGGCTCTTCCATTGCAGGATTGTCTgtgcgtgtagcttcatacaccagaggaattttgttaatgggagatcatcc Alignment from Pairagon ATGGAACGCAG-CCCCAACATCTCCTGGCTCTTCCACTGCCGCATCGTCT gacctacatgtgaggcttagttgactctaaaatatgtcatctcattgtagATGGAGCGTAGTCCCCAACATTCCCTGGCTCTTCCATTGCAGGATTGTCTgtgcgtgtagcttcatacaccagaggaattttgttaatgggagatcatcc Alignment from Exonerate_protein2genome ATGGAACGCAGC-CCCAACATCTCCTGGCTCTTCCACTGCCGCATCGTCT gacctacatgtgaggcttagttgactctaaaatatgtcatctcattgtagATGGAGCGTAGTCCCCAACATTCCCTGGCTCTTCCATTGCAGGATTGTCTgtgcgtgtagcttcatacaccagaggaattttgttaatgggagatcatcc Alignment from Exonerate_coding2genome gacctacatgtgaggcttagttgactctaaaatatgtcatctcattgtagatggagcgtagtccccaacattccctggctcttccattgcaggattgtctgtgcgtgtagcttcatacaccagaggaattttgttaatgggagatcatcc Alignment from GeneWise ATGGAACGC-AGCCCCAACATCTCCTGGCTCTTCCACTGCCGCATCGTCT gacctacatgtgaggcttagttgactctaaaatatgtcatctcattgtagATGGAGCGTAGTCCCCAACATTCCCTGGCTCTTCCATTGCAGGATTGTCTgtgcgtgtagcttcatacaccagaggaattttgttaatgggagatcatcc #### Syvn1_ID1387_6 --> 0 - 1 Original Alignment TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACG-GAGCTGTTTACAg gctctcttggtccattatggttcagatcctttttcttcaatgttttctagTATGCCATTCTGATGACGATGGCACTCACTATTTTCATCAAGTATGTGCTGCATTCTGTTGACCTCCAGAGTAAAAATCCCTGGGATAATAAGGCTGTATACATGCTCTACACACGAGCTATTTACGggtaggtactcccagacaatctagaggtggttcatggttaatctgcaggag Alignment from CESAR TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACG-GAGCTGTTTACAg gctctcttggtccattatggttcagatcctttttcttcaatgttttctagTATGCCATTCTGATGACGATGGCACTCACTATTTTCATCAAGTATGTGCTGCATTCTGTTGACCTCCAGAGTAAAAATCCCTGGGATAATAAGGCTGTATACATGCTCTACACACGAGCTATTTACGggtaggtactcccagacaatctagaggtggttcatggttaatctgcaggag Alignment from Spaln_aa2Genome TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACG-GAGCTGTTTACAG gctctcttggtccattatggttcagatcctttttcttcaatgttttctagTATGCCATTCTGATGACGATGGCACTCACTATTTTCATCAAGTATGTGCTGCATTCTGTTGACCTCCAGAGTAAAAATCCCTGGGATAATAAGGCTGTATACATGCTCTACACAcGAGCTATTTACGGgtaggtactcccagacaatctagaggtggttcatggttaatctgcaggag Alignment from Spaln_nt2Genome TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACG-GAGCTGTTTACAG gctctcttggtccattatggttcagatcctttttcttcaatgttttctagTATGCCATTCTGATGACGATGGCACTCACTATTTTCATCAAGTATGTGCTGCATTCTGTTGACCTCCAGAGTAAAAATCCCTGGGATAATAAGGCTGTATACATGCTCTACACACGAGCTATTTACGGgtaggtactcccagacaatctagaggtggttcatggttaatctgcaggag Alignment from Pairagon TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACG-GAGCTGTTTACAG gctctcttggtccattatggttcagatcctttttcttcaatgttttctagTATGCCATTCTGATGACGATGGCACTCACTATTTTCATCAAGTATGTGCTGCATTCTGTTGACCTCCAGAGTAAAAATCCCTGGGATAATAAGGCTGTATACATGCTCTACACACGAGCTATTTACGGgtaggtactcccagacaatctagaggtggttcatggttaatctgcaggag Alignment from Exonerate_protein2genome TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACG-GAGCTGTTTACAG gctctcttggtccattatggttcagatcctttttcttcaatgttttctagTATGCCATTCTGATGACGATGGCACTCACTATTTTCATCAAGTATGTGCTGCATTCTGTTGACCTCCAGAGTAAAAATCCCTGGGATAATAAGGCTGTATACATGCTCTACACACGAGCTATTTACGGgtaggtactcccagacaatctagaggtggttcatggttaatctgcaggag Alignment from Exonerate_coding2genome TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACG-GAGCTGTTTACAG gctctcttggtccattatggttcagatcctttttcttcaatgttttctagTATGCCATTCTGATGACGATGGCACTCACTATTTTCATCAAGTATGTGCTGCATTCTGTTGACCTCCAGAGTAAAAATCCCTGGGATAATAAGGCTGTATACATGCTCTACACACGAGCTATTTACGGgtaggtactcccagacaatctagaggtggttcatggttaatctgcaggag Alignment from GeneWise TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACGGAGCTGTTTACA-- gctctcttggtccattatggttcagatcctttttcttcaatgttttctagTATGCCATTCTGATGACGATGGCACTCACTATTTTCATCAAGTATGTGCTGCATTCTGTTGACCTCCAGAGTAAAAATCCCTGGGATAATAAGGCTGTATACATGCTCTACACACGAGCTATTTACGGgtaggtactcccagacaatctagaggtggttcatggttaatctgcaggag #### Syvn1_ID1388_7 --> 2 - 2 Original Alignment gcTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAG-GTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGag ttggtgcatcttccatccttgcagttggcattgcactaattctaccacaggcTTCATCAAGGTGCTGCTATATATGGCCTTCATGACCATCATGATCAAGCGTGCACACTTTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCTATGaggtagagtaggcctcacatctgctattttgtcaccttgatttttgtcttcc Alignment from CESAR gcTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAG-GTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGag ttggtgcatcttccatccttgcagttggcattgcactaattctaccacaggcTTCATCAAGGTGCTGCTATATATGGCCTTCATGACCATCATGATCAAGCGTGCACACTTTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCTATGaggtagagtaggcctcacatctgctattttgtcaccttgatttttgtcttcc Alignment from Spaln_aa2Genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAG-GTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ttggtgcatcttccatccttgcagttggcattgcactaattctaccacagGCTTCATCAAGGTGCTGCTATATATGGCCTTCATGACCATCATGATCAAGcGTGCACACTTTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCTATGAGgtagagtaggcctcacatctgctattttgtcaccttgatttttgtcttcc Alignment from Spaln_nt2Genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAG-GTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ttggtgcatcttccatccttgcagttggcattgcactaattctaccacagGCTTCATCAAGGTGCTGCTATATATGGCCTTCATGACCATCATGATCAAGCGTGCACACTTTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCTATGAGgtagagtaggcctcacatctgctattttgtcaccttgatttttgtcttcc Alignment from Pairagon GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAG-GTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ttggtgcatcttccatccttgcagttggcattgcactaattctaccacagGCTTCATCAAGGTGCTGCTATATATGGCCTTCATGACCATCATGATCAAGCGTGCACACTTTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCTATGAGgtagagtaggcctcacatctgctattttgtcaccttgatttttgtcttcc Alignment from Exonerate_protein2genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAG-GTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ttggtgcatcttccatccttgcagttggcattgcactaattctaccacagGCTTCATCAAGGTGCTGCTATATATGGCCTTCATGACCATCATGATCAAGCGTGCACACTTTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCTATGAGgtagagtaggcctcacatctgctattttgtcaccttgatttttgtcttcc Alignment from Exonerate_coding2genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAG-GTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ttggtgcatcttccatccttgcagttggcattgcactaattctaccacagGCTTCATCAAGGTGCTGCTATATATGGCCTTCATGACCATCATGATCAAGCGTGCACACTTTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCTATGAGgtagagtaggcctcacatctgctattttgtcaccttgatttttgtcttcc Alignment from GeneWise GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAG-GTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ttggtgcatcttccatccttgcagttggcattgcactaattctaccacagGCTTCATCAAGGTGCTGCTATATATGGCCTTCATGACCATCATGATCAAGCGTGCACACTTTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCTATGAGgtagagtaggcctcacatctgctattttgtcaccttgatttttgtcttcc #### Tbc1d10c_ID399_5 --> 1 - 0 Original Alignment gCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATAC------TGCCAG-GCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG tgaacagggaagatcatatgggagggtgcccctcacccccacccccgcagaCAGCAAGGGTTTCTGCAGGTTATGAAAGCCTATAATCTTCACCACCCAGAACAAGGATATTGTCACTGTCAACGCACAGGGACCTGTAGCTGCAGTACTTCTCATGCATCTCCCTCCAGAGgtgaggtccctagatagaaacagtaaggtatatatactatggcgactgaa Alignment from CESAR gCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATACTGC------CAG-GCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG tgaacagggaagatcatatgggagggtgcccctcacccccacccccgcagaCAGCAAGGGTTTCTGCAGGTTATGAAAGCCTATAATCTTCACCACCCAGAACAAGGATATTGTCACTGTCAACGCACAGGGACCTGTAGCTGCAGTACTTCTCATGCATCTCCCTCCAGAGgtgaggtccctagatagaaacagtaaggtatatatactatggcgactgaa Alignment from Spaln_aa2Genome GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATACTGCCAG-------GCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG tgaacagggaagatcatatgggagggtgcccctcacccccacccccgcagACAGCAAGGGTTTCTGCAGGTTATGAAAGCCTATAATCTTCACCACCCAGAACAAGGATATTGTCACTGTCAAcGCACAGGGACCTGTAGCTGCAGTACTTCTCATGCATCTCCCTCCAGAGgtgaggtccctagatagaaacagtaaggtatatatactatggcgactgaa Alignment from Spaln_nt2Genome GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATACTGCCAG-------GCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG tgaacagggaagatcatatgggagggtgcccctcacccccacccccgcagACAGCAAGGGTTTCTGCAGGTTATGAAAGCCTATAATCTTCACCACCCAGAACAAGGATATTGTCACTGTCAACGCACAGGGACCTGTAGCTGCAGTACTTCTCATGCATCTCCCTCCAGAGgtgaggtccctagatagaaacagtaaggtatatatactatggcgactgaa Alignment from Pairagon GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATACTGCC-------AGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG tgaacagggaagatcatatgggagggtgcccctcacccccacccccgcagACAGCAAGGGTTTCTGCAGGTTATGAAAGCCTATAATCTTCACCACCCAGAACAAGGATATTGTCACTGTCAACGCACAGGGACCTGTAGCTGCAGTACTTCTCATGCATCTCCCTCCAGAGgtgaggtccctagatagaaacagtaaggtatatatactatggcgactgaa Alignment from Exonerate_protein2genome GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATACTGC-------CAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG tgaacagggaagatcatatgggagggtgcccctcacccccacccccgcagACAGCAAGGGTTTCTGCAGGTTATGAAAGCCTATAATCTTCACCACCCAGAACAAGGATATTGTCACTGTCAACGCACAGGGACCTGTAGCTGCAGTACTTCTCATGCATCTCCCTCCAGAGgtgaggtccctagatagaaacagtaaggtatatatactatggcgactgaa Alignment from Exonerate_coding2genome GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATACTGC-------CAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG tgaacagggaagatcatatgggagggtgcccctcacccccacccccgcagACAGCAAGGGTTTCTGCAGGTTATGAAAGCCTATAATCTTCACCACCCAGAACAAGGATATTGTCACTGTCAACGCACAGGGACCTGTAGCTGCAGTACTTCTCATGCATCTCCCTCCAGAGgtgaggtccctagatagaaacagtaaggtatatatactatggcgactgaa Alignment from GeneWise GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATACTGC------CAG-GCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG tgaacagggaagatcatatgggagggtgcccctcacccccacccccgcagACAGCAAGGGTTTCTGCAGGTTATGAAAGCCTATAATCTTCACCACCCAGAACAAGGATATTGTCACTGTCAACGCACAGGGACCTGTAGCTGCAGTACTTCTCATGCATCTCCCTCCAGAGgtgaggtccctagatagaaacagtaaggtatatatactatggcgactgaa #### Tbc1d10c_ID400_4 --> 0 - 2 Original Alignment CTACCAG GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCA-CCCCAGGGACACgg ATATCAGgtaggtaggccaggaatgccctcttgttccccttgcattacagGAGCTGGCATCAGCACCCGGAGACCCCCAGTGGATGGAAGCCACCGGCAGAGACTTACACCAACAATTTCCTTTGCATGAGATACTTGTCCTGCCCTCAGGGACATgggtatccgttgaggaaatagggtccatctgttgtccacagaaaggggaggg Alignment from CESAR CTACCAG GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCC-CAGGGACACgg ATATCAGgtagacaggccaggaatgccctcttgttccccttgcattacagGAGCTGGCATCAGCACCCGGAGACCCCCAGTGGATGGAAGCCACCGGCAGAGACTTACACCAACAATTTCCTTTGCATGAGATACTTGTCCTGCCCTCAGGGACATgggtatccgttgaggaaatagggtccatctgttgtccacagaaaggggaggg Alignment from Spaln_aa2Genome CTACCAG GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTG-TCACCCCAGGGACACGG ATATCAGgtaggtaggccaggaatgccctcttgttccccttgcattacagGAGCTGGCATCAGCACCCGGAGACCCCCAGTGGATGGAAGCCACCGGCAGAGACTTACACCAACAATTTCCTTTGCATGAGATACTTGTCcTGCCCTCAGGGACATGGgtatccgttgaggaaatagggtccatctgttgtccacagaaaggggaggg Alignment from Spaln_nt2Genome CTACCAG GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCC-CAGGGACACGG ATATCAGgtaggtaggccaggaatgccctcttgttccccttgcattacagGAGCTGGCATCAGCACCCGGAGACCCCCAGTGGATGGAAGCCACCGGCAGAGACTTACACCAACAATTTCCTTTGCATGAGATACTTGTCCTGCCCTCAGGGACATGGgtatccgttgaggaaatagggtccatctgttgtccacagaaaggggaggg Alignment from Pairagon CTACCAG GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCC-CAGGGACACGG ATATCAGgtaggtaggccaggaatgccctcttgttccccttgcattacagGAGCTGGCATCAGCACCCGGAGACCCCCAGTGGATGGAAGCCACCGGCAGAGACTTACACCAACAATTTCCTTTGCATGAGATACTTGTCCTGCCCTCAGGGACATGGgtatccgttgaggaaatagggtccatctgttgtccacagaaaggggaggg Alignment from Exonerate_protein2genome CTACCAG GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG ATATCAGgtaggtaggccaggaatgccctcttgttccccttgcattacagGAGCTGGCATCAGCACCCGGAGACCCCCAGTGGATGGAAGCCACCGGCAGAGACTTACACCAACAATTTCCTTTGCATGAGATACTTGTCCTGCCCTCAGGGACATGggtatccgttgaggaaatagggtccatctgttgtccacagaaaggggaggg Alignment from Exonerate_coding2genome CTACCAG GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG ATATCAGgtaggtaggccaggaatgccctcttgttccccttgcattacagGAGCTGGCATCAGCACCCGGAGACCCCCAGTGGATGGAAGCCACCGGCAGAGACTTACACCAACAATTTCCTTTGCATGAGATACTTGTCCTGCCCTCAGGGACATGggtatccgttgaggaaatagggtccatctgttgtccacagaaaggggaggg Alignment from GeneWise CTACCAG GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGGGCAGCAG ATATCAGgtaggtaggccaggaatgccctcttgttccccttgcattacagGAGCTGGCATCAGCACCCGGAGACCCCCAGTGGATGGAAGCCACCGGCAGAGACTTACACCAACAATTTCCTTTGCATGAGATACTTGTCCTGCCCTCAGGGACATGGGTATCCgttgaggaaatagggtccatctgttgtccacagaaaggggaggg #### Tbc1d10c_ID401_3 --> 0 - 0 Original Alignment GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGG-CCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTGG gctcttttttataatattagtttgctggaactgggagtgttttttattagGTGAAGATACAATGTCACAAGGGCATTCCCACTGTCTTGTGTGCGCGGTGTTGGCCCCCTCCTATGTGGGGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtagacaggccaggaatgcccgtttttttttttttctccacagGAGCTGG Alignment from CESAR GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGG-CCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTGG gctcttttttataatattagtttgctggaactgggagtgttttttattagGTGAAGATACAATGTCACAAGGGCATTCCCACTGTCTTGTGTGCGCGGTGTTGGCCCCCTCCTATGTGGGGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtagacaggccaggaatgccctcttgttccccttgcattacagGAGCTGG Alignment from Spaln_aa2Genome GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCC-CTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTGG gctcttttttataatattagtttgctggaactgggagtgttttttattagGTGAAGATACAATGTCACAAGGGCATTCCCACTGTCTTGTGTGCGCGGTGTTGGCCCcCTCCTATGTGGGGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtagacaggccaggaatgcccgtttttttttttttctccacagGAGCTGG Alignment from Spaln_nt2Genome GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGG-CCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTGG gctcttttttataatattagtttgctggaactgggagtgttttttattagGTGAAGATACAATGTCACAAGGGCATTCCCACTGTCTTGTGTGCGCGGTGTTGGCCCCCTCCTATGTGGGGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtagacaggccaggaatgcccgtttttttttttttctccacagGAGCTGG Alignment from Pairagon GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGG-CCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTGG gctcttttttataatattagtttgctggaactgggagtgttttttattagGTGAAGATACAATGTCACAAGGGCATTCCCACTGTCTTGTGTGCGCGGTGTTGGCCCCCTCCTATGTGGGGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtagacaggccaggaatgcccgtttttttttttttctccacagGAGCTGG Alignment from Exonerate_protein2genome GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGG-CCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTGG gctcttttttataatattagtttgctggaactgggagtgttttttattagGTGAAGATACAATGTCACAAGGGCATTCCCACTGTCTTGTGTGCGCGGTGTTGGCCCCCTCCTATGTGGGGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtagacaggccaggaatgcccgtttttttttttttctccacagGAGCTGG Alignment from Exonerate_coding2genome GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGG-CCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTGG gctcttttttataatattagtttgctggaactgggagtgttttttattagGTGAAGATACAATGTCACAAGGGCATTCCCACTGTCTTGTGTGCGCGGTGTTGGCCCCCTCCTATGTGGGGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtagacaggccaggaatgcccgtttttttttttttctccacagGAGCTGG Alignment from GeneWise GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCC-CTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTGG gctcttttttataatattagtttgctggaactgggagtgttttttattagGTGAAGATACAATGTCACAAGGGCATTCCCACTGTCTTGTGTGCGCGGTGTTGGCCCCCTCCTATGTGGGGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtagacaggccaggaatgcccgtttttttttttttctccacagGAGCTGG #### Tbc1d10c_ID402_2 --> 1 - 0 Original Alignment gCTTTGTCAACCCTCTGCA-GACCTCATCCGCCAGCGAGAGATGAAATGGGTGGAAATGACCTTACACTGGGAGAAGACCATGTCCCGACGATACAAGAAG actttaccactgccttcacttttaacataagcttgcttttctttccacagaCTTTGCCAACCCTCTGCTCGACCTCATTCGTCAGCGGGAGATGAAATGGGTTGAAATGGCCCTTCATTGGGAGAAGACAATC---CGATGCTATGCAAAGgtgagtcaccagtaaactaagtcatccctgccactatatctgacttcaat Alignment from CESAR gCTTTGTCAACCCTCTGCA-GACCTCATCCGCCAGCGAGAGATGAAATGGGTGGAAATGACCTTACACTGGGAGAAGACCATGTCCCGACGATACAAGAAG