#### 1700055N04Rik_ID225_3 --> 0 - 0 Original Alignment TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTG-GACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG tttggaagctagagtcagcctaacttgttaaattctacctcttcttgcagTCAGGCCTCAAATCAGAAATGAGTGAGATCATCTTGTGTGAGAATGAAGTGCGACCTGGCCCTTTCAAACCTACTGACCT-GATGAAGGAGGAATCTTTGTCCACCAACTTGgtaatacaacataccagatatgtaacccacaagacacaggtggtgattga Alignment from CESAR TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTG-GACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG tttggaagctagagtcagcctaacttgttaaattctacctcttcttgcagTCAGGCCTCAAATCAGAAATGAGTGAGATCATCTTGTGTGAGAATGAAGTGCGACCTGGCCCTTTCAAACCTACTGACC-TGATGAAGGAGGAATCTTTGTCCACCAACTTGgtaatacaacataccagatatgtaacccacaagacacaggtggtgattga Alignment from Spaln_aa2Genome TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG tttggaagctagagtcagcctaacttgttaaattctacctcttcttgcagTCAGGCCTCAAATCAGAAATGAGTGAGATCATCTTGTGTGAGAATGAAGTGCGACCTGGCCCTTTCAAACCTACTGACCTGATGAAGGAGGAATCTTTGTCCACCAACTTGgtaatacaacataccagatatgtaacccacaagacacaggtggtgattga Alignment from Spaln_nt2Genome TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTG-GACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG tttggaagctagagtcagcctaacttgttaaattctacctcttcttgcagTCAGGCCTCAAATCAGAAATGAGTGAGATCATCTTGTGTGAGAATGAAGTGCGACCTGGCCCTTTCAAACCTACTGACCT-GATGAAGGAGGAATCTTTGTCCACCAACTTGgtaatacaacataccagatatgtaacccacaagacacaggtggtgattga Alignment from Pairagon TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTG-GACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG tttggaagctagagtcagcctaacttgttaaattctacctcttcttgcagTCAGGCCTCAAATCAGAAATGAGTGAGATCATCTTGTGTGAGAATGAAGTGCGACCTGGCCCTTTCAAACCTACTGACCTG-ATGAAGGAGGAATCTTTGTCCACCAACTTGgtaatacaacataccagatatgtaacccacaagacacaggtggtgattga Alignment from Exonerate_protein2genome TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG tttggaagctagagtcagcctaacttgttaaattctacctcttcttgcagTCAGGCCTCAAATCAGAAATGAGTGAGATCATCTTGTGTGAGAATGAAGTGCGACCTGGCCCTTTCAAACCTACTGACCTGATGAAGGAGGAATCTTTGTCCACCAACTTGgtaatacaacataccagatatgtaacccacaagacacaggtggtgattga Alignment from Exonerate_coding2genome TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG tttggaagctagagtcagcctaacttgttaaattctacctcttcttgcagTCAGGCCTCAAATCAGAAATGAGTGAGATCATCTTGTGTGAGAATGAAGTGCGACCTGGCCCTTTCAAACCTACTGACCTGATGAAGGAGGAATCTTTGTCCACCAACTTGgtaatacaacataccagatatgtaacccacaagacacaggtggtgattga Alignment from GeneWise TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG tttggaagctagagtcagcctaacttgttaaattctacctcttcttgcagTCAGGCCTCAAATCAGAAATGAGTGAGATCATCTTGTGTGAGAATGAAGTGCGACCTGGCCCTTTCAAACCTACTGACCTGATGAAGGAGGAATCTTTGTCCACCAACTTGgtaatacaacataccagatatgtaacccacaagacacaggtggtgattga #### 1700055N04Rik_ID226_4 --> 0 - 1 Original Alignment CTCACCAAGCTGAGC-ACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg cagtctgtctcctgcaaaactttgtgatgttcctgtcaattccctaacagCTCACCAAACTGAGCCACAGCCTTCATTTGGAAAGAATCCTTTGGCCTGG-GCTTATCATCGCGCCATGGAATTCTCATGTTAACCTG---ATCATACCCTCAGTGGGAGTTATTGCTATGggtgagtggtgtttcgagcaacaagcctgaccatctctatcttaccatctg Alignment from CESAR CTCACCAAGCTGAGC-ACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg cagtctgtctcctgcaaaactttgtgatgttcctgtcaattccctaacagCTCACCAAACTGAGCCACAGCCTTCATTTGGAAAGAATCCTTTGGCCTG-GGCTTATCATCGCGCCATGGAATTCTCATGTTAACCTG---ATCATACCCTCAGTGGGAGTTATTGCTATGggtgagtggtgtttcgagcaacaagcctgaccatctctatcttaccatctg Alignment from Spaln_aa2Genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG cagtctgtctcctgcaaaactttgtgatgttcctgtcaattccctaacagCTCACCAAACTGAGCCACAGCCTTCATTTGGAAAGAATCCTTTGGCCTGGGCTTATCATCGCGCCATGGAATTCTCATGTTAACCTG---ATCATACCCTCAGTGGGAGTTATTGCTATGGgtgagtggtgtttcgagcaacaagcctgaccatctctatcttaccatctg Alignment from Spaln_nt2Genome CTCACCAAGCTGAGC-ACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG cagtctgtctcctgcaaaactttgtgatgttcctgtcaattccctaacagCTCACCAAACTGAGCCACAGCCTTCATTTGGAAAGAATCCTTTGGCCTGG-GCTTATCATCGCGCCATGGAATTCTCATGTTAAC---CTGATCATACCCTCAGTGGGAGTTATTGCTATGGgtgagtggtgtttcgagcaacaagcctgaccatctctatcttaccatctg Alignment from Pairagon CTCACCAAGCTGAG-CACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG cagtctgtctcctgcaaaactttgtgatgttcctgtcaattccctaacagCTCACCAAACTGAGCCACAGCCTTCATTTGGAAAGAATCCTTTGGCCTGG-GCTTATCATCGCGCCATGGAATTCTCATGTTAACC---TGATCATACCCTCAGTGGGAGTTATTGCTATGGgtgagtggtgtttcgagcaacaagcctgaccatctctatcttaccatctg Alignment from Exonerate_protein2genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG cagtctgtctcctgcaaaactttgtgatgttcctgtcaattccctaacagCTCACCAAACTGAGCCACAGCCTTCATTTGGAAAGAATCCTTTGGCCTGGGCTTATCATCGCGCCATGGAATTCTCATGTTAACCTG---ATCATACCCTCAGTGGGAGTTATTGCTATGGgtgagtggtgtttcgagcaacaagcctgaccatctctatcttaccatctg Alignment from Exonerate_coding2genome cagtctgtctcctgcaaaactttgtgatgttcctgtcaattccctaacagctcaccaaactgagccacagccttcatttggaaagaatcctttggcctgggcttatcatcgcgccatggaattctcatgttaacctgatcataccctcagtgggagttattgctatgggtgagtggtgtttcgagcaacaagcctgaccatctctatcttaccatctg Alignment from GeneWise CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG cagtctgtctcctgcaaaactttgtgatgttcctgtcaattccctaacagCTCACCAAACTGAGCCACAGCCTTCATTTGGAAAGAATCCTTTGGCCTGGGCTTATCATCGCGCCATGGAATTCTCATGTTAACCTG---ATCATACCCTCAGTGGGAGTTATTGCTATGGgtgagtggtgtttcgagcaacaagcctgaccatctctatcttaccatctg #### 1700055N04Rik_ID227_5 --> 2 - 0 Original Alignment gaAACTGTGTGGTGCTGAAGCCATCAGAAATT-AGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG gttgagaggcacttaaaccattatgtgccggcttctgttttcttttttaggaAACTGTGTGGTGCTCAAAAGATCTGAAATTCAGCAGGAACACAGAGAAGGTGTTGGCAGAGCTTCCAC-TCAGTATCTAGACCAAgtaagtttattttaggtggttaatttggtaaatggtgaagagctgaatga Alignment from CESAR gaAACTGTGTGGTGCTGAAGCCATCAGAAATT-AGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG gttgagaggcacttaaaccattatgtgccggcttctgttttcttttttaggaAACTGTGTGGTGCTCAAAAGATCTGAAATTCAGCAGGAACACAGAGAAGGTGTTGGCAGAGCTTCCA-CTCAGTATCTAGACCAAgtaagtttattttaggtggttaatttggtaaatggtgaagagctgaatga Alignment from Spaln_aa2Genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATT-AGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG gttgagaggcacttaaaccattatgtgccggcttctgttttcttttttagGAAACTGTGTGGTGCTCAAAAGATCTGAAATTcAGCAGGAACACAGAGAAGGTGTTGGCAGAGCTTCC-ACTCAGTATCTAGACCAAgtaagtttattttaggtggttaatttggtaaatggtgaagagctgaatga Alignment from Spaln_nt2Genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATT-AGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG gttgagaggcacttaaaccattatgtgccggcttctgttttcttttttagGAAACTGTGTGGTGCTCAAAAGATCTGAAATTCAGCAGGAACACAGAGAAGGTGTTGGCAGAGCTTCCA-CTCAGTATCTAGACCAAgtaagtttattttaggtggttaatttggtaaatggtgaagagctgaatga Alignment from Pairagon GAAACTGTGTGGTGCTGAAGCCATCAGAAATT-AGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG gttgagaggcacttaaaccattatgtgccggcttctgttttcttttttagGAAACTGTGTGGTGCTCAAAAGATCTGAAATTCAGCAGGAACACAGAGAAGGTGTTGGCAGAGCTTCCA-CTCAGTATCTAGACCAAgtaagtttattttaggtggttaatttggtaaatggtgaagagctgaatga Alignment from Exonerate_protein2genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG gttgagaggcacttaaaccattatgtgccggcttctgttttcttttttagGAAACTGTGTGGTGCTCAAAAGATCTGAAATTCAGCAGGAACACAGAGAAGGTGTTGGCAGAGCTTCCACTCAGTATCTAGACCAAgtaagtttattttaggtggttaatttggtaaatggtgaagagctgaatga Alignment from Exonerate_coding2genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG gttgagaggcacttaaaccattatgtgccggcttctgttttcttttttagGAAACTGTGTGGTGCTCAAAAGATCTGAAATTCAGCAGGAACACAGAGAAGGTGTTGGCAGAGCTTCCACTCAGTATCTAGACCAAgtaagtttattttaggtggttaatttggtaaatggtgaagagctgaatga Alignment from GeneWise GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG gttgagaggcacttaaaccattatgtgccggcttctgttttcttttttagGAAACTGTGTGGTGCTCAAAAGATCTGAAATTCAGCAGGAACACAGAGAAGGTGTTGGCAGAGCTTCCACTCAGTATCTAGACCAAgtaagtttattttaggtggttaatttggtaaatggtgaagagctgaatga #### 1700123I01Rik_ID1492_4 --> 2 - 1 Original Alignment atAAAAGCAAGTGGGAGAGAGTTTCCCACCTGAAGTTTAAACATGGGGAAAGC-ATCCTGACGCCCTACCCGTTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGACTTGCCTTCCg ccggccaacaccttgagttctttctacactggatttctgttccactctagacAAAAGTAAGTGGGAGAGAGTTTCCCATCTGAGGTTTAAATATGGGGAAAGCCATTTTGACACCCTACCCATTTGTTTTTACTT-GTATATAGAGATGAAATGGTTTGCTGAAGATTTGCCTTCGcgtaagtagctgaggtgggttgtaaaaaaaataatgaagggcactcaggac Alignment from CESAR atAAAAGCAAGTGGGAGAGAGTTTCCCACCTGAAGTTTAAACATGGGGAAAGC-ATCCTGACGCCCTACCCGTTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGACTTGCCTTCCg ccggccaacaccttgagttctttctacactggatttctgttccactctagacAAAAGTAAGTGGGAGAGAGTTTCCCATCTGAGGTTTAAATATGGGGAAAGCCATTTTGACACCCTACCCATTTGTTTTTA-CTTGTATATAGAGATGAAATGGTTTGCTGAAGATTTGCCTTCGcgtaagtagctgaggtgggttgtaaaaaaaataatgaagggcactcaggac Alignment from Spaln_aa2Genome ATAAAAGCAAGTGGGAGAGAGTTTCCCACCTGAAGTTTAAACATGGGGAAAGCATCCTGACGCCCTACCCGTTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGACTTGCCTTCCG ccggccaacaccttgagttctttctacactggatttctgttccactctagACAAAAGTAAGTGGGAGAGAGTTTCCCATCTGAGGTTTAAATATGGGGAAAGCCATTTTGACACCCTACCCATTTGTTTTTACTTGTATATAGAGATGAAATGGTTTGCTGAAGATTTGCCTTCGCgtaagtagctgaggtgggttgtaaaaaaaataatgaagggcactcaggac Alignment from Spaln_nt2Genome ATAAAAGCAAGTGGGAGAGAGTTTCCCACCTGAAGTTTAAACATGGGGAAAGC-ATCCTGACGCCCTACCCGTTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGACTTGCCTTCCG ccggccaacaccttgagttctttctacactggatttctgttccactctagACAAAAGTAAGTGGGAGAGAGTTTCCCATCTGAGGTTTAAATATGGGGAAAGCCATTTTGACACCCTACCCATTTGTTTTTAC-TTGTATATAGAGATGAAATGGTTTGCTGAAGATTTGCCTTCGCgtaagtagctgaggtgggttgtaaaaaaaataatgaagggcactcaggac Alignment from Pairagon ATAAAAGCAAGTGGGAGAGAGTTTCCCACCTGAAGTTTAAACATGGGGAAAG-CATCCTGACGCCCTACCCGTTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGACTTGCCTTCCG ccggccaacaccttgagttctttctacactggatttctgttccactctagACAAAAGTAAGTGGGAGAGAGTTTCCCATCTGAGGTTTAAATATGGGGAAAGCCATTTTGACACCCTACCCATTTGTTTTTAC-TTGTATATAGAGATGAAATGGTTTGCTGAAGATTTGCCTTCGCgtaagtagctgaggtgggttgtaaaaaaaataatgaagggcactcaggac Alignment from Exonerate_protein2genome ATAAAAGCAAGTGGGAGAGAGTTTCCCACCTGAAGTTTAAACATGGGGAAAGCATCCTGACGCCCTACCCGTTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGACTTGCCTTCCG ccggccaacaccttgagttctttctacactggatttctgttccactctagACAAAAGTAAGTGGGAGAGAGTTTCCCATCTGAGGTTTAAATATGGGGAAAGCCATTTTGACACCCTACCCATTTGTTTTTACTTGTATATAGAGATGAAATGGTTTGCTGAAGATTTGCCTTCGCgtaagtagctgaggtgggttgtaaaaaaaataatgaagggcactcaggac Alignment from Exonerate_coding2genome ATAAAAGCAAGTGGGAGAGAGTTTCCCACCTGAAGTTTAAACATGGGGAAAGCATCCTGACGCCCTACCCGTTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGACTTGCCTTCCG ccggccaacaccttgagttctttctacactggatttctgttccactctagACAAAAGTAAGTGGGAGAGAGTTTCCCATCTGAGGTTTAAATATGGGGAAAGCCATTTTGACACCCTACCCATTTGTTTTTACTTGTATATAGAGATGAAATGGTTTGCTGAAGATTTGCCTTCGCgtaagtagctgaggtgggttgtaaaaaaaataatgaagggcactcaggac Alignment from GeneWise ATAAAAGCAAGTGGGAGAGAGTTTCCCACCTGAAGTTTAAACATGGGGAAAGCATCCTGACGCCCTACCCGTTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGACTTGCCTTCCG ccggccaacaccttgagttctttctacactggatttctgttccactctagACAAAAGTAAGTGGGAGAGAGTTTCCCATCTGAGGTTTAAATATGGGGAAAGCCATTTTGACACCCTACCCATTTGTTTTTACTTGTATATAGAGATGAAATGGTTTGCTGAAGATTTGCCTTCGCgtaagtagctgaggtgggttgtaaaaaaaataatgaagggcactcaggac #### 9130011E15Rik_ID9675_6 --> 0 - 0 Original Alignment GTCACAGATAATATCAGC-CAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aacatgttgttgtgcattgtgaaagtggcagtcccattttttccccttagGTCACAGATAATATCAGCCCAGAACACTATCCTGGAATATGTAATGATCAACA-CATATTTGAAGCCATTTTACAGgtacctagtttaactgacttatgctttatgtgtaatccctcattcaaaat Alignment from CESAR GTCACAGATAATATCAGC-CAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aacatgttgttgtgcattgtgaaagtggcagtcccattttttccccttagGTCACAGATAATATCAGCCCAGAACACTATCCTGGAATATGTAATGATCAAC-ACATATTTGAAGCCATTTTACAGgtacctagtttaactgacttatgctttatgtgtaatccctcattcaaaat Alignment from Spaln_aa2Genome GATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aacatgttgttgtgcattgtgaaagtggcagtcccattttttccccttaggtcacagATAATATCAGCCCAGAACACTATCCTGGAATATGTAATGATCAACAC-ATATTTGAAGCCATTTTACAGgtacctagtttaactgacttatgctttatgtgtaatccctcattcaaaat Alignment from Spaln_nt2Genome GTCACAGATAATATCAG-CCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aacatgttgttgtgcattgtgaaagtggcagtcccattttttccccttagGTCACAGATAATATCAGCCCAGAACACTATCCTGGAATATGTAATGATCAACA-CATATTTGAAGCCATTTTACAGgtacctagtttaactgacttatgctttatgtgtaatccctcattcaaaat Alignment from Pairagon GTCACAGATAATATCAG-CCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aacatgttgttgtgcattgtgaaagtggcagtcccattttttccccttagGTCACAGATAATATCAGCCCAGAACACTATCCTGGAATATGTAATGATCAACA-CATATTTGAAGCCATTTTACAGgtacctagtttaactgacttatgctttatgtgtaatccctcattcaaaat Alignment from Exonerate_protein2genome GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aacatgttgttgtgcattgtgaaagtggcagtcccattttttccccttagGTCACAGATAATATCAGCCCAGAACACTATCCTGGAATATGTAATGATCAACACATATTTGAAGCCATTTTACAGgtacctagtttaactgacttatgctttatgtgtaatccctcattcaaaat Alignment from Exonerate_coding2genome GTCACAGATAATATCAG---CCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aacatgttgttgtgcattgtgaaagtggcagtcccattttttccccttagGTCACAGATAATATC--AGCCCAGAACACTATCCTGGAATATGTAATGATCAACAC-ATATTTGAAGCCATTTTACAGgtacctagtttaactgacttatgctttatgtgtaatccctcattcaaaat Alignment from GeneWise GATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aacatgttgttgtgcattgtgaaagtggcagtcccattttttccccttaggtcacagATAATATCAGCCCAGAACACTATCCTGGAATATGTAATGATCAACAC-ATATTTGAAGCCATTTTACAGgtacctagtttaactgacttatgctttatgtgtaatccctcattcaaaat #### AI846148_ID2143_3 --> 2 - 1 Original Alignment agTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAG-ATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCg gtgggagtagcaagtgctaaggactatctttaatttctgatgttttccagaaTCTGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCAGATCCAGTGAGGATGCCAGCCGAACATGATAGTGCTTTTAGATTCTCAAGGCAACCCATCTCTGCCCA-AAGGCTACGGCCTAGAGGACTCCGACCT---GAACTGCCAagtgagtcatcaagtattcttgggtttggtgggacatcatatagtagggca Alignment from CESAR agTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAG-ATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCg gtgggagtagcaagtgctaaggactatctttaatttctgatgttttccagaaTCTGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCAGATCCAGTGAGGATGCCAGCCGAACATGATAGTGCTTTTAGATTCTCAAGGCAACCCATCTCTGCCCA-AAGGCTACGGCCTAGAGGACTCCGACCT---GAACTGCCAagtgagtcatcaagtattcttgggtttggtgggacatcatatagtagggca Alignment from Spaln_aa2Genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gtgggagtagcaagtgctaaggactatctttaatttctgatgttttccagAATCTGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCAGATCCAGTGAGGATGCCAGCCGAACATGATAGTGCTTTTAGATTCTCAAGGCAACCCATCTCTGCCCAAAGGCTACGGCCTAGAGGACTCCGACCT---GAACTGCCAAgtgagtcatcaagtattcttgggtttggtgggacatcatatagtagggca Alignment from Spaln_nt2Genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAG-ATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gtgggagtagcaagtgctaaggactatctttaatttctgatgttttccagAATCTGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCAGATCCAGTGAGGATGCCAGCCGAACATGATAGTGCTTTTAGATTCTCAAGGCAACCCATCTCTGCCCAA-AGGCTACGGCCTAGAGGACTCCGACC---TGAACTGCCAAgtgagtcatcaagtattcttgggtttggtgggacatcatatagtagggca Alignment from Pairagon AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGA----GATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gtgggagtagcaagtgctaaggactatctttaatttctgatgttttccagAATCTGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCAGATCCAGTGAGGATGCCAGCCGAACATGATAGTG---CTTTTAGATTCTCAAGGCAACCCATCTCTGCCCAA-AGGCTACGGCCTAGAGGACTCCGACC---TGAACTGCCAAgtgagtcatcaagtattcttgggtttggtgggacatcatatagtagggca Alignment from Exonerate_protein2genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gtgggagtagcaagtgctaaggactatctttaatttctgatgttttccagAATCTGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCAGATCCAGTGAGGATGCCAGCCGAACATGATAGTGCTTTTAGATTCTCAAGGCAACCCATCTCTGCCCAAAGGCTACGGCCTAGAGGACTCCGACCT---GAACTGCCAAgtgagtcatcaagtattcttgggtttggtgggacatcatatagtagggca Alignment from Exonerate_coding2genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gtgggagtagcaagtgctaaggactatctttaatttctgatgttttccagAATCTGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCAGATCCAGTGAGGATGCCAGCCGAACATGATAGTGCTTTTAGATTCTCAAGGCAACCCATCTCTGCCCAAAGGCTACGGCCTAGAGGACTCCGACCT---GAACTGCCAAgtgagtcatcaagtattcttgggtttggtgggacatcatatagtagggca Alignment from GeneWise AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gtgggagtagcaagtgctaaggactatctttaatttctgatgttttccagAATCTGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCAGATCCAGTGAGGATGCCAGCCGAACATGATAGTGCTTTTAGATTCTCAAGGCAACCCATCTCTGCCCAAAGGCTACGGCCTAGAGGACTCCGACCT---GAACTGCCAAgtgagtcatcaagtattcttgggtttggtgggacatcatatagtagggca #### Abcc2_ID8821_5 --> 0 - 0 Original Alignment GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGT-TTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC gatgattgtggttgtaactatgggcctcctgtggattcctctccatgcagGATAGTAAGTCAAACATGACATACTCCTGTCTGTTCTTCATCTCCTCCAGTCTTCCAGATTGTGGCTTTGATTCTTTCAGCATTTTCAGAAT-GAGTGACTCTACACATgtatccatgtaatgggtatttaaaaaagggtcattctagtgtcattcaaa Alignment from CESAR GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGT-TTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC gatgattgtggttgtaactatgggcctcctgtggattcctctccatgcagGATAGTAAGTCAAACATGACATACTCCTGTCTGTTCTTCATCTCCTCCAGTCTTCCAGATTGTGGCTTTGATTCTTTCAGCATTTTCAGAA-TGAGTGACTCTACACATgtatccatgtaatgggtatttaaaaaagggtcattctagtgtcattcaaa Alignment from Spaln_aa2Genome GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGT-TTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC gatgattgtggttgtaactatgggcctcctgtggattcctctccatgcagGATAGTAAGTCAAACATGACATACTCCTGTCTGTTCTTCATCTCCTCCAGTcTTCCAGATTGTGGCTTTGATTCTTTCAGCATTTTCAGAATG-AGTGACTCTACACATgtatccatgtaatgggtatttaaaaaagggtcattctagtgtcattcaaa Alignment from Spaln_nt2Genome GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGT-TTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC gatgattgtggttgtaactatgggcctcctgtggattcctctccatgcagGATAGTAAGTCAAACATGACATACTCCTGTCTGTTCTTCATCTCCTCCAGTCTTCCAGATTGTGGCTTTGATTCTTTCAGCATTTTCAGAAT-GAGTGACTCTACACATgtatccatgtaatgggtatttaaaaaagggtcattctagtgtcattcaaa Alignment from Pairagon GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGT-TTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC gatgattgtggttgtaactatgggcctcctgtggattcctctccatgcagGATAGTAAGTCAAACATGACATACTCCTGTCTGTTCTTCATCTCCTCCAGTCTTCCAGATTGTGGCTTTGATTCTTTCAGCATTTTCAGAAT-GAGTGACTCTACACATgtatccatgtaatgggtatttaaaaaagggtcattctagtgtcattcaaa Alignment from Exonerate_protein2genome GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC gatgattgtggttgtaactatgggcctcctgtggattcctctccatgcagGATAGTAAGTCAAACATGACATACTCCTGTCTGTTCTTCATCTCCTCCAGTCTTCCAGATTGTGGCTTTGATTCTTTCAGCATTTTCAGAATGAGTGACTCTACACATgtatccatgtaatgggtatttaaaaaagggtcattctagtgtcattcaaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC gatgattgtggttgtaactatgggcctcctgtggattcctctccatgcagGATAGTAAGTCAAACATGACATACTCCTGTCTGTTCTTCATCTCCTCCAGTCTTCCAGATTGTGGCTTTGATTCTTTCAGCATTTTCAGAATGAGTGACTCTACACATgtatccatgtaatgggtatttaaaaaagggtcattctagtgtcattcaaa #### Abcc2_ID8838_22 --> 0 - 1 Original Alignment GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTC-ATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAg ggggtctgttctctcattttggacctacagcttactgtatttatgcccagGTCAAGTTGTCTATTTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGTTTATTATCCATCTTCTATGTACTGAACTATGTGGCATTCA-TGGCACTAATCTATGGTTGAGTGCTTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGGTATCGCACAAggtgccagtgccaagaccacaacccttaaagcgagttacatcttgttatat Alignment from CESAR GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTC-ATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAg ggggtctgttctctcattttggacctacagcttactgtatttatgcccagGTCAAGTTGTCTATTTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGTTTATTATCCATCTTCTATGTACTGAACTATGTGGCATTCA-TGGCACTAATCTATGGTTGAGTGCTTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGGTATCGCACAAggtgccagtgccaagaccacaacccttaaagcgagttacatcttgttatat Alignment from Spaln_aa2Genome GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTCATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAG ggggtctgttctctcattttggacctacagcttactgtatttatgcccagGTCAAGTTGTCTATTTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGTTTATTATCCATCTTCTATGTACTGAACTATGTGGCATTCATGGCACTAATCTATGGTTGAGTGCTTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGGTATCGCACAAGgtgccagtgccaagaccacaacccttaaagcgagttacatcttgttatat Alignment from Spaln_nt2Genome GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTC-ATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAG ggggtctgttctctcattttggacctacagcttactgtatttatgcccagGTCAAGTTGTCTATTTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGTTTATTATCCATCTTCTATGTACTGAACTATGTGGCATTCA-TGGCACTAATCTATGGTTGAGTGCTTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGGTATCGCACAAGgtgccagtgccaagaccacaacccttaaagcgagttacatcttgttatat Alignment from Pairagon GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGT-CATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAG ggggtctgttctctcattttggacctacagcttactgtatttatgcccagGTCAAGTTGTCTATTTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGTTTATTATCCATCTTCTATGTACTGAACTATGTGGCATTCA-TGGCACTAATCTATGGTTGAGTGCTTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGGTATCGCACAAGgtgccagtgccaagaccacaacccttaaagcgagttacatcttgttatat Alignment from Exonerate_protein2genome GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTCATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAG ggggtctgttctctcattttggacctacagcttactgtatttatgcccagGTCAAGTTGTCTATTTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGTTTATTATCCATCTTCTATGTACTGAACTATGTGGCATTCATGGCACTAATCTATGGTTGAGTGCTTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGGTATCGCACAAGgtgccagtgccaagaccacaacccttaaagcgagttacatcttgttatat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTCATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAG ggggtctgttctctcattttggacctacagcttactgtatttatgcccagGTCAAGTTGTCTATTTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGTTTATTATCCATCTTCTATGTACTGAACTATGTGGCATTCATGGCACTAATCTATGGTTGAGTGCTTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGGTATCGCACAAGgtgccagtgccaagaccacaacccttaaagcgagttacatcttgttatat #### Acsl5_ID11611_16 --> 0 - 0 Original Alignment ATCTGCATCAAAGGTAACAATGTGTTCAAA-GGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA aagtaaatgcattatttgcggtatatattttttattactcaaaattttagATCTGCATTAAAGGCAACAATGCATTCAAACGGTTACCTAAGGGATGCAGAGAAAACACAAAAAG-AATTGACAAGGATGGATGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCGgtaggtagctctcaatagttggcagagccctatgtacagtgacggaggat Alignment from CESAR ATCTGCATCAAAGGTAACAATGTGTTCAAA-GGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA aagtaaatgcattatttgcggtatatattttttattactcaaaattttagATCTGCATTAAAGGCAACAATGCATTCAAACGGTTACCTAAGGGATGCAGAGAAAACACAAAAAGAAT-TGACAAGGATGGATGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCGgtaggtagctctcaatagttggcagagccctatgtacagtgacggaggat Alignment from Spaln_aa2Genome ATCTGCATCAAAGGTAACAATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA aagtaaatgcattatttgcggtatatattttttattactcaaaattttagATCTGCATTAAAGGCAACAATGCATTCAAACGGTTACCTAAGGGATGCAGAGAAAACACAAAAAGAATTGACAAGGATGGATGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCGgtaggtagctctcaatagttggcagagccctatgtacagtgacggaggat Alignment from Spaln_nt2Genome ATCTGCATCAAAGGTAACAATGTGTTCAAA-GGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA aagtaaatgcattatttgcggtatatattttttattactcaaaattttagATCTGCATTAAAGGCAACAATGCATTCAAACGGTTACCTAAGGGATGCAGAGAAAACACAAAAAG-AATTGACAAGGATGGATGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCGgtaggtagctctcaatagttggcagagccctatgtacagtgacggaggat Alignment from Pairagon ATCTGCATCAAAGGTAACAATGTGTTCAAA-GGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA aagtaaatgcattatttgcggtatatattttttattactcaaaattttagATCTGCATTAAAGGCAACAATGCATTCAAACGGTTACCTAAGGGATGCAGAGAAAACACAAAAAGAATT-GACAAGGATGGATGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCGgtaggtagctctcaatagttggcagagccctatgtacagtgacggaggat Alignment from Exonerate_protein2genome ATCTGCATCAAAGGTAACAATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA aagtaaatgcattatttgcggtatatattttttattactcaaaattttagATCTGCATTAAAGGCAACAATGCATTCAAACGGTTACCTAAGGGATGCAGAGAAAACACAAAAAGAATTGACAAGGATGGATGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCGgtaggtagctctcaatagttggcagagccctatgtacagtgacggaggat Alignment from Exonerate_coding2genome ATCTGCATCAAAGGTAACAATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA aagtaaatgcattatttgcggtatatattttttattactcaaaattttagATCTGCATTAAAGGCAACAATGCATTCAAACGGTTACCTAAGGGATGCAGAGAAAACACAAAAAGAATTGACAAGGATGGATGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCGgtaggtagctctcaatagttggcagagccctatgtacagtgacggaggat Alignment from GeneWise ATCTGCATCAAAGGTAACAATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA aagtaaatgcattatttgcggtatatattttttattactcaaaattttagATCTGCATTAAAGGCAACAATGCATTCAAACGGTTACCTAAGGGATGCAGAGAAAACACAAAAAGAATTGACAAGGATGGATGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCGgtaggtagctctcaatagttggcagagccctatgtacagtgacggaggat #### Acsl5_ID11614_19 --> 0 - 0 Original Alignment TGTGTAAAGGAA-GCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctgcaagccttgggtatcctacctttgcttcctgtgaagTTCGTAAAAGAGCGCCATTCTGGAGGACTTGCAGAAAATTGGGAAGGAGGGTGGCT-GAAATCCCTTGAGCAGgtgagcatgtggtatgttttttatagttgatgcagtaagtcaatttacag Alignment from CESAR TGTGTAAAGGAA-GCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctgcaagccttgggtatcctacctttgcttcctgtgaagTTCGTAAAAGAGCGCCATTCTGGAGGACTTGCAGAAAATTGGGAAGGAGGGTG-GCTGAAATCCCTTGAGCAGgtgagcatgtggtatgttttttatagttgatgcagtaagtcaatttacag Alignment from Spaln_aa2Genome TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGG aggcctttaagctgcaagccttgggtatcctacctttgcttcctgtgaagttcgtaaaagAGC---------GCCATTCTGGAGGACTTGCAGAAAATTGGGAAGGAGGgtggctgaaatcccttgagcaggtgagcatgtggtatgttttttatagttgatgcagtaagtcaatttacag Alignment from Spaln_nt2Genome TGTGTAAAGGAA-GCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctgcaagccttgggtatcctacctttgcttcctgtgaagTTCGTAAAAGAGCGCCATTCTGGAGGACTTGCAGAAAATTGGGAAGGAGGGTGG-CTGAAATCCCTTGAGCAGgtgagcatgtggtatgttttttatagttgatgcagtaagtcaatttacag Alignment from Pairagon TGTGTAAAGGAA-GCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctgcaagccttgggtatcctacctttgcttcctgtgaagTTCGTAAAAGAGCGCCATTCTGGAGGACTTGCAGAAAATTGGGAAGGAGGGTGG-CTGAAATCCCTTGAGCAGgtgagcatgtggtatgttttttatagttgatgcagtaagtcaatttacag Alignment from Exonerate_protein2genome TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctgcaagccttgggtatcctacctttgcttcctgtgaagTTCGTAAAAGAGCGCCATTCTGGAGGACTTGCAGAAAATTGGGAAGGAGGGTGGCTGAAATCCCTTGAGCAGgtgagcatgtggtatgttttttatagttgatgcagtaagtcaatttacag Alignment from Exonerate_coding2genome TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctgcaagccttgggtatcctacctttgcttcctgtgaagTTCGTAAAAGAGCGCCATTCTGGAGGACTTGCAGAAAATTGGGAAGGAGGGTGGCTGAAATCCCTTGAGCAGgtgagcatgtggtatgttttttatagttgatgcagtaagtcaatttacag Alignment from GeneWise aggcctttaagctgcaagccttgggtatcctacctttgcttcctgtgaagttcgtaaaagagcgccattctggaggacttgcagaaaattgggaaggagggtggctgaaatcccttgagcaggtgagcatgtggtatgttttttatagttgatgcagtaagtcaatttacag #### Actn3_ID692_18 --> 0 - 0 Original Alignment CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAG-GGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGGA aaattatagggatcagctctatacaaagctcttttgtatctgtcttttagCATATTCGTGTGGGCTGGGAGCAACTACTGACCTCCATTGCCCACACCATTAATGAAGTGGATAACCAAGTACTCACTAGAGATGCTAAGCGGCCTAAGCCAGGAGCAACTCAACGAATTCC-TGCCTCCTTCAATCACTTTGACCGGgtaagtgacttgacatgaataatatttatctccctctcttcagAAGCGGA Alignment from CESAR CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAG-GGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGGA aaattatagggatcagctctatacaaagctcttttgtatctgtcttttagCATATTCGTGTGGGCTGGGAGCAACTACTGACCTCCATTGCCCACACCATTAATGAAGTGGATAACCAAGTACTCACTAGAGATGCTAAGCGGCCTAAGCCAGGAGCAACTCAACGAATTC-CTGCCTCCTTCAATCACTTTGACCGGgtaagtgacttgacatgaatatgacattgtgttttatttctagAAGCGGA Alignment from Spaln_aa2Genome CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGGA aaattatagggatcagctctatacaaagctcttttgtatctgtcttttagCATATTCGTGTGGGCTGGGAGCAACTACTGACCTCCATTGCCCACACCATTAATGAAGTGGATAACCAAGTACTCACTAGAGATGCTAAGCGGCCTAAGCCAGGAGCAACTCAACGAATTCCTGCCTCCTTCAATCACTTTGACCGGgtaagtgacttgacatgaataatatttatctccctctcttcagAAGCGGA Alignment from Spaln_nt2Genome CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAG-GGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGGA aaattatagggatcagctctatacaaagctcttttgtatctgtcttttagCATATTCGTGTGGGCTGGGAGCAACTACTGACCTCCATTGCCCACACCATTAATGAAGTGGATAACCAAGTACTCACTAGAGATGCTAAGCGGCCTAAGCCAGGAGCAACTCAACGAATTCC-TGCCTCCTTCAATCACTTTGACCGGgtaagtgacttgacatgaataatatttatctccctctcttcagAAGCGGA Alignment from Pairagon CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAG-GGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGGA aaattatagggatcagctctatacaaagctcttttgtatctgtcttttagCATATTCGTGTGGGCTGGGAGCAACTACTGACCTCCATTGCCCACACCATTAATGAAGTGGATAACCAAGTACTCACTAGAGATGCTAAGCGGCCTAAGCCAGGAGCAACTCAACGAATTCC-TGCCTCCTTCAATCACTTTGACCGGgtaagtgacttgacatgaataatatttatctccctctcttcagAAGCGGA Alignment from Exonerate_protein2genome CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGGA aaattatagggatcagctctatacaaagctcttttgtatctgtcttttagCATATTCGTGTGGGCTGGGAGCAACTACTGACCTCCATTGCCCACACCATTAATGAAGTGGATAACCAAGTACTCACTAGAGATGCTAAGCGGCCTAAGCCAGGAGCAACTCAACGAATTCCTGCCTCCTTCAATCACTTTGACCGGgtaagtgacttgacatgaataatatttatctccctctcttcagAAGCGGA Alignment from Exonerate_coding2genome CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGGA aaattatagggatcagctctatacaaagctcttttgtatctgtcttttagCATATTCGTGTGGGCTGGGAGCAACTACTGACCTCCATTGCCCACACCATTAATGAAGTGGATAACCAAGTACTCACTAGAGATGCTAAGCGGCCTAAGCCAGGAGCAACTCAACGAATTCCTGCCTCCTTCAATCACTTTGACCGGgtaagtgacttgacatgaataatatttatctccctctcttcagAAGCGGA Alignment from GeneWise CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGGA aaattatagggatcagctctatacaaagctcttttgtatctgtcttttagCATATTCGTGTGGGCTGGGAGCAACTACTGACCTCCATTGCCCACACCATTAATGAAGTGGATAACCAAGTACTCACTAGAGATGCTAAGCGGCCTAAGCCAGGAGCAACTCAACGAATTCCTGCCTCCTTCAATCACTTTGACCGGgtaagtgacttgacatgaataatatttatctccctctcttcagAAGCGGA #### Actn3_ID693_17 --> 0 - 0 Original Alignment GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATC-AATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gagcaaaatggtgagtcttgagactctaaactacttgtttttctttctagGAAGTAGGACGACTAGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCCAATTACAAGAGCAACATCGACTGGCTAGAGG-TGACCACCAGTTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGgtaaaggcccaatggccaccagatagttgcagtttatgtcagctgactca Alignment from CESAR GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATC-AATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gagcaaaatggtgagtcttgagactctaaactacttgtttttctttctagGAAGTAGGACGACTAGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCCAATTACAAGAGCAACATCGACTGGCTAG-AGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGgtaaaggcccaatggccaccagatagttgcagtttatgtcagctgactca Alignment from Spaln_aa2Genome GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gagcaaaatggtgagtcttgagactctaaactacttgtttttctttctagGAAGTAGGACGACTAGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCCAATTACAAGAGCAACATCGACTGGCTAGAGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGgtaaaggcccaatggccaccagatagttgcagtttatgtcagctgactca Alignment from Spaln_nt2Genome GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCAT-CAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gagcaaaatggtgagtcttgagactctaaactacttgtttttctttctagGAAGTAGGACGACTAGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCCAATTACAAGAGCAACATCGACTGGCTAGA-GGTGACCACCAGTTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGgtaaaggcccaatggccaccagatagttgcagtttatgtcagctgactca Alignment from Pairagon GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCAT-CAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gagcaaaatggtgagtcttgagactctaaactacttgtttttctttctagGAAGTAGGACGACTAGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCCAATTACAAGAGCAACATCGACTGGCTAGA-GGTGACCACCAGTTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGgtaaaggcccaatggccaccagatagttgcagtttatgtcagctgactca Alignment from Exonerate_protein2genome GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gagcaaaatggtgagtcttgagactctaaactacttgtttttctttctagGAAGTAGGACGACTAGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCCAATTACAAGAGCAACATCGACTGGCTAGAGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGgtaaaggcccaatggccaccagatagttgcagtttatgtcagctgactca Alignment from Exonerate_coding2genome GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gagcaaaatggtgagtcttgagactctaaactacttgtttttctttctagGAAGTAGGACGACTAGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCCAATTACAAGAGCAACATCGACTGGCTAGAGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGgtaaaggcccaatggccaccagatagttgcagtttatgtcagctgactca Alignment from GeneWise GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gagcaaaatggtgagtcttgagactctaaactacttgtttttctttctagGAAGTAGGACGACTAGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCCAATTACAAGAGCAACATCGACTGGCTAGAGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGgtaaaggcccaatggccaccagatagttgcagtttatgtcagctgactca #### Actn3_ID697_13 --> 1 - 0 Original Alignment tGAGCTCGACTACCATGAG-GCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cataaaaccgtaacataccttgggtctgaaaatgtccctccctggttcagcGAGCTTGACTACCATGAGCGCAACATCTGTGAACAGTCGGTGCCAAGCCA-ATCTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGgtaggaggtagtccaggagggaagtaacgccagtaatgtctgttgtctga Alignment from CESAR tGAGCTCGACTACCATGAG-GCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cataaaaccgtaacataccttgggtctgaaaatgtccctccctggttcagcGAGCTTGACTACCATGAGCGCAACATCTGTGAACAGTCGGTGCCAAGCC-AATCTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGgtaggaggtagtccaggagggaagtaacgccagtaatgtctgttgtctga Alignment from Spaln_aa2Genome TGAGCTCGACTACCATGAG-GCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cataaaaccgtaacataccttgggtctgaaaatgtccctccctggttcagCGAGCTTGACTACCATGAGcGCAACATCTGTGAACAGTCGGTGCCAAGCCAA-TCTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGgtaggaggtagtccaggagggaagtaacgccagtaatgtctgttgtctga Alignment from Spaln_nt2Genome TGAGCTCGACTACCATGAG-GCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cataaaaccgtaacataccttgggtctgaaaatgtccctccctggttcagCGAGCTTGACTACCATGAGCGCAACATCTGTGAACAGTCGGTGCCAAGCCA-ATCTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGgtaggaggtagtccaggagggaagtaacgccagtaatgtctgttgtctga Alignment from Pairagon TGAGCTCGACTACCATGAG-GCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cataaaaccgtaacataccttgggtctgaaaatgtccctccctggttcagCGAGCTTGACTACCATGAGCGCAACATCTGTGAACAGTCGGTGCCAAGCCA-ATCTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGgtaggaggtagtccaggagggaagtaacgccagtaatgtctgttgtctga Alignment from Exonerate_protein2genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cataaaaccgtaacataccttgggtctgaaaatgtccctccctggttcagCGAGCTTGACTACCATGAGCGCAACATCTGTGAACAGTCGGTGCCAAGCCAATCTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGgtaggaggtagtccaggagggaagtaacgccagtaatgtctgttgtctga Alignment from Exonerate_coding2genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cataaaaccgtaacataccttgggtctgaaaatgtccctccctggttcagCGAGCTTGACTACCATGAGCGCAACATCTGTGAACAGTCGGTGCCAAGCCAATCTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGgtaggaggtagtccaggagggaagtaacgccagtaatgtctgttgtctga Alignment from GeneWise TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cataaaaccgtaacataccttgggtctgaaaatgtccctccctggttcagCGAGCTTGACTACCATGAGCGCAACATCTGTGAACAGTCGGTGCCAAGCCAATCTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGgtaggaggtagtccaggagggaagtaacgccagtaatgtctgttgtctga #### Actn3_ID700_10 --> 0 - 0 Original Alignment CTGTTGGAGTGG-ATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG acttcacctgtcactcattctgccagtagtttattttttctattttctagCTGTTAGAGTGGCAATTGCCGGACAGTA------------AACC-TGTAGCTGAACCTAGCATG------------CAG---CTGGAGGACTTCCAAGACTATCAACACCTACGAAAGCCACCCTGTTTCCAAGAGACATGCCAGCTAGAAATCAACTTTAACATGCTGCAGGCTAAGTCTCGTCTGAGTCACCAACCTGCATTCATGCCCTCTGAAGGCAAC------TCTgtgagcaggtatttcgcaagttacagctctgcctacatgcctacaaccct Alignment from CESAR CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGC---GTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG acttcacctgtcactcattctgccagtagtttattttttctattttctagCTGTTAGAGTGG---------------CAATTGCCGGACAGTAAACCTGTAGCTGAACCTAGCATG---------------CAGCTGGAGGACTTCCAAGACTATCAACACCTACGAAAGCCACCCTGTTTCCAAGAGACATGCCAGCTAGAAATCAACTTTAACATGCTGCAGGCTAAGTCTCGTCTGAGTCACCAACCTGCATTCATGCCCTCTGAAGGCAAC------TCTgtgagcaggtatttcgcaagttacagctctgcctacatgcctacaaccct Alignment from Spaln_aa2Genome CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG acttcacctgtcactcattctgccagtagtttattttttctattttctagCTGTTAGAGTGGCAATTGCCGGACAGT------------AAACCTGTAGCTGAACCTAGCATG---------------CAGCTGGAGGACTTCCAAGACTATCAACACCTACGAAAGCCACCCTGTTTCCAAGAGACATGCCAGCTAGAAATCAACTTTAACATGCTGCAGGCTAAGTCTCGTCTGAGTCACCAACCTGCATTCATGCCCTCTGAAGGCAAC------TCTgtgagcaggtatttcgcaagttacagctctgcctacatgcctacaaccct Alignment from Spaln_nt2Genome CTGTTGGAGTGG-ATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAG-CTGGTTTC-G acttcacctgtcactcattctgccagtagtttattttttctattttctagCTGTTAGAGTGGCAATTGCCGGACAGT-------------AAACCTGTAGCTGAACCTAGCATG---------------CAGCTGGAGGACTTCCAAGACTATCAACACCTACGAAAGCCACCCTGTTTCCAAGAGACATGCCAGCTAGAAATCAACTTTAACATGCTGCAGGCTAAGTCTCGTCTGAGTCACCAACCTGCATTCATGCCCTCTGAAGGCAACTCTGTGAGCAGgtatttcgcaagttacagctctgcctacatgcctacaaccct Alignment from Pairagon CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGC--------------------------GAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG acttcacctgtcactcattctgccagtagtttattttttctattttctagCTGTTAGAGT--------------------------------------GGCAATTGCCGGACAGTAAACCTGTAGCTGAACCTAGCATG---------------CAGCTGGAGGACTTCCAAGACTATCAACACCTACGAAAGCCACCCTGTTTCCAAGAGACATGCCAGCTAGAAATCAACTTTAACATGCTGCAGGCTAAGTCTCGTCTGAGTCACCAACCTGCATTCATGCCCTCTGAAGGCAA------CTCTgtgagcaggtatttcgcaagttacagctctgcctacatgcctacaaccct Alignment from Exonerate_protein2genome CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG-- acttcacctgtcactcattctgccagtagTTTATTTTTTCTATTTTCTAGCTGTTAGAGTGGCAATTGCCGGACAGTAAACCTGTAGCTGAACCTAGCATGCAG------CTGGAGGACTTCCAAGACTATCAACACCTACGAAAGCCACCCTGTTTCCAAGAGACATGCCAGCTAGAAATCAACTTTAACATGCTGCAGGCTAAGTCTCGTCTGAGTCACCAACCTGCATTCATGCCCTCTGAAGGCAACTCTGTGAGCAGgtatttcgcaagttacagctctgcctacatgcctacaaccct Alignment from Exonerate_coding2genome CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG-- acttcacctgtcactcattctgccagtagTTTATTTTTTCTATTTTCTAGCTGTTAGAGTGGCAATTGCCGGACAGTAAACCTGTAGCTGAACCTAGCATGCAG------CTGGAGGACTTCCAAGACTATCAACACCTACGAAAGCCACCCTGTTTCCAAGAGACATGCCAGCTAGAAATCAACTTTAACATGCTGCAGGCTAAGTCTCGTCTGAGTCACCAACCTGCATTCATGCCCTCTGAAGGCAACTCTGTGAGCAGgtatttcgcaagttacagctctgcctacatgcctacaaccct Alignment from GeneWise CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG acttcacctgtcactcattctgccagtagtttattttttctattttctagCTGTTAGAGTGG---------CAATTGCCG---GACAGTAAACCTGTAGCTGAACCTAGCATG---------------CAGCTGGAGGACTTCCAAGACTATCAACACCTACGAAAGCCACCCTGTTTCCAAGAGACATGCCAGCTAGAAATCAACTTTAACATGCTGCAGGCTAAGTCTCGTCTGAGTCACCAACCTGCATTCATGCCCTCTGAAGGCAAC------TCTgtgagcaggtatttcgcaagttacagctctgcctacatgcctacaaccct #### Actn3_ID702_8 --> 2 - 0 Original Alignment atATCGTGAACACCCCCAAACCAGATGAG-AAAGCCATCATGACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG gtttatagtgcccatggaatcctccatttaccttttctctgttttcacagatATTGTCAACACACCCAGACCAGATGAGCAAAGCCATCATAACTTACCTTTCCTGTTTTT-CGATGCATTTGCTGGGGCTGAGCAGgtaaggcacactgttgtagacatgacatcatacagtatgttctggcagtt Alignment from CESAR atATCGTGAACACCCCCAAACCAGATGAG-AAAGCCATCATGACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG gtttatagtgcccatggaatcctccatttaccttttctctgttttcacagatATTGTCAACACACCCAGACCAGATGAGCAAAGCCATCATAACTTACCTTTCCT-GTTTTTCGATGCATTTGCTGGGGCTGAGCAGgtaaggcacactgttgtagacatgacatcatacagtatgttctggcagtt Alignment from Spaln_aa2Genome ATATCGTGAACACCCCCAAACCAGATGAGAAAGCCATCATGACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG gtttatagtgcccatggaatcctccatttaccttttctctgttttcacagATATTGTCAACACACCCAGACCAGATGAGCAAAGCCATCATAACTTACCTTTCCTGTTTTTCGATGCATTTGCTGGGGCTGAGCAGgtaaggcacactgttgtagacatgacatcatacagtatgttctggcagtt Alignment from Spaln_nt2Genome ATATCGTGAACACCCCCAAACCAGATGAG-AAAGCCATCATGACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG gtttatagtgcccatggaatcctccatttaccttttctctgttttcacagATATTGTCAACACACCCAGACCAGATGAGCAAAGCCATCATAACTTACCTTTCCTG-TTTTTCGATGCATTTGCTGGGGCTGAGCAGgtaaggcacactgttgtagacatgacatcatacagtatgttctggcagtt Alignment from Pairagon ATATCGTGAACACCCCCAAACCAGATGAG-AAAGCCATCATGACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG gtttatagtgcccatggaatcctccatttaccttttctctgttttcacagATATTGTCAACACACCCAGACCAGATGAGCAAAGCCATCATAACTTACCTTTCCTGTTTTT-CGATGCATTTGCTGGGGCTGAGCAGgtaaggcacactgttgtagacatgacatcatacagtatgttctggcagtt Alignment from Exonerate_protein2genome ATATCGTGAACACCCCCAAACCAGATGAGAAAGCCATCATGACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG gtttatagtgcccatggaatcctccatttaccttttctctgttttcacagATATTGTCAACACACCCAGACCAGATGAGCAAAGCCATCATAACTTACCTTTCCTGTTTTTCGATGCATTTGCTGGGGCTGAGCAGgtaaggcacactgttgtagacatgacatcatacagtatgttctggcagtt Alignment from Exonerate_coding2genome ATATCGTGAACACCCCCAAACCAGATGAGAAAGCCATCATGACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG gtttatagtgcccatggaatcctccatttaccttttctctgttttcacagATATTGTCAACACACCCAGACCAGATGAGCAAAGCCATCATAACTTACCTTTCCTGTTTTTCGATGCATTTGCTGGGGCTGAGCAGgtaaggcacactgttgtagacatgacatcatacagtatgttctggcagtt Alignment from GeneWise ATATCGTGAACACCCCCAAACCAGATGAGAAAGCCATCATGACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG gtttatagtgcccatggaatcctccatttaccttttctctgttttcacagATATTGTCAACACACCCAGACCAGATGAGCAAAGCCATCATAACTTACCTTTCCTGTTTTTCGATGCATTTGCTGGGGCTGAGCAGgtaaggcacactgttgtagacatgacatcatacagtatgttctggcagtt #### Actn3_ID706_4 --> 2 - 1 Original Alignment aaATTGTTGACGGGAACCTGAAGATGACCCTG-GGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAg tggtagtgcgggggaacaaaggctctcatgttcattttttatctcaatagaaATAGTTGACGGCAACCTGAAGATGACCCTTCGGCATGATTGGGACAATCATCCTCCGTTTTG-CATTCAGGACATCTCTGTAGAAggtgaggtgatgccagatgcctagttgagccagatcaaagtcctttacttc Alignment from CESAR aaATTGTTGACGGGAACCTGAAGATGACCCTG-GGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAg tggtagtgcgggggaacaaaggctctcatgttcattttttatctcaatagaaATAGTTGACGGCAACCTGAAGATGACCCTTCGGCATGATTGGGACAATCATCCTCCGTTTTG-CATTCAGGACATCTCTGTAGAAggtgaggtgatgccagatgcctagttgagccagatcaaacctggtaaaatt Alignment from Spaln_aa2Genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG tggtagtgcgggggaacaaaggctctcatgttcattttttatctcaatagAAATAGTTGACGGCAACCTGAAGATGACCCTTCGGCATGATTGGGACAATCATCCTCCGTTTTGCATTCAGGACATCTCTGTAGAAGgtgaggtgatgccagatgcctagttgagccagatcaaagtcctttacttc Alignment from Spaln_nt2Genome AAATTGTTGACGGGAACCTGAAGATGACCCTG-GGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG tggtagtgcgggggaacaaaggctctcatgttcattttttatctcaatagAAATAGTTGACGGCAACCTGAAGATGACCCTTCGGCATGATTGGGACAATCATCCTCCGTTTTG-CATTCAGGACATCTCTGTAGAAGgtgaggtgatgccagatgcctagttgagccagatcaaagtcctttacttc Alignment from Pairagon AAATTGTTGACGGGAACCTGAAGATGACCC-TGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG tggtagtgcgggggaacaaaggctctcatgttcattttttatctcaatagAAATAGTTGACGGCAACCTGAAGATGACCCTTCGGCATGATTGGGACAATCATCCTCCGTTTTG-CATTCAGGACATCTCTGTAGAAGgtgaggtgatgccagatgcctagttgagccagatcaaagtcctttacttc Alignment from Exonerate_protein2genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG tggtagtgcgggggaacaaaggctctcatgttcattttttatctcaatagAAATAGTTGACGGCAACCTGAAGATGACCCTTCGGCATGATTGGGACAATCATCCTCCGTTTTGCATTCAGGACATCTCTGTAGAAGgtgaggtgatgccagatgcctagttgagccagatcaaagtcctttacttc Alignment from Exonerate_coding2genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG tggtagtgcgggggaacaaaggctctcatgttcattttttatctcaatagAAATAGTTGACGGCAACCTGAAGATGACCCTTCGGCATGATTGGGACAATCATCCTCCGTTTTGCATTCAGGACATCTCTGTAGAAGgtgaggtgatgccagatgcctagttgagccagatcaaagtcctttacttc Alignment from GeneWise AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG tggtagtgcgggggaacaaaggctctcatgttcattttttatctcaatagAAATAGTTGACGGCAACCTGAAGATGACCCTTCGGCATGATTGGGACAATCATCCTCCGTTTTGCATTCAGGACATCTCTGTAGAAGgtgaggtgatgccagatgcctagttgagccagatcaaagtcctttacttc #### Add3_ID11212_4 --> 0 - 0 Original Alignment GTACGAATAAGTAAGGAG-CAAGACCACATTATAATAATTCCCAGAGGCCTCTCTTTTTCTGAAGCGACAGCCTCCACTTTG tgatattgaggcagaagtgggtacttggcatctccattgtctgcctgcagGTCCGAATCAGTAAGGAACCAAGATCACATTATAATGATTCCT---GGACTGT-TTTTTCTGAGACAACAGCGTCCTCTTCAgtaagtttatcattcccatgtaactaatctttaatactctcaataggcag Alignment from CESAR GTACGAATAAGTAAGGAG-CAAGACCACATTATAATAATTCCCAGAGGCCTCTCTTTTTCTGAAGCGACAGCCTCCACTTTG tgatattgaggcagaagtgggtacttggcatctccattgtctgcctgcagGTCCGAATCAGTAAGGAACCAAGATCACATTATAATGATTCCT---GGACTG-TTTTTTCTGAGACAACAGCGTCCTCTTCAgtaagtttatcattcccatgtaactaatctttaatactctcaataggcag Alignment from Spaln_aa2Genome GTACGAATAAGTAAGGAGCAAGACCACATTATAATAATTCCCAGAGGCCTCTCTTTTTCTGAAGCGACAGCCTCCACTTTG tgatattgaggcagaagtgggtacttggcatctccattgtctgcctgcagGTCCGAATCAGTAAGGAACCAAGATCACATTATAATGATTCCTGGACTGTT---TTTTCTGAGACAACAGCGTCCTCTTCAgtaagtttatcattcccatgtaactaatctttaatactctcaataggcag Alignment from Spaln_nt2Genome GTACGAATAAGTAAGGAGC-AAGACCACATTATAATAATTCCCAGAGGCCTCTCTTTTTCTGAAGCGACAGCCTCCACTTTG tgatattgaggcagaagtgggtacttggcatctccattgtctgcctgcagGTCCGAATCAGTAAGGAACCAAGATCACATTATAATGATTCC---TGGACTGT-TTTTTCTGAGACAACAGCGTCCTCTTCAgtaagtttatcattcccatgtaactaatctttaatactctcaataggcag Alignment from Pairagon GTACGAATAAGTAAGGAG-CAAGACCACATTATAATAATTCCCAGAGGCCTCTCTTTTTCTGAAGCGACAGCCTCCACTTTG tgatattgaggcagaagtgggtacttggcatctccattgtctgcctgcagGTCCGAATCAGTAAGGAACCAAGATCACATTATAATGATTCCTGGA---CTGT-TTTTTCTGAGACAACAGCGTCCTCTTCAgtaagtttatcattcccatgtaactaatctttaatactctcaataggcag Alignment from Exonerate_protein2genome GTACGAATAAGTAAGGAGCAAGACCACATTATAATAATTCCCAGAGGCCTCTCTTTTTCTGAAGCGACAGCCTCCACTTTG tgatattgaggcagaagtgggtacttggcatctccattgtctgcctgcagGTCCGAATCAGTAAGGAA---CCAAGATCACATTATAATGATTCCTGGACTGTTTTTTCTGAGACAACAGCGTCCTCTTCAgtaagtttatcattcccatgtaactaatctttaatactctcaataggcag Alignment from Exonerate_coding2genome tgatattgaggcagaagtgggtacttggcatctccattgtctgcctgcaggtccgaatcagtaaggaaccaagatcacattataatgattcctggactgttttttctgagacaacagcgtcctcttcagtaagtttatcattcccatgtaactaatctttaatactctcaataggcag Alignment from GeneWise tgatattgaggcagaagtgggtacttggcatctccattgtctgcctgcaggtccgaatcagtaaggaaccaagatcacattataatgattcctggactgttttttctgagacaacagcgtcctcttcagtaagtttatcattcccatgtaactaatctttaatactctcaataggcag #### Adrbk1_ID485_10 --> 2 - 0 Original Alignment CATGAACg gtGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCT-GAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATggtaaccaagtctagagactgttgccttctgtttccttcttaggtGCAGAATTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCCGATATGTGTCTATATGCTGCTCGATATCATC------------CACATGCACAATCACT-TGTAGTTTTCAGGGATCTAAAGgtatgttagacttcctcacccctattctgctccttacaactcacagcaca Alignment from CESAR CATGAACg gtGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCT-GAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATggtgtgtaagtctagagactgttgccttctgtttccttcttaggtGCAGAATTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCCGATATGTGTCTATATGCTGCTCGATATCATC------------CACATGCACAATC-ACTTGTAGTTTTCAGGGATCTAAAGgtatgttagacttcctcacccctattctgctccttacaactcacagcaca Alignment from Spaln_aa2Genome CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGgtaaccaagtctagagactgttgccttctgtttccttcttagGTGCAGAATTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCCGATATGTGTCTATATGCTGCTCGATATCATCCA---------CATGCACAATCA---CTTGTAGTTTTCAGGGATCTAAAGgtatgttagacttcctcacccctattctgctccttacaactcacagcaca Alignment from Spaln_nt2Genome CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCT-GAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGgtaaccaagtctagagactgttgccttctgtttccttcttagGTGCAGAATTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCCGATATGTGTCTATATGCTGCTCGATATCATC------------CACATGCACAATCAC-TTGTAGTTTTCAGGGATCTAAAGgtatgttagacttcctcacccctattctgctccttacaactcacagcaca Alignment from Pairagon CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCT-GAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGgtaaccaagtctagagactgttgccttctgtttccttcttagGTGCAGAATTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCCGATATGTGTCTATATGCTGCTCGATATCATC------------CACATGCACAATCAC-TTGTAGTTTTCAGGGATCTAAAGgtatgttagacttcctcacccctattctgctccttacaactcacagcaca Alignment from Exonerate_protein2genome CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGgtaaccaagtctagagactgttgccttctgtttccttcttagGTGCAGAATTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCCGATATGTGTCTATATGCTGCTCGATAT---------CATCCACATGCACAATCA---CTTGTAGTTTTCAGGGATCTAAAGgtatgttagacttcctcacccctattctgctccttacaactcacagcaca Alignment from Exonerate_coding2genome CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGgtaaccaagtctagagactgttgccttctgtttccttcttagGTGCAGAATTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCCGATATGTGTCTATATGCTGCTCGATAT---------CATCCACATGCACAATCA---CTTGTAGTTTTCAGGGATCTAAAGgtatgttagacttcctcacccctattctgctccttacaactcacagcaca Alignment from GeneWise CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCAC---AATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGgtaaccaagtctagagactgttgccttctgtttccttcttagGTGCAGAATTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCCGATATGTGTCTATATGCTGCTCGATAT---------------CATCCACATGCACAATCACTTGTAGTTTTCAGGGATCTAAAGgtatgttagacttcctcacccctattctgctccttacaactcacagcaca #### Adrbk1_ID487_8 --> 1 - 0 Original Alignment gTACGCCATGAAGTGTCTG----GACAAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG gacctcatcgattgtgctgggttgcttacatttttgttttacttttttaggCATGCTAAGAGGTGTTTGGAACAACAAGAAACACATCAAGATGAAACAGGGAG-GACACTGGCCCTGAATACGCGGATTATGCTATCACTTGTGAGCACTGGGgtattccaagtggtcaggtggactcccacttagtttgccttctacaagtc Alignment from CESAR gTACGCCATGAAGTGTCTGGAC----AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG gacctcatcgattgtgctgggttgcttacatttttgttttacttttttaggCATGCTAAGAGGTGTTTGGAACAACAAGAAACACATCAAGATGAAACAGGGA-GGACACTGGCCCTGAATACGCGGATTATGCTATCACTTGTGAGCACTGGGgtattccaagtggtcaggtggactcccacttagtttgccttctacaagtc Alignment from Spaln_aa2Genome GTACGCCATGAAGTGTCTGGACAAGAAACGCATCAAGATGAAGCAG---GGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG gacctcatcgattgtgctgggttgcttacatttttgttttacttttttagGCATGCTAAGAGGTGTTTGGAACAACAAGAAACACATCAAGATGAAACAGGGAGGACACTGGCCCTGAATACGCGGATTATGCTATCACTTGTGAGCACTGGGgtattccaagtggtcaggtggactcccacttagtttgccttctacaagtc Alignment from Spaln_nt2Genome GTACGCCATGAAGTGTCTGGA----CAAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG gacctcatcgattgtgctgggttgcttacatttttgttttacttttttagGCATGCTAAGAGGTGTTTGGAACAACAAGAAACACATCAAGATGAAACAGGGAG-GACACTGGCCCTGAATACGCGGATTATGCTATCACTTGTGAGCACTGGGgtattccaagtggtcaggtggactcccacttagtttgccttctacaagtc Alignment from Pairagon GTACGCCATGAAGTGTCTGG----ACAAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG gacctcatcgattgtgctgggttgcttacatttttgttttacttttttagGCATGCTAAGAGGTGTTTGGAACAACAAGAAACACATCAAGATGAAACAGGGAG-GACACTGGCCCTGAATACGCGGATTATGCTATCACTTGTGAGCACTGGGgtattccaagtggtcaggtggactcccacttagtttgccttctacaagtc Alignment from Exonerate_protein2genome GTACGCCATGAAGTGTCTGGACAAGAAACGCATCAAGATGAAGCAG---GGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG gacctcatcgattgtgctgggttgcttacatttttgttttacttttttagGCATGCTAAGAGGTGTTTGGAACAACAAGAAACACATCAAGATGAAACAGGGAGGACACTGGCCCTGAATACGCGGATTATGCTATCACTTGTGAGCACTGGGgtattccaagtggtcaggtggactcccacttagtttgccttctacaagtc Alignment from Exonerate_coding2genome GTACGCCATGAAGTGTCTGGACAAGAAACGCATCAAGATGAAGCAG---GGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG gacctcatcgattgtgctgggttgcttacatttttgttttacttttttagGCATGCTAAGAGGTGTTTGGAACAACAAGAAACACATCAAGATGAAACAGGGAGGACACTGGCCCTGAATACGCGGATTATGCTATCACTTGTGAGCACTGGGgtattccaagtggtcaggtggactcccacttagtttgccttctacaagtc Alignment from GeneWise GTACGCCATGAAGTGTCTGGACAAGAAACGCATCAAGATGAAGCAG---GGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG gacctcatcgattgtgctgggttgcttacatttttgttttacttttttagGCATGCTAAGAGGTGTTTGGAACAACAAGAAACACATCAAGATGAAACAGGGAGGACACTGGCCCTGAATACGCGGATTATGCTATCACTTGTGAGCACTGGGgtattccaagtggtcaggtggactcccacttagtttgccttctacaagtc #### Adrbk1_ID491_4 --> 0 - 0 Original Alignment CCCTTTTCAAAGAAT-GCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG ccattccattttgcttgttcatgttcatttatttatttatctttatgcagCCCTTCTCCCAAAATCGCTGCAGAGCATGTGCAGGCCCACCTTGTGA-GAAGCAGGTCCCTCCAGATCTGTTTCAGgtaccattagggtgatcatcatggtattagacattggtaagatgttgctc Alignment from CESAR CCCTTTTCAAAGAAT-GCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG ccattccattttgcttgttcatgttcatttatttatttatctttatgcagCCCTTCTCCCAAAATCGCTGCAGAGCATGTGCAGGCCCACCTTGTGA-GAAGCAGGTCCCTCCAGATCTGTTTCAGgtaccattagggtgatcatcatggtattagacattggtaagatgttgctc Alignment from Spaln_aa2Genome CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG ccattccattttgcttgttcatgttcatttatttatttatctttatgcagCCCTTCTCCCAAAATCGCTGCAGAGCATGTGCAGGCCCACCTTGTGAGAAGCAGGTCCCTCCAGATCTGTTTCAGgtaccattagggtgatcatcatggtattagacattggtaagatgttgctc Alignment from Spaln_nt2Genome CCCTTTTCAAAGAAT-GCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG ccattccattttgcttgttcatgttcatttatttatttatctttatgcagCCCTTCTCCCAAAATCGCTGCAGAGCATGTGCAGGCCCACCTTGTG-AGAAGCAGGTCCCTCCAGATCTGTTTCAGgtaccattagggtgatcatcatggtattagacattggtaagatgttgctc Alignment from Pairagon CCCTTTTCAAAGAAT-GCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG ccattccattttgcttgttcatgttcatttatttatttatctttatgcagCCCTTCTCCCAAAATCGCTGCAGAGCATGTGCAGGCCCACCTTGTG-AGAAGCAGGTCCCTCCAGATCTGTTTCAGgtaccattagggtgatcatcatggtattagacattggtaagatgttgctc Alignment from Exonerate_protein2genome CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG ccattccattttgcttgttcatgttcatttatttatttatctttatgcagCCCTTCTCCCAAAATCGCTGCAGAGCATGTGCAGGCCCACCTTGTGAGAAGCAGGTCCCTCCAGATCTGTTTCAGgtaccattagggtgatcatcatggtattagacattggtaagatgttgctc Alignment from Exonerate_coding2genome ccattccattttgcttgttcatgttcatttatttatttatctttatgcagcccttctcccaaaatcgctgcagagcatgtgcaggcccaccttgtgagaagcaggtccctccagatctgtttcaggtaccattagggtgatcatcatggtattagacattggtaagatgttgctc Alignment from GeneWise CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG ccattccattttgcttgttcatgttcatttatttatttatctttatgcagCCCTTCTCCCAAAATCGCTGCAGAGCATGTGCAGGCCCACCTTGTGAGAAGCAGGTCCCTCCAGATCTGTTTCAGgtaccattagggtgatcatcatggtattagacattggtaagatgttgctc #### Adrbk1_ID492_3 --> 0 - 0 Original Alignment ATCAAGAAATAT-GAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccacacacagccagcctcatacagtgacgagcatttgtccttacttgcagATTAAAAAATATCGCAAAGCTGGAGACAGAGGAGGAGTGTGTTGTCC-CAGCCGAGAGATCTTTGAGTCCTACATTATGAAGGAGCTACTTGCATGCTCACATgtgattgctgaatccatccaatgctcctagacatgtgggcttaaagggac Alignment from CESAR ATCAAGAAATAT-GAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccacacacagccagcctcatacagtgacgagcatttgtccttacttgcagATTAAAAAATATCGCAAAGCTGGAGACAGAGGAGGAGTGTGTTGTC-CCAGCCGAGAGATCTTTGAGTCCTACATTATGAAGGAGCTACTTGCATGCTCACATgtgattgctgaatccatccaatgctcctagacatgtgggcttaaagggac Alignment from Spaln_aa2Genome ATCAAGAAATAT-GAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccacacacagccagcctcatacagtgacgagcatttgtccttacttgcagATTAAAAAATATcGCAAAGCTGGAGACAGAGGAGGAGTGTGTTGTCCC-AGCCGAGAGATCTTTGAGTCCTACATTATGAAGGAGCTACTTGCATGCTCACATgtgattgctgaatccatccaatgctcctagacatgtgggcttaaagggac Alignment from Spaln_nt2Genome ATCAAGAAATAT-GAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccacacacagccagcctcatacagtgacgagcatttgtccttacttgcagATTAAAAAATATCGCAAAGCTGGAGACAGAGGAGGAGTGTGTTGTCC-CAGCCGAGAGATCTTTGAGTCCTACATTATGAAGGAGCTACTTGCATGCTCACATgtgattgctgaatccatccaatgctcctagacatgtgggcttaaagggac Alignment from Pairagon ATCAAGAAATAT-GAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccacacacagccagcctcatacagtgacgagcatttgtccttacttgcagATTAAAAAATATCGCAAAGCTGGAGACAGAGGAGGAGTGTGTTGTCC-CAGCCGAGAGATCTTTGAGTCCTACATTATGAAGGAGCTACTTGCATGCTCACATgtgattgctgaatccatccaatgctcctagacatgtgggcttaaagggac Alignment from Exonerate_protein2genome ATCAAGAAATATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccacacacagccagcctcatacagtgacgagcatttgtccttacttgcagATTAAAAAATATCGCAAAGCTGGAGACAGAGGAGGAGTGTGTTGTCCCAGCCGAGAGATCTTTGAGTCCTACATTATGAAGGAGCTACTTGCATGCTCACATgtgattgctgaatccatccaatgctcctagacatgtgggcttaaagggac Alignment from Exonerate_coding2genome ATCAAGAAATATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccacacacagccagcctcatacagtgacgagcatttgtccttacttgcagATTAAAAAATATCGCAAAGCTGGAGACAGAGGAGGAGTGTGTTGTCCCAGCCGAGAGATCTTTGAGTCCTACATTATGAAGGAGCTACTTGCATGCTCACATgtgattgctgaatccatccaatgctcctagacatgtgggcttaaagggac Alignment from GeneWise ATCAAGAAATATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccacacacagccagcctcatacagtgacgagcatttgtccttacttgcagATTAAAAAATATCGCAAAGCTGGAGACAGAGGAGGAGTGTGTTGTCCCAGCCGAGAGATCTTTGAGTCCTACATTATGAAGGAGCTACTTGCATGCTCACATgtgattgctgaatccatccaatgctcctagacatgtgggcttaaagggac #### Afap1l2_ID12247_16 --> 0 - 1 Original Alignment AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACC-ATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAg tgctctttaaaccacctggagccaaatcctaaccattcctgtgctctcagAGGCAGCCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCACGGAGCACTATTGTTAAGTTGCAT---GATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGATACACATGGCTTCCACCCCCATTTCTGCAAGCGCGCCTG-GAAAGAGAAGTTAAGAGTTACTGGTGCAggtacggggactgagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from CESAR AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACC-ATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAg tgctctttaaaccacctggagccaaatcctaaccattcctgtgctctcagAGGCAGCCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCACGGAGCACTATTGTTAAGTTGCAT---GATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGATACACATGGCTTCCACCCCCATTTCTGCAAGCGCGCCT-GGAAAGAGAAGTTAAGAGTTACTGGTGCAggtacggggactgagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from Spaln_aa2Genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tgctctttaaaccacctggagccaaatcctaaccattcctgtgctctcagAGGCAGCCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCACGGAGCACTATTGTTAAGTTGCAT---GATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGATACACATGGCTTCCACCCCCATTTCTGCAAGCGCGCCTGGAAAGAGAAGTTAAGAGTTACTGGTGCAGgtacggggactgagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from Spaln_nt2Genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACAC-CATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tgctctttaaaccacctggagccaaatcctaaccattcctgtgctctcagAGGCAGCCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCACGGAGCACTATTGTTAAGTTGCA---TGATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGATACACATGGCTTCCACCCCCATTTCTGCAAGCGCGCCTG-GAAAGAGAAGTTAAGAGTTACTGGTGCAGgtacggggactgagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from Pairagon AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACAC-CATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tgctctttaaaccacctggagccaaatcctaaccattcctgtgctctcagAGGCAGCCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCACGGAGCACTATTGTTAAGTTGCA---TGATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGATACACATGGCTTCCACCCCCATTTCTGCAAGCGCGCCTG-GAAAGAGAAGTTAAGAGTTACTGGTGCAGgtacggggactgagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from Exonerate_protein2genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tgctctttaaaccacctggagccaaatcctaaccattcctgtgctctcagAGGCAGCCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCACGGAGCACTATTGTTAAGTTGCAT---GATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGATACACATGGCTTCCACCCCCATTTCTGCAAGCGCGCCTGGAAAGAGAAGTTAAGAGTTACTGGTGCAGgtacggggactgagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from Exonerate_coding2genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tgctctttaaaccacctggagccaaatcctaaccattcctgtgctctcagAGGCAGCCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCACGGAGCACTATTGTTAAGTTGCAT---GATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGATACACATGGCTTCCACCCCCATTTCTGCAAGCGCGCCTGGAAAGAGAAGTTAAGAGTTACTGGTGCAGgtacggggactgagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from GeneWise AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tgctctttaaaccacctggagccaaatcctaaccattcctgtgctctcagAGGCAGCCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCACGGAGCACTATTGTTAAGTTGCAT---GATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGATACACATGGCTTCCACCCCCATTTCTGCAAGCGCGCCTGGAAAGAGAAGTTAAGAGTTACTGGTGCAGgtacggggactgagctttgttgctgtagtttgcttgtattgctgagttgg #### Aip_ID330_5 --> 0 - 1 Original Alignment GAGCAGCCTGGCTCACCTGAC-TGGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATg gctgccatcgctgcagctgaaactgaccttcactctgccttccattgcagGAGCAGGCTGGCTCATCTGACCTGGGTCCAGTTAGACCTGCAGATCACACCACTGCTACCCA-TTATTGCCAGTGCAAGCTGGTAGCTCCAGGGTATTATGAAGTATTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTggtaagggtcatgcccaatacatgcccaatacaacccagacttcccataag Alignment from CESAR GAGCAGCCTGGCTCACCTGAC-TGGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATg gctgccatcgctgcagctgaaactgaccttcactctgccttccattgcagGAGCAGGCTGGCTCATCTGACCTGGGTCCAGTTAGACCTGCAGATCACACCACTGCTA-CCCATTATTGCCAGTGCAAGCTGGTAGCTCCAGGGTATTATGAAGTATTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTggtaagggtcatgcccaatacatgcccaatacaacccagacttcccataag Alignment from Spaln_aa2Genome GAGCAGCCTGGCTCACCTGAC-TGGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG gctgccatcgctgcagctgaaactgaccttcactctgccttccattgcagGAGCAGGCTGGCTCATCTGACcTGGGTCCAGTTAGACCTGCAGATCACACCACTGCTACC-CATTATTGCCAGTGCAAGCTGGTAGCTCCAGGGTATTATGAAGTATTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtaagggtcatgcccaatacatgcccaatacaacccagacttcccataag Alignment from Spaln_nt2Genome GAGCAGCCTGGCTCACCTGAC-TGGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG gctgccatcgctgcagctgaaactgaccttcactctgccttccattgcagGAGCAGGCTGGCTCATCTGACCTGGGTCCAGTTAGACCTGCAGATCACACCACTGCTAC-CCATTATTGCCAGTGCAAGCTGGTAGCTCCAGGGTATTATGAAGTATTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtaagggtcatgcccaatacatgcccaatacaacccagacttcccataag Alignment from Pairagon GAGCAGCCTGGCTCACCTGA-CTGGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG gctgccatcgctgcagctgaaactgaccttcactctgccttccattgcagGAGCAGGCTGGCTCATCTGACCTGGGTCCAGTTAGACCTGCAGATCACACCACTGCTACCC-ATTATTGCCAGTGCAAGCTGGTAGCTCCAGGGTATTATGAAGTATTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtaagggtcatgcccaatacatgcccaatacaacccagacttcccataag Alignment from Exonerate_protein2genome GAGCAGCCTGGCTCACCTGAC-TGGATCCAGTTGGACCTGCAGATCACACCACTGCTA--CTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG gctgccatcgctgcagctgaaactgaccttcactctgccttccattgcagGAGCAGGCTGGCTCATCTGACCTGGGTCCAGTTAGACCTGCAGATCACACCACTGCTACC---CATTATTGCCAGTGCAAGCTGGTAGCTCCAGGGTATTATGAAGTATTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtaagggtcatgcccaatacatgcccaatacaacccagacttcccataag Alignment from Exonerate_coding2genome GAGCAGCCTGGCTCACCTGAC-TGGATCCAGTTGGACCTGCAGATCACACCACTGCTA--CTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG gctgccatcgctgcagctgaaactgaccttcactctgccttccattgcagGAGCAGGCTGGCTCATCTGACCTGGGTCCAGTTAGACCTGCAGATCACACCACTGCTACC---CATTATTGCCAGTGCAAGCTGGTAGCTCCAGGGTATTATGAAGTATTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtaagggtcatgcccaatacatgcccaatacaacccagacttcccataag Alignment from GeneWise ---------------------------------------------------GAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG GCTGCCATCGCTGCAGCTGAAACTGACCTTCACTCTGCCTTCCATTGCAGGAGCAGGCTGGCTCATCTGACCTGGGTCCAGTTAGACCTGCAGATCACACCACTGCTACC-CATTATTGCCAGTGCAAGCTGGTAGCTCCAGGGTATTATGAAGTATTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtaagggtcatgcccaatacatgcccaatacaacccagacttcccataag #### Aldh3b1_ID204_3 --> 0 - 1 Original Alignment GCTACACAGCTG-GACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAg atatttagagtccccctcaggaccacattgtcttgttttcttccaaacagGCTACAATGTTGCGATGCCACATTCATCAGGAAGGAACCCTTTGGGCTGG-GCTAATCATTGTGCCCTGGAATTACCCCATCAACTTGATGCTTGTGCCACTGGTGGGTGCTGTAGCTGCAggtaagtaggttttaaccttttcgctgaggcttctgcctttgtcgtgtagt Alignment from CESAR GCTACACAGCTG-GACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAg atatttagagtccccctcaggaccacattgtcttgttttcttccaaacagGCTACAATGTTGCGATGCCACATTCATCAGGAAGGAACCCTTTGGGCTG-GGCTAATCATTGTGCCCTGGAATTACCCCATCAACTTGATGCTTGTGCCACTGGTGGGTGCTGTAGCTGCAggtaagtaggttttaaccttttcgctgaggcttctgcctttgtcgtgtagt Alignment from Spaln_aa2Genome GCTACACAGCTG-GACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG atatttagagtccccctcaggaccacattgtcttgttttcttccaaacagGCTACAATGTTGcGATGCCACATTCATCAGGAAGGAACCCTTTGGGCTGGG-CTAATCATTGTGCCCTGGAATTACCCCATCAACTTGATGCTTGTGCCACTGGTGGGTGCTGTAGCTGCAGgtaagtaggttttaaccttttcgctgaggcttctgcctttgtcgtgtagt Alignment from Spaln_nt2Genome GCTACACAGCTG-GACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG atatttagagtccccctcaggaccacattgtcttgttttcttccaaacagGCTACAATGTTGCGATGCCACATTCATCAGGAAGGAACCCTTTGGGCTGG-GCTAATCATTGTGCCCTGGAATTACCCCATCAACTTGATGCTTGTGCCACTGGTGGGTGCTGTAGCTGCAGgtaagtaggttttaaccttttcgctgaggcttctgcctttgtcgtgtagt Alignment from Pairagon GCTA--------------CACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG atatttagagtccccctcaggaccacattgtcttgttttcttccaaacagGCTACAATGTTGCGATGCCACA-------------TTCATCAGGAAGGAACCCTTTGGGCTGG-GCTAATCATTGTGCCCTGGAATTACCCCATCAACTTGATGCTTGTGCCACTGGTGGGTGCTGTAGCTGCAGgtaagtaggttttaaccttttcgctgaggcttctgcctttgtcgtgtagt Alignment from Exonerate_protein2genome GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG atatttagagtccccctcaggaccacattgtcttgttttcttccaaacagGCTACAATGTTGCGATGCCACATTCATCAGGAAGGAACCCTTTGGGCTGGGCTAATCATTGTGCCCTGGAATTACCCCATCAACTTGATGCTTGTGCCACTGGTGGGTGCTGTAGCTGCAGgtaagtaggttttaaccttttcgctgaggcttctgcctttgtcgtgtagt Alignment from Exonerate_coding2genome GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG atatttagagtccccctcaggaccacattgtcttgttttcttccaaacagGCTACAATGTTGCGATGCCACATTCATCAGGAAGGAACCCTTTGGGCTGGGCTAATCATTGTGCCCTGGAATTACCCCATCAACTTGATGCTTGTGCCACTGGTGGGTGCTGTAGCTGCAGgtaagtaggttttaaccttttcgctgaggcttctgcctttgtcgtgtagt Alignment from GeneWise GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG atatttagagtccccctcaggaccacattgtcttgttttcttccaaacagGCTACAATGTTGCGATGCCACATTCATCAGGAAGGAACCCTTTGGGCTGGGCTAATCATTGTGCCCTGGAATTACCCCATCAACTTGATGCTTGTGCCACTGGTGGGTGCTGTAGCTGCAGgtaagtaggttttaaccttttcgctgaggcttctgcctttgtcgtgtagt #### Aldh3b2_ID237_3 --> 0 - 0 Original Alignment TCAGGCTTCGAGTCAGACATGAGTGAGATCATCCTGTGCGAGAATGAG-GTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG tggtttctggtggtaaactgagtctgtatcttattttgccttcactctagTCTGGCTTTGAGTCAGACATGAGTGAGGTTTTTCTGTGTGAGAATGAGCGTGGACTTGGCCCTGAAGAATTTGCAGACGTGGA-GAAGGATGAACCTGTACCCACAAATTTAgtgaggcctgttggtgtactgtagctgcccccattcagatcctacccttg Alignment from CESAR TCAGGCTTCGAGTCAGACATGAGTGAGATCATCCTGTGCGAGAATGAG-GTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG tggtttctggtggtaaactgagtctgtatcttattttgccttcactctagTCTGGCTTTGAGTCAGACATGAGTGAGGTTTTTCTGTGTGAGAATGAGCGTGGACTTGGCCCTGAAGAATTTGCAGACGTGG-AGAAGGATGAACCTGTACCCACAAATTTAgtgaggcctgttggtgtactgtagctgcccccattcagatcctacccttg Alignment from Spaln_aa2Genome TCAGGCTTCGAGTCAGACATGAGTGAGATCATCCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG tggtttctggtggtaaactgagtctgtatcttattttgccttcactctagTCTGGCTTTGAGTCAGACATGAGTGAGGTTTTTCTGTGTGAGAATGAGCGTGGACTTGGCCCTGAAGAATTTGCAGACGTGGAGAAGGATGAACCTGTACCCACAAATTTAgtgaggcctgttggtgtactgtagctgcccccattcagatcctacccttg Alignment from Spaln_nt2Genome TCAGGCTTCGAGTCAGACATGAGTGAGATCATCCTGTGCGAGAATGAG-GTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG tggtttctggtggtaaactgagtctgtatcttattttgccttcactctagTCTGGCTTTGAGTCAGACATGAGTGAGGTTTTTCTGTGTGAGAATGAGCGTGGACTTGGCCCTGAAGAATTTGCAGACGTGGA-GAAGGATGAACCTGTACCCACAAATTTAgtgaggcctgttggtgtactgtagctgcccccattcagatcctacccttg Alignment from Pairagon TCAGGCTTCGAGTCAGACATGAGTGAGATCATCCTGTGCGAGAATGAG-GTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG tggtttctggtggtaaactgagtctgtatcttattttgccttcactctagTCTGGCTTTGAGTCAGACATGAGTGAGGTTTTTCTGTGTGAGAATGAGCGTGGACTTGGCCCTGAAGAATTTGCAGACGTGGA-GAAGGATGAACCTGTACCCACAAATTTAgtgaggcctgttggtgtactgtagctgcccccattcagatcctacccttg Alignment from Exonerate_protein2genome TCAGGCTTCGAGTCAGACATGAGTGAGATCATCCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG tggtttctggtggtaaactgagtctgtatcttattttgccttcactctagTCTGGCTTTGAGTCAGACATGAGTGAGGTTTTTCTGTGTGAGAATGAGCGTGGACTTGGCCCTGAAGAATTTGCAGACGTGGAGAAGGATGAACCTGTACCCACAAATTTAgtgaggcctgttggtgtactgtagctgcccccattcagatcctacccttg Alignment from Exonerate_coding2genome tggtttctggtggtaaactgagtctgtatcttattttgccttcactctagtctggctttgagtcagacatgagtgaggtttttctgtgtgagaatgagcgtggacttggccctgaagaatttgcagacgtggagaaggatgaacctgtacccacaaatttagtgaggcctgttggtgtactgtagctgcccccattcagatcctacccttg Alignment from GeneWise TCAGGCTTCGAGTCAGACATGAGTGAGATCATCCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGACGAGCCTGTGTCCACCAACTTG tggtttctggtggtaaactgagtctgtatcttattttgccttcactctagTCTGGCTTTGAGTCAGACATGAGTGAGGTTTTTCTGTGTGAGAATGAGCGTGGACTTGGCCCTGAAGAATTTGCAGACGTGGAGAAGGATGAACCTGTACCCACAAATTTAgtgaggcctgttggtgtactgtagctgcccccattcagatcctacccttg #### Aldh3b2_ID238_4 --> 0 - 1 Original Alignment CTCACCAAGCTGAGCTCAGCCTTC-ATCCGGAAAGAGCCCTTTGGCCTG---GTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg ttaagagtctactgttcaatttaccacattttcatttccttttctgaaagCTGACAAAGCTTAGCTCCGCTTTCCATCCGAAAAGAGCCCTTTGGTCTAGTTCTTCTAA-TATTGCACCTTGGAACTATCCTGTAAACTTGATGATCATCCCTCAGGTGGGAGCCATTGCTGCAggtgagtgaaatattatggccacccatctagaagagtatgccctgagggta Alignment from CESAR CTCACCAAGCTGAGCTCAGCCTTC-ATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATC--ATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg ttaagagtctactgttcaatttaccacattttcatttccttttctgaaagCTGACAAAGCTTAGCTCCGCTTTCCATCCGAAAAGAGCCCTTTGGTCTAGTTCTTCTAATATTGCACCTTGGAACTATCCTGTAAACTTGATGATCATCCCTCAGGTGGGAGCCATTGCTGCAggtgagtgaaatattatggccacccatctagaagagtatgccctgagggta Alignment from Spaln_aa2Genome GCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATC--ATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ttaagagtctactgttcaatttaccacattttcatttccttttctgaaagctgacaaagcttagCTCCGCTTTCCATCCGAAAAGAGCCCTTTGGTCTAGTTCTTCTAatATTGCACCTTGGAACTATCCTGTAAACTTGATGATCATCCCTCAGGTGGGAGCCATTGCTGCAGgtgagtgaaatattatggccacccatctagaagagtatgccctgagggta Alignment from Spaln_nt2Genome CTCACCAAGCTGAGCTCAGCCTTC-ATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCAT--TGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ttaagagtctactgttcaatttaccacattttcatttccttttctgaaagCTGACAAAGCTTAGCTCCGCTTTCCATCCGAAAAGAGCCCTTTGGTCTAGTTCTTCTAATATTGCACCTTGGAACTATCCTGTAAACTTGATGATCATCCCTCAGGTGGGAGCCATTGCTGCAGgtgagtgaaatattatggccacccatctagaagagtatgccctgagggta Alignment from Pairagon CTCACCAAGCTGAGCTCAGCCTT-CATCCGGAAAGAGCCCTTTGGCCTGGTGCTTAT--CATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ttaagagtctactgttcaatttaccacattttcatttccttttctgaaagCTGACAAAGCTTAGCTCCGCTTTCCATCCGAAAAGAGCCCTTTGGTCTAGTTCTTCTAATATTGCACCTTGGAACTATCCTGTAAACTTGATGATCATCCCTCAGGTGGGAGCCATTGCTGCAGgtgagtgaaatattatggccacccatctagaagagtatgccctgagggta Alignment from Exonerate_protein2genome CTCACCAAGCTGAGCTCAGCCTTC-ATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATC--ATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ttaagagtctactgttcaatttaccacattttcatttccttttctgaaagCTGACAAAGCTTAGCTCCGCTTTCCATCCGAAAAGAGCCCTTTGGTCTAGTTCTTCTAATATTGCACCTTGGAACTATCCTGTAAACTTGATGATCATCCCTCAGGTGGGAGCCATTGCTGCAGgtgagtgaaatattatggccacccatctagaagagtatgccctgagggta Alignment from Exonerate_coding2genome CTCACCAAGCTGAGCTCAGCCTTC-ATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATC--ATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAGGAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAG ttaagagtctactgttcaatttaccacattttcatttccttttctgaaagCTGACAAAGCTTAGCTCCGCTTTCCATCCGAAAAGAGCCCTTTGGTCTAGTTCTTCTAATATTGCACCTTGGAACTATCCTGTAAACTTGATGATCATCCCTCAGGTGGGAGCCATTGCTGCAGGTGAGTGAAATATTATGGCCACCCATCTAGAAGAGTATGCCCTGAGGgta Alignment from GeneWise CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCC---TTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ttaagagtctactgttcaatttaccacattttcatttccttttctgaaagCTGACAAAGCTTAGCTCCGCTTTCCATCCGAAAAGAGCCCTTTGGTCTAGTTCTTCTAATATTGCACCTTGGAACTATCCTGTAAACTTGATGATCATCCCTCAGGTGGGAGCCATTGCTGCAGgtgagtgaaatattatggccacccatctagaagagtatgccctgagggta #### Aldh3b2_ID239_5 --> 2 - 0 Original Alignment gaAACTGTGTGGTGCTGAAGCCATCAGAAATTAGC-AAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG AGCTGCT agcatacaagccgtagctgtttttccacgtttttctttttaaacgtctaggaAATTGTGTGGTATTGAGGCCATCTGATATTAGTCAAGAACACGGAA---ATGCAGGCAGAGCTACTG---CGGCATCTCGATCAGgtagggctgattgtgcaagttccctgttctcccctccccttagAGCTGTT Alignment from CESAR gaAACTGTGTGGTGCTGAAGCCATCAGAAATTAGC-AAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG AGCTGCT agcatacaagccgtagctgtttttccacgtttttctttttaaacgtctaggaAATTGTGTGGTATTGAGGCCATCTGATATTAGTCAAGAACACGGAA---ATGCAGGCAGAGCTACTG---CGGCATCTCGATCAGgtagggctgattgtgcaagttctttttgtctctgcctctttagAGCTGTT Alignment from Spaln_aa2Genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGC-AAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG AGCTGCT agcatacaagccgtagctgtttttccacgtttttctttttaaacgtctagGAAATTGTGTGGTATTGAGGCCATCTGATATTAGTcAAGAACACGGAA---ATGCAGGCAGAGCTACTG---CGGCATCTCGATCAGgtagggctgattgtgcaagttccctgttctcccctccccttagAGCTGTT Alignment from Spaln_nt2Genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAG-CAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG AGCTGCT agcatacaagccgtagctgtttttccacgtttttctttttaaacgtctagGAAATTGTGTGGTATTGAGGCCATCTGATATTAGTCAAGAACACGGAAA---TGCAGGCAGAGCTACTG---CGGCATCTCGATCAGgtagggctgattgtgcaagttccctgttctcccctccccttagAGCTGTT Alignment from Pairagon GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAG-CAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG AGCTGCT agcatacaagccgtagctgtttttccacgtttttctttttaaacgtctagGAAATTGTGTGGTATTGAGGCCATCTGATATTAGTCAAGAACACGGAAA---TGCAGGCAGAGCTACTG---CGGCATCTCGATCAGgtagggctgattgtgcaagttccctgttctcccctccccttagAGCTGTT Alignment from Exonerate_protein2genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGC-AAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG AGCTGCT agcatacaagccgtagctgtttttccacgtttttctttttaaacgtctagGAAATTGTGTGGTATTGAGGCCATCTGATATTAGTCAAGAACACGGAA---ATGCAGGCAGAGCTACTG---CGGCATCTCGATCAGgtagggctgattgtgcaagttccctgttctcccctccccttagAGCTGTT Alignment from Exonerate_coding2genome AGCTGCT agcatacaagccgtagctgtttttccacgtttttctttttaaacgtctaggaaattgtgtggtattgaggccatctgatattagtcaagaacacggaaatgcaggcagagctactgcggcatctcgatcaggtagggctgattgtgcaagttccctgttctcccctccccttagAGCTGTT Alignment from GeneWise AGCTGCT agcatacaagccgtagctgtttttccacgtttttctttttaaacgtctaggaaattgtgtggtattgaggccatctgatattagtcaagaacacggaaatgcaggcagagctactgcggcatctcgatcaggtagggctgattgtgcaagttccctgttctcccctccccttagAGCTGTT #### Aldh3b2_ID242_8 --> 2 - 0 Original Alignment ccCCCACAGTGCTGGTAGACGTGCAGGAGACA-GAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG ctctatggtcaatcctctgcatgtcgctcatgatctctttctcttgccagccCCTACAGATCTAGTAGATGTCCATGCAACACGAACCCCTTATGCAAGAGGAGATATTTGGGCCCATCC-TCCTTTAGTGACTGTAAGAAGTTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAGCCTCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtaatgtggtggtgagacaataattagcctacaaacagtaaatcaaggtg Alignment from CESAR ccCCCACAGTGCTGGTAGACGTGCAGGAGACA-GAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG ctctatggtcaatcctctgcatgtcgctcatgatctctttctcttgccagccCCTACAGATCTAGTAGATGTCCATGCAACACGAACCCCTTATGCAAGAGGAGATATTTGGGCCCATCC-TCCTTTAGTGACTGTAAGAAGTTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAGCCTCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtaatgtggtggtgagacaataattagcctacaaacagtaaatcaaggtg Alignment from Spaln_aa2Genome CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG ctctatggtcaatcctctgcatgtcgctcatgatctctttctcttgccagCCCCTACAGATCTAGTAGATGTCCATGCAACACGAACCCCTTATGCAAGAGGAGATATTTGGGCCCATCCTCCTTTAGTGACTGTAAGAAGTTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAGCCTCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtaatgtggtggtgagacaataattagcctacaaacagtaaatcaaggtg Alignment from Spaln_nt2Genome CCCCCACAGTGCTGGTAGACGTGCAGGAGACA-GAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG ctctatggtcaatcctctgcatgtcgctcatgatctctttctcttgccagCCCCTACAGATCTAGTAGATGTCCATGCAACACGAACCCCTTATGCAAGAGGAGATATTTGGGCCCATCCT-CCTTTAGTGACTGTAAGAAGTTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAGCCTCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtaatgtggtggtgagacaataattagcctacaaacagtaaatcaaggtg Alignment from Pairagon CCCCCACAGTGCTGGTAGACGTGCAGGAGACA-GAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG ctctatggtcaatcctctgcatgtcgctcatgatctctttctcttgccagCCCCTACAGATCTAGTAGATGTCCATGCAACACGAACCCCTTATGCAAGAGGAGATATTTGGGCCCATCCT-CCTTTAGTGACTGTAAGAAGTTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAGCCTCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtaatgtggtggtgagacaataattagcctacaaacagtaaatcaaggtg Alignment from Exonerate_protein2genome CCCCCACAGTGCTGGTAGACGTGCAGGAGACA-GAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATC--CTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG ctctatggtcaatcctctgcatgtcgctcatgatctctttctcttgccagCCCCTACAGATCTAGTAGATGTCCATGCAACACGAACCCCTTATGCAAGAGGAGATATTTGGGCCCATCCT---CCTTTAGTGACTGTAAGAAGTTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAGCCTCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtaatgtggtggtgagacaataattagcctacaaacagtaaatcaaggtg Alignment from Exonerate_coding2genome CCCCCACAGTGCTGGTAGACGTGCAGGAGACA-GAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATC--CTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG ctctatggtcaatcctctgcatgtcgctcatgatctctttctcttgccagCCCCTACAGATCTAGTAGATGTCCATGCAACACGAACCCCTTATGCAAGAGGAGATATTTGGGCCCATCCT---CCTTTAGTGACTGTAAGAAGTTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAGCCTCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtaatgtggtggtgagacaataattagcctacaaacagtaaatcaaggtg Alignment from GeneWise CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAG---CCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG ctctatggtcaatcctctgcatgtcgctcatgatctctttctcttgccagCCCCTACAGATCTAGTAGATGTCCATGCAACACGAACCCCTTATGCAAGAGGAGATATTTGGGCCCATCCT---CCTTTAGTGACTGTAAGAAGTTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAGCCTCTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtaatgtggtggtgagacaataattagcctacaaacagtaaatcaaggtg #### Ankrd13d_ID460_13 --> 2 - 0 Original Alignment gaAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTG-CTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG cccatctggctttctgtcaaacctttgtttccttttccttctacttgaagggGGCCTTTATCCTTGTGAGGTAGATTCCACGGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAAGACGATGAGCTTCCTGCAGTTTGCTATCCAGCAAAGCCTCCTAGAGGCAG-AATACAGGCAGAGCAGgtaagcagtgatatagttagtatgaccttaatgcctcaggcccatgggga Alignment from CESAR gaAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTG-CTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG cccatctggctttctgtcaaacctttgtttccttttccttctacttgaagggGGCCTTTATCCTTGTGAGGTAGATTCCACGGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAAGACGATGAGCTTCCTGCAGTTTGCTATCCAGCAAAGCCTCCTAGAGGCA-GAATACAGGCAGAGCAGgtaagcagtgatatagttagtatgaccttaatgcctcaggcccatgggga Alignment from Spaln_aa2Genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTG-CTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG cccatctggctttctgtcaaacctttgtttccttttccttctacttgaagGGGGCCTTTATCCTTGTGAGGTAGATTCCACGGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAAGACGATGAGCTTcCTGCAGTTTGCTATCCAGCAAAGCCTCCTAGAGGCAGA-ATACAGGCAGAGCAGgtaagcagtgatatagttagtatgaccttaatgcctcaggcccatgggga Alignment from Spaln_nt2Genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGC-TGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG cccatctggctttctgtcaaacctttgtttccttttccttctacttgaagGGGGCCTTTATCCTTGTGAGGTAGATTCCACGGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAAGACGATGAGCTTCCTGCAGTTTGCTATCCAGCAAAGCCTCCTAGAGGCA-GAATACAGGCAGAGCAGgtaagcagtgatatagttagtatgaccttaatgcctcaggcccatgggga Alignment from Pairagon GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGA-CCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG cccatctggctttctgtcaaacctttgtttccttttccttctacttgaagGGGGCCTTTATCCTTGTGAGGTAGATTCCACGGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAAGACGATGAGCTTCCTGCAGTTTGCTATCCAGCAAAGCCTCCTAGAGGCAGA-ATACAGGCAGAGCAGgtaagcagtgatatagttagtatgaccttaatgcctcaggcccatgggga Alignment from Exonerate_protein2genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTG-CTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCA cccatctggctttctgtcaaacctttgtttccttttccttctacttgaagGGGGCCTTTATCCTTGTGAGGTAGATTCCACGGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAAGACGATGAGCTTCCTGCAGTTTGCTATCCAGCAAAGCCTCCTAGAGGCAGAATACAGGCAGAGCAGgtaagcagtgatatagttagtatgaccttaatgcctcaggcccatgggga Alignment from Exonerate_coding2genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTG-CTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCA cccatctggctttctgtcaaacctttgtttccttttccttctacttgaagGGGGCCTTTATCCTTGTGAGGTAGATTCCACGGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAAGACGATGAGCTTCCTGCAGTTTGCTATCCAGCAAAGCCTCCTAGAGGCAGAATACAGGCAGAGCAGgtaagcagtgatatagttagtatgaccttaatgcctcaggcccatgggga Alignment from GeneWise GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAGGTGACG-------------------------------------------- cccatctggctttctgtcaaacctttgtttccttttccttctacttgaagGGGGCCTTTATCCTTGTGAGGTAGATTCCACGGTGTTTGAGGCATCTGAGGGATACAGTGCCTTAGGTGCCAAGCACAGTGAGCCTCTCCAGGATAAAGACGATGAGCTTCCTGCAGTTTGCTATCCAGCAAAGCCTCCTAGAGGCAGAATACAGGCAGAGCAGGTAAGCAGTGATATAGTTAGTATGACCTTAATGCCTCAGGCCCATGGGGA #### Ankrd13d_ID465_8 --> 0 - 1 Original Alignment GTGTACAGTGCCACCAATGTGGAG-CTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAg cttacatcactctgctgtccactcagtcatattgttctgtcttccttaagGTATACAGTGCTACGAATGTTGAGCCTGGTAACACGCACAAGAACAGAACATCTCT-TGACCAGGACAAGTTAAGGAACAAAggtgagtccacttgctgcaggattctggttgagccccctaggcgatgtacc Alignment from CESAR GTGTACAGTGCCACCAATGTGGAG-CTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAg cttacatcactctgctgtccactcagtcatattgttctgtcttccttaagGTATACAGTGCTACGAATGTTGAGCCTGGTAACACGCACAAGAACAGAACATCTC-TTGACCAGGACAAGTTAAGGAACAAAggtgagtccacttgctgcaggattctggttgagccccctaggcgatgtacc Alignment from Spaln_aa2Genome GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG cttacatcactctgctgtccactcagtcatattgttctgtcttccttaagGTATACAGTGCTACGAATGTTGAGCCTGGTAACACGCACAAGAACAGAACATCTCTTGACCAGGACAAGTTAAGGAACAAAGgtgagtccacttgctgcaggattctggttgagccccctaggcgatgtacc Alignment from Spaln_nt2Genome GTGTACAGTGCCACCAATGTGGAGC-TGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG cttacatcactctgctgtccactcagtcatattgttctgtcttccttaagGTATACAGTGCTACGAATGTTGAGCCTGGTAACACGCACAAGAACAGAACATCTCT-TGACCAGGACAAGTTAAGGAACAAAGgtgagtccacttgctgcaggattctggttgagccccctaggcgatgtacc Alignment from Pairagon GTGTACAGTGCCACCAATGTGGAG-CTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG cttacatcactctgctgtccactcagtcatattgttctgtcttccttaagGTATACAGTGCTACGAATGTTGAGCCTGGTAACACGCACAAGAACAGAACATCTCT-TGACCAGGACAAGTTAAGGAACAAAGgtgagtccacttgctgcaggattctggttgagccccctaggcgatgtacc Alignment from Exonerate_protein2genome GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG cttacatcactctgctgtccactcagtcatattgttctgtcttccttaagGTATACAGTGCTACGAATGTTGAGCCTGGTAACACGCACAAGAACAGAACATCTCTTGACCAGGACAAGTTAAGGAACAAAGgtgagtccacttgctgcaggattctggttgagccccctaggcgatgtacc Alignment from Exonerate_coding2genome GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG cttacatcactctgctgtccactcagtcatattgttctgtcttccttaagGTATACAGTGCTACGAATGTTGAGCCTGGTAACACGCACAAGAACAGAACATCTCTTGACCAGGACAAGTTAAGGAACAAAGgtgagtccacttgctgcaggattctggttgagccccctaggcgatgtacc Alignment from GeneWise GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG cttacatcactctgctgtccactcagtcatattgttctgtcttccttaagGTATACAGTGCTACGAATGTTGAGCCTGGTAACACGCACAAGAACAGAACATCTCTTGACCAGGACAAGTTAAGGAACAAAGgtgagtccacttgctgcaggattctggttgagccccctaggcgatgtacc #### Ankrd13d_ID471_2 --> 0 - 1 Original Alignment CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTT-GCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAg ggatgggtacttttatctaacaaaccattcagtcctgtgctgtcctgcagCATGACATTGAGCAAGAGGACCCACAAGGGCAGACCCCTTTAGAGCTTCGCTGTGACTTTGGGGAATTTAGAGTCCGTACGAGTCC-CCTCAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTggtgaggtagtgctccattacccgtgaagggtggctataggtctgatatta Alignment from CESAR CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTT-GCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAg ggatgggtacttttatctaacaaaccattcagtcctgtgctgtcctgcagCATGACATTGAGCAAGAGGACCCACAAGGGCAGACCCCTTTAGAGCTTCGCTGTGACTTTGGGGAATTTAGAGTCCGTACGAGTC-CCCTCAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTggtgaggtagtgctccattacccgtgaagggtggctataggtctgatatta Alignment from Spaln_aa2Genome CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG ggatgggtacttttatctaacaaaccattcagtcctgtgctgtcctgcagCATGACATTGAGCAAGAGGACCCACAAGGGCAGACCCCTTTAGAGCTTCGCTGTGACTTTGGGGAATTTAGAGTCCGTACGAGTCCCCTCAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtgaggtagtgctccattacccgtgaagggtggctataggtctgatatta Alignment from Spaln_nt2Genome CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTT-GCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG ggatgggtacttttatctaacaaaccattcagtcctgtgctgtcctgcagCATGACATTGAGCAAGAGGACCCACAAGGGCAGACCCCTTTAGAGCTTCGCTGTGACTTTGGGGAATTTAGAGTCCGTACGAGTCC-CCTCAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtgaggtagtgctccattacccgtgaagggtggctataggtctgatatta Alignment from Pairagon CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTT-GCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG ggatgggtacttttatctaacaaaccattcagtcctgtgctgtcctgcagCATGACATTGAGCAAGAGGACCCACAAGGGCAGACCCCTTTAGAGCTTCGCTGTGACTTTGGGGAATTTAGAGTCCGTACGAGTCC-CCTCAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtgaggtagtgctccattacccgtgaagggtggctataggtctgatatta Alignment from Exonerate_protein2genome CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG ggatgggtacttttatctaacaaaccattcagtcctgtgctgtcctgcagCATGACATTGAGCAAGAGGACCCACAAGGGCAGACCCCTTTAGAGCTTCGCTGTGACTTTGGGGAATTTAGAGTCCGTACGAGTCCCCTCAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtgaggtagtgctccattacccgtgaagggtggctataggtctgatatta Alignment from Exonerate_coding2genome AAGCACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG ggatgggtacttttatctaacaaaccattcagtcctgtgctgtcctgCAGCATGACATTGAGCAAGAGGACCCACAAGGGCAGACCCCTTTAGAGCTTCGCTGTGACTTTGGGGAATTTAGAGTCCGTACGAGTCCCCTCAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtgaggtagtgctccattacccgtgaagggtggctataggtctgatatta Alignment from GeneWise CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG ggatgggtacttttatctaacaaaccattcagtcctgtgctgtcctgcagCATGACATTGAGCAAGAGGACCCACAAGGGCAGACCCCTTTAGAGCTTCGCTGTGACTTTGGGGAATTTAGAGTCCGTACGAGTCCCCTCAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtgaggtagtgctccattacccgtgaagggtggctataggtctgatatta #### Ankrd1_ID7101_4 --> 0 - 0 Original Alignment ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAA-CTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gatggaaggataggagacaatcagtacccatttgtcctcttttattacagAGTGAGCCTGTTGATGTACCCAGGTTTCTAAAAGCTGCACTGGAGAACAAACCTTCCAGTTGTAGAAAAGTTCCTCTCAGACAAGA-CAGTCCTGACGTCTGTGATGAAgtgagcagtagttctgtgcccttccattttctgccctgccatttgcctgg Alignment from CESAR ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAA-CTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gatggaaggataggagacaatcagtacccatttgtcctcttttattacagAGTGAGCCTGTTGATGTACCCAGGTTTCTAAAAGCTGCACTGGAGAACAAACCTTCCAGTTGTAGAAAAGTTCCTCTCAGACA-AGACAGTCCTGACGTCTGTGATGAAgtgagcagtagttctgtgcccttccattttctgccctgccatttgcctgg Alignment from Spaln_aa2Genome ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAACTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gatggaaggataggagacaatcagtacccatttgtcctcttttattacagAGTGAGCCTGTTGATGTACCCAGGTTTCTAAAAGCTGCACTGGAGAACAAACCTTCCAGTTGTAGAAAAGTTCCTCTCAGACAAGACAGTCCTGACGTCTGTGATGAAgtgagcagtagttctgtgcccttccattttctgccctgccatttgcctgg Alignment from Spaln_nt2Genome ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAAC-TGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gatggaaggataggagacaatcagtacccatttgtcctcttttattacagAGTGAGCCTGTTGATGTACCCAGGTTTCTAAAAGCTGCACTGGAGAACAAACCTTCCAGTTGTAGAAAAGTTCCTCTCAGACAAG-ACAGTCCTGACGTCTGTGATGAAgtgagcagtagttctgtgcccttccattttctgccctgccatttgcctgg Alignment from Pairagon ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAA-CTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gatggaaggataggagacaatcagtacccatttgtcctcttttattacagAGTGAGCCTGTTGATGTACCCAGGTTTCTAAAAGCTGCACTGGAGAACAAACCTTCCAGTTGTAGAAAAGTTCCTCTCAGACAAG-ACAGTCCTGACGTCTGTGATGAAgtgagcagtagttctgtgcccttccattttctgccctgccatttgcctgg Alignment from Exonerate_protein2genome ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAACTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gatggaaggataggagacaatcagtacccatttgtcctcttttattacagAGTGAGCCTGTTGATGTACCCAGGTTTCTAAAAGCTGCACTGGAGAACAAACCTTCCAGTTGTAGAAAAGTTCCTCTCAGACAAGACAGTCCTGACGTCTGTGATGAAgtgagcagtagttctgtgcccttccattttctgccctgccatttgcctgg Alignment from Exonerate_coding2genome ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAACTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gatggaaggataggagacaatcagtacccatttgtcctcttttattacagAGTGAGCCTGTTGATGTACCCAGGTTTCTAAAAGCTGCACTGGAGAACAAACCTTCCAGTTGTAGAAAAGTTCCTCTCAGACAAGACAGTCCTGACGTCTGTGATGAAgtgagcagtagttctgtgcccttccattttctgccctgccatttgcctgg Alignment from GeneWise ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAACTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gatggaaggataggagacaatcagtacccatttgtcctcttttattacagAGTGAGCCTGTTGATGTACCCAGGTTTCTAAAAGCTGCACTGGAGAACAAACCTTCCAGTTGTAGAAAAGTTCCTCTCAGACAAGACAGTCCTGACGTCTGTGATGAAgtgagcagtagttctgtgcccttccattttctgccctgccatttgcctgg #### Bbs1_ID718_16 --> 0 - 0 Original Alignment GTTCCCTTGCTGGTA-CCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gaagctaggcttctaactttagctgtgggtgtgtgtgggtgtctcctcagGTTCCCCTGCTGGTACCCAGGACTCAGTTATCCGCTGGAAACCTTTG-GGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtgagagagtacctgcatgacacccggatccaagtagcaacaattagatg Alignment from CESAR GTTCCCTTGCTGGTA-CCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gaagctaggcttctaactttagctgtgggtgtgtgtgggtgtctcctcagGTTCCCCTGCTGGTACCCAGGACTCAGTTATCCGCTGGAAACCTTT-GGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtgagagagtacctgcatgacacccggatccaagtagcaacaattagatg Alignment from Spaln_aa2Genome GTTCCCTTGCTGGTA-CCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gaagctaggcttctaactttagctgtgggtgtgtgtgggtgtctcctcagGTTCCCCTGCTGGTAcCCAGGACTCAGTTATCCGCTGGAAACCTTTGG-GAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtgagagagtacctgcatgacacccggatccaagtagcaacaattagatg Alignment from Spaln_nt2Genome GTTCCCTTGCTGGTA-CCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gaagctaggcttctaactttagctgtgggtgtgtgtgggtgtctcctcagGTTCCCCTGCTGGTACCCAGGACTCAGTTATCCGCTGGAAACC-TTTGGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtgagagagtacctgcatgacacccggatccaagtagcaacaattagatg Alignment from Pairagon GTTCCCTTGCTGGTA-CCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gaagctaggcttctaactttagctgtgggtgtgtgtgggtgtctcctcagGTTCCCCTGCTGGTACCCAGGACTCAGTTATCCGCTGGAAACCTTTG-GGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtgagagagtacctgcatgacacccggatccaagtagcaacaattagatg Alignment from Exonerate_protein2genome GTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gaagctaggcttctaactttagctgtgggtgtgtgtgggtgtctcctcagGTTCCCCTGCTGGTACCCAGGACTCAGTTATCCGCTGGAAACCTTTGGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtgagagagtacctgcatgacacccggatccaagtagcaacaattagatg Alignment from Exonerate_coding2genome GTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gaagctaggcttctaactttagctgtgggtgtgtgtgggtgtctcctcagGTTCCCCTGCTGGTACCCAGGACTCAGTTATCCGCTGGAAACCTTTGGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtgagagagtacctgcatgacacccggatccaagtagcaacaattagatg Alignment from GeneWise GTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gaagctaggcttctaactttagctgtgggtgtgtgtgggtgtctcctcagGTTCCCCTGCTGGTACCCAGGACTCAGTTATCCGCTGGAAACCTTTGGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtgagagagtacctgcatgacacccggatccaagtagcaacaattagatg #### Bbs1_ID724_10 --> 1 - 0 Original Alignment aGACTCCAAACACCCCAAGTACTGC-ATCGAGTTGAGTGCCCAGCCAGTGGGGCTGGTCCGGGTACACAAGGTCCTGGTGGTGGGCAGCACCCAAGAGAGTCTGCATGGCTTCACCCACAAG ggagcaaagcaagttctatgggctaaattaccttgctggcatctcttcagaGACTGTAAGCATCCCAAGTACTGCCATAGAACTGAGTGTCCAACCAGTGGGACTAG-TCGGGCACACAAGGTCCTTGTGGTGGGTAGTACCCAAGAGGGTTTACATGGCTTTTCCCATAAAgtacatacctccctgtgttgtcctacccacttcttgaggttagcccccat Alignment from CESAR aGACTCCAAACACCCCAAGTACTGC-ATCGAGTTGAGTGCCCAGCCAGTGGGGCTGGTCCGGGTACACAAGGTCCTGGTGGTGGGCAGCACCCAAGAGAGTCTGCATGGCTTCACCCACAAG ggagcaaagcaagttctatgggctaaattaccttgctggcatctcttcagaGACTGTAAGCATCCCAAGTACTGCCATAGAACTGAGTGTCCAACCAGTGGGACTAG-TCGGGCACACAAGGTCCTTGTGGTGGGTAGTACCCAAGAGGGTTTACATGGCTTTTCCCATAAAgtacatacctccctgtgttgtcctacccacttcttgaggttagcccccat Alignment from Spaln_aa2Genome AGACTCCAAACACCCCAAGTACTGC-ATCGAGTTGAGTGCCCAGCCAGTGGGGCTGGTCCGGGTACACAAGGTCCTGGTGGTGGGCAGCACCCAAGAGAGTCTGCATGGCTTCACCCACAAG ggagcaaagcaagttctatgggctaaattaccttgctggcatctcttcagAGACTGTAAGCATCCCAAGTACTGCcATAGAACTGAGTGTCCAACCAGTGGGACTAGT-CGGGCACACAAGGTCCTTGTGGTGGGTAGTACCCAAGAGGGTTTACATGGCTTTTCCCATAAAgtacatacctccctgtgttgtcctacccacttcttgaggttagcccccat Alignment from Spaln_nt2Genome AGACTCCAAACACCCCAAGTACTGC-ATCGAGTTGAGTGCCCAGCCAGTGGGGCTGGTCCGGGTACACAAGGTCCTGGTGGTGGGCAGCACCCAAGAGAGTCTGCATGGCTTCACCCACAAG ggagcaaagcaagttctatgggctaaattaccttgctggcatctcttcagAGACTGTAAGCATCCCAAGTACTGCCATAGAACTGAGTGTCCAACCAGTGGGACTAGT-CGGGCACACAAGGTCCTTGTGGTGGGTAGTACCCAAGAGGGTTTACATGGCTTTTCCCATAAAgtacatacctccctgtgttgtcctacccacttcttgaggttagcccccat Alignment from Pairagon AGACTCCAAACACCCCAAGTACTG-CATCGAGTTGAGTGCCCAGCCAGTGGGGCTGGTCCGGGTACACAAGGTCCTGGTGGTGGGCAGCACCCAAGAGAGTCTGCATGGCTTCACCCACAAG ggagcaaagcaagttctatgggctaaattaccttgctggcatctcttcagAGACTGTAAGCATCCCAAGTACTGCCATAGAACTGAGTGTCCAACCAGTGGGACTAGT-CGGGCACACAAGGTCCTTGTGGTGGGTAGTACCCAAGAGGGTTTACATGGCTTTTCCCATAAAgtacatacctccctgtgttgtcctacccacttcttgaggttagcccccat Alignment from Exonerate_protein2genome AGACTCCAAACACCCCAAGTACTGCATCGAGTTGAGTGCCCAGCCAGTGGGGCTGGTCCGGGTACACAAGGTCCTGGTGGTGGGCAGCACCCAAGAGAGTCTGCATGGCTTCACCCACAAG ggagcaaagcaagttctatgggctaaattaccttgctggcatctcttcagAGACTGTAAGCATCCCAAGTACTGCCATAGAACTGAGTGTCCAACCAGTGGGACTAGTCGGGCACACAAGGTCCTTGTGGTGGGTAGTACCCAAGAGGGTTTACATGGCTTTTCCCATAAAgtacatacctccctgtgttgtcctacccacttcttgaggttagcccccat Alignment from Exonerate_coding2genome AGACTCCAAACACCCCAAGTACTGCATCGAGTTGAGTGCCCAGCCAGTGGGGCTGGTCCGGGTACACAAGGTCCTGGTGGTGGGCAGCACCCAAGAGAGTCTGCATGGCTTCACCCACAAG ggagcaaagcaagttctatgggctaaattaccttgctggcatctcttcagAGACTGTAAGCATCCCAAGTACTGCCATAGAACTGAGTGTCCAACCAGTGGGACTAGTCGGGCACACAAGGTCCTTGTGGTGGGTAGTACCCAAGAGGGTTTACATGGCTTTTCCCATAAAgtacatacctccctgtgttgtcctacccacttcttgaggttagcccccat Alignment from GeneWise AGACTCCAAACACCCCAAGTACTGCATCGAGTTGAGTGCCCAGCCAGTGGGGCTGGTCCGGGTACACAAGGTCCTGGTGGTGGGCAGCACCCAAGAGAGTCTGCATGGCTTCACCCACAAG ggagcaaagcaagttctatgggctaaattaccttgctggcatctcttcagAGACTGTAAGCATCCCAAGTACTGCCATAGAACTGAGTGTCCAACCAGTGGGACTAGTCGGGCACACAAGGTCCTTGTGGTGGGTAGTACCCAAGAGGGTTTACATGGCTTTTCCCATAAAgtacatacctccctgtgttgtcctacccacttcttgaggttagcccccat #### Best1_ID2631_8 --> 0 - 2 Original Alignment GTGTCCCTGTTG-TCCGTGGATGGGATGCACCAGAACTTGCCTCCCATGGAACGTGACATGTACTGGAACGAGGCAGCGCCTCAGCCGCCCTACACAGCTGCTTCTGCCAGGTCTCGCCGGCATTCCTTCATGGGCTCCACCTTCAACATCag ctctgaccttgggttaggtgatttaacactccttcttcttctgtcttcagGTGTCATTGTCACTCTGTCGACCGAATGCACCAGAACCTGC-ACCCATGGAGCGTGACATGTACTGGAATGAATCAGAGCCTCATCCT------ACGGCTGCCTCAGCCAGGTCTCGCTGGCACTCATTCATGGGAACTACCTTCAATCCCaggtaggttgggttagggacttggtgagatatcccacaatgcatccaggaga Alignment from CESAR GTGTCCCTGTTG-TCCGTGGATGGGATGCACCAGAACTTGCCTCCCATGGAACGTGACATGTACTGGAACGAGGCAGCGCCTCAGCCGCCCTACACAGCTGCTTCTGCCAGGTCTCGCCGGCATTCCTTCATGGGCTCCACCTTCAACATCag ctctgaccttgggttaggtgatttaacactccttcttcttctgtcttcagGTGTCATTGTCACTCTGTCGACCGAATGCACCAGAACCTG-CACCCATGGAGCGTGACATGTACTGGAATGAATCAGAGCCTCATCCT------ACGGCTGCCTCAGCCAGGTCTCGCTGGCACTCATTCATGGGAACTACCTTCAATCCCaggtaggttgggttagggacttggtgagatatcccacaatgcatccaggaga Alignment from Spaln_aa2Genome GTGTCCCTGTTGTCCGTGGATGGGATGCACCAGAACTTGCCTCCCATGGAACGTGACATGTACTGGAACGAGGCAGCGCCTCAGCCGCCCTACACAGCTGCTTCTGCCAGGTCTCGCCGGCATTCCTTCATGGGCTCCACCTTCAACATCAG ctctgaccttgggttaggtgatttaacactccttcttcttctgtcttcagGTGTCATTGTCACTCTGTCGACCGAATGCACCAGAACCTGCACCCATGGAGCGTGACATGTACTGGAATGAATCAGAGCCTCATCCT------ACGGCTGCCTCAGCCAGGTCTCGCTGGCACTCATTCATGGGAACTACCTTCAATCCCAGgtaggttgggttagggacttggtgagatatcccacaatgcatccaggaga Alignment from Spaln_nt2Genome GTGTCCCTGTTG-TCCGTGGATGGGATGCACCAGAACTTGCCTCCCATGGAACGTGACATGTACTGGAACGAGGCAGCGCCTCAGCCGCCCTACACAGCTGCTTCTGCCAGGTCTCGCCGGCATTCCTTCATGGGCTCCACCTTCAACATCAG ctctgaccttgggttaggtgatttaacactccttcttcttctgtcttcagGTGTCATTGTCACTCTGTCGACCGAATGCACCAGAACCTG-CACCCATGGAGCGTGACATGTACTGGAATGAATCAGAGCCTCATCC------TACGGCTGCCTCAGCCAGGTCTCGCTGGCACTCATTCATGGGAACTACCTTCAATCCCAGgtaggttgggttagggacttggtgagatatcccacaatgcatccaggaga Alignment from Pairagon GTGTCCCTGTTG-TCCGTGGATGGGATGCACCAGAACTTGCCTCCCATGGAACGTGACATGTACTGGAACGAGGCAGCGCCTCAGCCGCCCTACACAGCTGCTTCTGCCAGGTCTCGCCGGCATTCCTTCATGGGCTCCACCTTCAACATCAG ctctgaccttgggttaggtgatttaacactccttcttcttctgtcttcagGTGTCATTGTCACTCTGTCGACCGAATGCACCAGAACCTGCA-CCCATGGAGCGTGACATGTACTGGAATGAATCAGAGCCTCATCC------TACGGCTGCCTCAGCCAGGTCTCGCTGGCACTCATTCATGGGAACTACCTTCAATCCCAGgtaggttgggttagggacttggtgagatatcccacaatgcatccaggaga Alignment from Exonerate_protein2genome GTGTCCCTGTTGTCCGTGGATGGGATGCACCAGAACTTGCCTCCCATGGAACGTGACATGTACTGGAACGAGGCAGCGCCTCAGCCGCCCTACACAGCTGCTTCTGCCAGGTCTCGCCGGCATTCCTTCATGGGCTCCACCTTCAACATCAG ctctgaccttgggttaggtgatttaacactccttcttcttctgtcttcagGTGTCATTGTCACTCTGTCGACCGAATGCACCAGAACCTGCACCCATGGAGCGTGACATGTACTGGAATGAATCAGAGCCTCATCCT------ACGGCTGCCTCAGCCAGGTCTCGCTGGCACTCATTCATGGGAACTACCTTCAATCCCAGgtaggttgggttagggacttggtgagatatcccacaatgcatccaggaga Alignment from Exonerate_coding2genome GTGTCCCTGTTGTCCGTGGATGGGATGCACCAGAACTTGCCTCCCATGGAACGTGACATGTACTGGAACGAGGCAGCGCCTCAGCCGCCCTACACAGCTGCTTCTGCCAGGTCTCGCCGGCATTCCTTCATGGGCTCCACCTTCAACATCAG ctctgaccttgggttaggtgatttaacactccttcttcttctgtcttcagGTGTCATTGTCACTCTGTCGACCGAATGCACCAGAACCTGCACCCATGGAGCGTGACATGTACTGGAATGAATCAGAGCCTCATCCT------ACGGCTGCCTCAGCCAGGTCTCGCTGGCACTCATTCATGGGAACTACCTTCAATCCCAGgtaggttgggttagggacttggtgagatatcccacaatgcatccaggaga Alignment from GeneWise ---TCCGTGGATGGGATGCACCAGAACTTGCCT---------CCCATGGAACGTGACATGTACTGGAACGAGGCAGCGCCTCAGCCGCCCTACACAGCTGCTTCTGCCAGGTCTCGCCGGCATTCCTTCATGGGCTCCACCTTCAACATCAG ctctgaccttgggttaggtgatttaacactccttcttcttctgtcttcagGTGTCATTGTCACTCTGTCGACCGAATGCACCAGAACCTGCACCCATGGAGCGTGACATGTACTGGAATGAATCAGAGCCTCATCCT------ACGGCTGCCTCAGCCAGGTCTCGCTGGCACTCATTCATGGGAACTACCTTCAATCCCAGgtaggttgggttagggacttggtgagatatcccacaatgcatccaggaga #### Bscl2_ID2424_7 --> 1 - 0 Original Alignment gTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTG-CTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctaacaaccatgtgcttacttacttgccccacaatataggTACCTGCTGTACAATTTTCCCATGACTTGTGCCTTTGTAGGTGTAGCAAGCAATTTCACATTTCTCAGTGTCATTGTGCCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCT-GCCTCATCACCACTCCTCCTTGCAGgtgcgtgttcttgggctcattttctctcactagacaaaggaaccaatttc Alignment from CESAR gTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTG-CTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctaacaaccatgtgcttacttacttgccccacaatataggTACCTGCTGTACAATTTTCCCATGACTTGTGCCTTTGTAGGTGTAGCAAGCAATTTCACATTTCTCAGTGTCATTGTGCCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTC-TGCCTCATCACCACTCCTCCTTGCAGgtgcgtgttcttgggctcattttctctcactagacaaaggaaccaatttc Alignment from Spaln_aa2Genome GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctaacaaccatgtgcttacttacttgccccacaatatagGTACCTGCTGTACAATTTTCCCATGACTTGTGCCTTTGTAGGTGTAGCAAGCAATTTCACATTTCTCAGTGTCATTGTGCCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGCCTCATCACCACTCCTCCTTGCAGgtgcgtgttcttgggctcattttctctcactagacaaaggaaccaatttc Alignment from Spaln_nt2Genome GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGC-TCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctaacaaccatgtgcttacttacttgccccacaatatagGTACCTGCTGTACAATTTTCCCATGACTTGTGCCTTTGTAGGTGTAGCAAGCAATTTCACATTTCTCAGTGTCATTGTGCCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCT-GCCTCATCACCACTCCTCCTTGCAGgtgcgtgttcttgggctcattttctctcactagacaaaggaaccaatttc Alignment from Pairagon GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTG-CTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctaacaaccatgtgcttacttacttgccccacaatatagGTACCTGCTGTACAATTTTCCCATGACTTGTGCCTTTGTAGGTGTAGCAAGCAATTTCACATTTCTCAGTGTCATTGTGCCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCT-GCCTCATCACCACTCCTCCTTGCAGgtgcgtgttcttgggctcattttctctcactagacaaaggaaccaatttc Alignment from Exonerate_protein2genome GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctaacaaccatgtgcttacttacttgccccacaatatagGTACCTGCTGTACAATTTTCCCATGACTTGTGCCTTTGTAGGTGTAGCAAGCAATTTCACATTTCTCAGTGTCATTGTGCCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGCCTCATCACCACTCCTCCTTGCAGgtgcgtgttcttgggctcattttctctcactagacaaaggaaccaatttc Alignment from Exonerate_coding2genome GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctaacaaccatgtgcttacttacttgccccacaatatagGTACCTGCTGTACAATTTTCCCATGACTTGTGCCTTTGTAGGTGTAGCAAGCAATTTCACATTTCTCAGTGTCATTGTGCCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGCCTCATCACCACTCCTCCTTGCAGgtgcgtgttcttgggctcattttctctcactagacaaaggaaccaatttc Alignment from GeneWise GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctaacaaccatgtgcttacttacttgccccacaatatagGTACCTGCTGTACAATTTTCCCATGACTTGTGCCTTTGTAGGTGTAGCAAGCAATTTCACATTTCTCAGTGTCATTGTGCCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGCCTCATCACCACTCCTCCTTGCAGgtgcgtgttcttgggctcattttctctcactagacaaaggaaccaatttc #### Bscl2_ID2427_10 --> 2 - 1 Original Alignment agGGCCAGCTGTCTGAGGAAGAGAAA-CCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATg aatttttaatactctcacccccattgcactccatctctttctgtttgtagagGGGCAA---CCAGAAGAGAAGAAACGCAAAGAAGTGGCCACTGAATGGGGAGGAGA-GCGGGAACCAGATGCTGGTGCTggtgagaagtgcttggggggtcacttgcttaacataatgtagtagagaaga Alignment from CESAR agGGCCAGCTGTCTGAGGAAGAGAAA-CCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATg aatttttaatactctcacccccattgcactccatctctttctgtttgtagagGGGCAA---CCAGAAGAGAAGAAACGCAAAGAAGTGGCCACTGAATGGGGAGG-AGAGCGGGAACCAGATGCTGGTGCTggtgagaagtgcttggggggtcacttgcttaacataatgtagtagagaaga Alignment from Spaln_aa2Genome AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG aatttttaatactctcacccccattgcactccatctctttctgtttgtagAGGGGCAA---CCAGAAGAGAAGAAACGCAAAGAAGTGGCCACTGAATGGGGAGGAGAGCGGGAACCAGATGCTGGTGCTGgtgagaagtgcttggggggtcacttgcttaacataatgtagtagagaaga Alignment from Spaln_nt2Genome AGGGCCAGCTGTCTGAGGAAGAGAAAC-CAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG aatttttaatactctcacccccattgcactccatctctttctgtttgtagAGGGGCAAC---CAGAAGAGAAGAAACGCAAAGAAGTGGCCACTGAATGGGGAGGA-GAGCGGGAACCAGATGCTGGTGCTGgtgagaagtgcttggggggtcacttgcttaacataatgtagtagagaaga Alignment from Pairagon AGGGCCAGCTGTCTGAGGAAGAGAAACCAG----------------AGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG aatttttaatactctcacccccattgcactccatctctttctgtttgtagAGGGGC------------------AACCAGAAGAGAAGAAACGCAAAGAAGTGGCCACTGAATGGGGAGGA-GAGCGGGAACCAGATGCTGGTGCTGgtgagaagtgcttggggggtcacttgcttaacataatgtagtagagaaga Alignment from Exonerate_protein2genome AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG aatttttaatactctcacccccattgcactccatctctttctgtttgtagAGGGGCAA---CCAGAAGAGAAGAAACGCAAAGAAGTGGCCACTGAATGGGGAGGAGAGCGGGAACCAGATGCTGGTGCTGgtgagaagtgcttggggggtcacttgcttaacataatgtagtagagaaga Alignment from Exonerate_coding2genome aatttttaatactctcacccccattgcactccatctctttctgtttgtagaggggcaaccagaagagaagaaacgcaaagaagtggccactgaatggggaggagagcgggaaccagatgctggtgctggtgagaagtgcttggggggtcacttgcttaacataatgtagtagagaaga Alignment from GeneWise AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG aatttttaatactctcacccccattgcactccatctctttctgtttgtagAGGGGCAA---CCAGAAGAGAAGAAACGCAAAGAAGTGGCCACTGAATGGGGAGGAGAGCGGGAACCAGATGCTGGTGCTGgtgagaagtgcttggggggtcacttgcttaacataatgtagtagagaaga #### Btaf1_ID7249_28 --> 1 - 2 Original Alignment gGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCTTCC-TTGGTGGTTTGTCCACCAACATTAACAGGTCATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAag cttgcttaaaacctgatcaatctaataacactcttgtctttgctcttcaggGCCCAGGAATATGCAAGATCAAGATTAGCAGAGTGTATGCCACTCCCTTCCCCTAGTGGTTTGTCCTCCATCATTGACAG-TCACTGGGTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTACATTATACCGGCCCTTCCACTGAGAGGATAaggtacctgggtggactatctaacaatccatagctaaagctaaggtcctttg Alignment from CESAR gGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCTTCC-TTGGTGGTTTGTCCACCAACATTAACAGGTCATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAag cttgcttaaaacctgatcaatctaataacactcttgtctttgctcttcaggGCCCAGGAATATGCAAGATCAAGATTAGCAGAGTGTATGCCACTCCCTTCCCCTAGTGGTTTGTCCTCCATCATTGA-CAGTCACTGGGTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTACATTATACCGGCCCTTCCACTGAGAGGATAaggtacctgggtggactatctaacaatccatagctaaagctaaggtcctttg Alignment from Spaln_aa2Genome GGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCTTCCTTGGTGGTTTGTCCACCAACATTAACAGGTCATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAAG cttgcttaaaacctgatcaatctaataacactcttgtctttgctcttcagGGCCCAGGAATATGCAAGATCAAGATTAGCAGAGTGTATGCCACTCCCTTCCCCTAGTGGTTTGTCCTCCATCATTGACAGTCACTGGGTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTACATTATACCGGCCCTTCCACTGAGAGGATAAGgtacctgggtggactatctaacaatccatagctaaagctaaggtcctttg Alignment from Spaln_nt2Genome GGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCTTCCT-TGGTGGTTTGTCCACCAACATTAACAGGTCATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAAG cttgcttaaaacctgatcaatctaataacactcttgtctttgctcttcagGGCCCAGGAATATGCAAGATCAAGATTAGCAGAGTGTATGCCACTCCCTTCCCCTAGTGGTTTGTCCTCCATCATTGACA-GTCACTGGGTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTACATTATACCGGCCCTTCCACTGAGAGGATAAGgtacctgggtggactatctaacaatccatagctaaagctaaggtcctttg Alignment from Pairagon GGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCTT-CCTTGGTGGTTTGTCCACCAACATTAACAGGTCATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAAG cttgcttaaaacctgatcaatctaataacactcttgtctttgctcttcagGGCCCAGGAATATGCAAGATCAAGATTAGCAGAGTGTATGCCACTCCCTTCCCCTAGTGGTTTGTCCTCCATCATTGACA-GTCACTGGGTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTACATTATACCGGCCCTTCCACTGAGAGGATAAGgtacctgggtggactatctaacaatccatagctaaagctaaggtcctttg Alignment from Exonerate_protein2genome GGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCTTCCTTGGTGGTTTGTCCACCAACATTAACAGGTCATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAAG cttgcttaaaacctgatcaatctaataacactcttgtctttgctcttcagGGCCCAGGAATATGCAAGATCAAGATTAGCAGAGTGTATGCCACTCCCTTCCCCTAGTGGTTTGTCCTCCATCATTGACAGTCACTGGGTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTACATTATACCGGCCCTTCCACTGAGAGGATAAGgtacctgggtggactatctaacaatccatagctaaagctaaggtcctttg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCTTCCTTGGTGGTTTGTCCACCAACATTAACAGGTCATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAAG cttgcttaaaacctgatcaatctaataacactcttgtctttgctcttcagGGCCCAGGAATATGCAAGATCAAGATTAGCAGAGTGTATGCCACTCCCTTCCCCTAGTGGTTTGTCCTCCATCATTGACAGTCACTGGGTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTACATTATACCGGCCCTTCCACTGAGAGGATAAGgtacctgggtggactatctaacaatccatagctaaagctaaggtcctttg #### Btaf1_ID7253_32 --> 2 - 0 Original Alignment gtGTCCTGGCAATGGACGCTCTGCACCGC-CAAGTCCTGCCGTTCCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gcagggagaatgggttcttgagtcctgattttcttcttctgtatttcaaggtGTACTAGCAATGGATGCTCTACAGCACCCAAGTCTTGCCACTACTTTTGAGAAGAATGA-AGAAGCTGTATTGCATGATCTTCCACCCAAAATTATACAAGACTATTACTGTACTCTCAGCCCTCTTCAAgtaattactgccgtcattgttagtgtgctactatttgcattaaaaacaga Alignment from CESAR gtGTCCTGGCAATGGACGCTCTGCACCGC-CAAGTCCTGCCGTTCCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gcagggagaatgggttcttgagtcctgattttcttcttctgtatttcaaggtGTACTAGCAATGGATGCTCTACAGCACCCAAGTCTTGCCACTACTTTTGAGAAGAATGA-AGAAGCTGTATTGCATGATCTTCCACCCAAAATTATACAAGACTATTACTGTACTCTCAGCCCTCTTCAAgtaattactgccgtcattgttagtgtgctactatttgcattaaaaacaga Alignment from Spaln_aa2Genome GTGTCCTGGCAATGGACGCTCTGCACCGCCAAGTCCTGCCGTTCCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gcagggagaatgggttcttgagtcctgattttcttcttctgtatttcaagGTGTACTAGCAATGGATGCTCTACAGCACCCAAGTCTTGCCACTACTTTTGAGAAGAATGAAGAAGCTGTATTGCATGATCTTCCACCCAAAATTATACAAGACTATTACTGTACTCTCAGCCCTCTTCAAgtaattactgccgtcattgttagtgtgctactatttgcattaaaaacaga Alignment from Spaln_nt2Genome GTGTCCTGGCAATGGACGCTCTGCACCGCC-AAGTCCTGCCGTTCCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gcagggagaatgggttcttgagtcctgattttcttcttctgtatttcaagGTGTACTAGCAATGGATGCTCTACAGCACCCAAGTCTTGCCACTACTTTTGAGAAGAATG-AAGAAGCTGTATTGCATGATCTTCCACCCAAAATTATACAAGACTATTACTGTACTCTCAGCCCTCTTCAAgtaattactgccgtcattgttagtgtgctactatttgcattaaaaacaga Alignment from Pairagon GTGTCCTGGCAATGGACGCTCTGCACCG-CCAAGTCCTGCCGTTCCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gcagggagaatgggttcttgagtcctgattttcttcttctgtatttcaagGTGTACTAGCAATGGATGCTCTACAGCACCCAAGTCTTGCCACTACTTTTGAGAAGAATG-AAGAAGCTGTATTGCATGATCTTCCACCCAAAATTATACAAGACTATTACTGTACTCTCAGCCCTCTTCAAgtaattactgccgtcattgttagtgtgctactatttgcattaaaaacaga Alignment from Exonerate_protein2genome GTGTCCTGGCAATGGACGCTCTGCACCGCCAAGTCCTGCCGTTCCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gcagggagaatgggttcttgagtcctgattttcttcttctgtatttcaagGTGTACTAGCAATGGATGCTCTACAGCACCCAAGTCTTGCCACTACTTTTGAGAAGAATGAAGAAGCTGTATTGCATGATCTTCCACCCAAAATTATACAAGACTATTACTGTACTCTCAGCCCTCTTCAAgtaattactgccgtcattgttagtgtgctactatttgcattaaaaacaga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTGTCCTGGCAATGGACGCTCTGCACCGCCAAGTCCTGCCGTTCCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gcagggagaatgggttcttgagtcctgattttcttcttctgtatttcaagGTGTACTAGCAATGGATGCTCTACAGCACCCAAGTCTTGCCACTACTTTTGAGAAGAATGAAGAAGCTGTATTGCATGATCTTCCACCCAAAATTATACAAGACTATTACTGTACTCTCAGCCCTCTTCAAgtaattactgccgtcattgttagtgtgctactatttgcattaaaaacaga #### C030046E11Rik_ID6311_25 --> 1 - 2 Original Alignment cTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCC-TCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTG---CAAGCAGTGGACCGCTGGGCCTCTACAGACtg tgaccctcttcatattcctttggatcctctctgaccccgtgtcttttcagcTACTTGCTTCACATTTACATG---GCTGGGTGTCTGGACTGGTGTGTTGTCATTGGCCTGATTCTTCAAGAGGCACCCAGTAGTCCTTCACCTTCTTGGACTTACCCAGG-ACCTGGAATGGATGGGGAAATGTTGCAAAATATAAAATCAGGACTACAACAGGCAGTTGATCGCTGGGGCTCAACTGACtggttagtggatgatacaccggtcccttagcaaattgttagttaccttattt Alignment from CESAR cTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCC-TCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTGCAA---GCAGTGGACCGCTGGGCCTCTACAGACtg tgaccctcttcatattcctttggatcctctctgaccccgtgtcttttcagcTACTTGCTTCACATTTACATG---GCTGGGTGTCTGGACTGGTGTGTTGTCATTGGCCTGATTCTTCAAGAGGCACCCAGTAGTCCTTCACCTTCTTGGACTTACCCAGGACCTGG-AATGGATGGGGAAATGTTGCAAAATATAAAATCAGGACTACAACAGGCAGTTGATCGCTGGGGCTCAACTGACtggttagtggatgatacaccggtcccttagcaaattgttagttaccttattt Alignment from Spaln_aa2Genome CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTG---CAAGCAGTGGACCGCTGGGCCTCTACAGACTG tgaccctcttcatattcctttggatcctctctgaccccgtgtcttttcagCTACTTGCTTCACATTTACATG---GCTGGGTGTCTGGACTGGTGTGTTGTCATTGGCCTGATTCTTCAAGAGGCACCCAGTAGTCCTTCACCTTCTTGGACTTACCCAGGACCTGGAATGGATGGGGAAATGTTGCAAAATATAAAATCAGGACTACAACAGGCAGTTGATCGCTGGGGCTCAACTGACTGgttagtggatgatacaccggtcccttagcaaattgttagttaccttattt Alignment from Spaln_nt2Genome CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATC-CTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTGCAA---GCAGTGGACCGCTGGGCCTCTACAGACTG tgaccctcttcatattcctttggatcctctctgaccccgtgtcttttcagCTACTTGCTTCACATTTACAT---GGCTGGGTGTCTGGACTGGTGTGTTGTCATTGGCCTGATTCTTCAAGAGGCACCCAGTAGTCCTTCACCTTCTTGGACTTACCCAG-GACCTGGAATGGATGGGGAAATGTTGCAAAATATAAAATCAGGACTACAACAGGCAGTTGATCGCTGGGGCTCAACTGACTGgttagtggatgatacaccggtcccttagcaaattgttagttaccttattt Alignment from Pairagon CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATC-CTCAGTGGTCAGTCAGCTTCTTG----------------GGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTGCAA---GCAGTGGACCGCTGGGCCTCTACAGACTG tgaccctcttcatattcctttggatcctctctgaccccgtgtcttttcagCTACTTGCTTCACATTTACAT---GGCTGGGTGTCTGGACTGGTGTGTTGTCATTGGCCTGATTCTTCAAGAGGCACCCAGTAGTCCTTCACCTTCTTGGACTTACCCAGGACCTGGA-----------------ATGGATGGGGAAATGTTGCAAAATATAAAATCAGGACTACAACAGGCAGTTGATCGCTGGGGCTCAACTGACTGgttagtggatgatacaccggtcccttagcaaattgttagttaccttattt Alignment from Exonerate_protein2genome CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTG---CAAGCAGTGGACCGCTGGGCCTCTACAGACTG tgaccctcttcatattcctttggatcctctctgaccccgtgtcttttcagCTACTTGCTTCACATTTACATG---GCTGGGTGTCTGGACTGGTGTGTTGTCATTGGCCTGATTCTTCAAGAGGCACCCAGTAGTCCTTCACCTTCTTGGACTTACCCAGGACCTGGAATGGATGGGGAAATGTTGCAAAATATAAAATCAGGACTACAACAGGCAGTTGATCGCTGGGGCTCAACTGACTGgttagtggatgatacaccggtcccttagcaaattgttagttaccttattt Alignment from Exonerate_coding2genome CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTG---CAAGCAGTGGACCGCTGGGCCTCTACAGACTG tgaccctcttcatattcctttggatcctctctgaccccgtgtcttttcagCTACTTGCTTCACATTTACATG---GCTGGGTGTCTGGACTGGTGTGTTGTCATTGGCCTGATTCTTCAAGAGGCACCCAGTAGTCCTTCACCTTCTTGGACTTACCCAGGACCTGGAATGGATGGGGAAATGTTGCAAAATATAAAATCAGGACTACAACAGGCAGTTGATCGCTGGGGCTCAACTGACTGgttagtggatgatacaccggtcccttagcaaattgttagttaccttattt Alignment from GeneWise CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTG---CAAGCAGTGGACCGCTGGGCCTCTACAGACTG tgaccctcttcatattcctttggatcctctctgaccccgtgtcttttcagCTACTTGCTTCACATTTACATG---GCTGGGTGTCTGGACTGGTGTGTTGTCATTGGCCTGATTCTTCAAGAGGCACCCAGTAGTCCTTCACCTTCTTGGACTTACCCAGGACCTGGAATGGATGGGGAAATGTTGCAAAATATAAAATCAGGACTACAACAGGCAGTTGATCGCTGGGGCTCAACTGACTGgttagtggatgatacaccggtcccttagcaaattgttagttaccttattt #### Cabp2_ID289_4 --> 2 - 1 Original Alignment agCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATC-GGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCa tcacccccttataacagctagggtgaaataatggagccctctctctacagagCTGCAGATAGGCTTCCAGGAGTTCGACCGAGATAGGGACGGCTACATCCGGGTACCGGGAGCTGGGTGCCTGCATGCAGA-ACTGGGATACATGCCCACAGAGATGGCGCTCATAGAGATATCACAACAGGTTagtaagcgttactctagtgcccagtgcacatagccctctggcagatgtgtg Alignment from CESAR agCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATC-GGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCa tcacccccttataacagctagggtgaaataatggagccctctctctacagagCTGCAGATAGGCTTCCAGGAGTTCGACCGAGATAGGGACGGCTACATCCGGGTACCGGGAGCTGGGTGCCTGCATGCAG-AACTGGGATACATGCCCACAGAGATGGCGCTCATAGAGATATCACAACAGGTTagtaagcgttactctagtgcccagtgcacatagccctctggcagatgtgtg Alignment from Spaln_aa2Genome ATCGAAGAGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA ccttataacagctagggtgaaataatggagccctctctctaca gAGCTGCAGATAGGCTTCCAGGAGTTCGACCGAGATAGGGACGGCTACATCCGGGTACCGGGAGCTGGGTGCCTGCATGCAGAACTGGGATACATGCCCACAGAGATGGCGCTCATAGAGATATCACAACAGGTTAgtaagcgttactctagtgcccagtgcacatagccctctggcagatgtgtg Alignment from Spaln_nt2Genome AGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACAT-CGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA tcacccccttataacagctagggtgaaataatggagccctctctctacagAGCTGCAGATAGGCTTCCAGGAGTTCGACCGAGATAGGGACGGCTACATCCGGGTACCGGGAGCTGGGTGCCTGCATGCAGA-ACTGGGATACATGCCCACAGAGATGGCGCTCATAGAGATATCACAACAGGTTAgtaagcgttactctagtgcccagtgcacatagccctctggcagatgtgtg Alignment from Pairagon GATCGAGAGCTGAGACCAGAAGAGATCGAAGAGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACAT-CGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA tcacccccttataacagctagggtgaaataatggagccctctctctacag-------------------------------AGCTGCAGATAGGCTTCCAGGAGTTCGACCGAGATAGGGACGGCTACATCCGGGTACCGGGAGCTGGGTGCCTGCATGCAGA-ACTGGGATACATGCCCACAGAGATGGCGCTCATAGAGATATCACAACAGGTTAgtaagcgttactctagtgcccagtgcacatagccctctggcagatgtgtg Alignment from Exonerate_protein2genome GAGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA tcacccccttataacagctagggtgaaataatggagccctctctctacaGAGCTGCAGATAGGCTTCCAGGAGTTCGACCGAGATAGGGACGGCTACATCCGGGTACCGGGAGCTGGGTGCCTGCATGCAGAACTGGGATACATGCCCACAGAGATGGCGCTCATAGAGATATCACAACAGGTTAgtaagcgttactctagtgcccagtgcacatagccctctggcagatgtgtg Alignment from Exonerate_coding2genome GATCGAGAGCTGAGACCAGAAGAGATCGAAGAGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACAT-CGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA acccccttataacagctagGGTGAAATAATGGAGCCCTCTCTCTAC--AGAGCTGCAGATAGGCTTCCAGGAGTTCGACCGAGATAGGGACGGCTACATCCGGGTACCGGGAGCTGGGTGCCTGCATGCAGAA-CTGGGATACATGCCCACAGAGATGGCGCTCATAGAGATATCACAACAGGTTAgtaagcgttactctagtgcccagtgcacatagccctctggcagatgtgtg Alignment from GeneWise GATCGAGAGCTGAGACCAGAAGAGATCGAAGAGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA acccccttataacagctagGGTGAAATAATGGAGCCCTCTC--TCTACAGAGCTGCAGATAGGCTTCCAGGAGTTCGACCGAGATAGGGACGGCTACATCCGGGTACCGGGAGCTGGGTGCCTGCATGCAGAACTGGGATACATGCCCACAGAGATGGCGCTCATAGAGATATCACAACAGGTTAgtaagcgttactctagtgcccagtgcacatagccctctggcagatgtgtg #### Cabp2_ID290_5 --> 2 - 0 Original Alignment gtGGTGGGAAGGTGGATTTTGAAGAT-TTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG taacaccgtgcactaacctaagccctctttctaattcatcttttcattaggtGGGGGGAAGGTTCACTTTGAAATCCTTCATAGAGCTGATGGGTCCCAAGTTACTAGTAG-GACAGCGGACATGATTGGGGAAAGAGAACTTAAAGACACTTTTAGGGAGgtatcccttaggtggtgggtggcagtggctaacagatttataactcagta Alignment from CESAR gtGGTGGGAAGGTGGATTTTGAA-GATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG taacaccgtgcactaacctaagccctctttctaattcatcttttcattaggtGGGGGGAAGGTTCACTTTGAAATCCTTCATAGAGCTGATGGGTCCCAAGTTACTAGTA-GGACAGCGGACATGATTGGGGAAAGAGAACTTAAAGACACTTTTAGGGAGgtatcccttaggtggtgggtggcagtggctaacagatttataactcagta Alignment from Spaln_aa2Genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG taacaccgtgcactaacctaagccctctttctaattcatcttttcattagGTGGGGGGAAGGTTCACTTTGAAATCCTTCATAGAGCTGATGGGTCCCAAGTTACTAGTAGGACAGCGGACATGATTGGGGAAAGAGAACTTAAAGACACTTTTAGGGAGgtatcccttaggtggtgggtggcagtggctaacagatttataactcagta Alignment from Spaln_nt2Genome GTGGTGGGAAGGTGGATTTTGAAGATTTTG-TGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG taacaccgtgcactaacctaagccctctttctaattcatcttttcattagGTGGGGGGAAGGTTCACTTTGAAATCCTTCATAGAGCTGATGGGTCCCAAGTTACTAGTAG-GACAGCGGACATGATTGGGGAAAGAGAACTTAAAGACACTTTTAGGGAGgtatcccttaggtggtgggtggcagtggctaacagatttataactcagta Alignment from Pairagon GTGGTGGGAAGGTGGATTTTGA----------AGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG taacaccgtgcactaacctaagccctctttctaattcatcttttcattagGTGGGGGGAAGGTTCACTTTGAAATCCTTCATA---------GAGCTGATGGGTCCCAAGTTACTAGTAG-GACAGCGGACATGATTGGGGAAAGAGAACTTAAAGACACTTTTAGGGAGgtatcccttaggtggtgggtggcagtggctaacagatttataactcagta Alignment from Exonerate_protein2genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG taacaccgtgcactaacctaagccctctttctaattcatcttttcattagGTGGGGGGAAGGTTCACTTTGAAATCCTTCATAGAGCTGATGGGTCCCAAGTTACTAGTAGGACAGCGGACATGATTGGGGAAAGAGAACTTAAAGACACTTTTAGGGAGgtatcccttaggtggtgggtggcagtggctaacagatttataactcagta Alignment from Exonerate_coding2genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG taacaccgtgcactaacctaagccctctttctaattcatcttttcattagGTGGGGGGAAGGTTCACTTTGAAATCCTTCATAGAGCTGATGGGTCCCAAGTTACTAGTAGGACAGCGGACATGATTGGGGAAAGAGAACTTAAAGACACTTTTAGGGAGgtatcccttaggtggtgggtggcagtggctaacagatttataactcagta Alignment from GeneWise GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG taacaccgtgcactaacctaagccctctttctaattcatcttttcattagGTGGGGGGAAGGTTCACTTTGAAATCCTTCATAGAGCTGATGGGTCCCAAGTTACTAGTAGGACAGCGGACATGATTGGGGAAAGAGAACTTAAAGACACTTTTAGGGAGgtatcccttaggtggtgggtggcagtggctaacagatttataactcagta #### Cabp2_ID291_6 --> 0 - 1 Original Alignment TTCGACACCAACGGTGAT-GGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAg aatcgctcccatggttcagtgactgaacgttctgtgtggctttcctgcagTTCGACACTAATGGCGATCGGCTGCATCAGTGTTGGGGAACTCCAAGCTGCAC-TAAAGCCCTGCTGGGTGTACGTCTCAGTCAACAAGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGGGATGGCCTGGTTGACTTCGAAggtaaggctccacctgctctgtccctttaccttgtaaaccatctcacacac Alignment from CESAR TTCGACACCAACGGTGAT-GGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAg aatcgctcccatggttcagtgactgaacgttctgtgtggctttcctgcagTTCGACACTAATGGCGATCGGCTGCATCAGTGTTGGGGAACTCCAAGCTGCAC-TAAAGCCCTGCTGGGTGTACGTCTCAGTCAACAAGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGGGATGGCCTGGTTGACTTCGAAggtaaggctccacctgctctgtccctttaccttgtaaaccatctcacacac Alignment from Spaln_aa2Genome TTCGACACCAACGGTGAT-GGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAG aatcgctcccatggttcagtgactgaacgttctgtgtggctttcctgcagTTCGACACTAATGGCGATcGGCTGCATCAGTGTTGGGGAACTCCAAGCTGCACTAAAGCC-CTGCTGGGTGTACGTCTCAGTCAACAAGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGGGATGGCCTGGTTGACTTCGAAGgtaaggctccacctgctctgtccctttaccttgtaaaccatctcacacac Alignment from Spaln_nt2Genome TTCGACACCAACGGTGAT-GGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAG aatcgctcccatggttcagtgactgaacgttctgtgtggctttcctgcagTTCGACACTAATGGCGATCGGCTGCATCAGTGTTGGGGAACTCCAAGCTGCACT-AAAGCCCTGCTGGGTGTACGTCTCAGTCAACAAGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGGGATGGCCTGGTTGACTTCGAAGgtaaggctccacctgctctgtccctttaccttgtaaaccatctcacacac Alignment from Pairagon TTCGACACCAACGGTGAT-GGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAG aatcgctcccatggttcagtgactgaacgttctgtgtggctttcctgcagTTCGACACTAATGGCGATCGGCTGCATCAGTGTTGGGGAACTCCAAGCTGCACT-AAAGCCCTGCTGGGTGTACGTCTCAGTCAACAAGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGGGATGGCCTGGTTGACTTCGAAGgtaaggctccacctgctctgtccctttaccttgtaaaccatctcacacac Alignment from Exonerate_protein2genome TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAG aatcgctcccatggttcagtgactgaacgttctgtgtggctttcctgcagTTCGACACTAATGGCGATCGGCTGCATCAGTGTTGGGGAACTCCAAGCTGCACTAAAGCCCTGCTGGGTGTACGTCTCAGTCAACAAGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGGGATGGCCTGGTTGACTTCGAAGgtaaggctccacctgctctgtccctttaccttgtaaaccatctcacacac Alignment from Exonerate_coding2genome TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAA aatcgctcccatggttcagtgactgaacgttctgtgtggctttcctgcagTTCGACACTAATGGCGATCGGCTGCATCAGTGTTGGGGAACTCCAAGCTGCACTAAAGCCCTGCTGGGTGTACGTCTCAGTCAACAAGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGGGATGGCCTGGTTGACTTCGAAggtaaggctccacctgctctgtccctttaccttgtaaaccatctcacacac Alignment from GeneWise TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAGAATTTGTTCGGATGATGTCTCGG aatcgctcccatggttcagtgactgaacgttctgtgtggctttcctgcagTTCGACACTAATGGCGATCGGCTGCATCAGTGTTGGGGAACTCCAAGCTGCACTAAAGCCCTGCTGGGTGTACGTCTCAGTCAACAAGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGGGATGGCCTGGTTGACTTCGAAGGTAAGGCTCCACCTGCTCTGTCCctttaccttgtaaaccatctcacacac #### Capn1_ID1359_17 --> 0 - 0 Original Alignment CGAGATGGCAACGGG-AAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG tgatgatggatgcttaagccaaagtatttccctccctgtgtctcctccagCGAGATGGAAATGGGCAAGTTAGGGCTGGTGGAATTCAATATCCTATGGA-CCATATCCGAAATTATCTGgcaagcgatgagatgttctctgacatgttccttgggagcccggagcctaa Alignment from CESAR CGAGATGGCAACGGG-AAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG tgatgatggatgcttaagccaaagtatttccctccctgtgtctcctccagCGAGATGGAAATGGGCAAGTTAGGGCTGGTGGAATTCAATATCCTAT-GGACCATATCCGAAATTATCTGgcaagcgatgagatgttctctgacatgttccttgggagcccggagcctaa Alignment from Spaln_aa2Genome CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG tgatgatggatgcttaagccaaagtatttccctccctgtgtctcctccagcgagATGGAA---ATGGGCAAGTTAGGGCTGGTGGAATTCAATATCCTATGGAC-CATATCCGAAATTATCTGgcaagcgatgagatgttctctgacatgttccttgggagcccggagcctaa Alignment from Spaln_nt2Genome CGAGATGGCAACGGG-AAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG tgatgatggatgcttaagccaaagtatttccctccctgtgtctcctccagCGAGATGGAAATGGGCAAGTTAGGGCTGGTGGAATTCAATATCCTATGG-ACCATATCCGAAATTATCTGgcaagcgatgagatgttctctgacatgttccttgggagcccggagcctaa Alignment from Pairagon CGAGATGGCAACGGG-AAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG tgatgatggatgcttaagccaaagtatttccctccctgtgtctcctccagCGAGATGGAAATGGGCAAGTTAGGGCTGGTGGAATTCAATATCCTATGG-ACCATATCCGAAATTATCTGgcaagcgatgagatgttctctgacatgttccttgggagcccggagcctaa Alignment from Exonerate_protein2genome CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG tgatgatggatgcttaagccaaagtatttccctccctgtgtctcctccagCGAGATGGAAATGGGCAAGTTAGGGCTGGTGGAATTCAATATCCTATGGACCATATCCGAAATTATCTGgcaagcgatgagatgttctctgacatgttccttgggagcccggagcctaa Alignment from Exonerate_coding2genome tgatgatggatgcttaagccaaagtatttccctccctgtgtctcctccagcgagatggaaatgggcaagttagggctggtggaattcaatatcctatggaccatatccgaaattatctggcaagcgatgagatgttctctgacatgttccttgggagcccggagcctaa Alignment from GeneWise tgatgatggatgcttaagccaaagtatttccctccctgtgtctcctccagcgagatggaaatgggcaagttagggctggtggaattcaatatcctatggaccatatccgaaattatctggcaagcgatgagatgttctctgacatgttccttgggagcccggagcctaa #### Capn1_ID1376_2 --> 0 - 1 Original Alignment GAACTGATGTCAAAC-CCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGg ggcacatcaaggggggctggggcccatgatctagtgtatgttttctccagGAATTGATGTCAAACCCCCCAATTCATTGTAGACGGAGCCACCCGAACAG-CATCTGCCAGGGAGCACTAggtacgtaaacatctctaggcatgggctgctgtgtgacttgagctccgttt Alignment from CESAR GAACTGATGTCAAACCCC-CAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGg ggcacatcaaggggggctggggcccatgatctagtgtatgttttctccagGAATTGATGTCAAACCCCCCAATTCATTGTAGACGGAGCCACCCGAACA-GCATCTGCCAGGGAGCACTAggtacgtaaacatctctaggcatgggctgctgtgtgacttgagctccgttt Alignment from Spaln_aa2Genome GAACTGATGTCAAACCCC-CAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG ggcacatcaaggggggctggggcccatgatctagtgtatgttttctccagGAATTGATGTCAAACCCCcCAATTCATTGTAGACGGAGCCACCCGAACAGC-ATCTGCCAGGGAGCACTAGgtacgtaaacatctctaggcatgggctgctgtgtgacttgagctccgttt Alignment from Spaln_nt2Genome GAACTGATGTCAAACCCCC-AGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG ggcacatcaaggggggctggggcccatgatctagtgtatgttttctccagGAATTGATGTCAAACCCCCCAATTCATTGTAGACGGAGCCACCCGAACAG-CATCTGCCAGGGAGCACTAGgtacgtaaacatctctaggcatgggctgctgtgtgacttgagctccgttt Alignment from Pairagon GAACTGATGTCAAA-CCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG ggcacatcaaggggggctggggcccatgatctagtgtatgttttctccagGAATTGATGTCAAACCCCCCAATTCATTGTAGACGGAGCCACCCGAACAG-CATCTGCCAGGGAGCACTAGgtacgtaaacatctctaggcatgggctgctgtgtgacttgagctccgttt Alignment from Exonerate_protein2genome GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG ggcacatcaaggggggctggggcccatgatctagtgtatgttttctccagGAATTGATGTCAAACCCCCCAATTCATTGTAGACGGAGCCACCCGAACAGCATCTGCCAGGGAGCACTAGgtacgtaaacatctctaggcatgggctgctgtgtgacttgagctccgttt Alignment from Exonerate_coding2genome ggcacatcaaggggggctggggcccatgatctagtgtatgttttctccaggaattgatgtcaaaccccccaattcattgtagacggagccacccgaacagcatctgccagggagcactaggtacgtaaacatctctaggcatgggctgctgtgtgacttgagctccgttt Alignment from GeneWise GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG ggcacatcaaggggggctggggcccatgatctagtgtatgttttctccagGAATTGATGTCAAACCCCCCAATTCATTGTAGACGGAGCCACCCGAACAGCATCTGCCAGGGAGCACTAGgtacgtaaacatctctaggcatgggctgctgtgtgacttgagctccgttt #### Carns1_ID387_5 --> 0 - 1 Original Alignment GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACG-GTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAg gtgtatgtgtagtggtaattgtgtagagcctgactccacctttccctcagGTGGCAGCAAGACTCAGTGGCTGCCACTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTGGTGATGATGCGTACTAGGATTATTGAAGAAACTGGAAGAGGAGGAGAGTG-CCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTGCCCTTGCCAggtaagctgtaatgtcaactcaaagcccaaactgccttaattagatgcatt Alignment from CESAR GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACG-GTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAg gtgtatgtgtagtggtaattgtgtagagcctgactccacctttccctcagGTGGCAGCAAGACTCAGTGGCTGCCACTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTGGTGATGATGCGTACTAGGATTATTGAAGAAACTGGAAGAGGAGGAGAGTG-CCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTGCCCTTGCCAggtaagctgtaatgtcaactcaaagcccaaactgccttaattagatgcatt Alignment from Spaln_aa2Genome GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG gtgtatgtgtagtggtaattgtgtagagcctgactccacctttccctcagGTGGCAGCAAGACTCAGTGGCTGCCACTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTGGTGATGATGCGTACTAGGATTATTGAAGAAACTGGAAGAGGAGGAGAGTGCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTGCCCTTGCCAGgtaagctgtaatgtcaactcaaagcccaaactgccttaattagatgcatt Alignment from Spaln_nt2Genome GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACG-GTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG gtgtatgtgtagtggtaattgtgtagagcctgactccacctttccctcagGTGGCAGCAAGACTCAGTGGCTGCCACTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTGGTGATGATGCGTACTAGGATTATTGAAGAAACTGGAAGAGGAGGAGAGTGCCT-TGTAGAGCCAATTTGTCCACCTGTCCGCCTGCCCTTGCCAGgtaagctgtaatgtcaactcaaagcccaaactgccttaattagatgcatt Alignment from Pairagon GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACG-GTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG gtgtatgtgtagtggtaattgtgtagagcctgactccacctttccctcagGTGGCAGCAAGACTCAGTGGCTGCCACTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTGGTGATGATGCGTACTAGGATTATTGAAGAAACTGGAAGAGGAGGAGAGTG-CCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTGCCCTTGCCAGgtaagctgtaatgtcaactcaaagcccaaactgccttaattagatgcatt Alignment from Exonerate_protein2genome GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG gtgtatgtgtagtggtaattgtgtagagcctgactccacctttccctcagGTGGCAGCAAGACTCAGTGGCTGCCACTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTGGTGATGATGCGTACTAGGATTATTGAAGAAACTGGAAGAGGAGGAGAGTGCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTGCCCTTGCCAGgtaagctgtaatgtcaactcaaagcccaaactgccttaattagatgcatt Alignment