actttaccactgccttcacttttaacataagcttgcttttctttccacagaCTTTGCCAACCCTCTGCTCGACCTCATTCGTCAGCGGGAGATGAAATGGGTTGAAATGGCCCTTCATTGGGAGAAGACAATC---CGATGCTATGCAAAGgtgagtcaccagtaaactaagtcatccctgccactatatctgacttcaat Alignment from Spaln_aa2Genome GCTTTGTCAACCCTCTGCA-GACCTCATCCGCCAGCGAGAGATGAAATGGGTGGAAATGACCTTACACTGGGAGAAGACCATGTCCCGACGATACAAGAAG actttaccactgccttcacttttaacataagcttgcttttctttccacagACTTTGCCAACCCTCTGCTcGACCTCATTCGTCAGCGGGAGATGAAATGGGTTGAAATGGCCCTTCATTGGGAGAAGACAATC---CGATGCTATGCAAAGgtgagtcaccagtaaactaagtcatccctgccactatatctgacttcaat Alignment from Spaln_nt2Genome GCTTTGTCAACCCTCTGCA-GACCTCATCCGCCAGCGAGAGATGAAATGGGTGGAAATGACCTTACACTGGGAGAAGACCATGTCCCGACGATACAAGAAG actttaccactgccttcacttttaacataagcttgcttttctttccacagACTTTGCCAACCCTCTGCTCGACCTCATTCGTCAGCGGGAGATGAAATGGGTTGAAATGGCCCTTCATTGGGAGAAGACAAT---CCGATGCTATGCAAAGgtgagtcaccagtaaactaagtcatccctgccactatatctgacttcaat Alignment from Pairagon GCTTTGTCAACCCTCTGC-AGACCTCATCCGCCAGCGAGAGATGAAATGGGTGGAAATGACCTTACACTGGGAGAAGACCATGTCCCGACGATACAAGAAG actttaccactgccttcacttttaacataagcttgcttttctttccacagACTTTGCCAACCCTCTGCTCGACCTCATTCGTCAGCGGGAGATGAAATGGGTTGAAATGGCCCTTCATTGGGAGAAGACAAT---CCGATGCTATGCAAAGgtgagtcaccagtaaactaagtcatccctgccactatatctgacttcaat Alignment from Exonerate_protein2genome GCTTTGTCAACCCTCTGCA-GACCTCATCCGCCAGCGAGAGATGAAATGGGTGGAAATGACCTTACACTGGGAGAAGACCATGTCCCGACGATACAAGAAG actttaccactgccttcacttttaacataagcttgcttttctttccacagACTTTGCCAACCCTCTGCTCGACCTCATTCGTCAGCGGGAGATGAAATGGGTTGAAATGGCCCTTCATTGGGAGAAGACAATC---CGATGCTATGCAAAGgtgagtcaccagtaaactaagtcatccctgccactatatctgacttcaat Alignment from Exonerate_coding2genome AGGCTTTGTCAACCCTCTGCA-GACCTCATCCGCCAGCGAGAGATGAAATGGGTGGAAATGACCTTACACTGGGAGAAGACCATGTCCCGACGATACAAGAAG actttaccactgccttcacttttaacataagcttgcttttctttccacAGACTTTGCCAACCCTCTGCTCGACCTCATTCGTCAGCGGGAGATGAAATGGGTTGAAATGGCCCTTCATTGGGAGAAGACAATC---CGATGCTATGCAAAGgtgagtcaccagtaaactaagtcatccctgccactatatctgacttcaat Alignment from GeneWise GCTTTGTCAACCCTCT-GCAGACCTCATCCGCCAGCGAGAGATGAAATGGGTGGAAATGACCTTACACTGGGAGAAGACCATGTCCCGACGATACAAGAAG actttaccactgccttcacttttaacataagcttgcttttctttccacagACTTTGCCAACCCTCTGCTCGACCTCATTCGTCAGCGGGAGATGAAATGGGTTGAAATGGCCCTTCATTGGGAGAAGACAATC---CGATGCTATGCAAAGgtgagtcaccagtaaactaagtcatccctgccactatatctgacttcaat #### Tcirg1_ID169_18 --> 2 - 2 Original Alignment agCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATG-GAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACtg tagaatgacataggtctacaatgctcttctggtgtacctgcactttgcagagCTGTCGGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTTGCAGCTGTAGTACTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGCGAGGGGCTTTTAGCATTCTTACATGCTCTGCGGTTGCATtggtatgagtgatatcaacatgacaggatgggacagggaccataggttgatt Alignment from CESAR agCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATG-GAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACtg tagaatgacataggtctacaatgctcttctggtgtacctgcactttgcagagCTGTCGGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTTGCAGCTGTAGTACTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGCGAGGGGCTTTTAGCATTCTTACATGCTCTGCGGTTGCATtggtatgagtgatatcaacatgacaggatgggacagggaccataggttgatt Alignment from Spaln_aa2Genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATG-GAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTGGGTGGA tagaatgacataggtctacaatgctcttctggtgtacctgcactttgcagAGCTGTCGGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTTGCAGCTGTAGTACTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGcGAGGGGCTTTTAGCATTCTTACATGCTCTGCGGTTGCATTGGTATGAgtgatatcaacatgacaggatgggacagggaccataggttgatt Alignment from Spaln_nt2Genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATG-GAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG tagaatgacataggtctacaatgctcttctggtgtacctgcactttgcagAGCTGTCGGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTTGCAGCTGTAGTACTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGCGAGGGGCTTTTAGCATTCTTACATGCTCTGCGGTTGCATTGgtatgagtgatatcaacatgacaggatgggacagggaccataggttgatt Alignment from Pairagon AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATG-GAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG tagaatgacataggtctacaatgctcttctggtgtacctgcactttgcagAGCTGTCGGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTTGCAGCTGTAGTACTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGCGAGGGGCTTTTAGCATTCTTACATGCTCTGCGGTTGCATTGgtatgagtgatatcaacatgacaggatgggacagggaccataggttgatt Alignment from Exonerate_protein2genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATG-GAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG tagaatgacataggtctacaatgctcttctggtgtacctgcactttgcagAGCTGTCGGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTTGCAGCTGTAGTACTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGCGAGGGGCTTTTAGCATTCTTACATGCTCTGCGGTTGCATTGgtatgagtgatatcaacatgacaggatgggacagggaccataggttgatt Alignment from Exonerate_coding2genome tagaatgacataggtctacaatgctcttctggtgtacctgcactttgcagagctgtcggaggtcctttgggcaatggtgatgcacataggccttggcatgggccgagagattggagttgcagctgtagtactggtccctgtgtttgctgcctttgctgtattaagtgtcgcaattctgttggtaatgcgaggggcttttagcattcttacatgctctgcggttgcattggtatgagtgatatcaacatgacaggatgggacagggaccataggttgatt Alignment from GeneWise AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATG-GAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTGGGTGGAG tagaatgacataggtctacaatgctcttctggtgtacctgcactttgcagAGCTGTCGGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTTGCAGCTGTAGTACTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGCGAGGGGCTTTTAGCATTCTTACATGCTCTGCGGTTGCATTGGTATGAGtgatatcaacatgacaggatgggacagggaccataggttgatt #### Tcirg1_ID170_17 --> 0 - 1 Original Alignment TTTGTCCCTTCTGAGATCTTC-ATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCc tggtggacagatgttcaacttgtgagctaaataattatttttatgtttagTTTGTCCCCTCTGAGATCTTCCATGCACCGAGCAATCCACATCATTGAGTTTTGTCTTGGTTGCATCTCAAACACAGCATCCTACCTGCGTCTTTGGGCCTTGAGCCTGGCCCATGCAcgtagcagacataaattgtgtaacaacataagaaattcccgatggatagca Alignment from CESAR TTTGTCCCTTCTGAGATCTTC-ATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCc tggtggacagatgttcaacttgtgagctaaataattatttttatgtttagTTTGTCCCCTCTGAGATCTTCCATGCACCGAGCAATCCACATCATTGAGTTTTGTCTTGGTTGCATCTCAAACACAGCATCCTACCTGCGTCTTTGGGCCTTGAGCCTGGCCCATGCAcgtagcagacataaattgtgtaacaacataagaaattcccgatggatagca Alignment from Spaln_aa2Genome TTTGTCCCTTCTGAGATCTTC-ATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC tggtggacagatgttcaacttgtgagctaaataattatttttatgtttagTTTGTCCCCTCTGAGATCTTCcATGCACCGAGCAATCCACATCATTGAGTTTTGTCTTGGTTGCATCTCAAACACAGCATCCTACCTGCGTCTTTGGGCCTTGAGCCTGGCCCATGCACgtagcagacataaattgtgtaacaacataagaaattcccgatggatagca Alignment from Spaln_nt2Genome TTTGTCCCTTCTGAGATCTT-CATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC tggtggacagatgttcaacttgtgagctaaataattatttttatgtttagTTTGTCCCCTCTGAGATCTTCCATGCACCGAGCAATCCACATCATTGAGTTTTGTCTTGGTTGCATCTCAAACACAGCATCCTACCTGCGTCTTTGGGCCTTGAGCCTGGCCCATGCACgtagcagacataaattgtgtaacaacataagaaattcccgatggatagca Alignment from Pairagon TTTGTCCCTTCTGAGATCTT-CATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC tggtggacagatgttcaacttgtgagctaaataattatttttatgtttagTTTGTCCCCTCTGAGATCTTCCATGCACCGAGCAATCCACATCATTGAGTTTTGTCTTGGTTGCATCTCAAACACAGCATCCTACCTGCGTCTTTGGGCCTTGAGCCTGGCCCATGCACgtagcagacataaattgtgtaacaacataagaaattcccgatggatagca Alignment from Exonerate_protein2genome TTTGTCCCTTCTGAGATCTTC-ATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC tggtggacagatgttcaacttgtgagctaaataattatttttatgtttagTTTGTCCCCTCTGAGATCTTCCATGCACCGAGCAATCCACATCATTGAGTTTTGTCTTGGTTGCATCTCAAACACAGCATCCTACCTGCGTCTTTGGGCCTTGAGCCTGGCCCATGCACgtagcagacataaattgtgtaacaacataagaaattcccgatggatagca Alignment from Exonerate_coding2genome tggtggacagatgttcaacttgtgagctaaataattatttttatgtttagtttgtcccctctgagatcttccatgcaccgagcaatccacatcattgagttttgtcttggttgcatctcaaacacagcatcctacctgcgtctttgggccttgagcctggcccatgcacgtagcagacataaattgtgtaacaacataagaaattcccgatggatagca Alignment from GeneWise TTTGTCCCTTCTGAGATCTTC-ATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC tggtggacagatgttcaacttgtgagctaaataattatttttatgtttagTTTGTCCCCTCTGAGATCTTCCATGCACCGAGCAATCCACATCATTGAGTTTTGTCTTGGTTGCATCTCAAACACAGCATCCTACCTGCGTCTTTGGGCCTTGAGCCTGGCCCATGCACgtagcagacataaattgtgtaacaacataagaaattcccgatggatagca #### Tcirg1_ID172_15 --> 0 - 0 Original Alignment GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTG-GCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG GATGAGGAC actccaattcaatgactatgaacacacttactgtcttattttcttttcagGAAGTGGTACAGTATGTCCTAGTGGTCTTGGCATTACGCTACTGTCCCCATTTTGCTGCTGGGCACACCC------CTCCTACATGAGCACCAGCACAGAAGAAACTCCCAAACACGA---GCAGGCCAACAAgtaagtatatagtgttgagaatgcttggccttgctttctagGATGAGGAC Alignment from CESAR GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTG-GCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG GATGAGGAC actccaattcaatgactatgaacacacttactgtcttattttcttttcagGAAGTGGTACAGTATGTCCTAGTGGTCTTGGCATTACGCTACTGTCCCCATTTTGCTGCTGGGCACACCC------CTCCTACATGAGCACCAGCACAGAAGAAACTCCCAAACACGA---GCAGGCCAACAAgtaagtatatagtgttgaggtcttctactttcaccctccagGATGAGGAC Alignment from Spaln_aa2Genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTG-GCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG GATGAGGAC actccaattcaatgactatgaacacacttactgtcttattttcttttcagGAAGTGGTACAGTATGTCCTAGTGGTCTTGGCATTAcGCTACTGTCCCCATTTTGCTGCTGGGCACACCC------CTCCTACATGAGCACCAGCACAGAAGAAACTCCCAAACACGA---GCAGGCCAACAAgtaagtatatagtgttgagaatgcttggccttgctttctagGATGAGGAC Alignment from Spaln_nt2Genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTG-GCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG GATGAGGAC actccaattcaatgactatgaacacacttactgtcttattttcttttcagGAAGTGGTACAGTATGTCCTAGTGGTCTTGGCATTACGCTACTGTCCCCATTTTGCTGCTGGGCACACC------CCTCCTACATGAGCACCAGCACAGAAGAAACTCCCA---AACACGAGCAGGCCAACAAgtaagtatatagtgttgagaatgcttggccttgctttctagGATGAGGAC Alignment from Pairagon GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTG-GCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG GATGAGGAC actccaattcaatgactatgaacacacttactgtcttattttcttttcagGAAGTGGTACAGTATGTCCTAGTGGTCTTGGCATTACGCTACTGTCCCCATTTTGCTGCTGGGCACACC------CCTCCTACATGAGCACCAGCACAGAAGAAACTCCCA---AACACGAGCAGGCCAACAAgtaagtatatagtgttgagaatgcttggccttgctttctagGATGAGGAC Alignment from Exonerate_protein2genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTG-GCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG GATGAGGAC actccaattcaatgactatgaacacacttactgtcttattttcttttcagGAAGTGGTACAGTATGTCCTAGTGGTCTTGGCATTACGCTACTGTCCCCATTTTGCTGCTGGGCACACCC------CTCCTACATGAGCACCAGCACAGAAGAAACTCCCAAACACGA---GCAGGCCAACAAgtaagtatatagtgttgagaatgcttggccttgctttctagGATGAGGAC Alignment from Exonerate_coding2genome actccaattcaatgactatgaacacacttactgtcttattttcttttcaggaagtggtacagtatgtcctagtggtcttggcattacgctactgtccccattttgctgctgggcacacccctcctacatgagcaccagcacagaagaaactcccaaacacgagcaggccaacaagtaagtatatagtgttgagaatgcttggccttgctttctaggatgaggac Alignment from GeneWise GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTG-GCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG GATGAGGAC actccaattcaatgactatgaacacacttactgtcttattttcttttcagGAAGTGGTACAGTATGTCCTAGTGGTCTTGGCATTACGCTACTGTCCCCATTTTGCTGCTGGGCACACCCCTC------CTACATGAGCACCAGCACAGAAGAAACTCCCAAACACGA---GCAGGCCAACAAgtaagtatatagtgttgagaatgcttggccttgctttctagGATGAGGAC #### Tcirg1_ID176_11 --> 0 - 2 Original Alignment ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAAT---GAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCT-GCCATGGCCAACCAGTCAGGCTGGag cacagctgaagaccagggagccattttccaatcccttcttctccgagcagATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCACGCTATGGCCAATCAATCTGGCTGGctgtaagtctatgtggagcagttctgatacgaagtattggttagtgtaacct Alignment from CESAR ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAAT---GAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCT-GCCATGGCCAACCAGTCAGGCTGGag cacagctgaagaccagggagccattttccaatcccttcttctccgagcagATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCACGCTATGGCCAATCAATCTGGCTGGctgtaagtctatgtggagcagttctgatacgaagtattggttaagctctctg Alignment from Spaln_aa2Genome ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAAT---GAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCT-GCCATGGCCAACCAGTCAGGCTGGAG cacagctgaagaccagggagccattttccaatcccttcttctccgagcagATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAcGCTATGGCCAATCAATCTGGCTGGCTgtaagtctatgtggagcagttctgatacgaagtattggttagtgtaacct Alignment from Spaln_nt2Genome ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCAT--CTACAA-TGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCT-GCCATGGCCAACCAGTCAGGCTGGAG cacagctgaagaccagggagccattttccaatcccttcttctccgagcagATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCACGCTATGGCCAATCAATCTGGCTGGCTgtaagtctatgtggagcagttctgatacgaagtattggttagtgtaacct Alignment from Pairagon ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCAT-----------------------------CTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGC-TGCCATGGCCAACCAGTCAGGCTGG---------------------------------------------------- cacagctgaagaccagggagccattttccaatcccttcttctccgagcagATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCAGCT--------------------------ACTATCTTTCCATCTGGTTGGAGTGTGGCACGCTATGGCCAATCAATCTGGCTGGCTGTAAGTCTATGTGGAGCAGTTCTGATACGAAGTATTGGTTAGTGTAACCT Alignment from Exonerate_protein2genome ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAAT---GAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCT-GCCATGGCCAACCAGTCAGGCTGGAG cacagctgaagaccagggagccattttccaatcccttcttctccgagcagATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCACGCTATGGCCAATCAATCTGGCTGGCTgtaagtctatgtggagcagttctgatacgaagtattggttagtgtaacct Alignment from Exonerate_coding2genome ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAAT---GAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCT-GCCATGGCCAACCAGTCAGGCTGGAG cacagctgaagaccagggagccattttccaatcccttcttctccgagcagATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCACGCTATGGCCAATCAATCTGGCTGGCTgtaagtctatgtggagcagttctgatacgaagtattggttagtgtaacct Alignment from GeneWise ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAAT---GAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCT-GCCATGGCCAACCAGTCAGGCTGGAG cacagctgaagaccagggagccattttccaatcccttcttctccgagcagATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCACGCTATGGCCAATCAATCTGGCTGGCTgtaagtctatgtggagcagttctgatacgaagtattggttagtgtaacct #### Tcirg1_ID181_6 --> 0 - 2 Original Alignment CAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATC-TCCTACTGGGGTGAGCAGATCGGACAGAAGATCCGAAAGATCACAGACtg CAGTGGCAgttggtttaggggcaggacagaattaatctgagcatttgcagGGTGAACCTGCAACCTGGATGACCTTTATCATTCTCCTACTGGGGTGAGCAGATTGGTCAGAAGATCCGAAAGATCACAGATtggtgagtaggtatccccattccccaatataagggagcagtcaggttgctgc Alignment from CESAR CAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATC-TCCTACTGGGGTGAGCAGATCGGACAGAAGATCCGAAAGATCACAGACtg CAGTGGCAgtaaggttaggggcaggacagaattaatctgagcatttgcagGGTGAACCTGCAACCTGGATGACCTTTATCATTCTCCTACTGGGGTGAGCAGATTGGTCAGAAGATCCGAAAGATCACAGATtggtgagtaggtatccccattccccaatataagggagcagtcaggttgctgc Alignment from Spaln_aa2Genome CAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATC-TCCTACTGGGGTGAGCAGATCGGACAGAAGATCCGAAAGATCACAGACTG CAGTGGCAgttggtttaggggcaggacagaattaatctgagcatttgcagGGTGAACCTGCAACCTGGATGACCTTTATCATTcTCCTACTGGGGTGAGCAGATTGGTCAGAAGATCCGAAAGATCACAGATTGgtgagtaggtatccccattccccaatataagggagcagtcaggttgctgc Alignment from Spaln_nt2Genome CAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCAT-CTCCTACTGGGGTGAGCAGATCGGACAGAAGATCCGAAAGATCACAGACTG CAGTGGCAgttggtttaggggcaggacagaattaatctgagcatttgcagGGTGAACCTGCAACCTGGATGACCTTTATCATTCTCCTACTGGGGTGAGCAGATTGGTCAGAAGATCCGAAAGATCACAGATTGgtgagtaggtatccccattccccaatataagggagcagtcaggttgctgc Alignment from Pairagon CAGTGAC------------------------------------------GGGTGAGCCTGCAACTTGGATGACCTTTGTCA-TCTCCTACTGGGGTGAGCAGATCGGACAGAAGATCCGAAAGATCACAGACTG CAGTGGCAGTTGGTTTAGGGGCAGGACAGAATTAATCTGAGCATTTGCAGGGTGAACCTGCAACCTGGATGACCTTTATCATTCTCCTACTGGGGTGAGCAGATTGGTCAGAAGATCCGAAAGATCACAGATTGgtgagtaggtatccccattccccaatataagggagcagtcaggttgctgc Alignment from Exonerate_protein2genome CAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATC-TCCTACTGGGGTGAGCAGATCGGACAGAAGATCCGAAAGATCACAGACTG CAGTGGCAgttggtttaggggcaggacagaattaatctgagcatttgcagGGTGAACCTGCAACCTGGATGACCTTTATCATTCTCCTACTGGGGTGAGCAGATTGGTCAGAAGATCCGAAAGATCACAGATTGgtgagtaggtatccccattccccaatataagggagcagtcaggttgctgc Alignment from Exonerate_coding2genome CAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATC-TCCTACTGGGGTGAGCAGATCGGACAGAAGATCCGAAAGATCACAGACTG CAGTGGCAgttggtttaggggcaggacagaattaatctgagcatttgcagGGTGAACCTGCAACCTGGATGACCTTTATCATTCTCCTACTGGGGTGAGCAGATTGGTCAGAAGATCCGAAAGATCACAGATTGgtgagtaggtatccccattccccaatataagggagcagtcaggttgctgc Alignment from GeneWise CAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATC-TCCTACTGGGGTGAGCAGATCGGACAGAAGATCCGAAAGATCACAGACTG CAGTGGCAgttggtttaggggcaggacagaattaatctgagcatttgcagGGTGAACCTGCAACCTGGATGACCTTTATCATTCTCCTACTGGGGTGAGCAGATTGGTCAGAAGATCCGAAAGATCACAGATTGgtgagtaggtatccccattccccaatataagggagcagtcaggttgctgc #### Tcirg1_ID182_5 --> 1 - 0 Original Alignment tTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAG-CGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC gaaaagggggagttgagaggagtctgcaatggatatctttcttccctcagcTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTGCAGCCTTAGAGCCGCCTGCTGTGGAGAGCATGCCGTGGCTTTCTCATTGCTAGTTTTCGTGAGACCGAAGGGCAGTTGAAGGATCCAGTGGCAgtaaggttaggggcaggacaagttgtcttcttccccacttagGGTGAACC Alignment from CESAR tTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAG-CGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC gaaaagggggagttgagaggagtctgcaatggatatctttcttccctcagcTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTGCAGCCTTAGAGCCGCCTGCTGTGGAGAGCATGCCGTGGCTTTCTCATTGCTAGTTTTCGTGAGACCGAAGGGCAGTTGAAGGATCCAGTGGCAgtaaggttaggggcaggacagaattaatctgagcatttgcagGGTGAACC Alignment from Spaln_aa2Genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAG-CGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC gaaaagggggagttgagaggagtctgcaatggatatctttcttccctcagCTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTGCAGCCTTAGAGcCGCCTGCTGTGGAGAGCATGCCGTGGCTTTCTCATTGCTAGTTTTCGTGAGACCGAAGGGCAGTTGAAGGATCCAGTGGCAgtaaggttaggggcaggacaagttgtcttcttccccacttagGGTGAACC Alignment from Spaln_nt2Genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGC-GCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC gaaaagggggagttgagaggagtctgcaatggatatctttcttccctcagCTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTGCAGCCTTAGAGCCGCCTGCTGTGGAGAGCATGCCGTGGCTTTCTCATTGCTAGTTTTCGTGAGACCGAAGGGCAGTTGAAGGATCCAGTGGCAgtaaggttaggggcaggacaagttgtcttcttccccacttagGGTGAACC Alignment from Pairagon TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAG-CGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGAC------------------------------------------GGGTGAGCC gaaaagggggagttgagaggagtctgcaatggatatctttcttccctcagCTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTGCAGCCTTAGAGCCGCCTGCTGTGGAGAGCATGCCGTGGCTTTCTCATTGCTAGTTTTCGTGAGACCGAAGGGCAGTTGAAGGATCCAGTGGCAGTAAGGTTAGGGGCAGGACAAGTTGTCTTCTTCCCCACTTAGGGTGAACC Alignment from Exonerate_protein2genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAG-CGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC gaaaagggggagttgagaggagtctgcaatggatatctttcttccctcagCTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTGCAGCCTTAGAGCCGCCTGCTGTGGAGAGCATGCCGTGGCTTTCTCATTGCTAGTTTTCGTGAGACCGAAGGGCAGTTGAAGGATCCAGTGGCAgtaaggttaggggcaggacaagttgtcttcttccccacttagGGTGAACC Alignment from Exonerate_coding2genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAG-CGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC gaaaagggggagttgagaggagtctgcaatggatatctttcttccctcagCTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTGCAGCCTTAGAGCCGCCTGCTGTGGAGAGCATGCCGTGGCTTTCTCATTGCTAGTTTTCGTGAGACCGAAGGGCAGTTGAAGGATCCAGTGGCAgtaaggttaggggcaggacaagttgtcttcttccccacttagGGTGAACC Alignment from GeneWise TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTG-GAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC gaaaagggggagttgagaggagtctgcaatggatatctttcttccctcagCTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTGCAGCCTTAGAGCCGCCTGCTGTGGAGAGCATGCCGTGGCTTTCTCATTGCTAGTTTTCGTGAGACCGAAGGGCAGTTGAAGGATCCAGTGGCAgtaaggttaggggcaggacaagttgtcttcttccccacttagGGTGAACC #### Tcirg1_ID184_3 --> 2 - 0 Original Alignment ccTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTG-CACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG atgtgtgtttgtggaatcccttctggcctaattatgtacttcaattttagccTTCCTCAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCTCCACCTGAGGGTACATTACCAGCACCACCCCCAAGGGACCTACTTCGCATCCAGGAAGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATAGTAATCAGGAGGCACTGCAGGCTCAGTTGCCACCATTTACGGCTATACTCATCTGTGCTAGGCCAGAGCCACAGCCCACCGgtaagatcctagccaaaagagccctccagcagttttttcgtaattggagc Alignment from CESAR ccTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTG-CACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG atgtgtgtttgtggaatcccttctggcctaattatgtacttcaattttagccTTCCTCAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCTCCACCTGAGGGTACATTACCAGCACCACCCCCAAGGGACCTACTTCGCATCCAGGAAGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATAGTAATCAGGAGGCACTGCAGGCTCAGTTGCCACCATTTACGGCTATACTCATCTGTGCTAGGCCAGAGCCACAGCCCACCGgtaagatcctagccaaaagagccctccagcagttttttcgtaattggagc Alignment from Spaln_aa2Genome TTTACCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTG-CACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG tgtgtttgtggaatcccttctggcctaattatgtacttcaatttta gCCTTCCTCAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCTCCACCTGAGGGTACATTACCAGCACCACCCCCAAGGGACCTACTTCGCATCCAGGAAGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATAGTAATCAGGAGGCACTGCAGGCTCAGTTGcCACCATTTACGGCTATACTCATCTGTGCTAGGCCAGAGCCACAGCCCACCGgtaagatcctagccaaaagagccctccagcagttttttcgtaattggagc Alignment from Spaln_nt2Genome CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGC-ACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG atgtgtgtttgtggaatcccttctggcctaattatgtacttcaattttagCCTTCCTCAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCTCCACCTGAGGGTACATTACCAGCACCACCCCCAAGGGACCTACTTCGCATCCAGGAAGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATAGTAATCAGGAGGCACTGCAGGCTCAGTTGCCACCATTTACGGCTATACTCATCTGTGCTAGGCCAGAGCCACAGCCCACCGgtaagatcctagccaaaagagccctccagcagttttttcgtaattggagc Alignment from Pairagon CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTG-CACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG atgtgtgtttgtggaatcccttctggcctaattatgtacttcaattttagCCTTCCTCAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCTCCACCTGAGGGTACATTACCAGCACCACCCCCAAGGGACCTACTTCGCATCCAGGAAGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATAGTAATCAGGAGGCACTGCAGGCTCAGTTGCCACCATTTACGGCTATACTCATCTGTGCTAGGCCAGAGCCACAGCCCACCGgtaagatcctagccaaaagagccctccagcagttttttcgtaattggagc Alignment from Exonerate_protein2genome CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTG-CACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG atgtgtgtttgtggaatcccttctggcctaattatgtacttcaattttagCCTTCCTCAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCTCCACCTGAGGGTACATTACCAGCACCACCCCCAAGGGACCTACTTCGCATCCAGGAAGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATAGTAATCAGGAGGCACTGCAGGCTCAGTTGCCACCATTTACGGCTATACTCATCTGTGCTAGGCCAGAGCCACAGCCCACCGgtaagatcctagccaaaagagccctccagcagttttttcgtaattggagc Alignment from Exonerate_coding2genome ACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTACCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTG-CACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG atgtgtgtttgtggAATCCCTTCTGGCCTAATTATGTACTTCAATTTTAGCCTTCCTCAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCTCCACCTGAGGGTACATTACCAGCACCACCCCCAAGGGACCTACTTCGCATCCAGGAAGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATAGTAATCAGGAGGCACTGCAGGCTCAGTTGCCACCATTTACGGCTATACTCATCTGTGCTAGGCCAGAGCCACAGCCCACCGgtaagatcctagccaaaagagccctccagcagttttttcgtaattggagc Alignment from GeneWise CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAG-CTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG atgtgtgtttgtggaatcccttctggcctaattatgtacttcaattttagCCTTCCTCAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCTCCACCTGAGGGTACATTACCAGCACCACCCCCAAGGGACCTACTTCGCATCCAGGAAGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATAGTAATCAGGAGGCACTGCAGGCTCAGTTGCCACCATTTACGGCTATACTCATCTGTGCTAGGCCAGAGCCACAGCCCACCGgtaagatcctagccaaaagagccctccagcagttttttcgtaattggagc #### Tctn3_ID7990_11 --> 0 - 2 Original Alignment ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCT-GCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTATCTGGGTGCCAGTTAag gtaacaacctcactgatcccttatcacttatttttgttttgtgcatatagATGACCCTACTGCAGAGTGAGGCTAATGGAGTTTGCTCTCGCTAAGAGACATGCAGTGCAATTTGGTGTGAATGCATTCTCTGGGTGCCAATTGaggtgagtggcttgtatgaaatgactctgtgatgagactttactagttggat Alignment from CESAR ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCT-GCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTATCTGGGTGCCAGTTAag gtaacaacctcactgatcccttatcacttatttttgttttgtgcatatagATGACCCTACTGCAGAGTGAGGCTAATGGAGTTTGCTCTCGCTAAGAGACATGCAGTGCAATTTGGTGTGAATGCATTCTCTGGGTGCCAATTGaggtgagtggcttgtatgaaatgactctgtgatgagactttactagttggat Alignment from Spaln_aa2Genome ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCT-GCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTATCTGGGTGCCAGTTAAG gtaacaacctcactgatcccttatcacttatttttgttttgtgcatatagATGACCCTACTGCAGAGTGAGGCTAATGGAGTTTGCTCTcGCTAAGAGACATGCAGTGCAATTTGGTGTGAATGCATTCTCTGGGTGCCAATTGAGgtgagtggcttgtatgaaatgactctgtgatgagactttactagttggat Alignment from Spaln_nt2Genome ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCT-GCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTATCTGGGTGCCAGTTAAG gtaacaacctcactgatcccttatcacttatttttgttttgtgcatatagATGACCCTACTGCAGAGTGAGGCTAATGGAGTTTGCTCTCGCTAAGAGACATGCAGTGCAATTTGGTGTGAATGCATTCTCTGGGTGCCAATTGAGgtgagtggcttgtatgaaatgactctgtgatgagactttactagttggat Alignment from Pairagon ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCT-GCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTATCTGGGTGCCAGTTAAG gtaacaacctcactgatcccttatcacttatttttgttttgtgcatatagATGACCCTACTGCAGAGTGAGGCTAATGGAGTTTGCTCTCGCTAAGAGACATGCAGTGCAATTTGGTGTGAATGCATTCTCTGGGTGCCAATTGAGgtgagtggcttgtatgaaatgactctgtgatgagactttactagttggat Alignment from Exonerate_protein2genome ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCT-GCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTATCTGGGTGCCAGTTAAG gtaacaacctcactgatcccttatcacttatttttgttttgtgcatatagATGACCCTACTGCAGAGTGAGGCTAATGGAGTTTGCTCTCGCTAAGAGACATGCAGTGCAATTTGGTGTGAATGCATTCTCTGGGTGCCAATTGAGgtgagtggcttgtatgaaatgactctgtgatgagactttactagttggat Alignment from Exonerate_coding2genome ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCT-GCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTATCTGGGTGCCAGTTAAG gtaacaacctcactgatcccttatcacttatttttgttttgtgcatatagATGACCCTACTGCAGAGTGAGGCTAATGGAGTTTGCTCTCGCTAAGAGACATGCAGTGCAATTTGGTGTGAATGCATTCTCTGGGTGCCAATTGAGgtgagtggcttgtatgaaatgactctgtgatgagactttactagttggat Alignment from GeneWise ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGC-TCTGCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTATCTGGGTGCCAGTTAAG gtaacaacctcactgatcccttatcacttatttttgttttgtgcatatagATGACCCTACTGCAGAGTGAGGCTAATGGAGTTTGCTCTCGCTAAGAGACATGCAGTGCAATTTGGTGTGAATGCATTCTCTGGGTGCCAATTGAGgtgagtggcttgtatgaaatgactctgtgatgagactttactagttggat #### Tctn3_ID7995_6 --> 2 - 0 Original Alignment GTGCCGAGAGCAACCCTGCAg gtTTCCTAGAGAGTAAAAGCACAACGTGTCCT-CGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAGCAggtaaagtagaaaccaccatttcttcccaggaTTTCTAGAGACTAAGAGCATGACCTCTTCCCCGTTTCTTAAAGGACCTATCTAGTAGCTATAGCTCTGAGCCGGCTCTGGATGCAGTTTCAGACTACAACTTTAGAGTCTTGAGGgtgagtaatagccaggtttctgcagcttctgatttctaaatggtaggtgc Alignment from CESAR GTGCCGAGAGCAACCCTGCAg gtTTCCTAGAGAGTAAAAGCACAACGTGT-CCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAGCAggtactgtagaaaccaccatttcttcccaggaTTTCTAGAGACTAAGAGCATGACCTCTTCCCCGTTTCTTAAAGGACCTATCTAGTAGCTATAGCTCTGAGCCGGCTCTGGATGCAGTTTCAGACTACAACTTTAGAGTCTTGAGGgtgagtaatagccaggtttctgcagcttctgatttctaaatggtaggtgc Alignment from Spaln_aa2Genome GTTCTCATCCTGTGTGTCTTACTACTTGGACTTCTCAACTCACAGACCAAG ctgagatctccttcacacacccttttctttttgtctgtctgtctgttttag Alignment from Spaln_nt2Genome GTGCCGAGAGCAACCCT GCAGGTTTCCTAGAGAGTAAAAGCACAACGTGT-CCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAgcaggtaaagtagaaaccaccatttcttcccag----GATTTCTAGAGACTAAGAGCATGACCTCTTCCCCGTTTCTTAAAGGACCTATCTAGTAGCTATAGCTCTGAGCCGGCTCTGGATGCAGTTTCAGACTACAACTTTAGAGTCTTGAGGgtgagtaatagccaggtttctgcagcttctgatttctaaatggtaggtgc Alignment from Pairagon GTGCCGAGAGCAACCCTGCAGGT-----------------------------TTCCTAGAGAGTAAAAGCACAACGTG-TCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAGCAGGTAAAGTAGAAACCACCATTTCTTCCCAGGATTTCTAGAGACTAAGAGCATGACCTCTTCCCCGTTTCTTAAAGGACCTATCTAGTAGCTATAGCTCTGAGCCGGCTCTGGATGCAGTTTCAGACTACAACTTTAGAGTCTTGAGGgtgagtaatagccaggtttctgcagcttctgatttctaaatggtaggtgc Alignment from Exonerate_protein2genome GTGCCGAGAGCAACCCTGCAG GTTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAGCAGgtaaagtagaaaccaccatttcttcccaggATTTCTAGAGACTAAGAGCATGACCTCTTCCCCGTTTCTTAAAGGACCTATCTAGTAGCTATAGCTCTGAGCCGGCTCTGGATGCAGTTTCAGACTACAACTTTAGAGTCTTGAGGgtgagtaatagccaggtttctgcagcttctgatttctaaatggtaggtgc Alignment from Exonerate_coding2genome GTGCCGAGAGCAACCCTGCAG GTTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAGCAGgtaaagtagaaaccaccatttcttcccaggATTTCTAGAGACTAAGAGCATGACCTCTTCCCCGTTTCTTAAAGGACCTATCTAGTAGCTATAGCTCTGAGCCGGCTCTGGATGCAGTTTCAGACTACAACTTTAGAGTCTTGAGGgtgagtaatagccaggtttctgcagcttctgatttctaaatggtaggtgc Alignment from GeneWise GTGCCGAGAGCAACCCTGCAG GTTTCCTAGAGAGTAAAAGCACAACG-TGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAGCAGgtaaagtagaaaccaccatttcttcccagGATTTCTAGAGACTAAGAGCATGACCTCTTCCCCGTTTCTTAAAGGACCTATCTAGTAGCTATAGCTCTGAGCCGGCTCTGGATGCAGTTTCAGACTACAACTTTAGAGTCTTGAGGgtgagtaatagccaggtttctgcagcttctgatttctaaatggtaggtgc #### Tctn3_ID7999_2 --> 2 - 2 Original Alignment ctTTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCC-AGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAag caggtagatttcagctaaaaatggccaccatacttgaaatatattcacagctTTACCAATATGCGTCTGTGACCTGACTCCAGGTACCTGTGATTTAAACTGTTGTTGCGACAAGGATTGTGATCTTCTACATCCCCAGAACAGTCTTTTCCTTCTGTCTTCGAGGCAGTGTAaggtgggttgtagcacatgtccagttgtagggtgaaagtcctgtaccctgcc Alignment from CESAR ctTTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCC-AGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAag caggtagatttcagctaaaaatggccaccatacttgaaatatattcacagctTTACCAATATGCGTCTGTGACCTGACTCCAGGTACCTGTGATTTAAACTGTTGTTGCGACAAGGATTGTGATCTTCTACATCCCCAGAACAGTCTTTTCCTTCTGTCTTCGAGGCAGTGTAaggtgggttgtagcacatgtccagttgtagggtgaaagtcctgtaccctgcc Alignment from Spaln_aa2Genome CTTTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCC-AGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAAG caggtagatttcagctaaaaatggccaccatacttgaaatatattcacagCTTTACCAATATGCGTCTGTGACCTGACTCCAGGTACCTGTGATTTAAACTGTTGTTGCGACAAGGATTGTGATCTTCTACATCCCcAGAACAGTCTTTTCCTTCTGTCTTCGAGGCAGTGTAAGgtgggttgtagcacatgtccagttgtagggtgaaagtcctgtaccctgcc Alignment from Spaln_nt2Genome CTTTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCC-AGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAAG caggtagatttcagctaaaaatggccaccatacttgaaatatattcacagCTTTACCAATATGCGTCTGTGACCTGACTCCAGGTACCTGTGATTTAAACTGTTGTTGCGACAAGGATTGTGATCTTCTACATCCCCAGAACAGTCTTTTCCTTCTGTCTTCGAGGCAGTGTAAGgtgggttgtagcacatgtccagttgtagggtgaaagtcctgtaccctgcc Alignment from Pairagon CTTTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCC-AGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAAG caggtagatttcagctaaaaatggccaccatacttgaaatatattcacagCTTTACCAATATGCGTCTGTGACCTGACTCCAGGTACCTGTGATTTAAACTGTTGTTGCGACAAGGATTGTGATCTTCTACATCCCCAGAACAGTCTTTTCCTTCTGTCTTCGAGGCAGTGTAAGgtgggttgtagcacatgtccagttgtagggtgaaagtcctgtaccctgcc Alignment from Exonerate_protein2genome CTTTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCAT-CCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAAG caggtagatttcagctaaaaatggccaccatacttgaaatatattcacagCTTTACCAATATGCGTCTGTGACCTGACTCCAGGTACCTGTGATTTAAACTGTTGTTGCGACAAGGATTGTGATCTTCTACATCCCCAGAACAGTCTTTTCCTTCTGTCTTCGAGGCAGTGTAAGgtgggttgtagcacatgtccagttgtagggtgaaagtcctgtaccctgcc Alignment from Exonerate_coding2genome TTTCCAGCTTTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCAT-CCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAAG caggtagatttcagctaaaaatggccaccatacttgaaatataTTCACAGCTTTACCAATATGCGTCTGTGACCTGACTCCAGGTACCTGTGATTTAAACTGTTGTTGCGACAAGGATTGTGATCTTCTACATCCCCAGAACAGTCTTTTCCTTCTGTCTTCGAGGCAGTGTAAGgtgggttgtagcacatgtccagttgtagggtgaaagtcctgtaccctgcc Alignment from GeneWise CTTTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCC-AGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAAG caggtagatttcagctaaaaatggccaccatacttgaaatatattcacagCTTTACCAATATGCGTCTGTGACCTGACTCCAGGTACCTGTGATTTAAACTGTTGTTGCGACAAGGATTGTGATCTTCTACATCCCCAGAACAGTCTTTTCCTTCTGTCTTCGAGGCAGTGTAAGgtgggttgtagcacatgtccagttgtagggtgaaagtcctgtaccctgcc #### Tectb_ID11563_6 --> 1 - 2 Original Alignment gTTCAAAGTGGTC-TTGAATAGCTGCTGGGCCACCCCCTCGGCTGACTTCATGTACCCCTTACAGTGGCAGCTCATCAATAAGgg aaattcaattttgtaatggtattgttttctgtctttccttggtcttataggTTCAAAGTGGTCCTTGAATAGCTGCTGGGCAACCCCCTTGGCTGACTTCATGTACCCTTTACAGTGGCAGCTTATCAATAAGgggtcagtaccaataacaactacatgatgctggtatgtttcttggaccccca Alignment from CESAR gTTCAAAGTGGTC-TTGAATAGCTGCTGGGCCACCCCCTCGGCTGACTTCATGTACCCCTTACAGTGGCAGCTCATCAATAAGgg aaattcaattttgtaatggtattgttttctgtctttccttggtcttataggTTCAAAGTGGTCCTTGAATAGCTGCTGGGCAACCCCCTTGGCTGACTTCATGTACCCTTTACAGTGGCAGCTTATCAATAAGgggtcagtaccaataacaactacatgatgctggtatgtttcttggaccccca Alignment from Spaln_aa2Genome GTTCAAAGTGGTC-TTGAATAGCTGCTGGGCCACCCCCTCGGCTGACTTCATGTACCCCTTACAGTGGCAGCTCATCAATAAGGG aaattcaattttgtaatggtattgttttctgtctttccttggtcttatagGTTCAAAGTGGTCcTTGAATAGCTGCTGGGCAACCCCCTTGGCTGACTTCATGTACCCTTTACAGTGGCAGCTTATCAATAAGGGgtcagtaccaataacaactacatgatgctggtatgtttcttggaccccca Alignment from Spaln_nt2Genome GTTCAAAGTGGTC-TTGAATAGCTGCTGGGCCACCCCCTCGGCTGACTTCATGTACCCCTTACAGTGGCAGCTCATCAATAAGGG aaattcaattttgtaatggtattgttttctgtctttccttggtcttatagGTTCAAAGTGGTCCTTGAATAGCTGCTGGGCAACCCCCTTGGCTGACTTCATGTACCCTTTACAGTGGCAGCTTATCAATAAGGGgtcagtaccaataacaactacatgatgctggtatgtttcttggaccccca Alignment from Pairagon GTTCAAAGTGGT-CTTGAATAGCTGCTGGGCCACCCCCTCGGCTGACTTCATGTACCCCTTACAGTGGCAGCTCATCAATAAGGG aaattcaattttgtaatggtattgttttctgtctttccttggtcttatagGTTCAAAGTGGTCCTTGAATAGCTGCTGGGCAACCCCCTTGGCTGACTTCATGTACCCTTTACAGTGGCAGCTTATCAATAAGGGgtcagtaccaataacaactacatgatgctggtatgtttcttggaccccca Alignment from Exonerate_protein2genome GTTCAAAGTGGTC-TTGAATAGCTGCTGGGCCACCCCCTCGGCTGACTTCATGTACCCCTTACAGTGGCAGCTCATCAATAAGGG aaattcaattttgtaatggtattgttttctgtctttccttggtcttatagGTTCAAAGTGGTCCTTGAATAGCTGCTGGGCAACCCCCTTGGCTGACTTCATGTACCCTTTACAGTGGCAGCTTATCAATAAGGGgtcagtaccaataacaactacatgatgctggtatgtttcttggaccccca Alignment from Exonerate_coding2genome GTTCAAAGTGGTC-TTGAATAGCTGCTGGGCCACCCCCTCGGCTGACTTCATGTACCCCTTACAGTGGCAGCTCATCAATAAGGG aaattcaattttgtaatggtattgttttctgtctttccttggtcttatagGTTCAAAGTGGTCCTTGAATAGCTGCTGGGCAACCCCCTTGGCTGACTTCATGTACCCTTTACAGTGGCAGCTTATCAATAAGGGgtcagtaccaataacaactacatgatgctggtatgtttcttggaccccca Alignment from GeneWise GTTCAAAGTG-GTCTTGAATAGCTGCTGGGCCACCCCCTCGGCTGACTTCATGTACCCCTTACAGTGGCAGCTCATCAATAAGGG aaattcaattttgtaatggtattgttttctgtctttccttggtcttatagGTTCAAAGTGGTCCTTGAATAGCTGCTGGGCAACCCCCTTGGCTGACTTCATGTACCCTTTACAGTGGCAGCTTATCAATAAGGGgtcagtaccaataacaactacatgatgctggtatgtttcttggaccccca #### Tjp2_ID5274_13 --> 2 - 2 Original Alignment tgTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATA-AGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCag agtgtagttgtctccttgaaggtagagcatgtaaattttcaaaattacagctTACAGAGACATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATACAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGTTTGGCCTTCACTAGAGGTGAGGTCTTTCGAGTGATAGACACACTCTATGAAGACAAGTTGGGTCACTGGCTAGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCCTAATCCCCAACAAAAGCaggtaagtaccccattctgtcagaccccaccacggaagacagcagccccatg Alignment from CESAR tgTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATA-AGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCag agtgtagttgtctccttgaaggtagagcatgtaaattttcaaaattacagctTACAGAGACATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATACAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGTTTGGCCTTCACTAGAGGTGAGGTCTTTCGAGTGATAGACACACTCTATGAAGACAAGTTGGGTCACTGGCTAGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCCTAATCCCCAACAAAAGCaggtaagtaccccattctgtcagaccccaccacggaagacagcagccccatg Alignment from Spaln_aa2Genome TGTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATA-AGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCAG agtgtagttgtctccttgaaggtagagcatgtaaattttcaaaattacagCTTACAGAGACATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATAcAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGTTTGGCCTTCACTAGAGGTGAGGTCTTTCGAGTGATAGACACACTCTATGAAGACAAGTTGGGTCACTGGCTAGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCCTAATCCCCAACAAAAGCAGgtaagtaccccattctgtcagaccccaccacggaagacagcagccccatg Alignment from Spaln_nt2Genome TGTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATA-AGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCAG agtgtagttgtctccttgaaggtagagcatgtaaattttcaaaattacagCTTACAGAGACATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATACAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGTTTGGCCTTCACTAGAGGTGAGGTCTTTCGAGTGATAGACACACTCTATGAAGACAAGTTGGGTCACTGGCTAGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCCTAATCCCCAACAAAAGCAGgtaagtaccccattctgtcagaccccaccacggaagacagcagccccatg Alignment from Pairagon TGTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATA-AGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCAG agtgtagttgtctccttgaaggtagagcatgtaaattttcaaaattacagCTTACAGAGACATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATACAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGTTTGGCCTTCACTAGAGGTGAGGTCTTTCGAGTGATAGACACACTCTATGAAGACAAGTTGGGTCACTGGCTAGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCCTAATCCCCAACAAAAGCAGgtaagtaccccattctgtcagaccccaccacggaagacagcagccccatg Alignment from Exonerate_protein2genome TGTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATA-AGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCAG agtgtagttgtctccttgaaggtagagcatgtaaattttcaaaattacagCTTACAGAGACATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATACAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGTTTGGCCTTCACTAGAGGTGAGGTCTTTCGAGTGATAGACACACTCTATGAAGACAAGTTGGGTCACTGGCTAGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCCTAATCCCCAACAAAAGCAGgtaagtaccccattctgtcagaccccaccacggaagacagcagccccatg Alignment from Exonerate_coding2genome TGTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATA-AGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCAG agtgtagttgtctccttgaaggtagagcatgtaaattttcaaaattacagCTTACAGAGACATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATACAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGTTTGGCCTTCACTAGAGGTGAGGTCTTTCGAGTGATAGACACACTCTATGAAGACAAGTTGGGTCACTGGCTAGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCCTAATCCCCAACAAAAGCAGgtaagtaccccattctgtcagaccccaccacggaagacagcagccccatg Alignment from GeneWise TGTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTC-ATAAGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCAG agtgtagttgtctccttgaaggtagagcatgtaaattttcaaaattacagCTTACAGAGACATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATACAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGTTTGGCCTTCACTAGAGGTGAGGTCTTTCGAGTGATAGACACACTCTATGAAGACAAGTTGGGTCACTGGCTAGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCCTAATCCCCAACAAAAGCAGgtaagtaccccattctgtcagaccccaccacggaagacagcagccccatg #### Tle4_ID3629_10 --> 0 - 0 Original Alignment GACAGTGATGGTGAGAAG-AGTGATGACAACTTGGTAGTTGATGTGTCCAATGAG acagggggacttttgtaccccccttctaccctaccctgaacatctcccagGACAGTGATGGTGAGAAGCACTGATGATAACCTGGTAGTTGAGGTCTCTAATGAGgtgagtcggtcacaagttgtcacacagttggggtgtctactgacttgttt Alignment from CESAR GACAGTGATGGTGAGAAG-AGTGATGACAACTTGGTAGTTGATGTGTCCAATGAG acagggggacttttgtaccccccttctaccctaccctgaacatctcccagGACAGTGATGGTGAGAAGCACTGATGATAACCTGGTAGTTGAGGTCTCTAATGAGgtgagtcggtcacaagttgtcacacagttggggtgtctactgacttgttt Alignment from Spaln_aa2Genome GACAGTGATGGTGAGAAG-AGTGATGACAACTTGGTAGTTGATGTGTCCAATGAG acagggggacttttgtaccccccttctaccctaccctgaacatctcccagGACAGTGATGGTGAGAAGcACTGATGATAACCTGGTAGTTGAGGTCTCTAATGAGgtgagtcggtcacaagttgtcacacagttggggtgtctactgacttgttt Alignment from Spaln_nt2Genome GACAGTGATGGTGAGAAG-AGTGATGACAACTTGGTAGTTGATGTGTCCAATGAG acagggggacttttgtaccccccttctaccctaccctgaacatctcccagGACAGTGATGGTGAGAAGCACTGATGATAACCTGGTAGTTGAGGTCTCTAATGAGgtgagtcggtcacaagttgtcacacagttggggtgtctactgacttgttt Alignment from Pairagon GACAGTGATGGTGAGAAG-AGTGATGACAACTTGGTAGTTGATGTGTCCAATGAG acagggggacttttgtaccccccttctaccctaccctgaacatctcccagGACAGTGATGGTGAGAAGCACTGATGATAACCTGGTAGTTGAGGTCTCTAATGAGgtgagtcggtcacaagttgtcacacagttggggtgtctactgacttgttt Alignment from Exonerate_protein2genome GACAGTGATGGTGAGAAG-AGTGATGACAACTTGGTAGTTGATGTGTCCAATGAG acagggggacttttgtaccccccttctaccctaccctgaacatctcccagGACAGTGATGGTGAGAAGCACTGATGATAACCTGGTAGTTGAGGTCTCTAATGAGgtgagtcggtcacaagttgtcacacagttggggtgtctactgacttgttt Alignment from Exonerate_coding2genome acagggggacttttgtaccccccttctaccctaccctgaacatctcccaggacagtgatggtgagaagcactgatgataacctggtagttgaggtctctaatgaggtgagtcggtcacaagttgtcacacagttggggtgtctactgacttgttt Alignment from GeneWise GACAGTGATGGTGAGAAG-AGTGATGACAACTTGGTAGTTGATGTGTCCAATGAG acagggggacttttgtaccccccttctaccctaccctgaacatctcccagGACAGTGATGGTGAGAAGCACTGATGATAACCTGGTAGTTGAGGTCTCTAATGAGgtgagtcggtcacaagttgtcacacagttggggtgtctactgacttgttt #### Tm7sf2_ID1416_4 --> 2 - 1 Original Alignment gcTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTG-GGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAg ctttcctagtatgtgtactgtccctgagtcaggttctggctctcttgcaggtTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGCGGTGTATCTGTGGGGTTCCCCCTTGCAGGATTACCTGGAATGCTCCTGCCACTGGCCTTGGCAACCACTCTCACCAGGTTTGTCTTCAGCCTACTACTCTACACAAAGGCTTTGGTAACACCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAggtgaggagggtgcccagcagatctcagaaggtgcgggactagtgaaggtg Alignment from CESAR gcTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTG-GGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAg ctttcctagtatgtgtactgtccctgagtcaggttctggctctcttgcaggtTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGCGGTGTATCTGTGGGGTTCCCCCTTGCAGGATTACCTGGAATGCTCCTGCCACTGGCCTTGGCAACCACTCTCACCAGGTTTGTCTTCAGCCTACTACTCTACACAAAGGCTTTGGTAACACCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAggtgaggagggtgcccagcagatctcagaaggtgcgggactagtgaaggtg Alignment from Spaln_aa2Genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTG-GGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgtccctgagtcaggttctggctctcttgcagGTTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGcGGTGTATCTGTGGGGTTCCCCCTTGCAGGATTACCTGGAATGCTCCTGCCACTGGCCTTGGCAACCACTCTCACCAGGTTTGTCTTCAGCCTACTACTCTACACAAAGGCTTTGGTAACACCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAGgtgaggagggtgcccagcagatctcagaaggtgcgggactagtgaaggtg Alignment from Spaln_nt2Genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGG-GTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgtccctgagtcaggttctggctctcttgcagGTTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGCGGTGTATCTGTGGGGTTCCCCCTTGCAGGATTACCTGGAATGCTCCTGCCACTGGCCTTGGCAACCACTCTCACCAGGTTTGTCTTCAGCCTACTACTCTACACAAAGGCTTTGGTAACACCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAGgtgaggagggtgcccagcagatctcagaaggtgcgggactagtgaaggtg Alignment from Pairagon GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGG-GTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgtccctgagtcaggttctggctctcttgcagGTTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGCGGTGTATCTGTGGGGTTCCCCCTTGCAGGATTACCTGGAATGCTCCTGCCACTGGCCTTGGCAACCACTCTCACCAGGTTTGTCTTCAGCCTACTACTCTACACAAAGGCTTTGGTAACACCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAGgtgaggagggtgcccagcagatctcagaaggtgcgggactagtgaaggtg Alignment from Exonerate_protein2genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTG-GGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgtccctgagtcaggttctggctctcttgcagGTTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGCGGTGTATCTGTGGGGTTCCCCCTTGCAGGATTACCTGGAATGCTCCTGCCACTGGCCTTGGCAACCACTCTCACCAGGTTTGTCTTCAGCCTACTACTCTACACAAAGGCTTTGGTAACACCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAGgtgaggagggtgcccagcagatctcagaaggtgcgggactagtgaaggtg Alignment from Exonerate_coding2genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTG-GGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgtccctgagtcaggttctggctctcttgcagGTTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGCGGTGTATCTGTGGGGTTCCCCCTTGCAGGATTACCTGGAATGCTCCTGCCACTGGCCTTGGCAACCACTCTCACCAGGTTTGTCTTCAGCCTACTACTCTACACAAAGGCTTTGGTAACACCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAGgtgaggagggtgcccagcagatctcagaaggtgcgggactagtgaaggtg Alignment from GeneWise GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGG-CTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgtccctgagtcaggttctggctctcttgcagGTTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGCGGTGTATCTGTGGGGTTCCCCCTTGCAGGATTACCTGGAATGCTCCTGCCACTGGCCTTGGCAACCACTCTCACCAGGTTTGTCTTCAGCCTACTACTCTACACAAAGGCTTTGGTAACACCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAGgtgaggagggtgcccagcagatctcagaaggtgcgggactagtgaaggtg #### Tmem180_ID9861_3 --> 1 - 2 Original Alignment gTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAG-GACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTgg ggtacctaccttgttgtagactgcccatatctgaaatgtctccgtggcaggACAGGAGCAGGGCTCTCCTCAAGGGATGTGGTGCTAACCCGCGTGCGGTCACTAGGCTGGCATGGTCAACTGTGGGCATTGGCATTCCTTGCGTATTGGGTATCTTGGGCACCTGCTGGTCTACAATTCTTCTTGTGCCTTTGCCTCTATGATAGCTTCCTGACCCTTGCGGACCTCCACCATCACACTTTGCTAGCTGACCTGGCACTGTCATCCCGCGATCACACTCACCTCAATTTCTATTGCTCCCTTTTCAGTGCGGCTGGTTCATTATCTGTCTTTGCCTCTCATGCCTTTTGGAACAAGGAGCGATTTCACCTCATTCCTGGCATTTTGTGTGGTGCTTGCCGCTGGATCTGGACTGGGCTTTCTCGGCACCACACAATTATTAAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTTTGGACCTAGATGGTgggtaccccactacttcagctcaagctcctatggccagtataaccatgatct Alignment from CESAR gTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAG-GACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTgg ggtacctaccttgttgtagactgcccatatctgaaatgtctccgtggcaggACAGGAGCAGGGCTCTCCTCAAGGGATGTGGTGCTAACCCGCGTGCGGTCACTAGGCTGGCATGGTCAACTGTGGGCATTGGCATTCCTTGCGTATTGGGTATCTTGGGCACCTGCTGGTCTACAATTCTTCTTGTGCCTTTGCCTCTATGATAGCTTCCTGACCCTTGCGGACCTCCACCATCACACTTTGCTAGCTGACCTGGCACTGTCATCCCGCGATCACACTCACCTCAATTTCTATTGCTCCCTTTTCAGTGCGGCTGGTTCATTATCTGTCTTTGCCTCTCATGCCTTTTGGAACAAGGAGCGATTTCACCTCATTCCTGGCATTTTGTGTGGTGCTTGCCGCTGGATCTGGACTGGGCTTTCTCGGCACCACACAATTATTAAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTTTGGACCTAGATGGTgggtaccccactacttcagctcaagctcctatggccagtataaccatgatcc Alignment from Spaln_aa2Genome GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTC-TCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTGG ggtacctaccttgttgtagactgcccatatctgaaatgtctccgtggcagGACAGGAGCAGGGCTCTCCTCAAGGGATGTGGTGCTAACCCGCGTGCGGTCACTAGGCTGGCATGGTCAACTGTGGGCATTGGCATTCCTTGCGTATTGGGTATCTTGGGCACCTGCTGGTCTACAATTCTTCTTGTGCCTTTGCCTCTATGATAGCTTCCTGACCCTTGCGGACCTCCACCATCACACTTTGCTAGCTGACCTGGCACTGTCATCCCGCGATCACACTCACCTCAATTTCTATTGCTCCCTTTTCAGTGCGGCTGGTTCATTATCTGTCTTTGCCTCTCATGCCTTTTGGAACAAGGAGCGATTTcACCTCATTCCTGGCATTTTGTGTGGTGCTTGCCGCTGGATCTGGACTGGGCTTTCTCGGCACCACACAATTATTAAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTTTGGACCTAGATGGTGGgtaccccactacttcagctcaagctcctatggccagtataaccatgatct Alignment from Spaln_nt2Genome GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAG-GACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTGG ggtacctaccttgttgtagactgcccatatctgaaatgtctccgtggcagGACAGGAGCAGGGCTCTCCTCAAGGGATGTGGTGCTAACCCGCGTGCGGTCACTAGGCTGGCATGGTCAACTGTGGGCATTGGCATTCCTTGCGTATTGGGTATCTTGGGCACCTGCTGGTCTACAATTCTTCTTGTGCCTTTGCCTCTATGATAGCTTCCTGACCCTTGCGGACCTCCACCATCACACTTTGCTAGCTGACCTGGCACTGTCATCCCGCGATCACACTCACCTCAATTTCTATTGCTCCCTTTTCAGTGCGGCTGGTTCATTATCTGTCTTTGCCTCTCATGCCTTTTGGAACAAGGAGCGATTTCACCTCATTCCTGGCATTTTGTGTGGTGCTTGCCGCTGGATCTGGACTGGGCTTTCTCGGCACCACACAATTATTAAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTTTGGACCTAGATGGTGGgtaccccactacttcagctcaagctcctatggccagtataaccatgatct Alignment from Pairagon GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAG-GACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTGG ggtacctaccttgttgtagactgcccatatctgaaatgtctccgtggcagGACAGGAGCAGGGCTCTCCTCAAGGGATGTGGTGCTAACCCGCGTGCGGTCACTAGGCTGGCATGGTCAACTGTGGGCATTGGCATTCCTTGCGTATTGGGTATCTTGGGCACCTGCTGGTCTACAATTCTTCTTGTGCCTTTGCCTCTATGATAGCTTCCTGACCCTTGCGGACCTCCACCATCACACTTTGCTAGCTGACCTGGCACTGTCATCCCGCGATCACACTCACCTCAATTTCTATTGCTCCCTTTTCAGTGCGGCTGGTTCATTATCTGTCTTTGCCTCTCATGCCTTTTGGAACAAGGAGCGATTTCACCTCATTCCTGGCATTTTGTGTGGTGCTTGCCGCTGGATCTGGACTGGGCTTTCTCGGCACCACACAATTATTAAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTTTGGACCTAGATGGTGGgtaccccactacttcagctcaagctcctatggccagtataaccatgatct Alignment from Exonerate_protein2genome GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAG-GACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTGG ggtacctaccttgttgtagactgcccatatctgaaatgtctccgtggcagGACAGGAGCAGGGCTCTCCTCAAGGGATGTGGTGCTAACCCGCGTGCGGTCACTAGGCTGGCATGGTCAACTGTGGGCATTGGCATTCCTTGCGTATTGGGTATCTTGGGCACCTGCTGGTCTACAATTCTTCTTGTGCCTTTGCCTCTATGATAGCTTCCTGACCCTTGCGGACCTCCACCATCACACTTTGCTAGCTGACCTGGCACTGTCATCCCGCGATCACACTCACCTCAATTTCTATTGCTCCCTTTTCAGTGCGGCTGGTTCATTATCTGTCTTTGCCTCTCATGCCTTTTGGAACAAGGAGCGATTTCACCTCATTCCTGGCATTTTGTGTGGTGCTTGCCGCTGGATCTGGACTGGGCTTTCTCGGCACCACACAATTATTAAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTTTGGACCTAGATGGTGGgtaccccactacttcagctcaagctcctatggccagtataaccatgatct Alignment from Exonerate_coding2genome GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAG-GACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTGG ggtacctaccttgttgtagactgcccatatctgaaatgtctccgtggcagGACAGGAGCAGGGCTCTCCTCAAGGGATGTGGTGCTAACCCGCGTGCGGTCACTAGGCTGGCATGGTCAACTGTGGGCATTGGCATTCCTTGCGTATTGGGTATCTTGGGCACCTGCTGGTCTACAATTCTTCTTGTGCCTTTGCCTCTATGATAGCTTCCTGACCCTTGCGGACCTCCACCATCACACTTTGCTAGCTGACCTGGCACTGTCATCCCGCGATCACACTCACCTCAATTTCTATTGCTCCCTTTTCAGTGCGGCTGGTTCATTATCTGTCTTTGCCTCTCATGCCTTTTGGAACAAGGAGCGATTTCACCTCATTCCTGGCATTTTGTGTGGTGCTTGCCGCTGGATCTGGACTGGGCTTTCTCGGCACCACACAATTATTAAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTTTGGACCTAGATGGTGGgtaccccactacttcagctcaagctcctatggccagtataaccatgatct Alignment from GeneWise GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAG-GAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTGG ggtacctaccttgttgtagactgcccatatctgaaatgtctccgtggcagGACAGGAGCAGGGCTCTCCTCAAGGGATGTGGTGCTAACCCGCGTGCGGTCACTAGGCTGGCATGGTCAACTGTGGGCATTGGCATTCCTTGCGTATTGGGTATCTTGGGCACCTGCTGGTCTACAATTCTTCTTGTGCCTTTGCCTCTATGATAGCTTCCTGACCCTTGCGGACCTCCACCATCACACTTTGCTAGCTGACCTGGCACTGTCATCCCGCGATCACACTCACCTCAATTTCTATTGCTCCCTTTTCAGTGCGGCTGGTTCATTATCTGTCTTTGCCTCTCATGCCTTTTGGAACAAGGAGCGATTTCACCTCATTCCTGGCATTTTGTGTGGTGCTTGCCGCTGGATCTGGACTGGGCTTTCTCGGCACCACACAATTATTAAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTTTGGACCTAGATGGTGGgtaccccactacttcagctcaagctcctatggccagtataaccatgatct #### Trpt1_ID1982_5 --> 2 - 1 Original Alignment gcATTCGTCCAAATTGTGAGGTGGCGGTGTTC-ATCGATGGACCCCTAGCCCTCACAg tggatagacaaagcctcatttcaggtgtttgccattgctttatattgcaggcGTTTGTCCAAAT------GTAACTGTATTGCATTGATGGACCACTAGCTCTCACAggtcagtatcaccccccagggctggctgtatcacacacacagaaagaaagt Alignment from CESAR gcATTCGTCCAAATTGTGAGGTGGCGGTGTTC-ATCGATGGACCCCTAGCCCTCACAg tggatagacaaagcctcatttcaggtgtttgccattgctttatattgcaggcGTTTGTCCAAAT------GTAACTGTATTGCATTGATGGACCACTAGCTCTCACAggtcagtatcaccccccagggctggctgtatcacacacacagaaagaaagt Alignment from Spaln_aa2Genome GCATTCGTCCAAATTGTGAGGTGGCGGTGTTC-ATCGATGGACCCCTAGCCCTCACAG tggatagacaaagcctcatttcaggtgtttgccattgctttatattgcagGCGTTTGTCCAAAT------GTAACTGTATTGcATTGATGGACCACTAGCTCTCACAGgtcagtatcaccccccagggctggctgtatcacacacacagaaagaaagt Alignment from Spaln_nt2Genome GCATTCGTCCAAATTGTGAGGTGGCGGTGTT-CATCGATGGACCCCTAGCCCTCACAG tggatagacaaagcctcatttcaggtgtttgccattgctttatattgcagGCGTTTGTCCAAAT------GTAACTGTATTGCATTGATGGACCACTAGCTCTCACAGgtcagtatcaccccccagggctggctgtatcacacacacagaaagaaagt Alignment from Pairagon GCATTCGTCCAA----------ATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACAG tggatagacaaagcctcatttcaggtgtttgccattgctttatattgcagGCGTTTGTCCAAATGTAACTGTATTG---------------CATTGATGGACCACTAGCTCTCACAGgtcagtatcaccccccagggctggctgtatcacacacacagaaagaaagt Alignment from Exonerate_protein2genome TTCATCGATGGACCCCTAGCCCTCACAGATGGAATCCCTTTCTTCTGCTCCG TGGATAGACAAAGCCTCATTTCAGGTGTTTGCCATTGCTTTATATTGCAGGCgtttgtccaaatgtaactgtattgcattgatggaccactagctctcacaggtcagtatcaccccccagggctggctgtatcacacacacagaaagaaagt Alignment from Exonerate_coding2genome tggatagacaaagcctcatttcaggtgtttgccattgctttatattgcaggcgtttgtccaaatgtaactgtattgcattgatggaccactagctctcacaggtcagtatcaccccccagggctggctgtatcacacacacagaaagaaagt Alignment from GeneWise GCATT tggatagacaaagcctcatttcaggtgtttgccattgctttatattgcaggcgtttgtccaaatgtaactgtattgcattgatggaccactagctctcacaggtcagtatcaccccccagggctggctgtatcacacacacagaaagAAAGT #### Tsga10ip_ID978_2 --> 0 - 2 Original Alignment ACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGG-GTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACag atttaaaacaagaacaaatcttacgtcactgcccttcttttatgttgtagACTAATGCCTGTCTTACAGGAAATTGGCAG------CAGGTTTTATCTGGACTAGGTCGTAGATGATGATCAGCTACTAGCTGAGGCAGGTATTGCTGAAAGCACTCCCCAGAAGCACaggtaagtgatgtaaggcactggtctactatatcaagttatacatgtcctgc Alignment from CESAR ACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGG-GTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACag atttaaaacaagaacaaatcttacgtcactgcccttcttttatgttgtagACTAATGCCTGTCTTACAGGAAATTGGCAG------CAGGTTTTATCTGGACTAGGTCGTAGATGATGATCAGCTACTAGCTGAGGCAGGTATTGCTGAAAGCACTCCCCAGAAGCACaggtaagtgatgtaaggcactggtctactatatcaagttatacatgtcctgc Alignment from Spaln_aa2Genome ACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGG-GTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG atttaaaacaagaacaaatcttacgtcactgcccttcttttatgttgtagACTAATGCCTGTCTTACAGGAAATTGGCAG------CAGGTTTTATCTGGACTAGGTcGTAGATGATGATCAGCTACTAGCTGAGGCAGGTATTGCTGAAAGCACTCCCCAGAAGCACAGgtaagtgatgtaaggcactggtctactatatcaagttatacatgtcctgc Alignment from Spaln_nt2Genome ACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGG-GTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG atttaaaacaagaacaaatcttacgtcactgcccttcttttatgttgtagACTAATGCCTGTCTTACAGGAAATTGGC------AGCAGGTTTTATCTGGACTAGGTCGTAGATGATGATCAGCTACTAGCTGAGGCAGGTATTGCTGAAAGCACTCCCCAGAAGCACAGgtaagtgatgtaaggcactggtctactatatcaagttatacatgtcctgc Alignment from Pairagon GTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG atttaaaacaagaacaaatcttacgtcactgcccttcttttatgttgtagactaatgcctgtcttacaggaaattggcagcaggttttatctggactaggtcGTAGATGATGATCAGCTACTAGCTGAGGCAGGTATTGCTGAAAGCACTCCCCAGAAGCACAGgtaagtgatgtaaggcactggtctactatatcaagttatacatgtcctgc Alignment from Exonerate_protein2genome ACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGG-GTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG atttaaaacaagaacaaatcttacgtcactgcccttcttttatgttgtagACTAATGCCTGTCTTACAGGAAAT------TGGCAGCAGGTTTTATCTGGACTAGGTCGTAGATGATGATCAGCTACTAGCTGAGGCAGGTATTGCTGAAAGCACTCCCCAGAAGCACAGgtaagtgatgtaaggcactggtctactatatcaagttatacatgtcctgc Alignment from Exonerate_coding2genome atttaaaacaagaacaaatcttacgtcactgcccttcttttatgttgtagactaatgcctgtcttacaggaaattggcagcaggttttatctggactaggtcgtagatgatgatcagctactagctgaggcaggtattgctgaaagcactccccagaagcacaggtaagtgatgtaaggcactggtctactatatcaagttatacatgtcctgc Alignment from GeneWise CAGACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGG-GTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG atttaaaacaagaacaaatcttacgtcactgcccttcttttatgttgtag---ACTAATGCCTGTCTTACAGGAAAT------TGGCAGCAGGTTTTATCTGGACTAGGTCGTAGATGATGATCAGCTACTAGCTGAGGCAGGTATTGCTGAAAGCACTCCCCAGAAGCACAGgtaagtgatgtaaggcactggtctactatatcaagttatacatgtcctgc #### Tut1_ID2554_7 --> 2 - 1 Original Alignment gaGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAG-ACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAg ttgacatgcagacttgtttttgcaattatggtctgtttctttcctgtcaggaGGTGGCCCACTATTCAATAATTAT---GTAACCTTGTTGGTGATCTACCTGCTTCAACACAAGAGACCCACCAGTACTACCTAGTGTAGCCGAGCTAACCCAGAGGGCAggtgagtataatgtttgcctctgtaacccagacactctggctggtatgact Alignment from CESAR gaGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAG-ACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAg ttgacatgcagacttgtttttgcaattatggtctgtttctttcctgtcaggaGGTGGCCCACTATTCAATAATTAT---GTAACCTTGTTGGTGATCTACCTGCTTCAACACAAGAGACCCACCAGTACTACCTAGTGTAGCCGAGCTAACCCAGAGGGCAggtgagtataatgtttgcctctgtaacccagacactctggctggtatgact Alignment from Spaln_aa2Genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAG-ACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG ttgacatgcagacttgtttttgcaattatggtctgtttctttcctgtcagGAGGTGGCCCACTATTCAATAATTAT---GTAACCTTGTTGGTGATCTACCTGCTTCAAcACAAGAGACCCACCAGTACTACCTAGTGTAGCCGAGCTAACCCAGAGGGCAGgtgagtataatgtttgcctctgtaacccagacactctggctggtatgact Alignment from Spaln_nt2Genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAG-ACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG ttgacatgcagacttgtttttgcaattatggtctgtttctttcctgtcagGAGGTGGCCCACTATTCAATAATTATG---TAACCTTGTTGGTGATCTACCTGCTTCAACACAAGAGACCCACCAGTACTACCTAGTGTAGCCGAGCTAACCCAGAGGGCAGgtgagtataatgtttgcctctgtaacccagacactctggctggtatgact Alignment from Pairagon GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAG-ACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG ttgacatgcagacttgtttttgcaattatggtctgtttctttcctgtcagGAGGTGGCCCACTATTCAATAATTATG---TAACCTTGTTGGTGATCTACCTGCTTCAACACAAGAGACCCACCAGTACTACCTAGTGTAGCCGAGCTAACCCAGAGGGCAGgtgagtataatgtttgcctctgtaacccagacactctggctggtatgact Alignment from Exonerate_protein2genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAG-ACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG ttgacatgcagacttgtttttgcaattatggtctgtttctttcctgtcagGAGGTGGCCCACTATTCAATAATTAT---GTAACCTTGTTGGTGATCTACCTGCTTCAACACAAGAGACCCACCAGTACTACCTAGTGTAGCCGAGCTAACCCAGAGGGCAGgtgagtataatgtttgcctctgtaacccagacactctggctggtatgact Alignment from Exonerate_coding2genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAG-ACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG ttgacatgcagacttgtttttgcaattatggtctgtttctttcctgtcagGAGGTGGCCCACTATTCAATAATTAT---GTAACCTTGTTGGTGATCTACCTGCTTCAACACAAGAGACCCACCAGTACTACCTAGTGTAGCCGAGCTAACCCAGAGGGCAGgtgagtataatgtttgcctctgtaacccagacactctggctggtatgact Alignment from GeneWise GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAG-ACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG ttgacatgcagacttgtttttgcaattatggtctgtttctttcctgtcagGAGGTGGCCCACTATTCAATAATTAT---GTAACCTTGTTGGTGATCTACCTGCTTCAACACAAGAGACCCACCAGTACTACCTAGTGTAGCCGAGCTAACCCAGAGGGCAGgtgagtataatgtttgcctctgtaacccagacactctggctggtatgact #### Ubxn1_ID2440_4 --> 2 - 2 Original Alignment gcTCTGGGTCTGCTGCTGGAGAAAGCAGA-CCCATTTTGACTGAAGAGGAGAGACAAGAACAGACCAAGag attgggagctatcatgcatctagcaaagcccttaaagatttccaaattaggcTCTGGTTCAACCGCTGGGAAAAGCAGGCCCAATTCTGACTGAAGAGGAAAGGAGAGAACAGACTAGGaggtaagcgcaaggaaggttgacagccccttgtgtgaaggttctatttcaga Alignment from CESAR gcTCTGGGTCTGCTGCTGGAGAAAGCAGACCC-ATTTTGACTGAAGAGGAGAGACAAGAACAGACCAAGag attgggagctatcatgcatctagcaaagcccttaaagatttccaaattaggcTCTGGTTCAACCGCTGGGAAAAGCAGGCCCAATTCTGACTGAAGAGGAAAGGAGAGAACAGACTAGGaggtaagcgcaaggaaggttgacagccccttgtgtgaaggttctatttcaga Alignment from Spaln_aa2Genome GCTCTGGGTCTGCTGCTGGAGAAAGCAGA-CCCATTTTGACTGAAGAGGAGAGACAAGAACAGACCAAGAG attgggagctatcatgcatctagcaaagcccttaaagatttccaaattagGCTCTGGTTCAACCGCTGGGAAAAGCAGGcCCAATTCTGACTGAAGAGGAAAGGAGAGAACAGACTAGGAGgtaagcgcaaggaaggttgacagccccttgtgtgaaggttctatttcaga Alignment from Spaln_nt2Genome GCTCTGGGTCTGCTGCTGGAGAAAGCAGACCCATTT-TGACTGAAGAGGAGAGACAAGAACAGACCAAGAG attgggagctatcatgcatctagcaaagcccttaaagatttccaaattagGCTCTGGTTCAACCGCTGGGAAAAGCAGGCCCAATTCTGACTGAAGAGGAAAGGAGAGAACAGACTAGGAGgtaagcgcaaggaaggttgacagccccttgtgtgaaggttctatttcaga Alignment from Pairagon GCTCTGGGTCTGCTGCTGGAGAAAGCAGACCC-ATTTTGACTGAAGAGGAGAGACAAGAACAGACCAAGAG attgggagctatcatgcatctagcaaagcccttaaagatttccaaattagGCTCTGGTTCAACCGCTGGGAAAAGCAGGCCCAATTCTGACTGAAGAGGAAAGGAGAGAACAGACTAGGAGgtaagcgcaaggaaggttgacagccccttgtgtgaaggttctatttcaga Alignment from Exonerate_protein2genome GCTCTGGGTCTGCTGCTGGAGAAAGCAGA-CCCATTTTGACTGAAGAGGAGAGACAAGAACAGACCAAGAG attgggagctatcatgcatctagcaaagcccttaaagatttccaaattagGCTCTGGTTCAACCGCTGGGAAAAGCAGGCCCAATTCTGACTGAAGAGGAAAGGAGAGAACAGACTAGGAGgtaagcgcaaggaaggttgacagccccttgtgtgaaggttctatttcaga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GCTCTGGGTCTGCTGCTGGAGAAAGCAGACCC-ATTTTGACTGAAGAGGAGAGACAAGAACAGACCAAGAG attgggagctatcatgcatctagcaaagcccttaaagatttccaaattagGCTCTGGTTCAACCGCTGGGAAAAGCAGGCCCAATTCTGACTGAAGAGGAAAGGAGAGAACAGACTAGGAGgtaagcgcaaggaaggttgacagccccttgtgtgaaggttctatttcaga #### Vegfb_ID1956_4 --> 0 - 2 Original Alignment ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTG-GAAGAACACAGCCAATGTGAATGCag aagtttacctcttagcttcttgggaacataacatttctgttttccttcagATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGCGAAGAACACAGCCAATGTGAATGCaggtctgagacaattccaggacccatggtctggcatgtgttagggccgcatg Alignment from CESAR ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTG-GAAGAACACAGCCAATGTGAATGCag aagtttacctcttagcttcttgggaacataacatttctgttttccttcagATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGCGAAGAACACAGCCAATGTGAATGCaggtctgagacaattccaggacccatggtctggcatgtgttagggccgcatg Alignment from Spaln_aa2Genome ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTG-GAAGAACACAGCCAATGTGAATGCAG aagtttacctcttagcttcttgggaacataacatttctgttttccttcagATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGcGAAGAACACAGCCAATGTGAATGCAGgtctgagacaattccaggacccatggtctggcatgtgttagggccgcatg Alignment from Spaln_nt2Genome ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTG-GAAGAACACAGCCAATGTGAATGCAG aagtttacctcttagcttcttgggaacataacatttctgttttccttcagATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGCGAAGAACACAGCCAATGTGAATGCAGgtctgagacaattccaggacccatggtctggcatgtgttagggccgcatg Alignment from Pairagon ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTG-GAAGAACACAGCCAATGTGAATGCAG aagtttacctcttagcttcttgggaacataacatttctgttttccttcagATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGCGAAGAACACAGCCAATGTGAATGCAGgtctgagacaattccaggacccatggtctggcatgtgttagggccgcatg Alignment from Exonerate_protein2genome ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTG-GAAGAACACAGCCAATGTGAATGCAG aagtttacctcttagcttcttgggaacataacatttctgttttccttcagATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGCGAAGAACACAGCCAATGTGAATGCAGgtctgagacaattccaggacccatggtctggcatgtgttagggccgcatg Alignment from Exonerate_coding2genome ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTG-GAAGAACACAGCCAATGTGAATGCAG aagtttacctcttagcttcttgggaacataacatttctgttttccttcagATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGCGAAGAACACAGCCAATGTGAATGCAGgtctgagacaattccaggacccatggtctggcatgtgttagggccgcatg Alignment from GeneWise ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCC-CTGGAAGAACACAGCCAATGTGAATGCAGACCAAAAAAAAAGGAGAGTGCTGTGAAGCCAGACAG aagtttacctcttagcttcttgggaacataacatttctgttttccttcagATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGCGAAGAACACAGCCAATGTGAATGCAGGTCTGAGACAATTCCAGGACCCATGGTCTGGCATGTgttagggccgcatg #### Vldlr_ID5807_6 --> 2 - 1 Original Alignment ctTCTCGAACCTGCCGACCTGACCAGTTTGAATGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATC-CGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACg cttcacttctgatgtctctagcagtctctatttttatgtttgtcttaaagcaTCTCAAACTTGCCGACCTGACCACTTTGAATGTGAGGATGGTACTTGCATCCATGGTAGCAGACAATGCAATGGGATCCCAGGCTTGTGTTGATGGGTCTGATGAACTAAACTGTAGAAACagtgagcgtctctttgagattgacaggtctgttcctttgccagaagagtga Alignment from CESAR ctTCTCGAACCTGCCGACCTGACCAGTTTGAATGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATC-CGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACg cttcacttctgatgtctctagcagtctctatttttatgtttgtcttaaagcaTCTCAAACTTGCCGACCTGACCACTTTGAATGTGAGGATGGTACTTGCATCCATGGTAGCAGACAATGCAATGGGATCCCAGGCTTGTGTTGATGGGTCTGATGAACTAAACTGTAGAAACagtgagcgtctctttgagattgacaggtctgttcctttgccagaagagtga Alignment from Spaln_aa2Genome CTTCTCGAACCTGCCGACCTGACCAGTTTGAATGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATC-CGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACG cttcacttctgatgtctctagcagtctctatttttatgtttgtcttaaagCATCTCAAACTTGCCGACCTGACCACTTTGAATGTGAGGATGGTACTTGCATCCATGGTAGCAGACAATGCAATGGGATCcCAGGCTTGTGTTGATGGGTCTGATGAACTAAACTGTAGAAACAgtgagcgtctctttgagattgacaggtctgttcctttgccagaagagtga Alignment from Spaln_nt2Genome CTTCTCGAACCTGCCGACCTGACCAGTTTGAATGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATCCGAGACT-GTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACG cttcacttctgatgtctctagcagtctctatttttatgtttgtcttaaagCATCTCAAACTTGCCGACCTGACCACTTTGAATGTGAGGATGGTACTTGCATCCATGGTAGCAGACAATGCAATGGGATCCCAGGCTTGTGTTGATGGGTCTGATGAACTAAACTGTAGAAACAgtgagcgtctctttgagattgacaggtctgttcctttgccagaagagtga Alignment from Pairagon CTTCTCGAACCTGCCGACCTGACCAGTTTGAATGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATCCGAGAC-TGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACG cttcacttctgatgtctctagcagtctctatttttatgtttgtcttaaagCATCTCAAACTTGCCGACCTGACCACTTTGAATGTGAGGATGGTACTTGCATCCATGGTAGCAGACAATGCAATGGGATCCCAGGCTTGTGTTGATGGGTCTGATGAACTAAACTGTAGAAACAgtgagcgtctctttgagattgacaggtctgttcctttgccagaagagtga Alignment from Exonerate_protein2genome CTTCTCGAACCTGCCGACCTGACCAGTTTGAATGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATC-CGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACG cttcacttctgatgtctctagcagtctctatttttatgtttgtcttaaagCATCTCAAACTTGCCGACCTGACCACTTTGAATGTGAGGATGGTACTTGCATCCATGGTAGCAGACAATGCAATGGGATCCCAGGCTTGTGTTGATGGGTCTGATGAACTAAACTGTAGAAACAgtgagcgtctctttgagattgacaggtctgttcctttgccagaagagtga Alignment from Exonerate_coding2genome CTTCTCGAACCTGCCGACCTGACCAGTTTGAATGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATC-CGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACG cttcacttctgatgtctctagcagtctctatttttatgtttgtcttaaagCATCTCAAACTTGCCGACCTGACCACTTTGAATGTGAGGATGGTACTTGCATCCATGGTAGCAGACAATGCAATGGGATCCCAGGCTTGTGTTGATGGGTCTGATGAACTAAACTGTAGAAACAgtgagcgtctctttgagattgacaggtctgttcctttgccagaagagtga Alignment from GeneWise CTTCTCGAACCTGCCGACCTGACCAGTTTGAATGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATCCGA-GACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACG cttcacttctgatgtctctagcagtctctatttttatgtttgtcttaaagCATCTCAAACTTGCCGACCTGACCACTTTGAATGTGAGGATGGTACTTGCATCCATGGTAGCAGACAATGCAATGGGATCCCAGGCTTGTGTTGATGGGTCTGATGAACTAAACTGTAGAAACAgtgagcgtctctttgagattgacaggtctgttcctttgccagaagagtga #### Vldlr_ID5810_9 --> 2 - 1 Original Alignment atATTGATGAATGCCAAAACCCGGGGATC-TGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAg aaatggatatagaaaacaagcaattgggcagtggctcttctctctctcagacATTGATGAATGCCAAAACCCAGGTATCCTGTGGCCAGATCTGTATCAACTTAAAAGACGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAggtagtaaagtaactgagcaataatacgaggtttggagtgtaacttactgt Alignment from CESAR atATTGATGAATGCCAAAACCCGGGGATC-TGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAg aaatggatatagaaaacaagcaattgggcagtggctcttctctctctcagacATTGATGAATGCCAAAACCCAGGTATCCTGTGGCCAGATCTGTATCAACTTAAAAGACGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAggtagtaaagtaactgagcaataatacgaggtttggagtgtaacttactgt Alignment from Spaln_aa2Genome ATATTGATGAATGCCAAAACCCGGGGATC-TGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aaatggatatagaaaacaagcaattgggcagtggctcttctctctctcagACATTGATGAATGCCAAAACCCAGGTATCcTGTGGCCAGATCTGTATCAACTTAAAAGACGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAGgtagtaaagtaactgagcaataatacgaggtttggagtgtaacttactgt Alignment from Spaln_nt2Genome ATATTGATGAATGCCAAAACCCGGGGATC-TGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aaatggatatagaaaacaagcaattgggcagtggctcttctctctctcagACATTGATGAATGCCAAAACCCAGGTATCCTGTGGCCAGATCTGTATCAACTTAAAAGACGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAGgtagtaaagtaactgagcaataatacgaggtttggagtgtaacttactgt Alignment from Pairagon ATATTGATGAATGCCAAAACCCGGGGAT-CTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aaatggatatagaaaacaagcaattgggcagtggctcttctctctctcagACATTGATGAATGCCAAAACCCAGGTATCCTGTGGCCAGATCTGTATCAACTTAAAAGACGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAGgtagtaaagtaactgagcaataatacgaggtttggagtgtaacttactgt Alignment from Exonerate_protein2genome ATATTGATGAATGCCAAAACCCGGGGATC-TGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aaatggatatagaaaacaagcaattgggcagtggctcttctctctctcagACATTGATGAATGCCAAAACCCAGGTATCCTGTGGCCAGATCTGTATCAACTTAAAAGACGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAGgtagtaaagtaactgagcaataatacgaggtttggagtgtaacttactgt Alignment from Exonerate_coding2genome ATATTGATGAATGCCAAAACCCGGGGATC-TGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aaatggatatagaaaacaagcaattgggcagtggctcttctctctctcagACATTGATGAATGCCAAAACCCAGGTATCCTGTGGCCAGATCTGTATCAACTTAAAAGACGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAGgtagtaaagtaactgagcaataatacgaggtttggagtgtaacttactgt Alignment from GeneWise ATATTGATGAATGCCAAAACCCGGGG-ATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAGGC- aaatggatatagaaaacaagcaattgggcagtggctcttctctctctcagACATTGATGAATGCCAAAACCCAGGTATCCTGTGGCCAGATCTGTATCAACTTAAAAGACGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGCAATAGGTAgtaaagtaactgagcaataatacgaggtttggagtgtaacttactgt #### Vps13a_ID4057_66 --> 0 - 1 Original Alignment GGTTTTGTAAGT-GGCATTACAGGGATTGTTACAAAGCCAATTAAAg caacaaaaggtgggctgttacaattctattaatcttggttttggtttaagGGTTTTGTAAGTCGGTATTACTGGCATTGTTTCAGAACCAATAAAAggtaggacctgatatatctcttgcttatatcattcctatttgggcatagtt Alignment from CESAR GGTTTTGTAAGT-GGCATTACAGGGATTGTTACAAAGCCAATTAAAg caacaaaaggtgggctgttacaattctattaatcttggttttggtttaagGGTTTTGTAAGTCGGTATTACTGGCATTGTTTCAGAACCAATAAAAggtaggacctgatatatctcttgcttatatcattcctatttgggcatagtt Alignment from Spaln_aa2Genome GGTTTTGTAAGT-GGCATTACAGGGATTGTTACAAAGCCAATTAAAG caacaaaaggtgggctgttacaattctattaatcttggttttggtttaagGGTTTTGTAAGTcGGTATTACTGGCATTGTTTCAGAACCAATAAAAGgtaggacctgatatatctcttgcttatatcattcctatttgggcatagtt Alignment from Spaln_nt2Genome GGTTTTGTAAGT-GGCATTACAGGGATTGTTACAAAGCCAATTAAAG caacaaaaggtgggctgttacaattctattaatcttggttttggtttaagGGTTTTGTAAGTCGGTATTACTGGCATTGTTTCAGAACCAATAAAAGgtaggacctgatatatctcttgcttatatcattcctatttgggcatagtt Alignment from Pairagon GGTTTTGTAAGT-GGCATTACAGGGATTGTTACAAAGCCAATTAAAG caacaaaaggtgggctgttacaattctattaatcttggttttggtttaagGGTTTTGTAAGTCGGTATTACTGGCATTGTTTCAGAACCAATAAAAGgtaggacctgatatatctcttgcttatatcattcctatttgggcatagtt Alignment from Exonerate_protein2genome GGTTTTGTAAGT-GGCATTACAGGGATTGTTACAAAGCCAATTAAAG caacaaaaggtgggctgttacaattctattaatcttggttttggtttaagGGTTTTGTAAGTCGGTATTACTGGCATTGTTTCAGAACCAATAAAAGgtaggacctgatatatctcttgcttatatcattcctatttgggcatagtt Alignment from Exonerate_coding2genome caacaaaaggtgggctgttacaattctattaatcttggttttggtttaagggttttgtaagtcggtattactggcattgtttcagaaccaataaaaggtaggacctgatatatctcttgcttatatcattcctatttgggcatagtt Alignment from GeneWise AT caacaaaaggtgggctgttacaattctattaatcttggttttggtttaagggttttgtaagtcggtattactggcattgtttcagaaccaataaaaggtaggacctgatatatctcttgcttatatcattcctatttgggcatagTT #### Vps13a_ID4058_65 --> 2 - 0 Original Alignment gtGGGCTAGCTGGTGCTGCC-TCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtgaggaaaaggttttatctgataagtttttttcttttttgaaggtGGGCTAGCTAGTGCTGCCCTCTAAACTGACTAGCGCTATGTCGAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGAAAAGAAGCAATGAATAAGCGGCCAGCTGGACTAAGAGAGGGCATCACCCGAGGAGGGAAAGGTTTAGTCTCTgtaaggcctcaccgtgtcttggattacatagaaggactgtttcattcata Alignment from CESAR gtGGGCTAGCTGGTGCTGCC-TCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtgaggaaaaggttttatctgataagtttttttcttttttgaaggtGGGCTAGCTAGTGCTGCCCTCTAAACTGACTAGCGCTATGTCGAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGAAAAGAAGCAATGAATAAGCGGCCAGCTGGACTAAGAGAGGGCATCACCCGAGGAGGGAAAGGTTTAGTCTCTgtaaggcctcaccgtgtcttggattacatagaaggactgtttcattcata Alignment from Spaln_aa2Genome GTGGGCTAGCTGGTGCTGCC-TCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtgaggaaaaggttttatctgataagtttttttcttttttgaagGTGGGCTAGCTAGTGCTGCCcTCTAAACTGACTAGCGCTATGTCGAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGAAAAGAAGCAATGAATAAGCGGCCAGCTGGACTAAGAGAGGGCATCACCCGAGGAGGGAAAGGTTTAGTCTCTgtaaggcctcaccgtgtcttggattacatagaaggactgtttcattcata Alignment from Spaln_nt2Genome GTGGGCTAGCTGGTGCTGCC-TCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtgaggaaaaggttttatctgataagtttttttcttttttgaagGTGGGCTAGCTAGTGCTGCCCTCTAAACTGACTAGCGCTATGTCGAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGAAAAGAAGCAATGAATAAGCGGCCAGCTGGACTAAGAGAGGGCATCACCCGAGGAGGGAAAGGTTTAGTCTCTgtaaggcctcaccgtgtcttggattacatagaaggactgtttcattcata Alignment from Pairagon GTGGGCTAGCTGGTGCTG-CCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtgaggaaaaggttttatctgataagtttttttcttttttgaagGTGGGCTAGCTAGTGCTGCCCTCTAAACTGACTAGCGCTATGTCGAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGAAAAGAAGCAATGAATAAGCGGCCAGCTGGACTAAGAGAGGGCATCACCCGAGGAGGGAAAGGTTTAGTCTCTgtaaggcctcaccgtgtcttggattacatagaaggactgtttcattcata Alignment from Exonerate_protein2genome GTGGGCTAGCTGGTGCTGCC-TCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtgaggaaaaggttttatctgataagtttttttcttttttgaagGTGGGCTAGCTAGTGCTGCCCTCTAAACTGACTAGCGCTATGTCGAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGAAAAGAAGCAATGAATAAGCGGCCAGCTGGACTAAGAGAGGGCATCACCCGAGGAGGGAAAGGTTTAGTCTCTgtaaggcctcaccgtgtcttggattacatagaaggactgtttcattcata Alignment from Exonerate_coding2genome acaccagtgaggaaaaggttttatctgataagtttttttcttttttgaaggtgggctagctagtgctgccctctaaactgactagcgctatgtcgaaaggagtagcagccatgaccatggatgaagactaccagcagaaaagaaaagaagcaatgaataagcggccagctggactaagagagggcatcacccgaggagggaaaggtttagtctctgtaaggcctcaccgtgtcttggattacatagaaggactgtttcattcata Alignment from GeneWise GTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtgaggaaaaggttttatctgataagtttttttcttttttgaaggtgggctagctagTGCTGCCCTCTAAACTGACTAGCGCTATGTCGAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGAAAAGAAGCAATGAATAAGCGGCCAGCTGGACTAAGAGAGGGCATCACCCGAGGAGGGAAAGGTTTAGTCTCTgtaaggcctcaccgtgtcttggattacatagaaggactgtttcattcata #### Vps13a_ID4059_64 --> 0 - 1 Original Alignment GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGA-TTGAAAGCACTAGTTGGTGGAGCCGTTg gacagtggtgtcacctcagattttcatcctctcgcttctcccacctctagGGGGCTATCCAAGGTCCTGAGGAATTTGTAGCAGGAATGGCATTAGGACTTAAAAGCACTGATTGGTGGAGCTGTTggtgagtgtaacaggattagtgatgcaagtatcaagtaacaccagtgagga Alignment from CESAR GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGA-TTGAAAGCACTAGTTGGTGGAGCCGTTg gacagtggtgtcacctcagattttcatcctctcgcttctcccacctctagGGGGCTATCCAAGGTCCTGAGGAATTTGTAGCAGGAATGGCATTAGGACTTAAAAGCACTGATTGGTGGAGCTGTTggtgagtgtaacaggattagtgatgcaagtatcaagtaacaccagtgagga Alignment from Spaln_aa2Genome GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGA-TTGAAAGCACTAGTTGGTGGAGCCGTTG gacagtggtgtcacctcagattttcatcctctcgcttctcccacctctagGGGGCTATCCAAGGTCCTGAGGAATTTGTAGCAGGAATGGCATTAGGAcTTAAAAGCACTGATTGGTGGAGCTGTTGgtgagtgtaacaggattagtgatgcaagtatcaagtaacaccagtgagga Alignment from Spaln_nt2Genome GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGAT-TGAAAGCACTAGTTGGTGGAGCCGTTG gacagtggtgtcacctcagattttcatcctctcgcttctcccacctctagGGGGCTATCCAAGGTCCTGAGGAATTTGTAGCAGGAATGGCATTAGGACTTAAAAGCACTGATTGGTGGAGCTGTTGgtgagtgtaacaggattagtgatgcaagtatcaagtaacaccagtgagga Alignment from Pairagon GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGA-TTGAAAGCACTAGTTGGTGGAGCCGTTG gacagtggtgtcacctcagattttcatcctctcgcttctcccacctctagGGGGCTATCCAAGGTCCTGAGGAATTTGTAGCAGGAATGGCATTAGGACTTAAAAGCACTGATTGGTGGAGCTGTTGgtgagtgtaacaggattagtgatgcaagtatcaagtaacaccagtgagga Alignment from Exonerate_protein2genome GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGA-TTGAAAGCACTAGTTGGTGGAGCCGTTG gacagtggtgtcacctcagattttcatcctctcgcttctcccacctctagGGGGCTATCCAAGGTCCTGAGGAATTTGTAGCAGGAATGGCATTAGGACTTAAAAGCACTGATTGGTGGAGCTGTTGgtgagtgtaacaggattagtgatgcaagtatcaagtaacaccagtgagga Alignment from Exonerate_coding2genome gacagtggtgtcacctcagattttcatcctctcgcttctcccacctctagggggctatccaaggtcctgaggaatttgtagcaggaatggcattaggacttaaaagcactgattggtggagctgttggtgagtgtaacaggattagtgatgcaagtatcaagtaacaccagtgagga Alignment from GeneWise GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAA-GCACTAGTTGGTGGAGCCGTTG gacagtggtgtcacctcagattttcatcctctcgcttctcccacctctagGGGGCTATCCAAGGTCCTGAGGAATTTGTAGCAGGAATGGCATTAGGACTTAAAAGCACTGATTGGTGGAGCTGTTGgtgagtgtaacaggattagtgatgcaagtatcaagtaacaccagtgagga #### Vps13a_ID4068_55 --> 1 - 0 Original Alignment tTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAG-CACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcaagtattgccctttttatccccctacagtACTGATGTGGTCTGGGAGGCAAAGCCAAAGGAGAAGACCAGGTGGAAACCCATG---ATCAAGCCACACAGTTAAGTTAGAGAAGGGGTTTAGGGCATACATGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtatgctctatcttgtgctgcttgtgtacaatacttgagtaatgatcttc Alignment from CESAR tTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAG-CACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcaagtattgccctttttatccccctacagtACTGATGTGGTCTGGGAGGCAAAGCCAAAGGAGAAGACCAGGTGGAAACCCATG---ATCAAGCCACACAGTTAAGTTAGAGAAGGGGTTTAGGGCATACATGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtatgctctatcttgtgctgcttgtgtacaatacttgagtaatgatcttc Alignment from Spaln_aa2Genome TTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAG-CACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcaagtattgccctttttatccccctacagTACTGATGTGGTCTGGGAGGCAAAGCCAAAGGAGAAGACCAGGTGGAAACCCATG---ATCAAGcCACACAGTTAAGTTAGAGAAGGGGTTTAGGGCATACATGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtatgctctatcttgtgctgcttgtgtacaatacttgagtaatgatcttc Alignment from Spaln_nt2Genome TTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGC-ACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcaagtattgccctttttatccccctacagTACTGATGTGGTCTGGGAGGCAAAGCCAAAGGAGAAGACCAGGTGGAAACCCATGA---TCAAGCCACACAGTTAAGTTAGAGAAGGGGTTTAGGGCATACATGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtatgctctatcttgtgctgcttgtgtacaatacttgagtaatgatcttc Alignment from Pairagon TTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAG-CACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcaagtattgccctttttatccccctacagTACTGATGTGGTCTGGGAGGCAAAGCCAAAGGAGAAGACCAGGTGGAAACCCATGA---TCAAGCCACACAGTTAAGTTAGAGAAGGGGTTTAGGGCATACATGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtatgctctatcttgtgctgcttgtgtacaatacttgagtaatgatcttc Alignment from Exonerate_protein2genome TTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAG-CACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcaagtattgccctttttatccccctacagTACTGATGTGGTCTGGGAGGCAAAGCCAAAGGAGAAGACCAGGTGGAAACCCATG---ATCAAGCCACACAGTTAAGTTAGAGAAGGGGTTTAGGGCATACATGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtatgctctatcttgtgctgcttgtgtacaatacttgagtaatgatcttc Alignment from Exonerate_coding2genome cacctgtcaggattttctgtgcaagtattgccctttttatccccctacagtactgatgtggtctgggaggcaaagccaaaggagaagaccaggtggaaacccatgatcaagccacacagttaagttagagaaggggtttagggcatacatggaggcctcaccattggaggacaaggtggtggagttggacaacatcccagtatgctctatcttgtgctgcttgtgtacaatacttgagtaatgatcttc Alignment from GeneWise TTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcaagtattgccctttttatccccctacagTACTGATGTGGTCTGGGAGGCAAAGCCAAAGGAGAAGACCAGGTGGAAACCCATGA--TCAAGCCACACAGTTAAGTTAGAGAAGGGGTTTAGGGCATACATGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtatgctctatcttgtgctgcttgtgtacaatacttgagtaatgatcttc #### Vps13a_ID4093_30 --> 2 - 1 Original Alignment ctTTAAAGCTACCCACGAATGAA-GATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAg aggtcatttgtaaatgatctctggtacctaggatatttccctccctatagcaCTAAAGGTACCTATAAATGAACGACATTATTACATTGCAGCTTGTGGCAGAATTATCATGTTTAAAAATTCTCATCCAGGATCAGAAACAGAATGTATCAGAAATTAAAATCGAAggtgagtataaatatttcctgtttaaggataaacaaaattcaaaaggcagc