from Exonerate_coding2genome GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG gtgtatgtgtagtggtaattgtgtagagcctgactccacctttccctcagGTGGCAGCAAGACTCAGTGGCTGCCACTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTGGTGATGATGCGTACTAGGATTATTGAAGAAACTGGAAGAGGAGGAGAGTGCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTGCCCTTGCCAGgtaagctgtaatgtcaactcaaagcccaaactgccttaattagatgcatt Alignment from GeneWise GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG gtgtatgtgtagtggtaattgtgtagagcctgactccacctttccctcagGTGGCAGCAAGACTCAGTGGCTGCCACTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTGGTGATGATGCGTACTAGGATTATTGAAGAAACTGGAAGAGGAGGAGAGTGCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTGCCCTTGCCAGgtaagctgtaatgtcaactcaaagcccaaactgccttaattagatgcatt #### Carns1_ID388_4 --> 2 - 0 Original Alignment gaAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCT-CGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG gtgcgtgtcaatttcattgccttgcctggtgttctctttcccctccacaggaAATATGCTCCTCTGCCTGTCT---GCCTGGCTAATGAAGGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTGCTGGTTTCTCAAGTTGTGAGTTTCTATCCAGGTGGTTTGACGTTCCTGGATGACTTTGTTCCACCTCCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCAGAAT-CGGCCGTGGCAAGGAGGCAGCAGAACTGGCCCGGAATCTTACTTGCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCCTCACAGgtaagtgtacctccctgaatgtattcctaaatgtgtatgccctttcatgc Alignment from CESAR gaAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCT-CGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG gtgcgtgtcaatttcattgccttgcctggtgttctctttcccctccacaggaAATATGCTCCTCTGCCTGTCT---GCCTGGCTAATGAAGGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTGCTGGTTTCTCAAGTTGTGAGTTTCTATCCAGGTGGTTTGACGTTCCTGGATGACTTTGTTCCACCTCCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCAGAAT-CGGCCGTGGCAAGGAGGCAGCAGAACTGGCCCGGAATCTTACTTGCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCCTCACAGgtaagtgtacctccctgaatgtattcctaaatgtgtatgccctttcatgc Alignment from Spaln_aa2Genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG gtgcgtgtcaatttcattgccttgcctggtgttctctttcccctccacagGAAATATGCTCCTCTGCCTGTCT---GCCTGGCTAATGAAGGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTGCTGGTTTCTCAAGTTGTGAGTTTCTATCCAGGTGGTTTGACGTTCCTGGATGACTTTGTTCCACCTCCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCAGAATCGGCCGTGGCAAGGAGGCAGCAGAACTGGCCCGGAATCTTACTTGCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCCTCACAGgtaagtgtacctccctgaatgtattcctaaatgtgtatgccctttcatgc Alignment from Spaln_nt2Genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCC-CCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG gtgcgtgtcaatttcattgccttgcctggtgttctctttcccctccacagGAAATATGCTCCTCTGCCTGT---CTGCCTGGCTAATGAAGGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTGCTGGTTTCTCAAGTTGTGAGTTTCTATCCAGGTGGTTTGACGTTCCTGGATGACTTTGTTCCACCTCCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCAGAATC-GGCCGTGGCAAGGAGGCAGCAGAACTGGCCCGGAATCTTACTTGCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCCTCACAGgtaagtgtacctccctgaatgtattcctaaatgtgtatgccctttcatgc Alignment from Pairagon GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCT-CGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG gtgcgtgtcaatttcattgccttgcctggtgttctctttcccctccacagGAAATATGCTCCTCTGCCTGT---CTGCCTGGCTAATGAAGGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTGCTGGTTTCTCAAGTTGTGAGTTTCTATCCAGGTGGTTTGACGTTCCTGGATGACTTTGTTCCACCTCCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCAGAATC-GGCCGTGGCAAGGAGGCAGCAGAACTGGCCCGGAATCTTACTTGCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCCTCACAGgtaagtgtacctccctgaatgtattcctaaatgtgtatgccctttcatgc Alignment from Exonerate_protein2genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCT-CGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAA--TCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG gtgcgtgtcaatttcattgccttgcctggtgttctctttcccctccacagGAAATATGCTCCTCTGCCTGTCT---GCCTGGCTAATGAAGGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTGCTGGTTTCTCAAGTTGTGAGTTTCTATCCAGGTGGTTTGACGTTCCTGGATGACTTTGTTCCACCTCCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCAGAATC---GGCCGTGGCAAGGAGGCAGCAGAACTGGCCCGGAATCTTACTTGCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCCTCACAGgtaagtgtacctccctgaatgtattcctaaatgtgtatgccctttcatgc Alignment from Exonerate_coding2genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCT-CGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAA--TCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG gtgcgtgtcaatttcattgccttgcctggtgttctctttcccctccacagGAAATATGCTCCTCTGCCTGTCT---GCCTGGCTAATGAAGGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTGCTGGTTTCTCAAGTTGTGAGTTTCTATCCAGGTGGTTTGACGTTCCTGGATGACTTTGTTCCACCTCCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCAGAATC---GGCCGTGGCAAGGAGGCAGCAGAACTGGCCCGGAATCTTACTTGCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCCTCACAGgtaagtgtacctccctgaatgtattcctaaatgtgtatgccctttcatgc Alignment from GeneWise GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTG---GGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG gtgcgtgtcaatttcattgccttgcctggtgttctctttcccctccacagGAAATATGCTCCTCTGCCTGTCT---GCCTGGCTAATGAAGGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTGCTGGTTTCTCAAGTTGTGAGTTTCTATCCAGGTGGTTTGACGTTCCTGGATGACTTTGTTCCACCTCCG---GCATGCTACTTACTTCCTGGCAGGTCTGGGGCCAGAATCGGCCGTGGCAAGGAGGCAGCAGAACTGGCCCGGAATCTTACTTGCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCCTCACAGgtaagtgtacctccctgaatgtattcctaaatgtgtatgccctttcatgc #### Carns1_ID389_3 --> 2 - 1 Original Alignment gcTGCCCTGGGGCAGAGGTG-ACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTg ggagtaacagtatggaggatatgacaggtatttcctgctgtctttcataggcTGCCCTGGGGCGGAAGTCCACCTTGTGTGTTCTAGGTTCCCTCAGCACCTTCCTATCAC-GTTGCTGGAGGGTGGGGTCCAAAGCCCTggtggggtattgcttctataataccctaccttctcctacaaaattggaaca Alignment from CESAR gcTGCCCTGGGGCAGAGGTG-ACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTg ggagtaacagtatggaggatatgacaggtatttcctgctgtctttcataggcTGCCCTGGGGCGGAAGTCCACCTTGTGTGTTCTAGGTTCCCTCAGCACCTTCCTATCA-CGTTGCTGGAGGGTGGGGTCCAAAGCCCTggtggggtattgcttctataataccctaccttctcctacaaaattggaaca Alignment from Spaln_aa2Genome GCTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG ggagtaacagtatggaggatatgacaggtatttcctgctgtctttcatagGCTGCCCTGGGGCGGAAGTCCACCTTGTGTGTTCTAGGTTCCCTCAGCACCTTCCTATCACGTTGCTGGAGGGTGGGGTCCAAAGCCCTGgtggggtattgcttctataataccctaccttctcctacaaaattggaaca Alignment from Spaln_nt2Genome GCTGCCCTGGGGCAGAGGTG-ACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG ggagtaacagtatggaggatatgacaggtatttcctgctgtctttcatagGCTGCCCTGGGGCGGAAGTCCACCTTGTGTGTTCTAGGTTCCCTCAGCACCTTCCTATCAC-GTTGCTGGAGGGTGGGGTCCAAAGCCCTGgtggggtattgcttctataataccctaccttctcctacaaaattggaaca Alignment from Pairagon GCTGCCCTGGGGCAGAGGT-GACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG ggagtaacagtatggaggatatgacaggtatttcctgctgtctttcatagGCTGCCCTGGGGCGGAAGTCCACCTTGTGTGTTCTAGGTTCCCTCAGCACCTTCCTATCAC-GTTGCTGGAGGGTGGGGTCCAAAGCCCTGgtggggtattgcttctataataccctaccttctcctacaaaattggaaca Alignment from Exonerate_protein2genome GCTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG ggagtaacagtatggaggatatgacaggtatttcctgctgtctttcatagGCTGCCCTGGGGCGGAAGTCCACCTTGTGTGTTCTAGGTTCCCTCAGCACCTTCCTATCACGTTGCTGGAGGGTGGGGTCCAAAGCCCTGgtggggtattgcttctataataccctaccttctcctacaaaattggaaca Alignment from Exonerate_coding2genome GCTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG ggagtaacagtatggaggatatgacaggtatttcctgctgtctttcatagGCTGCCCTGGGGCGGAAGTCCACCTTGTGTGTTCTAGGTTCCCTCAGCACCTTCCTATCACGTTGCTGGAGGGTGGGGTCCAAAGCCCTGgtggggtattgcttctataataccctaccttctcctacaaaattggaaca Alignment from GeneWise GCTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG ggagtaacagtatggaggatatgacaggtatttcctgctgtctttcatagGCTGCCCTGGGGCGGAAGTCCACCTTGTGTGTTCTAGGTTCCCTCAGCACCTTCCTATCACGTTGCTGGAGGGTGGGGTCCAAAGCCCTGgtggggtattgcttctataataccctaccttctcctacaaaattggaaca #### Catsper1_ID926_3 --> 2 - 1 Original Alignment aaTGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTC-AAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGg tgatgcggccacggcctgtcccactgtaagaattgctcttctctcccaagaaTGGTACTTCATGATCCTAGACTCCATCTTCCTTACCATCTTTGTACTAGAGGCAGTC---CAAACTTATTGCTTTGGGCTTAGAGTATTTTT-TGACCCATCAAATAATCTGggtaagtcaatacaggcggtttataatggttacagaatacatcatttagag Alignment from CESAR aaTGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGg tgatgcggccacggcctgtcccactgtaagaattgctcttctctcccaagaaTGGTACTTCATGATCCTAGACTCCATCTTCCTTACCATCTTTGTACTAGAGGCAGTC--CAAACTTATTGCTTTGGGCTTAGAGTATT-TTTTGACCCATCAAATAATCTGggtaagtcaatacaggcggtttataatggttacagaatacatcatttagag Alignment from Spaln_aa2Genome AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG tgatgcggccacggcctgtcccactgtaagaattgctcttctctcccaagAATGGTACTTCATGATCCTAGACTCCATCTTCCTTACCATCTTTGTACTAGAGGCAGTCC--AAACTTATTGCTTTGGGCTTAGAGTATTTTTT-GACCCATCAAATAATCTGGgtaagtcaatacaggcggtttataatggttacagaatacatcatttagag Alignment from Spaln_nt2Genome AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG tgatgcggccacggcctgtcccactgtaagaattgctcttctctcccaagAATGGTACTTCATGATCCTAGACTCCATCTTCCTTACCATCTTTGTACTAGAGGCAGTC--CAAACTTATTGCTTTGGGCTTAGAGTATTTTT-TGACCCATCAAATAATCTGGgtaagtcaatacaggcggtttataatggttacagaatacatcatttagag Alignment from Pairagon AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG tgatgcggccacggcctgtcccactgtaagaattgctcttctctcccaagAATGGTACTTCATGATCCTAGACTCCATCTTCCTTACCATCTTTGTACTAGAGGCAGTC--CAAACTTATTGCTTTGGGCTTAGAGTATTTTT-TGACCCATCAAATAATCTGGgtaagtcaatacaggcggtttataatggttacagaatacatcatttagag Alignment from Exonerate_protein2genome AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG tgatgcggccacggcctgtcccactgtaagaattgctcttctctcccaagAATGGTACTTCATGATCCTAGACTCCATCTTCCTTACCATCTTTGTACTAGAGGCAGTC---CAAACTTATTGCTTTGGGCTTAGAGTATTTTTTGACCCATCAAATAATCTGGgtaagtcaatacaggcggtttataatggttacagaatacatcatttagag Alignment from Exonerate_coding2genome AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG tgatgcggccacggcctgtcccactgtaagaattgctcttctctcccaagAATGGTACTTCATGATCCTAGACTCCATCTTCCTTACCATCTTTGTACTAGAGGCAGTC---CAAACTTATTGCTTTGGGCTTAGAGTATTTTTTGACCCATCAAATAATCTGGgtaagtcaatacaggcggtttataatggttacagaatacatcatttagag Alignment from GeneWise AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG tgatgcggccacggcctgtcccactgtaagaattgctcttctctcccaagAATGGTACTTCATGATCCTAGACTCCATCTTCCTTACCATCTTTGTACTAGAGGCAGTC---CAAACTTATTGCTTTGGGCTTAGAGTATTTTTTGACCCATCAAATAATCTGGgtaagtcaatacaggcggtttataatggttacagaatacatcatttagag #### Catsper1_ID928_5 --> 1 - 1 Original Alignment cATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGT-GGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTACCTGCCTCt ccatttgcttcaatggtaccttgacttttgtcgcttctccctctctacagtATTTTGACTAGAGTCCAGGAAGTAGCT---GCCCTTAGTCGGGTCTTTACCCTCAATCACAGCCATCCTCA-CCTCATGTTTACCTGCCACtgcgagttgcacgatggaggttggatacaattattctaaataggttagatg Alignment from CESAR cATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGT-GGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTACCTGCCTCt ccatttgcttcaatggtaccttgacttttgtcgcttctccctctctacagtATTTTGACTAGAGTCCAGGAAGTAGCT---GCCCTTAGTCGGGTCTTTACCCTCAATCACAGCCATCCTCA-CCTCATGTTTACCTGCCACtgcgagttgcacgatggaggttggatacaattattctaaataggttagatg Alignment from Spaln_aa2Genome CATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGTGGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTACCTGCCTCT ccatttgcttcaatggtaccttgacttttgtcgcttctccctctctacagTATTTTGACTAGAGTCCAGGAAGTAGCTG--CCCTTAGTCGGGTCTTTACCCTCAATCACAGCCATCCTCAC-CTCATGTTTACCTGCCACTgcgagttgcacgatggaggttggatacaattattctaaataggttagatg Alignment from Spaln_nt2Genome CATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGT-GGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTACCTGCCTCT ccatttgcttcaatggtaccttgacttttgtcgcttctccctctctacagTATTTTGACTAGAGTCCAGGAAGTAGCTG---CCCTTAGTCGGGTCTTTACCCTCAATCACAGCCATCCTCA-CCTCATGTTTACCTGCCACTgcgagttgcacgatggaggttggatacaattattctaaataggttagatg Alignment from Pairagon CATCCTGACCAGCCTCCACGAAGTGGC----------CGGGACTCTGAGTGGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTACCTGCCTCT ccatttgcttcaatggtaccttgacttttgtcgcttctccctctctacagTATTTTGACTAGAGTCCAGGAAGTAGCTGCCCTTAGTCGGG------------TCTTTACCCTCAATCACAGCCATCCTCA-CCTCATGTTTACCTGCCACTgcgagttgcacgatggaggttggatacaattattctaaataggttagatg Alignment from Exonerate_protein2genome CATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGTGGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTACCTGCCTCT ccatttgcttcaatggtaccttgacttttgtcgcttctccctctctacagTATTTTGACTAGAGTCCAGGAAGTAGCT---GCCCTTAGTCGGGTCTTTACCCTCAATCACAGCCATCCTCACCTCATGTTTACCTGCCACTgcgagttgcacgatggaggttggatacaattattctaaataggttagatg Alignment from Exonerate_coding2genome CATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGTGGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTACCTGCCTCT ccatttgcttcaatggtaccttgacttttgtcgcttctccctctctacagTATTTTGACTAGAGTCCAGGAAGTAGCTGCCCTT--AGTCGGGTCTTTACCCTCAATCACAGCCATCCTCAC-CTCATGTTTACCTGCCACTgcgagttgcacgatggaggttggatacaattattctaaataggttagatg Alignment from GeneWise CATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGTGGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTACCTGCCTCTTC- ccatttgcttcaatggtaccttgacttttgtcgcttctccctctctacagTATTTTGACTAGAGTCCAGGAAGTAGCTGCCC--TTAGTCGGGTCTTTACCCTCAATCACAGCCATCCTCACCTCATGTTTACCTGCCACTGCGAgttgcacgatggaggttggatacaattattctaaataggttagatg #### Catsper1_ID929_6 --> 2 - 1 Original Alignment tcCTCTTCTCTGTGGTTCTCCGAGCACTG-TTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAg gcGCCT ttggactttctcttggttatgttgaatggcttggctttcttctctttcagtcCTCTTCTCTGTGACTCTCCAAGCACTCCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAATGTCTTTA-TACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAAggtgggctaacctaaggctacagaatctgtatcttttccccacagctGCCT Alignment from CESAR tcCTCTTCTCTGTGGTTCTCCGAGCACTG-TTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAg gcGCCT ttggactttctcttggttatgttgaatggcttggctttcttctctttcagtcCTCTTCTCTGTGACTCTCCAAGCACTCCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAATGTCTTT-ATACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAAggtgggctaacctaaggctacagacttgctcctcttcttttgtagctGCCT Alignment from Spaln_aa2Genome TCCTCTTCTCTGTGGTTCTCCGAGCACTG-TTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGCCT ttggactttctcttggttatgttgaatggcttggctttcttctctttcagTCCTCTTCTCTGTGACTCTCCAAGCACTCcTTCCAGGATTCAGATCCCAAGCGTTTCCAGAATGTCTTTAT-ACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAAGgtgggctaacctaaggctacagaatctgtatcttttccccacagCTGCCT Alignment from Spaln_nt2Genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTC-AGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGCCT ttggactttctcttggttatgttgaatggcttggctttcttctctttcagTCCTCTTCTCTGTGACTCTCCAAGCACTCCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAATGTCTTTA-TACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAAGgtgggctaacctaaggctacagaatctgtatcttttccccacagCTGCCT Alignment from Pairagon TCCTCTTCTCTGTGGTTCTCCGAGCACT-GTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAGG--------------------------------------------CGCCT ttggactttctcttggttatgttgaatggcttggctttcttctctttcagTCCTCTTCTCTGTGACTCTCCAAGCACTCCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAATGTCTTTA-TACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAAGGTGGGCTAACCTAAGGCTACAGAATCTGTATCTTTTCCCCACAGCTGCCT Alignment from Exonerate_protein2genome TCCTCTTCTCTGTGGTTCTCCGAGCACTG-TTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTT--ACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGCCT ttggactttctcttggttatgttgaatggcttggctttcttctctttcagTCCTCTTCTCTGTGACTCTCCAAGCACTCCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAATGTCTTTAT---ACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAAGgtgggctaacctaaggctacagaatctgtatcttttccccacagCTGCCT Alignment from Exonerate_coding2genome TCCTCTTCTCTGTGGTTCTCCGAGCACTG-TTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTT--ACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGCCT ttggactttctcttggttatgttgaatggcttggctttcttctctttcagTCCTCTTCTCTGTGACTCTCCAAGCACTCCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAATGTCTTTAT---ACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAAGgtgggctaacctaaggctacagaatctgtatcttttccccacagCTGCCT Alignment from GeneWise TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGCCT ttggactttctcttggttatgttgaatggcttggctttcttctctttcagTCCTCTTCTCTGTGACTCTCCAAGCACTCCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAATGTCTTTATACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAAGgtgggctaacctaaggctacagaatctgtatcttttccccacagCTGCCT #### Catsper1_ID931_8 --> 1 - 0 Original Alignment cCTGGTGATTGCT-GTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG cattcctatactcagccccatttaggcagtcctcatgctgtgtcttgcagcCTAGTAATTGCACGCTCTAGTAGACAACTTCCTAATGGTCC-GCTCAAAGGCCTGGAGAAAGTGAAGCTGGAAgtgagtacaatattgaagggtagataatcctgatgtgctgctcaaaggtg Alignment from CESAR cCTGGTGATTGCT-GTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG cattcctatactcagccccatttaggcagtcctcatgctgtgtcttgcagcCTAGTAATTGCACGCTCTAGTAGACAACTTCCTAATGGTC-CGCTCAAAGGCCTGGAGAAAGTGAAGCTGGAAgtgagtacaatattgaagggtagataatcctgatgtgctgctcaaaggtg Alignment from Spaln_aa2Genome CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG cattcctatactcagccccatttaggcagtcctcatgctgtgtcttgcagCCTAGTAATTGCACGCTCTAGTAGACAACTTCCTAATGGTCCGCTCAAAGGCCTGGAGAAAGTGAAGCTGGAAgtgagtacaatattgaagggtagataatcctgatgtgctgctcaaaggtg Alignment from Spaln_nt2Genome CCTGGTGATTGCTGTC-CTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG cattcctatactcagccccatttaggcagtcctcatgctgtgtcttgcagCCTAGTAATTGCACGCTCTAGTAGACAACTTCCTAATGG-TCCGCTCAAAGGCCTGGAGAAAGTGAAGCTGGAAgtgagtacaatattgaagggtagataatcctgatgtgctgctcaaaggtg Alignment from Pairagon CCTGGTGATTGC-TGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG cattcctatactcagccccatttaggcagtcctcatgctgtgtcttgcagCCTAGTAATTGCACGCTCTAGTAGACAACTTCCTAATGGT-CCGCTCAAAGGCCTGGAGAAAGTGAAGCTGGAAgtgagtacaatattgaagggtagataatcctgatgtgctgctcaaaggtg Alignment from Exonerate_protein2genome CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG cattcctatactcagccccatttaggcagtcctcatgctgtgtcttgcagCCTAGTAATTGCACGCTCTAGTAGACAACTTCCTAATGGTCCGCTCAAAGGCCTGGAGAAAGTGAAGCTGGAAgtgagtacaatattgaagggtagataatcctgatgtgctgctcaaaggtg Alignment from Exonerate_coding2genome cattcctatactcagccccatttaggcagtcctcatgctgtgtcttgcagcctagtaattgcacgctctagtagacaacttcctaatggtccgctcaaaggcctggagaaagtgaagctggaagtgagtacaatattgaagggtagataatcctgatgtgctgctcaaaggtg Alignment from GeneWise CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG cattcctatactcagccccatttaggcagtcctcatgctgtgtcttgcagCCTAGTAATTGCACGCTCTAGTAGACAACTTCCTAATGGTCCGCTCAAAGGCCTGGAGAAAGTGAAGCTGGAAgtgagtacaatattgaagggtagataatcctgatgtgctgctcaaaggtg #### Ccdc88b_ID1824_25 --> 2 - 1 Original Alignment ggTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTC-AGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAg gtcatgatgaccttgcctgatccatacattgattggcctcttctatccagggTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCTGGCGGGCAGCGACGGAGTCTCCAGTTCTCAGTTCTCTGTTGGACGAAGTCCAGCATCATTCA-TCCCAGC---ACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAggtatatgctgttttactataatttgaatttccattgttttaagtggtcag Alignment from CESAR ggTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTC-AGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAg gtcatgatgaccttgcctgatccatacattgattggcctcttctatccagggTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCTGGCGGGCAGCGACGGAGTCTCCAGTTCTCAGTTCTCTGTTGGACGAAGTCCAGCATCATTC-ATCCCAGC---ACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAggtatatgctgttttactataatttgaatttccattgttttaagtggtcag Alignment from Spaln_aa2Genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG gtcatgatgaccttgcctgatccatacattgattggcctcttctatccagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCTGGCGGGCAGCGACGGAGTCTCCAGTTCTCAGTTCTCTGTTGGACGAAGTCCAGCATCATTCATCCCAGC---ACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtatatgctgttttactataatttgaatttccattgttttaagtggtcag Alignment from Spaln_nt2Genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTC-AGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG gtcatgatgaccttgcctgatccatacattgattggcctcttctatccagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCTGGCGGGCAGCGACGGAGTCTCCAGTTCTCAGTTCTCTGTTGGACGAAGTCCAGCATCATTCATCCCAG----CACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtatatgctgttttactataatttgaatttccattgttttaagtggtcag Alignment from Pairagon GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACT-CAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG gtcatgatgaccttgcctgatccatacattgattggcctcttctatccagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCTGGCGGGCAGCGACGGAGTCTCCAGTTCTCAGTTCTCTGTTGGACGAAGTCCAGCATCATTCATCCCAG----CACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtatatgctgttttactataatttgaatttccattgttttaagtggtcag Alignment from Exonerate_protein2genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG gtcatgatgaccttgcctgatccatacattgattggcctcttctatccagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCTGGCGGGCAGCGACGGAGTCTCCAGTTCTCAGTTCTCTGTTGGACGAAGTCCAGCATCATTCATCCC---AGCACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtatatgctgttttactataatttgaatttccattgttttaagtggtcag Alignment from Exonerate_coding2genome gtcatgatgaccttgcctgatccatacattgattggcctcttctatccagggtcatcgtcaccagcacccatgcaccaaattgagagctccctttgcttgggagatgagaccctagctggcgggcagcgacggagtctccagttctcagttctctgttggacgaagtccagcatcattcatcccagcacatcacggcaatggttcaaacagcaaaggccaggcccccttggggcactgagtacctacagcaaaggtatatgctgttttactataatttgaatttccattgttttaagtggtcag Alignment from GeneWise GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG gtcatgatgaccttgcctgatccatacattgattggcctcttctatccagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCTGGCGGGCAGCGACGGAGTCTCCAGTTCTCAGTTCTCTGTTGGACGAAGTCCAGCATCATTCATCCC---AGCACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtatatgctgttttactataatttgaatttccattgttttaagtggtcag #### Ccdc88b_ID1826_23 --> 1 - 2 Original Alignment gGACCAGCTTAATGCCTTGCGCCGGGAG-AAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCaa gtaagaccacttagggccaggttgaggtaaaacttgtgtttctcttataggGACCAACTCAATGGCTTGCGCCAACAGCAAACAGAAGCTGGTGGAT---ATCATGG-CCAATACCGGGTAGTACAGCCTGGGCCACTCCCCCATACTaagtaagatagcaccttatgtatcatgttagtattttgctttattccacagc Alignment from CESAR gGACCAGCTTAATGCCTTGCGCCGGGAG-AAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCaa gtaggtccacttagggccaggttgaggtaaaacttgtgtttctcttataggGACCAACTCAATGGCTTGCGCCAACAGCAAACAGAAGCTGGTGGAT---ATCATG-GCCAATACCGGGTAGTACAGCCTGGGCCACTCCCCCATACTaagtaagatagcaccttatgtatcatgttagtattttgctttattccacagc Alignment from Spaln_aa2Genome GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA gtaagaccacttagggccaggttgaggtaaaacttgtgtttctcttatagGGACCAACTCAATGGCTTGCGCCAACAGCAAACAGAA---GCTGGTGGATATCATGGCCAATACCGGGTAGTACAGCCTGGGCCACTCCCCCATACTAAgtaagatagcaccttatgtatcatgttagtattttgctttattccacagc Alignment from Spaln_nt2Genome GGACCAGCTTAATGCCTTGCGCCGGGAG-AAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA gtaagaccacttagggccaggttgaggtaaaacttgtgtttctcttatagGGACCAACTCAATGGCTTGCGCCAACAGCAAACAGAAGCTGGTGG---ATATCATGG-CCAATACCGGGTAGTACAGCCTGGGCCACTCCCCCATACTAAgtaagatagcaccttatgtatcatgttagtattttgctttattccacagc Alignment from Pairagon GGACCAGCTTAATGCCTTGCGCCGGGAG-AAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA gtaagaccacttagggccaggttgaggtaaaacttgtgtttctcttatagGGACCAACTCAATGGCTTGCGCCAACAGCAAACAGAAGCTGGTGG---ATATCATGG-CCAATACCGGGTAGTACAGCCTGGGCCACTCCCCCATACTAAgtaagatagcaccttatgtatcatgttagtattttgctttattccacagc Alignment from Exonerate_protein2genome GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA gtaagaccacttagggccaggttgaggtaaaacttgtgtttctcttatagGGACCAACTCAATGGCTTG---CGCCAACAGCAAACAGAAGCTGGTGGATATCATGGCCAATACCGGGTAGTACAGCCTGGGCCACTCCCCCATACTAAgtaagatagcaccttatgtatcatgttagtattttgctttattccacagc Alignment from Exonerate_coding2genome gtaagaccacttagggccaggttgaggtaaaacttgtgtttctcttatagggaccaactcaatggcttgcgccaacagcaaacagaagctggtggatatcatggccaataccgggtagtacagcctgggccactcccccatactaagtaagatagcaccttatgtatcatgttagtattttgctttattccacagc Alignment from GeneWise GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA gtaagaccacttagggccaggttgaggtaaaacttgtgtttctcttatagGGACCAACTCAATGGCTTGCGCCAACAG---CAAACAGAAGCTGGTGGATATCATGGCCAATACCGGGTAGTACAGCCTGGGCCACTCCCCCATACTAAgtaagatagcaccttatgtatcatgttagtattttgctttattccacagc #### Ccdc88b_ID1827_22 --> 0 - 2 Original Alignment CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTA-GCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACct ccaatagtctgaggtctgacgctcatctccaatcaacctctctctttcagCTCTTAACACAGCTTCATACAGTACAAAAAGAGGAGAATAGGCAGCTTTTACGCAGAGGTGAAGGCTTTAAGCCGTACAAACAGGG-GTTGCAGGAGCGTAGTTTGGAGAGT---GACCCTGTGCACCGTGAGCAGCCAGAATACctgtaggtccacttagggccaggttgaggttttcatactttcaatttcacag Alignment from CESAR CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTA-GCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACct ccaatagtctgaggtctgacgctcatctccaatcaacctctctctttcagCTCTTAACACAGCTTCATACAGTACAAAAAGAGGAGAATAGGCAGCTTTTACGCAGAGGTGAAGGCTTTAAGCCGTACAAACAGG-GGTTGCAGGAGCGTAGTTTGGAGAGT---GACCCTGTGCACCGTGAGCAGCCAGAATACctgtaggtccacttagggccaggttgaggtaaaacttgtgtttctcttatag Alignment from Spaln_aa2Genome CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACCT ccaatagtctgaggtctgacgctcatctccaatcaacctctctctttcagCTCTTAACACAGCTTCATACAGTACAAAAAGAGGAGAATAGGCAGCTTTTACGCAGAGGTGAAGGCTTTAAGCCGTACAAACAGGGGTTGCAGGAGCGTAGTTTGGAGAGT---GACCCTGTGCACCGTGAGCAGCCAGAATACCTgtaggtccacttagggccaggttgaggttttcatactttcaatttcacag Alignment from Spaln_nt2Genome CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTA-GCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACCT ccaatagtctgaggtctgacgctcatctccaatcaacctctctctttcagCTCTTAACACAGCTTCATACAGTACAAAAAGAGGAGAATAGGCAGCTTTTACGCAGAGGTGAAGGCTTTAAGCCGTACAAACAGGG-GTTGCAGGAGCGTAGTTTGGAGA---GTGACCCTGTGCACCGTGAGCAGCCAGAATACCTgtaggtccacttagggccaggttgaggttttcatactttcaatttcacag Alignment from Pairagon CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTA-GCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACCT ccaatagtctgaggtctgacgctcatctccaatcaacctctctctttcagCTCTTAACACAGCTTCATACAGTACAAAAAGAGGAGAATAGGCAGCTTTTACGCAGAGGTGAAGGCTTTAAGCCGTACAAACAGGG-GTTGCAGGAGCGTAGTTTGGAGA---GTGACCCTGTGCACCGTGAGCAGCCAGAATACCTgtaggtccacttagggccaggttgaggttttcatactttcaatttcacag Alignment from Exonerate_protein2genome CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACCT ccaatagtctgaggtctgacgctcatctccaatcaacctctctctttcagCTCTTAACACAGCTTCATACAGTACAAAAAGAGGAGAATAGGCAGCTTTTACGCAGAGGTGAAGGCTTTAAGCCGTACAAACAGGGGTTGCAGGAGCGTAGTTTGGAGAGT---GACCCTGTGCACCGTGAGCAGCCAGAATACCTgtaggtccacttagggccaggttgaggttttcatactttcaatttcacag Alignment from Exonerate_coding2genome ccaatagtctgaggtctgacgctcatctccaatcaacctctctctttcagctcttaacacagcttcatacagtacaaaaagaggagaataggcagcttttacgcagaggtgaaggctttaagccgtacaaacaggggttgcaggagcgtagtttggagagtgaccctgtgcaccgtgagcagccagaatacctgtaggtccacttagggccaggttgaggttttcatactttcaatttcacag Alignment from GeneWise CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACCT ccaatagtctgaggtctgacgctcatctccaatcaacctctctctttcagCTCTTAACACAGCTTCATACAGTACAAAAAGAGGAGAATAGGCAGCTTTTACGCAGAGGTGAAGGCTTTAAGCCGTACAAACAGGGGTTGCAGGAGCGTAGTTTGGAGAGT---GACCCTGTGCACCGTGAGCAGCCAGAATACCTgtaggtccacttagggccaggttgaggttttcatactttcaatttcacag #### Ccdc88b_ID1828_21 --> 1 - 0 Original Alignment aGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGC-CAGCAGCTGCGT------GAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG cttagtctcaggtgactgaatatctaagggtctgtcactggcccctgcagaGCCCAAATGTTACTGACTGAGGTGTCACGAGGGTGTGGAGAGATCCAAGGAGAATGTGGGGAGCTGTGGGGCCGTCTATCAAGACTGGAACTAGAGCGGGCACAACTTGAAATCCAGAGCCCAGCAGCTGCGTGTGTGGGAGTCCAACCAACAAT-GGATCTGAGTGCATGTCACCTGACAACTCAATGTGAAgtaagttacaacagtgggcgtataagccttcatacactaatggtcacaga Alignment from CESAR aGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGC-CAGCAGCTGCGT------GAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG cttagtctcaggtgactgaatatctaagggtctgtcactggcccctgcagaGCCCAAATGTTACTGACTGAGGTGTCACGAGGGTGTGGAGAGATCCAAGGAGAATGTGGGGAGCTGTGGGGCCGTCTATCAAGACTGGAACTAGAGCGGGCACAACTTGAAATCCAGAGCCCAGCAGCTGCGTGTGTGGGAGTCCAACCAAC-AATGGATCTGAGTGCATGTCACCTGACAACTCAATGTGAAgtaagttacaacagtgggcgtataagccttcatacactaatggtcacaga Alignment from Spaln_aa2Genome AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGT------GAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG cttagtctcaggtgactgaatatctaagggtctgtcactggcccctgcagAGCCCAAATGTTACTGACTGAGGTGTCACGAGGGTGTGGAGAGATCCAAGGAGAATGTGGGGAGCTGTGGGGCCGTCTATCAAGACTGGAACTAGAGCGGGCACAACTTGAAATCCAGAGCCCAGCAGCTGCGTGTGTGGGAGTCCAACCAACAATGGATCTGAGTGCATGTCACCTGACAACTCAATGTGAAgtaagttacaacagtgggcgtataagccttcatacactaatggtcacaga Alignment from Spaln_nt2Genome AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCC-AGCAGCTGCGTG------AGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG cttagtctcaggtgactgaatatctaagggtctgtcactggcccctgcagAGCCCAAATGTTACTGACTGAGGTGTCACGAGGGTGTGGAGAGATCCAAGGAGAATGTGGGGAGCTGTGGGGCCGTCTATCAAGACTGGAACTAGAGCGGGCACAACTTGAAATCCAGAGCCCAGCAGCTGCGTGTGTGGGAGTCCAACCAACA-ATGGATCTGAGTGCATGTCACCTGACAACTCAATGTGAAgtaagttacaacagtgggcgtataagccttcatacactaatggtcacaga Alignment from Pairagon AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAG-CCAGCAGCTGCGT------GAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG cttagtctcaggtgactgaatatctaagggtctgtcactggcccctgcagAGCCCAAATGTTACTGACTGAGGTGTCACGAGGGTGTGGAGAGATCCAAGGAGAATGTGGGGAGCTGTGGGGCCGTCTATCAAGACTGGAACTAGAGCGGGCACAACTTGAAATCCAGAGCCCAGCAGCTGCGTGTGTGGGAGTCCAACCAACAA-TGGATCTGAGTGCATGTCACCTGACAACTCAATGTGAAgtaagttacaacagtgggcgtataagccttcatacactaatggtcacaga Alignment from Exonerate_protein2genome AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGTGAGTCCAACCAGCAG------TTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG cttagtctcaggtgactgaatatctaagggtctgtcactggcccctgcagAGCCCAAATGTTACTGACTGAGGTGTCACGAGGGTGTGGAGAGATCCAAGGAGAATGTGGGGAGCTGTGGGGCCGTCTATCAAGACTGGAACTAGAGCGGGCACAACTTGAAATCCAGAGCCCAGCAGCTGCGTGTGTGGGAGTCCAACCAACAATGGATCTGAGTGCATGTCACCTGACAACTCAATGTGAAgtaagttacaacagtgggcgtataagccttcatacactaatggtcacaga Alignment from Exonerate_coding2genome cttagtctcaggtgactgaatatctaagggtctgtcactggcccctgcagagcccaaatgttactgactgaggtgtcacgagggtgtggagagatccaaggagaatgtggggagctgtggggccgtctatcaagactggaactagagcgggcacaacttgaaatccagagcccagcagctgcgtgtgtgggagtccaaccaacaatggatctgagtgcatgtcacctgacaactcaatgtgaagtaagttacaacagtgggcgtataagccttcatacactaatggtcacaga Alignment from GeneWise AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGTGAGTCCAACCAGCAG------TTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG cttagtctcaggtgactgaatatctaagggtctgtcactggcccctgcagAGCCCAAATGTTACTGACTGAGGTGTCACGAGGGTGTGGAGAGATCCAAGGAGAATGTGGGGAGCTGTGGGGCCGTCTATCAAGACTGGAACTAGAGCGGGCACAACTTGAAATCCAGAGCCCAGCAGCTGCGTGTGTGGGAGTCCAACCAACAATGGATCTGAGTGCATGTCACCTGACAACTCAATGTGAAgtaagttacaacagtgggcgtataagccttcatacactaatggtcacaga #### Ccdc88b_ID1829_20 --> 1 - 2 Original Alignment gCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAA-GCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGag ctcaaaaagctgatgcgccgatggtcagttctccttgttttacatcacagaCGTGGGCAGTTGCATGCCCAGCGGGCAAACGTTGAGCGCTCAAGATGTAGCGCTGCTGGCAGAA---GAAC-ATTGATGCAGGATGGGCAGTGCCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTTCATAATGAACATCAAaggtgaagttgttagctctggcctactctccccccctgccatagcattctca Alignment from CESAR gCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAA-GCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGag ctcaaaaagctgatgcgccgatggtcagttctccttgttttacatcacagaCGTGGGCAGTTGCATGCCCAGCGGGCAAACGTTGAGCGCTCAAGATGTAGCGCTGCTGGCAGAA---GAA-CATTGATGCAGGATGGGCAGTGCCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTTCATAATGAACATCAAaggtgaagttgttagctctggcctactctccccccctgccatagcattctca Alignment from Spaln_aa2Genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagctgatgcgccgatggtcagttctccttgttttacatcacagACGTGGGCAGTTGCATGCCCAGCGGGCAAACGTTGAGCGCTCAAGATGTAGC---GCTGCTGGCAGAAGAACATTGATGCAGGATGGGCAGTGCCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTTCATAATGAACATCAAAGgtgaagttgttagctctggcctactctccccccctgccatagcattctca Alignment from Spaln_nt2Genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAA-GCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagctgatgcgccgatggtcagttctccttgttttacatcacagACGTGGGCAGTTGCATGCCCAGCGGGCAAACGTTGAGCGCTCAAGATGTAGCGCTGCTGGCAGA---AGAAC-ATTGATGCAGGATGGGCAGTGCCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTTCATAATGAACATCAAAGgtgaagttgttagctctggcctactctccccccctgccatagcattctca Alignment from Pairagon GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAA-GCACAAGAGGTAGCCCTACTGGCAGA--------GCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagctgatgcgccgatggtcagttctccttgttttacatcacagACGTGGGCAGTTGCATGCCCAGCGGGCAAACGTTGAGCGCTCAAGATGTAGCGCTGCTGGCAGAAGAACATTG------------ATGCAGGATGGGCAGTGCCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTTCATAATGAACATCAAAGgtgaagttgttagctctggcctactctccccccctgccatagcattctca Alignment from Exonerate_protein2genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagctgatgcgccgatggtcagttctccttgttttacatcacagACGTGGGCAGTTGCATGCCCAGCGGGCAAACGTTGAGCGCTCAAGATGTAGC---GCTGCTGGCAGAAGAACATTGATGCAGGATGGGCAGTGCCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTTCATAATGAACATCAAAGgtgaagttgttagctctggcctactctccccccctgccatagcattctca Alignment from Exonerate_coding2genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagctgatgcgccgatggtcagttctccttgttttacatcacagACGTGGGCAGTTGCATGCCCAGCGGGCAAACGTTGAGCGCTCAAGATGTAGC---GCTGCTGGCAGAAGAACATTGATGCAGGATGGGCAGTGCCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTTCATAATGAACATCAAAGgtgaagttgttagctctggcctactctccccccctgccatagcattctca Alignment from GeneWise GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagctgatgcgccgatggtcagttctccttgttttacatcacagACGTGGGCAGTTGCATGCCCAGCGGGCAAACGTTGAGCGCTCAAGATGTAGCGCT---GCTGGCAGAAGAACATTGATGCAGGATGGGCAGTGCCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTTCATAATGAACATCAAAGgtgaagttgttagctctggcctactctccccccctgccatagcattctca #### Ccdc88b_ID1831_18 --> 0 - 0 Original Alignment AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGG-AGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gaggtaatagggctcacaacattaatataaatttccccccctctatgcagAATGCCACATTGGTGGCAGAGAAAGCGGCTCTGCAGGGACAATTGCAGCATCTTGAGGGACAGCTGGGGCAGCCTACATGGCCGTGCACAGGAATTGCTTC-ACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtatgtatgggttgtgttgtgcactttgagaaaatttattgatttcaatc Alignment from CESAR AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGG-AGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gaggtaatagggctcacaacattaatataaatttccccccctctatgcagAATGCCACATTGGTGGCAGAGAAAGCGGCTCTGCAGGGACAATTGCAGCATCTTGAGGGACAGCTGGGGCAGCCTACATGGCCGTGCACAGGAATTGCTT-CACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtatgtatgggttgtgttgtgcactttgagaaaatttattgatttcaatc Alignment from Spaln_aa2Genome AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gaggtaatagggctcacaacattaatataaatttccccccctctatgcagAATGCCACATTGGTGGCAGAGAAAGCGGCTCTGCAGGGACAATTGCAGCATCTTGAGGGACAGCTGGGGCAGCCTACATGGCCGTGCACAGGAATTGCTTCACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtatgtatgggttgtgttgtgcactttgagaaaatttattgatttcaatc Alignment from Spaln_nt2Genome AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGG-AGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gaggtaatagggctcacaacattaatataaatttccccccctctatgcagAATGCCACATTGGTGGCAGAGAAAGCGGCTCTGCAGGGACAATTGCAGCATCTTGAGGGACAGCTGGGGCAGCCTACATGGCCGTGCACAGGAATTGCTTC-ACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtatgtatgggttgtgttgtgcactttgagaaaatttattgatttcaatc Alignment from Pairagon AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGG-AGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gaggtaatagggctcacaacattaatataaatttccccccctctatgcagAATGCCACATTGGTGGCAGAGAAAGCGGCTCTGCAGGGACAATTGCAGCATCTTGAGGGACAGCTGGGGCAGCCTACATGGCCGTGCACAGGAATTGCTTC-ACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtatgtatgggttgtgttgtgcactttgagaaaatttattgatttcaatc Alignment from Exonerate_protein2genome AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gaggtaatagggctcacaacattaatataaatttccccccctctatgcagAATGCCACATTGGTGGCAGAGAAAGCGGCTCTGCAGGGACAATTGCAGCATCTTGAGGGACAGCTGGGGCAGCCTACATGGCCGTGCACAGGAATTGCTTCACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtatgtatgggttgtgttgtgcactttgagaaaatttattgatttcaatc Alignment from Exonerate_coding2genome gaggtaatagggctcacaacattaatataaatttccccccctctatgcagaatgccacattggtggcagagaaagcggctctgcagggacaattgcagcatcttgagggacagctggggcagcctacatggccgtgcacaggaattgcttcacagagtcaacgggctcaagagcacagtagttgcttgcaggtatgtatgggttgtgttgtgcactttgagaaaatttattgatttcaatc Alignment from GeneWise --------------------------------------------------AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG GAGGTAATAGGGCTCACAACATTAATATAAATTTCCCCCCCTCTATGCAGAATGCCACATTGGTGGCAGAGAAAGCGGCTCTGCAGGGACAATTGCAGCATCTTGAGGGACAGCTGGGGCAGCCTACATGGCCGTGCACAGGAATTGCTTCACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtatgtatgggttgtgttgtgcactttgagaaaatttattgatttcaatc #### Ccdc88b_ID1832_17 --> 0 - 0 Original Alignment CTGCGCCAGTACCCGGTGGACCTGGCAACTGGG-GCGCGA---GCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT attgatgtggagggcaacaagctgttcctctgccttctgttctcccccagCTACATCAGTGCCCGGTG---CTT---GAAGGGCGCACGGCGAGATGGACCTTGGGCTGCGGAGACACAGAACG-GCAGCTTATTGTAGTAGAGCAAAATgtaaacaagaaggtgggggcctaccttagaggtaatagggctcacaacat Alignment from CESAR CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT attgatgtggagggcaacaagctgttcctctgccttctgttctcccccagCTACATCAGTGCCCGGTG--CTTGAAGGGCGCACGGCGAGATGGACCTTGGGCTGCGGAGACACAGAACG-GCAGCTTATTGTAGTAGAGCAAAATgtaaacaagaaggtgggggcctaccttagaggtaatagggctcacaacat Alignment from Spaln_aa2Genome CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT attgatgtggagggcaacaagctgttcctctgccttctgttctcccccagCTACATCAGTGCCCGGTGCTTGAAGGGCGCACGGCGAGATGGACCTTGGGCTGCGGAGACACAGAA---CGGCAGCTTATTGTAGTAGAGCAAAATgtaaacaagaaggtgggggcctaccttagaggtaatagggctcacaacat Alignment from Spaln_nt2Genome CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCG-CGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT attgatgtggagggcaacaagctgttcctctgccttctgttctcccccagCTACATCAGTGCCCGGTG---CTTGAAGGGCGCACGGCGAGATGGACCTTGGGCTGCGGAGACACAGAACGG-CAGCTTATTGTAGTAGAGCAAAATgtaaacaagaaggtgggggcctaccttagaggtaatagggctcacaacat Alignment from Pairagon CTGCGCCAGTACCCGGTG--------------GACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT attgatgtggagggcaacaagctgttcctctgccttctgttctcccccagCTACATCAGTGCCCGGTGCTTGAAGGGCGCACG----------------GCGAGATGGACCTTGGGCTGCGGAGACACAGAACGG-CAGCTTATTGTAGTAGAGCAAAATgtaaacaagaaggtgggggcctaccttagaggtaatagggctcacaacat Alignment from Exonerate_protein2genome CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT attgatgtggagggcaacaagctgttcctctgccttctgttctcccccagCTACATCAGTGCCCGGTGCTTGAAGGGCGCACGGCGAGATGGACCTTGGGCTGCGGAGACACAGAACGG---CAGCTTATTGTAGTAGAGCAAAATgtaaacaagaaggtgggggcctaccttagaggtaatagggctcacaacat Alignment from Exonerate_coding2genome CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGG attgatgtggagggcaacaagctgttcctctgccttctgttctcccccagctacatcagtgcccggtgcttgaagggcgcacggcgagatggaccttgggctgcggagacacagaacggcagCTTATTGTAGTAGAGCAAAATGTAAACAAGAAGGTGGGGGCCTACCTTAGAGGTAATAGGGCTCACAACAT Alignment from GeneWise CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT attgatgtggagggcaacaagctgttcctctgccttctgttctcccccagCTACATCAGTGCCCGGTGCTTGAAGGGCGCACGGCGAGATGGACCTTGGGCTGCGGAGACACAGAACGG---CAGCTTATTGTAGTAGAGCAAAATgtaaacaagaaggtgggggcctaccttagaggtaatagggctcacaacat #### Ccdc88b_ID1837_12 --> 0 - 1 Original Alignment GACCTGGACTCTCTGCGGCATCAGCTGGAGCAG-CTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGg aggcctaatggacagacagctctggcactttttttttttttttttaatagGACCTGGACTCACTGCGGCACCAGTTGGAACAGCCTAGTGGAAGAGAATGTAGAGCTAGAGCTGGAACTGC-AAGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGggtaagacaagtcttgtgtagcagacaggatttggcaaggaacctttagtc Alignment from CESAR GACCTGGACTCTCTGCGGCATCAGCTGGAGCAG-CTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGg aggcctaatggacagacagctctggcactttttttttttttttttaatagGACCTGGACTCACTGCGGCACCAGTTGGAACAGCCTAGTGGAAGAGAATGTAGAGCTAGAGCTGGAACTGC-AAGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGggtaagacaagtcttgtgtagcagacaggatttggcaaggaacctttagtc Alignment from Spaln_aa2Genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAG-CTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG aggcctaatggacagacagctctggcactttttttttttttttttaatagGACCTGGACTCACTGCGGCACCAGTTGGAACAGcCTAGTGGAAGAGAATGTAGAGCTAGAGCTGGAACTGCA-AGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGGgtaagacaagtcttgtgtagcagacaggatttggcaaggaacctttagtc Alignment from Spaln_nt2Genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAG-CTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG aggcctaatggacagacagctctggcactttttttttttttttttaatagGACCTGGACTCACTGCGGCACCAGTTGGAACAGCCTAGTGGAAGAGAATGTAGAGCTAGAGCTGGAACTGCA-AGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGGgtaagacaagtcttgtgtagcagacaggatttggcaaggaacctttagtc Alignment from Pairagon GACCTGGACTCTCTGCGGCATCAGCTGGAGCAG-CTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG aggcctaatggacagacagctctggcactttttttttttttttttaatagGACCTGGACTCACTGCGGCACCAGTTGGAACAGCCTAGTGGAAGAGAATGTAGAGCTAGAGCTGGAACTGCA-AGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGGgtaagacaagtcttgtgtagcagacaggatttggcaaggaacctttagtc Alignment from Exonerate_protein2genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG aggcctaatggacagacagctctggcactttttttttttttttttaatagGACCTGGACTCACTGCGGCACCAGTTGGAACAGCCTAGTGGAAGAGAATGTAGAGCTAGAGCTGGAACTGCAAGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGGgtaagacaagtcttgtgtagcagacaggatttggcaaggaacctttagtc Alignment from Exonerate_coding2genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG aggcctaatggacagacagctctggcactttttttttttttttttaatagGACCTGGACTCACTGCGGCACCAGTTGGAACAGCCTAGTGGAAGAGAATGTAGAGCTAGAGCTGGAACTGCAAGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGGgtaagacaagtcttgtgtagcagacaggatttggcaaggaacctttagtc Alignment from GeneWise GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG aggcctaatggacagacagctctggcactttttttttttttttttaatagGACCTGGACTCACTGCGGCACCAGTTGGAACAGCCTAGTGGAAGAGAATGTAGAGCTAGAGCTGGAACTGCAAGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGGgtaagacaagtcttgtgtagcagacaggatttggcaaggaacctttagtc #### Ccdc88b_ID1839_10 --> 0 - 0 Original Alignment ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGC-CGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG tctcggccctttgtcccctggttcattgtgatattctgcttttctcatagACTCAGGCGTTGTCTGCCCAAGCAAAGTGCACCGAACTCTGCTGTGAAGAAGCAGAGGCATTAGAA---GAGGCAGGTCCACCTGCCCCACCTGCAGGAAGATCTCCGGCGATGTC-TGAGAAGCTTCAAGCAGCAGAAGTCTTCAAGGGTCATTTGGAAgtaggttggtccacacatgagccagagaaatgggtaacgtcaatgctgct Alignment from CESAR ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG tctcggccctttgtcccctggttcattgtgatattctgcttttctcatagACTCAGGCGTTGTCTGCCCAAGCAAAGTGCACCGAACTCTGCTGTGAAGAAGCAGAGGCATTAGAAG--AGGCAGGTCCACCTGCCCCACCTGCAGGAAGATCTCCGGCGATGT-CTGAGAAGCTTCAAGCAGCAGAAGTCTTCAAGGGTCATTTGGAAgtaggttggtccacacatgagccagagaaatgggtaacgtcaatgctgct Alignment from Spaln_aa2Genome ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG tctcggccctttgtcccctggttcattgtgatattctgcttttctcatagACTCAGGCGTTGTCTGCCCAAGCAAAGTGCACCGAACTCTGCTGTGAAGAAGCAGAGGCATTA---GAAGAGGCAGGTCCACCTGCCCCACCTGCAGGAAGATCTCCGGCGATGTCTGAGAAGCTTCAAGCAGCAGAAGTCTTCAAGGGTCATTTGGAAgtaggttggtccacacatgagccagagaaatgggtaacgtcaatgctgct Alignment from Spaln_nt2Genome ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG tctcggccctttgtcccctggttcattgtgatattctgcttttctcatagACTCAGGCGTTGTCTGCCCAAGCAAAGTGCACCGAACTCTGCTGTGAAGAAGCAGAGGCATT--AGAAGAGGCAGGTCCACCTGCCCCACCTGCAGGAAGATCTCCGGCGATGTC-TGAGAAGCTTCAAGCAGCAGAAGTCTTCAAGGGTCATTTGGAAgtaggttggtccacacatgagccagagaaatgggtaacgtcaatgctgct Alignment from Pairagon ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACT----GCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG tctcggccctttgtcccctggttcattgtgatattctgcttttctcatagACTCAGGCGTTGTCTGCCCAAGCAAAGTGCACCGAACTCTGCTGTGAAGAAGCAGAGGCATTAGAAGAGGCAG------GTCCACCTGCCCCACCTGCAGGAAGATCTCCGGCGATGTC-TGAGAAGCTTCAAGCAGCAGAAGTCTTCAAGGGTCATTTGGAAgtaggttggtccacacatgagccagagaaatgggtaacgtcaatgctgct Alignment from Exonerate_protein2genome ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG tctcggccctttgtcccctggttcattgtgatattctgcttttctcatagACTCAGGCGTTGTCTGCCCAAGCAAAGTGCACCGAACTCTGCTGTGAAGAAGCAGAGGCATTAGAAGAGGCAGGTCCACCTGCCCCACCTGCAGGAAGATCT---CCGGCGATGTCTGAGAAGCTTCAAGCAGCAGAAGTCTTCAAGGGTCATTTGGAAgtaggttggtccacacatgagccagagaaatgggtaacgtcaatgctgct Alignment from Exonerate_coding2genome AGACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG tctcggccctttgtcccctggttcattgtgatattctgcttttctcatAGACTCAGGCGTTGTCTGCCCAAGCAAAGTGCACCGAACTCTGCTGTGAAGAAGCAGAGGCATTAGAAGAGGCAGGT--CCACCTGCCCCACCTGCAGGAAGATCTCCGGCGATGTCT-GAGAAGCTTCAAGCAGCAGAAGTCTTCAAGGGTCATTTGGAAgtaggttggtccacacatgagccagagaaatgggtaacgtcaatgctgct Alignment from GeneWise ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG tctcggccctttgtcccctggttcattgtgatattctgcttttctcatagACTCAGGCGTTGTCTGCCCAAGCAAAGTGCACCGAACTCTGCTGTGAAGAAGCAGAGGCATTAGAAGAGGCAGGTCCACCTGCCCCACCTGCAGGAAGATCT---CCGGCGATGTCTGAGAAGCTTCAAGCAGCAGAAGTCTTCAAGGGTCATTTGGAAgtaggttggtccacacatgagccagagaaatgggtaacgtcaatgctgct #### Ccdc88b_ID1840_9 --> 1 - 0 Original Alignment gGAGGAGAAGGCT-GAGCAACTGCTGGACTCCCAGGCCGAGGTGCAGGGCTTGGAGGCTGAAATTCGAAGGCTCCGCCAGGAG tgtggatgggctcttccagttgaatgaagaggtatttttttctttctaagaGAAGAGAGAGCTCGAACAGCTGTTAGACTCCCATGCAGAGGTTCAG---TTGGATT-TGAAATCCATAGACTTCGACAAGAGgtaaactccaacctcttctacttatgcatagacttcaccaagaggtgtgg Alignment from CESAR gGAGGAGAAGGCT-GAGCAACTGCTGGACTCCCAGGCCGAGGTGCAGGGCTTGGAGGCTGAAATTCGAAGGCTCCGCCAGGAG tgtggatgggctcttccagttgaatgaagaggtatttttttctttctaagaGAAGAGAGAGCTCGAACAGCTGTTAGACTCCCATGCAGAGGTTCAG---TTGGAT-TTGAAATCCATAGACTTCGACAAGAGgtaaactccaacctcttctacttatgcatagacttcaccaagaggtgtgg Alignment from Spaln_aa2Genome GGAGGAGAAGGCTGAGCAACTGCTGGACTCCCAGGCCGAGGTGCAGGGCTTGGAGGCTGAAATTCGAAGGCTCCGCCAGGAG tgtggatgggctcttccagttgaatgaagaggtatttttttctttctaagAGAAGAGAGAGCTCGAACAGCTGTTAGACTCCCATGCAGA---GGTTCAGTTGGATTTGAAATCCATAGACTTCGACAAGAGgtaaactccaacctcttctacttatgcatagacttcaccaagaggtgtgg Alignment from Spaln_nt2Genome GGAGGAGAAGGCT-GAGCAACTGCTGGACTCCCAGGCCGAGGTGCAGGGCTTGGAGGCTGAAATTCGAAGGCTCCGCCAGGAG tgtggatgggctcttccagttgaatgaagaggtatttttttctttctaagAGAAGAGAGAGCTCGAACAGCTGTTAGACTCCCATGCAGAGGTTCAG---TTGGA-TTTGAAATCCATAGACTTCGACAAGAGgtaaactccaacctcttctacttatgcatagacttcaccaagaggtgtgg Alignment from Pairagon tgtggatgggctcttccagttgaatgaagaggtatttttttctttctaagagaagagagagctcgaacagctgttagactcccatgcagaggttcagttggatttgaaatccatagacttcgacaagaggtaaactccaacctcttctacttatgcatagacttcaccaagaggtgtgg Alignment from Exonerate_protein2genome GGAGGAGAAGGCTGAGCAACTGCTGGACTCCCAGGCCGAGGTGCAGGGCTTGGAGGCTGAAATTCGAAGGCTCCGCCAGGAG tgtggatgggctcttccagttgaatgaagaggtatttttttctttctaagAGAAGAGAGAGCTCGAACAGCTGTTAGACTCCCATGCAGA---GGTTCAGTTGGATTTGAAATCCATAGACTTCGACAAGAGgtaaactccaacctcttctacttatgcatagacttcaccaagaggtgtgg Alignment from Exonerate_coding2genome tgtggatgggctcttccagttgaatgaagaggtatttttttctttctaagagaagagagagctcgaacagctgttagactcccatgcagaggttcagttggatttgaaatccatagacttcgacaagaggtaaactccaacctcttctacttatgcatagacttcaccaagaggtgtgg Alignment from GeneWise GGAGGAGAAGGCTGAGCAACTGCTGGACTCCCAGGCCGAGGTGCAGGGCTTGGAGGCTGAAATTCGAAGGCTCCGCCAGGAG tgtggatgggctcttccagttgaatgaagaggtatttttttctttctaagAGAAGAGAGAGCTCGAACAGCTGTTAGACTCCCATGCAGA---GGTTCAGTTGGATTTGAAATCCATAGACTTCGACAAGAGgtaaactccaacctcttctacttatgcatagacttcaccaagaggtgtgg #### Ccdc88b_ID1841_8 --> 0 - 2 Original Alignment CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCA-GAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGgt ggtcagtgtgggagttaatcatgtgttttcttccttccttcctccttcagCGGCTGGCTGAACTGTTACTTGAGAGGGAGCCAGACCACCTGCTGCTACCTCGAGGCTCCTGCCAATGCA------GAGGGTGTCTCCCACC-TTTAGATCTGCAGTTAACCAATGCTAAGGCTCAACTGAGATGCCTCAGGAGGGAAgtgtacgtcatagctctgctcaccttgccgccaaagcctgtcaattcttcag Alignment from CESAR CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCA-GAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGgt ggtcagtgtgggagttaatcatgtgttttcttccttccttcctccttcagCGGCTGGCTGAACTGTTACTTGAGAGGGAGCCAGACCACCTGCTGCTACCTCGAGGCTCCTGCCAAT------GCAGAGGGTGTCTCCCAC-CTTTAGATCTGCAGTTAACCAATGCTAAGGCTCAACTGAGATGCCTCAGGAGGGAAgtgtacgtcatagctctgctcaccttgccgccaaagcctgtcaattcttcag Alignment from Spaln_aa2Genome CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGT ggtcagtgtgggagttaatcatgtgttttcttccttccttcctccttcagCGGCTGGCTGAACTGTTACTTGAGAGGGAGCCAGACCACCTGCTGCTACCTCGAGGCTCCTGCCAATGCAGA------GGGTGTCTCCCACCTTTAGATCTGCAGTTAACCAATGCTAAGGCTCAACTGAGATGCCTCAGGAGGGAAGTgtacgtcatagctctgctcaccttgccgccaaagcctgtcaattcttcag Alignment from Spaln_nt2Genome CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCA-GAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGT ggtcagtgtgggagttaatcatgtgttttcttccttccttcctccttcagCGGCTGGCTGAACTGTTACTTGAGAGGGAGCCAGACCACCTGCTGCTACCTCGAGGCTCCTGCCAA------TGCAGAGGGTGTCTCCCACC-TTTAGATCTGCAGTTAACCAATGCTAAGGCTCAACTGAGATGCCTCAGGAGGGAAGTgtacgtcatagctctgctcaccttgccgccaaagcctgtcaattcttcag Alignment from Pairagon CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCC-AGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGT ggtcagtgtgggagttaatcatgtgttttcttccttccttcctccttcagCGGCTGGCTGAACTGTTACTTGAGAGGGAGCCAGACCACCTGCTGCTACCTCGAGGCTCCTGCCAA------TGCAGAGGGTGTCTCCCACC-TTTAGATCTGCAGTTAACCAATGCTAAGGCTCAACTGAGATGCCTCAGGAGGGAAGTgtacgtcatagctctgctcaccttgccgccaaagcctgtcaattcttcag Alignment from Exonerate_protein2genome CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGT ggtcagtgtgggagttaatcatgtgttttcttccttccttcctccttcagCGGCTGGCTGAACTGTTACTTGAGAGGGAGCCAGACCACCTGCTGCTACCTCGA------GGCTCCTGCCAATGCAGAGGGTGTCTCCCACCTTTAGATCTGCAGTTAACCAATGCTAAGGCTCAACTGAGATGCCTCAGGAGGGAAGTgtacgtcatagctctgctcaccttgccgccaaagcctgtcaattcttcag Alignment from Exonerate_coding2genome ggtcagtgtgggagttaatcatgtgttttcttccttccttcctccttcagcggctggctgaactgttacttgagagggagccagaccacctgctgctacctcgaggctcctgccaatgcagagggtgtctcccacctttagatctgcagttaaccaatgctaaggctcaactgagatgcctcaggagggaagtgtacgtcatagctctgctcaccttgccgccaaagcctgtcaattcttcag Alignment from GeneWise CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGT ggtcagtgtgggagttaatcatgtgttttcttccttccttcctccttcagCGGCTGGCTGAACTGTTACTTGAGAGGGAGCCAGACCACCTGCTGCTACCTCGAGGC------TCCTGCCAATGCAGAGGGTGTCTCCCACCTTTAGATCTGCAGTTAACCAATGCTAAGGCTCAACTGAGATGCCTCAGGAGGGAAGTgtacgtcatagctctgctcaccttgccgccaaagcctgtcaattcttcag #### Ccdc88b_ID1845_4 --> 0 - 1 Original Alignment GAGGAGCTACAGCTG-CTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAg acccagtggcacctagcccagacacatcgacctcggggctgtgctcgcagGAGGAGCTACAGCTTCTTAATCTTATCTGCACCACCAGACCTCCAGC-TACAGGGTGTGAACCCTTTTCAggtaagtgttctaacctcgtctaccatttgactcccatatataccctcatc Alignment from CESAR GAGGAGCTACAGCTGCTG-ATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAg acccagtggcacctagcccagacacatcgacctcggggctgtgctcgcagGAGGAGCTACAGCTTCTTAATCTTATCTGCACCACCAGACCTCC-AGCTACAGGGTGTGAACCCTTTTCAggtaagtgttctaacctcgtctaccatttgactcccatatataccctcatc Alignment from Spaln_aa2Genome GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG acccagtggcacctagcccagacacatcgacctcggggctgtgctcgcagGAGGAGCTACAGCTTCTTAATCTTATCTGCACCACCAGACCTCCAGCTACAGGGTGTGAACCCTTTTCAGgtaagtgttctaacctcgtctaccatttgactcccatatataccctcatc Alignment from Spaln_nt2Genome GAGGAGCTACAGCTGCTGA-TCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG acccagtggcacctagcccagacacatcgacctcggggctgtgctcgcagGAGGAGCTACAGCTTCTTAATCTTATCTGCACCACCAGACCTCCAG-CTACAGGGTGTGAACCCTTTTCAGgtaagtgttctaacctcgtctaccatttgactcccatatataccctcatc Alignment from Pairagon GAGGAGCTACAGCTGC-TGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG acccagtggcacctagcccagacacatcgacctcggggctgtgctcgcagGAGGAGCTACAGCTTCTTAATCTTATCTGCACCACCAGACCTCCAG-CTACAGGGTGTGAACCCTTTTCAGgtaagtgttctaacctcgtctaccatttgactcccatatataccctcatc Alignment from Exonerate_protein2genome GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG acccagtggcacctagcccagacacatcgacctcggggctgtgctcgcagGAGGAGCTACAGCTTCTTAATCTTATCTGCACCACCAGACCTCCAGCTACAGGGTGTGAACCCTTTTCAGgtaagtgttctaacctcgtctaccatttgactcccatatataccctcatc Alignment from Exonerate_coding2genome GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG acccagtggcacctagcccagacacatcgacctcggggctgtgctcgcagGAGGAGCTACAGCTTCTTAATCTTATCTGCACCACCAGACCTCCAGCTACAGGGTGTGAACCCTTTTCAGgtaagtgttctaacctcgtctaccatttgactcccatatataccctcatc Alignment from GeneWise GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG acccagtggcacctagcccagacacatcgacctcggggctgtgctcgcagGAGGAGCTACAGCTTCTTAATCTTATCTGCACCACCAGACCTCCAGCTACAGGGTGTGAACCCTTTTCAGgtaagtgttctaacctcgtctaccatttgactcccatatataccctcatc #### Ccdc88b_ID1846_3 --> 1 - 0 Original Alignment tGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTC-AGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttatgattaacagaactctgactactgatatctgcctcctccaactagtTCTCCAAGTTCTCAAGGGGGAGTTCGTATGGTCCAGGGGACGAGATGGTACTGCTGCTTGTCAGATGTGGACTC-CTGTCATTTATGGGGGCAGTTGAGAGACTTTTATCAGgtcaggccagtatggtgaaatctgagacccagtggcacctagcccagaca Alignment from CESAR tGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTC-AGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttatgattaacagaactctgactactgatatctgcctcctccaactagtTCTCCAAGTTCTCAAGGGGGAGTTCGTATGGTCCAGGGGACGAGATGGTACTGCTGCTTGTCAGATGTGGACT-CCTGTCATTTATGGGGGCAGTTGAGAGACTTTTATCAGgtcaggccagtatggtgaaatctgagacccagtggcacctagcccagaca Alignment from Spaln_aa2Genome TGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttatgattaacagaactctgactactgatatctgcctcctccaactagTTCTCCAAGTTCTCAAGGGGGAGTTCGTATGGTCCAGGGGACGAGATGGTACTGCTGCTTGTCAGATGTGGACTCCTGTCATTTATGGGGGCAGTTGAGAGACTTTTATCAGgtcaggccagtatggtgaaatctgagacccagtggcacctagcccagaca Alignment from Spaln_nt2Genome TGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTC-AGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttatgattaacagaactctgactactgatatctgcctcctccaactagTTCTCCAAGTTCTCAAGGGGGAGTTCGTATGGTCCAGGGGACGAGATGGTACTGCTGCTTGTCAGATGTGG-ACTCCTGTCATTTATGGGGGCAGTTGAGAGACTTTTATCAGgtcaggccagtatggtgaaatctgagacccagtggcacctagcccagaca Alignment from Pairagon TGCTCCCAGTTCCCGAGGAGGACTTCGAATGGT-CAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttatgattaacagaactctgactactgatatctgcctcctccaactagTTCTCCAAGTTCTCAAGGGGGAGTTCGTATGGTCCAGGGGACGAGATGGTACTGCTGCTTGTCAGATGTGG-ACTCCTGTCATTTATGGGGGCAGTTGAGAGACTTTTATCAGgtcaggccagtatggtgaaatctgagacccagtggcacctagcccagaca Alignment from Exonerate_protein2genome TGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttatgattaacagaactctgactactgatatctgcctcctccaactagTTCTCCAAGTTCTCAAGGGGGAGTTCGTATGGTCCAGGGGACGAGATGGTACTGCTGCTTGTCAGATGTGGACTCCTGTCATTTATGGGGGCAGTTGAGAGACTTTTATCAGgtcaggccagtatggtgaaatctgagacccagtggcacctagcccagaca Alignment from Exonerate_coding2genome ctttatgattaacagaactctgactactgatatctgcctcctccaactagttctccaagttctcaagggggagttcgtatggtccaggggacgagatggtactgctgcttgtcagatgtggactcctgtcatttatgggggcagttgagagacttttatcaggtcaggccagtatggtgaaatctgagacccagtggcacctagcccagaca Alignment from GeneWise TGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttatgattaacagaactctgactactgatatctgcctcctccaactagTTCTCCAAGTTCTCAAGGGGGAGTTCGTATGGTCCAGGGGACGAGATGGTACTGCTGCTTGTCAGATGTGGACTCCTGTCATTTATGGGGGCAGTTGAGAGACTTTTATCAGgtcaggccagtatggtgaaatctgagacccagtggcacctagcccagaca #### Ccdc88b_ID1847_2 --> 0 - 2 Original Alignment GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAA-GAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCat ccccggtattgtgtgcttgcttccctactcacccttgactttatttttagGCTTTAGGTTTAGCTGGCCTTGTGGGGGATGCAGAAAAGTCAGCAGGAGGAACTGAAGAGGATGAAGAGGAAGAGGAGGAACGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTG-TGGAGCTTTACTTCTTCGGGTTTTGGAGATTatgtaagtgacacagtgaaatttaactatggatgtcggccaagaatggtagg Alignment from CESAR GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAA-GAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCat ccccggtattgtgtgcttgcttccctactcacccttgactttatttttagGCTTTAGGTTTAGCTGGCCTTGTGGGGGATGCAGAAAAGTCAGCAGGAGGAACTGAAGAGGATGAAGAGGAAGAGGAGGAACGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATT-GTGGAGCTTTACTTCTTCGGGTTTTGGAGATTatgtaagtgacacagtgaaatttaactatggatgtcggccaagaatggtagg Alignment from Spaln_aa2Genome GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT ccccggtattgtgtgcttgcttccctactcacccttgactttatttttagGCTTTAGGTTTAGCTGGCCTTGTGGGGGATGCAGAAAAGTCAGCAGGAGGAACTGAAGAGGATGAAGAGGAAGAGGAGGAACGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGTGGAGCTTTACTTCTTCGGGTTTTGGAGATTATgtaagtgacacagtgaaatttaactatggatgtcggccaagaatggtagg Alignment from Spaln_nt2Genome GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAA-GAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT ccccggtattgtgtgcttgcttccctactcacccttgactttatttttagGCTTTAGGTTTAGCTGGCCTTGTGGGGGATGCAGAAAAGTCAGCAGGAGGAACTGAAGAGGATGAAGAGGAAGAGGAGGAACGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTG-TGGAGCTTTACTTCTTCGGGTTTTGGAGATTATgtaagtgacacagtgaaatttaactatggatgtcggccaagaatggtagg Alignment from Pairagon GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAA-GAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT ccccggtattgtgtgcttgcttccctactcacccttgactttatttttagGCTTTAGGTTTAGCTGGCCTTGTGGGGGATGCAGAAAAGTCAGCAGGAGGAACTGAAGAGGATGAAGAGGAAGAGGAGGAACGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTG-TGGAGCTTTACTTCTTCGGGTTTTGGAGATTATgtaagtgacacagtgaaatttaactatggatgtcggccaagaatggtagg Alignment from Exonerate_protein2genome GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT ccccggtattgtgtgcttgcttccctactcacccttgactttatttttagGCTTTAGGTTTAGCTGGCCTTGTGGGGGATGCAGAAAAGTCAGCAGGAGGAACTGAAGAGGATGAAGAGGAAGAGGAGGAACGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGTGGAGCTTTACTTCTTCGGGTTTTGGAGATTATgtaagtgacacagtgaaatttaactatggatgtcggccaagaatggtagg Alignment from Exonerate_coding2genome ccccggtattgtgtgcttgcttccctactcacccttgactttatttttaggctttaggtttagctggccttgtgggggatgcagaaaagtcagcaggaggaactgaagaggatgaagaggaagaggaggaacgaaggagccctttgtacagaaaaaagatccctacggttgattgtggagctttacttcttcgggttttggagattatgtaagtgacacagtgaaatttaactatggatgtcggccaagaatggtagg Alignment from GeneWise GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT ccccggtattgtgtgcttgcttccctactcacccttgactttatttttagGCTTTAGGTTTAGCTGGCCTTGTGGGGGATGCAGAAAAGTCAGCAGGAGGAACTGAAGAGGATGAAGAGGAAGAGGAGGAACGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGTGGAGCTTTACTTCTTCGGGTTTTGGAGATTATgtaagtgacacagtgaaatttaactatggatgtcggccaagaatggtagg #### Ccnj_ID8043_4 --> 2 - 2 Original Alignment atTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACG-TGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGct tgcctaattaagtgttcaatactgtaggccccccttccatctccctgcagatTATGCATTTCTCAATTATGCACCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCCAGGATTATACTTCGACTGTCTCCAACCCTGGCCTACAAGACTACACTGTTTCACTGCATACTCCTGGG-CTTCTTGGTTCAGTGTATGGAATGGTTATTGctgtgagtagagcctcataattgaaatcagactgctggaagcagctatgcag Alignment from CESAR atTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACG-TGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGct tgcctaattaagtgttcaatactgtaggccccccttccatctccctgcagatTATGCATTTCTCAATTATGCACCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCCAGGATTATACTTCGACTGTCTCCAACCCTGGCCTACAAGACTACACTGTTTCACTGCATACTCCTGG-GCTTCTTGGTTCAGTGTATGGAATGGTTATTGctgtgagtagagcctcataattgaaatcagactgctggaagcagctatgcag Alignment from Spaln_aa2Genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT tgcctaattaagtgttcaatactgtaggccccccttccatctccctgcagATTATGCATTTCTCAATTATGCACCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCCAGGATTATACTTCGACTGTCTCCAACCCTGGCCTACAAGACTACACTGTTTCACTGCATACTCCTGGGCTTCTTGGTTCAGTGTATGGAATGGTTATTGCTgtgagtagagcctcataattgaaatcagactgctggaagcagctatgcag Alignment from Spaln_nt2Genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACG-TGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT tgcctaattaagtgttcaatactgtaggccccccttccatctccctgcagATTATGCATTTCTCAATTATGCACCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCCAGGATTATACTTCGACTGTCTCCAACCCTGGCCTACAAGACTACACTGTTTCACTGCATACTCCT-GGGCTTCTTGGTTCAGTGTATGGAATGGTTATTGCTgtgagtagagcctcataattgaaatcagactgctggaagcagctatgcag Alignment from Pairagon ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAA-CGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT tgcctaattaagtgttcaatactgtaggccccccttccatctccctgcagATTATGCATTTCTCAATTATGCACCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCCAGGATTATACTTCGACTGTCTCCAACCCTGGCCTACAAGACTACACTGTTTCACTGCATACTCCTGGG-CTTCTTGGTTCAGTGTATGGAATGGTTATTGCTgtgagtagagcctcataattgaaatcagactgctggaagcagctatgcag Alignment from Exonerate_protein2genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACG-TGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGG--GACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT tgcctaattaagtgttcaatactgtaggccccccttccatctccctgcagATTATGCATTTCTCAATTATGCACCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCCAGGATTATACTTCGACTGTCTCCAACCCTGGCCTACAAGACTACACTGTTTCACTGCATACTCCTGGGC---TTCTTGGTTCAGTGTATGGAATGGTTATTGCTgtgagtagagcctcataattgaaatcagactgctggaagcagctatgcag Alignment from Exonerate_coding2genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACG-TGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGG--GACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT tgcctaattaagtgttcaatactgtaggccccccttccatctccctgcagATTATGCATTTCTCAATTATGCACCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCCAGGATTATACTTCGACTGTCTCCAACCCTGGCCTACAAGACTACACTGTTTCACTGCATACTCCTGGGC---TTCTTGGTTCAGTGTATGGAATGGTTATTGCTgtgagtagagcctcataattgaaatcagactgctggaagcagctatgcag Alignment from GeneWise ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT tgcctaattaagtgttcaatactgtaggccccccttccatctccctgcagATTATGCATTTCTCAATTATGCACCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCCAGGATTATACTTCGACTGTCTCCAACCCTGGCCTACAAGACTACACTGTTTCACTGCATACTCCTGGGCTTCTTGGTTCAGTGTATGGAATGGTTATTGCTgtgagtagagcctcataattgaaatcagactgctggaagcagctatgcag #### Cdc42bpg_ID1573_3 --> 0 - 0 Original Alignment GTTGCCGTGGTGAGGCAGAGGGGC-AGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttgatccttctgtgagtccagtcacattctttctctctctctctctgcagGTTATTGTGGTGAGGCAGAGGGGACAGTGGCCAGATCTTTGCAATGAATATGTTTC-TAAGTGGGAAATGCTGAAGAGGGCTGAGgtaagctggcacaaatgtaaaatctatcccataccatttcctaccatttc Alignment from CESAR GTTGCCGTGGTGAGGCAGAGGGGC-AGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttgatccttctgtgagtccagtcacattctttctctctctctctctgcagGTTATTGTGGTGAGGCAGAGGGGACAGTGGCCAGATCTTTGCAATGAATATGTTT-CTAAGTGGGAAATGCTGAAGAGGGCTGAGgtaagctggcacaaatgtaaaatctatcccattattctctgctcccctgc Alignment from Spaln_aa2Genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttgatccttctgtgagtccagtcacattctttctctctctctctctgcagGTTATTGTGGTGAGGCAGAGGGGACAGTGGCCAGATCTTTGCAATGAATATGTTTCTAAGTGGGAAATGCTGAAGAGGGCTGAGgtaagctggcacaaatgtaaaatctatcccataccatttcctaccatttc Alignment from Spaln_nt2Genome GTTGCCGTGGTGAGGCAGAGGGG-CAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttgatccttctgtgagtccagtcacattctttctctctctctctctgcagGTTATTGTGGTGAGGCAGAGGGGACAGTGGCCAGATCTTTGCAATGAATATGTTTC-TAAGTGGGAAATGCTGAAGAGGGCTGAGgtaagctggcacaaatgtaaaatctatcccataccatttcctaccatttc Alignment from Pairagon ----------------------------------------------GGAGGTTGCCGTGGTGAGGCAGAGGGG-CAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG TTGATCCTTCTGTGAGTCCAGTCACATTCTTTCTCTCTCTCTCTCTGCAGGTTATTGTGGTGAGGCAGAGGGGACAGTGGCCAGATCTTTGCAATGAATATGTTTC-TAAGTGGGAAATGCTGAAGAGGGCTGAGgtaagctggcacaaatgtaaaatctatcccataccatttcctaccatttc Alignment from Exonerate_protein2genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttgatccttctgtgagtccagtcacattctttctctctctctctctgcagGTTATTGTGGTGAGGCAGAGGGGACAGTGGCCAGATCTTTGCAATGAATATGTTTCTAAGTGGGAAATGCTGAAGAGGGCTGAGgtaagctggcacaaatgtaaaatctatcccataccatttcctaccatttc Alignment from Exonerate_coding2genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttgatccttctgtgagtccagtcacattctttctctctctctctctgcagGTTATTGTGGTGAGGCAGAGGGGACAGTGGCCAGATCTTTGCAATGAATATGTTTCTAAGTGGGAAATGCTGAAGAGGGCTGAGgtaagctggcacaaatgtaaaatctatcccataccatttcctaccatttc Alignment from GeneWise GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttgatccttctgtgagtccagtcacattctttctctctctctctctgcagGTTATTGTGGTGAGGCAGAGGGGACAGTGGCCAGATCTTTGCAATGAATATGTTTCTAAGTGGGAAATGCTGAAGAGGGCTGAGgtaagctggcacaaatgtaaaatctatcccataccatttcctaccatttc #### Cdc42bpg_ID1574_4 --> 0 - 0 Original Alignment ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGAC-AGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG aggatggcacaaatgtaaaatctatcccattattctctgctcccctgcagACAACCTGTCTCCGAGAGGAGCGAGATGTTTTAGTGAAGGGAGACCCATTGTTGGGTGACAGCTTTACATTACTCAT-CCAGGACGAGGAGTTCTTAgtatgttgccctatgtcacaggggggtcaccctgacagcgctgttttttt Alignment from CESAR ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGAC-AGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG aagctggcacaaatgtaaaatctatcccattattctctgctcccctgcagACAACCTGTCTCCGAGAGGAGCGAGATGTTTTAGTGAAGGGAGACCCATTGTTGGGTGACAGCTTTACATTACTCA-TCCAGGACGAGGAGTTCTTAgtatgttgccctatgtcacaggggggtcaccctgacagcgctgttttttt Alignment from Spaln_aa2Genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG aggatggcacaaatgtaaaatctatcccattattctctgctcccctgcagACAACCTGTCTCCGAGAGGAGCGAGATGTTTTAGTGAAGGGAGACCCATTGTTGGGTGACAGCTTTACATTACTCATCCAGGACGAGGAGTTCTTAgtatgttgccctatgtcacaggggggtcaccctgacagcgctgttttttt Alignment from Spaln_nt2Genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCC-GCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG aggatggcacaaatgtaaaatctatcccattattctctgctcccctgcagACAACCTGTCTCCGAGAGGAGCGAGATGTTTTAGTGAAGGGAGACCCATTGTTGGGTGACAGCTTTACATTAC-TCATCCAGGACGAGGAGTTCTTAgtatgttgccctatgtcacaggggggtcaccctgacagcgctgttttttt Alignment from Pairagon ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCC---GCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG aggatggcacaaatgtaaaatctatcccattattctctgctcccctgcagACAACCTGTCTCCGAGAGGAGCGAGATGTTTTAGTGAAGGGAGAC--CCATTGTTGGGTGACAGCTTTACATTAC-TCATCCAGGACGAGGAGTTCTTAgtatgttgccctatgtcacaggggggtcaccctgacagcgctgttttttt Alignment from Exonerate_protein2genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG aggatggcacaaatgtaaaatctatcccattattctctgctcccctgcagACAACCTGTCTCCGAGAGGAGCGAGATGTTTTAGTGAAGGGAGACCCATTGTTGGGTGACAGCTTTACATTACTCATCCAGGACGAGGAGTTCTTAgtatgttgccctatgtcacaggggggtcaccctgacagcgctgttttttt Alignment from Exonerate_coding2genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG aggatggcacaaatgtaaaatctatcccattattctctgctcccctgcagACAACCTGTCTCCGAGAGGAGCGAGATGTTTTAGTGAAGGGAGACCCATTGTTGGGTGACAGCTTTACATTACTCATCCAGGACGAGGAGTTCTTAgtatgttgccctatgtcacaggggggtcaccctgacagcgctgttttttt Alignment from GeneWise ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG aggatggcacaaatgtaaaatctatcccattattctctgctcccctgcagACAACCTGTCTCCGAGAGGAGCGAGATGTTTTAGTGAAGGGAGACCCATTGTTGGGTGACAGCTTTACATTACTCATCCAGGACGAGGAGTTCTTAgtatgttgccctatgtcacaggggggtcaccctgacagcgctgttttttt #### Cdc42bpg_ID1576_6 --> 1 - 0 Original Alignment gGATGTGAAGCCTGAC-AACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaactagcttggaatcttcctggtagaGATGTGGAGCCAGACCAATGTTCTA---AGCATGAATGGGCAT---T-CTTGGCTGACTTTGGCACCTGCCTATGCCTCAACATCAATGCCAAGgtgtgaaaaccacctagaaattcgtagataagtataaagacatttagttg Alignment from CESAR gGATGTGAAGCCTGAC-AACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaactagcttggaatcttcctggtagaGATGTGGAGCCAGACCAATGTT---CTAAGCATGAATGGGCAT----TCTTGGCTGACTTTGGCACCTGCCTATGCCTCAACATCAATGCCAAGgtgtgaaaaccacctagaaattcgtagataagtataaagacatttagttg Alignment from Spaln_aa2Genome TGACAACATCCTGCTGGACATGAATGGCCACATCCGC------CTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaactagcttggaatcttcctggtagAGATGTGGAGCCAGACCAATGTTCTAAGCATGAATGGGCATTCTTGGCTGACTTTGGCACCTGCCTATGCCTCAACATCAATGCCAAGgtgtgaaaaccacctagaaattcgtagataagtataaagacatttagttg Alignment from Spaln_nt2Genome CATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaactagcttggaatcttcctggtagagatgtggagccagaccaatgttctaagCATGAATGGGCA----TTCTTGGCTGACTTTGGCACCTGCCTATGCCTCAACATCAATGCCAAGgtgtgaaaaccacctagaaattcgtagataagtataaagacatttagttg Alignment from Pairagon GGATGTGAAGCCTGACAA--------------------CATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaactagcttggaatcttcctggtagAGATGTGGAGCCAGACCAATGTTCTAAGCATGAATGGGCATTCT--------------------------TGGCTGACTTTGGCACCTGCCTATGCCTCAACATCAATGCCAAGgtgtgaaaaccacctagaaattcgtagataagtataaagacatttagttg Alignment from Exonerate_protein2genome GGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaactagcttggaatcttcctggtagAGATGTGGAGCCAGACCAA------TGTTCTAAGCATGAATGGGCATTCTTGGCTGACTTTGGCACCTGCCTATGCCTCAACATCAATGCCAAGgtgtgaaaaccacctagaaattcgtagataagtataaagacatttagttg Alignment from Exonerate_coding2genome GGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaactagcttggaatcttcctggtagAGATGTGGAGCCAGACCAA------TGTTCTAAGCATGAATGGGCATTCTTGGCTGACTTTGGCACCTGCCTATGCCTCAACATCAATGCCAAGgtgtgaaaaccacctagaaattcgtagataagtataaagacatttagttg Alignment from GeneWise GGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagaactagcttggaatcttcctggtagAGATGTGGAGCCAGACCAATGT------TCTAAGCATGAATGGGCATTCTTGGCTGACTTTGGCACCTGCCTATGCCTCAACATCAATGCCAAGgtgtgaaaaccacctagaaattcgtagataagtataaagacatttagttg #### Cdc42bpg_ID1578_8 --> 0 - 0 Original Alignment GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCC-CAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttgtagttaggtccctccattccatgctttatcttgttaaagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCCGAGATCTGATCTGCCAGCTGTTATGCCGTCAAG-GGAGCAGCTAAGCCGTGGTGGGCTGGATGACTTCCACAAGCATGCTTTCTTCGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGATGATGACACCCTCAACCGCTCAgtgaggtgcagagactgtaattagacacattctttcacctaaaagaacac Alignment from CESAR GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCC-CAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttgtagttaggtccctccattccatgctttatcttgttaaagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCCGAGATCTGATCTGCCAGCTGTTATGCCGTCAA-GGGAGCAGCTAAGCCGTGGTGGGCTGGATGACTTCCACAAGCATGCTTTCTTCGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGATGATGACACCCTCAACCGCTCAgtgaggtgcagagactgtaattagacacattctttcacctaaaagaacac Alignment from Spaln_aa2Genome GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttgtagttaggtccctccattccatgctttatcttgttaaagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCCGAGATCTGATCTGCCAGCTGTTATGCCGTCAAGGGAGCAGCTAAGCCGTGGTGGGCTGGATGACTTCCACAAGCATGCTTTCTTCGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGATGATGACACCCTCAACCGCTCAgtgaggtgcagagactgtaattagacacattctttcacctaaaagaacac Alignment from Spaln_nt2Genome GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAG-GACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttgtagttaggtccctccattccatgctttatcttgttaaagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCCGAGATCTGATCTGCCAGCTGTTATGCCGTCAAG-GGAGCAGCTAAGCCGTGGTGGGCTGGATGACTTCCACAAGCATGCTTTCTTCGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGATGATGACACCCTCAACCGCTCAgtgaggtgcagagactgtaattagacacattctttcacctaaaagaacac Alignment from Pairagon GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAG-GACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttgtagttaggtccctccattccatgctttatcttgttaaagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCCGAGATCTGATCTGCCAGCTGTTATGCCGTCAAG-GGAGCAGCTAAGCCGTGGTGGGCTGGATGACTTCCACAAGCATGCTTTCTTCGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGATGATGACACCCTCAACCGCTCAgtgaggtgcagagactgtaattagacacattctttcacctaaaagaacac Alignment from Exonerate_protein2genome GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttgtagttaggtccctccattccatgctttatcttgttaaagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCCGAGATCTGATCTGCCAGCTGTTATGCCGTCAAGGGAGCAGCTAAGCCGTGGTGGGCTGGATGACTTCCACAAGCATGCTTTCTTCGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGATGATGACACCCTCAACCGCTCAgtgaggtgcagagactgtaattagacacattctttcacctaaaagaacac Alignment from Exonerate_coding2genome GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttgtagttaggtccctccattccatgctttatcttgttaaagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCCGAGATCTGATCTGCCAGCTGTTATGCCGTCAAGGGAGCAGCTAAGCCGTGGTGGGCTGGATGACTTCCACAAGCATGCTTTCTTCGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGATGATGACACCCTCAACCGCTCAgtgaggtgcagagactgtaattagacacattctttcacctaaaagaacac Alignment from GeneWise GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttgtagttaggtccctccattccatgctttatcttgttaaagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCCGAGATCTGATCTGCCAGCTGTTATGCCGTCAAGGGAGCAGCTAAGCCGTGGTGGGCTGGATGACTTCCACAAGCATGCTTTCTTCGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGATGATGACACCCTCAACCGCTCAgtgaggtgcagagactgtaattagacacattctttcacctaaaagaacac #### Cdc42bpg_ID1585_15 --> 0 - 2 Original Alignment ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAA-GAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAgg acaggcctgacttctcacaccagacccttgccgattttctctgtgtgcagACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGACTCCTGAGGGTCAGTCTCAACGAAACTCAACTGAGGAAGGAAGTAGTAGGCCTAAGGG-GCAACTGGTGCATGCCTGCAGCCAAgggtaagtgcatggtacttgctgtcaggaattggcaaaataaactccctttt Alignment from CESAR ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAA-GAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAgg acaggcctgacttctcacaccagacccttgccgattttctctgtgtgcagACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGACTCCTGAGGGTCAGTCTCAACGAAACTCAACTGAGGAAGGAAGTAGTAGGCCTAAGG-GGCAACTGGTGCATGCCTGCAGCCAAgggtaagtgcatggtacttgctgtcaggaattggcaaaatactcacaccctc Alignment from Spaln_aa2Genome ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG acaggcctgacttctcacaccagacccttgccgattttctctgtgtgcagACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGACTCCTGAGGGTCAGTCTCAACGAAACTCAACTGAGGAAGGAAGTAGTAGGCCTAAGGGGCAACTGGTGCATGCCTGCAGCCAAGGgtaagtgcatggtacttgctgtcaggaattggcaaaataaactccctttt Alignment from Spaln_nt2Genome ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAA-GAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG acaggcctgacttctcacaccagacccttgccgattttctctgtgtgcagACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGACTCCTGAGGGTCAGTCTCAACGAAACTCAACTGAGGAAGGAAGTAGTAGGCCTAAGGG-GCAACTGGTGCATGCCTGCAGCCAAGGgtaagtgcatggtacttgctgtcaggaattggcaaaataaactccctttt Alignment from Pairagon ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAA-GAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG acaggcctgacttctcacaccagacccttgccgattttctctgtgtgcagACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGACTCCTGAGGGTCAGTCTCAACGAAACTCAACTGAGGAAGGAAGTAGTAGGCCTAAGGG-GCAACTGGTGCATGCCTGCAGCCAAGGgtaagtgcatggtacttgctgtcaggaattggcaaaataaactccctttt Alignment from Exonerate_protein2genome ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG acaggcctgacttctcacaccagacccttgccgattttctctgtgtgcagACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGACTCCTGAGGGTCAGTCTCAACGAAACTCAACTGAGGAAGGAAGTAGTAGGCCTAAGGGGCAACTGGTGCATGCCTGCAGCCAAGGgtaagtgcatggtacttgctgtcaggaattggcaaaataaactccctttt Alignment from Exonerate_coding2genome ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG acaggcctgacttctcacaccagacccttgccgattttctctgtgtgcagACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGACTCCTGAGGGTCAGTCTCAACGAAACTCAACTGAGGAAGGAAGTAGTAGGCCTAAGGGGCAACTGGTGCATGCCTGCAGCCAAGGgtaagtgcatggtacttgctgtcaggaattggcaaaataaactccctttt Alignment from GeneWise ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG acaggcctgacttctcacaccagacccttgccgattttctctgtgtgcagACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGACTCCTGAGGGTCAGTCTCAACGAAACTCAACTGAGGAAGGAAGTAGTAGGCCTAAGGGGCAACTGGTGCATGCCTGCAGCCAAGGgtaagtgcatggtacttgctgtcaggaattggcaaaataaactccctttt #### Cdc42bpg_ID1586_16 --> 1 - 0 Original Alignment gATCAGTGTTGGGAAAGAG-GAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG gtacttgctgtcaggaattggcaaaatactcacaccctctctgctcctaggATCAGTGTTGGTAAAATGCGAGGTTCTATGCCATCTACAGGCAGTGAACCAGCAGCTGAGTC-AGAACAGGAGTGGgtagggatgaagtatgacaaagccagggttgccgccagctggcttgggtt Alignment from CESAR gATCAGTGTTGGGAAAGAG-GAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG gtacttgctgtcaggaattggcaaaatactcacaccctctctgctcctaggATCAGTGTTGGTAAAATGCGAGGTTCTATGCCATCTACAGGCAGTGAACCAGCAGCTGAGTC-AGAACAGGAGTGGgtagggatgaagtatgacaaagccagggttgccgccagctggcttgggtt Alignment from Spaln_aa2Genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG gtacttgctgtcaggaattggcaaaatactcacaccctctctgctcctagGATCAGTGTTGGTAAAATGCGAGGTTCTATGCCATCTACAGGCAGTGAACCAGCAGCTGAGTCAGAACAGGAGTGGgtagggatgaagtatgacaaagccagggttgccgccagctggcttgggtt Alignment from Spaln_nt2Genome GATCAGTGTTGGGAAAGAG-GAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG gtacttgctgtcaggaattggcaaaatactcacaccctctctgctcctagGATCAGTGTTGGTAAAATGCGAGGTTCTATGCCATCTACAGGCAGTGAACCAGCAGCTGAGTC-AGAACAGGAGTGGgtagggatgaagtatgacaaagccagggttgccgccagctggcttgggtt Alignment from Pairagon GATCAGTGTTGGGAAAGAG-GAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG gtacttgctgtcaggaattggcaaaatactcacaccctctctgctcctagGATCAGTGTTGGTAAAATGCGAGGTTCTATGCCATCTACAGGCAGTGAACCAGCAGCTGAGTC-AGAACAGGAGTGGgtagggatgaagtatgacaaagccagggttgccgccagctggcttgggtt Alignment from Exonerate_protein2genome gtacttgctgtcaggaattggcaaaatactcacaccctctctgctcctaggatcagtgttggtaaaatgcgaggttctatgccatctacaggcagtgaaccagcagctgagtcagaacaggagtgggtagggatgaagtatgacaaagccagggttgccgccagctggcttgggtt Alignment from Exonerate_coding2genome gtacttgctgtcaggaattggcaaaatactcacaccctctctgctcctaggatcagtgttggtaaaatgcgaggttctatgccatctacaggcagtgaaccagcagctgagtcagaacaggagtgggtagggatgaagtatgacaaagccagggttgccgccagctggcttgggtt Alignment from GeneWise AGGTTCTGTGCCGA-TTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG --ACTTGCTGTCAGGAATTGGCAAAATACTCACACCCTCTCTGCTCCTAGGATCAGTgttggtaaaatgcgaggttctatgccatctacaggcagtgaaccagcagctgagtcagaacaggagtgggtagggatgaagtatgacaaagccagggttgccgccagctggcttgggtt #### Cdc42bpg_ID1590_20 --> 1 - 1 Original Alignment cCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTG-CAG---CAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGg cactgcaatgtatgagccctcctgggtgaacctcagaactgtttcttcagcCACCTGCAGGAAGCTGAGACACAAAGTAAGACACTCCCAGCAGCAGGAGGTGGCTGTGCTGAAGGAAGAGCTTCAAG-TCGAGGACCAGGTggtaagtacccacttggatccaaccacaaggcctaacatgtggggaccaga Alignment from CESAR cCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTG----CAGCAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGg cactgcaatgtatgagccctcctgggtgaacctcagaactgtttcttcagcCACCTGCAGGAAGCTGAGACACAAAGTAAGACACTCCCAGCAGCAGGAGGTGGCTGTGCTGAAGGAAGAGCTTCAA-GTCGAGGACCAGGTggtaagtacccacttggatccaaccacaaggcctaacatgtggggaccaga Alignment from Spaln_aa2Genome CCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTGCAGCAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGG cactgcaatgtatgagccctcctgggtgaacctcagaactgtttcttcagccacctgcagGAAGCTGAGACACAAAGTAAGACACTCCCAG------CAGCAGGAGGTGGCTGTGCTGAAGGAAGAGCTTCAAGT-CGAGGACCAGGTGgtaagtacccacttggatccaaccacaaggcctaacatgtggggaccaga Alignment from Spaln_nt2Genome CCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCC----CTGCAGCAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGG cactgcaatgtatgagccctcctgggtgaacctcagaactgtttcttcagCCACCTGCAGGAAGCTGAGACACAAAGTAAGACACTCCCAGCAGCAGGAGGTGGCTGTGCTGAAGGAAGAGCTTCAAG-TCGAGGACCAGGTGgtaagtacccacttggatccaaccacaaggcctaacatgtggggaccaga Alignment from Pairagon CCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGG----CCCTGCAGCAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGG cactgcaatgtatgagccctcctgggtgaacctcagaactgtttcttcagCCACCTGCAGGAAGCTGAGACACAAAGTAAGACACTCCCAGCAGCAGGAGGTGGCTGTGCTGAAGGAAGAGCTTCAAG-TCGAGGACCAGGTGgtaagtacccacttggatccaaccacaaggcctaacatgtggggaccaga Alignment from Exonerate_protein2genome CCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTGCAGCAGGAGGTGGCTGAGCTCCGGGAG---GAACTGCAAGCTCGAGGACCGGGGG cactgcaatgtatgagccctcctgggtgaacctcagaactgtttcttcagCCACCTGCAGGAAGCTGAGACACAAAGTAAGACACTCCCAGCAGCAGGAGGTGGCTGTGCTGAAGGAAGAGCTTCAAGTCGAGGACCAGGTGgtaagtacccacttggatccaaccacaaggcctaacatgtggggaccaga Alignment from Exonerate_coding2genome CCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTGCAGCAGGAGGTGGCTGAGCTCCGGGAG---GAACTGCAAGCTCGAGGACCGGGGG cactgcaatgtatgagccctcctgggtgaacctcagaactgtttcttcagCCACCTGCAGGAAGCTGAGACACAAAGTAAGACACTCCCAGCAGCAGGAGGTGGCTGTGCTGAAGGAAGAGCTTCAAGTCGAGGACCAGGTGgtaagtacccacttggatccaaccacaaggcctaacatgtggggaccaga Alignment from GeneWise CCCTGCAGCAGGAGGTGGCTGAGCT CACTGCAATGTATGAGCCCTCCTGGgtgaacctcagaactgtttcttcagccacctgcaggaagctgagacacaaagtaagacactcccagcagcaggaggtggctgtgctgaaggaagagcttcaagtcgaggaccaggtggtaagtacccacttggatccaaccacaaggcctaacatgtggggaccaga #### Cdc42bpg_ID1595_25 --> 2 - 0 Original Alignment ccTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCC-TTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC atattatttaatgcatatacttgtgggtccttgtctgttgtacttctcagcaTGTGGTTATTTCTGTCATTCAGCCTGTGCCTCACAAACCCCTCCTTGCCCCGTGCCCCCTGAACTCCTTCGTACAGCCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGACAGCCTATG-GGGCTTTTTGTCAgtgagttgggggggttgttttttttgtttcatttgtttagGTACGACAGC Alignment from CESAR ccTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCC-TTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC atattatttaatgcatatacttgtgggtccttgtctgttgtacttctcagcaTGTGGTTATTTCTGTCATTCAGCCTGTGCCTCACAAACCCCTCCTTGCCCCGTGCCCCCTGAACTCCTTCGTACAGCCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGACAGCCTAT-GGGGCTTTTTGTCAgtgagttgggggggttgttgccatttttgtttgtattcagGTACGACAGC Alignment from Spaln_aa2Genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC atattatttaatgcatatacttgtgggtccttgtctgttgtacttctcagCATGTGGTTATTTCTGTCATTCAGCCTGTGCCTCACAAACCCCTCCTTGCCCCGTGCCCCCTGAACTCCTTCGTACAGCCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGACAGCCTATGGGGCTTTTTGTCAgtgagttgggggggttgttttttttgtttcatttgtttagGTACGACAGC Alignment from Spaln_nt2Genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGC-CTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC atattatttaatgcatatacttgtgggtccttgtctgttgtacttctcagCATGTGGTTATTTCTGTCATTCAGCCTGTGCCTCACAAACCCCTCCTTGCCCCGTGCCCCCTGAACTCCTTCGTACAGCCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGACAGCCTATG-GGGCTTTTTGTCAgtgagttgggggggttgttttttttgtttcatttgtttagGTACGACAGC Alignment from Pairagon CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAG-CCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTC----------------------------------------GGTGCCGCGGC atattatttaatgcatatacttgtgggtccttgtctgttgtacttctcagCATGTGGTTATTTCTGTCATTCAGCCTGTGCCTCACAAACCCCTCCTTGCCCCGTGCCCCCTGAACTCCTTCGTACAGCCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGACAGCCTATG-GGGCTTTTTGTCAGTGAGTTGGGGGGGTTGTTTTTTTTGTTTCATTTGTTTAGGTACGACAGC Alignment from Exonerate_protein2genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC atattatttaatgcatatacttgtgggtccttgtctgttgtacttctcagCATGTGGTTATTTCTGTCATTCAGCCTGTGCCTCACAAACCCCTCCTTGCCCCGTGCCCCCTGAACTCCTTCGTACAGCCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGACAGCCTATGGGGCTTTTTGTCAgtgagttgggggggttgttttttttgtttcatttgtttagGTACGACAGC Alignment from Exonerate_coding2genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC atattatttaatgcatatacttgtgggtccttgtctgttgtacttctcagCATGTGGTTATTTCTGTCATTCAGCCTGTGCCTCACAAACCCCTCCTTGCCCCGTGCCCCCTGAACTCCTTCGTACAGCCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGACAGCCTATGGGGCTTTTTGTCAgtgagttgggggggttgttttttttgtttcatttgtttagGTACGACAGC Alignment from GeneWise CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC atattatttaatgcatatacttgtgggtccttgtctgttgtacttctcagCATGTGGTTATTTCTGTCATTCAGCCTGTGCCTCACAAACCCCTCCTTGCCCCGTGCCCCCTGAACTCCTTCGTACAGCCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGACAGCCTATGGGGCTTTTTGTCAgtgagttgggggggttgttttttttgtttcatttgtttagGTACGACAGC #### Cdc42bpg_ID1596_26 --> 0 - 2 Original Alignment CTTCCTGTCG GTGCCGCGGCCCTCAGGT-GTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAag CTTTTTGTCAgtaagatgggggggttgttgccatttttgtttgtattcagGTACGACAGCCATCATGTCGTTCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTG-CTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGTAGCCTAGCAAGTGGCATCCTTCTTCAGGCCTTAGATCTAaggtcagagcaggcccagaggacatagggagcccacagcacatcagaaccct Alignment from CESAR CTTCCTGTCG GTGCCGCGGCCCTCAGGT-GTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAag CTTTTTGTCAgtgagttgggggggttgttgccatttttgtttgtattcagGTACGACAGCCATCATGTCGTTCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCAGT-GCTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGTAGCCTAGCAAGTGGCATCCTTCTTCAGGCCTTAGATCTAaggtcagagcaggcccagaggacatagggagcccacagcacatcagaaccct Alignment from Spaln_aa2Genome CTTCCT GTCGGTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG CTTTTTgtcagtaagatgggggggttgttgccatttttgtttgtattcagGTACGACAGCCATCATGTC---GTTCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGC-TCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGTAGCCTAGCAAGTGGCATCCTTCTTCAGGCCTTAGATCTAAGgtcagagcaggcccagaggacatagggagcccacagcacatcagaaccct Alignment from Spaln_nt2Genome CTTCCTGTCG GTGCCGCGGCCCTCAGGT-GTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG CTTTTTGTCAgtaagatgggggggttgttgccatttttgtttgtattcagGTACGACAGCCATCATGTCGTTCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTG-CTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGTAGCCTAGCAAGTGGCATCCTTCTTCAGGCCTTAGATCTAAGgtcagagcaggcccagaggacatagggagcccacagcacatcagaaccct Alignment from Pairagon CTTCCTGTC----------------------------------------GGTGCCGCGGCCCTCAGGT-GTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG CTTTTTGTCAGTAAGATGGGGGGGTTGTTGCCATTTTTGTTTGTATTCAGGTACGACAGCCATCATGTCGTTCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTG-CTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGTAGCCTAGCAAGTGGCATCCTTCTTCAGGCCTTAGATCTAAGgtcagagcaggcccagaggacatagggagcccacagcacatcagaaccct Alignment from Exonerate_protein2genome CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG CTTTTTGTCAgtaagatgggggggttgttgccatttttgtttgtattcagGTACGACAGCCATCATGTCGTTCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGCTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGTAGCCTAGCAAGTGGCATCCTTCTTCAGGCCTTAGATCTAAGgtcagagcaggcccagaggacatagggagcccacagcacatcagaaccct Alignment from Exonerate_coding2genome CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG CTTTTTGTCAgtaagatgggggggttgttgccatttttgtttgtattcagGTACGACAGCCATCATGTCGTTCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGCTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGTAGCCTAGCAAGTGGCATCCTTCTTCAGGCCTTAGATCTAAGgtcagagcaggcccagaggacatagggagcccacagcacatcagaaccct Alignment from GeneWise CTGTCGGTGCCGCGGCCCTCAGGT---------------------------------------------GTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG TTGTCAGTA---AGATG-GGGGGGTTGTTGCCATTTTTGTTTGTATTCAGGTACGACAGCCATCATGTCGTTCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGC-TCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGTAGCCTAGCAAGTGGCATCCTTCTTCAGGCCTTAGATCTAAGgtcagagcaggcccagaggacatagggagcccacagcacatcagaaccct #### Cdc42bpg_ID1604_34 --> 1 - 0 Original Alignment gGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAAC-TTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG caccaataactaattgtcagctatttatctgatgttttgtgttgttttaggGAGATGCTGAAAGACCCCTTCGTGCGGTTCAAATTCATTTCACCACCGACCAACCTTAATTCACCTGGTTCATGTGGGGCATACAGAGGGGAGGTCCA-CACTAGGGATGGGACCCGTgtaaccctggagcaggagatcactagacctgtcacaaagcttcaatcatg Alignment from CESAR gGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAAC-CACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG caccaataactaattgtcagctatttatctgatgttttgtgttgttttaggGAGATGCTGAAAGACCCCTTCGTGCGGTTCAAATTCATTTCACCACCGACCAACCTTAATTCACCTGGTTCATGTGGGGCATACAGAGGGGAGGT-CCACACTAGGGATGGGACCCGTgtaaccctggagcaggagatcactagacctgtcacaaagcttcaatcatg Alignment from Spaln_aa2Genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG caccaataactaattgtcagctatttatctgatgttttgtgttgttttagGGAGATGCTGAAAGACCCCTTCGTGCGGTTCAAATTCATTTCACCACCGACCAACCTTAATTCACCTGGTTCATGTGGGGCATACAGAGGGGAGGTCCACACTAGGGATGGGACCCGTgtaaccctggagcaggagatcactagacctgtcacaaagcttcaatcatg Alignment from Spaln_nt2Genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAAC-CACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG caccaataactaattgtcagctatttatctgatgttttgtgttgttttagGGAGATGCTGAAAGACCCCTTCGTGCGGTTCAAATTCATTTCACCACCGACCAACCTTAATTCACCTGGTTCATGTGGGGCATACAGAGGGGAGGTCC-ACACTAGGGATGGGACCCGTgtaaccctggagcaggagatcactagacctgtcacaaagcttcaatcatg Alignment from Pairagon GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAA-CCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG caccaataactaattgtcagctatttatctgatgttttgtgttgttttagGGAGATGCTGAAAGACCCCTTCGTGCGGTTCAAATTCATTTCACCACCGACCAACCTTAATTCACCTGGTTCATGTGGGGCATACAGAGGGGAGGTCC-ACACTAGGGATGGGACCCGTgtaaccctggagcaggagatcactagacctgtcacaaagcttcaatcatg Alignment from Exonerate_protein2genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG caccaataactaattgtcagctatttatctgatgttttgtgttgttttagGGAGATGCTGAAAGACCCCTTCGTGCGGTTCAAATTCATTTCACCACCGACCAACCTTAATTCACCTGGTTCATGTGGGGCATACAGAGGGGAGGTCCACACTAGGGATGGGACCCGTgtaaccctggagcaggagatcactagacctgtcacaaagcttcaatcatg Alignment from Exonerate_coding2genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG caccaataactaattgtcagctatttatctgatgttttgtgttgttttagGGAGATGCTGAAAGACCCCTTCGTGCGGTTCAAATTCATTTCACCACCGACCAACCTTAATTCACCTGGTTCATGTGGGGCATACAGAGGGGAGGTCCACACTAGGGATGGGACCCGTgtaaccctggagcaggagatcactagacctgtcacaaagcttcaatcatg Alignment from GeneWise GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG caccaataactaattgtcagctatttatctgatgttttgtgttgttttagGGAGATGCTGAAAGACCCCTTCGTGCGGTTCAAATTCATTTCACCACCGACCAACCTTAATTCACCTGGTTCATGTGGGGCATACAGAGGGGAGGTCCACACTAGGGATGGGACCCGTgtaaccctggagcaggagatcactagacctgtcacaaagcttcaatcatg #### Cdc42bpg_ID1605_35 --> 0 - 1 Original Alignment GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCC-GGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAt atgcaagagtttccatgcagtctgctccttcacgtgccaatctttaccagGCCCAGGAACAAAAGAGCAGTGGTGCCTGTAGCTCTCGGACCACAACGGCCTCACAGCTTCTTAAAAG-ATTGCGGCGGCCAGTGTCAACAGACAGTGATCGTCCCCCAGGACAAACAGACCCTtgtgtgtattagggatagttctcagtggcaaattcctgcttgtttttcctt Alignment from CESAR GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCC-GGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAt atgcaagagtttccatgcagtctgctccttcacgtgccaatctttaccagGCCCAGGAACAAAAGAGCAGTGGTGCCTGTAGCTCTCGGACCACAACGGCCTCACAGCTTCTTAAAA-GATTGCGGCGGCCAGTGTCAACAGACAGTGATCGTCCCCCAGGACAAACAGACCCTtgtgtgtattagggatagttctcagtggcaaattcctgcttgtttttcctt Alignment from Spaln_aa2Genome GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT atgcaagagtttccatgcagtctgctccttcacgtgccaatctttaccagGCCCAGGAACAAAAGAGCAGTGGTGCCTGTAGCTCTCGGACCACAACGGCCTCACAGCTTCTTAAAAGATTGCGGCGGCCAGTGTCAACAGACAGTGATCGTCCCCCAGGACAAACAGACCCTTgtgtgtattagggatagttctcagtggcaaattcctgcttgtttttcctt Alignment from Spaln_nt2Genome GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTC-CGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT atgcaagagtttccatgcagtctgctccttcacgtgccaatctttaccagGCCCAGGAACAAAAGAGCAGTGGTGCCTGTAGCTCTCGGACCACAACGGCCTCACAGCTTCTTAAAAG-ATTGCGGCGGCCAGTGTCAACAGACAGTGATCGTCCCCCAGGACAAACAGACCCTTgtgtgtattagggatagttctcagtggcaaattcctgcttgtttttcctt Alignment from Pairagon GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTC-CGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT atgcaagagtttccatgcagtctgctccttcacgtgccaatctttaccagGCCCAGGAACAAAAGAGCAGTGGTGCCTGTAGCTCTCGGACCACAACGGCCTCACAGCTTCTTAAAAG-ATTGCGGCGGCCAGTGTCAACAGACAGTGATCGTCCCCCAGGACAAACAGACCCTTgtgtgtattagggatagttctcagtggcaaattcctgcttgtttttcctt Alignment from Exonerate_protein2genome GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT atgcaagagtttccatgcagtctgctccttcacgtgccaatctttaccagGCCCAGGAACAAAAGAGCAGTGGTGCCTGTAGCTCTCGGACCACAACGGCCTCACAGCTTCTTAAAAGATTGCGGCGGCCAGTGTCAACAGACAGTGATCGTCCCCCAGGACAAACAGACCCTTgtgtgtattagggatagttctcagtggcaaattcctgcttgtttttcctt Alignment from Exonerate_coding2genome GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT atgcaagagtttccatgcagtctgctccttcacgtgccaatctttaccagGCCCAGGAACAAAAGAGCAGTGGTGCCTGTAGCTCTCGGACCACAACGGCCTCACAGCTTCTTAAAAGATTGCGGCGGCCAGTGTCAACAGACAGTGATCGTCCCCCAGGACAAACAGACCCTTgtgtgtattagggatagttctcagtggcaaattcctgcttgtttttcctt Alignment from GeneWise GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT atgcaagagtttccatgcagtctgctccttcacgtgccaatctttaccagGCCCAGGAACAAAAGAGCAGTGGTGCCTGTAGCTCTCGGACCACAACGGCCTCACAGCTTCTTAAAAGATTGCGGCGGCCAGTGTCAACAGACAGTGATCGTCCCCCAGGACAAACAGACCCTTgtgtgtattagggatagttctcagtggcaaattcctgcttgtttttcctt #### Cdca5_ID1428_2 --> 2 - 0 Original Alignment ggCCCAGGACTTCACTTACTAAGCCT-TCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG gccatgtgcctggtgacgtttgtttgtatcttgctccctgcctgacccaggaCCAAGGACTTTACTAACTCAGCCTCTCAGAGTCACTAAAACGCAAGTCAGGTTCAGACCTCA-AAACTCATTCTCTGAAACCTGGCAACGGgtgagtactgacccccctggtctgaaagtagttgcatacaccacaattta Alignment from CESAR ggCCCAGGACTTCACTTACTAAGCCT-TCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG gccatgtgcctggtgacgtttgtttgtatcttgctccctgcctgacccaggaCCAAGGACTTTACTAACTCAGCCTCTCAGAGTCACTAAAACGCAAGTCAGGTTCAGACCTC-AAAACTCATTCTCTGAAACCTGGCAACGGgtgagtactgacccccctggtctgaaagtagttgcatacaccacaattta Alignment from Spaln_aa2Genome GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG gccatgtgcctggtgacgtttgtttgtatcttgctccctgcctgacccagGACCAAGGACTTTACTAACTCAGCCTCTCAGAGTCACTAAAACGCAAGTCAGGTTCAGACCTCAAAACTCATTCTCTGAAACCTGGCAACGGgtgagtactgacccccctggtctgaaagtagttgcatacaccacaattta Alignment from Spaln_nt2Genome GGCCCAGGACTTCACTTACTAAGCCT-TCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG gccatgtgcctggtgacgtttgtttgtatcttgctccctgcctgacccagGACCAAGGACTTTACTAACTCAGCCTCTCAGAGTCACTAAAACGCAAGTCAGGTTCAGACCT-CAAAACTCATTCTCTGAAACCTGGCAACGGgtgagtactgacccccctggtctgaaagtagttgcatacaccacaattta Alignment from Pairagon GGCCCAGGACTTCACTTACTAAGCCT-TCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG gccatgtgcctggtgacgtttgtttgtatcttgctccctgcctgacccagGACCAAGGACTTTACTAACTCAGCCTCTCAGAGTCACTAAAACGCAAGTCAGGTTCAGACCT-CAAAACTCATTCTCTGAAACCTGGCAACGGgtgagtactgacccccctggtctgaaagtagttgcatacaccacaattta Alignment from Exonerate_protein2genome GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG gccatgtgcctggtgacgtttgtttgtatcttgctccctgcctgacccagGACCAAGGACTTTACTAACTCAGCCTCTCAGAGTCACTAAAACGCAAGTCAGGTTCAGACCTCAAAACTCATTCTCTGAAACCTGGCAACGGgtgagtactgacccccctggtctgaaagtagttgcatacaccacaattta Alignment from Exonerate_coding2genome gccatgtgcctggtgacgtttgtttgtatcttgctccctgcctgacccaggaccaaggactttactaactcagcctctcagagtcactaaaacgcaagtcaggttcagacctcaaaactcattctctgaaacctggcaacgggtgagtactgacccccctggtctgaaagtagttgcatacaccacaattta Alignment from GeneWise gccatgtgcctggtgacgtttgtttgtatcttgctccctgcctgacccaggaccaaggactttactaactcagcctctcagagtcactaaaacgcaagtcaggttcagacctcaaaactcattctctgaaacctggcaacgggtgagtactgacccccctggtctgaaagtagttgcatacaccacaattta #### Cdk2ap2_ID298_2 --> 2 - 0 Original Alignment ccGGGAGTGTCCCATCGCCATCGGGC-TCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTACAG caatctaaaagtctgtgatgaacccctgaccccttgccctctgacctcagctGGTAGTGTCCCATTACCATCAGGCCTCAGTACCAGGGGCTGCTGCTCCTTTCAGACCA---TTCA-TGACTTTGGTCCTCCCTCCATGGGTTATGTTCAAgtgagtttgctcaaggggttactcaaggatgtagggcccaaacccctatt Alignment from CESAR ccGGGAGTGTCCCATCGCCATCGGGC-TCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTACAG caatctaaaagtctgtgatgaacccctgaccccttgccctctgacctcagctGGTAGTGTCCCATTACCATCAGGCCTCAGTACCAGGGGCTGCTGCTCCTTTCAGACCA---TTC-ATGACTTTGGTCCTCCCTCCATGGGTTATGTTCAAgtgagtttgctcaaggggttactcaaggatgtagggcccaaacccctatt Alignment from Spaln_aa2Genome GGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTACAG caatctaaaagtctgtgatgaacccctgaccccttgccctctgacctcagctggtagtgtcccattaccatcagGCCTCAGTACCAGGGGCTGCTGCTCCTTTCAGACCATTCATGACTTTGGTCCT----CCCTCCATGGGTTATGTTCAAgtgagtttgctcaaggggttactcaaggatgtagggcccaaacccctatt Alignment from Spaln_nt2Genome CCGGGAGTGTCCCATCGCCATCGGGC-TCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTACAG caatctaaaagtctgtgatgaacccctgaccccttgccctctgacctcagCTGGTAGTGTCCCATTACCATCAGGCCTCAGTACCAGGGGCTGCTGCTCCTTTCAGACC----ATTCATGACTTTGGTCCTCCCTCCATGGGTTATGTTCAAgtgagtttgctcaaggggttactcaaggatgtagggcccaaacccctatt Alignment from Pairagon CCTACAGCCGGGAGTGTCCCATCGCCATCGGG-CTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTACAG caatctaaaagtctgtgatgaacccctgaccccttgccctctgacctcag-------CTGGTAGTGTCCCATTACCATCAGGCCTCAGTACCAGGGGCTGCTGCTCCTTTCAGACCA----TTCATGACTTTGGTCCTCCCTCCATGGGTTATGTTCAAgtgagtttgctcaaggggttactcaaggatgtagggcccaaacccctatt Alignment from Exonerate_protein2genome CCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTACAG caatctaaaagtctgtgatgaacccctgaccccttgccctctgacctcagCTGGTAGTGTCCCATTACCATCAGGCCTCAGTACCAGGGGCTGCTGCTCCTTTCAGACCATT---CATGACTTTGGTCCTCCCTCCATGGGTTATGTTCAAgtgagtttgctcaaggggttactcaaggatgtagggcccaaacccctatt Alignment from Exonerate_coding2genome CCGGTCCCTACAGCCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTACAG caatctaaaagtctgtgatgaacccctgaccccttgcCCTCTGACCTCAGCTGGTAGTGTCCCATTACCATCAGGCCTCAGTACCAGGGGCTGCTGCTCCTTTCAGACCATT---CATGACTTTGGTCCTCCCTCCATGGGTTATGTTCAAgtgagtttgctcaaggggttactcaaggatgtagggcccaaacccctatt Alignment from GeneWise CCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTACAG caatctaaaagtctgtgatgaacccctgaccccttgccctctgacctcagCTGGTAGTGTCCCATTACCATCAGGCCTCAGTACCAGGGGCTGCTGCTCCTTTCAGACCATT---CATGACTTTGGTCCTCCCTCCATGGGTTATGTTCAAgtgagtttgctcaaggggttactcaaggatgtagggcccaaacccctatt #### Cdk2ap2_ID299_3 --> 0 - 1 Original Alignment GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGC-ACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAg gcccaaacccctattgggggtacttgagatatctgtgatctgtttgccagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGG-CAAGGAAATCCGACCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAggtatgggcaaccatgggtaagctatgacaggacagtgtagtcggaaaagt Alignment from CESAR GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAG-AGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAg gcccaaacccctattgggggtacttgagatatctgtgatctgtttgccagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGA-TGGCAAGGAAATCCGACCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAggtatgggcaaccatgggtaagctatgacaggacagtgtagtcggaaaagt Alignment from Spaln_aa2Genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gcccaaacccctattgggggtacttgagatatctgtgatctgtttgccagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGCAAGGAAATCCGACCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAGgtatgggcaaccatgggtaagctatgacaggacagtgtagtcggaaaagt Alignment from Spaln_nt2Genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGC-ACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gcccaaacccctattgggggtacttgagatatctgtgatctgtttgccagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGAT-GGCAAGGAAATCCGACCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAGgtatgggcaaccatgggtaagctatgacaggacagtgtagtcggaaaagt Alignment from Pairagon GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAG-CACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gcccaaacccctattgggggtacttgagatatctgtgatctgtttgccagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGAT-GGCAAGGAAATCCGACCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAGgtatgggcaaccatgggtaagctatgacaggacagtgtagtcggaaaagt Alignment from Exonerate_protein2genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gcccaaacccctattgggggtacttgagatatctgtgatctgtttgccagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGCAAGGAAATCCGACCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAGgtatgggcaaccatgggtaagctatgacaggacagtgtagtcggaaaagt Alignment from Exonerate_coding2genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAG---CACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gcccaaacccctattgggggtacttgagatatctgtgatctgtttgccagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAG--CGCCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGAT-GGCAAGGAAATCCGACCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAGgtatgggcaaccatgggtaagctatgacaggacagtgtagtcggaaaagt Alignment from GeneWise GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gcccaaacccctattgggggtacttgagatatctgtgatctgtttgccagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGCAAGGAAATCCGACCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAGgtatgggcaaccatgggtaagctatgacaggacagtgtagtcggaaaagt #### Cep78_ID3983_3 --> 0 - 1 Original Alignment GGACTGAGTAAATCA-ACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAa ttggccatctcaatgggtagatacctgatgatcttccctgtgctctgcagGGATTGAGCAAATCACACCTCTCTGGTGCACCTGTCTCTTGCAAATTGCCCAA-TGGAGATGGAGGGTTAGAAagtcagctaataaattttataatcattcttggtgcctcattccactcattt Alignment from CESAR GGACTGAGTAAATCA-ACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAa ttggccatctcaatgggtagatacctgatgatcttccctgtgctctgcagGGATTGAGCAAATCACACCTCTCTGGTGCACCTGTCTCTTGCAAATTGCCCAA-TGGAGATGGAGGGTTAGAAagtcagctaataaattttataatcattcttggtgcctcattccactcattt Alignment from Spaln_aa2Genome GGACTGAGTAAATCA-ACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAA ttggccatctcaatgggtagatacctgatgatcttccctgtgctctgcagGGATTGAGCAAATCAcACCTCTCTGGTGCACCTGTCTCTTGCAAATTGCCCAAT-GGAGATGGAGGGTTAGAAAgtcagctaataaattttataatcattcttggtgcctcattccactcattt Alignment from Spaln_nt2Genome GGACTGAGTAAATCA-ACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAA ttggccatctcaatgggtagatacctgatgatcttccctgtgctctgcagGGATTGAGCAAATCACACCTCTCTGGTGCACCTGTCTCTTGCAAATTGCCCAAT-GGAGATGGAGGGTTAGAAAgtcagctaataaattttataatcattcttggtgcctcattccactcattt Alignment from Pairagon GGACTGAGTAAATCA-ACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAA ttggccatctcaatgggtagatacctgatgatcttccctgtgctctgcagGGATTGAGCAAATCACACCTCTCTGGTGCACCTGTCTCTTGCAAATTGCCCAA-TGGAGATGGAGGGTTAGAAAgtcagctaataaattttataatcattcttggtgcctcattccactcattt Alignment from Exonerate_protein2genome GGACTGAGTAAATCA-ACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAG ttggccatctcaatgggtagatacctgatgatcttccctgtgctctgcagGGATTGAGCAAATCACACCTCTCTGGTGCACCTGTCTCTTGCAAATTGCCCAATGGAGATGGAGGgttagaaagtcagctaataaattttataatcattcttggtgcctcattccactcattt Alignment from Exonerate_coding2genome GGACTGAGTAAATCA-ACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAG ttggccatctcaatgggtagatacctgatgatcttccctgtgctctgcagGGATTGAGCAAATCACACCTCTCTGGTGCACCTGTCTCTTGCAAATTGCCCAATGGAGATGGAGGgttagaaagtcagctaataaattttataatcattcttggtgcctcattccactcattt Alignment from GeneWise TGGTGCACTTGTCT-- TTGGCCATCTCAATGGgtagatacctgatgatcttccctgtgctctgcagggattgagcaaatcacacctctctggtgcacctgtctcttgcaaattgcccaatggagatggagggttagaaagtcagctaataaattttataatcattcttggtgcctcattccactcattt #### Col17a1_ID10271_51 --> 2 - 1 Original Alignment gtGACAGGGGCCCTGCT-GGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAg ttttgcctcttactcatcctcaggcgtattaatttttttttaatttcaaggtGACAGGGATCCAGCTCAGGCCACAAGGCCCACCAGGGCAACCTGGTC-TAGAGGGAACAAA---GAAAAGGGTGATAAAggtatgcagtggaaatgagatggggtgcaggggcttagattgtgaaaacta Alignment from CESAR gtGACAGGGGCCCTGCT-GGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAg ttttgcctcttactcatcctcaggcgtattaatttttttttaatttcaaggtGACAGGGATCCAGCTCAGGCCACAAGGCCCACCAGGGCAACCTG-GTCTAGAGGGAACAAA---GAAAAGGGTGATAAAggtatgcagtggaaatgagatggggtgcaggggcttagattgtgaaaacta Alignment from Spaln_aa2Genome GTGACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAG ttttgcctcttactcatcctcaggcgtattaatttttttttaatttcaagGTGACAGGGATCCAGCTCAGGCCACAAGGCCCACCAGGGCAACCTGGTCTAGAGGGAACAAA---GAAAAGGGTGATAAAGgtatgcagtggaaatgagatggggtgcaggggcttagattgtgaaaacta Alignment from Spaln_nt2Genome GTGACAGGGGCCCTGCTG-GACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAG ttttgcctcttactcatcctcaggcgtattaatttttttttaatttcaagGTGACAGGGATCCAGCTCAGGCCACAAGGCCCACCAGGGCAACCTGG-TCTAGAGGGAACAA---AGAAAAGGGTGATAAAGgtatgcagtggaaatgagatggggtgcaggggcttagattgtgaaaacta Alignment from Pairagon GTGACAGGGGCCCTGCT-GGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAG ttttgcctcttactcatcctcaggcgtattaatttttttttaatttcaagGTGACAGGGATCCAGCTCAGGCCACAAGGCCCACCAGGGCAACCTGG-TCTAGAGGGAACAAAGAAAAG---GGTGATAAAGgtatgcagtggaaatgagatggggtgcaggggcttagattgtgaaaacta Alignment from Exonerate_protein2genome GTGACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAG ttttgcctcttactcatcctcaggcgtattaatttttttttaatttcaagGTGACAGGGATCCAGCTCAGGCCACAAGGCCCACCAGGGCAACCTGGTCTAGAGGGAACAAA---GAAAAGGGTGATAAAGgtatgcagtggaaatgagatggggtgcaggggcttagattgtgaaaacta Alignment from Exonerate_coding2genome ttttgcctcttactcatcctcaggcgtattaatttttttttaatttcaaggtgacagggatccagctcaggccacaaggcccaccagggcaacctggtctagagggaacaaagaaaagggtgataaaggtatgcagtggaaatgagatggggtgcaggggcttagattgtgaaaacta Alignment from GeneWise ttttgcctcttactcatcctcaggcgtattaatttttttttaatttcaaggtgacagggatccagctcaggccacaaggcccaccagggcaacctggtctagagggaacaaagaaaagggtgataaaggtatgcagtggaaatgagatggggtgcaggggcttagattgtgaaaacta #### Col17a1_ID10275_47 --> 2 - 1 Original Alignment ccGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGA-GGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAa cattcacgtcctgcctaatgctgtttctaatgagctctttcctgttgcagccACAAGTTTGTCGTCCACCCCAGGCCCAGCAGGTCCATCAGGACCACCAGCTCCTCGACGGGCCTCCTGGGGTTTCAACAGCCTCCTCTACATATGCTG-GGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACGagtctggatcatagtcattagcatgtttggccagacacaagtgaaactact Alignment from CESAR ccGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGA-GGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAa cattcacgtcctgcctaatgctgtttctaatgagctctttcctgttgcagccACAAGTTTGTCGTCCACCCCAGGCCCAGCAGGTCCATCAGGACCACCAGCTCCTCGACGGGCCTCCTGGGGTTTCAACAGCCTCCTCTACATATGCT-GGGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACGagtctggatcatagtcattagcatgtttggccagacacaagtgaaactact Alignment from Spaln_aa2Genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA cattcacgtcctgcctaatgctgtttctaatgagctctttcctgttgcagCCACAAGTTTGTCGTCCACCCCAGGCCCAGCAGGTCCATCAGGACCACCAGCTCCTCGACGGGCCTCCTGGGGTTTCAACAGCCTCCTCTACATATGCTGGGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACGAgtctggatcatagtcattagcatgtttggccagacacaagtgaaactact Alignment from Spaln_nt2Genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGA-GGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA cattcacgtcctgcctaatgctgtttctaatgagctctttcctgttgcagCCACAAGTTTGTCGTCCACCCCAGGCCCAGCAGGTCCATCAGGACCACCAGCTCCTCGACGGGCCTCCTGGGGTTTCAACAGCCTCCTCTACATATGCTG-GGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACGAgtctggatcatagtcattagcatgtttggccagacacaagtgaaactact Alignment from Pairagon CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGA-GGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA cattcacgtcctgcctaatgctgtttctaatgagctctttcctgttgcagCCACAAGTTTGTCGTCCACCCCAGGCCCAGCAGGTCCATCAGGACCACCAGCTCCTCGACGGGCCTCCTGGGGTTTCAACAGCCTCCTCTACATATGCTGG-GAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACGAgtctggatcatagtcattagcatgtttggccagacacaagtgaaactact Alignment from Exonerate_protein2genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA cattcacgtcctgcctaatgctgtttctaatgagctctttcctgttgcagCCACAAGTTTGTCGTCCACCCCAGGCCCAGCAGGTCCATCAGGACCACCAGCTCCTCGACGGGCCTCCTGGGGTTTCAACAGCCTCCTCTACATATGCTGGGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACGAgtctggatcatagtcattagcatgtttggccagacacaagtgaaactact Alignment from Exonerate_coding2genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA cattcacgtcctgcctaatgctgtttctaatgagctctttcctgttgcagCCACAAGTTTGTCGTCCACCCCAGGCCCAGCAGGTCCATCAGGACCACCAGCTCCTCGACGGGCCTCCTGGGGTTTCAACAGCCTCCTCTACATATGCTGGGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACGAgtctggatcatagtcattagcatgtttggccagacacaagtgaaactact Alignment from GeneWise CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA cattcacgtcctgcctaatgctgtttctaatgagctctttcctgttgcagCCACAAGTTTGTCGTCCACCCCAGGCCCAGCAGGTCCATCAGGACCACCAGCTCCTCGACGGGCCTCCTGGGGTTTCAACAGCCTCCTCTACATATGCTGGGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACGAgtctggatcatagtcattagcatgtttggccagacacaagtgaaactact #### Col17a1_ID10276_46 --> 2 - 1 Original Alignment gtTCTGGGATCAGCTTTGGG-CATCCTGGC---CCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAg tactctagcaggctcaaaattctcctgctctctctcttttgccatcctaggtGCTGGACTTAGCTTTGGACCATCCTGGCCCATCACCT---------------G-TGGAACTTCTTATGAAAAGTTACTGTCCATGCTTAAAggtaagtcaaaacccagaattgtccataaactcagaatggtgcattggggg Alignment from CESAR gtTCTGGGATCAGCTTTGGG-CATCCTGGCCCACCGGGACCCCCTGGCCTGCCA--GGAACATCCTACGAGGAGCTACTGACCATGCTCCGAg tactctagcaggctcaaaattctcctgctctctctcttttgccatcctaggtGCTGGACTTAGCTTTGGACCATCCTGGCCCATCA---------------CCTGTGGAACTTCTTATGAAAAGTTACTGTCCATGCTTAAAggtaagtcaaaacccagaattgtccataaactcagaatggtgcattggggg Alignment from Spaln_aa2Genome GTTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAG tactctagcaggctcaaaattctcctgctctctctcttttgccatcctagGTGCTGGACTTAGCTTTGGA------------CCATCCTGGCCCATCACCTGTGGAACTTCTTATGAAAAGTTACTGTCCATGCTTAAAGgtaagtcaaaacccagaattgtccataaactcagaatggtgcattggggg Alignment from Spaln_nt2Genome GTTCTGGGATCAGCTTTGGGC-ATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAG tactctagcaggctcaaaattctcctgctctctctcttttgccatcctagGTGCTGGACTTAGCTTTGGACCATCCTGGCCCA-----------TCACCTG--TGGAACTTCTTATGAAAAGTTACTGTCCATGCTTAAAGgtaagtcaaaacccagaattgtccataaactcagaatggtgcattggggg Alignment from Pairagon GTTCTGGGATCAGCTTTGGG-CATCCTGGCCCACCGGGACCCCCTGGCCTGCCA-----GGAACATCCTACGAGGAGCTACTGACCATGCTCCGAG tactctagcaggctcaaaattctcctgctctctctcttttgccatcctagGTGCTGGACTTAGCTTTGGACCATCCTGGCCCA------------------TCACCTGTGGAACTTCTTATGAAAAGTTACTGTCCATGCTTAAAGgtaagtcaaaacccagaattgtccataaactcagaatggtgcattggggg Alignment from Exonerate_protein2genome GCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAG tactctagcaggctcaaaattctcctgctctctctcttttgccatcctagGTGCTGGACTTAGCTTTGGACCATCCTGGCCCATCACCTGTGGAACTTCTTATGAAAAGTTACTGTCCATGCTTAAAGgtaagtcaaaacccagaattgtccataaactcagaatggtgcattggggg Alignment from Exonerate_coding2genome tactctagcaggctcaaaattctcctgctctctctcttttgccatcctaggtgctggacttagctttggaccatcctggcccatcacctgtggaacttcttatgaaaagttactgtccatgcttaaaggtaagtcaaaacccagaattgtccataaactcagaatggtgcattggggg Alignment from GeneWise GTTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAG tactctagcaggctcaaaattctcctgctctctctcttttgccatcctagGTGCTGGACTTAGCTTTGGA------------CCATCCTGGCCCATCACCTGTGGAACTTCTTATGAAAAGTTACTGTCCATGCTTAAAGgtaagtcaaaacccagaattgtccataaactcagaatggtgcattggggg #### Col17a1_ID10277_45 --> 2 - 1 Original Alignment ggAACGATGTGTGGCAGTACTTA-CGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAa acatagatagggctcaatgactctaagtactattttccttcccacctcaggaAATGATGTGTGGCAAGACCTACCGTCAAAATCTAGTAGGTCCTCCAAGTCCTT-AGGGCCATTAGCCATCAGTGGTGAAGGGTTGCTACTGTCT---------GGAGAGCTGAGCCAGCATATTCTCAACTATATGTCAagtaggtaggcaagtgtacccacctcccaaggatccaggggttaccttttt Alignment from CESAR ggAACGATGTGTGGCAGTACTTA-CGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAa acatagatagggctcaatgactctaagtactattttccttcccacctcaggaAATGATGTGTGGCAAGACCTACCGTCAAAATCTAGTAGGTCCTCCAAGTCCT-TAGGGCCATTAGCCATCAGTGGTGAAGGGTTGCTACTGTCT---------GGAGAGCTGAGCCAGCATATTCTCAACTATATGTCAagtaggtaggcaagtgtacccacctcccaaggatccaggggttaccttttt Alignment from Spaln_aa2Genome GGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA acatagatagggctcaatgactctaagtactattttccttcccacctcagGAAATGATGTGTGGCAAGACCTACCGTCAAAATCTAGTAGGTCCTCCAAGTCCTTAGGGCCATTAGCCATCAGTGGTGAAGGGTTGCTACTGTCT---------GGAGAGCTGAGCCAGCATATTCTCAACTATATGTCAAgtaggtaggcaagtgtacccacctcccaaggatccaggggttaccttttt Alignment from Spaln_nt2Genome GGAACGATGTGTGGCAGTACTTAC-GTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA acatagatagggctcaatgactctaagtactattttccttcccacctcagGAAATGATGTGTGGCAAGACCTACCGTCAAAATCTAGTAGGTCCTCCAAGT-CCTTAGGGCCATTAGCCATCAGTGGTGAAGGGTTGCTACTGTC---------TGGAGAGCTGAGCCAGCATATTCTCAACTATATGTCAAgtaggtaggcaagtgtacccacctcccaaggatccaggggttaccttttt Alignment from Pairagon GGAACGATGTGTGGCAGTACTTA-CGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA acatagatagggctcaatgactctaagtactattttccttcccacctcagGAAATGATGTGTGGCAAGACCTACCGTCAAAATCTAGTAGGTCCTCCAAGT-CCTTAGGGCCATTAGCCATCAGTGGTGAAGGGTTGCTACTGTC---------TGGAGAGCTGAGCCAGCATATTCTCAACTATATGTCAAgtaggtaggcaagtgtacccacctcccaaggatccaggggttaccttttt Alignment from Exonerate_protein2genome GGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA acatagatagggctcaatgactctaagtactattttccttcccacctcagGAAATGATGTGTGGCAAGACCTACCGTCAAAATCTAGTAGGTCCTCCAAGTCCTTAGGGCCATTAGCCATCAGTGGTGAAGGGTTGCTACTGTCT---------GGAGAGCTGAGCCAGCATATTCTCAACTATATGTCAAgtaggtaggcaagtgtacccacctcccaaggatccaggggttaccttttt Alignment from Exonerate_coding2genome GGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA acatagatagggctcaatgactctaagtactattttccttcccacctcagGAAATGATGTGTGGCAAGACCTACCGTCAAAATCTAGTAGGTCCTCCAAGTCCTTAGGGCCATTAGCCATCAGTGGTGAAGGGTTGCTACTGTCT---------GGAGAGCTGAGCCAGCATATTCTCAACTATATGTCAAgtaggtaggcaagtgtacccacctcccaaggatccaggggttaccttttt Alignment from GeneWise GGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA acatagatagggctcaatgactctaagtactattttccttcccacctcagGAAATGATGTGTGGCAAGACCTACCGTCAAAATCTAGTAGGTCCTCCAAGTCCTTAGGGCCATTAGCCATCAGTGGTGAAGGGTTGCTACTGTCT---------GGAGAGCTGAGCCAGCATATTCTCAACTATATGTCAAgtaggtaggcaagtgtacccacctcccaaggatccaggggttaccttttt #### Col17a1_ID10279_43 --> 2 - 1 Original Alignment gtGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCA-GGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGt aatctgaaactgtctctgtccagcatgttgaccagccatctctttcacaggtGGCAACATCAGGACAGATCTGCTAGGAGTTCAGGGGCCCCCTCGGT------------CCTGGATCTGTAATCACTA-TAAGGGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACGAtgtgaggttttaggaccttctgtgtttttcgcttccccagtctgtattgtt Alignment from CESAR gtGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCA-GGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGt aatctgaaactgtctctgtccagcatgttgaccagccatctctttcacaggtGGCAACATCAGGACAGATCTGCTAGGAGTTCAGGGGCCCCCTCGGT------------CCTGGATCTGTAATCACTATA-AGGGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACGAtgtgaggttttaggaccttctgtgtttttcgcttccccagtctgtattgtt Alignment from Spaln_aa2Genome GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT aatctgaaactgtctctgtccagcatgttgaccagccatctctttcacagGTGGCAACATCAGGACAGATCTGCTAGGAGTTCAGGGGCCCCCTCGG------------TCCTGGATCTGTAATCACTATAAGGGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACGATgtgaggttttaggaccttctgtgtttttcgcttccccagtctgtattgtt Alignment from Spaln_nt2Genome GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT aatctgaaactgtctctgtccagcatgttgaccagccatctctttcacagGTGGCAACATCAGGACAGATCTGCTAGGAGTTCAGG--------GGCCCCCTCGGT---CCTGGATCTGTAATCACTAT-AAGGGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACGATgtgaggttttaggaccttctgtgtttttcgcttccccagtctgtattgtt Alignment from Pairagon GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCC--------------------------AGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT aatctgaaactgtctctgtccagcatgttgaccagccatctctttcacagGTGGCAACATCAGGACAGATCTGCTAGGAGTTCAGGGGCCCCCTCGGTCCTGGATCTGTAATCACTATAAG--------------------------------------GGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACGATgtgaggttttaggaccttctgtgtttttcgcttccccagtctgtattgtt Alignment from Exonerate_protein2genome TATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACA-----GGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT aatctgaaactgtctctgtccagcatgttgaccagccatctctttcacagGTGGCAACATCAGGACAGATCTGCTAGGAGTTCAGGGGCCCCCTCGGTCCTGGATCTGTAATCACTATAAGGGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACGATgtgaggttttaggaccttctgtgtttttcgcttccccagtctgtattgtt Alignment from Exonerate_coding2genome aatctgaaactgtctctgtccagcatgttgaccagccatctctttcacaggtggcaacatcaggacagatctgctaggagttcaggggccccctcggtcctggatctgtaatcactataagggagagacttttgattactctcaactggcaagtcatgaagttagctacctacgatgtgaggttttaggaccttctgtgtttttcgcttccccagtctgtattgtt Alignment from GeneWise GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT aatctgaaactgtctctgtccagcatgttgaccagccatctctttcacagGTGGCAACATCAGGACAGATCTGCTAGGAGTTCAGGGGCCCCCT------------CGGTCCTGGATCTGTAATCACTATAAGGGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACGATgtgaggttttaggaccttctgtgtttttcgcttccccagtctgtattgtt #### Col17a1_ID10288_34 --> 2 - 1 Original Alignment agGGATCATCAACAATCACTGTGCCCGGA-CCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAg taggttaagatagtgtaacatggcatgtccttcccctgcctttcacccagaaGGATCCTCAACAATCACTGTGCCTGGGCACTCCCGGACCTTCGGGTGCCATGGGTCCTCCTG-GCCTCCAGGGACACTTggtatggctattctacttcttcccaacaaatcaacaatgatttacataaat Alignment from CESAR agGGATCATCAACAATCACTGTGCCCGGA-CCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAg taggttaagatagtgtaacatggcatgtccttcccctgcctttcacccagaaGGATCCTCAACAATCACTGTGCCTGGGCACTCCCGGACCTTCGGGTGCCATGGGTCCTCCTG-GCCTCCAGGGACACTTggtatggctattctacttcttcccaacaaatcaacaatgatttacataaat Alignment from Spaln_aa2Genome AGGGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAG taggttaagatagtgtaacatggcatgtccttcccctgcctttcacccagAAGGATCCTCAACAATCACTGTGCCTGGGCACTCCCGGACCTTCGGGTGCCATGGGTCCTCCTGGCCTCCAGGGACACTTGgtatggctattctacttcttcccaacaaatcaacaatgatttacataaat Alignment from Spaln_nt2Genome AGGGATCATCAACAATCACTGTGCCCGGAC-CTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAG taggttaagatagtgtaacatggcatgtccttcccctgcctttcacccagAAGGATCCTCAACAATCACTGTGCCTGGGCACTCCCGGACCTTCGGGTGCCATGGGTCCTCCTGG-CCTCCAGGGACACTTGgtatggctattctacttcttcccaacaaatcaacaatgatttacataaat Alignment from Pairagon AGGGATCATCAACAATCACTGTGCCCGGAC-CTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAG taggttaagatagtgtaacatggcatgtccttcccctgcctttcacccagAAGGATCCTCAACAATCACTGTGCCTGGGCACTCCCGGACCTTCGGGTGCCATGGGTCCTCCTGG-CCTCCAGGGACACTTGgtatggctattctacttcttcccaacaaatcaacaatgatttacataaat Alignment from Exonerate_protein2genome AGGGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAG taggttaagatagtgtaacatggcatgtccttcccctgcctttcacccagAAGGATCCTCAACAATCACTGTGCCTGGGCACTCCCGGACCTTCGGGTGCCATGGGTCCTCCTGGCCTCCAGGGACACTTGgtatggctattctacttcttcccaacaaatcaacaatgatttacataaat Alignment from Exonerate_coding2genome AGGGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAG taggttaagatagtgtaacatggcatgtccttcccctgcctttcacccagAAGGATCCTCAACAATCACTGTGCCTGGGCACTCCCGGACCTTCGGGTGCCATGGGTCCTCCTGGCCTCCAGGGACACTTGgtatggctattctacttcttcccaacaaatcaacaatgatttacataaat Alignment from GeneWise taggttaagatagtgtaacatggcatgtccttcccctgcctttcacccagaaggatcctcaacaatcactgtgcctgggcactcccggaccttcgggtgccatgggtcctcctggcctccagggacacttggtatggctattctacttcttcccaacaaatcaacaatgatttacataaat #### Col17a1_ID10300_22 --> 2 - 1 Original Alignment gaGATCCTGGCATGGAA-GGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAg aactattctgtactgttgcatctttcttttcttttctcacgggagtttaggaGACCCAGGCATGGAACGCACCAATAGGCCAGAGAGGGTTAGCAGGTCCCA-GGGACCCAGCGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAggtgggagtcactatcaacactataatgtggtgacctgcatctgttcattt Alignment from CESAR gaGATCCTGGCATGGAA-GGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAg aactattctgtactgttgcatctttcttttcttttctcacgggagtttaggaGACCCAGGCATGGAACGCACCAATAGGCCAGAGAGGGTTAGCAGGTCCC-AGGGACCCAGCGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAggtgggagtcactatcaacactataatgtggtgacctgcatctgttcattt Alignment from Spaln_aa2Genome GAGATCCTGGCATGGAA-GGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAG aactattctgtactgttgcatctttcttttcttttctcacgggagtttagGAGACCCAGGCATGGAAcGCACCAATAGGCCAGAGAGGGTTAGCAGGTCCCAG-GGACCCAGCGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAGgtgggagtcactatcaacactataatgtggtgacctgcatctgttcattt Alignment from Spaln_nt2Genome GAGATCCTGGCATGGAAGG-ACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAG aactattctgtactgttgcatctttcttttcttttctcacgggagtttagGAGACCCAGGCATGGAACGCACCAATAGGCCAGAGAGGGTTAGCAGGTCCCAG-GGACCCAGCGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAGgtgggagtcactatcaacactataatgtggtgacctgcatctgttcattt Alignment from Pairagon GAGATCCTGGCATGGAA-GGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAG aactattctgtactgttgcatctttcttttcttttctcacgggagtttagGAGACCCAGGCATGGAACGCACCAATAGGCCAGAGAGGGTTAGCAGGTCCCA-GGGACCCAGCGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAGgtgggagtcactatcaacactataatgtggtgacctgcatctgttcattt Alignment from Exonerate_protein2genome GAGATCCTGGCATGGAAGGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAG aactattctgtactgttgcatctttcttttcttttctcacgggagtttagGAGACCCAGGCATGGAACGCACCAATAGGCCAGAGAGGGTTAGCAGGTCCCAGGGACCCAGCGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAGgtgggagtcactatcaacactataatgtggtgacctgcatctgttcattt Alignment from Exonerate_coding2genome GAGATCCTGGCATGGAAGGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAG aactattctgtactgttgcatctttcttttcttttctcacgggagtttagGAGACCCAGGCATGGAACGCACCAATAGGCCAGAGAGGGTTAGCAGGTCCCAGGGACCCAGCGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAGgtgggagtcactatcaacactataatgtggtgacctgcatctgttcattt Alignment from GeneWise GAGATCCTGGCATGGAAGGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAG aactattctgtactgttgcatctttcttttcttttctcacgggagtttagGAGACCCAGGCATGGAACGCACCAATAGGCCAGAGAGGGTTAGCAGGTCCCAGGGACCCAGCGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAGgtgggagtcactatcaacactataatgtggtgacctgcatctgttcattt #### Coro1b_ID352_2 --> 0 - 0 Original Alignment ACGGGCCGCATTGACAAGGCCTACCCGACA-GTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gtagatgagccaaaaagcttaagattagatttttttttaaatatttttagACTGGCCACGTGGACAAGGCATTCCCAACACGTCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGT-TCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACGgtaaataaaacctgttcggtttttattgtatcaagatcaccaacttctag Alignment from CESAR ACGGGCCGCATTGACAAGGCCTACCCGACA-GTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gtagatgagccaaaaagcttaagattagatttttttttaaatatttttagACTGGCCACGTGGACAAGGCATTCCCAACACGTCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGG-TTCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACGgtaaataaaacctgttcggtttttattgtatcaagatcaccaacttctag Alignment from Spaln_aa2Genome ACGGGCCGCATTGACAAGGCCTACCCGACA-GTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gtagatgagccaaaaagcttaagattagatttttttttaaatatttttagACTGGCCACGTGGACAAGGCATTCCCAACAcGTCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTT-CCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACGgtaaataaaacctgttcggtttttattgtatcaagatcaccaacttctag Alignment from Spaln_nt2Genome ACGGGCCGCATTGACAAGGCCTACCCGACA-GTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gtagatgagccaaaaagcttaagattagatttttttttaaatatttttagACTGGCCACGTGGACAAGGCATTCCCAACACGTCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGT-TCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACGgtaaataaaacctgttcggtttttattgtatcaagatcaccaacttctag Alignment from Pairagon ACGGGCCGCATTGACAAGGCCTACCCGACA-GTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gtagatgagccaaaaagcttaagattagatttttttttaaatatttttagACTGGCCACGTGGACAAGGCATTCCCAACACGTCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGT-TCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACGgtaaataaaacctgttcggtttttattgtatcaagatcaccaacttctag Alignment from Exonerate_protein2genome ACGGGCCGCATTGACAAGGCCTACCCGACA-GTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGG--TGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gtagatgagccaaaaagcttaagattagatttttttttaaatatttttagACTGGCCACGTGGACAAGGCATTCCCAACACGTCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTT---CCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACGgtaaataaaacctgttcggtttttattgtatcaagatcaccaacttctag Alignment from Exonerate_coding2genome ACGGGCCGCATTGACAAGGCCTACCCGACA-GTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGG--TGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gtagatgagccaaaaagcttaagattagatttttttttaaatatttttagACTGGCCACGTGGACAAGGCATTCCCAACACGTCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTT---CCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACGgtaaataaaacctgttcggtttttattgtatcaagatcaccaacttctag Alignment from GeneWise ACGGGCCGCATTGACAAGGCCTACCCGACA-GTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gtagatgagccaaaaagcttaagattagatttttttttaaatatttttagACTGGCCACGTGGACAAGGCATTCCCAACACGTCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTT-CCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACGgtaaataaaacctgttcggtttttattgtatcaagatcaccaacttctag #### Coro1b_ID353_3 --> 0 - 1 Original Alignment GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC------AAG-CGCGTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAg aatgataccctctcttgatgattgacctctgctacccttctcctgcccagATCTGGCAGATCCCAGAGAATGGTTTGACT---CCACTGACAGAGCCTGTAGTTGTGCCTGAGGGGCATACAATTAAACGACCATCTGGGTATTACTACTTGGCATCCTACTGCCCAAATTG-GATTCTTGGTGCTggtgcctttattatgcccaaaccatgctctctactctagttgtagtccagc Alignment from CESAR GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC---AAGCGC----GTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAg aatgataccctctcttgatgattgacctctgctacccttctcctgcccagATCTGGCAGATCCCAGAGAATGGTTTGACT---CCACTGACAGAGCCTGTAGTTGTGCCTGAGGGGCATACAATTAAACGACCATCTGGGTATTACTACTTGGCATCCTACTGCCC-AAATTGGATTCTTGGTGCTggtgcctttattatgcccaaaccatgctctctactctagttgtagtccagc Alignment from Spaln_aa2Genome GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACCAAGCGCGTGGGCATTATCACCTGGCACCCCACAGCC------CGAAATGTGCTTCTCAGTGCAG aatgataccctctcttgatgattgacctctgctacccttctcctgcccagATCTGGCAGATCCCAGAGAATGGTTTG---ACTCCACTGACAGAGCCTGTAGTTGTGCCTGAGGGGCATACAATTAAACGACCATCTGGGTATTACTACTTGGCATCCTACTGCCCAAATTGGATTCTTGGTGCTGgtgcctttattatgcccaaaccatgctctctactctagttgtagtccagc Alignment from Spaln_nt2Genome GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACCA-------AGCGCGTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAG aatgataccctctcttgatgattgacctctgctacccttctcctgcccagATCTGGCAGATCCCAGAGAATGGTTTGA---CTCCACTGACAGAGCCTGTAGTTGTGCCTGAGGGGCATACAATTAAACGACCATCTGGGTATTACTACTTGGCATCCTACTGCCC-AAATTGGATTCTTGGTGCTGgtgcctttattatgcccaaaccatgctctctactctagttgtagtccagc Alignment from Pairagon GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATAC-------CAAGCGCGTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAG aatgataccctctcttgatgattgacctctgctacccttctcctgcccagATCTGGCAGATCCCAGAGAATGGTTTGA---CTCCACTGACAGAGCCTGTAGTTGTGCCTGAGGGGCATACAATTAAACGACCATCTGGGTATTACTACTTGGCATCCTACTGCCCAAATTG-GATTCTTGGTGCTGgtgcctttattatgcccaaaccatgctctctactctagttgtagtccagc Alignment from Exonerate_protein2genome GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC---AAGCGC----GTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCA aatgataccctctcttgatgattgacctctgctacccttctcctgcccagATCTGGCAGATCCCAGAGAATGGTTTGACT---CCACTGACAGAGCCTGTAGTTGTGCCTGAGGGGCATACAATTAAACGACCATCTGGGTATTACTACTTGGCATCCTACTGCCCAAATTGGATTCTTGGTGCTGgtgcctttattatgcccaaaccatgctctctactctagttgtagtccagc Alignment from Exonerate_coding2genome GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC---AAGCGC----GTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCA aatgataccctctcttgatgattgacctctgctacccttctcctgcccagATCTGGCAGATCCCAGAGAATGGTTTGACT---CCACTGACAGAGCCTGTAGTTGTGCCTGAGGGGCATACAATTAAACGACCATCTGGGTATTACTACTTGGCATCCTACTGCCCAAATTGGATTCTTGGTGCTGgtgcctttattatgcccaaaccatgctctctactctagttgtagtccagc Alignment from GeneWise GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC---AAGCGCGTG---GGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAG aatgataccctctcttgatgattgacctctgctacccttctcctgcccagATCTGGCAGATCCCAGAGAATGGTTTGACT---CCACTGACAGAGCCTGTAGTTGTGCCTGAGGGGCATACAATTAAACGACCATCTGGGTATTACTACTTGGCATCCTACTGCCCAAATTGGATTCTTGGTGCTGgtgcctttattatgcccaaaccatgctctctactctagttgtagtccagc #### Coro1b_ID354_4 --> 2 - 0 Original Alignment gtTGTGACAATGTGGTACTTATCTGGAAT-GTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA gtgctgtgctgattaaactcattacaaatatgacttgtaatttctttaaggaTGTGACAATGTGCTACTTATCTGGAATCGTGGATGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGC-TCCTGACCTTGCTTATAACGTGAGCTGGAACCACATCGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtatctacaaatgagtattctgtcttttgacgtgtcatctcttctttcca Alignment from CESAR gtTGTGACAATGTGGTACTTATCTGGAAT-GTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA gtgctgtgctgattaaactcattacaaatatgacttgtaatttctttaaggaTGTGACAATGTGCTACTTATCTGGAATCGTGGATGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTG-CTCCTGACCTTGCTTATAACGTGAGCTGGAACCACATCGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtatctacaaatgagtattctgtcttttgacaacttttttctgatatccg Alignment from Spaln_aa2Genome GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA gtgctgtgctgattaaactcattacaaatatgacttgtaatttctttaagGATGTGACAATGTGCTACTTATCTGGAATCGTGGATGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCTCCTGACCTTGCTTATAACGTGAGCTGGAACCACATCGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtatctacaaatgagtattctgtcttttgacgtgtcatctcttctttcca Alignment from Spaln_nt2Genome GTTGTGACAATGTGGTACTTATCTGGAAT-GTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA gtgctgtgctgattaaactcattacaaatatgacttgtaatttctttaagGATGTGACAATGTGCTACTTATCTGGAATCGTGGATGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGC-TCCTGACCTTGCTTATAACGTGAGCTGGAACCACATCGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtatctacaaatgagtattctgtcttttgacgtgtcatctcttctttcca Alignment from Pairagon GTTGTGACAATGTGGTACTTATCTGGAAT-GTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA gtgctgtgctgattaaactcattacaaatatgacttgtaatttctttaagGATGTGACAATGTGCTACTTATCTGGAATCGTGGATGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGC-TCCTGACCTTGCTTATAACGTGAGCTGGAACCACATCGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtatctacaaatgagtattctgtcttttgacgtgtcatctcttctttcca