Alignment from CESAR ctTTAAAGCTACCCACGAATGAA-GATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAg aggtcatttgtaaatgatctctggtacctaggatatttccctccctatagcaCTAAAGGTACCTATAAATGAACGACATTATTACATTGCAGCTTGTGGCAGAATTATCATGTTTAAAAATTCTCATCCAGGATCAGAAACAGAATGTATCAGAAATTAAAATCGAAggtgagtataaatatttcctgtttaaggataaacaaaattcaaaaggcagc Alignment from Spaln_aa2Genome CTTTAAAGCTACCCACGAATGAA-GATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG aggtcatttgtaaatgatctctggtacctaggatatttccctccctatagCACTAAAGGTACCTATAAATGAAcGACATTATTACATTGCAGCTTGTGGCAGAATTATCATGTTTAAAAATTCTCATCCAGGATCAGAAACAGAATGTATCAGAAATTAAAATCGAAGgtgagtataaatatttcctgtttaaggataaacaaaattcaaaaggcagc Alignment from Spaln_nt2Genome CTTTAAAGCTACCCACGAATGAA-GATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG aggtcatttgtaaatgatctctggtacctaggatatttccctccctatagCACTAAAGGTACCTATAAATGAACGACATTATTACATTGCAGCTTGTGGCAGAATTATCATGTTTAAAAATTCTCATCCAGGATCAGAAACAGAATGTATCAGAAATTAAAATCGAAGgtgagtataaatatttcctgtttaaggataaacaaaattcaaaaggcagc Alignment from Pairagon CTTTAAAGCTACCCACGAATGAA-GATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG aggtcatttgtaaatgatctctggtacctaggatatttccctccctatagCACTAAAGGTACCTATAAATGAACGACATTATTACATTGCAGCTTGTGGCAGAATTATCATGTTTAAAAATTCTCATCCAGGATCAGAAACAGAATGTATCAGAAATTAAAATCGAAGgtgagtataaatatttcctgtttaaggataaacaaaattcaaaaggcagc Alignment from Exonerate_protein2genome CTTTAAAGCTACCCACGAATGAA-GATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG aggtcatttgtaaatgatctctggtacctaggatatttccctccctatagCACTAAAGGTACCTATAAATGAACGACATTATTACATTGCAGCTTGTGGCAGAATTATCATGTTTAAAAATTCTCATCCAGGATCAGAAACAGAATGTATCAGAAATTAAAATCGAAGgtgagtataaatatttcctgtttaaggataaacaaaattcaaaaggcagc Alignment from Exonerate_coding2genome CTTTAAAGCTACCCACGAATGAA-GATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG aggtcatttgtaaatgatctctggtacctaggatatttccctccctatagCACTAAAGGTACCTATAAATGAACGACATTATTACATTGCAGCTTGTGGCAGAATTATCATGTTTAAAAATTCTCATCCAGGATCAGAAACAGAATGTATCAGAAATTAAAATCGAAGgtgagtataaatatttcctgtttaaggataaacaaaattcaaaaggcagc Alignment from GeneWise CTTTAAAGCTACCCACGAAT-GAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG aggtcatttgtaaatgatctctggtacctaggatatttccctccctatagCACTAAAGGTACCTATAAATGAACGACATTATTACATTGCAGCTTGTGGCAGAATTATCATGTTTAAAAATTCTCATCCAGGATCAGAAACAGAATGTATCAGAAATTAAAATCGAAGgtgagtataaatatttcctgtttaaggataaacaaaattcaaaaggcagc #### Vps13a_ID4109_14 --> 0 - 0 Original Alignment GAGTTGGAGAAAACT-TTGGATGTTTTTAATATAACCATAGCTAGACAACAGGCAGAAGTTGAG ctaatattaggagggttttatctatagactgaccacttcgtgtgtttcagGAGTTGGAGAAAACTCTTGGATGTTTTGAACATGCCTATAAGTAGACAGCAAGCAGAGGTTGAAgtgagtccactctgtcatttaaatgatcatgagccattttatttcttctc Alignment from CESAR GAGTTGGAGAAAACT-TTGGATGTTTTTAATATAACCATAGCTAGACAACAGGCAGAAGTTGAG ctaatattaggagggttttatctatagactgaccacttcgtgtgtttcagGAGTTGGAGAAAACTCTTGGATGTTTTGAACATGCCTATAAGTAGACAGCAAGCAGAGGTTGAAgtgagtccactctgtcatttaaatgatcatgagccattttatttcttctc Alignment from Spaln_aa2Genome GAGTTGGAGAAAACT-TTGGATGTTTTTAATATAACCATAGCTAGACAACAGGCAGAAGTTGAG ctaatattaggagggttttatctatagactgaccacttcgtgtgtttcagGAGTTGGAGAAAACTcTTGGATGTTTTGAACATGCCTATAAGTAGACAGCAAGCAGAGGTTGAAgtgagtccactctgtcatttaaatgatcatgagccattttatttcttctc Alignment from Spaln_nt2Genome GAGTTGGAGAAAACT-TTGGATGTTTTTAATATAACCATAGCTAGACAACAGGCAGAAGTTGAG ctaatattaggagggttttatctatagactgaccacttcgtgtgtttcagGAGTTGGAGAAAACTCTTGGATGTTTTGAACATGCCTATAAGTAGACAGCAAGCAGAGGTTGAAgtgagtccactctgtcatttaaatgatcatgagccattttatttcttctc Alignment from Pairagon GAGTTGGAGAAAACT-TTGGATGTTTTTAATATAACCATAGCTAGACAACAGGCAGAAGTTGAG ctaatattaggagggttttatctatagactgaccacttcgtgtgtttcagGAGTTGGAGAAAACTCTTGGATGTTTTGAACATGCCTATAAGTAGACAGCAAGCAGAGGTTGAAgtgagtccactctgtcatttaaatgatcatgagccattttatttcttctc Alignment from Exonerate_protein2genome GAGTTGGAGAAAACT-TTGGATGTTTTTAATATAACCATAGCTAGACAACAGGCAGAAGTTGAG ctaatattaggagggttttatctatagactgaccacttcgtgtgtttcagGAGTTGGAGAAAACTCTTGGATGTTTTGAACATGCCTATAAGTAGACAGCAAGCAGAGGTTGAAgtgagtccactctgtcatttaaatgatcatgagccattttatttcttctc Alignment from Exonerate_coding2genome ctaatattaggagggttttatctatagactgaccacttcgtgtgtttcaggagttggagaaaactcttggatgttttgaacatgcctataagtagacagcaagcagaggttgaagtgagtccactctgtcatttaaatgatcatgagccattttatttcttctc Alignment from GeneWise ctaatattaggagggttttatctatagactgaccacttcgtgtgtttcaggagttggagaaaactcttggatgttttgaacatgcctataagtagacagcaagcagaggttgaagtgagtccactctgtcatttaaatgatcatgagccattttatttcttctc #### Vps37c_ID2983_3 --> 2 - 0 Original Alignment agAAATTTTCCTCGGCACTG-CAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG tttgttatcagatttaattaaggcaatgcactctgttctctgtcccccagagAAATTTTCCTCAGCCCTGCCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGTATGAAGATTGAGGAGGACTCAGAGgtaggtcaagcattgctccttgatttggcttattccaaactgtactgtct Alignment from CESAR agAAATTTTCCTCGGCACTG-CAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG tttgttatcagatttaattaaggcaatgcactctgttctctgtcccccagagAAATTTTCCTCAGCCCTGCCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGTATGAAGATTGAGGAGGACTCAGAGgtaggtcaagcattgctccttgatttggcttattccaaactgtactgtct Alignment from Spaln_aa2Genome AGAAATTTTCCTCGGCACTG-CAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG tttgttatcagatttaattaaggcaatgcactctgttctctgtcccccagAGAAATTTTCCTCAGCCCTGcCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGTATGAAGATTGAGGAGGACTCAGAGgtaggtcaagcattgctccttgatttggcttattccaaactgtactgtct Alignment from Spaln_nt2Genome AGAAATTTTCCTCGGCACTGC-AGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG tttgttatcagatttaattaaggcaatgcactctgttctctgtcccccagAGAAATTTTCCTCAGCCCTGCCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGTATGAAGATTGAGGAGGACTCAGAGgtaggtcaagcattgctccttgatttggcttattccaaactgtactgtct Alignment from Pairagon AGAAATTTTCCTCGGCACTG-CAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG tttgttatcagatttaattaaggcaatgcactctgttctctgtcccccagAGAAATTTTCCTCAGCCCTGCCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGTATGAAGATTGAGGAGGACTCAGAGgtaggtcaagcattgctccttgatttggcttattccaaactgtactgtct Alignment from Exonerate_protein2genome AGAAATTTTCCTCGGCACTG-CAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG tttgttatcagatttaattaaggcaatgcactctgttctctgtcccccagAGAAATTTTCCTCAGCCCTGCCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGTATGAAGATTGAGGAGGACTCAGAGgtaggtcaagcattgctccttgatttggcttattccaaactgtactgtct Alignment from Exonerate_coding2genome AGAAATTTTCCTCGGCACTG-CAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG tttgttatcagatttaattaaggcaatgcactctgttctctgtcccccagAGAAATTTTCCTCAGCCCTGCCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGTATGAAGATTGAGGAGGACTCAGAGgtaggtcaagcattgctccttgatttggcttattccaaactgtactgtct Alignment from GeneWise GCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG tttgttatcagatttaattaaggcaatgcactctgttctctgtcccccagagaaattttcctcagCCCTGCCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGTATGAAGATTGAGGAGGACTCAGAGgtaggtcaagcattgctccttgatttggcttattccaaactgtactgtct #### Vwce_ID2964_18 --> 2 - 0 Original Alignment acTGTAACTTCGAAGGGAGAAAGGTAGTG-AATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG actgcctcgcagactcccctgcccttgctcttttgcttcactctggacagacTGTAATTTTGAAGGGAGAAAGGTAGTCCAATGGTCAGGTTTTCACCTTAGATGATGAGCCCTGTACCCGGTGCATCTGCCAGgtaaatgggagagggaacccggagctaacagtttgccctcatggacttac Alignment from CESAR acTGTAACTTCGAAGGGAGAAAGGTAGTG-AATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG actgcctcgcagactcccctgcccttgctcttttgcttcactctggacagacTGTAATTTTGAAGGGAGAAAGGTAGTCCAATGGTCAGGTTTTCACCTTAGATGATGAGCCCTGTACCCGGTGCATCTGCCAGgtaaatgggagagggaacccggagctaacagtttgccctcatggacttac Alignment from Spaln_aa2Genome ACTGTAACTTCGAAGGGAGAAAGGTAGTG-AATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG actgcctcgcagactcccctgcccttgctcttttgcttcactctggacagACTGTAATTTTGAAGGGAGAAAGGTAGTCcAATGGTCAGGTTTTCACCTTAGATGATGAGCCCTGTACCCGGTGCATCTGCCAGgtaaatgggagagggaacccggagctaacagtttgccctcatggacttac Alignment from Spaln_nt2Genome ACTGTAACTTCGAAGGGAGAAAGGTAGTG-AATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG actgcctcgcagactcccctgcccttgctcttttgcttcactctggacagACTGTAATTTTGAAGGGAGAAAGGTAGTCCAATGGTCAGGTTTTCACCTTAGATGATGAGCCCTGTACCCGGTGCATCTGCCAGgtaaatgggagagggaacccggagctaacagtttgccctcatggacttac Alignment from Pairagon ACTGTAACTTCGAAGGGAGAAAGGTAGT-GAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG actgcctcgcagactcccctgcccttgctcttttgcttcactctggacagACTGTAATTTTGAAGGGAGAAAGGTAGTCCAATGGTCAGGTTTTCACCTTAGATGATGAGCCCTGTACCCGGTGCATCTGCCAGgtaaatgggagagggaacccggagctaacagtttgccctcatggacttac Alignment from Exonerate_protein2genome ACTGTAACTTCGAAGGGAGAAAGGTAGTG-AATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG actgcctcgcagactcccctgcccttgctcttttgcttcactctggacagACTGTAATTTTGAAGGGAGAAAGGTAGTCCAATGGTCAGGTTTTCACCTTAGATGATGAGCCCTGTACCCGGTGCATCTGCCAGgtaaatgggagagggaacccggagctaacagtttgccctcatggacttac Alignment from Exonerate_coding2genome actgcctcgcagactcccctgcccttgctcttttgcttcactctggacagactgtaattttgaagggagaaaggtagtccaatggtcaggttttcaccttagatgatgagccctgtacccggtgcatctgccaggtaaatgggagagggaacccggagctaacagtttgccctcatggacttac Alignment from GeneWise ACTGTAACTTCGAAGGGAGAAAGGTA-GTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG actgcctcgcagactcccctgcccttgctcttttgcttcactctggacagACTGTAATTTTGAAGGGAGAAAGGTAGTCCAATGGTCAGGTTTTCACCTTAGATGATGAGCCCTGTACCCGGTGCATCTGCCAGgtaaatgggagagggaacccggagctaacagtttgccctcatggacttac #### Wdr74_ID2313_3 --> 0 - 2 Original Alignment ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGC-ACGTTCCGAGGTCTCGCCCAGGCGGATgg ctctctcaccctactcagctcaacatgataacacgtgcgttcttttaaagGTACTAGTGGGCTGTGCGGACAGAACTGTAAAGTATTTTAATGCAAAGGAAGGCACATTCCTAAGACAGAGATACTGTCCTGGTGGGGAAGGGCACATTCCGAGGTCTTACCCAAGTGGATgggtgagtgtcaatgatagtcttgcctggaatgtctaaagcgtggtgtactc Alignment from CESAR ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAA-GGCACGTTCCGAGGTCTCGCCCAGGCGGATgg ctctctcaccctactcagctcaacatgataacacgtgcgttcttttaaagGTACTAGTGGGCTGTGCGGACAGAACTGTAAAGTATTTTAATGCAAAGGAAGGCACATTCCTAAGACAGAGATACTGTCCTGGTGGGGAAGGGCACATTCCGAGGTCTTACCCAAGTGGATgggtgagtgtcaatgatagtcttgcctggaatgtctaaagcgtggtgtactc Alignment from Spaln_aa2Genome ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGC-ACGTTCCGAGGTCTCGCCCAGGCGGATGG ctctctcaccctactcagctcaacatgataacacgtgcgttcttttaaagGTACTAGTGGGCTGTGCGGACAGAACTGTAAAGTATTTTAATGCAAAGGAAGGCACATTCCTAAGACAGAGATACTGTCCTGGTGGGGAAGGGcACATTCCGAGGTCTTACCCAAGTGGATGGgtgagtgtcaatgatagtcttgcctggaatgtctaaagcgtggtgtactc Alignment from Spaln_nt2Genome ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGG-CACGTTCCGAGGTCTCGCCCAGGCGGATGG ctctctcaccctactcagctcaacatgataacacgtgcgttcttttaaagGTACTAGTGGGCTGTGCGGACAGAACTGTAAAGTATTTTAATGCAAAGGAAGGCACATTCCTAAGACAGAGATACTGTCCTGGTGGGGAAGGGCACATTCCGAGGTCTTACCCAAGTGGATGGgtgagtgtcaatgatagtcttgcctggaatgtctaaagcgtggtgtactc Alignment from Pairagon ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAA-GGCACGTTCCGAGGTCTCGCCCAGGCGGATGG ctctctcaccctactcagctcaacatgataacacgtgcgttcttttaaagGTACTAGTGGGCTGTGCGGACAGAACTGTAAAGTATTTTAATGCAAAGGAAGGCACATTCCTAAGACAGAGATACTGTCCTGGTGGGGAAGGGCACATTCCGAGGTCTTACCCAAGTGGATGGgtgagtgtcaatgatagtcttgcctggaatgtctaaagcgtggtgtactc Alignment from Exonerate_protein2genome ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAA-GGCACGTTCCGAGGTCTCGCCCAGGCGGATGG ctctctcaccctactcagctcaacatgataacacgtgcgttcttttaaagGTACTAGTGGGCTGTGCGGACAGAACTGTAAAGTATTTTAATGCAAAGGAAGGCACATTCCTAAGACAGAGATACTGTCCTGGTGGGGAAGGGCACATTCCGAGGTCTTACCCAAGTGGATGGgtgagtgtcaatgatagtcttgcctggaatgtctaaagcgtggtgtactc Alignment from Exonerate_coding2genome ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAA-GGCACGTTCCGAGGTCTCGCCCAGGCGGATGG ctctctcaccctactcagctcaacatgataacacgtgcgttcttttaaagGTACTAGTGGGCTGTGCGGACAGAACTGTAAAGTATTTTAATGCAAAGGAAGGCACATTCCTAAGACAGAGATACTGTCCTGGTGGGGAAGGGCACATTCCGAGGTCTTACCCAAGTGGATGGgtgagtgtcaatgatagtcttgcctggaatgtctaaagcgtggtgtactc Alignment from GeneWise ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGC-ACGTTCCGAGGTCTCGCCCAGGCGGATGG ctctctcaccctactcagctcaacatgataacacgtgcgttcttttaaagGTACTAGTGGGCTGTGCGGACAGAACTGTAAAGTATTTTAATGCAAAGGAAGGCACATTCCTAAGACAGAGATACTGTCCTGGTGGGGAAGGGCACATTCCGAGGTCTTACCCAAGTGGATGGgtgagtgtcaatgatagtcttgcctggaatgtctaaagcgtggtgtactc #### Wdr74_ID2318_8 --> 1 - 1 Original Alignment tTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATT-GATTTTCGGCAAg taaggcacttcaggagccacataaatcctcacacacaaattttattttagtTCTGTCATTGTGGGGAATACTCATGGTCAGCTGGCAGAGATTCGACTTTCGACAAggtgagagtgccattgtgttcttgagaatgaatgtattctgccaaatgccc Alignment from CESAR tTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATT-GATTTTCGGCAAg taaggcacttcaggagccacataaatcctcacacacaaattttattttagtTCTGTCATTGTGGGGAATACTCATGGTCAGCTGGCAGAGATTCGACTTTCGACAAggtgagagtgccattgtgttcttgagaatgaatgtattctgccaaattttt Alignment from Spaln_aa2Genome TTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATT-GATTTTCGGCAAG taaggcacttcaggagccacataaatcctcacacacaaattttattttagTTCTGTCATTGTGGGGAATACTCATGGTCAGCTGGCAGAGATTcGACTTTCGACAAGgtgagagtgccattgtgttcttgagaatgaatgtattctgccaaatgccc Alignment from Spaln_nt2Genome TTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATT-GATTTTCGGCAAG taaggcacttcaggagccacataaatcctcacacacaaattttattttagTTCTGTCATTGTGGGGAATACTCATGGTCAGCTGGCAGAGATTCGACTTTCGACAAGgtgagagtgccattgtgttcttgagaatgaatgtattctgccaaatgccc Alignment from Pairagon TTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATT-GATTTTCGGCAAG taaggcacttcaggagccacataaatcctcacacacaaattttattttagTTCTGTCATTGTGGGGAATACTCATGGTCAGCTGGCAGAGATTCGACTTTCGACAAGgtgagagtgccattgtgttcttgagaatgaatgtattctgccaaatgccc Alignment from Exonerate_protein2genome TTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATT-GATTTTCGGCAAG taaggcacttcaggagccacataaatcctcacacacaaattttattttagTTCTGTCATTGTGGGGAATACTCATGGTCAGCTGGCAGAGATTCGACTTTCGACAAGgtgagagtgccattgtgttcttgagaatgaatgtattctgccaaatgccc Alignment from Exonerate_coding2genome TTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATT-GATTTTCGGCAAG taaggcacttcaggagccacataaatcctcacacacaaattttattttagTTCTGTCATTGTGGGGAATACTCATGGTCAGCTGGCAGAGATTCGACTTTCGACAAGgtgagagtgccattgtgttcttgagaatgaatgtattctgccaaatgccc Alignment from GeneWise TTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAGG taaggcacttcaggagccacataaatcctcacacacaaattttattttagTTCTGTCATTGTGGGGAATACTCATGGTCAGCTGGCAGAGATTCGACTTTCGACAAGgtgagagtgccattgtgttcttgagaatgaatgtattctgccaaatgccc #### Xpnpep1_ID11139_16 --> 2 - 1 Original Alignment gcCACCTTCTGGACTCCTTTGCCCGGTCAGCCTTGTGGGATTCTGGTCTGGATTACCTGCATGGAACAGGACATGGCGTTGGGTCCTTTTTGAAT-GTTCACGAGGGGCCCTGTGGCATC---AGTTATAAAACATTCTCCGATGAG------------CCCTTGGAAGCGGGCATGATCGTCACTGATg aaacctacagttcctcagcatctcaattgccccttcttatcttacaacaggaCATCTCCTGGACTCATTTGCCTGGTCTGCCTTGTGGGACTCTGGACTTGACTTTCTACATGGAACAGGGCATGGAATTGGACCCTTTTTGAATCGTTCATGAGGGGCCTTGTGGCATAGTTAGTTATAAAACTCTCTCAGACAAGCCTTTAGAAGTGACTTTAGAAACA---------ATTACTGATggtaacacactgtatacttttgctgttgtgggtggaagcctcctttaattc Alignment from CESAR gcCACCTTCTGGACTCCTTTGCCCGGTCAGCCTTGTGGGATTCTGGTCTGGATTACCTGCATGGAACAGGACATGGCGTTGGGTCCTTTTTGAAT-GTTCACGAGGGGCCCTGTGGCATC---AGTTATAAAACATTCTCCGATGAGCCCTTGGAAGCGGGCATG---ATCGTCACTGATg aaacctacagttcctcagcatctcaattgccccttcttatcttacaacaggaCATCTCCTGGACTCATTTGCCTGGTCTGCCTTGTGGGACTCTGGACTTGACTTTCTACATGGAACAGGGCATGGAATTGGACCCTTTTTGAATCGTTCATGAGGGGCCTTGTGGCATAGTTAGTTATAAAACTCTCTCAGACAAGCCTTTAGAAGTGACTTTAGAAACAATTACTGATggtaacacactgtatacttttgctgttgtgggtggaagcctcctttaattc Alignment from Spaln_aa2Genome GCCACCTTCTGGACTCCTTTGCCCGGTCAGCCTTGTGGGATTCTGGTCTGGATTACCTGCATGGAACAGGACATGGCGTTGGGTCCTTTTTGAAT-GTTCACGAGGGGCCCTGTGGCATC---AGTTATAAAACATTCTCCGATGAGCCCTTGGAAGCGGGCATG---ATCGTCACTGATG aaacctacagttcctcagcatctcaattgccccttcttatcttacaacagGACATCTCCTGGACTCATTTGCCTGGTCTGCCTTGTGGGACTCTGGACTTGACTTTCTACATGGAACAGGGCATGGAATTGGACCCTTTTTGAATcGTTCATGAGGGGCCTTGTGGCATAGTTAGTTATAAAACTCTCTCAGACAAGCCTTTAGAAGTGACTTTAGAAACAATTACTGATGgtaacacactgtatacttttgctgttgtgggtggaagcctcctttaattc Alignment from Spaln_nt2Genome GCCACCTTCTGGACTCCTTTGCCCGGTCAGCCTTGTGGGATTCTGGTCTGGATTACCTGCATGGAACAGGACATGGCGTTGGGTCCTTTTTGAAT-GTTCACGAGGGGCCCTGTGGCATC---AGTTATAAAACATTCTCCGATGAGCCCTTGGAAGCGGGCATG---ATCGTCACTGATG