Alignment from Exonerate_protein2genome GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA gtgctgtgctgattaaactcattacaaatatgacttgtaatttctttaagGATGTGACAATGTGCTACTTATCTGGAATCGTGGATGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCTCCTGACCTTGCTTATAACGTGAGCTGGAACCACATCGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtatctacaaatgagtattctgtcttttgacgtgtcatctcttctttcca Alignment from Exonerate_coding2genome GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA gtgctgtgctgattaaactcattacaaatatgacttgtaatttctttaagGATGTGACAATGTGCTACTTATCTGGAATCGTGGATGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCTCCTGACCTTGCTTATAACGTGAGCTGGAACCACATCGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtatctacaaatgagtattctgtcttttgacgtgtcatctcttctttcca Alignment from GeneWise GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA gtgctgtgctgattaaactcattacaaatatgacttgtaatttctttaagGATGTGACAATGTGCTACTTATCTGGAATCGTGGATGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCTCCTGACCTTGCTTATAACGTGAGCTGGAACCACATCGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtatctacaaatgagtattctgtcttttgacgtgtcatctcttctttcca #### Crtac1_ID8462_10 --> 2 - 0 Original Alignment ggGGCGTAGTGACCGACTTCGATGGTGATGGGATG-CTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccttcctcgcccaaatagtgatggcctgagtcttctggcttcatccccagggGGTGTGGTGACTGATTTTGATGGGGATGGGATGCTTGGATCTGATCTTGTCACATGGAAGGTCCATGG-TCAGCCCTTGTCCATTTTCTGTGGGAATCAGgtaggaaacatttttgcctctgtatgagaatacacactagattccttttt Alignment from CESAR ggGGCGTAGTGACCGACTTCGATGGTGATGGGATG-CTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccttcctcgcccaaatagtgatggcctgagtcttctggcttcatccccagggGGTGTGGTGACTGATTTTGATGGGGATGGGATGCTTGGATCTGATCTTGTCACATGGAAGGTCCATG-GTCAGCCCTTGTCCATTTTCTGTGGGAATCAGgtaggaaacatttttgcctctgtatgagaatacacactagattccttttt Alignment from Spaln_aa2Genome GGGGCGTAGTGACCGACTTCGATGGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccttcctcgcccaaatagtgatggcctgagtcttctggcttcatccccagGGGGTGTGGTGACTGATTTTGATGGGGATGGGATGCTTGGATCTGATCTTGTCACATGGAAGGTCCATGGTCAGCCCTTGTCCATTTTCTGTGGGAATCAGgtaggaaacatttttgcctctgtatgagaatacacactagattccttttt Alignment from Spaln_nt2Genome GGGGCGTAGTGACCGACTTCGATGGTGATGGGATGCTG-GATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccttcctcgcccaaatagtgatggcctgagtcttctggcttcatccccagGGGGTGTGGTGACTGATTTTGATGGGGATGGGATGCTTGGATCTGATCTTGTCACATGGAAGGTCCATGG-TCAGCCCTTGTCCATTTTCTGTGGGAATCAGgtaggaaacatttttgcctctgtatgagaatacacactagattccttttt Alignment from Pairagon GGGGCGTAGTGACCGACTTCGATGGTGATGGGATGC-TGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccttcctcgcccaaatagtgatggcctgagtcttctggcttcatccccagGGGGTGTGGTGACTGATTTTGATGGGGATGGGATGCTTGGATCTGATCTTGTCACATGGAAGGTCCATGG-TCAGCCCTTGTCCATTTTCTGTGGGAATCAGgtaggaaacatttttgcctctgtatgagaatacacactagattccttttt Alignment from Exonerate_protein2genome GGGGCGTAGTGACCGACTTCGATGGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccttcctcgcccaaatagtgatggcctgagtcttctggcttcatccccagGGGGTGTGGTGACTGATTTTGATGGGGATGGGATGCTTGGATCTGATCTTGTCACATGGAAGGTCCATGGTCAGCCCTTGTCCATTTTCTGTGGGAATCAGgtaggaaacatttttgcctctgtatgagaatacacactagattccttttt Alignment from Exonerate_coding2genome GGGGCGTAGTGACCGACTTCGATGGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccttcctcgcccaaatagtgatggcctgagtcttctggcttcatccccagGGGGTGTGGTGACTGATTTTGATGGGGATGGGATGCTTGGATCTGATCTTGTCACATGGAAGGTCCATGGTCAGCCCTTGTCCATTTTCTGTGGGAATCAGgtaggaaacatttttgcctctgtatgagaatacacactagattccttttt Alignment from GeneWise GGGGCGTAGTGACCGACTTCGATGGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccttcctcgcccaaatagtgatggcctgagtcttctggcttcatccccagGGGGTGTGGTGACTGATTTTGATGGGGATGGGATGCTTGGATCTGATCTTGTCACATGGAAGGTCCATGGTCAGCCCTTGTCCATTTTCTGTGGGAATCAGgtaggaaacatttttgcctctgtatgagaatacacactagattccttttt #### Csf2ra_ID13431_9 --> 2 - 2 Original Alignment agGCTGAGGACACGCGAGTGCCCGGTGCGCTCCTG-TATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGag acaggagcagacagcttcctgagtgccatgactgatctctctctgcccagatGCAGATGACATGCGGGTGCCTGGCACACTCCTCCTACACAGTAACTGCTTGTGCTGTCTTACTATGTGCAC-AGTGCTTGGAGTGACTTGCAGGaggtaagtctaagggccaatatcatgaacaagttatgcaaacagttggttta Alignment from CESAR agGCTGAGGACACGCGAGTGCCCGGTGCGCTCCTG-TATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGag acaggagcagacagcttcctgagtgccatgactgatctctctctgcccagatGCAGATGACATGCGGGTGCCTGGCACACTCCTCCTACACAGTAACTGCTTGTGCTGTCTTACTATGTGCA-CAGTGCTTGGAGTGACTTGCAGGaggtaagtctaagggccaatatcatgaacaagttatgcaaacagttggttta Alignment from Spaln_aa2Genome AGGCTGAGGACACGCGAGTGCCCGGTGCGCTCCTG-TATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGAG acaggagcagacagcttcctgagtgccatgactgatctctctctgcccagATGCAGATGACATGCGGGTGCCTGGCACACTCCTCcTACACAGTAACTGCTTGTGCTGTCTTACTATGTGCACA-GTGCTTGGAGTGACTTGCAGGAGgtaagtctaagggccaatatcatgaacaagttatgcaaacagttggttta Alignment from Spaln_nt2Genome AGGCTGAGGACACGCGAGTGCCCGGTGCGCTCCTG-TATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGAG acaggagcagacagcttcctgagtgccatgactgatctctctctgcccagATGCAGATGACATGCGGGTGCCTGGCACACTCCTCCTACACAGTAACTGCTTGTGCTGTCTTACTATGTGCAC-AGTGCTTGGAGTGACTTGCAGGAGgtaagtctaagggccaatatcatgaacaagttatgcaaacagttggttta Alignment from Pairagon AGGCTGAGGACACGCGAGTGCCCGGTGCGCTCCT-GTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGAG acaggagcagacagcttcctgagtgccatgactgatctctctctgcccagATGCAGATGACATGCGGGTGCCTGGCACACTCCTCCTACACAGTAACTGCTTGTGCTGTCTTACTATGTGCAC-AGTGCTTGGAGTGACTTGCAGGAGgtaagtctaagggccaatatcatgaacaagttatgcaaacagttggttta Alignment from Exonerate_protein2genome AGGCTGAGGACACGCGAGTGCCCGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGAG acaggagcagacagcttcctgagtgccatgactgatctctctctgcccagATGCAGATGACATGCGGGTGCCTGGCACACTCCTCCTACACAGTAACTGCTTGTGCTGTCTTACTATGTGCACAGTGCTTGGAGTGACTTGCAGGAGgtaagtctaagggccaatatcatgaacaagttatgcaaacagttggttta Alignment from Exonerate_coding2genome acaggagcagacagcttcctgagtgccatgactgatctctctctgcccagatgcagatgacatgcgggtgcctggcacactcctcctacacagtaactgcttgtgctgtcttactatgtgcacagtgcttggagtgacttgcaggaggtaagtctaagggccaatatcatgaacaagttatgcaaacagttggttta Alignment from GeneWise AGGCTGAGGACACGCGAGTGCCCGGTGCGCTCCTG---TATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGAG acaggagcagacagcttcctgagtgccatgactgatctctctctgcccagATGCAGATGACATGCGGGTGCCTGGCACACTCCTCCTACACAGTAACTGCTTGTGCTGTCTTACTATGTGCACAGTG---CTTGGAGTGACTTGCAGGAGgtaagtctaagggccaatatcatgaacaagttatgcaaacagttggttta #### Csf2ra_ID13434_6 --> 2 - 0 Original Alignment agCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCAC-TGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tacaatgtagagtgttcatgtgtttaatctgactgcctatttctgtctagagCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATCTGCACTGTGTCTTGGGCTCCACCTTCCACTTGGGCATCTCTGG-AGCACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgaagtaaggcctcttttttctgggatagcctaggggatgctgtgccta Alignment from CESAR agCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCAC-TGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tacaatgtagagtgttcatgtgtttaatctgactgcctatttctgtctagagCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATCTGCACTGTGTCTTGGGCTCCACCTTCCACTTGGGCATCTCTG-GAGCACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgaagtaaggcctcttttttctgggatagcctaggggatgctgtgccta Alignment from Spaln_aa2Genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCAC-TGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tacaatgtagagtgttcatgtgtttaatctgactgcctatttctgtctagAGCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATcTGCACTGTGTCTTGGGCTCCACCTTCCACTTGGGCATCTCTGGA-GCACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgaagtaaggcctcttttttctgggatagcctaggggatgctgtgccta Alignment from Spaln_nt2Genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCA-CTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tacaatgtagagtgttcatgtgtttaatctgactgcctatttctgtctagAGCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATCTGCACTGTGTCTTGGGCTCCACCTTCCACTTGGGCATCTCTG-GAGCACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgaagtaaggcctcttttttctgggatagcctaggggatgctgtgccta Alignment from Pairagon AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCA-CTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATC-CTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tacaatgtagagtgttcatgtgtttaatctgactgcctatttctgtctagAGCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATCTGCACTGTGTCTTGGGCTCCACCTTCCACTTGGGCATCTCTGGA--GCACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgaagtaaggcctcttttttctgggatagcctaggggatgctgtgccta Alignment from Exonerate_protein2genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCAC-TGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTG--ACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tacaatgtagagtgttcatgtgtttaatctgactgcctatttctgtctagAGCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATCTGCACTGTGTCTTGGGCTCCACCTTCCACTTGGGCATCTCTGGA---GCACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgaagtaaggcctcttttttctgggatagcctaggggatgctgtgccta Alignment from Exonerate_coding2genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCAC-TGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTG--ACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tacaatgtagagtgttcatgtgtttaatctgactgcctatttctgtctagAGCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATCTGCACTGTGTCTTGGGCTCCACCTTCCACTTGGGCATCTCTGGA---GCACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgaagtaaggcctcttttttctgggatagcctaggggatgctgtgccta Alignment from GeneWise AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCC-CACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tacaatgtagagtgttcatgtgtttaatctgactgcctatttctgtctagAGCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATCTGCACTGTGTCTTGGGCTCCACCTTCCACTTGGGCATCTCTGGA-GCACGGGACTATCAGTTTGAGGTCCAGTGGCAGgtgaagtaaggcctcttttttctgggatagcctaggggatgctgtgccta #### Csf2ra_ID13436_4 --> 2 - 2 Original Alignment gcGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAG-ATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCac atagaagtagtgttggattgcacccaaatgtcttgctctctgtgtttcaggcACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGCATTCGAGCTTCACGCTTTCTTTCCTGTGCTTGGCGAG-GGGGCCGGCCGCACCGGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAacgtaagttgtaaacgcccagttgtctgtccgcagagcattgctactatctt Alignment from CESAR gcGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAG-ATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCac atagaagtagtgttggattgcacccaaatgtcttgctctctgtgtttcaggcACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGCATTCGAGCTTCACGCTTTCTTTCCTGTGCTTGGCGA-GGGGGCCGGCCGCACCGGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAacgtaagttgtaaacgcccagttgtctgtccgcagagcattgctactatctt Alignment from Spaln_aa2Genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC atagaagtagtgttggattgcacccaaatgtcttgctctctgtgtttcagGCACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGCATTCGAGCTTCACGCTTTCTTTCCTGTGCTTGGCGAGGGGGCCGGCCGCACCGGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAACgtaagttgtaaacgcccagttgtctgtccgcagagcattgctactatctt Alignment from Spaln_nt2Genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAG-ATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC atagaagtagtgttggattgcacccaaatgtcttgctctctgtgtttcagGCACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGCATTCGAGCTTCACGCTTTCTTTCCTGTGCTTGGCGAG-GGGGCCGGCCGCACCGGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAACgtaagttgtaaacgcccagttgtctgtccgcagagcattgctactatctt Alignment from Pairagon GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAG-ATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC atagaagtagtgttggattgcacccaaatgtcttgctctctgtgtttcagGCACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGCATTCGAGCTTCACGCTTTCTTTCCTGTGCTTGGCGAG-GGGGCCGGCCGCACCGGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAACgtaagttgtaaacgcccagttgtctgtccgcagagcattgctactatctt Alignment from Exonerate_protein2genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAG-ATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGG--CGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC atagaagtagtgttggattgcacccaaatgtcttgctctctgtgtttcagGCACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGCATTCGAGCTTCACGCTTTCTTTCCTGTGCTTGGCGAGG---GGGCCGGCCGCACCGGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAACgtaagttgtaaacgcccagttgtctgtccgcagagcattgctactatctt Alignment from Exonerate_coding2genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGA atagaagtagtgttggattgcacccaaatgtcttgctctctgtgtttcaggcactgcaggcactggggcagagaacctaatctgtgagcattcgagcttcacgctttctttcctgtgcttggcgagggggccggccgcaccggcagatgtccagCACTCACTGCAGGTCCTTAACTCAACGTAAGTTGTAAACGCCCAGTTGTCTGTCCGCAGAGCATTGCTACTATCTT Alignment from GeneWise GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC atagaagtagtgttggattgcacccaaatgtcttgctctctgtgtttcagGCACTGCAGGCACTGGGGCAGAGAACCTAATCTGTGAGCATTCGAGCTTCACGCTTTCTTTCCTGTGCTTGGCGAGGGGGCCGGCCGCACCGGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAACgtaagttgtaaacgcccagttgtctgtccgcagagcattgctactatctt #### Csf2ra_ID13437_3 --> 0 - 1 Original Alignment CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAAT-GGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAg atagaacgctcagtgcattaccctaacctaatggctcgctgtgttggcagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTGGACGTCAATCGGCACAGTTGGAGGTGCAGCCGCACATTGGA-GCTCAGCTTTGTTAATGAGggtgagaatagatgttggggactccatgatacactttctactaagctatca Alignment from CESAR CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAAT-GGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAg atagaacgctcagtgcattaccctaacctaatggctcgctgtgttggcagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTGGACGTCAATCGGCACAGTTGGAGGTGCAGCCGCACATTGG-AGCTCAGCTTTGTTAATGAGggtgagaatagatgttggggactccatgatacactttctactaagctatca Alignment from Spaln_aa2Genome CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAG atagaacgctcagtgcattaccctaacctaatggctcgctgtgttggcagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTGGACGTCAATCGGCACAGTTGGAGGTGCAGCCGCACATTGGAGCTCAGCTTTGTTAATGAGGgtgagaatagatgttggggactccatgatacactttctactaagctatca Alignment from Spaln_nt2Genome CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAAT-GGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAG atagaacgctcagtgcattaccctaacctaatggctcgctgtgttggcagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTGGACGTCAATCGGCACAGTTGGAGGTGCAGCCGCACATTGGA-GCTCAGCTTTGTTAATGAGGgtgagaatagatgttggggactccatgatacactttctactaagctatca Alignment from Pairagon CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAAT-GGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAG atagaacgctcagtgcattaccctaacctaatggctcgctgtgttggcagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTGGACGTCAATCGGCACAGTTGGAGGTGCAGCCGCACATTGGA-GCTCAGCTTTGTTAATGAGGgtgagaatagatgttggggactccatgatacactttctactaagctatca Alignment from Exonerate_protein2genome CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAG atagaacgctcagtgcattaccctaacctaatggctcgctgtgttggcagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTGGACGTCAATCGGCACAGTTGGAGGTGCAGCCGCACATTGGAGCTCAGCTTTGTTAATGAGGgtgagaatagatgttggggactccatgatacactttctactaagctatca Alignment from Exonerate_coding2genome CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAAT-GGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAGGCGCGGCGGGCT atagaacgctcagtgcattaccctaacctaatggctcgctgtgttggcagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTGGACGTCAATCGGCACAGTTGGAGGTGCAGCCGCACATTGGAGCTCAGCTTTGTTAATGAGGGTGAGAATAGATGttggggactccatgatacactttctactaagctatca Alignment from GeneWise CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAG atagaacgctcagtgcattaccctaacctaatggctcgctgtgttggcagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTGGACGTCAATCGGCACAGTTGGAGGTGCAGCCGCACATTGGAGCTCAGCTTTGTTAATGAGGgtgagaatagatgttggggactccatgatacactttctactaagctatca #### Ctsf_ID675_3 --> 0 - 1 Original Alignment CTCTGCAGTTTTGAAGTCCTGGAAGAGCTA-AAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACAg tagggtatatcacatctgtgaatcaatatatttctattttcttgttttagCTCTGTAGTTTTGAAGCCCTTGAAGCACTTCAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCTGTGA-TGCCCAGATCACTggtgagggattgctcaagtagatggacagaaagagataatacccaagtaag Alignment from CESAR CTCTGCAGTTTTGAAGTCCTGGAAGAGCTA-AAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACAg tagggtatatcacatctgtgaatcaatatatttctattttcttgttttagCTCTGTAGTTTTGAAGCCCTTGAAGCACTTCAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCTG-TGATGCCCAGATCACTggtgagggattgctcaagtagatggacagaaagagataatacccaagtaag Alignment from Spaln_aa2Genome CTCTGCAGTTTTGAAGTCCTGGAAGAGCTA-AAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACAGAG tagggtatatcacatctgtgaatcaatatatttctattttcttgttttagCTCTGTAGTTTTGAAGCCCTTGAAGCACTTcAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCTGTGATGCCCAGA---TCACTGgtgagggattgctcaagtagatggacagaaagagataatacccaagtaag Alignment from Spaln_nt2Genome CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAG-AACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACAG tagggtatatcacatctgtgaatcaatatatttctattttcttgttttagCTCTGTAGTTTTGAAGCCCTTGAAGCACTTCAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCTGTG-ATGCCCAGATCACTGgtgagggattgctcaagtagatggacagaaagagataatacccaagtaag Alignment from Pairagon CTCTGCAGTTTTGAAGTCCTGGAAG-AGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACAG tagggtatatcacatctgtgaatcaatatatttctattttcttgttttagCTCTGTAGTTTTGAAGCCCTTGAAGCACTTCAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCTGTG-ATGCCCAGATCACTGgtgagggattgctcaagtagatggacagaaagagataatacccaagtaag Alignment from Exonerate_protein2genome CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACAG tagggtatatcacatctgtgaatcaatatatttctattttcttgttttagCTCTGTAGTTTTGAAGCCCTTGAAGCACTTCAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCTGTGATGCCCAGATCACTGgtgagggattgctcaagtagatggacagaaagagataatacccaagtaag Alignment from Exonerate_coding2genome CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACAG tagggtatatcacatctgtgaatcaatatatttctattttcttgttttagCTCTGTAGTTTTGAAGCCCTTGAAGCACTTCAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCTGTGATGCCCAGATCACTGgtgagggattgctcaagtagatggacagaaagagataatacccaagtaag Alignment from GeneWise GTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCA tagggtatatcacatctgtgaatcaatatatttctattttcttgttttagctctgtagTTTTGAAGCCCTTGAAGCACTTCAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCTgtgatgcccagatcactggtgagggattgctcaagtagatggacagaaagagataatacccaagtaag #### Ctsf_ID680_8 --> 0 - 1 Original Alignment GGC---ATGTGTGGCTCCTGCTGG-GCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGg cctcagagaaccccattagggcactctgcttgaacctcttttcctttcagAGCAGTATGTGCAGTTCCTGCTGGCGCCTTCTCTGTCACTGGCAATGGGGAGGGCC-GTGG---TTGATCCGAGGAACTCTTCTTTCA---TCAGAACAGggtaagcatatgatccactctgaatatatcagacaaactcctccatagggt Alignment from CESAR GGC---ATGTGTGGCTCCTGCTGG-GCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGg cctcagagaaccccattagggcactctgcttgaacctcttttcctttcagAGCAGTATGTGCAGTTCCTGCTGGCGCCTTCTCTGTCACTGGCAATGGGGAGGGC-CGTGG---TTGATCCGAGGAACTCTTCTTTCA---TCAGAACAGggtaagcatatgatccactctgaatatatcagacaaactcctccatagggt Alignment from Spaln_aa2Genome AACCAGGGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cctcagagaaccccattagggcactctgcttgaacctcttttcctttcagAGC---AGTATGTGCAGTTCCTGCTGGCGCCTTCTCTGTCACTGGCAATGGGGAGGGCCGTGGTTGATC---CGAGGAACTCTTCTTTCA---TCAGAACAGGgtaagcatatgatccactctgaatatatcagacaaactcctccatagggt Alignment from Spaln_nt2Genome AACCAGGGCATGTGTGGCTCCTGCTGG-GCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cctcagagaaccccattagggcactctgcttgaacctcttttcctttcagAGC---AGTATGTGCAGTTCCTGCTGGCGCCTTCTCTGTCACTGGCAATGGGGAGGGCC-GTGGT---TGATCCGAGGAACTCTTCTTTC---ATCAGAACAGGgtaagcatatgatccactctgaatatatcagacaaactcctccatagggt Alignment from Pairagon GGC---ATGTGTGGCTCCTGCTGG-GCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cctcagagaaccccattagggcactctgcttgaacctcttttcctttcagAGCAGTATGTGCAGTTCCTGCTGGCGCCTTCTCTGTCACTGGCAATGGGGAGGGCC-GTGGT---TGATCCGAGGAACTCTTCTTTC---ATCAGAACAGGgtaagcatatgatccactctgaatatatcagacaaactcctccatagggt Alignment from Exonerate_protein2genome AACCAGGGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cctcagagaaccccattagggcactctgcttgaacctcttttcctttcagAGC---AGTATGTGCAGTTCCTGCTGGCGCCTTCTCTGTCACTGGCAATGGGGAGGGCCGTGGTTGATC---CGAGGAACTCTTCTTTCA---TCAGAACAGGgtaagcatatgatccactctgaatatatcagacaaactcctccatagggt Alignment from Exonerate_coding2genome cctcagagaaccccattagggcactctgcttgaacctcttttcctttcagagcagtatgtgcagttcctgctggcgccttctctgtcactggcaatggggagggccgtggttgatccgaggaactcttctttcatcagaacagggtaagcatatgatccactctgaatatatcagacaaactcctccatagggt Alignment from GeneWise ---GGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cctcagagaaccccattagggcactctgcttgaacctcttttcctttcagAGCAGTATGTGCAGTTCCTGCTGGCGCCTTCTCTGTCACTGGCAATGGGGAGGGCCGTGGTTGATC---CGAGGAACTCTTCTTTCA---TCAGAACAGGgtaagcatatgatccactctgaatatatcagacaaactcctccatagggt #### Ctsf_ID682_10 --> 2 - 1 Original Alignment gaGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGC-AACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATa gcttttgtagcagagcataaggttgtcatatttccctttgatttttttaggaGGTCTGGAGACAGAAGATGACTATGGCTATCAGGACCATGTTCAGACCTGTCAACTTCTCAGCACAGATGGCAAAAGTCTACA-CAACGATTCGGTGGAGCTGAGTCAAAATGAAAATagtgagtgagggctaccataagtgacttggggtaacacaactttcactatt Alignment from CESAR gaGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGC-AACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATa gcttttgtagcagagcataaggttgtcatatttccctttgatttttttaggaGGTCTGGAGACAGAAGATGACTATGGCTATCAGGACCATGTTCAGACCTGTCAACTTCTCAGCACAGATGGCAAAAGTCTAC-ACAACGATTCGGTGGAGCTGAGTCAAAATGAAAATagtgagtgagggctaccataagtgacttggggtaacacaactttcatccat Alignment from Spaln_aa2Genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA gcttttgtagcagagcataaggttgtcatatttccctttgatttttttagGAGGTCTGGAGACAGAAGATGACTATGGCTATCAGGACCATGTTCAGACCTGTCAACTTCTCAGCACAGATGGCAAAAGTCTACACAACGATTCGGTGGAGCTGAGTCAAAATGAAAATAgtgagtgagggctaccataagtgacttggggtaacacaactttcactatt Alignment from Spaln_nt2Genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTG-CAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA gcttttgtagcagagcataaggttgtcatatttccctttgatttttttagGAGGTCTGGAGACAGAAGATGACTATGGCTATCAGGACCATGTTCAGACCTGTCAACTTCTCAGCACAGATGGCAAAAGTCTACA-CAACGATTCGGTGGAGCTGAGTCAAAATGAAAATAgtgagtgagggctaccataagtgacttggggtaacacaactttcactatt Alignment from Pairagon GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTG-CAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA gcttttgtagcagagcataaggttgtcatatttccctttgatttttttagGAGGTCTGGAGACAGAAGATGACTATGGCTATCAGGACCATGTTCAGACCTGTCAACTTCTCAGCACAGATGGCAAAAGTCTACA-CAACGATTCGGTGGAGCTGAGTCAAAATGAAAATAgtgagtgagggctaccataagtgacttggggtaacacaactttcactatt Alignment from Exonerate_protein2genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA gcttttgtagcagagcataaggttgtcatatttccctttgatttttttagGAGGTCTGGAGACAGAAGATGACTATGGCTATCAGGACCATGTTCAGACCTGTCAACTTCTCAGCACAGATGGCAAAAGTCTACACAACGATTCGGTGGAGCTGAGTCAAAATGAAAATAgtgagtgagggctaccataagtgacttggggtaacacaactttcactatt Alignment from Exonerate_coding2genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA gcttttgtagcagagcataaggttgtcatatttccctttgatttttttagGAGGTCTGGAGACAGAAGATGACTATGGCTATCAGGACCATGTTCAGACCTGTCAACTTCTCAGCACAGATGGCAAAAGTCTACACAACGATTCGGTGGAGCTGAGTCAAAATGAAAATAgtgagtgagggctaccataagtgacttggggtaacacaactttcactatt Alignment from GeneWise GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA gcttttgtagcagagcataaggttgtcatatttccctttgatttttttagGAGGTCTGGAGACAGAAGATGACTATGGCTATCAGGACCATGTTCAGACCTGTCAACTTCTCAGCACAGATGGCAAAAGTCTACACAACGATTCGGTGGAGCTGAGTCAAAATGAAAATAgtgagtgagggctaccataagtgacttggggtaacacaactttcactatt #### Ctsf_ID684_12 --> 0 - 1 Original Alignment TTCTATCGCCACGGG-ATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACc agcaataatcttgttcctgcagctttcatcaaaccttcctttaattcaagTTCTACCACCATGGACATTGCCCATACATCCCAGCCCATCTGCAGCCCTTGGCTGATTG-TCATGCAGTGGTGCTTGTAGGCCATAGTAACcgtaaaatatgttatctgctccatgctatggtctgcagctcaacaacaatc Alignment from CESAR TTCTATCGCCACGGG-ATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACc agcaataatcttgttcctgcagctttcatcaaaccttcctttaattcaagTTCTACCACCATGGACATTGCCCATACATCCCAGCCCATCTGCAGCCCTTGGCTGATT-GTCATGCAGTGGTGCTTGTAGGCCATAGTAACcgtaaaatatgttatctgctccatgctatggtctgcagctcaacaacaatc Alignment from Spaln_aa2Genome TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGAC---CATGCTGTGTTGCTGGTGGGCTATGGCAACC agcaataatcttgttcctgcagctttcatcaaaccttcctttaattcaagTTCTACCACCATGGA---CATTGCCCATACATCCCAGCCCATCTGCAGCCCTTGGCTGATTGTCATGCAGTGGTGCTTGTAGGCCATAGTAACCgtaaaatatgttatctgctccatgctatggtctgcagctcaacaacaatc Alignment from Spaln_nt2Genome TTCTATCGCCACGGG-ATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACC agcaataatcttgttcctgcagctttcatcaaaccttcctttaattcaagTTCTACCACCATGGACATTGCCCATACATCCCAGCCCATCTGCAGCCCTTGGCTGATTGT-CATGCAGTGGTGCTTGTAGGCCATAGTAACCgtaaaatatgttatctgctccatgctatggtctgcagctcaacaacaatc Alignment from Pairagon TTCTATCGCCACGGG-ATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACC agcaataatcttgttcctgcagctttcatcaaaccttcctttaattcaagTTCTACCACCATGGACATTGCCCATACATCCCAGCCCATCTGCAGCCCTTGGCTGATTG-TCATGCAGTGGTGCTTGTAGGCCATAGTAACCgtaaaatatgttatctgctccatgctatggtctgcagctcaacaacaatc Alignment from Exonerate_protein2genome TTCTATCGCCACGGG-ATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATC--GACCATGCTGTGTTGCTGGTGGGCTATGGCAACC agcaataatcttgttcctgcagctttcatcaaaccttcctttaattcaagTTCTACCACCATGGACATTGCCCATACATCCCAGCCCATCTGCAGCCCTTGGCTGATTGT---CATGCAGTGGTGCTTGTAGGCCATAGTAACCgtaaaatatgttatctgctccatgctatggtctgcagctcaacaacaatc Alignment from Exonerate_coding2genome TTCTATCGCCACGGG-ATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATC--GACCATGCTGTGTTGCTGGTGGGCTATGGCAACC agcaataatcttgttcctgcagctttcatcaaaccttcctttaattcaagTTCTACCACCATGGACATTGCCCATACATCCCAGCCCATCTGCAGCCCTTGGCTGATTGT---CATGCAGTGGTGCTTGTAGGCCATAGTAACCgtaaaatatgttatctgctccatgctatggtctgcagctcaacaacaatc Alignment from GeneWise TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTC---TGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACC agcaataatcttgttcctgcagctttcatcaaaccttcctttaattcaagTTCTACCACCATGGACATTGC---CCATACATCCCAGCCCATCTGCAGCCCTTGGCTGATTGTCATGCAGTGGTGCTTGTAGGCCATAGTAACCgtaaaatatgttatctgctccatgctatggtctgcagctcaacaacaatc #### Ctsw_ID1019_7 --> 2 - 1 Original Alignment gtGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTAC-AAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGg agtgcacttgacatcaaagtttcttgcttttacacctttatgccctcaaggcGGTCTGGCCACTGAAAAGGAATTTCCATTTCAGAGGGAAAGAAAGCCTCACAGATGCCTGGCTAAAAAGTATCAAGGAAGTGGCATGGATCCCA------G-CACATTGTCTAATAATGAGCAGggtgagtccagggtaagatgaggtagctctgtgactgctcacgtgacctgt Alignment from CESAR gtGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTAC-AAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGg agtgcacttgacatcaaagtttcttgcttttacacctttatgccctcaaggcGGTCTGGCCACTGAAAAGGAATTTCCATTTCAGAGGGAAAGAAAGCCTCACAGATGCCTGGCTAAAAAGTATCAAGGAAGTGGCATGGATC-------CCAGCACATTGTCTAATAATGAGCAGggtgagtccagggtaagatgaggtagctctgtgactgctcacgtgacctgt Alignment from Spaln_aa2Genome GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG agtgcacttgacatcaaagtttcttgcttttacacctttatgccctcaagGCGGTCTGGCCACTGAAAAGGAATTTCCATTTCAGAGGGAAAGAAAGCCTCACAGATGCCTGGCTAAAAAGTATCAAGGAAGTGGC------ATGGATCCCAGCACATTGTCTAATAATGAGCAGGgtgagtccagggtaagatgaggtagctctgtgactgctcacgtgacctgt Alignment from Spaln_nt2Genome GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTA-CAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG agtgcacttgacatcaaagtttcttgcttttacacctttatgccctcaagGCGGTCTGGCCACTGAAAAGGAATTTCCATTTCAGAGGGAAAGAAAGCCTCACAGATGCCTGGCTAAAAAGTATCAAGGAAGTGGCATGGATCC-------CAGCACATTGTCTAATAATGAGCAGGgtgagtccagggtaagatgaggtagctctgtgactgctcacgtgacctgt Alignment from Pairagon GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTA-CAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG agtgcacttgacatcaaagtttcttgcttttacacctttatgccctcaagGCGGTCTGGCCACTGAAAAGGAATTTCCATTTCAGAGGGAAAGAAAGCCTCACAGATGCCTGGCTAAAAAGTATCAAGGAAGTGGCATGGATCC-------CAGCACATTGTCTAATAATGAGCAGGgtgagtccagggtaagatgaggtagctctgtgactgctcacgtgacctgt Alignment from Exonerate_protein2genome GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG agtgcacttgacatcaaagtttcttgcttttacacctttatgccctcaagGCGGTCTGGCCACTGAAAAGGAATTTCCATTTCAGAGGGAAAGAAAGCCTCACAGATGCCTGGCTAAAAAGTATCAAGGAAGTGGC------ATGGATCCCAGCACATTGTCTAATAATGAGCAGGgtgagtccagggtaagatgaggtagctctgtgactgctcacgtgacctgt Alignment from Exonerate_coding2genome GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG agtgcacttgacatcaaagtttcttgcttttacacctttatgccctcaagGCGGTCTGGCCACTGAAAAGGAATTTCCATTTCAGAGGGAAAGAAAGCCTCACAGATGCCTGGCTAAAAAGTATCAAGGAAGTGGC------ATGGATCCCAGCACATTGTCTAATAATGAGCAGGgtgagtccagggtaagatgaggtagctctgtgactgctcacgtgacctgt Alignment from GeneWise ----------------------------------------------------GGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG AGTGCACTTGACATCAAAGTTTCTTGCTTTTACACCTTTATGCCCTCAAGGCGGTCTGGCCACTGAAAAGGAATTTCCATTTCAGAGGGAAAGAAAGCCTCACAGATGCCTGGCTAAAAAGTATCAAGGAAGTGGC------ATGGATCCCAGCACATTGTCTAATAATGAGCAGGgtgagtccagggtaagatgaggtagctctgtgactgctcacgtgacctgt #### Ctsw_ID1021_5 --> 0 - 1 Original Alignment GGAAGCTGCAAA---------------------------TGCTGCTGGGCCATGGCAGCTGCCGACAACATC-CAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGg tggtttccatttatctaacccaaggacaacctcttcttttgttgtcacagAGAGGGTGCAACCATTTCCCTGGCCGATGGATCAGTGTGTGCTGTTGGGCAATGGCAGCTGCTGACAACATCCCAGTCTTTGTGGTGCATAAAGCACCAGAAGT-TGTGGATGTCTCAGTCCAGggttagtggggtttccatgtggttagctgtattctctctttgcataccagc Alignment from CESAR GGAAGCTGCAAA---------------------------TGCTGCTGGGCCATGGCAGCTGCCGACAACATC-CAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGg tggtttccatttatctaacccaaggacaacctcttcttttgttgtcacagAGAGGGTGCAACCATTTCCCTGGCCGATGGATCAGTGTGTGCTGTTGGGCAATGGCAGCTGCTGACAACATCCCAGTCTTTGTGGTGCATAAAGCACCAGAAG-TTGTGGATGTCTCAGTCCAGggttagtggggtttccatgtggttagctgtattctctctttgcataccagc Alignment from Spaln_aa2Genome -- -AAATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGG TGgtttccatttatctaacccaaggacaacctcttcttttgttgtcacagagagggtgcaaccatttccctggccgatggatcagTGTGTGCTGTTGGGCAATGGCAGCTGCTGACAACATCCCAGTCTTTGTGGTGCATAAAGCACCAGAAGTTGTGGATGTCTCAGTCCAGGgttagtggggtttccatgtggttagctgtattctctctttgcataccagc Alignment from Spaln_nt2Genome GGAAGCTGCAAATGCTGCTGGGCCATGGCAGCTGCCGACAACATCC-AGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGG tggtttccatttatctaacccaaggacaacctcttcttttgttgtcacagagagggtgcaaccatttccctggccgatggatcagTG----TG----TGCTGTTGGGCAATGGCAGCTGCTGACAACATCCCAGTCTTTGTGGTGCATAAAGCACCAGAAG-TTGTGGATGTCTCAGTCCAGGgttagtggggtttccatgtggttagctgtattctctctttgcataccagc Alignment from Pairagon GGAAGCTGCAA---------------------------ATGCTGCTGGGCCATGGCAGCTGCCGACAACAT-CCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGG tggtttccatttatctaacccaaggacaacctcttcttttgttgtcacagAGAGGGTGCAACCATTTCCCTGGCCGATGGATCAGTGTGTGCTGTTGGGCAATGGCAGCTGCTGACAACATCCCAGTCTTTGTGGTGCATAAAGCACCAGAAG-TTGTGGATGTCTCAGTCCAGGgttagtggggtttccatgtggttagctgtattctctctttgcataccagc Alignment from Exonerate_protein2genome GGAAGCTGCAAATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGG tggtttccatttatctaacccaaggacaacctcttcttttgttgtcacagagagggtgcaaccatttccctggccgaTGGATCAGTGTGTGCTGTTGGGCAATGGCAGCTGCTGACAACATCCCAGTCTTTGTGGTGCATAAAGCACCAGAAGTTGTGGATGTCTCAGTCCAGGgttagtggggtttccatgtggttagctgtattctctctttgcataccagc Alignment from Exonerate_coding2genome GGAAGCTG tggtttccatttatctaacccaaggacaacctcttcttttgttgtcacagagagggtgcaaccatttccctggccgatggatcagtgtgtgctgttgggcaatggcagctgctgacaacatcccagtctttgtggtgcataaagcaccagaagttgtggatgtctcagtccagggttagtggggtttccatgtggttagctgtattctctctttgcATACCAGC Alignment from GeneWise TG CAAATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGG TGgtttccatttatctaacccaaggacaacctcttcttttgttgtcacagagagggtgcaaccatttccctggccgatggatcagTGTGTGCTGTTGGGCAATGGCAGCTGCTGACAACATCCCAGTCTTTGTGGTGCATAAAGCACCAGAAGTTGTGGATGTCTCAGTCCAGGgttagtggggtttccatgtggttagctgtattctctctttgcataccagc #### Ctsw_ID1023_3 --> 2 - 1 Original Alignment agTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTG-GCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAg tctactggccattacctgactcaaaagatgccgctgctttgggcacacagagTACACTCATCATCTGAGCATCTTTGCCCACAACCTACGCTCAGGCTCAAAGGCTACAGCAGGAAGACTTGG-TACTGCTGAGCTTGGAGAGACACCCTTCAGTGACCTCAACagtaaaagggtttgtgtggcaagacctactatactgtcctcaggccctctt Alignment from CESAR agTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTG-GCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAg tctactggccattacctgactcaaaagatgccgctgctttgggcacacagagTACACTCATCATCTGAGCATCTTTGCCCACAACCTACGCTCAGGCTCAAAGGCTACAGCAGGAAGACT-TGGTACTGCTGAGCTTGGAGAGACACCCTTCAGTGACCTCAACagtaaaagggtttgtgtggcaagacctactatactgtcctcaggccctctt Alignment from Spaln_aa2Genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tctactggccattacctgactcaaaagatgccgctgctttgggcacacagAGTACACTCATCATCTGAGCATCTTTGCCCACAACCTACGCTCAGGCTCAAAGGCTACAGCAGGAAGACTTGGTACTGCTGAGCTTGGAGAGACACCCTTCAGTGACCTCAACAgtaaaagggtttgtgtggcaagacctactatactgtcctcaggccctctt Alignment from Spaln_nt2Genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTG-GCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tctactggccattacctgactcaaaagatgccgctgctttgggcacacagAGTACACTCATCATCTGAGCATCTTTGCCCACAACCTACGCTCAGGCTCAAAGGCTACAGCAGGAAGACTTGG-TACTGCTGAGCTTGGAGAGACACCCTTCAGTGACCTCAACAgtaaaagggtttgtgtggcaagacctactatactgtcctcaggccctctt Alignment from Pairagon AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTG-GCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tctactggccattacctgactcaaaagatgccgctgctttgggcacacagAGTACACTCATCATCTGAGCATCTTTGCCCACAACCTACGCTCAGGCTCAAAGGCTACAGCAGGAAGACTT-GGTACTGCTGAGCTTGGAGAGACACCCTTCAGTGACCTCAACAgtaaaagggtttgtgtggcaagacctactatactgtcctcaggccctctt Alignment from Exonerate_protein2genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tctactggccattacctgactcaaaagatgccgctgctttgggcacacagAGTACACTCATCATCTGAGCATCTTTGCCCACAACCTACGCTCAGGCTCAAAGGCTACAGCAGGAAGACTTGGTACTGCTGAGCTTGGAGAGACACCCTTCAGTGACCTCAACAgtaaaagggtttgtgtggcaagacctactatactgtcctcaggccctctt Alignment from Exonerate_coding2genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tctactggccattacctgactcaaaagatgccgctgctttgggcacacagAGTACACTCATCATCTGAGCATCTTTGCCCACAACCTACGCTCAGGCTCAAAGGCTACAGCAGGAAGACTTGGTACTGCTGAGCTTGGAGAGACACCCTTCAGTGACCTCAACAgtaaaagggtttgtgtggcaagacctactatactgtcctcaggccctctt Alignment from GeneWise AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tctactggccattacctgactcaaaagatgccgctgctttgggcacacagAGTACACTCATCATCTGAGCATCTTTGCCCACAACCTACGCTCAGGCTCAAAGGCTACAGCAGGAAGACTTGGTACTGCTGAGCTTGGAGAGACACCCTTCAGTGACCTCAACAgtaaaagggtttgtgtggcaagacctactatactgtcctcaggccctctt #### Cyp17a1_ID9993_7 --> 1 - 1 Original Alignment cATTGGAGAGTTT-GCCATCCCGAAGGACACACATGTGATCATCAATCTCTGGGCACTGCATCACGATAAAAATGAATGGGACCAGCCAGATCGGTTTATGCCTg cttaagacttttggctaaagtaactattgcaaatccccttccattcctagtATAGGAGAGTATCGCCATCCTGAAAGATACTCATGTAATCATCAACCTGTGGGCAC-GCATCATGACAAAAATGAA---TATCAGGCAGATCAGTTCATGCCTggtgagcccctctccactccatgctaacttctgtaccatgtagtttctcat Alignment from CESAR cATTGGAGAGTTT-GCCATCCCGAAGGACACACATGTGATCATCAATCTCTGGGCACTGCATCACGATAAAAATGAATGGGACCAGCCAGATCGGTTTATGCCTg cttaagacttttggctaaagtaactattgcaaatccccttccattcctagtATAGGAGAGTATCGCCATCCTGAAAGATACTCATGTAATCATCAACCTGTGGGCA-CGCATCATGACAAAAATGAATAT---CAGGCAGATCAGTTCATGCCTggtgagcccctctccactccatgctaacttctgtaccatgtagtttctcat Alignment from Spaln_aa2Genome GGAGAGTTTGCCATCCCGAAGGACACACATGTGATCATCAATCTCTGGGCACTGCATCACGATAAAAATGAATGGGACCAGCCAGATCGGTTTATGCCTG cttaagacttttggctaaagtaactattgcaaatccccttccattcctagtatagGAGAGTATCGCCATCCTGAAAGATACTCATGTAATCATCAACCTGTGGGCACG-CATCATGACAAAAATGAATAT---CAGGCAGATCAGTTCATGCCTGgtgagcccctctccactccatgctaacttctgtaccatgtagtttctcat Alignment from Spaln_nt2Genome CATTGGAGAGTTT-GCCATCCCGAAGGACACACATGTGATCATCAATCTCTGGGCACTGCATCACGATAAAAATGAATGGGACCAGCCAGATCGGTTTATGCCTG cttaagacttttggctaaagtaactattgcaaatccccttccattcctagTATAGGAGAGTATCGCCATCCTGAAAGATACTCATGTAATCATCAACCTGTGGGCAC-GCATCATGACAAAAATGAAT---ATCAGGCAGATCAGTTCATGCCTGgtgagcccctctccactccatgctaacttctgtaccatgtagtttctcat Alignment from Pairagon CATTGGAGAGT-TTGCCATCCCGAAGGACACACATGTGATCATCAATCTCTGGGCACTGCATCACGATAAAAATGAATGGGACCAGCCAGATCGGTTTATGCCTG cttaagacttttggctaaagtaactattgcaaatccccttccattcctagTATAGGAGAGTATCGCCATCCTGAAAGATACTCATGTAATCATCAACCTGTGGGCAC-GCATCATGACAAAAATGAAT---ATCAGGCAGATCAGTTCATGCCTGgtgagcccctctccactccatgctaacttctgtaccatgtagtttctcat Alignment from Exonerate_protein2genome CATTGGAGAGTTT-GCCATCCCGAAGGACACACATGTGATCATCAATCTCTGGGCA--CTGCATCACGATAAAAATGAATGGGACCAGCCAGATCGGTTTATGCCTG cttaagacttttggctaaagtaactattgcaaatccccttccattcctagTATAGGAGAGTATCGCCATCCTGAAAGATACTCATGTAATCATCAACCTGTGGGCACG---CATCATGACAAAAATGAATAT---CAGGCAGATCAGTTCATGCCTGgtgagcccctctccactccatgctaacttctgtaccatgtagtttctcat Alignment from Exonerate_coding2genome cttaagacttttggctaaagtaactattgcaaatccccttccattcctagtataggagagtatcgccatcctgaaagatactcatgtaatcatcaacctgtgggcacgcatcatgacaaaaatgaatatcaggcagatcagttcatgcctggtgagcccctctccactccatgctaacttctgtaccatgtagtttctcat Alignment from GeneWise GGAGAGTTTGCCATCCCGAAGGACACACATGTGATCATCAATCTCTGGGCACTGCATCACGATAAAAATGAATGGGACCAGCCAGATCGGTTTATGCCTG cttaagacttttggctaaagtaactattgcaaatccccttccattcctagtatagGAGAGTATCGCCATCCTGAAAGATACTCATGTAATCATCAACCTGTGGGCACG-CATCATGACAAAAATGAATAT---CAGGCAGATCAGTTCATGCCTGgtgagcccctctccactccatgctaacttctgtaccatgtagtttctcat #### Cyp17a1_ID9995_5 --> 0 - 0 Original Alignment GAGAAATTCAATAGTGAATCTCTCTCC-AGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG ttatctgaaatacaactgtattacaatctaccagtcttctgcttccccagGAGAAATTCAACAGTGAGTCCCTTTCCCAGCCTGACAGACATTCTTATACAGGCCAAAATGAATGCAGAAA-TAATAACACAGGAGAAGGTCAAGACCCAAGTGTGTTCTCTGATAAGCATGTCCTTGTCAGGGTTGGAGATATCTTG------GGTGTAGAAACAACTAGTTCCGTGCTGAATTGGCTACTCATGTTCTTAGTTCATAACCCTCAGgtagaaatgtgtcttaatgaccggaaaggccaagcctgtgaccatggtca Alignment from CESAR GAGAAATTCAATAGTGAATCTCTCTCC-AGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG ttatctgaaatacaactgtattacaatctaccagtcttctgcttccccagGAGAAATTCAACAGTGAGTCCCTTTCCCAGCCTGACAGACATTCTTATACAGGCCAAAATGAATGCAG-AAATAATAACACAGGAGAAGGTCAAGACCCAAGTGTGTTCTCTGATAAGCATGTCCTTGTCAGGGTTGGAGATATCTTG------GGTGTAGAAACAACTAGTTCCGTGCTGAATTGGCTACTCATGTTCTTAGTTCATAACCCTCAGgtagaaatgtgtcttaatgaccggaaaggccaagcctgtgaccatggtca Alignment from Spaln_aa2Genome GAGAAATTCAATAGTGAATCTCTCTCC-AGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG ttatctgaaatacaactgtattacaatctaccagtcttctgcttccccagGAGAAATTCAACAGTGAGTCCCTTTCCcAGCCTGACAGACATTCTTATACAGGCCAAAATGAATGCAGA-AATAATAACACAGGAGAAGGTCAAGACCCAAGTGTGTTCTCTGATAAGCATGTCCTTGTCAGGGTTGGAGATATCTTG------GGTGTAGAAACAACTAGTTCCGTGCTGAATTGGCTACTCATGTTCTTAGTTCATAACCCTCAGgtagaaatgtgtcttaatgaccggaaaggccaagcctgtgaccatggtca Alignment from Spaln_nt2Genome GAGAAATTCAATAGTGAATCTCTCTCC-AGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG ttatctgaaatacaactgtattacaatctaccagtcttctgcttccccagGAGAAATTCAACAGTGAGTCCCTTTCCCAGCCTGACAGACATTCTTATACAGGCCAAAATGAATGCAG-AAATAATAACACAGGAGAAGGTCAAGACCCAAGTGTGTTCTCTGATAAGCATGTCCTTGTCAGGGTTGGAGATATCTTGGGTG------TAGAAACAACTAGTTCCGTGCTGAATTGGCTACTCATGTTCTTAGTTCATAACCCTCAGgtagaaatgtgtcttaatgaccggaaaggccaagcctgtgaccatggtca Alignment from Pairagon GAGAAATTCAATAGTGAATCTCTCT-CCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG ttatctgaaatacaactgtattacaatctaccagtcttctgcttccccagGAGAAATTCAACAGTGAGTCCCTTTCCCAGCCTGACAGACATTCTTATACAGGCCAAAATGAATGCAG-AAATAATAACACAGGAGAAGGTCAAGACCCAAGTGTGTTCTCTGATAAGCATGTCCTTGTCAGGGTTGGAGATATCTTGGGTG------TAGAAACAACTAGTTCCGTGCTGAATTGGCTACTCATGTTCTTAGTTCATAACCCTCAGgtagaaatgtgtcttaatgaccggaaaggccaagcctgtgaccatggtca Alignment from Exonerate_protein2genome GAGAAATTCAATAGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG ttatctgaaatacaactgtattacaatctaccagtcttctgcttccccagGAGAAATTCAACAGTGAGTCCCTTTCCCAGCCTGACAGACATTCTTATACAGGCCAAAATGAATGCAGAAATAATAACACAGGAGAAGGTCAAGACCCAAGTGTGTTCTCTGATAAGCATGTCCTTGTCAGGGTTGGAGATATCTTG------GGTGTAGAAACAACTAGTTCCGTGCTGAATTGGCTACTCATGTTCTTAGTTCATAACCCTCAGgtagaaatgtgtcttaatgaccggaaaggccaagcctgtgaccatggtca Alignment from Exonerate_coding2genome GAGAAATTCAATAGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG ttatctgaaatacaactgtattacaatctaccagtcttctgcttccccagGAGAAATTCAACAGTGAGTCCCTTTCCCAGCCTGACAGACATTCTTATACAGGCCAAAATGAATGCAGAAATAATAACACAGGAGAAGGTCAAGACCCAAGTGTGTTCTCTGATAAGCATGTCCTTGTCAGGGTTGGAGATATCTTG------GGTGTAGAAACAACTAGTTCCGTGCTGAATTGGCTACTCATGTTCTTAGTTCATAACCCTCAGgtagaaatgtgtcttaatgaccggaaaggccaagcctgtgaccatggtca Alignment from GeneWise GAGAAATTCAATAGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG ttatctgaaatacaactgtattacaatctaccagtcttctgcttccccagGAGAAATTCAACAGTGAGTCCCTTTCCCAGCCTGACAGACATTCTTATACAGGCCAAAATGAATGCAGAAATAATAACACAGGAGAAGGTCAAGACCCAAGTGTGTTCTCTGATAAGCATGTCCTTGTCAGGGTTGGAGATATCTTG------GGTGTAGAAACAACTAGTTCCGTGCTGAATTGGCTACTCATGTTCTTAGTTCATAACCCTCAGgtagaaatgtgtcttaatgaccggaaaggccaagcctgtgaccatggtca #### Cyp17a1_ID9997_3 --> 2 - 0 Original Alignment taTGTCAGGAAGCCAACTCACTGTGTGACTTGATACTTACATACGACGGGGAG-TCCCGAGATCTGTCTACGCTCATCTTCAAGTCAGTAATCAATATCATCTGTACCATCTGCTTCAACATCTCTTTTGAGAACAAGGATCCGATACTGACTACCATACAGACCTTTACAGAGGGTATTGTGGATGTCCTGGGCCACAGC---------------------------GATCTGGTGGACATATTCCCGTGGTTGAAG cctcaagctactcctgtgctctattgacccttcatttttttttcttttagtaTGCCAAGAGGCCAACTCACTGTGTGACTTGATACTTTCTTATGACGGGGAGCTCCCAAGATCTATCTACACTCATTTTCAAGTCAGCGATTA-CATCATCTGTACCATATGTTTTAACATCTCTTTCGAGAACATGGATCCAATACTGACTATGAGA---------ATGGAATCCATTGTTGTGGTCTTGGGCCACAGTGATCTTGTTAAGAACACCCCATGGTTTGATCTGGTGGAGATAATCCCATGGTTAAAGgttagtgggaatttttatgaaagagtgactctgcttcccatcttggcacc Alignment from CESAR taTGTCAGGAAGCCAACTCACTGTGTGACTTGATACTTACATACGACGGGGAG-TCCCGAGATCTGTCTACGCTCATCTTCAAGTCAGTAATCAATATCATCTGTACCATCTGCTTCAACATCTCTTTTGAGAACAAGGATCCGATACTGACTACCATACAGACCTTTACAGAGGGTATTGTGGATGTCCTGGGCCACAGC---------------------------GATCTGGTGGACATATTCCCGTGGTTGAAG cctcaagctactcctgtgctctattgacccttcatttttttttcttttagtaTGCCAAGAGGCCAACTCACTGTGTGACTTGATACTTTCTTATGACGGGGAGCTCCCAAGATCTATCTACACTCATTTTCAAGTCAGCGATT-ACATCATCTGTACCATATGTTTTAACATCTCTTTCGAGAACATGGATCCAATACTGACTATGAGA---------ATGGAATCCATTGTTGTGGTCTTGGGCCACAGTGATCTTGTTAAGAACACCCCATGGTTTGATCTGGTGGAGATAATCCCATGGTTAAAGgttagtgggaatttttatgaaagagtgactctgcttcccatcttggcacc Alignment from Spaln_aa2Genome TATGTCAGGAAGCCAACTCACTGTGTGACTTGATACTTACATACGACGGGGAGTCCCGAGATCTGTCTACGCTCATCTTCAAGTCAGTAATCAATATCATCTGTACCATCTGCTTCAACATCTCTTTTGAGAACAAGGATCCGATACTGACTACCATACAGACCTTTACAGAGGGTATTGTGGATGTCCTGGGCCACAGCGATCTGGTGGACATATTCCCGTGGTTGAAG--- cctcaagctactcctgtgctctattgacccttcatttttttttcttttagTATGCCAAGAGGCCAACTCACTGTGTGACTTGATACTTTCTTATGACGGGGAGCTCCCAAGATCTATCTACACTCATTTTCAAGTCAGCGATTACATCATCTGTACCATATGTTTTAACATCTCTTTCGAGAACATGGATCCAATACTGACTATGAGA---------ATGGAATCCATTGTTGTGGTCTTGGGCCACAGTGATCTTGTTAAGAACACCCCATGGTTTGATCTGgtggagataatcccatggttaaaggttagtgggaatttttatgaaagagtgactctgcttcccatcttggcacc Alignment from Spaln_nt2Genome TATGTCAGGAAGCCAACTCACTGTGTGACTTGATACTTACATACGACGGGGAG-TCCCGAGATCTGTCTACGCTCATCTTCAAGTCAGTAATCAATATCATCTGTACCATCTGCTTCAACATCTCTTTTGAGAACAAGGATCCGATACTGACTACCATACAGACCTTTACAGAGG--GTATTGTG-------GATGTCCTGGGCCACAGC---------GATCTGGTGGACATATTCCCGTGGTTGAAG cctcaagctactcctgtgctctattgacccttcatttttttttcttttagTATGCCAAGAGGCCAACTCACTGTGTGACTTGATACTTTCTTATGACGGGGAGCTCCCAAGATCTATCTACACTCATTTTCAAGTCAGCGAT-TACATCATCTGTACCATATGTTTTAACATCTCTTTCGAGAACATGGATCCAATACTGACTATGAGAATGGAATCCATTGTTGTGGTCTTGGGCCACAGTGATCTTGTTAAGAACACCCCATGGTTTGATCTGGTGGAGATAATCCCATGGTTAAAGgttagtgggaatttttatgaaagagtgactctgcttcccatcttggcacc Alignment from Pairagon TATGTCAGGAAGCCAACTCACTGTGTGACTTGATACTTACATACGACGGGGAG-TCCCGAGATCTGTCTACGCTCATCTTCAAGTCAGTAATCAATATCATCTGTACCATCTGCTTCAACATCTCTTTTGAGAACAAGGATCCGATACTGACTA------------CCATACAGACCTTTACAGAGGGTATTGTGGATGTCCTGGGCCACAG---------------------------CGATCTGGTGGACATATTCCCGTGGTTGAAG cctcaagctactcctgtgctctattgacccttcatttttttttcttttagTATGCCAAGAGGCCAACTCACTGTGTGACTTGATACTTTCTTATGACGGGGAGCTCCCAAGATCTATCTACACTCATTTTCAAGTCAGCGATT-ACATCATCTGTACCATATGTTTTAACATCTCTTTCGAGAACATGGATCCAATACTGACTATGAGAATGGAATCC---------------------ATTGTTGTGGTCTTGGGCCACAGTGATCTTGTTAAGAACACCCCATGGTTTGATCTGGTGGAGATAATCCCATGGTTAAAGgttagtgggaatttttatgaaagagtgactctgcttcccatcttggcacc Alignment from Exonerate_protein2genome TATGTCAGGAAGCCAACTCACTGTGTGACTTGATACTTACATACGACGGGGAGTCCCGAGATCTGTCTACGCTCATCTTCAAGTCAGTAATCAATATCATCTGTACCATCTGCTTCAACATCTCTTTTGAGAACAAGGATCCGATACTGACTACCATACAGACCTTTACAGAGGGTATTGTGGATGTCCTGGGCCACAGCGATCTGGTGGACATATTCCCGTGGTTGAAG cctcaagctactcctgtgctctattgacccttcatttttttttcttttagTATGCCAAGAGGCCAACTCACTGTGTGACTTGATACTTTCTTATGACGGGGAGCTCCCAAGATCTATCTACACTCATTTTCAAGTCAGCGATTACATCATCTGTACCATATGTTTTAACATCTCTTTCGAGAACATGGATCCAATACTGACTATGAGAATG---------GAATCCATTGTTGTGGTCTTGGGCCACAGTGATCTTGTTAAGAACACCCCATGGTTTGATctggtggagataatcccatggttaaaggttagtgggaatttttatgaaagagtgactctgcttcccatcttggcacc Alignment from Exonerate_coding2genome TATGTCAGGAAGCCAACTCACTGTGTGACTTGATACTTACATACGACGGGGAGTCCCGAGATCTGTCTACGCTCATCTTCAAGTCAGTAATCAATATCATCTGTACCATCTGCTTCAACATCTCTTTTGAGAACAAGGATCCGATACTGACTACCATACAGACCTTTACAGAGGGTATTGTGGATGTCCTGGGCCACAGCGATCTGGTGGACATATTCCCGTGGTTGAAG cctcaagctactcctgtgctctattgacccttcatttttttttcttttagTATGCCAAGAGGCCAACTCACTGTGTGACTTGATACTTTCTTATGACGGGGAGCTCCCAAGATCTATCTACACTCATTTTCAAGTCAGCGATTACATCATCTGTACCATATGTTTTAACATCTCTTTCGAGAACATGGATCCAATACTGACTATGAGAATG---------GAATCCATTGTTGTGGTCTTGGGCCACAGTGATCTTGTTAAGAACACCCCATGGTTTGATctggtggagataatcccatggttaaaggttagtgggaatttttatgaaagagtgactctgcttcccatcttggcacc Alignment from GeneWise TATGTCAGGAAGCCAACTCACTGTGTGACTTGATACTTACATACGACGGGGAGTCCCGAGATCTGTCTACGCTCATCTTCAAGTCAGTAATCAATATCATCTGTACCATCTGCTTCAACATCTCTTTTGAGAACAAGGATCCGATACTGACTACCATACAGACCTTTACAGAGGGTATTGTGGATGTCCTGGGCCACAGCGATCTGGTGGACATATTCCCGTGGTTGAAGATT cctcaagctactcctgtgctctattgacccttcatttttttttcttttagTATGCCAAGAGGCCAACTCACTGTGTGACTTGATACTTTCTTATGACGGGGAGCTCCCAAGATCTATCTACACTCATTTTCAAGTCAGCGATTACATCATCTGTACCATATGTTTTAACATCTCTTTCGAGAACATGGATCCAATACTGACTATGAGAATG---------GAATCCATTGTTGTGGTCTTGGGCCACAGTGATCTTGTTAAGAACACCCCATGGTTTGATCTGgtggagataatcccatggttaaaggttagtgggaatttttatgaaagagtgactctgcttcccatcttggcacc #### Cyp26a1_ID7414_2 --> 0 - 0 Original Alignment CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATC-TTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG ccccctgcaaaccatggccacttccatggcccacttgctctcttatgcagCGCAGGAAGTTTCTTCAGATGGAGCACAGGAAGTATGGCTTCATCTACAAGACACATCTGTTTGGCTGGCCAACGGTGCGTGTGATGGGTACAGATAATGTTCGTCGTATTCTTGCTGGGGGAGCACCGGTTAGTGTCAG-TCACTGGCCTGCATCAGTACGCATCATCCTGGGTGCTGGCTGCCTTTCTAACCTGTATGATTCCTCACATAAGAAACAAAAGAAGgtgggtactggaaggccaattaaggtaatgactggaaggccaattccaca Alignment from CESAR CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATC-TTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG ccccctgcaaaccatggccacttccatggcccacttgctctcttatgcagCGCAGGAAGTTTCTTCAGATGGAGCACAGGAAGTATGGCTTCATCTACAAGACACATCTGTTTGGCTGGCCAACGGTGCGTGTGATGGGTACAGATAATGTTCGTCGTATTCTTGCTGGGGGAGCACCGGTTAGTGTCAG-TCACTGGCCTGCATCAGTACGCATCATCCTGGGTGCTGGCTGCCTTTCTAACCTGTATGATTCCTCACATAAGAAACAAAAGAAGgtgggtactggaaggccaattaaggtaatgactggaaggccaattccaca Alignment from Spaln_aa2Genome CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG ccccctgcaaaccatggccacttccatggcccacttgctctcttatgcagCGCAGGAAGTTTCTTCAGATGGAGCACAGGAAGTATGGCTTCATCTACAAGACACATCTGTTTGGCTGGCCAACGGTGCGTGTGATGGGTACAGATAATGTTCGTCGTATTCTTGCTGGGGGAGCACCGGTTAGTGTCAGTCACTGGCCTGCATCAGTACGCATCATCCTGGGTGCTGGCTGCCTTTCTAACCTGTATGATTCCTCACATAAGAAACAAAAGAAGgtgggtactggaaggccaattaaggtaatgactggaaggccaattccaca Alignment from Spaln_nt2Genome CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCAT-CTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG ccccctgcaaaccatggccacttccatggcccacttgctctcttatgcagCGCAGGAAGTTTCTTCAGATGGAGCACAGGAAGTATGGCTTCATCTACAAGACACATCTGTTTGGCTGGCCAACGGTGCGTGTGATGGGTACAGATAATGTTCGTCGTATTCTTGCTGGGGGAGCACCGGTTAGTGTCAGT-CACTGGCCTGCATCAGTACGCATCATCCTGGGTGCTGGCTGCCTTTCTAACCTGTATGATTCCTCACATAAGAAACAAAAGAAGgtgggtactggaaggccaattaaggtaatgactggaaggccaattccaca Alignment from Pairagon CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCA-TCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG ccccctgcaaaccatggccacttccatggcccacttgctctcttatgcagCGCAGGAAGTTTCTTCAGATGGAGCACAGGAAGTATGGCTTCATCTACAAGACACATCTGTTTGGCTGGCCAACGGTGCGTGTGATGGGTACAGATAATGTTCGTCGTATTCTTGCTGGGGGAGCACCGGTTAGTGTCAGT-CACTGGCCTGCATCAGTACGCATCATCCTGGGTGCTGGCTGCCTTTCTAACCTGTATGATTCCTCACATAAGAAACAAAAGAAGgtgggtactggaaggccaattaaggtaatgactggaaggccaattccaca Alignment from Exonerate_protein2genome CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG ccccctgcaaaccatggccacttccatggcccacttgctctcttatgcagCGCAGGAAGTTTCTTCAGATGGAGCACAGGAAGTATGGCTTCATCTACAAGACACATCTGTTTGGCTGGCCAACGGTGCGTGTGATGGGTACAGATAATGTTCGTCGTATTCTTGCTGGGGGAGCACCGGTTAGTGTCAGTCACTGGCCTGCATCAGTACGCATCATCCTGGGTGCTGGCTGCCTTTCTAACCTGTATGATTCCTCACATAAGAAACAAAAGAAGgtgggtactggaaggccaattaaggtaatgactggaaggccaattccaca Alignment from Exonerate_coding2genome CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG ccccctgcaaaccatggccacttccatggcccacttgctctcttatgcagCGCAGGAAGTTTCTTCAGATGGAGCACAGGAAGTATGGCTTCATCTACAAGACACATCTGTTTGGCTGGCCAACGGTGCGTGTGATGGGTACAGATAATGTTCGTCGTATTCTTGCTGGGGGAGCACCGGTTAGTGTCAGTCACTGGCCTGCATCAGTACGCATCATCCTGGGTGCTGGCTGCCTTTCTAACCTGTATGATTCCTCACATAAGAAACAAAAGAAGgtgggtactggaaggccaattaaggtaatgactggaaggccaattccaca Alignment from GeneWise CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG ccccctgcaaaccatggccacttccatggcccacttgctctcttatgcagCGCAGGAAGTTTCTTCAGATGGAGCACAGGAAGTATGGCTTCATCTACAAGACACATCTGTTTGGCTGGCCAACGGTGCGTGTGATGGGTACAGATAATGTTCGTCGTATTCTTGCTGGGGGAGCACCGGTTAGTGTCAGTCACTGGCCTGCATCAGTACGCATCATCCTGGGTGCTGGCTGCCTTTCTAACCTGTATGATTCCTCACATAAGAAACAAAAGAAGgtgggtactggaaggccaattaaggtaatgactggaaggccaattccaca #### Cyp26a1_ID7415_3 --> 0 - 0 Original Alignment GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAA-GTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACC tcgagcacaagtataggccgataaacacagccttcatcttctgcccacagGTCATAATGCATGCATTCAGCAGGGAAGCACTCCAGTGTTATGTCCCTGTTATTGCTGAGGAACGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTG-TGAACATGGTCTCCTTGCCTACCCTGAGGTGAAGCGCCTTATGTTC---ATTGCTATGCGAATCCTGCTAGGCTGTCAGCAAGGCTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCTTTTGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGTGGTCTGTACCGTgtatgacatctgtcctctttgttctccccagGGTGTT---TCTCGTAATA Alignment from CESAR GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAA-GTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACC tcgagcacaagtataggccgataaacacagccttcatcttctgcccacagGTCATAATGCATGCATTCAGCAGGGAAGCACTCCAGTGTTATGTCCCTGTTATTGCTGAGGAACGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGT-GTGAACATGGTCTCCTTGCCTACCCTGAGGTGAAGCGCCTTATGTTC---ATTGCTATGCGAATCCTGCTAGGCTGTCAGCAAGGCTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCTTTTGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGTGGTCTGTACCGTgtatgacatgacattcttctgctctgcccagGGTGTT---TCTCGTAATA Alignment from Spaln_aa2Genome GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACC tcgagcacaagtataggccgataaacacagccttcatcttctgcccacagGTCATAATGCATGCATTCAGCAGGGAAGCACTCCAGTGTTATGTCCCTGTTATTGCTGAGGAACGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGTGAACATGGTCTCCTTGCCTACCCTGAGGTGAAGCGCCTTATGTTC---ATTGCTATGCGAATCCTGCTAGGCTGTCAGCAAGGCTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCTTTTGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGTGGTCTGTACCGTgtatgacatctgtcctctttgttctccccagGGTGTT---TCTCGTAATA Alignment from Spaln_nt2Genome GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAA-GTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG-------------------------------GGCGTGAAGGCGCGGAACC tcgagcacaagtataggccgataaacacagccttcatcttctgcccacagGTCATAATGCATGCATTCAGCAGGGAAGCACTCCAGTGTTATGTCCCTGTTATTGCTGAGGAACGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTG-TGTGAACATGGTCTCCTTGCCTACCCTGAGGTGAAGCGCCTTATGTT---CATTGCTATGCGAATCCTGCTAGGCTGTCAGCAAGGCTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCTTTTGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGTGGTCTGTACCGTGTATGACATCTGTCCTCTTTGTTCTCCCCAGGGTGT---TTCTCGTAATA Alignment from Pairagon GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAA-GTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGGGGCGTGAAGGCGCGGAACCTT-------------------------------------------------A tcgagcacaagtataggccgataaacacagccttcatcttctgcccacagGTCATAATGCATGCATTCAGCAGGGAAGCACTCCAGTGTTATGTCCCTGTTATTGCTGAGGAACGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGT-GTGAACATGGTCTCCTTGCCTACCCTGAGGTGAAGCGCCTTATGTT---CATTGCTATGCGAATCCTGCTAGGCTGTCAGCAAGGCTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCTTTTGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGTGGTCTGTACCG---------------------TGTATGACATCTGTCCTCTTTGTTCTCCCCAGGGTGTTTCTCGTAATATAA Alignment from Exonerate_protein2genome GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACC tcgagcacaagtataggccgataaacacagccttcatcttctgcccacagGTCATAATGCATGCATTCAGCAGGGAAGCACTCCAGTGTTATGTCCCTGTTATTGCTGAGGAACGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGTGAACATGGTCTCCTTGCCTACCCTGAGGTGAAGCGCCTTATGTTC---ATTGCTATGCGAATCCTGCTAGGCTGTCAGCAAGGCTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCTTTTGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGTGGTCTGTACCGTgtatgacatctgtcctctttgttctccccagGGTGTT---TCTCGTAATA Alignment from Exonerate_coding2genome GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACC tcgagcacaagtataggccgataaacacagccttcatcttctgcccacagGTCATAATGCATGCATTCAGCAGGGAAGCACTCCAGTGTTATGTCCCTGTTATTGCTGAGGAACGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGTGAACATGGTCTCCTTGCCTACCCTGAGGTGAAGCGCCTTATGTTC---ATTGCTATGCGAATCCTGCTAGGCTGTCAGCAAGGCTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCTTTTGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGTGGTCTGTACCGTgtatgacatctgtcctctttgttctccccagGGTGTT---TCTCGTAATA Alignment from GeneWise GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACC tcgagcacaagtataggccgataaacacagccttcatcttctgcccacagGTCATAATGCATGCATTCAGCAGGGAAGCACTCCAGTGTTATGTCCCTGTTATTGCTGAGGAACGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGTGAACATGGTCTCCTTGCCTACCCTGAGGTGAAGCGCCTTATGTTC---ATTGCTATGCGAATCCTGCTAGGCTGTCAGCAAGGCTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCTTTTGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGTGGTCTGTACCGTgtatgacatctgtcctctttgttctccccagGGTGTT---TCTCGTAATA #### Cyp2c37_ID7840_3 --> 2 - 1 Original Alignment gcCTTGCATTTAGTAAAGGAAATGTA-TGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg gagcatagcatggaatctttttgctgcacctgtgatcttctctttgtcaggaCTTACATTCAGTAAAGGAAATGTACTGGAGAAACATGAAGCACTACTCAGTCATGCCATTGC-TAATTTAGGTATGAGGAAGAGGAGCATTAAGGGGCAGATTCAAGATGAAGCACATTGTCTTGTTGAGGAACTTAGGAAAACTAACtgtgagttaggtctatgggtaattctttacttattaaaagcgattgtcaca Alignment from CESAR gcCTTGCATTTAGTAAAGGAAATGTA-TGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg gagcatagcatggaatctttttgctgcacctgtgatcttctctttgtcaggaCTTACATTCAGTAAAGGAAATGTACTGGAGAAACATGAAGCACTACTCAGTCATGCCATTG-CTAATTTAGGTATGAGGAAGAGGAGCATTAAGGGGCAGATTCAAGATGAAGCACATTGTCTTGTTGAGGAACTTAGGAAAACTAACtgtgagttaggtctatgggtaattctttacttattaaaagcgattgtcaca Alignment from Spaln_aa2Genome GCCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG gagcatagcatggaatctttttgctgcacctgtgatcttctctttgtcagGACTTACATTCAGTAAAGGAAATGTACTGGAGAAACATGAAGCACTACTCAGTCATGCCATTGCTAATTTAGGTATGAGGAAGAGGAGCATTAAGGGGCAGATTCAAGATGAAGCACATTGTCTTGTTGAGGAACTTAGGAAAACTAACTgtgagttaggtctatgggtaattctttacttattaaaagcgattgtcaca Alignment from Spaln_nt2Genome GCCTTGCATTTAGTAAAGGAAATGTA-TGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG gagcatagcatggaatctttttgctgcacctgtgatcttctctttgtcagGACTTACATTCAGTAAAGGAAATGTACTGGAGAAACATGAAGCACTACTCAGTCATGCCATTGC-TAATTTAGGTATGAGGAAGAGGAGCATTAAGGGGCAGATTCAAGATGAAGCACATTGTCTTGTTGAGGAACTTAGGAAAACTAACTgtgagttaggtctatgggtaattctttacttattaaaagcgattgtcaca Alignment from Pairagon GCCTTGCATTTAGTAAAGGAAATGTA-TGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG gagcatagcatggaatctttttgctgcacctgtgatcttctctttgtcagGACTTACATTCAGTAAAGGAAATGTACTGGAGAAACATGAAGCACTACTCAGTCATGCCATTGC-TAATTTAGGTATGAGGAAGAGGAGCATTAAGGGGCAGATTCAAGATGAAGCACATTGTCTTGTTGAGGAACTTAGGAAAACTAACTgtgagttaggtctatgggtaattctttacttattaaaagcgattgtcaca Alignment from Exonerate_protein2genome GCCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG gagcatagcatggaatctttttgctgcacctgtgatcttctctttgtcagGACTTACATTCAGTAAAGGAAATGTACTGGAGAAACATGAAGCACTACTCAGTCATGCCATTGCTAATTTAGGTATGAGGAAGAGGAGCATTAAGGGGCAGATTCAAGATGAAGCACATTGTCTTGTTGAGGAACTTAGGAAAACTAACTgtgagttaggtctatgggtaattctttacttattaaaagcgattgtcaca Alignment from Exonerate_coding2genome GCCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG gagcatagcatggaatctttttgctgcacctgtgatcttctctttgtcagGACTTACATTCAGTAAAGGAAATGTACTGGAGAAACATGAAGCACTACTCAGTCATGCCATTGCTAATTTAGGTATGAGGAAGAGGAGCATTAAGGGGCAGATTCAAGATGAAGCACATTGTCTTGTTGAGGAACTTAGGAAAACTAACTgtgagttaggtctatgggtaattctttacttattaaaagcgattgtcaca Alignment from GeneWise GCCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG gagcatagcatggaatctttttgctgcacctgtgatcttctctttgtcagGACTTACATTCAGTAAAGGAAATGTACTGGAGAAACATGAAGCACTACTCAGTCATGCCATTGCTAATTTAGGTATGAGGAAGAGGAGCATTAAGGGGCAGATTCAAGATGAAGCACATTGTCTTGTTGAGGAACTTAGGAAAACTAACTgtgagttaggtctatgggtaattctttacttattaaaagcgattgtcaca #### Cyp2c50_ID7861_2 --> 0 - 1 Original Alignment TTATCAAAAGTTTAT---GGCCCTGTGTATACT-CTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg atatcgcatggcagtcaaatctttctagctctttttcatttttcccccagTTATCCAAAGTCTATGATGGTCCCGTGTATACTCCTATATTTAGGCAAGAAACCTACTGTAGTATTAC-GGGTTATGAGGCAGTGAGGGAATCATTAGTTGACCATGGGGAAGAATTTGCTGGGAGAGAAAGACTACCTGTTTTTGATAAAGCTACCAATGGAATGggtaaggataggtttgcaataccagtgaaggaaagtgtgagtgcattgcag Alignment from CESAR TTATCAAAAGTTTAT---GGCCCTGTGTATACT-CTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg atatcgcatggcagtcaaatctttctagctctttttcatttttcccccagTTATCCAAAGTCTATGATGGTCCCGTGTATACTCCTATATTTAGGCAAGAAACCTACTGTAGTATTA-CGGGTTATGAGGCAGTGAGGGAATCATTAGTTGACCATGGGGAAGAATTTGCTGGGAGAGAAAGACTACCTGTTTTTGATAAAGCTACCAATGGAATGggtaaggataggtttgcaataccagtgaaggaaagtgtgagtgcattgcag Alignment from Spaln_aa2Genome TTATCAAAAGTTTAT---GGCCCTGTGTATACT-CTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG atatcgcatggcagtcaaatctttctagctctttttcatttttcccccagTTATCCAAAGTCTATGATGGTCCCGTGTATACTcCTATATTTAGGCAAGAAACCTACTGTAGTATTACG-GGTTATGAGGCAGTGAGGGAATCATTAGTTGACCATGGGGAAGAATTTGCTGGGAGAGAAAGACTACCTGTTTTTGATAAAGCTACCAATGGAATGGgtaaggataggtttgcaataccagtgaaggaaagtgtgagtgcattgcag Alignment from Spaln_nt2Genome TTATCAAAAGTTTATG---GCCCTGTGTATACTC-TATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG atatcgcatggcagtcaaatctttctagctctttttcatttttcccccagTTATCCAAAGTCTATGATGGTCCCGTGTATACTCCTATATTTAGGCAAGAAACCTACTGTAGTATTAC-GGGTTATGAGGCAGTGAGGGAATCATTAGTTGACCATGGGGAAGAATTTGCTGGGAGAGAAAGACTACCTGTTTTTGATAAAGCTACCAATGGAATGGgtaaggataggtttgcaataccagtgaaggaaagtgtgagtgcattgcag Alignment from Pairagon TTATCAAAAGTTT---ATGGCCCTGTGTATACT-CTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG atatcgcatggcagtcaaatctttctagctctttttcatttttcccccagTTATCCAAAGTCTATGATGGTCCCGTGTATACTCCTATATTTAGGCAAGAAACCTACTGTAGTATTACG-GGTTATGAGGCAGTGAGGGAATCATTAGTTGACCATGGGGAAGAATTTGCTGGGAGAGAAAGACTACCTGTTTTTGATAAAGCTACCAATGGAATGGgtaaggataggtttgcaataccagtgaaggaaagtgtgagtgcattgcag Alignment from Exonerate_protein2genome TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG atatcgcatggcagtcaaatctttctagctctttttcatttttcccccagTTATCCAAAGTCTATGATGGTCCCGTGTATACTCCTATATTTAGGCAAGAAACCTACTGTAGTATTACGGGTTATGAGGCAGTGAGGGAATCATTAGTTGACCATGGGGAAGAATTTGCTGGGAGAGAAAGACTACCTGTTTTTGATAAAGCTACCAATGGAATGGgtaaggataggtttgcaataccagtgaaggaaagtgtgagtgcattgcag Alignment from Exonerate_coding2genome TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG atatcgcatggcagtcaaatctttctagctctttttcatttttcccccagTTATCCAAAGTCTATGATGGTCCCGTGTATACTCCTATATTTAGGCAAGAAACCTACTGTAGTATTACGGGTTATGAGGCAGTGAGGGAATCATTAGTTGACCATGGGGAAGAATTTGCTGGGAGAGAAAGACTACCTGTTTTTGATAAAGCTACCAATGGAATGGgtaaggataggtttgcaataccagtgaaggaaagtgtgagtgcattgcag Alignment from GeneWise TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG atatcgcatggcagtcaaatctttctagctctttttcatttttcccccagTTATCCAAAGTCTATGATGGTCCCGTGTATACTCCTATATTTAGGCAAGAAACCTACTGTAGTATTACGGGTTATGAGGCAGTGAGGGAATCATTAGTTGACCATGGGGAAGAATTTGCTGGGAGAGAAAGACTACCTGTTTTTGATAAAGCTACCAATGGAATGGgtaaggataggtttgcaataccagtgaaggaaagtgtgagtgcattgcag #### Cyp2c50_ID7862_3 --> 2 - 1 Original Alignment gcATTATATTTAGTAAAGGAAATGTATGGAAA-AACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg aggaaagtgtgagtgcattgcagctagcaattgaaattattattttttagggATTATATTCAGTAAGGGAAATGTATGGAAACAATATAAGACACTTCTCACTTACCACTCTGCGAAATT-AGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAGGAGGAAGCCCGTTGGCCTGTTGAGGAGCTTAGGAAGACCAATggtgaagcaaagtgcagacccagaacctagtgtgattttaatctagttttt Alignment from CESAR gcATTATATTTAGTAAAGGAAATGTATGGAAA-AACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg aggaaagtgtgagtgcattgcagctagcaattgaaattattattttttagggATTATATTCAGTAAGGGAAATGTATGGAAACAATATAAGACACTTCTCACTTACCACTCTGCGAA-ATTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAGGAGGAAGCCCGTTGGCCTGTTGAGGAGCTTAGGAAGACCAATggtgaagcaaagtgcagacccagaacctagtgtgattttaatctagttttt Alignment from Spaln_aa2Genome GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG aggaaagtgtgagtgcattgcagctagcaattgaaattattattttttagGGATTATATTCAGTAAGGGAAATGTATGGAAACAATATAAGACACTTCTCACTTACCACTCTGCGAAATTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAGGAGGAAGCCCGTTGGCCTGTTGAGGAGCTTAGGAAGACCAATGgtgaagcaaagtgcagacccagaacctagtgtgattttaatctagttttt Alignment from Spaln_nt2Genome GCATTATATTTAGTAAAGGAAATGTATGGAAA-AACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG aggaaagtgtgagtgcattgcagctagcaattgaaattattattttttagGGATTATATTCAGTAAGGGAAATGTATGGAAACAATATAAGACACTTCTCACTTACCACTCTGC-GAAATTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAGGAGGAAGCCCGTTGGCCTGTTGAGGAGCTTAGGAAGACCAATGgtgaagcaaagtgcagacccagaacctagtgtgattttaatctagttttt Alignment from Pairagon GCATTATATTTAGTAAAGGAAATGTATGGAAA-AACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG aggaaagtgtgagtgcattgcagctagcaattgaaattattattttttagGGATTATATTCAGTAAGGGAAATGTATGGAAACAATATAAGACACTTCTCACTTACCACTCTGCGAAA-TTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAGGAGGAAGCCCGTTGGCCTGTTGAGGAGCTTAGGAAGACCAATGgtgaagcaaagtgcagacccagaacctagtgtgattttaatctagttttt Alignment from Exonerate_protein2genome GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG aggaaagtgtgagtgcattgcagctagcaattgaaattattattttttagGGATTATATTCAGTAAGGGAAATGTATGGAAACAATATAAGACACTTCTCACTTACCACTCTGCGAAATTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAGGAGGAAGCCCGTTGGCCTGTTGAGGAGCTTAGGAAGACCAATGgtgaagcaaagtgcagacccagaacctagtgtgattttaatctagttttt Alignment from Exonerate_coding2genome GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG aggaaagtgtgagtgcattgcagctagcaattgaaattattattttttagGGATTATATTCAGTAAGGGAAATGTATGGAAACAATATAAGACACTTCTCACTTACCACTCTGCGAAATTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAGGAGGAAGCCCGTTGGCCTGTTGAGGAGCTTAGGAAGACCAATGgtgaagcaaagtgcagacccagaacctagtgtgattttaatctagttttt Alignment from GeneWise GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG aggaaagtgtgagtgcattgcagctagcaattgaaattattattttttagGGATTATATTCAGTAAGGGAAATGTATGGAAACAATATAAGACACTTCTCACTTACCACTCTGCGAAATTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAGGAGGAAGCCCGTTGGCCTGTTGAGGAGCTTAGGAAGACCAATGgtgaagcaaagtgcagacccagaacctagtgtgattttaatctagttttt #### Cyp2c54_ID7855_3 --> 2 - 1 Original Alignment gcATTGGATTTAGTAAT-GGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg ctgctgtagcaccaaggttgttcaagtattatgttattaaaatttcacaggcATTGGATTTAGCAATCGGAACCGTATGGAAGAACACCAGGCACTTCTCACTCA-GACATTGTGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGAGTAATggtaactgaaacaagagggaggtagccaactgggtctcacaaattctgttt Alignment from CESAR gcATTGGATTTAGTAAT-GGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg ctgctgtagcaccaaggttgttcaagtattatgttattaaaatttcacaggcATTGGATTTAGCAATCGGAACCGTATGGAAGAACACCAGGCACTTCTCACTC-AGACATTGTGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGAGTAATggtaactgaaacaagagggaggtagccaactgggtctcacaaattctgttt Alignment from Spaln_aa2Genome GTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgtagcaccaaggttgttcaagtattatgttattaaaatttcacaggcattggatttagCAATCGGAACCGTATGGAAGAACACCAGGCACTTCTCACTCAG-ACATTGTGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGAGTAATGgtaactgaaacaagagggaggtagccaactgggtctcacaaattctgttt Alignment from Spaln_nt2Genome GCATTGGATTTAGTAAT-GGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgtagcaccaaggttgttcaagtattatgttattaaaatttcacagGCATTGGATTTAGCAATCGGAACCGTATGGAAGAACACCAGGCACTTCTCACTCA-GACATTGTGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGAGTAATGgtaactgaaacaagagggaggtagccaactgggtctcacaaattctgttt Alignment from Pairagon GCATTGGATTTAGTAAT-GGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgtagcaccaaggttgttcaagtattatgttattaaaatttcacagGCATTGGATTTAGCAATCGGAACCGTATGGAAGAACACCAGGCACTTCTCACTCA-GACATTGTGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGAGTAATGgtaactgaaacaagagggaggtagccaactgggtctcacaaattctgttt Alignment from Exonerate_protein2genome GCATTGGATTTAGTAAT-GGAAGTGTATGGAAAAACACGAGGCACTTCTCACTC--ATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgtagcaccaaggttgttcaagtattatgttattaaaatttcacagGCATTGGATTTAGCAATCGGAACCGTATGGAAGAACACCAGGCACTTCTCACTCAG---ACATTGTGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGAGTAATGgtaactgaaacaagagggaggtagccaactgggtctcacaaattctgttt Alignment from Exonerate_coding2genome GCATTGGATTTAGTAAT-GGAAGTGTATGGAAAAACACGAGGCACTTCTCACTC--ATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgtagcaccaaggttgttcaagtattatgttattaaaatttcacagGCATTGGATTTAGCAATCGGAACCGTATGGAAGAACACCAGGCACTTCTCACTCAG---ACATTGTGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGAGTAATGgtaactgaaacaagagggaggtagccaactgggtctcacaaattctgttt Alignment from GeneWise GTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgtagcaccaaggttgttcaagtattatgttattaaaatttcacaggcattggatttagCAATCGGAACCGTATGGAAGAACACCAGGCACTTCTCACTCAG-ACATTGTGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGAGTAATGgtaactgaaacaagagggaggtagccaactgggtctcacaaattctgttt #### Cyp2c54_ID7856_2 --> 0 - 1 Original Alignment TTATCAAGAGTTTATGGT-CCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg tgagaatcaggatgggtgacttcatatttttctttttcccccctccctagTTATCACGAGTTTATGGCCCCACTTTATACTTTATATCTGGGGAGGAAGCCAACTGTTGTTT-ACATGGATATGAGGCTGTGAAGGAGGAAGTTCTTGCTGACCAAGGGGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGATAAAGCTACCAATGGAATGggtaatatctggggtgtgtagtatgcatggttgcaatacagtgatatccaa Alignment from CESAR TTATCAAGAGTTTATGGT-CCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg tgagaatcaggatgggtgacttcatatttttctttttcccccctccctagTTATCACGAGTTTATGGCCCCACTTTATACTTTATATCTGGGGAGGAAGCCAACTGTTG-TTTACATGGATATGAGGCTGTGAAGGAGGAAGTTCTTGCTGACCAAGGGGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGATAAAGCTACCAATGGAATGggtaatatctggggtgtgtagtatgcatggttgcaatacagtgatatccaa Alignment from Spaln_aa2Genome TTATCAAGAGTTTATGGT-CCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG tgagaatcaggatgggtgacttcatatttttctttttcccccctccctagTTATCACGAGTTTATGGCcCCACTTTATACTTTATATCTGGGGAGGAAGCCAACTGTTGT-TTACATGGATATGAGGCTGTGAAGGAGGAAGTTCTTGCTGACCAAGGGGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGATAAAGCTACCAATGGAATGGgtaatatctggggtgtgtagtatgcatggttgcaatacagtgatatccaa Alignment from Spaln_nt2Genome TTATCAAGAGTTTATGGTCCTG-TGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGA---AGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG tgagaatcaggatgggtgacttcatatttttctttttcccccctccctagTTATCACGAGTTTATGGCCCCACTTTATACTTTATATCTGGGGAGGAAGCCAACTGTTGT-TTACATGGATATGAGGCTGTGAAGGAGGAAGTTCTTGCTGACCAAGGGGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGATAAAGCTACCAATGGAATGGgtaatatctggggtgtgtagtatgcatggttgcaatacagtgatatccaa Alignment from Pairagon TTATCAAGAGTTTATGGTCCTG-TGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGA---AGGAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG tgagaatcaggatgggtgacttcatatttttctttttcccccctccctagTTATCACGAGTTTATGGCCCCACTTTATACTTTATATCTGGGGAGGAAGCCAACTGTTGT-TTACATGGATATGAGGCTGTGAAGGAGGAAGTTCTTGCTGACCAAGGGGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGATAAAGCTACCAATGGAATGGgtaatatctggggtgtgtagtatgcatggttgcaatacagtgatatccaa Alignment from Exonerate_protein2genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG tgagaatcaggatgggtgacttcatatttttctttttcccccctccctagTTATCACGAGTTTATGGCCCCACTTTATACTTTATATCTGGGGAGGAAGCCAACTGTTGTTTACATGGATATGAGGCTGTGAAGGAGGAAGTTCTTGCTGACCAAGGGGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGATAAAGCTACCAATGGAATGGgtaatatctggggtgtgtagtatgcatggttgcaatacagtgatatccaa Alignment from Exonerate_coding2genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG tgagaatcaggatgggtgacttcatatttttctttttcccccctccctagTTATCACGAGTTTATGGCCCCACTTTATACTTTATATCTGGGGAGGAAGCCAACTGTTGTTTACATGGATATGAGGCTGTGAAGGAGGAAGTTCTTGCTGACCAAGGGGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGATAAAGCTACCAATGGAATGGgtaatatctggggtgtgtagtatgcatggttgcaatacagtgatatccaa Alignment from GeneWise TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAA---GCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG tgagaatcaggatgggtgacttcatatttttctttttcccccctccctagTTATCACGAGTTTATGGCCCCACTTTATACTTTATATCTGGGGAGGAAGCCAACTGTTGTTTACATGGATATGAGGCTGTGAAGGAGGAAGTTCTTGCTGACCAAGGGGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGATAAAGCTACCAATGGAATGGgtaatatctggggtgtgtagtatgcatggttgcaatacagtgatatccaa #### D19Ertd737e_ID13192_2 --> 0 - 1 Original Alignment AAATTTCAAGAATTGCATAAAAAAAATTCT-GAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAg atgcccatctcctgcctacatgtacacattaaatattctattccatttagAAGTTTCAAGAATTGCATAAAAAAAACTCACGAACAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAA-GAGGTCAAAAAAGggtagtagtagcttagggatgtgggcttacatctaagttaattaggccatt Alignment from CESAR AAATTTCAAGAATTGCATAAAAAAAATTCT-GAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAg atgcccatctcctgcctacatgtacacattaaatattctattccatttagAAGTTTCAAGAATTGCATAAAAAAAACTCACGAACAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAA-GAAGAGGTCAAAAAAGggtagtagtagcttagggatgtgggcttacatctaagttaattaggccatt Alignment from Spaln_aa2Genome AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG atgcccatctcctgcctacatgtacacattaaatattctattccatttagAAGTTTCAAGAATTGCATAAAAAAAACTCACGAACAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAGAGGTCAAAAAAGGgtagtagtagcttagggatgtgggcttacatctaagttaattaggccatt Alignment from Spaln_nt2Genome AAATTTCAAGAATTGCATAAAAAAAATTCT-GAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG atgcccatctcctgcctacatgtacacattaaatattctattccatttagAAGTTTCAAGAATTGCATAAAAAAAACTCACGAACAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAGA-GGTCAAAAAAGGgtagtagtagcttagggatgtgggcttacatctaagttaattaggccatt Alignment from Pairagon AAATTTCAAGAATTGCATAAAAAAAATTC-TGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG atgcccatctcctgcctacatgtacacattaaatattctattccatttagAAGTTTCAAGAATTGCATAAAAAAAACTCACGAACAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAGA-GGTCAAAAAAGGgtagtagtagcttagggatgtgggcttacatctaagttaattaggccatt Alignment from Exonerate_protein2genome AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG atgcccatctcctgcctacatgtacacattaaatattctattccatttagAAGTTTCAAGAATTGCATAAAAAAAACTCACGAACAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAGAGGTCAAAAAAGGgtagtagtagcttagggatgtgggcttacatctaagttaattaggccatt Alignment from Exonerate_coding2genome AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAGGCAAATTGAAGAATGAAAAGGAATCTCACAG atgcccatctcctgcctacatgtacacattaaatattctattccatttagAAGTTTCAAGAATTGCATAAAAAAAACTCACGAACAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAGAGGTCAAAAAAGGGTAGTAGTAGCTTAGGGATGTGGGCTTACATctaagttaattaggccatt Alignment from GeneWise AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAGGCAAAT atgcccatctcctgcctacatgtacacattaaatattctattccatttagAAGTTTCAAGAATTGCATAAAAAAAACTCACGAACAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAGAGGTCAAAAAAGGGTAGTAgtagcttagggatgtgggcttacatctaagttaattaggccatt #### Dagla_ID2755_15 --> 1 - 0 Original Alignment gATTGGCCTTTCC-CAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA gaacaaagatgttggcaaagaaggaaacagcgttgtcttacccacactaggGTTGGCCTTTCCCCAACTAGAAGGATTCTGCCGGCAGCTTTTAGATG-CTTGCAACGAAGTACTAAACCCAAGgtgagtactgttcagagctacagcaccaaaaaagccctgtgactctcatg Alignment from CESAR gATTGGCCTTTCC-CAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA gaacaaagatgttggcaaagaaggaaacagcgttgtcttacccacactaggGTTGGCCTTTCCCCAACTAGAAGGATTCTGCCGGCAGCTTTTAGAT-GCTTGCAACGAAGTACTAAACCCAAGgtgagtactgttcagagctacagcaccaaaaaagccctgtgactctcatg Alignment from Spaln_aa2Genome GATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA gaacaaagatgttggcaaagaaggaaacagcgttgtcttacccacactagGGTTGGCCTTTCCCCAACTAGAAGGATTCTGCCGGCAGCTTTTAGATGCTTGCAACGAAGTACTAAACCCAAGgtgagtactgttcagagctacagcaccaaaaaagccctgtgactctcatg Alignment from Spaln_nt2Genome GATTGGCCTTTCCC-AGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA gaacaaagatgttggcaaagaaggaaacagcgttgtcttacccacactagGGTTGGCCTTTCCCCAACTAGAAGGATTCTGCCGGCAGCTTTTAGATG-CTTGCAACGAAGTACTAAACCCAAGgtgagtactgttcagagctacagcaccaaaaaagccctgtgactctcatg Alignment from Pairagon GATTGGCCTTT-CCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA gaacaaagatgttggcaaagaaggaaacagcgttgtcttacccacactagGGTTGGCCTTTCCCCAACTAGAAGGATTCTGCCGGCAGCTTTTAGATG-CTTGCAACGAAGTACTAAACCCAAGgtgagtactgttcagagctacagcaccaaaaaagccctgtgactctcatg Alignment from Exonerate_protein2genome GATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA gaacaaagatgttggcaaagaaggaaacagcgttgtcttacccacactagGGTTGGCCTTTCCCCAACTAGAAGGATTCTGCCGGCAGCTTTTAGATGCTTGCAACGAAGTACTAAACCCAAGgtgagtactgttcagagctacagcaccaaaaaagccctgtgactctcatg Alignment from Exonerate_coding2genome gaacaaagatgttggcaaagaaggaaacagcgttgtcttacccacactagggttggcctttccccaactagaaggattctgccggcagcttttagatgcttgcaacgaagtactaaacccaaggtgagtactgttcagagctacagcaccaaaaaagccctgtgactctcatg Alignment from GeneWise GATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA gaacaaagatgttggcaaagaaggaaacagcgttgtcttacccacactagGGTTGGCCTTTCCCCAACTAGAAGGATTCTGCCGGCAGCTTTTAGATGCTTGCAACGAAGTACTAAACCCAAGgtgagtactgttcagagctacagcaccaaaaaagccctgtgactctcatg #### Dagla_ID2759_11 --> 0 - 0 Original Alignment GATGCCCTGACTGACCTGACAGGC-GATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG ttacactctacttttgttacactaccactatgtgattatttccattttagGATGCCTTAACTGATTTGACAGGTCGATGCAGAGCACCTTCCTGCAGAGACACACAGAG-TGCCTGGTTGGGGCATAAAgtaggtggttaactgatgttccagcgtctcacaattgctctgatgttgaa Alignment from CESAR GATGCCCTGACTGACCTGACAGGC-GATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG ttacactctacttttgttacactaccactatgtgattatttccattttagGATGCCTTAACTGATTTGACAGGTCGATGCAGAGCACCTTCCTGCAGAGACACACA-GAGTGCCTGGTTGGGGCATAAAgtaggtggttaactgatgttccagcgtctcacaattgctctgatgttgaa Alignment from Spaln_aa2Genome GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG ttacactctacttttgttacactaccactatgtgattatttccattttagGATGCCTTAACTGATTTGACAGGTCGATGCAGAGCACCTTCCTGCAGAGACACACAGAGTGCCTGGTTGGGGCATAAAgtaggtggttaactgatgttccagcgtctcacaattgctctgatgttgaa Alignment from Spaln_nt2Genome GATGCCCTGACTGACCTGACAGG-CGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG ttacactctacttttgttacactaccactatgtgattatttccattttagGATGCCTTAACTGATTTGACAGGTCGATGCAGAGCACCTTCCTGCAGAGACACACAGA-GTGCCTGGTTGGGGCATAAAgtaggtggttaactgatgttccagcgtctcacaattgctctgatgttgaa Alignment from Pairagon GATGCCCTGACTGACCTGACAGG-CGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG ttacactctacttttgttacactaccactatgtgattatttccattttagGATGCCTTAACTGATTTGACAGGTCGATGCAGAGCACCTTCCTGCAGAGACACACAGA-GTGCCTGGTTGGGGCATAAAgtaggtggttaactgatgttccagcgtctcacaattgctctgatgttgaa Alignment from Exonerate_protein2genome GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG ttacactctacttttgttacactaccactatgtgattatttccattttagGATGCCTTAACTGATTTGACAGGTCGATGCAGAGCACCTTCCTGCAGAGACACACAGAGTGCCTGGTTGGGGCATAAAgtaggtggttaactgatgttccagcgtctcacaattgctctgatgttgaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG ttacactctacttttgttacactaccactatgtgattatttccattttagGATGCCTTAACTGATTTGACAGGTCGATGCAGAGCACCTTCCTGCAGAGACACACAGAGTGCCTGGTTGGGGCATAAAgtaggtggttaactgatgttccagcgtctcacaattgctctgatgttgaa #### Dak_ID2899_14 --> 0 - 2 Original Alignment CTCTATGGCCTGTTC-CTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGaa ccttactacagctagtgccaattaattcaacaccaccccatgtgctccagCTATATGGATTGTTCCCTCACTGCTTCAGCCCAACCTCTG------A-AACTGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTAGACTCCATGCAGaagtgagtcagtgtctttacctcccagcaaaaagtgaggttgtgccatatgc Alignment from CESAR CTCTATGGCCTGTTC-CTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGaa ccttactacagctagtgccaattaattcaacaccaccccatgtgctccagCTATATGGATTGTTCCCTCACTGCTTCAGCCCAACCTCTG------A-AACTGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTAGACTCCATGCAGaagtgagtcagtgtctttacctcccagcaaaaagtgaggttgtgccatatgc Alignment from Spaln_aa2Genome CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGAA ccttactacagctagtgccaattaattcaacaccaccccatgtgctccagCTATATGGATTGTTCCCTCACTGCTTCAGCCCAACC------TCTGAAACTGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTAGACTCCATGCAGAAgtgagtcagtgtctttacctcccagcaaaaagtgaggttgtgccatatgc Alignment from Spaln_nt2Genome CTCTATGGCCTGTTCC-TGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGAA ccttactacagctagtgccaattaattcaacaccaccccatgtgctccagCTATATGGATTGTTCCCTCACTGCTTCAGCCCAACCTCTGAA-------ACTGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTAGACTCCATGCAGAAgtgagtcagtgtctttacctcccagcaaaaagtgaggttgtgccatatgc Alignment from Pairagon CTCTATGGCCTGTT-CCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGAA ccttactacagctagtgccaattaattcaacaccaccccatgtgctccagCTATATGGATTGTTCCCTCACTGCTTCAGCCCAACCTCTGAA-------ACTGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTAGACTCCATGCAGAAgtgagtcagtgtctttacctcccagcaaaaagtgaggttgtgccatatgc Alignment from Exonerate_protein2genome CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGAA ccttactacagctagtgccaattaattcaacaccaccccatgtgctccagCTATATGGATTGTTCCCTCACTGCTTCAGCCCA------ACCTCTGAAACTGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTAGACTCCATGCAGAAgtgagtcagtgtctttacctcccagcaaaaagtgaggttgtgccatatgc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGAA ccttactacagctagtgccaattaattcaacaccaccccatgtgctccagCTATATGGATTGTTCCCTCACTGCTTCAGCCCAACC------TCTGAAACTGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTAGACTCCATGCAGAAgtgagtcagtgtctttacctcccagcaaaaagtgaggttgtgccatatgc #### Dak_ID2900_13 --> 2 - 0 Original Alignment ccATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGC-CCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtagttcagatagccttgcctttcattccttagccATCCAGGGGTGGTTGAAGGAGGGCCCATCACTGACCAGCCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGC-GCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaacagaacagttcttaggaccattgtagaaagccttactacagctag Alignment from CESAR ccATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGC-CCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtagttcagatagccttgcctttcattccttagccATCCAGGGGTGGTTGAAGGAGGGCCCATCACTGACCAGCCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTG-CGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaacagaacagttcttaggaccattgtagaaagccttactacagctag Alignment from Spaln_aa2Genome CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtagttcagatagccttgcctttcattccttagCCATCCAGGGGTGGTTGAAGGAGGGCCCATCACTGACCAGCCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaacagaacagttcttaggaccattgtagaaagccttactacagctag Alignment from Spaln_nt2Genome CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTG-CCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtagttcagatagccttgcctttcattccttagCCATCCAGGGGTGGTTGAAGGAGGGCCCATCACTGACCAGCCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGC-GCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaacagaacagttcttaggaccattgtagaaagccttactacagctag Alignment from Pairagon CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCT-GCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtagttcagatagccttgcctttcattccttagCCATCCAGGGGTGGTTGAAGGAGGGCCCATCACTGACCAGCCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGC-GCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaacagaacagttcttaggaccattgtagaaagccttactacagctag Alignment from Exonerate_protein2genome CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtagttcagatagccttgcctttcattccttagCCATCCAGGGGTGGTTGAAGGAGGGCCCATCACTGACCAGCCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaacagaacagttcttaggaccattgtagaaagccttactacagctag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtagttcagatagccttgcctttcattccttagCCATCCAGGGGTGGTTGAAGGAGGGCCCATCACTGACCAGCCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaacagaacagttcttaggaccattgtagaaagccttactacagctag #### Dak_ID2904_9 --> 2 - 1 Original Alignment gcTCTTCAGTGGTGCTGATAGTCAACAAT-CTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGg gtttgtccaagcgtgctccaagcgtgctttttttcctgctgtttttacaggtTCTTCAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCCGGGAACTGGGTATCA-AGCTGATGCTGCCATACGTTTGCTTggtacgtacacttcatcaggcatccatgtggagaccctttaatgcctatgc Alignment from CESAR gcTCTTCAGTGGTGCTGATAGTCAACAAT-CTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGg gtttgtccaagcgtgctccaagcgtgctttttttcctgctgtttttacaggtTCTTCAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCCGGGAACTGGGTATC-AAGCTGATGCTGCCATACGTTTGCTTggtacgtacacttcatcaggcatccatgtggagaccctttaatgcctatgc Alignment from Spaln_aa2Genome GCTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gtttgtccaagcgtgctccaagcgtgctttttttcctgctgtttttacagGTTCTTCAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCCGGGAACTGGGTATCAAGCTGATGCTGCCATACGTTTGCTTGgtacgtacacttcatcaggcatccatgtggagaccctttaatgcctatgc Alignment from Spaln_nt2Genome GCTCTTCAGTGGTGCTGATAGTCAACAAT-CTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gtttgtccaagcgtgctccaagcgtgctttttttcctgctgtttttacagGTTCTTCAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCCGGGAACTGGGTATCA-AGCTGATGCTGCCATACGTTTGCTTGgtacgtacacttcatcaggcatccatgtggagaccctttaatgcctatgc Alignment from Pairagon GCTCTTCAGTGGTGCTGATAGTCAACAAT-CTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gtttgtccaagcgtgctccaagcgtgctttttttcctgctgtttttacagGTTCTTCAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCCGGGAACTGGGTATCA-AGCTGATGCTGCCATACGTTTGCTTGgtacgtacacttcatcaggcatccatgtggagaccctttaatgcctatgc Alignment from Exonerate_protein2genome GCTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gtttgtccaagcgtgctccaagcgtgctttttttcctgctgtttttacagGTTCTTCAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCCGGGAACTGGGTATCAAGCTGATGCTGCCATACGTTTGCTTGgtacgtacacttcatcaggcatccatgtggagaccctttaatgcctatgc Alignment from Exonerate_coding2genome GCTCTTCAGTGGTGCTGATAGTCAACAAT-CTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gtttgtccaagcgtgctccaagcgtgctttttttcctgctgtttttacagGTTCTTCAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCCGGGAACTGGGTATCAAG-CTGATGCTGCCATACGTTTGCTTGgtacgtacacttcatcaggcatccatgtggagaccctttaatgcctatgc Alignment from GeneWise GCTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gtttgtccaagcgtgctccaagcgtgctttttttcctgctgtttttacagGTTCTTCAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCCGGGAACTGGGTATCAAGCTGATGCTGCCATACGTTTGCTTGgtacgtacacttcatcaggcatccatgtggagaccctttaatgcctatgc #### Dak_ID2910_3 --> 2 - 1 Original Alignment gtTTTATCGGGAAAGGGATGCTAACA-GGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAg tgcagctttgggaccactatgcatacctctgtcttctatccttttataaggcTTTATTGGCAAAGGG---CTAACACGGTATTATTGTAGGGTTGGTGTTTGCCTCTCCTC-TGTGGGCAGCATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCACAggtaagatgtgtaccagactggataggttgtggaggggagcacattgatcg Alignment from CESAR gtTTTATCGGGAAAGGGATGCTAACA-GGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAg tgcagctttgggaccactatgcatacctctgtcttctatccttttataaggcTTTATTGGCAAAGGG---CTAACACGGTATTATTGTAGGGTTGGTGTTTGCCTCTC-CTCTGTGGGCAGCATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCACAggtaagatgtgtaccagactggataggttgtggaggggagcacattgattg Alignment from Spaln_aa2Genome GTTTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAG tgcagctttgggaccactatgcatacctctgtcttctatccttttataagGCTTTATTGGCAAAGGG---CTAACACGGTATTATTGTAGGGTTGGTGTTTGCCTCTCCTCTGTGGGCAGCATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCACAGgtaagatgtgtaccagactggataggttgtggaggggagcacattgatcg Alignment from Spaln_nt2Genome GTTTTATCGGGAAAGGGATGCTAACA-GGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAG tgcagctttgggaccactatgcatacctctgtcttctatccttttataagGCTTTATTGGCAAAGG---GCTAACACGGTATTATTGTAGGGTTGGTGTTTGCCTCTCCT-CTGTGGGCAGCATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCACAGgtaagatgtgtaccagactggataggttgtggaggggagcacattgatcg Alignment from Pairagon GTTTTATCGGGAAAGGGATGCTAACA-GGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAG tgcagctttgggaccactatgcatacctctgtcttctatccttttataagGCTTTATTGGCAAAGG---GCTAACACGGTATTATTGTAGGGTTGGTGTTTGCCTCTCCT-CTGTGGGCAGCATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCACAGgtaagatgtgtaccagactggataggttgtggaggggagcacattgatcg Alignment from Exonerate_protein2genome GTTTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAG tgcagctttgggaccactatgcatacctctgtcttctatccttttataagGCTTTATTGGCAAAGGGCTAACACGGTATTATTGTAGGGTTGGTGTTTGCCTCTCC---TCTGTGGGCAGCATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCACAGgtaagatgtgtaccagactggataggttgtggaggggagcacattgatcg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTTTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAG tgcagctttgggaccactatgcatacctctgtcttctatccttttataagGCTTTATTGGCAAAGGGCTAACACGGTATTATTGTAGGGTTGGTGTTTGCCTCTCCTCT---GTGGGCAGCATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCACAGgtaagatgtgtaccagactggataggttgtggaggggagcacattgatcg #### Ddb1_ID2917_2 --> 2 - 0 Original Alignment gaCACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAG-ATCTATGTGGTCACTGCGGAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tgacatgaacagctctccttgattgcaaccagtgtcctccctgtgcacaggcCACTTTACCCCAGCGGAGGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAACATTTATGTGGTGACTGCAGAGGGTGTGCGCC-AGTAAAAGAGGTTGGAATGTATGGCAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtaagggactctgacagtgcaagaaacaacctggtaagaggggtgcacag Alignment from CESAR gaCACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAG-ATCTATGTGGTCACTGCGGAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tgacatgaacagctctccttgattgcaaccagtgtcctccctgtgcacaggcCACTTTACCCCAGCGGAGGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAACATTTATGTGGTGACTGCAGAGGGTGTGC-GCCAGTAAAAGAGGTTGGAATGTATGGCAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtaagggactctgacagtgcaagaaacaacctggtaagaggggtgcacag Alignment from Spaln_aa2Genome GACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tgacatgaacagctctccttgattgcaaccagtgtcctccctgtgcacagGCCACTTTACCCCAGCGGAGGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAACATTTATGTGGTGACTGCAGAGGGTGTGCGCCAGTAAAAGAGGTTGGAATGTATGGCAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtaagggactctgacagtgcaagaaacaacctggtaagaggggtgcacag Alignment from Spaln_nt2Genome GACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAG-ATCTATGTGGTCACTGCGGAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tgacatgaacagctctccttgattgcaaccagtgtcctccctgtgcacagGCCACTTTACCCCAGCGGAGGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAACATTTATGTGGTGACTGCAGAGGGTGTGC-GCCAGTAAAAGAGGTTGGAATGTATGGCAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtaagggactctgacagtgcaagaaacaacctggtaagaggggtgcacag Alignment from Pairagon GACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAG-ATCTATGTGGTCACTGCGGAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tgacatgaacagctctccttgattgcaaccagtgtcctccctgtgcacagGCCACTTTACCCCAGCGGAGGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAACATTTATGTGGTGACTGCAGAGGGTGTGC-GCCAGTAAAAGAGGTTGGAATGTATGGCAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtaagggactctgacagtgcaagaaacaacctggtaagaggggtgcacag Alignment from Exonerate_protein2genome GACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tgacatgaacagctctccttgattgcaaccagtgtcctccctgtgcacagGCCACTTTACCCCAGCGGAGGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAACATTTATGTGGTGACTGCAGAGGGTGTGCGCCAGTAAAAGAGGTTGGAATGTATGGCAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtaagggactctgacagtgcaagaaacaacctggtaagaggggtgcacag Alignment from Exonerate_coding2genome GTGAACGGCTGTGTGACCGGACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tgacatgaacagctctccttgattgcaaccaGTGTCCTCCCTGTGCACAGGCCACTTTACCCCAGCGGAGGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAACATTTATGTGGTGACTGCAGAGGGTGTGCGCCAGTAAAAGAGGTTGGAATGTATGGCAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtaagggactctgacagtgcaagaaacaacctggtaagaggggtgcacag Alignment from GeneWise GACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tgacatgaacagctctccttgattgcaaccagtgtcctccctgtgcacagGCCACTTTACCCCAGCGGAGGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAACATTTATGTGGTGACTGCAGAGGGTGTGCGCCAGTAAAAGAGGTTGGAATGTATGGCAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtaagggactctgacagtgcaagaaacaacctggtaagaggggtgcacag #### Ddb1_ID2924_9 --> 0 - 0 Original Alignment CTCAATGTCGACAGCAACGAACAAGGC-TCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tatctgtttattcaagtctttagtctcaggctgccttgtttcttctgcagCTCAATGTTGATAGCAATGAACAAGGGCTCCTATGTAGTGGCAATGGAAACATTTACTA-TTTGGGACCTATTATAGATATGTTTGTGGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgagcggcacccctaaagagcggaaggctaggagctgtaaacagcctta Alignment from CESAR CTCAATGTCGACAGCAACGAACAA-GGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tatctgtttattcaagtctttagtctcaggctgccttgtttcttctgcagCTCAATGTTGATAGCAATGAACAAGGGCTCCTATGTAGTGGCAATGGAAACATTTACT-ATTTGGGACCTATTATAGATATGTTTGTGGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgagcggcacccctaaagagcggaaggctaggagctgtaaacagcctta Alignment from Spaln_aa2Genome CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tatctgtttattcaagtctttagtctcaggctgccttgtttcttctgcagCTCAATGTTGATAGCAATGAACAAGGGCTCCTATGTAGTGGCAATGGAAACATTTACTATTTGGGACCTATTATAGATATGTTTGTGGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgagcggcacccctaaagagcggaaggctaggagctgtaaacagcctta Alignment from Spaln_nt2Genome CTCAATGTCGACAGCAACGAACAA-GGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tatctgtttattcaagtctttagtctcaggctgccttgtttcttctgcagCTCAATGTTGATAGCAATGAACAAGGGCTCCTATGTAGTGGCAATGGAAACATTTA-CTATTTGGGACCTATTATAGATATGTTTGTGGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgagcggcacccctaaagagcggaaggctaggagctgtaaacagcctta Alignment from Pairagon CTCAATGTCGACAGCAACGAACAA-GGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tatctgtttattcaagtctttagtctcaggctgccttgtttcttctgcagCTCAATGTTGATAGCAATGAACAAGGGCTCCTATGTAGTGGCAATGGAAACATTTACT-ATTTGGGACCTATTATAGATATGTTTGTGGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgagcggcacccctaaagagcggaaggctaggagctgtaaacagcctta Alignment from Exonerate_protein2genome CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tatctgtttattcaagtctttagtctcaggctgccttgtttcttctgcagCTCAATGTTGATAGCAATGAACAAGGGCTCCTATGTAGTGGCAATGGAAACATTTACTATTTGGGACCTATTATAGATATGTTTGTGGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgagcggcacccctaaagagcggaaggctaggagctgtaaacagcctta Alignment from Exonerate_coding2genome CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tatctgtttattcaagtctttagtctcaggctgccttgtttcttctgcagCTCAATGTTGATAGCAATGAACAAGGGCTCCTATGTAGTGGCAATGGAAACATTTACTATTTGGGACCTATTATAGATATGTTTGTGGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgagcggcacccctaaagagcggaaggctaggagctgtaaacagcctta Alignment from GeneWise CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tatctgtttattcaagtctttagtctcaggctgccttgtttcttctgcagCTCAATGTTGATAGCAATGAACAAGGGCTCCTATGTAGTGGCAATGGAAACATTTACTATTTGGGACCTATTATAGATATGTTTGTGGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgagcggcacccctaaagagcggaaggctaggagctgtaaacagcctta #### Ddb1_ID2929_14 --> 1 - 1 Original Alignment cCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCA-CTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAg tgtctagcactcatttcttcgattaatgttaaaagacttctgtcttgcagtCACACAGAAATGGAACATGAAGTAGCATGTTTGGACACTACCCCATTAGGGGATAGCAATGGTCTCTCCCCGCCTTTGTGCCATTGGACTTTGGACAGATATCT-AGCTCGTATCTTGAGGCTCCCGTCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAggtaagccttttgtttaccttcaagacaacagcctagtaagggtaaacaag Alignment from CESAR cCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCA-CTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAg tgtctagcactcatttcttcgattaatgttaaaagacttctgtcttgcagtCACACAGAAATGGAACATGAAGTAGCATGTTTGGACACTACCCCATTAGGGGATAGCAATGGTCTCTCCCCGCCTTTGTGCCATTGGACTTTGGACAGATATC-TAGCTCGTATCTTGAGGCTCCCGTCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAggtaagccttttgtttaccttcaagacaacagcctagtaagggtaaacaag Alignment from Spaln_aa2Genome CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG tgtctagcactcatttcttcgattaatgttaaaagacttctgtcttgcagTCACACAGAAATGGAACATGAAGTAGCATGTTTGGACACTACCCCATTAGGGGATAGCAATGGTCTCTCCCCGCCTTTGTGCCATTGGACTTTGGACAGATATCTAGCTCGTATCTTGAGGCTCCCGTCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAGgtaagccttttgtttaccttcaagacaacagcctagtaagggtaaacaag Alignment from Spaln_nt2Genome CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCAC-TTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG tgtctagcactcatttcttcgattaatgttaaaagacttctgtcttgcagTCACACAGAAATGGAACATGAAGTAGCATGTTTGGACACTACCCCATTAGGGGATAGCAATGGTCTCTCCCCGCCTTTGTGCCATTGGACTTTGGACAGATATCT-AGCTCGTATCTTGAGGCTCCCGTCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAGgtaagccttttgtttaccttcaagacaacagcctagtaagggtaaacaag Alignment from Pairagon CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCA-CTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG tgtctagcactcatttcttcgattaatgttaaaagacttctgtcttgcagTCACACAGAAATGGAACATGAAGTAGCATGTTTGGACACTACCCCATTAGGGGATAGCAATGGTCTCTCCCCGCCTTTGTGCCATTGGACTTTGGACAGATATCT-AGCTCGTATCTTGAGGCTCCCGTCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAGgtaagccttttgtttaccttcaagacaacagcctagtaagggtaaacaag Alignment from Exonerate_protein2genome CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCA-CTTTGTGCCATTGGACTTTGGACAGACATC--TCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG tgtctagcactcatttcttcgattaatgttaaaagacttctgtcttgcagTCACACAGAAATGGAACATGAAGTAGCATGTTTGGACACTACCCCATTAGGGGATAGCAATGGTCTCTCCCCGCCTTTGTGCCATTGGACTTTGGACAGATATCTA---GCTCGTATCTTGAGGCTCCCGTCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAGgtaagccttttgtttaccttcaagacaacagcctagtaagggtaaacaag Alignment from Exonerate_coding2genome CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACT---TTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG tgtctagcactcatttcttcgattaatgttaaaagacttctgtcttgcagTCACACAGAAATGGAACATGAAGTAGCATGTTTGGACACTACCCCATTAGGGGATAGCAATGGTCTCTCCCCG--CCTTTGTGCCATTGGACTTTGGACAGATATCTA-GCTCGTATCTTGAGGCTCCCGTCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAGgtaagccttttgtttaccttcaagacaacagcctagtaagggtaaacaag Alignment from GeneWise CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG tgtctagcactcatttcttcgattaatgttaaaagacttctgtcttgcagTCACACAGAAATGGAACATGAAGTAGCATGTTTGGACACTACCCCATTAGGGGATAGCAATGGTCTCTCCCCGCCTTTGTGCCATTGGACTTTGGACAGATATCTAGCTCGTATCTTGAGGCTCCCGTCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAGgtaagccttttgtttaccttcaagacaacagcctagtaagggtaaacaag #### Ddb1_ID2931_16 --> 2 - 2 Original Alignment gtTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCC-ACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACag gtaagaactgtgccctattttgcctcccagtgacttagctctccctgcaggtTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACG-CTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACaggtaagtttcctaggtgtcccaagtaggggtcacatatccttttctgattc Alignment from CESAR gtTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAG-CCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACag gtaagaactgtgccctattttgcctcccagtgacttagctctccctgcaggtTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAAC-GCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACaggtaagtttcctaggtgtcccaagtaggggtcacatatccttttctgattc Alignment from Spaln_aa2Genome GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAG-CCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaagaactgtgccctattttgcctcccagtgacttagctctccctgcagGTTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGcCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGC-TTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctaggtgtcccaagtaggggtcacatatccttttctgattc Alignment from Spaln_nt2Genome GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCC-ACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaagaactgtgccctattttgcctcccagtgacttagctctccctgcagGTTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACG-CTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctaggtgtcccaagtaggggtcacatatccttttctgattc Alignment from Pairagon GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAG-CCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaagaactgtgccctattttgcctcccagtgacttagctctccctgcagGTTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACG-CTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctaggtgtcccaagtaggggtcacatatccttttctgattc Alignment from Exonerate_protein2genome GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAG-CCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAAC--GTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaagaactgtgccctattttgcctcccagtgacttagctctccctgcagGTTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGC---TTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctaggtgtcccaagtaggggtcacatatccttttctgattc Alignment from Exonerate_coding2genome GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAG-CCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAAC--GTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaagaactgtgccctattttgcctcccagtgacttagctctccctgcagGTTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGC---TTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctaggtgtcccaagtaggggtcacatatccttttctgattc Alignment from GeneWise GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaagaactgtgccctattttgcctcccagtgacttagctctccctgcagGTTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctaggtgtcccaagtaggggtcacatatccttttctgattc #### Ddb1_ID2936_21 --> 2 - 0 Original Alignment gaAAACTACAGACTGTGGCTGAAAAGGAA-GTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG aggcacctgaggagaagactatcaagaacatggcttccatttcatttcaggaAAGCTG---ACTGTCACTGATAAGGAACGTAAAAGGGGCAGTGTACTCGATGGTCGAGT-TAATGGGAAATTATTGGCCAGCACCAATAGCACAgtgagcggcaagggtttataagctgaactctgatgacccacatttggagt Alignment from CESAR gaAAACTACAGACTGTGGCTGAAAAGGAA-GTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG aggcacctgaggagaagactatcaagaacatggcttccatttcatttcaggaAAGCTG---ACTGTCACTGATAAGGAACGTAAAAGGGGCAGTGTACTCGATGGTCGAG-TTAATGGGAAATTATTGGCCAGCACCAATAGCACAgtgagcggcaagggtttataagctgaactctgatgacccacatttggagt Alignment from Spaln_aa2Genome GAAAACTACAGACTGTGGCTGAAAAGGAA-GTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG aggcacctgaggagaagactatcaagaacatggcttccatttcatttcagGAAAGCTG---ACTGTCACTGATAAGGAAcGTAAAAGGGGCAGTGTACTCGATGGTCGAGTT-AATGGGAAATTATTGGCCAGCACCAATAGCACAgtgagcggcaagggtttataagctgaactctgatgacccacatttggagt Alignment from Spaln_nt2Genome GAAAACTACAGACTGTGGCTGAAAAGGAA-GTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG aggcacctgaggagaagactatcaagaacatggcttccatttcatttcagGAAAGCT---GACTGTCACTGATAAGGAACGTAAAAGGGGCAGTGTACTCGATGGTCGAGTTA-ATGGGAAATTATTGGCCAGCACCAATAGCACAgtgagcggcaagggtttataagctgaactctgatgacccacatttggagt Alignment from Pairagon GAAAACTACAGACTGTGGCTGAAAAGGAA-GTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG aggcacctgaggagaagactatcaagaacatggcttccatttcatttcagGAAAGCT---GACTGTCACTGATAAGGAACGTAAAAGGGGCAGTGTACTCGATGGTCGAG-TTAATGGGAAATTATTGGCCAGCACCAATAGCACAgtgagcggcaagggtttataagctgaactctgatgacccacatttggagt Alignment from Exonerate_protein2genome GAAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG aggcacctgaggagaagactatcaagaacatggcttccatttcatttcagGAAAGCTG---ACTGTCACTGATAAGGAACGTAAAAGGGGCAGTGTACTCGATGGTCGAGTTAATGGGAAATTATTGGCCAGCACCAATAGCACAgtgagcggcaagggtttataagctgaactctgatgacccacatttggagt Alignment from Exonerate_coding2genome aggcacctgaggagaagactatcaagaacatggcttccatttcatttcaggaaagctgactgtcactgataaggaacgtaaaaggggcagtgtactcgatggtcgagttaatgggaaattattggccagcaccaatagcacagtgagcggcaagggtttataagctgaactctgatgacccacatttggagt Alignment from GeneWise GAAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG aggcacctgaggagaagactatcaagaacatggcttccatttcatttcagGAAAGCTG---ACTGTCACTGATAAGGAACGTAAAAGGGGCAGTGTACTCGATGGTCGAGTTAATGGGAAATTATTGGCCAGCACCAATAGCACAgtgagcggcaagggtttataagctgaactctgatgacccacatttggagt #### Ddb1_ID2939_24 --> 1 - 1 Original Alignment tGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTC-AATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAg tagggcctggtagagggaagtgctctggcttatgtacctttctcttccagtGCCGCAACGACTGTCGAGGAACGTCAGCATTTACAGGAAATAGTTCTCTTCCACCTAGGTGAGTTTGTCCATTGTGTTCTGCCACAGCTCTCTAGTTATGA-GAATCTGGGTGAGGCTTCCACTCCTACAACTCAGGGATCAGTCCTTTTTGGCACAGTCAATGTCATGATAggtgagcgctgtgggatggcttgcttatgcaaaataatagagacttgtttc Alignment from CESAR tGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAAT-GTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAg tagggcctggtagagggaagtgctctggcttatgtacctttctcttccagtGCCGCAACGACTGTCGAGGAACGTCAGCATTTACAGGAAATAGTTCTCTTCCACCTAGGTGAGTTTGTCCATTGTGTTCTGCCACAGCTCTCTAGTTA-TGAGAATCTGGGTGAGGCTTCCACTCCTACAACTCAGGGATCAGTCCTTTTTGGCACAGTCAATGTCATGATAggtgagcgctgtgggatggcttgcttatgcaaaagttttctgaattatgct Alignment from Spaln_aa2Genome TGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCT---ACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG tagggcctggtagagggaagtgctctggcttatgtacctttctcttccagTGCCGCAACGACTGTCGAGGAACGTCAGCATTTACAGGAAATAGTTCTCTTCCACCTAGGTGAGTTTGTCCATTGTGTTCTGCCACAGCTCTCTAGTTATGAGAATCTGGGTGAGGCTTCCACTCCTACAACTCAGGGATCAGTCCTTTTTGGCACAGTCAATGTCATGATAGgtgagcgctgtgggatggcttgcttatgcaaaataatagagacttgtttc Alignment from Spaln_nt2Genome TGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCA-ATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCT---ACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG tagggcctggtagagggaagtgctctggcttatgtacctttctcttccagTGCCGCAACGACTGTCGAGGAACGTCAGCATTTACAGGAAATAGTTCTCTTCCACCTAGGTGAGTTTGTCCATTGTGTTCTGCCACAGCTCTCTAGTTATG-AGAATCTGGGTGAGGCTTCCACTCCTACAACTCAGGGATCAGTCCTTTTTGGCACAGTCAATGTCATGATAGgtgagcgctgtgggatggcttgcttatgcaaaataatagagacttgtttc Alignment from Pairagon TGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAA-TGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG tagggcctggtagagggaagtgctctggcttatgtacctttctcttccagTGCCGCAACGACTGTCGAGGAACGTCAGCATTTACAGGAAATAGTTCTCTTCCACCTAGGTGAGTTTGTCCATTGTGTTCTGCCACAGCTCTCTAGTTATG-AGAATCTGGGTGAGGCTTCCACTCCTACAACTCAGGGATCAGTCCTTTTTGGCACAGTCAATGTCATGATAGgtgagcgctgtgggatggcttgcttatgcaaaataatagagacttgtttc Alignment from Exonerate_protein2genome TGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCT---ACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG tagggcctggtagagggaagtgctctggcttatgtacctttctcttccagTGCCGCAACGACTGTCGAGGAACGTCAGCATTTACAGGAAATAGTTCTCTTCCACCTAGGTGAGTTTGTCCATTGTGTTCTGCCACAGCTCTCTAGTTATGAGAATCTGGGTGAGGCTTCCACTCCTACAACTCAGGGATCAGTCCTTTTTGGCACAGTCAATGTCATGATAGgtgagcgctgtgggatggcttgcttatgcaaaataatagagacttgtttc Alignment from Exonerate_coding2genome TGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCT---ACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAGGGCTGGTGA tagggcctggtagagggaagtgctctggcttatgtacctttctcttccagTGCCGCAACGACTGTCGAGGAACGTCAGCATTTACAGGAAATAGTTCTCTTCCACCTAGGTGAGTTTGTCCATTGTGTTCTGCCACAGCTCTCTAGTTATGAGAATCTGGGTGAGGCTTCCACTCCTACAACTCAGGGATCAGTCCTTTTTGGCACAGTCAATGTCATGATAGGTGAGCGCTgtgggatggcttgcttatgcaaaataatagagacttgtttc Alignment from GeneWise TGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG tagggcctggtagagggaagtgctctggcttatgtacctttctcttccagTGCCGCAACGACTGTCGAGGAACGTCAGCATTTACAGGAAATAGTTCTCTTCCACCTAGGTGAGTTTGTCCATTGTGTTCTGCCACAGCTCTCTAGTTATGAGAATCTGGGTGAGGCTTCCACTCCTACAACTCAGGGATCAGTCCTTTTTGGCACAGTCAATGTCATGATAGgtgagcgctgtgggatggcttgcttatgcaaaataatagagacttgtttc #### Dkk1_ID6482_3 --> 2 - 1 Original Alignment gaATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCAC-AACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAg tcaaaggagcagggatggaacgccccactttatttgcttttcccatgaaggtATATGCATGCCATCCAGGCATAGCCACTTCCCATGTGGGGAAGTCAAGGAAAGGACTGTTGAAATGCTCGGTAATGACCACCAATGCTGCTGCAGGGGATGGATTTCCCAGAA-GACTGCATTGGCTTCAAAGATTTATCATACTAAAggtgagtgaacagcttaagaacttcaaacttaatctgcaaaaacaatgaga Alignment from CESAR gaATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCAC-AACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAg tcaaaggagcagggatggaacgccccactttatttgcttttcccatgaaggtATATGCATGCCATCCAGGCATAGCCACTTCCCATGTGGGGAAGTCAAGGAAAGGACTGTTGAAATGCTCGGTAATGACCACCAATGCTGCTGCAGGGGATGGATTTCCCAGAA-GACTGCATTGGCTTCAAAGATTTATCATACTAAAggtgagtgaacagcttaagaacttcaaacttaatctgcaaaaacaatgaga Alignment from Spaln_aa2Genome GAATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAG tcaaaggagcagggatggaacgccccactttatttgcttttcccatgaagGTATATGCATGCCATCCAGGCATAGCCACTTCCCATGTGGGGAAGTCAAGGAAAGGACTGTTGAAATGCTCGGTAATGACCACCAATGCTGCTGCAGGGGATGGATTTCCCAGAAGACTGCATTGGCTTCAAAGATTTATCATACTAAAGgtgagtgaacagcttaagaacttcaaacttaatctgcaaaaacaatgaga Alignment from Spaln_nt2Genome GAATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCAC-AACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAG tcaaaggagcagggatggaacgccccactttatttgcttttcccatgaagGTATATGCATGCCATCCAGGCATAGCCACTTCCCATGTGGGGAAGTCAAGGAAAGGACTGTTGAAATGCTCGGTAATGACCACCAATGCTGCTGCAGGGGATGGATTTCCCAGAAG-ACTGCATTGGCTTCAAAGATTTATCATACTAAAGgtgagtgaacagcttaagaacttcaaacttaatctgcaaaaacaatgaga Alignment from Pairagon GAATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCA-CAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAG tcaaaggagcagggatggaacgccccactttatttgcttttcccatgaagGTATATGCATGCCATCCAGGCATAGCCACTTCCCATGTGGGGAAGTCAAGGAAAGGACTGTTGAAATGCTCGGTAATGACCACCAATGCTGCTGCAGGGGATGGATTTCCCAGAAG-ACTGCATTGGCTTCAAAGATTTATCATACTAAAGgtgagtgaacagcttaagaacttcaaacttaatctgcaaaaacaatgaga Alignment from Exonerate_protein2genome GAATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAG tcaaaggagcagggatggaacgccccactttatttgcttttcccatgaagGTATATGCATGCCATCCAGGCATAGCCACTTCCCATGTGGGGAAGTCAAGGAAAGGACTGTTGAAATGCTCGGTAATGACCACCAATGCTGCTGCAGGGGATGGATTTCCCAGAAGACTGCATTGGCTTCAAAGATTTATCATACTAAAGgtgagtgaacagcttaagaacttcaaacttaatctgcaaaaacaatgaga Alignment from Exonerate_coding2genome GAATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAG tcaaaggagcagggatggaacgccccactttatttgcttttcccatgaagGTATATGCATGCCATCCAGGCATAGCCACTTCCCATGTGGGGAAGTCAAGGAAAGGACTGTTGAAATGCTCGGTAATGACCACCAATGCTGCTGCAGGGGATGGATTTCCCAGAAGACTGCATTGGCTTCAAAGATTTATCATACTAAAGgtgagtgaacagcttaagaacttcaaacttaatctgcaaaaacaatgaga Alignment from GeneWise GAATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAG tcaaaggagcagggatggaacgccccactttatttgcttttcccatgaagGTATATGCATGCCATCCAGGCATAGCCACTTCCCATGTGGGGAAGTCAAGGAAAGGACTGTTGAAATGCTCGGTAATGACCACCAATGCTGCTGCAGGGGATGGATTTCCCAGAAGACTGCATTGGCTTCAAAGATTTATCATACTAAAGgtgagtgaacagcttaagaacttcaaacttaatctgcaaaaacaatgaga #### Dnajc4_ID1965_3 --> 0 - 2 Original Alignment CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTAT-GACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACag actgactgtggcagcacttgagtcatatcagtctttctttacccttgcagCTGCGCCCTGATCGGGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATGAG------CGTGTACTCAGCCATGAAGAAAGCCGTCGTAACTATCGACCACCAGCTGCATCCAGCC---------------TCTG-CAGCACTGCTGAGCCTAAGTATAAACAGCACACCCACaggtgagttacagaaggcacaacctgagtttgttctccccatctactcacct Alignment from CESAR CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTAT-GACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACag actgactgtggcagcacttgagtcatatcagtctttctttacccttgcagCTGCGCCCTGATCGGGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATGAG------CGTGTACTCAGCCATGAAGAAAGCCGTCGTAACTATCGACCACCAGCTGCATCCAGCC---------------TCT-GCAGCACTGCTGAGCCTAAGTATAAACAGCACACCCACaggtgagttacagaaggcacaacctgagtttgttctccccatctactcacct Alignment from Spaln_aa2Genome CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACAG actgactgtggcagcacttgagtcatatcagtctttctttacccttgcagCTGCGCCCTGATCGGGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATGAG------CGTGTACTCAGCCATGAAGAAAGCCGTCGTAACTAT---------------CGACCACCAGCTGCATCCAGCCTCTGCAGCACTGCTGAGCCTAAGTATAAACAGCACACCCACAGgtgagttacagaaggcacaacctgagtttgttctccccatctactcacct Alignment from Spaln_nt2Genome CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTAT-GACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACAG actgactgtggcagcacttgagtcatatcagtctttctttacccttgcagCTGCGCCCTGATCGGGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATGAG------CGTGTACTCAGCCATGAAGAAAGCCGTCGTAACTATCGACCACCAGCTGCATCCAGCC------------TCT----GCAGCACTGCTGAGCCTAAGTATAAACAGCACACCCACAGgtgagttacagaaggcacaacctgagtttgttctccccatctactcacct Alignment from Pairagon CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTAT-GACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACAG actgactgtggcagcacttgagtcatatcagtctttctttacccttgcagCTGCGCCCTGATCGGGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATGAG------CGTGTACTCAGCCATGAAGAAAGCCGTCGTAACTATCGACCACCAGCTGCATCCAGCCTCTGC----------------AGCACTGCTGAGCCTAAGTATAAACAGCACACCCACAGgtgagttacagaaggcacaacctgagtttgttctccccatctactcacct Alignment from Exonerate_protein2genome CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTAT-GACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATA actgactgtggcagcacttgagtcatatcagtctttctttacccttgcagCTGCGCCCTGATCGGGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATGAG------CGTGTACTCAGCCATGAAGAAAGCCGTCGTAACTATCGACCACCAGCTGCATCCAGCCTCTGCAGCACTGCTGAGCCTAAGTATAAACAGCACACCCACAGgtgagttacagaaggcacaacctgagtttgttctccccatctactcacct Alignment from Exonerate_coding2genome CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTAT-GACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATA actgactgtggcagcacttgagtcatatcagtctttctttacccttgcagCTGCGCCCTGATCGGGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATGAG------CGTGTACTCAGCCATGAAGAAAGCCGTCGTAACTATCGACCACCAGCTGCATCCAGCCTCTGCAGCACTGCTGAGCCTAAGTATAAACAGCACACCCACAGgtgagttacagaaggcacaacctgagtttgttctccccatctactcacct Alignment from GeneWise CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGG------AGCACAGCCGAGCCTAAGTATACGCAACAGACACACAG actgactgtggcagcacttgagtcatatcagtctttctttacccttgcagCTGCGCCCTGATCGGGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATGAG------CGTGTACTCAGCCATGAAGAAAGCCGTCGTAACTAT---------------------CGACCACCAGCTGCATCCAGCCTCTGCAGCACTGCTGAGCCTAAGTATAAACAGCACACCCACAGgtgagttacagaaggcacaacctgagtttgttctccccatctactcacct #### Dock8_ID5396_17 --> 1 - 0 Original Alignment gTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCC-AAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgtgccttagatcacaattgcttgctcttacccttatctatacacaggTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCGCAAGCTGACAGTGAATCATCATCTTCTCTTCACCTTCTATCACA-CAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtgtgttaacaagaactggtggtttcctaccttccaatttgggttcacat Alignment from CESAR gTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCC-AAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgtgccttagatcacaattgcttgctcttacccttatctatacacaggTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCGCAAGCTGACAGTGAATCATCATCTTCTCTTCACCTTCTATCAC-ACAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtgtgttaacaagaactggtggtttcctaccttccaatttgggttcacat Alignment from Spaln_aa2Genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCC-AAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgtgccttagatcacaattgcttgctcttacccttatctatacacagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCGcAAGCTGACAGTGAATCATCATCTTCTCTTCACCTTCTATCACAC-AGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtgtgttaacaagaactggtggtttcctaccttccaatttgggttcacat Alignment from Spaln_nt2Genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGC-CAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgtgccttagatcacaattgcttgctcttacccttatctatacacagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCGCAAGCTGACAGTGAATCATCATCTTCTCTTCACCTTCTATCACA-CAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtgtgttaacaagaactggtggtttcctaccttccaatttgggttcacat Alignment from Pairagon GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGC-CAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgtgccttagatcacaattgcttgctcttacccttatctatacacagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCGCAAGCTGACAGTGAATCATCATCTTCTCTTCACCTTCTATCACA-CAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtgtgttaacaagaactggtggtttcctaccttccaatttgggttcacat Alignment from Exonerate_protein2genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCC-AAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTAC--CACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgtgccttagatcacaattgcttgctcttacccttatctatacacagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCGCAAGCTGACAGTGAATCATCATCTTCTCTTCACCTTCTATCACAC---AGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtgtgttaacaagaactggtggtttcctaccttccaatttgggttcacat Alignment from Exonerate_coding2genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCC-AAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTAC--CACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgtgccttagatcacaattgcttgctcttacccttatctatacacagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCGCAAGCTGACAGTGAATCATCATCTTCTCTTCACCTTCTATCACAC---AGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtgtgttaacaagaactggtggtttcctaccttccaatttgggttcacat Alignment from GeneWise GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCT-GCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgtgccttagatcacaattgcttgctcttacccttatctatacacagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCGCAAGCTGACAGTGAATCATCATCTTCTCTTCACCTTCTATCACAC-AGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAgtgtgttaacaagaactggtggtttcctaccttccaatttgggttcacat #### Dock8_ID5412_31 --> 0 - 0 Original Alignment CCCTATAAGCAGTACAACATGCTGAATGCAGACACCACC-CGCCACCTCATGATTTGCTTCCTGTGGATCATGAAAAATGCTGATCAGAGCCTCATCAGGAAGTGGATCGCTGACCTGCCTTCCATGCAGCTCAATAGGATTCTGGACCTGCTGTTCATCTGTGTCTCCTGCTTTGAATACAAG ttctatactctggccagactactccaagcttttgtttggtctctttgtagCCCTATAAGCAGTATAATATGCTGAATGCAGATGCTACTCCACCACCTCATGATCTGCTTTCTGTGGATCATGA-GAATGCTGATCAGAGCCTCATCAGGAGGTGGATCGCTGACCTGCCTTCCATGCAGCTCAACAGGGTTTTAGACCTACTGTTCATCTGTGTCTCCTGTTTTGAATACAAGgtatccactgggaatgaaacactagttagctcttccattccaaccttctt Alignment from CESAR CCCTATAAGCAGTACAACATGCTGAATGCAGACACCACC-CGCCACCTCATGATTTGCTTCCTGTGGATCATGAAAAATGCTGATCAGAGCCTCATCAGGAAGTGGATCGCTGACCTGCCTTCCATGCAGCTCAATAGGATTCTGGACCTGCTGTTCATCTGTGTCTCCTGCTTTGAATACAAG ttctatactctggccagactactccaagcttttgtttggtctctttgtagCCCTATAAGCAGTATAATATGCTGAATGCAGATGCTACTCCACCACCTCATGATCTGCTTTCTGTGGATCATGA-GAATGCTGATCAGAGCCTCATCAGGAGGTGGATCGCTGACCTGCCTTCCATGCAGCTCAACAGGGTTTTAGACCTACTGTTCATCTGTGTCTCCTGTTTTGAATACAAGgtatccactgggaatgaaacactagttagctcttccattccaaccttctt Alignment from Spaln_aa2Genome TTGCCCTATAAGCAGTACAACATGCTGAATGCAGACACCACCCGCCACCTCATGATTTGCTTCCTGTGGATCATGAAAAATGCTGATCAGAGCCTCATCAGGAAGTGGATCGCTGACCTGCCTTCCATGCAGCTCAATAGGATTCTGGACCTGCTGTTCATCTGTGTCTCCTGCTTTGAATACAAG ttctatactctggccagactactccaagcttttgtttggtctctttgtag---CCCTATAAGCAGTATAATATGCTGAATGCAGATGCTACTCCACCACCTCATGATCTGCTTTCTGTGGATCATGAGAATGCTGATCAGAGCCTCATCAGGAGGTGGATCGCTGACCTGCCTTCCATGCAGCTCAACAGGGTTTTAGACCTACTGTTCATCTGTGTCTCCTGTTTTGAATACAAGgtatccactgggaatgaaacactagttagctcttccattccaaccttctt Alignment from Spaln_nt2Genome -CCTATAAGCAGTACAACATGCTGAATGCAGACACCAC-CCGCCACCTCATGATTTGCTTCCTGTGGATCATGAAAAATGCTGATCAGAGCCTCATCAGGAAGTGGATCGCTGACCTGCCTTCCATGCAGCTCAATAGGATTCTGGACCTGCTGTTCATCTGTGTCTCCTGCTTTGAATACAAG ttctatactctggccagactactccaagcttttgtttggtctctttgtagCCCTATAAGCAGTATAATATGCTGAATGCAGATGCTACTCCACCACCTCATGATCTGCTTTCTGTGGATCATG-AGAATGCTGATCAGAGCCTCATCAGGAGGTGGATCGCTGACCTGCCTTCCATGCAGCTCAACAGGGTTTTAGACCTACTGTTCATCTGTGTCTCCTGTTTTGAATACAAGgtatccactgggaatgaaacactagttagctcttccattccaaccttctt Alignment from Pairagon CCCTATAAGCAGTACAACATGCTGAATGCAGACACCAC-CCGCCACCTCATGATTTGCTTCCTGTGGATCATGAAAAATGCTGATCAGAGCCTCATCAGGAAGTGGATCGCTGACCTGCCTTCCATGCAGCTCAATAGGATTCTGGACCTGCTGTTCATCTGTGTCTCCTGCTTTGAATACAAG ttctatactctggccagactactccaagcttttgtttggtctctttgtagCCCTATAAGCAGTATAATATGCTGAATGCAGATGCTACTCCACCACCTCATGATCTGCTTTCTGTGGATCATG-AGAATGCTGATCAGAGCCTCATCAGGAGGTGGATCGCTGACCTGCCTTCCATGCAGCTCAACAGGGTTTTAGACCTACTGTTCATCTGTGTCTCCTGTTTTGAATACAAGgtatccactgggaatgaaacactagttagctcttccattccaaccttctt Alignment from Exonerate_protein2genome CCCTATAAGCAGTACAACATGCTGAATGCAGACACCACC-CGCCACCTCATGATTTGCTTCCTGTGGATCATG--AAAAATGCTGATCAGAGCCTCATCAGGAAGTGGATCGCTGACCTGCCTTCCATGCAGCTCAATAGGATTCTGGACCTGCTGTTCATCTGTGTCTCCTGCTTTGAATACAAG ttctatactctggccagactactccaagcttttgtttggtctctttgtagCCCTATAAGCAGTATAATATGCTGAATGCAGATGCTACTCCACCACCTCATGATCTGCTTTCTGTGGATCATGAG---AATGCTGATCAGAGCCTCATCAGGAGGTGGATCGCTGACCTGCCTTCCATGCAGCTCAACAGGGTTTTAGACCTACTGTTCATCTGTGTCTCCTGTTTTGAATACAAGgtatccactgggaatgaaacactagttagctcttccattccaaccttctt Alignment from Exonerate_coding2genome CCCTATAAGCAGTACAACATGCTGAATGCAGAC---ACCACCCGCCACCTCATGATTTGCTTCCTGTGGATCATGAAAAATGCTGATCAGAGCCTCATCAGGAAGTGGATCGCTGACCTGCCTTCCATGCAGCTCAATAGGATTCTGGACCTGCTGTTCATCTGTGTCTCCTGCTTTGAATACAAG ttctatactctggccagactactccaagcttttgtttggtctctttgtagCCCTATAAGCAGTATAATATGCTGAATGCAGATGCTACT--CCACCACCTCATGATCTGCTTTCTGTGGATCATGAG-AATGCTGATCAGAGCCTCATCAGGAGGTGGATCGCTGACCTGCCTTCCATGCAGCTCAACAGGGTTTTAGACCTACTGTTCATCTGTGTCTCCTGTTTTGAATACAAGgtatccactgggaatgaaacactagttagctcttccattccaaccttctt Alignment from GeneWise CCCTATAAGCAGTACAACATGCTGAATGCAGACACCACC-CGCCACCTCATGATTTGCTTCCTGTGGATCATGAAAAATGCTGATCAGAGCCTCATCAGGAAGTGGATCGCTGACCTGCCTTCCATGCAGCTCAATAGGATTCTGGACCTGCTGTTCATCTGTGTCTCCTGCTTTGAATACAAG ttctatactctggccagactactccaagcttttgtttggtctctttgtagCCCTATAAGCAGTATAATATGCTGAATGCAGATGCTACTCCACCACCTCATGATCTGCTTTCTGTGGATCATGAG-AATGCTGATCAGAGCCTCATCAGGAGGTGGATCGCTGACCTGCCTTCCATGCAGCTCAACAGGGTTTTAGACCTACTGTTCATCTGTGTCTCCTGTTTTGAATACAAGgtatccactgggaatgaaacactagttagctcttccattccaaccttctt #### Dock8_ID5413_32 --> 0 - 1 Original Alignment GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGA-GACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAg tcctggtggagacctagtaaactcaaagtgatggctacatgtcccaccagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGACGATGTCAAGGCCAAACTGGAAGAGGCCCTGCTCC-TGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAggtgagtttccaacactgtaaccttaagttagtcaagcttgttgcatagag Alignment from CESAR GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGA-GACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAg tcctggtggagacctagtaaactcaaagtgatggctacatgtcccaccagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGACGATGTCAAGGCCAAACTGGAAGAGGCCCTGCTC-CTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAggtgagtttccaacactgtaaccttaagttagtcaagcttgttgcatagag Alignment from Spaln_aa2Genome GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG tcctggtggagacctagtaaactcaaagtgatggctacatgtcccaccagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGACGATGTCAAGGCCAAACTGGAAGAGGCCCTGCTCCTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgagtttccaacactgtaaccttaagttagtcaagcttgttgcatagag Alignment from Spaln_nt2Genome GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGA-GACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG tcctggtggagacctagtaaactcaaagtgatggctacatgtcccaccagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGACGATGTCAAGGCCAAACTGGAAGAGGCCCTGCTCC-TGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgagtttccaacactgtaaccttaagttagtcaagcttgttgcatagag Alignment from Pairagon GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGA-GACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG tcctggtggagacctagtaaactcaaagtgatggctacatgtcccaccagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGACGATGTCAAGGCCAAACTGGAAGAGGCCCTGCTCC-TGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgagtttccaacactgtaaccttaagttagtcaagcttgttgcatagag Alignment from Exonerate_protein2genome GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG tcctggtggagacctagtaaactcaaagtgatggctacatgtcccaccagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGACGATGTCAAGGCCAAACTGGAAGAGGCCCTGCTCCTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgagtttccaacactgtaaccttaagttagtcaagcttgttgcatagag Alignment from Exonerate_coding2genome GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG tcctggtggagacctagtaaactcaaagtgatggctacatgtcccaccagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGACGATGTCAAGGCCAAACTGGAAGAGGCCCTGCTCCTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgagtttccaacactgtaaccttaagttagtcaagcttgttgcatagag Alignment from GeneWise GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG tcctggtggagacctagtaaactcaaagtgatggctacatgtcccaccagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGACGATGTCAAGGCCAAACTGGAAGAGGCCCTGCTCCTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgagtttccaacactgtaaccttaagttagtcaagcttgttgcatagag #### Dpf2_ID1305_8 --> 2 - 1 Original Alignment ccAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGAC-TTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAg cgaacaaaatagtgaatgcaattaaagcattgattttgtttctaattcagccAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACCTTCTGCCTTGGAGACTCAAAAATCAACAAGAAGA-AGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAggtgagaaacccactatacactccatgcaaaaggcttcactctatatcgct Alignment from CESAR ccAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGAC-TTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAg cgaacaaaatagtgaatgcaattaaagcattgattttgtttctaattcagccAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACCTTCTGCCTTGGAGACTCAAAAATCAACAAGAAG-AAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAggtgagaaacccactatacactccatgcaaaaggcttcactctatatcgct Alignment from Spaln_aa2Genome CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG cgaacaaaatagtgaatgcaattaaagcattgattttgtttctaattcagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACCTTCTGCCTTGGAGACTCAAAAATCAACAAGAAGAAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtgagaaacccactatacactccatgcaaaaggcttcactctatatcgct Alignment from Spaln_nt2Genome CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGA-CTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG cgaacaaaatagtgaatgcaattaaagcattgattttgtttctaattcagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACCTTCTGCCTTGGAGACTCAAAAATCAACAAGAAGA-AGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtgagaaacccactatacactccatgcaaaaggcttcactctatatcgct Alignment from Pairagon CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGA-CTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG cgaacaaaatagtgaatgcaattaaagcattgattttgtttctaattcagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACCTTCTGCCTTGGAGACTCAAAAATCAACAAGAAGA-AGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtgagaaacccactatacactccatgcaaaaggcttcactctatatcgct Alignment from Exonerate_protein2genome CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG cgaacaaaatagtgaatgcaattaaagcattgattttgtttctaattcagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACCTTCTGCCTTGGAGACTCAAAAATCAACAAGAAGAAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtgagaaacccactatacactccatgcaaaaggcttcactctatatcgct Alignment from Exonerate_coding2genome CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG cgaacaaaatagtgaatgcaattaaagcattgattttgtttctaattcagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACCTTCTGCCTTGGAGACTCAAAAATCAACAAGAAGAAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtgagaaacccactatacactccatgcaaaaggcttcactctatatcgct Alignment from GeneWise CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG cgaacaaaatagtgaatgcaattaaagcattgattttgtttctaattcagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACCTTCTGCCTTGGAGACTCAAAAATCAACAAGAAGAAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtgagaaacccactatacactccatgcaaaaggcttcactctatatcgct #### Dpp3_ID740_13 --> 0 - 2 Original Alignment ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCC-TCCAGCTACGAAGAGTGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGga tagggtagatggccaatctctaatttatgcctacctgcttacctgtgtagATCAAGAGCTGGTACCGGAGCGGTGAGACTTGGGACAGTGAATCTAGCACCATTGCCCTCACGGTATCAAGAGTGTCATGCCGAGAGTGTGG-CCTGTATCTCTGT---ACCCCACAAGTGTTAgagtaaggaaactctccaaattcacgggattcaatatatgttgtctcctgca Alignment from CESAR ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCC-TCCAGCTACGAAGAGTGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGga tagggtagatggccaatctctaatttatgcctacctgcttacctgtgtagATCAAGAGCTGGTACCGGAGCGGTGAGACTTGGGACAGTGAATCTAGCACCATTGCCCTCACGGTATCAAGAGTGTCATGCCGAGAGTG-TGGCCTGTATCTCTGT---ACCCCACAAGTGTTAgagtaaggaaactctccaaattcacgggattggcactgctctttctttccca Alignment from Spaln_aa2Genome ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAGTGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA tagggtagatggccaatctctaatttatgcctacctgcttacctgtgtagATCAAGAGCTGGTACCGGAGCGGTGAGACTTGGGACAGTGAATCTAGCACCATTGCCCTCACGGTATCAAGAGTGTCATGCCGAGAGTGTGGCCTGTATCTCTGT---ACCCCACAAGTGTTAGAgtaaggaaactctccaaattcacgggattcaatatatgttgtctcctgca Alignment from Spaln_nt2Genome ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCA-GCTACGAAGAGTGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA tagggtagatggccaatctctaatttatgcctacctgcttacctgtgtagATCAAGAGCTGGTACCGGAGCGGTGAGACTTGGGACAGTGAATCTAGCACCATTGCCCTCACGGTATCAAGAGTGTCATGCCGAGAGTGT-GGCCTGTATCTCTGT---ACCCCACAAGTGTTAGAgtaaggaaactctccaaattcacgggattcaatatatgttgtctcctgca Alignment from Pairagon ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCA-GCTACGAAGAGTGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA tagggtagatggccaatctctaatttatgcctacctgcttacctgtgtagATCAAGAGCTGGTACCGGAGCGGTGAGACTTGGGACAGTGAATCTAGCACCATTGCCCTCACGGTATCAAGAGTGTCATGCCGAGAGTGT-GGCCTGTATCTCTGT---ACCCCACAAGTGTTAGAgtaaggaaactctccaaattcacgggattcaatatatgttgtctcctgca Alignment from Exonerate_protein2genome ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAGTGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA tagggtagatggccaatctctaatttatgcctacctgcttacctgtgtagATCAAGAGCTGGTACCGGAGCGGTGAGACTTGGGACAGTGAATCTAGCACCATTGCCCTCACGGTATCAAGAGTGTCATGCCGAGAGTGTGGCCTGTATCTCTGT---ACCCCACAAGTGTTAGAgtaaggaaactctccaaattcacgggattcaatatatgttgtctcctgca Alignment from Exonerate_coding2genome ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAGTGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA tagggtagatggccaatctctaatttatgcctacctgcttacctgtgtagATCAAGAGCTGGTACCGGAGCGGTGAGACTTGGGACAGTGAATCTAGCACCATTGCCCTCACGGTATCAAGAGTGTCATGCCGAGAGTGTGGCCTGTATCTCTGT---ACCCCACAAGTGTTAGAgtaaggaaactctccaaattcacgggattcaatatatgttgtctcctgca Alignment from GeneWise ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAGTGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA tagggtagatggccaatctctaatttatgcctacctgcttacctgtgtagATCAAGAGCTGGTACCGGAGCGGTGAGACTTGGGACAGTGAATCTAGCACCATTGCCCTCACGGTATCAAGAGTGTCATGCCGAGAGTGTGGCCTGTATCTCTGT---ACCCCACAAGTGTTAGAgtaaggaaactctccaaattcacgggattcaatatatgttgtctcctgca #### Dpp3_ID743_10 --> 2 - 0 Original Alignment acGATGACCTGAGACAGACAGAAGGCTTT-AAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcagtacaaatatagtccactcctgtctgtctgtccttttcccccagacGATGACCTGAGACAAACAGAAGGCTTTCAAGAACGTATCACTGGGGAATGTGCTGGCTG-GGCCTATGCTGCAAAGCGAGAGAAGCTAACATTCTTGGAGGAGGAAGACAAGgtgagcatggccccccaagcttatggtgttgctgttctggtactgggcaa Alignment from CESAR acGATGACCTGAGACAGACAGAAGGCTTT-AAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcagtacaaatatagtccactcctgtctgtctgtccttttcccccagacGATGACCTGAGACAAACAGAAGGCTTTCAAGAACGTATCACTGGGGAATGTGCTGGCT-GGGCCTATGCTGCAAAGCGAGAGAAGCTAACATTCTTGGAGGAGGAAGACAAGgtgagcatggccccccaagcttatggtgttgctgttctggtactgggcaa Alignment from Spaln_aa2Genome ACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcagtacaaatatagtccactcctgtctgtctgtccttttcccccagACGATGACCTGAGACAAACAGAAGGCTTTCAAGAACGTATCACTGGGGAATGTGCTGGCTGGGCCTATGCTGCAAAGCGAGAGAAGCTAACATTCTTGGAGGAGGAAGACAAGgtgagcatggccccccaagcttatggtgttgctgttctggtactgggcaa Alignment from Spaln_nt2Genome ACGATGACCTGAGACAGACAGAAGGCTTTA-AGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcagtacaaatatagtccactcctgtctgtctgtccttttcccccagACGATGACCTGAGACAAACAGAAGGCTTTCAAGAACGTATCACTGGGGAATGTGCTGGCTG-GGCCTATGCTGCAAAGCGAGAGAAGCTAACATTCTTGGAGGAGGAAGACAAGgtgagcatggccccccaagcttatggtgttgctgttctggtactgggcaa Alignment from Pairagon ACGATGACCTGAGACAGACAGAAGGCTTT-AAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcagtacaaatatagtccactcctgtctgtctgtccttttcccccagACGATGACCTGAGACAAACAGAAGGCTTTCAAGAACGTATCACTGGGGAATGTGCTGGCTG-GGCCTATGCTGCAAAGCGAGAGAAGCTAACATTCTTGGAGGAGGAAGACAAGgtgagcatggccccccaagcttatggtgttgctgttctggtactgggcaa Alignment from Exonerate_protein2genome ACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcagtacaaatatagtccactcctgtctgtctgtccttttcccccagACGATGACCTGAGACAAACAGAAGGCTTTCAAGAACGTATCACTGGGGAATGTGCTGGCTGGGCCTATGCTGCAAAGCGAGAGAAGCTAACATTCTTGGAGGAGGAAGACAAGgtgagcatggccccccaagcttatggtgttgctgttctggtactgggcaa Alignment from Exonerate_coding2genome ACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcagtacaaatatagtccactcctgtctgtctgtccttttcccccagACGATGACCTGAGACAAACAGAAGGCTTTCAAGAACGTATCACTGGGGAATGTGCTGGCTGGGCCTATGCTGCAAAGCGAGAGAAGCTAACATTCTTGGAGGAGGAAGACAAGgtgagcatggccccccaagcttatggtgttgctgttctggtactgggcaa Alignment from GeneWise ACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcagtacaaatatagtccactcctgtctgtctgtccttttcccccagACGATGACCTGAGACAAACAGAAGGCTTTCAAGAACGTATCACTGGGGAATGTGCTGGCTGGGCCTATGCTGCAAAGCGAGAGAAGCTAACATTCTTGGAGGAGGAAGACAAGgtgagcatggccccccaagcttatggtgttgctgttctggtactgggcaa #### Dpp3_ID746_7 --> 0 - 2 Original Alignment GCTTATGCAGCCAACAGC-CACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGag gaatgtgtggattgatcaaaatgaagatttattttgttattcttgttaagGCATATGCAGCCAACTGCCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTG-GGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTTGTAAAGaggtgacatgtcatccaagcctcccaatatctctttcaatacaccctctagg Alignment from CESAR GCTTATGCAGCCAAC-AGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGag gaatgtgtggattgatcaaaatgaagatttattttgttattcttgttaagGCATATGCAGCCAACTGCCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACT-GGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTTGTAAAGaggtgacatgtcatccaagcctcccaatatctctttcaatacaccctctagg Alignment from Spaln_aa2Genome GCTTATGCAGCCAAC-AGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gaatgtgtggattgatcaaaatgaagatttattttgttattcttgttaagGCATATGCAGCCAACtGCCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGG-GGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTTGTAAAGAGgtgacatgtcatccaagcctcccaatatctctttcaatacaccctctagg Alignment from Spaln_nt2Genome GCTTATGCAGCCAACAGCC-ACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gaatgtgtggattgatcaaaatgaagatttattttgttattcttgttaagGCATATGCAGCCAACTGCCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCA-CTGGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTTGTAAAGAGgtgacatgtcatccaagcctcccaatatctctttcaatacaccctctagg Alignment from Pairagon ----------------------------------------------TAAGGCTTATGCAGCCAACAGCC-ACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG GAATGTGTGGATTGATCAAAATGAAGATTTATTTTGTTATTCTTGTTAAGGCATATGCAGCCAACTGCCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCA-CTGGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTTGTAAAGAGgtgacatgtcatccaagcctcccaatatctctttcaatacaccctctagg Alignment from Exonerate_protein2genome GCTTATGCAGCCAAC-AGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACC--CAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gaatgtgtggattgatcaaaatgaagatttattttgttattcttgttaagGCATATGCAGCCAACTGCCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGG---GGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTTGTAAAGAGgtgacatgtcatccaagcctcccaatatctctttcaatacaccctctagg Alignment from Exonerate_coding2genome GCTTATGCAGCCAAC-AGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACC--CAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gaatgtgtggattgatcaaaatgaagatttattttgttattcttgttaagGCATATGCAGCCAACTGCCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGG---GGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTTGTAAAGAGgtgacatgtcatccaagcctcccaatatctctttcaatacaccctctagg Alignment from GeneWise GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gaatgtgtggattgatcaaaatgaagatttattttgttattcttgttaagGCATATGCAGCCAACTGCCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTTGTAAAGAGgtgacatgtcatccaagcctcccaatatctctttcaatacaccctctagg #### Drap1_ID985_5 --> 1 - 0 Original Alignment CCTCGAag gGGCCGGAAACCGGGC-AGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAaggtaaggggctaggggcctgcttcttttcttgttgcttttcagaGGCTGTAAACCAGGTCAGCAGTGGCAAGAAAAATGGTGGCACAGGAA-CAAGGGTAAAGATAAAAAGCTCTCTGGGACAGATTCCGAACAAGAGgtgagtgggctagtaagtgatgagttatgtctgctttttgtagccaagcc Alignment from CESAR CCTCGAag gGGCCGGAAACCGGGC-AGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAaggtaaagggctaggggcctgcttcttttcttgttgcttttcagaGGCTGTAAACCAGGTCAGCAGTGGCAAGAAAAATGGTGGCACAG-GAACAAGGGTAAAGATAAAAAGCTCTCTGGGACAGATTCCGAACAAGAGgtgagtgggctagtaagtgatgagttatgtctgctttttgtagccaagcc Alignment from Spaln_aa2Genome CCTCGAAG GGGCCGGAAACCGGGC-AGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAAGgtaaggggctaggggcctgcttcttttcttgttgcttttcagAGGCTGTAAACCAGGTcAGCAGTGGCAAGAAAAATGGTGGCACAGGAAC-AAGGGTAAAGATAAAAAGCTCTCTGGGACAGATTCCGAACAAGAGgtgagtgggctagtaagtgatgagttatgtctgctttttgtagccaagcc Alignment from Spaln_nt2Genome CCTCGAAG GGGCCGGAAACCGGG-CAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAAGgtaaggggctaggggcctgcttcttttcttgttgcttttcagAGGCTGTAAACCAGGTCAGCAGTGGCAAGAAAAATGGTGGCACAGGAA-CAAGGGTAAAGATAAAAAGCTCTCTGGGACAGATTCCGAACAAGAGgtgagtgggctagtaagtgatgagttatgtctgctttttgtagccaagcc Alignment from Pairagon CCTCGAAG GGGCCGGAAACCGGG-CAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAAGgtaaggggctaggggcctgcttcttttcttgttgcttttcagAGGCTGTAAACCAGGTCAGCAGTGGCAAGAAAAATGGTGGCACAGGAA-CAAGGGTAAAGATAAAAAGCTCTCTGGGACAGATTCCGAACAAGAGgtgagtgggctagtaagtgatgagttatgtctgctttttgtagccaagcc Alignment from Exonerate_protein2genome CCTCGAAG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAAGgtaaggggctaggggcctgcttcttttcttgttgcttttcagAGGCTGTAAACCAGGTCAGCAGTGGCAAGAAAAATGGTGGCACAGGAACAAGGGTAAAGATAAAAAGCTCTCTGGGACAGATTCCGAACAAGAGgtgagtgggctagtaagtgatgagttatgtctgctttttgtagccaagcc Alignment from Exonerate_coding2genome CCTCGAAG CCTCGAAGgtaaggggctaggggcctgcttcttttcttgttgcttttcagaggctgtaaaccaggtcagcagtggcaagaaaaatggtggcacaggaacaagggtaaagataaaaagctctctgggacagattccgaacaagaggtgagtgggctagtaagtgatgagttatgtctgctttttgtagccaagcc Alignment from GeneWise CCTCGAAG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAAGgtaaggggctaggggcctgcttcttttcttgttgcttttcagAGGCTGTAAACCAGGTCAGCAGTGGCAAGAAAAATGGTGGCACAGGAACAAGGGTAAAGATAAAAAGCTCTCTGGGACAGATTCCGAACAAGAGgtgagtgggctagtaagtgatgagttatgtctgctttttgtagccaagcc #### Eef1g_ID2562_4 --> 2 - 0 Original Alignment taAGCAATGAGGAGCTGCGAGGA-AGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG caagcctgaggttgttatgtactaaatgcctattctcttatatctaacagtgAGCAATGAGGAACTGCGAGGACAGTGCACCAGAAGCAGCAGCTCAGGTAGCACAGTGGGTTA-CTTTACAGACAGTGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtacagtggttgtctaccagtagaatgagaatggtaagtgcacattttga Alignment from CESAR taAGCAATGAGGAGCTGCGAGGA-AGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG caagcctgaggttgttatgtactaaatgcctattctcttatatctaacagtgAGCAATGAGGAACTGCGAGGACAGTGCACCAGAAGCAGCAGCTCAGGTAGCACAGTGGGTTA-CTTTACAGACAGTGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtacagtggttgtctaccagtagaatgagaatggtaagtgcacattttga Alignment from Spaln_aa2Genome TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG caagcctgaggttgttatgtactaaatgcctattctcttatatctaacagTGAGCAATGAGGAACTGCGAGGACAGTGCACCAGAAGCAGCAGCTCAGGTAGCACAGTGGGTTACTTTACAGACAGTGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtacagtggttgtctaccagtagaatgagaatggtaagtgcacattttga Alignment from Spaln_nt2Genome TAAGCAATGAGGAGCTGCGAGGA-AGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG caagcctgaggttgttatgtactaaatgcctattctcttatatctaacagTGAGCAATGAGGAACTGCGAGGACAGTGCACCAGAAGCAGCAGCTCAGGTAGCACAGTGGGTTA-CTTTACAGACAGTGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtacagtggttgtctaccagtagaatgagaatggtaagtgcacattttga Alignment from Pairagon TAAGCAATGAGGAGCTGCGAGGA-AGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG caagcctgaggttgttatgtactaaatgcctattctcttatatctaacagTGAGCAATGAGGAACTGCGAGGACAGTGCACCAGAAGCAGCAGCTCAGGTAGCACAGTGGGTTA-CTTTACAGACAGTGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtacagtggttgtctaccagtagaatgagaatggtaagtgcacattttga Alignment from Exonerate_protein2genome TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG caagcctgaggttgttatgtactaaatgcctattctcttatatctaacagTGAGCAATGAGGAACTGCGAGGACAGTGCACCAGAAGCAGCAGCTCAGGTAGCACAGTGGGTTACTTTACAGACAGTGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtacagtggttgtctaccagtagaatgagaatggtaagtgcacattttga Alignment from Exonerate_coding2genome TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG caagcctgaggttgttatgtactaaatgcctattctcttatatctaacagTGAGCAATGAGGAACTGCGAGGACAGTGCACCAGAAGCAGCAGCTCAGGTAGCACAGTGGGTTACTTTACAGACAGTGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtacagtggttgtctaccagtagaatgagaatggtaagtgcacattttga Alignment from GeneWise TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG caagcctgaggttgttatgtactaaatgcctattctcttatatctaacagTGAGCAATGAGGAACTGCGAGGACAGTGCACCAGAAGCAGCAGCTCAGGTAGCACAGTGGGTTACTTTACAGACAGTGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtacagtggttgtctaccagtagaatgagaatggtaagtgcacattttga #### Eef1g_ID2567_9 --> 2 - 0 Original Alignment ggATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACCAAC-AACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG gaataaggataaacagagccaggagggtaattttaaccattatcttgtaggtATGTTCCAACGGCTGGACAAACTGCGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACTAATCAACAGCAGTTCTATTTCTGGAGTTTGGGTCTTTCGTGGCC-GGAGCTTGCCTATCCAgtgagtcttcagtatgagagcctcatggtggggacttagaagcttggaaa Alignment from CESAR ggATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACCAAC-AACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG gaataaggataaacagagccaggagggtaattttaaccattatcttgtaggtATGTTCCAACGGCTGGACAAACTGCGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACTAATCAACAGCAGTTCTATTTCTGGAGTTTGGGTCTTTCGTGGC-CGGAGCTTGCCTATCCAgtgagtcttcagtatgagagcctcatggtggggacttagaagcttggaaa Alignment from Spaln_aa2Genome GGATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACCAAC-AACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCGCTGAG gaataaggataaacagagccaggagggtaattttaaccattatcttgtagGTATGTTCCAACGGCTGGACAAACTGCGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACTAATcAACAGCAGTTCTATTTCTGGAGTTTGGGTCTTTCGTGGCCGGAGCTTG------CCTATCCAgtgagtcttcagtatgagagcctcatggtggggacttagaagcttggaaa Alignment from Spaln_nt2Genome GGATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACCAA-CAACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG gaataaggataaacagagccaggagggtaattttaaccattatcttgtagGTATGTTCCAACGGCTGGACAAACTGCGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACTAATCAACAGCAGTTCTATTTCTGGAGTTTGGGTCTTTCGTGGCC-GGAGCTTGCCTATCCAgtgagtcttcagtatgagagcctcatggtggggacttagaagcttggaaa Alignment from Pairagon GGATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACCAA-CAACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG gaataaggataaacagagccaggagggtaattttaaccattatcttgtagGTATGTTCCAACGGCTGGACAAACTGCGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACTAATCAACAGCAGTTCTATTTCTGGAGTTTGGGTCTTTCGTGGCC-GGAGCTTGCCTATCCAgtgagtcttcagtatgagagcctcatggtggggacttagaagcttggaaa Alignment from Exonerate_protein2genome GGATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACCAAC-AACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCC gaataaggataaacagagccaggagggtaattttaaccattatcttgtagGTATGTTCCAACGGCTGGACAAACTGCGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACTAATCAACAGCAGTTCTATTTCTGGAGTTTGGGTCTTTCGTGGCCGGAGCTTGCCTATCCAgtgagtcttcagtatgagagcctcatggtggggacttagaagcttggaaa Alignment from Exonerate_coding2genome GGATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACCAAC-AACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCC gaataaggataaacagagccaggagggtaattttaaccattatcttgtagGTATGTTCCAACGGCTGGACAAACTGCGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACTAATCAACAGCAGTTCTATTTCTGGAGTTTGGGTCTTTCGTGGCCGGAGCTTGCCTATCCAgtgagtcttcagtatgagagcctcatggtggggacttagaagcttggaaa Alignment from GeneWise -------------------------------------------------GGGATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACCAAC-AACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCGCTGAG GAATAAGGATAAACAGAGCCAGGAGGGTAATTTTAACCATTATCTTGTAGGTATGTTCCAACGGCTGGACAAACTGCGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACTAATCAACAGCAGTTCTATTTCTGGAGTTTGGGTCTTTCGTGGCCGGAGCTTG------CCTATCCAgtgagtcttcagtatgagagcctcatggtggggacttagaagcttggaaa #### Efemp2_ID1034_7 --> 2 - 1 Original Alignment atATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAAC-GAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAg tctcaaattttctgcatgaccaataactgtctccccactctttaacacagatATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAATCGAGCCTGGCCAATTCTCCTGCCACTGCC-ACAGGGCTACCAGCTGCTGGCAACGAGGCTCTGCCAAggtgagtaggcttgggttgacaagcacagaaattccataatttaccatgag Alignment from CESAR atATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAAC-GAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAg tctcaaattttctgcatgaccaataactgtctccccactctttaacacagatATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAATCGAGCCTGGCCAATTCTCCTGCCACT-GCCACAGGGCTACCAGCTGCTGGCAACGAGGCTCTGCCAAggtgagtaggcttgggttgacaagcacagaaattccataatttaccatgag Alignment from Spaln_aa2Genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaattttctgcatgaccaataactgtctccccactctttaacacagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAATCGAGCCTGGCCAATTCTCCTGCCACTGCCACAGGGCTACCAGCTGCTGGCAACGAGGCTCTGCCAAGgtgagtaggcttgggttgacaagcacagaaattccataatttaccatgag Alignment from Spaln_nt2Genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAA-CGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaattttctgcatgaccaataactgtctccccactctttaacacagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAATCGAGCCTGGCCAATTCTCCTGCCACTG-CCACAGGGCTACCAGCTGCTGGCAACGAGGCTCTGCCAAGgtgagtaggcttgggttgacaagcacagaaattccataatttaccatgag Alignment from Pairagon ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAA-CGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaattttctgcatgaccaataactgtctccccactctttaacacagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAATCGAGCCTGGCCAATTCTCCTGCCACTG-CCACAGGGCTACCAGCTGCTGGCAACGAGGCTCTGCCAAGgtgagtaggcttgggttgacaagcacagaaattccataatttaccatgag Alignment from Exonerate_protein2genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaattttctgcatgaccaataactgtctccccactctttaacacagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAATCGAGCCTGGCCAATTCTCCTGCCACTGCCACAGGGCTACCAGCTGCTGGCAACGAGGCTCTGCCAAGgtgagtaggcttgggttgacaagcacagaaattccataatttaccatgag Alignment from Exonerate_coding2genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaattttctgcatgaccaataactgtctccccactctttaacacagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAATCGAGCCTGGCCAATTCTCCTGCCACTGCCACAGGGCTACCAGCTGCTGGCAACGAGGCTCTGCCAAGgtgagtaggcttgggttgacaagcacagaaattccataatttaccatgag Alignment from GeneWise ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaattttctgcatgaccaataactgtctccccactctttaacacagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAATCGAGCCTGGCCAATTCTCCTGCCACTGCCACAGGGCTACCAGCTGCTGGCAACGAGGCTCTGCCAAGgtgagtaggcttgggttgacaagcacagaaattccataatttaccatgag #### Ehbp1l1_ID1230_5 --> 0 - 2 Original Alignment GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTT-CGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCac ctctcccacccctgccagagtacggaactaatgaccctctgtctccctagGAGTCAAAGGGACAGCGGAAAGTATTAGCCACAGTTGGTGTCAATTCAGACCATCATGCAGGGCCCCTACCTGCCCAGATCTCACTTCCAATTGCGGCAGAAGCCCAAGTCCATCAAAGTTGTAC-TGCTGAGCTTAGCCTCACACTTGCAGTC---CTTCTACAAGAAGGCCGTGCCatgtaagtgtacctttacgctgttttacactgaggcttggcagcacgcatta Alignment from CESAR GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTT-CGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCac ctctcccacccctgccagagtacggaactaatgaccctctgtctccctagGAGTCAAAGGGACAGCGGAAAGTATTAGCCACAGTTGGTGTCAATTCAGACCATCATGCAGGGCCCCTACCTGCCCAGATCTCACTTCCAATTGCGGCAGAAGCCCAAGTCCATCAAAGTTGTA-CTGCTGAGCTTAGCCTCACACTTGCA---GTCCTTCTACAAGAAGGCCGTGCCatgtaagtgtacctttacgctgttttacactgaggcttggcagcacgcatta Alignment from Spaln_aa2Genome GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC ctctcccacccctgccagagtacggaactaatgaccctctgtctccctagGAGTCAAAGGGACAGCGGAAAGTATTAGCCACAGTTGGTGTCAATTCAGACCATCATGCAGGGCCCCTACCTGCCCAGATCTCACTTCCAATTGCGGCAGAAGCCCAAGTCCATCAAAGTTGTACTGCTGAGCTTAGCCTCACACTTGCA---GTCCTTCTACAAGAAGGCCGTGCCATgtaagtgtacctttacgctgttttacactgaggcttggcagcacgcatta Alignment from Spaln_nt2Genome GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACT-GCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC ctctcccacccctgccagagtacggaactaatgaccctctgtctccctagGAGTCAAAGGGACAGCGGAAAGTATTAGCCACAGTTGGTGTCAATTCAGACCATCATGCAGGGCCCCTACCTGCCCAGATCTCACTTCCAATTGCGGCAGAAGCCCAAGTCCATCAAAGTTGTAC-TGCTGAGCTTAGCCTCACACT---TGCAGTCCTTCTACAAGAAGGCCGTGCCATgtaagtgtacctttacgctgttttacactgaggcttggcagcacgcatta Alignment from Pairagon GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTT-CGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC ctctcccacccctgccagagtacggaactaatgaccctctgtctccctagGAGTCAAAGGGACAGCGGAAAGTATTAGCCACAGTTGGTGTCAATTCAGACCATCATGCAGGGCCCCTACCTGCCCAGATCTCACTTCCAATTGCGGCAGAAGCCCAAGTCCATCAAAGTTGTAC-TGCTGAGCTTAGCCTCACACT---TGCAGTCCTTCTACAAGAAGGCCGTGCCATgtaagtgtacctttacgctgttttacactgaggcttggcagcacgcatta Alignment from Exonerate_protein2genome ctctcccacccctgccagagtacggaactaatgaccctctgtctccctaggagtcaaagggacagcggaaagtattagccacagttggtgtcaattcagaccatcatgcagggcccctacctgcccagatctcacttccaattgcggcagaagcccaagtccatcaaagttgtactgctgagcttagcctcacacttgcagtccttctacaagaaggccgtgccatgtaagtgtacctttacgctgttttacactgaggcttggcagcacgcatta Alignment from Exonerate_coding2genome ctctcccacccctgccagagtacggaactaatgaccctctgtctccctaggagtcaaagggacagcggaaagtattagccacagttggtgtcaattcagaccatcatgcagggcccctacctgcccagatctcacttccaattgcggcagaagcccaagtccatcaaagttgtactgctgagcttagcctcacacttgcagtccttctacaagaaggccgtgccatgtaagtgtacctttacgctgttttacactgaggcttggcagcacgcatta Alignment from GeneWise GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC ctctcccacccctgccagagtacggaactaatgaccctctgtctccctagGAGTCAAAGGGACAGCGGAAAGTATTAGCCACAGTTGGTGTCAATTCAGACCATCATGCAGGGCCCCTACCTGCCCAGATCTCACTTCCAATTGCGGCAGAAGCCCAAGTCCATCAAAGTTGTACTGCTGAGCTTAGCCTCACACTTGCA---GTCCTTCTACAAGAAGGCCGTGCCATgtaagtgtacctttacgctgttttacactgaggcttggcagcacgcatta #### Eif3a_ID13317_13 --> 0 - 0 Original Alignment GACCTTGAAGAACTGGATCCAGATTTTATT-ATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG cataaagctgtagaactttatgataggttagtgtatttttaaatggccagGACTTTGAAGAACTGGATCAGGATTTTATACATGGCCAAACAGGTAGAACAGCTGGAAAAGGAAAAGA-AGAACTTCAAGAACGCCTCAAAACGCAAGAGGAGAAGgtgagtatggatcactgataagatctgaaagtaaattggatcaaaagagt Alignment from CESAR GACCTTGAAGAACTGGATCCAGATTTTATT-ATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG cataaagctgtagaactttatgataggttagtgtatttttaaatggccagGACTTTGAAGAACTGGATCAGGATTTTATACATGGCCAAACAGGTAGAACAGCTGGAAAAGGAAAAGA-AGAACTTCAAGAACGCCTCAAAACGCAAGAGGAGAAGgtgagtatggatcactgataagatctgaaagtaaattggatcaaaagagt Alignment from Spaln_aa2Genome GACCTTGAAGAACTGGATCCAGATTTTATT-ATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG cataaagctgtagaactttatgataggttagtgtatttttaaatggccagGACTTTGAAGAACTGGATCAGGATTTTATAcATGGCCAAACAGGTAGAACAGCTGGAAAAGGAAAAGAA-GAACTTCAAGAACGCCTCAAAACGCAAGAGGAGAAGgtgagtatggatcactgataagatctgaaagtaaattggatcaaaagagt Alignment from Spaln_nt2Genome GACCTTGAAGAACTGGATCCAGATTTTATT-ATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG cataaagctgtagaactttatgataggttagtgtatttttaaatggccagGACTTTGAAGAACTGGATCAGGATTTTATACATGGCCAAACAGGTAGAACAGCTGGAAAAGGAAAAGAA-GAACTTCAAGAACGCCTCAAAACGCAAGAGGAGAAGgtgagtatggatcactgataagatctgaaagtaaattggatcaaaagagt Alignment from Pairagon GACCTTGAAGAACTGGATCCAGATTTTAT-TATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG cataaagctgtagaactttatgataggttagtgtatttttaaatggccagGACTTTGAAGAACTGGATCAGGATTTTATACATGGCCAAACAGGTAGAACAGCTGGAAAAGGAAAAGAA-GAACTTCAAGAACGCCTCAAAACGCAAGAGGAGAAGgtgagtatggatcactgataagatctgaaagtaaattggatcaaaagagt Alignment from Exonerate_protein2genome GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG cataaagctgtagaactttatgataggttagtgtatttttaaatggccagGACTTTGAAGAACTGGATCAGGATTTTATACATGGCCAAACAGGTAGAACAGCTGGAAAAGGAAAAGAAGAACTTCAAGAACGCCTCAAAACGCAAGAGGAGAAGgtgagtatggatcactgataagatctgaaagtaaattggatcaaaagagt Alignment from Exonerate_coding2genome GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG cataaagctgtagaactttatgataggttagtgtatttttaaatggccagGACTTTGAAGAACTGGATCAGGATTTTATACATGGCCAAACAGGTAGAACAGCTGGAAAAGGAAAAGAAGAACTTCAAGAACGCCTCAAAACGCAAGAGGAGAAGgtgagtatggatcactgataagatctgaaagtaaattggatcaaaagagt Alignment from GeneWise GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG cataaagctgtagaactttatgataggttagtgtatttttaaatggccagGACTTTGAAGAACTGGATCAGGATTTTATACATGGCCAAACAGGTAGAACAGCTGGAAAAGGAAAAGAAGAACTTCAAGAACGCCTCAAAACGCAAGAGGAGAAGgtgagtatggatcactgataagatctgaaagtaaattggatcaaaagagt #### Eml3_ID2507_6 --> 2 - 2 Original Alignment aaGGCATTTCAGTGAAG-ATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGgt gtgccaagtgctctcctaaaagaagggttgttgttgttgtttttttgtagaaGGGATCTCAGTGAAGCATGTTCCTTTGTGGCCGTCCCATTACAATGT-CATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCCTGACCCTTGAATGGgtgtaagtggttgaaactgtcacacacaatagaaaggctggcatttttgcgg Alignment from CESAR aaGGCATTTCAGTGAAG-ATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGgt gtgccaagtgctctcctaaaagaagggttgttgttgttgtttttttgtagaaGGGATCTCAGTGAAGCATGTTCCTTTGTGGCCGTCCCATTACAATG-TCATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCCTGACCCTTGAATGGgtgtaagtggttgaaactgtcacacacaatagaaaggctggcatttttgcgg Alignment from Spaln_aa2Genome AAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT gtgccaagtgctctcctaaaagaagggttgttgttgttgtttttttgtagAAGGGATCTCAGTGAAGCATGTTCCTTTGTGGCCGTCCCATTACAATGTCATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCCTGACCCTTGAATGGGTgtaagtggttgaaactgtcacacacaatagaaaggctggcatttttgcgg Alignment from Spaln_nt2Genome AAGGCATTTCAGTGAAG-ATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT gtgccaagtgctctcctaaaagaagggttgttgttgttgtttttttgtagAAGGGATCTCAGTGAAGCATGTTCCTTTGTGGCCGTCCCATTACAATGT-CATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCCTGACCCTTGAATGGGTgtaagtggttgaaactgtcacacacaatagaaaggctggcatttttgcgg Alignment from Pairagon AAGGCATTTCAGTGAAG-ATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT gtgccaagtgctctcctaaaagaagggttgttgttgttgtttttttgtagAAGGGATCTCAGTGAAGCATGTTCCTTTGTGGCCGTCCCATTACAATGT-CATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCCTGACCCTTGAATGGGTgtaagtggttgaaactgtcacacacaatagaaaggctggcatttttgcgg Alignment from Exonerate_protein2genome AAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT gtgccaagtgctctcctaaaagaagggttgttgttgttgtttttttgtagAAGGGATCTCAGTGAAGCATGTTCCTTTGTGGCCGTCCCATTACAATGTCATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCCTGACCCTTGAATGGGTgtaagtggttgaaactgtcacacacaatagaaaggctggcatttttgcgg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT gtgccaagtgctctcctaaaagaagggttgttgttgttgtttttttgtagAAGGGATCTCAGTGAAGCATGTTCCTTTGTGGCCGTCCCATTACAATGTCATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCCTGACCCTTGAATGGGTgtaagtggttgaaactgtcacacacaatagaaaggctggcatttttgcgg #### Eml3_ID2508_7 --> 1 - 2 Original Alignment tTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTT-ATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGAtg ttccttctgctaatccccctccatagcctgctttgcgtcttgctttgcagtTATGGATATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACCTTCATTGCCTGTGTAGTGGTACTGTACCGGCCGGGAGGAG-CCCGGGTGGACCAGGAGGTGGTGGTCAGAGACATTATCGGGGCCACACAGACTGTGTTCGAtggtgagtactgtggtaaatactttattcctgttgccttcaaggaactggtt Alignment from CESAR tTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTAC-TTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGAtg ttccttctgctaatccccctccatagcctgctttgcgtcttgctttgcagtTATGGATATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACCTTCATTGCCTGTGTAGTGGTACTGTACCGGCCGGGAG-GAGCCCGGGTGGACCAGGAGGTGGTGGTCAGAGACATTATCGGGGCCACACAGACTGTGTTCGAtggtgagtactgtggtaaatactttattcctgttgccttcaaggaactggtt Alignment from Spaln_aa2Genome TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTAC-TTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttccttctgctaatccccctccatagcctgctttgcgtcttgctttgcagTTATGGATATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACcTTCATTGCCTGTGTAGTGGTACTGTACCGGCCGGGAGGAGC-CCGGGTGGACCAGGAGGTGGTGGTCAGAGACATTATCGGGGCCACACAGACTGTGTTCGATGgtgagtactgtggtaaatactttattcctgttgccttcaaggaactggtt Alignment from Spaln_nt2Genome TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTA-CTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttccttctgctaatccccctccatagcctgctttgcgtcttgctttgcagTTATGGATATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACCTTCATTGCCTGTGTAGTGGTACTGTACCGGCCGGGAGGA-GCCCGGGTGGACCAGGAGGTGGTGGTCAGAGACATTATCGGGGCCACACAGACTGTGTTCGATGgtgagtactgtggtaaatactttattcctgttgccttcaaggaactggtt Alignment from Pairagon TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTA-CTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttccttctgctaatccccctccatagcctgctttgcgtcttgctttgcagTTATGGATATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACCTTCATTGCCTGTGTAGTGGTACTGTACCGGCCGGGAGGA-GCCCGGGTGGACCAGGAGGTGGTGGTCAGAGACATTATCGGGGCCACACAGACTGTGTTCGATGgtgagtactgtggtaaatactttattcctgttgccttcaaggaactggtt Alignment from Exonerate_protein2genome TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTAC-TTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGA--GGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttccttctgctaatccccctccatagcctgctttgcgtcttgctttgcagTTATGGATATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACCTTCATTGCCTGTGTAGTGGTACTGTACCGGCCGGGAGGAGC---CCGGGTGGACCAGGAGGTGGTGGTCAGAGACATTATCGGGGCCACACAGACTGTGTTCGATGgtgagtactgtggtaaatactttattcctgttgccttcaaggaactggtt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttccttctgctaatccccctccatagcctgctttgcgtcttgctttgcagTTATGGATATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACCTTCATTGCCTGTGTAGTGGTACTGTACCGGCCGGGAGGAGCCCGGGTGGACCAGGAGGTGGTGGTCAGAGACATTATCGGGGCCACACAGACTGTGTTCGATGgtgagtactgtggtaaatactttattcctgttgccttcaaggaactggtt #### Eml3_ID2509_8 --> 1 - 0 Original Alignment cCTTGCTGTTCACCCTGAT-GGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG gtgctgcggtggaaccgatgatttcatgggcttctcatatctctttacagtCTTGCTGTACATCCTGATCGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGCG-GGACAAGGATGGAAAGgtgagagccagcatgcagatggcaatgagatcattgatcaagttttctgt Alignment from CESAR cCTTGCTGTTCACCCTGAT-GGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG gtgctgcggtggaaccgatgatttcatgggcttctcatatctctttacagtCTTGCTGTACATCCTGATCGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGC-GGGACAAGGATGGAAAGgtgagagccagcatgcagatggcaatgagatcattgatcaagttttctgt Alignment from Spaln_aa2Genome CCTTGCTGTTCACCCTGAT-GGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG gtgctgcggtggaaccgatgatttcatgggcttctcatatctctttacagTCTTGCTGTACATCCTGATcGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGCGG-GACAAGGATGGAAAGgtgagagccagcatgcagatggcaatgagatcattgatcaagttttctgt Alignment from Spaln_nt2Genome CCTTGCTGTTCACCCTGAT-GGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG gtgctgcggtggaaccgatgatttcatgggcttctcatatctctttacagTCTTGCTGTACATCCTGATCGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGCGG-GACAAGGATGGAAAGgtgagagccagcatgcagatggcaatgagatcattgatcaagttttctgt Alignment from Pairagon CCTTGCTGTTCACCCTGAT-GGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG gtgctgcggtggaaccgatgatttcatgggcttctcatatctctttacagTCTTGCTGTACATCCTGATCGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGCG-GGACAAGGATGGAAAGgtgagagccagcatgcagatggcaatgagatcattgatcaagttttctgt Alignment from Exonerate_protein2genome CCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG gtgctgcggtggaaccgatgatttcatgggcttctcatatctctttacagTCTTGCTGTACATCCTGATCGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGCGGGACAAGGATGGAAAGgtgagagccagcatgcagatggcaatgagatcattgatcaagttttctgt Alignment from Exonerate_coding2genome CCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG gtgctgcggtggaaccgatgatttcatgggcttctcatatctctttacagTCTTGCTGTACATCCTGATCGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGCGGGACAAGGATGGAAAGgtgagagccagcatgcagatggcaatgagatcattgatcaagttttctgt Alignment from GeneWise CCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGA----------------------------------------------------- gtgctgcggtggaaccgatgatttcatgggcttctcatatctctttacagTCTTGCTGTACATCCTGATCGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGCGGGACAAGGATGGAAAGGTGAGAGCCAGCATGCAGATGGCAATGAGATCATTGATCAAGTTTTCTGT #### Eml3_ID2510_9 --> 0 - 0 Original Alignment CCCCTGCAGCCCGTGGTTCATATCTGG-GACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagttttctgtccttctcgataatcaatttcctttctagCCCCTGCAGCCGGTGGTTCATACCTGGCGACTCAGAAACACTCCTAAAACTGCAGGAAATTG-CCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtatgacagggatggggacatgtttgtgaccccattatcttgtttattaa Alignment from CESAR CCCCTGCAGCCCGTGGTTCATATCTGG-GACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagttttctgtccttctcgataatcaatttcctttctagCCCCTGCAGCCGGTGGTTCATACCTGGCGACTCAGAAACACTCCTAAAACTGCAGGAAATT-GCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtatgacagggatggggacatgtttgtgaccccattatcttgtttattaa Alignment from Spaln_aa2Genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagttttctgtccttctcgataatcaatttcctttctagCCCCTGCAGCCGGTGGTTCATACCTGGCGACTCAGAAACACTCCTAAAACTGCAGGAAATTGCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtatgacagggatggggacatgtttgtgaccccattatcttgtttattaa Alignment from Spaln_nt2Genome CCCCTGCAGCCCGTGGTTCATATCTGG-GACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagttttctgtccttctcgataatcaatttcctttctagCCCCTGCAGCCGGTGGTTCATACCTGGCGACTCAGAAACACTCCTAAAACTGCAGGAAATT-GCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtatgacagggatggggacatgtttgtgaccccattatcttgtttattaa Alignment from Pairagon CCCCTGCAGCCCGTGGTTCATATCTGG-GACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagttttctgtccttctcgataatcaatttcctttctagCCCCTGCAGCCGGTGGTTCATACCTGGCGACTCAGAAACACTCCTAAAACTGCAGGAAATT-GCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtatgacagggatggggacatgtttgtgaccccattatcttgtttattaa Alignment from Exonerate_protein2genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagttttctgtccttctcgataatcaatttcctttctagCCCCTGCAGCCGGTGGTTCATACCTGGCGACTCAGAAACACTCCTAAAACTGCAGGAAATTGCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtatgacagggatggggacatgtttgtgaccccattatcttgtttattaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagttttctgtccttctcgataatcaatttcctttctagCCCCTGCAGCCGGTGGTTCATACCTGGCGACTCAGAAACACTCCTAAAACTGCAGGAAATTGCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtatgacagggatggggacatgtttgtgaccccattatcttgtttattaa #### Eml3_ID2513_12 --> 0 - 1 Original Alignment AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAAC-ATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAg cctgccgatctattctacttattctattcctttgtctcttccttatgtagAAGGACAAAAAACCTAAATTCAGCCCATGCTTCATATTCTTGCCTGATGGAGATATTCTAACTGGGGACTCTGAGGGAAACCATACTTACCTGGGATCAGAGTATCTCAGATT-GAGGACAATAGGCAGGGGAGGAGCAAAAggtaagttaaggcaggtgagtacagtactgcagttgggagaatcagggaat Alignment from CESAR AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAAC-ATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAg cctgccgatctattctacttattctattcctttgtctcttccttatgtagAAGGACAAAAAACCTAAATTCAGCCCATGCTTCATATTCTTGCCTGATGGAGATATTCTAACTGGGGACTCTGAGGGAAACCATACTTACCTGGGATCAGAGTATCTCAGAT-TGAGGACAATAGGCAGGGGAGGAGCAAAAggtaagttaaggcaggtgagtacagtactgcagttgggagaatcagggaat Alignment from Spaln_aa2Genome AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAG cctgccgatctattctacttattctattcctttgtctcttccttatgtagAAGGACAAAAAACCTAAATTCAGCCCATGCTTCATATTCTTGCCTGATGGAGATATTCTAACTGGGGACTCTGAGGGAAACCATACTTACCTGGGATCAGAGTATCTCAGATTGAGGACAATAGGCAGGGGAGGAGCAAAAGgtaagttaaggcaggtgagtacagtactgcagttgggagaatcagggaat Alignment from Spaln_nt2Genome AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAAC-ATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAG cctgccgatctattctacttattctattcctttgtctcttccttatgtagAAGGACAAAAAACCTAAATTCAGCCCATGCTTCATATTCTTGCCTGATGGAGATATTCTAACTGGGGACTCTGAGGGAAACCATACTTACCTGGGATCAGAGTATCTCAGATT-GAGGACAATAGGCAGGGGAGGAGCAAAAGgtaagttaaggcaggtgagtacagtactgcagttgggagaatcagggaat Alignment from Pairagon AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAA-CATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAG cctgccgatctattctacttattctattcctttgtctcttccttatgtagAAGGACAAAAAACCTAAATTCAGCCCATGCTTCATATTCTTGCCTGATGGAGATATTCTAACTGGGGACTCTGAGGGAAACCATACTTACCTGGGATCAGAGTATCTCAGATT-GAGGACAATAGGCAGGGGAGGAGCAAAAGgtaagttaaggcaggtgagtacagtactgcagttgggagaatcagggaat Alignment from Exonerate_protein2genome AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAG cctgccgatctattctacttattctattcctttgtctcttccttatgtagAAGGACAAAAAACCTAAATTCAGCCCATGCTTCATATTCTTGCCTGATGGAGATATTCTAACTGGGGACTCTGAGGGAAACCATACTTACCTGGGATCAGAGTATCTCAGATTGAGGACAATAGGCAGGGGAGGAGCAAAAGgtaagttaaggcaggtgagtacagtactgcagttgggagaatcagggaat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAG cctgccgatctattctacttattctattcctttgtctcttccttatgtagAAGGACAAAAAACCTAAATTCAGCCCATGCTTCATATTCTTGCCTGATGGAGATATTCTAACTGGGGACTCTGAGGGAAACCATACTTACCTGGGATCAGAGTATCTCAGATTGAGGACAATAGGCAGGGGAGGAGCAAAAGgtaagttaaggcaggtgagtacagtactgcagttgggagaatcagggaat #### Eml3_ID2514_13 --> 2 - 0 Original Alignment agACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGC-CGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG ttatactccataatatagcaaatgcttggttttctttgcctgctctgcagagACCTACACAATTGTGGCCCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCACTCTGTCTTCATCCAGGATGGAACAGTACTGACTGGTGGCGGGTGGC-TAGACGTCTGGTGCAGTGGGGGCCTGGGCTGGTGGCACTCCAGGAGGCAGAGgtaatgcttgacctggacccggagaataggaatggatggggagacatggt Alignment from CESAR agACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGC-CGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG ttatactccataatatagcaaatgcttggttttctttgcctgctctgcagagACCTACACAATTGTGGCCCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCACTCTGTCTTCATCCAGGATGGAACAGTACTGACTGGTGGCGGGTGG-CTAGACGTCTGGTGCAGTGGGGGCCTGGGCTGGTGGCACTCCAGGAGGCAGAGgtaatgcttgacctggacccggagaataggaatggatggggagacatggt Alignment from Spaln_aa2Genome AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG ttatactccataatatagcaaatgcttggttttctttgcctgctctgcagAGACCTACACAATTGTGGCCCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCACTCTGTCTTCATCCAGGATGGAACAGTACTGACTGGTGGCGGGTGGCTAGACGTCTGGTGCAGTGGGGGCCTGGGCTGGTGGCACTCCAGGAGGCAGAGgtaatgcttgacctggacccggagaataggaatggatggggagacatggt Alignment from Spaln_nt2Genome AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCG-CCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG ttatactccataatatagcaaatgcttggttttctttgcctgctctgcagAGACCTACACAATTGTGGCCCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCACTCTGTCTTCATCCAGGATGGAACAGTACTGACTGGTGGCGGG-TGGCTAGACGTCTGGTGCAGTGGGGGCCTGGGCTGGTGGCACTCCAGGAGGCAGAGgtaatgcttgacctggacccggagaataggaatggatggggagacatggt Alignment from Pairagon AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCG-CCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG ttatactccataatatagcaaatgcttggttttctttgcctgctctgcagAGACCTACACAATTGTGGCCCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCACTCTGTCTTCATCCAGGATGGAACAGTACTGACTGGTGGCGGGT-GGCTAGACGTCTGGTGCAGTGGGGGCCTGGGCTGGTGGCACTCCAGGAGGCAGAGgtaatgcttgacctggacccggagaataggaatggatggggagacatggt Alignment from Exonerate_protein2genome AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG ttatactccataatatagcaaatgcttggttttctttgcctgctctgcagAGACCTACACAATTGTGGCCCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCACTCTGTCTTCATCCAGGATGGAACAGTACTGACTGGTGGCGGGTGGCTAGACGTCTGGTGCAGTGGGGGCCTGGGCTGGTGGCACTCCAGGAGGCAGAGgtaatgcttgacctggacccggagaataggaatggatggggagacatggt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG ttatactccataatatagcaaatgcttggttttctttgcctgctctgcagAGACCTACACAATTGTGGCCCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCACTCTGTCTTCATCCAGGATGGAACAGTACTGACTGGTGGCGGGTGGCTAGACGTCTGGTGCAGTGGGGGCCTGGGCTGGTGGCACTCCAGGAGGCAGAGgtaatgcttgacctggacccggagaataggaatggatggggagacatggt #### Eml3_ID2515_14 --> 0 - 0 Original Alignment ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACA-AAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG ggatggggagacatggtaaatagtataacgctttctggttcttcttttagGTGCCAGAACATTTCGGTTCAGTAAGTGCAATTGCTGAAGGACTTGGATCTGAACTACTGGTGGGGACCACACAAGAATGCATTACTGAGAGCAGACCTCGCCCAAGGTTTCT-TCCAGTAATCCAGgtaagtactctgcaatgcactgagggagggacccccactgttgccccggc Alignment from CESAR ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACA-AAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG ggatggggagacatggtaaatagtataacgctttctggttcttcttttagGTGCCAGAACATTTCGGTTCAGTAAGTGCAATTGCTGAAGGACTTGGATCTGAACTACTGGTGGGGACCACACAAGAATGCATTACTGAGAGCAGACCTCGCCCAAGGTTTC-TTCCAGTAATCCAGgtaagtactctgcaatgcactgagggagggacccccactgttgccccggc Alignment from Spaln_aa2Genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACA-AAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCC ggatggggagacatggtaaatagtataacgctttctggttcttcttttagGTGCCAGAACATTTCGGTTCAGTAAGTGCAATTGCTGAAGGACTTGGATCTGAACTACTGGTGGGGACCACAcAAGAATGCATTACTGAGAGCAGACCTCGCCCAAGGTTTCTTCCAgtaatccaggtaagtactctgcaatgcactgagggagggacccccactgttgccccggc Alignment from Spaln_nt2Genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGA-ACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG ggatggggagacatggtaaatagtataacgctttctggttcttcttttagGTGCCAGAACATTTCGGTTCAGTAAGTGCAATTGCTGAAGGACTTGGATCTGAACTACTGGTGGGGACCACACAAGAATGCATTACTGAGAGCAGACCTCGCCCAAGGTTTCT-TCCAGTAATCCAGgtaagtactctgcaatgcactgagggagggacccccactgttgccccggc Alignment from Pairagon ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACA-AAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG ggatggggagacatggtaaatagtataacgctttctggttcttcttttagGTGCCAGAACATTTCGGTTCAGTAAGTGCAATTGCTGAAGGACTTGGATCTGAACTACTGGTGGGGACCACACAAGAATGCATTACTGAGAGCAGACCTCGCCCAAGGTTTCTTCCA-GTAATCCAGgtaagtactctgcaatgcactgagggagggacccccactgttgccccggc Alignment from Exonerate_protein2genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG ggatggggagacatggtaaatagtataacgctttctggttcttcttttagGTGCCAGAACATTTCGGTTCAGTAAGTGCAATTGCTGAAGGACTTGGATCTGAACTACTGGTGGGGACCACACAAGAATGCATTACTGAGAGCAGACCTCGCCCAAGGTTTCTTCCAGTAATCCAGgtaagtactctgcaatgcactgagggagggacccccactgttgccccggc Alignment from Exonerate_coding2genome ggatggggagacatggtaaatagtataacgctttctggttcttcttttaggtgccagaacatttcggttcagtaagtgcaattgctgaaggacttggatctgaactactggtggggaccacacaagaatgcattactgagagcagacctcgcccaaggtttcttccagtaatccaggtaagtactctgcaatgcactgagggagggacccccactgttgccccggc Alignment from GeneWise ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG ggatggggagacatggtaaatagtataacgctttctggttcttcttttagGTGCCAGAACATTTCGGTTCAGTAAGTGCAATTGCTGAAGGACTTGGATCTGAACTACTGGTGGGGACCACACAAGAATGCATTACTGAGAGCAGACCTCGCCCAAGGTTTCTTCCAGTAATCCAGgtaagtactctgcaatgcactgagggagggacccccactgttgccccggc #### Eml3_ID2519_18 --> 2 - 0 Original Alignment atGGGTTGTACCTGGCTATTGGTTCCCATGACAAC-ATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG caaatatgacagcttctggtgtcacaaatgtgcctgaattctcccttcagatGGGTTGTACCTTGCAATAGGTTCACATGATAATCATGATTTACATATACAGTATTTCCAGTTGTGGTACCAAAT-TAGCCGCTTTGGAAGGTGTATGgtgtgtctacctgaatgtctacagaacttaaaaacctactgtgaggaaga Alignment from CESAR atGGGTTGTACCTGGCTATTGGTTCCCATGACAAC-ATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG caaatatgacagcttctggtgtcacaaatgtgcctgaattctcccttcagatGGGTTGTACCTTGCAATAGGTTCACATGATAATCATGATTTACATATACAGTATTTCCAGTTGTGGTACCAAA-TTAGCCGCTTTGGAAGGTGTATGgtgtgtctacctgaatgtctacagaacttaaaaacctactgtgaggaaga Alignment from Spaln_aa2Genome ATGGGTTGTACCTGGCTATTGGTTCCCATGACAAC-ATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG caaatatgacagcttctggtgtcacaaatgtgcctgaattctcccttcagATGGGTTGTACCTTGCAATAGGTTCACATGATAATcATGATTTACATATACAGTATTTCCAGTTGTGGTACCAAATT-AGCCGCTTTGGAAGGTGTATGgtgtgtctacctgaatgtctacagaacttaaaaacctactgtgaggaaga Alignment from Spaln_nt2Genome ATGGGTTGTACCTGGCTATTGGTTCCCATGACAA-CATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG caaatatgacagcttctggtgtcacaaatgtgcctgaattctcccttcagATGGGTTGTACCTTGCAATAGGTTCACATGATAATCATGATTTACATATACAGTATTTCCAGTTGTGGTACCAAAT-TAGCCGCTTTGGAAGGTGTATGgtgtgtctacctgaatgtctacagaacttaaaaacctactgtgaggaaga Alignment from Pairagon ATGGGTTGTACCTGGCTATTGGTTCCCATGACAA-CATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG caaatatgacagcttctggtgtcacaaatgtgcctgaattctcccttcagATGGGTTGTACCTTGCAATAGGTTCACATGATAATCATGATTTACATATACAGTATTTCCAGTTGTGGTACCAAAT-TAGCCGCTTTGGAAGGTGTATGgtgtgtctacctgaatgtctacagaacttaaaaacctactgtgaggaaga Alignment from Exonerate_protein2genome ATGGGTTGTACCTGGCTATTGGTTCCCATGACAAC-ATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAG--TCCAGCCGCTTTGGCAGATGTATG caaatatgacagcttctggtgtcacaaatgtgcctgaattctcccttcagATGGGTTGTACCTTGCAATAGGTTCACATGATAATCATGATTTACATATACAGTATTTCCAGTTGTGGTACCAAATT---AGCCGCTTTGGAAGGTGTATGgtgtgtctacctgaatgtctacagaacttaaaaacctactgtgaggaaga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATGGGTTGTACCTGGCTATTGGTTCCCATGACAAC-ATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG caaatatgacagcttctggtgtcacaaatgtgcctgaattctcccttcagATGGGTTGTACCTTGCAATAGGTTCACATGATAATCATGATTTACATATACAGTATTTCCAGTTGTGGTACCAAATT-AGCCGCTTTGGAAGGTGTATGgtgtgtctacctgaatgtctacagaacttaaaaacctactgtgaggaaga #### Eno4_ID12833_5 --> 2 - 0 Original Alignment gaCGGAGGGATACGCTTTTGGAGAAA-CCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG ttccagttttctaccttgcaaaaagacacacgtctccactttccctgtaggaCGGAGGGATATGCTTTTGGAGAGACCCTGTGTCACCCCCAGAGCCACCCGAACCAG-TCAGCACGGTAGTATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCCATGATCCTCTCTACTCAGCCCTGGCATCACTGAAGCAAGATCAAgtaatgtaatattgtgggtgtgagtgtggaaaaagagttggtggcagtat Alignment from CESAR gaCGGAGGGATACGCTTTTGGAGAAA-CCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG ttccagttttctaccttgcaaaaagacacacgtctccactttccctgtaggaCGGAGGGATATGCTTTTGGAGAGACCCTGTGTCACCCCCAGAGCCACCCGAACCAGTC-AGCACGGTAGTATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCCATGATCCTCTCTACTCAGCCCTGGCATCACTGAAGCAAGATCAAgtaatgtaatattgtgggtgtgagtgtggaaaaagagttggtggcagtat Alignment from Spaln_aa2Genome GACGGAGGGATACGCTTTTGGAGAAACCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG ttccagttttctaccttgcaaaaagacacacgtctccactttccctgtagGACGGAGGGATATGCTTTTGGAGAGACCCTGTGTCACCCCCAGAGCCACCCGAACCAGTCAGCACGGTAGTATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCCATGATCCTCTCTACTCAGCCCTGGCATCACTGAAGCAAGATCAAgtaatgtaatattgtgggtgtgagtgtggaaaaagagttggtggcagtat Alignment from Spaln_nt2Genome GACGGAGGGATACGCTTTTGGAGAAA-CCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG ttccagttttctaccttgcaaaaagacacacgtctccactttccctgtagGACGGAGGGATATGCTTTTGGAGAGACCCTGTGTCACCCCCAGAGCCACCCGAACCAGT-CAGCACGGTAGTATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCCATGATCCTCTCTACTCAGCCCTGGCATCACTGAAGCAAGATCAAgtaatgtaatattgtgggtgtgagtgtggaaaaagagttggtggcagtat Alignment from Pairagon GACGGAGGGATACGCTTTTGGAGAAA-CCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG ttccagttttctaccttgcaaaaagacacacgtctccactttccctgtagGACGGAGGGATATGCTTTTGGAGAGACCCTGTGTCACCCCCAGAGCCACCCGAACCAGTCA-GCACGGTAGTATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCCATGATCCTCTCTACTCAGCCCTGGCATCACTGAAGCAAGATCAAgtaatgtaatattgtgggtgtgagtgtggaaaaagagttggtggcagtat Alignment from Exonerate_protein2genome GACGGAGGGATACGCTTTTGGAGAAACCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG ttccagttttctaccttgcaaaaagacacacgtctccactttccctgtagGACGGAGGGATATGCTTTTGGAGAGACCCTGTGTCACCCCCAGAGCCACCCGAACCAGTCAGCACGGTAGTATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCCATGATCCTCTCTACTCAGCCCTGGCATCACTGAAGCAAGATCAAgtaatgtaatattgtgggtgtgagtgtggaaaaagagttggtggcagtat Alignment from Exonerate_coding2genome GACGGAGGGATACGCTTTTGGAGAAACCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG ttccagttttctaccttgcaaaaagacacacgtctccactttccctgtagGACGGAGGGATATGCTTTTGGAGAGACCCTGTGTCACCCCCAGAGCCACCCGAACCAGTCAGCACGGTAGTATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCCATGATCCTCTCTACTCAGCCCTGGCATCACTGAAGCAAGATCAAgtaatgtaatattgtgggtgtgagtgtggaaaaagagttggtggcagtat Alignment from GeneWise GACGGAGGGATACGCTTTTGGAGAAACCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG ttccagttttctaccttgcaaaaagacacacgtctccactttccctgtagGACGGAGGGATATGCTTTTGGAGAGACCCTGTGTCACCCCCAGAGCCACCCGAACCAGTCAGCACGGTAGTATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCCATGATCCTCTCTACTCAGCCCTGGCATCACTGAAGCAAGATCAAgtaatgtaatattgtgggtgtgagtgtggaaaaagagttggtggcagtat #### Exosc1_ID8337_2 --> 2 - 0 Original Alignment gcGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCC-GGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgaatgcgatacttgttcttgcaggtGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTCGGCAGTGGCACCTACACCTGGCATGGCTACATATCTTCAT-ATTGGCTGGCTGTCCTATGAAGACCAGCAAGAATGGTGCAgtaagtaaggaggctccctagacggtgttcactcctccccgtgagctgta Alignment from CESAR gcGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCC-GGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgaatgcgatacttgttcttgcaggtGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTCGGCAGTGGCACCTACACCTGGCATGGCTACATATCTTCA-TATTGGCTGGCTGTCCTATGAAGACCAGCAAGAATGGTGCAgtaagtaaggaggctccctagacggtgttcactcctccccgtgagctgta Alignment from Spaln_aa2Genome GCGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgaatgcgatacttgttcttgcagGTGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTCGGCAGTGGCACCTACACCTGGCATGGCTACATATCTTCATATTGGCTGGCTGTCCTATGAAGACCAGCAAGAATGGTGCAgtaagtaaggaggctccctagacggtgttcactcctccccgtgagctgta Alignment from Spaln_nt2Genome GCGAACGTCTGTGTAACTTGGAGGAAGGCAGCCC-CGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgaatgcgatacttgttcttgcagGTGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTCGGCAGTGGCACCTACACCTGGCATGGCTACATATCTTCAT-ATTGGCTGGCTGTCCTATGAAGACCAGCAAGAATGGTGCAgtaagtaaggaggctccctagacggtgttcactcctccccgtgagctgta Alignment from Pairagon GCGAACGTCTGTGTAACTTGGAGGAAGGCAG-CCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgaatgcgatacttgttcttgcagGTGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTCGGCAGTGGCACCTACACCTGGCATGGCTACATATCTTCAT-ATTGGCTGGCTGTCCTATGAAGACCAGCAAGAATGGTGCAgtaagtaaggaggctccctagacggtgttcactcctccccgtgagctgta Alignment from Exonerate_protein2genome GCGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCC-GGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCG--CTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgaatgcgatacttgttcttgcagGTGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTCGGCAGTGGCACCTACACCTGGCATGGCTACATA---TCTTCATATTGGCTGGCTGTCCTATGAAGACCAGCAAGAATGGTGCAgtaagtaaggaggctccctagacggtgttcactcctccccgtgagctgta Alignment from Exonerate_coding2genome ATCCCCGGCGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCC-GGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCG--CTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgaatgcgatacttgttCTTGCAGGTGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTCGGCAGTGGCACCTACACCTGGCATGGCTACATA---TCTTCATATTGGCTGGCTGTCCTATGAAGACCAGCAAGAATGGTGCAgtaagtaaggaggctccctagacggtgttcactcctccccgtgagctgta Alignment from GeneWise GCACCACCGGTGAGGTACTGCATCCCCGGCGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG atgtgttgcaggcaacttgaat---------GCGATACTTGTTCTTGCAGGTGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTCGGCAGTGGCACCTACACCTGGCATGGCTACATATCTTCATATTGGCTGGCTGTCCTATGAAGACCAGCAAGAATGGTGCAgtaagtaaggaggctccctagacggtgttcactcctccccgtgagctgta #### Fads1_ID2688_2 --> 0 - 0 Original Alignment GATCCTTTTGTGGCA-TTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT taggttctcattgccataggttctcattctctgcttcctcctccaaccagGATCCTTTTGTGGCACTTCCACTTCAACAAGGGTCTTGTGAGAAAATATATGAATT-TCTT---CTTGGGGAGCTAGCTCCAGAGCAACCCAGCTTTGAACCCACCAAGAATgtaagaaaacagaccctgtaaattagggataccattgttgctctcctggt Alignment from CESAR GATCCTTTTGTGGCA-TTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT taggttctcattgccataggttctcattctctgcttcctcctccaaccagGATCCTTTTGTGGCACTTCCACTTCAACAAGGGTCTTGTGAGAAAATATATGAAT-TTCTTCTT---GGGGAGCTAGCTCCAGAGCAACCCAGCTTTGAACCCACCAAGAATgtaagaaaacagaccctgtaaattagggataccattgttgctctcctggt Alignment from Spaln_aa2Genome GATCCTTTTGTGGCA-TTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT taggttctcattgccataggttctcattctctgcttcctcctccaaccagGATCCTTTTGTGGCAcTTCCACTTCAACAAGGGTCTTGTGAGAAAATATATGAATTT----CTTCTTGGGGAGCTAGCTCCAGAGCAACCCAGCTTTGAACCCACCAAGAATgtaagaaaacagaccctgtaaattagggataccattgttgctctcctggt Alignment from Spaln_nt2Genome GATCCTTTTGTGGCA-TTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT taggttctcattgccataggttctcattctctgcttcctcctccaaccagGATCCTTTTGTGGCACTTCCACTTCAACAAGGGTCTTGTGAGAAAATATATGAA-TTTCTTC---TTGGGGAGCTAGCTCCAGAGCAACCCAGCTTTGAACCCACCAAGAATgtaagaaaacagaccctgtaaattagggataccattgttgctctcctggt Alignment from Pairagon GATCCTTTTGTGGCA-TTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT taggttctcattgccataggttctcattctctgcttcctcctccaaccagGATCCTTTTGTGGCACTTCCACTTCAACAAGGGTCTTGTGAGAAAATATATGAA----TTTCTTCTTGGGGAGCTAGCTCCAGAGCAACCCAGCTTTGAACCCACCAAGAATgtaagaaaacagaccctgtaaattagggataccattgttgctctcctggt Alignment from Exonerate_protein2genome GATCCTTTTGTGGCATTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT taggttctcattgccataggttctcattctctgcttcctcctccaaccagGATCCTTTTGTGGCACTTCCACTTCAACAAGGGTCTTGTGAGAAA---ATATATGAATTTCTTCTTGGGGAGCTAGCTCCAGAGCAACCCAGCTTTGAACCCACCAAGAATgtaagaaaacagaccctgtaaattagggataccattgttgctctcctggt Alignment from Exonerate_coding2genome GATCCTTTTGTGGCATTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT taggttctcattgccataggttctcattctctgcttcctcctccaaccagGATCCTTTTGTGGCACTTCCACTTCAACAAGGGTCTTGTGAGAAA---ATATATGAATTTCTTCTTGGGGAGCTAGCTCCAGAGCAACCCAGCTTTGAACCCACCAAGAATgtaagaaaacagaccctgtaaattagggataccattgttgctctcctggt Alignment from GeneWise GATCCTTTTGTGGCATTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT taggttctcattgccataggttctcattctctgcttcctcctccaaccagGATCCTTTTGTGGCACTTCCACTTCAACAAGGGTCTTGTGAGAAA---ATATATGAATTTCTTCTTGGGGAGCTAGCTCCAGAGCAACCCAGCTTTGAACCCACCAAGAATgtaagaaaacagaccctgtaaattagggataccattgttgctctcctggt #### Fads1_ID2690_4 --> 0 - 0 Original Alignment GCTCAGGCAGGTTGGCTACAGCATGAC-TTTGGGCACCTGTCAGTCTTTGGCACC---TCGACATGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttttgactccagcattggtatctaggggtttccatcctcttccattgcagGGTCAGGCAGGTTGGCTACAGCATGACCTTTGGGCGTTTGTCACTCTTTGGCACCTCATCAATGTGGA-TTACCTGCTGCACCATTTTGTGATTGGACACCTAAAGgtgggtactaaagttatggctgtcaatattttgttaagtctttgcaaact Alignment from CESAR GCTCAGGCAGGTTGGCTACAGCATGAC-TTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttttgactccagcattggtatctaggggtttccatcctcttccattgcagGGTCAGGCAGGTTGGCTACAGCATGACCTTTGGGCGTTTGTCACTCTTTGGCACCTCATCAATGT-GGATTACCTGCTGCACCATTTTGTGATTGGACACCTAAAGgtgggtactaaagttatggctgtcaatattttgttaagtctttgcaaact Alignment from Spaln_aa2Genome GCTCAGGCAGGTTGGCTACAGCATGACTTT---GGGCACCTGTCAGTCTTTGGCACCTCGACATGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttttgactccagcattggtatctaggggtttccatcctcttccattgcagGGTCAGGCAGGTTGGCTACAGCATGACCTTTGGGCGTTTGTCACTCTTTGGCACCTCATCAATGTGGATTACCTGCTGCACCATTTTGTGATTGGACACCTAAAGgtgggtactaaagttatggctgtcaatattttgttaagtctttgcaaact Alignment from Spaln_nt2Genome GCTCAGGCAGGTTGGCTACAGCATGA-CTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA-TG-GAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttttgactccagcattggtatctaggggtttccatcctcttccattgcagGGTCAGGCAGGTTGGCTACAGCATGACCTTTGGGCGTTTGTCACTCTTTGGCACCTCATCAATGTGGATTACCTGCTGCACCATTTTGTGATTGGACACCTAAAGgtgggtactaaagttatggctgtcaatattttgttaagtctttgcaaact Alignment from Pairagon GCTCAGGCAGGTTGGCTACAGCATGA-CTTTGGGCACCTGTCAGTCTTTGGCACCTCGACATGGAATC----------ACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttttgactccagcattggtatctaggggtttccatcctcttccattgcagGGTCAGGCAGGTTGGCTACAGCATGACCTTTGGGCGTTTGTCACTCTTTGGCACCTC--------ATCAATGTGGATTACCTGCTGCACCATTTTGTGATTGGACACCTAAAGgtgggtactaaagttatggctgtcaatattttgttaagtctttgcaaact Alignment from Exonerate_protein2genome GCTCAGGCAGGTTGGCTACAGCATGAC-TTTGGGCACCTGTCAGTCTTTGGCACCTCGACATGG--AATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttttgactccagcattggtatctaggggtttccatcctcttccattgcagGGTCAGGCAGGTTGGCTACAGCATGACCTTTGGGCGTTTGTCACTCTTTGGCACCTCATCAATGTGGATTACCTGCTGCACCATTTTGTGATTGGACACCTAAAGgtgggtactaaagttatggctgtcaatattttgttaagtctttgcaaact Alignment from Exonerate_coding2genome GCTCAGGCAGGTTGGCTACAGCATGAC-TTTGGGCACCTGTCAGTCTTTGGCACCTCGACATGG--AATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttttgactccagcattggtatctaggggtttccatcctcttccattgcagGGTCAGGCAGGTTGGCTACAGCATGACCTTTGGGCGTTTGTCACTCTTTGGCACCTCATCAATGTGGATTACCTGCTGCACCATTTTGTGATTGGACACCTAAAGgtgggtactaaagttatggctgtcaatattttgttaagtctttgcaaact Alignment from GeneWise GCTCAGGCAGGTTGGCTACAGCATGAC---TTTGGGCACCTGTCAGTCTTTGGCACCTCGACATGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttttgactccagcattggtatctaggggtttccatcctcttccattgcagGGTCAGGCAGGTTGGCTACAGCATGACCTTTGGGCGTTTGTCACTCTTTGGCACCTCATCAATGTGGATTACCTGCTGCACCATTTTGTGATTGGACACCTAAAGgtgggtactaaagttatggctgtcaatattttgttaagtctttgcaaact #### Fads1_ID2695_9 --> 1 - 0 Original Alignment gTTCCTGGAAAGCAACTGG-TTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG gaaccttgttaatagctctgctcctttttcctgtgatttccatctcacaggTTTCTGGAAAGCAACTGGCTTTGTGTGGGTGACACAGATGAACCATATCTCCATGCACATTG-TCCAGATAGGAATGTGGATTGGGTCTCGACCCAGgtcagttatagtctacccagctgtgaaactcgagagttcagatcatgaat Alignment from CESAR gTTCCTGGAAAGCAACTGG-TTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG gaaccttgttaatagctctgctcctttttcctgtgatttccatctcacaggTTTCTGGAAAGCAACTGGCTTTGTGTGGGTGACACAGATGAACCATATCTCCATGCACATT-GTCCAGATAGGAATGTGGATTGGGTCTCGACCCAGgtcagttatagtctacccagctgtgaaactcgagagttcagatcatgaat Alignment from Spaln_aa2Genome GTTCCTGGAAAGCAACTGG-TTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG gaaccttgttaatagctctgctcctttttcctgtgatttccatctcacagGTTTCTGGAAAGCAACTGGcTTTGTGTGGGTGACACAGATGAACCATATCTCCATGCACATTGT-CCAGATAGGAATGTGGATTGGGTCTCGACCCAGgtcagttatagtctacccagctgtgaaactcgagagttcagatcatgaat Alignment from Spaln_nt2Genome GTTCCTGGAAAGCAACTGG-TTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG gaaccttgttaatagctctgctcctttttcctgtgatttccatctcacagGTTTCTGGAAAGCAACTGGCTTTGTGTGGGTGACACAGATGAACCATATCTCCATGCACATTG-TCCAGATAGGAATGTGGATTGGGTCTCGACCCAGgtcagttatagtctacccagctgtgaaactcgagagttcagatcatgaat Alignment from Pairagon GTTCCTGGAAAGCAACTGG-TTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG gaaccttgttaatagctctgctcctttttcctgtgatttccatctcacagGTTTCTGGAAAGCAACTGGCTTTGTGTGGGTGACACAGATGAACCATATCTCCATGCACATTGTCCA-GATAGGAATGTGGATTGGGTCTCGACCCAGgtcagttatagtctacccagctgtgaaactcgagagttcagatcatgaat Alignment from Exonerate_protein2genome GTTCCTGGAAAGCAACTGG-TTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATT--GATCACGACCGGAATGTGGACTGGGTCTCCACCCAG gaaccttgttaatagctctgctcctttttcctgtgatttccatctcacagGTTTCTGGAAAGCAACTGGCTTTGTGTGGGTGACACAGATGAACCATATCTCCATGCACATTGTCCA---GATAGGAATGTGGATTGGGTCTCGACCCAGgtcagttatagtctacccagctgtgaaactcgagagttcagatcatgaat Alignment from Exonerate_coding2genome GTTCCTGGAAAGCAACTGG-TTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATT--GATCACGACCGGAATGTGGACTGGGTCTCCACCCAG gaaccttgttaatagctctgctcctttttcctgtgatttccatctcacagGTTTCTGGAAAGCAACTGGCTTTGTGTGGGTGACACAGATGAACCATATCTCCATGCACATTGTCCA---GATAGGAATGTGGATTGGGTCTCGACCCAGgtcagttatagtctacccagctgtgaaactcgagagttcagatcatgaat Alignment from GeneWise GTTCCTGGAAAGCAACTGG-TTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG gaaccttgttaatagctctgctcctttttcctgtgatttccatctcacagGTTTCTGGAAAGCAACTGGCTTTGTGTGGGTGACACAGATGAACCATATCTCCATGCACATTGT-CCAGATAGGAATGTGGATTGGGTCTCGACCCAGgtcagttatagtctacccagctgtgaaactcgagagttcagatcatgaat #### Fads1_ID2696_10 --> 0 - 2 Original Alignment CTGCAGGCAACC-TGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACca tgatccctacactgatacatggaaattttgttcaaattctacattcacagCTGCAGGCAACACTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCA-TGGACATCTGAATTTCCAGATTGAACACcagccagttgatacttccaggaaacatggatggcacagggagaaggtgaggc Alignment from CESAR CTGCAGGCAACC-TGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACca tgatccctacactgatacatggaaattttgttcaaattctacattcacagCTGCAGGCAACACTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTC-ATGGACATCTGAATTTCCAGATTGAACACcagccagttgatacttccaggaaacatggatggcacagggagaaggtgaggc Alignment from Spaln_aa2Genome CTGCAGGCAACC-TGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA tgatccctacactgatacatggaaattttgttcaaattctacattcacagCTGCAGGCAACAcTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAT-GGACATCTGAATTTCCAGATTGAACACCAgccagttgatacttccaggaaacatggatggcacagggagaaggtgaggc Alignment from Spaln_nt2Genome CTGCAGGCAAC-CTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA tgatccctacactgatacatggaaattttgttcaaattctacattcacagCTGCAGGCAACACTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCA-TGGACATCTGAATTTCCAGATTGAACACCAgccagttgatacttccaggaaacatggatggcacagggagaaggtgaggc Alignment from Pairagon CTGCAGGCAAC-CTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA tgatccctacactgatacatggaaattttgttcaaattctacattcacagCTGCAGGCAACACTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCA-TGGACATCTGAATTTCCAGATTGAACACCAgccagttgatacttccaggaaacatggatggcacagggagaaggtgaggc Alignment from Exonerate_protein2genome CTGCAGGCAACC-TGCAACGTTCACCAATCAGCCTTCAACAACTGGTTC--AGTGGCCACCTAAATTTCCAGATTGAACACCA tgatccctacactgatacatggaaattttgttcaaattctacattcacagCTGCAGGCAACACTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAT---GGACATCTGAATTTCCAGATTGAACACCAgccagttgatacttccaggaaacatggatggcacagggagaaggtgaggc Alignment from Exonerate_coding2genome CTGCAGGCAACC-TGCAACGTTCACCAATCAGCCTTCAACAACTGGTTC--AGTGGCCACCTAAATTTCCAGATTGAACACCA tgatccctacactgatacatggaaattttgttcaaattctacattcacagCTGCAGGCAACACTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAT---GGACATCTGAATTTCCAGATTGAACACCAgccagttgatacttccaggaaacatggatggcacagggagaaggtgaggc Alignment from GeneWise tgatccctacactgatacatggaaattttgttcaaattctacattcacagctgcaggcaacactgcaatgttcaccaatctgccttcaacaactggttcatggacatctgaatttccagattgaacaccagccagttgatacttccaggaaacatggatggcacagggagaaggtgaggc #### Fads3_ID2662_5 --> 0 - 0 Original Alignment GGCTTTTCCGCCCACTGGTGGAAT-TTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tcgcacgcttgtacacaacaatgcagcatggatcttctaacttttttcagGAC---TCTGCCCACTGGTGGAATCTTCCGGCACTTGAAGCATCATGCCAAGCCCAACATAT-CCACAAAGACCCTGATGTAACTGTTGCACCTGTCTTCCTGCTTGGTGTGTCATCTGTGGAAgtacatagtaatccctgcaatctacaggaggtgtgtttcccctgggactc Alignment from CESAR GGCTTTTCCGCCCACTGGTGGAAT-TTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tcgcacgcttgtacacaacaatgcagcatggatcttctaacttttttcagGAC---TCTGCCCACTGGTGGAATCTTCCGGCACTTGAAGCATCATGCCAAGCCCAACATA-TCCACAAAGACCCTGATGTAACTGTTGCACCTGTCTTCCTGCTTGGTGTGTCATCTGTGGAAgtacatagtaatccctgcaatctacaggaggtgtgtttcccctggtgtgt Alignment from Spaln_aa2Genome GGCTTTTCCGCCCACTGGTGGAAT-TTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tcgcacgcttgtacacaacaatgcagcatggatcttctaacttttttcagGAC---TCTGCCCACTGGTGGAATcTTCCGGCACTTGAAGCATCATGCCAAGCCCAACATATC-CACAAAGACCCTGATGTAACTGTTGCACCTGTCTTCCTGCTTGGTGTGTCATCTGTGGAAgtacatagtaatccctgcaatctacaggaggtgtgtttcccctgggactc Alignment from Spaln_nt2Genome GGCTTTTCCGCCCACTGGTGGAAT-TTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tcgcacgcttgtacacaacaatgcagcatggatcttctaacttttttcagGAC---TCTGCCCACTGGTGGAATCTTCCGGCACTTGAAGCATCATGCCAAGCCCAACAT-ATCCACAAAGACCCTGATGTAACTGTTGCACCTGTCTTCCTGCTTGGTGTGTCATCTGTGGAAgtacatagtaatccctgcaatctacaggaggtgtgtttcccctgggactc Alignment from Pairagon GGCTTTTCCGCCCACTGGTGGAAT-TTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGG---------------------------------------------------- tcgcacgcttgtacacaacaatgcagcatggatcttctaacttttttcagGAC---TCTGCCCACTGGTGGAATCTTCCGGCACTTGAAGCATCATGCCAAGCCCAACATA-TCCACAAAGACCCTGATGTAACTGTTGCACCTGTCTTCCTGCTTGGTGTGTCATCTGTGGAAGTACATAGTAATCCCTGCAATCTACAGGAGGTGTGTTTCCCCTGGGACTC Alignment from Exonerate_protein2genome TTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tcgcacgcttgtacacaacaatgcagcatggatcttctaacttttttcagGACTCTGCCCACTGGTGGAATCTTCCGGCACTTGAAGCATCATGCCAAGCCCAACATATCCACAAAGACCCTGATGTAACTGTTGCACCTGTCTTCCTGCTTGGTGTGTCATCTGTGGAAgtacatagtaatccctgcaatctacaggaggtgtgtttcccctgggactc Alignment from Exonerate_coding2genome TTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tcgcacgcttgtacacaacaatgcagcatggatcttctaacttttttcagGACTCTGCCCACTGGTGGAATCTTCCGGCACTTGAAGCATCATGCCAAGCCCAACATATCCACAAAGACCCTGATGTAACTGTTGCACCTGTCTTCCTGCTTGGTGTGTCATCTGTGGAAgtacatagtaatccctgcaatctacaggaggtgtgtttcccctgggactc Alignment from GeneWise ---TCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tcgcacgcttgtacacaacaatgcagcatggatcttctaacttttttcagGACTCTGCCCACTGGTGGAATCTTCCGGCACTTGAAGCATCATGCCAAGCCCAACATATCCACAAAGACCCTGATGTAACTGTTGCACCTGTCTTCCTGCTTGGTGTGTCATCTGTGGAAgtacatagtaatccctgcaatctacaggaggtgtgtttcccctgggactc #### Fads3_ID2665_8 --> 0 - 2 Original Alignment GACTTGCTGTGGGCTGCCAGT-TTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCag tttctgggcccttaggtccccagacaacgatttacacctgttaccacaagGACTTACTGTGGGCTGCCAGTCTTCTACACCCACTTTTTTTTGTCCTACTCACCCT-CTATGGGGCCACTGGGACACTAATCCTCTTTGTCGTTGTGcggtgagttgcaacatgctgggcaccaaatctatttaagtcctttggactta Alignment from CESAR GACTTGCTGTGGGCTGCCAGT-TTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCag tttctgggcccttaggtccccagacaacgatttacacctgttaccacaagGACTTACTGTGGGCTGCCAGTCTTCTACACCCACTTTTTTTTGTCCTACTCAC-CCTCTATGGGGCCACTGGGACACTAATCCTCTTTGTCGTTGTGcggtgagttgcaacatgctgggcaccaaatctatttaagtcctttggactta Alignment from Spaln_aa2Genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG tttctgggcccttaggtccccagacaacgatttacacctgttaccacaagGACTTACTGTGGGCTGCCAGTCTTCTACACCCACTTTTTTTTGTCCTACTCACCCTCTATGGGGCCACTGGGACACTAATCCTCTTTGTCGTTGTGCGgtgagttgcaacatgctgggcaccaaatctatttaagtcctttggactta Alignment from Spaln_nt2Genome GACTTGCTGTGGGCTGCCAGTT-TCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG tttctgggcccttaggtccccagacaacgatttacacctgttaccacaagGACTTACTGTGGGCTGCCAGTCTTCTACACCCACTTTTTTTTGTCCTACTCACCC-TCTATGGGGCCACTGGGACACTAATCCTCTTTGTCGTTGTGCGgtgagttgcaacatgctgggcaccaaatctatttaagtcctttggactta Alignment from Pairagon GACTTGCTGTGGGCTGCCAGT-TTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG tttctgggcccttaggtccccagacaacgatttacacctgttaccacaagGACTTACTGTGGGCTGCCAGTCTTCTACACCCACTTTTTTTTGTCCTACTCACCC-TCTATGGGGCCACTGGGACACTAATCCTCTTTGTCGTTGTGCGgtgagttgcaacatgctgggcaccaaatctatttaagtcctttggactta Alignment from Exonerate_protein2genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG tttctgggcccttaggtccccagacaacgatttacacctgttaccacaagGACTTACTGTGGGCTGCCAGTCTTCTACACCCACTTTTTTTTGTCCTACTCACCCTCTATGGGGCCACTGGGACACTAATCCTCTTTGTCGTTGTGCGgtgagttgcaacatgctgggcaccaaatctatttaagtcctttggactta Alignment from Exonerate_coding2genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG tttctgggcccttaggtccccagacaacgatttacacctgttaccacaagGACTTACTGTGGGCTGCCAGTCTTCTACACCCACTTTTTTTTGTCCTACTCACCCTCTATGGGGCCACTGGGACACTAATCCTCTTTGTCGTTGTGCGgtgagttgcaacatgctgggcaccaaatctatttaagtcctttggactta Alignment from GeneWise GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG tttctgggcccttaggtccccagacaacgatttacacctgttaccacaagGACTTACTGTGGGCTGCCAGTCTTCTACACCCACTTTTTTTTGTCCTACTCACCCTCTATGGGGCCACTGGGACACTAATCCTCTTTGTCGTTGTGCGgtgagttgcaacatgctgggcaccaaatctatttaagtcctttggactta #### Fads3_ID2668_11 --> 1 - 2 Original Alignment cCTCTTCCCCACGATGCCAAGGCACAACTACCGGAGGGTG-GCCCCCCTGGTCAAGGCGTTCTGCGCCAAGCACGGCCTACACTACGAGGTGAAGCCTTTCCTCACCGCTCTGGTGGATATCATCgg caagataacatcgttatgggggattcacaccagggcctctctgtgcctagcCTTGTTCCTACTATGTCTAGGCACAACTACCGGAGAGTGCGCCCCCCTTGTCGAGGCATTCTGTGCTACACATGGACTAC-CCGTGAGGTAAAGCCATTTCTTATGGCATTGGTGGAGATCATTgggtctgttgatgtttggagccaagcaacctgggtccaacttggtaagtatt Alignment from CESAR cCTCTTCCCCACGATGCCAAGGCACAACTACCGGAGGGTG-GCCCCCCTGGTCAAGGCGTTCTGCGCCAAGCACGGCCTACACTACGAGGTGAAGCCTTTCCTCACCGCTCTGGTGGATATCATCgg caagataacatcgttatgggggattcacaccagggcctctctgtgcctagcCTTGTTCCTACTATGTCTAGGCACAACTACCGGAGAGTGCGCCCCCCTTGTCGAGGCATTCTGTGCTACACATGGACTACCC-GTGAGGTAAAGCCATTTCTTATGGCATTGGTGGAGATCATTgggtctgttgatgtttggagccaagcaacctgggtccaacttggtaagtatt Alignment from Spaln_aa2Genome CCTCTTCCCCACGATGCCAAGGCACAACTACCGGAGGGTGGCCCCCCTGGTCAAGGCGTTCTGCGCCAAGCACGGCCTACACTACGAGGTGAAGCCTTTCCTCACCGCTCTGGTGGATATCATCGG caagataacatcgttatgggggattcacaccagggcctctctgtgcctagCCTTGTTCCTACTATGTCTAGGCACAACTACCGGAGAGTGCGCCCCCCTTGTCGAGGCATTCTGTGCTACACATGGACTACCCGTGAGGTAAAGCCATTTCTTATGGCATTGGTGGAGATCATTGGgtctgttgatgtttggagccaagcaacctgggtccaacttggtaagtatt Alignment from Spaln_nt2Genome CCTCTTCCCCACGATGCCAAGGCACAACTACCGGAGGGTG-GCCCCCCTGGTCAAGGCGTTCTGCGCCAAGCACGGCCTACACTACGAGGTGAAGCCTTTCCTCACCGCTCTGGTGGATATCATCGG caagataacatcgttatgggggattcacaccagggcctctctgtgcctagCCTTGTTCCTACTATGTCTAGGCACAACTACCGGAGAGTGCGCCCCCCTTGTCGAGGCATTCTGTGCTACACATGGACTAC-CCGTGAGGTAAAGCCATTTCTTATGGCATTGGTGGAGATCATTGGgtctgttgatgtttggagccaagcaacctgggtccaacttggtaagtatt Alignment from Pairagon CCTCTTCCCCACGATGCCAAGGCACAACTACCGGAGGGTG-GCCCCCCTGGTCAAGGCGTTCTGCGCCAAGCACGGCCTACACTACGAGGTGAAGCCTTTCCTCACCGCTCTGGTGGATATCATCGGGTCC caagataacatcgttatgggggattcacaccagggcctctctgtgcctagCCTTGTTCCTACTATGTCTAGGCACAACTACCGGAGAGTGCGCCCCCCTTGTCGAGGCATTCTGTGCTACACATGGACTAC-CCGTGAGGTAAAGCCATTTCTTATGGCATTGGTGGAGATCATTGGGTCTgttgatgtttggagccaagcaacctgggtccaacttggtaagtatt Alignment from Exonerate_protein2genome CCTCTTCCCCACGATGCCAAGGCACAACTACCGGAGGGTGGCCCCCCTGGTCAAGGCGTTCTGCGCCAAGCACGGCCTACACTACGAGGTGAAGCCTTTCCTCACCGCTCTGGTGGATATCATCGG caagataacatcgttatgggggattcacaccagggcctctctgtgcctagCCTTGTTCCTACTATGTCTAGGCACAACTACCGGAGAGTGCGCCCCCCTTGTCGAGGCATTCTGTGCTACACATGGACTACCCGTGAGGTAAAGCCATTTCTTATGGCATTGGTGGAGATCATTGGgtctgttgatgtttggagccaagcaacctgggtccaacttggtaagtatt Alignment from Exonerate_coding2genome CCTCTTCCCCACGATGCCAAGGCACAACTACCGGAGGGTGGCCCCCCTGGTCAAGGCGTTCTGCGCCAAGCACGGCCTACACTACGAGGTGAAGCCTTTCCTCACCGCTCTGGTGGATATCATCGG caagataacatcgttatgggggattcacaccagggcctctctgtgcctagCCTTGTTCCTACTATGTCTAGGCACAACTACCGGAGAGTGCGCCCCCCTTGTCGAGGCATTCTGTGCTACACATGGACTACCCGTGAGGTAAAGCCATTTCTTATGGCATTGGTGGAGATCATTGGgtctgttgatgtttggagccaagcaacctgggtccaacttggtaagtatt Alignment from GeneWise CCTCTTCCCCACGATGCCAAGGCACAACTACCGGAGGGTGGCCCCCCTGGTCAAGGCGTTCTGCGCCAAGCACGGCCTACACTACGAGGTGAAGCCTTTCCTCACCGCTCTGGTGGATATCATCGGGTCCCTGAAGAAGTCTGGCGACATCTGGCTGGATGCATACCTCCATCAA caagataacatcgttatgggggattcacaccagggcctctctgtgcctagCCTTGTTCCTACTATGTCTAGGCACAACTACCGGAGAGTGCGCCCCCCTTGTCGAGGCATTCTGTGCTACACATGGACTACCCGTGAGGTAAAGCCATTTCTTATGGCATTGGTGGAGATCATTGGGTCTGTT------------GATGTTTGGAGCCAAGCAACCTGGGTCCAAc #### Fam160b1_ID12356_7 --> 0 - 2 Original Alignment GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCT-GCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGgg gtcatttatgctaaatctgacaatctccatccttctcattgatttcacagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGAGCCTACCAGAGCCTGCAGCACGCCAAGTGCCTTGCTCAGAGCACTTGCCTAT-TGAGCTGCTGACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTAGACCCCTTAGACATTGAAACAGTGGAGGCAGTAAACTGGgggtaagtatccatttgatagactgcttggacagtgactgcttggacagtga Alignment from CESAR GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCT-GCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGgg gtcatttatgctaaatctgacaatctccatccttctcattgatttcacagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGAGCCTACCAGAGCCTGCAGCACGCCAAGTGCCTTGCTCAGAGCACTTGCCTA-TTGAGCTGCTGACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTAGACCCCTTAGACATTGAAACAGTGGAGGCAGTAAACTGGgggtaagtatccatttgatagactgcttggacagtgactgcttggacagtga Alignment from Spaln_aa2Genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG gtcatttatgctaaatctgacaatctccatccttctcattgatttcacagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGAGCCTACCAGAGCCTGCAGCACGCCAAGTGCCTTGCTCAGAGCACTTGCCTATTGAGCTGCTGACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTAGACCCCTTAGACATTGAAACAGTGGAGGCAGTAAACTGGGGgtaagtatccatttgatagactgcttggacagtgactgcttggacagtga Alignment from Spaln_nt2Genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCT-GCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG gtcatttatgctaaatctgacaatctccatccttctcattgatttcacagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGAGCCTACCAGAGCCTGCAGCACGCCAAGTGCCTTGCTCAGAGCACTTGCCTAT-TGAGCTGCTGACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTAGACCCCTTAGACATTGAAACAGTGGAGGCAGTAAACTGGGGgtaagtatccatttgatagactgcttggacagtgactgcttggacagtga Alignment from Pairagon GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGC-TGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG gtcatttatgctaaatctgacaatctccatccttctcattgatttcacagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGAGCCTACCAGAGCCTGCAGCACGCCAAGTGCCTTGCTCAGAGCACTTGCCTAT-TGAGCTGCTGACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTAGACCCCTTAGACATTGAAACAGTGGAGGCAGTAAACTGGGGgtaagtatccatttgatagactgcttggacagtgactgcttggacagtga Alignment from Exonerate_protein2genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG gtcatttatgctaaatctgacaatctccatccttctcattgatttcacagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGAGCCTACCAGAGCCTGCAGCACGCCAAGTGCCTTGCTCAGAGCACTTGCCTATTGAGCTGCTGACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTAGACCCCTTAGACATTGAAACAGTGGAGGCAGTAAACTGGGGgtaagtatccatttgatagactgcttggacagtgactgcttggacagtga Alignment from Exonerate_coding2genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG gtcatttatgctaaatctgacaatctccatccttctcattgatttcacagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGAGCCTACCAGAGCCTGCAGCACGCCAAGTGCCTTGCTCAGAGCACTTGCCTATTGAGCTGCTGACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTAGACCCCTTAGACATTGAAACAGTGGAGGCAGTAAACTGGGGgtaagtatccatttgatagactgcttggacagtgactgcttggacagtga Alignment from GeneWise GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG gtcatttatgctaaatctgacaatctccatccttctcattgatttcacagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGCGAGCCTACCAGAGCCTGCAGCACGCCAAGTGCCTTGCTCAGAGCACTTGCCTATTGAGCTGCTGACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTAGACCCCTTAGACATTGAAACAGTGGAGGCAGTAAACTGGGGgtaagtatccatttgatagactgcttggacagtgactgcttggacagtga #### Fam160b1_ID12357_8 --> 1 - 0 Original Alignment gTTGGACTCATACAGCCAT-AAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG tttttttcctttgtatctagttacaattagctcgctcttgacccttccaggTTGGACTCTTACAGCCACCAAAGAAGATACATCAGCGTTCCCAGGGAAGC-GGCCTTGATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtgagcagcttgatgttatcttcatagtgcttatgcacatcaagctgttc Alignment from CESAR gTTGGACTCATACAGCCAT-AAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG tttttttcctttgtatctagttacaattagctcgctcttgacccttccaggTTGGACTCTTACAGCCACCAAAGAAGATACATCAGCGTTCCCAGGGAAGC-GGCCTTGATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtgagcagcttgatgttatcttcatagtgcttatgcacatcaagctgttc Alignment from Spaln_aa2Genome GTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG tttttttcctttgtatctagttacaattagctcgctcttgacccttccagGTTGGACTCTTACAGCCACCAAAGAAGATACATCAGCGTTCCCAGGGAAGCGGCCTTGATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtgagcagcttgatgttatcttcatagtgcttatgcacatcaagctgttc Alignment from Spaln_nt2Genome GTTGGACTCATACAGCCAT-AAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG tttttttcctttgtatctagttacaattagctcgctcttgacccttccagGTTGGACTCTTACAGCCACCAAAGAAGATACATCAGCGTTCCCAGGGAAGC-GGCCTTGATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtgagcagcttgatgttatcttcatagtgcttatgcacatcaagctgttc Alignment from Pairagon GTTGGACTCATACAGCCA-TAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG tttttttcctttgtatctagttacaattagctcgctcttgacccttccagGTTGGACTCTTACAGCCACCAAAGAAGATACATCAGCGTTCCCAGGGAAGC-GGCCTTGATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtgagcagcttgatgttatcttcatagtgcttatgcacatcaagctgttc Alignment from Exonerate_protein2genome GTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG tttttttcctttgtatctagttacaattagctcgctcttgacccttccagGTTGGACTCTTACAGCCACCAAAGAAGATACATCAGCGTTCCCAGGGAAGCGGCCTTGATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtgagcagcttgatgttatcttcatagtgcttatgcacatcaagctgttc Alignment from Exonerate_coding2genome GTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG tttttttcctttgtatctagttacaattagctcgctcttgacccttccagGTTGGACTCTTACAGCCACCAAAGAAGATACATCAGCGTTCCCAGGGAAGCGGCCTTGATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtgagcagcttgatgttatcttcatagtgcttatgcacatcaagctgttc Alignment from GeneWise GTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG tttttttcctttgtatctagttacaattagctcgctcttgacccttccagGTTGGACTCTTACAGCCACCAAAGAAGATACATCAGCGTTCCCAGGGAAGCGGCCTTGATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtgagcagcttgatgttatcttcatagtgcttatgcacatcaagctgttc #### Fam160b1_ID12358_9 --> 0 - 2 Original Alignment ACTGCTGCTGTT-GCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGac gtcatagtatggatgtcatatgtcttcttttactgtgaaatgcattgcagACAGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTG-TGTTACAGAACCCCAACTGATGCAAacgtatgtgtttactaactttgtagaaaacaaaccttgctgaatcttttcct Alignment from CESAR ACTGCTGCTGTT-GCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGac gtcatagtatggatgtcatatgtcttcttttactgtgaaatgcattgcagACAGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTT-GTGTTACAGAACCCCAACTGATGCAAacgtatgtgtttactaactttgtagaaaacaaaccttgctgaatcttttcct Alignment from Spaln_aa2Genome ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gtcatagtatggatgtcatatgtcttcttttactgtgaaatgcattgcagacagCTG---CTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGT-GTTACAGAACCCCAACTGATGCAAACgtatgtgtttactaactttgtagaaaacaaaccttgctgaatcttttcct Alignment from Spaln_nt2Genome ACTGCTGCTGTT-GCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gtcatagtatggatgtcatatgtcttcttttactgtgaaatgcattgcagACAGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTT-GTGTTACAGAACCCCAACTGATGCAAACgtatgtgtttactaactttgtagaaaacaaaccttgctgaatcttttcct Alignment from Pairagon ACTGCTGCTGT-TGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gtcatagtatggatgtcatatgtcttcttttactgtgaaatgcattgcagACAGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTT-GTGTTACAGAACCCCAACTGATGCAAACgtatgtgtttactaactttgtagaaaacaaaccttgctgaatcttttcct Alignment from Exonerate_protein2genome ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gtcatagtatggatgtcatatgtcttcttttactgtgaaatgcattgcagACAGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGTGTTACAGAACCCCAACTGATGCAAACgtatgtgtttactaactttgtagaaaacaaaccttgctgaatcttttcct Alignment from Exonerate_coding2genome ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gtcatagtatggatgtcatatgtcttcttttactgtgaaatgcattgcagACAGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGTGTTACAGAACCCCAACTGATGCAAACgtatgtgtttactaactttgtagaaaacaaaccttgctgaatcttttcct Alignment from GeneWise ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gtcatagtatggatgtcatatgtcttcttttactgtgaaatgcattgcagACAGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGTGTTACAGAACCCCAACTGATGCAAACgtatgtgtttactaactttgtagaaaacaaaccttgctgaatcttttcct #### Fgf8_ID9566_3 --> 0 - 0 Original Alignment GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAG-CCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG ggcatggcacggtcatgttgtggcatgggtttttattattttttttttagGGAGGCCCAGGAGGGGGGCCTGCGCTTGGCAGGGAGCCCAACATCCCTGCTCCGAGCTGGTCGGGAAC-TCAAGGTGTTTCCCAACAAgtaagcagttggagagttggagatggtttatccatttcaggccccgggtt Alignment from CESAR GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCC-ACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG ggcatggcacggtcatgttgtggcatgggtttttattattttttttttagGGAGGCCCAGGAGGGGGGCCTGCGCTTGGCAGGGAGCCCAACATCCCTGCTCCGAGCTGGTCGGGAA-CTCAAGGTGTTTCCCAACAAgtaagcagttggagagttggagatggtttatccatttcaggccccgggtt Alignment from Spaln_aa2Genome GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG ggcatggcacggtcatgttgtggcatgggtttttattattttttttttagGGAGGCCCAGGAGGGGGGCCTGCGCTTGGCAGGGAGCCCAACATCCCTGCTCCGAGCTGGTCGGGAACTCAAGGTGTTTCCCAACAAgtaagcagttggagagttggagatggtttatccatttcaggccccgggtt Alignment from Spaln_nt2Genome GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCA-CTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG ggcatggcacggtcatgttgtggcatgggtttttattattttttttttagGGAGGCCCAGGAGGGGGGCCTGCGCTTGGCAGGGAGCCCAACATCCCTGCTCCGAGCTGGTCGGGA-ACTCAAGGTGTTTCCCAACAAgtaagcagttggagagttggagatggtttatccatttcaggccccgggtt Alignment from Pairagon AGGAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCA-CTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG ggcatggcacggtcatgttgtggcatgggtttttattattttttttttAGGGAGGCCCAGGAGGGGGGCCTGCGCTTGGCAGGGAGCCCAACATCCCTGCTCCGAGCTGGTCGGGAA-CTCAAGGTGTTTCCCAACAAgtaagcagttggagagttggagatggtttatccatttcaggccccgggtt Alignment from Exonerate_protein2genome GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG ggcatggcacggtcatgttgtggcatgggtttttattattttttttttagGGAGGCCCAGGAGGGGGGCCTGCGCTTGGCAGGGAGCCCAACATCCCTGCTCCGAGCTGGTCGGGAACTCAAGGTGTTTCCCAACAAgtaagcagttggagagttggagatggtttatccatttcaggccccgggtt Alignment from Exonerate_coding2genome GGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG ggcatggcacggtcatgttgtggcatgggtttttattattttttttttagggaGGCCCAGGAGGGGGGCCTGCGCTTGGCAGGGAGCCCAACATCCCTGCTCCGAGCTGGTCGGGAACTCAAGGTGTTTCCCAACAAgtaagcagttggagagttggagatggtttatccatttcaggccccgggtt Alignment from GeneWise GGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG ggcatggcacggtcatgttgtggcatgggtttttattattttttttttagggaGGCCCAGGAGGGGGGCCTGCGCTTGGCAGGGAGCCCAACATCCCTGCTCCGAGCTGGTCGGGAACTCAAGGTGTTTCCCAACAAgtaagcagttggagagttggagatggtttatccatttcaggccccgggtt #### Fkbp2_ID1947_2 --> 0 - 2 Original Alignment GGAAAGCTAGAAGATGGGACGGAGTTT-GACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGgg acaatctttcctcggcattgatggtctgatcaattgggattggtttgcagGGAAAGCTGGGAGATGGGACAGAGTTTCGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTG-CACTGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAgggtgagtttggcatataatctaagttgcagttgaatgctatagtaaaggtg Alignment from CESAR GGAAAGCTAGAAGATGGGACGGAGTTT-GACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGgg acaatctttcctcggcattgatggtctgatcaattgggattggtttgcagGGAAAGCTGGGAGATGGGACAGAGTTTCGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTT-GCACTGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAgggtgagtttggcatataatctaagttgcagttgaatgctatagtaaaggtg Alignment from Spaln_aa2Genome GGAAAGCTAGAAGATGGGACGGAGTTT-GACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG acaatctttcctcggcattgatggtctgatcaattgggattggtttgcagGGAAAGCTGGGAGATGGGACAGAGTTTcGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGC-ACTGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAGGgtgagtttggcatataatctaagttgcagttgaatgctatagtaaaggtg Alignment from Spaln_nt2Genome GGAAAGCTAGAAGATGGGACGGAGTTT-GACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG acaatctttcctcggcattgatggtctgatcaattgggattggtttgcagGGAAAGCTGGGAGATGGGACAGAGTTTCGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTT-GCACTGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAGGgtgagtttggcatataatctaagttgcagttgaatgctatagtaaaggtg Alignment from Pairagon GGAAAGCTAGAAGATGGGACGGAGTTT-GACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG acaatctttcctcggcattgatggtctgatcaattgggattggtttgcagGGAAAGCTGGGAGATGGGACAGAGTTTCGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTT-GCACTGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAGGgtgagtttggcatataatctaagttgcagttgaatgctatagtaaaggtg Alignment from Exonerate_protein2genome GGAAAGCTAGAAGATGGGACGGAG-TTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTT--GGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG acaatctttcctcggcattgatggtctgatcaattgggattggtttgcagGGAAAGCTGGGAGATGGGACAGAGTTTCGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGC---ACTGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAGGgtgagtttggcatataatctaagttgcagttgaatgctatagtaaaggtg Alignment from Exonerate_coding2genome GGAAAGCTAGAAGATGGGACGGAG-TTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTT--GGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG acaatctttcctcggcattgatggtctgatcaattgggattggtttgcagGGAAAGCTGGGAGATGGGACAGAGTTTCGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGC---ACTGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAGGgtgagtttggcatataatctaagttgcagttgaatgctatagtaaaggtg Alignment from GeneWise GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGC---ACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG acaatctttcctcggcattgatggtctgatcaattgggattggtttgcagGGAAAGCTGGGAGATGGGACAGAGTTTCGACAGCAG---CCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGCACTGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAGGgtgagtttggcatataatctaagttgcagttgaatgctatagtaaaggtg #### Fth1_ID2624_3 --> 0 - 0 Original Alignment AAACCAGACCGTGAT-GACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacgagctttggctgcttggtctctagAAGCCTGACCGTGAGCGATTGGGAGAGTGGGCTAAATGGAATAGAAT-TGCACTACACTTGGAAAAGAGTGTGAACCAGTCCCTACTGGAGCTGCATGAACTGGCAACTGATAAGAATGACCCCCATgtaagattcaataggctggatctagatggctcgctattgcttggagaaaa Alignment from CESAR AAACCAGACCGTGAT-GACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacgagctttggctgcttggtctctagAAGCCTGACCGTGAGCGATTGGGAGAGTGGGCTAAATGGAATAGAA-TTGCACTACACTTGGAAAAGAGTGTGAACCAGTCCCTACTGGAGCTGCATGAACTGGCAACTGATAAGAATGACCCCCATgtaagattcaataggctggatctagatggctcgctattgcttggagaaaa Alignment from Spaln_aa2Genome AAACCAGACCGTGAT-GACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacgagctttggctgcttggtctctagAAGCCTGACCGTGAGcGATTGGGAGAGTGGGCTAAATGGAATAGAATT-GCACTACACTTGGAAAAGAGTGTGAACCAGTCCCTACTGGAGCTGCATGAACTGGCAACTGATAAGAATGACCCCCATgtaagattcaataggctggatctagatggctcgctattgcttggagaaaa Alignment from Spaln_nt2Genome AAACCAGACCGTGAT-GACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacgagctttggctgcttggtctctagAAGCCTGACCGTGAGCGATTGGGAGAGTGGGCTAAATGGAATAGAAT-TGCACTACACTTGGAAAAGAGTGTGAACCAGTCCCTACTGGAGCTGCATGAACTGGCAACTGATAAGAATGACCCCCATgtaagattcaataggctggatctagatggctcgctattgcttggagaaaa Alignment from Pairagon AAACCAGACCGTGA-TGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacgagctttggctgcttggtctctagAAGCCTGACCGTGAGCGATTGGGAGAGTGGGCTAAATGGAATAGAAT-TGCACTACACTTGGAAAAGAGTGTGAACCAGTCCCTACTGGAGCTGCATGAACTGGCAACTGATAAGAATGACCCCCATgtaagattcaataggctggatctagatggctcgctattgcttggagaaaa Alignment from Exonerate_protein2genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacgagctttggctgcttggtctctagAAGCCTGACCGTGAGCGATTGGGAGAGTGGGCTAAATGGAATAGAATTGCACTACACTTGGAAAAGAGTGTGAACCAGTCCCTACTGGAGCTGCATGAACTGGCAACTGATAAGAATGACCCCCATgtaagattcaataggctggatctagatggctcgctattgcttggagaaaa Alignment from Exonerate_coding2genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacgagctttggctgcttggtctctagAAGCCTGACCGTGAGCGATTGGGAGAGTGGGCTAAATGGAATAGAATTGCACTACACTTGGAAAAGAGTGTGAACCAGTCCCTACTGGAGCTGCATGAACTGGCAACTGATAAGAATGACCCCCATgtaagattcaataggctggatctagatggctcgctattgcttggagaaaa Alignment from GeneWise AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacgagctttggctgcttggtctctagAAGCCTGACCGTGAGCGATTGGGAGAGTGGGCTAAATGGAATAGAATTGCACTACACTTGGAAAAGAGTGTGAACCAGTCCCTACTGGAGCTGCATGAACTGGCAACTGATAAGAATGACCCCCATgtaagattcaataggctggatctagatggctcgctattgcttggagaaaa #### Ganab_ID2468_7 --> 1 - 0 Original Alignment gCAAGAATCAAAAGACCCA-GCTGAAGGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtggacatcctaacttcactttaggtcggagcttcttggctctcttaggCAAGAATCAAAAGACCCTCGCGGAGGGCAATGGGGCCCAGCCCGAGGCGACACCTG-GGATGGCGACAAGgtaagttgattgagagatgattaggtctgcttaagaggattgggatttca Alignment from CESAR gCAAGAATCAAAAGACCCA-GCTGAAGGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtggacatcctaacttcactttaggtcggagcttcttggctctcttaggCAAGAATCAAAAGACCCTCGCGGAGGGCAATGGGGCCCAGCCCGAGGCGACACCTG-GGATGGCGACAAGgtaagttgattgagagatgattaggtctgcttaagaggattgggatttca Alignment from Spaln_aa2Genome GCAAGAATCAAAAGACCCA-GCTGAAGGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtggacatcctaacttcactttaggtcggagcttcttggctctcttagGCAAGAATCAAAAGACCCTcGCGGAGGGCAATGGGGCCCAGCCCGAGGCGACACCTGG-GATGGCGACAAGgtaagttgattgagagatgattaggtctgcttaagaggattgggatttca Alignment from Spaln_nt2Genome GCAAGAATCAAAAGACCCA-GCTGAAGGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtggacatcctaacttcactttaggtcggagcttcttggctctcttagGCAAGAATCAAAAGACCCTCGCGGAGGGCAATGGGGCCCAGCCCGAGGCGACACCT-GGGATGGCGACAAGgtaagttgattgagagatgattaggtctgcttaagaggattgggatttca Alignment from Pairagon GCAAGAATCAAAAGACCC-AGCTGAAGGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtggacatcctaacttcactttaggtcggagcttcttggctctcttagGCAAGAATCAAAAGACCCTCGCGGAGGGCAATGGGGCCCAGCCCGAGGCGACACCT-GGGATGGCGACAAGgtaagttgattgagagatgattaggtctgcttaagaggattgggatttca Alignment from Exonerate_protein2genome GCAAGAATCAAAAGACCCA-GCTGAAGGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAA cagtggacatcctaacttcactttaggtcggagcttcttggctctcttagGCAAGAATCAAAAGACCCTCGCGGAGGGCAATGGGGCCCAGCCCGAGGCGACACCTGGGATGGCGACAAGgtaagttgattgagagatgattaggtctgcttaagaggattgggatttca Alignment from Exonerate_coding2genome GCAAGAATCAAAAGACCCA-GCTGAAGGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAA cagtggacatcctaacttcactttaggtcggagcttcttggctctcttagGCAAGAATCAAAAGACCCTCGCGGAGGGCAATGGGGCCCAGCCCGAGGCGACACCTGGGATGGCGACAAGgtaagttgattgagagatgattaggtctgcttaagaggattgggatttca Alignment from GeneWise GCAAGAATCAAAAGACCCAGCTGAAGGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagtggacatcctaacttcactttaggtcggagcttcttggctctcttagGCAAGAATCAAAAGACCCTCGCGGAGGGCAATGGGGCCCAGCCCGAGGCGACACCTGGGATGGCGACAAGgtaagttgattgagagatgattaggtctgcttaagaggattgggatttca #### Ganab_ID2471_10 --> 1 - 0 Original Alignment gGGCGGTGAGCCGTACCGCCTGTACAATTTGGATGTGTTCCAGTATGAGCTGAACAACCCCATGGCT-CTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCTGGGAAG atttctttcggatgagaaatctgtatgtaacgccccatgtttccctgcagaGGTGGTGAGCCATATCGCTTGTACAATTTAGATGTATTGCAGTATGAGCTAAATAACCCAACAGCTCCTCTATGGGTCCGTACCTGTC---CTGGCACACA-CTTTCATCGAGACCTGGGAATCTTCTGGCTCAATGCAGCTGAGACTTGGGTTGATATATCATCCAACACA------AAGgtaacacatgggtatgtgagacttggggtctgtcttagacatcccatcat Alignment from CESAR gGGCGGTGAGCCGTACCGCCTGTACAATTTGGATGTGTTCCAGTATGAGCTGAACAACCCCATGGCT-CTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCTGGGAAG atttctttcggatgagaaatctgtatgtaacgccccatgtttccctgcagaGGTGGTGAGCCATATCGCTTGTACAATTTAGATGTATTGCAGTATGAGCTAAATAACCCAACAGCTCCTCTATGGGTCCGTACCTGTC---CTGGCACACA-CTTTCATCGAGACCTGGGAATCTTCTGGCTCAATGCAGCTGAGACTTGGGTTGATATATCATCCAACACA------AAGgtaacacatgggtatgtgagacttggggtctgtcttagacatcccatcat Alignment from Spaln_aa2Genome GGGCGGTGAGCCGTACCGCCTGTACAATTTGGATGTGTTCCAGTATGAGCTGAACAACCCCATGGCT-CTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCTGGGAAG atttctttcggatgagaaatctgtatgtaacgccccatgtttccctgcagAGGTGGTGAGCCATATCGCTTGTACAATTTAGATGTATTGCAGTATGAGCTAAATAACCCAACAGCTcCTCTATGGGTCCGTACCTGTC---CTGGCACACAC-TTTCATCGAGACCTGGGAATCTTCTGGCTCAATGCAGCTGAGACTTGGGTTGATATATCATCCAACACA------AAGgtaacacatgggtatgtgagacttggggtctgtcttagacatcccatcat Alignment from Spaln_nt2Genome GGGCGGTGAGCCGTACCGCCTGTACAATTTGGATGTGTTCCAGTATGAGCTGAACAACCCCATGGCTC-TATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCTGGGAAG atttctttcggatgagaaatctgtatgtaacgccccatgtttccctgcagAGGTGGTGAGCCATATCGCTTGTACAATTTAGATGTATTGCAGTATGAGCTAAATAACCCAACAGCTCCTCTATGGGTCCGTACCTG---TCCTGGCACACA-CTTTCATCGAGACCTGGGAATCTTCTGGCTCAATGCAGCTGAGACTTGGGTTGATATATCATCCAACAC------AAAGgtaacacatgggtatgtgagacttggggtctgtcttagacatcccatcat Alignment from Pairagon GGGCGGTGAGCCGTACCGCCTGTACAATTTGGATGTGTTCCAGTATGAGCTGAACAACCCCATGGCT-CTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCTGGGAAG atttctttcggatgagaaatctgtatgtaacgccccatgtttccctgcagAGGTGGTGAGCCATATCGCTTGTACAATTTAGATGTATTGCAGTATGAGCTAAATAACCCAACAGCTCCTCTATGGGTCCGTACCTG---TCCTGGCACACA-CTTTCATCGAGACCTGGGAATCTTCTGGCTCAATGCAGCTGAGACTTGGGTTGATATATCATCCAACAC------AAAGgtaacacatgggtatgtgagacttggggtctgtcttagacatcccatcat Alignment from Exonerate_protein2genome GGGCGGTGAGCCGTACCGCCTGTACAATTTGGATGTGTTCCAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCT atttctttcggatgagaaatctgtatgtaacgccccatgtttccctgcagAGGTGGTGAGCCATATCGCTTGTACAATTTAGATGTATTGCAGTATGAGCTAAATAACCCAACAGCTCCTCTATGG---GTCCGTACCTGTCCTGGCACACACTTTCATCGAGACCTGGGAATCTTCTGGCTCAATGCAGCTGAGACTTGGGTTGATATATCATCCAACACAAAGgtaacacatgggtatgtgagacttggggtctgtcttagacatcccatcat Alignment from Exonerate_coding2genome GGGCGGTGAGCCGTACCGCCTGTACAATTTGGATGTGTTCCAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCT atttctttcggatgagaaatctgtatgtaacgccccatgtttccctgcagAGGTGGTGAGCCATATCGCTTGTACAATTTAGATGTATTGCAGTATGAGCTAAATAACCCAACAGCTCCTCTATGG---GTCCGTACCTGTCCTGGCACACACTTTCATCGAGACCTGGGAATCTTCTGGCTCAATGCAGCTGAGACTTGGGTTGATATATCATCCAACACAAAGgtaacacatgggtatgtgagacttggggtctgtcttagacatcccatcat Alignment from GeneWise GGGCGGTGAGCCGTACCGCCTGTACAATTTGGATGTGTTCCAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCT-------------------------------------------------- atttctttcggatgagaaatctgtatgtaacgccccatgtttccctgcagAGGTGGTGAGCCATATCGCTTGTACAATTTAGATGTATTGCAGTATGAGCTAAATAACCCAACAGCTCCTCTATGG---GTCCGTACCTGTCCTGGCACACACTTTCATCGAGACCTGGGAATCTTCTGGCTCAATGCAGCTGAGACTTGGGTTGATATATCATCCAACACAAAGGTAACACATGGGTATGTGAGACTTGGGGTCTGTCTTAGACATCCCATCAT #### Ganab_ID2481_20 --> 2 - 0 Original Alignment gtGATGCACTCCTTATTCAC-CCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggatcaggctgctcagatgcgtgcaaaaactgttgccttttttttaaaaggtGACACACTCCTTATTCACCCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCT-TTTGCCCGGCCAAGAAGAAgtgagctgccaaatagcaaagcccaaatggcaaatacataggtgccttag Alignment from CESAR gtGATGCACTCCTTATTCAC-CCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggatcaggctgctcagatgcgtgcaaaaactgttgccttttttttaaaaggtGACACACTCCTTATTCACCCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCT-TTTGCCCGGCCAAGAAGAAgtgagctgccaaatagcaaagcccaaatggcaaatacataggtgccttag Alignment from Spaln_aa2Genome CTTGGTGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggatcaggctgctcagatgcgtgcaaaaactgttgccttttttttaaaagGTGACACACTCCTTATTCACC---CCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTT-TTGCCCGGCCAAGAAGAAgtgagctgccaaatagcaaagcccaaatggcaaatacataggtgccttag Alignment from Spaln_nt2Genome GTGATGCACTCCTTATTCACCC-TGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggatcaggctgctcagatgcgtgcaaaaactgttgccttttttttaaaagGTGACACACTCCTTATTCACCCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTTTT-GCCCGGCCAAGAAGAAgtgagctgccaaatagcaaagcccaaatggcaaatacataggtgccttag Alignment from Pairagon GTGATGCACTCCTTATTCA-CCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggatcaggctgctcagatgcgtgcaaaaactgttgccttttttttaaaagGTGACACACTCCTTATTCACCCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCT-TTTGCCCGGCCAAGAAGAAgtgagctgccaaatagcaaagcccaaatggcaaatacataggtgccttag Alignment from Exonerate_protein2genome GTGATGCACTCCTTATTCAC-CCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggatcaggctgctcagatgcgtgcaaaaactgttgccttttttttaaaagGTGACACACTCCTTATTCACCCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTTTTGCCCGGCCAAGAAGAAGtgagctgccaaatagcaaagcccaaatggcaaatacataggtgccttag Alignment from Exonerate_coding2genome GTGATGCACTCCTTATTCAC-CCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggatcaggctgctcagatgcgtgcaaaaactgttgccttttttttaaaagGTGACACACTCCTTATTCACCCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTTTTGCCCGGCCAAGAAGAAGtgagctgccaaatagcaaagcccaaatggcaaatacataggtgccttag Alignment from GeneWise GTGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA-------------------------------------------------- ggatcaggctgctcagatgcgtgcaaaaactgttgccttttttttaaaagGTGACACACTCCTTATTCACCCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTTTTGCCCGGCCAAGAAGAAGTGAGCTGCCAAATAGCAAAGCCCAAATGGCAAATACATAGGTGCCTTAG #### Ganab_ID2483_22 --> 0 - 0 Original Alignment ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGG-ATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gcatagcataaaaggaatgaagtcatctaatcgccctggtgtccttttagATCCCTGTGTTCCAGCGTGGTGGCACCATTGTCCCTCGATGGCATGCGTGTCAGGCGCCCTTCAGACTGCATGA-GGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGgtaataatccaatcaccaggactgggttaattatagatttattttaaatc Alignment from CESAR ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGG-ATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gcatagcataaaaggaatgaagtcatctaatcgccctggtgtccttttagATCCCTGTGTTCCAGCGTGGTGGCACCATTGTCCCTCGATGGCATGCGTGTCAGGCGCCCTTCAGACTGCATGA-GGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGgtaataatccaatcaccaggactgggttaattatagatttattttaaatc Alignment from Spaln_aa2Genome ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gcatagcataaaaggaatgaagtcatctaatcgccctggtgtccttttagATCCCTGTGTTCCAGCGTGGTGGCACCATTGTCCCTCGATGGCATGCGTGTCAGGCGCCCTTCAGACTGCATGAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGgtaataatccaatcaccaggactgggttaattatagatttattttaaatc Alignment from Spaln_nt2Genome ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGG-ATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gcatagcataaaaggaatgaagtcatctaatcgccctggtgtccttttagATCCCTGTGTTCCAGCGTGGTGGCACCATTGTCCCTCGATGGCATGCGTGTCAGGCGCCCTTCAGACTGCATG-AGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGgtaataatccaatcaccaggactgggttaattatagatttattttaaatc Alignment from Pairagon ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGG-ATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gcatagcataaaaggaatgaagtcatctaatcgccctggtgtccttttagATCCCTGTGTTCCAGCGTGGTGGCACCATTGTCCCTCGATGGCATGCGTGTCAGGCGCCCTTCAGACTGCATG-AGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGgtaataatccaatcaccaggactgggttaattatagatttattttaaatc Alignment from Exonerate_protein2genome ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gcatagcataaaaggaatgaagtcatctaatcgccctggtgtccttttagATCCCTGTGTTCCAGCGTGGTGGCACCATTGTCCCTCGATGGCATGCGTGTCAGGCGCCCTTCAGACTGCATGAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGgtaataatccaatcaccaggactgggttaattatagatttattttaaatc Alignment from Exonerate_coding2genome ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gcatagcataaaaggaatgaagtcatctaatcgccctggtgtccttttagATCCCTGTGTTCCAGCGTGGTGGCACCATTGTCCCTCGATGGCATGCGTGTCAGGCGCCCTTCAGACTGCATGAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGgtaataatccaatcaccaggactgggttaattatagatttattttaaatc Alignment from GeneWise ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gcatagcataaaaggaatgaagtcatctaatcgccctggtgtccttttagATCCCTGTGTTCCAGCGTGGTGGCACCATTGTCCCTCGATGGCATGCGTGTCAGGCGCCCTTCAGACTGCATGAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGgtaataatccaatcaccaggactgggttaattatagatttattttaaatc #### Ganab_ID2485_24 --> 1 - 1 Original Alignment tTCAGCAGACCCCAAAGGCCACCTTGAGACA-CCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAg tgccctgcctccagtttctgctatgtgtttttgcctttttgaattaatagcCTAGCCGACCCTAAGGGCCATCAGGAGACTCCCTATCTGGGTGGAGCAAGTTATCATAATGGGGG-CGGGAAGCCAGCTGCTGTGGTGCACCAGACAAAGggtgagtagatgcagtatgaattgatagaaacagtattagagatgaccagc Alignment from CESAR tTCAGCAGACCCCAAAGGCCACCTTGAGACA-CCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAg tgccctgcctccagtttctgctatgtgtttttgcctttttgaattaatagcCTAGCCGACCCTAAGGGCCATCAGGAGACTCCCTATCTGGGTGGAGCAAGTTATCATAATGGGGGCGG-GAAGCCAGCTGCTGTGGTGCACCAGACAAAGggtgagtagatgcagtatgaattgatagaaacagtattagagatgaccagc Alignment from Spaln_aa2Genome TTCAGCAGACCCCAAAGGCCACCTTGAGACACCT-ATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG tgccctgcctccagtttctgctatgtgtttttgcctttttgaattaatagCCTAGCCGACCCTAAGGGCCATCAGGAGACTCCCtATCTGGGTGGAGCAAGTTATCATAATGGGGGC-GGGAAGCCAGCTGCTGTGGTGCACCAGACAAAGGgtgagtagatgcagtatgaattgatagaaacagtattagagatgaccagc Alignment from Spaln_nt2Genome TTCAGCAGACCCCAAAGGCCACCTTGAGACACC-TATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG tgccctgcctccagtttctgctatgtgtttttgcctttttgaattaatagCCTAGCCGACCCTAAGGGCCATCAGGAGACTCCCTATCTGGGTGGAGCAAGTTATCATAATGGGGGCG-GGAAGCCAGCTGCTGTGGTGCACCAGACAAAGGgtgagtagatgcagtatgaattgatagaaacagtattagagatgaccagc Alignment from Pairagon TTCAGCAGACCCCAAAGGCCACCTTGAGAC-ACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG tgccctgcctccagtttctgctatgtgtttttgcctttttgaattaatagCCTAGCCGACCCTAAGGGCCATCAGGAGACTCCCTATCTGGGTGGAGCAAGTTATCATAATGGGGGC-GGGAAGCCAGCTGCTGTGGTGCACCAGACAAAGGgtgagtagatgcagtatgaattgatagaaacagtattagagatgaccagc Alignment from Exonerate_protein2genome TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG tgccctgcctccagtttctgctatgtgtttttgcctttttgaattaatagCCTAGCCGACCCTAAGGGCCATCAGGAGACTCCCTATCTGGGTGGAGCAAGTTATCATAATGGGGGCGGGAAGCCAGCTGCTGTGGTGCACCAGACAAAGGgtgagtagatgcagtatgaattgatagaaacagtattagagatgaccagc Alignment from Exonerate_coding2genome TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG tgccctgcctccagtttctgctatgtgtttttgcctttttgaattaatagCCTAGCCGACCCTAAGGGCCATCAGGAGACTCCCTATCTGGGTGGAGCAAGTTATCATAATGGGGGCGGGAAGCCAGCTGCTGTGGTGCACCAGACAAAGGgtgagtagatgcagtatgaattgatagaaacagtattagagatgaccagc Alignment from GeneWise TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG tgccctgcctccagtttctgctatgtgtttttgcctttttgaattaatagCCTAGCCGACCCTAAGGGCCATCAGGAGACTCCCTATCTGGGTGGAGCAAGTTATCATAATGGGGGCGGGAAGCCAGCTGCTGTGGTGCACCAGACAAAGGgtgagtagatgcagtatgaattgatagaaacagtattagagatgaccagc #### Gbf1_ID9795_14 --> 0 - 1 Original Alignment AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCT-CATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGt cccacttgacagtatacaggtcacatagcagcctgttgtttattctgtagAATGCATTTCCTGTATCTGGTCAACTTGATACTACACATCTTCTGTCCCTTGATGCCCTTTTAACTTCTATTGACAGTACTGAGTTTCCATTCTCAAGCCAAAGTTCTCAATGCCCTCAACC-GCAAGAGAAAAAGGAAACATCAAGGCCTGGTTTTGAAGCAGTTGAT---AACCCAGATGCTAACAAGtgtgagtaacttaattattttattattactactctttaagtccatgctctg Alignment from CESAR AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCT-CATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGt cccacttgacagtatacaggtcacatagcagcctgttgtttattctgtagAATGCATTTCCTGTATCTGGTCAACTTGATACTACACATCTTCTGTCCCTTGATGCCCTTTTAACTTCTATTGACAGTACTGAGTTTCCATTCTCAAGCCAAAGTTCTCAATGCCCTCAAC-CGCAAGAGAAAAAGGAAACATCAAGGCCTGGTTTTGAAGCAGTTGAT---AACCCAGATGCTAACAAGtgtgagtaacttaattattttattattactactctttaagtccatgctctg Alignment from Spaln_aa2Genome AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT cccacttgacagtatacaggtcacatagcagcctgttgtttattctgtagAATGCATTTCCTGTATCTGGTCAACTTGATACTACACATCTTCTGTCCCTTGATGCCCTTTTAACTTCTATTGACAGTACTGAGTTTCCATTCTCAAGCCAAAGTTCTCAATGCCCTCAACCGCAAGAGAAAAAGGAAACATCAAGGCCTGGTTTTGAAGCAGTTGAT---AACCCAGATGCTAACAAGTgtgagtaacttaattattttattattactactctttaagtccatgctctg Alignment from Spaln_nt2Genome AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTC-ATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT cccacttgacagtatacaggtcacatagcagcctgttgtttattctgtagAATGCATTTCCTGTATCTGGTCAACTTGATACTACACATCTTCTGTCCCTTGATGCCCTTTTAACTTCTATTGACAGTACTGAGTTTCCATTCTCAAGCCAAAGTTCTCAATGCCCTCAACC-GCAAGAGAAAAAGGAAACATCAAGGCCTGGTTTTGAAGCAGTTGAT---AACCCAGATGCTAACAAGTgtgagtaacttaattattttattattactactctttaagtccatgctctg Alignment from Pairagon AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCT-CATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT cccacttgacagtatacaggtcacatagcagcctgttgtttattctgtagAATGCATTTCCTGTATCTGGTCAACTTGATACTACACATCTTCTGTCCCTTGATGCCCTTTTAACTTCTATTGACAGTACTGAGTTTCCATTCTCAAGCCAAAGTTCTCAATGCCCTCAACC-GCAAGAGAAAAAGGAAACATCAAGGCCTGGTTTTGAAGCAGTTGAT---AACCCAGATGCTAACAAGTgtgagtaacttaattattttattattactactctttaagtccatgctctg Alignment from Exonerate_protein2genome AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT cccacttgacagtatacaggtcacatagcagcctgttgtttattctgtagAATGCATTTCCTGTATCTGGTCAACTTGATACTACACATCTTCTGTCCCTTGATGCCCTTTTAACTTCTATTGACAGTACTGAGTTTCCATTCTCAAGCCAAAGTTCTCAATGCCCTCAACCGCAAGAGAAAAAGGAAACATCAAGGCCTGGTTTTGAAGCAGTTGAT---AACCCAGATGCTAACAAGTgtgagtaacttaattattttattattactactctttaagtccatgctctg Alignment from Exonerate_coding2genome AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT cccacttgacagtatacaggtcacatagcagcctgttgtttattctgtagAATGCATTTCCTGTATCTGGTCAACTTGATACTACACATCTTCTGTCCCTTGATGCCCTTTTAACTTCTATTGACAGTACTGAGTTTCCATTCTCAAGCCAAAGTTCTCAATGCCCTCAACCGCAAGAGAAAAAGGAAACATCAAGGCCTGGTTTTGAAGCAGTTGAT---AACCCAGATGCTAACAAGTgtgagtaacttaattattttattattactactctttaagtccatgctctg Alignment from GeneWise AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT cccacttgacagtatacaggtcacatagcagcctgttgtttattctgtagAATGCATTTCCTGTATCTGGTCAACTTGATACTACACATCTTCTGTCCCTTGATGCCCTTTTAACTTCTATTGACAGTACTGAGTTTCCATTCTCAAGCCAAAGTTCTCAATGCCCTCAACCGCAAGAGAAAAAGGAAACATCAAGGCCTGGTTTTGAAGCAGTTGAT---AACCCAGATGCTAACAAGTgtgagtaacttaattattttattattactactctttaagtccatgctctg #### Gbf1_ID9797_16 --> 2 - 0 Original Alignment ctGACAAAAAGTTCACCAGGAAGCCACCTCGATTT-TCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtgttgtgcatgtgtgttttctcccccagcaGACAAAAAGTTCACCAGGAAGCCACCTCGATATCTCCTGTCTCCTGCCGGATCCATGGGAATTAA-TGAAATTAAAAACAAAAAAAAGgtgagtgtagtgaacctattcagctgtctccaatgctcacctgtctcagt Alignment from CESAR ctGACAAAAAGTTCACCAGGAAGCCACCTCGATTT-TCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtgttgtgcatgtgtgttttctcccccagcaGACAAAAAGTTCACCAGGAAGCCACCTCGATATCTCCTGTCTCCTGCCGGATCCATGGGAATTAA-TGAAATTAAAAACAAAAAAAAGgtgagtgtagtgaacctattcagctgtctccaatgctcacctgtctcagt Alignment from Spaln_aa2Genome CTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtgttgtgcatgtgtgttttctcccccagCAGACAAAAAGTTCACCAGGAAGCCACCTCGATATCTCCTGTCTCCTGCCGGATCCATGGGAATTAATGAAATTAAAAACAAAAAAAAGgtgagtgtagtgaacctattcagctgtctccaatgctcacctgtctcagt Alignment from Spaln_nt2Genome CTGACAAAAAGTTCACCAGGAAGCCACCTCGATTT-TCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtgttgtgcatgtgtgttttctcccccagCAGACAAAAAGTTCACCAGGAAGCCACCTCGATATCTCCTGTCTCCTGCCGGATCCATGGGAATTAA-TGAAATTAAAAACAAAAAAAAGgtgagtgtagtgaacctattcagctgtctccaatgctcacctgtctcagt Alignment from Pairagon CTGACAAAAAGTTCACCAGGAAGCCACCTCGAT-TTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtgttgtgcatgtgtgttttctcccccagCAGACAAAAAGTTCACCAGGAAGCCACCTCGATATCTCCTGTCTCCTGCCGGATCCATGGGAATTAA-TGAAATTAAAAACAAAAAAAAGgtgagtgtagtgaacctattcagctgtctccaatgctcacctgtctcagt Alignment from Exonerate_protein2genome CTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtgttgtgcatgtgtgttttctcccccagCAGACAAAAAGTTCACCAGGAAGCCACCTCGATATCTCCTGTCTCCTGCCGGATCCATGGGAATTAATGAAATTAAAAACAAAAAAAAGgtgagtgtagtgaacctattcagctgtctccaatgctcacctgtctcagt Alignment from Exonerate_coding2genome CTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtgttgtgcatgtgtgttttctcccccagCAGACAAAAAGTTCACCAGGAAGCCACCTCGATATCTCCTGTCTCCTGCCGGATCCATGGGAATTAATGAAATTAAAAACAAAAAAAAGgtgagtgtagtgaacctattcagctgtctccaatgctcacctgtctcagt Alignment from GeneWise CTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtgttgtgcatgtgtgttttctcccccagCAGACAAAAAGTTCACCAGGAAGCCACCTCGATATCTCCTGTCTCCTGCCGGATCCATGGGAATTAATGAAATTAAAAACAAAAAAAAGgtgagtgtagtgaacctattcagctgtctccaatgctcacctgtctcagt #### Gbf1_ID9800_19 --> 0 - 0 Original Alignment AGTTGTAATGGCTCCCCATTTGCTAAT-AGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcatcatgaggtgttacatatgacttgtaatttctttaagAGCTGCAATGGCTCTCCTTTTGCTAATCAGTGGTGCCTGCTCTGCCCTAGCCTATGGTGCCATCA-GCTGAACACTGACCAGCATAACCACAATGTTCAAAAGCAGAATACAACCATGACTCTAGAAgtatgagcagaatagctgtctaactttagaagcctaatctcctgggatgg Alignment from CESAR AGTTGTAATGGCTCCCCATTTGCTAAT-AGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcatcatgaggtgttacatatgacttgtaatttctttaagAGCTGCAATGGCTCTCCTTTTGCTAATCAGTGGTGCCTGCTCTGCCCTAGCCTATGGTGCCATC-AGCTGAACACTGACCAGCATAACCACAATGTTCAAAAGCAGAATACAACCATGACTCTAGAAgtatgagcagaatagctgtctaactttagaagcctaatctcctgggatgg Alignment from Spaln_aa2Genome AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcatcatgaggtgttacatatgacttgtaatttctttaagAGCTGCAATGGCTCTCCTTTTGCTAATCAGTGGTGCCTGCTCTGCCCTAGCCTATGGTGCCATCAGCTGAACACTGACCAGCATAACCACAATGTTCAAAAGCAGAATACAACCATGACTCTAGAAgtatgagcagaatagctgtctaactttagaagcctaatctcctgggatgg Alignment from Spaln_nt2Genome AGTTGTAATGGCTCCCCATTTGCTAAT-AGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcatcatgaggtgttacatatgacttgtaatttctttaagAGCTGCAATGGCTCTCCTTTTGCTAATCAGTGGTGCCTGCTCTGCCCTAGCCTATGGTGCCATCA-GCTGAACACTGACCAGCATAACCACAATGTTCAAAAGCAGAATACAACCATGACTCTAGAAgtatgagcagaatagctgtctaactttagaagcctaatctcctgggatgg Alignment from Pairagon AGTTGTAATGGCTCCCCATTTGCTAAT-AGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcatcatgaggtgttacatatgacttgtaatttctttaagAGCTGCAATGGCTCTCCTTTTGCTAATCAGTGGTGCCTGCTCTGCCCTAGCCTATGGTGCCATCA-GCTGAACACTGACCAGCATAACCACAATGTTCAAAAGCAGAATACAACCATGACTCTAGAAgtatgagcagaatagctgtctaactttagaagcctaatctcctgggatgg Alignment from Exonerate_protein2genome AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcatcatgaggtgttacatatgacttgtaatttctttaagAGCTGCAATGGCTCTCCTTTTGCTAATCAGTGGTGCCTGCTCTGCCCTAGCCTATGGTGCCATCAGCTGAACACTGACCAGCATAACCACAATGTTCAAAAGCAGAATACAACCATGACTCTAGAAgtatgagcagaatagctgtctaactttagaagcctaatctcctgggatgg Alignment from Exonerate_coding2genome AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcatcatgaggtgttacatatgacttgtaatttctttaagAGCTGCAATGGCTCTCCTTTTGCTAATCAGTGGTGCCTGCTCTGCCCTAGCCTATGGTGCCATCAGCTGAACACTGACCAGCATAACCACAATGTTCAAAAGCAGAATACAACCATGACTCTAGAAgtatgagcagaatagctgtctaactttagaagcctaatctcctgggatgg Alignment from GeneWise AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcatcatgaggtgttacatatgacttgtaatttctttaagAGCTGCAATGGCTCTCCTTTTGCTAATCAGTGGTGCCTGCTCTGCCCTAGCCTATGGTGCCATCAGCTGAACACTGACCAGCATAACCACAATGTTCAAAAGCAGAATACAACCATGACTCTAGAAgtatgagcagaatagctgtctaactttagaagcctaatctcctgggatgg #### Gbf1_ID9806_25 --> 1 - 0 Original Alignment aGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGT-GGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatattatcagttctatccccctccacgtgatccaatagaGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTCGGCCCTCAACAGTCAAGTGTCCAGGGTCCATCTACAG-GAACCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtaaagtgttgacccaatgttacaaggataaccatgcacggatattatag Alignment from CESAR aGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGT-GGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatattatcagttctatccccctccacgtgatccaatagaGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTCGGCCCTCAACAGTCAAGTGTCCAGGGTCCATCTACA-GGAACCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtaaagtgttgacccaatgttacaaggataaccatgcacggatattatag Alignment from Spaln_aa2Genome AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatattatcagttctatccccctccacgtgatccaatagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTCGGCCCTCAACAGTCAAGTGTCCAGGGTCCATCTACAGGAACCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtaaagtgttgacccaatgttacaaggataaccatgcacggatattatag Alignment from Spaln_nt2Genome AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGT-GGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatattatcagttctatccccctccacgtgatccaatagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTCGGCCCTCAACAGTCAAGTGTCCAGGGTCCATCTACAG-GAACCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtaaagtgttgacccaatgttacaaggataaccatgcacggatattatag Alignment from Pairagon AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGT-GGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatattatcagttctatccccctccacgtgatccaatagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTCGGCCCTCAACAGTCAAGTGTCCAGGGTCCATCTACAG-GAACCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtaaagtgttgacccaatgttacaaggataaccatgcacggatattatag Alignment from Exonerate_protein2genome AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatattatcagttctatccccctccacgtgatccaatagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTCGGCCCTCAACAGTCAAGTGTCCAGGGTCCATCTACAGGAACCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtaaagtgttgacccaatgttacaaggataaccatgcacggatattatag Alignment from Exonerate_coding2genome AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatattatcagttctatccccctccacgtgatccaatagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTCGGCCCTCAACAGTCAAGTGTCCAGGGTCCATCTACAGGAACCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtaaagtgttgacccaatgttacaaggataaccatgcacggatattatag Alignment from GeneWise AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatattatcagttctatccccctccacgtgatccaatagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTCGGCCCTCAACAGTCAAGTGTCCAGGGTCCATCTACAGGAACCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtaaagtgttgacccaatgttacaaggataaccatgcacggatattatag #### Gbf1_ID9807_26 --> 0 - 0 Original Alignment CAATGTGACCCAGAAAAAATG-ATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgcactggactttctttgtttatcatttgcgtctcctttgttttgcagCAGTGTGACCCAGAAAAGATGCATCACAGAAAGCAAGTTCCTCCAGCTGGAATCAC-GCAGGAACTCATGAAGgtctgttgtgaacaaatcatggaaagatagaattgtactggtacagtgca Alignment from CESAR CAATGTGACCCAGAAAAAATG-ATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgcactggactttctttgtttatcatttgcgtctcctttgttttgcagCAGTGTGACCCAGAAAAGATGCATCACAGAAAGCAAGTTCCTCCAGCTGGAATCA-CGCAGGAACTCATGAAGgtctgttgtgaacaaatcatggaaagatagaattgtactggtacagtgca Alignment from Spaln_aa2Genome CAATGTGACCCAGAAAAAATG-ATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgcactggactttctttgtttatcatttgcgtctcctttgttttgcagCAGTGTGACCCAGAAAAGATGcATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACG-CAGGAACTCATGAAGgtctgttgtgaacaaatcatggaaagatagaattgtactggtacagtgca Alignment from Spaln_nt2Genome CAATGTGACCCAGAAAAAATG-ATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgcactggactttctttgtttatcatttgcgtctcctttgttttgcagCAGTGTGACCCAGAAAAGATGCATCACAGAAAGCAAGTTCCTCCAGCTGGAATCAC-GCAGGAACTCATGAAGgtctgttgtgaacaaatcatggaaagatagaattgtactggtacagtgca Alignment from Pairagon CAATGTGACCCAGAAAAAATG-ATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgcactggactttctttgtttatcatttgcgtctcctttgttttgcagCAGTGTGACCCAGAAAAGATGCATCACAGAAAGCAAGTTCCTCCAGCTGGAATCAC-GCAGGAACTCATGAAGgtctgttgtgaacaaatcatggaaagatagaattgtactggtacagtgca Alignment from Exonerate_protein2genome CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgcactggactttctttgtttatcatttgcgtctcctttgttttgcagCAGTGTGACCCAGAAAAGATGCATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACGCAGGAACTCATGAAGgtctgttgtgaacaaatcatggaaagatagaattgtactggtacagtgca Alignment from Exonerate_coding2genome CAATGTGACCCAGAAAAAATGAT---CACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgcactggactttctttgtttatcatttgcgtctcctttgttttgcagCAGTGTGACCCAGAAAAGATG--CATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACG-CAGGAACTCATGAAGgtctgttgtgaacaaatcatggaaagatagaattgtactggtacagtgca Alignment from GeneWise CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgcactggactttctttgtttatcatttgcgtctcctttgttttgcagCAGTGTGACCCAGAAAAGATGCATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACGCAGGAACTCATGAAGgtctgttgtgaacaaatcatggaaagatagaattgtactggtacagtgca #### Gbf1_ID9815_34 --> 2 - 0 Original Alignment gaATCGCCTGCTTATGCTGT-GACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG acacttggtgacttacacaattgctcctggtctcctccacctgcccacaggaATTGCTTGCTTATGCTGTCGATGCTCGACGCCAGGTGCGGATGCAGGCCTTGACAT-TCTACAGCACGCACTTCTTGTGCCCGATCTGCAGAAACTGGATGCCCTGGAGTGGGAGTCTTGTTCTAACAAGgtaagcctctctcataatagatgctggttcacaacacacaccctgaaggg Alignment from CESAR gaATCGCCTGCTTATGCTGT-GACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG acacttggtgacttacacaattgctcctggtctcctccacctgcccacaggaATTGCTTGCTTATGCTGTCGATGCTCGACGCCAGGTGCGGATGCAGGCCTTGACAT-TCTACAGCACGCACTTCTTGTGCCCGATCTGCAGAAACTGGATGCCCTGGAGTGGGAGTCTTGTTCTAACAAGgtaagcctctctcataatagatgctggttcacaacacacaccctgaaggg Alignment from Spaln_aa2Genome GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG acacttggtgacttacacaattgctcctggtctcctccacctgcccacagGAATTGCTTGCTTATGCTGTCGATGCTCGACGCCAGGTGCGGATGCAGGCCTTGACATTCTACAGCACGCACTTCTTGTGCCCGATCTGCAGAAACTGGATGCCCTGGAGTGGGAGTCTTGTTCTAACAAGgtaagcctctctcataatagatgctggttcacaacacacaccctgaaggg Alignment from Spaln_nt2Genome GAATCGCCTGCTTATGCTGT-GACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG acacttggtgacttacacaattgctcctggtctcctccacctgcccacagGAATTGCTTGCTTATGCTGTCGATGCTCGACGCCAGGTGCGGATGCAGGCCTTGACAT-TCTACAGCACGCACTTCTTGTGCCCGATCTGCAGAAACTGGATGCCCTGGAGTGGGAGTCTTGTTCTAACAAGgtaagcctctctcataatagatgctggttcacaacacacaccctgaaggg Alignment from Pairagon GAATCGCCTGCTTATGCTGT-GACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG acacttggtgacttacacaattgctcctggtctcctccacctgcccacagGAATTGCTTGCTTATGCTGTCGATGCTCGACGCCAGGTGCGGATGCAGGCCTTGACAT-TCTACAGCACGCACTTCTTGTGCCCGATCTGCAGAAACTGGATGCCCTGGAGTGGGAGTCTTGTTCTAACAAGgtaagcctctctcataatagatgctggttcacaacacacaccctgaaggg Alignment from Exonerate_protein2genome GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG acacttggtgacttacacaattgctcctggtctcctccacctgcccacagGAATTGCTTGCTTATGCTGTCGATGCTCGACGCCAGGTGCGGATGCAGGCCTTGACATTCTACAGCACGCACTTCTTGTGCCCGATCTGCAGAAACTGGATGCCCTGGAGTGGGAGTCTTGTTCTAACAAGgtaagcctctctcataatagatgctggttcacaacacacaccctgaaggg Alignment from Exonerate_coding2genome GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG acacttggtgacttacacaattgctcctggtctcctccacctgcccacagGAATTGCTTGCTTATGCTGTCGATGCTCGACGCCAGGTGCGGATGCAGGCCTTGACATTCTACAGCACGCACTTCTTGTGCCCGATCTGCAGAAACTGGATGCCCTGGAGTGGGAGTCTTGTTCTAACAAGgtaagcctctctcataatagatgctggttcacaacacacaccctgaaggg Alignment from GeneWise GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG acacttggtgacttacacaattgctcctggtctcctccacctgcccacagGAATTGCTTGCTTATGCTGTCGATGCTCGACGCCAGGTGCGGATGCAGGCCTTGACATTCTACAGCACGCACTTCTTGTGCCCGATCTGCAGAAACTGGATGCCCTGGAGTGGGAGTCTTGTTCTAACAAGgtaagcctctctcataatagatgctggttcacaacacacaccctgaaggg #### Gbf1_ID9816_35 --> 0 - 0 Original Alignment GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCT-GCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG acaacacacaccctgaagggttgatgtaattactaccttatttctttcagGTGCTATTTCCCCTTCTTTCCAAGCTCTTAGAGAATATTAGCCCTCGCGGATGTAGGTGGGATGGAAGAGACACGGATGCGGG-ATCTACACTCCTTTCAAAGgtgagttaccttgtttgcacactgacaagatggttatctcatcaatggag Alignment from CESAR GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCT-GCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG acaacacacaccctgaagggttgatgtaattactaccttatttctttcagGTGCTATTTCCCCTTCTTTCCAAGCTCTTAGAGAATATTAGCCCTCGCGGATGTAGGTGGGATGGAAGAGACACGGATGCGG-GATCTACACTCCTTTCAAAGgtgagttaccttgtttgcacactgacaagatggttatctcatcaatggag Alignment from Spaln_aa2Genome GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG acaacacacaccctgaagggttgatgtaattactaccttatttctttcagGTGCTATTTCCCCTTCTTTCCAAGCTCTTAGAGAATATTAGCCCTCGCGGATGTAGGTGGGATGGAAGAGACACGGATGCGGGATCTACACTCCTTTCAAAGgtgagttaccttgtttgcacactgacaagatggttatctcatcaatggag Alignment from Spaln_nt2Genome GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCT-GCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG acaacacacaccctgaagggttgatgtaattactaccttatttctttcagGTGCTATTTCCCCTTCTTTCCAAGCTCTTAGAGAATATTAGCCCTCGCGGATGTAGGTGGGATGGAAGAGACACGGATGCGGG-ATCTACACTCCTTTCAAAGgtgagttaccttgtttgcacactgacaagatggttatctcatcaatggag Alignment from Pairagon GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCT-GCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG acaacacacaccctgaagggttgatgtaattactaccttatttctttcagGTGCTATTTCCCCTTCTTTCCAAGCTCTTAGAGAATATTAGCCCTCGCGGATGTAGGTGGGATGGAAGAGACACGGATGCGGGA-TCTACACTCCTTTCAAAGgtgagttaccttgtttgcacactgacaagatggttatctcatcaatggag Alignment from Exonerate_protein2genome GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCT-GCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAA acaacacacaccctgaagggttgatgtaattactaccttatttctttcagGTGCTATTTCCCCTTCTTTCCAAGCTCTTAGAGAATATTAGCCCTCGCGGATGTAGGTGGGATGGAAGAGACACGGATGCGGGATCTACACTCCTTTCAAAGgtgagttaccttgtttgcacactgacaagatggttatctcatcaatggag Alignment from Exonerate_coding2genome acaacacacaccctgaagggttgatgtaattactaccttatttctttcaggtgctatttccccttctttccaagctcttagagaatattagccctcgcggatgtaggtgggatggaagagacacggatgcgggatctacactcctttcaaaggtgagttaccttgtttgcacactgacaagatggttatctcatcaatggag Alignment from GeneWise GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG acaacacacaccctgaagggttgatgtaattactaccttatttctttcagGTGCTATTTCCCCTTCTTTCCAAGCTCTTAGAGAATATTAGCCCTCGCGGATGTAGGTGGGATGGAAGAGACACGGATGCGGGATCTACACTCCTTTCAAAGgtgagttaccttgtttgcacactgacaagatggttatctcatcaatggag #### Gbf1_ID9818_37 --> 0 - 1 Original Alignment TCAGAAGCTATCCCCGAGTCTCTGAAG-AACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGg agtgtccattcaaaccactacttctcctaatgtctcgctcctccccgtagACAGAAGCTATCCCTGAGTCTCTGAAGCAACATGCTACTGCTAATGGATACAGCAGAGATTTTCC-TAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCCCTCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTAATCCAAggtaagcgcagatttgataaccaagcagtttacaaactaacagaactaccc Alignment from CESAR TCAGAAGCTATCCCCGAGTCTCTGAAG-AACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGg agtgtccattcaaaccactacttctcctaatgtctcgctcctccccgtagACAGAAGCTATCCCTGAGTCTCTGAAGCAACATGCTACTGCTAATGGATACAGCAGAGATTTTC-CTAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCCCTCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTAATCCAAggtaagcgcagatttgataaccaagcagtttacaaactaacagaactaccc Alignment from Spaln_aa2Genome TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtgtccattcaaaccactacttctcctaatgtctcgctcctccccgtagACAGAAGCTATCCCTGAGTCTCTGAAGCAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCTAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCCCTCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTAATCCAAGgtaagcgcagatttgataaccaagcagtttacaaactaacagaactaccc Alignment from Spaln_nt2Genome TCAGAAGCTATCCCCGAGTCTCTGAAGA-ACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtgtccattcaaaccactacttctcctaatgtctcgctcctccccgtagACAGAAGCTATCCCTGAGTCTCTGAAGCAACATGCTACTGCTAATGGATACAGCAGAGATTTTCC-TAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCCCTCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTAATCCAAGgtaagcgcagatttgataaccaagcagtttacaaactaacagaactaccc Alignment from Pairagon TCAGAAGCTATCCCCGAGTCTCTGAAG-AACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtgtccattcaaaccactacttctcctaatgtctcgctcctccccgtagACAGAAGCTATCCCTGAGTCTCTGAAGCAACATGCTACTGCTAATGGATACAGCAGAGATTTTCC-TAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCCCTCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTAATCCAAGgtaagcgcagatttgataaccaagcagtttacaaactaacagaactaccc Alignment from Exonerate_protein2genome TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtgtccattcaaaccactacttctcctaatgtctcgctcctccccgtagACAGAAGCTATCCCTGAGTCTCTGAAGCAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCTAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCCCTCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTAATCCAAGgtaagcgcagatttgataaccaagcagtttacaaactaacagaactaccc Alignment from Exonerate_coding2genome TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtgtccattcaaaccactacttctcctaatgtctcgctcctccccgtagACAGAAGCTATCCCTGAGTCTCTGAAGCAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCTAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCCCTCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTAATCCAAGgtaagcgcagatttgataaccaagcagtttacaaactaacagaactaccc Alignment from GeneWise TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtgtccattcaaaccactacttctcctaatgtctcgctcctccccgtagACAGAAGCTATCCCTGAGTCTCTGAAGCAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCTAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCCCTCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTAATCCAAGgtaagcgcagatttgataaccaagcagtttacaaactaacagaactaccc #### Gbf1_ID9819_38 --> 2 - 1 Original Alignment acCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTGACTTCTGCTGCTGGTGAC-CCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTTGTg tgtgttgcaactatgagactcatcctttaaacccaccctctctgactcagacCCAATCCCTGCTGAAACACGTAGTCAGGAGCCT---GCATCCACTCACCTTATGCCTGCTGCTGGCGACCCCCAGGATGCCTGGCCATGCACCCCTCCCAGAGATACCCT-AGAAATGGGCGTTTGTggtacgttacacttagcccattacttgtgtaaaccactgctttcacacata Alignment from CESAR acCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTGACTTCTGCTGCTGGTGACCCC-AGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTTGTg tgtgttgcaactatgagactcatcctttaaacccaccctctctgactcagacCCAATCCCTGCTGAAACACGTAGTCAGGAGCCT---GCATCCACTCACCTTATGCCTGCTGCTGGCGACCCCCAGGATGCCTGGCCATGCACCCCTCCCAGAGATACCC-TAGAAATGGGCGTTTGTggtacgttacacttagcccattacttgtgtaaaccactgctttcacacata Alignment from Spaln_aa2Genome ACCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTGACTTCTGCTGCTGGTGACCCC-AGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTTGTG tgtgttgcaactatgagactcatcctttaaacccaccctctctgactcagACCCAATCCCTGCTGAAACACGTAGTCAGGAGCCT---GCATCCACTCACCTTATGCCTGCTGCTGGCGACCCCcAGGATGCCTGGCCATGCACCCCTCCCAGAGATACCCTA-GAAATGGGCGTTTGTGgtacgttacacttagcccattacttgtgtaaaccactgctttcacacata Alignment from Spaln_nt2Genome ACCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTGACTTCTGCTGCTGGTGACCCC-AGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTTGTG tgtgttgcaactatgagactcatcctttaaacccaccctctctgactcagACCCAATCCCTGCTGAAACACGTAGTCAGGAGCCT---GCATCCACTCACCTTATGCCTGCTGCTGGCGACCCCCAGGATGCCTGGCCATGCACCCCTCCCAGAGATACCCT-AGAAATGGGCGTTTGTGgtacgttacacttagcccattacttgtgtaaaccactgctttcacacata Alignment from Pairagon ACCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTGACTTCTGCTGCTGGTGA-CCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTTGTG tgtgttgcaactatgagactcatcctttaaacccaccctctctgactcagACCCAATCCCTGCTGAAACACGTAGTCAGGAGCCT---GCATCCACTCACCTTATGCCTGCTGCTGGCGACCCCCAGGATGCCTGGCCATGCACCCCTCCCAGAGATACCCT-AGAAATGGGCGTTTGTGgtacgttacacttagcccattacttgtgtaaaccactgctttcacacata Alignment from Exonerate_protein2genome ACCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTGACTTCTGCTGCTGGTGAC-CCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCC--TCAGAAATGGGGGTTTGTG tgtgttgcaactatgagactcatcctttaaacccaccctctctgactcagACCCAATCCCTGCTGAAACACGTAGTCAGGAGCCT---GCATCCACTCACCTTATGCCTGCTGCTGGCGACCCCCAGGATGCCTGGCCATGCACCCCTCCCAGAGATACCCTA---GAAATGGGCGTTTGTGgtacgttacacttagcccattacttgtgtaaaccactgctttcacacata Alignment from Exonerate_coding2genome ACCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTGACTTCTGCTGCTGGTGAC-CCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCC--TCAGAAATGGGGGTTTGTG tgtgttgcaactatgagactcatcctttaaacccaccctctctgactcagACCCAATCCCTGCTGAAACACGTAGTCAGGAGCCT---GCATCCACTCACCTTATGCCTGCTGCTGGCGACCCCCAGGATGCCTGGCCATGCACCCCTCCCAGAGATACCCTA---GAAATGGGCGTTTGTGgtacgttacacttagcccattacttgtgtaaaccactgctttcacacata Alignment from GeneWise ACCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTGACTTCTGCTGCTGGTGACCCCAGG------ATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTTGTG tgtgttgcaactatgagactcatcctttaaacccaccctctctgactcagACCCAATCCCTGCTGAAACACGTAGTCAGGAGCCT---GCATCCACTCACCTTATGCCTGCTGCTGGCGACCCCCAGGATGCCTGGCCATGCACCCCTCCCAGAGATACCCTA------GAAATGGGCGTTTGTGgtacgttacacttagcccattacttgtgtaaaccactgctttcacacata #### Got1_ID8751_4 --> 2 - 0 Original Alignment agAACCATAATGCTGTGTTTTCTGCC-GCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG ttagttatatgtccattactaatggataaggccatgtccttcggttccagagAACCATAATGCTGTATTCTCTGCTCGCTGGTTTCAAGGATATTCGACCCTATTGCTACTGGGATG-TGAGAAAAGAGGACTAGACCTTCAGGGTTTTCTTAATGATCTGGAGgtaagtgaaacagatgcacacagaactctgtttagttgcttggaggaaaa Alignment from CESAR agAACCATAATGCTGTGTTTTCTGCC-GCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG ttagttatatgtccattactaatggataaggccatgtccttcggttccagagAACCATAATGCTGTATTCTCTGCTCGCTGGTTTCAAGGATATTCGACCCTATTGCTACTGGGATG-TGAGAAAAGAGGACTAGACCTTCAGGGTTTTCTTAATGATCTGGAGgtaagtgaaacagatgcacacagaactctgtttagttgcttggaggaaaa Alignment from Spaln_aa2Genome AGAACCATAATGCTGTGTTTTCTGCC-GCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG ttagttatatgtccattactaatggataaggccatgtccttcggttccagAGAACCATAATGCTGTATTCTCTGCTcGCTGGTTTCAAGGATATTCGACCCTATTGCTACTGGGATGT-GAGAAAAGAGGACTAGACCTTCAGGGTTTTCTTAATGATCTGGAGgtaagtgaaacagatgcacacagaactctgtttagttgcttggaggaaaa Alignment from Spaln_nt2Genome AGAACCATAATGCTGTGTTTTCTGC-CGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG ttagttatatgtccattactaatggataaggccatgtccttcggttccagAGAACCATAATGCTGTATTCTCTGCTCGCTGGTTTCAAGGATATTCGACCCTATTGCTACTGGGATGTG-AGAAAAGAGGACTAGACCTTCAGGGTTTTCTTAATGATCTGGAGgtaagtgaaacagatgcacacagaactctgtttagttgcttggaggaaaa Alignment from Pairagon AGAACCATAATGCTGTGTTTTCTGC-CGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG ttagttatatgtccattactaatggataaggccatgtccttcggttccagAGAACCATAATGCTGTATTCTCTGCTCGCTGGTTTCAAGGATATTCGACCCTATTGCTACTGGGATGT-GAGAAAAGAGGACTAGACCTTCAGGGTTTTCTTAATGATCTGGAGgtaagtgaaacagatgcacacagaactctgtttagttgcttggaggaaaa Alignment from Exonerate_protein2genome AGAACCATAATGCTGTGTTTTCTGCC-GCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGAT--GCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG ttagttatatgtccattactaatggataaggccatgtccttcggttccagAGAACCATAATGCTGTATTCTCTGCTCGCTGGTTTCAAGGATATTCGACCCTATTGCTACTGGGATGT---GAGAAAAGAGGACTAGACCTTCAGGGTTTTCTTAATGATCTGGAGgtaagtgaaacagatgcacacagaactctgtttagttgcttggaggaaaa Alignment from Exonerate_coding2genome AGAACCATAATGCTGTGTTTTCTGCC-GCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGAT--GCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG ttagttatatgtccattactaatggataaggccatgtccttcggttccagAGAACCATAATGCTGTATTCTCTGCTCGCTGGTTTCAAGGATATTCGACCCTATTGCTACTGGGATGT---GAGAAAAGAGGACTAGACCTTCAGGGTTTTCTTAATGATCTGGAGgtaagtgaaacagatgcacacagaactctgtttagttgcttggaggaaaa Alignment from GeneWise AGAACCATAATGCTGTGTTTTCTGCC-GCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG ttagttatatgtccattactaatggataaggccatgtccttcggttccagAGAACCATAATGCTGTATTCTCTGCTCGCTGGTTTCAAGGATATTCGACCCTATTGCTACTGGGATGT-GAGAAAAGAGGACTAGACCTTCAGGGTTTTCTTAATGATCTGGAGgtaagtgaaacagatgcacacagaactctgtttagttgcttggaggaaaa #### Gpha2_ID1505_2 --> 2 - 0 Original Alignment ccTTCAATGTG---ACGGTGCGCAGTGATCGCCTCGGCACT-TGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG caaaatgataggtatcctagtttttcaattgttgttatttttatttctagcaTTCAATATTGCAGCAGTGCATAGTGACCACCTTGGAGAACTGTCAGGCATCCCAATTATCACAGGCCTGTGTGGGAT-CTGTGAGTCCAGTGCTTTTCCCTCCCGGTATTCTGTATTGGTGGTCAGTGGTTATTGGCACAATACTACATCATCATCACCCTGCTGCACTATCAGCAGTCTTAGGAAGgtgagtgctctgtgtctctgtgtcttcaaagttacactttggacacatat Alignment from CESAR ccTTCAATGTG---ACGGTGCGCAGTGATCGCCTCGGC-ACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG caaaatgataggtatcctagtttttcaattgttgttatttttatttctagcaTTCAATATTGCAGCAGTGCATAGTGACCACCTTGGAGAACTGTCAGGCATCCCAATTATCACAGGCCTGTGTGGGA-TCTGTGAGTCCAGTGCTTTTCCCTCCCGGTATTCTGTATTGGTGGTCAGTGGTTATTGGCACAATACTACATCATCATCACCCTGCTGCACTATCAGCAGTCTTAGGAAGgtgagtgctctgtgtctctgtgtcttcaaagttacactttggacacatat Alignment from Spaln_aa2Genome CCTTCAATGTG---ACGGTGCGCAGTGATCGCCTCGGCACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG caaaatgataggtatcctagtttttcaattgttgttatttttatttctagCATTCAATATTGCAGCAGTGCATAGTGACCACCTTGGAGAACTGTCAGGCATCCCAATTATCACAGGCCTGTGTGGGATCTGTGAGTCCAGTGCTTTTCCCTCCCGGTATTCTGTATTGGTGGTCAGTGGTTATTGGCACAATACTACATCATCATCACCCTGCTGCACTATCAGCAGTCTTAGGAAGgtgagtgctctgtgtctctgtgtcttcaaagttacactttggacacatat Alignment from Spaln_nt2Genome CCTTCAATGTGACGG---TGCGCAGTGATCGCCTCGGC-ACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG caaaatgataggtatcctagtttttcaattgttgttatttttatttctagCATTCAATATTGCAGCAGTGCATAGTGACCACCTTGGAGAACTGTCAGGCATCCCAATTATCACAGGCCTGTGTGGGA-TCTGTGAGTCCAGTGCTTTTCCCTCCCGGTATTCTGTATTGGTGGTCAGTGGTTATTGGCACAATACTACATCATCATCACCCTGCTGCACTATCAGCAGTCTTAGGAAGgtgagtgctctgtgtctctgtgtcttcaaagttacactttggacacatat Alignment from Pairagon ---------------------------------------------------------------------------------------------------------------CACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG CAAAATGATAGGTATCCTAGTTTTTCAATTGTTGTTATTTTTATTTCTAGCATTCAATATTGCAGCAGTGCATAGTGACCACCTTGGAGAACTGTCAGGCATCCCAATTATCACAGGCCTGTGTGGGAT-CTGTGAGTCCAGTGCTTTTCCCTCCCGGTATTCTGTATTGGTGGTCAGTGGTTATTGGCACAATACTACATCATCATCACCCTGCTGCACTATCAGCAGTCTTAGGAAGgtgagtgctctgtgtctctgtgtcttcaaagttacactttggacacatat Alignment from Exonerate_protein2genome CCTTCAATGTG---ACGGTGCGCAGTGATCGCCTCGGCACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG caaaatgataggtatcctagtttttcaattgttgttatttttatttctagCATTCAATATTGCAGCAGTGCATAGTGACCACCTTGGAGAACTGTCAGGCATCCCAATTATCACAGGCCTGTGTGGGATCTGTGAGTCCAGTGCTTTTCCCTCCCGGTATTCTGTATTGGTGGTCAGTGGTTATTGGCACAATACTACATCATCATCACCCTGCTGCACTATCAGCAGTCTTAGGAAGgtgagtgctctgtgtctctgtgtcttcaaagttacactttggacacatat Alignment from Exonerate_coding2genome CCTTCAATGTG---ACGGTGCGCAGTGATCGCCTCGGCACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG caaaatgataggtatcctagtttttcaattgttgttatttttatttctagCATTCAATATTGCAGCAGTGCATAGTGACCACCTTGGAGAACTGTCAGGCATCCCAATTATCACAGGCCTGTGTGGGATCTGTGAGTCCAGTGCTTTTCCCTCCCGGTATTCTGTATTGGTGGTCAGTGGTTATTGGCACAATACTACATCATCATCACCCTGCTGCACTATCAGCAGTCTTAGGAAGgtgagtgctctgtgtctctgtgtcttcaaagttacactttggacacatat Alignment from GeneWise CCTTCAATGTGACG---GTGCGCAGTGATCGCCTCGGCACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG caaaatgataggtatcctagtttttcaattgttgttatttttatttctagCATTCAATATTGCAGCAGTGCATAGTGACCACCTTGGAGAACTGTCAGGCATCCCAATTATCACAGGCCTGTGTGGGATCTGTGAGTCCAGTGCTTTTCCCTCCCGGTATTCTGTATTGGTGGTCAGTGGTTATTGGCACAATACTACATCATCATCACCCTGCTGCACTATCAGCAGTCTTAGGAAGgtgagtgctctgtgtctctgtgtcttcaaagttacactttggacacatat #### Gpr137_ID1886_5 --> 0 - 0 Original Alignment GCAGATCTGGTGAATGACCTAGGGAACAAA-GGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG gggctgacaaggctgcacattagcaaattttggctgcttttgctttccagGCAGATCTGGTCAATGACCTAGTGAACAAACGGTTACCTTGTGTTTGGTCTCATTCTC---TTTTGGCAATTGCTACCCACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtatggaacacgtgttccataaaatagaggtgtcctgtcatcttccaaac Alignment from CESAR GCAGATCTGGTGAATGACCTAGGGAACAAA-GGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG gggctgacaaggctgcacattagcaaattttggctgcttttgctttccagGCAGATCTGGTCAATGACCTAGTGAACAAACGGTTACCTTGTGTTTGGTCTCATTCTCTTT---TGGCAATTGCTACCCACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtatggaacacgtgttccataaaatagaggtgtcctgtcatcttccaaac Alignment from Spaln_aa2Genome GCAGATCTGGTGAATGACCTAGGGAACAAA-GGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG gggctgacaaggctgcacattagcaaattttggctgcttttgctttccagGCAGATCTGGTCAATGACCTAGTGAACAAAcGGTTACCTTGTGTTTGGTCTCATTCTCTTT---TGGCAATTGCTACCCACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtatggaacacgtgttccataaaatagaggtgtcctgtcatcttccaaac Alignment from Spaln_nt2Genome GCAGATCTGGTGAATGACCTAGGGAACAAAG-GCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG gggctgacaaggctgcacattagcaaattttggctgcttttgctttccagGCAGATCTGGTCAATGACCTAGTGAACAAACGGTTACCTTGTGTTTGGTCTCATTCTCT---TTTGGCAATTGCTACCCACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtatggaacacgtgttccataaaatagaggtgtcctgtcatcttccaaac Alignment from Pairagon GCAGATCTGGTGAATGACCTAGGGAACAAA-GGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG gggctgacaaggctgcacattagcaaattttggctgcttttgctttccagGCAGATCTGGTCAATGACCTAGTGAACAAACGGTTACCTTGTGTTTGGTCTCATTCTCT---TTTGGCAATTGCTACCCACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtatggaacacgtgttccataaaatagaggtgtcctgtcatcttccaaac Alignment from Exonerate_protein2genome GCAGATCTGGTGAATGACCTAGGGAACAAA-GGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG gggctgacaaggctgcacattagcaaattttggctgcttttgctttccagGCAGATCTGGTCAATGACCTAGTGAACAAACGGTTACCTTGTGTTTGGTCTCATTCTCTTT---TGGCAATTGCTACCCACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtatggaacacgtgttccataaaatagaggtgtcctgtcatcttccaaac Alignment from Exonerate_coding2genome GCAGATCTGGTGAATGACCTAGGGAACAAA-GGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG gggctgacaaggctgcacattagcaaattttggctgcttttgctttccagGCAGATCTGGTCAATGACCTAGTGAACAAACGGTTACCTTGTGTTTGGTCTCATTCTCTTT---TGGCAATTGCTACCCACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtatggaacacgtgttccataaaatagaggtgtcctgtcatcttccaaac Alignment from GeneWise GCAGATCTGGTGAATGACCTAGGGAAC-AAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG gggctgacaaggctgcacattagcaaattttggctgcttttgctttccagGCAGATCTGGTCAATGACCTAGTGAACAAACGGTTACCTTGTGTTTGGTCTCATTCTCTTT---TGGCAATTGCTACCCACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtatggaacacgtgttccataaaatagaggtgtcctgtcatcttccaaac #### Gpr137_ID1887_4 --> 0 - 0 Original Alignment GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGT-TACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaacatacctagaaactcgggaccccttgtctctacccccacctcctagGGAACAAGTGTATGTCAGGTGGCTGCAATAGGG---CCCATGATCTTGATTTATGCCAGCCGGGCCTGCCTACAACCTGGCAGCCTTGGCCTTGGCAC-TCAGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTCTCGGACCAGgtgaagtacacattattctgggctgacaaggctgcacattagcaaatgac Alignment from CESAR GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGT-TACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaacatacctagaaactcgggaccccttgtctctacccccacctcctagGGAACAAGTGTATGTCAGGTGGCTGCAATAGGG---CCCATGATCTTGATTTATGCCAGCCGGGCCTGCCTACAACCTGGCAGCCTTGGCCTTGGCA-CTCAGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTCTCGGACCAGgtgaagtacacattattctgggctgacaaggctgcacattagcaaatttt Alignment from Spaln_aa2Genome GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaacatacctagaaactcgggaccccttgtctctacccccacctcctagGGAACAAGTGTATGTCAGGTGGCTGCAATA---GGGCCCATGATCTTGATTTATGCCAGCCGGGCCTGCCTACAACCTGGCAGCCTTGGCCTTGGCACTCAGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTCTCGGACCAGgtgaagtacacattattctgggctgacaaggctgcacattagcaaatgac Alignment from Spaln_nt2Genome GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGT-TACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaacatacctagaaactcgggaccccttgtctctacccccacctcctagGGAACAAGTGTATGTCAGGTGGCTGCAATAGGG---CCCATGATCTTGATTTATGCCAGCCGGGCCTGCCTACAACCTGGCAGCCTTGGCCTTGG-CACTCAGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTCTCGGACCAGgtgaagtacacattattctgggctgacaaggctgcacattagcaaatgac Alignment from Pairagon GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTG-TTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaacatacctagaaactcgggaccccttgtctctacccccacctcctagGGAACAAGTGTATGTCAGGTGGCTGCAATAGGG---CCCATGATCTTGATTTATGCCAGCCGGGCCTGCCTACAACCTGGCAGCCTTGGCCTTGG-CACTCAGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTCTCGGACCAGgtgaagtacacattattctgggctgacaaggctgcacattagcaaatgac Alignment from Exonerate_protein2genome GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaacatacctagaaactcgggaccccttgtctctacccccacctcctagGGAACAAGTGTATGTCAGGTGGCTGCAATA---GGGCCCATGATCTTGATTTATGCCAGCCGGGCCTGCCTACAACCTGGCAGCCTTGGCCTTGGCACTCAGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTCTCGGACCAGgtgaagtacacattattctgggctgacaaggctgcacattagcaaatgac Alignment from Exonerate_coding2genome GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaacatacctagaaactcgggaccccttgtctctacccccacctcctagGGAACAAGTGTATGTCAGGTGGCTGCAATA---GGGCCCATGATCTTGATTTATGCCAGCCGGGCCTGCCTACAACCTGGCAGCCTTGGCCTTGGCACTCAGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTCTCGGACCAGgtgaagtacacattattctgggctgacaaggctgcacattagcaaatgac Alignment from GeneWise GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaacatacctagaaactcgggaccccttgtctctacccccacctcctagGGAACAAGTGTATGTCAGGTGGCTGCAATAGGG---CCCATGATCTTGATTTATGCCAGCCGGGCCTGCCTACAACCTGGCAGCCTTGGCCTTGGCACTCAGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTCTCGGACCAGgtgaagtacacattattctgggctgacaaggctgcacattagcaaatgac #### Gpr137_ID1888_3 --> 1 - 0 Original Alignment gCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCA-CAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggctatagccactgcagtgagggtgtcctctcccctcaccccaaccctaggCTGGCCGTTCAGGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTGAATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACAACCAACCCTGGATACTTTCACTGGAACATGTCT-GGTAAGTGACTCTCTCTTTGTCATCTGT------GCTCTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACCACCAGTATCTACTTAGATGCAAAGgtaggagtgccatatagatgtggcattgttggatttgtggacagagtact Alignment from CESAR gCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCA-CAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggctatagccactgcagtgagggtgtcctctcccctcaccccaaccctaggCTGGCCGTTCAGGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTGAATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACAACCAACCCTGGATACTTTCACTGGAACATG-TCTGGTAAGTGACTCTCTCTTTGTCATCTGTGCT------CTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACCACCAGTATCTACTTAGATGCAAAGgtaggagtgccatatagatgtggcattgttggatttgtggacagagtact Alignment from Spaln_aa2Genome GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggctatagccactgcagtgagggtgtcctctcccctcaccccaaccctagGCTGGCCGTTCAGGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTGAATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACAACCAACCCTGGATACTTTCACTGGAACATGTCTGGTAAGTGACTCTCTCTTTGTCATCTGTGCT------CTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACCACCAGTATCTACTTAGATGCAAAGgtaggagtgccatatagatgtggcattgttggatttgtggacagagtact Alignment from Spaln_nt2Genome GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCAC-AGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggctatagccactgcagtgagggtgtcctctcccctcaccccaaccctagGCTGGCCGTTCAGGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTGAATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACAACCAACCCTGGATACTTTCACTGGAACATGT-CTGGTAAGTGACTCTCTCTTTGTCATCTGTG------CTCTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACCACCAGTATCTACTTAGATGCAAAGgtaggagtgccatatagatgtggcattgttggatttgtggacagagtact Alignment from Pairagon GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCA-CAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggctatagccactgcagtgagggtgtcctctcccctcaccccaaccctagGCTGGCCGTTCAGGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTGAATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACAACCAACCCTGGATACTTTCACTGGAACATGT-CTGGTAAGTGACTCTCTCTTTGTCATCTGTGCT------CTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACCACCAGTATCTACTTAGATGCAAAGgtaggagtgccatatagatgtggcattgttggatttgtggacagagtact Alignment from Exonerate_protein2genome GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggctatagccactgcagtgagggtgtcctctcccctcaccccaaccctagGCTGGCCGTTCAGGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTGAATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACAACCAACCCTGGATACTTTCACTGGAACATGTCTGGTAAGTGACTCTCTCTTTGTCATCTGTGCT------CTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACCACCAGTATCTACTTAGATGCAAAGgtaggagtgccatatagatgtggcattgttggatttgtggacagagtact Alignment from Exonerate_coding2genome GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTTGCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGC ggctatagccactgcagtgagggtgtcctctcccctcaccccaaccctaggctggccgttcagggtgcctttgtgggtgcttcattgctttttttattggtgAATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACAACCAACCCTGGATACTTTCACTGGAACATGTCTGGTAAGTGACTCTCTCTTTGTCATCTGTGCTCTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACCACCAGTATCTACTTAGATGCAAAGGTAGGAGTGCCATATAGATGTGGCATTGTTGGATTTGTGGACAGAGTACT Alignment from GeneWise GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggctatagccactgcagtgagggtgtcctctcccctcaccccaaccctagGCTGGCCGTTCAGGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTGAATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACAACCAACCCTGGATACTTTCACTGGAACATGTCTGGTAAGTGACTCTCTCTTTGTCATCTGTGCTCTT------GCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACCACCAGTATCTACTTAGATGCAAAGgtaggagtgccatatagatgtggcattgttggatttgtggacagagtact #### Hectd2_ID7146_4 --> 1 - 0 Original Alignment gGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGG-AAGACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG actgccagtttgcctgcctgtatttggtatttcacctctttccactgcaggGAAGATCTAGAAAAAGCTGAAGCCACAGGGAATTGGCAAAGCAGTACATGCTTTCTATATTACAGCAT-TGATTCCTTCACAGAGCTAAACACTGCATTTAAGgtacgtatgcaaaaaaaagtttcctctcactctttggtgtcaaacataaa Alignment from CESAR gGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGG-AAGACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG actgccagtttgcctgcctgtatttggtatttcacctctttccactgcaggGAAGATCTAGAAAAAGCTGAAGCCACAGGGAATTGGCAAAGCAGTACATGCTTTCTATATTACAGCA-TTGATTCCTTCACAGAGCTAAACACTGCATTTAAGgtacgtatgcaaaaaaaagtttcctctcactctttggtgtcaaacataaa Alignment from Spaln_aa2Genome GGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAGACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG actgccagtttgcctgcctgtatttggtatttcacctctttccactgcagGGAAGATCTAGAAAAAGCTGAAGCCACAGGGAATTGGCAAAGCAGTACATGCTTTCTATATTACAGCATTGATTCCTTCACAGAGCTAAACACTGCATTTAAGgtacgtatgcaaaaaaaagtttcctctcactctttggtgtcaaacataaa Alignment from Spaln_nt2Genome GGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAGA-CAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG actgccagtttgcctgcctgtatttggtatttcacctctttccactgcagGGAAGATCTAGAAAAAGCTGAAGCCACAGGGAATTGGCAAAGCAGTACATGCTTTCTATATTACAGCA-TTGATTCCTTCACAGAGCTAAACACTGCATTTAAGgtacgtatgcaaaaaaaagtttcctctcactctttggtgtcaaacataaa Alignment from Pairagon GGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGG-AAGACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG actgccagtttgcctgcctgtatttggtatttcacctctttccactgcagGGAAGATCTAGAAAAAGCTGAAGCCACAGGGAATTGGCAAAGCAGTACATGCTTTCTATATTACAGCA-TTGATTCCTTCACAGAGCTAAACACTGCATTTAAGgtacgtatgcaaaaaaaagtttcctctcactctttggtgtcaaacataaa Alignment from Exonerate_protein2genome GGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAGACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG actgccagtttgcctgcctgtatttggtatttcacctctttccactgcagGGAAGATCTAGAAAAAGCTGAAGCCACAGGGAATTGGCAAAGCAGTACATGCTTTCTATATTACAGCATTGATTCCTTCACAGAGCTAAACACTGCATTTAAGgtacgtatgcaaaaaaaagtttcctctcactctttggtgtcaaacataaa Alignment from Exonerate_coding2genome GGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAGACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAGAAAGATGCCACGGCCTCATTTAATACTATTGAGGACTCTGGGCTTAATGC actgccagtttgcctgcctgtatttggtatttcacctctttccactgcagGGAAGATCTAGAAAAAGCTGAAGCCACAGGGAATTGGCAAAGCAGTACATGCTTTCTATATTACAGCATTGATTCCTTCACAGAGCTAAACACTGCATTTAAGGTACGTATGCAAAAAAAAGTTTCCTCT---CACTCTTTGGTGTCAAACAT Alignment from GeneWise GGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAGACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG actgccagtttgcctgcctgtatttggtatttcacctctttccactgcagGGAAGATCTAGAAAAAGCTGAAGCCACAGGGAATTGGCAAAGCAGTACATGCTTTCTATATTACAGCATTGATTCCTTCACAGAGCTAAACACTGCATTTAAGgtacgtatgcaaaaaaaagtttcctctcactctttggtgtcaaacataaa #### Hells_ID7708_15 --> 0 - 0 Original Alignment ATTGATGAAGAGTTGGTAACAAAT-TCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG ggtttcattcaagattatattgctgtgagctgcactgtgtttctctgtagAATGATGAAGAGTTTGTAACAAATCTCTGGGAAGTTCTTAATTTCAGATCGAATGC-GCCAGAACTTAAGAAAAGAGGTCATAAGgtactgacggctagaatttgtgctgtccagtgcaatatggatcagtctag Alignment from CESAR ATTGATGAAGAGTTGGTAACAAAT-TCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG ggtttcattcaagattatattgctgtgagctgcactgtgtttctctgtagAATGATGAAGAGTTTGTAACAAATCTCTGGGAAGTTCTTAATTTCAGATCGAATG-CGCCAGAACTTAAGAAAAGAGGTCATAAGgtactgacggctagaatttgtgctgtccagtgcaatatggatcagtctag Alignment from Spaln_aa2Genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG ggtttcattcaagattatattgctgtgagctgcactgtgtttctctgtagAATGATGAAGAGTTTGTAACAAATCTCTGGGAAGTTCTTAATTTCAGATCGAATGCGCCAGAACTTAAGAAAAGAGGTCATAAGgtactgacggctagaatttgtgctgtccagtgcaatatggatcagtctag Alignment from Spaln_nt2Genome ATTGATGAAGAGTTGGTAACAAAT-TCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG ggtttcattcaagattatattgctgtgagctgcactgtgtttctctgtagAATGATGAAGAGTTTGTAACAAATCTCTGGGAAGTTCTTAATTTCAGATCGAATGC-GCCAGAACTTAAGAAAAGAGGTCATAAGgtactgacggctagaatttgtgctgtccagtgcaatatggatcagtctag Alignment from Pairagon ATTGATGAAGAGTTGGTAACAAAT-TCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAGG------------------------------------------------- ggtttcattcaagattatattgctgtgagctgcactgtgtttctctgtagAATGATGAAGAGTTTGTAACAAATCTCTGGGAAGTTCTTAATTTCAGATCGAATGC-GCCAGAACTTAAGAAAAGAGGTCATAAGGTACTGACGGCTAGAATTTGTGCTGTCCAGTGCAATATGGATCAGTCTAG Alignment from Exonerate_protein2genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG ggtttcattcaagattatattgctgtgagctgcactgtgtttctctgtagAATGATGAAGAGTTTGTAACAAATCTCTGGGAAGTTCTTAATTTCAGATCGAATGCGCCAGAACTTAAGAAAAGAGGTCATAAGgtactgacggctagaatttgtgctgtccagtgcaatatggatcagtctag Alignment from Exonerate_coding2genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG ggtttcattcaagattatattgctgtgagctgcactgtgtttctctgtagAATGATGAAGAGTTTGTAACAAATCTCTGGGAAGTTCTTAATTTCAGATCGAATGCGCCAGAACTTAAGAAAAGAGGTCATAAGgtactgacggctagaatttgtgctgtccagtgcaatatggatcagtctag Alignment from GeneWise ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAGGTT----------------------------------------------- ggtttcattcaagattatattgctgtgagctgcactgtgtttctctgtagAATGATGAAGAGTTTGTAACAAATCTCTGGGAAGTTCTTAATTTCAGATCGAATGCGCCAGAACTTAAGAAAAGAGGTCATAAGGTACTGACGGCTAGAATTTGTGCTGTCCAGTGCAATATGGATCAGTCTAG #### Hnrnpul2_ID2400_4 --> 2 - 0 Original Alignment atACCTCGGATCTCCATTTTCAAATA-AGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cctcttcagcactgaatgttacactgacctaaccgactttaacctggaaggtACATCTGATCTGCATTTTCAAATTCAGCAAAGACCGGTATGGAGGCCAACCACTGTTCTCAGAAA-ATTCCCTACCCTTTGGTCCGGGGCAAGAAGTACCTATGGTGTAACAGAGGGTAAAGTATGCTTTGAAGCTAGGgtacgccactaactttaatgggaccaagtatgctagcttgttcccactcc Alignment from CESAR atACCTCGGATCTCCATTTTCAAATA-AGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cctcttcagcactgaatgttacactgacctaaccgactttaacctggaaggtACATCTGATCTGCATTTTCAAATTCAGCAAAGACCGGTATGGAGGCCAACCACTGTTCTCAG-AAAATTCCCTACCCTTTGGTCCGGGGCAAGAAGTACCTATGGTGTAACAGAGGGTAAAGTATGCTTTGAAGCTAGGgtacgccactaactttaatgggaccaagtatgctagcttgttcccactcc Alignment from Spaln_aa2Genome ATACCTCGGATCTCCATTTTCAAATA-AGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cctcttcagcactgaatgttacactgacctaaccgactttaacctggaagGTACATCTGATCTGCATTTTCAAATTcAGCAAAGACCGGTATGGAGGCCAACCACTGTTCTCAGA-AAATTCCCTACCCTTTGGTCCGGGGCAAGAAGTACCTATGGTGTAACAGAGGGTAAAGTATGCTTTGAAGCTAGGgtacgccactaactttaatgggaccaagtatgctagcttgttcccactcc Alignment from Spaln_nt2Genome ATACCTCGGATCTCCATTTTCAAATA-AGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cctcttcagcactgaatgttacactgacctaaccgactttaacctggaagGTACATCTGATCTGCATTTTCAAATTCAGCAAAGACCGGTATGGAGGCCAACCACTGTTCTCAGAAAA-TTCCCTACCCTTTGGTCCGGGGCAAGAAGTACCTATGGTGTAACAGAGGGTAAAGTATGCTTTGAAGCTAGGgtacgccactaactttaatgggaccaagtatgctagcttgttcccactcc Alignment from Pairagon ATACCTCGGATCTCCATTTTCAAA-TAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cctcttcagcactgaatgttacactgacctaaccgactttaacctggaagGTACATCTGATCTGCATTTTCAAATTCAGCAAAGACCGGTATGGAGGCCAACCACTGTTCTCAGAAAA-TTCCCTACCCTTTGGTCCGGGGCAAGAAGTACCTATGGTGTAACAGAGGGTAAAGTATGCTTTGAAGCTAGGgtacgccactaactttaatgggaccaagtatgctagcttgttcccactcc Alignment from Exonerate_protein2genome ATACCTCGGATCTCCATTTTCAAATA-AGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCA--GAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cctcttcagcactgaatgttacactgacctaaccgactttaacctggaagGTACATCTGATCTGCATTTTCAAATTCAGCAAAGACCGGTATGGAGGCCAACCACTGTTCTCAGA---AAATTCCCTACCCTTTGGTCCGGGGCAAGAAGTACCTATGGTGTAACAGAGGGTAAAGTATGCTTTGAAGCTAGGgtacgccactaactttaatgggaccaagtatgctagcttgttcccactcc Alignment from Exonerate_coding2genome ATACCTCGGATCTCCATTTTCAAATA-AGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCA--GAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cctcttcagcactgaatgttacactgacctaaccgactttaacctggaagGTACATCTGATCTGCATTTTCAAATTCAGCAAAGACCGGTATGGAGGCCAACCACTGTTCTCAGA---AAATTCCCTACCCTTTGGTCCGGGGCAAGAAGTACCTATGGTGTAACAGAGGGTAAAGTATGCTTTGAAGCTAGGgtacgccactaactttaatgggaccaagtatgctagcttgttcccactcc Alignment from GeneWise ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cctcttcagcactgaatgttacactgacctaaccgactttaacctggaagGTACATCTGATCTGCATTTTCAAATTCAGCAAAGACCGGTATGGAGGCCAACCACTGTTCTCAGAAAATTCCCTACCCTTTGGTCCGGGGCAAGAAGTACCTATGGTGTAACAGAGGGTAAAGTATGCTTTGAAGCTAGGgtacgccactaactttaatgggaccaagtatgctagcttgttcccactcc #### Hnrnpul2_ID2404_8 --> 0 - 0 Original Alignment GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACC-CAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtagctaacctaataatgcttctaatcctatgtgttctgctatgacagGTGATTCTGATGGTGGGAGTCCCTGGATCAGCAAAGACGCCAGTGGGCACTAAAATACGCAAAAGACAACC-TGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtaggcaattggcgaggtctgattagcagaattggcagaggtcataacct Alignment from CESAR GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACC-CAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtagctaacctaataatgcttctaatcctatgtgttctgctatgacagGTGATTCTGATGGTGGGAGTCCCTGGATCAGCAAAGACGCCAGTGGGCACTAAAATACGCAAAAGACA-ACCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtaggcaattggcgaggtctgattagcagaattggcagaggtcataacct Alignment from Spaln_aa2Genome GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtagctaacctaataatgcttctaatcctatgtgttctgctatgacagGTGATTCTGATGGTGGGAGTCCCTGGATCAGCAAAGACGCCAGTGGGCACTAAAATACGCAAAAGACAACCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtaggcaattggcgaggtctgattagcagaattggcagaggtcataacct Alignment from Spaln_nt2Genome GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGAC-CCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtagctaacctaataatgcttctaatcctatgtgttctgctatgacagGTGATTCTGATGGTGGGAGTCCCTGGATCAGCAAAGACGCCAGTGGGCACTAAAATACGCAAAAGACAA-CCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtaggcaattggcgaggtctgattagcagaattggcagaggtcataacct Alignment from Pairagon GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGAC-CCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtagctaacctaataatgcttctaatcctatgtgttctgctatgacagGTGATTCTGATGGTGGGAGTCCCTGGATCAGCAAAGACGCCAGTGGGCACTAAAATACGCAAAAGACAA-CCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtaggcaattggcgaggtctgattagcagaattggcagaggtcataacct Alignment from Exonerate_protein2genome GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtagctaacctaataatgcttctaatcctatgtgttctgctatgacagGTGATTCTGATGGTGGGAGTCCCTGGATCAGCAAAGACGCCAGTGGGCACTAAAATACGCAAAAGACAACCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtaggcaattggcgaggtctgattagcagaattggcagaggtcataacct Alignment from Exonerate_coding2genome GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtagctaacctaataatgcttctaatcctatgtgttctgctatgacagGTGATTCTGATGGTGGGAGTCCCTGGATCAGCAAAGACGCCAGTGGGCACTAAAATACGCAAAAGACAACCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtaggcaattggcgaggtctgattagcagaattggcagaggtcataacct Alignment from GeneWise GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtagctaacctaataatgcttctaatcctatgtgttctgctatgacagGTGATTCTGATGGTGGGAGTCCCTGGATCAGCAAAGACGCCAGTGGGCACTAAAATACGCAAAAGACAACCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtaggcaattggcgaggtctgattagcagaattggcagaggtcataacct #### Hoga1_ID8380_3 --> 2 - 0 Original Alignment ccACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTG-GTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG tgtaaatagacctatccaattgtggttgccccagctcttgttttctgtagctATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAAGTTGGTGCTGATGTTGCCATGGTGCGTGACTCCATGTTACTATCATGGCCATATGA-CAGTGCAGCAATTATTCACCACTACACTAAGgtgagtaggaatggttgagatatgctttagatattgattggaggaagcta Alignment from CESAR ccACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTG-GTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG tgtaaatagacctatccaattgtggttgccccagctcttgttttctgtagctATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAAGTTGGTGCTGATGTTGCCATGGTGCGTGACTCCATGTTACTATCATGGCCATATG-ACAGTGCAGCAATTATTCACCACTACACTAAGgtgagtaggaatggttgagatatgctttagatattgattggaggaagcta Alignment from Spaln_aa2Genome CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG tgtaaatagacctatccaattgtggttgccccagctcttgttttctgtagCTATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAAGTTGGTGCTGATGTTGCCATGGTGCGTGACTCCATGTTACTATCATGGCCATATGACAGTGCAGCAATTATTCACCACTACACTAAGgtgagtaggaatggttgagatatgctttagatattgattggaggaagcta Alignment from Spaln_nt2Genome CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTG-GTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG tgtaaatagacctatccaattgtggttgccccagctcttgttttctgtagCTATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAAGTTGGTGCTGATGTTGCCATGGTGCGTGACTCCATGTTACTATCATGGCCATATGA-CAGTGCAGCAATTATTCACCACTACACTAAGgtgagtaggaatggttgagatatgctttagatattgattggaggaagcta Alignment from Pairagon CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTG-GTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG tgtaaatagacctatccaattgtggttgccccagctcttgttttctgtagCTATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAAGTTGGTGCTGATGTTGCCATGGTGCGTGACTCCATGTTACTATCATGGCCATATGA-CAGTGCAGCAATTATTCACCACTACACTAAGgtgagtaggaatggttgagatatgctttagatattgattggaggaagcta Alignment from Exonerate_protein2genome CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG tgtaaatagacctatccaattgtggttgccccagctcttgttttctgtagCTATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAAGTTGGTGCTGATGTTGCCATGGTGCGTGACTCCATGTTACTATCATGGCCATATGACAGTGCAGCAATTATTCACCACTACACTAAGgtgagtaggaatggttgagatatgctttagatattgattggaggaagcta Alignment from Exonerate_coding2genome GCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG tgtaaatagacctatccaattgtggttgccccagctcttgttttctgtagctatgcaaGCTACAGTAGAGATGACTGTTAGCATGGCCCAAGTTGGTGCTGATGTTGCCATGGTGCGTGACTCCATGTTACTATCATGGCCATATGACAGTGCAGCAATTATTCACCACTACACTAAGgtgagtaggaatggttgagatatgctttagatattgattggaggaagcta Alignment from GeneWise CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG tgtaaatagacctatccaattgtggttgccccagctcttgttttctgtagCTATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAAGTTGGTGCTGATGTTGCCATGGTGCGTGACTCCATGTTACTATCATGGCCATATGACAGTGCAGCAATTATTCACCACTACACTAAGgtgagtaggaatggttgagatatgctttagatattgattggaggaagcta #### Hoga1_ID8381_4 --> 0 - 0 Original Alignment GTTGCTGACGTTTCTCCA-ATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaagggttgacactggaaatggctcccctgacctctgtgttgcagATTGCTGATGTTTCCCCACATCCCTGTAGTGTTATACAGTGTCCCAGCCA-TACAGGGCTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGACAGTGGTGGAGATgtaagccgttgtagcatccaatttgcccaagcacccaccaccccaggtcg Alignment from CESAR GTTGCTGACGTTTCTCCA-ATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaagggttgacactggaaatggctcccctgacctctgtgttgcagATTGCTGATGTTTCCCCACATCCCTGTAGTGTTATACAGTGTCCCAGCC-ATACAGGGCTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGACAGTGGTGGAGATgtaagccgttgtagcatccaatttgcccaagcacccaccaccccaggtcg Alignment from Spaln_aa2Genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaagggttgacactggaaatggctcccctgacctctgtgttgcagATTGCTGATGTTTCCCCACATCCCTGTAGTGTTATACAGTGTCCCAGCCATACAGGGCTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGACAGTGGTGGAGATgtaagccgttgtagcatccaatttgcccaagcacccaccaccccaggtcg Alignment from Spaln_nt2Genome GTTGCTGACGTTTCTCCA-ATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaagggttgacactggaaatggctcccctgacctctgtgttgcagATTGCTGATGTTTCCCCACATCCCTGTAGTGTTATACAGTGTCCCAGCC-ATACAGGGCTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGACAGTGGTGGAGATgtaagccgttgtagcatccaatttgcccaagcacccaccaccccaggtcg Alignment from Pairagon GTTGCTGACGTTTCTCCA-ATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaagggttgacactggaaatggctcccctgacctctgtgttgcagATTGCTGATGTTTCCCCACATCCCTGTAGTGTTATACAGTGTCCCAGCC-ATACAGGGCTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGACAGTGGTGGAGATgtaagccgttgtagcatccaatttgcccaagcacccaccaccccaggtcg Alignment from Exonerate_protein2genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaagggttgacactggaaatggctcccctgacctctgtgttgcagATTGCTGATGTTTCCCCACATCCCTGTAGTGTTATACAGTGTCCCAGCCATACAGGGCTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGACAGTGGTGGAGATgtaagccgttgtagcatccaatttgcccaagcacccaccaccccaggtcg Alignment from Exonerate_coding2genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaagggttgacactggaaatggctcccctgacctctgtgttgcagATTGCTGATGTTTCCCCACATCCCTGTAGTGTTATACAGTGTCCCAGCCATACAGGGCTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGACAGTGGTGGAGATgtaagccgttgtagcatccaatttgcccaagcacccaccaccccaggtcg Alignment from GeneWise GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaagggttgacactggaaatggctcccctgacctctgtgttgcagATTGCTGATGTTTCCCCACATCCCTGTAGTGTTATACAGTGTCCCAGCCATACAGGGCTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGACAGTGGTGGAGATgtaagccgttgtagcatccaatttgcccaagcacccaccaccccaggtcg #### Hoga1_ID8382_5 --> 0 - 1 Original Alignment GTGACCAGGATTGGACTGATAGTTCAC---AAGACCAGC-AAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGg taaatgtaatggggagaggaggatcattctcatttctcttttttgtgaagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCCAAGCAGGATTTTCAGGTACTGGCAGGGTCTGTTG-CTCCCTTCTAGCTAGCTATTCTGTAggtaacgttgctgtcagttctaaaccaccagctccaaccaagccctgttgc Alignment from CESAR GTGACCAGGATTGGACTGATAGTT---CACAAGACCAGC-AAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGg taaatgtaatggggagaggaggatcattctcatttctcttttttgtgaagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCCAAGCAGGATTTTCAGGTACTGGCAGGGTCTGTTGCT-CCCTTCTAGCTAGCTATTCTGTAggtaacgttgctgtcagttctaaaccaccagctccaaccaagccctgttgc Alignment from Spaln_aa2Genome GTGACCAGGATTGGACTGATAGTTCACAAGACCAGC----AAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGG taaatgtaatggggagaggaggatcattctcatttctcttttttgtgaagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCcAAGCAGGATTTTCAGGTACTGGCAGGGTCTGTTGCTCC-CTTCTAGCTAGCTATTCTGTAGgtaacgttgctgtcagttctaaaccaccagctccaaccaagccctgttgc Alignment from Spaln_nt2Genome GTGACCAGGATTGGACTGATAGTTCA---CAAGACCAGC-AAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGG taaatgtaatggggagaggaggatcattctcatttctcttttttgtgaagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCCAAGCAGGATTTTCAGGTACTGGCAGGGTCTG-TTGCTCCCTTCTAGCTAGCTATTCTGTAGgtaacgttgctgtcagttctaaaccaccagctccaaccaagccctgttgc Alignment from Pairagon GTGACCAGGATTGGACTGATAGT---TCACAAGACCAG-CAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGG taaatgtaatggggagaggaggatcattctcatttctcttttttgtgaagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCCAAGCAGGATTTTCAGGTACTGGCAGGGTCTGTT-GCTCCCTTCTAGCTAGCTATTCTGTAGgtaacgttgctgtcagttctaaaccaccagctccaaccaagccctgttgc Alignment from Exonerate_protein2genome GTGACCAGGATTGGACTGATAGTT---CACAAGACCAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGG taaatgtaatggggagaggaggatcattctcatttctcttttttgtgaagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCCAAGCAGGATTTTCAGGTACTGGCAGGGTCTGTTGCTCCCTTCTAGCTAGCTATTCTGTAGgtaacgttgctgtcagttctaaaccaccagctccaaccaagccctgttgc Alignment from Exonerate_coding2genome taaatgtaatggggagaggaggatcattctcatttctcttttttgtgaaggtgaccaagattggactgatagttcatcacaagtctagccaagcaggattttcaggtactggcagggtctgttgctcccttctagctagctattctgtaggtaacgttgctgtcagttctaaaccaccagctccaaccaagccctgttgc Alignment from GeneWise GTGACCAGGATTGGACTGATAGTTCAC---AAGACCAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGG taaatgtaatggggagaggaggatcattctcatttctcttttttgtgaagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCCAAGCAGGATTTTCAGGTACTGGCAGGGTCTGTTGCTCCCTTCTAGCTAGCTATTCTGTAGgtaacgttgctgtcagttctaaaccaccagctccaaccaagccctgttgc #### Hps1_ID8617_11 --> 0 - 0 Original Alignment AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCA-GACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG gacctgtgttattgcgcttggtgcccccccttttttttgtgtgttttcagAGCCCTGGTGCCCCACTAACCCAAATCCTATGCCAACTGCTGGATGGATTCTCCCTTCTGGAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGTAGTGCCTTACGATCCCAGCCCTTTGTGACTCGACCCACACCAGAAC---AACAAGTTCATCAAGAATC-GGTAGGGCAGGAGGTCCAAgtatgttcacagaactaatgtggactgattttgggaccctggctagggcc Alignment from CESAR AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCA-GACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG gacctgtgttattgcgcttggtgcccccccttttttttgtgtgttttcagAGCCCTGGTGCCCCACTAACCCAAATCCTATGCCAACTGCTGGATGGATTCTCCCTTCTGGAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGTAGTGCCTTACGATCCCAGCCCTTTGTGACTCGACCCACACCAGAAC---AACAAGTTCATCAAGAATC-GGTAGGGCAGGAGGTCCAAgtatgttcacagaactaatgtggactgattttgggaccctggctagggcc Alignment from Spaln_aa2Genome AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG gacctgtgttattgcgcttggtgcccccccttttttttgtgtgttttcagAGCCCTGGTGCCCCACTAACCCAAATCCTATGCCAACTGCTGGATGGATTCTCCCTTCTGGAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGTAGTGCCTTACGATCCCAGCCCTTTGTGACTCGACCCACACCAGAA---CAACAAGTTCATCAAGAATCGGTAGGGCAGGAGGTCCAAgtatgttcacagaactaatgtggactgattttgggaccctggctagggcc Alignment from Spaln_nt2Genome AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCA-GACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG gacctgtgttattgcgcttggtgcccccccttttttttgtgtgttttcagAGCCCTGGTGCCCCACTAACCCAAATCCTATGCCAACTGCTGGATGGATTCTCCCTTCTGGAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGTAGTGCCTTACGATCCCAGCCCTTTGTGACTCGACCCACACCAGAACA---ACAAGTTCATCAAGAATCG-GTAGGGCAGGAGGTCCAAgtatgttcacagaactaatgtggactgattttgggaccctggctagggcc Alignment from Pairagon AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGC-AGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG gacctgtgttattgcgcttggtgcccccccttttttttgtgtgttttcagAGCCCTGGTGCCCCACTAACCCAAATCCTATGCCAACTGCTGGATGGATTCTCCCTTCTGGAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGTAGTGCCTTACGATCCCAGCCCTTTGTGACTCGACCCACACCAGAACA---ACAAGTTCATCAAGAATCG-GTAGGGCAGGAGGTCCAAgtatgttcacagaactaatgtggactgattttgggaccctggctagggcc Alignment from Exonerate_protein2genome AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG gacctgtgttattgcgcttggtgcccccccttttttttgtgtgttttcagAGCCCTGGTGCCCCACTAACCCAAATCCTATGCCAACTGCTGGATGGATTCTCCCTTCTGGAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGTAGTGCCTTACGATCCCAGCCCTTTGTGACTCGACCCACACCAGAA---CAACAAGTTCATCAAGAATCGGTAGGGCAGGAGGTCCAAgtatgttcacagaactaatgtggactgattttgggaccctggctagggcc Alignment from Exonerate_coding2genome gacctgtgttattgcgcttggtgcccccccttttttttgtgtgttttcagagccctggtgccccactaacccaaatcctatgccaactgctggatggattctcccttctggagaaaaggttgaaggagggccaggaggctggtagtgccttacgatcccagccctttgtgactcgacccacaccagaacaacaagttcatcaagaatcggtagggcaggaggtccaagtatgttcacagaactaatgtggactgattttgggaccctggctagggcc Alignment from GeneWise AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG gacctgtgttattgcgcttggtgcccccccttttttttgtgtgttttcagAGCCCTGGTGCCCCACTAACCCAAATCCTATGCCAACTGCTGGATGGATTCTCCCTTCTGGAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGTAGTGCCTTACGATCCCAGCCCTTTGTGACTCGACCCACACCAGAACAA---CAAGTTCATCAAGAATCGGTAGGGCAGGAGGTCCAAgtatgttcacagaactaatgtggactgattttgggaccctggctagggcc #### Hps1_ID8620_8 --> 0 - 1 Original Alignment GACACAGACAGC-ATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAg ctgtaagcaaaatagggtgtactctctgtgacactctaaatttcttttagGATACTGAT---CAATTCC---CCGGAAGAGTATTTCACTCCCT-TCCTTCCCCAAGT------GGTCCAggtgagagaagcaggtgtgttgccctgttgtgtcacttagctaagttcaga Alignment from CESAR GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAg ctgtaagcaaaatagggtgtactctctgtgacactctaaatttcttttagGATACTGATCAA--TTCC---CCGGAAGAGTATTTCACTCCC-TTCCTTCCCCAAGT------GGTCCAggtgagagaagcaggtgtgttgccctgttgtgtcacttagctaagttcaga Alignment from Spaln_aa2Genome AGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGT------TCAG ctgtaagcaaaatagggtgtactctctgtgacactctaaatttcttttagGATACTGATCAATTCCCCGGAAGAGTATTTCACTCCCTTCCTTCCCCAAGTGGTCCAGGTGAGAGAAGCAGgtgtgttgccctgttgtgtcacttagctaagttcaga Alignment from Spaln_nt2Genome GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAG ctgtaagcaaaatagggtgtactctctgtgacactctaaatttcttttagGATACTG--ATCAATTC---CCCGGAAGAGTATTTCACTCC-CTTCCTTCCCCAAGTG------GTCCAGgtgagagaagcaggtgtgttgccctgttgtgtcacttagctaagttcaga Alignment from Pairagon -----------------------------------------------------------------CCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAG CTGTAAGCAAAATAGGGTGTACTCTCTGTGACACTCTAAATTTCTTTTAGGATACTGATCAATTCCCCGGAAGAGTATTTCACTCCC-TTCCTTCCCCAAGTG------GTCCAGgtgagagaagcaggtgtgttgccctgttgtgtcacttagctaagttcaga Alignment from Exonerate_protein2genome GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAGGTAGCCT ctgtaagcaaaatagggtgtactctctgtgacactctaaatttcttttagGATACTGAT------CAATTCCCCGGAAGAGTATTTCACTCCCTTCCTTCCCCAAGTGGTCCAGGTGAGAGAAGCAGgtgtgttgccctgttgtgtcacttagctaagttcaga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCC---CCAGGCGATCAGAGTTCAG ctgtaagcaaaatagggtgtactctctgtgacactctaaatttcttttagGATACTGATCAATTCCCCGGAAGAGTATTTCACTCCCTTCCTTCCCCAAGTGGTCCAGGTGAGAGAAGCAGGTgtgttgccctgttgtgtcacttagctaagttcaga #### Hps1_ID8621_7 --> 0 - 0 Original Alignment AGGAGACCCAAGAGCAGCCAAAACATCCCA-GTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tgtgctatgctattctgctccatcattaaagcgcctgttcttctccacagAGGCGTCCAAAGAGTAGCCAAAATATACCACGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTGCCA-GGGTTGTAAGGAGACAgtgggtcctaggctgtaagcaaaatagggtgtactctctgtggtgttgtg Alignment from CESAR AGGAGACCCAAGAGCAGCCAAAACATCCCA-GTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tgtgctatgctattctgctccatcattaaagcgcctgttcttctccacagAGGCGTCCAAAGAGTAGCCAAAATATACCACGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTGCCA-GGGTTGTAAGGAGACAgtgggtcctaggctgtaagcaaaatagggtgtactctctgtgacactcta Alignment from Spaln_aa2Genome AGGAGACCCAAGAGCAGCCAAAACATCCCA-GTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACAGACACA tgtgctatgctattctgctccatcattaaagcgcctgttcttctccacagAGGCGTCCAAAGAGTAGCCAAAATATACCAcGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGTTGTAAGGAGA---CAGTGGgtcctaggctgtaagcaaaatagggtgtactctctgtggtgttgtg Alignment from Spaln_nt2Genome AGGAGACCCAAGAGCAGCCAAAACATCCCA-GTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tgtgctatgctattctgctccatcattaaagcgcctgttcttctccacagAGGCGTCCAAAGAGTAGCCAAAATATACCACGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTGCCAGG-GTTGTAAGGAGACAgtgggtcctaggctgtaagcaaaatagggtgtactctctgtggtgttgtg Alignment from Pairagon AGGAGACCCAAGAGCAGCCAAAACATCCCA-GTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGG---------------------------------------------------------------- tgtgctatgctattctgctccatcattaaagcgcctgttcttctccacagAGGCGTCCAAAGAGTAGCCAAAATATACCACGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGTTGTAAGGAGACAGTGGGTCCTAGGCTGTAAGCAAAATAGGGTGTACTCTCTGTGGTGTTGTG Alignment from Exonerate_protein2genome GACAGCCCTCAGAGGAGACCCAAGAGCAGCCAAAACATCCCA-GTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACAGACACA tgtgctatgctattctgctccatcattaaagcgcctgtTCTTCTCCACAGAGGCGTCCAAAGAGTAGCCAAAATATACCACGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGTTGTAAGGAGACAGTGGGTCctaggctgtaagcaaaatagggtgtactctctgtggtgttgtg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AGGAGACCCAAGAGCAGCCAAAACATCCCA-GTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACAGAC tgtgctatgctattctgctccatcattaaagcgcctgttcttctccacagAGGCGTCCAAAGAGTAGCCAAAATATACCACGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGTTGTAAGGAGACAGTGGgtcctaggctgtaagcaaaatagggtgtactctctgtggtgttgtg #### Hps1_ID8622_6 --> 1 - 0 Original Alignment cCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAG-GACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGC---CCTCAG tcccccctcacaattttagttgtattcttgtgatccctgccaccctgcagcCAAGGTGCAAGCACCCTATGTCCAGCAGATTTCCTT---------CTCCTAGTTCATCGATCCACAGCCTTCACCAGCCATGACAGAGG-GGAGGGGGAGCAAGAAGATGGTCACAGCAGCCCACAGgtgtgtgcaaatcccagaatagcgattgactaattatcaaaaggagctgg Alignment from CESAR cCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAG-GACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGC---GACAGCCCTCAG tcccccctcacaattttagttgtattcttgtgatccctgccaccctgcagcCAAGGTGCAAGCACCCTATGTCCAGCAGATTTCCTT---------CTCCTAGTTCATCGATCCACAGCCTTCACCAGCCATGACAGAG-GGGAGGGGGAGCAAGAAGATGGTCACAGCAGCCCACAGgtgtgtgcaaatcccagaatagcgattgactaattatcaaaaggagctgg Alignment from Spaln_aa2Genome CCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGCCCTCAG tcccccctcacaattttagttgtattcttgtgatccctgccaccctgcagCCAAGGTGCAAGCACCCTATGTCCAGCAGATTTCCTTCTCCTAGTTCATCGATCCACAGCCTTC------ACCAGCCATGACAGAGGGGAGGGGGAGCAAGAAGATGGTCACAGCAGCCCACAGgtgtgtgcaaatcccagaatagcgattgactaattatcaaaaggagctgg Alignment from Spaln_nt2Genome CCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAG-GACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGC---CCTCAG tcccccctcacaattttagttgtattcttgtgatccctgccaccctgcagCCAAGGTGCAAGCACCCTATGTCCAGCAGATTTCC---------TTCTCCTAGTTCATCGATCCACAGCCTTCACCAGCCATGACAGAGG-GGAGGGGGAGCAAGAAGATGGTCACAGCAGCCCACAGgtgtgtgcaaatcccagaatagcgattgactaattatcaaaaggagctgg Alignment from Pairagon CCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTC------------------CAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAG---CGACAGCCCTCAG tcccccctcacaattttagttgtattcttgtgatccctgccaccctgcagCCAAGGTGCAAGCACCCTATGTCCAGCAGATTTCCT--------------------------TCTCCTAGTTCATCGATCCACAGCCTTCACCAGCCATGACAGAGG-GGAGGGGGAGCAAGAAGATGGTCACAGCAGCCCACAGgtgtgtgcaaatcccagaatagcgattgactaattatcaaaaggagctgg Alignment from Exonerate_protein2genome tcccccctcacaattttagttgtattcttgtgatccctgccaccctgcagccaaggtgcaagcaccctatgtccagcagatttccttctcctagttcatcgatccacagccttcaccagccatgacagaggggagggggagcaagaagatggtcacagcagcccacaggtgtgtgcaaatcccagaatagcgattgactaattatcaaaaggagctgg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGCCCTCAG tcccccctcacaattttagttgtattcttgtgatccctgccaccctgcagCCAAGGTGCAAGCACCCTATGTCCAGCAGATTTCCTT------CTCCTAGTTCATCGATCCACAGCCTTCACCAGCCATGACAGAGGGGAGGGGGAGCAAGAAGATGGTCACAGCAGCCCACAGgtgtgtgcaaatcccagaatagcgattgactaattatcaaaaggagctgg #### Il33_ID6361_4 --> 2 - 1 Original Alignment gaACTTCACTTTTAACACAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTT-AGTTTTGTTTTGGAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAg gaagacacataaaaggactatgggtatgttttctctctcttttcttaaaggaACCGCACTTTTAACTCAATCACCAGCTTCCCTAAGTACATACAATGACCAGTCTGAGCAGTTTTGTGTTAGAAAATGGATGCTATGTGCTAAACATTG-TGATTCTGGTAAAGACCAGGAACATggtaaatcttatccatgccaggggtctatgggtctatgcttaatgagaacc Alignment from CESAR gaACTTCACTTTTAACACAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTT-AGTTTTGTTTTGGAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAg gaagacacataaaaggactatgggtatgttttctctctcttttcttaaaggaACCGCACTTTTAACTCAATCACCAGCTTCCCTAAGTACATACAATGACCAGTCTGAGCAGTTTTGTGTTAGAAAATGGATGCTATGTGCTAAACATT-GTGATTCTGGTAAAGACCAGGAACATggtaaatcttatccatgccaggggtctatgggtctatgcttaatgagaacc Alignment from Spaln_aa2Genome GAACTTCACTTTTAACACAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTTAGTTTTGTTTTGGAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAG gaagacacataaaaggactatgggtatgttttctctctcttttcttaaagGAACCGCACTTTTAACTCAATCACCAGCTTCCCTAAGTACATACAATGACCAGTCTGAGCAGTTTTGTGTTAGAAAATGGATGCTATGTGCTAAACATTGTGATTCTGGTAAAGACCAGGAACATGgtaaatcttatccatgccaggggtctatgggtctatgcttaatgagaacc Alignment from Spaln_nt2Genome GAACTTCACTTTTAACACAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTT-AGTTTTGTTTTGGAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAG gaagacacataaaaggactatgggtatgttttctctctcttttcttaaagGAACCGCACTTTTAACTCAATCACCAGCTTCCCTAAGTACATACAATGACCAGTCTGAGCAGTTTTGTGTTAGAAAATGGATGCTATGTGCTAAACATTG-TGATTCTGGTAAAGACCAGGAACATGgtaaatcttatccatgccaggggtctatgggtctatgcttaatgagaacc Alignment from Pairagon GAACTTCACTTTTAACACAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTG-TTAGTTTTGTTTTGGAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAG gaagacacataaaaggactatgggtatgttttctctctcttttcttaaagGAACCGCACTTTTAACTCAATCACCAGCTTCCCTAAGTACATACAATGACCAGTCTGAGCAGTTTTGTGTTAGAAAATGGATGCTATGTGCTAAACATTG-TGATTCTGGTAAAGACCAGGAACATGgtaaatcttatccatgccaggggtctatgggtctatgcttaatgagaacc Alignment from Exonerate_protein2genome GAACTTCACTTTTAACACAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTTAGTTTTGTTTTGGAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAG gaagacacataaaaggactatgggtatgttttctctctcttttcttaaagGAACCGCACTTTTAACTCAATCACCAGCTTCCCTAAGTACATACAATGACCAGTCTGAGCAGTTTTGTGTTAGAAAATGGATGCTATGTGCTAAACATTGTGATTCTGGTAAAGACCAGGAACATGgtaaatcttatccatgccaggggtctatgggtctatgcttaatgagaacc Alignment from Exonerate_coding2genome GAACTTCACTTTTAACACAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTTAGTTTTGTTTTGGAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAG gaagacacataaaaggactatgggtatgttttctctctcttttcttaaagGAACCGCACTTTTAACTCAATCACCAGCTTCCCTAAGTACATACAATGACCAGTCTGAGCAGTTTTGTGTTAGAAAATGGATGCTATGTGCTAAACATTGTGATTCTGGTAAAGACCAGGAACATGgtaaatcttatccatgccaggggtctatgggtctatgcttaatgagaacc Alignment from GeneWise GAACTTCACTTTTAACACAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTTAGTTTTGTTTTGGAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAG gaagacacataaaaggactatgggtatgttttctctctcttttcttaaagGAACCGCACTTTTAACTCAATCACCAGCTTCCCTAAGTACATACAATGACCAGTCTGAGCAGTTTTGTGTTAGAAAATGGATGCTATGTGCTAAACATTGTGATTCTGGTAAAGACCAGGAACATGgtaaatcttatccatgccaggggtctatgggtctatgcttaatgagaacc #### Incenp_ID2604_15 --> 0 - 0 Original Alignment GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTG-CAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG gaggtgagtgatgctgtggggggagagggtttgtctgttttgttgattagGAGGAGAAGCAGCACCTGGCTAAGCAGGAGCCACCAGGAACAACAGGCATGGAAAGCAAAGGAGGTCG-AGCAGCCAGAAGGGTGCTCAACATGATGGTGGATGTAAGAgtaaaggctgaaagttagcatccagatcagatatatgcttactgtgaatg Alignment from CESAR GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTG-CAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG gaggtgagtgatgctgtggggggagagggtttgtctgttttgttgattagGAGGAGAAGCAGCACCTGGCTAAGCAGGAGCCACCAGGAACAACAGGCATGGAAAGCAAAGGAGGTC-GAGCAGCCAGAAGGGTGCTCAACATGATGGTGGATGTAAGAgtaaaggctgaaagttagcatccagatcagatatatgcttactgtgaatg Alignment from Spaln_aa2Genome GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG gaggtgagtgatgctgtggggggagagggtttgtctgttttgttgattagGAGGAGAAGCAGCACCTGGCTAAGCAGGAGCCACCAGGAACAACAGGCATGGAAAGCAAAGGAGGTCGAGCAGCCAGAAGGGTGCTCAACATGATGGTGGATGTAAGAgtaaaggctgaaagttagcatccagatcagatatatgcttactgtgaatg Alignment from Spaln_nt2Genome GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGC-AGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG gaggtgagtgatgctgtggggggagagggtttgtctgttttgttgattagGAGGAGAAGCAGCACCTGGCTAAGCAGGAGCCACCAGGAACAACAGGCATGGAAAGCAAAGGAGGTCG-AGCAGCCAGAAGGGTGCTCAACATGATGGTGGATGTAAGAgtaaaggctgaaagttagcatccagatcagatatatgcttactgtgaatg Alignment from Pairagon GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTG-CAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGAT gaggtgagtgatgctgtggggggagagggtttgtctgttttgttgattagGAGGAGAAGCAGCACCTGGCTAAGCAGGAGCCACCAGGAACAACAGGCATGGAAAGCAAAGGAGGTCG-AGCAGCCAGAAGGGTGCTCAACATGATGGTGGATgtaagagtaaaggctgaaagttagcatccagatcagatatatgcttactgtgaatg Alignment from Exonerate_protein2genome GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG gaggtgagtgatgctgtggggggagagggtttgtctgttttgttgattagGAGGAGAAGCAGCACCTGGCTAAGCAGGAGCCACCAGGAACAACAGGCATGGAAAGCAAAGGAGGTCGAGCAGCCAGAAGGGTGCTCAACATGATGGTGGATGTAAGAgtaaaggctgaaagttagcatccagatcagatatatgcttactgtgaatg Alignment from Exonerate_coding2genome CAG GAGgtgagtgatgctgtggggggagagggtttgtctgttttgttgattaggaggagaagcagcacctggctaagcaggagccaccaggaacaacaggcatggaaagcaaaggaggtcgagcagccagaagggtgctcaacatgatggtggatgtaagagtaaaggctgaaagttagcatccagatcagatatatgcttactgtgaatg Alignment from GeneWise GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG gaggtgagtgatgctgtggggggagagggtttgtctgttttgttgattagGAGGAGAAGCAGCACCTGGCTAAGCAGGAGCCACCAGGAACAACAGGCATGGAAAGCAAAGGAGGTCGAGCAGCCAGAAGGGTGCTCAACATGATGGTGGATGTAAGAgtaaaggctgaaagttagcatccagatcagatatatgcttactgtgaatg #### Kat5_ID1109_13 --> 1 - 0 Original Alignment tGAGATCAGTGAAATCACTAGTATC-AAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtggtatggtctacacagatgtaaactgccctccatatcccctctcctagtGAGATTAGTGAAATTACTAGTATTCAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCA-CCTAATCAATTACTACAAGgtaagtgggcacaattaacttgatgacaaaacttgcttatacttaaacgt Alignment from CESAR tGAGATCAGTGAAATCACTAGTATC-AAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtggtatggtctacacagatgtaaactgccctccatatcccctctcctagtGAGATTAGTGAAATTACTAGTATTCAAGAAAGAAGATGTCATCTCTACGCTGCAGTATC-TCACCTAATCAATTACTACAAGgtaagtgggcacaattaacttgatgacaaaacttgcttatacttaaacgt Alignment from Spaln_aa2Genome TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTG-CAGTATCTCAACCTCATCAATTACTACAAG gtggtatggtctacacagatgtaaactgccctccatatcccctctcctagTGAGATTAGTGAAATTACTAGTATTCAAGAAAGAAGATGTCATCTCTACGCTgCAGTATCTCAC-CTAATCAATTACTACAAGgtaagtgggcacaattaacttgatgacaaaacttgcttatacttaaacgt Alignment from Spaln_nt2Genome TGAGATCAGTGAAATCACTAGTA-TCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtggtatggtctacacagatgtaaactgccctccatatcccctctcctagTGAGATTAGTGAAATTACTAGTATTCAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTC-ACCTAATCAATTACTACAAGgtaagtgggcacaattaacttgatgacaaaacttgcttatacttaaacgt Alignment from Pairagon TGAGATCAGTGAAATCACTAGTA-TCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtggtatggtctacacagatgtaaactgccctccatatcccctctcctagTGAGATTAGTGAAATTACTAGTATTCAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTC-ACCTAATCAATTACTACAAGgtaagtgggcacaattaacttgatgacaaaacttgcttatacttaaacgt Alignment from Exonerate_protein2genome TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtggtatggtctacacagatgtaaactgccctccatatcccctctcctagTGAGATTAGTGAAATTACTAGTATTCAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCACCTAATCAATTACTACAAGgtaagtgggcacaattaacttgatgacaaaacttgcttatacttaaacgt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtggtatggtctacacagatgtaaactgccctccatatcccctctcctagTGAGATTAGTGAAATTACTAGTATTCAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCACCTAATCAATTACTACAAGgtaagtgggcacaattaacttgatgacaaaacttgcttatacttaaacgt #### Kat5_ID1110_12 --> 2 - 2 Original Alignment gcTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTA-TCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCaa cctgtaccagggaagaatgtctgcagggtggatccttttccctcccataggcTATGAACTCTCAAAAGTAGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCAGATCTTGGCCTCCTACTCCTACCGAAGTTACTGGTCCCAAACCATCT-GGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCaagtaagtgaaagtgctaataagcaggatgtggtatggtctacacagatgta Alignment from CESAR gcTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTA-TCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCaa cctgtaccagggaagaatgtctgcagggtggatccttttccctcccataggcTATGAACTCTCAAAAGTAGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCAGATCTTGGCCTCCTACTCCTACCGAAGTTACTGGTCCCAAACCA-TCTGGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCaagtaagtgaaagtgctaataagcaggatgtggtatggtctacacagatgta Alignment from Spaln_aa2Genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA cctgtaccagggaagaatgtctgcagggtggatccttttccctcccatagGCTATGAACTCTCAAAAGTAGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCAGATCTTGGCCTCCTACTCCTACCGAAGTTACTGGTCCCAAACCATCTGGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtaagtgaaagtgctaataagcaggatgtggtatggtctacacagatgta Alignment from Spaln_nt2Genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTA-TCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA cctgtaccagggaagaatgtctgcagggtggatccttttccctcccatagGCTATGAACTCTCAAAAGTAGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCAGATCTTGGCCTCCTACTCCTACCGAAGTTACTGGTCCCAAACCATC-TGGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtaagtgaaagtgctaataagcaggatgtggtatggtctacacagatgta Alignment from Pairagon GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTA-TCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA cctgtaccagggaagaatgtctgcagggtggatccttttccctcccatagGCTATGAACTCTCAAAAGTAGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCAGATCTTGGCCTCCTACTCCTACCGAAGTTACTGGTCCCAAACCATC-TGGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtaagtgaaagtgctaataagcaggatgtggtatggtctacacagatgta Alignment from Exonerate_protein2genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA cctgtaccagggaagaatgtctgcagggtggatccttttccctcccatagGCTATGAACTCTCAAAAGTAGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCAGATCTTGGCCTCCTACTCCTACCGAAGTTACTGGTCCCAAACCATCTGGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtaagtgaaagtgctaataagcaggatgtggtatggtctacacagatgta Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA cctgtaccagggaagaatgtctgcagggtggatccttttccctcccatagGCTATGAACTCTCAAAAGTAGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCAGATCTTGGCCTCCTACTCCTACCGAAGTTACTGGTCCCAAACCATCTGGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtaagtgaaagtgctaataagcaggatgtggtatggtctacacagatgta #### Kat5_ID1111_11 --> 0 - 1 Original Alignment GAAAAGGAATCCACAGAAGATTACAAT-GTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCa agagttgcaattaccctccaacctgttccctgagtgtctgtgtcttctagGAGAAAGAGTCCACAGAAGATTACAACCATTGCTTGCATTTTAACTCTACCCCCCTACCAACGGC-TGGCTATGGTAGATTGCTTATTGAGTTCagtgagtctatactacctgcttatggtctgtagctaaatagatgagcttga Alignment from CESAR GAAAAGGAATCCACAGAAGATTACAAT-GTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCa agagttgcaattaccctccaacctgttccctgagtgtctgtgtcttctagGAGAAAGAGTCCACAGAAGATTACAACCATTGCTTGCATTTTAACTCTACCCCCCTACCAACGG-CTGGCTATGGTAGATTGCTTATTGAGTTCagtgagtctatactacctgcttatggtctgtagctaaatagatgagcttga Alignment from Spaln_aa2Genome GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA agagttgcaattaccctccaacctgttccctgagtgtctgtgtcttctagGAGAAAGAGTCCACAGAAGATTACAACCATTGCTTGCATTTTAACTCTACCCCCCTACCAACGGCTGGCTATGGTAGATTGCTTATTGAGTTCAgtgagtctatactacctgcttatggtctgtagctaaatagatgagcttga Alignment from Spaln_nt2Genome GAAAAGGAATCCACAGAAGATTACAATG-TGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA agagttgcaattaccctccaacctgttccctgagtgtctgtgtcttctagGAGAAAGAGTCCACAGAAGATTACAACCATTGCTTGCATTTTAACTCTACCCCCCTACCAACGGC-TGGCTATGGTAGATTGCTTATTGAGTTCAgtgagtctatactacctgcttatggtctgtagctaaatagatgagcttga Alignment from Pairagon GAAAAGGAATCCACAGAAGATTACAA-TGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA agagttgcaattaccctccaacctgttccctgagtgtctgtgtcttctagGAGAAAGAGTCCACAGAAGATTACAACCATTGCTTGCATTTTAACTCTACCCCCCTACCAACGGC-TGGCTATGGTAGATTGCTTATTGAGTTCAgtgagtctatactacctgcttatggtctgtagctaaatagatgagcttga Alignment from Exonerate_protein2genome GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA agagttgcaattaccctccaacctgttccctgagtgtctgtgtcttctagGAGAAAGAGTCCACAGAAGATTACAACCATTGCTTGCATTTTAACTCTACCCCCCTACCAACGGCTGGCTATGGTAGATTGCTTATTGAGTTCAgtgagtctatactacctgcttatggtctgtagctaaatagatgagcttga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA agagttgcaattaccctccaacctgttccctgagtgtctgtgtcttctagGAGAAAGAGTCCACAGAAGATTACAACCATTGCTTGCATTTTAACTCTACCCCCCTACCAACGGCTGGCTATGGTAGATTGCTTATTGAGTTCAgtgagtctatactacctgcttatggtctgtagctaaatagatgagcttga #### Kat5_ID1114_8 --> 0 - 0 Original Alignment GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGG-TACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG gctcaccccagtactcacctgctaacaccagacctgcctttcatttccagGATCCTCAGGACAGCTCAGATGGGATACCAACAGCTCCACAAATGACAGGTAGTCTAGTATCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCTTAAGCCATGGCTATTTCTCCCCATAT---CAAGTGCTCACTACCCTAC-TATCCTCTACCTGTGTGAATCTTGCCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTgtgaggggtgacttaggcatcagcgtggtttagcactggttattggtgga Alignment from CESAR GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGG-TACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG gctcaccccagtactcacctgctaacaccagacctgcctttcatttccagGATCCTCAGGACAGCTCAGATGGGATACCAACAGCTCCACAAATGACAGGTAGTCTAGTATCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCTTAAGCCATGGCTATTTCTCCCCATAT---CAAGTGCTCACTACCCTA-CTATCCTCTACCTGTGTGAATCTTGCCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTgtgaggggtgacttaggcatcagcgtggtttagcactggttattggtgga Alignment from Spaln_aa2Genome GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG gctcaccccagtactcacctgctaacaccagacctgcctttcatttccagGATCCTCAGGACAGCTCAGATGGGATACCAACAGCTCCACAAATGACAGGTAGTCTAGTATCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCTTAAGCCATGGCTATTTCTCCCCATATCAAGTGCTCACTACCCT---ACTATCCTCTACCTGTGTGAATCTTGCCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTgtgaggggtgacttaggcatcagcgtggtttagcactggttattggtgga Alignment from Spaln_nt2Genome GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGG-TACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG gctcaccccagtactcacctgctaacaccagacctgcctttcatttccagGATCCTCAGGACAGCTCAGATGGGATACCAACAGCTCCACAAATGACAGGTAGTCTAGTATCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCTTAAGCCATGGCTATTTCTCCCCATA---TCAAGTGCTCACTACCCTA-CTATCCTCTACCTGTGTGAATCTTGCCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTgtgaggggtgacttaggcatcagcgtggtttagcactggttattggtgga Alignment from Pairagon GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGG-TACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG gctcaccccagtactcacctgctaacaccagacctgcctttcatttccagGATCCTCAGGACAGCTCAGATGGGATACCAACAGCTCCACAAATGACAGGTAGTCTAGTATCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCTTAAGCCATGGCTATTTCTCCCCATAT---CAAGTGCTCACTACCCTA-CTATCCTCTACCTGTGTGAATCTTGCCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTgtgaggggtgacttaggcatcagcgtggtttagcactggttattggtgga Alignment from Exonerate_protein2genome GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG gctcaccccagtactcacctgctaacaccagacctgcctttcatttccagGATCCTCAGGACAGCTCAGATGGGATACCAACAGCTCCACAAATGACAGGTAGTCTAGTATCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCTTAAGCCATGGCTATTTCTCCCCATA---TCAAGTGCTCACTACCCTACTATCCTCTACCTGTGTGAATCTTGCCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTgtgaggggtgacttaggcatcagcgtggtttagcactggttattggtgga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG gctcaccccagtactcacctgctaacaccagacctgcctttcatttccagGATCCTCAGGACAGCTCAGATGGGATACCAACAGCTCCACAAATGACAGGTAGTCTAGTATCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCTTAAGCCATGGCTATTTCTCCCCATATCAAGTGCTCACTACCCTACT---ATCCTCTACCTGTGTGAATCTTGCCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTgtgaggggtgacttaggcatcagcgtggtttagcactggttattggtgga #### Kat5_ID1120_2 --> 0 - 1 Original Alignment GGGGAGATAATC-GAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGc ggtaaccaagggctaccaatacacatcccttccattaccttggcccacagGGTGAGATAATTCGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATC-AGATAATGAAGATGAGTGGcgtgagggtgtcctgagggttagtctgaaggagcaaagggcaaggtcccag Alignment from CESAR GGGGAGATAATC-GAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGc ggtaaccaagggctaccaatacacatcccttccattaccttggcccacagGGTGAGATAATTCGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATC-AGATAATGAAGATGAGTGGcgtgagggtgtcctgagggttagtctgaaggagcaaagggcaaggtcccag Alignment from Spaln_aa2Genome GGGGAGATAATC-GAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC ggtaaccaagggctaccaatacacatcccttccattaccttggcccacagGGTGAGATAATTcGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATCA-GATAATGAAGATGAGTGGCgtgagggtgtcctgagggttagtctgaaggagcaaagggcaaggtcccag Alignment from Spaln_nt2Genome G GGGGAGATAAT-CGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC GgtaaccaagggctaccaatacacatcccttccattaccttggcccacagGGTGAGATAATTCGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATCA-GATAATGAAGATGAGTGGCgtgagggtgtcctgagggttagtctgaaggagcaaagggcaaggtcccag Alignment from Pairagon GGGGGAGATAA-TCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC ggtaaccaagggctaccaatacacatcccttccattaccttggcccacaGGGTGAGATAATTCGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATCA-GATAATGAAGATGAGTGGCgtgagggtgtcctgagggttagtctgaaggagcaaagggcaaggtcccag Alignment from Exonerate_protein2genome GGGGAGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC ggtaaccaagggctaccaatacacatcccttccattaccttggcccacagGGTGAGATAATTCGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATCAGATAATGAAGATGAGTGGCgtgagggtgtcctgagggttagtctgaaggagcaaagggcaaggtcccag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ggtaaccaagggctaccaatacacatcccttccattaccttggcccacagggtgagataattcgagggctgctgcctacctgtccttcggcgcaatcagataatgaagatgagtggcgtgagggtgtcctgagggttagtctgaaggagcaaagggcaaggtcccag #### Kcnip2_ID9604_8 --> 0 - 0 Original Alignment GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTAC-ACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG ggggtgctatgctacccttaaccatacccttttcttggtgtggtttgcagGACATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACCACCTACCCTGCACTCCGGGAGGAAGCCCCACGAGAACACG-GGAAAGCTTCTTCCAAgtaagaggtgcaacttctggagtagtgggacatgtccagtctaggagtta Alignment from CESAR GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTAC-ACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG ggggtgctatgctacccttaaccatacccttttcttggtgtggtttgcagGACATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACCACCTACCCTGCACTCCGGGAGGAAGCCCCACGAGAACAC-GGGAAAGCTTCTTCCAAgtaagaggtgcaacttctggagtagtgggacatgtccagtctaggagtta Alignment from Spaln_aa2Genome GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTAC-ACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG ggggtgctatgctacccttaaccatacccttttcttggtgtggtttgcagGACATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACcACCTACCCTGCACTCCGGGAGGAAGCCCCACGAGAACACGG-GAAAGCTTCTTCCAAgtaagaggtgcaacttctggagtagtgggacatgtccagtctaggagtta Alignment from Spaln_nt2Genome GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTA-CACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG ggggtgctatgctacccttaaccatacccttttcttggtgtggtttgcagGACATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACCACCTACCCTGCACTCCGGGAGGAAGCCCCACGAGAACACG-GGAAAGCTTCTTCCAAgtaagaggtgcaacttctggagtagtgggacatgtccagtctaggagtta Alignment from Pairagon GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTA-CACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG ggggtgctatgctacccttaaccatacccttttcttggtgtggtttgcagGACATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACCACCTACCCTGCACTCCGGGAGGAAGCCCCACGAGAACACG-GGAAAGCTTCTTCCAAgtaagaggtgcaacttctggagtagtgggacatgtccagtctaggagtta Alignment from Exonerate_protein2genome GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG ggggtgctatgctacccttaaccatacccttttcttggtgtggtttgcagGACATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACCACCTACCCTGCACTCCGGGAGGAAGCCCCACGAGAACACGGGAAAGCTTCTTCCAAgtaagaggtgcaacttctggagtagtgggacatgtccagtctaggagtta Alignment from Exonerate_coding2genome GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG ggggtgctatgctacccttaaccatacccttttcttggtgtggtttgcagGACATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACCACCTACCCTGCACTCCGGGAGGAAGCCCCACGAGAACACGGGAAAGCTTCTTCCAAgtaagaggtgcaacttctggagtagtgggacatgtccagtctaggagtta Alignment from GeneWise GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG ggggtgctatgctacccttaaccatacccttttcttggtgtggtttgcagGACATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACCACCTACCCTGCACTCCGGGAGGAAGCCCCACGAGAACACGGGAAAGCTTCTTCCAAgtaagaggtgcaacttctggagtagtgggacatgtccagtctaggagtta #### Kcnip2_ID9608_4 --> 2 - 0 Original Alignment acAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAG-GGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAG---TTGCAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggcttgtgctggtcatgaagtatataatatccttttgcttcatagatAGTGTTGAGGATGAGTTTGAACTGTCAATGATTTGTCACCGGCCAGAACAGTTTGGAACAGCTACAGAAACACGCCA-GTTTGCACACAGAGAGTTGCTGCAGGTCTTGTATAGAGGGTTCAAGAATgtttgaggggaatgaaaccagctgtgcagtagctgaccctccaagctcct Alignment from CESAR acAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAG-GGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAGTTG---CAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggcttgtgctggtcatgaagtatataatatccttttgcttcatagatAGTGTTGAGGATGAGTTTGAACTGTCAATGATTTGTCACCGGCCAGAACAGTTTGGAACAGCTACAGAAACACG-CCAGTTTGCACACAGAGAGTTGCTGCAGGTCTTGTATAGAGGGTTCAAGAATgtttgaggggaatgaaaccagctgtgcagtagctgaccctccaagctcct Alignment from Spaln_aa2Genome ACAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAG---TTGCAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggcttgtgctggtcatgaagtatataatatccttttgcttcatagATAGTGTTGAGGATGAGTTTGAACTGTCAATGATTTGTCACCGGCCAGAACAGTTTGGAACAGCTACAGAAACACGCCAGTTTGCACACAGAGAGTTGCTGCAGGTCTTGTATAGAGGGTTCAAGAATgtttgaggggaatgaaaccagctgtgcagtagctgaccctccaagctcct Alignment from Spaln_nt2Genome ACAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGG-GTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAGTTGC---AGGTCCTGTACAGAGGCTTCAAGAAC tgaagggcttgtgctggtcatgaagtatataatatccttttgcttcatagATAGTGTTGAGGATGAGTTTGAACTGTCAATGATTTGTCACCGGCCAGAACAGTTTGGAACAGCTACAGAAACACGCC-AGTTTGCACACAGAGAGTTGCTGCAGGTCTTGTATAGAGGGTTCAAGAATgtttgaggggaatgaaaccagctgtgcagtagctgaccctccaagctcct Alignment from Pairagon ACAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAG-GGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAGT---TGCAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggcttgtgctggtcatgaagtatataatatccttttgcttcatagATAGTGTTGAGGATGAGTTTGAACTGTCAATGATTTGTCACCGGCCAGAACAGTTTGGAACAGCTACAGAAACACGCC-AGTTTGCACACAGAGAGTTGCTGCAGGTCTTGTATAGAGGGTTCAAGAATgtttgaggggaatgaaaccagctgtgcagtagctgaccctccaagctcct Alignment from Exonerate_protein2genome ACAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAG---TTGCAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggcttgtgctggtcatgaagtatataatatccttttgcttcatagATAGTGTTGAGGATGAGTTTGAACTGTCAATGATTTGTCACCGGCCAGAACAGTTTGGAACAGCTACAGAAACACGCCAGTTTGCACACAGAGAGTTGCTGCAGGTCTTGTATAGAGGGTTCAAGAATgtttgaggggaatgaaaccagctgtgcagtagctgaccctccaagctcct Alignment from Exonerate_coding2genome ACAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAG---TTGCAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggcttgtgctggtcatgaagtatataatatccttttgcttcatagATAGTGTTGAGGATGAGTTTGAACTGTCAATGATTTGTCACCGGCCAGAACAGTTTGGAACAGCTACAGAAACACGCCAGTTTGCACACAGAGAGTTGCTGCAGGTCTTGTATAGAGGGTTCAAGAATgtttgaggggaatgaaaccagctgtgcagtagctgaccctccaagctcct Alignment from GeneWise ACAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAGTTG---CAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggcttgtgctggtcatgaagtatataatatccttttgcttcatagATAGTGTTGAGGATGAGTTTGAACTGTCAATGATTTGTCACCGGCCAGAACAGTTTGGAACAGCTACAGAAACACGCCAGTTTGCACACAGAGAGTTGCTGCAGGTCTTGTATAGAGGGTTCAAGAATgtttgaggggaatgaaaccagctgtgcagtagctgaccctccaagctcct #### Kif11_ID7318_8 --> 0 - 0 Original Alignment GTTGATCTTGCAGGAAGTGAAAAT-ATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG ttgaactgtggaagctgcagctagaccaaatgtgaccactgcttttccagGTAGATCTTGCTGGAAGTGAAAATCATTGGGCATTCTGGAGCGGTAGTCAAGAGAGCAC-CAAAGCTGGAAATATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATTACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAAgtgggccaagtagtagccatgacacttcggtggcctcttcagccattgtg Alignment from CESAR GTTGATCTTGCAGGAAGTGAAAAT-ATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG ttgaactgtggaagctgcagctagaccaaatgtgaccactgcttttccagGTAGATCTTGCTGGAAGTGAAAATCATTGGGCATTCTGGAGCGGTAGTCAAGAGAGCA-CCAAAGCTGGAAATATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATTACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAAgtgggccaagtagtagccatgacacttcggtggcctcttcagccattgtg Alignment from Spaln_aa2Genome GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG ttgaactgtggaagctgcagctagaccaaatgtgaccactgcttttccagGTAGATCTTGCTGGAAGTGAAAATCATTGGGCATTCTGGAGCGGTAGTCAAGAGAGCACCAAAGCTGGAAATATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATTACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAAgtgggccaagtagtagccatgacacttcggtggcctcttcagccattgtg Alignment from Spaln_nt2Genome GTTGATCTTGCAGGAAGTGAAAAT-ATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG ttgaactgtggaagctgcagctagaccaaatgtgaccactgcttttccagGTAGATCTTGCTGGAAGTGAAAATCATTGGGCATTCTGGAGCGGTAGTCAAGAGAGCAC-CAAAGCTGGAAATATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATTACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAAgtgggccaagtagtagccatgacacttcggtggcctcttcagccattgtg Alignment from Pairagon GTTGATCTTGCAGGAAGTGAAAAT-ATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG ttgaactgtggaagctgcagctagaccaaatgtgaccactgcttttccagGTAGATCTTGCTGGAAGTGAAAATCATTGGGCATTCTGGAGCGGTAGTCAAGAGAGCAC-CAAAGCTGGAAATATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATTACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAAgtgggccaagtagtagccatgacacttcggtggcctcttcagccattgtg Alignment from Exonerate_protein2genome GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG ttgaactgtggaagctgcagctagaccaaatgtgaccactgcttttccagGTAGATCTTGCTGGAAGTGAAAATCATTGGGCATTCTGGAGCGGTAGTCAAGAGAGCACCAAAGCTGGAAATATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATTACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAAgtgggccaagtagtagccatgacacttcggtggcctcttcagccattgtg Alignment from Exonerate_coding2genome GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG ttgaactgtggaagctgcagctagaccaaatgtgaccactgcttttccagGTAGATCTTGCTGGAAGTGAAAATCATTGGGCATTCTGGAGCGGTAGTCAAGAGAGCACCAAAGCTGGAAATATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATTACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAAgtgggccaagtagtagccatgacacttcggtggcctcttcagccattgtg Alignment from GeneWise GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG ttgaactgtggaagctgcagctagaccaaatgtgaccactgcttttccagGTAGATCTTGCTGGAAGTGAAAATCATTGGGCATTCTGGAGCGGTAGTCAAGAGAGCACCAAAGCTGGAAATATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATTACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAAgtgggccaagtagtagccatgacacttcggtggcctcttcagccattgtg #### Kif20b_ID6998_3 --> 0 - 0 Original Alignment GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTT-GGCCACTTA---AGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG ctgactataaacacagtctctcactagagtccatgttcctctctgttcag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCGCAGAGTATGCTTCGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTA---C-GGAATTTAGCTTTTCTAAAgtaggtgtaagtatggtggattgaccacattgaagcctctatcaagagga Alignment from CESAR GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTT-GGCCAC---TTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG ctgactataaacacagtctctcactagagtccatgttcctctctgttcag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCGCAGAGTATGCTTCGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTA-CGGAA---TTTAGCTTTTCTAAAgtaggtgtaagtatggtggattgaccacattgaagcctctatcaagagga Alignment from Spaln_aa2Genome GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG ctgactataaacacagtctctcactagagtccatgttcctctctgttcag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCGCAGAGTATGCTTCGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTACGGAATTTAGCTTTTCTAAAgtaggtgtaagtatggtggattgaccacattgaagcctctatcaagagga Alignment from Spaln_nt2Genome GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTT-GGCCACTTA---AGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG ctgactataaacacagtctctcactagagtccatgttcctctctgttcag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCGCAGAGTATGCTTCGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGT---AC-GGAATTTAGCTTTTCTAAAgtaggtgtaagtatggtggattgaccacattgaagcctctatcaagagga Alignment from Pairagon GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTT-GGCCAC---TTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG ctgactataaacacagtctctcactagagtccatgttcctctctgttcag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCGCAGAGTATGCTTCGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTA----CGGAATTTAGCTTTTCTAAAgtaggtgtaagtatggtggattgaccacattgaagcctctatcaagagga Alignment from Exonerate_protein2genome GTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG ctgactataaacacagtctctcactagagtccatgttcctctctgttcagGTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCGCAGAGTATGCTTCGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTACGGAATTTAGCTTTTCTAAAgtaggtgtaagtatggtggattgaccacattgaagcctctatcaagagga Alignment from Exonerate_coding2genome GTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG ctgactataaacacagtctctcactagagtccatgttcctctctgttcagGTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCGCAGAGTATGCTTCGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTACGGAATTTAGCTTTTCTAAAgtaggtgtaagtatggtggattgaccacattgaagcctctatcaagagga Alignment from GeneWise ---CAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG ctgactataaacacagtctctcactagagtccatgttcctctctgttcagGTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCGCAGAGTATGCTTCGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTACGGAATTTAGCTTTTCTAAAgtaggtgtaagtatggtggattgaccacattgaagcctctatcaagagga #### Kif20b_ID7002_7 --> 2 - 1 Original Alignment gaCACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCC-GTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAg gacacattttgaggattgcagttaaacttgccccatctccctgtccacagggCACTTTACAAACTCTCTAACTATCCCAGAGTTTGAGGAACCTCGTCAACAGG---------TCCAGTTTAAATGTGGATA-TATAAAGTATTCTGTGTGGGTCTCATTCTTTGAAATCTACAACAAAAGCATATTC---TTGTTTGTGCCTGTTTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGAATTGCCCAGGACATAAAGGGATATTCTTTCATTAAAggtaagtccatcttgttaaagaaggagcatacattacaactatttcacatt Alignment from CESAR gaCACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCC-GTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAg gacacattttgaggattgcagttaaacttgccccatctccctgtccacagggCACTTTACAAACTCTCTAACTATCCCAGAGTTTGAGGAACCTCGTCAAC---------AGGTCCAGTTTAAATGTGGAT-ATATAAAGTATTCTGTGTGGGTCTCATTCTTTGAAATCTACAACAAAAGCATATTC---TTGTTTGTGCCTGTTTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGAATTGCCCAGGACATAAAGGGATATTCTTTCATTAAAggtaagtccatcttgttaaagaaggagcatacattacaactatttcacatt Alignment from Spaln_aa2Genome GACACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAG gacacattttgaggattgcagttaaacttgccccatctccctgtccacagGGCACTTTACAAACTCTCTAACTATCCCAGAGTTTGAGGAA---------CCTCGTCAACAGGTCCAGTTTAAATGTGGATATATAAAGTATTCTGTGTGGGTCTCATTCTTTGAAATCTACAACAAAAGCATATTC---TTGTTTGTGCCTGTTTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGAATTGCCCAGGACATAAAGGGATATTCTTTCATTAAAGgtaagtccatcttgttaaagaaggagcatacattacaactatttcacatt Alignment from Spaln_nt2Genome GACACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATC-CGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAG gacacattttgaggattgcagttaaacttgccccatctccctgtccacagGGCACTTTACAAACTCTCTAACTATCCCAGAGTTTGAGGAACCTCGTCAACAG---------GTCCAGTTTAAATGTGGAT-ATATAAAGTATTCTGTGTGGGTCTCATTCTTTGAAATCTACAACAAAAGCATATTC---TTGTTTGTGCCTGTTTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGAATTGCCCAGGACATAAAGGGATATTCTTTCATTAAAGgtaagtccatcttgttaaagaaggagcatacattacaactatttcacatt Alignment from Pairagon GACACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATC-CGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAG gacacattttgaggattgcagttaaacttgccccatctccctgtccacagGGCACTTTACAAACTCTCTAACTATCCCAGAGTTTGAGGAACCTCGTCAACAG---------GTCCAGTTTAAATGTGGAT-ATATAAAGTATTCTGTGTGGGTCTCATTCTTTGAAATCTACAACAAAAGCATATTC---TTGTTTGTGCCTGTTTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGAATTGCCCAGGACATAAAGGGATATTCTTTCATTAAAGgtaagtccatcttgttaaagaaggagcatacattacaactatttcacatt Alignment from Exonerate_protein2genome GACACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAG gacacattttgaggattgcagttaaacttgccccatctccctgtccacagGGCACTTTACAAACTCTCTAACTATCCCAGAGTTTGAGGAA---------CCTCGTCAACAGGTCCAGTTTAAATGTGGATATATAAAGTATTCTGTGTGGGTCTCATTCTTTGAAATCTACAACAAAAGCATATTC---TTGTTTGTGCCTGTTTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGAATTGCCCAGGACATAAAGGGATATTCTTTCATTAAAGgtaagtccatcttgttaaagaaggagcatacattacaactatttcacatt Alignment from Exonerate_coding2genome GTTACCATACATAATGACAGTTATGACGTTCTTTGTGGACACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAG gacacattttgagGATTGCAGTTAAACTTGCCCCATCTCCCTGTCCACAGGGCACTTTACAAACTCTCTAACTATCCCAGAGTTTGAGGAA---------CCTCGTCAACAGGTCCAGTTTAAATGTGGATATATAAAGTATTCTGTGTGGGTCTCATTCTTTGAAATCTACAACAAAAGCATATTC---TTGTTTGTGCCTGTTTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGAATTGCCCAGGACATAAAGGGATATTCTTTCATTAAAGgtaagtccatcttgttaaagaaggagcatacattacaactatttcacatt Alignment from GeneWise GACACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAG gacacattttgaggattgcagttaaacttgccccatctccctgtccacagGGCACTTTACAAACTCTCTAACTATCCCAGAGTTTGAGGAACCTCGT---------CAACAGGTCCAGTTTAAATGTGGATATATAAAGTATTCTGTGTGGGTCTCATTCTTTGAAATCTACAACAAAAGCATATTC---TTGTTTGTGCCTGTTTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGAATTGCCCAGGACATAAAGGGATATTCTTTCATTAAAGgtaagtccatcttgttaaagaaggagcatacattacaactatttcacatt #### Kif20b_ID7005_10 --> 1 - 2 Original Alignment aTTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATC-AACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAaa ctttttggaacaacagtctttgcagcacctctctctctctctgctctcaggTTGTCGCTGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACGCAGAATGAAGGTGAGAGGCCAAGAGAAGCAGGAAATATCCAACACACCCCTGTTGACCTTGGGAATGT-TGTCAATGTATTAAAGAACAGTGAAAAGTCAaagtaagcgccattagtgtcataaaatctgccgttctgagtactttctagga Alignment from CESAR aTTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATC-AACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAaa ctttttggaacaacagtctttgcagcacctctctctctctctgctctcaggTTGTCGCTGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACGCAGAATGAAGGTGAGAGGCCAAGAGAAGCAGGAAATATCCAACACACCCCTGTTGACCTTGGGAATG-TTGTCAATGTATTAAAGAACAGTGAAAAGTCAaagtaagcgccattagtgtcataaaatctgccgttctgagtactttctagga Alignment from Spaln_aa2Genome ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA ctttttggaacaacagtctttgcagcacctctctctctctctgctctcagGTTGTCGCTGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACGCAGAATGAAGGTGAGAGGCCAAGAGAAGCAGGAAATATCCAACACACCCCTGTTGACCTTGGGAATGTTGTCAATGTATTAAAGAACAGTGAAAAGTCAAAgtaagcgccattagtgtcataaaatctgccgttctgagtactttctagga Alignment from Spaln_nt2Genome ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATC-AACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA ctttttggaacaacagtctttgcagcacctctctctctctctgctctcagGTTGTCGCTGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACGCAGAATGAAGGTGAGAGGCCAAGAGAAGCAGGAAATATCCAACACACCCCTGTTGACCTTGGGAATGT-TGTCAATGTATTAAAGAACAGTGAAAAGTCAAAgtaagcgccattagtgtcataaaatctgccgttctgagtactttctagga Alignment from Pairagon ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATAT-CAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA ctttttggaacaacagtctttgcagcacctctctctctctctgctctcagGTTGTCGCTGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACGCAGAATGAAGGTGAGAGGCCAAGAGAAGCAGGAAATATCCAACACACCCCTGTTGACCTTGGGAATGT-TGTCAATGTATTAAAGAACAGTGAAAAGTCAAAgtaagcgccattagtgtcataaaatctgccgttctgagtactttctagga Alignment from Exonerate_protein2genome ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA ctttttggaacaacagtctttgcagcacctctctctctctctgctctcagGTTGTCGCTGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACGCAGAATGAAGGTGAGAGGCCAAGAGAAGCAGGAAATATCCAACACACCCCTGTTGACCTTGGGAATGTTGTCAATGTATTAAAGAACAGTGAAAAGTCAAAgtaagcgccattagtgtcataaaatctgccgttctgagtactttctagga Alignment from Exonerate_coding2genome ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA ctttttggaacaacagtctttgcagcacctctctctctctctgctctcagGTTGTCGCTGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACGCAGAATGAAGGTGAGAGGCCAAGAGAAGCAGGAAATATCCAACACACCCCTGTTGACCTTGGGAATGTTGTCAATGTATTAAAGAACAGTGAAAAGTCAAAgtaagcgccattagtgtcataaaatctgccgttctgagtactttctagga Alignment from GeneWise ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA ctttttggaacaacagtctttgcagcacctctctctctctctgctctcagGTTGTCGCTGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACGCAGAATGAAGGTGAGAGGCCAAGAGAAGCAGGAAATATCCAACACACCCCTGTTGACCTTGGGAATGTTGTCAATGTATTAAAGAACAGTGAAAAGTCAAAgtaagcgccattagtgtcataaaatctgccgttctgagtactttctagga #### Klc2_ID853_13 --> 0 - 2 Original Alignment GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAG-ATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTag agtgcgtaaccaatctattttgagcctgtttttctctatggcccacacagGATGGAAGTGGTTCCCTACAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCAGCAGTGAACATGCTTGTAAGGAAATTGCAGGGGGGTGGGCCACAGG-GCCCTCTAATTCTaggtaattcctcacctctctcatccatatcattaatgatgagtagcagggca Alignment from CESAR GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAG-ATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTag agagcgtaaccaatctattttgagcctgtttttctctatggcccacacagGATGGAAGTGGTTCCCTACAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCAGCAGTGAACATGCTTGTAAGGAAATTGCAGGGGGGTGGGCCACAG-GGCCCTCTAATTCTaggtaattcctcacctctctcatccatatcattaatgatgagtagcagggca Alignment from Spaln_aa2Genome GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAG-ATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG agtgcgtaaccaatctattttgagcctgtttttctctatggcccacacagGATGGAAGTGGTTCCCTACAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCAGCAGTGAAcATGCTTGTAAGGAAATTGCAGGGGGGTGGGCCACAGGG-CCCTCTAATTCTAGgtaattcctcacctctctcatccatatcattaatgatgagtagcagggca Alignment from Spaln_nt2Genome GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAG-ATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG agtgcgtaaccaatctattttgagcctgtttttctctatggcccacacagGATGGAAGTGGTTCCCTACAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCAGCAGTGAACATGCTTGTAAGGAAATTGCAGGGGGGTGGGCCACAGG-GCCCTCTAATTCTAGgtaattcctcacctctctcatccatatcattaatgatgagtagcagggca Alignment from Pairagon GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAG-ATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG agtgcgtaaccaatctattttgagcctgtttttctctatggcccacacagGATGGAAGTGGTTCCCTACAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCAGCAGTGAACATGCTTGTAAGGAAATTGCAGGGGGGTGGGCCACAGG-GCCCTCTAATTCTAGgtaattcctcacctctctcatccatatcattaatgatgagtagcagggca Alignment from Exonerate_protein2genome GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG agtgcgtaaccaatctattttgagcctgtttttctctatggcccacacagGATGGAAGTGGTTCCCTACAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCAGCAGTGAACATGCTTGTAAGGAAATTGCAGGGGGGTGGGCCACAGGGCCCTCTAATTCTAGgtaattcctcacctctctcatccatatcattaatgatgagtagcagggca Alignment from Exonerate_coding2genome agtgcgtaaccaatctattttgagcctgtttttctctatggcccacacaggatggaagtggttccctacagtgcagtggttcttttgggaaactccgagatgctctaagacgcagcagtgaacatgcttgtaaggaaattgcaggggggtgggccacagggccctctaattctaggtaattcctcacctctctcatccatatcattaatgatgagtagcagggca Alignment from GeneWise GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG agtgcgtaaccaatctattttgagcctgtttttctctatggcccacacagGATGGAAGTGGTTCCCTACAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCAGCAGTGAACATGCTTGTAAGGAAATTGCAGGGGGGTGGGCCACAGGGCCCTCTAATTCTAGgtaattcctcacctctctcatccatatcattaatgatgagtagcagggca #### Klc2_ID855_11 --> 1 - 0 Original Alignment tCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAG-GGCAAGCTGGAAGCCGCA---CACACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG cttggaggggaagccgggaattttcaatcctaaaaccctctttcctttagtCCTACGGTCAATACCAGATTGCGAAGCTGGGGTACCCTGTACTGGCATGAACGGCAAACTGGATGCTACACAACACACACTGAAAGATTGTT-AAGCCACAGTTGCAAACAGgtgagtctttcatcactggggacagataatagggccacattcttgtgtat Alignment from CESAR tCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAG-GGCAAGCTGGAAGCCGCA---CACACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG cttggaggggaagccgggaattttcaatcctaaaaccctctttcctttagtCCTACGGTCAATACCAGATTGCGAAGCTGGGGTACCCTGTACTGGCATGAACGGCAAACTGGATGCTACACAACACACACTGAAAGATTGT-TAAGCCACAGTTGCAAACAGgtgagtctttcatcactggggacagataatagggccacattcttgtgtat Alignment from Spaln_aa2Genome TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCCGCACACACACTGGAAGACTGT---GCCAGCCGCAGCCGCAAACAG cttggaggggaagccgggaattttcaatcctaaaaccctctttcctttagTCCTACGGTCAATACCAGATTGCGAAGCTGGGGTACCCTGTACTGGCATGAACGGCAAACTGGATGCTACACAACACACACTGAAAGATTGTTAAGCCACAGTTGCAAACAGgtgagtctttcatcactggggacagataatagggccacattcttgtgtat Alignment from Spaln_nt2Genome TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAG-GGCAAGCTGGAAGCCGCACA---CACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG cttggaggggaagccgggaattttcaatcctaaaaccctctttcctttagTCCTACGGTCAATACCAGATTGCGAAGCTGGGGTACCCTGTACTGGCATGAACGGCAAACTGGATGCTACACAACACACACTGAAAGATTGT-TAAGCCACAGTTGCAAACAGgtgagtctttcatcactggggacagataatagggccacattcttgtgtat Alignment from Pairagon TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAG-GGCAAGCTGGAAGCCGC---ACACACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG cttggaggggaagccgggaattttcaatcctaaaaccctctttcctttagTCCTACGGTCAATACCAGATTGCGAAGCTGGGGTACCCTGTACTGGCATGAACGGCAAACTGGATGCTACACAACACACACTGAAAGATTGT-TAAGCCACAGTTGCAAACAGgtgagtctttcatcactggggacagataatagggccacattcttgtgtat Alignment from Exonerate_protein2genome TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCCGCACACACA---CTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG cttggaggggaagccgggaattttcaatcctaaaaccctctttcctttagTCCTACGGTCAATACCAGATTGCGAAGCTGGGGTACCCTGTACTGGCATGAACGGCAAACTGGATGCTACACAACACACACTGAAAGATTGTTAAGCCACAGTTGCAAACAGgtgagtctttcatcactggggacagataatagggccacattcttgtgtat Alignment from Exonerate_coding2genome cttggaggggaagccgggaattttcaatcctaaaaccctctttcctttagtcctacggtcaataccagattgcgaagctggggtaccctgtactggcatgaacggcaaactggatgctacacaacacacactgaaagattgttaagccacagttgcaaacaggtgagtctttcatcactggggacagataatagggccacattcttgtgtat Alignment from GeneWise TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTAC------CGGCGCCAGGGCAAGCTGGAAGCCGCACACACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG cttggaggggaagccgggaattttcaatcctaaaaccctctttcctttagTCCTACGGTCAATACCAGATTGCGAAGCTGGGGTACCCTGTACTGGCATGAACGGCAAACTGGATGCTACACAACACACACT---GAAAGATTGTTAAGCCACAGTTGCAAACAGgtgagtctttcatcactggggacagataatagggccacattcttgtgtat #### Klc2_ID859_7 --> 0 - 0 Original Alignment GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAG-GAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG aatgccaaacagcaccaccactaggatctctctcttctctctgttctcagGTCCTTGGAAAATTT------GATGTGGCTGAGCCGCTTAGCAACCTGGTTTTGCTATGCCAGAACCAGGACAGAGCTGAACGAGGTGGAATACTATTACCCACGGGGCTTGAAGATATATGCCA-ACGCCTTAGTCCTGAAGATCCCAATGTGGCAAAAACTAAGAACAACCTGgtgaggtgtaaggtaagggatgccaataaagaaggcaccgcatccgggtt Alignment from CESAR GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAG-GAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG aatgccaaacagcaccaccactaggatctctctcttctctctgttctcagGTCCTTGGAAAATTT------GATGTGGCTGAGCCGCTTAGCAACCTGGTTTTGCTATGCCAGAACCAGGACAGAGCTGAACGAGGTGGAATACTATTACCCACGGGGCTTGAAGATATATGCC-AACGCCTTAGTCCTGAAGATCCCAATGTGGCAAAAACTAAGAACAACCTGgtgaggtgtaaggtaagggatgccaataaagaaggcaccgcatccgggtt Alignment from Spaln_aa2Genome GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG aatgccaaacagcaccaccactaggatctctctcttctctctgttctcagGTCCTTGGAAAATTT------GATGTGGCTGAGCCGCTTAGCAACCTGGTTTTGCTATGCCAGAACCAGGACAGAGCTGAACGAGGTGGAATACTATTACCCACGGGGCTTGAAGATATATGCCAACGCCTTAGTCCTGAAGATCCCAATGTGGCAAAAACTAAGAACAACCTGgtgaggtgtaaggtaagggatgccaataaagaaggcaccgcatccgggtt Alignment from Spaln_nt2Genome GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAG-GAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG aatgccaaacagcaccaccactaggatctctctcttctctctgttctcagGTCCTTGGAAAATTT------GATGTGGCTGAGCCGCTTAGCAACCTGGTTTTGCTATGCCAGAACCAGGACAGAGCTGAACGAGGTGGAATACTATTACCCACGGGGCTTGAAGATATATGCCA-ACGCCTTAGTCCTGAAGATCCCAATGTGGCAAAAACTAAGAACAACCTGgtgaggtgtaaggtaagggatgccaataaagaaggcaccgcatccgggtt Alignment from Pairagon GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAG-GAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG aatgccaaacagcaccaccactaggatctctctcttctctctgttctcagGTCCTTGGAAAATTT------GATGTGGCTGAGCCGCTTAGCAACCTGGTTTTGCTATGCCAGAACCAGGACAGAGCTGAACGAGGTGGAATACTATTACCCACGGGGCTTGAAGATATATGCCA-ACGCCTTAGTCCTGAAGATCCCAATGTGGCAAAAACTAAGAACAACCTGgtgaggtgtaaggtaagggatgccaataaagaaggcaccgcatccgggtt Alignment from Exonerate_protein2genome GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG aatgccaaacagcaccaccactaggatctctctcttctctctgttctcagGTCCTTGGAAAATTT------GATGTGGCTGAGCCGCTTAGCAACCTGGTTTTGCTATGCCAGAACCAGGACAGAGCTGAACGAGGTGGAATACTATTACCCACGGGGCTTGAAGATATATGCCAACGCCTTAGTCCTGAAGATCCCAATGTGGCAAAAACTAAGAACAACCTGgtgaggtgtaaggtaagggatgccaataaagaaggcaccgcatccgggtt Alignment from Exonerate_coding2genome AA---GAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAGGTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG AATGCCAAACAGCACCACCACTAGGATCTCTCTCTTCTCTCTGTTCTCAGGTCCTTGGAAAATTT------GATGTGGCTGAGCCGCTTAGCAACCTGGTTTTGCTATGCCAGAACCAGGACAGAGCTGAACGAGGTGGAATACTATTACCCACGGGGCTTGAAGATATATGCCAACGCCTTAGTCCTGAAGATCCCAATGTGGCAAAAACTAAGAACAACCTGgtgaggtgtaaggtaagggatgccaataaagaaggcaccgcatccgggtt Alignment from GeneWise --------------------------------------------------GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG AATGCCAAACAGCACCACCACTAGGATCTCTCTCTTCTCTCTGTTCTCAGGTCCTTGGAAAATTT------GATGTGGCTGAGCCGCTTAGCAACCTGGTTTTGCTATGCCAGAACCAGGACAGAGCTGAACGAGGTGGAATACTATTACCCACGGGGCTTGAAGATATATGCCAACGCCTTAGTCCTGAAGATCCCAATGTGGCAAAAACTAAGAACAACCTGgtgaggtgtaaggtaagggatgccaataaagaaggcaccgcatccgggtt #### Lipa_ID6938_5 --> 2 - 0 Original Alignment gtTTCATAGCTTTTTCACAGATGCCTGAG-TTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgatagaaatgtgctcaagctcaggtcgtctctttttattgaaattcaggtTTCATAGCTTTTTCGCAAATGCCTGAGCTTAGCCAAGAAGATCAAAATGTTTTTAGCAC-GTCCCCAGTATTGTCTCTCAATTTTGCTTCCAGCCCACTATTGCAATTAGGACACTTGCCTGATCCACTGCTCAAGgtgagcggcttgacattttgtacatttaatactcgattgtaagtgtctgt Alignment from CESAR gtTTCATAGCTTTTTCACAGATGCCTGAG-TTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgatagaaatgtgctcaagctcaggtcgtctctttttattgaaattcaggtTTCATAGCTTTTTCGCAAATGCCTGAGCTTAGCCAAGAAGATCAAAATGTTTTTAGCA-CGTCCCCAGTATTGTCTCTCAATTTTGCTTCCAGCCCACTATTGCAATTAGGACACTTGCCTGATCCACTGCTCAAGgtgagcggcttgacattttgtacatttaatactcgattgtaagtgtctgt Alignment from Spaln_aa2Genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgatagaaatgtgctcaagctcaggtcgtctctttttattgaaattcagGTTTCATAGCTTTTTCGCAAATGCCTGAGCTTAGCCAAGAAGATCAAAATGTTTTTAGCACGTCCCCAGTATTGTCTCTCAATTTTGCTTCCAGCCCACTATTGCAATTAGGACACTTGCCTGATCCACTGCTCAAGgtgagcggcttgacattttgtacatttaatactcgattgtaagtgtctgt Alignment from Spaln_nt2Genome GTTTCATAGCTTTTTCACAGATGCCTGAG-TTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgatagaaatgtgctcaagctcaggtcgtctctttttattgaaattcagGTTTCATAGCTTTTTCGCAAATGCCTGAGCTTAGCCAAGAAGATCAAAATGTTTTTAG-CACGTCCCCAGTATTGTCTCTCAATTTTGCTTCCAGCCCACTATTGCAATTAGGACACTTGCCTGATCCACTGCTCAAGgtgagcggcttgacattttgtacatttaatactcgattgtaagtgtctgt Alignment from Pairagon GTTTCATAGCTTTTTCACAGATGCCTGAG-TTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgatagaaatgtgctcaagctcaggtcgtctctttttattgaaattcagGTTTCATAGCTTTTTCGCAAATGCCTGAGCTTAGCCAAGAAGATCAAAATGTTTTTAG-CACGTCCCCAGTATTGTCTCTCAATTTTGCTTCCAGCCCACTATTGCAATTAGGACACTTGCCTGATCCACTGCTCAAGgtgagcggcttgacattttgtacatttaatactcgattgtaagtgtctgt Alignment from Exonerate_protein2genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgatagaaatgtgctcaagctcaggtcgtctctttttattgaaattcagGTTTCATAGCTTTTTCGCAAATGCCTGAGCTTAGCCAAGAAGATCAAAATGTTTTTAGCACGTCCCCAGTATTGTCTCTCAATTTTGCTTCCAGCCCACTATTGCAATTAGGACACTTGCCTGATCCACTGCTCAAGgtgagcggcttgacattttgtacatttaatactcgattgtaagtgtctgt Alignment from Exonerate_coding2genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgatagaaatgtgctcaagctcaggtcgtctctttttattgaaattcagGTTTCATAGCTTTTTCGCAAATGCCTGAGCTTAGCCAAGAAGATCAAAATGTTTTTAGCACGTCCCCAGTATTGTCTCTCAATTTTGCTTCCAGCCCACTATTGCAATTAGGACACTTGCCTGATCCACTGCTCAAGgtgagcggcttgacattttgtacatttaatactcgattgtaagtgtctgt Alignment from GeneWise GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgatagaaatgtgctcaagctcaggtcgtctctttttattgaaattcagGTTTCATAGCTTTTTCGCAAATGCCTGAGCTTAGCCAAGAAGATCAAAATGTTTTTAGCACGTCCCCAGTATTGTCTCTCAATTTTGCTTCCAGCCCACTATTGCAATTAGGACACTTGCCTGATCCACTGCTCAAGgtgagcggcttgacattttgtacatttaatactcgattgtaagtgtctgt #### Loxl4_ID8561_12 --> 2 - 0 Original Alignment gaGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAG-GGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcccaggcatttctgcctctgctttgtcttctttttctcccatagggGTACAACGTCGCTATGCATATGCTAATTTCGGAGAGCAACGGGGTTGCAGTAGGTTGCTGGGACACCTATC-GCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAG---GTTCCAGGGGACTACATCTTCCAGgtactgatcaggccaggacatacactccaggttttactgtacgttgattc Alignment from CESAR gaGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAG-GGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcccaggcatttctgcctctgctttgtcttctttttctcccatagggGTACAACGTCGCTATGCATATGCTAATTTCGGAGAGCAACGGGGTTGCAGTAGGTTGCTGGGACACCTATC-GCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAGGTT---CCAGGGGACTACATCTTCCAGgtactgatcaggccaggacatacactccaggttttactgtacgttgattc Alignment from Spaln_aa2Genome GAGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcccaggcatttctgcctctgctttgtcttctttttctcccatagGGGTACAACGTCGCTATGCATATGCTAATTTCGGAGAGCAACGGGGTTGCAGTAGGTTGCTGGGACACCTATCGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAGGTT---CCAGGGGACTACATCTTCCAGgtactgatcaggccaggacatacactccaggttttactgtacgttgattc Alignment from Spaln_nt2Genome GAGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAG-GGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcccaggcatttctgcctctgctttgtcttctttttctcccatagGGGTACAACGTCGCTATGCATATGCTAATTTCGGAGAGCAACGGGGTTGCAGTAGGTTGCTGGGACACCTATC-GCATGACAGTGATTGTCAGTGGGTGGATATCAAAGA---GGTTCCAGGGGACTACATCTTCCAGgtactgatcaggccaggacatacactccaggttttactgtacgttgattc Alignment from Pairagon GAGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAG-GGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcccaggcatttctgcctctgctttgtcttctttttctcccatagGGGTACAACGTCGCTATGCATATGCTAATTTCGGAGAGCAACGGGGTTGCAGTAGGTTGCTGGGACACCTATC-GCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAGGT---TCCAGGGGACTACATCTTCCAGgtactgatcaggccaggacatacactccaggttttactgtacgttgattc Alignment from Exonerate_protein2genome GAGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAG-GGAGTGGCTGTAGGCTGCTGGGACACCTAC--CGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcccaggcatttctgcctctgctttgtcttctttttctcccatagGGGTACAACGTCGCTATGCATATGCTAATTTCGGAGAGCAACGGGGTTGCAGTAGGTTGCTGGGACACCTATCG---CATGACAGTGATTGTCAGTGGGTGGATATCAAAGAGGTT---CCAGGGGACTACATCTTCCAGgtactgatcaggccaggacatacactccaggttttactgtacgttgattc Alignment from Exonerate_coding2genome aaaatgcccaggcatttctgcctctgctttgtcttctttttctcccataggggtacaacgtcgctatgcatatgctaatttcggagagcaacggggttgcagtaggttgctgggacacctatcgcatgacagtgattgtcagtgggtggatatcaaagaggttccaggggactacatcttccaggtactgatcaggccaggacatacactccaggttttactgtacgttgattc Alignment from GeneWise GAGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcccaggcatttctgcctctgctttgtcttctttttctcccatagGGGTACAACGTCGCTATGCATATGCTAATTTCGGAGAGCAACGGGGTTGCAGTAGGTTGCTGGGACACCTATCGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAGGTT---CCAGGGGACTACATCTTCCAGgtactgatcaggccaggacatacactccaggttttactgtacgttgattc #### Lpxn_ID3473_6 --> 0 - 0 Original Alignment GTGATCCATGCTCTG-GGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT gtcatctgtaatagaaagaggtaagaatgccctgtgtgtttgcatcacagGTGATCCACGCTCTGCGGGCAATCCTGGCACCCAGAGCACTTCGTCT-CACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGCAGCCTGGCCTACTGCTCCAAAGACTACCACCGCCTGTTCTCTCCACATTGTGCCTACTGTGCTACTCCCATCACAGATgtgagtgatgtcccatgccagtagtaaacacatattgtaattcttcccta Alignment from CESAR GTGATCCATGCTCTG-GGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT gtcatctgtaatagaaagaggtaagaatgccctgtgtgtttgcatcacagGTGATCCACGCTCTGCGGGCAATCCTGGCACCCAGAGCACTTCGTC-TCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGCAGCCTGGCCTACTGCTCCAAAGACTACCACCGCCTGTTCTCTCCACATTGTGCCTACTGTGCTACTCCCATCACAGATgtgagtgatgtcccatgccagtagtaaacacatattgtaattgtgctttg Alignment from Spaln_aa2Genome GTGATCCATGCTCTG-GGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT gtcatctgtaatagaaagaggtaagaatgccctgtgtgtttgcatcacagGTGATCCACGCTCTGcGGGCAATCCTGGCACCCAGAGCACTTCGTCTC-ACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGCAGCCTGGCCTACTGCTCCAAAGACTACCACCGCCTGTTCTCTCCACATTGTGCCTACTGTGCTACTCCCATCACAGATgtgagtgatgtcccatgccagtagtaaacacatattgtaattcttcccta Alignment from Spaln_nt2Genome GTGATCCATGCTCTG-GGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT gtcatctgtaatagaaagaggtaagaatgccctgtgtgtttgcatcacagGTGATCCACGCTCTGCGGGCAATCCTGGCACCCAGAGCACTTCGTCT-CACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGCAGCCTGGCCTACTGCTCCAAAGACTACCACCGCCTGTTCTCTCCACATTGTGCCTACTGTGCTACTCCCATCACAGATgtgagtgatgtcccatgccagtagtaaacacatattgtaattcttcccta Alignment from Pairagon GTGATCCATGCTCTG-GGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT gtcatctgtaatagaaagaggtaagaatgccctgtgtgtttgcatcacagGTGATCCACGCTCTGCGGGCAATCCTGGCACCCAGAGCACTTCGTCT-CACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGCAGCCTGGCCTACTGCTCCAAAGACTACCACCGCCTGTTCTCTCCACATTGTGCCTACTGTGCTACTCCCATCACAGATgtgagtgatgtcccatgccagtagtaaacacatattgtaattcttcccta Alignment from Exonerate_protein2genome GTGATCCATGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT gtcatctgtaatagaaagaggtaagaatgccctgtgtgtttgcatcacagGTGATCCACGCTCTGCGGGCAATCCTGGCACCCAGAGCACTTCGTCTCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGCAGCCTGGCCTACTGCTCCAAAGACTACCACCGCCTGTTCTCTCCACATTGTGCCTACTGTGCTACTCCCATCACAGATgtgagtgatgtcccatgccagtagtaaacacatattgtaattcttcccta Alignment from Exonerate_coding2genome GTGATCCATGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT gtcatctgtaatagaaagaggtaagaatgccctgtgtgtttgcatcacagGTGATCCACGCTCTGCGGGCAATCCTGGCACCCAGAGCACTTCGTCTCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGCAGCCTGGCCTACTGCTCCAAAGACTACCACCGCCTGTTCTCTCCACATTGTGCCTACTGTGCTACTCCCATCACAGATgtgagtgatgtcccatgccagtagtaaacacatattgtaattcttcccta Alignment from GeneWise GTGATCCATGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT gtcatctgtaatagaaagaggtaagaatgccctgtgtgtttgcatcacagGTGATCCACGCTCTGCGGGCAATCCTGGCACCCAGAGCACTTCGTCTCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGCAGCCTGGCCTACTGCTCCAAAGACTACCACCGCCTGTTCTCTCCACATTGTGCCTACTGTGCTACTCCCATCACAGATgtgagtgatgtcccatgccagtagtaaacacatattgtaattcttcccta #### Ltbp3_ID1254_6 --> 2 - 1 Original Alignment atATCAACGAATGTGCG-ATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTg gctgaatcagcatttcctgcctcaagtggatgtttatgcccctttcctagacATAAATGAATGTGTGCATGCCTGGGATGTGTCGTCATGGGGATTGTCTGACCAACC-CGGCTCTTATCACTGTGTCTGCCCACCTGGTCATAGCTTAGGTCCTTTCCGCAAACAGTGTATAggtagggtcaagaacaagtttggattagctaaaggggagcagacggggaga Alignment from CESAR atATCAACGAATGTGCG-ATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTg gctgaatcagcatttcctgcctcaagtggatgtttatgcccctttcctagacATAAATGAATGTGTGCATGCCTGGGATGTGTCGTCATGGGGATTGTCTGACCA-ACCCGGCTCTTATCACTGTGTCTGCCCACCTGGTCATAGCTTAGGTCCTTTCCGCAAACAGTGTATAggtagggtcaagaacaagtttggattagctaaaggggagcagacggggaga Alignment from Spaln_aa2Genome ATATCAACGAATGTGCG-ATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG gctgaatcagcatttcctgcctcaagtggatgtttatgcccctttcctagACATAAATGAATGTGTGcATGCCTGGGATGTGTCGTCATGGGGATTGTCTGACCAA-CCCGGCTCTTATCACTGTGTCTGCCCACCTGGTCATAGCTTAGGTCCTTTCCGCAAACAGTGTATAGgtagggtcaagaacaagtttggattagctaaaggggagcagacggggaga Alignment from Spaln_nt2Genome ATATCAACGAATGTGCG-ATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG gctgaatcagcatttcctgcctcaagtggatgtttatgcccctttcctagACATAAATGAATGTGTGCATGCCTGGGATGTGTCGTCATGGGGATTGTCTGACCAACCC-GGCTCTTATCACTGTGTCTGCCCACCTGGTCATAGCTTAGGTCCTTTCCGCAAACAGTGTATAGgtagggtcaagaacaagtttggattagctaaaggggagcagacggggaga Alignment from Pairagon ATATCAACGAATGTGCG-ATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG gctgaatcagcatttcctgcctcaagtggatgtttatgcccctttcctagACATAAATGAATGTGTGCATGCCTGGGATGTGTCGTCATGGGGATTGTCTGACCAACCC-GGCTCTTATCACTGTGTCTGCCCACCTGGTCATAGCTTAGGTCCTTTCCGCAAACAGTGTATAGgtagggtcaagaacaagtttggattagctaaaggggagcagacggggaga Alignment from Exonerate_protein2genome ATATCAACGAATGT-GCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTC--AACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG gctgaatcagcatttcctgcctcaagtggatgtttatgcccctttcctagACATAAATGAATGTGTGCATGCCTGGGATGTGTCGTCATGGGGATTGTCTGAC---CAACCCGGCTCTTATCACTGTGTCTGCCCACCTGGTCATAGCTTAGGTCCTTTCCGCAAACAGTGTATAGgtagggtcaagaacaagtttggattagctaaaggggagcagacggggaga Alignment from Exonerate_coding2genome ATATCAACGAATGT-GCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTC--AACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG gctgaatcagcatttcctgcctcaagtggatgtttatgcccctttcctagACATAAATGAATGTGTGCATGCCTGGGATGTGTCGTCATGGGGATTGTCTGAC---CAACCCGGCTCTTATCACTGTGTCTGCCCACCTGGTCATAGCTTAGGTCCTTTCCGCAAACAGTGTATAGgtagggtcaagaacaagtttggattagctaaaggggagcagacggggaga Alignment from GeneWise ATATCAACGAATGT-GCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG gctgaatcagcatttcctgcctcaagtggatgtttatgcccctttcctagACATAAATGAATGTGTGCATGCCTGGGATGTGTCGTCATGGGGATTGTCTGACCAACCCGGC-TCTTATCACTGTGTCTGCCCACCTGGTCATAGCTTAGGTCCTTTCCGCAAACAGTGTATAGgtagggtcaagaacaagtttggattagctaaaggggagcagacggggaga #### Ltbp3_ID1255_7 --> 2 - 1 Original Alignment ccGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACAC-CAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAg agcacagtaagattgcctctccacactgtgacaccattctctccctacagccGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTGAACACCCAGTGCCAGCACCCTTTAACTACACGTTTGA-CCATCAGCTTTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTGTCCAGCAGATGGCATGggtaagattgtagagtctcgggattgcattgttgtacagcctgtcttcctt Alignment from CESAR ccGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACAC-CAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAg agcacagtaagattgcctctccacactgtgacaccattctctccctacagccGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTGAACACCCAGTGCCAGCACCCTTTAACTACACGTTTGACC-ATCAGCTTTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTGTCCAGCAGATGGCATGggtaagattgtagagtctcgggattgcattgttgtacctgcttccttcctc Alignment from Spaln_aa2Genome CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAG agcacagtaagattgcctctccacactgtgacaccattctctccctacagCCGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTGAACACCCAGTGCCAGCACCCTTTAACTACACGTTTGACCATCAGCTTTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTGTCCAGCAGATGGCATGGgtaagattgtagagtctcgggattgcattgttgtacagcctgtcttcctt Alignment from Spaln_nt2Genome CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACAC-CAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAG agcacagtaagattgcctctccacactgtgacaccattctctccctacagCCGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTGAACACCCAGTGCCAGCACCCTTTAACTACACGTTTGA-CCATCAGCTTTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTGTCCAGCAGATGGCATGGgtaagattgtagagtctcgggattgcattgttgtacagcctgtcttcctt Alignment from Pairagon CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACA-CCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGG------------------------------------------------------- agcacagtaagattgcctctccacactgtgacaccattctctccctacagCCGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTGAACACCCAGTGCCAGCACCCTTTAACTACACGTTTGA-CCATCAGCTTTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTGTCCAGCAGATGGCATGGGTAAGATTGTAGAGTCTCGGGATTGCATTGTTGTACAGCCTGTCTTCCTT Alignment from Exonerate_protein2genome CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAG agcacagtaagattgcctctccacactgtgacaccattctctccctacagCCGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTGAACACCCAGTGCCAGCACCCTTTAACTACACGTTTGACCATCAGCTTTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTGTCCAGCAGATGGCATGGgtaagattgtagagtctcgggattgcattgttgtacagcctgtcttcctt Alignment from Exonerate_coding2genome CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAG agcacagtaagattgcctctccacactgtgacaccattctctccctacagCCGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTGAACACCCAGTGCCAGCACCCTTTAACTACACGTTTGACCATCAGCTTTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTGTCCAGCAGATGGCATGGgtaagattgtagagtctcgggattgcattgttgtacagcctgtcttcctt Alignment from GeneWise CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGT------------------------------------------------------ agcacagtaagattgcctctccacactgtgacaccattctctccctacagCCGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTGAACACCCAGTGCCAGCACCCTTTAACTACACGTTTGACCATCAGCTTTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTGTCCAGCAGATGGCATGGGTAAGATTGTAGAGTCTCGGGATTGCATTGTTGTACAGCCTGTCTTCCTT #### Ltbp3_ID1256_8 --> 2 - 1 Original Alignment caGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTACCATATCCTCACCTCCCAC-CAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAg tgtagagtctcgggattgcattgttgtacctgcttccttcctctccccagctTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCATACGCTCACCTCTCACCCAAATGCTGACTATCCACGGAGAAAGTGGCTTCTCTCTAT-TGTGCACCCTGACGGGCCACCCAAACCTCAGCAGCTTCCTGAAGGTCCAAGTAGGGCACCACCCCTAGAGGACACGGAGGAAGAGAGAggtaaggctacaggccataatcctatagtggaaacgataaagcgggaccct Alignment from CESAR caGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTACCATATCCTCACCTCCCAC-CAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAg tgtagagtctcgggattgcattgttgtacctgcttccttcctctccccagctTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCATACGCTCACCTCTCACCCAAATGCTGACTATCCACGGAGAAAGTGGCTTCTCTCTA-TTGTGCACCCTGACGGGCCACCCAAACCTCAGCAGCTTCCTGAAGGTCCAAGTAGGGCACCACCCCTAGAGGACACGGAGGAAGAGAGAggtaaggctacaggccataatcctatagtggaaacgataaagcgggaccct Alignment from Spaln_aa2Genome CAGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTACCATATCCTCACCTCCCACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAG tgtagagtctcgggattgcattgttgtacctgcttccttcctctccccagCTTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCATACGCTCACCTCTCACCCAAATGCTGACTATCCACGGAGAAAGTGGCTTCTCTCTATTGTGCACCCTGACGGGCCACCCAAACCTCAGCAGCTTCCTGAAGGTCCAAGTAGGGCACCACCCCTAGAGGACACGGAGGAAGAGAGAGgtaaggctacaggccataatcctatagtggaaacgataaagcgggaccct Alignment from Spaln_nt2Genome CAGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTACCATATCCTCACCTCCCACC-AGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAG tgtagagtctcgggattgcattgttgtacctgcttccttcctctccccagCTTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCATACGCTCACCTCTCACCCAAATGCTGACTATCCACGGAGAAAGTGGCTTCTCTCTATT-GTGCACCCTGACGGGCCACCCAAACCTCAGCAGCTTCCTGAAGGTCCAAGTAGGGCACCACCCCTAGAGGACACGGAGGAAGAGAGAGgtaaggctacaggccataatcctatagtggaaacgataaagcgggaccct Alignment from Pairagon -----------------------------------------------CAGCAGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTACCATATCCTCACCTCCCA-CCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAG TGTAGAGTCTCGGGATTGCATTGTTGTACCTGCTTCCTTCCTCTCCCCAGCTTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCATACGCTCACCTCTCACCCAAATGCTGACTATCCACGGAGAAAGTGGCTTCTCTCTATT-GTGCACCCTGACGGGCCACCCAAACCTCAGCAGCTTCCTGAAGGTCCAAGTAGGGCACCACCCCTAGAGGACACGGAGGAAGAGAGAGgtaaggctacaggccataatcctatagtggaaacgataaagcgggaccct Alignment from Exonerate_protein2genome CAGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTACCATATCCTCACCTCCCACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAG tgtagagtctcgggattgcattgttgtacctgcttccttcctctccccagCTTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCATACGCTCACCTCTCACCCAAATGCTGACTATCCACGGAGAAAGTGGCTTCTCTCTATTGTGCACCCTGACGGGCCACCCAAACCTCAGCAGCTTCCTGAAGGTCCAAGTAGGGCACCACCCCTAGAGGACACGGAGGAAGAGAGAGgtaaggctacaggccataatcctatagtggaaacgataaagcgggaccct Alignment from Exonerate_coding2genome CAGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTACCATATCCTCACCTCCCACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAG tgtagagtctcgggattgcattgttgtacctgcttccttcctctccccagCTTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCATACGCTCACCTCTCACCCAAATGCTGACTATCCACGGAGAAAGTGGCTTCTCTCTATTGTGCACCCTGACGGGCCACCCAAACCTCAGCAGCTTCCTGAAGGTCCAAGTAGGGCACCACCCCTAGAGGACACGGAGGAAGAGAGAGgtaaggctacaggccataatcctatagtggaaacgataaagcgggaccct Alignment from GeneWise ----------------------------------------------ACAGCAGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTACCATATCCTCACCTCCCACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAG TGTAGAGTCTCGGGATTGCATTGTTGTACCTGCTTCCTTCCTCTCCCCAGCTTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCATACGCTCACCTCTCACCCAAATGCTGACTATCCACGGAGAAAGTGGCTTCTCTCTATTGTGCACCCTGACGGGCCACCCAAACCTCAGCAGCTTCCTGAAGGTCCAAGTAGGGCACCACCCCTAGAGGACACGGAGGAAGAGAGAGgtaaggctacaggccataatcctatagtggaaacgataaagcgggaccct #### Ltbp3_ID1258_10 --> 0 - 1 Original Alignment CCAGTGAGTGAGGAGCGATCG-GTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAg tatgacagcttgaactaccaacatgaggtaagctcttggtccacttccagCCAGTGAGTGAGGAGCGATCTCGTGCAACAGAGCCATCCTACCACTGTTACCTCACCTT-TCGACCTTTCCTGggtaaggtggttggaggggggcaaatcataccaacaggggtaagcctacct Alignment from CESAR CCAGTGAGTGAGGAGCGATCG-GTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAg tatgacagcttgaactaccaacatgaggtaagctcttggtccacttccagCCAGTGAGTGAGGAGCGATCTCGTGCAACAGAGCCATCCTACCACTGTTACCTCACCT-TTCGACCTTTCCTGggtaaggtggttggaggggggcaaatcataccaacaggggtaagcctacct Alignment from Spaln_aa2Genome CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG tatgacagcttgaactaccaacatgaggtaagctcttggtccacttccagCCAGTGAGTGAGGAGCGATCTCGTGCAACAGAGCCATCCTACCACTGTTACCTCACCTTTCGACCTTTCCTGGgtaaggtggttggaggggggcaaatcataccaacaggggtaagcctacct Alignment from Spaln_nt2Genome CCAGTGAGTGAGGAGCGATCG-GTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG tatgacagcttgaactaccaacatgaggtaagctcttggtccacttccagCCAGTGAGTGAGGAGCGATCTCGTGCAACAGAGCCATCCTACCACTGTTACCTCA-CCTTTCGACCTTTCCTGGgtaaggtggttggaggggggcaaatcataccaacaggggtaagcctacct Alignment from Pairagon CCAGTGAGTGAGGAGCGATC-GGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG tatgacagcttgaactaccaacatgaggtaagctcttggtccacttccagCCAGTGAGTGAGGAGCGATCTCGTGCAACAGAGCCATCCTACCACTGTTACCTCA-CCTTTCGACCTTTCCTGGgtaaggtggttggaggggggcaaatcataccaacaggggtaagcctacct Alignment from Exonerate_protein2genome CCAGTGAGTGAGGAGCGATCG-GTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCA tatgacagcttgaactaccaacatgaggtaagctcttggtccacttccagCCAGTGAGTGAGGAGCGATCTCGTGCAACAGAGCCATCCTACCACTGTTACCTCACCTTTCGACCTTTCCTGGgtaaggtggttggaggggggcaaatcataccaacaggggtaagcctacct Alignment from Exonerate_coding2genome tatgacagcttgaactaccaacatgaggtaagctcttggtccacttccagccagtgagtgaggagcgatctcgtgcaacagagccatcctaccactgttacctcacctttcgacctttcctgggtaaggtggttggaggggggcaaatcataccaacaggggtaagcctacct Alignment from GeneWise GAGTGACCATG--- tatgacagcttgaactaccaacatgaggtaagctcttggtccacttccagccagtgagtgaggagcgatctcgtgcaacagagccatcctaccactgttacctcacctttcgacctttcctgggtaaggtggttggaggggggcaaatcataccaacagGGGTAAGCCTACCT #### Ltbp3_ID1272_24 --> 2 - 1 Original Alignment agCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGAT-GACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCg ggTCCCAGTGC ttagtagcatattcctctggtttctcgacaacaatatttatttttttcagagCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGCCCCTAGTGGGACCCGCCCTCACTTTTGATCGACTGTTGTTGCCGTCAAGGCCGTGGCTGGGGG---CAGT-CAGACCATGCCCCCCACGTGGTACTggtgaggatttttgaaggaacccggtgatgtttatttcagggTCCCAGTGC Alignment from CESAR agCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGAT-GACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCg ggTCCCAGTGC ttagtagcatattcctctggtttctcgacaacaatatttatttttttcagagCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGCCCCTAGTGGGACCCGCCCTCACTTTTGATCGACTGTTGTTGCCGTCAAGGCCGTGGCTGGGGG---CAG-TCAGACCATGCCCCCCACGTGGTACTggtgaggatttttgaaggattttaattctgttccctccagggTCCCAGTGC Alignment from Spaln_aa2Genome AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGAT-GACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCCAGTGC ttagtagcatattcctctggtttctcgacaacaatatttatttttttcagAGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGCCCCTAGTGGGACCCGCCCTCACTTTTGATcGACTGTTGTTGCCGTCAAGGCCGTGGCTGGGGGCAGTC----AGACCATGCCCCCCACGTGGTACTGgtgaggatttttgaaggaacccggtgatgtttatttcagGGTCCCAGTGC Alignment from Spaln_nt2Genome AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGAT-GACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCCAGTGC ttagtagcatattcctctggtttctcgacaacaatatttatttttttcagAGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGCCCCTAGTGGGACCCGCCCTCACTTTTGATCGACTGTTGTTGCCGTCAAGGCCGTGGCTGGGG---GCAGT-CAGACCATGCCCCCCACGTGGTACTGgtgaggatttttgaaggaacccggtgatgtttatttcagGGTCCCAGTGC Alignment from Pairagon AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGAT-GACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCCAGTGC ttagtagcatattcctctggtttctcgacaacaatatttatttttttcagAGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGCCCCTAGTGGGACCCGCCCTCACTTTTGATCGACTGTTGTTGCCGTCAAGGCCGTGGCTGGGG---GCAGT-CAGACCATGCCCCCCACGTGGTACTGgtgaggatttttgaaggaacccggtgatgtttatttcagGGTCCCAGTGC Alignment from Exonerate_protein2genome AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCCAGTGC ttagtagcatattcctctggtttctcgacaacaatatttatttttttcagAGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGCCCCTAGTGGGACCCGCCCTCACTTTTGATCGACTGTTGTTG---CCGTCAAGGCCGTGGCTGGGGGCAGTCAGACCATGCCCCCCACGTGGTACTGgtgaggatttttgaaggaacccggtgatgtttatttcagGGTCCCAGTGC Alignment from Exonerate_coding2genome ttagtagcatattcctctggtttctcgacaacaatatttatttttttcagagcatgccccagaaagatgtgaagtatgctggggacagcaaggagaagatggtatgtgtatggggcccctagtgggacccgccctcacttttgatcgactgttgttgccgtcaaggccgtggctgggggcagtcagaccatgccccccacgtggtactggtgaggatttttgaaggaacccggtgatgtttatttcagggtcccagtgc Alignment from GeneWise AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCCAGTGC ttagtagcatattcctctggtttctcgacaacaatatttatttttttcagAGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGCCCCTAGTGGGACCCGCCCTCACTTTTGATCGACTGTTGTTG---CCGTCAAGGCCGTGGCTGGGGGCAGTCAGACCATGCCCCCCACGTGGTACTGgtgaggatttttgaaggaacccggtgatgtttatttcagGGTCCCAGTGC #### Ltbp3_ID1274_26 --> 2 - 1 Original Alignment acGAAGACAGCTCAGAGGAGGATTCAGAT-GAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGg gtgattgtatgcaaagtctactataggtatctgtggcctttgctttgcagatGAAGACAGCTCAGAGGAAGATTCAGATCGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGCCCCG-TGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCCATTGGATGCCTCCCGTGCCCGACGTGTAggtaagtatgacatcagggggcggatgggggtggaagacatcgtgaactta Alignment from CESAR acGAAGACAGCTCAGAGGAGGATTCAGAT-GAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGg gtgattgtatgcaaagtctactataggtatctgtggcctttgctttgcagatGAAGACAGCTCAGAGGAAGATTCAGATCGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGCCCC-GTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCCATTGGATGCCTCCCGTGCCCGACGTGTAggtaagtatgacatcagggggcggatgggggtggaagacatcgtgaactta Alignment from Spaln_aa2Genome ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG gtgattgtatgcaaagtctactataggtatctgtggcctttgctttgcagATGAAGACAGCTCAGAGGAAGATTCAGATCGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGCCCCGTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCCATTGGATGCCTCCCGTGCCCGACGTGTAGgtaagtatgacatcagggggcggatgggggtggaagacatcgtgaactta Alignment from Spaln_nt2Genome ACGAAGACAGCTCAGAGGAGGATTCAGAT-GAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG gtgattgtatgcaaagtctactataggtatctgtggcctttgctttgcagATGAAGACAGCTCAGAGGAAGATTCAGATCGAGTGCCGTTGTGTCATTGGGCACTGTGCACCAC-GCCCCGTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCCATTGGATGCCTCCCGTGCCCGACGTGTAGgtaagtatgacatcagggggcggatgggggtggaagacatcgtgaactta Alignment from Pairagon ACGAAGACAGCTCAGAGGAGGATTCAGAT-GAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG gtgattgtatgcaaagtctactataggtatctgtggcctttgctttgcagATGAAGACAGCTCAGAGGAAGATTCAGATCGAGTGCCGTTGTGTCATTGGGCACTGTGCACCAC-GCCCCGTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCCATTGGATGCCTCCCGTGCCCGACGTGTAGgtaagtatgacatcagggggcggatgggggtggaagacatcgtgaactta Alignment from Exonerate_protein2genome ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG gtgattgtatgcaaagtctactataggtatctgtggcctttgctttgcagATGAAGACAGCTCAGAGGAAGATTCAGATCGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGCCCCGTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCCATTGGATGCCTCCCGTGCCCGACGTGTAGgtaagtatgacatcagggggcggatgggggtggaagacatcgtgaactta Alignment from Exonerate_coding2genome gtgattgtatgcaaagtctactataggtatctgtggcctttgctttgcagatgaagacagctcagaggaagattcagatcgagtgccgttgtgtcattgggcactgtgcaccacgccccgtggggctgtatgtgagtgtcctggcggctttccattggatgcctcccgtgcccgacgtgtaggtaagtatgacatcagggggcggatgggggtggaagacatcgtgaactta Alignment from GeneWise ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG gtgattgtatgcaaagtctactataggtatctgtggcctttgctttgcagATGAAGACAGCTCAGAGGAAGATTCAGATCGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGCCCCGTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCCATTGGATGCCTCCCGTGCCCGACGTGTAGgtaagtatgacatcagggggcggatgggggtggaagacatcgtgaactta #### Macrod1_ID2051_6 --> 2 - 0 Original Alignment atGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGC-TGCTACTTGAGCAGC---CTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG ggaagacatcattggcactcccctctttcgcccgtgtctcttcttgaaagatGTCATT------GTGGGGCTCATTGCAGTAGGG------------AGTGAGGCGGCTGAATTCCACAGCCTGTTATCTGAGCAGTCCTTTAGACCTACTGCTAGAAC-CAGATTATGTCCAGTTgtgagttggttgaatcaatggcaaaagctggcatttaaacactagcagaa Alignment from CESAR atGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGC-TGCTACTTGAGCAGC---CTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG ggaagacatcattggcactcccctctttcgcccgtgtctcttcttgaaagatGTCATT------GTGGGGCTCATTGCAGTAGGG------------AGTGAGGCGGCTGAATTCCACAGCCTGTTATCTGAGCAGTCCTTTAGACCTACTGCTAGAA-CCAGATTATGTCCAGTTgtgagttggttgaatcaatggcaaaagctggcatttaaacactagcagaa Alignment from Spaln_aa2Genome ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTG---AGCAGCCTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG ggaagacatcattggcactcccctctttcgcccgtgtctcttcttgaaagATGTCATT------GTGGGGCTCATTGCAGTAGGG------------AGTGAGGCGGCTGAATTCCACAGCCTGTTATCTGAGCAGTCCTTTAGACCTACTGCTAGAACCAGATTATGTCCAGTTgtgagttggttgaatcaatggcaaaagctggcatttaaacactagcagaa Alignment from Spaln_nt2Genome ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGC-TGCTACTTGAGCAGCC---TGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG ggaagacatcattggcactcccctctttcgcccgtgtctcttcttgaaagATGTCAT------TGTGGGGCTCATTGCAGTAGG------------GAGTGAGGCGGCTGAATTCCACAGCCTGTTATCTGAGCAGTCCTTTAGACCTACTGCTAGAAC-CAGATTATGTCCAGTTgtgagttggttgaatcaatggcaaaagctggcatttaaacactagcagaa Alignment from Pairagon ggaagacatcattggcactcccctctttcgcccgtgtctcttcttgaaagatgtcattgtggggctcattgcagtagggagtgaggcggctgaattccacagcctgttatctgagcagtcctttagacctactgctagaaccagattatgtccagttgtgagttggttgaatcaatggcaaaagctggcatttaaacactagcagaa Alignment from Exonerate_protein2genome ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGC---CTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGT ggaagacatcattggcactcccctctttcgcccGTGTCTCTTCTTGAAAGATGTCATTGTGGGGCTCATTGCAGTAGGGAGTGAGGCGGCTGAATTCCACAGCCTGTTATCTGAGCAGTCCTTTAGACCTACTGCTAGAACCAGATTATGTCCAGTTgtgagttggttgaatcaatggcaaaagctggcatttaaacactagcagaa Alignment from Exonerate_coding2genome ggaagacatcattggcactcccctctttcgcccgtgtctcttcttgaaagatgtcattgtggggctcattgcagtagggagtgaggcggctgaattccacagcctgttatctgagcagtcctttagacctactgctagaaccagattatgtccagttgtgagttggttgaatcaatggcaaaagctggcatttaaacactagcagaa Alignment from GeneWise ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTC-CGCAGCTGCTACTTGAGCAGC---CTGGACCTGCTGCTGGAGCACCGGCTGCGCTC ggaagacatcattggcactcccctctttcgcccgtgtctcttcttgaaagATGTCATT------GTGGGGCTCATTGCAGTAGGG------------AGTGAGGCGGCTGAATTCCACAGCCTGTTATCTGAGCAGTCCTTTAGACCTACTGCTAGAACCAGATTATGTCCAgttgtgagttggttgaatcaatggcaaaagctggcatttaaacactagcagaa #### Macrod1_ID2053_8 --> 2 - 0 Original Alignment gcTACCCCAATGAGGAGGCTGCA-GAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG aatggggtggggcccaatatgcatttacaatgtttttctttcccccctaggcTACCCCAATGAGGAGGCTGCACGAGGTAGTGCTGGTTTCATTGCAGGAATGGT-GGAGCAACACAAGGACAAGgtcgggccaaattcacattacatgacgggagcttggttggatgaagtggt Alignment from CESAR gcTACCCCAATGAGGAGGCTGCA-GAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG aatggggtggggcccaatatgcatttacaatgtttttctttcccccctaggcTACCCCAATGAGGAGGCTGCACGAGGTAGTGCTGGTTTCATTGCAGGAAT-GGTGGAGCAACACAAGGACAAGgtcgggccaaattcacattacatgacgggagcttggttggatgaagtggt Alignment from Spaln_aa2Genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG aatggggtggggcccaatatgcatttacaatgtttttctttcccccctagGCTACCCCAATGAGGAGGCTGCACGAGGTAGTGCTGGTTTCATTGCAGGAATGGTGGAGCAACACAAGGACAAGgtcgggccaaattcacattacatgacgggagcttggttggatgaagtggt Alignment from Spaln_nt2Genome GCTACCCCAATGAGGAGGCTGCA-GAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG aatggggtggggcccaatatgcatttacaatgtttttctttcccccctagGCTACCCCAATGAGGAGGCTGCACGAGGTAGTGCTGGTTTCATTGCAGGAATGG-TGGAGCAACACAAGGACAAGgtcgggccaaattcacattacatgacgggagcttggttggatgaagtggt Alignment from Pairagon GCTACCCCAATGAGGAGGCTGCA-GAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG aatggggtggggcccaatatgcatttacaatgtttttctttcccccctagGCTACCCCAATGAGGAGGCTGCACGAGGTAGTGCTGGTTTCATTGCAGGAATGG-TGGAGCAACACAAGGACAAGgtcgggccaaattcacattacatgacgggagcttggttggatgaagtggt Alignment from Exonerate_protein2genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG aatggggtggggcccaatatgcatttacaatgtttttctttcccccctagGCTACCCCAATGAGGAGGCTGCACGAGGTAGTGCTGGTTTCATTGCAGGAATGGTGGAGCAACACAAGGACAAGgtcgggccaaattcacattacatgacgggagcttggttggatgaagtggt Alignment from Exonerate_coding2genome aatggggtggggcccaatatgcatttacaatgtttttctttcccccctaggctaccccaatgaggaggctgcacgaggtagtgctggtttcattgcaggaatggtggagcaacacaaggacaaggtcgggccaaattcacattacatgacgggagcttggttggatgaagtggt Alignment from GeneWise -------------CCGTGCATCTCCACAGGCGTGTTT------------GGCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG AATGGGGTGGGGCCCAATATGCATTTACAATGTTTTTCTTTCCCCCCTAGGCTACCCCAATGAGGAGGCTGCACGAGGTAGTGCTGGTTTCATTGCAGGAATGGTGGAGCAACACAAGGACAAGgtcgggccaaattcacattacatgacgggagcttggttggatgaagtggt #### Macrod1_ID2054_9 --> 0 - 1 Original Alignment GTGGATCGGCTC-ATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAg ttcacctgttatgttccaagtttaagtattcatctttgttttgttttcagGTGGATCGGCTCCATTATCTGTGTGTGCTTGGAGAAAGAAGAGGGCA-TTACAGGGAACATCTTCCCCATTATTTCCCAGTAggtaagcacaagtggctcctatgcttgaagggaccctacggcccttgttcc Alignment from CESAR GTGGATCGGCTC-ATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAg ttcacctgttatgttccaagtttaagtattcatctttgttttgttttcagGTGGATCGGCTCCATTATCTGTGTGTGCTTGGAGAAAGAAGAGGGCA-TTACAGGGAACATCTTCCCCATTATTTCCCAGTAggtaagcacaagtggctcctatgcttgaagggacccctgttcactcctcct Alignment from Spaln_aa2Genome GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAG ttcacctgttatgttccaagtttaagtattcatctttgttttgttttcagGTGGATCGGCTCCATTATCTGTGTGTGCTTGGAGAAAGAAGAGGGCATTACAGGGAACATCTTCCCCATTATTTCCCAGTAGgtaagcacaagtggctcctatgcttgaagggaccctacggcccttgttcc Alignment from Spaln_nt2Genome GTGGATCGGCTC-ATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAGCC ttcacctgttatgttccaagtttaagtattcatctttgttttgttttcagGTGGATCGGCTCCATTATCTGTGTGTGCTTGGAGAAAGAAGAGGGCA-TTACAGGGAACATCTTCCCCATTATTTCCCAGTAGGTaagcacaagtggctcctatgcttgaagggaccctacggcccttgttcc Alignment from Pairagon GTGGATCGGCT-CATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAGCC ttcacctgttatgttccaagtttaagtattcatctttgttttgttttcagGTGGATCGGCTCCATTATCTGTGTGTGCTTGGAGAAAGAAGAGGGCA-TTACAGGGAACATCTTCCCCATTATTTCCCAGTAGGTaagcacaagtggctcctatgcttgaagggaccctacggcccttgttcc Alignment from Exonerate_protein2genome GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTA ttcacctgttatgttccaagtttaagtattcatctttgttttgttttcagGTGGATCGGCTCCATTATCTGTGTGTGCTTGGAGAAAGAAGAGGGCATTACAGGGAACATCTTCCCCATTATTTCCCAGTAggtaagcacaagtggctcctatgcttgaagggaccctacggcccttgttcc Alignment from Exonerate_coding2genome ttcacctgttatgttccaagtttaagtattcatctttgttttgttttcaggtggatcggctccattatctgtgtgtgcttggagaaagaagagggcattacagggaacatcttccccattatttcccagtaggtaagcacaagtggctcctatgcttgaagggaccctacggcccttgttcc Alignment from GeneWise GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAGCC ttcacctgttatgttccaagtttaagtattcatctttgttttgttttcagGTGGATCGGCTCCATTATCTGTGTGTGCTTGGAGAAAGAAGAGGGCATTACAGGGAACATCTTCCCCATTATTTCCCAGTAGGTaagcacaagtggctcctatgcttgaagggaccctacggcccttgttcc #### Map3k11_ID1202_3 --> 1 - 1 Original Alignment cTTTGGAGTGCTGCTG-TGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTg taagggcagataattccacctggatcaattccattttgccttcgaaccagtTTTGGAGTGTTATTGCTGGGAGCTGCTGACTGGCAAAGTGCCATACCGAGGCATTG-CTGTCTCGCAGTGGTTTATGGTGTGGCTGTAAATAAATTAACATTACCTATTCCATCTACTTGTCCTGAGCCCTTCGCACAACTAATGGCTggtgagtcagataagttcacatggagcagaagtgcaggccctttggtgcga Alignment from CESAR cTTTGGAGTGCTGCTG-TGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTg taagggcagataattccacctggatcaattccattttgccttcgaaccagtTTTGGAGTGTTATTGCTGGGAGCTGCTGACTGGCAAAGTGCCATACCGAGGCATT-GCTGTCTCGCAGTGGTTTATGGTGTGGCTGTAAATAAATTAACATTACCTATTCCATCTACTTGTCCTGAGCCCTTCGCACAACTAATGGCTggtgagtcagataagttcacatggagcagaagtgcaggccctttggtgcga Alignment from Spaln_aa2Genome CTTTGGAGTGCTGCTG-TGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTG taagggcagataattccacctggatcaattccattttgccttcgaaccagTTTTGGAGTGTTATTGcTGGGAGCTGCTGACTGGCAAAGTGCCATACCGAGGCATTGC-TGTCTCGCAGTGGTTTATGGTGTGGCTGTAAATAAATTAACATTACCTATTCCATCTACTTGTCCTGAGCCCTTCGCACAACTAATGGCTGgtgagtcagataagttcacatggagcagaagtgcaggccctttggtgcga Alignment from Spaln_nt2Genome CTTTGGAGTGCTGCTG-TGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTG taagggcagataattccacctggatcaattccattttgccttcgaaccagTTTTGGAGTGTTATTGCTGGGAGCTGCTGACTGGCAAAGTGCCATACCGAGGCATTG-CTGTCTCGCAGTGGTTTATGGTGTGGCTGTAAATAAATTAACATTACCTATTCCATCTACTTGTCCTGAGCCCTTCGCACAACTAATGGCTGgtgagtcagataagttcacatggagcagaagtgcaggccctttggtgcga Alignment from Pairagon CTTTGGAGTGCTGCTG-TGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTG taagggcagataattccacctggatcaattccattttgccttcgaaccagTTTTGGAGTGTTATTGCTGGGAGCTGCTGACTGGCAAAGTGCCATACCGAGGCATTG-CTGTCTCGCAGTGGTTTATGGTGTGGCTGTAAATAAATTAACATTACCTATTCCATCTACTTGTCCTGAGCCCTTCGCACAACTAATGGCTGgtgagtcagataagttcacatggagcagaagtgcaggccctttggtgcga Alignment from Exonerate_protein2genome CTTTGGAGTGCTGCTG-TGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATC--GACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTG taagggcagataattccacctggatcaattccattttgccttcgaaccagTTTTGGAGTGTTATTGCTGGGAGCTGCTGACTGGCAAAGTGCCATACCGAGGCATTGC---TGTCTCGCAGTGGTTTATGGTGTGGCTGTAAATAAATTAACATTACCTATTCCATCTACTTGTCCTGAGCCCTTCGCACAACTAATGGCTGgtgagtcagataagttcacatggagcagaagtgcaggccctttggtgcga Alignment from Exonerate_coding2genome CTTTGGAGTGCTGCTG-TGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATC--GACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTG taagggcagataattccacctggatcaattccattttgccttcgaaccagTTTTGGAGTGTTATTGCTGGGAGCTGCTGACTGGCAAAGTGCCATACCGAGGCATTGC---TGTCTCGCAGTGGTTTATGGTGTGGCTGTAAATAAATTAACATTACCTATTCCATCTACTTGTCCTGAGCCCTTCGCACAACTAATGGCTGgtgagtcagataagttcacatggagcagaagtgcaggccctttggtgcga Alignment from GeneWise CTTTGGAGTGCTG-CTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTG taagggcagataattccacctggatcaattccattttgccttcgaaccagTTTTGGAGTGTTATTGCTGGGAGCTGCTGACTGGCAAAGTGCCATACCGAGGCATTGC-TGTCTCGCAGTGGTTTATGGTGTGGCTGTAAATAAATTAACATTACCTATTCCATCTACTTGTCCTGAGCCCTTCGCACAACTAATGGCTGgtgagtcagataagttcacatggagcagaagtgcaggccctttggtgcga #### Map3k11_ID1204_5 --> 0 - 1 Original Alignment GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGT-GAGCAGCGGTCCCAGGCGGAGCAGCTGCGA------CGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGg ttctacattgtgagtcgatagccatatttttttgtgtttttcatttttagGAACTCCTTAGTCAAGAGGAAGAATTGACATGGGCTGCATGTCGTGCAGTGGTCTCAGGCAGAACAGCTCCAGCTGA-ACGACATGAGCATTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACACCGACGGCAGGGCACCTCCAAATTGAGTAAACTCCGAGCAAGAGATAGTGAAGAACGGGTCAGCATGCCCTTGggtgagagctgggactccaactatgtctgcagtggcatgaatgattactgc Alignment from CESAR GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGT-GAGCAGCGGTCCCAGGCGGAG------CAGCTGCGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGg ttctacattgtgagtcgatagccatatttttttgtgtttttcatttttagGAACTCCTTAGTCAAGAGGAAGAATTGACATGGGCTGCATGTCGTGCAGTGGTCTCAGGCAGAACAGCTCCAGCTG-AACGACATGAGCATTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACACCGACGGCAGGGCACCTCCAAATTGAGTAAACTCCGAGCAAGAGATAGTGAAGAACGGGTCAGCATGCCCTTGggtgagagctgggactccaactatgtctgcagtggcatgaatgattactgc Alignment from Spaln_aa2Genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAG------CGGTCCCAGGCGGAGCAGCTGCGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG ttctacattgtgagtcgatagccatatttttttgtgtttttcatttttagGAACTCCTTAGTCAAGAGGAAGAATTGACATGGGCTGCATGTCGTGCAGTGGTCTCAGGCAGAACAGCTCCAGCTGAACGACATGAGCATTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACACCGACGGCAGGGCACCTCCAAATTGAGTAAACTCCGAGCAAGAGATAGTGAAGAACGGGTCAGCATGCCCTTGGgtgagagctgggactccaactatgtctgcagtggcatgaatgattactgc Alignment from Spaln_nt2Genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGT-GAGCAGCGGTCCCAGGCGGAGCAGCTGCG-----ACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGA------GCGCGAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG ttctacattgtgagtcgatagccatatttttttgtgtttttcatttttagGAACTCCTTAGTCAAGAGGAAGAATTGACATGGGCTGCATGTCGTGCAGTGGTCTCAGGCAGAACAGCTCCAGCTGAACGACATGAGCATTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACACCGACGGCAGGGCACCTCCAAATTGAGTAAACTCCGAGCAAGAGATAGTGAAGAACGGGTCAGCATGCCCTTGGgtgagagctgggactccaactatgtctgcagtggcatgaatgattactgc Alignment from Pairagon GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGT-GAGCAGCGGTCCCAGGCGGAGCAGCTGC-----GACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGA------GCGCGAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG ttctacattgtgagtcgatagccatatttttttgtgtttttcatttttagGAACTCCTTAGTCAAGAGGAAGAATTGACATGGGCTGCATGTCGTGCAGTGGTCTCAGGCAGAACAGCTCCAGCTGAACGACATGAGCATTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACACCGACGGCAGGGCACCTCCAAATTGAGTAAACTCCGAGCAAGAGATAGTGAAGAACGGGTCAGCATGCCCTTGGgtgagagctgggactccaactatgtctgcagtggcatgaatgattactgc Alignment from Exonerate_protein2genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAG-CAGCGGTCCCAGGCGGAGCAGCTGCGA-----CGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG ttctacattgtgagtcgatagccatatttttttgtgtttttcatttttagGAACTCCTTAGTCAAGAGGAAGAATTGACATGGGCTGCATGTCGTGCAGTGGTCTCAGGCAGAACAGCTCCAGCTGAACGACATGAGCATTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACACCGACGGCAGGGCACCTCCAAATTGAGTAAACTCCGAGCAAGAGATAGTGAAGAACGGGTCAGCATGCCCTTGGgtgagagctgggactccaactatgtctgcagtggcatgaatgattactgc Alignment from Exonerate_coding2genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAG-CAGCGGTCCCAGGCGGAGCAGCTGCGA-----CGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG ttctacattgtgagtcgatagccatatttttttgtgtttttcatttttagGAACTCCTTAGTCAAGAGGAAGAATTGACATGGGCTGCATGTCGTGCAGTGGTCTCAGGCAGAACAGCTCCAGCTGAACGACATGAGCATTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACACCGACGGCAGGGCACCTCCAAATTGAGTAAACTCCGAGCAAGAGATAGTGAAGAACGGGTCAGCATGCCCTTGGgtgagagctgggactccaactatgtctgcagtggcatgaatgattactgc Alignment from GeneWise GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAG------CGGTCCCAGGCGGAGCAGCTGCGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG ttctacattgtgagtcgatagccatatttttttgtgtttttcatttttagGAACTCCTTAGTCAAGAGGAAGAATTGACATGGGCTGCATGTCGTGCAGTGGTCTCAGGCAGAACAGCTCCAGCTGAACGACATGAGCATTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACACCGACGGCAGGGCACCTCCAAATTGAGTAAACTCCGAGCAAGAGATAGTGAAGAACGGGTCAGCATGCCCTTGGgtgagagctgggactccaactatgtctgcagtggcatgaatgattactgc #### Map4k2_ID1634_13 --> 0 - 1 Original Alignment ACCCATGACATGTTTCCA-GATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGt taagtctactggtgcatagcaagataacttcttcttccttcctgctatagACCCATGATATGTTCCCACGATACTATCCATTCCCACAGCCATCACGGTCCAG-TGAGAGGACTCCTTCAGAGATCCAAtgtattctatcaggtggtgaaaaaatcctaatgagatgaggtaactgcaga Alignment from CESAR ACCCATGACATGTTTCCA-GATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGt taagtctactggtgcatagcaagataacttcttcttccttcctgctatagACCCATGATATGTTCCCACGATACTATCCATTCCCACAGCCATCACGGTCCAG-TGAGAGGACTCCTTCAGAGATCCAAtgtattctatcaggtggtgaaaaaatcctaatgagatgaggtaactgcaga Alignment from Spaln_aa2Genome ACCCATGACATGTTTCCAGATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGT taagtctactggtgcatagcaagataacttcttcttccttcctgctatagACCCATGATATGTTCCCACGATACTATCCATTCCCACAGCCATCACGGTCCAGTGAGAGGACTCCTTCAGAGATCCAATgtattctatcaggtggtgaaaaaatcctaatgagatgaggtaactgcaga Alignment from Spaln_nt2Genome ACCCATGACATGTTTCCA-GATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGT taagtctactggtgcatagcaagataacttcttcttccttcctgctatagACCCATGATATGTTCCCACGATACTATCCATTCCCACAGCCATCACGGTCCAG-TGAGAGGACTCCTTCAGAGATCCAATgtattctatcaggtggtgaaaaaatcctaatgagatgaggtaactgcaga Alignment from Pairagon ACCCATGACATGTTTCCA-GATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGT taagtctactggtgcatagcaagataacttcttcttccttcctgctatagACCCATGATATGTTCCCACGATACTATCCATTCCCACAGCCATCACGGTCCAG-TGAGAGGACTCCTTCAGAGATCCAATgtattctatcaggtggtgaaaaaatcctaatgagatgaggtaactgcaga Alignment from Exonerate_protein2genome taagtctactggtgcatagcaagataacttcttcttccttcctgctatagacccatgatatgttcccacgatactatccattcccacagccatcacggtccagtgagaggactccttcagagatccaatgtattctatcaggtggtgaaaaaatcctaatgagatgaggtaactgcaga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ACCCATGACATGTTTCCAGATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGT taagtctactggtgcatagcaagataacttcttcttccttcctgctatagACCCATGATATGTTCCCACGATACTATCCATTCCCACAGCCATCACGGTCCAGTGAGAGGACTCCTTCAGAGATCCAATgtattctatcaggtggtgaaaaaatcctaatgagatgaggtaactgcaga #### Map4k2_ID1635_14 --> 2 - 0 Original Alignment ttCACCAAGTGAAATTC-GGT------------------GCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG aatgagatgaggtaactgcagagggactaatctgctgcttccctgtctagttCACCAAGTGGAATTCCACAGCTCCACACCAGAAGGAGACTCCCCAACAGGAAGAGA-AGAC------AATGATGCAgtataataaaggtacaggggggaaggctaagggcgactcctacttcagga Alignment from CESAR ttCACCAAGTGAAATTC-GGTGCTCCTCGCCGGAAGGAGACAGATCCTCTC------------AATGAACCG aatgagatgaggtaactgcagagggactaatctgctgcttccctgtctagttCACCAAGTGGAATTCCACAGCTCCACACCAGAAGGAGACT-CCCCAACAGGAAGAGAAGACAATGATGCAgtataataaaggtacaggggggaaggctaagggcgactcctacttcagga Alignment from Spaln_aa2Genome TTCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTC------------AATGAACCG aatgagatgaggtaactgcagagggactaatctgctgcttccctgtctagTTCACCAAGTGGAATTCCACAGCTCCACACCAGAAGGAGACTCCCCAACAGGAAGAGAAGACAATGATGCAgtataataaaggtacaggggggaaggctaagggcgactcctacttcagga Alignment from Spaln_nt2Genome TTCACCAAGTGAAATTCGGT-GCTCCTCGCCGGAAGGAGACAGATCCTCT-----------CAATGAACCG aatgagatgaggtaactgcagagggactaatctgctgcttccctgtctagTTCACCAAGTGGAATTCCACAGCTCCACACCAGAAGGAGACTCCCCAACAGGAAGAGAAGACAATGATGCAgtataataaaggtacaggggggaaggctaagggcgactcctacttcagga Alignment from Pairagon TTCACCAAGTGAAATTCGGT-GCTCCTCGCCGGAAGGAGAC-----------------AGATCCTCTCAATGAACCG aatgagatgaggtaactgcagagggactaatctgctgcttccctgtctagTTCACCAAGTGGAATTCCACAGCTCCACACCAGAAGGAGACTCCCCAACAGGAAGAGAAGA------CAATGATGCAgtataataaaggtacaggggggaaggctaagggcgactcctacttcagga Alignment from Exonerate_protein2genome aatgagatgaggtaactgcagagggactaatctgctgcttccctgtctagttcaccaagtggaattccacagctccacaccagaaggagactccccaacaggaagagaagacaatgatgcagtataataaaggtacaggggggaaggctaagggcgactcctacttcagga Alignment from Exonerate_coding2genome aatgagatgaggtaactgcagagggactaatctgctgcttccctgtctagttcaccaagtggaattccacagctccacaccagaaggagactccccaacaggaagagaagacaatgatgcagtataataaaggtacaggggggaaggctaagggcgactcctacttcagga Alignment from GeneWise aatgagatgaggtaactgcagagggactaatctgctgcttccctgtctagttcaccaagtggaattccacagctccacaccagaaggagactccccaacaggaagagaagacaatgatgcagtataataaaggtacaggggggaaggctaagggcgactcctacttcagga #### Map4k2_ID1639_18 --> 0 - 1 Original Alignment GAGCTGGACTCCCCGGATGATGCCATCGGA-ACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAg ctacagaacaacgttttatggggccagtagcctggcttctctgtactcagGAACTTGATTCCCCAGATGATGCCATTGGACACTATCAAGCAAGCACCATTCCTGGGCCTCCCCC-CACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGT---CCAggtaagatcagggaatggtaagccacatggtatgttgtggacatgccaggg Alignment from CESAR GAGCTGGACTCCCCGGATGATGCCATCGGA-ACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAg ctacagaacaacgttttatggggccagtagcctggcttctctgtactcagGAACTTGATTCCCCAGATGATGCCATTGGACACTATCAAGCAAGCACCATTCCTGGGCCTCCCC-CCACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGT---CCAggtaagatcagggaatggtaagccacatggtatgttgtggacatgccaggg Alignment from Spaln_aa2Genome GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAG ctacagaacaacgttttatggggccagtagcctggcttctctgtactcagGAACTTGATTCCCCAGATGATGCCATTGGACACTATCAAGCAAGCACCATTCCTGGGCCTCCCCCCACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGT---CCAGgtaagatcagggaatggtaagccacatggtatgttgtggacatgccaggg Alignment from Spaln_nt2Genome GAGCTGGACTCCCCGGATGATGCCATCGGA-ACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAG ctacagaacaacgttttatggggccagtagcctggcttctctgtactcagGAACTTGATTCCCCAGATGATGCCATTGGACACTATCAAGCAAGCACCATTCCTGGGCCT-CCCCCCACTGAGTCAACATCTGGTGATAATGCCCAGTCCTG---TCCAGgtaagatcagggaatggtaagccacatggtatgttgtggacatgccaggg Alignment from Pairagon GAGCTGGACTCCCCGGATGATGCCATCGGA-ACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAG ctacagaacaacgttttatggggccagtagcctggcttctctgtactcagGAACTTGATTCCCCAGATGATGCCATTGGACACTATCAAGCAAGCACCATTCCTGGGCCT-CCCCCCACTGAGTCAACATCTGGTGATAATGCCCAGTCCTG---TCCAGgtaagatcagggaatggtaagccacatggtatgttgtggacatgccaggg Alignment from Exonerate_protein2genome GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAG ctacagaacaacgttttatggggccagtagcctggcttctctgtactcagGAACTTGATTCCCCAGATGATGCCATTGGACACTATCAAGCAAGCACCATTCCTGGGCCTCCCCCCACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGT---CCAGgtaagatcagggaatggtaagccacatggtatgttgtggacatgccaggg Alignment from Exonerate_coding2genome ctacagaacaacgttttatggggccagtagcctggcttctctgtactcaggaacttgattccccagatgatgccattggacactatcaagcaagcaccattcctgggcctccccccactgagtcaacatctggtgataatgcccagtcctgtccaggtaagatcagggaatggtaagccacatggtatgttgtggacatgccaggg Alignment from GeneWise TGGAGGAAAGGAGCCTGACT------ATCCGGCCAGCCTTAGAACTCCAGGAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAG CTACAGAACAACGTTTTATGGGGCCAGTAGCCTGGCTTCTCTGTACTCAGGAACTTGATTCCCCAGATGATGCCATTGGACACTATCAAGCAAGCACCATTCCTGGGCCTCCCCCCACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGT---CCAGgtaagatcagggaatggtaagccacatggtatgttgtggacatgccaggg #### Map4k2_ID1647_26 --> 2 - 0 Original Alignment ttCGAAACCCCTATACCGGCAGT-ACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gcgggagtgccatgaagctggccccaccccctgagcaatactctctgcagtcCACAATCCTTATACTAGCAGCCACATTCCTGCTGGCTGCTCTGCCTGCAAGCCTCCTGCTTTTAG-ATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtgagtgacttttggactggttgtcacacaatggactggagatcagagtc Alignment from CESAR ttCGAAACCCCTATACCGGCAGT-ACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gcgggagtgccatgaagctggccccaccccctgagcaatactctctgcagtcCACAATCCTTATACTAGCAGCCACATTCCTGCTGGCTGCTCTGCCTGCAAGCCTCCTGCTTTTA-GATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtgagtgacttttggactggttgtcacacaatggactggagatcagagtc Alignment from Spaln_aa2Genome CCGGCA GTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG GCGGGAgtgccatgaagctggccccaccccctgagcaatactctctgcagtccacaatccttatactagcagCCACATTCCTGCTGGCTGCTCTGCCTGCAAGCCTCCTGCTTTTAGA-TGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtgagtgacttttggactggttgtcacacaatggactggagatcagagtc Alignment from Spaln_nt2Genome TTCGAAACCCCTATACCGGCAGT-ACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gcgggagtgccatgaagctggccccaccccctgagcaatactctctgcagTCCACAATCCTTATACTAGCAGCCACATTCCTGCTGGCTGCTCTGCCTGCAAGCCTCCTGCT-TTTAGATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtgagtgacttttggactggttgtcacacaatggactggagatcagagtc Alignment from Pairagon TTCGAAACCCCTATACCGGCAG-TACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCT----GCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gcgggagtgccatgaagctggccccaccccctgagcaatactctctgcagTCCACAATCCTTATACTAGCAGCCACATTCCTGCTGGCTGCTCTGCCTGCAAGCCTCCTGCTTTTAG-----ATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtgagtgacttttggactggttgtcacacaatggactggagatcagagtc Alignment from Exonerate_protein2genome TTCGAAACCCCTATACCGGCAGT-ACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTG--CAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gcgggagtgccatgaagctggccccaccccctgagcaatactctctgcagTCCACAATCCTTATACTAGCAGCCACATTCCTGCTGGCTGCTCTGCCTGCAAGCCTCCTGCTTTTAGA---TGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtgagtgacttttggactggttgtcacacaatggactggagatcagagtc Alignment from Exonerate_coding2genome TTCGAAACCCCTATACCGGCAGT-ACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTG--CAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gcgggagtgccatgaagctggccccaccccctgagcaatactctctgcagTCCACAATCCTTATACTAGCAGCCACATTCCTGCTGGCTGCTCTGCCTGCAAGCCTCCTGCTTTTAGA---TGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtgagtgacttttggactggttgtcacacaatggactggagatcagagtc Alignment from GeneWise --------------------------------AACCCCTATACC------------------------GGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG GCGGGAGTGCCATGAAGCTGGCCCCACCCCCTGAGCAATACTCTCTGCAGTCCACAATCCTTATACTAGCAGCCACATTCCTGCTGGCTGCTCTGCCTGCAAGCCTCCTGCTTTTAGA-TGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtgagtgacttttggactggttgtcacacaatggactggagatcagagtc #### Map4k2_ID1649_28 --> 2 - 1 Original Alignment agGGGATCCCAGGTTCT-GCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAAc aatgctagctcaataaccagttagaggtttgcttgctaatttcattgcagagGGGATTCCAGGGCCTCGCACAACAAGTGATACAGGTAGATCGAGACAAAGTCT-GGTTAGCTTTGAAcgtaggtaactgaatgtcaaaaggaggttgcaaacagggtgggagcaaagc Alignment from CESAR agGGGATCCCAGGTTCT-GCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAAc aatgctagctcaataaccagttagaggtttgcttgctaatttcattgcagagGGGATTCCAGGGCCTCGCACAACAAGTGATACAGGTAGATCGAGACAAAG-TCTGGTTAGCTTTGAAcgtaggtaactgaatgtcaaaaggaggttgcaaacagggtgggagcaaagc Alignment from Spaln_aa2Genome -GGGATCCCAGGTTCTGCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAA---C aatgctagctcaataaccagttagaggtttgcttgctaatttcattgcagagGGGATTCCAGGGCCTCGCACAACAAGTGATACAGGTAGATCGAGACAAAGTCTGGTTAGCTTTGAACGTAGgtaactgaatgtcaaaaggaggttgcaaacagggtgggagcaaagc Alignment from Spaln_nt2Genome AGGGGATCCCAGGTTCT-GCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAAC aatgctagctcaataaccagttagaggtttgcttgctaatttcattgcagAGGGGATTCCAGGGCCTCGCACAACAAGTGATACAGGTAGATCGAGACAAAGT-CTGGTTAGCTTTGAACgtaggtaactgaatgtcaaaaggaggttgcaaacagggtgggagcaaagc Alignment from Pairagon AGGGGATCCCAGGTTCT-GCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAAC aatgctagctcaataaccagttagaggtttgcttgctaatttcattgcagAGGGGATTCCAGGGCCTCGCACAACAAGTGATACAGGTAGATCGAGACAAAGT-CTGGTTAGCTTTGAACgtaggtaactgaatgtcaaaaggaggttgcaaacagggtgggagcaaagc Alignment from Exonerate_protein2genome AGGGGATCCCAGGTTCT-GCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAA---C aatgctagctcaataaccagttagaggtttgcttgctaatttcattgcagAGGGGATTCCAGGGCCTCGCACAACAAGTGATACAGGTAGATCGAGACAAAGTCTGGTTAGCTTTGAACGTAGgtaactgaatgtcaaaaggaggttgcaaacagggtgggagcaaagc Alignment from Exonerate_coding2genome aatgctagctcaataaccagttagaggtttgcttgctaatttcattgcagaggggattccagggcctcgcacaacaagtgatacaggtagatcgagacaaagtctggttagctttgaacgtaggtaactgaatgtcaaaaggaggttgcaaacagggtgggagcaaagc Alignment from GeneWise CCAGGTTCTGCACA aatgctagctcaataaccagttagaggtttgcttgctaatttcattgcagaggggattccagggcctcgcacaacaagtgatacaggtagatcgagacaaagtctggttagctttgaacgtaggtaactgaatgtcaaaaggaggttgcaaacagGGTGGGAGCAAAGC #### March5_ID7302_4 --> 0 - 1 Original Alignment GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACT-ATTCCTGTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAg tcatctatgaaggtgtgcaaggggctttcaatcaccctgtcctctctcagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGACCCTTTATTTCTTCTGACTGGACTTCCTACTCATTCCTGTCATGCTGATACTAGGAAAAA-GATTCGCTGGGAGGACCATGTGCTTAGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAggtgagtcattggtggtattgcattcaaggcatacatagctaggattaatt Alignment from CESAR GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACT-ATTCCTGTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAg tcatctatgaaggtgtgcaaggggctttcaatcaccctgtcctctctcagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGACCCTTTATTTCTTCTGACTGGACTTCCTACTCATTCCTGTCATGCTGATACTAGGAAAA-AGATTCGCTGGGAGGACCATGTGCTTAGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAggtgagtcattggtggtattgcattcaaggcatacatagctaggattaatt Alignment from Spaln_aa2Genome GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG tcatctatgaaggtgtgcaaggggctttcaatcaccctgtcctctctcagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGACCCTTTATTTCTTCTGACTGGACTTCCTACTCATTCCTGTCATGCTGATACTAGGAAAAAGATTCGCTGGGAGGACCATGTGCTTAGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtgagtcattggtggtattgcattcaaggcatacatagctaggattaatt Alignment from Spaln_nt2Genome GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG tcatctatgaaggtgtgcaaggggctttcaatcaccctgtcctctctcagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGACCCTTTATTTCTTCTGACTGGACTTCCTACTCATTCCTGTCATGCTGATACTAGGAAAAAGATTCGCTGGGAGGACCATGTGCTTAGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtgagtcattggtggtattgcattcaaggcatacatagctaggattaatt Alignment from Pairagon GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACT-ATTCCTGTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG tcatctatgaaggtgtgcaaggggctttcaatcaccctgtcctctctcagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGACCCTTTATTTCTTCTGACTGGACTTCCTACTCATTCCTGTCATGCTGATACTAGGAAAAA-GATTCGCTGGGAGGACCATGTGCTTAGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtgagtcattggtggtattgcattcaaggcatacatagctaggattaatt Alignment from Exonerate_protein2genome GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG tcatctatgaaggtgtgcaaggggctttcaatcaccctgtcctctctcagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGACCCTTTATTTCTTCTGACTGGACTTCCTACTCATTCCTGTCATGCTGATACTAGGAAAAAGATTCGCTGGGAGGACCATGTGCTTAGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtgagtcattggtggtattgcattcaaggcatacatagctaggattaatt Alignment from Exonerate_coding2genome GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG tcatctatgaaggtgtgcaaggggctttcaatcaccctgtcctctctcagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGACCCTTTATTTCTTCTGACTGGACTTCCTACTCATTCCTGTCATGCTGATACTAGGAAAAAGATTCGCTGGGAGGACCATGTGCTTAGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtgagtcattggtggtattgcattcaaggcatacatagctaggattaatt Alignment from GeneWise GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG tcatctatgaaggtgtgcaaggggctttcaatcaccctgtcctctctcagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGACCCTTTATTTCTTCTGACTGGACTTCCTACTCATTCCTGTCATGCTGATACTAGGAAAAAGATTCGCTGGGAGGACCATGTGCTTAGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtgagtcattggtggtattgcattcaaggcatacatagctaggattaatt #### Mark2_ID2106_15 --> 1 - 2 Original Alignment cCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCG-GCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCag cccttctgacccttcactctgtgggtttatggcccctctgctgtccctagcCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGCGCCCGGCCCCGCCAGCACCAGAAATCCATGT-TGCCTCTGTGCACCCCAACAAGGCTTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCAGCCCaggtaaggctgcagggatagctatacatctatggcaccatgctgcacacttg Alignment from CESAR cCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCG-GCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCag cccttctgacccttcactctgtgggtttatggcccctctgctgtccctagcCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGCGCCCGGCCCCGCCAGCACCAGAAATCCATG-TTGCCTCTGTGCACCCCAACAAGGCTTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCAGCCCaggtaaggctgcagggatagctatacatctatggcaccatgctgcacacttg Alignment from Spaln_aa2Genome CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cccttctgacccttcactctgtgggtttatggcccctctgctgtccctagCCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGCGCCCGGCCCCGCCAGCACCAGAAATCCATGTTGCCTCTGTGCACCCCAACAAGGCTTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaaggctgcagggatagctatacatctatggcaccatgctgcacacttg Alignment from Spaln_nt2Genome CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCG-GCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cccttctgacccttcactctgtgggtttatggcccctctgctgtccctagCCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGCGCCCGGCCCCGCCAGCACCAGAAATCCATGT-TGCCTCTGTGCACCCCAACAAGGCTTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaaggctgcagggatagctatacatctatggcaccatgctgcacacttg Alignment from Pairagon CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCG-GCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cccttctgacccttcactctgtgggtttatggcccctctgctgtccctagCCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGCGCCCGGCCCCGCCAGCACCAGAAATCCATGT-TGCCTCTGTGCACCCCAACAAGGCTTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaaggctgcagggatagctatacatctatggcaccatgctgcacacttg Alignment from Exonerate_protein2genome CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cccttctgacccttcactctgtgggtttatggcccctctgctgtccctagCCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGCGCCCGGCCCCGCCAGCACCAGAAATCCATGTTGCCTCTGTGCACCCCAACAAGGCTTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaaggctgcagggatagctatacatctatggcaccatgctgcacacttg Alignment from Exonerate_coding2genome CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cccttctgacccttcactctgtgggtttatggcccctctgctgtccctagCCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGCGCCCGGCCCCGCCAGCACCAGAAATCCATGTTGCCTCTGTGCACCCCAACAAGGCTTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaaggctgcagggatagctatacatctatggcaccatgctgcacacttg Alignment from GeneWise CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cccttctgacccttcactctgtgggtttatggcccctctgctgtccctagCCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGCGCCCGGCCCCGCCAGCACCAGAAATCCATGTTGCCTCTGTGCACCCCAACAAGGCTTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaaggctgcagggatagctatacatctatggcaccatgctgcacacttg #### Mark2_ID2107_14 --> 0 - 2 Original Alignment AACAGCGTCCTT-TCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACag gactaagtgcactactttagaggcaatacataactttcattcatttatagAACGGTGTCCTTCTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTT-GGATAGGGCCAGTCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACaggtaaattaatcaagtctggttccttttcccagaagcctgcagtgctttat Alignment from CESAR AACAGCGTCCTT-TCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACag gactaagtgcactactttagaggcaatacataactttcattcatttatagAACGGTGTCCTTCTCCACCAGCACAAACCGAAGCAGGAACTCCCCAC-TTTGGATAGGGCCAGTCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACaggtaaattaatcaagtctggttccttttcccagaagcctgcagtgctttat Alignment from Spaln_aa2Genome -ACCAG CACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG GACTAAgtgcactactttagaggcaatacataactttcattcatttatagaacggtgtccttctccaccagCACAAACCGAAGCAGGAACTCCCCACT-TTGGATAGGGCCAGTCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACAGgtaaattaatcaagtctggttccttttcccagaagcctgcagtgctttat Alignment from Spaln_nt2Genome AACAGCGTCCTT-TCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG gactaagtgcactactttagaggcaatacataactttcattcatttatagAACGGTGTCCTTCTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTT-GGATAGGGCCAGTCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACAGgtaaattaatcaagtctggttccttttcccagaagcctgcagtgctttat Alignment from Pairagon AACAGCGTCCTT-TCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG gactaagtgcactactttagaggcaatacataactttcattcatttatagAACGGTGTCCTTCTCCACCAGCACAAACCGAAGCAGGAACTCCCCAC-TTTGGATAGGGCCAGTCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACAGgtaaattaatcaagtctggttccttttcccagaagcctgcagtgctttat Alignment from Exonerate_protein2genome AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG gactaagtgcactactttagaggcaatacataactttcattcatttatagAACGGTGTCCTTCTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTGGATAGGGCCAGTCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACAGgtaaattaatcaagtctggttccttttcccagaagcctgcagtgctttat Alignment from Exonerate_coding2genome AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG gactaagtgcactactttagaggcaatacataactttcattcatttatagAACGGTGTCCTTCTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTGGATAGGGCCAGTCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACAGgtaaattaatcaagtctggttccttttcccagaagcctgcagtgctttat Alignment from GeneWise AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG gactaagtgcactactttagaggcaatacataactttcattcatttatagAACGGTGTCCTTCTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTGGATAGGGCCAGTCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACAGgtaaattaatcaagtctggttccttttcccagaagcctgcagtgctttat #### Mark2_ID2112_9 --> 0 - 0 Original Alignment GAGCTGCGGGAACGGGTACTGAGGGGG-AAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG ccttcttgcaataacttatatgtcagatgctgactcttgctttcttacagGAGCTACGGGAACGGGTGTTGAGGGGGCAAATACCGTATTCCGTTCTACATATCCACTG-CTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATgtaagcaacctgagatagcagtcaggaaaggaatataccaattagctctg Alignment from CESAR GAGCTGCGGGAACGGGTACTGAGGGGG-AAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG ccttcttgcaataacttatatgtcagatgctgactcttgctttcttacagGAGCTACGGGAACGGGTGTTGAGGGGGCAAATACCGTATTCCGTTCTACATATCCACT-GCTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATgtaagcaacctgagatagcagtcaggaaaggaatataccaattagctctg Alignment from Spaln_aa2Genome GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG ccttcttgcaataacttatatgtcagatgctgactcttgctttcttacagGAGCTACGGGAACGGGTGTTGAGGGGGCAAATACCGTATTCCGTTCTACATATCCACTGCTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATgtaagcaacctgagatagcagtcaggaaaggaatataccaattagctctg Alignment from Spaln_nt2Genome GAGCTGCGGGAACGGGTACTGAGGGGG-AAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG ccttcttgcaataacttatatgtcagatgctgactcttgctttcttacagGAGCTACGGGAACGGGTGTTGAGGGGGCAAATACCGTATTCCGTTCTACATATCCACTG-CTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATgtaagcaacctgagatagcagtcaggaaaggaatataccaattagctctg Alignment from Pairagon GAGCTGCGGGAACGGGTACTGAGGGGG-AAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG ccttcttgcaataacttatatgtcagatgctgactcttgctttcttacagGAGCTACGGGAACGGGTGTTGAGGGGGCAAATACCGTATTCCGTTCTACATATCCACTG-CTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATgtaagcaacctgagatagcagtcaggaaaggaatataccaattagctctg Alignment from Exonerate_protein2genome GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG ccttcttgcaataacttatatgtcagatgctgactcttgctttcttacagGAGCTACGGGAACGGGTGTTGAGGGGGCAAATACCGTATTCCGTTCTACATATCCACTGCTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATgtaagcaacctgagatagcagtcaggaaaggaatataccaattagctctg Alignment from Exonerate_coding2genome GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG ccttcttgcaataacttatatgtcagatgctgactcttgctttcttacagGAGCTACGGGAACGGGTGTTGAGGGGGCAAATACCGTATTCCGTTCTACATATCCACTGCTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATgtaagcaacctgagatagcagtcaggaaaggaatataccaattagctctg Alignment from GeneWise GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG ccttcttgcaataacttatatgtcagatgctgactcttgctttcttacagGAGCTACGGGAACGGGTGTTGAGGGGGCAAATACCGTATTCCGTTCTACATATCCACTGCTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATgtaagcaacctgagatagcagtcaggaaaggaatataccaattagctctg #### Mark2_ID2115_6 --> 2 - 0 Original Alignment gaGAGGTGTTTGATTAC-CTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG atgacacaacccctacccttgactctgatctcctcttcttacctcactaggtGAGCTGTTTGATTATCCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTC-AGCCAAATTCCACCAGgtgatcgtgttgctaaatttgcaagtttggcaccagcatgagaatatgga Alignment from CESAR gaGAGGTGTTTGATTAC-CTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG atgacacaacccctacccttgactctgatctcctcttcttacctcactaggtGAGCTGTTTGATTATCCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTC-AGCCAAATTCCACCAGgtgatcgtgttgctaaatttgcaagtttggcaccagcatgagaatatgga Alignment from Spaln_aa2Genome GAGAGGTGTTTGATTAC-CTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG atgacacaacccctacccttgactctgatctcctcttcttacctcactagGTGAGCTGTTTGATTATcCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCA-GCCAAATTCCACCAGgtgatcgtgttgctaaatttgcaagtttggcaccagcatgagaatatgga Alignment from Spaln_nt2Genome GAGAGGTGTTTGATTA-CCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG atgacacaacccctacccttgactctgatctcctcttcttacctcactagGTGAGCTGTTTGATTATCCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTC-AGCCAAATTCCACCAGgtgatcgtgttgctaaatttgcaagtttggcaccagcatgagaatatgga Alignment from Pairagon GAGAGGTGTTTGATTA-CCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG atgacacaacccctacccttgactctgatctcctcttcttacctcactagGTGAGCTGTTTGATTATCCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTC-AGCCAAATTCCACCAGgtgatcgtgttgctaaatttgcaagtttggcaccagcatgagaatatgga Alignment from Exonerate_protein2genome GAGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG atgacacaacccctacccttgactctgatctcctcttcttacctcactagGTGAGCTGTTTGATTATCCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCAGCCAAATTCCACCAGgtgatcgtgttgctaaatttgcaagtttggcaccagcatgagaatatgga Alignment from Exonerate_coding2genome GAGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG atgacacaacccctacccttgactctgatctcctcttcttacctcactagGTGAGCTGTTTGATTATCCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCAGCCAAATTCCACCAGgtgatcgtgttgctaaatttgcaagtttggcaccagcatgagaatatgga Alignment from GeneWise GGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG atgacacaacccctacccttgactctgatctcctcttcttacctcactaggtgagCTGTTTGATTATCCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCA-GCCAAATTCCACCAGgtgatcgtgttgctaaatttgcaagtttggcaccagcatgagaatatgga #### Mrpl11_ID768_3 --> 0 - 1 Original Alignment CCCGACAGGACATTT-GAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAg ctgactgggcaatgaactgagtatattccccctgccccccacccacccagCCTGACAGACCTCTGCGAT---------------------GTCTCCT-CTTGCTTAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAggtatgtgttctggcagccatatgaggcaaggaaccaagagaccaaatggc Alignment from CESAR CCCGACAGGACATTTGAG------CTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAg ctgactgggcaatgaactgagtatattccccctgccccccacccacccagCCTGACAGACCTCTGCGATGTCTCCTC---------------------------TTGCTTAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAggtatgtgttctggcagccatatgaggcaaggaaccaagagaccaaatggc Alignment from Spaln_aa2Genome CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ctgactgggcaatgaactgagtatattccccctgccccccacccacccagCCTGACAGACCTCTGCGA---------------------TGTCTCCTCTTGCTTAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAGgtatgtgttctggcagccatatgaggcaaggaaccaagagaccaaatggc Alignment from Spaln_nt2Genome GCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ctgactgggcaatgaactgagtatattccccctgccccccacccacccagcctgacagacctctgcgatgtctcctcttgcttaagGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAGgtatgtgttctggcagccatatgaggcaaggaaccaagagaccaaatggc Alignment from Pairagon CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ctgactgggcaatgaactgagtatattccccctgccccccacccacccagcctgacagacctctgcgatgtctcctcttgcttaag---------------------------------------------------------GCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAGgtatgtgttctggcagccatatgaggcaaggaaccaagagaccaaatggc Alignment from Exonerate_protein2genome TTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ctgactgggcaatgaactgagtatattccccctgccccccacccacccagcctgacagacctctgcgatgtctcctcttgCTTAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAGgtatgtgttctggcagccatatgaggcaaggaaccaagagaccaaatggc Alignment from Exonerate_coding2genome TTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ctgactgggcaatgaactgagtatattccccctgccccccacccacccagcctgacagacctctgcgatgtctcctcttgCTTAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAGgtatgtgttctggcagccatatgaggcaaggaaccaagagaccaaatggc Alignment from GeneWise CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ctgactgggcaatgaactgagtatattccccctgccccccacccacccagCCTGACAGACCTCTGCGATGTCTCCTC---------------------TTGCTTAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAGgtatgtgttctggcagccatatgaggcaaggaaccaagagaccaaatggc #### Mrpl43_ID9260_2 --> 1 - 1 Original Alignment gGAGTTCGTGGAACGCGAGGTGACCGACTTC-GCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACc ggcacaaaacttagaactagcctaatacaaattattttcttgttctctagaGAGTTAGTAGAACGTGAGGTTACTGACTTTCGCCCAATGGAACCCAGGAGTTGTGGTATATG-GAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACtgtaccagtagctgagtgagggcaggggtatccagtacttgatctactaca Alignment from CESAR gGAGTTCGTGGAACGCGAGGTGACCGAC-TTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACc ggcacaaaacttagaactagcctaatacaaattattttcttgttctctagaGAGTTAGTAGAACGTGAGGTTACTGACTTTCGCCCAATGGAACCCAGGAGTTGTGGTATAT-GGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACtgtaccagtagctgagtgagggcaggggtatccagtacttgatctactaca Alignment from Spaln_aa2Genome GGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcctaatacaaattattttcttgttctctagAGAGTTAGTAGAACGTGAGGTTACTGACTTTCGCCCAATGGAACCCAGGAGTTGTGGTATATGGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtaccagtagctgagtgagggcaggggtatccagtacttgatctactaca Alignment from Spaln_nt2Genome GGAGTTCGTGGAACGCGAGGTGACCGACTT-CGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcctaatacaaattattttcttgttctctagAGAGTTAGTAGAACGTGAGGTTACTGACTTTCGCCCAATGGAACCCAGGAGTTGTGGTATATG-GAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtaccagtagctgagtgagggcaggggtatccagtacttgatctactaca Alignment from Pairagon GGAGTTCGTGGAACGCGAGGTGACCGAC-TTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcctaatacaaattattttcttgttctctagAGAGTTAGTAGAACGTGAGGTTACTGACTTTCGCCCAATGGAACCCAGGAGTTGTGGTATATG-GAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtaccagtagctgagtgagggcaggggtatccagtacttgatctactaca Alignment from Exonerate_protein2genome GGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcctaatacaaattattttcttgttctctagAGAGTTAGTAGAACGTGAGGTTACTGACTTTCGCCCAATGGAACCCAGGAGTTGTGGTATATGGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtaccagtagctgagtgagggcaggggtatccagtacttgatctactaca Alignment from Exonerate_coding2genome GGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcctaatacaaattattttcttgttctctagAGAGTTAGTAGAACGTGAGGTTACTGACTTTCGCCCAATGGAACCCAGGAGTTGTGGTATATGGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtaccagtagctgagtgagggcaggggtatccagtacttgatctactaca Alignment from GeneWise GGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcctaatacaaattattttcttgttctctagAGAGTTAGTAGAACGTGAGGTTACTGACTTTCGCCCAATGGAACCCAGGAGTTGTGGTATATGGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtaccagtagctgagtgagggcaggggtatccagtacttgatctactaca #### Ms4a2_ID3243_2 --> 1 - 0 Original Alignment tGCACCTGACATTGAA-CTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attaagatctgttaagaacactagtagtatggttcatgctttctccttagtGCACCTGACATTGAGCCTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAA-GCAGACATGGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtaccattgtaggctttgttttcaatgacgaaagcattgccttctcctac Alignment from CESAR tGCACCTGACATTGAA-CTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attaagatctgttaagaacactagtagtatggttcatgctttctccttagtGCACCTGACATTGAGCCTCCTGGAAGCATCACCTGCCAAAGCAGCTCCAC-CAAGCAGACATGGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtaccattgtaggctttgttttcaatgacgaaagcattgccttctcctac Alignment from Spaln_aa2Genome TGCACCTGACATTGAA-CTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attaagatctgttaagaacactagtagtatggttcatgctttctccttagTGCACCTGACATTGAGcCTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACC-AAGCAGACATGGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtaccattgtaggctttgttttcaatgacgaaagcattgccttctcctac Alignment from Spaln_nt2Genome TGCACCTGACATTGAAC-TCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attaagatctgttaagaacactagtagtatggttcatgctttctccttagTGCACCTGACATTGAGCCTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACC-AAGCAGACATGGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtaccattgtaggctttgttttcaatgacgaaagcattgccttctcctac Alignment from Pairagon TGCACCTGACATTGAA-CTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attaagatctgttaagaacactagtagtatggttcatgctttctccttagTGCACCTGACATTGAGCCTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACC-AAGCAGACATGGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtaccattgtaggctttgttttcaatgacgaaagcattgccttctcctac Alignment from Exonerate_protein2genome TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attaagatctgttaagaacactagtagtatggttcatgctttctccttagTGCACCTGACATTGAGCCTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAGCAGACATGGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtaccattgtaggctttgttttcaatgacgaaagcattgccttctcctac Alignment from Exonerate_coding2genome TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attaagatctgttaagaacactagtagtatggttcatgctttctccttagTGCACCTGACATTGAGCCTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAGCAGACATGGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtaccattgtaggctttgttttcaatgacgaaagcattgccttctcctac Alignment from GeneWise TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attaagatctgttaagaacactagtagtatggttcatgctttctccttagTGCACCTGACATTGAGCCTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAGCAGACATGGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtaccattgtaggctttgttttcaatgacgaaagcattgccttctcctac #### Mta2_ID2533_6 --> 0 - 1 Original Alignment GACTGCTTTTTTTACTCACTGGTGTTT-GATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGg cggcataatatctgcataaaaccacattgtgttctttcttgcctctacagGAGTGTTTTTTTTATTCGTTGGTGTTTCGAGCCTGTGCAGAAAACACTTCTAGCAGATCAAGGGGAGA-CAGGGTTGGTTGCACATTCCAAGCTGAGATCCCAGATCACTTGGCAGAGggtaagtaaaaatctggtttgaacacaattttttctctcaacaatatgatt Alignment from CESAR GACTGCTTTTTTTACTCACTGGTGTTT-GATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGg cggcataatatctgcataaaaccacattgtgttctttcttgcctctacagGAGTGTTTTTTTTATTCGTTGGTGTTTCGAGCCTGTGCAGAAAACACTTCTAGCAGATCAAGGGGAG-ACAGGGTTGGTTGCACATTCCAAGCTGAGATCCCAGATCACTTGGCAGAGggtaagtaaaaatctggtttgaacacaattttttctctcaacaatatgatt Alignment from Spaln_aa2Genome GACTGCTTTTTTTACTCACTGGTGTTT-GATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG cggcataatatctgcataaaaccacattgtgttctttcttgcctctacagGAGTGTTTTTTTTATTCGTTGGTGTTTcGAGCCTGTGCAGAAAACACTTCTAGCAGATCAAGGGGAGAC-AGGGTTGGTTGCACATTCCAAGCTGAGATCCCAGATCACTTGGCAGAGGgtaagtaaaaatctggtttgaacacaattttttctctcaacaatatgatt Alignment from Spaln_nt2Genome GACTGCTTTTTTTACTCACTGGTGTTT-GATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG cggcataatatctgcataaaaccacattgtgttctttcttgcctctacagGAGTGTTTTTTTTATTCGTTGGTGTTTCGAGCCTGTGCAGAAAACACTTCTAGCAGATCAAGGGGAGA-CAGGGTTGGTTGCACATTCCAAGCTGAGATCCCAGATCACTTGGCAGAGGgtaagtaaaaatctggtttgaacacaattttttctctcaacaatatgatt Alignment from Pairagon GACTGCTTTTTTTACTCACTGGTGTTT-GATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG cggcataatatctgcataaaaccacattgtgttctttcttgcctctacagGAGTGTTTTTTTTATTCGTTGGTGTTTCGAGCCTGTGCAGAAAACACTTCTAGCAGATCAAGGGGAGA-CAGGGTTGGTTGCACATTCCAAGCTGAGATCCCAGATCACTTGGCAGAGGgtaagtaaaaatctggtttgaacacaattttttctctcaacaatatgatt Alignment from Exonerate_protein2genome GACTGCTTTTTTTACTCACTGGTG-TTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAG--ATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG cggcataatatctgcataaaaccacattgtgttctttcttgcctctacagGAGTGTTTTTTTTATTCGTTGGTGTTTCGAGCCTGTGCAGAAAACACTTCTAGCAGATCAAGGGGAGAC---AGGGTTGGTTGCACATTCCAAGCTGAGATCCCAGATCACTTGGCAGAGGgtaagtaaaaatctggtttgaacacaattttttctctcaacaatatgatt Alignment from Exonerate_coding2genome GACTGCTTTTTTTACTCACTGGTG-TTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAG--ATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG cggcataatatctgcataaaaccacattgtgttctttcttgcctctacagGAGTGTTTTTTTTATTCGTTGGTGTTTCGAGCCTGTGCAGAAAACACTTCTAGCAGATCAAGGGGAGAC---AGGGTTGGTTGCACATTCCAAGCTGAGATCCCAGATCACTTGGCAGAGGgtaagtaaaaatctggtttgaacacaattttttctctcaacaatatgatt Alignment from GeneWise GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG cggcataatatctgcataaaaccacattgtgttctttcttgcctctacagGAGTGTTTTTTTTATTCGTTGGTGTTTCGAGCCTGTGCAGAAAACACTTCTAGCAGATCAAGGGGAGACAGGGTTGGTTGCACATTCCAAGCTGAGATCCCAGATCACTTGGCAGAGGgtaagtaaaaatctggtttgaacacaattttttctctcaacaatatgatt #### Mta2_ID2534_7 --> 2 - 2 Original Alignment gaGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAA-GTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCcg cacacttctagtagtatattatggctgaaatgtaactttaacaactgcaggaGAGTCAGATAATAGAAACCAACAGATGATGGAGATGAAACGTCTGGGACCCAGGCAATCCCCTCACAGACCAGCAGATTG-CCAGTTCCTAATCGTGGCTcggtgagtaaaggttcagggaggtcacataggtgcactaaaccttactctgg Alignment from CESAR gaGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAA-GTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCcg cacacttctagtagtatattatggctgaaatgtaactttaacaactgcaggaGAGTCAGATAATAGAAACCAACAGATGATGGAGATGAAACGTCTGGGACCCAGGCAATCCCCTCACAGACCAGCAGATT-GCCAGTTCCTAATCGTGGCTcggtgagtaaaggttcagggaggtcacataggtgcactaaaccttactctgg Alignment from Spaln_aa2Genome GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG cacacttctagtagtatattatggctgaaatgtaactttaacaactgcagGAGAGTCAGATAATAGAAACCAACAGATGATGGAGATGAAACGTCTGGGACCCAGGCAATCCCCTCACAGACCAGCAGATTGCCAGTTCCTAATCGTGGCTCGgtgagtaaaggttcagggaggtcacataggtgcactaaaccttactctgg Alignment from Spaln_nt2Genome GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAA-GTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG cacacttctagtagtatattatggctgaaatgtaactttaacaactgcagGAGAGTCAGATAATAGAAACCAACAGATGATGGAGATGAAACGTCTGGGACCCAGGCAATCCCCTCACAGACCAGCAGATTG-CCAGTTCCTAATCGTGGCTCGgtgagtaaaggttcagggaggtcacataggtgcactaaaccttactctgg Alignment from Pairagon GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAA-GTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG cacacttctagtagtatattatggctgaaatgtaactttaacaactgcagGAGAGTCAGATAATAGAAACCAACAGATGATGGAGATGAAACGTCTGGGACCCAGGCAATCCCCTCACAGACCAGCAGATTG-CCAGTTCCTAATCGTGGCTCGgtgagtaaaggttcagggaggtcacataggtgcactaaaccttactctgg Alignment from Exonerate_protein2genome GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAA-GTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATT--GATCAGTTTCTCGTGGTGGCCCG cacacttctagtagtatattatggctgaaatgtaactttaacaactgcagGAGAGTCAGATAATAGAAACCAACAGATGATGGAGATGAAACGTCTGGGACCCAGGCAATCCCCTCACAGACCAGCAGATTGC---CAGTTCCTAATCGTGGCTCGgtgagtaaaggttcagggaggtcacataggtgcactaaaccttactctgg Alignment from Exonerate_coding2genome GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAA-GTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATT--GATCAGTTTCTCGTGGTGGCCCG cacacttctagtagtatattatggctgaaatgtaactttaacaactgcagGAGAGTCAGATAATAGAAACCAACAGATGATGGAGATGAAACGTCTGGGACCCAGGCAATCCCCTCACAGACCAGCAGATTGC---CAGTTCCTAATCGTGGCTCGgtgagtaaaggttcagggaggtcacataggtgcactaaaccttactctgg Alignment from GeneWise GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG cacacttctagtagtatattatggctgaaatgtaactttaacaactgcagGAGAGTCAGATAATAGAAACCAACAGATGATGGAGATGAAACGTCTGGGACCCAGGCAATCCCCTCACAGACCAGCAGATTGCCAGTTCCTAATCGTGGCTCGgtgagtaaaggttcagggaggtcacataggtgcactaaaccttactctgg #### Mta2_ID2535_8 --> 1 - 0 Original Alignment aGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGC-AGCTCAATT------CGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGAT---ATCACTCTG gctaatgtggcatccaatatgaagaatcgactttttttttttctatgtagtGCTGTGAGCACTTTTGTACGAGCTCTAGATTGCAATCTGCTCCATTTCTATTCAAAAGTCCAGCT-GCATATGAGTGCA------GCTACCACAGGTATTATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from CESAR aGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGC------------AGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gctaatgtggcatccaatatgaagaatcgactttttttttttctatgtagtGCTGTGAGCACTTTTGTACGAGCTCTAGATTGCAATCTGCTCCATTTCTATTCAAAAGTCCAG------CTGCATATGAGTGCAGCTACCACAGGT---ATTATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from Spaln_aa2Genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGC------AGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gctaatgtggcatccaatatgaagaatcgactttttttttttctatgtagTGCTGTGAGCACTTTTGTACGAGCTCTAGATTGCAATCTGCTCCATTTCTATTCAAAAGTCCAGCTGCATATGAGTGCAGCTACCACAGGTATT---ATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from Spaln_nt2Genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAG-------CAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gctaatgtggcatccaatatgaagaatcgactttttttttttctatgtagTGCTGTGAGCACTTTTGTACGAGCTCTAGATTGCAATCTGCTCCATTTCTATTCAAAAGTCCAGC-TGCATATGAGTGCA---GCTACCACAGGTATTATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from Pairagon AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAG-------------------------CAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGA----------TATCACTCTG gctaatgtggcatccaatatgaagaatcgactttttttttttctatgtagTGCTGTGAGCACTTTTGTACGAGCTCTAGATTGCAATCTGCTCCATTTCTATTCAAAAGTCCAGC-------------------TGCATATGAGTGCAGCT-------------ACCACAGGTATTATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from Exonerate_protein2genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGAT---ATCACTCTG gctaatgtggcatccaatatgaagaatcgactttttttttttctatgtagTGCTGTGAGCACTTTTGTACGAGCTCTAGATTGCAATCTGCTCCATTTCTATTCAAAAGTCCAGCTGCATATGAGTGCAGCTACCACAGGTATTATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from Exonerate_coding2genome gctaatgtggcatccaatatgaagaatcgactttttttttttctatgtagtgctgtgagcacttttgtacgagctctagattgcaatctgctccatttctattcaaaagtccagctgcatatgagtgcagctaccacaggtattatcaccctggtaagtaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from GeneWise AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGC------AGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gctaatgtggcatccaatatgaagaatcgactttttttttttctatgtagTGCTGTGAGCACTTTTGTACGAGCTCTAGATTGCAATCTGCTCCATTTCTATTCAAAAGTCCAGCTGCATATGAGTGCAGCTACCACAGGTATT---ATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagagtggagta #### Mta2_ID2536_9 --> 0 - 0 Original Alignment TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCC-AAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT agggtaaaaagaacatcaaaaccctcaaagactgtatcacttctctgtagTTTCATGCTATGGATACCTTGCAAAAGAATGGATATGACCTAGCCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGTC-AGTTCTTTGTCAAGATGAGATGGGAGAATGGTCTGCTTCAGAAGCCATGCTAGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTTAATGACATCCGCCAAGACTTTgtgagtgatcaagaccaaggagtgaaagaacaatgatgatactgaaaaga Alignment from CESAR TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCC-AAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT agggtaaaaagaacatcaaaaccctcaaagactgtatcacttctctgtagTTTCATGCTATGGATACCTTGCAAAAGAATGGATATGACCTAGCCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGTC-AGTTCTTTGTCAAGATGAGATGGGAGAATGGTCTGCTTCAGAAGCCATGCTAGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTTAATGACATCCGCCAAGACTTTgtgagtgatcaagaccaaggagtgaaagaacaatgatgatactgaaaaga Alignment from Spaln_aa2Genome TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT agggtaaaaagaacatcaaaaccctcaaagactgtatcacttctctgtagTTTCATGCTATGGATACCTTGCAAAAGAATGGATATGACCTAGCCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGTCAGTTCTTTGTCAAGATGAGATGGGAGAATGGTCTGCTTCAGAAGCCATGCTAGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTTAATGACATCCGCCAAGACTTTgtgagtgatcaagaccaaggagtgaaagaacaatgatgatactgaaaaga Alignment from Spaln_nt2Genome TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCC-AAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT agggtaaaaagaacatcaaaaccctcaaagactgtatcacttctctgtagTTTCATGCTATGGATACCTTGCAAAAGAATGGATATGACCTAGCCCAAGGCTATGTCAACTCTAGTACCACAGGGAGG-TCAGTTCTTTGTCAAGATGAGATGGGAGAATGGTCTGCTTCAGAAGCCATGCTAGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTTAATGACATCCGCCAAGACTTTgtgagtgatcaagaccaaggagtgaaagaacaatgatgatactgaaaaga Alignment from Pairagon TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGG-CCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT agggtaaaaagaacatcaaaaccctcaaagactgtatcacttctctgtagTTTCATGCTATGGATACCTTGCAAAAGAATGGATATGACCTAGCCCAAGGCTATGTCAACTCTAGTACCACAGGGAGG-TCAGTTCTTTGTCAAGATGAGATGGGAGAATGGTCTGCTTCAGAAGCCATGCTAGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTTAATGACATCCGCCAAGACTTTgtgagtgatcaagaccaaggagtgaaagaacaatgatgatactgaaaaga Alignment from Exonerate_protein2genome TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT agggtaaaaagaacatcaaaaccctcaaagactgtatcacttctctgtagTTTCATGCTATGGATACCTTGCAAAAGAATGGATATGACCTAGCCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGTCAGTTCTTTGTCAAGATGAGATGGGAGAATGGTCTGCTTCAGAAGCCATGCTAGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTTAATGACATCCGCCAAGACTTTgtgagtgatcaagaccaaggagtgaaagaacaatgatgatactgaaaaga Alignment from Exonerate_coding2genome TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT agggtaaaaagaacatcaaaaccctcaaagactgtatcacttctctgtagTTTCATGCTATGGATACCTTGCAAAAGAATGGATATGACCTAGCCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGTCAGTTCTTTGTCAAGATGAGATGGGAGAATGGTCTGCTTCAGAAGCCATGCTAGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTTAATGACATCCGCCAAGACTTTgtgagtgatcaagaccaaggagtgaaagaacaatgatgatactgaaaaga Alignment from GeneWise TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT agggtaaaaagaacatcaaaaccctcaaagactgtatcacttctctgtagTTTCATGCTATGGATACCTTGCAAAAGAATGGATATGACCTAGCCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGTCAGTTCTTTGTCAAGATGAGATGGGAGAATGGTCTGCTTCAGAAGCCATGCTAGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTTAATGACATCCGCCAAGACTTTgtgagtgatcaagaccaaggagtgaaagaacaatgatgatactgaaaaga #### Mta2_ID2537_10 --> 0 - 0 Original Alignment CTACCCTGGAAGTCA-CTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG aaaagacaagacggaccaattgaacactcggattctttttgtgtctccagCTACCCTGGAAGTCACCTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCA-AGACCGGTATATTCAGCAGgtaggtggcaggataagcaaggaccagaatcaaaggcggtcatgagcctg Alignment from CESAR CTACCCTGGAAGTCA-CTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG aaaagacaagacggaccaattgaacactcggattctttttgtgtctccagCTACCCTGGAAGTCACCTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACC-AAGACCGGTATATTCAGCAGgtaggtggcaggataagcaaggaccagaatcaaaggcggtcatgagcctg Alignment from Spaln_aa2Genome CTACCCTGGAAGTCA-CTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG aaaagacaagacggaccaattgaacactcggattctttttgtgtctccagCTACCCTGGAAGTCAcCTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCAA-GACCGGTATATTCAGCAGgtaggtggcaggataagcaaggaccagaatcaaaggcggtcatgagcctg Alignment from Spaln_nt2Genome CTACCCTGGAAGTCA-CTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG aaaagacaagacggaccaattgaacactcggattctttttgtgtctccagCTACCCTGGAAGTCACCTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCA-AGACCGGTATATTCAGCAGgtaggtggcaggataagcaaggaccagaatcaaaggcggtcatgagcctg Alignment from Pairagon CTACCCTGGAAGTCA-CTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG aaaagacaagacggaccaattgaacactcggattctttttgtgtctccagCTACCCTGGAAGTCACCTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCA-AGACCGGTATATTCAGCAGgtaggtggcaggataagcaaggaccagaatcaaaggcggtcatgagcctg Alignment from Exonerate_protein2genome CTACCCTGGAAGTCA-CTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACC--ACAGACCGGTATATTCAGCAG aaaagacaagacggaccaattgaacactcggattctttttgtgtctccagCTACCCTGGAAGTCACCTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCAA---GACCGGTATATTCAGCAGgtaggtggcaggataagcaaggaccagaatcaaaggcggtcatgagcctg Alignment from Exonerate_coding2genome CTACCCTGGAAGTCA-CTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCA aaaagacaagacggaccaattgaacactcggattctttttgtgtctccagCTACCCTGGAAGTCACCTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCAAGACCGGTATATTCAGCAGgtaggtggcaggataagcaaggaccagaatcaaaggcggtcatgagcctg Alignment from GeneWise CTACCCTGGAAG-TCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG aaaagacaagacggaccaattgaacactcggattctttttgtgtctccagCTACCCTGGAAGTCACCTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCAA-GACCGGTATATTCAGCAGgtaggtggcaggataagcaaggaccagaatcaaaggcggtcatgagcctg #### Mta2_ID2539_12 --> 1 - 1 Original Alignment tACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAA-CCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACa atcatggtaggagaaagtcaagtggtcttaaactatttgtttttatgcagtACGAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCGAAGCCCTGGCATGAATGGGGCTGGATTCCAGAAAG-ACTGACTTGTGAGAGCTGTCATagtgtcatactcatctggcatacccttactattagatattcatggtttgtt Alignment from CESAR tACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAA-CCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACa atcatggtaggagaaagtcaagtggtcttaaactatttgtttttatgcagtACGAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCGAAGCCCTGGCATGAATGGGGCTGGATTCCAGAAAG-ACTGACTTGTGAGAGCTGTCATagtgtcatactcatctggcatacccttactattagatattcatggtttgtt Alignment from Spaln_aa2Genome TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA atcatggtaggagaaagtcaagtggtcttaaactatttgtttttatgcagTACGAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCGAAGCCCTGGCATGAATGGGGCTGGATTCCAGAAAGACTGACTTGTGAGAGCTGTCATAgtgtcatactcatctggcatacccttactattagatattcatggtttgtt Alignment from Spaln_nt2Genome TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTC-AAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA atcatggtaggagaaagtcaagtggtcttaaactatttgtttttatgcagTACGAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCGAAGCCCTGGCATGAATGGGGCTGGATTCCAGAA-AGACTGACTTGTGAGAGCTGTCATAgtgtcatactcatctggcatacccttactattagatattcatggtttgtt Alignment from Pairagon TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAA-CCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA atcatggtaggagaaagtcaagtggtcttaaactatttgtttttatgcagTACGAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCGAAGCCCTGGCATGAATGGGGCTGGATTCCAGAAAGA-CTGACTTGTGAGAGCTGTCATAgtgtcatactcatctggcatacccttactattagatattcatggtttgtt Alignment from Exonerate_protein2genome TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA atcatggtaggagaaagtcaagtggtcttaaactatttgtttttatgcagTACGAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCGAAGCCCTGGCATGAATGGGGCTGGATTCCAGAAAGACTGACTTGTGAGAGCTGTCATAgtgtcatactcatctggcatacccttactattagatattcatggtttgtt Alignment from Exonerate_coding2genome TTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTTATACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA ATCATGGTAGGAGAAAGTCAAGTGGTCTTAAACTATTTGTTTTTATGCAGT---ACGAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCGAAGCCCTGGCATGAATGGGGCTGGATTCCAGAAAGACTGACTTGTGAGAGCTGTCATAgtgtcatactcatctggcatacccttactattagatattcatggtttgtt Alignment from GeneWise TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA atcatggtaggagaaagtcaagtggtcttaaactatttgtttttatgcagTACGAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCGAAGCCCTGGCATGAATGGGGCTGGATTCCAGAAAGACTGACTTGTGAGAGCTGTCATAgtgtcatactcatctggcatacccttactattagatattcatggtttgtt #### Mta2_ID2540_13 --> 2 - 0 Original Alignment ccACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCT-AACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactataatacagcaattcctttattggtttgtttttctcccatagcaACACAGTCTGCACAGTGGTATGCCTGGGGACCACCCCAATATGCAGTACCGACTTTGTGCTTCTTGTTGGGTTTATTGGA-GACATATGGAGGCTTGAAAACTCCTACCCAGCTAGAAGGAGCAGCTCGGATAACAACGgtgggcgtgagtgtgttgggaactagcatgagaattgaaccaaaggagaa Alignment from CESAR ccACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCT-AACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactataatacagcaattcctttattggtttgtttttctcccatagcaACACAGTCTGCACAGTGGTATGCCTGGGGACCACCCCAATATGCAGTACCGACTTTGTGCTTCTTGTTGGGTTTATTGGAGA-CATATGGAGGCTTGAAAACTCCTACCCAGCTAGAAGGAGCAGCTCGGATAACAACGgtgggcgtgagtgtgttgggaactagcatgagaattgaaccaaaggagaa Alignment from Spaln_aa2Genome CCACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactataatacagcaattcctttattggtttgtttttctcccatagCAACACAGTCTGCACAGTGGTATGCCTGGGGACCACCCCAATATGCAGTACCGACTTTGTGCTTCTTGTTGGGTTTATTGGAGACATATGGAGGCTTGAAAACTCCTACCCAGCTAGAAGGAGCAGCTCGGATAACAACGgtgggcgtgagtgtgttgggaactagcatgagaattgaaccaaaggagaa Alignment from Spaln_nt2Genome CCACACAGTCTGCCCAGTGGTATGCCTGGGGACC-CCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactataatacagcaattcctttattggtttgtttttctcccatagCAACACAGTCTGCACAGTGGTATGCCTGGGGACCACCCCAATATGCAGTACCGACTTTGTGCTTCTTGTTGGGTTTATTGG-AGACATATGGAGGCTTGAAAACTCCTACCCAGCTAGAAGGAGCAGCTCGGATAACAACGgtgggcgtgagtgtgttgggaactagcatgagaattgaaccaaaggagaa Alignment from Pairagon CCACACAGTCTGCCCAGTGGTATGCCTGGGGACC-CCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCG------------GGGC gaatcactataatacagcaattcctttattggtttgtttttctcccatagCAACACAGTCTGCACAGTGGTATGCCTGGGGACCACCCCAATATGCAGTACCGACTTTGTGCTTCTTGTTGGGTTTATTGG-AGACATATGGAGGCTTGAAAACTCCTACCCAGCTAGAAGGAGCAGCTCGGATAACAACGGTGGGCgtgagtgtgttgggaactagcatgagaattgaaccaaaggagaa Alignment from Exonerate_protein2genome CCACACAGTCTGCCCAGTGGTATGCCTGGGGACCC-CCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAG--AAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactataatacagcaattcctttattggtttgtttttctcccatagCAACACAGTCTGCACAGTGGTATGCCTGGGGACCACCCCAATATGCAGTACCGACTTTGTGCTTCTTGTTGGGTTTATTGGAGACA---TATGGAGGCTTGAAAACTCCTACCCAGCTAGAAGGAGCAGCTCGGATAACAACGgtgggcgtgagtgtgttgggaactagcatgagaattgaaccaaaggagaa Alignment from Exonerate_coding2genome CCACACAGTCTGCCCAGTGGTATGCCTGGGGACCC-CCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAG--AAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactataatacagcaattcctttattggtttgtttttctcccatagCAACACAGTCTGCACAGTGGTATGCCTGGGGACCACCCCAATATGCAGTACCGACTTTGTGCTTCTTGTTGGGTTTATTGGAGACA---TATGGAGGCTTGAAAACTCCTACCCAGCTAGAAGGAGCAGCTCGGATAACAACGgtgggcgtgagtgtgttgggaactagcatgagaattgaaccaaaggagaa Alignment from GeneWise CCACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCT-AACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactataatacagcaattcctttattggtttgtttttctcccatagCAACACAGTCTGCACAGTGGTATGCCTGGGGACCACCCCAATATGCAGTACCGACTTTGTGCTTCTTGTTGGGTTTATTGGAGACA-TATGGAGGCTTGAAAACTCCTACCCAGCTAGAAGGAGCAGCTCGGATAACAACGgtgggcgtgagtgtgttgggaactagcatgagaattgaaccaaaggagaa #### Mta2_ID2542_15 --> 2 - 1 Original Alignment gcTCGATCCGACTTCCTAAG-GCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGg tgctggtaaccctggagatccttctctcataccctgccttctccccacaggcTCAATCCGACTTCCTAAGCTCTGCCAAGACTCCATTGAAAATTCACCCTCTTGTGC-GCTGCCCTTGGCAACTATCATCAAAGATCTGggtaagaaggatgacattttcaagccaggtcagtgtccttcctgtctgacc Alignment from CESAR gcTCGATCCGACTTCCTAAG-GCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGg tgctggtaaccctggagatccttctctcataccctgccttctccccacaggcTCAATCCGACTTCCTAAGCTCTGCCAAGACTCCATTGAAAATTCACCCTCTTGTGC-GCTGCCCTTGGCAACTATCATCAAAGATCTGggtaagaaggatgacattttcaagccaggtcagagcccctttctttgtttg Alignment from Spaln_aa2Genome GCTCGATCCGACTTCCTAAG-GCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG tgctggtaaccctggagatccttctctcataccctgccttctccccacagGCTCAATCCGACTTCCTAAGcTCTGCCAAGACTCCATTGAAAATTCACCCTCTTGTGCGCTGCCC-TTGGCAACTATCATCAAAGATCTGGgtaagaaggatgacattttcaagccaggtcagtgtccttcctgtctgacc Alignment from Spaln_nt2Genome GCTCGATCCGACTTCCTAAGG-CTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG tgctggtaaccctggagatccttctctcataccctgccttctccccacagGCTCAATCCGACTTCCTAAGCTCTGCCAAGACTCCATTGAAAATTCACCCTCTTGTGC-GCTGCCCTTGGCAACTATCATCAAAGATCTGGgtaagaaggatgacattttcaagccaggtcagtgtccttcctgtctgacc Alignment from Pairagon GCTCGATCCGACTTCCTAAGG-CTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG tgctggtaaccctggagatccttctctcataccctgccttctccccacagGCTCAATCCGACTTCCTAAGCTCTGCCAAGACTCCATTGAAAATTCACCCTCTTGTGC-GCTGCCCTTGGCAACTATCATCAAAGATCTGGgtaagaaggatgacattttcaagccaggtcagtgtccttcctgtctgacc Alignment from Exonerate_protein2genome GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG tgctggtaaccctggagatccttctctcataccctgccttctccccacagGCTCAATCCGACTTCCTAAGCTCTGCCAAGACTCCATTGAAAATTCACCCTCTTGTGCGCTGCCCTTGGCAACTATCATCAAAGATCTGGgtaagaaggatgacattttcaagccaggtcagtgtccttcctgtctgacc Alignment from Exonerate_coding2genome GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG tgctggtaaccctggagatccttctctcataccctgccttctccccacagGCTCAATCCGACTTCCTAAGCTCTGCCAAGACTCCATTGAAAATTCACCCTCTTGTGCGCTGCCCTTGGCAACTATCATCAAAGATCTGGgtaagaaggatgacattttcaagccaggtcagtgtccttcctgtctgacc Alignment from GeneWise GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTG--------------------------------------------------- tgctggtaaccctggagatccttctctcataccctgccttctccccacagGCTCAATCCGACTTCCTAAGCTCTGCCAAGACTCCATTGAAAATTCACCCTCTTGTGCGCTGCCCTTGGCAACTATCATCAAAGATCTGGGTAAGAAGGATGACATTTTCAAGCCAGGTCAGTGTCCTTCCTGTCTGACC #### Mta2_ID2543_16 --> 2 - 0 Original Alignment tgGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACA-CCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT ggaggatgacattttcaagccaggtcagagcccctttctttgtttggcaggtGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCCAATCAACAGAAACCAACTGACCCAGAATCGAG-CCTGGGGGGAATTATGGTGAAACGTTCATATGAGACAgtgagctgaccagaataaaagcatactagtaattaccttacttttttaat Alignment from CESAR tgGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACA-CCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gaaggatgacattttcaagccaggtcagagcccctttctttgtttggcaggtGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCCAATCAACAGAAACCAACTGACCCAGAATC-GAGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACAgtgagctgaccagaataaaagcatactagtaattaccttacttttttaat Alignment from Spaln_aa2Genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT ggaggatgacattttcaagccaggtcagagcccctttctttgtttggcagGTGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCCAATCAACAGAAACCAACTGACCCAGAATCGAGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACAgtgagctgaccagaataaaagcatactagtaattaccttacttttttaat Alignment from Spaln_nt2Genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACC-AATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT ggaggatgacattttcaagccaggtcagagcccctttctttgtttggcagGTGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCCAATCAACAGAAACCAACTGACCCAGAATCGAGC-CTGGGGGGAATTATGGTGAAACGTTCATATGAGACAgtgagctgaccagaataaaagcatactagtaattaccttacttttttaat Alignment from Pairagon TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACA-CCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT ggaggatgacattttcaagccaggtcagagcccctttctttgtttggcagGTGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCCAATCAACAGAAACCAACTGACCCAGAATCGA-GCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACAgtgagctgaccagaataaaagcatactagtaattaccttacttttttaat Alignment from Exonerate_protein2genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT ggaggatgacattttcaagccaggtcagagcccctttctttgtttggcagGTGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCCAATCAACAGAAACCAACTGACCCAGAATCGAGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACAgtgagctgaccagaataaaagcatactagtaattaccttacttttttaat Alignment from Exonerate_coding2genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT ggaggatgacattttcaagccaggtcagagcccctttctttgtttggcagGTGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCCAATCAACAGAAACCAACTGACCCAGAATCGAGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACAgtgagctgaccagaataaaagcatactagtaattaccttacttttttaat Alignment from GeneWise -------------------------------------------------GTGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT GGAGGATGACATTTTCAAGCCAGGTCAGAGCCCCTTTCTTTGTTTGGCAGGTGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCCAATCAACAGAAACCAACTGACCCAGAATCGAGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACAgtgagctgaccagaataaaagcatactagtaattaccttacttttttaat #### Mta2_ID2544_17 --> 0 - 2 Original Alignment ATGGCAGGGGCA-GGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCag taaattaccgaccacatccagggatggctgttctggtttgactttgtcagATGGCAGGTGCGCGGGGTCCCCTTCTCTGTGAATGGGAGGCCCCTGGCTT-AGGGATTCGTTCAAGTTCCCAGCCAGCAGCCAAGCGTCAGAAATTAAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGACGCCaggtaatgaatgagcgaaccaagagaggctggtaacctcactgtatgtagaa Alignment from CESAR ATGGCAGGGGCA-GGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCag taaattaccgaccacatccagggatggctgttctggtttgactttgtcagATGGCAGGTGCGCGGGGTCCCCTTCTCTGTGAATGGGAGGCCCCTGGCT-TAGGGATTCGTTCAAGTTCCCAGCCAGCAGCCAAGCGTCAGAAATTAAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGACGCCaggtaatgaatgagcgaaccaagagaggctggtaacctcactgtatgtagaa Alignment from Spaln_aa2Genome ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG taaattaccgaccacatccagggatggctgttctggtttgactttgtcagatggcagGTG------CGCGGGGTCCCCTTCTCTGTGAATGGGAGGCCCCTGGCTTA-GGGATTCGTTCAAGTTCCCAGCCAGCAGCCAAGCGTCAGAAATTAAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGACGCCAGgtaatgaatgagcgaaccaagagaggctggtaacctcactgtatgtagaa Alignment from Spaln_nt2Genome ATGGCAGGGGCA-GGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG taaattaccgaccacatccagggatggctgttctggtttgactttgtcagATGGCAGGTGCGCGGGGTCCCCTTCTCTGTGAATGGGAGGCCCCTGGCTT-AGGGATTCGTTCAAGTTCCCAGCCAGCAGCCAAGCGTCAGAAATTAAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGACGCCAGgtaatgaatgagcgaaccaagagaggctggtaacctcactgtatgtagaa Alignment from Pairagon ATGGCAGGGGCA-GGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG taaattaccgaccacatccagggatggctgttctggtttgactttgtcagATGGCAGGTGCGCGGGGTCCCCTTCTCTGTGAATGGGAGGCCCCTGGCTT-AGGGATTCGTTCAAGTTCCCAGCCAGCAGCCAAGCGTCAGAAATTAAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGACGCCAGgtaatgaatgagcgaaccaagagaggctggtaacctcactgtatgtagaa Alignment from Exonerate_protein2genome ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG taaattaccgaccacatccagggatggctgttctggtttgactttgtcagATGGCAGGTGCGCGGGGTCCCCTTCTCTGTGAATGGGAGGCCCCTGGCTTAGGGATTCGTTCAAGTTCCCAGCCAGCAGCCAAGCGTCAGAAATTAAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGACGCCAGgtaatgaatgagcgaaccaagagaggctggtaacctcactgtatgtagaa Alignment from Exonerate_coding2genome ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG taaattaccgaccacatccagggatggctgttctggtttgactttgtcagATGGCAGGTGCGCGGGGTCCCCTTCTCTGTGAATGGGAGGCCCCTGGCTTAGGGATTCGTTCAAGTTCCCAGCCAGCAGCCAAGCGTCAGAAATTAAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGACGCCAGgtaatgaatgagcgaaccaagagaggctggtaacctcactgtatgtagaa Alignment from GeneWise ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG taaattaccgaccacatccagggatggctgttctggtttgactttgtcagATGGCAGGTGCGCGGGGTCCCCTTCTCTGTGAATGGGAGGCCCCTGGCTTAGGGATTCGTTCAAGTTCCCAGCCAGCAGCCAAGCGTCAGAAATTAAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGACGCCAGgtaatgaatgagcgaaccaagagaggctggtaacctcactgtatgtagaa #### Myrf_ID2720_17 --> 0 - 2 Original Alignment TCATCGCCAGCGGTCCCAGACCAGGCCTGC-ATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCag atgggcatcttgagtctatatagtgcaatgtaaatactgtctaattctagTCATCATCTGCAGTCCCAGACCAAGCCTGCCATCAGTCAGCATTTTCTACAGGGGACAATCATAGCTC-TGTAGTAGTGATGGCCTTCaggtaagccgctttaccaagctgagtccctaaaagtgccatacaattgtgta Alignment from CESAR TCATCGCCAGCGGTCCCAGACCAGGCCTGC-ATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCag atgggcatcttgagtctatatagtgcaatgtaaatactgtctaattctagTCATCATCTGCAGTCCCAGACCAAGCCTGCCATCAGTCAGCATTTTCTACAGGGGACAATCATAGCTC-TGTAGTAGTGATGGCCTTCaggtaagccgctttaccaagctgagtccctaaaagtgccatacaattgtgta Alignment from Spaln_aa2Genome TCATCGCCAGCGGTCCCAGACCAGGCCTGC-ATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAG atgggcatcttgagtctatatagtgcaatgtaaatactgtctaattctagTCATCATCTGCAGTCCCAGACCAAGCCTGCcATCAGTCAGCATTTTCTACAGGGGACAATCATAGCTCTGTA-GTAGTGATGGCCTTCAGgtaagccgctttaccaagctgagtccctaaaagtgccatacaattgtgta Alignment from Spaln_nt2Genome TCATCGCCAGCGGTCCCAGACCAGGCCTGC-ATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAG atgggcatcttgagtctatatagtgcaatgtaaatactgtctaattctagTCATCATCTGCAGTCCCAGACCAAGCCTGCCATCAGTCAGCATTTTCTACAGGGGACAATCATAGCTCT-GTAGTAGTGATGGCCTTCAGgtaagccgctttaccaagctgagtccctaaaagtgccatacaattgtgta Alignment from Pairagon TCATCGCCAGCGGTCCCAGACCAGGCCTG-CATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAG atgggcatcttgagtctatatagtgcaatgtaaatactgtctaattctagTCATCATCTGCAGTCCCAGACCAAGCCTGCCATCAGTCAGCATTTTCTACAGGGGACAATCATAGCTCT-GTAGTAGTGATGGCCTTCAGgtaagccgctttaccaagctgagtccctaaaagtgccatacaattgtgta Alignment from Exonerate_protein2genome TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAG atgggcatcttgagtctatatagtgcaatgtaaatactgtctaattctagTCATCATCTGCAGTCCCAGACCAAGCCTGCCATCAGTCAGCATTTTCTACAGGGGACAATCATAGCTCTGTAGTAGTGATGGCCTTCAGgtaagccgctttaccaagctgagtccctaaaagtgccatacaattgtgta Alignment from Exonerate_coding2genome TCATCGCCAGCGGTCCCAGACCAGGCCTGC-ATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTG atgggcatcttgagtctatatagtgcaatgtaaatactgtctaattctagTCATCATCTGCAGTCCCAGACCAAGCCTGCCATCAGTCAGCATTTTCTACAGGGGACAATCATAGCTCTGtagtagtgatggccttcaggtaagccgctttaccaagctgagtccctaaaagtgccatacaattgtgta Alignment from GeneWise TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAG atgggcatcttgagtctatatagtgcaatgtaaatactgtctaattctagTCATCATCTGCAGTCCCAGACCAAGCCTGCCATCAGTCAGCATTTTCTACAGGGGACAATCATAGCTCTGTAGTAGTGATGGCCTTCAGgtaagccgctttaccaagctgagtccctaaaagtgccatacaattgtgta #### Myrf_ID2724_13 --> 0 - 1 Original Alignment GTGGACACCACC-GAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAg cctaaggtcactgtgcctatagactaattcctgacccactccttccgcagGTTGATACCACCCGAACACCTAAAGAGGATCTCACGGACACGTCTAGTGC-CTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCACCAGAGACAggtgagtatgtgtgtaagggttcctaactatgcctggcttttccttgctat Alignment from CESAR GTGGACACCACC-GAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAg cctaaggtcactgtgcctatagactaattcctgacccactccttccgcagGTTGATACCACCCGAACACCTAAAGAGGATCTCACGGACACGTCTAGTG-CCTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCACCAGAGACAggtgagtatgtgtgtaagggttcctaactatgcctggcttttccttgctat Alignment from Spaln_aa2Genome CCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG cctaaggtcactgtgcctatagactaattcctgacccactccttccgcaggttgatacCACCCGAACACCTAAAGAGGATCTCACGGACACGTCTAGTGCC-TACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCACCAGAGACAGgtgagtatgtgtgtaagggttcctaactatgcctggcttttccttgctat Alignment from Spaln_nt2Genome GTGGACACCACC-GAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG cctaaggtcactgtgcctatagactaattcctgacccactccttccgcagGTTGATACCACCCGAACACCTAAAGAGGATCTCACGGACACGTCTAGTGC-CTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCACCAGAGACAGgtgagtatgtgtgtaagggttcctaactatgcctggcttttccttgctat Alignment from Pairagon GTGGACACCA-CCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG cctaaggtcactgtgcctatagactaattcctgacccactccttccgcagGTTGATACCACCCGAACACCTAAAGAGGATCTCACGGACACGTCTAGTGC-CTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCACCAGAGACAGgtgagtatgtgtgtaagggttcctaactatgcctggcttttccttgctat Alignment from Exonerate_protein2genome GTGGACACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG cctaaggtcactgtgcctatagactaattcctgacccactccttccgcagGTTGATACCACCCGAACACCTAAAGAGGATCTCACGGACACGTCTAGTGCCTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCACCAGAGACAGgtgagtatgtgtgtaagggttcctaactatgcctggcttttccttgctat Alignment from Exonerate_coding2genome GTGGACACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG cctaaggtcactgtgcctatagactaattcctgacccactccttccgcagGTTGATACCACCCGAACACCTAAAGAGGATCTCACGGACACGTCTAGTGCCTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCACCAGAGACAGgtgagtatgtgtgtaagggttcctaactatgcctggcttttccttgctat Alignment from GeneWise GTGGACACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG cctaaggtcactgtgcctatagactaattcctgacccactccttccgcagGTTGATACCACCCGAACACCTAAAGAGGATCTCACGGACACGTCTAGTGCCTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCACCAGAGACAGgtgagtatgtgtgtaagggttcctaactatgcctggcttttccttgctat #### Myrf_ID2726_11 --> 1 - 0 Original Alignment gTATTTCATGCTGGTGGTGGCCCTCCAG-GCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG atgggacaatgggtataggtatccctgaggtgctgtttgtttctttccaggTATTTCATGCTGGTGGTTGCCCTCCAACGCACATGCACAGAACCAAAATTACACCCTGG-AGCCCAGATTTCAGAGCGTATCATTGTGCGGgtaagaaccatgcctacaccctagcagtccagattccaaggcatgtcatt Alignment from CESAR gTATTTCATGCTGGTGGTGGCCCTCCAG-GCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG atgggacaatgggtataggtatccctgaggtgctgtttgtttctttccaggTATTTCATGCTGGTGGTTGCCCTCCAACGCACATGCACAGAACCAAAATTACACCCTG-GAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtaagaaccatgcctacaccctagcagtccagattccaaggcatgtcatt Alignment from Spaln_aa2Genome GTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG atgggacaatgggtataggtatccctgaggtgctgtttgtttctttccagGTATTTCATGCTGGTGGTTGCCCTCCAACGCACATGCACAGAACCAAAATTACACCCTGGAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtaagaaccatgcctacaccctagcagtccagattccaaggcatgtcatt Alignment from Spaln_nt2Genome GTATTTCATGCTGGTGGTGGCCCTCCAG-GCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG atgggacaatgggtataggtatccctgaggtgctgtttgtttctttccagGTATTTCATGCTGGTGGTTGCCCTCCAACGCACATGCACAGAACCAAAATTACACCCTGG-AGCCCAGATTTCAGAGCGTATCATTGTGCGGgtaagaaccatgcctacaccctagcagtccagattccaaggcatgtcatt Alignment from Pairagon GTATTTCATGCTGGTGGTGGCCCTCCAG-GCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG atgggacaatgggtataggtatccctgaggtgctgtttgtttctttccagGTATTTCATGCTGGTGGTTGCCCTCCAACGCACATGCACAGAACCAAAATTACACCCTGG-AGCCCAGATTTCAGAGCGTATCATTGTGCGGgtaagaaccatgcctacaccctagcagtccagattccaaggcatgtcatt Alignment from Exonerate_protein2genome GTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG atgggacaatgggtataggtatccctgaggtgctgtttgtttctttccagGTATTTCATGCTGGTGGTTGCCCTCCAACGCACATGCACAGAACCAAAATTACACCCTGGAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtaagaaccatgcctacaccctagcagtccagattccaaggcatgtcatt Alignment from Exonerate_coding2genome GTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG atgggacaatgggtataggtatccctgaggtgctgtttgtttctttccagGTATTTCATGCTGGTGGTTGCCCTCCAACGCACATGCACAGAACCAAAATTACACCCTGGAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtaagaaccatgcctacaccctagcagtccagattccaaggcatgtcatt Alignment from GeneWise GTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG atgggacaatgggtataggtatccctgaggtgctgtttgtttctttccagGTATTTCATGCTGGTGGTTGCCCTCCAACGCACATGCACAGAACCAAAATTACACCCTGGAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtaagaaccatgcctacaccctagcagtccagattccaaggcatgtcatt #### Myrf_ID2732_6 --> 1 - 1 Original Alignment aCTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCC-TTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAg aatgaaggaccaatgtttcctgcaatccctccctacttttgttcttttagaCTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTTACAACCTTACCACTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTTTCACCTGGTACTGGATCTCTTGCCCCTCAGTACTGCCCGGGCTCAAACTC-ACCTTGGCACCCACCAGGTGCACCCTCTCCTggtaaggagaccaaagtagactggataaccatgcagatttagtctggtccc Alignment from CESAR aCTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCC-TTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAg aatgaaggaccaatgtttcctgcaatccctccctacttttgttcttttagaCTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTTACAACCTTACCACTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTTTCACCTGGTACTGGATCTCTTGCCCCTCAGTACTGCCCGGGCTCAAA-CTCACCTTGGCACCCACCAGGTGCACCCTCTCCTggtaaggagaccaaagtagactggataaccatgcagatttagtttcctgtt Alignment from Spaln_aa2Genome ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG aatgaaggaccaatgtttcctgcaatccctccctacttttgttcttttagACTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTTACAACCTTACCACTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTTTCACCTGGTACTGGATCTCTTGCCCCTCAGTACTGCCCGGGCTCAAACTCACCTTGGCACCCACCAGGTGCACCCTCTCCTGgtaaggagaccaaagtagactggataaccatgcagatttagtctggtccc Alignment from Spaln_nt2Genome ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATC-CTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG aatgaaggaccaatgtttcctgcaatccctccctacttttgttcttttagACTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTTACAACCTTACCACTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTTTCACCTGGTACTGGATCTCTTGCCCCTCAGTACTGCCCGGGCTCAAACT-CACCTTGGCACCCACCAGGTGCACCCTCTCCTGgtaaggagaccaaagtagactggataaccatgcagatttagtctggtccc Alignment from Pairagon ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATC-CTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG aatgaaggaccaatgtttcctgcaatccctccctacttttgttcttttagACTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTTACAACCTTACCACTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTTTCACCTGGTACTGGATCTCTTGCCCCTCAGTACTGCCCGGGCTCAAACT-CACCTTGGCACCCACCAGGTGCACCCTCTCCTGgtaaggagaccaaagtagactggataaccatgcagatttagtctggtccc Alignment from Exonerate_protein2genome ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG aatgaaggaccaatgtttcctgcaatccctccctacttttgttcttttagACTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTTACAACCTTACCACTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTTTCACCTGGTACTGGATCTCTTGCCCCTCAGTACTGCCCGGGCTCAAACTCACCTTGGCACCCACCAGGTGCACCCTCTCCTGgtaaggagaccaaagtagactggataaccatgcagatttagtctggtccc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG aatgaaggaccaatgtttcctgcaatccctccctacttttgttcttttagACTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTTACAACCTTACCACTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTTTCACCTGGTACTGGATCTCTTGCCCCTCAGTACTGCCCGGGCTCAAACTCACCTTGGCACCCACCAGGTGCACCCTCTCCTGgtaaggagaccaaagtagactggataaccatgcagatttagtctggtccc #### Naa40_ID2074_6 --> 1 - 2 Original Alignment cTATGAAGTGCAGCTGGAAAGCAAG-GTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACag ttacatctctccatggtgtccaggtacttcccttgtgctcactgactcagcTACGAAGTACAGCTAGAAAGCAAGCGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCA-TCAGATTCTCCAGCTAATGGCCAATaggtaagcagcatcttggaagaattgacttgctggaggttggacctgagaat Alignment from CESAR cTATGAAGTGCAGCTGGAAAGCAAG-GTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACag ttacatctctccatggtgtccaggtacttcccttgtgctcactgactcagcTACGAAGTACAGCTAGAAAGCAAGCGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCA-TCAGATTCTCCAGCTAATGGCCAATaggtaagcagcatcttggaagaattgacttgctggaggttggacctgagaat Alignment from Spaln_aa2Genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAG ttacatctctccatggtgtccaggtacttcccttgtgctcactgactcagCTACGAAGTACAGCTAGAAAGCAAGCGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATCAGATTCTCCAGCTAATGGCCAATAGgtaagcagcatcttggaagaattgacttgctggaggttggacctgagaat Alignment from Spaln_nt2Genome CTATGAAGTGCAGCTGGAAAGCAAG-GTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAG ttacatctctccatggtgtccaggtacttcccttgtgctcactgactcagCTACGAAGTACAGCTAGAAAGCAAGCGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCA-TCAGATTCTCCAGCTAATGGCCAATAGgtaagcagcatcttggaagaattgacttgctggaggttggacctgagaat Alignment from Pairagon CTATGAAGTGCAGCTGGAAAGCAAG-GTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAG ttacatctctccatggtgtccaggtacttcccttgtgctcactgactcagCTACGAAGTACAGCTAGAAAGCAAGCGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCA-TCAGATTCTCCAGCTAATGGCCAATAGgtaagcagcatcttggaagaattgacttgctggaggttggacctgagaat Alignment from Exonerate_protein2genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAG ttacatctctccatggtgtccaggtacttcccttgtgctcactgactcagCTACGAAGTACAGCTAGAAAGCAAGCGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATCAGATTCTCCAGCTAATGGCCAATAGgtaagcagcatcttggaagaattgacttgctggaggttggacctgagaat Alignment from Exonerate_coding2genome ttacatctctccatggtgtccaggtacttcccttgtgctcactgactcagctacgaagtacagctagaaagcaagcgtaaggcagaaaggtctagagaagtttctcatcagattctccagctaatggccaataggtaagcagcatcttggaagaattgacttgctggaggttggacctgagaat Alignment from GeneWise CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAG ttacatctctccatggtgtccaggtacttcccttgtgctcactgactcagCTACGAAGTACAGCTAGAAAGCAAGCGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATCAGATTCTCCAGCTAATGGCCAATAGgtaagcagcatcttggaagaattgacttgctggaggttggacctgagaat #### Naa40_ID2075_5 --> 1 - 2 Original Alignment gTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTAC-CTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACtg aatcagatctagggggcagtctacttatctgtaactcttgtgccttgcaggTACGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCATGCCTGGTACCCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCT-TCACTTCCGATTTGATGTGGAGTGTGGGGACGAGGTCTTATATtggtgagcgacttttgcctatggtataggaggttatgccgttggtagagtag Alignment from CESAR gTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTAC-CTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACtg aatcagatctagggggcagtctacttatctgtaactcttgtgccttgcaggTACGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCATGCCTGGTACCCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTC-TTCACTTCCGATTTGATGTGGAGTGTGGGGACGAGGTCTTATATtggtgagcgacttttgcctatggtataggaggttatgccgttggtagagtag Alignment from Spaln_aa2Genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG aatcagatctagggggcagtctacttatctgtaactcttgtgccttgcagGTACGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCATGCCTGGTACCCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTTCACTTCCGATTTGATGTGGAGTGTGGGGACGAGGTCTTATATTGgtgagcgacttttgcctatggtataggaggttatgccgttggtagagtag Alignment from Spaln_nt2Genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACC-TCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG aatcagatctagggggcagtctacttatctgtaactcttgtgccttgcagGTACGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCATGCCTGGTACCCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCT-TCACTTCCGATTTGATGTGGAGTGTGGGGACGAGGTCTTATATTGgtgagcgacttttgcctatggtataggaggttatgccgttggtagagtag Alignment from Pairagon GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTA-CCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG aatcagatctagggggcagtctacttatctgtaactcttgtgccttgcagGTACGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCATGCCTGGTACCCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCT-TCACTTCCGATTTGATGTGGAGTGTGGGGACGAGGTCTTATATTGgtgagcgacttttgcctatggtataggaggttatgccgttggtagagtag Alignment from Exonerate_protein2genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTAC-CTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTT--TCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG aatcagatctagggggcagtctacttatctgtaactcttgtgccttgcagGTACGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCATGCCTGGTACCCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTT---CACTTCCGATTTGATGTGGAGTGTGGGGACGAGGTCTTATATTGgtgagcgacttttgcctatggtataggaggttatgccgttggtagagtag Alignment from Exonerate_coding2genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTA---CCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG aatcagatctagggggcagtctacttatctgtaactcttgtgccttgcagGTACGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCATGCCTGG--TACCCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTT-CACTTCCGATTTGATGTGGAGTGTGGGGACGAGGTCTTATATTGgtgagcgacttttgcctatggtataggaggttatgccgttggtagagtag Alignment from GeneWise GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG aatcagatctagggggcagtctacttatctgtaactcttgtgccttgcagGTACGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCATGCCTGGTACCCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTTCACTTCCGATTTGATGTGGAGTGTGGGGACGAGGTCTTATATTGgtgagcgacttttgcctatggtataggaggttatgccgttggtagagtag #### Naaladl1_ID1444_3 --> 2 - 0 Original Alignment tgGGCCCCAATGGAACA-ACCTTCCACTCCTTCCAACCCTTCGAGAAGAATCTGACCGGGGAGCAGGCGGGGCCCAATGTATTGCAACCTTATGCTGCCTACGCTCCCCCTGGGACTCCAAAG aggtgtcagaagtctccaggcaggatgccttctacgttctgtccattgagtaGGCCCCAATGGAACACACATTCCACTCCTTTCAACCTTTCAAAAGAA-TCTAATTGGAGAGCAGGCAGGGCCTAATGCATTACAACCATATGCTGCCTATGCTCCTCCAGGGACCCCTAAAgtgagatgatgattctggatgctttcctgctgtgctcactggattcagac Alignment from CESAR tgGGCCCCAATGGAACA-ACCTTCCACTCCTTCCAACCCTTCGAGAAGAATCTGACCGGGGAGCAGGCGGGGCCCAATGTATTGCAACCTTATGCTGCCTACGCTCCCCCTGGGACTCCAAAG aagcgtcagaagtctccaggcaggatgccttctacgttctgtccattgagtaGGCCCCAATGGAACACACATTCCACTCCTTTCAACCTTTC-AAAAGAATCTAATTGGAGAGCAGGCAGGGCCTAATGCATTACAACCATATGCTGCCTATGCTCCTCCAGGGACCCCTAAAgtgagatgatgattctggatgctttcctgctgtgctcactggattcagac Alignment from Spaln_aa2Genome TGGGCCCCAATGGAACA-ACCTTCCACTCCTTCCAACCCTTCGAGAAGAATCTGACCGGGGAGCAGGCGGGGCCCAATGTATTGCAACCTTATGCTGCCTACGCTCCCCCTGGGACTCCAAAG aggtgtcagaagtctccaggcaggatgccttctacgttctgtccattgagTAGGCCCCAATGGAACAcACATTCCACTCCTTTCAACCTTTCAA-AAGAATCTAATTGGAGAGCAGGCAGGGCCTAATGCATTACAACCATATGCTGCCTATGCTCCTCCAGGGACCCCTAAAgtgagatgatgattctggatgctttcctgctgtgctcactggattcagac Alignment from Spaln_nt2Genome TGGGCCCCAATGGAACA-ACCTTCCACTCCTTCCAACCCTTCGAGAAGAATCTGACCGGGGAGCAGGCGGGGCCCAATGTATTGCAACCTTATGCTGCCTACGCTCCCCCTGGGACTCCAAAG aggtgtcagaagtctccaggcaggatgccttctacgttctgtccattgagTAGGCCCCAATGGAACACACATTCCACTCCTTTCAACCTTTC-AAAAGAATCTAATTGGAGAGCAGGCAGGGCCTAATGCATTACAACCATATGCTGCCTATGCTCCTCCAGGGACCCCTAAAgtgagatgatgattctggatgctttcctgctgtgctcactggattcagac Alignment from Pairagon TGGGCCCCAATGGAACA-ACCTTCCACTCCTTCCAACCCTTCGAGAAGAATCTGACCGGGGAGCAGGCGGGGCCCAATGTATTGCAACCTTATGCTGCCTACGCTCCCCCTGGGACTCCAAAG aggtgtcagaagtctccaggcaggatgccttctacgttctgtccattgagTAGGCCCCAATGGAACACACATTCCACTCCTTTCAACCTTTC-AAAAGAATCTAATTGGAGAGCAGGCAGGGCCTAATGCATTACAACCATATGCTGCCTATGCTCCTCCAGGGACCCCTAAAgtgagatgatgattctggatgctttcctgctgtgctcactggattcagac Alignment from Exonerate_protein2genome TGGGCCCCAATGGAACAACCTTCCACTCCTTCCAACCCTTCGAGAAGAATCTGACCGGGGAGCAGGCGGGGCCCAATGTATTGCAACCTTATGCTGCCTACGCTCCCCCTGGGACTCCAAAG aggtgtcagaagtctccaggcaggatgccttctacgttctgtccattgagTAGGCCCCAATGGAACACACATTCCACTCCTTTCAACCTTTCAAAAGAATCTAATTGGAGAGCAGGCAGGGCCTAATGCATTACAACCATATGCTGCCTATGCTCCTCCAGGGACCCCTAAAgtgagatgatgattctggatgctttcctgctgtgctcactggattcagac Alignment from Exonerate_coding2genome TGGGCCCCAATGGAACAACCTTCCACTCCTTCCAACCCTTCGAGAAGAATCTGACCGGGGAGCAGGCGGGGCCCAATGTATTGCAACCTTATGCTGCCTACGCTCCCCCTGGGACTCCAAAG aggtgtcagaagtctccaggcaggatgccttctacgttctgtccattgagTAGGCCCCAATGGAACACACATTCCACTCCTTTCAACCTTTCAAAAGAATCTAATTGGAGAGCAGGCAGGGCCTAATGCATTACAACCATATGCTGCCTATGCTCCTCCAGGGACCCCTAAAgtgagatgatgattctggatgctttcctgctgtgctcactggattcagac Alignment from GeneWise TGGGCCCCAATGGAACAACCTTCCACTCCTTCCAACCCTTCGAGAAGAATCTGACCGGGGAGCAGGCGGGGCCCAATGTATTGCAACCTTATGCTGCCTACGCTCCCCCTGGGACTCCAAAG aggtgtcagaagtctccaggcaggatgccttctacgttctgtccattgagTAGGCCCCAATGGAACACACATTCCACTCCTTTCAACCTTTCAAAAGAATCTAATTGGAGAGCAGGCAGGGCCTAATGCATTACAACCATATGCTGCCTATGCTCCTCCAGGGACCCCTAAAgtgagatgatgattctggatgctttcctgctgtgctcactggattcagac #### Naaladl1_ID1456_15 --> 2 - 1 Original Alignment gtTTCAGCAGCCACCAAGCT-GTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGg gg atgaaggtgaaacttggatgtggcctctcctcacgcttgtgtttccctaggtTTTAGTAGCCAACAAGCTCGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTG-TAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGggtatgacccaacatcttgaggcagtggcttaatgtctgttttctacagga Alignment from CESAR gtTTCAGCAGCCACCAAGCT-GTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGg gg atgaaggtgaaacttggatgtggcctctcctcacgcttgtgtttccctaggtTTTAGTAGCCAACAAGCTCGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGT-GTAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGggtatgacccaacatcttgaggcagtgaaactttcctcatctttttcagga Alignment from Spaln_aa2Genome GTTTCAGCAGCCACCAAGCT-GTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG atgaaggtgaaacttggatgtggcctctcctcacgcttgtgtttccctagGTTTTAGTAGCCAACAAGCTcGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGT-AGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtatgacccaacatcttgaggcagtggcttaatgtctgttttctacagGA Alignment from Spaln_nt2Genome GTTTCAGCAGCCACCAAGCT-GTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG atgaaggtgaaacttggatgtggcctctcctcacgcttgtgtttccctagGTTTTAGTAGCCAACAAGCTCGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTG-TAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtatgacccaacatcttgaggcagtggcttaatgtctgttttctacagGA Alignment from Pairagon GTTTCAGCAGCCACCAAGCT-GTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG atgaaggtgaaacttggatgtggcctctcctcacgcttgtgtttccctagGTTTTAGTAGCCAACAAGCTCGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTG-TAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtatgacccaacatcttgaggcagtggcttaatgtctgttttctacagGA Alignment from Exonerate_protein2genome GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG atgaaggtgaaacttggatgtggcctctcctcacgcttgtgtttccctagGTTTTAGTAGCCAACAAGCTCGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGTAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtatgacccaacatcttgaggcagtggcttaatgtctgttttctacagGA Alignment from Exonerate_coding2genome GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG atgaaggtgaaacttggatgtggcctctcctcacgcttgtgtttccctagGTTTTAGTAGCCAACAAGCTCGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGTAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtatgacccaacatcttgaggcagtggcttaatgtctgttttctacagGA Alignment from GeneWise GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG atgaaggtgaaacttggatgtggcctctcctcacgcttgtgtttccctagGTTTTAGTAGCCAACAAGCTCGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGTAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtatgacccaacatcttgaggcagtggcttaatgtctgttttctacagGA #### Ndufv1_ID275_7 --> 2 - 0 Original Alignment gtGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTG-ATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaacactgacaataaccactgtgtttcccgtaggtGGTGTCACAGGTGGCTGGGACAATCTGCTTGCTGTGCACACCAGGTGGATCATCC---ACATTGATTCCCAAATCTGTTT-TGAGACAGTGCTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTAATC---ATGGATCGTCTGgtgagtggtcataaacaccctcatacttgtcactatggagtgtgtttctc Alignment from CESAR gtGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTG-ATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaacactgacaataaccactgtgtttcccgtaggtGGTGTCACAGGTGGCTGGGACAATCTGCTTGCTGTGCACACCAGGTGGATCATCCACA---TTGATTCCCAAATCTGTT-TTGAGACAGTGCTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTAATC---ATGGATCGTCTGgtgagtggtcataaacaccctcatacttgtcactatggagtgtgtttctc Alignment from Spaln_aa2Genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaacactgacaataaccactgtgtttcccgtagGTGGTGTCACAGGTGGCTGGGACAATCTGCTTGCTGTG---CACACCAGGTGGATCATCCACATTGATTCCCAAATCTGTTTTGAGACAGTGCTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTAATC---ATGGATCGTCTGgtgagtggtcataaacaccctcatacttgtcactatggagtgtgtttctc Alignment from Spaln_nt2Genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTG-ATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaacactgacaataaccactgtgtttcccgtagGTGGTGTCACAGGTGGCTGGGACAATCTGCTTGCTGTGCACACCAGGTGGATCATCCA---CATTGATTCCCAAATCTGT-TTTGAGACAGTGCTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTAA---TCATGGATCGTCTGgtgagtggtcataaacaccctcatacttgtcactatggagtgtgtttctc Alignment from Pairagon GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTG-ATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaacactgacaataaccactgtgtttcccgtagGTGGTGTCACAGGTGGCTGGGACAATCTGCTTGCTGTGCACACCAGGTGGATCATCCA---CATTGATTCCCAAATCTGT-TTTGAGACAGTGCTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTAA---TCATGGATCGTCTGgtgagtggtcataaacaccctcatacttgtcactatggagtgtgtttctc Alignment from Exonerate_protein2genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTG-ATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTG--TGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaacactgacaataaccactgtgtttcccgtagGTGGTGTCACAGGTGGCTGGGACAATCTGCTTGCTGTGCACACCAGGTGGATCATCCACA---TTGATTCCCAAATCTGTTTT---GAGACAGTGCTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTAATC---ATGGATCGTCTGgtgagtggtcataaacaccctcatacttgtcactatggagtgtgtttctc Alignment from Exonerate_coding2genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTG-ATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTG--TGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaacactgacaataaccactgtgtttcccgtagGTGGTGTCACAGGTGGCTGGGACAATCTGCTTGCTGTGCACACCAGGTGGATCATCCACA---TTGATTCCCAAATCTGTTTT---GAGACAGTGCTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTAATC---ATGGATCGTCTGgtgagtggtcataaacaccctcatacttgtcactatggagtgtgtttctc Alignment from GeneWise GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGT---GAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agaggggtgcttgcaaagaacactgacaataaccactgtgtttcccgtagGTGGTGTCACAGGTGGCTGGGACAATCTGCTTGCTGTGCACACC------AGGTGGATCATCCACATTGATTCCCAAATCTGTTTTGAGACAGTGCTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCTACAGTAATC---ATGGATCGTCTGgtgagtggtcataaacaccctcatacttgtcactatggagtgtgtttctc #### Ndufv1_ID276_6 --> 2 - 1 Original Alignment gaGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATC-TCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTg gacggtgcttgatcatgactcagttaatttcttttttttcccccataaaggaGTGTTTGGCTGTCCCACAACTGTGGCCAATGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAG-GATGTCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTggtaagacttaagccaattcaaggtcaaggcatcagaggggtgcttgcaaa Alignment from CESAR gaGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATC-TCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTg gacggtgcttgatcatgactcagttaatttcttttttttcccccataaaggaGTGTTTGGCTGTCCCACAACTGTGGCCAATGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAA-GGATGTCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTggtaagacttaagccaattcaaggtcaaggcatcagaggggtgcttgcaaa Alignment from Spaln_aa2Genome GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gacggtgcttgatcatgactcagttaatttcttttttttcccccataaagGAGTGTTTGGCTGTCCCACAACTGTGGCCAATGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGGATGTCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtaagacttaagccaattcaaggtcaaggcatcagaggggtgcttgcaaa Alignment from Spaln_nt2Genome GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATC-TCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gacggtgcttgatcatgactcagttaatttcttttttttcccccataaagGAGTGTTTGGCTGTCCCACAACTGTGGCCAATGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAG-GATGTCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtaagacttaagccaattcaaggtcaaggcatcagaggggtgcttgcaaa Alignment from Pairagon GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACAT-CTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gacggtgcttgatcatgactcagttaatttcttttttttcccccataaagGAGTGTTTGGCTGTCCCACAACTGTGGCCAATGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAG-GATGTCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtaagacttaagccaattcaaggtcaaggcatcagaggggtgcttgcaaa Alignment from Exonerate_protein2genome GTGGGAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATC-TCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAA--GAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gacggtgcttgatcatgactcagttaatttcttttttttcccccatAAAGGAGTGTTTGGCTGTCCCACAACTGTGGCCAATGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGG---ATGTCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtaagacttaagccaattcaaggtcaaggcatcagaggggtgcttgcaaa Alignment from Exonerate_coding2genome GTGGGAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACAT---CTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gacggtgcttgatcatgactcagttaatttcttttttttcccccatAAAGGAGTGTTTGGCTGTCCCACAACTGTGGCCAATGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAAC--ATCCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGG-ATGTCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtaagacttaagccaattcaaggtcaaggcatcagaggggtgcttgcaaa Alignment from GeneWise GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gacggtgcttgatcatgactcagttaatttcttttttttcccccataaagGAGTGTTTGGCTGTCCCACAACTGTGGCCAATGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGGATGTCTGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtaagacttaagccaattcaaggtcaaggcatcagaggggtgcttgcaaa #### Nfkb2_ID9826_4 --> 0 - 0 Original Alignment CGAGGCTTCAGATTTCGATATGGCTGT-GAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG ggtagtttgcttctccttctcattgctggcctgtttcctccttccaccagAGAGGCTATAGATTCCGATATGGCTGTCGAGGGCCCCTCCCATGGTGGCTTGCCAGGTGCTT-CAGTGAGAAGGGCCGGAAGACCTATCCCACTGTAAAAgtaaggacaggtgccacagctgcttcatgcgtagacctggggcacacaac Alignment from CESAR CGAGGCTTCAGATTTCGATATGGCTGT-GAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG ggtagtttgcttctccttctcattgctggcctgtttcctccttccaccagAGAGGCTATAGATTCCGATATGGCTGTCGAGGGCCCCTCCCATGGTGGCTTGCCAGGTGCTT-CAGTGAGAAGGGCCGGAAGACCTATCCCACTGTAAAAgtaaggacaggtgccacagctgcttcatgcgtagacctggggcacacaac Alignment from Spaln_aa2Genome CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG ggtagtttgcttctccttctcattgctggcctgtttcctccttccaccagAGAGGCTATAGATTCCGATATGGCTGTCGAGGGCCCCTCCCATGGTGGCTTGCCAGGTGCTTCAGTGAGAAGGGCCGGAAGACCTATCCCACTGTAAAAgtaaggacaggtgccacagctgcttcatgcgtagacctggggcacacaac Alignment from Spaln_nt2Genome CGAGGCTTCAGATTTCGATATGGCTGT-GAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG ggtagtttgcttctccttctcattgctggcctgtttcctccttccaccagAGAGGCTATAGATTCCGATATGGCTGTCGAGGGCCCCTCCCATGGTGGCTTGCCAGGTG-CTTCAGTGAGAAGGGCCGGAAGACCTATCCCACTGTAAAAgtaaggacaggtgccacagctgcttcatgcgtagacctggggcacacaac Alignment from Pairagon CGAGGCTTCAGATTTCGATATGGCTGT-GAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG ggtagtttgcttctccttctcattgctggcctgtttcctccttccaccagAGAGGCTATAGATTCCGATATGGCTGTCGAGGGCCCCTCCCATGGTGGCTTGCCAGGTG-CTTCAGTGAGAAGGGCCGGAAGACCTATCCCACTGTAAAAgtaaggacaggtgccacagctgcttcatgcgtagacctggggcacacaac Alignment from Exonerate_protein2genome CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG ggtagtttgcttctccttctcattgctggcctgtttcctccttccaccagAGAGGCTATAGATTCCGATATGGCTGTCGAGGGCCCCTCCCATGGTGGCTTGCCAGGTGCTTCAGTGAGAAGGGCCGGAAGACCTATCCCACTGTAAAAgtaaggacaggtgccacagctgcttcatgcgtagacctggggcacacaac Alignment from Exonerate_coding2genome CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG ggtagtttgcttctccttctcattgctggcctgtttcctccttccaccagAGAGGCTATAGATTCCGATATGGCTGTCGAGGGCCCCTCCCATGGTGGCTTGCCAGGTGCTTCAGTGAGAAGGGCCGGAAGACCTATCCCACTGTAAAAgtaaggacaggtgccacagctgcttcatgcgtagacctggggcacacaac Alignment from GeneWise CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG ggtagtttgcttctccttctcattgctggcctgtttcctccttccaccagAGAGGCTATAGATTCCGATATGGCTGTCGAGGGCCCCTCCCATGGTGGCTTGCCAGGTGCTTCAGTGAGAAGGGCCGGAAGACCTATCCCACTGTAAAAgtaaggacaggtgccacagctgcttcatgcgtagacctggggcacacaac #### Nfkb2_ID9828_6 --> 1 - 1 Original Alignment aTTTAATAATCTGGGTGTCCTGCATGTA-ACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAg ggggtgccccagcataaatcatccagaagttcgcggcattcctgttttagaTTCAATAATTTGGGC------CATGTACACAAAGAAGAACATGATGGAGATAATGATACAGA-ACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTAGCTggtaaaaaactggaaggtgtcttgggtggtgctcataaataggctgtgaaa Alignment from CESAR aTTTAATAATCTGGGTGTCCTGCATGTA-ACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAg ggggtgccccagcataaatcatccagaagttcgcggcattcctgttttagaTTCAATAATTTGGGC------CATGTACACAAAGAAGAACATGATGGAGATAATGATAC-AGAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTAGCTggtaaaaaactggaaggtgtcttgggtggtgctcataaataggctgtgaaa Alignment from Spaln_aa2Genome ATTTAATAATCTGGGTGTCCTGCATGTA-ACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG ggggtgccccagcataaatcatccagaagttcgcggcattcctgttttagATTCAATAATTTGGGC------CATGTAcACAAAGAAGAACATGATGGAGATAATGATACAGAA-CTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTAGCTGgtaaaaaactggaaggtgtcttgggtggtgctcataaataggctgtgaaa Alignment from Spaln_nt2Genome ATTTAATAATCTGGGTGTCCTGCATGTA-ACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG ggggtgccccagcataaatcatccagaagttcgcggcattcctgttttagATTCAATAATTTGGG------CCATGTACACAAAGAAGAACATGATGGAGATAATGATACAGAA-CTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTAGCTGgtaaaaaactggaaggtgtcttgggtggtgctcataaataggctgtgaaa Alignment from Pairagon ATTTAATAATCTGGGTGTCCTGCATGTA-ACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG ggggtgccccagcataaatcatccagaagttcgcggcattcctgttttagATTCAATAATTTGGGC------CATGTACACAAAGAAGAACATGATGGAGATAATGATACAG-AACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTAGCTGgtaaaaaactggaaggtgtcttgggtggtgctcataaataggctgtgaaa Alignment from Exonerate_protein2genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG ggggtgccccagcataaatcatccagaagttcgcggcattcctgttttagATTCAATAATTTGGGC------CATGTACACAAAGAAGAACATGATGGAGATAATGATACAGAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTAGCTGgtaaaaaactggaaggtgtcttgggtggtgctcataaataggctgtgaaa Alignment from Exonerate_coding2genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG ggggtgccccagcataaatcatccagaagttcgcggcattcctgttttagATTCAATAATTTGGGCCATGTACAC-----AAAGAAGAACATGATGGAGATAATGATACAGAA-CTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTAGCTGgtaaaaaactggaaggtgtcttgggtggtgctcataaataggctgtgaaa Alignment from GeneWise ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG ggggtgccccagcataaatcatccagaagttcgcggcattcctgttttagATTCAATAATTTGGGC------CATGTACACAAAGAAGAACATGATGGAGATAATGATACAGAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTAGCTGgtaaaaaactggaaggtgtcttgggtggtgctcataaataggctgtgaaa #### Nfkb2_ID9829_7 --> 2 - 1 Original Alignment agGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGC-ATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCa ggcaatttattgcttgcactacccatatctttttcttttcctctcctcagagGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATCTGAGCCATTGTACGGCTGCGCTTCTCTGCTTTCC-TAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAGCCAATCCATGATAGCagtgagtctgcgcaaacataagtgataagagttcaggtaagagatctgatt Alignment from CESAR agGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGC-ATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCa ggcaatttattgcttgcactacccatatctttttcttttcctctcctcagagGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATCTGAGCCATTGTACGGCTGCGCTTCTCTGCTTTCC-TAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAGCCAATCCATGATAGCagtgagtctgcgcaaacataagtgataagagttcaggtaagagatctgatt Alignment from Spaln_aa2Genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA ggcaatttattgcttgcactacccatatctttttcttttcctctcctcagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATCTGAGCCATTGTACGGCTGCGCTTCTCTGCTTTCCTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAGCCAATCCATGATAGCAgtgagtctgcgcaaacataagtgataagagttcaggtaagagatctgatt Alignment from Spaln_nt2Genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAG-CATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA ggcaatttattgcttgcactacccatatctttttcttttcctctcctcagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATCTGAGCCATTGTACGGCTGCGCTTCTCTGCTTTCC-TAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAGCCAATCCATGATAGCAgtgagtctgcgcaaacataagtgataagagttcaggtaagagatctgatt Alignment from Pairagon AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAG-CATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA ggcaatttattgcttgcactacccatatctttttcttttcctctcctcagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATCTGAGCCATTGTACGGCTGCGCTTCTCTGCTTTCC-TAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAGCCAATCCATGATAGCAgtgagtctgcgcaaacataagtgataagagttcaggtaagagatctgatt Alignment from Exonerate_protein2genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA ggcaatttattgcttgcactacccatatctttttcttttcctctcctcagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATCTGAGCCATTGTACGGCTGCGCTTCTCTGCTTTCCTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAGCCAATCCATGATAGCAgtgagtctgcgcaaacataagtgataagagttcaggtaagagatctgatt Alignment from Exonerate_coding2genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA ggcaatttattgcttgcactacccatatctttttcttttcctctcctcagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATCTGAGCCATTGTACGGCTGCGCTTCTCTGCTTTCCTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAGCCAATCCATGATAGCAgtgagtctgcgcaaacataagtgataagagttcaggtaagagatctgatt Alignment from GeneWise AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA ggcaatttattgcttgcactacccatatctttttcttttcctctcctcagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATCTGAGCCATTGTACGGCTGCGCTTCTCTGCTTTCCTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAGCCAATCCATGATAGCAgtgagtctgcgcaaacataagtgataagagttcaggtaagagatctgatt #### Nfkb2_ID9839_17 --> 0 - 1 Original Alignment CTCCATGCTAATGTGAATGCCCGG-ACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTg gatttgcttgattgtggccagactttgtaacatttctacctctcttccagCTACATGCCAATGTCAATACTTGGCACCTTTGCTGCAAATACACCACTCCACCTGGCAGCTGGAC-TGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTggtaaggcctgcattaacttgtgactacaaaactgaaagcttggggaggaa Alignment from CESAR CTCCATGCTAATGTGAATGCCCGG-ACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTg gatttgcttgattgtggccagactttgtaacatttctacctctcttccagCTACATGCCAATGTCAATACTTGGCACCTTTGCTGCAAATACACCACTCCACCTGGCAGCTGGAC-TGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTggtaaggcctgcattaacttgtgactacaaaactgaaagcttggggaggaa Alignment from Spaln_aa2Genome CTCCATGCTAATGTGAATGCCCGG-ACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gatttgcttgattgtggccagactttgtaacatttctacctctcttccagCTACATGCCAATGTCAATACTTGGcACCTTTGCTGCAAATACACCACTCCACCTGGCAGCTGGACT-GGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtaaggcctgcattaacttgtgactacaaaactgaaagcttggggaggaa Alignment from Spaln_nt2Genome CTCCATGCTAATGTGAATGCCCGG-ACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gatttgcttgattgtggccagactttgtaacatttctacctctcttccagCTACATGCCAATGTCAATACTTGGCACCTTTGCTGCAAATACACCACTCCACCTGGCAGCTGGACTG-GATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtaaggcctgcattaacttgtgactacaaaactgaaagcttggggaggaa Alignment from Pairagon CTCCATGCTAATGTGAATGCCCGG-ACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gatttgcttgattgtggccagactttgtaacatttctacctctcttccagCTACATGCCAATGTCAATACTTGGCACCTTTGCTGCAAATACACCACTCCACCTGGCAGCTGGACT-GGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtaaggcctgcattaacttgtgactacaaaactgaaagcttggggaggaa Alignment from Exonerate_protein2genome CTCCATGCTAATGTGAATGCC-CGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGA--CTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gatttgcttgattgtggccagactttgtaacatttctacctctcttccagCTACATGCCAATGTCAATACTTGGCACCTTTGCTGCAAATACACCACTCCACCTGGCAGCTGGACT---GGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtaaggcctgcattaacttgtgactacaaaactgaaagcttggggaggaa Alignment from Exonerate_coding2genome CTCCATGCTAATGTGAATGCC---CGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gatttgcttgattgtggccagactttgtaacatttctacctctcttccagCTACATGCCAATGTCAATACTTGGCAC--CTTTGCTGCAAATACACCACTCCACCTGGCAGCTGGACT-GGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtaaggcctgcattaacttgtgactacaaaactgaaagcttggggaggaa Alignment from GeneWise CTCCATGCTAATGTGAATGCC-CGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gatttgcttgattgtggccagactttgtaacatttctacctctcttccagCTACATGCCAATGTCAATACTTGGCACCTTTGCTGCAAATACACCACTCCACCTGGCAGCTGGACT-GGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtaaggcctgcattaacttgtgactacaaaactgaaagcttggggaggaa #### Noc3l_ID7658_17 --> 2 - 0 Original Alignment gtGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTA-AGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT caccccttgaatacgtgaggtgatgaatcagcagctttctttctctttaggcACCACTAATGATGGCATAGAGATTGTACTCCACTGCTTGGATGTCATGGTTCAGCAAATGCAGAAAGCAAGTTTCT---CAGAGGGCTA-TGCCTTCATCAAGCGTCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTCTACCAACTACAAGGGTACTGATGCATgtatatcaaagtctcaagagacttaagttgtgtgcaggtcaaacaggcta Alignment from CESAR gtGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATG-CTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT caccccttgaatacgtgaggtgatgaatcagcagctttctttctctttaggcACCACTAATGATGGCATAGAGATTGTACTCCACTGCTTGGATGTCATGGTTCAGCAAATGCAGAAAGCAAGTTTCT---CAGAGGGCTA-TGCCTTCATCAAGCGTCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTCTACCAACTACAAGGGTACTGATGCATgtatatcaaagtctcaagagacttaagttgtgtgcaggtcaaacaggcta Alignment from Spaln_aa2Genome GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT caccccttgaatacgtgaggtgatgaatcagcagctttctttctctttagGCACCACTAATGATGGCATAGAGATTGTACTCCACTGCTTGGATGTCATGGTTCAGCAAATGCAGAAA---GCAAGTTTCTCAGAGGGCTATGCCTTCATCAAGCGTCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTCTACCAACTACAAGGGTACTGATGCATgtatatcaaagtctcaagagacttaagttgtgtgcaggtcaaacaggcta Alignment from Spaln_nt2Genome GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTA-AGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT caccccttgaatacgtgaggtgatgaatcagcagctttctttctctttagGCACCACTAATGATGGCATAGAGATTGTACTCCACTGCTTGGATGTCATGGTTCAGCAAATGCAGAAAGCAAGTTTC---TCAGAGGGCT-ATGCCTTCATCAAGCGTCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTCTACCAACTACAAGGGTACTGATGCATgtatatcaaagtctcaagagacttaagttgtgtgcaggtcaaacaggcta Alignment from Pairagon GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCAT-GCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCT-TGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT caccccttgaatacgtgaggtgatgaatcagcagctttctttctctttagGCACCACTAATGATGGCATAGAGATTGTACTCCACTGCTTGGATGTCATGGTTCAGCAAATGCAGAAAGCAAGTTTCTCA-----GAGGGCTATGCCTTCATCAAGCGTCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTCTACCAACTACAAGGGTACTGATGCATgtatatcaaagtctcaagagacttaagttgtgtgcaggtcaaacaggcta Alignment from Exonerate_protein2genome GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT caccccttgaatacgtgaggtgatgaatcagcagctttctttctctttagGCACCACTAATGATGGCATAGAGATTGTACTCCACTGCTTGGATGTCATGGTTCAGCAAATGCAGAAA---GCAAGTTTCTCAGAGGGCTATGCCTTCATCAAGCGTCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTCTACCAACTACAAGGGTACTGATGCATgtatatcaaagtctcaagagacttaagttgtgtgcaggtcaaacaggcta Alignment from Exonerate_coding2genome GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT caccccttgaatacgtgaggtgatgaatcagcagctttctttctctttagGCACCACTAATGATGGCATAGAGATTGTACTCCACTGCTTGGATGTCATGGTTCAGCAAATGCAGAAA---GCAAGTTTCTCAGAGGGCTATGCCTTCATCAAGCGTCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTCTACCAACTACAAGGGTACTGATGCATgtatatcaaagtctcaagagacttaagttgtgtgcaggtcaaacaggcta Alignment from GeneWise GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT caccccttgaatacgtgaggtgatgaatcagcagctttctttctctttagGCACCACTAATGATGGCATAGAGATTGTACTCCACTGCTTGGATGTCATGGTTCAGCAAATGCAGAAA---GCAAGTTTCTCAGAGGGCTATGCCTTCATCAAGCGTCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTCTACCAACTACAAGGGTACTGATGCATgtatatcaaagtctcaagagacttaagttgtgtgcaggtcaaacaggcta #### Noc3l_ID7659_16 --> 2 - 1 Original Alignment gtGATGTTTTAAATATTGAC-CCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAg cattttgtctccctttcatttcactaaaaggccctggtctgtttctgcaggaGATGATTTGAATATTGACCCCGATGAAATTTTATACCCCACTATTTCAGACACTAT-TACATTGCATGCAggtatctcattgtagcttagagcctttatattcagtggtgctagtattaac Alignment from CESAR gtGATGTTTTAAATATTGACCCG-ATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAg cattttgtctccctttcatttcactaaaaggccctggtctgtttctgcaggaGATGATTTGAATATTGACCCCGATGAAATTTTATACCCCACTATTTCAGACACTA-TTACATTGCATGCAggtatctcattgtagcttagagcctttatattcagtggtgctagtattaac Alignment from Spaln_aa2Genome GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG cattttgtctccctttcatttcactaaaaggccctggtctgtttctgcagGAGATGATTTGAATATTGACCCCGATGAAATTTTATACCCCACTATTTCAGACACTATTACATTGCATGCAGgtatctcattgtagcttagagcctttatattcagtggtgctagtattaac Alignment from Spaln_nt2Genome GTGATGTTTTAAATATTGACCC-GATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG cattttgtctccctttcatttcactaaaaggccctggtctgtttctgcagGAGATGATTTGAATATTGACCCCGATGAAATTTTATACCCCACTATTTCAGACACTATT-ACATTGCATGCAGgtatctcattgtagcttagagcctttatattcagtggtgctagtattaac Alignment from Pairagon GTGATGTTTTAAATATTGA-CCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG cattttgtctccctttcatttcactaaaaggccctggtctgtttctgcagGAGATGATTTGAATATTGACCCCGATGAAATTTTATACCCCACTATTTCAGACACTATT-ACATTGCATGCAGgtatctcattgtagcttagagcctttatattcagtggtgctagtattaac Alignment from Exonerate_protein2genome GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG cattttgtctccctttcatttcactaaaaggccctggtctgtttctgcagGAGATGATTTGAATATTGACCCCGATGAAATTTTATACCCCACTATTTCAGACACTATTACATTGCATGCAGgtatctcattgtagcttagagcctttatattcagtggtgctagtattaac Alignment from Exonerate_coding2genome GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG cattttgtctccctttcatttcactaaaaggccctggtctgtttctgcagGAGATGATTTGAATATTGACCCCGATGAAATTTTATACCCCACTATTTCAGACACTATTACATTGCATGCAGgtatctcattgtagcttagagcctttatattcagtggtgctagtattaac Alignment from GeneWise AAATATTGACCCGATGAAATTCTATACACATCTCTACAAG CATTTTGTCTCCCTTTCATTTCACTAAAAGGCCCTGGTCTgtttctgcaggagatgatttgaatattgaccccgatgaaattttataccccactatttcagacactattacattgcatgcaggtatctcattgtagcttagagcctttatattcagtggtgctagtattaac #### Npm3_ID9576_4 --> 0 - 1 Original Alignment CTCAGTGTGGATGATTTCCAACTCCAACCACCT-GTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCg caataactgttgatacccattgaagtacctctcctctctgttgcttacagCTTGGTGTTGATGATCTCCAACTTCAACCACCACGTTTCCTTCCGATTGAGGTCAGGTTCAGGTCCAG-TCGAATC---------CATCACATTggcaagtgggcagaatgtcgaggactattatgcagtgatttgccagcaaca Alignment from CESAR CTCAGTGTGGATGATTTCCAACTCCAACCACCT-GTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCg caataactgttgatacccattgaagtacctctcctctctgttgcttacagCTTGGTGTTGATGATCTCCAACTTCAACCACCACGTTTCCTTCCGATTGAGGTCAGGTTCAGGTCCAG-TCGAATC---------CATCACATTggcaagtgggcagaatgtcgaggactattatgcagtgatttgccagcaaca Alignment from Spaln_aa2Genome CTCAGTGTGGATGATTTCCAACTCCAACCACCT-GTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG caataactgttgatacccattgaagtacctctcctctctgttgcttacagCTTGGTGTTGATGATCTCCAACTTCAACCACCAcGTTTCCTTCCGATTGAGGTCAGGTTCAGGTCCAGTCGAATCCATCACA------TTGGCAAgtgggcagaatgtcgaggactattatgcagtgatttgccagcaaca Alignment from Spaln_nt2Genome CTCAGTGTGGATGATTTCCAACTCCAACCACCT-GTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG caataactgttgatacccattgaagtacctctcctctctgttgcttacagCTTGGTGTTGATGATCTCCAACTTCAACCACCACGTTTCCTTCCGATTGAGGTCAGGTTCAGGTCCAG-TCGAATC---------CATCACATTGgcaagtgggcagaatgtcgaggactattatgcagtgatttgccagcaaca Alignment from Pairagon CTCAGTGTGGATGATTTCCAACTCCAACCACC-TGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG caataactgttgatacccattgaagtacctctcctctctgttgcttacagCTTGGTGTTGATGATCTCCAACTTCAACCACCACGTTTCCTTCCGATTGAGGTCAGGTTCAGGTCCAG-TCGAATC---------CATCACATTGgcaagtgggcagaatgtcgaggactattatgcagtgatttgccagcaaca Alignment from Exonerate_protein2genome CTCAGTGTGGATGATTTCCAACTCCAACCACCT-GTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATC caataactgttgatacccattgaagtacctctcctctctgttgcttacagCTTGGTGTTGATGATCTCCAACTTCAACCACCACGTTTCCTTCCGATTGAGGTCAGGTTCAGGTCCAGTCGAATCCATCACATTGGCAAgtgggcagaatgtcgaggactattatgcagtgatttgccagcaaca Alignment from Exonerate_coding2genome TTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATC CAATAACTGTTGATACCCATTGAAGTACCTCTCCTCTCTGTTGCTTACAGCTTGgtgttgatgatctccaacttcaaccaccacgtttccttccgattgaggtcaggttcaggtccagtcgaatccatcacattggcaagtgggcagaatgtcgaggactattatgcagtgatttgccagcaaca Alignment from GeneWise CTCAGTGTGGATGATTTCCAACTCCAACCACCT-GTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCGTT- caataactgttgatacccattgaagtacctctcctctctgttgcttacagCTTGGTGTTGATGATCTCCAACTTCAACCACCACGTTTCCTTCCGATTGAGGTCAGGTTCAGGTCCAGTCGAATCCATC---------ACATTGGCAAgtgggcagaatgtcgaggactattatgcagtgatttgccagcaaca #### Npm3_ID9577_3 --> 0 - 0 Original Alignment CTGTGCCTTACCGAGGGGGCCACGGACGAGTGT-AATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG ttttcttcagccaatatcatcaaagacactgctctcttttcaccctgtagCTCTGCCTTACTGAGGCTGCCACAGATGAGTGTCAATGTGATAGAAGTTGTCGCCAGGGACTATGGCA-CCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGCCAACCAATGgtaactttgaaacactcatttctgtggggccctaacattcaataactgtt Alignment from CESAR CTGTGCCTTACCGAGGGGGCCACGGACGAGTGT-AATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG ttttcttcagccaatatcatcaaagacactgctctcttttcaccctgtagCTCTGCCTTACTGAGGCTGCCACAGATGAGTGTCAATGTGATAGAAGTTGTCGCCAGGGACTATGGC-ACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGCCAACCAATGgtaactttgaaacactcatttctgtggggccctaacattcaataactgtt Alignment from Spaln_aa2Genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG ttttcttcagccaatatcatcaaagacactgctctcttttcaccctgtagCTCTGCCTTACTGAGGCTGCCACAGATGAGTGTCAATGTGATAGAAGTTGTCGCCAGGGACTATGGCACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGCCAACCAATGgtaactttgaaacactcatttctgtggggccctaacattcaataactgtt Alignment from Spaln_nt2Genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGT-AATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG ttttcttcagccaatatcatcaaagacactgctctcttttcaccctgtagCTCTGCCTTACTGAGGCTGCCACAGATGAGTGTCAATGTGATAGAAGTTGTCGCCAGGGACTATGGC-ACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGCCAACCAATGgtaactttgaaacactcatttctgtggggccctaacattcaataactgtt Alignment from Pairagon CTGTGCCTTACCGAGGGGGCCACGGACGAGTGT-AATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG ttttcttcagccaatatcatcaaagacactgctctcttttcaccctgtagCTCTGCCTTACTGAGGCTGCCACAGATGAGTGTCAATGTGATAGAAGTTGTCGCCAGGGACTATGGC-ACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGCCAACCAATGgtaactttgaaacactcatttctgtggggccctaacattcaataactgtt Alignment from Exonerate_protein2genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG ttttcttcagccaatatcatcaaagacactgctctcttttcaccctgtagCTCTGCCTTACTGAGGCTGCCACAGATGAGTGTCAATGTGATAGAAGTTGTCGCCAGGGACTATGGCACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGCCAACCAATGgtaactttgaaacactcatttctgtggggccctaacattcaataactgtt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG ttttcttcagccaatatcatcaaagacactgctctcttttcaccctgtagCTCTGCCTTACTGAGGCTGCCACAGATGAGTGTCAATGTGATAGAAGTTGTCGCCAGGGACTATGGCACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGCCAACCAATGgtaactttgaaacactcatttctgtggggccctaacattcaataactgtt #### Npm3_ID9578_2 --> 2 - 0 Original Alignment gtTGTGAGCTCTCCGGCCAC-ACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggttcaggatgtacctaggaggtgggattttcccctttgttttaggtTGTGAGCTCTCTGATCACCACACGTTCGTTCACTTTCAATGTTGCAGAGG-AGATGACACAGAGCAGGTGCTTGCATTGAACATGgtaagaggtacataaagagtcagttcagcacacccctggtcttatctttc Alignment from CESAR gtTGTGAGCTCTCCGGCCAC-ACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggttcaggatgtacctaggaggtgggattttcccctttgttttaggtTGTGAGCTCTCTGATCACCACACGTTCGTTCACTTTCAATGTTGCAGAGG-AGATGACACAGAGCAGGTGCTTGCATTGAACATGgtaagaggtacataaagagtcagttcagcacacccctggtcttatctttc Alignment from Spaln_aa2Genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggttcaggatgtacctaggaggtgggattttcccctttgttttagGTTGTGAGCTCTCTGATCACCACACGTTCGTTCACTTTCAATGTTGCAGAGGAGATGACACAGAGCAGGTGCTTGCATTGAACATGgtaagaggtacataaagagtcagttcagcacacccctggtcttatctttc Alignment from Spaln_nt2Genome GTTGTGAGCTCTCCGGCCAC-ACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggttcaggatgtacctaggaggtgggattttcccctttgttttagGTTGTGAGCTCTCTGATCACCACACGTTCGTTCACTTTCAATGTTGCAGAGGA-GATGACACAGAGCAGGTGCTTGCATTGAACATGgtaagaggtacataaagagtcagttcagcacacccctggtcttatctttc Alignment from Pairagon GTTGTGAGCTCTCCGGCCA-CACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggttcaggatgtacctaggaggtgggattttcccctttgttttagGTTGTGAGCTCTCTGATCACCACACGTTCGTTCACTTTCAATGTTGCAGAGGA-GATGACACAGAGCAGGTGCTTGCATTGAACATGgtaagaggtacataaagagtcagttcagcacacccctggtcttatctttc Alignment from Exonerate_protein2genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggttcaggatgtacctaggaggtgggattttcccctttgttttagGTTGTGAGCTCTCTGATCACCACACGTTCGTTCACTTTCAATGTTGCAGAGGAGATGACACAGAGCAGGTGCTTGCATTGAACATGgtaagaggtacataaagagtcagttcagcacacccctggtcttatctttc Alignment from Exonerate_coding2genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggttcaggatgtacctaggaggtgggattttcccctttgttttagGTTGTGAGCTCTCTGATCACCACACGTTCGTTCACTTTCAATGTTGCAGAGGAGATGACACAGAGCAGGTGCTTGCATTGAACATGgtaagaggtacataaagagtcagttcagcacacccctggtcttatctttc Alignment from GeneWise GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggttcaggatgtacctaggaggtgggattttcccctttgttttagGTTGTGAGCTCTCTGATCACCACACGTTCGTTCACTTTCAATGTTGCAGAGGAGATGACACAGAGCAGGTGCTTGCATTGAACATGgtaagaggtacataaagagtcagttcagcacacccctggtcttatctttc #### Nt5c2_ID10036_17 --> 0 - 0 Original Alignment AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTT-GCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG gtattgccaaaggactagatataggcgcggtgttaaattattccctgcagGAAGTAACTCATGACATGGATATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTCGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACAT-CTCATTCATTAACCTACTGTACTACCCATTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtacggactgatccttatggctgacagttgatgcaacaccacagtcacta Alignment from CESAR AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTT-GCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG gtattgccaaaggactagatataggcgcggtgttaaattattccctgcagGAAGTAACTCATGACATGGATATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTCGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACAT-CTCATTCATTAACCTACTGTACTACCCATTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtacggactgatccttatggctgacagttgatgcaacaccacagtcacta Alignment from Spaln_aa2Genome AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG gtattgccaaaggactagatataggcgcggtgttaaattattccctgcagGAAGTAACTCATGACATGGATATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTCGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACATCTCATTCATTAACCTACTGTACTACCCATTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtacggactgatccttatggctgacagttgatgcaacaccacagtcacta Alignment from Spaln_nt2Genome AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTT-GCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG gtattgccaaaggactagatataggcgcggtgttaaattattccctgcagGAAGTAACTCATGACATGGATATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTCGCCAGCCTAGTTATGCGTTATGCAGACCTCTACAC-ATCTCATTCATTAACCTACTGTACTACCCATTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtacggactgatccttatggctgacagttgatgcaacaccacagtcacta Alignment from Pairagon AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTT-GCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG gtattgccaaaggactagatataggcgcggtgttaaattattccctgcagGAAGTAACTCATGACATGGATATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTCGCCAGCCTAGTTATGCGTTATGCAGACCTCTACAC-ATCTCATTCATTAACCTACTGTACTACCCATTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtacggactgatccttatggctgacagttgatgcaacaccacagtcacta Alignment from Exonerate_protein2genome AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG gtattgccaaaggactagatataggcgcggtgttaaattattccctgcagGAAGTAACTCATGACATGGATATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTCGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACATCTCATTCATTAACCTACTGTACTACCCATTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtacggactgatccttatggctgacagttgatgcaacaccacagtcacta Alignment from Exonerate_coding2genome gtattgccaaaggactagatataggcgcggtgttaaattattccctgcaggaagtaactcatgacatggatatgtgctatggcatgatgggaagtctgttccggagtagctcccagcagacactctttcgccagcctagttatgcgttatgcagacctctacacatctcattcattaacctactgtactacccattcagttacctcttcagagctgcccatgtcctggtacggactgatccttatggctgacagttgatgcaacaccacagtcacta Alignment from GeneWise GTAGCAATGAGCGCCCGGACATTAGTTCCATC---CAGAGACGGATTAAGAAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG GTATTGCCAAAGGACTAGATATAGGCGCGGTGTTAAATTATTCCCTGCAGGAAGTAACTCATGACATGGATATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTCGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACATCTCATTCATTAACCTACTGTACTACCCATTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtacggactgatccttatggctgacagttgatgcaacaccacagtcacta #### Nt5c2_ID10040_13 --> 0 - 1 Original Alignment AAAACTGGAAAA-CTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGg tgagtaccagactaatgagaaaggtgaagcttttattttcctgctttcagAAAACTGGAAAACCTGAAAAATGGCTCCTACACAGGCCCTTTAC-ACAT---GTTGTCTATTCTGGGggtactgatgccatcagccttcaaggggtattttcatgaaaagtactctct Alignment from CESAR AAAACTGGAAAA-CTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGg tgagtaccagactaatgagaaaggtgaagcttttattttcctgctttcagAAAACTGGAAAACCTGAAAAATGGCTCCTACACAGGCCCTTTA---CAC-ATGTTGTCTATTCTGGGggtactgatgccatcagccttcaaggggtattttcatgaaaagtactctct Alignment from Spaln_aa2Genome AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgagtaccagactaatgagaaaggtgaagcttttattttcctgctttcagAAAACTGGAAAACCTGAAAAATGGCTCCTACACAGGCCCTTTACACAT---GTTGTCTATTCTGGGGgtactgatgccatcagccttcaaggggtattttcatgaaaagtactctct Alignment from Spaln_nt2Genome AAAACTGGAAAAC-TGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgagtaccagactaatgagaaaggtgaagcttttattttcctgctttcagAAAACTGGAAAACCTGAAAAATGGCTCCTACACAGGCCCTTTACA-CATG---TTGTCTATTCTGGGGgtactgatgccatcagccttcaaggggtattttcatgaaaagtactctct Alignment from Pairagon AAAACTGGAAAA-CTGAAAATTGGCACCTACACGGGCCC------CCTGCAGCACGGCATTGTCTACTCAGGGG tgagtaccagactaatgagaaaggtgaagcttttattttcctgctttcagAAAACTGGAAAACCTGAAAAATGGCTCCTACACAGGCCCTTTACACATG----------TTGTCTATTCTGGGGgtactgatgccatcagccttcaaggggtattttcatgaaaagtactctct Alignment from Exonerate_protein2genome AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGGGTT tgagtaccagactaatgagaaaggtgaagcttttattttcctgctttcagAAAACTGGAAAACCTGAAAAATGGCTCCTACACAGGCCCTTTACACAT---GTTGTCTATTCTGGGGGTActgatgccatcagccttcaaggggtattttcatgaaaagtactctct Alignment from Exonerate_coding2genome tgagtaccagactaatgagaaaggtgaagcttttattttcctgctttcagaaaactggaaaacctgaaaaatggctcctacacaggccctttacacatgttgtctattctgggggtactgatgccatcagccttcaaggggtattttcatgaaaagtactctct Alignment from GeneWise AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgagtaccagactaatgagaaaggtgaagcttttattttcctgctttcagAAAACTGGAAAACCTGAAAAATGGCTCCTACACAGGCCCTTTACACAT---GTTGTCTATTCTGGGGgtactgatgccatcagccttcaaggggtattttcatgaaaagtactctct #### Nudt22_ID1971_4 --> 1 - 0 Original Alignment gTGCAGCTTGACTTCAGAGGAGGTC-AGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gactacgagaactcaacactatcctgggtaagttttttttcttttctcaggTGCAGCTTGACTTCAGAGGAGGTCCAGGAGCTATTACCTGAGTGGGGGACCTG-GGCCCACGAATCTACAGGAATCATCTTTGTGGAAACGCAGgtaagtgagcttagctccagttggcacctgaaatattcaaggctattaac Alignment from CESAR gTGCAGCTTGACTTCAGAGGAGGTC-AGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gactacgagaactcaacactatcctgggtaagttttttttcttttctcaggTGCAGCTTGACTTCAGAGGAGGTCCAGGAGCTATTACCTGAGTGGGGGACCT-GGGCCCACGAATCTACAGGAATCATCTTTGTGGAAACGCAGgtaagtgagcttagctccagttggcacctgaaatattcaaggctattaac Alignment from Spaln_aa2Genome GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gactacgagaactcaacactatcctgggtaagttttttttcttttctcagGTGCAGCTTGACTTCAGAGGAGGTCCAGGAGCTATTACCTGAGTGGGGGACCTGGGCCCACGAATCTACAGGAATCATCTTTGTGGAAACGCAGgtaagtgagcttagctccagttggcacctgaaatattcaaggctattaac Alignment from Spaln_nt2Genome GTGCAGCTTGACTTCAGAGGAGGT-CAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gactacgagaactcaacactatcctgggtaagttttttttcttttctcagGTGCAGCTTGACTTCAGAGGAGGTCCAGGAGCTATTACCTGAGTGGGGGACCTGG-GCCCACGAATCTACAGGAATCATCTTTGTGGAAACGCAGgtaagtgagcttagctccagttggcacctgaaatattcaaggctattaac Alignment from Pairagon GTGCAGCTTGACTTCAGAGGAGGT-CAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gactacgagaactcaacactatcctgggtaagttttttttcttttctcagGTGCAGCTTGACTTCAGAGGAGGTCCAGGAGCTATTACCTGAGTGGGGGACCTG-GGCCCACGAATCTACAGGAATCATCTTTGTGGAAACGCAGgtaagtgagcttagctccagttggcacctgaaatattcaaggctattaac Alignment from Exonerate_protein2genome GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gactacgagaactcaacactatcctgggtaagttttttttcttttctcagGTGCAGCTTGACTTCAGAGGAGGTCCAGGAGCTATTACCTGAGTGGGGGACCTGGGCCCACGAATCTACAGGAATCATCTTTGTGGAAACGCAGgtaagtgagcttagctccagttggcacctgaaatattcaaggctattaac Alignment from Exonerate_coding2genome GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gactacgagaactcaacactatcctgggtaagttttttttcttttctcagGTGCAGCTTGACTTCAGAGGAGGTCCAGGAGCTATTACCTGAGTGGGGGACCTGGGCCCACGAATCTACAGGAATCATCTTTGTGGAAACGCAGgtaagtgagcttagctccagttggcacctgaaatattcaaggctattaac Alignment from GeneWise GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gactacgagaactcaacactatcctgggtaagttttttttcttttctcagGTGCAGCTTGACTTCAGAGGAGGTCCAGGAGCTATTACCTGAGTGGGGGACCTGGGCCCACGAATCTACAGGAATCATCTTTGTGGAAACGCAGgtaagtgagcttagctccagttggcacctgaaatattcaaggctattaac #### Nudt8_ID268_3 --> 0 - 0 Original Alignment GAAAAGGCAACCATA-GTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG ttggcaacagacatctggacctgattgcgattcatcaatgtttgtttcagGACAAGGCAAGCTTACGTCCCTGTTCTTGCGAATGTGGGCCCTTTGGATCTACAGA-CCTGAGGCCCAACCTTGAGGAAgtaactggtgcactttttggaccggggaacttaggagtggatgcatgtcc Alignment from CESAR GAAAAGGCAACCATA-GTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG ttggcaacagacatctggacctgattgcgattcatcaatgtttgtttcagGACAAGGCAAGCTTACGTCCCTGTTCTTGCGAATGTGGGCCCTTTGGATCTACAGA-CCTGAGGCCCAACCTTGAGGAAgtaactggtgcactttttggaccggggaacttaggagtggatgcatgtcc Alignment from Spaln_aa2Genome GAAAAGGCAACCATA-GTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG ttggcaacagacatctggacctgattgcgattcatcaatgtttgtttcagGACAAGGCAAGCTTAcGTCCCTGTTCTTGCGAATGTGGGCCCTTTGGATCTACAGAC-CTGAGGCCCAACCTTGAGGAAgtaactggtgcactttttggaccggggaacttaggagtggatgcatgtcc Alignment from Spaln_nt2Genome GAAAAGGCAACCATA-GTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG ttggcaacagacatctggacctgattgcgattcatcaatgtttgtttcagGACAAGGCAAGCTTACGTCCCTGTTCTTGCGAATGTGGGCCCTTTGGATCTACAGAC-CTGAGGCCCAACCTTGAGGAAgtaactggtgcactttttggaccggggaacttaggagtggatgcatgtcc Alignment from Pairagon GAAAAGGCAACCATA-GTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG ttggcaacagacatctggacctgattgcgattcatcaatgtttgtttcagGACAAGGCAAGCTTACGTCCCTGTTCTTGCGAATGTGGGCCCTTTGGATCTACAGA-CCTGAGGCCCAACCTTGAGGAAgtaactggtgcactttttggaccggggaacttaggagtggatgcatgtcc Alignment from Exonerate_protein2genome GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG ttggcaacagacatctggacctgattgcgattcatcaatgtttgtttcagGACAAGGCAAGCTTACGTCCCTGTTCTTGCGAATGTGGGCCCTTTGGATCTACAGACCTGAGGCCCAACCTTGAGGAAgtaactggtgcactttttggaccggggaacttaggagtggatgcatgtcc Alignment from Exonerate_coding2genome GTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGA ttggcaacagacatctggacctgattgcgattcatcaatgtttgtttcaggacaaggcaagcttacGTCCCTGTTCTTGCGAATGTGGGCCCTTTGGATCTACAGACCTGAGGCCCAACCTTGAGgaagtaactggtgcactttttggaccggggaacttaggagtggatgcatgtcc Alignment from GeneWise GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG ttggcaacagacatctggacctgattgcgattcatcaatgtttgtttcagGACAAGGCAAGCTTACGTCCCTGTTCTTGCGAATGTGGGCCCTTTGGATCTACAGACCTGAGGCCCAACCTTGAGGAAgtaactggtgcactttttggaccggggaacttaggagtggatgcatgtcc #### Nxf1_ID2345_5 --> 0 - 0 Original Alignment TTTCACTATGAA-AATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATC---CAGGATCGAGAAAACAGAAGG tgagtagcttatgttcggtgaggggtatgtctgctaactcttgaatgcagTTTCACTATGAACAATACACGCACTCATTTCTTTGTAGAGGATGCAACTACTG-TTCCACATTAAAAGGTGTGAACCATAAGATCATCCAGGATCGAGAGAACAGACGGgtagctagacagccgacattaatagaatggactggttgtaacaacttttc Alignment from CESAR TTTCACTATGAA-AATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGAGAAAACAGAAGG tgagtagcttatgttcggtgaggggtatgtctgctaactcttgaatgcagTTTCACTATGAACAATACACGCACTCATTTCTTTGTAGAGGATGCAACTACTG-TTCCACATTAAAAGGTGTGAACCATAAGATCATCCAGGATCGAGAGAACAGACGGgtagctagacagccgacattaatagaatggactggttgtaacaacttttc Alignment from Spaln_aa2Genome TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGAGAAAACAGAAGG tgagtagcttatgttcggtgaggggtatgtctgctaactcttgaatgcagTTTCACTATGAACAATACACGCACTCATTTCTTTGTAGAGGATGCAACTACTGTTCCACATTAAAAGGTGTGAACCATAAGATCATCCAGGATCGAGAGAACAGACGGgtagctagacagccgacattaatagaatggactggttgtaacaacttttc Alignment from Spaln_nt2Genome TTTCACTATGAA-AATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGAGAAAACAGAAGG tgagtagcttatgttcggtgaggggtatgtctgctaactcttgaatgcagTTTCACTATGAACAATACACGCACTCATTTCTTTGTAGAGGATGCAACTACTG-TTCCACATTAAAAGGTGTGAACCATAAGATCATCCAGGATCGAGAGAACAGACGGgtagctagacagccgacattaatagaatggactggttgtaacaacttttc Alignment from Pairagon TTTCACTATGAA-AATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGAGAAAACAGAAGG tgagtagcttatgttcggtgaggggtatgtctgctaactcttgaatgcagTTTCACTATGAACAATACACGCACTCATTTCTTTGTAGAGGATGCAACTACTG-TTCCACATTAAAAGGTGTGAACCATAAGATCATCCAGGATCGAGAGAACAGACGGgtagctagacagccgacattaatagaatggactggttgtaacaacttttc Alignment from Exonerate_protein2genome TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGAGAAAACAGAAGG tgagtagcttatgttcggtgaggggtatgtctgctaactcttgaatgcagTTTCACTATGAACAATACACGCACTCATTTCTTTGTAGAGGATGCAACTACTGTTCCACATTAAAAGGTGTGAACCATAAGATCATCCAGGATCGAGAGAACAGACGGgtagctagacagccgacattaatagaatggactggttgtaacaacttttc Alignment from Exonerate_coding2genome TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGAGAAAACAGAAGG tgagtagcttatgttcggtgaggggtatgtctgctaactcttgaatgcagTTTCACTATGAACAATACACGCACTCATTTCTTTGTAGAGGATGCAACTACTGTTCCACATTAAAAGGTGTGAACCATAAGATCATCCAGGATCGAGAGAACAGACGGgtagctagacagccgacattaatagaatggactggttgtaacaacttttc Alignment from GeneWise TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATC---CAGGATCGAGAAAACAGAAGG tgagtagcttatgttcggtgaggggtatgtctgctaactcttgaatgcagTTTCACTATGAACAATACACGCACTCATTTCTTTGTAGAGGATGCAACTACTGTTCCACATTAAAAGGTGTGAACCATAAGATCATCCAGGATCGAGAGAACAGACGGgtagctagacagccgacattaatagaatggactggttgtaacaacttttc #### Nxf1_ID2346_6 --> 0 - 0 Original Alignment ATATCTATCATC-ATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG ttttctacattgtcaccaattgtcctgtctccgacctttctgctctccagATATCAATCATACATCAATACTTCTGCTCCAGCCTACACTGTGCAGAACAAAG-AAAGGCTGAACAGATAGAGCAGCTCAAAgtaatcttgcataagtctacctgaccaccccataaactatagtgagagtt Alignment from CESAR ATATCTATCATC-ATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG ttttctacattgtcaccaattgtcctgtctccgacctttctgctctccagATATCAATCATACATCAATACTTCTGCTCCAGCCTACACTGTGCAGAACAAA-GAAAGGCTGAACAGATAGAGCAGCTCAAAgtaatcttgcataagtctacctgaccaccccataaactatagtgagagtt Alignment from Spaln_aa2Genome ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG ttttctacattgtcaccaattgtcctgtctccgacctttctgctctccagATATCAATCATACATCAATACTTCTGCTCCAGCCTACACTGTGCAGAACAAAGAAAGGCTGAACAGATAGAGCAGCTCAAAgtaatcttgcataagtctacctgaccaccccataaactatagtgagagtt Alignment from Spaln_nt2Genome ATATCTATCAT-CATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG ttttctacattgtcaccaattgtcctgtctccgacctttctgctctccagATATCAATCATACATCAATACTTCTGCTCCAGCCTACACTGTGCAGAA-CAAAGAAAGGCTGAACAGATAGAGCAGCTCAAAgtaatcttgcataagtctacctgaccaccccataaactatagtgagagtt Alignment from Pairagon ATATCTATCAT-CATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG ttttctacattgtcaccaattgtcctgtctccgacctttctgctctccagATATCAATCATACATCAATACTTCTGCTCCAGCCTACACTGTGCAGAACAAAG-AAAGGCTGAACAGATAGAGCAGCTCAAAgtaatcttgcataagtctacctgaccaccccataaactatagtgagagtt Alignment from Exonerate_protein2genome ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG ttttctacattgtcaccaattgtcctgtctccgacctttctgctctccagATATCAATCATACATCAATACTTCTGCTCCAGCCTACACTGTGCAGAACAAAGAAAGGCTGAACAGATAGAGCAGCTCAAAgtaatcttgcataagtctacctgaccaccccataaactatagtgagagtt Alignment from Exonerate_coding2genome ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG ttttctacattgtcaccaattgtcctgtctccgacctttctgctctccagATATCAATCATACATCAATACTTCTGCTCCAGCCTACACTGTGCAGAACAAAGAAAGGCTGAACAGATAGAGCAGCTCAAAgtaatcttgcataagtctacctgaccaccccataaactatagtgagagtt Alignment from GeneWise ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG ttttctacattgtcaccaattgtcctgtctccgacctttctgctctccagATATCAATCATACATCAATACTTCTGCTCCAGCCTACACTGTGCAGAACAAAGAAAGGCTGAACAGATAGAGCAGCTCAAAgtaatcttgcataagtctacctgaccaccccataaactatagtgagagtt #### Nxf1_ID2348_8 --> 2 - 0 Original Alignment atTTGGTGGCCCAGAACATCGATGTTGTTCTA-AACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG tgggcccctattttgagttagttgtctggtcttgccctctccccatacagacTTGGTAGCTCAGAACATTGTCGTCATTCTACAACCGCAGGAGTTGCATGGCAGCAACTGTTC-CACCATCAAGGACAACATTCCTGAGgtaggtgttccttctctctgttatcatttaattgtgcttacttaattaga Alignment from CESAR atTTGGTGGCCCAGAACATCGATGTTGTTCTA-AACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG tgggcccctattttgagttagttgtctggtcttgccctctccccatacagacTTGGTAGCTCAGAACATTGTCGTCATTCTACAACCGCAGGAGTTGCATGGCAGCAACTGTT-CCACCATCAAGGACAACATTCCTGAGgtaggtgttccttctctctgttatcatttaattgtgcttacttaattaga Alignment from Spaln_aa2Genome ATTTGGTGGCCCAGAACATCGATGTTGTTCTA-AACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG tgggcccctattttgagttagttgtctggtcttgccctctccccatacagACTTGGTAGCTCAGAACATTGTCGTCATTCTAcAACCGCAGGAGTTGCATGGCAGCAACTGTTCC-ACCATCAAGGACAACATTCCTGAGgtaggtgttccttctctctgttatcatttaattgtgcttacttaattaga Alignment from Spaln_nt2Genome ATTTGGTGGCCCAGAACATCGATGTTGTTCTA-AACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG C tgggcccctattttgagttagttgtctggtcttgccctctccccatacagACTTGGTAGCTCAGAACATTGTCGTCATTCTACAACCGCAGGAGTTGCATGGCAGCAACTGTTC-CACCATCAAGGACAACATTCCTGAGgtaggtgttccttctctctgttatcatttaattgtgcttacttaattagA Alignment from Pairagon ATTTGGTGGCCCAGAACATCGATGTTGTTCTA-AACCGCAGAAGCTGTATGGCAG--------CCACCCTGCGGATCATTGAAGAGAACATTCCTGAG tgggcccctattttgagttagttgtctggtcttgccctctccccatacagACTTGGTAGCTCAGAACATTGTCGTCATTCTACAACCGCAGGAGTTGCATGGCAGCAACTGTTCCAC---------CATCAAGGACAACATTCCTGAGgtaggtgttccttctctctgttatcatttaattgtgcttacttaattaga Alignment from Exonerate_protein2genome ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAGCTA tgggcccctattttgagttagttgtctggtcttgccctctccccatacagACTTGGTAGCTCAGAACATTGTCGTCATTCTACAACCGCAGGAGTTGCATGGCAGCAACTGTTCCACCATCAAGGACAACATTCCTGAG---gtaggtgttccttctctctgttatcatttaattgtgcttacttaatt Alignment from Exonerate_coding2genome ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAGCTA tgggcccctattttgagttagttgtctggtcttgccctctccccatacagACTTGGTAGCTCAGAACATTGTCGTCATTCTACAACCGCAGGAGTTGCATGGCAGCAACTGTTCCACCATCAAGGACAACATTCCTGAG---gtaggtgttccttctctctgttatcatttaattgtgcttacttaatt Alignment from GeneWise ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAGCTATTG tgggcccctattttgagttagttgtctggtcttgccctctccccatacagACTTGGTAGCTCAGAACATTGTCGTCATTCTACAACCGCAGGAGTTGCATGGCAGCAACTGTTCCACCATCAAGGACAACATTCCTGAGGTAGGTgttccttctctctgttatcatttaattgtgcttacttaattaga #### Nxf1_ID2349_9 --> 0 - 0 Original Alignment CTATTGTCTTTGAACTTGAGCAGCAACAGGCTA-TACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatgtgtaataaataggttaatattttgcaccttttgctttccag---TTGTCTTTGAACTTGAGCAGCAACCGGCTACTTCAAGCTGGACGACATGTCAGGTATTGTGCAAACAG-TCCAAATATAAAAACTTTAAATCTTCCTGGAAAGGAGgtaagatggcatttaggataatcaatgatttttaattagtagtagttgaa Alignment from CESAR CTATTGTCTTTGAACTTGAGCAGCAACAGGCTA-TACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatgtgtaataaataggttaatattttgcaccttttgctttccag---TTGTCTTTGAACTTGAGCAGCAACCGGCTACTTCAAGCTGGACGACATGTCAGGTATTGTGCAAACA-GTCCAAATATAAAAACTTTAAATCTTCCTGGAAAGGAGgtaagatggcatttaggataatcaatgatttttaattagtagtagttgaa Alignment from Spaln_aa2Genome CTATTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatgtgtaataaataggttaatattttgcaccttttgctttccag---TTGTCTTTGAACTTGAGCAGCAACCGGCTACTTCAAGCTGGACGACATGTCAGGTATTGTGCAAACAGTCCAAATATAAAAACTTTAAATCTTCCTGGAAAGGAGgtaagatggcatttaggataatcaatgatttttaattagtagtagttgaa Alignment from Spaln_nt2Genome TTGTCTTTGAACTTGAGCAGCAACAGGCTA-TACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatgtgtaataaataggttaatattttgcaccttttgctttccagTTGTCTTTGAACTTGAGCAGCAACCGGCTACTTCAAGCTGGACGACATGTCAGGTATTGTGCA-AACAGTCCAAATATAAAAACTTTAAATCTTCCTGGAAAGGAGgtaagatggcatttaggataatcaatgatttttaattagtagtagttgaa Alignment from Pairagon CTATTGTCTTTGAACTTGAGCAGCAACAGGCTA-TACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatgtgtaataaataggttaatattttgcaccttttgctttccag---TTGTCTTTGAACTTGAGCAGCAACCGGCTACTTCAAGCTGGACGACATGTCAGGTATTGTGCAAACAGT-CCAAATATAAAAACTTTAAATCTTCCTGGAAAGGAGgtaagatggcatttaggataatcaatgatttttaattagtagtagttgaa Alignment from Exonerate_protein2genome TTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatgtgtaataaataggttaatattttgcaccttttgctttccagTTGTCTTTGAACTTGAGCAGCAACCGGCTACTTCAAGCTGGACGACATGTCAGGTATTGTGCAAACAGTCCAAATATAAAAACTTTAAATCTTCCTGGAAAGGAGgtaagatggcatttaggataatcaatgatttttaattagtagtagttgaa Alignment from Exonerate_coding2genome TTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatgtgtaataaataggttaatattttgcaccttttgctttccagTTGTCTTTGAACTTGAGCAGCAACCGGCTACTTCAAGCTGGACGACATGTCAGGTATTGTGCAAACAGTCCAAATATAAAAACTTTAAATCTTCCTGGAAAGGAGgtaagatggcatttaggataatcaatgatttttaattagtagtagttgaa Alignment from GeneWise ---TCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatgtgtaataaataggttaatattttgcaccttttgctttccagTTGTCTTTGAACTTGAGCAGCAACCGGCTACTTCAAGCTGGACGACATGTCAGGTATTGTGCAAACAGTCCAAATATAAAAACTTTAAATCTTCCTGGAAAGGAGgtaagatggcatttaggataatcaatgatttttaattagtagtagttgaa #### Nxf1_ID2358_18 --> 2 - 2 Original Alignment tgGATGGGAAGTCTCGAGAT-TCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAgg ctgtaactcttttgcacctcagggcactctgaatgtggttttcctggcagtaGATGGGAAGTCTCGAGATCTCTCTACATGCCTACGCAAGGACATTCATTGCAGTTC-TGCAAGTAATACAgggtgagtagatctgattgattaacaatgagaggagtggaggacacaacagt Alignment from CESAR tgGATGGGAAGTCTCGAGAT-TCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAgg ctgtaactcttttgcacctcagggcactctgaatgtggttttcctggcagtaGATGGGAAGTCTCGAGATCTCTCTACATGCCTACGCAAGGACATTCATTGCAG-TTCTGCAAGTAATACAgggtgagtagatctgattgattaacaatgagaggagtggaggacacaacagt Alignment from Spaln_aa2Genome TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG ctgtaactcttttgcacctcagggcactctgaatgtggttttcctggcagTAGATGGGAAGTCTCGAGATCTCTCTACATGCCTACGCAAGGACATTCATTGCAGTTCTGCAAGTAATACAGGgtgagtagatctgattgattaacaatgagaggagtggaggacacaacagt Alignment from Spaln_nt2Genome TGGATGGGAAGTCTCGAGAT-TCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG ctgtaactcttttgcacctcagggcactctgaatgtggttttcctggcagTAGATGGGAAGTCTCGAGATCTCTCTACATGCCTACGCAAGGACATTCATTGCAGTT-CTGCAAGTAATACAGGgtgagtagatctgattgattaacaatgagaggagtggaggacacaacagt Alignment from Pairagon TGGATGGGAAGTCTCGAGAT-TCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG ctgtaactcttttgcacctcagggcactctgaatgtggttttcctggcagTAGATGGGAAGTCTCGAGATCTCTCTACATGCCTACGCAAGGACATTCATTGCAGTT-CTGCAAGTAATACAGGgtgagtagatctgattgattaacaatgagaggagtggaggacacaacagt Alignment from Exonerate_protein2genome TTTTCTGTCAATGGAGTCTTCAAGGAAGTGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG ctgtaactcttttgcacctcagGGCACTCTGAATGTGGTTTTCCTGGCAGTAGATGGGAAGTCTCGAGATCTCTCTACATGCCTACGCAAGGACATTCATTGCAGTTCTGCAAGTAATACAGGgtgagtagatctgattgattaacaatgagaggagtggaggacacaacagt Alignment from Exonerate_coding2genome TTTTCTGTCAATGGAGTCTTCAAGGAAGTGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG ctgtaactcttttgcacctcagGGCACTCTGAATGTGGTTTTCCTGGCAGTAGATGGGAAGTCTCGAGATCTCTCTACATGCCTACGCAAGGACATTCATTGCAGTTCTGCAAGTAATACAGGgtgagtagatctgattgattaacaatgagaggagtggaggacacaacagt Alignment from GeneWise AGCACATTACTGTGTTTTTCTGTCAATGGAGTCTTCAAGGAAGTGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG acctcagGGCACTCTG---------------AATGTGGTTTTCCTGGCAGTAGATGGGAAGTCTCGAGATCTCTCTACATGCCTACGCAAGGACATTCATTGCAGTTCTGCAAGTAATACAGGgtgagtagatctgattgattaacaatgagaggagtggaggacacaacagt #### Pacs1_ID876_18 --> 2 - 2 Original Alignment agCCACTGGACGTGGTGGGTCGTGTGATGCAG-TATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGtt ttacaggtctactggaatattactcttattctctattttcccacctccagaaCCACTAGACGTGGTGGGTCATGTGATGCTGCTACATCAATGGTTCTATAACAACGCACCAGCTTCCTATCGCAG-AGCTATGCTGACCTGCAGACATAAGttgtgggcccactatgagaactttcaggaaagcagcttgcactaatagatga Alignment from CESAR agCCACTGGACGTGGTGGGTCGTGTGATGCAG-TATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGtt ttacaggtctactggaatattactcttattctctattttcccacctccagaaCCACTAGACGTGGTGGGTCATGTGATGCTGCTACATCAATGGTTCTATAACAACGCACCAGCTTCCTATCGCAG-AGCTATGCTGACCTGCAGACATAAGttgtgggcccactatgagaactttcaggaaagcagcttgcactaatagatga Alignment from Spaln_aa2Genome AGCCACTGGACGTGGTGGGTCGTGTGATGCAG-TATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGTT ttacaggtctactggaatattactcttattctctattttcccacctccagAACCACTAGACGTGGTGGGTCATGTGATGCTGcTACATCAATGGTTCTATAACAACGCACCAGCTTCCTATCGCAGA-GCTATGCTGACCTGCAGACATAAGTTgtgggcccactatgagaactttcaggaaagcagcttgcactaatagatga Alignment from Spaln_nt2Genome AGCCACTGGACGTGGTGGGTCGTGTGATGCAG-TATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGTT ttacaggtctactggaatattactcttattctctattttcccacctccagAACCACTAGACGTGGTGGGTCATGTGATGCTGCTACATCAATGGTTCTATAACAACGCACCAGCTTCCTATCGCAG-AGCTATGCTGACCTGCAGACATAAGTTgtgggcccactatgagaactttcaggaaagcagcttgcactaatagatga Alignment from Pairagon AGCCACTGGACGTGGTGGGTCGTGTGATGCAG-TATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGTT ttacaggtctactggaatattactcttattctctattttcccacctccagAACCACTAGACGTGGTGGGTCATGTGATGCTGCTACATCAATGGTTCTATAACAACGCACCAGCTTCCTATCGCAG-AGCTATGCTGACCTGCAGACATAAGTTgtgggcccactatgagaactttcaggaaagcagcttgcactaatagatga Alignment from Exonerate_protein2genome AGCCACTGGACGTGGTGGGTCGTGTGATGCAG-TATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAA--GCCATGTTGACCTGCAGGCATAAGTT ttacaggtctactggaatattactcttattctctattttcccacctccagAACCACTAGACGTGGTGGGTCATGTGATGCTGCTACATCAATGGTTCTATAACAACGCACCAGCTTCCTATCGCAGAGCT---ATGCTGACCTGCAGACATAAGTTgtgggcccactatgagaactttcaggaaagcagcttgcactaatagatga Alignment from Exonerate_coding2genome ttacaggtctactggaatattactcttattctctattttcccacctccagaaccactagacgtggtgggtcatgtgatgctgctacatcaatggttctataacaacgcaccagcttcctatcgcagagctatgctgacctgcagacataagttgtgggcccactatgagaactttcaggaaagcagcttgcactaatagatga Alignment from GeneWise AGCCACTGGACGTGGTGGGTCGTGTGATG-CAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGTT ttacaggtctactggaatattactcttattctctattttcccacctccagAACCACTAGACGTGGTGGGTCATGTGATGCTGCTACATCAATGGTTCTATAACAACGCACCAGCTTCCTATCGCAGAGCT-ATGCTGACCTGCAGACATAAGTTgtgggcccactatgagaactttcaggaaagcagcttgcactaatagatga #### Pacs1_ID877_17 --> 2 - 1 Original Alignment gtTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTT-CTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAg gtgtgttcggaatgagtacttcgtctttctcaggcccctctgccccccaggcTCTCATCCAGTAGCCAAGTACTTAGGCTCTGTAGACAGCAGGTATAGCAGTACATTTCCTAGATCCTGCATCAAAAGATCTATTCAGCCAGT-AGAGCCCCTAGTGTCAggtgagacccaccagtagcagtttgctacctttggtactatctcccatgac Alignment from CESAR gtTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTT-CTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAg gtgtgttcggaatgagtacttcgtctttctcaggcccctctgccccccaggcTCTCATCCAGTAGCCAAGTACTTAGGCTCTGTAGACAGCAGGTATAGCAGTACATTTCCTAGATCCTGCATCAAAAGATCTATTCAGCCAG-TAGAGCCCCTAGTGTCAggtgagacccaccagtagcagtttgctacctttggtactatctcccatgac Alignment from Spaln_aa2Genome GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAG gtgtgttcggaatgagtacttcgtctttctcaggcccctctgccccccagGCTCTCATCCAGTAGCCAAGTACTTAGGCTCTGTAGACAGCAGGTATAGCAGTACATTTCCTAGATCCTGCATCAAAAGATCTATTCAGCCAGTAGAGCCCCTAGTGTCAGgtgagacccaccagtagcagtttgctacctttggtactatctcccatgac Alignment from Spaln_nt2Genome GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTT-GATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAG gtgtgttcggaatgagtacttcgtctttctcaggcccctctgccccccagGCTCTCATCCAGTAGCCAAGTACTTAGGCTCTGTAGACAGCAGGTATAGCAGTACATTTCCTAGATCCTGCATCAAAAGATCTATTCAGCCAGT-AGAGCCCCTAGTGTCAGgtgagacccaccagtagcagtttgctacctttggtactatctcccatgac Alignment from Pairagon GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTT-GATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAG gtgtgttcggaatgagtacttcgtctttctcaggcccctctgccccccagGCTCTCATCCAGTAGCCAAGTACTTAGGCTCTGTAGACAGCAGGTATAGCAGTACATTTCCTAGATCCTGCATCAAAAGATCTATTCAGCCAGT-AGAGCCCCTAGTGTCAGgtgagacccaccagtagcagtttgctacctttggtactatctcccatgac Alignment from Exonerate_protein2genome GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAG gtgtgttcggaatgagtacttcgtctttctcaggcccctctgccccccagGCTCTCATCCAGTAGCCAAGTACTTAGGCTCTGTAGACAGCAGGTATAGCAGTACATTTCCTAGATCCTGCATCAAAAGATCTATTCAGCCAGTAGAGCCCCTAGTGTCAGgtgagacccaccagtagcagtttgctacctttggtactatctcccatgac Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAG gtgtgttcggaatgagtacttcgtctttctcaggcccctctgccccccagGCTCTCATCCAGTAGCCAAGTACTTAGGCTCTGTAGACAGCAGGTATAGCAGTACATTTCCTAGATCCTGCATCAAAAGATCTATTCAGCCAGTAGAGCCCCTAGTGTCAGgtgagacccaccagtagcagtttgctacctttggtactatctcccatgac #### Pacs1_ID879_15 --> 0 - 2 Original Alignment TACGTGGCTGAATTGCTTCAAGACCAGAGGAAG-CCTGTGGTATGCACCTGCTCAACAGTGGAGGTCCAGGCAGTGCTGTCCGCCCTTCTCACTAGGATTCAGCGCta gtctggattttagctagctattcaagatactcttcttgcttctccggcagTATGTGGCCAAACTGCTTCAGGATCAACGGAAGCCCTGTGGTGTGTGCATGCTCGCCAGTAGAGGTCCAGGCTG-TGTCTCAGCTCTTCTCACAAGGATTCAGCGAtagtaaggggctgtgtccacataggtaatgtgcactccagcaccctgtgact Alignment from CESAR TACGTGGCTGAATTGCTTCAAGACCAGAGGAAG-CCTGTGGTATGCACCTGCTCAACAGTGGAGGTCCAGGCAGTGCTGTCCGCCCTTCTCACTAGGATTCAGCGCta gtctggattttagctagctattcaagatactcttcttgcttctccggcagTATGTGGCCAAACTGCTTCAGGATCAACGGAAGCCCTGTGGTGTGTGCATGCTCGCCAGTAGAGGTCCAGGCTGTG-TCTCAGCTCTTCTCACAAGGATTCAGCGAtagtaaggggctgtgtccacataggtaatgtgcactccagcaccctgtgact Alignment from Spaln_aa2Genome TACGTGGCTGAATTGCTTCAAGACCAGAGGAAGCCTGTGGTATGCACCTGCTCAACAGTGGAGGTCCAGGCAGTGCTGTCCGCCCTTCTCACTAGGATTCAGCGCTA gtctggattttagctagctattcaagatactcttcttgcttctccggcagTATGTGGCCAAACTGCTTCAGGATCAACGGAAGCCCTGTGGTGTGTGCATGCTCGCCAGTAGAGGTCCAGGCTGTGTCTCAGCTCTTCTCACAAGGATTCAGCGATAgtaaggggctgtgtccacataggtaatgtgcactccagcaccctgtgact Alignment from Spaln_nt2Genome TACGTGGCTGAATTGCTTCAAGACCAGAGGAAGCC-TGTGGTATGCACCTGCTCAACAGTGGAGGTCCAGGCAGTGCTGTCCGCCCTTCTCACTAGGATTCAGCGCTA gtctggattttagctagctattcaagatactcttcttgcttctccggcagTATGTGGCCAAACTGCTTCAGGATCAACGGAAGCCCTGTGGTGTGTGCATGCTCGCCAGTAGAGGTCCAGGCTGTG-TCTCAGCTCTTCTCACAAGGATTCAGCGATAgtaaggggctgtgtccacataggtaatgtgcactccagcaccctgtgact Alignment from Pairagon TACGTGGCTGAATTGCTTCAAGACCAGAGGAAG-CCTGTGGTATGCACCTGCTCAACAGTGGAGGTCCAGGCAGTGCTGTCCGCCCTTCTCACTAGGATTCAGCGCTA gtctggattttagctagctattcaagatactcttcttgcttctccggcagTATGTGGCCAAACTGCTTCAGGATCAACGGAAGCCCTGTGGTGTGTGCATGCTCGCCAGTAGAGGTCCAGGCTGTG-TCTCAGCTCTTCTCACAAGGATTCAGCGATAgtaaggggctgtgtccacataggtaatgtgcactccagcaccctgtgact Alignment from Exonerate_protein2genome TACGTGGCTGAATTGCTTCAAGACCAGAGGAAGCCTGTGGTATGCACCTGCTCAACAGTGGAGGTCCAGGCAGTGCTGTCCGCCCTTCTCACTAGGATTCAGCGCTA gtctggattttagctagctattcaagatactcttcttgcttctccggcagTATGTGGCCAAACTGCTTCAGGATCAACGGAAGCCCTGTGGTGTGTGCATGCTCGCCAGTAGAGGTCCAGGCTGTGTCTCAGCTCTTCTCACAAGGATTCAGCGATAgtaaggggctgtgtccacataggtaatgtgcactccagcaccctgtgact Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TACGTGGCTGAATTGCTTCAAGACCAGAGGAAGCCTGTGGTATGCACCTGCTCAACAGTGGAGGTCCAGGCAGTGCTGTCCGCCCTTCTCACTAGGATTCAGCGCTA gtctggattttagctagctattcaagatactcttcttgcttctccggcagTATGTGGCCAAACTGCTTCAGGATCAACGGAAGCCCTGTGGTGTGTGCATGCTCGCCAGTAGAGGTCCAGGCTGTGTCTCAGCTCTTCTCACAAGGATTCAGCGATAgtaaggggctgtgtccacataggtaatgtgcactccagcaccctgtgact #### Pacs1_ID888_6 --> 2 - 0 Original Alignment atCGCTCCCCAGATATTGACAACTACTCT-GAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG actggatattgtgaaactctcattcagtcctttgctctgtcctttcccagacCGCTCCCCAGACATTGACAATTATTCACGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGC-GGATGACACTGATGATCCGCTGCATGGACAAgtgagaatttggcagtgtacaagttgaaacagggtgaggcaccacctcac Alignment from CESAR atCGCTCCCCAGATATTGACAACTACTCT-GAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG actggatattgtgaaactctcattcagtcctttgctctgtcctttcccagacCGCTCCCCAGACATTGACAATTATTCACGAAGAGGAGGAAGAAAGCTTCTCCTCAGCG-CGGATGACACTGATGATCCGCTGCATGGACAAgtgagaatttggcagtgtacaagttgaaacagggtgaggcaccacctcac Alignment from Spaln_aa2Genome ATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG actggatattgtgaaactctcattcagtcctttgctctgtcctttcccagACCGCTCCCCAGACATTGACAATTATTCACGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGCGGATGACACTGATGATCCGCTGCATGGACAAgtgagaatttggcagtgtacaagttgaaacagggtgaggcaccacctcac Alignment from Spaln_nt2Genome ATCGCTCCCCAGATATTGACAACTACTCT-GAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG actggatattgtgaaactctcattcagtcctttgctctgtcctttcccagACCGCTCCCCAGACATTGACAATTATTCACGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGC-GGATGACACTGATGATCCGCTGCATGGACAAgtgagaatttggcagtgtacaagttgaaacagggtgaggcaccacctcac Alignment from Pairagon ATCGCTCCCCAGATATTGACAACTACTC-TGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG actggatattgtgaaactctcattcagtcctttgctctgtcctttcccagACCGCTCCCCAGACATTGACAATTATTCACGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGC-GGATGACACTGATGATCCGCTGCATGGACAAgtgagaatttggcagtgtacaagttgaaacagggtgaggcaccacctcac Alignment from Exonerate_protein2genome ATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG actggatattgtgaaactctcattcagtcctttgctctgtcctttcccagACCGCTCCCCAGACATTGACAATTATTCACGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGCGGATGACACTGATGATCCGCTGCATGGACAAgtgagaatttggcagtgtacaagttgaaacagggtgaggcaccacctcac Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG actggatattgtgaaactctcattcagtcctttgctctgtcctttcccagACCGCTCCCCAGACATTGACAATTATTCACGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGCGGATGACACTGATGATCCGCTGCATGGACAAgtgagaatttggcagtgtacaagttgaaacagggtgaggcaccacctcac #### Patl1_ID3332_17 --> 0 - 2 Original Alignment TTTGGCTTGTCACTGCTCCTAATCCTACTA-AGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGtg ctgaccatgtggttccatacctgaccattgcctgctctttgtcatttcagTTTGGGTTGTCACTGCTCCTAATCCTACTGCAGCCGAGGAGAAGACCTGCAGAGCTCTG-TCCAGCTATAGAACTTATGCAAAATAATCAGtggtatgatatagtagcaggctatgtgaatcaactctgttgccttccatgtc Alignment from CESAR TTTGGCTTGTCACTGCTCCTAATCCTACTA-AGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGtg ctgaccatgtggttccatacctgaccattgcctgctctttgtcatttcagTTTGGGTTGTCACTGCTCCTAATCCTACTGCAGCCGAGGAGAAGACCTGCAGAGCTCT-GTCCAGCTATAGAACTTATGCAAAATAATCAGtggtatgatatagtagcaggctatgtgaatcaactctgttgccttccatgtc Alignment from Spaln_aa2Genome TTTGGCTTGTCACTGCTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG ctgaccatgtggttccatacctgaccattgcctgctctttgtcatttcagTTTGGGTTGTCACTGCTCCTAATCCTACTGCAGCCGAGGAGAAGACCTGCAGAGCTCTGTCCAGCTATAGAACTTATGCAAAATAATCAGTGgtatgatatagtagcaggctatgtgaatcaactctgttgccttccatgtc Alignment from Spaln_nt2Genome TTTGGCTTGTCACTGCTCCTAATCCTACTA-AGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG ctgaccatgtggttccatacctgaccattgcctgctctttgtcatttcagTTTGGGTTGTCACTGCTCCTAATCCTACTGCAGCCGAGGAGAAGACCTGCAGAGCTCTG-TCCAGCTATAGAACTTATGCAAAATAATCAGTGgtatgatatagtagcaggctatgtgaatcaactctgttgccttccatgtc Alignment from Pairagon TTTGGCTTGTCACTGCTCCTAATCCTACTA-AGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG ctgaccatgtggttccatacctgaccattgcctgctctttgtcatttcagTTTGGGTTGTCACTGCTCCTAATCCTACTGCAGCCGAGGAGAAGACCTGCAGAGCTCTG-TCCAGCTATAGAACTTATGCAAAATAATCAGTGgtatgatatagtagcaggctatgtgaatcaactctgttgccttccatgtc Alignment from Exonerate_protein2genome TTTGGCTTGTCACTGCTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG ctgaccatgtggttccatacctgaccattgcctgctctttgtcatttcagTTTGGGTTGTCACTGCTCCTAATCCTACTGCAGCCGAGGAGAAGACCTGCAGAGCTCTGTCCAGCTATAGAACTTATGCAAAATAATCAGTGgtatgatatagtagcaggctatgtgaatcaactctgttgccttccatgtc Alignment from Exonerate_coding2genome TTTGGCTTGTCACTGCTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG ctgaccatgtggttccatacctgaccattgcctgctctttgtcatttcagTTTGGGTTGTCACTGCTCCTAATCCTACTGCAGCCGAGGAGAAGACCTGCAGAGCTCTGTCCAGCTATAGAACTTATGCAAAATAATCAGTGgtatgatatagtagcaggctatgtgaatcaactctgttgccttccatgtc Alignment from GeneWise TTTGGCTTGTCACTGCTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTGGACAGAGGTG ctgaccatgtggttccatacctgaccattgcctgctctttgtcatttcagTTTGGGTTGTCACTGCTCCTAATCCTACTGCAGCCGAGGAGAAGACCTGCAGAGCTCTGTCCAGCTATAGAACTTATGCAAAATAATCAGTGGTATGATATAgtagcaggctatgtgaatcaactctgttgccttccatgtc #### Patl1_ID3333_18 --> 1 - 2 Original Alignment gACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGG-ATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGca tcctagttttgtgctgctctggtctatcatattttccttttgtttttcaggACAGAGGTGATGTTTATGGCAGCCCAAGAACTGGTCCGTCATCCTGCAAGTGGCCCTTTCCAACTCAACTTCTATTCCAC-AAATCTAGCATCTTTTTTATCCCGCTTTGTTGACCGACAGAAACTGAATCTGTTAGAGACCAAACTGaagtagtgtttgtcacactttttctgctttgttgggtgagaaaaactgagtt Alignment from CESAR gACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGG-ATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGca tcctagttttgtgctgctctggtctatcatattttccttttgtttttcaggACAGAGGTGATGTTTATGGCAGCCCAAGAACTGGTCCGTCATCCTGCAAGTGGCCCTTTCCAACTCAACTTCTATTC-CACAAATCTAGCATCTTTTTTATCCCGCTTTGTTGACCGACAGAAACTGAATCTGTTAGAGACCAAACTGaagtagtgtttgtcacactttttctgctttgttgggtgagaaaaactgagtt Alignment from Spaln_aa2Genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCA tcctagttttgtgctgctctggtctatcatattttccttttgtttttcagGACAGAGGTGATGTTTATGGCAGCCCAAGAACTGGTCCGTCATCCTGCAAGTGGCCCTTTCCAACTCAACTTCTATTCCACAAATCTAGCATCTTTTTTATCCCGCTTTGTTGACCGACAGAAACTGAATCTGTTAGAGACCAAACTGAAgtagtgtttgtcacactttttctgctttgttgggtgagaaaaactgagtt Alignment from Spaln_nt2Genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGG-ATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCA tcctagttttgtgctgctctggtctatcatattttccttttgtttttcagGACAGAGGTGATGTTTATGGCAGCCCAAGAACTGGTCCGTCATCCTGCAAGTGGCCCTTTCCAACTCAACTTCTATTCC-ACAAATCTAGCATCTTTTTTATCCCGCTTTGTTGACCGACAGAAACTGAATCTGTTAGAGACCAAACTGAAgtagtgtttgtcacactttttctgctttgttgggtgagaaaaactgagtt Alignment from Pairagon GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACG-GATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCA tcctagttttgtgctgctctggtctatcatattttccttttgtttttcagGACAGAGGTGATGTTTATGGCAGCCCAAGAACTGGTCCGTCATCCTGCAAGTGGCCCTTTCCAACTCAACTTCTATTCC-ACAAATCTAGCATCTTTTTTATCCCGCTTTGTTGACCGACAGAAACTGAATCTGTTAGAGACCAAACTGAAgtagtgtttgtcacactttttctgctttgttgggtgagaaaaactgagtt Alignment from Exonerate_protein2genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAG tcctagttttgtgctgctctggtctatcatattttccttttgtttttcagGACAGAGGTGATGTTTATGGCAGCCCAAGAACTGGTCCGTCATCCTGCAAGTGGCCCTTTCCAACTCAACTTCTATTCCACAAATCTAGCATCTTTTTTATCCCGCTTTGTTGACCGACAGAAACTGAATCTGTTAGAGACCAAACTGAAGtagtgtttgtcacactttttctgctttgttgggtgagaaaaactgagtt Alignment from Exonerate_coding2genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAG tcctagttttgtgctgctctggtctatcatattttccttttgtttttcagGACAGAGGTGATGTTTATGGCAGCCCAAGAACTGGTCCGTCATCCTGCAAGTGGCCCTTTCCAACTCAACTTCTATTCCACAAATCTAGCATCTTTTTTATCCCGCTTTGTTGACCGACAGAAACTGAATCTGTTAGAGACCAAACTGAAGtagtgtttgtcacactttttctgctttgttgggtgagaaaaactgagtt Alignment from GeneWise GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAG tcctagttttgtgctgctctggtctatcatattttccttttgtttttcagGACAGAGGTGATGTTTATGGCAGCCCAAGAACTGGTCCGTCATCCTGCAAGTGGCCCTTTCCAACTCAACTTCTATTCCACAAATCTAGCATCTTTTTTATCCCGCTTTGTTGACCGACAGAAACTGAATCTGTTAGAGACCAAACTGAAGtagtgtttgtcacactttttctgctttgttgggtgagaaaaactgagtt #### Pcnxl3_ID1161_32 --> 0 - 2 Original Alignment GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGAC-CAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGag cctaagatgtattgatgccccccctcatcttgtctactgccacttcccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGCGATCCGACCACTAGGATATCCAACCTTTGTCTCACCTTTGA-TACACCTTTGCCTGGGACACATCCCCAATTACAAGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAAcggtgagttctgatagggatgggttcggttctcatagtccccaaaattgaaa Alignment from CESAR GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGAC-CAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGag cctaagatgtattgatgccccccctcatcttgtctactgccacttcccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGCGATCCGACCACTAGGATATCCAACCTTTGTCTCACCTTTG-ATACACCTTTGCCTGGGACACATCCCCAATTACAAGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAAcggtgagttctgatagggatgggttcggttctcatagtccccaaaattgaaa Alignment from Spaln_aa2Genome GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGAG cctaagatgtattgatgccccccctcatcttgtctactgccacttcccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGCGATCCGACCACTAGGATATCCAACCTTTGTCTCACCTTTGATACACCTTTGCCTGGGACACATCCCCAATTACAAGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAACGgtgagttctgatagggatgggttcggttctcatagtccccaaaattgaaa Alignment from Spaln_nt2Genome GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAG-CCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGAG cctaagatgtattgatgccccccctcatcttgtctactgccacttcccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGCGATCCGACCACTAGGATATCCAACCTTTGTCTCACCT-TTGATACACCTTTGCCTGGGACACATCCCCAATTACAAGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAACGgtgagttctgatagggatgggttcggttctcatagtccccaaaattgaaa Alignment from Pairagon GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAG-CCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGAG cctaagatgtattgatgccccccctcatcttgtctactgccacttcccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGCGATCCGACCACTAGGATATCCAACCTTTGTCTCACCTTTGA-TACACCTTTGCCTGGGACACATCCCCAATTACAAGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAACGgtgagttctgatagggatgggttcggttctcatagtccccaaaattgaaa Alignment from Exonerate_protein2genome GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGAG cctaagatgtattgatgccccccctcatcttgtctactgccacttcccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGCGATCCGACCACTAGGATATCCAACCTTTGTCTCACCTTTGATACACCTTTGCCTGGGACACATCCCCAATTACAAGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAACGgtgagttctgatagggatgggttcggttctcatagtccccaaaattgaaa Alignment from Exonerate_coding2genome cctaagatgtattgatgccccccctcatcttgtctactgccacttcccaggtaaactgggaatgtgtacgagggttgtgggctgggcagcaacaagagctagtctttctgtgcaatcgcaaccctgagcggggtagtgtccagaatgcccagcaggcaatctgcaacaagattaattcttcctgcgatccgaccactaggatatccaacctttgtctcacctttgatacacctttgcctgggacacatccccaattacaagcactgtggggtggtcctgttagcttgggtgccattgcacgatggcttttacatcgctgggaacggtgagttctgatagggatgggttcggttctcatagtccccaaaattgaaa Alignment from GeneWise GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGAG cctaagatgtattgatgccccccctcatcttgtctactgccacttcccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGCGATCCGACCACTAGGATATCCAACCTTTGTCTCACCTTTGATACACCTTTGCCTGGGACACATCCCCAATTACAAGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAACGgtgagttctgatagggatgggttcggttctcatagtccccaaaattgaaa #### Pcnxl3_ID1163_30 --> 1 - 0 Original Alignment cCTGGAGCCCTTCCTCTATGGCCTGCACGCC-CTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTTCACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTT------CACCAG cctcaatgatccttcgaaatggagaagctgttcttgttctcacactacagcCTAGAGCCCTTCCTCTATGGCCTACGAGCTCCTGTTCAAAGGAGATTTCAGGATCACCTCCC-CCGTGATGAGTGG---------GACATAGATTTATTGCACCAGGTTGTGGCACCAGGGGTACGTATGGCCCTAAAGCTTCATCATCATCAGgtactgataattaaggcagtgtaggggcaggtgttccctttaccttagac Alignment from CESAR cCTGGAGCCCTTCCTCTATGGCCTGCACGCC-CTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTTCACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTT------CACCAG cctcaatgatccttcgaaatggagaagctgttcttgttctcacactacagcCTAGAGCCCTTCCTCTATGGCCTACGAGCTCCTGTTCAAAGGAGATTTCAGGATCACCT-CCCCCGTGATGAGTGG---------GACATAGATTTATTGCACCAGGTTGTGGCACCAGGGGTACGTATGGCCCTAAAGCTTCATCATCATCAGgtactgataattaaggcagtgtaggggcaggtgttccctttaccttagac Alignment from Spaln_aa2Genome CCTGGAGCCCTTCCTCTATGGCCTGCACGCCCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTTCACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTT------CACCAG cctcaatgatccttcgaaatggagaagctgttcttgttctcacactacagCCTAGAGCCCTTCCTCTATGGCCTACGAGCTCCTGTTCAAAGGAGATTTCAGGATCACCTCCCCCGTGATGAGTGG---------GACATAGATTTATTGCACCAGGTTGTGGCACCAGGGGTACGTATGGCCCTAAAGCTTCATCATCATCAGgtactgataattaaggcagtgtaggggcaggtgttccctttaccttagac Alignment from Spaln_nt2Genome CCTGGAGCCCTTCCTCTATGGCCTGCACGC-CCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTTCACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTTCACCA------G cctcaatgatccttcgaaatggagaagctgttcttgttctcacactacagCCTAGAGCCCTTCCTCTATGGCCTACGAGCTCCTGTTCAAAGGAGATTTCAGGATCACCTC-CCCCGTGATGAGTGG---------GACATAGATTTATTGCACCAGGTTGTGGCACCAGGGGTACGTATGGCCCTAAAGCTTCATCATCATCAGgtactgataattaaggcagtgtaggggcaggtgttccctttaccttagac Alignment from Pairagon CCTGGAGCCCTTCCTCTATGGCCTGCACGC-CCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTTCACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTTCA------------------------------------------------------------ cctcaatgatccttcgaaatggagaagctgttcttgttctcacactacagCCTAGAGCCCTTCCTCTATGGCCTACGAGCTCCTGTTCAAAGGAGATTTCAGGATCACCTC-CCCCGTGATGAGTGG---------GACATAGATTTATTGCACCAGGTTGTGGCACCAGGGGTACGTATGGCCCTAAAGCTTCATCATCATCAGGTACTGATAATTAAGGCAGTGTAGGGGCAGGTGTTCCCTTTACCTTAGAC Alignment from Exonerate_protein2genome CCTGGAGCCCTTCCTCTATGGCCTGCACGCCCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTTCACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTT------CACCAG cctcaatgatccttcgaaatggagaagctgttcttgttctcacactacagCCTAGAGCCCTTCCTCTATGGCCTACGAGCTCCTGTTCAAAGGAGATTTCAGGATCACCTCCCCCGTGATGAGTGG---------GACATAGATTTATTGCACCAGGTTGTGGCACCAGGGGTACGTATGGCCCTAAAGCTTCATCATCATCAGgtactgataattaaggcagtgtaggggcaggtgttccctttaccttagac Alignment from Exonerate_coding2genome cctcaatgatccttcgaaatggagaagctgttcttgttctcacactacagcctagagcccttcctctatggcctacgagctcctgttcaaaggagatttcaggatcacctcccccgtgatgagtgggacatagatttattgcaccaggttgtggcaccaggggtacgtatggccctaaagcttcatcatcatcaggtactgataattaaggcagtgtaggggcaggtgttccctttaccttagac Alignment from GeneWise CCTGGAGCCCTTCCTCTATGGCCTGCACGCCCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTTCACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTT------CACCAG cctcaatgatccttcgaaatggagaagctgttcttgttctcacactacagCCTAGAGCCCTTCCTCTATGGCCTACGAGCTCCTGTTCAAAGGAGATTTCAGGATCACCTCCCCCGTGATGAGTGG---------GACATAGATTTATTGCACCAGGTTGTGGCACCAGGGGTACGTATGGCCCTAAAGCTTCATCATCATCAGgtactgataattaaggcagtgtaggggcaggtgttccctttaccttagac #### Pcnxl3_ID1164_29 --> 0 - 2 Original Alignment CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTT-GGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCag agggatgttaccctgggctcttgagtaagttcgttcctctgtcattccagCCTGTGGACCAGGATTGGAATTCACCATTGGTTACATCATGCTTTCGGCTTGTGTGTGTTGGGTCGCCGGGCTCTGG-CACAGCAGCACACAGCATGTCAGCCaggtaagtgcctgcaggcagcaaaagaagacccaacaactcattagtagact Alignment from CESAR CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTT-GGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCag agggatgttaccctgggctcttgagtaagttcgttcctctgtcattccagCCTGTGGACCAGGATTGGAATTCACCATTGGTTACATCATGCTTTCGGCTTGTGTGTGTTGGGTCGCCGGGCTC-TGGCACAGCAGCACACAGCATGTCAGCCaggtaagtgcctgcaggcagcaaaagaagacccaacaactcattagtagact Alignment from Spaln_aa2Genome CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG agggatgttaccctgggctcttgagtaagttcgttcctctgtcattccagCCTGTGGACCAGGATTGGAATTCACCATTGGTTACATCATGCTTTCGGCTTGTGTGTGTTGGGTCGCCGGGCTCTGGCACAGCAGCACACAGCATGTCAGCCAGgtaagtgcctgcaggcagcaaaagaagacccaacaactcattagtagact Alignment from Spaln_nt2Genome CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTT-GGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG agggatgttaccctgggctcttgagtaagttcgttcctctgtcattccagCCTGTGGACCAGGATTGGAATTCACCATTGGTTACATCATGCTTTCGGCTTGTGTGTGTTGGGTCGCCGGGCTCT-GGCACAGCAGCACACAGCATGTCAGCCAGgtaagtgcctgcaggcagcaaaagaagacccaacaactcattagtagact Alignment from Pairagon CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTT-GGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG agggatgttaccctgggctcttgagtaagttcgttcctctgtcattccagCCTGTGGACCAGGATTGGAATTCACCATTGGTTACATCATGCTTTCGGCTTGTGTGTGTTGGGTCGCCGGGCTCT-GGCACAGCAGCACACAGCATGTCAGCCAGgtaagtgcctgcaggcagcaaaagaagacccaacaactcattagtagact Alignment from Exonerate_protein2genome CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG agggatgttaccctgggctcttgagtaagttcgttcctctgtcattccagCCTGTGGACCAGGATTGGAATTCACCATTGGTTACATCATGCTTTCGGCTTGTGTGTGTTGGGTCGCCGGGCTCTGGCACAGCAGCACACAGCATGTCAGCCAGgtaagtgcctgcaggcagcaaaagaagacccaacaactcattagtagact Alignment from Exonerate_coding2genome agggatgttaccctgggctcttgagtaagttcgttcctctgtcattccagcctgtggaccaggattggaattcaccattggttacatcatgctttcggcttgtgtgtgttgggtcgccgggctctggcacagcagcacacagcatgtcagccaggtaagtgcctgcaggcagcaaaagaagacccaacaactcattagtagact Alignment from GeneWise CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG agggatgttaccctgggctcttgagtaagttcgttcctctgtcattccagCCTGTGGACCAGGATTGGAATTCACCATTGGTTACATCATGCTTTCGGCTTGTGTGTGTTGGGTCGCCGGGCTCTGGCACAGCAGCACACAGCATGTCAGCCAGgtaagtgcctgcaggcagcaaaagaagacccaacaactcattagtagact #### Pcnxl3_ID1167_26 --> 2 - 1 Original Alignment gcGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCT-GGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGg aggcaatgcacttacttcgtttacttgattgtctctcttttcttttaaaggaGCTGATGACAATAACCTCAATTTGCTTTTCTATCAACATTTGACACGCTCATTGCAACACATGCTTTGTGGTGATCTGGTCCTGGGCTGCTGGGGCAACTATGGTCCACGGAGATTGCTTTGTACTGGCACCAGACTACC-AAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGggtgagccagcttgggatcaagcacaagctaagggcggagcatagatatat Alignment from CESAR gcGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCT-GGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGg aggcaatgcacttacttcgtttacttgattgtctctcttttcttttaaaggaGCTGATGACAATAACCTCAATTTGCTTTTCTATCAACATTTGACACGCTCATTGCAACACATGCTTTGTGGTGATCTGGTCCTGGGCTGCTGGGGCAACTATGGTCCACGGAGATTGCTTTGTACTGGCACCAGACTAC-CAAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGggtgagccagcttgggatcaagcacaagctaagggcggagcatagatatat Alignment from Spaln_aa2Genome GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGG aggcaatgcacttacttcgtttacttgattgtctctcttttcttttaaagGAGCTGATGACAATAACCTCAATTTGCTTTTCTATCAACATTTGACACGCTCATTGCAACACATGCTTTGTGGTGATCTGGTCCTGGGCTGCTGGGGCAACTATGGTCCACGGAGATTGCTTTGTACTGGCACCAGACTACCAAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGGgtgagccagcttgggatcaagcacaagctaagggcggagcatagatatat Alignment from Spaln_nt2Genome GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCT-GGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGG aggcaatgcacttacttcgtttacttgattgtctctcttttcttttaaagGAGCTGATGACAATAACCTCAATTTGCTTTTCTATCAACATTTGACACGCTCATTGCAACACATGCTTTGTGGTGATCTGGTCCTGGGCTGCTGGGGCAACTATGGTCCACGGAGATTGCTTTGTACTGGCACCAGACTACC-AAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGGgtgagccagcttgggatcaagcacaagctaagggcggagcatagatatat Alignment from Pairagon GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCC-TGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGG aggcaatgcacttacttcgtttacttgattgtctctcttttcttttaaagGAGCTGATGACAATAACCTCAATTTGCTTTTCTATCAACATTTGACACGCTCATTGCAACACATGCTTTGTGGTGATCTGGTCCTGGGCTGCTGGGGCAACTATGGTCCACGGAGATTGCTTTGTACTGGCACCAGACTACC-AAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGGgtgagccagcttgggatcaagcacaagctaagggcggagcatagatatat Alignment from Exonerate_protein2genome GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGG aggcaatgcacttacttcgtttacttgattgtctctcttttcttttaaagGAGCTGATGACAATAACCTCAATTTGCTTTTCTATCAACATTTGACACGCTCATTGCAACACATGCTTTGTGGTGATCTGGTCCTGGGCTGCTGGGGCAACTATGGTCCACGGAGATTGCTTTGTACTGGCACCAGACTACCAAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGGgtgagccagcttgggatcaagcacaagctaagggcggagcatagatatat Alignment from Exonerate_coding2genome aggcaatgcacttacttcgtttacttgattgtctctcttttcttttaaaggagctgatgacaataacctcaatttgcttttctatcaacatttgacacgctcattgcaacacatgctttgtggtgatctggtcctgggctgctggggcaactatggtccacggagattgctttgtactggcaccagactaccaaatggacttgtccagctcattgaggttggcaatggtctcatcacctaccagccccatggcctcaagttccggggtgagccagcttgggatcaagcacaagctaagggcggagcatagatatat Alignment from GeneWise GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGG aggcaatgcacttacttcgtttacttgattgtctctcttttcttttaaagGAGCTGATGACAATAACCTCAATTTGCTTTTCTATCAACATTTGACACGCTCATTGCAACACATGCTTTGTGGTGATCTGGTCCTGGGCTGCTGGGGCAACTATGGTCCACGGAGATTGCTTTGTACTGGCACCAGACTACCAAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGGgtgagccagcttgggatcaagcacaagctaagggcggagcatagatatat #### Pcnxl3_ID1178_15 --> 2 - 1 Original Alignment GTGGCCACTg tgTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAG-GTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAg GTGGCAACTggtaggtcacttcaagataatttggtttttctccctggcagtaTTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCTGCCCCAGCGTCAACACCTGCCTCACATACCTCTCGGAACAAA-AGATATGCATGGTTTTGGAGGCACAggtaaggtgtgctcaggaaggtctattccaggaatatcgcatctaccaaat Alignment from CESAR GTGGCCACTg tgTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAG-GTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAg GTGGCAACTggtaagccacttcaagataatttggtttttctccctggcagtaTTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCTGCCCCAGCGTCAACACCTGCCTCACATACCTCTCGGAACAA-AAGATATGCATGGTTTTGGAGGCACAggtaaggtgtgctcaggaaggtctattccaggaatatcgcatctaccaaat Alignment from Spaln_aa2Genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaggtcacttcaagataatttggtttttctccctggcagTATTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCTGCCCCAGCGTCAACACCTGCCTCACATACCTCTCGGAACAAAAGATATGCATGGTTTTGGAGGCACAGgtaaggtgtgctcaggaaggtctattccaggaatatcgcatctaccaaat Alignment from Spaln_nt2Genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAG-GTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaggtcacttcaagataatttggtttttctccctggcagTATTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCTGCCCCAGCGTCAACACCTGCCTCACATACCTCTCGGAACA-AAAGATATGCATGGTTTTGGAGGCACAGgtaaggtgtgctcaggaaggtctattccaggaatatcgcatctaccaaat Alignment from Pairagon GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAG-GTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaggtcacttcaagataatttggtttttctccctggcagTATTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCTGCCCCAGCGTCAACACCTGCCTCACATACCTCTCGGAACAAA-AGATATGCATGGTTTTGGAGGCACAGgtaaggtgtgctcaggaaggtctattccaggaatatcgcatctaccaaat Alignment from Exonerate_protein2genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaggtcacttcaagataatttggtttttctccctggcagTATTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCTGCCCCAGCGTCAACACCTGCCTCACATACCTCTCGGAACAAAAGATATGCATGGTTTTGGAGGCACAGgtaaggtgtgctcaggaaggtctattccaggaatatcgcatctaccaaat Alignment from Exonerate_coding2genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaggtcacttcaagataatttggtttttctccctggcagTATTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCTGCCCCAGCGTCAACACCTGCCTCACATACCTCTCGGAACAAAAGATATGCATGGTTTTGGAGGCACAGgtaaggtgtgctcaggaaggtctattccaggaatatcgcatctaccaaat Alignment from GeneWise GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaggtcacttcaagataatttggtttttctccctggcagTATTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCTGCCCCAGCGTCAACACCTGCCTCACATACCTCTCGGAACAAAAGATATGCATGGTTTTGGAGGCACAGgtaaggtgtgctcaggaaggtctattccaggaatatcgcatctaccaaat #### Pcnxl3_ID1179_14 --> 0 - 1 Original Alignment GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCC-CTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTg tgTTCACCTT caataacttatggttgcttggcctatgatacagctatctttcctccccagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTTTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCACCTTGGGACAACTCAACCCTTCCCACCTGTCTCTC-GTATGGCCTAACCCTCTTTTCTGCCTCTTTCTTCTTTTGTGCACGAGATGTGGCAACTggtaagccacttcaagatagtcttgtgcacgctccccacagtaTTCACCTT Alignment from CESAR GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCC-CTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTg tgTTCACCTT caataacttatggttgcttggcctatgatacagctatctttcctccccagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTTTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCACCTTGGGACAACTCAACCCTTCCCACCTGTCTCT-CGTATGGCCTAACCCTCTTTTCTGCCTCTTTCTTCTTTTGTGCACGAGATGTGGCAACTggtaagccacttcaagataatttggtttttctccctggcagtaTTCACCTT Alignment from Spaln_aa2Genome GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTG TGTTCACCTT caataacttatggttgcttggcctatgatacagctatctttcctccccagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTTTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCACCTTGGGACAACTCAACCCTTCCCACCTGTCTCTCGTATGGCCTAACCCTCTTTTCTGCCTCTTTCTTCTTTTGTGCACGAGATGTGGCAACTGgtaagccacttcaagatagtcttgtgcacgctccccacagTATTCACCTT Alignment from Spaln_nt2Genome GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGC-CCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTG TGTTCACCTT caataacttatggttgcttggcctatgatacagctatctttcctccccagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTTTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCACCTTGGGACAACTCAACCCTTCCCACCTGTCTCTC-GTATGGCCTAACCCTCTTTTCTGCCTCTTTCTTCTTTTGTGCACGAGATGTGGCAACTGgtaagccacttcaagatagtcttgtgcacgctccccacagTATTCACCTT Alignment from Pairagon GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGC-CCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTG TGTTCACCTT caataacttatggttgcttggcctatgatacagctatctttcctccccagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTTTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCACCTTGGGACAACTCAACCCTTCCCACCTGTCTCTC-GTATGGCCTAACCCTCTTTTCTGCCTCTTTCTTCTTTTGTGCACGAGATGTGGCAACTGgtaagccacttcaagatagtcttgtgcacgctccccacagTATTCACCTT Alignment from Exonerate_protein2genome GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTG TGTTCACCTT caataacttatggttgcttggcctatgatacagctatctttcctccccagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTTTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCACCTTGGGACAACTCAACCCTTCCCACCTGTCTCTCGTATGGCCTAACCCTCTTTTCTGCCTCTTTCTTCTTTTGTGCACGAGATGTGGCAACTGgtaagccacttcaagatagtcttgtgcacgctccccacagTATTCACCTT Alignment from Exonerate_coding2genome GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTG TGTTCACCTT caataacttatggttgcttggcctatgatacagctatctttcctccccagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTTTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCACCTTGGGACAACTCAACCCTTCCCACCTGTCTCTCGTATGGCCTAACCCTCTTTTCTGCCTCTTTCTTCTTTTGTGCACGAGATGTGGCAACTGgtaagccacttcaagatagtcttgtgcacgctccccacagTATTCACCTT Alignment from GeneWise GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTG TGTTCACCTT caataacttatggttgcttggcctatgatacagctatctttcctccccagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTTTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCACCTTGGGACAACTCAACCCTTCCCACCTGTCTCTCGTATGGCCTAACCCTCTTTTCTGCCTCTTTCTTCTTTTGTGCACGAGATGTGGCAACTGgtaagccacttcaagatagtcttgtgcacgctccccacagTATTCACCTT #### Pcnxl3_ID1181_12 --> 1 - 0 Original Alignment gACACGTGGG---GTAATGGAGAACATTTTCGGTGTTGGATTGAGC-AGCCTGGTTGCCTTCCTGGGATACCTGTTGCTGCTCAAGGGCTTCTTCACTGACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAG ccaatgttctaaaggcattttaggaaacatgcttgttgctgttgttgtaggACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGAGTCACCCTACTTGCTATCCTTGGGTACCTGTTGCTCCTAAAGG-ATTCATCACAGAGATT---ATCTTTCAGTTTTGCCTGGTTATTGCTTCTTGTCAGTATTTTCTGCTCAAAgtgagagctgggttctcagttttagaacagtaacctgcttcctatcctta Alignment from CESAR gACACGTGGG---GTAATGGAGAACATTTTCGGTGTTGGATTGAGC-AGCCTGGTTGCCTTCCTGGGATACCTGTTGCTGCTCAAGGGCTTCTTCACTGACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAG ccaatgttctaaaggcattttaggaaacatgcttgttgctgttgttgtaggACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGAGTCACCCTACTTGCTATCCTTGGGTACCTGTTGCTCCTAA-AGGATTCATCACAGAGATT---ATCTTTCAGTTTTGCCTGGTTATTGCTTCTTGTCAGTATTTTCTGCTCAAAgtgagagctgggttctcagttttagaacagtaacctgcttcctatcctta Alignment from Spaln_aa2Genome GACACGTGGG---GTAATGGAGAACATTTTCGGTGTTGGATTGAGC-AGCCTGGTTGCCTTCCTGGGATACCTGTTGCTGCTCAAGGGCTTCTTCACTGACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAG ccaatgttctaaaggcattttaggaaacatgcttgttgctgttgttgtagGACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGAGTcACCCTACTTGCTATCCTTGGGTACCTGTTGCTCCTAAA-GGATTCATCACAGAGATT---ATCTTTCAGTTTTGCCTGGTTATTGCTTCTTGTCAGTATTTTCTGCTCAAAgtgagagctgggttctcagttttagaacagtaacctgcttcctatcctta Alignment from Spaln_nt2Genome GACACGTGGG---GTAATGGAGAACATTTTCGGTGTTGGATTGAG-CAGCCTGGTTGCCTTCCTGGGATACCTGTTGCTGCTCAAGGGCTTCTTCACTGACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAG ccaatgttctaaaggcattttaggaaacatgcttgttgctgttgttgtagGACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGAGTCACCCTACTTGCTATCCTTGGGTACCTGTTGCTCCT-AAAGGATTCATCACAGAGAT---TATCTTTCAGTTTTGCCTGGTTATTGCTTCTTGTCAGTATTTTCTGCTCAAAgtgagagctgggttctcagttttagaacagtaacctgcttcctatcctta Alignment from Pairagon GACACGTGG---GGTAATGGAGAACATTTTCGGTGTTGGATTGAG-CAGCCTGGTTGCCTTCCTGGGATACCTGTTGCTGCTCAAGGGCTTCTTCACTGACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAG ccaatgttctaaaggcattttaggaaacatgcttgttgctgttgttgtagGACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGAGTCACCCTACTTGCTATCCTTGGGTACCTGTTGCTCCT-AAAGGATTCATCACAGAGATT---ATCTTTCAGTTTTGCCTGGTTATTGCTTCTTGTCAGTATTTTCTGCTCAAAgtgagagctgggttctcagttttagaacagtaacctgcttcctatcctta Alignment from Exonerate_protein2genome GACACGTGGG---GTAATGGAGAACATTTTCGGTGTTGGATTGAGCAGCCTGGTTGCCTTCCTGGGATACCTGTTGCTGCTCAAGGGCTTCTTCACTGACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAG ccaatgttctaaaggcattttaggaaacatgcttgttgctgttgttgtagGACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGAGTCACCCTACTTGCTATCCTTGGGTACCTGTTGCTCCTAAAGGATTCATCACAGAGATT---ATCTTTCAGTTTTGCCTGGTTATTGCTTCTTGTCAGTATTTTCTGCTCAAAgtgagagctgggttctcagttttagaacagtaacctgcttcctatcctta Alignment from Exonerate_coding2genome ccaatgttctaaaggcattttaggaaacatgcttgttgctgttgttgtaggacacgtggtctagtaatggagaatatttttggtgtaggggtgagtcaccctacttgctatccttgggtacctgttgctcctaaaggattcatcacagagattatctttcagttttgcctggttattgcttcttgtcagtattttctgctcaaagtgagagctgggttctcagttttagaacagtaacctgcttcctatcctta Alignment from GeneWise GACACGTGGG---GTAATGGAGAACATTTTCGGTGTTGGATTGAGCAGCCTGGTTGCCTTCCTGGGATACCTGTTGCTGCTCAAGGGCTTCTTCACTGACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAG ccaatgttctaaaggcattttaggaaacatgcttgttgctgttgttgtagGACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGAGTCACCCTACTTGCTATCCTTGGGTACCTGTTGCTCCTAAAGGATTCATCACAGAGATT---ATCTTTCAGTTTTGCCTGGTTATTGCTTCTTGTCAGTATTTTCTGCTCAAAgtgagagctgggttctcagttttagaacagtaacctgcttcctatcctta #### Pcx_ID553_3 --> 2 - 0 Original Alignment gtGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTC-TACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcttatccccaggggagtgggttgtttttcatcttgccctcaggcGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGCTATTCGGAACAGGATACAGGGCTAATGCACAGGC-GAAAGCAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCCAAGgtcagtactgattacctttacagggtttctgctgccttggtaggactgca Alignment from CESAR gtGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTC-TACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcttatccccaggggagtgggttgtttttcatcttgccctcaggcGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGCTATTCGGAACAGGATACAGGGCTAATGCACAGG-CGAAAGCAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCCAAGgtcagtactgattacctttacagggtttctgctgccttggtaggactgca Alignment from Spaln_aa2Genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcttatccccaggggagtgggttgtttttcatcttgccctcagGCGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGCTATTCGGAACAGGATACAGGGCTAATGCACAGGCGAAAGCAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCCAAGgtcagtactgattacctttacagggtttctgctgccttggtaggactgca Alignment from Spaln_nt2Genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGT-CTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcttatccccaggggagtgggttgtttttcatcttgccctcagGCGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGCTATTCGGAACAGGATACAGGGCTAATGCACAGGC-GAAAGCAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCCAAGgtcagtactgattacctttacagggtttctgctgccttggtaggactgca Alignment from Pairagon GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGT-CTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcttatccccaggggagtgggttgtttttcatcttgccctcagGCGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGCTATTCGGAACAGGATACAGGGCTAATGCACAGGC-GAAAGCAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCCAAGgtcagtactgattacctttacagggtttctgctgccttggtaggactgca Alignment from Exonerate_protein2genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcttatccccaggggagtgggttgtttttcatcttgccctcagGCGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGCTATTCGGAACAGGATACAGGGCTAATGCACAGGCGAAAGCAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCCAAGgtcagtactgattacctttacagggtttctgctgccttggtaggactgca Alignment from Exonerate_coding2genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcttatccccaggggagtgggttgtttttcatcttgccctcagGCGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGCTATTCGGAACAGGATACAGGGCTAATGCACAGGCGAAAGCAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCCAAGgtcagtactgattacctttacagggtttctgctgccttggtaggactgca Alignment from GeneWise GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcttatccccaggggagtgggttgtttttcatcttgccctcagGCGAGATTGCTATCCGCGTCTTTCGTGCATGCAGAGAACTTGGCATCCGCACAGTAGCTGTGCTATTCGGAACAGGATACAGGGCTAATGCACAGGCGAAAGCAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCCAAGgtcagtactgattacctttacagggtttctgctgccttggtaggactgca #### Pcx_ID554_4 --> 0 - 1 Original Alignment GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGAT-GCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAg gatgattaaagaaagtgaagacatgagttgtgttttgcttcatttctcagGAAAATGGTGAAGATGCAGTGCATCCAGGTTATGGGTTTCTCTCAGAGCAGGCTGATTTTGCCCAGGCCTGCCAGGACCACTGGGGTCCGATTTATTGGTCCAAGCCCAGAGG-TGTACTTAAAATA---GACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAggtaagttaacaaacaaaacattgaaccaggaagtacaggtattttgtaaa Alignment from CESAR GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGAT-GCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAg gatgattaaagaaagtgaagacatgagttgtgttttgcttcatttctcagGAAAATGGTGAAGATGCAGTGCATCCAGGTTATGGGTTTCTCTCAGAGCAGGCTGATTTTGCCCAGGCCTGCCAGGACCACTGGGGTCCGATTTATTGGTCCAAGCCCAGAGG-TGTACTTAAAATA---GACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAggtaagttaacaaacaaaacattgaaccaggaagtacaggtattttgcatt Alignment from Spaln_aa2Genome GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGAT-GCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG gatgattaaagaaagtgaagacatgagttgtgttttgcttcatttctcagGAAAATGGTGAAGATGCAGTGCATCCAGGTTATGGGTTTCTCTCAGAGCAGGCTGATTTTGCCCAGGCCTGCCAGGACcACTGGGGTCCGATTTATTGGTCCAAGCCCAGAGGTGTACTTAAAATA----GACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAGgtaagttaacaaacaaaacattgaaccaggaagtacaggtattttgtaaa Alignment from Spaln_nt2Genome GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATG-CTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG gatgattaaagaaagtgaagacatgagttgtgttttgcttcatttctcagGAAAATGGTGAAGATGCAGTGCATCCAGGTTATGGGTTTCTCTCAGAGCAGGCTGATTTTGCCCAGGCCTGCCAGGACCACTGGGGTCCGATTTATTGGTCCAAGCCCAGAGGT-GTACTTAAAAT---AGACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAGgtaagttaacaaacaaaacattgaaccaggaagtacaggtattttgtaaa Alignment from Pairagon GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGA-TGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGG----------AGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG gatgattaaagaaagtgaagacatgagttgtgttttgcttcatttctcagGAAAATGGTGAAGATGCAGTGCATCCAGGTTATGGGTTTCTCTCAGAGCAGGCTGATTTTGCCCAGGCCTGCCAGGACCACTGGGGTCCGATTTATTGGTCCAAGCCCAGAGGT--------------GTACTTAAAATAGACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAGgtaagttaacaaacaaaacattgaaccaggaagtacaggtattttgtaaa Alignment from Exonerate_protein2genome GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG gatgattaaagaaagtgaagacatgagttgtgttttgcttcatttctcagGAAAATGGTGAAGATGCAGTGCATCCAGGTTATGGGTTTCTCTCAGAGCAGGCTGATTTTGCCCAGGCCTGCCAGGACCACTGGGGTCCGATTTATTGGTCCAAGCCCAGAGGTGTACTTAAAATA---GACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAGgtaagttaacaaacaaaacattgaaccaggaagtacaggtattttgtaaa Alignment from Exonerate_coding2genome GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG gatgattaaagaaagtgaagacatgagttgtgttttgcttcatttctcagGAAAATGGTGAAGATGCAGTGCATCCAGGTTATGGGTTTCTCTCAGAGCAGGCTGATTTTGCCCAGGCCTGCCAGGACCACTGGGGTCCGATTTATTGGTCCAAGCCCAGAGGTGTACTTAAAATA---GACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAGgtaagttaacaaacaaaacattgaaccaggaagtacaggtattttgtaaa Alignment from GeneWise GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG gatgattaaagaaagtgaagacatgagttgtgttttgcttcatttctcagGAAAATGGTGAAGATGCAGTGCATCCAGGTTATGGGTTTCTCTCAGAGCAGGCTGATTTTGCCCAGGCCTGCCAGGACCACTGGGGTCCGATTTATTGGTCCAAGCCCAGAGGTGTACTTAAAATA---GACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAGgtaagttaacaaacaaaacattgaaccaggaagtacaggtattttgtaaa #### Pcx_ID556_6 --> 0 - 1 Original Alignment GAGTTGGAAGAG-AATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAg ggtggttgtattgaaaatgcctggctgcgaatatgattattttcatacagGAGCTAGAAAAGCAATTATACCCGAGCCTACTCAGAAGCCTTGGCGGCTTTTG-GAACAGAGCCCTGTTTGTTGAAAAGTTTATTGGACAGCCAAGCCATTTTGAGGTGCAGATCCTAggtcagaaaatagatggctgcaactgcccaatacttctgagagacccaata Alignment from CESAR GAGTTGGAAGAG-AATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAg ggtggttgtattgaaaatgcctggctgcgaatatgattattttcatacagGAGCTAGAAAAGCAATTATACCCGAGCCTACTCAGAAGCCTTGGCGGCTTTTG-GAACAGAGCCCTGTTTGTTGAAAAGTTTATTGGACAGCCAAGCCATTTTGAGGTGCAGATCCTAggtcagaaaatagatggctgcaactgcccaatacttctgagagacccaata Alignment from Spaln_aa2Genome GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG ggtggttgtattgaaaatgcctggctgcgaatatgattattttcatacaggagctag------AAAAGCAATTATACCCGAGCCTACTCAGAAGCCTTGGCGGCTTTTGGAACAGA-GCCCTGTTTGTTGAAAAGTTTATTGGACAGCCAAGCCATTTTGAGGTGCAGATCCTAGgtcagaaaatagatggctgcaactgcccaatacttctgagagacccaata Alignment from Spaln_nt2Genome GAGTTGGAAGAG-AATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG ggtggttgtattgaaaatgcctggctgcgaatatgattattttcatacagGAGCTAGAAAAGCAATTATACCCGAGCCTACTCAGAAGCCTTGGC-GGCTTTTGGAACAGAGCCCTGTTTGTTGAAAAGTTTATTGGACAGCCAAGCCATTTTGAGGTGCAGATCCTAGgtcagaaaatagatggctgcaactgcccaatacttctgagagacccaata Alignment from Pairagon GAGTTGGAAGAG-AATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG ggtggttgtattgaaaatgcctggctgcgaatatgattattttcatacagGAGCTAGAAAAGCAATTATACCCGAGCCTACTCAGAAGCCTTGGCGGCTTTT-GGAACAGAGCCCTGTTTGTTGAAAAGTTTATTGGACAGCCAAGCCATTTTGAGGTGCAGATCCTAGgtcagaaaatagatggctgcaactgcccaatacttctgagagacccaata Alignment from Exonerate_protein2genome GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG ggtggttgtattgaaaatgcctggctgcgaatatgattattttcatacagGAGCTAGAAAAGCAATTATACCCGAGCCTACTCAGAAGCCTTGGCGGCTTTTGGAACAGAGCCCTGTTTGTTGAAAAGTTTATTGGACAGCCAAGCCATTTTGAGGTGCAGATCCTAGgtcagaaaatagatggctgcaactgcccaatacttctgagagacccaata Alignment from Exonerate_coding2genome GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG ggtggttgtattgaaaatgcctggctgcgaatatgattattttcatacagGAGCTAGAAAAGCAATTATACCCGAGCCTACTCAGAAGCCTTGGCGGCTTTTGGAACAGAGCCCTGTTTGTTGAAAAGTTTATTGGACAGCCAAGCCATTTTGAGGTGCAGATCCTAGgtcagaaaatagatggctgcaactgcccaatacttctgagagacccaata Alignment from GeneWise GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG ggtggttgtattgaaaatgcctggctgcgaatatgattattttcatacagGAGCTAGAAAAGCAATTATACCCGAGCCTACTCAGAAGCCTTGGCGGCTTTTGGAACAGAGCCCTGTTTGTTGAAAAGTTTATTGGACAGCCAAGCCATTTTGAGGTGCAGATCCTAGgtcagaaaatagatggctgcaactgcccaatacttctgagagacccaata #### Pcx_ID563_12 --> 2 - 1 Original Alignment gaCATGTCATGGTGAATGGCCCT-ACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAg ctctttggaatcggggaaaccagtgagggccactccactccttattacaggaCATGTTATGGTCAATGGACCCCATCTCGCCAATCCCAGTCAATGTGACCC-CAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAggtaaggtatgatatacctttgtatcttaatgagaaggtgtgtcagatgca Alignment from CESAR gaCATGTCATGGTGAATGGC-CCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAg ctctttggaatcggggaaaccagtgagggccactccactccttattacaggaCATGTTATGGTCAATGGACCCCATCTCGCCAATCCCAGTCAATGTGA-CCCCAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAggtaaggtatgatatacctttgtatcttaatgagaaggtgtgtcagatgca Alignment from Spaln_aa2Genome GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG ctctttggaatcggggaaaccagtgagggccactccactccttattacagGACATGTTATGGTCAATGGACCCCATCTCGCCAATCCCAGTCAATGTGACCCCAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAGgtaaggtatgatatacctttgtatcttaatgagaaggtgtgtcagatgca Alignment from Spaln_nt2Genome GACATGTCATGGTGAATGG-CCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG ctctttggaatcggggaaaccagtgagggccactccactccttattacagGACATGTTATGGTCAATGGACCCCATCTCGCCAATCCCAGTCAATGTGA-CCCCAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAGgtaaggtatgatatacctttgtatcttaatgagaaggtgtgtcagatgca Alignment from Pairagon GACATGTCATGGTGAATGG-CCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG ctctttggaatcggggaaaccagtgagggccactccactccttattacagGACATGTTATGGTCAATGGACCCCATCTCGCCAATCCCAGTCAATGTGA-CCCCAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAGgtaaggtatgatatacctttgtatcttaatgagaaggtgtgtcagatgca Alignment from Exonerate_protein2genome GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG ctctttggaatcggggaaaccagtgagggccactccactccttattacagGACATGTTATGGTCAATGGACCCCATCTCGCCAATCCCAGTCAATGTGACCCCAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAGgtaaggtatgatatacctttgtatcttaatgagaaggtgtgtcagatgca Alignment from Exonerate_coding2genome GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG ctctttggaatcggggaaaccagtgagggccactccactccttattacagGACATGTTATGGTCAATGGACCCCATCTCGCCAATCCCAGTCAATGTGACCCCAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAGgtaaggtatgatatacctttgtatcttaatgagaaggtgtgtcagatgca Alignment from GeneWise GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG ctctttggaatcggggaaaccagtgagggccactccactccttattacagGACATGTTATGGTCAATGGACCCCATCTCGCCAATCCCAGTCAATGTGACCCCAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAGgtaaggtatgatatacctttgtatcttaatgagaaggtgtgtcagatgca #### Pcx_ID565_14 --> 1 - 0 Original Alignment gTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACT-AAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG tgggaaaatccataggtcatgtcaatcaccactttacccttaccacccaggTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTATTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTCGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATTTCTTACACTGGTGAAGTAGCTGACCCTGGTCGCACCCAACTACTCACTGGAGTACTACATGGGCTTAG-TGAAGAACTGGTACGAGCTGGATCTCACATTTTGTGTATTAAGgttggaaggctattcagtgtgtctcaatcttttgatcatagctgctctct Alignment from CESAR gTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAA-TACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG tgggaaaatccataggtcatgtcaatcaccactttacccttaccacccaggTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTATTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTCGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATTTCTTACACTGGTGAAGTAGCTGACCCTGGTCGCACCCAACTACTCACTGGAGTACTACATGGGCTTAG-TGAAGAACTGGTACGAGCTGGATCTCACATTTTGTGTATTAAGgttggaaggctattcagtgtgtctcaatcttttgatcatagcttaattgt Alignment from Spaln_aa2Genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG tgggaaaatccataggtcatgtcaatcaccactttacccttaccacccagGTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTATTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTCGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATTTCTTACACTGGTGAAGTAGCTGACCCTGGTCGCACCCAACTACTCACTGGAGTACTACATGGGCTTAGTGAAGAACTGGTACGAGCTGGATCTCACATTTTGTGTATTAAGgttggaaggctattcagtgtgtctcaatcttttgatcatagctgctctct Alignment from Spaln_nt2Genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAA-TACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG tgggaaaatccataggtcatgtcaatcaccactttacccttaccacccagGTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTATTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTCGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATTTCTTACACTGGTGAAGTAGCTGACCCTGGTCGCACCCAACTACTCACTGGAGTACTACATGGGCTTAG-TGAAGAACTGGTACGAGCTGGATCTCACATTTTGTGTATTAAGgttggaaggctattcagtgtgtctcaatcttttgatcatagctgctctct Alignment from Pairagon GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCA-CTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG tgggaaaatccataggtcatgtcaatcaccactttacccttaccacccagGTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTATTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTCGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATTTCTTACACTGGTGAAGTAGCTGACCCTGGTCGCACCCAACTACTCACTGGAGTACTACATGGGCTTAG-TGAAGAACTGGTACGAGCTGGATCTCACATTTTGTGTATTAAGgttggaaggctattcagtgtgtctcaatcttttgatcatagctgctctct Alignment from Exonerate_protein2genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG tgggaaaatccataggtcatgtcaatcaccactttacccttaccacccagGTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTATTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTCGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATTTCTTACACTGGTGAAGTAGCTGACCCTGGTCGCACCCAACTACTCACTGGAGTACTACATGGGCTTAGTGAAGAACTGGTACGAGCTGGATCTCACATTTTGTGTATTAAGgttggaaggctattcagtgtgtctcaatcttttgatcatagctgctctct Alignment from Exonerate_coding2genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG tgggaaaatccataggtcatgtcaatcaccactttacccttaccacccagGTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTATTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTCGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATTTCTTACACTGGTGAAGTAGCTGACCCTGGTCGCACCCAACTACTCACTGGAGTACTACATGGGCTTAGTGAAGAACTGGTACGAGCTGGATCTCACATTTTGTGTATTAAGgttggaaggctattcagtgtgtctcaatcttttgatcatagctgctctct Alignment from GeneWise GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG tgggaaaatccataggtcatgtcaatcaccactttacccttaccacccagGTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTATTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTCGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATTTCTTACACTGGTGAAGTAGCTGACCCTGGTCGCACCCAACTACTCACTGGAGTACTACATGGGCTTAGTGAAGAACTGGTACGAGCTGGATCTCACATTTTGTGTATTAAGgttggaaggctattcagtgtgtctcaatcttttgatcatagctgctctct #### Pcx_ID566_15 --> 0 - 1 Original Alignment GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGG-GCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAg agtgtgtctcaatcttttgatcatagcttaattgtaaatatattttgcagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGTTCCCTGTGGGACCGATCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGACGCAGGTGTTGCAGCCACACTAGCTTGTTCACAGGAAGGGGCTG-TCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGACTCCCTCTGAAACAggtaaggcaaaagattgactcatagtcgaatgactgatggtgctgcaataa Alignment from CESAR GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGG-GCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAg agtgtgtctcaatcttttgatcatagcttaattgtaaatatattttgcagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGTTCCCTGTGGGACCGATCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGACGCAGGTGTTGCAGCCACACTAGCTTGTTCACAGGAAGGGGCT-GTCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGACTCCCTCTGAAACAggtaaggcaaaagattgactcatagtcgaatgactgatggtgctgcaataa Alignment from Spaln_aa2Genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGAC---GTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG agtgtgtctcaatcttttgatcatagcttaattgtaaatatattttgcagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGTTCCCTGTGGGACCGATCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGACGCAGGTGTTGCAGCCACACTAGCTTGTTCACAGGAAGGGGCTGTCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGACTCCCTCTGAAACAGgtaaggcaaaagattgactcatagtcgaatgactgatggtgctgcaataa Alignment from Spaln_nt2Genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGG-GCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTGG---CAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG agtgtgtctcaatcttttgatcatagcttaattgtaaatatattttgcagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGTTCCCTGTGGGACCGATCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGACGCAGGTGTTGCAGCCACACTAGCTTGTTCACAGGAAGGGGCTG-TCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGACTCCCTCTGAAACAGgtaaggcaaaagattgactcatagtcgaatgactgatggtgctgcaataa Alignment from Pairagon GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGG-GCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG agtgtgtctcaatcttttgatcatagcttaattgtaaatatattttgcagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGTTCCCTGTGGGACCGATCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGACGCAGGTGTTGCAGCCACACTAGCTTGTTCACAGGAAGGGGCTG-TCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGACTCCCTCTGAAACAGgtaaggcaaaagattgactcatagtcgaatgactgatggtgctgcaataa Alignment from Exonerate_protein2genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGG-GCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGAT--GTTGTGGACGTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG agtgtgtctcaatcttttgatcatagcttaattgtaaatatattttgcagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGTTCCCTGTGGGACCGATCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGACGCAGGTGTTGCAGCCACACTAGCTTGTTCACAGGAAGGGGCTGTCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGACTCCCTCTGAAACAGgtaaggcaaaagattgactcatagtcgaatgactgatggtgctgcaataa Alignment from Exonerate_coding2genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGG-GCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGAT--GTTGTGGACGTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG agtgtgtctcaatcttttgatcatagcttaattgtaaatatattttgcagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGTTCCCTGTGGGACCGATCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGACGCAGGTGTTGCAGCCACACTAGCTTGTTCACAGGAAGGGGCTGTCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGACTCCCTCTGAAACAGgtaaggcaaaagattgactcatagtcgaatgactgatggtgctgcaataa Alignment from GeneWise GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG agtgtgtctcaatcttttgatcatagcttaattgtaaatatattttgcagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGTTCCCTGTGGGACCGATCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGACGCAGGTGTTGCAGCCACACTAGCTTGTTCACAGGAAGGGGCTGTCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGACTCCCTCTGAAACAGgtaaggcaaaagattgactcatagtcgaatgactgatggtgctgcaataa #### Pcx_ID568_17 --> 0 - 0 Original Alignment GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAG-GGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG actatctatggtgcgcttgctgaagcctccttctctgactgggactacagGTGAAGCCATCTTCCAAGATCGTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGGACTGAAACAGAAGCTCAGGCAGAGGAGCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGCGGGTATATTGGCATCCCACAAGGAGGTTTCCCCA-GCCATTTCATTCTAAAgtgagataggttgatgagggtgtaaatcagtctttctgtcttatttttcc Alignment from CESAR GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAG-GGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG actatctatggtgcgcttgctgaagcctccttctctgactgggactacagGTGAAGCCATCTTCCAAGATCGTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGGACTGAAACAGAAGCTCAGGCAGAGGAGCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGCGGGTATATTGGCATCCCACAAGGAGGTT-TCCCCAGCCATTTCATTCTAAAgtgagataggttgatgagggtgtaaatcagtctttacccactccctctct Alignment from Spaln_aa2Genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAG-GGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG actatctatggtgcgcttgctgaagcctccttctctgactgggactacagGTGAAGCCATCTTCCAAGATCGTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGGACTGAAACAGAAGCTCAGGCAGAGGAGCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGcGGGTATATTGGCATCCCACAAGGAGGTTTCCCCAG-CCATTTCATTCTAAAgtgagataggttgatgagggtgtaaatcagtctttctgtcttatttttcc Alignment from Spaln_nt2Genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAG-GGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG actatctatggtgcgcttgctgaagcctccttctctgactgggactacagGTGAAGCCATCTTCCAAGATCGTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGGACTGAAACAGAAGCTCAGGCAGAGGAGCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGCGGGTATATTGGCATCCCACAAGGAGGTTTCCC-CAGCCATTTCATTCTAAAgtgagataggttgatgagggtgtaaatcagtctttctgtcttatttttcc Alignment from Pairagon GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAG-GGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTA---------------------------------------------------- actatctatggtgcgcttgctgaagcctccttctctgactgggactacagGTGAAGCCATCTTCCAAGATCGTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGGACTGAAACAGAAGCTCAGGCAGAGGAGCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGCGGGTATATTGGCATCCCACAAGGAGGTTTCCCC-AGCCATTTCATTCTAAAGTGAGATAGGTTGATGAGGGTGTAAATCAGTCTTTCTGTCTTATTTTTCC Alignment from Exonerate_protein2genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG actatctatggtgcgcttgctgaagcctccttctctgactgggactacagGTGAAGCCATCTTCCAAGATCGTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGGACTGAAACAGAAGCTCAGGCAGAGGAGCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGCGGGTATATTGGCATCCCACAAGGAGGTTTCCCCAGCCATTTCATTCTAAAgtgagataggttgatgagggtgtaaatcagtctttctgtcttatttttcc Alignment from Exonerate_coding2genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG actatctatggtgcgcttgctgaagcctccttctctgactgggactacagGTGAAGCCATCTTCCAAGATCGTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGGACTGAAACAGAAGCTCAGGCAGAGGAGCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGCGGGTATATTGGCATCCCACAAGGAGGTTTCCCCAGCCATTTCATTCTAAAgtgagataggttgatgagggtgtaaatcagtctttctgtcttatttttcc Alignment from GeneWise GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG actatctatggtgcgcttgctgaagcctccttctctgactgggactacagGTGAAGCCATCTTCCAAGATCGTGGGTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGGACTGAAACAGAAGCTCAGGCAGAGGAGCTCTCCTTCCCCTGCTCTGTAGTGGAGTTCCTACAGCGGGTATATTGGCATCCCACAAGGAGGTTTCCCCAGCCATTTCATTCTAAAgtgagataggttgatgagggtgtaaatcagtctttctgtcttatttttcc #### Pcx_ID569_18 --> 0 - 0 Original Alignment GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTC-TCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttgatgagggtgtaaatcagtctttacccactccctctcttcccaagGTGCTAAAGGACCTCCCAAGAATTGAAGGACGGCCAGGAGCCTCCTTACCTCCCTTGAACCTGGAGGAGTTGGATAAGGGCCTGATTGATAGACATGGTGAAGATGTTTCACAAGAGGAAGTGCTCCTCTGCAGCTATGTACCCATAT------ACCCAATTCA-AGACTTCACAGCTACTTTCAGC---CTTGATAGCCTAAATACGAGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtcagtggtttctatatttatgtctacacttcccatgggcctatagtaag Alignment from CESAR GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTC-TCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttgatgagggtgtaaatcagtctttacccactccctctcttcccaagGTGCTAAAGGACCTCCCAAGAATTGAAGGACGGCCAGGAGCCTCCTTACCTCCCTTGAACCTGGAGGAGTTGGATAAGGGCCTGATTGATAGACATGGTGAAGATGTTTCACAAGAGGAAGTGCTCCTCTGCAGCTATGTACCCA------TATACCCAATTCA-AGACTTCACAGCTACTTTCAGC---CTTGATAGCCTAAATACGAGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtcagtggtttctatatttatgtctacacttcccatgggcctatagtaag Alignment from Spaln_aa2Genome GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttgatgagggtgtaaatcagtctttacccactccctctcttcccaagGTGCTAAAGGACCTCCCAAGAATTGAAGGACGGCCAGGAGCCTCCTTACCTCCCTTGAACCTGGAGGAGTTGGATAAGGGCCTGATTGATAGACATGGTGAAGATGTTTCACAAGAGGAAGTGCTCCTCTGCAGC---TATGTACCCATATACCCA---ATTCAAGACTTCACAGCTACTTTC---AGCCTTGATAGCCTAAATACGAGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtcagtggtttctatatttatgtctacacttcccatgggcctatagtaag Alignment from Spaln_nt2Genome GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTC-TCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttgatgagggtgtaaatcagtctttacccactccctctcttcccaagGTGCTAAAGGACCTCCCAAGAATTGAAGGACGGCCAGGAGCCTCCTTACCTCCCTTGAACCTGGAGGAGTTGGATAAGGGCCTGATTGATAGACATGGTGAAGATGTTTCACAAGAGGAAGTGCTCCTCTGCAGCTATGTACCC------ATATACCCAATTC-AAGACTTCACAGCTACTTTCAG---CCTTGATAGCCTAAATACGAGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtcagtggtttctatatttatgtctacacttcccatgggcctatagtaag Alignment from Pairagon -----------------------------------------------AAGGTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCT-CTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG AGGTTGATGAGGGTGTAAATCAGTCTTTACCCACTCCCTCTCTTCCCAAGGTGCTAAAGGACCTCCCAAGAATTGAAGGACGGCCAGGAGCCTCCTTACCTCCCTTGAACCTGGAGGAGTTGGATAAGGGCCTGATTGATAGACATGGTGAAGATGTTTCACAAGAGGAAGTGCTCCTCTGCAGCTATGTACCC------ATATACCCAATTC-AAGACTTCACAGCTACTTTCAG---CCTTGATAGCCTAAATACGAGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtcagtggtttctatatttatgtctacacttcccatgggcctatagtaag Alignment from Exonerate_protein2genome GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttgatgagggtgtaaatcagtctttacccactccctctcttcccaagGTGCTAAAGGACCTCCCAAGAATTGAAGGACGGCCAGGAGCCTCCTTACCTCCCTTGAACCTGGAGGAGTTGGATAAGGGCCTGATTGATAGACATGGTGAAGATGTTTCACAAGAGGAAGTGCTCCTCTGCAGCTATGTACCC------ATATACCCAATTCAAGACTTCACAGCTACTTTCAGC---CTTGATAGCCTAAATACGAGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtcagtggtttctatatttatgtctacacttcccatgggcctatagtaag Alignment from Exonerate_coding2genome GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttgatgagggtgtaaatcagtctttacccactccctctcttcccaagGTGCTAAAGGACCTCCCAAGAATTGAAGGACGGCCAGGAGCCTCCTTACCTCCCTTGAACCTGGAGGAGTTGGATAAGGGCCTGATTGATAGACATGGTGAAGATGTTTCACAAGAGGAAGTGCTCCTCTGCAGCTATGTACCC------ATATACCCAATTCAAGACTTCACAGCTACTTTCAGC---CTTGATAGCCTAAATACGAGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtcagtggtttctatatttatgtctacacttcccatgggcctatagtaag Alignment from GeneWise GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttgatgagggtgtaaatcagtctttacccactccctctcttcccaagGTGCTAAAGGACCTCCCAAGAATTGAAGGACGGCCAGGAGCCTCCTTACCTCCCTTGAACCTGGAGGAGTTGGATAAGGGCCTGATTGATAGACATGGTGAAGATGTTTCACAAGAGGAAGTGCTCCTCTGCAGCTATGTACCC------ATATACCCAATTCAAGACTTCACAGCTACTTTCAGC---CTTGATAGCCTAAATACGAGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtcagtggtttctatatttatgtctacacttcccatgggcctatagtaag #### Pdcd11_ID10111_5 --> 0 - 1 Original Alignment CTGCTGACAGGCACAGTGTCAAGCCTGGAA-GACCATGGCTACCTAGTGGACATTGGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAg catgtcttctgtttgaaacatgcaaaagcatgttgctgccacaaatgaagCTCCTGACAGGAACAGTTTCTAGCCTTGAACGACCATGGCTACCTTGTGGGCATTGGTGTTGGCG-GACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGAGTACACTCGACAGAAGAACAAAggtaagtcatcgtaaccttagttattgtgtttggggttagtagttcttatt Alignment from CESAR CTGCTGACAGGCACAGTGTCAAGCCTGGAA-GACCATGGCTACCTAGTGGACATTGGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAg catgtcttctgtttgaaacatgcaaaagcatgttgctgccacaaatgaagCTCCTGACAGGAACAGTTTCTAGCCTTGAACGACCATGGCTACCTTGTGGGCATTGGTGTTGGCG-GACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGAGTACACTCGACAGAAGAACAAAggtaagtcatcgtaaccttagttattgtgtttggggttagtagttcttatt Alignment from Spaln_aa2Genome CTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGCTACCTAGTGGACATTGGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAG catgtcttctgtttgaaacatgcaaaagcatgttgctgccacaaatgaagCTCCTGACAGGAACAGTTTCTAGCCTTGAACGACCATGGCTACCTTGTGGGCATTGGTGTTGGCGGACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGAGTACACTCGACAGAAGAACAAAGgtaagtcatcgtaaccttagttattgtgtttggggttagtagttcttatt Alignment from Spaln_nt2Genome CATGCTGCTGACAGGCACAGTGTCAAGCCTGGAA-GACCATGGCTACCTAGTGGACATTGGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAG catgtcttctgtttgaaacatgcaaaagcatgttgctgccacaaatgaag----CTCCTGACAGGAACAGTTTCTAGCCTTGAACGACCATGGCTACCTTGTGGGCATTGGTGTTGG-CGGACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGAGTACACTCGACAGAAGAACAAAGgtaagtcatcgtaaccttagttattgtgtttggggttagtagttcttatt Alignment from Pairagon CTGCTGACAGGCACAGTGTCAAGCCTGGAA-GACCATGGCTACCTAGTGGACATTGGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAG catgtcttctgtttgaaacatgcaaaagcatgttgctgccacaaatgaagCTCCTGACAGGAACAGTTTCTAGCCTTGAACGACCATGGCTACCTTGTGGGCATTGGTGTTGGC-GGACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGAGTACACTCGACAGAAGAACAAAGgtaagtcatcgtaaccttagttattgtgtttggggttagtagttcttatt Alignment from Exonerate_protein2genome CCTGGCATGCTGCTGACAGGCACAGTGTCAAGCCTGGAA-GACCATGGCTACCTAGTGGACATTGGCGTTGGTGGG--ACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAG catgtcttctgtttgaaacatgcaaaagcatgttgctgccaCAAATGAAGCTCCTGACAGGAACAGTTTCTAGCCTTGAACGACCATGGCTACCTTGTGGGCATTGGTGTTGGCGGACT---AGAGCCTTTCTATTACTGAAGAAGGCACAAGAGTACACTCGACAGAAGAACAAAGgtaagtcatcgtaaccttagttattgtgtttggggttagtagttcttatt Alignment from Exonerate_coding2genome catgtcttctgtttgaaacatgcaaaagcatgttgctgccacaaatgaagctcctgacaggaacagtttctagccttgaacgaccatggctaccttgtgggcattggtgttggcggactagagcctttctattactgaagaaggcacaagagtacactcgacagaagaacaaaggtaagtcatcgtaaccttagttattgtgtttggggttagtagttcttatt Alignment from GeneWise CTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGCTACCTAGTGGACATTGGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAG catgtcttctgtttgaaacatgcaaaagcatgttgctgccacaaatgaagCTCCTGACAGGAACAGTTTCTAGCCTTGAACGACCATGGCTACCTTGTGGGCATTGGTGTTGGCGGACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGAGTACACTCGACAGAAGAACAAAGgtaagtcatcgtaaccttagttattgtgtttggggttagtagttcttatt #### Pdcd11_ID10112_6 --> 2 - 0 Original Alignment gtGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGA-GGAGTTGTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG agggtccgcttggcatcaggtgacaccacaccaagcccctgtcttcacaggtGCTAAGTTCAAAGTTGGCCAATACCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGCCGGTGTTGTGAGTCTCTCTGTGGATCGCTCTG-GATCTCATTAGTCTTTACAACTGAAGATCAAAGTTGGAACCTGAATAACTTACTACCAGGGTTACTAGTTAAAGCCCAGGTACAGAAGgtgagtttctcactaactaatgggaaatgggagaggagagagtggaggca Alignment from CESAR gtGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGA-GGAGTTGTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG agggtccgcttggcatcaggtgacaccacaccaagcccctgtcttcacaggtGCTAAGTTCAAAGTTGGCCAATACCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGCCGGTGTTGTGAGTCTCTCTGTGGATCGCTCT-GGATCTCATTAGTCTTTACAACTGAAGATCAAAGTTGGAACCTGAATAACTTACTACCAGGGTTACTAGTTAAAGCCCAGGTACAGAAGgtgagtttctcactaactaatgggaaatgggagaggagagagtggaggca Alignment from Spaln_aa2Genome GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG agggtccgcttggcatcaggtgacaccacaccaagcccctgtcttcacagGTGCTAAGTTCAAAGTTGGCCAATACCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGCCGGTGTTGTGAGTCTCTCTGTGGATCGCTCTGGATCTCATTAGTCTTTACAACTGAAGATCAAAGTTGGAACCTGAATAACTTACTACCAGGGTTACTAGTTAAAGCCCAGGTACAGAAGgtgagtttctcactaactaatgggaaatgggagaggagagagtggaggca Alignment from Spaln_nt2Genome GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGA-GGAGTTGTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG agggtccgcttggcatcaggtgacaccacaccaagcccctgtcttcacagGTGCTAAGTTCAAAGTTGGCCAATACCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGCCGGTGTTGTGAGTCTCTCTGTGGATCGCTCTG-GATCTCATTAGTCTTTACAACTGAAGATCAAAGTTGGAACCTGAATAACTTACTACCAGGGTTACTAGTTAAAGCCCAGGTACAGAAGgtgagtttctcactaactaatgggaaatgggagaggagagagtggaggca Alignment from Pairagon GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGG-AGGAGTTGTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCG----------------------CAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG agggtccgcttggcatcaggtgacaccacaccaagcccctgtcttcacagGTGCTAAGTTCAAAGTTGGCCAATACCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGCCGGTGTTGTGAGTCTCTCTGTGGA-----------------------TCGCTCTGGATCTCATTAGTCTTTACAACTGAAGATCAAAGTTGGAACCTGAATAACTTACTACCAGGGTTACTAGTTAAAGCCCAGGTACAGAAGgtgagtttctcactaactaatgggaaatgggagaggagagagtggaggca Alignment from Exonerate_protein2genome GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG agggtccgcttggcatcaggtgacaccacaccaagcccctgtcttcacagGTGCTAAGTTCAAAGTTGGCCAATACCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGCCGGTGTTGTGAGTCTCTCTGTGGATCGCTCTGGATCTCATTAGTCTTTACAACTGAAGATCAAAGTTGGAACCTGAATAACTTACTACCAGGGTTACTAGTTAAAGCCCAGGTACAGAAGgtgagtttctcactaactaatgggaaatgggagaggagagagtggaggca Alignment from Exonerate_coding2genome agggtccgcttggcatcaggtgacaccacaccaagcccctgtcttcacaggtgctaagttcaaagttggccaatacctaacttgtgtagtcaaggaggtgaagagtaatggccggtgttgtgagtctctctgtggatcgctctggatctcattagtctttacaactgaagatcaaagttggaacctgaataacttactaccagggttactagttaaagcccaggtacagaaggtgagtttctcactaactaatgggaaatgggagaggagagagtggaggca Alignment from GeneWise GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG agggtccgcttggcatcaggtgacaccacaccaagcccctgtcttcacagGTGCTAAGTTCAAAGTTGGCCAATACCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGCCGGTGTTGTGAGTCTCTCTGTGGATCGCTCTGGATCTCATTAGTCTTTACAACTGAAGATCAAAGTTGGAACCTGAATAACTTACTACCAGGGTTACTAGTTAAAGCCCAGGTACAGAAGgtgagtttctcactaactaatgggaaatgggagaggagagagtggaggca #### Pdcd11_ID10120_14 --> 0 - 0 Original Alignment TTGGTGGATGTGAAGGTCCTG-GAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTGCACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATT ggaggatagcctgttctttgatatgaaacaccctcaccatcttcccacagGTCGTGGATGTGAAGGTCCTACCACAAAACCAAAACTGGGCTAGAGGTAGCCATTC-GCCCCATAAT------GAATTTCTTCCCACGCCCCACTTGTCTGACCATGCTACTAATGGTCCACTGCTACACCACTGGCTTCAAGCAGGAGATACTCTTCACCAA---CTCTGCTTAAGCCAGTGTGAAAGACATATTgtaggttcacatactctgtctttggatagggccttgcatgtgtggtgatt Alignment from CESAR TTGGTGGATGTGAAGGTCCTG-GAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTGCACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATT ggaggatagcctgttctttgatatgaaacaccctcaccatcttcccacagGTCGTGGATGTGAAGGTCCTACCACAAAACCAAAACTGGGCTAGAGGTAGCCATT-CGCCCCATAAT------GAATTTCTTCCCACGCCCCACTTGTCTGACCATGCTACTAATGGTCCACTGCTACACCACTGGCTTCAAGCAGGAGATACTCTTCACCAA---CTCTGCTTAAGCCAGTGTGAAAGACATATTgtaggttcacatactctgtctttggatagggccttgcatgtgtggtgatt Alignment from Spaln_aa2Genome TTGGTGGATGTGAAGGTCCTG-GAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTGCACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATT ggaggatagcctgttctttgatatgaaacaccctcaccatcttcccacagGTCGTGGATGTGAAGGTCCTAcCACAAAACCAAAACTGGGCTAGAGGTAGCCATTCG-CCCCATAAT------GAATTTCTTCCCACGCCCCACTTGTCTGACCATGCTACTAATGGTCCACTGCTACACCACTGGCTTCAAGCAGGAGATACTCTTCACCAA---CTCTGCTTAAGCCAGTGTGAAAGACATATTgtaggttcacatactctgtctttggatagggccttgcatgtgtggtgatt Alignment from Spaln_nt2Genome TTGGTGGATGTGAAGGTCCTGG-AGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTGCACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATT ggaggatagcctgttctttgatatgaaacaccctcaccatcttcccacagGTCGTGGATGTGAAGGTCCTACCACAAAACCAAAACTGGGCTAGAGGTAGCCATTC-GCCCCATAA------TGAATTTCTTCCCACGCCCCACTTGTCTGACCATGCTACTAATGGTCCACTGCTACACCACTGGCTTCAAGCAGGAGATACTCTTCACCAA---CTCTGCTTAAGCCAGTGTGAAAGACATATTgtaggttcacatactctgtctttggatagggccttgcatgtgtggtgatt Alignment from Pairagon TTGGTGGATGTGAAGGTCCTG-GAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTGCACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATT ggaggatagcctgttctttgatatgaaacaccctcaccatcttcccacagGTCGTGGATGTGAAGGTCCTACCACAAAACCAAAACTGGGCTAGAGGTAGCCATTC-GCCCCATAA------TGAATTTCTTCCCACGCCCCACTTGTCTGACCATGCTACTAATGGTCCACTGCTACACCACTGGCTTCAAGCAGGAGATACTCTTCACCAA---CTCTGCTTAAGCCAGTGTGAAAGACATATTgtaggttcacatactctgtctttggatagggccttgcatgtgtggtgatt Alignment from Exonerate_protein2genome TTGGTGGATGTGAAGGTCCTGGAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTGCACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATT ggaggatagcctgttctttgatatgaaacaccctcaccatcttcccacagGTCGTGGATGTGAAGGTCCTACCACAAAACCAAAACTGGGCTAGAGGTAGCCATTCGCCCCATAAT------GAATTTCTTCCCACGCCCCACTTGTCTGACCATGCTACTAATGGTCCACTGCTACACCACTGGCTTCAAGCAGGAGATACTCTTCACCAA---CTCTGCTTAAGCCAGTGTGAAAGACATATTgtaggttcacatactctgtctttggatagggccttgcatgtgtggtgatt Alignment from Exonerate_coding2genome TTGGTGGATGTGAAGGTCCTGGAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTGCACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATT ggaggatagcctgttctttgatatgaaacaccctcaccatcttcccacagGTCGTGGATGTGAAGGTCCTACCACAAAACCAAAACTGGGCTAGAGGTAGCCATTCGCCCCATAAT------GAATTTCTTCCCACGCCCCACTTGTCTGACCATGCTACTAATGGTCCACTGCTACACCACTGGCTTCAAGCAGGAGATACTCTTCACCAA---CTCTGCTTAAGCCAGTGTGAAAGACATATTgtaggttcacatactctgtctttggatagggccttgcatgtgtggtgatt Alignment from GeneWise TTGGTGGATGTGAAGGTCCTGGAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTGCACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATT ggaggatagcctgttctttgatatgaaacaccctcaccatcttcccacagGTCGTGGATGTGAAGGTCCTACCACAAAACCAAAACTGGGCTAGAGGTAGCCATTCGCCCCATAATGAA------TTTCTTCCCACGCCCCACTTGTCTGACCATGCTACTAATGGTCCACTGCTACACCACTGGCTTCAAGCAGGAGATACTCTTCACCAA---CTCTGCTTAAGCCAGTGTGAAAGACATATTgtaggttcacatactctgtctttggatagggccttgcatgtgtggtgatt #### Pdcd11_ID10134_28 --> 1 - 0 Original Alignment cGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCA-GACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctaaaacaccctatttgccctataaatttgctatttctgtagcATCAACCCCACAAAGAACCTGATAGAGTTATCCCTCCTTCCAGGTGATACTGGGAGGCAACGATGTTTCCCCCCCTGCCCCAGAACCAGAACAAGAGG-AGGTAGTGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGGCGGGATGAGAAGGAGGAACCACAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaagccaggcagtatgtattgtatctttttatgggacacatttgctgct Alignment from CESAR cGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCA-GACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctaaaacaccctatttgccctataaatttgctatttctgtagcATCAACCCCACAAAGAACCTGATAGAGTTATCCCTCCTTCCAGGTGATACTGGGAGGCAACGATGTTTCCCCCCCTGCCCCAGAACCAGAACAAGAGGAG-GTAGTGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGGCGGGATGAGAAGGAGGAACCACAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaagccaggcagtatgtattgtatctttttatgggacacatttgctgct Alignment from Spaln_aa2Genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctaaaacaccctatttgccctataaatttgctatttctgtagCATCAACCCCACAAAGAACCTGATAGAGTTATCCCTCCTTCCAGGTGATACTGGGAGGCAACGATGTTTCCCCCCCTGCCCCAGAACCAGAACAAGAGGAGGTAGTGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGGCGGGATGAGAAGGAGGAACCACAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaagccaggcagtatgtattgtatctttttatgggacacatttgctgct Alignment from Spaln_nt2Genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCA-GACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctaaaacaccctatttgccctataaatttgctatttctgtagCATCAACCCCACAAAGAACCTGATAGAGTTATCCCTCCTTCCAGGTGATACTGGGAGGCAACGATGTTTCCCCCCCTGCCCCAGAACCAGAACAAGAGGAG-GTAGTGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGGCGGGATGAGAAGGAGGAACCACAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaagccaggcagtatgtattgtatctttttatgggacacatttgctgct Alignment from Pairagon CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCA-GACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctaaaacaccctatttgccctataaatttgctatttctgtagCATCAACCCCACAAAGAACCTGATAGAGTTATCCCTCCTTCCAGGTGATACTGGGAGGCAACGATGTTTCCCCCCCTGCCCCAGAACCAGAACAAGAGGAG-GTAGTGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGGCGGGATGAGAAGGAGGAACCACAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaagccaggcagtatgtattgtatctttttatgggacacatttgctgct Alignment from Exonerate_protein2genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctaaaacaccctatttgccctataaatttgctatttctgtagCATCAACCCCACAAAGAACCTGATAGAGTTATCCCTCCTTCCAGGTGATACTGGGAGGCAACGATGTTTCCCCCCCTGCCCCAGAACCAGAACAAGAGGAGGTAGTGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGGCGGGATGAGAAGGAGGAACCACAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaagccaggcagtatgtattgtatctttttatgggacacatttgctgct Alignment from Exonerate_coding2genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctaaaacaccctatttgccctataaatttgctatttctgtagCATCAACCCCACAAAGAACCTGATAGAGTTATCCCTCCTTCCAGGTGATACTGGGAGGCAACGATGTTTCCCCCCCTGCCCCAGAACCAGAACAAGAGGAGGTAGTGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGGCGGGATGAGAAGGAGGAACCACAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaagccaggcagtatgtattgtatctttttatgggacacatttgctgct Alignment from GeneWise CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctaaaacaccctatttgccctataaatttgctatttctgtagCATCAACCCCACAAAGAACCTGATAGAGTTATCCCTCCTTCCAGGTGATACTGGGAGGCAACGATGTTTCCCCCCCTGCCCCAGAACCAGAACAAGAGGAGGTAGTGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGGCGGGATGAGAAGGAGGAACCACAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaagccaggcagtatgtattgtatctttttatgggacacatttgctgct #### Pdcd11_ID10135_29 --> 0 - 0 Original Alignment GAACTAGTGAACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGAC-AGTGGTGTGGAA------GTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG atactctgtgttttaggggagctgccccctttcccccttaccaccagcagGGTTTAGTAAACAAGAGGCCG---AGGTCTGGGGCTGCAGAGGAAGATGATCAGTGGGGTGGAAGCTTCAGTATACTACCGGGAAGGAGAGG-TGAGGTGGGGGAGCCAAAGCTACCACCCAGGgttggttttatgggagttactatctttagagcataccttgcacatgaagt Alignment from CESAR GAACTAGTGAACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGAC-AGTGGTGTGGAA------GTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG atactctgtgttttaggggagctgccccctttcccccttaccaccagcagGGTTTAGTAAACAAGAGGCCG---AGGTCTGGGGCTGCAGAGGAAGATGATCAGTGGGGTGGAAGCTTCAGTATACTACCGGGAAGGAGAG-GTGAGGTGGGGGAGCCAAAGCTACCACCCAGGgttggttttatgggagttactatctttagagcataccttgcacatgaagt Alignment from Spaln_aa2Genome GAACTAGTGAACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGAC-AGTGGTGTGGAA------GTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG atactctgtgttttaggggagctgccccctttcccccttaccaccagcagGGTTTAGTAAACAAGAGGCCG---AGGTCTGGGGCTGCAGAGGAAGATGATcAGTGGGGTGGAAGCTTCAGTATACTACCGGGAAGGAGAGGT-GAGGTGGGGGAGCCAAAGCTACCACCCAGGgttggttttatgggagttactatctttagagcataccttgcacatgaagt Alignment from Spaln_nt2Genome GAACTAGTGAACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGA-CAGTGGTGTGGAAG------TGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG atactctgtgttttaggggagctgccccctttcccccttaccaccagcagGGTTTAGTAAACAAGAGGCC---GAGGTCTGGGGCTGCAGAGGAAGATGATCAGTGGGGTGGAAGCTTCAGTATACTACCGGGAAGGAGAGG-TGAGGTGGGGGAGCCAAAGCTACCACCCAGGgttggttttatgggagttactatctttagagcataccttgcacatgaagt Alignment from Pairagon GAACTAGTGAACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGA-CAGTGGTGTGGA------AGTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG atactctgtgttttaggggagctgccccctttcccccttaccaccagcagGGTTTAGTAAACAAGAGGCC---GAGGTCTGGGGCTGCAGAGGAAGATGATCAGTGGGGTGGAAGCTTCAGTATACTACCGGGAAGGAGAGG-TGAGGTGGGGGAGCCAAAGCTACCACCCAGGgttggttttatgggagttactatctttagagcataccttgcacatgaagt Alignment from Exonerate_protein2genome GAACTAGTGAACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGTGGTGTGGAAGTGTACTACCGGGAAGGA---GAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG atactctgtgttttaggggagctgccccctttcccccttaccaccagcagGGTTTAGTAAACAAGAGGCCGAGGTCTGGGGCTGCAGAGGAAGATGATCAGTGGGGTGGAAGCTTCAGTATACTACCGGGAAGGAGAGGTGAGGTGGGGGAGCCAAAGCTACCACCCAGGgttggttttatgggagttactatctttagagcataccttgcacatgaagt Alignment from Exonerate_coding2genome GAACTAGTGAACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGTGGTGTGGAAGTGTACTACCGGGAAGGA---GAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG atactctgtgttttaggggagctgccccctttcccccttaccaccagcagGGTTTAGTAAACAAGAGGCCGAGGTCTGGGGCTGCAGAGGAAGATGATCAGTGGGGTGGAAGCTTCAGTATACTACCGGGAAGGAGAGGTGAGGTGGGGGAGCCAAAGCTACCACCCAGGgttggttttatgggagttactatctttagagcataccttgcacatgaagt Alignment from GeneWise ---GAACTAGTGAACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGT---GGTGTGGAAGTGTACTACCGGGAAGGAGAG---GATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG atactctgtgttttaggggagctgccccctttcccccttaccaccagCAGGGTTTAGTAAACAAGAGGCCGAGG---TCTGGGGCTGCAGAGGAAGATGATCAGTGGGGTGGAAGCTTCAGTATACTACCGGGAAGGAGAGGTGAGGTGGGGGAGCCAAAGCTACCACCCAGGgttggttttatgggagttactatctttagagcataccttgcacatgaagt #### Pdcd11_ID10136_30 --> 0 - 0 Original Alignment GGGAAGCAGACAAAATCCACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTCCTTTGGGATGTGGGGCTT-GACTCTCTGACTCCAGCCTTGCCACTCCGAGAAGAGAGCTCAGACAGCGAGGATGAGCAGCCGCACCAAGCTAAG gtgggctggtttggccagaaatcatcacccatcctccctcctccctctagGGGAAGAAGACAAAGTCTACAGAAGTGTCTCGTCTGCACCTCTCTTCAGGTTTTCTCTGGGACGTGGGACTTCGATTCTCTAACCCCATCCTTGCCACTCCGGG-AGAAAGCTCAGACAGTGAGGATGAGCAGCCACACCAGGCTAAGgtaaatcatctctttagccagtatgactactaggactacttagagccaaa Alignment from CESAR GGGAAGCAGACAAAATCCACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTCCTTTGGGATGTGGGGCTT-GACTCTCTGACTCCAGCCTTGCCACTCCGAGAAGAGAGCTCAGACAGCGAGGATGAGCAGCCGCACCAAGCTAAG gtgggctggtttggccagaaatcatcacccatcctccctcctccctctagGGGAAGAAGACAAAGTCTACAGAAGTGTCTCGTCTGCACCTCTCTTCAGGTTTTCTCTGGGACGTGGGACTTCGATTCTCTAACCCCATCCTTGCCACTCCGGG-AGAAAGCTCAGACAGTGAGGATGAGCAGCCACACCAGGCTAAGgtaaatcatctctttagccagtatgactactaggactacttagagccaaa Alignment from Spaln_aa2Genome GGGAAGCAGACAAAATCCACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTCCTTTGGGATGTGGGGCTTGACTCTCTGACTCCAGCCTTGCCACTCCGAGAAGAGAGCTCAGACAGCGAGGATGAGCAGCCGCACCAAGCTAAG gtgggctggtttggccagaaatcatcacccatcctccctcctccctctagGGGAAGAAGACAAAGTCTACAGAAGTGTCTCGTCTGCACCTCTCTTCAGGTTTTCTCTGGGACGTGGGACTTCGATTCTCTAACCCCATCCTTGCCACTCCGGGAGAAAGCTCAGACAGTGAGGATGAGCAGCCACACCAGGCTAAGgtaaatcatctctttagccagtatgactactaggactacttagagccaaa Alignment from Spaln_nt2Genome GGGAAGCAGACAAAATCCACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTCCTTTGGGATGTGGGGCTT-GACTCTCTGACTCCAGCCTTGCCACTCCGAGAAGAGAGCTCAGACAGCGAGGATGAGCAGCCGCACCAAGCTAAG gtgggctggtttggccagaaatcatcacccatcctccctcctccctctagGGGAAGAAGACAAAGTCTACAGAAGTGTCTCGTCTGCACCTCTCTTCAGGTTTTCTCTGGGACGTGGGACTTCGATTCTCTAACCCCATCCTTGCCACTCCG-GGAGAAAGCTCAGACAGTGAGGATGAGCAGCCACACCAGGCTAAGgtaaatcatctctttagccagtatgactactaggactacttagagccaaa Alignment from Pairagon GGGAAGCAGACAAAATCCACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTCCTTTGGGATGTGGGGCTT-GACTCTCTGACTCCAGCCTTGCCACTCCGAGAAGAGAGCTCAGACAGCGAGGATGAGCAGCCGCACCAAGCTAAG gtgggctggtttggccagaaatcatcacccatcctccctcctccctctagGGGAAGAAGACAAAGTCTACAGAAGTGTCTCGTCTGCACCTCTCTTCAGGTTTTCTCTGGGACGTGGGACTTCGATTCTCTAACCCCATCCTTGCCACTCCG-GGAGAAAGCTCAGACAGTGAGGATGAGCAGCCACACCAGGCTAAGgtaaatcatctctttagccagtatgactactaggactacttagagccaaa Alignment from Exonerate_protein2genome GGGAAGCAGACAAAATCCACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTCCTTTGGGATGTGGGGCTTGACTCTCTGACTCCAGCCTTGCCACTCCGAGAAGAGAGCTCAGACAGCGAGGATGAGCAGCCGCACCAAGCTAAG gtgggctggtttggccagaaatcatcacccatcctccctcctccctctagGGGAAGAAGACAAAGTCTACAGAAGTGTCTCGTCTGCACCTCTCTTCAGGTTTTCTCTGGGACGTGGGACTTCGATTCTCTAACCCCATCCTTGCCACTCCGGGAGAAAGCTCAGACAGTGAGGATGAGCAGCCACACCAGGCTAAGgtaaatcatctctttagccagtatgactactaggactacttagagccaaa Alignment from Exonerate_coding2genome GGGAAGCAGACAAAATCCACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTCCTTTGGGATGTGGGGCTTGACTCTCTGACTCCAGCCTTGCCACTCCGAGAAGAGAGCTCAGACAGCGAGGATGAGCAGCCGCACCAAGCTAAG gtgggctggtttggccagaaatcatcacccatcctccctcctccctctagGGGAAGAAGACAAAGTCTACAGAAGTGTCTCGTCTGCACCTCTCTTCAGGTTTTCTCTGGGACGTGGGACTTCGATTCTCTAACCCCATCCTTGCCACTCCGGGAGAAAGCTCAGACAGTGAGGATGAGCAGCCACACCAGGCTAAGgtaaatcatctctttagccagtatgactactaggactacttagagccaaa Alignment from GeneWise GGGAAGCAGACAAAATCCACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTCCTTTGGGATGTGGGGCTTGACTCTCTGACTCCAGCCTTGCCACTCCGAGAAGAGAGCTCAGACAGCGAGGATGAGCAGCCGCACCAAGCTAAG gtgggctggtttggccagaaatcatcacccatcctccctcctccctctagGGGAAGAAGACAAAGTCTACAGAAGTGTCTCGTCTGCACCTCTCTTCAGGTTTTCTCTGGGACGTGGGACTTCGATTCTCTAACCCCATCCTTGCCACTCCGGGAGAAAGCTCAGACAGTGAGGATGAGCAGCCACACCAGGCTAAGgtaaatcatctctttagccagtatgactactaggactacttagagccaaa #### Pdcd11_ID10139_33 --> 0 - 1 Original Alignment GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAA-TATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGG------GCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAc acaatgcaagtaatgttttaagaaagggtttgtttctttttttctcttagGAAGCTGGAGAGCTGTATAACCGCATGATCAAACGGTGCCAGGAGAAGGATGTGGTCTGTATCAAACTATGGTTCCTTTGGTTTGGGAAGGAGCCAGG-GGGGGCTGGGGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCAGCCAAGGAAcgtatgttctcttgaaacaaccaagctttatggtctggcacctgatcccac Alignment from CESAR GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAG---GCTGTCTGGATCAAA-TATGGTGCCTTTGTTTTGGGGAGGAGTCAG-----GCTGGGGCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAc acaatgcaagtaatgttttaagaaagggtttgtttctttttttctcttagGAAGCTGGAGAGCTGTATAACCGCATGATCAAACGGTGC---CAGGAGAAGGATGTGGTCTGTATCAAACTATGGTTCCTTTGGTTTGGGAAGGAGCCAGGGGGGGCTGGGGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCAGCCAAGGAAcgtatgttctcttgaaacaaccaagctttatggtctggcacctgatcccac Alignment from Spaln_aa2Genome GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAA-TATGGTGCCTTTGTTTTGGGGAGGAGTCAG-----GCTGGGGCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC acaatgcaagtaatgttttaagaaagggtttgtttctttttttctcttagGAAGCTGGAGAGCTGTATAACCGCATGATCAAACGGTGCCAGGAGAAGGATGTGGTCTGTATCAAAcTATGGTTCCTTTGGTTTGGGAAGGAGCCAGGGGggGCTGGGGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCAGCCAAGGAACgtatgttctcttgaaacaaccaagctttatggtctggcacctgatcccac Alignment from Spaln_nt2Genome GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAA-TATGGTGCCTTTGTTTTGGGGAGGAGTCAGG-----CTGGGGCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC acaatgcaagtaatgttttaagaaagggtttgtttctttttttctcttagGAAGCTGGAGAGCTGTATAACCGCATGATCAAACGGTGCCAGGAGAAGGATGTGGTCTGTATCAAACTATGGTTCCTTTGGTTTGGGAAGGAGCCAGGGGGGGCTGGGGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCAGCCAAGGAACgtatgttctcttgaaacaaccaagctttatggtctggcacctgatcccac Alignment from Pairagon GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCT---GTCTGGATCAAA-TATGGTGCCTTTGTTTTGGGGAGGAGTCA-----GGCTGGGGCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC acaatgcaagtaatgttttaagaaagggtttgtttctttttttctcttagGAAGCTGGAGAGCTGTATAACCGCATGATCAAACGGT---GCCAGGAGAAGGATGTGGTCTGTATCAAACTATGGTTCCTTTGGTTTGGGAAGGAGCCAGGGGGGGCTGGGGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCAGCCAAGGAACgtatgttctcttgaaacaaccaagctttatggtctggcacctgatcccac Alignment from Exonerate_protein2genome GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAA-TATGGTGCCTTTGTTTTGGGGAGGAGTCAG-----GCTGGGGCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC acaatgcaagtaatgttttaagaaagggtttgtttctttttttctcttagGAAGCTGGAGAGCTGTATAACCGCATGATCAAACGGTGCCAGGAGAAGGATGTGGTCTGTATCAAACTATGGTTCCTTTGGTTTGGGAAGGAGCCAGGGGGGGCTGGGGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCAGCCAAGGAACgtatgttctcttgaaacaaccaagctttatggtctggcacctgatcccac Alignment from Exonerate_coding2genome GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAA-TATGGTGCCTTTGTTTTGGGGAGGAGTCAG-----GCTGGGGCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC acaatgcaagtaatgttttaagaaagggtttgtttctttttttctcttagGAAGCTGGAGAGCTGTATAACCGCATGATCAAACGGTGCCAGGAGAAGGATGTGGTCTGTATCAAACTATGGTTCCTTTGGTTTGGGAAGGAGCCAGGGGGGGCTGGGGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCAGCCAAGGAACgtatgttctcttgaaacaaccaagctttatggtctggcacctgatcccac Alignment from GeneWise GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGCC------AGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC acaatgcaagtaatgttttaagaaagggtttgtttctttttttctcttagGAAGCTGGAGAGCTGTATAACCGCATGATCAAACGGTGCCAGGAGAAGGATGTGGTCTGTATCAAACTATGGTTCCTTTGGTTTGGGAAGGAGCCAGGGGGGGCTGGGGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCAGCCAAGGAACgtatgttctcttgaaacaaccaagctttatggtctggcacctgatcccac #### Pdcd11_ID10140_34 --> 2 - 2 Original Alignment atGTGGATGTGATCGTCAAG-TTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCag actgctctgatcagcctcttttgtgatcccccgccccgccccgcccccagatGTGGATGTGATTGTTAAGCTTTGCCCAGTTGGAGTTCCAACTTGGGG-TGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGTCATACAGCAGTCaggtaagtgtaactgacagggataattgcaatggaccaggtgataggaggtg Alignment from CESAR atGTGGATGTGATCGTCAAG-TTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCag actgctctgatcagcctcttttgtgatcccccgccccgccccgcccccagatGTGGATGTGATTGTTAAGCTTTGCCCAGTTGGAGTTCCAACTTGGG-GTGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGTCATACAGCAGTCaggtaagtgtaactgacagggataattgcaatggaccaggtgataggaggtg Alignment from Spaln_aa2Genome ATGTGGATGTGATCGTCAAG-TTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG actgctctgatcagcctcttttgtgatcccccgccccgccccgcccccagATGTGGATGTGATTGTTAAGcTTTGCCCAGTTGGAGTTCCAACTTGGGGT-GTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGTCATACAGCAGTCAGgtaagtgtaactgacagggataattgcaatggaccaggtgataggaggtg Alignment from Spaln_nt2Genome ATGTGGATGTGATCGTCAAG-TTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG actgctctgatcagcctcttttgtgatcccccgccccgccccgcccccagATGTGGATGTGATTGTTAAGCTTTGCCCAGTTGGAGTTCCAACTTGGGG-TGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGTCATACAGCAGTCAGgtaagtgtaactgacagggataattgcaatggaccaggtgataggaggtg Alignment from Pairagon ATGTGGATGTGATCGTCAAG-TTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG actgctctgatcagcctcttttgtgatcccccgccccgccccgcccccagATGTGGATGTGATTGTTAAGCTTTGCCCAGTTGGAGTTCCAACTTGGGG-TGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGTCATACAGCAGTCAGgtaagtgtaactgacagggataattgcaatggaccaggtgataggaggtg Alignment from Exonerate_protein2genome ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG actgctctgatcagcctcttttgtgatcccccgccccgccccgcccccagATGTGGATGTGATTGTTAAGCTTTGCCCAGTTGGAGTTCCAACTTGGGGTGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGTCATACAGCAGTCAGgtaagtgtaactgacagggataattgcaatggaccaggtgataggaggtg Alignment from Exonerate_coding2genome ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG actgctctgatcagcctcttttgtgatcccccgccccgccccgcccccagATGTGGATGTGATTGTTAAGCTTTGCCCAGTTGGAGTTCCAACTTGGGGTGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGTCATACAGCAGTCAGgtaagtgtaactgacagggataattgcaatggaccaggtgataggaggtg Alignment from GeneWise ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG actgctctgatcagcctcttttgtgatcccccgccccgccccgcccccagATGTGGATGTGATTGTTAAGCTTTGCCCAGTTGGAGTTCCAACTTGGGGTGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGTCATACAGCAGTCAGgtaagtgtaactgacagggataattgcaatggaccaggtgataggaggtg #### Pde6c_ID7533_3 --> 0 - 0 Original Alignment GTCTTTTCTAAGTACCTC-AGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccattataacccattcttttacttcctacagGTCATCTCAAAATACCTCCAGCTTTGTTGCTGTTGCACTACGGCTGAAGCACA-TAGTTATTTGTACAGTTTGGAGTCCCGGCGGAGTCAAgtatgtgaatactacaagaagtctgccatttccacaactacacgtcatta Alignment from CESAR GTCTTTTCTAAGTACCTC-AGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccattataacccattcttttacttcctacagGTCATCTCAAAATACCTCCAGCTTTGTTGCTGTTGCACTACGGCTGAAGCAC-ATAGTTATTTGTACAGTTTGGAGTCCCGGCGGAGTCAAgtatgtgaatactacaagaagtctgccatttccacaactacacgtcatta Alignment from Spaln_aa2Genome CTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccattataacccattcttttacttcctacaggtcatctcaaaatacctccagCTTTGTTGCTGTTGCACTACGGCTGAAGCACAT-AGTTATTTGTACAGTTTGGAGTCCCGGCGGAGTCAAgtatgtgaatactacaagaagtctgccatttccacaactacacgtcatta Alignment from Spaln_nt2Genome GTCTTTTCTAAGTACCTC-AGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccattataacccattcttttacttcctacagGTCATCTCAAAATACCTCCAGCTTTGTTGCTGTTGCACTACGGCTGAAGCACA-TAGTTATTTGTACAGTTTGGAGTCCCGGCGGAGTCAAgtatgtgaatactacaagaagtctgccatttccacaactacacgtcatta Alignment from Pairagon GTCTTTTCTAAGTACCT-CAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccattataacccattcttttacttcctacagGTCATCTCAAAATACCTCCAGCTTTGTTGCTGTTGCACTACGGCTGAAGCACA-TAGTTATTTGTACAGTTTGGAGTCCCGGCGGAGTCAAgtatgtgaatactacaagaagtctgccatttccacaactacacgtcatta Alignment from Exonerate_protein2genome GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccattataacccattcttttacttcctacagGTCATCTCAAAATACCTCCAGCTTTGTTGCTGTTGCACTACGGCTGAAGCACATAGTTATTTGTACAGTTTGGAGTCCCGGCGGAGTCAAgtatgtgaatactacaagaagtctgccatttccacaactacacgtcatta Alignment from Exonerate_coding2genome GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccattataacccattcttttacttcctacagGTCATCTCAAAATACCTCCAGCTTTGTTGCTGTTGCACTACGGCTGAAGCACATAGTTATTTGTACAGTTTGGAGTCCCGGCGGAGTCAAgtatgtgaatactacaagaagtctgccatttccacaactacacgtcatta Alignment from GeneWise GTTGCTGTCGCA-- CAAACAAGCCATGGgttcaccattataacccattcttttacttcctacaggtcatctcaaaatacctccagctttgttgctgttgcactacggctgaagcacatagttatttgtacagtttggagtcccggcggagtcaagtatgtgaatactacaagaagtctgccatttccacaactacacgtcatta #### Pde6c_ID7543_13 --> 0 - 0 Original Alignment GTTCTTACAAGGTGGATGTACACAGTCCGG-AAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG gtcaacctctttaatgttggagtagtgacgccttgtgcccccctgtacagATTCTTACAAAGTGGATGTACACAGTCCGACAAGGGGTACCGACCTGCTACATACCACAATTGGCGGC-TGGGTCAAATGTGGGGTATACGATATCTCCTCTGTTAATGgtaaatttagctgtggatagactgaatgctctcttcctactaaatgccag Alignment from CESAR GTTCTTACAAGGTGGATGTACACAGTCCGG-AAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG gtcaacctctttaatgttggagtagtgacgccttgtgcccccctgtacagATTCTTACAAAGTGGATGTACACAGTCCGACAAGGGGTACCGACCTGCTACATACCACAATTGGCGGCTGGGT-CAAATGTGGGGTATACGATATCTCCTCTGTTAATGgtaaatttagctgtggatagactgaatgctctcttcctactaaatgccag Alignment from Spaln_aa2Genome GTTCTTACAAGGTGGATGTACACAGTCCGG-AAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG gtcaacctctttaatgttggagtagtgacgccttgtgcccccctgtacagATTCTTACAAAGTGGATGTACACAGTCCGAcAAGGGGTACCGACCTGCTACATACCACAATTGGCGGCT-GGGTCAAATGTGGGGTATACGATATCTCCTCTGTTAATGgtaaatttagctgtggatagactgaatgctctcttcctactaaatgccag Alignment from Spaln_nt2Genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGG-TACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG gtcaacctctttaatgttggagtagtgacgccttgtgcccccctgtacagATTCTTACAAAGTGGATGTACACAGTCCGACAAGGGGTACCGACCTGCTACATACCACAATTGGCGGC-TGGGTCAAATGTGGGGTATACGATATCTCCTCTGTTAATGgtaaatttagctgtggatagactgaatgctctcttcctactaaatgccag Alignment from Pairagon GTTCTTACAAGGTGGATGTACACAGTCCGG-AAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG gtcaacctctttaatgttggagtagtgacgccttgtgcccccctgtacagATTCTTACAAAGTGGATGTACACAGTCCGACAAGGGGTACCGACCTGCTACATACCACAATTGGCGGC-TGGGTCAAATGTGGGGTATACGATATCTCCTCTGTTAATGgtaaatttagctgtggatagactgaatgctctcttcctactaaatgccag Alignment from Exonerate_protein2genome GTTCTTACAAGGTGGATGTACACAGTCCGG-AAAGGGTACCGTCCTGTCACCTACCACAACTGGCGG--CACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG gtcaacctctttaatgttggagtagtgacgccttgtgcccccctgtacagATTCTTACAAAGTGGATGTACACAGTCCGACAAGGGGTACCGACCTGCTACATACCACAATTGGCGGCT---GGGTCAAATGTGGGGTATACGATATCTCCTCTGTTAATGgtaaatttagctgtggatagactgaatgctctcttcctactaaatgccag Alignment from Exonerate_coding2genome GTTCTTACAAGGTGGATGTACACAGTCCGG-AAAGGGTACCGTCCTGTCACCTACCACAACTGGCGG--CACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG gtcaacctctttaatgttggagtagtgacgccttgtgcccccctgtacagATTCTTACAAAGTGGATGTACACAGTCCGACAAGGGGTACCGACCTGCTACATACCACAATTGGCGGCT---GGGTCAAATGTGGGGTATACGATATCTCCTCTGTTAATGgtaaatttagctgtggatagactgaatgctctcttcctactaaatgccag Alignment from GeneWise GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG gtcaacctctttaatgttggagtagtgacgccttgtgcccccctgtacagATTCTTACAAAGTGGATGTACACAGTCCGACAAGGGGTACCGACCTGCTACATACCACAATTGGCGGCTGGGTCAAATGTGGGGTATACGATATCTCCTCTGTTAATGgtaaatttagctgtggatagactgaatgctctcttcctactaaatgccag #### Peo1_ID9266_3 --> 1 - 2 Original Alignment gTCCGTCATAGAC-ACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACag catccattaatgactttatccatatgattacctttccccctcctttgcaggTCTGTCATAGACCACAATGCAACATGCAGTATATGTCTATG-TATCTGTCATGTGGTCATTGACAACTTACCATTCATGATGGGTCATGAGCAGCTTTCTTCAGACaggtgagtaccaaagatgagcttgagtgaactggtaatgaatccaagggtct Alignment from CESAR gTCCGTCATAGAC-ACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACag catccattaatgactttatccatatgattacctttccccctcctttgcaggTCTGTCATAGACCACAATGCAACATGCAGTATATGTCTAT-GTATCTGTCATGTGGTCATTGACAACTTACCATTCATGATGGGTCATGAGCAGCTTTCTTCAGACaggtgagtaccaaagatgagcttgagtgaactggtaatgaatccaagggtct Alignment from Spaln_aa2Genome GTCCGTCATAGAC-ACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAG catccattaatgactttatccatatgattacctttccccctcctttgcagGTCTGTCATAGACcACAATGCAACATGCAGTATATGTCTATGT-ATCTGTCATGTGGTCATTGACAACTTACCATTCATGATGGGTCATGAGCAGCTTTCTTCAGACAGgtgagtaccaaagatgagcttgagtgaactggtaatgaatccaagggtct Alignment from Spaln_nt2Genome GTCCGTCATAGAC-ACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAG catccattaatgactttatccatatgattacctttccccctcctttgcagGTCTGTCATAGACCACAATGCAACATGCAGTATATGTCTATG-TATCTGTCATGTGGTCATTGACAACTTACCATTCATGATGGGTCATGAGCAGCTTTCTTCAGACAGgtgagtaccaaagatgagcttgagtgaactggtaatgaatccaagggtct Alignment from Pairagon GTCCGTCATAGA-CACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAG catccattaatgactttatccatatgattacctttccccctcctttgcagGTCTGTCATAGACCACAATGCAACATGCAGTATATGTCTATG-TATCTGTCATGTGGTCATTGACAACTTACCATTCATGATGGGTCATGAGCAGCTTTCTTCAGACAGgtgagtaccaaagatgagcttgagtgaactggtaatgaatccaagggtct Alignment from Exonerate_protein2genome GTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAG catccattaatgactttatccatatgattacctttccccctcctttgcagGTCTGTCATAGACCACAATGCAACATGCAGTATATGTCTATGTATCTGTCATGTGGTCATTGACAACTTACCATTCATGATGGGTCATGAGCAGCTTTCTTCAGACAGgtgagtaccaaagatgagcttgagtgaactggtaatgaatccaagggtct Alignment from Exonerate_coding2genome GTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAG catccattaatgactttatccatatgattacctttccccctcctttgcagGTCTGTCATAGACCACAATGCAACATGCAGTATATGTCTATGTATCTGTCATGTGGTCATTGACAACTTACCATTCATGATGGGTCATGAGCAGCTTTCTTCAGACAGgtgagtaccaaagatgagcttgagtgaactggtaatgaatccaagggtct Alignment from GeneWise GTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAG catccattaatgactttatccatatgattacctttccccctcctttgcagGTCTGTCATAGACCACAATGCAACATGCAGTATATGTCTATGTATCTGTCATGTGGTCATTGACAACTTACCATTCATGATGGGTCATGAGCAGCTTTCTTCAGACAGgtgagtaccaaagatgagcttgagtgaactggtaatgaatccaagggtct #### Pga5_ID2972_6 --> 1 - 2 Original Alignment cAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAG-CTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATag tcatacactttgaagtaccctggagatttccctccctgcaccccatacagtAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTAGACCCCTCCTACTACCATGGAGAACCTTCATTGGGTACCTGTCTCAAAGCCCAGTTACT-GCAGTTAGCTGCGGATaggtgaggcataggcacctcttgccaataggcgctatctcggcagcatgcat Alignment from CESAR cAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAG-CTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATag tcatacactttgaagtaccctggagatttccctccctgcaccccatacagtAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTAGACCCCTCCTACTACCATGGAGAACCTTCATTGGGTACCTGTCTCAAAGCCCAGTTAC-TGCAGTTAGCTGCGGATaggtgaggcataggcacctcttgccaataggcgctatctcggcagcatgcat Alignment from Spaln_aa2Genome CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAG-CTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGC tcatacactttgaagtaccctggagatttccctccctgcaccccatacagTAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTAGACCCCTCCTACTACCATGGAGAAcCTTCATTGGGTACCTGTCTCAAAGCCCAGTTACTGCAgttagctgcggataggtgaggcataggcacctcttgccaataggcgctatctcggcagcatgcat Alignment from Spaln_nt2Genome CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAGC-TTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacactttgaagtaccctggagatttccctccctgcaccccatacagTAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTAGACCCCTCCTACTACCATGGAGAACCTTCATTGGGTACCTGTCTCAAAGCCCAGTTACT-GCAGTTAGCTGCGGATAGgtgaggcataggcacctcttgccaataggcgctatctcggcagcatgcat Alignment from Pairagon CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAG-CTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacactttgaagtaccctggagatttccctccctgcaccccatacagTAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTAGACCCCTCCTACTACCATGGAGAACCTTCATTGGGTACCTGTCTCAAAGCCCAGTTACT-GCAGTTAGCTGCGGATAGgtgaggcataggcacctcttgccaataggcgctatctcggcagcatgcat Alignment from Exonerate_protein2genome CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAG-CTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGC tcatacactttgaagtaccctggagatttccctccctgcaccccatacagTAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTAGACCCCTCCTACTACCATGGAGAACCTTCATTGGGTACCTGTCTCAAAGCCCAGTTACTGCAgttagctgcggataggtgaggcataggcacctcttgccaataggcgctatctcggcagcatgcat Alignment from Exonerate_coding2genome CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAG-CTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacactttgaagtaccctggagatttccctccctgcaccccatacagTAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTAGACCCCTCCTACTACCATGGAGAACCTTCATTGGGTACCTGTCTCAAAGCCCAGTTACTGC-AGTTAGCTGCGGATAGgtgaggcataggcacctcttgccaataggcgctatctcggcagcatgcat Alignment from GeneWise CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAG-CTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGC tcatacactttgaagtaccctggagatttccctccctgcaccccatacagTAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTAGACCCCTCCTACTACCATGGAGAACCTTCATTGGGTACCTGTCTCAAAGCCCAGTTACTGCAgttagctgcggataggtgaggcataggcacctcttgccaataggcgctatctcggcagcatgcat #### Pitpnm1_ID309_6 --> 2 - 1 Original Alignment gcGGCGTGTCTCCACAGAGCTTGTCTGAG-TGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATg tcttcagcttctgaaggcttcttaacatatggctgttcattttcttgtaggtTGTGTATCTCCACAGAGTTTGTCTGAACTGGCACATGCAGAACATTGCCCGAGACTCCA-AAACAGCTCTGAGGAAGACTTCTTTGATCCCCATggtgaggaagaaaggcaaaatgtaaagaatgctgtgatgggtgacattaat Alignment from CESAR gcGGCGTGTCTCCACAGAGCTTGTCTGAG-TGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATg tcttcagcttctgaaggcttcttaacatatggctgttcattttcttgtaggtTGTGTATCTCCACAGAGTTTGTCTGAACTGGCACATGCAGAACATTGCCCGAGACTCC-AAAACAGCTCTGAGGAAGACTTCTTTGATCCCCATggtgaggaagaaaggcaaaatgtaaagaatgctgtgatgggtgacattaat Alignment from Spaln_aa2Genome GCGGCGTGTCTCCACAGAGCTTGTCTGAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATG tcttcagcttctgaaggcttcttaacatatggctgttcattttcttgtagGTTGTGTATCTCCACAGAGTTTGTCTGAACTGGCACATGCAGAACATTGCCCGAGACTCCAAAACAGCTCTGAGGAAGACTTCTTTGATCCCCATGgtgaggaagaaaggcaaaatgtaaagaatgctgtgatgggtgacattaat Alignment from Spaln_nt2Genome GCGGCGTGTCTCCACAGAGCTTGTCTGAG-TGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATG tcttcagcttctgaaggcttcttaacatatggctgttcattttcttgtagGTTGTGTATCTCCACAGAGTTTGTCTGAACTGGCACATGCAGAACATTGCCCGAGACTC-CAAAACAGCTCTGAGGAAGACTTCTTTGATCCCCATGgtgaggaagaaaggcaaaatgtaaagaatgctgtgatgggtgacattaat Alignment from Pairagon GCGGCGTGTCTCCACAGAGCTTGTCTGAG-TGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATG tcttcagcttctgaaggcttcttaacatatggctgttcattttcttgtagGTTGTGTATCTCCACAGAGTTTGTCTGAACTGGCACATGCAGAACATTGCCCGAGACTCC-AAAACAGCTCTGAGGAAGACTTCTTTGATCCCCATGgtgaggaagaaaggcaaaatgtaaagaatgctgtgatgggtgacattaat Alignment from Exonerate_protein2genome GCGGCGTGTCTCCACAGAGCTTGTCTGAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATG tcttcagcttctgaaggcttcttaacatatggctgttcattttcttgtagGTTGTGTATCTCCACAGAGTTTGTCTGAACTGGCACATGCAGAACATTGCCCGAGACTCCAAAACAGCTCTGAGGAAGACTTCTTTGATCCCCATGgtgaggaagaaaggcaaaatgtaaagaatgctgtgatgggtgacattaat Alignment from Exonerate_coding2genome GCGGCGTGTCTCCACAGAGCTTGTCTGAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATG tcttcagcttctgaaggcttcttaacatatggctgttcattttcttgtagGTTGTGTATCTCCACAGAGTTTGTCTGAACTGGCACATGCAGAACATTGCCCGAGACTCCAAAACAGCTCTGAGGAAGACTTCTTTGATCCCCATGgtgaggaagaaaggcaaaatgtaaagaatgctgtgatgggtgacattaat Alignment from GeneWise GCGGCGTGTCTCCACAGAGCTTGTCTGAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATG tcttcagcttctgaaggcttcttaacatatggctgttcattttcttgtagGTTGTGTATCTCCACAGAGTTTGTCTGAACTGGCACATGCAGAACATTGCCCGAGACTCCAAAACAGCTCTGAGGAAGACTTCTTTGATCCCCATGgtgaggaagaaaggcaaaatgtaaagaatgctgtgatgggtgacattaat #### Pitpnm1_ID312_9 --> 0 - 2 Original Alignment GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTG-CAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCaa atcaggtggggtcaacatatgctcttgtaatcttggtttcttgtttctagGGACTGGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGACCTTTTCCTCATACTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAAGCCGACGTCCCAAACTCTGAGCACTGCTTTCGAGGCTGTCTTCC-AGTCCATTCCCCCAAGGCACTTGGACATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTTATGCACTTGTCTCCaagtgagtgcagagaggaatagtaaacacacataaataaagcaaataatgat Alignment from CESAR GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTG-CAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCaa atcaggtggggtcaacatatgctcttgtaatcttggtttcttgtttctagGGACTGGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGACCTTTTCCTCATACTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAAGCCGACGTCCCAAACTCTGAGCACTGCTTTCGAGGCTGTC-TTCCAGTCCATTCCCCCAAGGCACTTGGACATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTTATGCACTTGTCTCCaagtgagtgcagagaggaatagtaaacacacataaataaagcaaataatgat Alignment from Spaln_aa2Genome GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA atcaggtggggtcaacatatgctcttgtaatcttggtttcttgtttctagGGACTGGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGACCTTTTCCTCATACTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAAGCCGACGTCCCAAACTCTGAGCACTGCTTTCGAGGCTGTCTTCCAGTCCATTCCCCCAAGGCACTTGGACATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTTATGCACTTGTCTCCAAgtgagtgcagagaggaatagtaaacacacataaataaagcaaataatgat Alignment from Spaln_nt2Genome GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGC-AAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA atcaggtggggtcaacatatgctcttgtaatcttggtttcttgtttctagGGACTGGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGACCTTTTCCTCATACTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAAGCCGACGTCCCAAACTCTGAGCACTGCTTTCGAGGCTGTCTTCC-AGTCCATTCCCCCAAGGCACTTGGACATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTTATGCACTTGTCTCCAAgtgagtgcagagaggaatagtaaacacacataaataaagcaaataatgat Alignment from Pairagon GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGT-GCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA atcaggtggggtcaacatatgctcttgtaatcttggtttcttgtttctagGGACTGGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGACCTTTTCCTCATACTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAAGCCGACGTCCCAAACTCTGAGCACTGCTTTCGAGGCTGTCTTCC-AGTCCATTCCCCCAAGGCACTTGGACATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTTATGCACTTGTCTCCAAgtgagtgcagagaggaatagtaaacacacataaataaagcaaataatgat Alignment from Exonerate_protein2genome GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA atcaggtggggtcaacatatgctcttgtaatcttggtttcttgtttctagGGACTGGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGACCTTTTCCTCATACTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAAGCCGACGTCCCAAACTCTGAGCACTGCTTTCGAGGCTGTCTTCCAGTCCATTCCCCCAAGGCACTTGGACATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTTATGCACTTGTCTCCAAgtgagtgcagagaggaatagtaaacacacataaataaagcaaataatgat Alignment from Exonerate_coding2genome GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA atcaggtggggtcaacatatgctcttgtaatcttggtttcttgtttctagGGACTGGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGACCTTTTCCTCATACTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAAGCCGACGTCCCAAACTCTGAGCACTGCTTTCGAGGCTGTCTTCCAGTCCATTCCCCCAAGGCACTTGGACATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTTATGCACTTGTCTCCAAgtgagtgcagagaggaatagtaaacacacataaataaagcaaataatgat Alignment from GeneWise GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA atcaggtggggtcaacatatgctcttgtaatcttggtttcttgtttctagGGACTGGATGGGGCTGGGGACCTAGTTGTTGAAGCATGCTCTGTGCATGACCTTTTCCTCATACTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAAGCCGACGTCCCAAACTCTGAGCACTGCTTTCGAGGCTGTCTTCCAGTCCATTCCCCCAAGGCACTTGGACATGTAGCACTGCGGTTGATACCCTGTCCGTCC---TGTGCAGCAGCTTATGCACTTGTCTCCAAgtgagtgcagagaggaatagtaaacacacataaataaagcaaataatgat #### Pitpnm1_ID313_10 --> 1 - 0 Original Alignment cCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGC-ACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG ctggttgtgtcttaattgtcccttaccgaactcctttgtttctgatttagcCTAAGTCCTTATAGCCATGATGGAGATTGTCTATCCCGATCCCCAGACCACATTCCATTGGCTAGCCTCCCTCTTCTGGCCATCTTATCCTCTCAATACCAGGGGGCAGTTACCACTGTTATTGCTCACCACCAACCAGGCCTTTGCAGCTTTTCTGCGTTCATCAGAGG-AACTGGTTTCTGTGGACAAgtgagtgtgactgtgtttgcataagttagtcaaaacttatgctgctgcct Alignment from CESAR cCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGC-ACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG ctggttgtgtcttaattgtcccttaccgaactcctttgtttctgatttagcCTAAGTCCTTATAGCCATGATGGAGATTGTCTATCCCGATCCCCAGACCACATTCCATTGGCTAGCCTCCCTCTTCTGGCCATCTTATCCTCTCAATACCAGGGGGCAGTTACCACTGTTATTGCTCACCACCAACCAGGCCTTTGCAGCTTTTCTGCGTTCATCAG-AGGAACTGGTTTCTGTGGACAAgtgagtgtgactgtgtttgcataagttagtcaaaacttatgctgctgcct Alignment from Spaln_aa2Genome CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG ctggttgtgtcttaattgtcccttaccgaactcctttgtttctgatttagCCTAAGTCCTTATAGCCATGATGGAGATTGTCTATCCCGATCCCCAGACCACATTCCATTGGCTAGCCTCCCTCTTCTGGCCATCTTATCCTCTCAATACCAGGGGGCAGTTACCACTGTTATTGCTCACCACCAACCAGGCCTTTGCAGCTTTTCTGCGTTCATCAGAGGAACTGGTTTCTGTGGACAAgtgagtgtgactgtgtttgcataagttagtcaaaacttatgctgctgcct Alignment from Spaln_nt2Genome CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCG-CACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG ctggttgtgtcttaattgtcccttaccgaactcctttgtttctgatttagCCTAAGTCCTTATAGCCATGATGGAGATTGTCTATCCCGATCCCCAGACCACATTCCATTGGCTAGCCTCCCTCTTCTGGCCATCTTATCCTCTCAATACCAGGGGGCAGTTACCACTGTTATTGCTCACCACCAACCAGGCCTTTGCAGCTTTTCTGCGTTCATCAGA-GGAACTGGTTTCTGTGGACAAgtgagtgtgactgtgtttgcataagttagtcaaaacttatgctgctgcct Alignment from Pairagon CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCG-CACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG ctggttgtgtcttaattgtcccttaccgaactcctttgtttctgatttagCCTAAGTCCTTATAGCCATGATGGAGATTGTCTATCCCGATCCCCAGACCACATTCCATTGGCTAGCCTCCCTCTTCTGGCCATCTTATCCTCTCAATACCAGGGGGCAGTTACCACTGTTATTGCTCACCACCAACCAGGCCTTTGCAGCTTTTCTGCGTTCATCAGAGGA-ACTGGTTTCTGTGGACAAgtgagtgtgactgtgtttgcataagttagtcaaaacttatgctgctgcct Alignment from Exonerate_protein2genome CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG ctggttgtgtcttaattgtcccttaccgaactcctttgtttctgatttagCCTAAGTCCTTATAGCCATGATGGAGATTGTCTATCCCGATCCCCAGACCACATTCCATTGGCTAGCCTCCCTCTTCTGGCCATCTTATCCTCTCAATACCAGGGGGCAGTTACCACTGTTATTGCTCACCACCAACCAGGCCTTTGCAGCTTTTCTGCGTTCATCAGAGGAACTGGTTTCTGTGGACAAgtgagtgtgactgtgtttgcataagttagtcaaaacttatgctgctgcct Alignment from Exonerate_coding2genome CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG ctggttgtgtcttaattgtcccttaccgaactcctttgtttctgatttagCCTAAGTCCTTATAGCCATGATGGAGATTGTCTATCCCGATCCCCAGACCACATTCCATTGGCTAGCCTCCCTCTTCTGGCCATCTTATCCTCTCAATACCAGGGGGCAGTTACCACTGTTATTGCTCACCACCAACCAGGCCTTTGCAGCTTTTCTGCGTTCATCAGAGGAACTGGTTTCTGTGGACAAgtgagtgtgactgtgtttgcataagttagtcaaaacttatgctgctgcct Alignment from GeneWise CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG ctggttgtgtcttaattgtcccttaccgaactcctttgtttctgatttagCCTAAGTCCTTATAGCCATGATGGAGATTGTCTATCCCGATCCCCAGACCACATTCCATTGGCTAGCCTCCCTCTTCTGGCCATCTTATCCTCTCAATACCAGGGGGCAGTTACCACTGTTATTGCTCACCACCAACCAGGCCTTTGCAGCTTTTCTGCGTTCATCAGAGGAACTGGTTTCTGTGGACAAgtgagtgtgactgtgtttgcataagttagtcaaaacttatgctgctgcct #### Pitpnm1_ID314_11 --> 0 - 0 Original Alignment GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCG-CTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG tcaatacaggtagaaaaaccagcatatttgacatgtccctacccatctagGTGGTCTTAATTGGAGATGGGGTTGGTGGCATTCTTGGTTTTGATGCTCCTCTGTCGCAGTGCCAGTGCAGGCCCAGGGA-CCAGGGCAGCAGCCACCGTGGGAGCATGgtatccttccaacccagggagtcagcagctgagggagccagggctgcaat Alignment from CESAR GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCG-CTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG tcaatacaggtagaaaaaccagcatatttgacatgtccctacccatctagGTGGTCTTAATTGGAGATGGGGTTGGTGGCATTCTTGGTTTTGATGCTCCTCTGTCGCAGTGCCAGTGCAGGCCCAGGGACCA-GGGCAGCAGCCACCGTGGGAGCATGgtatccttccaacccagggagtcagcagctgagggagccagggctgcaat Alignment from Spaln_aa2Genome GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG tcaatacaggtagaaaaaccagcatatttgacatgtccctacccatctagGTGGTCTTAATTGGAGATGGGGTTGGTGGCATTCTTGGTTTTGATGCTCCTCTGTCGCAGTGCCAGTGCAGGCCCAGGGACCAGGGCAGCAGCCACCGTGGGAGCATGgtatccttccaacccagggagtcagcagctgagggagccagggctgcaat Alignment from Spaln_nt2Genome GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGC-TCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG tcaatacaggtagaaaaaccagcatatttgacatgtccctacccatctagGTGGTCTTAATTGGAGATGGGGTTGGTGGCATTCTTGGTTTTGATGCTCCTCTGTCGCAGTGCCAGTGCAGGCCCAGGGA-CCAGGGCAGCAGCCACCGTGGGAGCATGgtatccttccaacccagggagtcagcagctgagggagccagggctgcaat Alignment from Pairagon GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGC-GCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG tcaatacaggtagaaaaaccagcatatttgacatgtccctacccatctagGTGGTCTTAATTGGAGATGGGGTTGGTGGCATTCTTGGTTTTGATGCTCCTCTGTCGCAGTGCCAGTGCAGGCCCAGGGA-CCAGGGCAGCAGCCACCGTGGGAGCATGgtatccttccaacccagggagtcagcagctgagggagccagggctgcaat Alignment from Exonerate_protein2genome GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG tcaatacaggtagaaaaaccagcatatttgacatgtccctacccatctagGTGGTCTTAATTGGAGATGGGGTTGGTGGCATTCTTGGTTTTGATGCTCCTCTGTCGCAGTGCCAGTGCAGGCCCAGGGACCAGGGCAGCAGCCACCGTGGGAGCATGgtatccttccaacccagggagtcagcagctgagggagccagggctgcaat Alignment from Exonerate_coding2genome GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG tcaatacaggtagaaaaaccagcatatttgacatgtccctacccatctagGTGGTCTTAATTGGAGATGGGGTTGGTGGCATTCTTGGTTTTGATGCTCCTCTGTCGCAGTGCCAGTGCAGGCCCAGGGACCAGGGCAGCAGCCACCGTGGGAGCATGgtatccttccaacccagggagtcagcagctgagggagccagggctgcaat Alignment from GeneWise GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG tcaatacaggtagaaaaaccagcatatttgacatgtccctacccatctagGTGGTCTTAATTGGAGATGGGGTTGGTGGCATTCTTGGTTTTGATGCTCCTCTGTCGCAGTGCCAGTGCAGGCCCAGGGACCAGGGCAGCAGCCACCGTGGGAGCATGgtatccttccaacccagggagtcagcagctgagggagccagggctgcaat #### Pitpnm1_ID315_12 --> 0 - 2 Original Alignment AACAATGAGATGCTCTCCCCTGAAGTTGGT---CCAGTACGGGACCCG-CTGGCAGAT------GGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCT---GATCCTGATGGCTCTCAGAACag aattacagtgccagtatgtttagagtgcactgtcttttctggtttcacagATCACCGAGACACTCTCACCTGAAGTTGGCTGTCCATTGCGTGACCCACCTGGCAGATGCAGATGGGGTGGAAGTGCTTGGTCATG-TAGTCCAGAACTCTCAGCTCTACTAGGCCAGTGCACATTCAGTGACATTGCTAACCCTACTGATCCAGATGGCTCACAAAATaggtagggagttctcttttatagcagtcctaaaataaaaacctgggcttata Alignment from CESAR AACAATGAGATGCTCTCCCCTGAAGTTGGT---CCAGTACGGGACCCG-CTG------GCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCT---GATCCTGATGGCTCTCAGAACag aattacagtgccagtatgtttagagtgcactgtcttttctggtttcacagATCACCGAGACACTCTCACCTGAAGTTGGCTGTCCATTGCGTGACCCACCTGGCAGATGCAGATGGGGTGGAAGTGCTTGGTCAT-GTAGTCCAGAACTCTCAGCTCTACTAGGCCAGTGCACATTCAGTGACATTGCTAACCCTACTGATCCAGATGGCTCACAAAATaggtagggagttctcttttatagcagtcctaaaataaaaacctgggcttatg Alignment from Spaln_aa2Genome AACAATGAGATGCTCTCCCCTGAAGTTGGT---CCAGTACGGGACCCGCTG-------GCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCT---GATCCTGATGGCTCTCAGAACAG aattacagtgccagtatgtttagagtgcactgtcttttctggtttcacagATCACCGAGACACTCTCACCTGAAGTTGGCTGTCCATTGCGTGACCCACCTGGCAGAtGCAGATGGGGTGGAAGTGCTTGGTCATGT-AGTCCAGAACTCTCAGCTCTACTAGGCCAGTGCACATTCAGTGACATTGCTAACCCTACTGATCCAGATGGCTCACAAAATAGgtagggagttctcttttatagcagtcctaaaataaaaacctgggcttata Alignment from Spaln_nt2Genome AACAATGAGATGCTCTCCCCTGAAGTTGG---TCCAGTACGGGACCCGC-TGGCAGATG------GGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCT---GATCCTGATGGCTCTCAGAACAG aattacagtgccagtatgtttagagtgcactgtcttttctggtttcacagATCACCGAGACACTCTCACCTGAAGTTGGCTGTCCATTGCGTGACCCACCTGGCAGATGCAGATGGGGTGGAAGTGCTTGGTCATG-TAGTCCAGAACTCTCAGCTCTACTAGGCCAGTGCACATTCAGTGACATTGCTAACCCTACTGATCCAGATGGCTCACAAAATAGgtagggagttctcttttatagcagtcctaaaataaaaacctgggcttata Alignment from Pairagon AACAATGAGATGCTCTCCCCTGAAGTTGGTCCAGTACGGGACCCGCTG--------------------------GCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATC---CTGATCCTGATGGCTCTCAGAACAG aattacagtgccagtatgtttagagtgcactgtcttttctggtttcacagATCACCGAGACACTCTCACCTGAAGTTG----------------GCTGTCCATTGCGTGACCCACCTGGCAGATGCAGATGGGGTGGAAGTGCTTGGTCATG-TAGTCCAGAACTCTCAGCTCTACTAGGCCAGTGCACATTCAGTGACATTGCTAACCCTACTGATCCAGATGGCTCACAAAATAGgtagggagttctcttttatagcagtcctaaaataaaaacctgggcttata Alignment from Exonerate_protein2genome AACAATGAGATGCTCTCCCCTGAAGTTGGT---CCAGTACGGGACCCG------CTGGCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCT---GATCCTGATGGCTCTCAGAACAG aattacagtgccagtatgtttagagtgcactgtcttttctggtttcacagATCACCGAGACACTCTCACCTGAAGTTGGCTGTCCATTGCGTGACCCACCTGGCAGATGCAGATGGGGTGGAAGTGCTTGGTCATGTAGTCCAGAACTCTCAGCTCTACTAGGCCAGTGCACATTCAGTGACATTGCTAACCCTACTGATCCAGATGGCTCACAAAATAGgtagggagttctcttttatagcagtcctaaaataaaaacctgggcttata Alignment from Exonerate_coding2genome aattacagtgccagtatgtttagagtgcactgtcttttctggtttcacagatcaccgagacactctcacctgaagttggctgtccattgcgtgacccacctggcagatgcagatggggtggaagtgcttggtcatgtagtccagaactctcagctctactaggccagtgcacattcagtgacattgctaaccctactgatccagatggctcacaaaataggtagggagttctcttttatagcagtcctaaaataaaaacctgggcttata Alignment from GeneWise AACAATGAGATGCTCTCCCCTGAAGTTGGT---CCAGTACGGGACCCGCTGGCAGATGGGGTGGAGGTACTGGGTCGTGCT---------AGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCT---GATCCTGATGGCTCTCAGAACAG aattacagtgccagtatgtttagagtgcactgtcttttctggtttcacagATCACCGAGACACTCTCACCTGAAGTTGGCTGTCCATTGCGTGACCCA---CCTGGCAGATGCAGATGGGGTGGAAGTGCTTGGTCATGTAGTCCAGAACTCTCAGCTCTACTAGGCCAGTGCACATTCAGTGACATTGCTAACCCTACTGATCCAGATGGCTCACAAAATAGgtagggagttctcttttatagcagtcctaaaataaaaacctgggcttata #### Pitpnm1_ID319_16 --> 2 - 0 Original Alignment tcCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTC-TTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG agaacacagttgaagctgcgttgtactccttttctttctctttgcttcagttCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTG-CTTCATTCTGCGCCAGgttagtacaccccaggattggctcaacactgagcttagacaacaggaact Alignment from CESAR tcCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTC-TTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG agaacacagttgaagctgcgttgtactccttttctttctctttgcttcagttCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTG-CTTCATTCTGCGCCAGgttagtacaccccaggattggctcaacactgagcttagacaacaggaact Alignment from Spaln_aa2Genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTC-TTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCC---TTCATTCTGCGCCAG agaacacagttgaagctgcgttgtactccttttctttctctttgcttcagTTCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCcTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCTTCATTCTGCGCCAGGTTAgtacaccccaggattggctcaacactgagcttagacaacaggaact Alignment from Spaln_nt2Genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTC-TTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG agaacacagttgaagctgcgttgtactccttttctttctctttgcttcagTTCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTG-CTTCATTCTGCGCCAGgttagtacaccccaggattggctcaacactgagcttagacaacaggaact Alignment from Pairagon TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCT-CTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG agaacacagttgaagctgcgttgtactccttttctttctctttgcttcagTTCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTG-CTTCATTCTGCGCCAGgttagtacaccccaggattggctcaacactgagcttagacaacaggaact Alignment from Exonerate_protein2genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTC-TTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCA agaacacagttgaagctgcgttgtactccttttctttctctttgcttcagTTCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCTTCATTCTGCGCCAGgttagtacaccccaggattggctcaacactgagcttagacaacaggaact Alignment from Exonerate_coding2genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTC-TTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCA agaacacagttgaagctgcgttgtactccttttctttctctttgcttcagTTCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCTTCATTCTGCGCCAGgttagtacaccccaggattggctcaacactgagcttagacaacaggaact Alignment from GeneWise TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCAC-CTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCC---TTCATTCTGCGCCAG agaacacagttgaagctgcgttgtactccttttctttctctttgcttcagTTCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCTTCATTCTGCGCCAGGTTAgtacaccccaggattggctcaacactgagcttagacaacaggaact #### Pitpnm1_ID321_18 --> 0 - 