aaacctacagttcctcagcatctcaattgccccttcttatcttacaacagGACATCTCCTGGACTCATTTGCCTGGTCTGCCTTGTGGGACTCTGGACTTGACTTTCTACATGGAACAGGGCATGGAATTGGACCCTTTTTGAATCGTTCATGAGGGGCCTTGTGGCATAGTTAGTTATAAAACTCTCTCAGACAAGCCTTTAGAAGTGACTTTAGAAACAATTACTGATGgtaacacactgtatacttttgctgttgtgggtggaagcctcctttaattc Alignment from Pairagon GCCACCTTCTGGACTCCTTTGCCCGGTCAGCCTTGTGGGATTCTGGTCTGGATTACCTGCATGGAACAGGACATGGCGTTGGGTCCTTTTTGAAT-GTTCACGAGGGGCCCTGTGGCA---TCAGTTATAAAACATTCTCCGATGAGCCCTTGGAA aaacctacagttcctcagcatctcaattgccccttcttatcttacaacagGACATCTCCTGGACTCATTTGCCTGGTCTGCCTTGTGGGACTCTGGACTTGACTTTCTACATGGAACAGGGCATGGAATTGGACCCTTTTTGAATCGTTCATGAGGGGCCTTGTGGCATAGTTAGTTATAAAACTCTCTCAGACAAGCCTTTAGAAgtgactttagaaacaattactgatggtaacacactgtatacttttgctgttgtgggtggaagcctcctttaattc Alignment from Exonerate_protein2genome GCCACCTTCTGGACTCCTTTGCCCGGTCAGCCTTGTGGGATTCTGGTCTGGATTACCTGCATGGAACAGGACATGGCGTTGGGTCCTTTTTGAAT-GTTCACGAGGGGCCCTGTGGCATC---AGTTATAAAACATTCTCCGATGAGCCCTTGGAAGCGGGCATG---ATCGTCACTGATG aaacctacagttcctcagcatctcaattgccccttcttatcttacaacagGACATCTCCTGGACTCATTTGCCTGGTCTGCCTTGTGGGACTCTGGACTTGACTTTCTACATGGAACAGGGCATGGAATTGGACCCTTTTTGAATCGTTCATGAGGGGCCTTGTGGCATAGTTAGTTATAAAACTCTCTCAGACAAGCCTTTAGAAGTGACTTTAGAAACAATTACTGATGgtaacacactgtatacttttgctgttgtgggtggaagcctcctttaattc Alignment from Exonerate_coding2genome GCCACCTTCTGGACTCCTTTGCCCGGTCAGCCTTGTGGGATTCTGGTCTGGATTACCTGCATGGAACAGGACATGGCGTTGGGTCCTTTTTGAAT-GTTCACGAGGGGCCCTGTGGCATC---AGTTATAAAACATTCTCCGATGAGCCCTTGGAAGCGGGCATG---ATCGTCACTGATG aaacctacagttcctcagcatctcaattgccccttcttatcttacaacagGACATCTCCTGGACTCATTTGCCTGGTCTGCCTTGTGGGACTCTGGACTTGACTTTCTACATGGAACAGGGCATGGAATTGGACCCTTTTTGAATCGTTCATGAGGGGCCTTGTGGCATAGTTAGTTATAAAACTCTCTCAGACAAGCCTTTAGAAGTGACTTTAGAAACAATTACTGATGgtaacacactgtatacttttgctgttgtgggtggaagcctcctttaattc Alignment from GeneWise GCCACCTTCTGGACTCCTTTGCCCGGTCAGCCTTGTGGGATTCTGGTCTGGATTACCTGCATGGAACAGGACATGGCGTTGGGTCCTTTTTGAAT-GTTCACGAGGGGCCCTGTGGCATC---AGTTATAAAACATTCTCCGATGAGCCCTTGGAAGCGGGCATG---ATCGTCACTGATG aaacctacagttcctcagcatctcaattgccccttcttatcttacaacagGACATCTCCTGGACTCATTTGCCTGGTCTGCCTTGTGGGACTCTGGACTTGACTTTCTACATGGAACAGGGCATGGAATTGGACCCTTTTTGAATCGTTCATGAGGGGCCTTGTGGCATAGTTAGTTATAAAACTCTCTCAGACAAGCCTTTAGAAGTGACTTTAGAAACAATTACTGATGgtaacacactgtatacttttgctgttgtgggtggaagcctcctttaattc #### Yif1a_ID832_4 --> 0 - 1 Original Alignment AACTGGAAAATGCAATACAGCCATGATGTG-CCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCa aaggcaaataactttattgctcatgctgtacatggctcatttctctccagAACTGGAAAATGCAGTATAGCCATGATGTGCCCTCTACCTCCTCGAAAAGATCTGAATACCCCTGACCTTTATATCCCAagtgagtgtttaccagacaagcgggaataggtctctgtgccagtgatgaat Alignment from CESAR AACTGGAAAATGCAATACAGCCATGATGTG-CCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCa aaggcaaataactttattgctcatgctgtacatggctcatttctctccagAACTGGAAAATGCAGTATAGCCATGATGTGCCCTCTACCTCCTCGAAAAGATCTGAATACCCCTGACCTTTATATCCCAagtgagtgtttaccagacaagcgggaataggtctctgtgccagtgatgaat Alignment from Spaln_aa2Genome AACTGGAAAATGCAATACAGCCATGATGTGCCT-CTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA aaggcaaataactttattgctcatgctgtacatggctcatttctctccagAACTGGAAAATGCAGTATAGCCATGATGTGCCCtCTACCTCCTCGAAAAGATCTGAATACCCCTGACCTTTATATCCCAAgtgagtgtttaccagacaagcgggaataggtctctgtgccagtgatgaat Alignment from Spaln_nt2Genome AACTGGAAAATGCAATACAGCCATGATGTGCC-TCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA aaggcaaataactttattgctcatgctgtacatggctcatttctctccagAACTGGAAAATGCAGTATAGCCATGATGTGCCCTCTACCTCCTCGAAAAGATCTGAATACCCCTGACCTTTATATCCCAAgtgagtgtttaccagacaagcgggaataggtctctgtgccagtgatgaat Alignment from Pairagon AACTGGAAAATGCAATACAGCCATGATGTG-CCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA aaggcaaataactttattgctcatgctgtacatggctcatttctctccagAACTGGAAAATGCAGTATAGCCATGATGTGCCCTCTACCTCCTCGAAAAGATCTGAATACCCCTGACCTTTATATCCCAAgtgagtgtttaccagacaagcgggaataggtctctgtgccagtgatgaat Alignment from Exonerate_protein2genome AACTGGAAAATGCAATACAGCCATGATGTG-CCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA aaggcaaataactttattgctcatgctgtacatggctcatttctctccagAACTGGAAAATGCAGTATAGCCATGATGTGCCCTCTACCTCCTCGAAAAGATCTGAATACCCCTGACCTTTATATCCCAAgtgagtgtttaccagacaagcgggaataggtctctgtgccagtgatgaat Alignment from Exonerate_coding2genome AACTGGAAAATGCAATACAGCCATGATGTG-CCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA aaggcaaataactttattgctcatgctgtacatggctcatttctctccagAACTGGAAAATGCAGTATAGCCATGATGTGCCCTCTACCTCCTCGAAAAGATCTGAATACCCCTGACCTTTATATCCCAAgtgagtgtttaccagacaagcgggaataggtctctgtgccagtgatgaat Alignment from GeneWise AACTGGAAAATGCAATACAGCCATGAT-GTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA aaggcaaataactttattgctcatgctgtacatggctcatttctctccagAACTGGAAAATGCAGTATAGCCATGATGTGCCCTCTACCTCCTCGAAAAGATCTGAATACCCCTGACCTTTATATCCCAAgtgagtgtttaccagacaagcgggaataggtctctgtgccagtgatgaat #### Yif1a_ID833_5 --> 2 - 2 Original Alignment ccATGGCCTTCATCACATACGTGCTGCTGGCTGGAATG-GCGCTAGGCATTCAGCAAag gtgggaggtcctctggtggggagacaacattgttcttttggcaattttagccATGGCTTTTGTCACAGATGTGCTAAGGGCTGGGATGCGCATTTGGCATTCAGCAGaggtagtgctccagcagctcttacctgatatttttttaagccaggttttcta Alignment from CESAR ccATGGCCTTCATCACATACGTGCTGCTGGCTGGAATG-GCGCTAGGCATTCAGCAAag gtgggaggtcctctggtggggagacaacattgttcttttggcaattttagccATGGCTTTTGTCACAGATGTGCTAAGGGCTGGGATGCGCATTTGGCATTCAGCAGaggtagtgctccagcagctcttacctgatatttttttaagccaggttttcta Alignment from Spaln_aa2Genome CCATGGCCTTCATCACATACGTGCTGCTGGCTGGAATG-GCGCTAGGCATTCAGCAAAG gtgggaggtcctctggtggggagacaacattgttcttttggcaattttagCCATGGCTTTTGTCACAGATGTGCTAAGGGCTGGGATGcGCATTTGGCATTCAGCAGAGgtagtgctccagcagctcttacctgatatttttttaagccaggttttcta Alignment from Spaln_nt2Genome CCATGGCCTTCATCACATACGTGCTGCTGGCTGGAATG-GCGCTAGGCATTCAGCAAAG gtgggaggtcctctggtggggagacaacattgttcttttggcaattttagCCATGGCTTTTGTCACAGATGTGCTAAGGGCTGGGATGCGCATTTGGCATTCAGCAGAGgtagtgctccagcagctcttacctgatatttttttaagccaggttttcta Alignment from Pairagon CCATGGCCTTCATCACATACGTGCTGCTGGCTGGAATG-GCGCTAGGCATTCAGCAAAG gtgggaggtcctctggtggggagacaacattgttcttttggcaattttagCCATGGCTTTTGTCACAGATGTGCTAAGGGCTGGGATGCGCATTTGGCATTCAGCAGAGgtagtgctccagcagctcttacctgatatttttttaagccaggttttcta Alignment from Exonerate_protein2genome CCATGGCCTTCATCACATACGTGCTGCTGGCTGGAATG-GCGCTAGGCATTCAGCAAAG gtgggaggtcctctggtggggagacaacattgttcttttggcaattttagCCATGGCTTTTGTCACAGATGTGCTAAGGGCTGGGATGCGCATTTGGCATTCAGCAGAGgtagtgctccagcagctcttacctgatatttttttaagccaggttttcta Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCATGGCCTTCATCACATACGTGCTGCTGGCTGGAATG-GCGCTAGGCATTCAGCAAAGG-- gtgggaggtcctctggtggggagacaacattgttcttttggcaattttagCCATGGCTTTTGTCACAGATGTGCTAAGGGCTGGGATGCGCATTTGGCATTCAGCAGAGGTAgtgctccagcagctcttacctgatatttttttaagccaggttttcta #### Zdhhc16_ID8345_2 --> 0 - 0 Original Alignment GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGG-CTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG aaccatggggtacacctactctgacaaccctgattctgtctctccttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTACTCCTTCGAACTTACTCAGTACCCCAACCTCTGCTGGCATTTTCTTTATAGCCACTGGAATCTCATTCTCATTGTCTCCCAATATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaattactccacagtgcaagtttcactaaagacaatgctttcttgctgt Alignment from CESAR GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGG-CTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG aaccatggggtacacctactctgacaaccctgattctgtctctccttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTACTCCTTCGAACTTACTCAGTACCCCAACCTCTGCTGGCATTTTCTTTATAGCCACTGGAATCTCATTCTCATTGTCTCCCAATATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaattactccacagtgcaagtttcactaaagacaatgctttcttgctgt Alignment from Spaln_aa2Genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGG-CTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG aaccatggggtacacctactctgacaaccctgattctgtctctccttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTACTCCTTCGAACTTACTCAGTACCCCAAcCTCTGCTGGCATTTTCTTTATAGCCACTGGAATCTCATTCTCATTGTCTCCCAATATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaattactccacagtgcaagtttcactaaagacaatgctttcttgctgt Alignment from Spaln_nt2Genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGC-TCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG aaccatggggtacacctactctgacaaccctgattctgtctctccttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTACTCCTTCGAACTTACTCAGTACCCCAACCTCTGCTGGCATTTTCTTTATAGCCACTGGAATCTCATTCTCATTGTCTCCCAATATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaattactccacagtgcaagtttcactaaagacaatgctttcttgctgt Alignment from Pairagon GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGG-CTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG aaccatggggtacacctactctgacaaccctgattctgtctctccttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTACTCCTTCGAACTTACTCAGTACCCCAACCTCTGCTGGCATTTTCTTTATAGCCACTGGAATCTCATTCTCATTGTCTCCCAATATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaattactccacagtgcaagtttcactaaagacaatgctttcttgctgt Alignment from Exonerate_protein2genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGG-CTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG aaccatggggtacacctactctgacaaccctgattctgtctctccttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTACTCCTTCGAACTTACTCAGTACCCCAACCTCTGCTGGCATTTTCTTTATAGCCACTGGAATCTCATTCTCATTGTCTCCCAATATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaattactccacagtgcaagtttcactaaagacaatgctttcttgctgt Alignment from Exonerate_coding2genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGG-CTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG aaccatggggtacacctactctgacaaccctgattctgtctctccttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTACTCCTTCGAACTTACTCAGTACCCCAACCTCTGCTGGCATTTTCTTTATAGCCACTGGAATCTCATTCTCATTGTCTCCCAATATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaattactccacagtgcaagtttcactaaagacaatgctttcttgctgt Alignment from GeneWise GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCA-CGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG aaccatggggtacacctactctgacaaccctgattctgtctctccttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTACTCCTTCGAACTTACTCAGTACCCCAACCTCTGCTGGCATTTTCTTTATAGCCACTGGAATCTCATTCTCATTGTCTCCCAATATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaattactccacagtgcaagtttcactaaagacaatgctttcttgctgt #### Zdhhc6_ID11620_9 --> 1 - 1 Original Alignment aTACTGGTTGTATGGAGACAAA-ATTCTTGATGATTCCTTCATAGAAg gagggggttctttatctagaaactaaaattggctttgcgttgtgtggcagaTACTGGTTGTATGGAGACAAACATTCTGGACGATTCTTTCAGAGAAggtaagttaccaagggagtatgataggttgtgattgggtgtaatgcatctt Alignment from CESAR aTACTGGTTGTATGGAGACAAA-ATTCTTGATGATTCCTTCATAGAAg gagggggttctttatctagaaactaaaattggctttgcgttgtgtggcagaTACTGGTTGTATGGAGACAAACATTCTGGACGATTCTTTCAGAGAAggtaagttaccaagggagtatgataggttgtgattgggtgtaatgcatctt Alignment from Spaln_aa2Genome ATACTGGTTGTATGGAGACAAA-ATTCTTGATGATTCCTTCATAGAAG gagggggttctttatctagaaactaaaattggctttgcgttgtgtggcagATACTGGTTGTATGGAGACAAAcATTCTGGACGATTCTTTCAGAGAAGgtaagttaccaagggagtatgataggttgtgattgggtgtaatgcatctt Alignment from Spaln_nt2Genome ATACTGGTTGTATGGAGACAAA-ATTCTTGATGATTCCTTCATAGAAG gagggggttctttatctagaaactaaaattggctttgcgttgtgtggcagATACTGGTTGTATGGAGACAAACATTCTGGACGATTCTTTCAGAGAAGgtaagttaccaagggagtatgataggttgtgattgggtgtaatgcatctt Alignment from Pairagon ATACTGGTTGTATGGAGACAAA-ATTCTTGATGATTCCTTCATAGAAG gagggggttctttatctagaaactaaaattggctttgcgttgtgtggcagATACTGGTTGTATGGAGACAAACATTCTGGACGATTCTTTCAGAGAAGgtaagttaccaagggagtatgataggttgtgattgggtgtaatgcatctt Alignment from Exonerate_protein2genome ATACTGGTTGTATGGAGACAAA-ATTCTTGATGATTCCTTCATAGAAG gagggggttctttatctagaaactaaaattggctttgcgttgtgtggcagATACTGGTTGTATGGAGACAAACATTCTGGACGATTCTTTCAGAGAAGgtaagttaccaagggagtatgataggttgtgattgggtgtaatgcatctt Alignment from Exonerate_coding2genome ATACTGGTTGTATGGAGACAAA-ATTCTTGATGATTCCTTCATAGAAG gagggggttctttatctagaaactaaaattggctttgcgttgtgtggcagATACTGGTTGTATGGAGACAAACATTCTGGACGATTCTTTCAGAGAAGgtaagttaccaagggagtatgataggttgtgattgggtgtaatgcatctt Alignment from GeneWise ATACTGGTTGTATGGAGACAAA-ATTCTTGATGATTCCTTCATAGAAG gagggggttctttatctagaaactaaaattggctttgcgttgtgtggcagATACTGGTTGTATGGAGACAAACATTCTGGACGATTCTTTCAGAGAAGgtaagttaccaagggagtatgataggttgtgattgggtgtaatgcatctt #### Zfp91_ID3462_4 --> 2 - 2 Original Alignment atGTTCCAGAAGAACATCAG-TCTCCCGGTGGCATTag atagaggttgaatttttggcagtgtatgatcccattccatttccttccagatGTTACTGAAGAGCAACGACACCCCTGGTGGGATCaggtaagtggttgcttgctatacccaatgtttcatattacagagtgttacat Alignment from CESAR atGTTCCAGAAGAACATCAG-TCTCCCGGTGGCATTag atagaggttgaatttttggcagtgtatgatcccattccatttccttccagatGTTACTGAAGAGCAACGACACCCCTGGTGGGATCaggtaagtggttgcttgctatacccaatgtttcatattacagagtgttacat Alignment from Spaln_aa2Genome atagaggttgaatttttggcagtgtatgatcccattccatttccttccagatgttactgaagagcaacgacacccctggtgggatcaggtaagtggttgcttgctatacccaatgtttcatattacagagtgttacat Alignment from Spaln_nt2Genome ATGTTCCAGAAGAACATC-AGTCTCCCGGTGGCATTAG atagaggttgaatttttggcagtgtatgatcccattccatttccttccagATGTTACTGAAGAGCAACGACACCCCTGGTGGGATCAGgtaagtggttgcttgctatacccaatgtttcatattacagagtgttacat Alignment from Pairagon ATGTTCCAGAAGAACATC-AGTCTCCCGGTGGCATTAG atagaggttgaatttttggcagtgtatgatcccattccatttccttccagATGTTACTGAAGAGCAACGACACCCCTGGTGGGATCAGgtaagtggttgcttgctatacccaatgtttcatattacagagtgttacat Alignment from Exonerate_protein2genome atagaggttgaatttttggcagtgtatgatcccattccatttccttccagatgttactgaagagcaacgacacccctggtgggatcaggtaagtggttgcttgctatacccaatgtttcatattacagagtgttacat Alignment from Exonerate_coding2genome atagaggttgaatttttggcagtgtatgatcccattccatttccttccagatgttactgaagagcaacgacacccctggtgggatcaggtaagtggttgcttgctatacccaatgtttcatattacagagtgttacat Alignment from GeneWise atagaggttgaatttttggcagtgtatgatcccattccatttccttccagatgttactgaagagcaacgacacccctggtgggatcaggtaagtggttgcttgctatacccaatgtttcatattacagagtgttacat #### Zfyve27_ID8429_11 --> 0 - 1 Original Alignment CGGAGCTGCAGCAAC-TGTGGGAACAGCTTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAg gtctatatggtccacaggtgacacccctggttttgtattttatgttttagCGAAGCTGCACTAACCTGTGCAAATAGCTTCTGCTCTCATTGCTGCTCATTCAAGGTACCCCGCTCCTCCATGGGTGCCACAagtgagtggaaaattgtggataggctcactgccacaaattatagtcagctc Alignment from CESAR CGGAGCTGCAGCAAC-TGTGGGAACAGCTTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAg gtctatatggtccacaggtgacacccctggttttgtattttatgttttagCGAAGCTGCACTAACCTGTGCAAATAGCTTCTGCTCTCATTGCTGCTCATTCAAGGTACCCCGCTCCTCCATGGGTGCCACAagtgagtggaaaattgtggataggctcactgccacaaattatagtcagctc Alignment from Spaln_aa2Genome GCTGCAGCAACTGTGGGAACAGCTTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG gtctatatggtccacaggtgacacccctggttttgtattttatgttttagcgaagCTGCACTAACCTGTGCAAATAGCTTCTGCTCTCATTGCTGCTCATTCAAGGTACCCCGCTCCTCCATGGGTGCCACAAgtgagtggaaaattgtggataggctcactgccacaaattatagtcagctc Alignment from Spaln_nt2Genome CGGAGCTGCAGCAAC-TGTGGGAACAGCTTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG gtctatatggtccacaggtgacacccctggttttgtattttatgttttagCGAAGCTGCACTAACCTGTGCAAATAGCTTCTGCTCTCATTGCTGCTCATTCAAGGTACCCCGCTCCTCCATGGGTGCCACAAgtgagtggaaaattgtggataggctcactgccacaaattatagtcagctc Alignment from Pairagon CGGAGCTGCAGCAA-CTGTGGGAACAGCTTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG gtctatatggtccacaggtgacacccctggttttgtattttatgttttagCGAAGCTGCACTAACCTGTGCAAATAGCTTCTGCTCTCATTGCTGCTCATTCAAGGTACCCCGCTCCTCCATGGGTGCCACAAgtgagtggaaaattgtggataggctcactgccacaaattatagtcagctc Alignment from Exonerate_protein2genome CGGAGCTGCAGCAAC-TGTGGGAACAGCTTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG gtctatatggtccacaggtgacacccctggttttgtattttatgttttagCGAAGCTGCACTAACCTGTGCAAATAGCTTCTGCTCTCATTGCTGCTCATTCAAGGTACCCCGCTCCTCCATGGGTGCCACAAgtgagtggaaaattgtggataggctcactgccacaaattatagtcagctc Alignment from Exonerate_coding2genome CGGAGCTGCAGCAAC-TGTGGGAACAGCTTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG gtctatatggtccacaggtgacacccctggttttgtattttatgttttagCGAAGCTGCACTAACCTGTGCAAATAGCTTCTGCTCTCATTGCTGCTCATTCAAGGTACCCCGCTCCTCCATGGGTGCCACAAgtgagtggaaaattgtggataggctcactgccacaaattatagtcagctc Alignment from GeneWise GCTGCAGCAACTGTGGGAACAGCTTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG gtctatatggtccacaggtgacacccctggttttgtattttatgttttagcgaagCTGCACTAACCTGTGCAAATAGCTTCTGCTCTCATTGCTGCTCATTCAAGGTACCCCGCTCCTCCATGGGTGCCACAAgtgagtggaaaattgtggataggctcactgccacaaattatagtcagctc ####