0 Original Alignment AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGT-GAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGC gctttgctttcattcttcatatagttgttctgccctctttcctctcacagAATGTCACTTCTAACCACAGAGCAAGTGACACTGTGATATGTCGAGGGCCACCCCCAGGTACTAAATGGCCATTTCA-GTATGGACCATTGGATGTAGTTACACTCACCAGAGAAGAGgtagtttttcctctcgccatctcagGTTGATGTCTATGTCATGACACAGC Alignment from CESAR AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGT-GAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGC gctttgctttcattcttcatatagttgttctgccctctttcctctcacagAATGTCACTTCTAACCACAGAGCAAGTGACACTGTGATATGTCGAGGGCCACCCCCAGGTACTAAATGGCCATTTC-AGTATGGACCATTGGATGTAGTTACACTCACCAGAGAAGAGgtctgacttggttgctgttttgcagGTTGATGTCTATGTCATGACACAGC Alignment from Spaln_aa2Genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAAG-------------------------GTGGATGTCTACGTCATGACACAGC gctttgctttcattcttcatatagttgttctgccctctttcctctcacagAATGTCACTTCTAACCACAGAGCAAGTGACACTGTGATATGTCGAGGGCCACCCCCAGGTACTAAATGGCCATTTCAGTATGGACCATTGGATGTAGTTACACTCACCAGAGAAGAGGTAGTTTTTCCTCTCGCCATCTCAgGTTGATGTCTATGTCATGACACAGC Alignment from Spaln_nt2Genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGT-GAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGA-GA------------------------AGGTGGATGTCTACGTCATGACACAGC gctttgctttcattcttcatatagttgttctgccctctttcctctcacagAATGTCACTTCTAACCACAGAGCAAGTGACACTGTGATATGTCGAGGGCCACCCCCAGGTACTAAATGGCCATTTCA-GTATGGACCATTGGATGTAGTTACACTCACCAGAGAAGAGGTAGTTTTTCCTCTCGCCATCTCAGGTTGATGTCTATGTCATGACACAGC Alignment from Pairagon AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGT-GAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAAGGTG-------------------------GATGTCTACGTCATGACACAGC gctttgctttcattcttcatatagttgttctgccctctttcctctcacagAATGTCACTTCTAACCACAGAGCAAGTGACACTGTGATATGTCGAGGGCCACCCCCAGGTACTAAATGGCCATTTCA-GTATGGACCATTGGATGTAGTTACACTCACCAGAGAAGAGGTAGTTTTTCCTCTCGCCATCTCAGGTTGATGTCTATGTCATGACACAGC Alignment from Exonerate_protein2genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTG---GTCACGCTCACTGGAGAGAAGGTGGATGTCTACGTCATGACACAGC gctttgctttcattcttcatatagttgttctgccctctttcctctcacagaatgtcacttctaaccacagagCAAGTGACACTGTGATATGTCGAGGGCCACCCCCAGGTACTAAATGGCCATTTCAGTATGGACCATTGGATGTAGTTACACTCACCAGAGAAGAGGTAGTTTTTCCTCTCGCCATCTCAGGTTGATGTCTATGTCATGACACAGC Alignment from Exonerate_coding2genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGT-GAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAG AGAAGGTGGATGTCTACGTCATGAC gctttgctttcattcttcatatagttgttctgccctctttcctctcacagAATGTCACTTCTAACCACAGAGCAAGTGACACTGTGATATGTCGAGGGCCACCCCCAGGTACTAAATGGCCATTTC-AGTATGGACCATTGGATGTAGTTACACTCACCAGAGaagaggtagtttttcctctcgccatctcag-----GTTGATGTCTATGTCATGAC Alignment from GeneWise AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAAGGTG ---GATGTCTACGTCATGACACAGC gctttgctttcattcttcatatagttgttctgccctctttcctctcacagAATGTCACTTCTAACCACAGAGCAAGTGACACTGTGATATGTCGAGGGCCACCCCCAGGTACTAAATGGCCATTTCAGTATGGACCATTGGATGTAGTTACACTCACCAGAGAAGAGGTAgtttttcctctcgccatctcagGTTGATGTCTATGTCATGACACAGC #### Pitpnm1_ID322_19 --> 0 - 2 Original Alignment TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACT-AACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCag TGTAGTTACACTCACCAGAGAAGAGgtgagccttggttgctgttttgcagGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACACAACAGTTCTGGCCATCTTACCTTCCCAGTGTCAT-AGAGCATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTGGTCaggtaggagagttagaagttagctactaatttcactcctgtgaaatgctgac Alignment from CESAR TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACT-AACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCag TGTAGTTACACTCACCAGAGAAGAGgtctgacttggttgctgttttgcagGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACACAACAGTTCTGGCCATCTTACCTTCCCAGTGTCA-TAGAGCATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTGGTCaggtaggagagttagaagttagctactaatttcactcctgtgaaatgctgac Alignment from Spaln_aa2Genome TGTGGTCACGCTCACTGGAGAGAAG-------------------------GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCAGAGAAGAGGTGAGCCTTGGTTGCTGTTTTGCAgGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACACAACAGTTCTGGCCATCTTACCTTCCCAGTGTCATAGAGCATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTGGTCAGgtaggagagttagaagttagctactaatttcactcctgtgaaatgctgac Alignment from Spaln_nt2Genome TGTGGTCACGCTCACTGGAGAGAAGGTG-------------------------GATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACT-AACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCAGAGAAGAGGTGAGCCTTGGTTGCTGTTTTGCAGGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACACAACAGTTCTGGCCATCTTACCTTCCCAGTGTCAT-AGAGCATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTGGTCAGgtaggagagttagaagttagctactaatttcactcctgtgaaatgctgac Alignment from Pairagon TGTGGTCACGCTCACTGGAGAGAAGGTG-------------------------GATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCAC-TAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCAGAGAAGAGGTGAGCCTTGGTTGCTGTTTTGCAGGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACACAACAGTTCTGGCCATCTTACCTTCCCAGTGTCAT-AGAGCATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTGGTCAGgtaggagagttagaagttagctactaatttcactcctgtgaaatgctgac Alignment from Exonerate_protein2genome TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCAGAGAAGAGgtgagccttggttgctgttttgcaggttgatGTC------TATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACACAACAGTTCTGGCCATCTTACCTTCCCAGTGTCATAGAGCATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTGGTCAGgtaggagagttagaagttagctactaatttcactcctgtgaaatgctgac Alignment from Exonerate_coding2genome TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCAGAGAAGAGgtgagccttggttgctgttttgcaggttgatGTC------TATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACACAACAGTTCTGGCCATCTTACCTTCCCAGTGTCATAGAGCATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTGGTCAGgtaggagagttagaagttagctactaatttcactcctgtgaaatgctgac Alignment from GeneWise TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCAGAGAAGAGgtgagccttggttgctgttttgcagGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACACAACAGTTCTGGCCATCTTACCTTCCCAGTGTCATAGAGCATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTGGTCAGgtaggagagttagaagttagctactaatttcactcctgtgaaatgctgac #### Pkd2l1_ID8955_13 --> 0 - 2 Original Alignment GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGC-GAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACat agactcaggttctcttgagagagccatttctgccctctgctttccttcagGTGACCCTCAATGTTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCCCCCGGTCGAATTG------GAAGCTGCAAGGGGAAAAAGTTGGG-TTCTGGAGAAGGATTTGACatgtaggttgagttgtagtggtgactgactagggcccttgtgtcggtgcagc Alignment from CESAR GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGC-GAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACat agactcaggttctcttgagagagccatttctgccctctgctttccttcagGTGACCCTCAATGTTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCCCCCGGTCGAATTG------GAAGCTGCAAGGGGAAAAAGTTGGG-TTCTGGAGAAGGATTTGACatgtaggttgagttgtagtggtgactgactagggcccttgtgtcggtgcagc Alignment from Spaln_aa2Genome GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT agactcaggttctcttgagagagccatttctgccctctgctttccttcagGTGACCCTCAATGTTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCCCCCGGTCGAATTGGA------AGCTGCAAGGGGAAAAAGTTGGGTTCTGGAGAAGGATTTGACATgtaggttgagttgtagtggtgactgactagggcccttgtgtcggtgcagc Alignment from Spaln_nt2Genome GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGG-CGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT agactcaggttctcttgagagagccatttctgccctctgctttccttcagGTGACCCTCAATGTTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCCCCCGGTCGAATT------GGAAGCTGCAAGGGGAAAAAGTTGGG-TTCTGGAGAAGGATTTGACATgtaggttgagttgtagtggtgactgactagggcccttgtgtcggtgcagc Alignment from Pairagon GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGG-CGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT agactcaggttctcttgagagagccatttctgccctctgctttccttcagGTGACCCTCAATGTTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCCCCCGGTCGAATT------GGAAGCTGCAAGGGGAAAAAGTTGGG-TTCTGGAGAAGGATTTGACATgtaggttgagttgtagtggtgactgactagggcccttgtgtcggtgcagc Alignment from Exonerate_protein2genome GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT agactcaggttctcttgagagagccatttctgccctctgctttccttcagGTGACCCTCAATGTTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCCCCCGGTCGAATTGGA------AGCTGCAAGGGGAAAAAGTTGGGTTCTGGAGAAGGATTTGACATgtaggttgagttgtagtggtgactgactagggcccttgtgtcggtgcagc Alignment from Exonerate_coding2genome GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT agactcaggttctcttgagagagccatttctgccctctgctttccttcagGTGACCCTCAATGTTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCCCCCGGTCGAATTGGA------AGCTGCAAGGGGAAAAAGTTGGGTTCTGGAGAAGGATTTGACATgtaggttgagttgtagtggtgactgactagggcccttgtgtcggtgcagc Alignment from GeneWise GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT agactcaggttctcttgagagagccatttctgccctctgctttccttcagGTGACCCTCAATGTTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCCCCCGGTCGAATTGGAAGC------TGCAAGGGGAAAAAGTTGGGTTCTGGAGAAGGATTTGACATgtaggttgagttgtagtggtgactgactagggcccttgtgtcggtgcagc #### Pkd2l1_ID8960_8 --> 0 - 2 Original Alignment ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTC-TCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCat aggcctaccccttgagagtttactccacgttgttgtgtgttttgttttagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCT-TGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTTAGCACTTTTGTTAAGTGCatgtaagtacagctgtagcattgtagaccacttggttttgagatcccagaat Alignment from CESAR ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTC-TCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCat aggcctaccccttgagagtttactccacgttgttgtgtgttttgttttagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGG-GCTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTTAGCACTTTTGTTAAGTGCatgtaagtacagctgtagcattgtagaccacttggttttgagatcccagaat Alignment from Spaln_aa2Genome ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTC-TCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT aggcctaccccttgagagtttactccacgttgttgtgtgttttgttttagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCcTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTT-GCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTTAGCACTTTTGTTAAGTGCATgtaagtacagctgtagcattgtagaccacttggttttgagatcccagaat Alignment from Spaln_nt2Genome ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCT-CTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT aggcctaccccttgagagtttactccacgttgttgtgtgttttgttttagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCT-GGGCTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTTAGCACTTTTGTTAAGTGCATgtaagtacagctgtagcattgtagaccacttggttttgagatcccagaat Alignment from Pairagon ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCT-CTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT aggcctaccccttgagagtttactccacgttgttgtgtgttttgttttagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGC-TTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTTAGCACTTTTGTTAAGTGCATgtaagtacagctgtagcattgtagaccacttggttttgagatcccagaat Alignment from Exonerate_protein2genome ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT aggcctaccccttgagagtttactccacgttgttgtgtgttttgttttagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTTAGCACTTTTGTTAAGTGCATgtaagtacagctgtagcattgtagaccacttggttttgagatcccagaat Alignment from Exonerate_coding2genome ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTC---CACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT aggcctaccccttgagagtttactccacgttgttgtgtgttttgttttagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAG--CTCCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTT-GCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTTAGCACTTTTGTTAAGTGCATgtaagtacagctgtagcattgtagaccacttggttttgagatcccagaat Alignment from GeneWise ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT aggcctaccccttgagagtttactccacgttgttgtgtgttttgttttagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTTAGCACTTTTGTTAAGTGCATgtaagtacagctgtagcattgtagaccacttggttttgagatcccagaat #### Plcb3_ID1901_30 --> 0 - 0 Original Alignment CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGC-CTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG ttcctcatcattgctcggacttccaacctccttgcatttttccataatagTTGGGAGAGGCCCAAAAACAGCAGCATGAACGGCCTAGTGGCAGGACAACAGCAAGTCCTCCAGC-ATTAGAGGAAGAGAAACCAAAAgtgggtccttgtagggttgcatatacacactaataggggaactggtcagc Alignment from CESAR CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGC-CTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG ttcctcatcattgctcggacttccaacctccttgcatttttccataatagTTGGGAGAGGCCCAAAAACAGCAGCATGAACGGCCTAGTGGCAGGACAACAGCAAGTCCTCCAGC-ATTAGAGGAAGAGAAACCAAAAgtgggtccttgtagggttgcatatacacactaataggggaactggtcagc Alignment from Spaln_aa2Genome CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGC-CTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG ttcctcatcattgctcggacttccaacctccttgcatttttccataatagTTGGGAGAGGCCCAAAAACAGCAGCATGAACGGcCTAGTGGCAGGACAACAGCAAGTCCTCCAGCA-TTAGAGGAAGAGAAACCAAAAgtgggtccttgtagggttgcatatacacactaataggggaactggtcagc Alignment from Spaln_nt2Genome CTGGAAGAGGCCCAGAAGCAGCGCCATGAACG-CCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG ttcctcatcattgctcggacttccaacctccttgcatttttccataatagTTGGGAGAGGCCCAAAAACAGCAGCATGAACGGCCTAGTGGCAGGACAACAGCAAGTCCTCCAGCA-TTAGAGGAAGAGAAACCAAAAgtgggtccttgtagggttgcatatacacactaataggggaactggtcagc Alignment from Pairagon CTGGAAGAGGCCCAGAAGCAGCGCCATGAAC-GCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG ttcctcatcattgctcggacttccaacctccttgcatttttccataatagTTGGGAGAGGCCCAAAAACAGCAGCATGAACGGCCTAGTGGCAGGACAACAGCAAGTCCTCCAGCA-TTAGAGGAAGAGAAACCAAAAgtgggtccttgtagggttgcatatacacactaataggggaactggtcagc Alignment from Exonerate_protein2genome CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG ttcctcatcattgctcggacttccaacctccttgcatttttccataatagTTGGGAGAGGCCCAAAAACAGCAGCATGAACGGCCTAGTGGCAGGACAACAGCAAGTCCTCCAGCATTAGAGGAAGAGAAACCAAAAgtgggtccttgtagggttgcatatacacactaataggggaactggtcagc Alignment from Exonerate_coding2genome CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG ttcctcatcattgctcggacttccaacctccttgcatttttccataatagTTGGGAGAGGCCCAAAAACAGCAGCATGAACGGCCTAGTGGCAGGACAACAGCAAGTCCTCCAGCATTAGAGGAAGAGAAACCAAAAgtgggtccttgtagggttgcatatacacactaataggggaactggtcagc Alignment from GeneWise CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG ttcctcatcattgctcggacttccaacctccttgcatttttccataatagTTGGGAGAGGCCCAAAAACAGCAGCATGAACGGCCTAGTGGCAGGACAACAGCAAGTCCTCCAGCATTAGAGGAAGAGAAACCAAAAgtgggtccttgtagggttgcatatacacactaataggggaactggtcagc #### Plcb3_ID1905_26 --> 1 - 0 Original Alignment gGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGA-GAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA agaggtccagttgtatcagtcagagagtccatatccatcaccaccaccaggGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGCGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAATTGAGAG-AGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGgtaggagatcagtgggggatggtaaatttttttttttgccttaagGCGCA Alignment from CESAR gGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGA-GAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA agaggtccagttgtatcagtcagagagtccatatccatcaccaccaccaggGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGCGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAATTGAGAG-AGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGgtaggagatcagtgggggatggtgtcttctcttgtctcttttaagGCGCA Alignment from Spaln_aa2Genome GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA agaggtccagttgtatcagtcagagagtccatatccatcaccaccaccagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGCGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAATTGAGAGAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGgtaggagatcagtgggggatggtaaatttttttttttgccttaagGCGCA Alignment from Spaln_nt2Genome GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGA-GAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA agaggtccagttgtatcagtcagagagtccatatccatcaccaccaccagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGCGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAATTGAGAG-AGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGgtaggagatcagtgggggatggtaaatttttttttttgccttaagGCGCA Alignment from Pairagon GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTAT-CGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA agaggtccagttgtatcagtcagagagtccatatccatcaccaccaccagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGCGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAATTGAGAG-AGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGgtaggagatcagtgggggatggtaaatttttttttttgccttaagGCGCA Alignment from Exonerate_protein2genome GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA agaggtccagttgtatcagtcagagagtccatatccatcaccaccaccagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGCGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAATTGAGAGAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGgtaggagatcagtgggggatggtaaatttttttttttgccttaagGCGCA Alignment from Exonerate_coding2genome GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA agaggtccagttgtatcagtcagagagtccatatccatcaccaccaccagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGCGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAATTGAGAGAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGgtaggagatcagtgggggatggtaaatttttttttttgccttaagGCGCA Alignment from GeneWise GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG---------------------------------------------GCTCA agaggtccagttgtatcagtcagagagtccatatccatcaccaccaccagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGCGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAATTGAGAGAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGGTAGGAGATCAGTGGGGGATGGTAAATTTTTTTTTTTGCCTTAAGGCGCA #### Plcb3_ID1910_21 --> 2 - 1 Original Alignment gaTACCACTATGTCTGCCTGCGAAACGAGGCC-AACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGg tgacctctaaacagttacaaaattgtgtccttcccttctgttattcccaggcTACCACTATGTGTGCTTGCGAAATGAAGCTCAACCAATCTTTGTGCTTGCCTGCCCTGCTTATAT-CACTGAAGCTTCCGACTACATCCCAGATGACCACCAGggtatgagagaagactggcgaaatgaagtgaaagtctcatatggtgatcag Alignment from CESAR gaTACCACTATGTCTGCCTGCGAAACGAGGCC-AACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGg tgacctctaaacagttacaaaattgtgtccttcccttctgttattcccaggcTACCACTATGTGTGCTTGCGAAATGAAGCTCAACCAATCTTTGTGCTTGCCTGCCCTGCTTATA-TCACTGAAGCTTCCGACTACATCCCAGATGACCACCAGggtatgagagaagactggcgaaatgaagtgaaagtctcatatggtgatcag Alignment from Spaln_aa2Genome GATACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG tgacctctaaacagttacaaaattgtgtccttcccttctgttattcccagGCTACCACTATGTGTGCTTGCGAAATGAAGCTCAACCAATCTTTGTGCTTGCCTGCCCTGCTTATATCACTGAAGCTTCCGACTACATCCCAGATGACCACCAGGgtatgagagaagactggcgaaatgaagtgaaagtctcatatggtgatcag Alignment from Spaln_nt2Genome GATACCACTATGTCTGCCTGCGAAACGAGGC-CAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG tgacctctaaacagttacaaaattgtgtccttcccttctgttattcccagGCTACCACTATGTGTGCTTGCGAAATGAAGCTCAACCAATCTTTGTGCTTGCCTGCCCTGCTTATAT-CACTGAAGCTTCCGACTACATCCCAGATGACCACCAGGgtatgagagaagactggcgaaatgaagtgaaagtctcatatggtgatcag Alignment from Pairagon GATACCACTATGTCTGCCTGCGAAACGAGGC-CAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG tgacctctaaacagttacaaaattgtgtccttcccttctgttattcccagGCTACCACTATGTGTGCTTGCGAAATGAAGCTCAACCAATCTTTGTGCTTGCCTGCCCTGCTTATAT-CACTGAAGCTTCCGACTACATCCCAGATGACCACCAGGgtatgagagaagactggcgaaatgaagtgaaagtctcatatggtgatcag Alignment from Exonerate_protein2genome GATACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG tgacctctaaacagttacaaaattgtgtccttcccttctgttattcccagGCTACCACTATGTGTGCTTGCGAAATGAAGCTCAACCAATCTTTGTGCTTGCCTGCCCTGCTTATATCACTGAAGCTTCCGACTACATCCCAGATGACCACCAGGgtatgagagaagactggcgaaatgaagtgaaagtctcatatggtgatcag Alignment from Exonerate_coding2genome GATACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG tgacctctaaacagttacaaaattgtgtccttcccttctgttattcccagGCTACCACTATGTGTGCTTGCGAAATGAAGCTCAACCAATCTTTGTGCTTGCCTGCCCTGCTTATATCACTGAAGCTTCCGACTACATCCCAGATGACCACCAGGgtatgagagaagactggcgaaatgaagtgaaagtctcatatggtgatcag Alignment from GeneWise GATACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTAC---ACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG tgacctctaaacagttacaaaattgtgtccttcccttctgttattcccagGCTACCACTATGTGTGCTTGCGAAATGAAGCT---CAACCAATCTTTGTGCTTGCCTGCCCTGCTTATATCACTGAAGCTTCCGACTACATCCCAGATGACCACCAGGgtatgagagaagactggcgaaatgaagtgaaagtctcatatggtgatcag #### Plcb3_ID1911_20 --> 0 - 1 Original Alignment GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAG-GAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAg ctgttttgccatatgctagttgtgagagccttcctttgggctgcttgtagGTTGTACTACCCACAGTGGCTTCACTCCGCATTGCAGTTTTTGAGCAAGGGTGGCAAGTTTGTAGGGCACCGAACTCTACCTGTAT-TGCAATCCACTCTggtaagattaggggggggctgacctctaaacagttacaaaattgtgttgaa Alignment from CESAR GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAG-GAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAg ctgttttgccatatgctagttgtgagagccttcctttgggctgcttgtagGTTGTACTACCCACAGTGGCTTCACTCCGCATTGCAGTTTTTGAGCAAGGGTGGCAAGTTTGTAGGGCACCGAACTCTACCTGTA-TTGCAATCCACTCTggtaagattaggggggggctgacctctaaacagttacaaaattgtgtcctt Alignment from Spaln_aa2Genome GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAGGAG-GGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTC ctgttttgccatatgctagttgtgagagccttcctttgggctgcttgtagGTTGTACTACCCACAGTGGCTTCACTCCGCATTGCAGTTTTTGAGCAAgGGTGGCAAGTTTGTAGGGCACCGAACTCTACCTGTATTgcaatccactctggtaagattaggggggggctgacctctaaacagttacaaaattgtgttgaa Alignment from Spaln_nt2Genome GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAGGA-GGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAG ctgttttgccatatgctagttgtgagagccttcctttgggctgcttgtagGTTGTACTACCCACAGTGGCTTCACTCCGCATTGCAGTTTTTGAGCAAGGGTGGCAAGTTTGTAGGGCACCGAACTCTACCTGTAT-TGCAATCCACTCTGgtaagattaggggggggctgacctctaaacagttacaaaattgtgttgaa Alignment from Pairagon GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAG-GAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAG ctgttttgccatatgctagttgtgagagccttcctttgggctgcttgtagGTTGTACTACCCACAGTGGCTTCACTCCGCATTGCAGTTTTTGAGCAAGGGTGGCAAGTTTGTAGGGCACCGAACTCTACCTGTAT-TGCAATCCACTCTGgtaagattaggggggggctgacctctaaacagttacaaaattgtgttgaa Alignment from Exonerate_protein2genome GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAGGAG-GGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCA ctgttttgccatatgctagttgtgagagccttcctttgggctgcttgtagGTTGTACTACCCACAGTGGCTTCACTCCGCATTGCAGTTTTTGAGCAAGGGTGGCAAGTTTGTAGGGCACCGAACTCTACCTGTATTGCAATCCACTCTGgtaagattaggggggggctgacctctaaacagttacaaaattgtgttgaa Alignment from Exonerate_coding2genome GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAGGAG-GGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCA ctgttttgccatatgctagttgtgagagccttcctttgggctgcttgtagGTTGTACTACCCACAGTGGCTTCACTCCGCATTGCAGTTTTTGAGCAAGGGTGGCAAGTTTGTAGGGCACCGAACTCTACCTGTATTGCAATCCACTCTGgtaagattaggggggggctgacctctaaacagttacaaaattgtgttgaa Alignment from GeneWise GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAGGAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAG ctgttttgccatatgctagttgtgagagccttcctttgggctgcttgtagGTTGTACTACCCACAGTGGCTTCACTCCGCATTGCAGTTTTTGAGCAAGGGTGGCAAGTTTGTAGGGCACCGAACTCTACCTGTATTGCAATCCACTCTGgtaagattaggggggggctgacctctaaacagttacaaaattgtgttgaa #### Plcb3_ID1914_17 --> 1 - 1 Original Alignment aTACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCC-TCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGg cctcctggctgctggatccccaggacaattaccgttttgttcgtgcacagaTACAACAGACAACAGCTCAGCCAGATATACTCCAGGAGCAAACAGGTGGACTCTCTCAAACTACATGCCTTACCTCTTTTGGAATG-GGGCTGCCAACTTGTTGCCCTCAACTTCCAGAGTCTGggtaggtatatgtttgcttttggcctccctaataacctacatttgattttg Alignment from CESAR aTACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCC-TCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGg cctcctggctgctggatccccaggacaattaccgttttgttcgtgcacagaTACAACAGACAACAGCTCAGCCAGATATACTCCAGGAGCAAACAGGTGGACTCTCTCAAACTACATGCCTTACCTCTTTTGGAAT-GGGGCTGCCAACTTGTTGCCCTCAACTTCCAGAGTCTGggtaggtatatgtttgcttttggcctccctaataacctacatttgattttg Alignment from Spaln_aa2Genome ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG cctcctggctgctggatccccaggacaattaccgttttgttcgtgcacagATACAACAGACAACAGCTCAGCCAGATATACTCCAGGAGCAAACAGGTGGACTCTCTCAAACTACATGCCTTACCTCTTTTGGAATGGGGCTGCCAACTTGTTGCCCTCAACTTCCAGAGTCTGGgtaggtatatgtttgcttttggcctccctaataacctacatttgattttg Alignment from Spaln_nt2Genome ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTC-CTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG cctcctggctgctggatccccaggacaattaccgttttgttcgtgcacagATACAACAGACAACAGCTCAGCCAGATATACTCCAGGAGCAAACAGGTGGACTCTCTCAAACTACATGCCTTACCTCTTTTGGAATG-GGGCTGCCAACTTGTTGCCCTCAACTTCCAGAGTCTGGgtaggtatatgtttgcttttggcctccctaataacctacatttgattttg Alignment from Pairagon ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTC-CTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG cctcctggctgctggatccccaggacaattaccgttttgttcgtgcacagATACAACAGACAACAGCTCAGCCAGATATACTCCAGGAGCAAACAGGTGGACTCTCTCAAACTACATGCCTTACCTCTTTTGGAATG-GGGCTGCCAACTTGTTGCCCTCAACTTCCAGAGTCTGGgtaggtatatgtttgcttttggcctccctaataacctacatttgattttg Alignment from Exonerate_protein2genome ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG cctcctggctgctggatccccaggacaattaccgttttgttcgtgcacagATACAACAGACAACAGCTCAGCCAGATATACTCCAGGAGCAAACAGGTGGACTCTCTCAAACTACATGCCTTACCTCTTTTGGAATGGGGCTGCCAACTTGTTGCCCTCAACTTCCAGAGTCTGGgtaggtatatgtttgcttttggcctccctaataacctacatttgattttg Alignment from Exonerate_coding2genome ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG cctcctggctgctggatccccaggacaattaccgttttgttcgtgcacagATACAACAGACAACAGCTCAGCCAGATATACTCCAGGAGCAAACAGGTGGACTCTCTCAAACTACATGCCTTACCTCTTTTGGAATGGGGCTGCCAACTTGTTGCCCTCAACTTCCAGAGTCTGGgtaggtatatgtttgcttttggcctccctaataacctacatttgattttg Alignment from GeneWise ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTAC------ATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG cctcctggctgctggatccccaggacaattaccgttttgttcgtgcacagATACAACAGACAACAGCTCAGCCAGATATACTCCAGGAGCAAACAGGTGGACTCTCTCAAACTACATGCCTTACCTCTTTTGGAATGG------GGCTGCCAACTTGTTGCCCTCAACTTCCAGAGTCTGGgtaggtatatgtttgcttttggcctccctaataacctacatttgattttg #### Plcb3_ID1915_16 --> 2 - 2 Original Alignment aaAGGAACAAGTGCTTCGAGATGTCATCCTTC-GTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGga catcaggttggtctgtcaggtgattgcttcctggtgtccccatcccacagaaAGGAACAAGTGTTTTAGAATGTCATCTTTCCGCAGAAACCAAAGCA------------A-CAAGAGCCCTATGGAGCTAGTGgagtaagctcaccaatgtgtagtgccaggacgattactttgttgtcaacaat Alignment from CESAR aaAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGga catcaggttggtctgtcaggtgattgcttcctggtgtccccatcccacagaaAGGAACAAGTGTTTTAGAATGTCATCTTTCCGCAGAAAC------------CAAAGCAACAAGAGCCCTATGGAGCTAGTGgagtaagctcaccaatgtgtagtgccaggacgattactttgttgtcaacaat Alignment from Spaln_aa2Genome AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA catcaggttggtctgtcaggtgattgcttcctggtgtccccatcccacagAAAGGAACAAGTGTTTTAGAATGTCATCTTTC------------CGCAGAAACCAAAGCAACAAGAGCCCTATGGAGCTAGTGGAgtaagctcaccaatgtgtagtgccaggacgattactttgttgtcaacaat Alignment from Spaln_nt2Genome AAAGGAACAAGTGCTTCGAGATGTCATCCTTC-GTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA catcaggttggtctgtcaggtgattgcttcctggtgtccccatcccacagAAAGGAACAAGTGTTTTAGAATGTCATCTTTCCGCAGAAACCAAAGCAA-------------CAAGAGCCCTATGGAGCTAGTGGAgtaagctcaccaatgtgtagtgccaggacgattactttgttgtcaacaat Alignment from Pairagon AAAGGAACAAGTGCTTCGAGATGTCATCCTT-CGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA catcaggttggtctgtcaggtgattgcttcctggtgtccccatcccacagAAAGGAACAAGTGTTTTAGAATGTCATCTTTCCGCAGAAACCAAAGCAA-------------CAAGAGCCCTATGGAGCTAGTGGAgtaagctcaccaatgtgtagtgccaggacgattactttgttgtcaacaat Alignment from Exonerate_protein2genome AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA catcaggttggtctgtcaggtgattgcttcctggtgtccccatcccacagAAAGGAACAAGTGTTTTAGAATGTCATCTTTC------------CGCAGAAACCAAAGCAACAAGAGCCCTATGGAGCTAGTGGAgtaagctcaccaatgtgtagtgccaggacgattactttgttgtcaacaat Alignment from Exonerate_coding2genome AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA catcaggttggtctgtcaggtgattgcttcctggtgtccccatcccacagAAAGGAACAAGTGTTTTAGAATGTCATCTTTC------------CGCAGAAACCAAAGCAACAAGAGCCCTATGGAGCTAGTGGAgtaagctcaccaatgtgtagtgccaggacgattactttgttgtcaacaat Alignment from GeneWise AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA catcaggttggtctgtcaggtgattgcttcctggtgtccccatcccacagAAAGGAACAAGTGTTTTAGAATGTCATCTTTC------------CGCAGAAACCAAAGCAACAAGAGCCCTATGGAGCTAGTGGAgtaagctcaccaatgtgtagtgccaggacgattactttgttgtcaacaat #### Plcb3_ID1919_12 --> 1 - 0 Original Alignment gGCAAAGCAGCAGGCCAAGATGGCTGAGTAC-TGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG gtcatacttcaatattcacaggtcatattggtggcatttgctgtcctcagaGCAAAGCAGCAC---GAGATGGCTGAGTACCTGCCGGTCTATCTTTGGGGATGCACTAC-TATTGATCCTCTTGACAAGTATCCAgtaaccgacaggcatgaaactccagatgcatgtgggggagggaagcctga Alignment from CESAR gGCAAAGCAGCAGGCCAAGATGGCTGAGTAC-TGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG gtcatacttcaatattcacaggtcatattggtggcatttgctgtcctcagaGCAAAGCAGCAC---GAGATGGCTGAGTACCTGCCGGTCTATCTTTGGGGATGCACTAC-TATTGATCCTCTTGACAAGTATCCAgtaaccgacaggcatgaaactccagatgcatgtgggggagggaagcctga Alignment from Spaln_aa2Genome GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG gtcatacttcaatattcacaggtcatattggtggcatttgctgtcctcagAGCAAAGCAGCAC---GAGATGGCTGAGTACCTGCCGGTCTATCTTTGGGGATGCACTACTATTGATCCTCTTGACAAGTATCCAgtaaccgacaggcatgaaactccagatgcatgtgggggagggaagcctga Alignment from Spaln_nt2Genome GGCAAAGCAGCAGGCCAAGATGGCTGAGTAC-TGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG gtcatacttcaatattcacaggtcatattggtggcatttgctgtcctcagAGCAAAGCAGCA---CGAGATGGCTGAGTACCTGCCGGTCTATCTTTGGGGATGCACTACT-ATTGATCCTCTTGACAAGTATCCAgtaaccgacaggcatgaaactccagatgcatgtgggggagggaagcctga Alignment from Pairagon GGCAAAGCAGCAGGCCAAGATGGCTGAGTA-CTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG gtcatacttcaatattcacaggtcatattggtggcatttgctgtcctcagAGCAAAGCAGCA---CGAGATGGCTGAGTACCTGCCGGTCTATCTTTGGGGATGCACTACT-ATTGATCCTCTTGACAAGTATCCAgtaaccgacaggcatgaaactccagatgcatgtgggggagggaagcctga Alignment from Exonerate_protein2genome GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG gtcatacttcaatattcacaggtcatattggtggcatttgctgtcctcagAGCAAAGCAGCAC---GAGATGGCTGAGTACCTGCCGGTCTATCTTTGGGGATGCACTACTATTGATCCTCTTGACAAGTATCCAgtaaccgacaggcatgaaactccagatgcatgtgggggagggaagcctga Alignment from Exonerate_coding2genome GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG gtcatacttcaatattcacaggtcatattggtggcatttgctgtcctcagAGCAAAGCAGCAC---GAGATGGCTGAGTACCTGCCGGTCTATCTTTGGGGATGCACTACTATTGATCCTCTTGACAAGTATCCAgtaaccgacaggcatgaaactccagatgcatgtgggggagggaagcctga Alignment from GeneWise GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG gtcatacttcaatattcacaggtcatattggtggcatttgctgtcctcagAGCAAAGCAGCAC---GAGATGGCTGAGTACCTGCCGGTCTATCTTTGGGGATGCACTACTATTGATCCTCTTGACAAGTATCCAgtaaccgacaggcatgaaactccagatgcatgtgggggagggaagcctga #### Plcb3_ID1922_9 --> 1 - 1 Original Alignment aGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATG-GACTTTATCAAC------CAGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCg agtagtaaggagctaccatcatgagtgttcaattattttgctttatacagaGGCATGAAAGGCAAGCCTTACCTT---CTGGAGCAGCTTATGCGACTTTGTGAACCAACAAGAGAAGCAGAGAGACC-GAGACTG---------------------------TCCTCACAAGCTCGTCTACTAATAGAAGAGTATGAGACTAACAAACAGTTTCTGGAGTGTggtaaggccatacaggtaagatagtggtactagtgggatctgctttgctta Alignment from CESAR aGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATG-GACTTTATCAACCAG------AAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCg agtagtaaggagctaccatcatgagtgttcaattattttgctttatacagaGGCATGAAAGGCAAGCCTTACCTT---CTGGAGCAGCTTATGCGACTTTGTGAACCAACAAGAGAAGCAGAGAG-ACCGAGACTG---------------------------TCCTCACAAGCTCGTCTACTAATAGAAGAGTATGAGACTAACAAACAGTTTCTGGAGTGTggtaaggccatacaggtaagatagtggtactagtgggatctgctttgctta Alignment from Spaln_aa2Genome AGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAACCAGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCG agtagtaaggagctaccatcatgagtgttcaattattttgctttatacagAGGCATGAAAGGCAAGCCTTACCTT---CTGGAGCAGCTTATGCGACTTTGTGAACCAACAAGAGAAGCAGAGAGA---------------------CCGAGACTGTCCTCACAAGCTCGTCTACTAATAGAAGAGTATGAGACTAACAAACAGTTTCTGGAGTGTGgtaaggccatacaggtaagatagtggtactagtgggatctgctttgctta Alignment from Spaln_nt2Genome AGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATG-GACTTTATCAACCAGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCG agtagtaaggagctaccatcatgagtgttcaattattttgctttatacagAGGCATGAAAGGCAAGCCTTACCT---TCTGGAGCAGCTTATGCGACTTTGTGAACC--AACAAGAGA-AGCAGAGA------GA----------CCGAGACT---GTCCTCACAAGCTCGTCTACTAATAGAAGAGTATGAGACTAACAAACAGTTTCTGGAGTGTGgtaaggccatacaggtaagatagtggtactagtgggatctgctttgctta Alignment from Pairagon AGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATG-GACTTTATCAACC------AGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCG agtagtaaggagctaccatcatgagtgttcaattattttgctttatacagAGGCATGAAAGGCAAGCCTTACCT---TCTGGAGCAGCTTATGCGACTTTGTGAACCAACAAGAGAAGCAGAGAGA-CCGAGACT---------------------------GTCCTCACAAGCTCGTCTACTAATAGAAGAGTATGAGACTAACAAACAGTTTCTGGAGTGTGgtaaggccatacaggtaagatagtggtactagtgggatctgctttgctta Alignment from Exonerate_protein2genome CACTCTGGAGCAGCTCATGGACTTTATCAACCAGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCG agtagtaaggagctaccatcatgagtgttcaattattttgctttatacagAGGCATGAAAGGCAAGCCTTACCTTCTGGAGCAGCTTATGCGACTTTGTGAACCAACAAGAGAAGCAGAGAGACCGAGACTGTCCTCACAAGCTCGTCTACTAATAGAAGAGTATGAGACTAACAAACAGTTTCTGGAGTGTGgtaaggccatacaggtaagatagtggtactagtgggatctgctttgctta Alignment from Exonerate_coding2genome agtagtaaggagctaccatcatgagtgttcaattattttgctttatacagaggcatgaaaggcaagccttaccttctggagcagcttatgcgactttgtgaaccaacaagagaagcagagagaccgagactgtcctcacaagctcgtctactaatagaagagtatgagactaacaaacagtttctggagtgtggtaaggccatacaggtaagatagtggtactagtgggatctgctttgctta Alignment from GeneWise -----AAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAACCAGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCG agtagtaaggagctaccatcatgagtgttcaattattttgctttatacagagGCATGAAAGGCAAGCCTTACCTT---CTGGAGCAGCTTATGCGACTTTGTGAACCAACAAGAGAAGCAGAGAGA---------------------CCGAGACTGTCCTCACAAGCTCGTCTACTAATAGAAGAGTATGAGACTAACAAACAGTTTCTGGAGTGTGgtaaggccatacaggtaagatagtggtactagtgggatctgctttgctta #### Plcb3_ID1926_5 --> 0 - 2 Original Alignment GTCTGGTCAGAGGAGTTGTTT-AAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAgc gggattaaccgcctgctccattccactaagcccttctgcttttccacaagGTATGGTCAGAGGAGTTGTTTCAGATTAGCCATGAACATATTGGCCCAGAATGCATCCCAAAACA-ATTCTCGCGTAAAgcgtgaggctacaaccacacaggggggtggtagaatgtctcactgtgcacca Alignment from CESAR GTCTGGTCAGAGGAGTTGTTT-AAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAgc gggattaaccgcctgctccattccactaagcccttctgcttttccacaagGTATGGTCAGAGGAGTTGTTTCAGATTAGCCATGAACATATTGGCCCAGAATGCATCCCAAAAC-AATTCTCGCGTAAAgcgtgaggctacaaccacacaggggggtggtagaatgtctcactgtgcacca Alignment from Spaln_aa2Genome GTCTGGTCAGAGGAGTTGTTT-AAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC gggattaaccgcctgctccattccactaagcccttctgcttttccacaagGTATGGTCAGAGGAGTTGTTTcAGATTAGCCATGAACATATTGGCCCAGAATGCATCCCAAAACAA-TTCTCGCGTAAAGCgtgaggctacaaccacacaggggggtggtagaatgtctcactgtgcacca Alignment from Spaln_nt2Genome GTCTGGTCAGAGGAGTTG-TTTAAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC gggattaaccgcctgctccattccactaagcccttctgcttttccacaagGTATGGTCAGAGGAGTTGTTTCAGATTAGCCATGAACATATTGGCCCAGAATGCATCCCAAAACA-ATTCTCGCGTAAAGCgtgaggctacaaccacacaggggggtggtagaatgtctcactgtgcacca Alignment from Pairagon GTCTGGTCAGAGGAGTTGTTT-AAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC gggattaaccgcctgctccattccactaagcccttctgcttttccacaagGTATGGTCAGAGGAGTTGTTTCAGATTAGCCATGAACATATTGGCCCAGAATGCATCCCAAAACA-ATTCTCGCGTAAAGCgtgaggctacaaccacacaggggggtggtagaatgtctcactgtgcacca Alignment from Exonerate_protein2genome gggattaaccgcctgctccattccactaagcccttctgcttttccacaaggtatggtcagaggagttgtttcagattagccatgaacatattggcccagaatgcatcccaaaacaattctcgcgtaaagcgtgaggctacaaccacacaggggggtggtagaatgtctcactgtgcacca Alignment from Exonerate_coding2genome gggattaaccgcctgctccattccactaagcccttctgcttttccacaaggtatggtcagaggagttgtttcagattagccatgaacatattggcccagaatgcatcccaaaacaattctcgcgtaaagcgtgaggctacaaccacacaggggggtggtagaatgtctcactgtgcacca Alignment from GeneWise GTCTGGTCAGAGGAGTTGTTTAAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC gggattaaccgcctgctccattccactaagcccttctgcttttccacaagGTATGGTCAGAGGAGTTGTTTCAGATTAGCCATGAACATATTGGCCCAGAATGCATCCCAAAACAATTCTCGCGTAAAGCgtgaggctacaaccacacaggggggtggtagaatgtctcactgtgcacca #### Plcb3_ID1927_4 --> 0 - 0 Original Alignment GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCC-GGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG cacaccactttataggcacattttgaactttcaattttggttatttgtagGATCCTAAGATTCGGGAAGTC------TTTGGTGGCCCTGACACACGACTGGAGGAGAGATTGATG---------ACTCGGGCCGGATTTAGTAACTACCACATTCTTGA-TTTCATGGCTGTGCAGGATGGTACAGTTAAGgtatgtccagcctgatctccatattgaaggcattagtacattcaaacctt Alignment from CESAR GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG cacaccactttataggcacattttgaactttcaattttggttatttgtagGATCCTAAGATTCGGGAAGTC------TTTGGTGGCCCTGACACACGACTGGAGGAGAGATTGATGACT--------CGGGCCGGATTTAGTAACTACCACATTCT-TGATTTCATGGCTGTGCAGGATGGTACAGTTAAGgtatgtccagcctgatctccatattgaaggcattagtacattcaaacctt Alignment from Spaln_aa2Genome GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG cacaccactttataggcacattttgaactttcaattttggttatttgtagGATCCTAAGATTCGGGAAGTC------TTTGGTGGCCCTGACACACGACTGGAGGAGAGATTGATGACT---------CGGGCCGGATTTAGTAACTACCACATTCTTGATTTCATGGCTGTGCAGGATGGTACAGTTAAGgtatgtccagcctgatctccatattgaaggcattagtacattcaaacctt Alignment from Spaln_nt2Genome GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG cacaccactttataggcacattttgaactttcaattttggttatttgtagGATCCTAAGATTCGGGAAGT------CTTTGGTGGCCCTGACACACGACTGGAGGAGAGATTGATGAC--------TCGGGCCGGATTTAGTAACTACCACATTCTTG-ATTTCATGGCTGTGCAGGATGGTACAGTTAAGgtatgtccagcctgatctccatattgaaggcattagtacattcaaacctt Alignment from Pairagon GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG cacaccactttataggcacattttgaactttcaattttggttatttgtagGATCCTAAGATTCGGGAAGT------CTTTGGTGGCCCTGACACACGACTGGAGGAGAGATTGATGAC--------TCGGGCCGGATTTAGTAACTACCACATTCTTG-ATTTCATGGCTGTGCAGGATGGTACAGTTAAGgtatgtccagcctgatctccatattgaaggcattagtacattcaaacctt Alignment from Exonerate_protein2genome GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG cacaccactttataggcacattttgaactttcaattttggttatttgtagGATCCTAAGATTCGGGAAGTC------TTTGGTGGCCCTGACACACGACTGGAGGAGAGATTGATGACT---CGGGCCGGATTTAGT------AACTACCACATTCTTGATTTCATGGCTGTGCAGGATGGTACAGTTAAGgtatgtccagcctgatctccatattgaaggcattagtacattcaaacctt Alignment from Exonerate_coding2genome cacaccactttataggcacattttgaactttcaattttggttatttgtaggatcctaagattcgggaagtctttggtggccctgacacacgactggaggagagattgatgactcgggccggatttagtaactaccacattcttgatttcatggctgtgcaggatggtacagttaaggtatgtccagcctgatctccatattgaaggcattagtacattcaaacctt Alignment from GeneWise GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG cacaccactttataggcacattttgaactttcaattttggttatttgtagGATCCTAAGATTCGGGAAGTC------TTTGGTGGCCCTGACACACGACTGGAGGAGAGATTGATGACTCGGGCCGGATTTAGT---------AACTACCACATTCTTGATTTCATGGCTGTGCAGGATGGTACAGTTAAGgtatgtccagcctgatctccatattgaaggcattagtacattcaaacctt #### Plcb3_ID1928_3 --> 0 - 0 Original Alignment GAGGTGGACACA-CTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtgctgtggacaaccttgtaccttgaactgtctctgtgctttttaaagGAGGTGGACACACCTGGATATCAGCTCAATCAGAGATACAAGGACAGGTCGTT-TGCTCACCTGCCCAAAgtgagtccaccggctttgcacatgtaaataccacaccactttataggcac Alignment from CESAR GAGGTGGACACA-CTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtgctgtggacaaccttgtaccttgaactgtctctgtgctttttaaagGAGGTGGACACACCTGGATATCAGCTCAATCAGAGATACAAGGACAGGTC-GTTTGCTCACCTGCCCAAAgtgagtccaccggctttgcacatgtaaataccacaccactttataggcac Alignment from Spaln_aa2Genome GAGGTGGACACA-CTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtgctgtggacaaccttgtaccttgaactgtctctgtgctttttaaagGAGGTGGACACAcCTGGATATCAGCTCAATCAGAGATACAAGGACAGGTCGTTT-GCTCACCTGCCCAAAgtgagtccaccggctttgcacatgtaaataccacaccactttataggcac Alignment from Spaln_nt2Genome GAGGTGGACACAC-TGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtgctgtggacaaccttgtaccttgaactgtctctgtgctttttaaagGAGGTGGACACACCTGGATATCAGCTCAATCAGAGATACAAGGACAGGTCGTT-TGCTCACCTGCCCAAAgtgagtccaccggctttgcacatgtaaataccacaccactttataggcac Alignment from Pairagon GAGGTGGACACA-CTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtgctgtggacaaccttgtaccttgaactgtctctgtgctttttaaagGAGGTGGACACACCTGGATATCAGCTCAATCAGAGATACAAGGACAGGTCGTT-TGCTCACCTGCCCAAAgtgagtccaccggctttgcacatgtaaataccacaccactttataggcac Alignment from Exonerate_protein2genome GAGGTGGACACA-CTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtgctgtggacaaccttgtaccttgaactgtctctgtgctttttaaagGAGGTGGACACACCTGGATATCAGCTCAATCAGAGATACAAGGACAGGTCGTTTGCTCACCTGCCCAAAGtgagtccaccggctttgcacatgtaaataccacaccactttataggcac Alignment from Exonerate_coding2genome tagtgctgtggacaaccttgtaccttgaactgtctctgtgctttttaaaggaggtggacacacctggatatcagctcaatcagagatacaaggacaggtcgtttgctcacctgcccaaagtgagtccaccggctttgcacatgtaaataccacaccactttataggcac Alignment from GeneWise GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtgctgtggacaaccttgtaccttgaactgtctctgtgctttttaaagGAGGTGGACACACCTGGATATCAGCTCAATCAGAGATACAAGGACAGGTCGTTTGCTCACCTGCCCAAAgtgagtccaccggctttgcacatgtaaataccacaccactttataggcac #### Plce1_ID7626_12 --> 1 - 1 Original Alignment cATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGAC-ATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAg gctgtatattactattcataaaggctatttcatttcataccgcaataaagcATTAGGAGCCGTAAGGACCTGAAGGACATCTTTGATCATCTATACAGTG---------AGATCTACATCAGAGTCCA-CCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGggtaagtttgttggcccattcctcccatcaagcaggtttgtaactttgata Alignment from CESAR cATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGAC-ATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAg gctgtatattactattcataaaggctatttcatttcataccgcaataaagcATTAGGAGCCGTAAGGACCTGAAGGACATCTTTGATCATCTATACAGTG---------AGATCTACATCAGAGTCCACCC-CCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGggtaagtttgttggcccattcctcccatcaagcaggtttgtaactttgata Alignment from Spaln_aa2Genome CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGAC---ATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG gctgtatattactattcataaaggctatttcatttcataccgcaataaagCATTAGGAGCCGTAAGGACCTGAAGGACATCTTTGATCATCTATACAGTGAGATCTACATCAGA------------GTCCACCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGGgtaagtttgttggcccattcctcccatcaagcaggtttgtaactttgata Alignment from Spaln_nt2Genome CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG gctgtatattactattcataaaggctatttcatttcataccgcaataaagCATTAGGAGCCGTAAGGACCTGAAGGACATCTTTGA----TCATCTATACAGTG----AGATCTACATCAGAGTCCACCCC-CTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGGgtaagtttgttggcccattcctcccatcaagcaggtttgtaactttgata Alignment from Pairagon CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGA-------------------------------CATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG gctgtatattactattcataaaggctatttcatttcataccgcaataaagCATTAGGAGCCGTAAGGACCTGAAGGACATCTTTGATCATCTATACAGTGAGATCTACATCAGAGTCCA----------------------------------------CCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGGgtaagtttgttggcccattcctcccatcaagcaggtttgtaactttgata Alignment from Exonerate_protein2genome CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG gctgtatattactattcataaaggctatttcatttcataccgcaataaagCATTAGGAGCCGTAAGGACCTGAAGGACATCTTTGATCATCTA---------TACAGTGAGATCTACATCAGAGTCCACCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGGgtaagtttgttggcccattcctcccatcaagcaggtttgtaactttgata Alignment from Exonerate_coding2genome CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG gctgtatattactattcataaaggctatttcatttcataccgcaataaagCATTAGGAGCCGTAAGGACCTGAAGGACATCTTTGATCATCTA---------TACAGTGAGATCTACATCAGAGTCCACCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGGgtaagtttgttggcccattcctcccatcaagcaggtttgtaactttgata Alignment from GeneWise CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGAC---ATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG gctgtatattactattcataaaggctatttcatttcataccgcaataaagCATTAGGAGCCGTAAGGACCTGAAGGACATCTTTGATCATCTATACAGTGAGATCTACATCAGA------------GTCCACCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGGgtaagtttgttggcccattcctcccatcaagcaggtttgtaactttgata #### Plekhs1_ID12098_3 --> 0 - 2 Original Alignment ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAG-AGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACgg cattggctttactgacattaactagtgcccaaaagcttacttctgttcagACCTCCTGGAAGAAGCGTTTATTTATACTGTCCCAGCAGCCGGGGATCAGGTCTTGGTCTTTCTTATTACAAAG-TCATCAACACAGAGGCTCCATTGGAGTTGATaggtatgaatttgggctgatgctcactctaaaagcactagatattgagttcc Alignment from CESAR ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAG-AGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACgg cattggctttactgacattaactagtgcccaaaagcttacttctgttcagACCTCCTGGAAGAAGCGTTTATTTATACTGTCCCAGCAGCCGGGGATCAGGTCTTGGTCTTTCTTATTACAAA-GTCATCAACACAGAGGCTCCATTGGAGTTGATaggtatgaatttgggctgatgctcactctaaaagcactagatattgagttcc Alignment from Spaln_aa2Genome ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAGAGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACGG cattggctttactgacattaactagtgcccaaaagcttacttctgttcagACCTCCTGGAAGAAGCGTTTATTTATACTGTCCCAGCAGCCGGGGATCAGGTCTTGGTCTTTCTTATTACAAAGTCATCAACACAGAGGCTCCATTGGAGTTGATAGgtatgaatttgggctgatgctcactctaaaagcactagatattgagttcc Alignment from Spaln_nt2Genome ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAG-AGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACGG cattggctttactgacattaactagtgcccaaaagcttacttctgttcagACCTCCTGGAAGAAGCGTTTATTTATACTGTCCCAGCAGCCGGGGATCAGGTCTTGGTCTTTCTTATTACAAAG-TCATCAACACAGAGGCTCCATTGGAGTTGATAGgtatgaatttgggctgatgctcactctaaaagcactagatattgagttcc Alignment from Pairagon ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAG-AGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACGG cattggctttactgacattaactagtgcccaaaagcttacttctgttcagACCTCCTGGAAGAAGCGTTTATTTATACTGTCCCAGCAGCCGGGGATCAGGTCTTGGTCTTTCTTATTACAAAG-TCATCAACACAGAGGCTCCATTGGAGTTGATAGgtatgaatttgggctgatgctcactctaaaagcactagatattgagttcc Alignment from Exonerate_protein2genome ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAGAGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACGG cattggctttactgacattaactagtgcccaaaagcttacttctgttcagACCTCCTGGAAGAAGCGTTTATTTATACTGTCCCAGCAGCCGGGGATCAGGTCTTGGTCTTTCTTATTACAAAGTCATCAACACAGAGGCTCCATTGGAGTTGATAGgtatgaatttgggctgatgctcactctaaaagcactagatattgagttcc Alignment from Exonerate_coding2genome ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAGAGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACGG cattggctttactgacattaactagtgcccaaaagcttacttctgttcagACCTCCTGGAAGAAGCGTTTATTTATACTGTCCCAGCAGCCGGGGATCAGGTCTTGGTCTTTCTTATTACAAAGTCATCAACACAGAGGCTCCATTGGAGTTGATAGgtatgaatttgggctgatgctcactctaaaagcactagatattgagttcc Alignment from GeneWise ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAGAGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACGG cattggctttactgacattaactagtgcccaaaagcttacttctgttcagACCTCCTGGAAGAAGCGTTTATTTATACTGTCCCAGCAGCCGGGGATCAGGTCTTGGTCTTTCTTATTACAAAGTCATCAACACAGAGGCTCCATTGGAGTTGATAGgtatgaatttgggctgatgctcactctaaaagcactagatattgagttcc #### Pnlip_ID12752_11 --> 1 - 2 Original Alignment gGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGA-GATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAgt ctccagggactaaataaatggctcaagtgaaatactgtttgttcttgtagg------------------------GATGGCAATGAATTTGAGTCCGAA------GTTGGACGATTTGCAGAGGGTCAAATTTATTGGC---AACA-TGTAATTAACCCAACACTTCCGAGAGTGGGGGCATCAGGGATTACTGTAGAAAGAAATGATGGGAGAgtgtaaggtactcgtgtaccaaaagacagcagggcatagcttaaattcacat Alignment from CESAR gGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGA-GATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAgt ctccagggactaaataaatggctcaagtgaaatactgtttgttcttgtaggGAT------------------------GGCAATGAATTTGAGTCC------GAAGTTGGACGATTTGCAGAGGGTCAAATTTA-TTGG---CAACATGTAATTAACCCAACACTTCCGAGAGTGGGGGCATCAGGGATTACTGTAGAAAGAAATGATGGGAGAgtgtaaggtactcgtgtaccaaaagacagcagggcatagcttaaattcacat Alignment from Spaln_aa2Genome GGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT ctccagggactaaataaatggctcaagTGAAATACTGTTTGTTCTTGTAGGGATGGCAATGAATTTGAGTCCGAAGTTGGAC------GATTTGCAGAGGGTCAAATTTATTGG----CAACATGTAATTAACCCAACACTTCCGAGAGTGGGGGCATCAGGGATTACTGTAGAAAGAAATGATGGGAGAGTgtaaggtactcgtgtaccaaaagacagcagggcatagcttaaattcacat Alignment from Spaln_nt2Genome CTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGA-GATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT ctccagggactaaataaatggctcaagtgaaatactgtttgttcttgtag-GGATGGCAATGAATTTGAGTC------CGAAGTTGGACGATTTGCAGAGGGTCAAATTTATTGG---CAAC-ATGTAATTAACCCAACACTTCCGAGAGTGGGGGCATCAGGGATTACTGTAGAAAGAAATGATGGGAGAGTgtaaggtactcgtgtaccaaaagacagcagggcatagcttaaattcacat Alignment from Pairagon GGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGA-GATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT ctccagggactaaataaatggctcaagtgaaatactgtttgttcttgtagGG------------------------ATGGCAATGAATTTGAGTCC------GAAGTTGGACGATTTGCAGAGGGTCAAATTTATTGGCAAC----ATGTAATTAACCCAACACTTCCGAGAGTGGGGGCATCAGGGATTACTGTAGAAAGAAATGATGGGAGAGTgtaaggtactcgtgtaccaaaagacagcagggcatagcttaaattcacat Alignment from Exonerate_protein2genome ATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT ctccagggactaaataaatggctcaagtgaaatactgtttgttcttgtagggATGGCAATGAATTTGAGTCCGAAGTTGGACGATTTGCAGAGGGTCAAATTTATTGG---CAACATGTAATTAACCCAACACTTCCGAGAGTGGGGGCATCAGGGATTACTGTAGAAAGAAATGATGGGAGAGTgtaaggtactcgtgtaccaaaagacagcagggcatagcttaaattcacat Alignment from Exonerate_coding2genome TCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT ctccagggactaaataaatggctcaagtgaaatactgtttgttcttgtagGGATGGCAATGAATTTGAGTCCGAAGTTGGA-----CGATTTGCAGAGGGTCAAATTTAT----TGGCAACATGTAATTAACCCAACACTTCCGAGAGTGGGGGCATCAGGGATTACTGTAGAAAGAAATGATGGGAGAGTgtaaggtactcgtgtaccaaaagacagcagggcatagcttaaattcacat Alignment from GeneWise ctccagggactaaataaatggctcaagtgaaatactgtttgttcttgtagggatggcaatgaatttgagtccgaagttggacgatttgcagagggtcaaatttattggcaacatgtaattaacccaacacttccgagagtgggggcatcagggattactgtagaaagaaatgatgggagagtgtaaggtactcgtgtaccaaaagacagcagggcatagcttaaattcacat #### Pnliprp1_ID12765_2 --> 2 - 0 Original Alignment ggAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATC-AGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG ggaaagcccagtgaccatggaccggcagtttcccatttcctttgaatcagggAAAGAATTTTGTTATCACAACCTTGGGTGCTTTTCTGATGCGGAACCCTGGGCAGGCACAGCCAATCAGACCTCTAAAACTCCTCCCTTGGAGTC-AGAGAAGATCAACACCTGCTTCTTGCTCTACACAAATGAGAACCCCATTGCTTTCCAGgtatgtactgtaggtcctagccgagagccaggtgatcctaccgctttaac Alignment from CESAR ggAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCT-ATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG ggaaagcccagtgaccatggaccggcagtttcccatttcctttgaatcagggAAAGAATTTTGTTATCACAACCTTGGGTGCTTTTCTGATGCGGAACCCTGGGCAGGCACAGCCAATCAGACCTCTAAAACTCCTCCCTTGGAGT-CAGAGAAGATCAACACCTGCTTCTTGCTCTACACAAATGAGAACCCCATTGCTTTCCAGgtatgtactgtaggtcctagccgagagccaggtgatcctaccgctttaac Alignment from Spaln_aa2Genome GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG ggaaagcccagtgaccatggaccggcagtttcccatttcctttgaatcagGGAAAGAATTTTGTTATCACAACCTTGGGTGCTTTTCTGATGCGGAACCCTGGGCAGGCACAGCCAATCAGACCTCTAAAACTCCTCCCTTGGAGTCAGAGAAGATCAACACCTGCTTCTTGCTCTACACAAATGAGAACCCCATTGCTTTCCAGgtatgtactgtaggtcctagccgagagccaggtgatcctaccgctttaac Alignment from Spaln_nt2Genome GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTA-TCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG ggaaagcccagtgaccatggaccggcagtttcccatttcctttgaatcagGGAAAGAATTTTGTTATCACAACCTTGGGTGCTTTTCTGATGCGGAACCCTGGGCAGGCACAGCCAATCAGACCTCTAAAACTCCTCCCTTGGAG-TCAGAGAAGATCAACACCTGCTTCTTGCTCTACACAAATGAGAACCCCATTGCTTTCCAGgtatgtactgtaggtcctagccgagagccaggtgatcctaccgctttaac Alignment from Pairagon GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCT-ATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG ggaaagcccagtgaccatggaccggcagtttcccatttcctttgaatcagGGAAAGAATTTTGTTATCACAACCTTGGGTGCTTTTCTGATGCGGAACCCTGGGCAGGCACAGCCAATCAGACCTCTAAAACTCCTCCCTTGGAGTCA-GAGAAGATCAACACCTGCTTCTTGCTCTACACAAATGAGAACCCCATTGCTTTCCAGgtatgtactgtaggtcctagccgagagccaggtgatcctaccgctttaac Alignment from Exonerate_protein2genome GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG ggaaagcccagtgaccatggaccggcagtttcccatttcctttgaatcagGGAAAGAATTTTGTTATCACAACCTTGGGTGCTTTTCTGATGCGGAACCCTGGGCAGGCACAGCCAATCAGACCTCTAAAACTCCTCCCTTGGAGTCAGAGAAGATCAACACCTGCTTCTTGCTCTACACAAATGAGAACCCCATTGCTTTCCAGgtatgtactgtaggtcctagccgagagccaggtgatcctaccgctttaac Alignment from Exonerate_coding2genome TTCCTACTGGGAGCAGCTCAGGGGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG ggaaagcccagtgaccatggaccggcagTTTCCCATTTCCTTTGAATCAGGGAAAGAATTTTGTTATCACAACCTTGGGTGCTTTTCTGATGCGGAACCCTGGGCAGGCACAGCCAATCAGACCTCTAAAACTCCTCCCTTGGAGTCAGAGAAGATCAACACCTGCTTCTTGCTCTACACAAATGAGAACCCCATTGCTTTCCAGgtatgtactgtaggtcctagccgagagccaggtgatcctaccgctttaac Alignment from GeneWise GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG ggaaagcccagtgaccatggaccggcagtttcccatttcctttgaatcagGGAAAGAATTTTGTTATCACAACCTTGGGTGCTTTTCTGATGCGGAACCCTGGGCAGGCACAGCCAATCAGACCTCTAAAACTCCTCCCTTGGAGTCAGAGAAGATCAACACCTGCTTCTTGCTCTACACAAATGAGAACCCCATTGCTTTCCAGgtatgtactgtaggtcctagccgagagccaggtgatcctaccgctttaac #### Pola2_ID1325_15 --> 0 - 2 Original Alignment CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTCTCCATAAATGGA-GTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTag agctcactgtaggttttattgcaaggagctcaccccatctgtgtcctcagCGAGTGCAGTTTGTATCGGAGCCCTGCAGCCTACCGATAAATGGACGTAATG---TATTCAACTACTGCAGACTTACTGTATC-CCTTGGGGCTGAGGAACTGTTTaggtaagtccattcaacccaataaggagagttacataacatggttcttgaag Alignment from CESAR CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTCTCCATAAATGGA-GTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTag agctcactgtaggttttattgcaaggagctcaccccatctgtgtcctcagCGAGTGCAGTTTGTATCGGAGCCCTGCAGCCTACCGATAAATGGACGTAATGTAT---TCAACTACTGCAGACTTACTGTAT-CCCTTGGGGCTGAGGAACTGTTTaggtaagtccattcaacccaataaggagagttacataacatggttcttgaag Alignment from Spaln_aa2Genome CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTCTCCATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTAG agctcactgtaggttttattgcaaggagctcaccccatctgtgtcctcagCGAGTGCAGTTTGTATCGGAGCCCTGCAGCCTACCGATAAATGGACGTAATGTA---TTCAACTACTGCAGACTTACTGTATCCCTTGGGGCTGAGGAACTGTTTAGgtaagtccattcaacccaataaggagagttacataacatggttcttgaag Alignment from Spaln_nt2Genome CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTCTCCATAAATGGA-GTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTAG agctcactgtaggttttattgcaaggagctcaccccatctgtgtcctcagCGAGTGCAGTTTGTATCGGAGCCCTGCAGCCTACCGATAAATGGACGTAATGT---ATTCAACTACTGCAGACTTACTGTATC-CCTTGGGGCTGAGGAACTGTTTAGgtaagtccattcaacccaataaggagagttacataacatggttcttgaag Alignment from Pairagon CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTCTCCATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATC--------------------------------------GGGGCTGAGGAGATCTTTAG agctcactgtaggttttattgcaaggagctcaccccatctgtgtcctcagCGAGTGCAGTTTGTATCGGAGCCCTGCAGCCTACCGATAAATGGA-----------------------------------------CGTAATGTATTCAACTACTGCAGACTTACTGTATCCCTTGGGGCTGAGGAACTGTTTAGgtaagtccattcaacccaataaggagagttacataacatggttcttgaag Alignment from Exonerate_protein2genome CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTCTCCATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTAG agctcactgtaggttttattgcaaggagctcaccccatctgtgtcctcagCGAGTGCAGTTTGTATCGGAGCCCTGCAGCCTACCGATAAATGGACGTAATGTA---TTCAACTACTGCAGACTTACTGTATCCCTTGGGGCTGAGGAACTGTTTAGgtaagtccattcaacccaataaggagagttacataacatggttcttgaag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTCTCCATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTAG agctcactgtaggttttattgcaaggagctcaccccatctgtgtcctcagCGAGTGCAGTTTGTATCGGAGCCCTGCAGCCTACCGATAAATGGACGTAATGTA---TTCAACTACTGCAGACTTACTGTATCCCTTGGGGCTGAGGAACTGTTTAGgtaagtccattcaacccaataaggagagttacataacatggttcttgaag #### Pold4_ID438_3 --> 2 - 2 Original Alignment gtATCACAAGG---CTGCAGCGCTGGAGTCGGGCAGAGCAG-ATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCag cactccactaccaccccctgattgtctctcataactcatgcctccaccaggtATCTCGAGGTTGTTGCAGTGC---AGCCGTGCAGAGCAGCATGGGCTTGACGCCCCCTCTAGAGGTGTATCCTGTGT-GAAAGCCCACCCTGAAGACCCTCACTATTGGTGTacgtttgtacagcctgtctatctggaagctcatctggagtgtgttagctcac Alignment from CESAR gtATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAG-ATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCag cactccactaccaccccctgattgtctctcataactcatgcctccaccaggtATCTCGAGGTTGTTGCAGTGCAGCCGTGCAGAGCAGCATGGGCTTGACGCCCCCTCTAGAGGTGTATCCTG-TGTGAAAGCCCACCCTGAAGACCCTCACTATTGGTGTacgtttgtacagcctgtctatctggaagctcatctggagtgtgttagctcac Alignment from Spaln_aa2Genome GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG cactccactaccaccccctgattgtctctcataactcatgcctccaccagGTATCTCGAGGTTGTTGCAGTGCAGCCGTGCAGAGCAGCATGGGCTTGACGCCCCCTCTAGAGGTGTATCCTGTGTGAAAGCCCACCCTGAAGACCCTCACTATTGGTGTACgtttgtacagcctgtctatctggaagctcatctggagtgtgttagctcac Alignment from Spaln_nt2Genome GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAG-ATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG cactccactaccaccccctgattgtctctcataactcatgcctccaccagGTATCTCGAGGTTGTTGCAGTGCAGCCGTGCAGAGCAGCATGGGCTTGACGCCCCCTCTAGAGGTGTATCCTGTG-TGAAAGCCCACCCTGAAGACCCTCACTATTGGTGTACgtttgtacagcctgtctatctggaagctcatctggagtgtgttagctcac Alignment from Pairagon GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAG-ATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCAC------- cactccactaccaccccctgattgtctctcataactcatgcctccaccagGTATCTCGAGGTTGTTGCAGTGCAGCCGTGCAGAGCAGCATGGGCTTGACGCCCCCTCTAGAGGTGTATCCTGTG-TGAAAGCCCACCCTGAAGACCCTCACTATTGGTgtacgtttgtacagcctgtctatctggaagctcatctggagtgtgttagctcac Alignment from Exonerate_protein2genome GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG cactccactaccaccccctgattgtctctcataactcatgcctccaccagGTATCTCGAGGTTGTTGCAGTGCAGCCGTGCAGAGCAGCATGGGCTTGACGCCCCCTCTAGAGGTGTATCCTGTGTGAAAGCCCACCCTGAAGACCCTCACTATTGGTGTACgtttgtacagcctgtctatctggaagctcatctggagtgtgttagctcac Alignment from Exonerate_coding2genome GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAGC cactccactaccaccccctgattgtctctcataactcatgcctccaccagGTATCTCGAGGTTGTTGCAGTGCAGCCGTGCAGAGCAGCATGGGCTTGACGCCCCCTCTAGAGGTGTATCCTGTGTGAAAGCCCACCCTGAAGACCCTCACTATTGGTGTACGtttgtacagcctgtctatctggaagctcatctggagtgtgttagctcac Alignment from GeneWise GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAGCCTGTGGCATCTCTACCCACTC cactccactaccaccccctgattgtctctcataactcatgcctccaccagGTATCTCGAGGTTGTTGCAGTGCAGCCGTGCAGAGCAGCATGGGCTTGACGCCCCCTCTAGAGGTGTATCCTGTGTGAAAGCCCACCCTGAAGACCCTCACTATTGGTGTACGTTT------GTACAGCCTGTCtatctggaagctcatctggagtgtgtta #### Polr2g_ID2381_2 --> 0 - 2 Original Alignment ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATAC-TTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGaa tcctgtccctggtcaagccagttaaagtcaggggtcatgctcttttacagATTTCCCTGGAGCGCGAGATCCTCCTGCACCCACGATACCTTCGGTCCAAACTTGCTCAACATGGTGAAGC-GAAGCCATTTACTGAAGTGGAGGGGACCTGCACTGGGaagtaagactcctctttacaggagcaagacctgttgaatgcattggcagcaa Alignment from CESAR ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATAC-TTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGaa tcctgtccctggtcaagccagttaaagtcaggggtcatgctcttttacagATTTCCCTGGAGCGCGAGATCCTCCTGCACCCACGATACCTTCGGTCCAAACTTGCTCAACATGGTGAAG-CGAAGCCATTTACTGAAGTGGAGGGGACCTGCACTGGGaagtaagactcctctttacaggagcaagacctgttgaatgcattggcagcaa Alignment from Spaln_aa2Genome ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA tcctgtccctggtcaagccagttaaagtcaggggtcatgctcttttacagATTTCCCTGGAGCGCGAGATCCTCCTGCACCCACGATACCTTCGGTCCAAACTTGCTCAACATGGTGAAGCGAAGCCATTTACTGAAGTGGAGGGGACCTGCACTGGGAAgtaagactcctctttacaggagcaagacctgttgaatgcattggcagcaa Alignment from Spaln_nt2Genome ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATA-CTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA tcctgtccctggtcaagccagttaaagtcaggggtcatgctcttttacagATTTCCCTGGAGCGCGAGATCCTCCTGCACCCACGATACCTTCGGTCCAAACTTGCTCAACATGGTGAAGC-GAAGCCATTTACTGAAGTGGAGGGGACCTGCACTGGGAAgtaagactcctctttacaggagcaagacctgttgaatgcattggcagcaa Alignment from Pairagon TTTTATCACATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATA-CTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA cctgtccctggtcaagccagttaaagtcaggggtcatgctcTTTTA-CAGATTTCCCTGGAGCGCGAGATCCTCCTGCACCCACGATACCTTCGGTCCAAACTTGCTCAACATGGTGAAGC-GAAGCCATTTACTGAAGTGGAGGGGACCTGCACTGGGAAgtaagactcctctttacaggagcaagacctgttgaatgcattggcagcaa Alignment from Exonerate_protein2genome CACATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA tcctgtccctggtcaagccagttaaagtcaggggtcatgctcttttaCAGATTTCCCTGGAGCGCGAGATCCTCCTGCACCCACGATACCTTCGGTCCAAACTTGCTCAACATGGTGAAGCGAAGCCATTTACTGAAGTGGAGGGGACCTGCACTGGGAAgtaagactcctctttacaggagcaagacctgttgaatgcattggcagcaa Alignment from Exonerate_coding2genome TTATCACATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATA-CTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA tcctgtccctggtcaagccagttaaagtcaggggtcatgctctTTTACAGATTTCCCTGGAGCGCGAGATCCTCCTGCACCCACGATACCTTCGGTCCAAACTTGCTCAACATGGTGAAGCG-AAGCCATTTACTGAAGTGGAGGGGACCTGCACTGGGAAgtaagactcctctttacaggagcaagacctgttgaatgcattggcagcaa Alignment from GeneWise TTTTATCACATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA tcctgtccctggtcaagccagttaaagtcaggggtcatgctCTTTTACAGATTTCCCTGGAGCGCGAGATCCTCCTGCACCCACGATACCTTCGGTCCAAACTTGCTCAACATGGTGAAGCGAAGCCATTTACTGAAGTGGAGGGGACCTGCACTGGGAAgtaagactcctctttacaggagcaagacctgttgaatgcattggcagcaa #### Ppp1ca_ID409_3 --> 2 - 1 Original Alignment gtGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGG-GATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATC---AACCGCATTTATGGCTTCTATGATGAAt ggtaaggaatagctttactgaatattctaatttcttctttttccttccaggtGATATCCAGGGACAGCACTATGACCTACTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCCGATTATTCAGACCGTGGCAAACAATCCTTGGAGA-TATCTGCCTATTGCTTACTTATAGAATCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATCATGAGTGTGCAAGCATTATCAACCGCATTTATGGGTTCTATGGTGTAtgtaagcaggattgttcttgtgatgtcttactgggccatttgatattaact Alignment from CESAR gtGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGG-GATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGC---ATCAACCGCATTTATGGCTTCTATGATGAAt ggtaaggaatagctttactgaatattctaatttcttctttttccttccaggtGATATCCAGGGACAGCACTATGACCTACTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCCGATTATTCAGACCGTGGCAAACAATCCTTGGAG-ATATCTGCCTATTGCTTACTTATAGAATCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATCATGAGTGTGCAAGCATTATCAACCGCATTTATGGGTTCTATGGTGTAtgtaagcaggattgttcttgtgatgtcttactgggccatttgatattaact Alignment from Spaln_aa2Genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGC---ATCAACCGCATTTATGGCTTCTATGATGAAT ggtaaggaatagctttactgaatattctaatttcttctttttccttccagGTGATATCCAGGGACAGCACTATGACCTACTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCCGATTATTCAGACCGTGGCAAACAATCCTTGGAGATATCTGCCTATTGCTTACTTATAGAATCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATCATGAGTGTGCAAGCATTATCAACCGCATTTATGGGTTCTATGGTGTATgtaagcaggattgttcttgtgatgtcttactgggccatttgatattaact Alignment from Spaln_nt2Genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGG-GATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGC---CAGCATCAACCGCATTTATGGCTTCTATGATGAAT ggtaaggaatagctttactgaatattctaatttcttctttttccttccagGTGATATCCAGGGACAGCACTATGACCTACTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCCGATTATTCAGACCGTGGCAAACAATCCTTGGAGA-TATCTGCCTATTGCTTACTTATAGAATCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATCATGAGTGTGCAAGCATTATCAACCGCATTTATGGGTTCTATGGTGTATgtaagcaggattgttcttgtgatgtcttactgggccatttgatattaact Alignment from Pairagon GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGG-GGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGC---ATCAACCGCATTTATGGCTTCTATGATGAAT ggtaaggaatagctttactgaatattctaatttcttctttttccttccagGTGATATCCAGGGACAGCACTATGACCTACTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCCGATTATTCAGACCGTGGCAAACAATCCTTGGAGA-TATCTGCCTATTGCTTACTTATAGAATCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATCATGAGTGTGCAAGCATTATCAACCGCATTTATGGGTTCTATGGTGTATgtaagcaggattgttcttgtgatgtcttactgggccatttgatattaact Alignment from Exonerate_protein2genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGC---ATCAACCGCATTTATGGCTTCTATGATGAAT ggtaaggaatagctttactgaatattctaatttcttctttttccttccagGTGATATCCAGGGACAGCACTATGACCTACTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCCGATTATTCAGACCGTGGCAAACAATCCTTGGAGATATCTGCCTATTGCTTACTTATAGAATCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATCATGAGTGTGCAAGCATTATCAACCGCATTTATGGGTTCTATGGTGTATgtaagcaggattgttcttgtgatgtcttactgggccatttgatattaact Alignment from Exonerate_coding2genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGC---ATCAACCGCATTTATGGCTTCTATGATGAAT ggtaaggaatagctttactgaatattctaatttcttctttttccttccagGTGATATCCAGGGACAGCACTATGACCTACTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCCGATTATTCAGACCGTGGCAAACAATCCTTGGAGATATCTGCCTATTGCTTACTTATAGAATCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATCATGAGTGTGCAAGCATTATCAACCGCATTTATGGGTTCTATGGTGTATgtaagcaggattgttcttgtgatgtcttactgggccatttgatattaact Alignment from GeneWise GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATC---AACCGCATTTATGGCTTCTATGATGAAT ggtaaggaatagctttactgaatattctaatttcttctttttccttccagGTGATATCCAGGGACAGCACTATGACCTACTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCCGATTATTCAGACCGTGGCAAACAATCCTTGGAGATATCTGCCTATTGCTTACTTATAGAATCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATCATGAGTGTGCAAGCATTATCAACCGCATTTATGGGTTCTATGGTGTATgtaagcaggattgttcttgtgatgtcttactgggccatttgatattaact #### Ppp1r32_ID2842_9 --> 0 - 0 Original Alignment GTGCCTACTCCAGCCCCA-CAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG atcgggtatctatgtccaattgtaccttcacccaaatccttgtattccagGTTCCTGCCTCAGCTCCCCCAATCTGCCAGCATGAGTCACAGATTCTACCGTGCTC-CCAGCGAATGCAACAGGCTAATGTTGCCCTGCTCGGAAGGGAGTCTGTGGGGAATAAAgtgagtcctctaacacaaatcctatggtggcatcccgaattatgagatac Alignment from CESAR GTGCCTACTCCAGCCCCA-CAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG atcgggtatctatgtccaattgtaccttcacccaaatccttgtattccagGTTCCTGCCTCAGCTCCCCCAATCTGCCAGCATGAGTCACAGATTCTACCGTGCTC-CCAGCGAATGCAACAGGCTAATGTTGCCCTGCTCGGAAGGGAGTCTGTGGGGAATAAAgtgagtcctctaacacaaatcctatggtggcatcccgaattatgagatac Alignment from Spaln_aa2Genome GTGCCTACTCCAGCCCCA-CAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG atcgggtatctatgtccaattgtaccttcacccaaatccttgtattccagGTTCCTGCCTCAGCTCCCcCAATCTGCCAGCATGAGTCACAGATTCTACCGTGCTCCCAG-CGAATGCAACAGGCTAATGTTGCCCTGCTCGGAAGGGAGTCTGTGGGGAATAAAgtgagtcctctaacacaaatcctatggtggcatcccgaattatgagatac Alignment from Spaln_nt2Genome GTGCCTACTCCAGC-CCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG atcgggtatctatgtccaattgtaccttcacccaaatccttgtattccagGTTCCTGCCTCAGCTCCCCCAATCTGCCAGCATGAGTCACAGATTCTACCGTGCT-CCCAGCGAATGCAACAGGCTAATGTTGCCCTGCTCGGAAGGGAGTCTGTGGGGAATAAAgtgagtcctctaacacaaatcctatggtggcatcccgaattatgagatac Alignment from Pairagon GTGCCTACTCCAGC-CCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG atcgggtatctatgtccaattgtaccttcacccaaatccttgtattccagGTTCCTGCCTCAGCTCCCCCAATCTGCCAGCATGAGTCACAGATTCTACCGTGCT-CCCAGCGAATGCAACAGGCTAATGTTGCCCTGCTCGGAAGGGAGTCTGTGGGGAATAAAgtgagtcctctaacacaaatcctatggtggcatcccgaattatgagatac Alignment from Exonerate_protein2genome GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG atcgggtatctatgtccaattgtaccttcacccaaatccttgtattccagGTTCCTGCCTCAGCTCCCCCAATCTGCCAGCATGAGTCACAGATTCTACCGTGCTCCCAGCGAATGCAACAGGCTAATGTTGCCCTGCTCGGAAGGGAGTCTGTGGGGAATAAAgtgagtcctctaacacaaatcctatggtggcatcccgaattatgagatac Alignment from Exonerate_coding2genome GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG atcgggtatctatgtccaattgtaccttcacccaaatccttgtattccagGTTCCTGCCTCAGCTCCCCCAATCTGCCAGCATGAGTCACAGATTCTACCGTGCTCCCAGCGAATGCAACAGGCTAATGTTGCCCTGCTCGGAAGGGAGTCTGTGGGGAATAAAgtgagtcctctaacacaaatcctatggtggcatcccgaattatgagatac Alignment from GeneWise GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG atcgggtatctatgtccaattgtaccttcacccaaatccttgtattccagGTTCCTGCCTCAGCTCCCCCAATCTGCCAGCATGAGTCACAGATTCTACCGTGCTCCCAGCGAATGCAACAGGCTAATGTTGCCCTGCTCGGAAGGGAGTCTGTGGGGAATAAAgtgagtcctctaacacaaatcctatggtggcatcccgaattatgagatac #### Ppp1r32_ID2845_6 --> 2 - 0 Original Alignment atCTCTTGCTTAAGAAGACAATTGGT-TCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttccttagccccctattgattgtttgcttttatctcaaagatCTCTTGCTTAAGAAGACAATTGGACTCCAAGGAGGAGATTGGGTTCCTAGAAGAGTCCA-AAAAAATCCTCTCGTTTTCCAGCCACCTTCACAGACCTTCCCTGGGAAGCCTgtagacgggaatggttaagagtgcatcttgaacactcacaatgctgaggt Alignment from CESAR atCTCTTGCTTAAGAAGACAATTGGT-TCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttccttagccccctattgattgtttgcttttatctcaaagatCTCTTGCTTAAGAAGACAATTGGACTCCAAGGAGGAGATTGGGTTCCTAGAAGAGTCC-AAAAAAATCCTCTCGTTTTCCAGCCACCTTCACAGACCTTCCCTGGGAAGCCTgtagacgggaatggttaagagtgcatcttgaacactcacaatgctgaggt Alignment from Spaln_aa2Genome ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttccttagccccctattgattgtttgcttttatctcaaagATCTCTTGCTTAAGAAGACAATTGGACTCCAAGGAGGAGATTGGGTTCCTAGAAGAGTCCAAAAAAATCCTCTCGTTTTCCAGCCACCTTCACAGACCTTCCCTGGGAAGCCTgtagacgggaatggttaagagtgcatcttgaacactcacaatgctgaggt Alignment from Spaln_nt2Genome ATCTCTTGCTTAAGAAGACAATTGGT-TCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttccttagccccctattgattgtttgcttttatctcaaagATCTCTTGCTTAAGAAGACAATTGGACTCCAAGGAGGAGATTGGGTTCCTAGAAGAGTCCA-AAAAAATCCTCTCGTTTTCCAGCCACCTTCACAGACCTTCCCTGGGAAGCCTgtagacgggaatggttaagagtgcatcttgaacactcacaatgctgaggt Alignment from Pairagon ATCTCTTGCTTAAGAAGACAATTGG-TTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttccttagccccctattgattgtttgcttttatctcaaagATCTCTTGCTTAAGAAGACAATTGGACTCCAAGGAGGAGATTGGGTTCCTAGAAGAGTCCA-AAAAAATCCTCTCGTTTTCCAGCCACCTTCACAGACCTTCCCTGGGAAGCCTgtagacgggaatggttaagagtgcatcttgaacactcacaatgctgaggt Alignment from Exonerate_protein2genome ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttccttagccccctattgattgtttgcttttatctcaaagATCTCTTGCTTAAGAAGACAATTGGACTCCAAGGAGGAGATTGGGTTCCTAGAAGAGTCCAAAAAAATCCTCTCGTTTTCCAGCCACCTTCACAGACCTTCCCTGGGAAGCCTgtagacgggaatggttaagagtgcatcttgaacactcacaatgctgaggt Alignment from Exonerate_coding2genome ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCTGTCCTCCATCCAGGACGGAGTATCACCAAGTCAGACTACCTCCCTGTAAC cctgttggttttccttagccccctattgattgtttgcttttatctcaaagATCTCTTGCTTAAGAAGACAATTGGACTCCAAGGAGGAGATTGGGTTCCTAGAAGAGTCCAAAAAAATCCTCTCGTTTTCCAGCCACCTTCACAGACCTTCCCTGGGAAGCCTGTAGACGGGAATGGTTAAGAGTGCATCTTGAACACTCACAATGCTGAGGT Alignment from GeneWise ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cctgttggttttccttagccccctattgattgtttgcttttatctcaaagATCTCTTGCTTAAGAAGACAATTGGACTCCAAGGAGGAGATTGGGTTCCTAGAAGAGTCCAAAAAAATCCTCTCGTTTTCCAGCCACCTTCACAGACCTTCCCTGGGAAGCCTgtagacgggaatggttaagagtgcatcttgaacactcacaatgctgaggt #### Prdx5_ID1854_3 --> 0 - 0 Original Alignment ACCCACCTGCCTGGGTTT-GTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG agtagcaccagggcatgcgctgataatgtcatccttaacccttgggccagGCCCACCTGCCTGGCTTGCGTGGAACAGGCTGGAGCTCGGAAAGCCAAGGGTGCAC-GGTAGTGGCATGTTTAAGTGTAAATGATGTCTTTGTGGTTGAGGAGTGGGGACGAGCCCATGAAGCAGAAGGTAAAgtgagtgatccttctgctagttgtgatagcctaggaccaggtagcaattt Alignment from CESAR ACCCACCTGCCTGGGTTT-GTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG agtagcaccagggcatgcgctgataatgtcatccttaacccttgggccagGCCCACCTGCCTGGCTTGCGTGGAACAGGCTGGAGCTCGGAAAGCCAAGGGTGCA-CGGTAGTGGCATGTTTAAGTGTAAATGATGTCTTTGTGGTTGAGGAGTGGGGACGAGCCCATGAAGCAGAAGGTAAAgtgagtgatccttctgctagttgtgatagcctaggaccaggtagcaattt Alignment from Spaln_aa2Genome ACCCACCTGCCTGGGTTT-GTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG agtagcaccagggcatgcgctgataatgtcatccttaacccttgggccagGCCCACCTGCCTGGCTTGcGTGGAACAGGCTGGAGCTCGGAAAGCCAAGGGTGCACG-GTAGTGGCATGTTTAAGTGTAAATGATGTCTTTGTGGTTGAGGAGTGGGGACGAGCCCATGAAGCAGAAGGTAAAgtgagtgatccttctgctagttgtgatagcctaggaccaggtagcaattt Alignment from Spaln_nt2Genome ACCCACCTGCCTGGGTTT-GTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG agtagcaccagggcatgcgctgataatgtcatccttaacccttgggccagGCCCACCTGCCTGGCTTGCGTGGAACAGGCTGGAGCTCGGAAAGCCAAGGGTGCACG-GTAGTGGCATGTTTAAGTGTAAATGATGTCTTTGTGGTTGAGGAGTGGGGACGAGCCCATGAAGCAGAAGGTAAAgtgagtgatccttctgctagttgtgatagcctaggaccaggtagcaattt Alignment from Pairagon ACCCACCTGCCTGGGTT-TGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG agtagcaccagggcatgcgctgataatgtcatccttaacccttgggccagGCCCACCTGCCTGGCTTGCGTGGAACAGGCTGGAGCTCGGAAAGCCAAGGGTGCAC-GGTAGTGGCATGTTTAAGTGTAAATGATGTCTTTGTGGTTGAGGAGTGGGGACGAGCCCATGAAGCAGAAGGTAAAgtgagtgatccttctgctagttgtgatagcctaggaccaggtagcaattt Alignment from Exonerate_protein2genome ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG agtagcaccagggcatgcgctgataatgtcatccttaacccttgggccagGCCCACCTGCCTGGCTTGCGTGGAACAGGCTGGAGCTCGGAAAGCCAAGGGTGCACGGTAGTGGCATGTTTAAGTGTAAATGATGTCTTTGTGGTTGAGGAGTGGGGACGAGCCCATGAAGCAGAAGGTAAAgtgagtgatccttctgctagttgtgatagcctaggaccaggtagcaattt Alignment from Exonerate_coding2genome ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG agtagcaccagggcatgcgctgataatgtcatccttaacccttgggccagGCCCACCTGCCTGGCTTGCGTGGAACAGGCTGGAGCTCGGAAAGCCAAGGGTGCACGGTAGTGGCATGTTTAAGTGTAAATGATGTCTTTGTGGTTGAGGAGTGGGGACGAGCCCATGAAGCAGAAGGTAAAgtgagtgatccttctgctagttgtgatagcctaggaccaggtagcaattt Alignment from GeneWise ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG agtagcaccagggcatgcgctgataatgtcatccttaacccttgggccagGCCCACCTGCCTGGCTTGCGTGGAACAGGCTGGAGCTCGGAAAGCCAAGGGTGCACGGTAGTGGCATGTTTAAGTGTAAATGATGTCTTTGTGGTTGAGGAGTGGGGACGAGCCCATGAAGCAGAAGGTAAAgtgagtgatccttctgctagttgtgatagcctaggaccaggtagcaattt #### Prpf19_ID3043_2 --> 2 - 1 Original Alignment tcTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTAC-ATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACATCAAAg tgctgaacttttctgtgacattcttccttaatcttatctccactgctcagtcTCCAATGAAGTGCCAGAACACCCCTGCGTGTCACCTGTCTCCAACCACGTGTATGAGCAGCGACTTATTGAGAAGTACCATCGCAGAGAATGGCACAGATCCTATCAACAACCAGC-TCTCTCAGAGGGGCAGCTCATTGACATTAAAggtgagccccctttcacattagttgcttacctttcacactggaagtcagac Alignment from CESAR tcTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTAC-ATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACATCAAAg tgctgaacttttctgtgacattcttccttaatcttatctccactgctcagtcTCCAATGAAGTGCCAGAACACCCCTGCGTGTCACCTGTCTCCAACCACGTGTATGAGCAGCGACTTATTGAGAAGTACCATCGCAGAGAATGGCACAGATCCTATCAACAACC-AGCTCTCTCAGAGGGGCAGCTCATTGACATTAAAggtgagccccctttcacattagttgcttacctttcacactggaagtcagac Alignment from Spaln_aa2Genome TCTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTACATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACATCAAAG tgctgaacttttctgtgacattcttccttaatcttatctccactgctcagTCTCCAATGAAGTGCCAGAACACCCCTGCGTGTCACCTGTCTCCAACCACGTGTATGAGCAGCGACTTATTGAGAAGTACCATCGCAGAGAATGGCACAGATCCTATCAACAACCAGCTCTCTCAGAGGGGCAGCTCATTGACATTAAAGgtgagccccctttcacattagttgcttacctttcacactggaagtcagac Alignment from Spaln_nt2Genome TCTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTA-CATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACATCAAAG tgctgaacttttctgtgacattcttccttaatcttatctccactgctcagTCTCCAATGAAGTGCCAGAACACCCCTGCGTGTCACCTGTCTCCAACCACGTGTATGAGCAGCGACTTATTGAGAAGTACCATCGCAGAGAATGGCACAGATCCTATCAACAACCAGC-TCTCTCAGAGGGGCAGCTCATTGACATTAAAGgtgagccccctttcacattagttgcttacctttcacactggaagtcagac Alignment from Pairagon TCTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTA-CATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACATCAAAG tgctgaacttttctgtgacattcttccttaatcttatctccactgctcagTCTCCAATGAAGTGCCAGAACACCCCTGCGTGTCACCTGTCTCCAACCACGTGTATGAGCAGCGACTTATTGAGAAGTACCATCGCAGAGAATGGCACAGATCCTATCAACAACCAG-CTCTCTCAGAGGGGCAGCTCATTGACATTAAAGgtgagccccctttcacattagttgcttacctttcacactggaagtcagac Alignment from Exonerate_protein2genome CTGATCTGCTCGATCTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTAC-ATTGCAGAGAATGGCACAGATCCTATCAACAACCAG--CCTCTCTCAGAGGAGCAGCTCATCGACATCAAAG tgctgaacttttctgtgacattcttccttaatcttatCTCCACTGCTCAGTCTCCAATGAAGTGCCAGAACACCCCTGCGTGTCACCTGTCTCCAACCACGTGTATGAGCAGCGACTTATTGAGAAGTACCATCGCAGAGAATGGCACAGATCCTATCAACAACCAGCT---CTCTCAGAGGGGCAGCTCATTGACATTAAAGgtgagccccctttcacattagttgcttacctttcacactggaagtcagac Alignment from Exonerate_coding2genome CTGATCTGCTCGATCTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTAC-ATTGCAGAGAATGGCACAGATCCTATCAACAACCAG--CCTCTCTCAGAGGAGCAGCTCATCGACATCAAAG tgctgaacttttctgtgacattcttccttaatcttatCTCCACTGCTCAGTCTCCAATGAAGTGCCAGAACACCCCTGCGTGTCACCTGTCTCCAACCACGTGTATGAGCAGCGACTTATTGAGAAGTACCATCGCAGAGAATGGCACAGATCCTATCAACAACCAGCT---CTCTCAGAGGGGCAGCTCATTGACATTAAAGgtgagccccctttcacattagttgcttacctttcacactggaagtcagac Alignment from GeneWise TCCCTGATCTGCTCGATCTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTACATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACATCAAA- tgaacttttctgtgacattcttccttaatcttat---CTCCACTGCTCAGTCTCCAATGAAGTGCCAGAACACCCCTGCGTGTCACCTGTCTCCAACCACGTGTATGAGCAGCGACTTATTGAGAAGTACCATCGCAGAGAATGGCACAGATCCTATCAACAACCAGCTCTCTCAGAGGGGCAGCTCATTGACATTAAAGgtgagccccctttcacattagttgcttacctttcacactggaagtcagac #### Prpf19_ID3044_3 --> 2 - 0 Original Alignment ttGCTCACCCAATCCGA-CCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttacatgcaagcaatatgctgcactgctgccttcctgtagttGCACACCCAATTCGACCCCAAGCCTCCCTCTGCGACCAGTATTCCAGCCATCCTAA-GGCCTTGCAAGATGAGTGGgtgaggaaactctggcacctctctctcctgcagGATGCAGTCATGCTGCA Alignment from CESAR ttGCTCACCCAATCCGA-CCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttacatgcaagcaatatgctgcactgctgccttcctgtagttGCACACCCAATTCGACCCCAAGCCTCCCTCTGCGACCAGTATTCCAGCCATCC-TAAGGCCTTGCAAGATGAGTGGgtgaggaaacttacttctctttatttgtaatagGATGCAGTCATGCTGCA Alignment from Spaln_aa2Genome TTGCTCACCCAATCCGA-CCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttacatgcaagcaatatgctgcactgctgccttcctgtagTTGCACACCCAATTCGAcCCCAAGCCTCCCTCTGCGACCAGTATTCCAGCCATCCT-AAGGCCTTGCAAGATGAGTGGgtgaggaaactctggcacctctctctcctgcagGATGCAGTCATGCTGCA Alignment from Spaln_nt2Genome TTGCTCACCCAATCCGACCC-AAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttacatgcaagcaatatgctgcactgctgccttcctgtagTTGCACACCCAATTCGACCCCAAGCCTCCCTCTGCGACCAGTATTCCAGCCATCCT-AAGGCCTTGCAAGATGAGTGGgtgaggaaactctggcacctctctctcctgcagGATGCAGTCATGCTGCA Alignment from Pairagon TTGCTCACCCAATCCGA-CCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttacatgcaagcaatatgctgcactgctgccttcctgtagTTGCACACCCAATTCGACCCCAAGCCTCCCTCTGCGACCAGTATTCCAGCCATCCT-AAGGCCTTGCAAGATGAGTGGgtgaggaaactctggcacctctctctcctgcagGATGCAGTCATGCTGCA Alignment from Exonerate_protein2genome TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttacatgcaagcaatatgctgcactgctgccttcctgtagTTGCACACCCAATTCGACCCCAAGCCTCCCTCTGCGACCAGTATTCCAGCCATCCTAAGGCCTTGCAAGATGAGTGGgtgaggaaactctggcacctctctctcctgcagGATGCAGTCATGCTGCA Alignment from Exonerate_coding2genome TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA atgtgagaggttacatgcaagcaatatgctgcactgctgccttcctgtagTTGCACACCCAATTCGACCCCAAGCCTCCCTCTGCGACCAGTATTCCAGCCATCCTAAGGCCTTGCAAGATGAGTGGgtgaggaaactctggcacctctctctcctgcagGATGCAGTCATGCTGCA Alignment from GeneWise TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG---------------------------------GATGCAGTCATGCTGCA atgtgagaggttacatgcaagcaatatgctgcactgctgccttcctgtagTTGCACACCCAATTCGACCCCAAGCCTCCCTCTGCGACCAGTATTCCAGCCATCCTAAGGCCTTGCAAGATGAGTGGGTGAGGAAACTCTGGCACCTCTCTCTCCTGCAGGATGCAGTCATGCTGCA #### Prpf19_ID3046_5 --> 2 - 0 Original Alignment CTCGAGAAg ctCTGGCTACTCTGAAACCACAG-GCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG CTCGAGAAggtagaactcattccactgtttatgtttaacttctgttttagccTTGGCCACCCTAAAACCACAACGCTGGCCTGATAGTACCTCAAGCTGTGCCAAGCTCAC-ACCCAGTGTAATAgtaagatgtgcgcccttagcaccccactagcaaatagtacctcatgagag Alignment from CESAR CTCGAGAAg ctCTGGCTACTCTGAAACCACAG-GCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG CTCGAGAAggtaagtctcattccactgtttatgtttaacttctgttttagccTTGGCCACCCTAAAACCACAACGCTGGCCTGATAGTACCTCAAGCTGTGCCAAGCTCAC-ACCCAGTGTAATAgtaagatgtgcgcccttagcaccccactagcaaatagtacctcatgagag Alignment from Spaln_aa2Genome CTCGAGAAG CTCTGGCTACTCTGAAACCACAG-GCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCC CTCGAGAAGgtagaactcattccactgtttatgtttaacttctgttttagCCTTGGCCACCCTAAAACCACAAcGCTGGCCTGATAGTACCTCAAGCTGTGCCAAGCTCACACCCAgtgtaatagtaagatgtgcgcccttagcaccccactagcaaatagtacctcatgagag Alignment from Spaln_nt2Genome CTCGAGAAG CTCTGGCTACTCTGAAACCACAG-GCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG CTCGAGAAGgtagaactcattccactgtttatgtttaacttctgttttagCCTTGGCCACCCTAAAACCACAACGCTGGCCTGATAGTACCTCAAGCTGTGCCAAGCTCACA-CCCAGTGTAATAgtaagatgtgcgcccttagcaccccactagcaaatagtacctcatgagag Alignment from Pairagon CTCGAGAAG CTCTGGCTACTCTGAAACCACAG-GCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG CTCGAGAAGgtagaactcattccactgtttatgtttaacttctgttttagCCTTGGCCACCCTAAAACCACAACGCTGGCCTGATAGTACCTCAAGCTGTGCCAAGCTCACA-CCCAGTGTAATAgtaagatgtgcgcccttagcaccccactagcaaatagtacctcatgagag Alignment from Exonerate_protein2genome CTCGAGAAG CTCTGGCTACTCTGAAACCACAG-GCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGT CTCGAGAAGgtagaactcattccactgtttatgtttaacttctgttttagCCTTGGCCACCCTAAAACCACAACGCTGGCCTGATAGTACCTCAAGCTGTGCCAAGCTCACACCCAGTGTAATAgtaagatgtgcgcccttagcaccccactagcaaatagtacctcatgagag Alignment from Exonerate_coding2genome CTCGAGAAG CTCTGGCTACTCTGAAACCACAG-GCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGT CTCGAGAAGgtagaactcattccactgtttatgtttaacttctgttttagCCTTGGCCACCCTAAAACCACAACGCTGGCCTGATAGTACCTCAAGCTGTGCCAAGCTCACACCCAGTGTAATAgtaagatgtgcgcccttagcaccccactagcaaatagtacctcatgagag Alignment from GeneWise CTCGAGAAG CTCTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG CTCGAGAAGgtagaactcattccactgtttatgtttaacttctgttttagCCTTGGCCACCCTAAAACCACAACGCTGGCCTGATAGTACCTCAAGCTGTGCCAAGCTCACACCCAGTGTAATAgtaagatgtgcgcccttagcaccccactagcaaatagtacctcatgagag #### Prpf19_ID3054_13 --> 2 - 0 Original Alignment ctCTTACCTGTGCACAGTTCCACCCTGATGGG-CTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG aaaaatatgatcctacatgattagcaaggcatctgccttgtctctttcagccCTTACCTGTGCACAGTTCCACCCTGATGGGCCTTACCTTTGGAAGTGGGACTATGGACTCCCAAA-TAGAATTTGGGACCTCAAGgtagggggatatagacatgaacaaagggaggtagtggtggggaattgatc Alignment from CESAR ctCTTACCTGTGCACAGTTCCACCCTGATGGG-CTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG aaaaatatgatcctacatgattagcaaggcatctgccttgtctctttcagccCTTACCTGTGCACAGTTCCACCCTGATGGGCCTTACCTTTGGAAGTGGGACTATGGACTCCCAAA-TAGAATTTGGGACCTCAAGgtagggggatatagacatgaacaaagggaggtagtggtggggaattgatc Alignment from Spaln_aa2Genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG aaaaatatgatcctacatgattagcaaggcatctgccttgtctctttcagCCCTTACCTGTGCACAGTTCCACCCTGATGGGCCTTACCTTTGGAAGTGGGACTATGGACTCCCAAATAGAATTTGGGACCTCAAGgtagggggatatagacatgaacaaagggaggtagtggtggggaattgatc Alignment from Spaln_nt2Genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGC-TCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG aaaaatatgatcctacatgattagcaaggcatctgccttgtctctttcagCCCTTACCTGTGCACAGTTCCACCCTGATGGGCCTTACCTTTGGAAGTGGGACTATGGACTCCCAAAT-AGAATTTGGGACCTCAAGgtagggggatatagacatgaacaaagggaggtagtggtggggaattgatc Alignment from Pairagon CTCTTACCTGTGCACAGTTCCACCCTGATGGG-CTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG aaaaatatgatcctacatgattagcaaggcatctgccttgtctctttcagCCCTTACCTGTGCACAGTTCCACCCTGATGGGCCTTACCTTTGGAAGTGGGACTATGGACTCCCAAAT-AGAATTTGGGACCTCAAGgtagggggatatagacatgaacaaagggaggtagtggtggggaattgatc Alignment from Exonerate_protein2genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG aaaaatatgatcctacatgattagcaaggcatctgccttgtctctttcagCCCTTACCTGTGCACAGTTCCACCCTGATGGGCCTTACCTTTGGAAGTGGGACTATGGACTCCCAAATAGAATTTGGGACCTCAAGgtagggggatatagacatgaacaaagggaggtagtggtggggaattgatc Alignment from Exonerate_coding2genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG aaaaatatgatcctacatgattagcaaggcatctgccttgtctctttcagCCCTTACCTGTGCACAGTTCCACCCTGATGGGCCTTACCTTTGGAAGTGGGACTATGGACTCCCAAATAGAATTTGGGACCTCAAGgtagggggatatagacatgaacaaagggaggtagtggtggggaattgatc Alignment from GeneWise CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG aaaaatatgatcctacatgattagcaaggcatctgccttgtctctttcagCCCTTACCTGTGCACAGTTCCACCCTGATGGGCCTTACCTTTGGAAGTGGGACTATGGACTCCCAAATAGAATTTGGGACCTCAAGgtagggggatatagacatgaacaaagggaggtagtggtggggaattgatc #### Pygm_ID1678_2 --> 0 - 0 Original Alignment AGGATCTACTACCTGTCTTTGGAGTTCTACATGGGCCGGACA-CTGCAGAACACCATGGTGAACCTGGCCTTGGAGAACGCCTGTGATGAGGCCACTTACCAG tagtgaacctgctttctgagacctttcatattttgcctcccttttgctagCGGATTTATTATCTGTCTTTGGAGTTCTTCATGGGCCGGACACCTACAAAACACCATGGTAAATCTTGCCT-AGGGAACGCCTGTGATGAGGCTACTTACCAGgtgaggaaagcagcatctatgtgagcatttgagttttacagatgccaatt Alignment from CESAR AGGATCTACTACCTGTCTTTGGAGTTCTACATGGGCCGGACA-CTGCAGAACACCATGGTGAACCTGGCCTTGGAGAACGCCTGTGATGAGGCCACTTACCAG tagtgaacctgctttctgagacctttcatattttgcctcccttttgctagCGGATTTATTATCTGTCTTTGGAGTTCTTCATGGGCCGGACACCTACAAAACACCATGGTAAATCTTG-CCTAGGGAACGCCTGTGATGAGGCTACTTACCAGgtgaggaaagcagcatctatgtgagcatttgagttttacagatgccattc Alignment from Spaln_aa2Genome AGGATCTACTACCTGTCTTTGGAGTTCTACATGGGCCGGACACTGCAGAACACCATGGTGAACCTGGCCTTGGAGAACGCCTGTGATGAGGCCACTTACCAG tagtgaacctgctttctgagacctttcatattttgcctcccttttgctagCGGATTTATTATCTGTCTTTGGAGTTCTTCATGGGCCGGACACCTACAAAACACCATGGTAAATCTTGCCTAGGGAACGCCTGTGATGAGGCTACTTACCAGgtgaggaaagcagcatctatgtgagcatttgagttttacagatgccaatt Alignment from Spaln_nt2Genome AGGATCTACTACCTGTCTTTGGAGTTCTACATGGGCCGGACAC-TGCAGAACACCATGGTGAACCTGGCCTTGGAGAACGCCTGTGATGAGGCCACTTACCAG tagtgaacctgctttctgagacctttcatattttgcctcccttttgctagCGGATTTATTATCTGTCTTTGGAGTTCTTCATGGGCCGGACACCTACAAAACACCATGGTAAATCTTGCCTAGG-GAACGCCTGTGATGAGGCTACTTACCAGgtgaggaaagcagcatctatgtgagcatttgagttttacagatgccaatt Alignment from Pairagon AGGATCTACTACCTGTCTTTGGAGTTCTACATGGGCCGGACA-CTGCAGAACACCATGGTGAACCTGGCCTTGGAGAACGCCTGTGATGAGGCCACTTACCAG tagtgaacctgctttctgagacctttcatattttgcctcccttttgctagCGGATTTATTATCTGTCTTTGGAGTTCTTCATGGGCCGGACACCTACAAAACACCATGGTAAATCTTGCCTAGG-GAACGCCTGTGATGAGGCTACTTACCAGgtgaggaaagcagcatctatgtgagcatttgagttttacagatgccaatt Alignment from Exonerate_protein2genome AGGATCTACTACCTGTCTTTGGAGTTCTACATGGGCCGGACACTGCAGAACACCATGGTGAACCTGGCCTTGGAGAACGCCTGTGATGAGGCCACTTACCAG tagtgaacctgctttctgagacctttcatattttgcctcccttttgctagCGGATTTATTATCTGTCTTTGGAGTTCTTCATGGGCCGGACACCTACAAAACACCATGGTAAATCTTGCCTAGGGAACGCCTGTGATGAGGCTACTTACCAGgtgaggaaagcagcatctatgtgagcatttgagttttacagatgccaatt Alignment from Exonerate_coding2genome tagtgaacctgctttctgagacctttcatattttgcctcccttttgctagcggatttattatctgtctttggagttcttcatgggccggacacctacaaaacaccatggtaaatcttgcctagggaacgcctgtgatgaggctacttaccaggtgaggaaagcagcatctatgtgagcatttgagttttacagatgccaatt Alignment from GeneWise AGGATCTACTACCTGTCTTTGGAGTTCTACATGGGCCGGACACTGCAGAACACCATGGTGAACCTGGCCTTGGAGAACGCCTGTGATGAGGCCACTTACCAG tagtgaacctgctttctgagacctttcatattttgcctcccttttgctagCGGATTTATTATCTGTCTTTGGAGTTCTTCATGGGCCGGACACCTACAAAACACCATGGTAAATCTTGCCTAGGGAACGCCTGTGATGAGGCTACTTACCAGgtgaggaaagcagcatctatgtgagcatttgagttttacagatgccaatt #### Pygm_ID1680_4 --> 2 - 0 Original Alignment ctTGCTTTTTGGACTCCATGGCC-ACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG agtatttgtagccttcaggtctttacaggaaatcactttttatttttcagctTGCTTTCTGGACTCTATGGCCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGA-CCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtgagtaatcctgaccctaatattttttggggtttagtcatagtaattag Alignment from CESAR ctTGCTTTTTGGACTCCATGGCCACC-CTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG agtatttgtagccttcaggtctttacaggaaatcactttttatttttcagctTGCTTTCTGGACTCTATGGCCCCCCCTAGGGCTTGCTGCTTATGGCTATGGG-ACCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtgagtaatcctgaccctaatattttttggggtttagtcatagtaattag Alignment from Spaln_aa2Genome CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG agtatttgtagccttcaggtctttacaggaaatcactttttatttttcagCTTGCTTTCTGGACTCTATGGCCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGACCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtgagtaatcctgaccctaatattttttggggtttagtcatagtaattag Alignment from Spaln_nt2Genome CTTGCTTTTTGGACTCCATGGCCACCC-TGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG agtatttgtagccttcaggtctttacaggaaatcactttttatttttcagCTTGCTTTCTGGACTCTATGGCCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGA-CCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtgagtaatcctgaccctaatattttttggggtttagtcatagtaattag Alignment from Pairagon CTTGCTTTTTGGACTCCATGG-CCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG agtatttgtagccttcaggtctttacaggaaatcactttttatttttcagCTTGCTTTCTGGACTCTATGGCCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGA-CCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtgagtaatcctgaccctaatattttttggggtttagtcatagtaattag Alignment from Exonerate_protein2genome CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAGATGGAAGAAGCTGATGACTGG agtatttgtagccttcaggtctttacaggaaatcactttttatttttcagCTTGCTTTCTGGACTCTATGGCCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGACCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGGTGAGTAATCCTGACCCTAATattttttggggtttagtcatagtaattag Alignment from Exonerate_coding2genome agtatttgtagccttcaggtctttacaggaaatcactttttatttttcagcttgctttctggactctatggccccccctagggcttgctgcttatggctatgggaccgctatgagtttggaatttttaatcagaagatctgtgggggttggcaggtgagtaatcctgaccctaatattttttggggtttagtcatagtaattag Alignment from GeneWise CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG agtatttgtagccttcaggtctttacaggaaatcactttttatttttcagCTTGCTTTCTGGACTCTATGGCCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGACCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtgagtaatcctgaccctaatattttttggggtttagtcatagtaattag #### Pygm_ID1684_8 --> 0 - 0 Original Alignment TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCT-GCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG agttgtgaccacctgacatgacgtggcgtttcctttctttgtacacatagTTCTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTCGCCAGCCTTCAAGACATCATCCGATGTTTCA-GTCCTCCAAGTTAGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtaaggtctggctcaagttgttactctacccaacatctcacaaagtatct Alignment from CESAR TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCT-GCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG agttgtgaccacctgacatgacgtggcgtttcctttctttgtacacatagTTCTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTCGCCAGCCTTCAAGACATCATCCGA-TGTTTCAGTCCTCCAAGTTAGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtaaggtctggctcaagttgttactctacccaacatctcacaaagtatct Alignment from Spaln_aa2Genome TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG agttgtgaccacctgacatgacgtggcgtttcctttctttgtacacatagTTCTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTCGCCAGCCTTCAAGACATCATCCGATGTTTCAGTCCTCCAAGTTAGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtaaggtctggctcaagttgttactctacccaacatctcacaaagtatct Alignment from Spaln_nt2Genome TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCT-GCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG agttgtgaccacctgacatgacgtggcgtttcctttctttgtacacatagTTCTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTCGCCAGCCTTCAAGACATCATCCGATGTTTC-AGTCCTCCAAGTTAGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtaaggtctggctcaagttgttactctacccaacatctcacaaagtatct Alignment from Pairagon TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCT-GCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG agttgtgaccacctgacatgacgtggcgtttcctttctttgtacacatagTTCTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTCGCCAGCCTTCAAGACATCATCCGATGTTTC-AGTCCTCCAAGTTAGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtaaggtctggctcaagttgttactctacccaacatctcacaaagtatct Alignment from Exonerate_protein2genome TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG agttgtgaccacctgacatgacgtggcgtttcctttctttgtacacatagTTCTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTCGCCAGCCTTCAAGACATCATCCGATGTTTCAGTCCTCCAAGTTAGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtaaggtctggctcaagttgttactctacccaacatctcacaaagtatct Alignment from Exonerate_coding2genome TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG agttgtgaccacctgacatgacgtggcgtttcctttctttgtacacatagTTCTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTCGCCAGCCTTCAAGACATCATCCGATGTTTCAGTCCTCCAAGTTAGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtaaggtctggctcaagttgttactctacccaacatctcacaaagtatct Alignment from GeneWise TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG agttgtgaccacctgacatgacgtggcgtttcctttctttgtacacatagTTCTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTCGCCAGCCTTCAAGACATCATCCGATGTTTCAGTCCTCCAAGTTAGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtaaggtctggctcaagttgttactctacccaacatctcacaaagtatct #### Pygm_ID1687_11 --> 0 - 2 Original Alignment CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGC-ATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCat gagggggaagacttctgaaccaggggtctttttcgtatcttcaccattagCGGGTGGCAGCTGCATCCCCAGGGGATGTAGACAGGCTGTGGCGCATGTCACTTGTGGAGGATGGAGCAGTAAGGCGCCATCAACATGTCACATCTGTGCATTACAGGCTCACATG-TGTCAACAGTCTGGCCCGAATCCATTCAGAGATCCTCAAAAAGACCatgtaagtattgagattgagttaggcaacagggccacaagatagaaagctac Alignment from CESAR CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGC-ATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCat gagggggaagacttctgaaccaggggtctttttcgtatcttcaccattagCGGGTGGCAGCTGCATCCCCAGGGGATGTAGACAGGCTGTGGCGCATGTCACTTGTGGAGGATGGAGCAGTAAGGCGCCATCAACATGTCACATCTGTGCATTACAGGCTCACATG-TGTCAACAGTCTGGCCCGAATCCATTCAGAGATCCTCAAAAAGACCatgtaagtattgagattgagttaggcaacagggccacaagatagaaagctac Alignment from Spaln_aa2Genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gagggggaagacttctgaaccaggggtctttttcgtatcttcaccattagCGGGTGGCAGCTGCATCCCCAGGGGATGTAGACAGGCTGTGGCGCATGTCACTTGTGGAGGATGGAGCAGTAAGGCGCCATCAACATGTCACATCTGTGCATTACAGGCTCACATGTGTCAACAGTCTGGCCCGAATCCATTCAGAGATCCTCAAAAAGACCATgtaagtattgagattgagttaggcaacagggccacaagatagaaagctac Alignment from Spaln_nt2Genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGC-ATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gagggggaagacttctgaaccaggggtctttttcgtatcttcaccattagCGGGTGGCAGCTGCATCCCCAGGGGATGTAGACAGGCTGTGGCGCATGTCACTTGTGGAGGATGGAGCAGTAAGGCGCCATCAACATGTCACATCTGTGCATTACAGGCTCACATG-TGTCAACAGTCTGGCCCGAATCCATTCAGAGATCCTCAAAAAGACCATgtaagtattgagattgagttaggcaacagggccacaagatagaaagctac Alignment from Pairagon CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACG-CATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gagggggaagacttctgaaccaggggtctttttcgtatcttcaccattagCGGGTGGCAGCTGCATCCCCAGGGGATGTAGACAGGCTGTGGCGCATGTCACTTGTGGAGGATGGAGCAGTAAGGCGCCATCAACATGTCACATCTGTGCATTACAGGCTCACATG-TGTCAACAGTCTGGCCCGAATCCATTCAGAGATCCTCAAAAAGACCATgtaagtattgagattgagttaggcaacagggccacaagatagaaagctac Alignment from Exonerate_protein2genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGC-ATCAACATGGCACACCTGTGCATTGCTGGCTCGCAC--GCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gagggggaagacttctgaaccaggggtctttttcgtatcttcaccattagCGGGTGGCAGCTGCATCCCCAGGGGATGTAGACAGGCTGTGGCGCATGTCACTTGTGGAGGATGGAGCAGTAAGGCGCCATCAACATGTCACATCTGTGCATTACAGGCTCACATGT---GTCAACAGTCTGGCCCGAATCCATTCAGAGATCCTCAAAAAGACCATgtaagtattgagattgagttaggcaacagggccacaagatagaaagctac Alignment from Exonerate_coding2genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGC-ATCAACATGGCACACCTGTGCATTGCTGGCTCGCAC--GCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gagggggaagacttctgaaccaggggtctttttcgtatcttcaccattagCGGGTGGCAGCTGCATCCCCAGGGGATGTAGACAGGCTGTGGCGCATGTCACTTGTGGAGGATGGAGCAGTAAGGCGCCATCAACATGTCACATCTGTGCATTACAGGCTCACATGT---GTCAACAGTCTGGCCCGAATCCATTCAGAGATCCTCAAAAAGACCATgtaagtattgagattgagttaggcaacagggccacaagatagaaagctac Alignment from GeneWise CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gagggggaagacttctgaaccaggggtctttttcgtatcttcaccattagCGGGTGGCAGCTGCATCCCCAGGGGATGTAGACAGGCTGTGGCGCATGTCACTTGTGGAGGATGGAGCAGTAAGGCGCCATCAACATGTCACATCTGTGCATTACAGGCTCACATGTGTCAACAGTCTGGCCCGAATCCATTCAGAGATCCTCAAAAAGACCATgtaagtattgagattgagttaggcaacagggccacaagatagaaagctac #### Rab3il1_ID2648_4 --> 0 - 0 Original Alignment GAAGCTCACAAGATGGTTCGGGAAGCC-AACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG cctattcctgtcctggttcttttagtggtgcatttttctccttttcttagGAAGCCCACAAAATGGTGCAGGAAGCACAACATGAAACAGGCAACATCAGAAAAGCAGC-GAAGGAAGCTTGGGGCAAGgtgagttggggcaaagtgatcgcgagtgccgtttacccctgttaccaagc Alignment from CESAR GAAGCTCACAAGATGGTTCGGGAAGCC-AACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG cctattcctgtcctggttcttttagtggtgcatttttctccttttcttagGAAGCCCACAAAATGGTGCAGGAAGCACAACATGAAACAGGCAACATCAGAAAAGCAG-CGAAGGAAGCTTGGGGCAAGgtgagttggggcaaagtgatcgcgagtgccgtttacccctgttaccaagc Alignment from Spaln_aa2Genome GAAGCTCACAAGATGGTTCGGGAAGCC-AACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG cctattcctgtcctggttcttttagtggtgcatttttctccttttcttagGAAGCCCACAAAATGGTGCAGGAAGCAcAACATGAAACAGGCAACATCAGAAAAGCAGCG-AAGGAAGCTTGGGGCAAGgtgagttggggcaaagtgatcgcgagtgccgtttacccctgttaccaagc Alignment from Spaln_nt2Genome GAAGCTCACAAGATGGTTCGGGAAGC-CAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG cctattcctgtcctggttcttttagtggtgcatttttctccttttcttagGAAGCCCACAAAATGGTGCAGGAAGCACAACATGAAACAGGCAACATCAGAAAAGCAG-CGAAGGAAGCTTGGGGCAAGgtgagttggggcaaagtgatcgcgagtgccgtttacccctgttaccaagc Alignment from Pairagon ----------------------------------------------TGAGGAAGCTCACAAGATGGTTCGGGAAGC-CAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG CCTATTCCTGTCCTGGTTCTTTTAGTGGTGCATTTTTCTCCTTTTCTTAGGAAGCCCACAAAATGGTGCAGGAAGCACAACATGAAACAGGCAACATCAGAAAAGCAG-CGAAGGAAGCTTGGGGCAAGgtgagttggggcaaagtgatcgcgagtgccgtttacccctgttaccaagc Alignment from Exonerate_protein2genome GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG cctattcctgtcctggttcttttagtggtgcatttttctccttttcttagGAAGCCCACAAAATGGTGCAGGAAGCACAACATGAAACAGGCAACATCAGAAAAGCAGCGAAGGAAGCTTGGGGCAAGgtgagttggggcaaagtgatcgcgagtgccgtttacccctgttaccaagc Alignment from Exonerate_coding2genome GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG cctattcctgtcctggttcttttagtggtgcatttttctccttttcttagGAAGCCCACAAAATGGTGCAGGAAGCACAACATGAAACAGGCAACATCAGAAAAGCAGCGAAGGAAGCTTGGGGCAAGgtgagttggggcaaagtgatcgcgagtgccgtttacccctgttaccaagc Alignment from GeneWise GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG cctattcctgtcctggttcttttagtggtgcatttttctccttttcttagGAAGCCCACAAAATGGTGCAGGAAGCACAACATGAAACAGGCAACATCAGAAAAGCAGCGAAGGAAGCTTGGGGCAAGgtgagttggggcaaagtgatcgcgagtgccgtttacccctgttaccaagc #### Rasgrp2_ID1703_2 --> 2 - 2 Original Alignment atGACTCCGGAAAGGTGCGAGATCCA-CAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACtt ccgatgtcctcagcaggcttaagctccagatatcttacattctcttacagatGATTCAGGAAAGGTGCAAGATTCCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGGT-TATACCTTCCACTCAGTTGGCTTCAAAACTGCTCCACttgtgagtttggtggtccataacattggaagatgttgagtgtctagtaccaa Alignment from CESAR atGACTCCGGAAAGGTGCGAGAT-CCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACtt ccgatgtcctcagcaggcttaagctccagatatcttacattctcttacagatGATTCAGGAAAGGTGCAAGATTCCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGG-TTATACCTTCCACTCAGTTGGCTTCAAAACTGCTCCACttgtgagtttggtggtccataacattggaagatgttgagtgtctagtaccaa Alignment from Spaln_aa2Genome ATGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT ccgatgtcctcagcaggcttaagctccagatatcttacattctcttacagATGATTCAGGAAAGGTGCAAGATTCCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGGTTATACCTTCCACTCAGTTGGCTTCAAAACTGCTCCACTTgtgagtttggtggtccataacattggaagatgttgagtgtctagtaccaa Alignment from Spaln_nt2Genome ATGACTCCGGAAAGGTGCGAGAT-CCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT ccgatgtcctcagcaggcttaagctccagatatcttacattctcttacagATGATTCAGGAAAGGTGCAAGATTCCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGGT-TATACCTTCCACTCAGTTGGCTTCAAAACTGCTCCACTTgtgagtttggtggtccataacattggaagatgttgagtgtctagtaccaa Alignment from Pairagon ATGACTCCGGAAAGGTGCGAGA-TCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT ccgatgtcctcagcaggcttaagctccagatatcttacattctcttacagATGATTCAGGAAAGGTGCAAGATTCCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGGT-TATACCTTCCACTCAGTTGGCTTCAAAACTGCTCCACTTgtgagtttggtggtccataacattggaagatgttgagtgtctagtaccaa Alignment from Exonerate_protein2genome ATGACTCCGGAAAGGTGCGAGAT-CCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGG--TACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT ccgatgtcctcagcaggcttaagctccagatatcttacattctcttacagATGATTCAGGAAAGGTGCAAGATTCCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGGTT---ATACCTTCCACTCAGTTGGCTTCAAAACTGCTCCACTTgtgagtttggtggtccataacattggaagatgttgagtgtctagtaccaa Alignment from Exonerate_coding2genome ATGACTCCGGAAAGGTGCGAGAT-CCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGG--TACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT ccgatgtcctcagcaggcttaagctccagatatcttacattctcttacagATGATTCAGGAAAGGTGCAAGATTCCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGGTT---ATACCTTCCACTCAGTTGGCTTCAAAACTGCTCCACTTgtgagtttggtggtccataacattggaagatgttgagtgtctagtaccaa Alignment from GeneWise GGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT ccgatgtcctcagcaggcttaagctccagatatcttacattctcttacagatgattcaggaaagGTGCAAGATTCCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGGTT-ATACCTTCCACTCAGTTGGCTTCAAAACTGCTCCACTTgtgagtttggtggtccataacattggaagatgttgagtgtctagtaccaa #### Rasgrp2_ID1707_6 --> 0 - 0 Original Alignment TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTG-GAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgaaatccactgttaacagtttcacaatagcttcattttcctctgcagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGCGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCC-GATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtgagtacagttctgtcgtatgagaccagatcctttgttgaatgtacaga Alignment from CESAR TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTG-GAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgaaatccactgttaacagtttcacaatagcttcattttcctctgcagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGCGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCGA-TAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtgagtacagttctgtcgtatgagaccagatcctttgttgaatgtacaga Alignment from Spaln_aa2Genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgaaatccactgttaacagtttcacaatagcttcattttcctctgcagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGCGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtgagtacagttctgtcgtatgagaccagatcctttgttgaatgtacaga Alignment from Spaln_nt2Genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTG-GAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgaaatccactgttaacagtttcacaatagcttcattttcctctgcagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGCGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCGA-TAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtgagtacagttctgtcgtatgagaccagatcctttgttgaatgtacaga Alignment from Pairagon TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTG-GAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgaaatccactgttaacagtttcacaatagcttcattttcctctgcagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGCGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCGA-TAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtgagtacagttctgtcgtatgagaccagatcctttgttgaatgtacaga Alignment from Exonerate_protein2genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTG-GAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTC--CAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgaaatccactgttaacagtttcacaatagcttcattttcctctgcagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGCGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCG---ATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtgagtacagttctgtcgtatgagaccagatcctttgttgaatgtacaga Alignment from Exonerate_coding2genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTG-GAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTC--CAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgaaatccactgttaacagtttcacaatagcttcattttcctctgcagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGCGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCG---ATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtgagtacagttctgtcgtatgagaccagatcctttgttgaatgtacaga Alignment from GeneWise TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgaaatccactgttaacagtttcacaatagcttcattttcctctgcagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGCGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCAGAGgtgagtacagttctgtcgtatgagaccagatcctttgttgaatgtacaga #### Rbp4_ID7524_3 --> 0 - 2 Original Alignment TTCTCTGGGCTCTGG-TATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGag ctaacttagttgggaggtgaacttaggcttaaatgttcatctcaattcagTTTTCAGGGCTCTTGCTATACTATTGCA---AAGGGTCCCAAGGGGC-CTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGaggtaaatgaacctgagtgcagtactgtcactttagccaaataaggagggga Alignment from CESAR TTCTCTGGGCTCTGG-TATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGag ctaacttagttgggaggtgaacttaggcttaaatgttcatctcaattcagTTTTCAGGGCTCTTGCTATACTATTGCA---AAGGGTCCCAAGGGG-CCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGaggtaaatgaacctgagtgcagtactgtcactttagccaaataaggagggga Alignment from Spaln_aa2Genome TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaacttagttgggaggtgaacttaggcttaaatgttcatctcaattcagTTTTCAGGGCTCTTGCTATACTATTGC---AAAGGGTCCCAAGGGGCCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGAGgtaaatgaacctgagtgcagtactgtcactttagccaaataaggagggga Alignment from Spaln_nt2Genome TTCTCTGGGCTCTGG-TATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaacttagttgggaggtgaacttaggcttaaatgttcatctcaattcagTTTTCAGGGCTCTTGCTATACTATTGC---AAAGGGTCCCAAGGGGC-CTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGAGgtaaatgaacctgagtgcagtactgtcactttagccaaataaggagggga Alignment from Pairagon TTCTCTGGGCTC-TGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaacttagttgggaggtgaacttaggcttaaatgttcatctcaattcagTTTTCAGGGCTCTTGCTATACTATTGC---AAAGGGTCCCAAGGGGC-CTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGAGgtaaatgaacctgagtgcagtactgtcactttagccaaataaggagggga Alignment from Exonerate_protein2genome TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaacttagttgggaggtgaacttaggcttaaatgttcatctcaattcagTTTTCAGGGCTCTTGCTATACTATTGC---AAAGGGTCCCAAGGGGCCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGAGgtaaatgaacctgagtgcagtactgtcactttagccaaataaggagggga Alignment from Exonerate_coding2genome AAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaacttagttgggaggtgaacttaggcttaaatgttcatctcaattcagttttcagggctcttgctatactattgcAAAGGGTCCCAAGGGGCCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGAGgtaaatgaacctgagtgcagtactgtcactttagccaaataaggagggga Alignment from GeneWise TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaacttagttgggaggtgaacttaggcttaaatgttcatctcaattcagTTTTCAGGGCTCTTGCTATACTATTGCAAA---GGGTCCCAAGGGGCCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCCTGAGgtaaatgaacctgagtgcagtactgtcactttagccaaataaggagggga #### Rbp4_ID7525_2 --> 0 - 0 Original Alignment GGCAGACTCCGGGGTGAG-ATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT tatgggcattgctttgcttttaaccctgtcactcactgccaggcctacagGGCAGTCTCCGAGGTGCACATGGCATGGGTGTGGGCACTTGTGCTTCTGT-AGCCCTTGGAGGTGGTAGCACAGAGTATGAG------TTAAGCAGCTTTCAAGTTAAAGATAACTTTGACAAAGCTCATgtattattcaactaacttagttgggaggtgaacttaggctaaatactttt Alignment from CESAR GGCAGACTCCGGGGTGAG-ATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT tatgggcattgctttgcttttaaccctgtcactcactgccaggcctacagGGCAGTCTCCGAGGTGCACATGGCATGGGTGTGGGCACTTGTGCTTCTG-TAGCCCTTGGAGGTGGTAGCACAGAGTATGAG------TTAAGCAGCTTTCAAGTTAAAGATAACTTTGACAAAGCTCATgtattattcaactaacttagttgggaggtgaacttaggcttaaatgttca Alignment from Spaln_aa2Genome GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT tatgggcattgctttgcttttaaccctgtcactcactgccaggcctacagGGCAGTCTCCGAGGTGCACATGGCATGGGTGTGGGCACTTGTGCTTCTGTAGCCCTTGGAGGTGGTAGCACAGAGTATGAG------TTAAGCAGCTTTCAAGTTAAAGATAACTTTGACAAAGCTCATgtattattcaactaacttagttgggaggtgaacttaggctaaatactttt Alignment from Spaln_nt2Genome GGCAGACTCCGGGGTG-AGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT tatgggcattgctttgcttttaaccctgtcactcactgccaggcctacagGGCAGTCTCCGAGGTGCACATGGCATGGGTGTGGGCACTTGTGCTTCT-GTAGCCCTTGGAGGTGGTAGCACAGAGTATGA------GTTAAGCAGCTTTCAAGTTAAAGATAACTTTGACAAAGCTCATgtattattcaactaacttagttgggaggtgaacttaggctaaatactttt Alignment from Pairagon GGCAGACTCCGGGGTG-AGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT tatgggcattgctttgcttttaaccctgtcactcactgccaggcctacagGGCAGTCTCCGAGGTGCACATGGCATGGGTGTGGGCACTTGTGCTTCT-GTAGCCCTTGGAGGTGGTAGCACAGAGTATGAGT------TAAGCAGCTTTCAAGTTAAAGATAACTTTGACAAAGCTCATgtattattcaactaacttagttgggaggtgaacttaggctaaatactttt Alignment from Exonerate_protein2genome GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT tatgggcattgctttgcttttaaccctgtcactcactgccaggcctacagGGCAGTCTCCGAGGTGCACATGGCATGGGTGTGGGCACTTGTGCTTCTGTAGCCCTTGGAGGTGGTAGCACAGAGTATGAG------TTAAGCAGCTTTCAAGTTAAAGATAACTTTGACAAAGCTCATgtattattcaactaacttagttgggaggtgaacttaggctaaatactttt Alignment from Exonerate_coding2genome tatgggcattgctttgcttttaaccctgtcactcactgccaggcctacagggcagtctccgaggtgcacatggcatgggtgtgggcacttgtgcttctgtagcccttggaggtggtagcacagagtatgagttaagcagctttcaagttaaagataactttgacaaagctcatgtattattcaactaacttagttgggaggtgaacttaggctaaatactttt Alignment from GeneWise GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT tatgggcattgctttgcttttaaccctgtcactcactgccaggcctacagGGCAGTCTCCGAGGTGCACATGGCATGGGTGTGGGCACTTGTGCTTCTGTAGCCCTTGGAGGTGGTAGCACAGAGTATGAG------TTAAGCAGCTTTCAAGTTAAAGATAACTTTGACAAAGCTCATgtattattcaactaacttagttgggaggtgaacttaggctaaatactttt #### Rce1_ID576_6 --> 2 - 1 Original Alignment CTTTTTTGGAGTCg ccCATTTTCACCACATT-ATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAg CTTTCTTGGGGTTggtaaggctgttgtgcgttagccttcttttcttgtagccCATTTTCAGCACATTCATAGAGCAGTTACGCTTCCGCCAGAGCA-TGTGGGGAGCATCTTTGTGTCTACAggtaattgggaaaagtagtaatgaagagaaaaaagggctggatcttgatag Alignment from CESAR CTTTTTTGGAGTCg ccCATTTTCACCACATT-ATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAg CTTTCTTGGGGTTggtaagtctgttgtgcgttagccttcttttcttgtagccCATTTTCAGCACATTCATAGAGCAGTTACGCTTCCGCCAGAGC-ATGTGGGGAGCATCTTTGTGTCTACAggtaattgggaaaagtagtaatgaagagaaaaaagggctggatcttgatag Alignment from Spaln_aa2Genome CTTTTTTGGAGTCG CCCATTTTCACCACATT-ATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CTTTCTTGGGGTTGgtaaggctgttgtgcgttagccttcttttcttgtagCCCATTTTCAGCACATTcATAGAGCAGTTACGCTTCCGCCAGAGCAT-GTGGGGAGCATCTTTGTGTCTACAGgtaattgggaaaagtagtaatgaagagaaaaaagggctggatcttgatag Alignment from Spaln_nt2Genome CTTTTTTGGAGTCG CCCATTTTCACCACATT-ATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CTTTCTTGGGGTTGgtaaggctgttgtgcgttagccttcttttcttgtagCCCATTTTCAGCACATTCATAGAGCAGTTACGCTTCCGCCAGAGCA-TGTGGGGAGCATCTTTGTGTCTACAGgtaattgggaaaagtagtaatgaagagaaaaaagggctggatcttgatag Alignment from Pairagon CTTTTTTGGAGTCG CCCATTTTCACCACATT-ATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CTTTCTTGGGGTTGgtaaggctgttgtgcgttagccttcttttcttgtagCCCATTTTCAGCACATTCATAGAGCAGTTACGCTTCCGCCAGAGCA-TGTGGGGAGCATCTTTGTGTCTACAGgtaattgggaaaagtagtaatgaagagaaaaaagggctggatcttgatag Alignment from Exonerate_protein2genome CTTTTTTGGAGTCG CCCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CTTTCTTGGGGTTGgtaaggctgttgtgcgttagccttcttttcttgtagCCCATTTTCAGCACATTCATAGAGCAGTTACGCTTCCGCCAGAGCATGTGGGGAGCATCTTTGTGTCTACAGgtaattgggaaaagtagtaatgaagagaaaaaagggctggatcttgatag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CTTTTTTGGAGTCGCCCATTTT CTTTCTTGGGGTTGGTAAGGCTgttgtgcgttagccttcttttcttgtagcccattttcagcacattcatagagcagttacgcttccgccagagcatgtggggagcatctttgtgtctacaggtaattgggaaaagtagtaatgaagagaaaaaagggctggatcttgatag #### Rce1_ID577_5 --> 2 - 1 Original Alignment ccCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCG-CCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCg ccCATTTTCACCAC gtagttttgttcaaacaggtggctagtttttcttttgtctttttgcccagcgCCCTGTTCATGGGCTCAATGTCTGACTGAAATGCGCTGGCTGAGTAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCCATGTACAGGTCTCAGTCCAGCGGTGTTCACATGCC-ACTCTTTCTTGGGGTTggtaagtctgttgtgccgtcccttatacctgatgcagccCATTTTCAGCAC Alignment from CESAR ccCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCG-CCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCg ccCATTTTCACCAC gtagttttgttcaaacaggtggctagtttttcttttgtctttttgcccagcgCCCTGTTCATGGGCTCAATGTCTGACTGAAATGCGCTGGCTGAGTAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCCATGTACAGGTCTCAGTCCAGCGGTGTTCACAT-GCCACTCTTTCTTGGGGTTggtaagtctgttgtgcgttagccttcttttcttgtagccCATTTTCAGCAC Alignment from Spaln_aa2Genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCG-TGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGA---GTCG CCCATTTTCACCAC gtagttttgttcaaacaggtggctagtttttcttttgtctttttgcccagCGCCCTGTTCATGGGCTCAATGTCTGACTGAAATGCGCTGGCTGAGTAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCCaTGTACAGGTCTCAGTCCAGCGGTGTTCACATGCCACTCTTTCTTGGGGTTGGTAAgtctgttgtgccgtcccttatacctgatgcagCCCATTTTCAGCAC Alignment from Spaln_nt2Genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCG-TGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCG CCCATTTTCACCAC gtagttttgttcaaacaggtggctagtttttcttttgtctttttgcccagCGCCCTGTTCATGGGCTCAATGTCTGACTGAAATGCGCTGGCTGAGTAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCCATGTACAGGTCTCAGTCCAGCGGTGTTCACATG-CCACTCTTTCTTGGGGTTGgtaagtctgttgtgccgtcccttatacctgatgcagCCCATTTTCAGCAC Alignment from Pairagon CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCG-CCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCG CCCATTTTCACCAC gtagttttgttcaaacaggtggctagtttttcttttgtctttttgcccagCGCCCTGTTCATGGGCTCAATGTCTGACTGAAATGCGCTGGCTGAGTAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCCATGTACAGGTCTCAGTCCAGCGGTGTTCACATG-CCACTCTTTCTTGGGGTTGgtaagtctgttgtgccgtcccttatacctgatgcagCCCATTTTCAGCAC Alignment from Exonerate_protein2genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCG-CCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTC GCCCATTTTCACCAC gtagttttgttcaaacaggtggctagtttttcttttgtctttttgcccagCGCCCTGTTCATGGGCTCAATGTCTGACTGAAATGCGCTGGCTGAGTAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCCATGTACAGGTCTCAGTCCAGCGGTGTTCACATGCCACTCTTTCTTGGGGTTGgtaagtctgttgtgccgtcccttatacctgatgcaGCCCATTTTCAGCAC Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTC------------------------------------GCCCATTTTCACCAC gtagttttgttcaaacaggtggctagtttttcttttgtctttttgcccagCGCCCTGTTCATGGGCTCAATGTCTGACTGAAATGCGCTGGCTGAGTAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCCATGTACAGGTCTCAGTCCAGCGGTGTTCACATGCCACTCTTTCTTGGGGTTGGTAAGTCTGTTGTGCCGTCCCTTATACCTGATGCAGCCCATTTTCAGCAC #### Rce1_ID580_2 --> 1 - 0 Original Alignment gGACCACCCCGCT-GTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG ctttaatcacaattaccccccagatctgcatctgcctctctgttttgcaggGACCACCCTTCTCGTAGTGAGGCGGCATTTTACCGGTGTTCTGA-TGTATCTAGCTTGTCACCTCTTTGTGTGCTGCTG------GAACTCACTGGCATCCAGgtgtgttgaagaggatgatatcctgggcagcataccgaggaatcttttgc Alignment from CESAR gGACCACCCCGCT-GTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG ctttaatcacaattaccccccagatctgcatctgcctctctgttttgcaggGACCACCCTTCTCGTAGTGAGGCGGCATTTTACCGGTGTTCTGA-TGTATCTAGCTTGTCACCTCTTTGTGTGCTGCTG------GAACTCACTGGCATCCAGgtgtgttgaagaggatgatatcctgggcagcataccgaggaatcttttgc Alignment from Spaln_aa2Genome GGACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG ctttaatcacaattaccccccagatctgcatctgcctctctgttttgcagGGACCACCCTTCTCGTAGTGAGGCGGCATTTTACCGGTGTTCTGATGTATCTAGCTTGTCACCTCTTTGTGTGCTGCTG------GAACTCACTGGCATCCAGgtgtgttgaagaggatgatatcctgggcagcataccgaggaatcttttgc Alignment from Spaln_nt2Genome GGACCACCCCGCTGTTA-TCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG ctttaatcacaattaccccccagatctgcatctgcctctctgttttgcagGGACCACCCTTCTCGTAGTGAGGCGGCATTTTACCGGTGTTCTGAT-GTATCTAGCTTGTCACCTCTTTGTGTGCTGCT------GGAACTCACTGGCATCCAGgtgtgttgaagaggatgatatcctgggcagcataccgaggaatcttttgc Alignment from Pairagon GGACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTG-----------------------------TCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG ctttaatcacaattaccccccagatctgcatctgcctctctgttttgcagGGACCACCC-----------------------------TTCTCGTAGTGAGGCGGCATTTTACCGGTGTTCTGATGTATCTAGCTTGTCACCTCTTTGTGTGCTGCT------GGAACTCACTGGCATCCAGgtgtgttgaagaggatgatatcctgggcagcataccgaggaatcttttgc Alignment from Exonerate_protein2genome GGACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG ctttaatcacaattaccccccagatctgcatctgcctctctgttttgcagGGACCACCCTTCTCGTAGTGAGGCGGCATTTTACCGGTGTTCTGATGTATCTAGCTTGTCACCTCTTTGTGTGCTGCTG------GAACTCACTGGCATCCAGgtgtgttgaagaggatgatatcctgggcagcataccgaggaatcttttgc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GGACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG ctttaatcacaattaccccccagatctgcatctgcctctctgttttgcagGGACCACCCTTCTCGTAGTGAGGCGGCATTTTACCGGTGTTCTGATGTATCTAGCTTGTCACCTCTTTGTGTGCTGCTG------GAACTCACTGGCATCCAGgtgtgttgaagaggatgatatcctgggcagcataccgaggaatcttttgc #### Rela_ID1128_5 --> 1 - 1 Original Alignment cTTCCAGAACCTGGGGATCCAG-TGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACCAACAATAACCCCTTTCACg aaaacatgactttccttagcaaatctaaactcccggcttttgtcttccagtTTCCAGAATTTAGGCATACAGCTGTGTGAAGAAGCGAGACCTGGCACAAGCGATAA-TCAGCGAATTCAGACTACCAATAACCCATTTCATggtgcgtagcggagcagaaaggaattccatctctatatggaccataaatct Alignment from CESAR cTTCCAGAACCTGGGGATCCAG-TGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACCAACAATAACCCCTTTCACg aaaacatgactttccttagcaaatctaaactcccggcttttgtcttccagtTTCCAGAATTTAGGCATACAGCTGTGTGAAGAAGCGAGACCTGGCACAAGCGA-TAATCAGCGAATTCAGACTACCAATAACCCATTTCATggtgcgtagcggagcagaaaggaattccatctctatatggaccataaatct Alignment from Spaln_aa2Genome CTTCCAGAACCTGGGGATCCAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACCAACAATAACCCCTTTCACG aaaacatgactttccttagcaaatctaaactcccggcttttgtcttccagTTTCCAGAATTTAGGCATACAGCTGTGTGAAGAAGCGAGACCTGGCACAAGCGATAATCAGCGAATTCAGACTACCAATAACCCATTTCATGgtgcgtagcggagcagaaaggaattccatctctatatggaccataaatct Alignment from Spaln_nt2Genome CTTCCAGAACCTGGGGATCCAG-TGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACCAACAATAACCCCTTTCACG aaaacatgactttccttagcaaatctaaactcccggcttttgtcttccagTTTCCAGAATTTAGGCATACAGCTGTGTGAAGAAGCGAGACCTGGCACAAGCGA-TAATCAGCGAATTCAGACTACCAATAACCCATTTCATGgtgcgtagcggagcagaaaggaattccatctctatatggaccataaatct Alignment from Pairagon CTTCCAGAACCTGGGGATCCAG-TGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACCAACAATAACCCCTTTCACG aaaacatgactttccttagcaaatctaaactcccggcttttgtcttccagTTTCCAGAATTTAGGCATACAGCTGTGTGAAGAAGCGAGACCTGGCACAAGCGA-TAATCAGCGAATTCAGACTACCAATAACCCATTTCATGgtgcgtagcggagcagaaaggaattccatctctatatggaccataaatct Alignment from Exonerate_protein2genome CTTCCAGAACCTGGGGATCCAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACCAACAATAACCCCTTTCACG aaaacatgactttccttagcaaatctaaactcccggcttttgtcttccagTTTCCAGAATTTAGGCATACAGCTGTGTGAAGAAGCGAGACCTGGCACAAGCGATAATCAGCGAATTCAGACTACCAATAACCCATTTCATGgtgcgtagcggagcagaaaggaattccatctctatatggaccataaatct Alignment from Exonerate_coding2genome aaaacatgactttccttagcaaatctaaactcccggcttttgtcttccagtttccagaatttaggcatacagctgtgtgaagaagcgagacctggcacaagcgataatcagcgaattcagactaccaataacccatttcatggtgcgtagcggagcagaaaggaattccatctctatatggaccataaatct Alignment from GeneWise CTTCCAGAACCTGGGGATCCAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACCAACAATAACCCCTTTCACG aaaacatgactttccttagcaaatctaaactcccggcttttgtcttccagTTTCCAGAATTTAGGCATACAGCTGTGTGAAGAAGCGAGACCTGGCACAAGCGATAATCAGCGAATTCAGACTACCAATAACCCATTTCATGgtgcgtagcggagcagaaaggaattccatctctatatggaccataaatct #### Rin1_ID807_2 --> 1 - 0 Original Alignment gCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAG-GCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG A gggttttagaacaatgggcagaggaagtttgttctatttgcttcttcaaggCCAGCCACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTGCAGCGCTGGTGGGTCACAACAACCAGCATGCAAAGTCAGCCTTCACG-GCGACTGTTGATCACATGTCCTGTGTGGTTACGGCTCCGGGCCAATGCAGCTGCTGTTCTACATGTGCTAAGTACAGAACCTCCAGGGgtgagtctcttggttacgagacctaaatttattgtaatgtctcttatagA Alignment from CESAR gCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAG-GCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG A gggttttagaacaatgggcagaggaagtttgttctatttgcttcttcaaggCCAGCCACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTGCAGCGCTGGTGGGTCACAACAACCAGCATGCAAAGTCAGCCTTCAC-GGCGACTGTTGATCACATGTCCTGTGTGGTTACGGCTCCGGGCCAATGCAGCTGCTGTTCTACATGTGCTAAGTACAGAACCTCCAGGGgtgagtctcttggttacgagacctaaagatatcctacttcaatctgtagA Alignment from Spaln_aa2Genome GCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG A gggttttagaacaatgggcagaggaagtttgttctatttgcttcttcaagGCCAGCCACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTGCAGCGCTGGTGGGTCACAACAACCAGCATGCAAAGTCAGCCTTCACGGCGACTGTTGATCACATGTCCTGTGTGGTTACGGCTCCGGGCCAATGCAGCTGCTGTTCTACATGTGCTAAGTACAGAACCTCCAGGGgtgagtctcttggttacgagacctaaatttattgtaatgtctcttatagA Alignment from Spaln_nt2Genome GCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAG-GCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG A gggttttagaacaatgggcagaggaagtttgttctatttgcttcttcaagGCCAGCCACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTGCAGCGCTGGTGGGTCACAACAACCAGCATGCAAAGTCAGCCTTCACG-GCGACTGTTGATCACATGTCCTGTGTGGTTACGGCTCCGGGCCAATGCAGCTGCTGTTCTACATGTGCTAAGTACAGAACCTCCAGGGgtgagtctcttggttacgagacctaaatttattgtaatgtctcttatagA Alignment from Pairagon GCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAG-GCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG A gggttttagaacaatgggcagaggaagtttgttctatttgcttcttcaagGCCAGCCACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTGCAGCGCTGGTGGGTCACAACAACCAGCATGCAAAGTCAGCCTTCACG-GCGACTGTTGATCACATGTCCTGTGTGGTTACGGCTCCGGGCCAATGCAGCTGCTGTTCTACATGTGCTAAGTACAGAACCTCCAGGGgtgagtctcttggttacgagacctaaatttattgtaatgtctcttatagA Alignment from Exonerate_protein2genome GCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG A gggttttagaacaatgggcagaggaagtttgttctatttgcttcttcaagGCCAGCCACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTGCAGCGCTGGTGGGTCACAACAACCAGCATGCAAAGTCAGCCTTCACGGCGACTGTTGATCACATGTCCTGTGTGGTTACGGCTCCGGGCCAATGCAGCTGCTGTTCTACATGTGCTAAGTACAGAACCTCCAGGGgtgagtctcttggttacgagacctaaatttattgtaatgtctcttatagA Alignment from Exonerate_coding2genome AAAGAAAAGCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG A gggttttagaacaatgggcagaggaagtttgttctatttgctTCTTCAAGGCCAGCCACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTGCAGCGCTGGTGGGTCACAACAACCAGCATGCAAAGTCAGCCTTCACGGCGACTGTTGATCACATGTCCTGTGTGGTTACGGCTCCGGGCCAATGCAGCTGCTGTTCTACATGTGCTAAGTACAGAACCTCCAGGGgtgagtctcttggttacgagacctaaatttattgtaatgtctcttatagA Alignment from GeneWise AAGCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG A gggttttagaacaatgggcagaggaagtttgttctatttgcttcttcaAGGCCAGCCACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTGCAGCGCTGGTGGGTCACAACAACCAGCATGCAAAGTCAGCCTTCACGGCGACTGTTGATCACATGTCCTGTGTGGTTACGGCTCCGGGCCAATGCAGCTGCTGTTCTACATGTGCTAAGTACAGAACCTCCAGGGgtgagtctcttggttacgagacctaaatttattgtaatgtctcttatagA #### Rin1_ID808_3 --> 0 - 1 Original Alignment G ACCTTCCTGGTGCGGAAATCT-AACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCg GgtataactcttggttacgagacctaaagatatcctacttcaatctgtagACATTTGTTATATGCAAATACCAACACTCGACAGTGCCAGGCTCTGTGTGTACGGTTAC-AGAACCTAGTGGCCCAGCTTTTGTCTCCAGTCACTATATTGAGGAAGGTACTGGTggtaagcaggataataaggggggggtctagacacatccctaagtacatgaa Alignment from CESAR G ACCTTCCTGGTGCGGAAA-TCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCg GgtgagtctcttggttacgagacctaaagatatcctacttcaatctgtagACATTTGTTATATGCAAATACCAACACTCGACAGTGCCAGGCTCTGTGTGTACGGTTAC-AGAACCTAGTGGCCCAGCTTTTGTCTCCAGTCACTATATTGAGGAAGGTACTGGTggtaagcaggataataaggggggggtctagacacatccctaagtacatgaa Alignment from Spaln_aa2Genome G ACCTTCCTGGTGCGGAAA-TCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG GgtataactcttggttacgagacctaaagatatcctacttcaatctgtagACATTTGTTATATGCAAAtACCAACACTCGACAGTGCCAGGCTCTGTGTGTACGGTTACA-GAACCTAGTGGCCCAGCTTTTGTCTCCAGTCACTATATTGAGGAAGGTACTGGTGgtaagcaggataataaggggggggtctagacacatccctaagtacatgaa Alignment from Spaln_nt2Genome G ACCTTCCTGGTGCGGAAAT-CTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG GgtataactcttggttacgagacctaaagatatcctacttcaatctgtagACATTTGTTATATGCAAATACCAACACTCGACAGTGCCAGGCTCTGTGTGTACGG-TTACAGAACCTAGTGGCCCAGCTTTTGTCTCCAGTCACTATATTGAGGAAGGTACTGGTGgtaagcaggataataaggggggggtctagacacatccctaagtacatgaa Alignment from Pairagon G--------------------------------------------------------------------ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG GGTATAACTCTTGGTTACGAGACCTAAAGATATCCTACTTCAATCTGTAGACATTTGTTATATGCAAATACC------------------AACACTCGACAGTGCCAGGCTCTGTGTGTACGGTTAC-AGAACCTAGTGGCCCAGCTTTTGTCTCCAGTCACTATATTGAGGAAGGTACTGGTGgtaagcaggataataaggggggggtctagacacatccctaagtacatgaa Alignment from Exonerate_protein2genome GACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTG--CCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG ggtataactcttggttacgagacctaaagatatcctacttcaatctgtagACATTTGTTATATGCAAATACCAACACTCGACAGTGCCAGGCTCTGTGTGTACGGTTACA---GAACCTAGTGGCCCAGCTTTTGTCTCCAGTCACTATATTGAGGAAGGTACTGGTGgtaagcaggataataaggggggggtctagacacatccctaagtacatgaa Alignment from Exonerate_coding2genome GACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTG--CCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG ggtataactcttggttacgagacctaaagatatcctacttcaatctgtagACATTTGTTATATGCAAATACCAACACTCGACAGTGCCAGGCTCTGTGTGTACGGTTACA---GAACCTAGTGGCCCAGCTTTTGTCTCCAGTCACTATATTGAGGAAGGTACTGGTGgtaagcaggataataaggggggggtctagacacatccctaagtacatgaa Alignment from GeneWise G ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG GgtataactcttggttacgagacctaaagatatcctacttcaatctgtagACATTTGTTATATGCAAATACCAACACTCGACAGTGCCAGGCTCTGTGTGTACGGTTACAGAACCTAGTGGCCCAGCTTTTGTCTCCAGTCACTATATTGAGGAAGGTACTGGTGgtaagcaggataataaggggggggtctagacacatccctaagtacatgaa #### Rin1_ID809_4 --> 2 - 2 Original Alignment gtGTCTCTTTGGAGGGCTCA-GAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCag tgagaattgccctgatctaactggatagtgtttctttttctcttctccaggaATCTCTTTGGAGGTCTCACGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTACCaggtgagcctgtctgtgcataactgctgacccgtcaagccaacttggcatgt Alignment from CESAR gtGTCTCTTTGGAGGGCTCA-GAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCag tgagaattgccctgatctaactggatagtgtttctttttctcttctccaggaATCTCTTTGGAGGTCTCACGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTACCaggtgagcctgtctgtgcataactgctgacccgtcaagccaacttggcatgt Alignment from Spaln_aa2Genome GTGTCTCTTTGGAGGGCTCA-GAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgagaattgccctgatctaactggatagtgtttctttttctcttctccagGAATCTCTTTGGAGGTCTCAcGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTACCAGgtgagcctgtctgtgcataactgctgacccgtcaagccaacttggcatgt Alignment from Spaln_nt2Genome GTGTCTCTTTGGAGGGCTCA-GAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgagaattgccctgatctaactggatagtgtttctttttctcttctccagGAATCTCTTTGGAGGTCTCACGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTACCAGgtgagcctgtctgtgcataactgctgacccgtcaagccaacttggcatgt Alignment from Pairagon GTGTCTCTTTGGAGGGCTCA-GAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgagaattgccctgatctaactggatagtgtttctttttctcttctccagGAATCTCTTTGGAGGTCTCACGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTACCAGgtgagcctgtctgtgcataactgctgacccgtcaagccaacttggcatgt Alignment from Exonerate_protein2genome GTGTCTCTTTGGAGGGCTCA-GAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgagaattgccctgatctaactggatagtgtttctttttctcttctccagGAATCTCTTTGGAGGTCTCACGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTACCAGgtgagcctgtctgtgcataactgctgacccgtcaagccaacttggcatgt Alignment from Exonerate_coding2genome GTGTCTCTTTGGAGGGCTCA-GAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgagaattgccctgatctaactggatagtgtttctttttctcttctccagGAATCTCTTTGGAGGTCTCACGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTACCAGgtgagcctgtctgtgcataactgctgacccgtcaagccaacttggcatgt Alignment from GeneWise CTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgagaattgccctgatctaactggatagtgtttctttttctcttctccaggaatctctttggagGTCT---------CACGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTACCAGgtgagcctgtctgtgcataactgctgacccgtcaagccaacttggcatgt #### Rin1_ID813_8 --> 2 - 1 Original Alignment gaGAGAATGCAGGTGCTGATGAG-TTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTC---ACTGGAGAGg tgactctaaattccaaacctcaagtacacttgcttttttaaacatttcaggaGAAAATACAGGTGCTGATCAGCTTCCTCCCCCTGCTAAGTCTTATTTTGGCACAGTGTG-CCTGCCAGACCTCTTATTGGAAGCTGAGTATATGTCAGAGCTTCTTGAACCAACTCTACTCACCGCAGGTGAGggtaccgatcactcttatatagtatgacctggtacttgttagtaggtcctt Alignment from CESAR gaGAGAATGCAGGTGCTGATGAG-TTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACT---GGAGAGg tgactctaaattccaaacctcaagtacacttgcttttttaaacatttcaggaGAAAATACAGGTGCTGATCAGCTTCCTCCCCCTGCTAAGTCTTATTTTGGCACAGTGT-GCCTGCCAGACCTCTTATTGGAAGCTGAGTATATGTCAGAGCTTCTTGAACCAACTCTACTCACCGCAGGTGAGggtaccgatcactcttatatagtatgacctggtacttgttagtaggtcctt Alignment from Spaln_aa2Genome GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACT---GGAGAGG tgactctaaattccaaacctcaagtacacttgcttttttaaacatttcagGAGAAAATACAGGTGCTGATCAGCTTCCTCCCCCTGCTAAGTCTTATTTTGGCACAGTGTGCCTGCCAGACCTCTTATTGGAAGCTGAGTATATGTCAGAGCTTCTTGAACCAACTCTACTCACCGCAGGTGAGGgtaccgatcactcttatatagtatgacctggtacttgttagtaggtcctt Alignment from Spaln_nt2Genome GAGAGAATGCAGGTGCTGATGAG-TTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGAG---AGG tgactctaaattccaaacctcaagtacacttgcttttttaaacatttcagGAGAAAATACAGGTGCTGATCAGCTTCCTCCCCCTGCTAAGTCTTATTTTGGCACAGTGTG-CCTGCCAGACCTCTTATTGGAAGCTGAGTATATGTCAGAGCTTCTTGAACCAACTCTACTCACCGCAGGTGAGGgtaccgatcactcttatatagtatgacctggtacttgttagtaggtcctt Alignment from Pairagon GAGAGAATGCAGGTGCTGATGAG-TTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGAG tgactctaaattccaaacctcaagtacacttgcttttttaaacatttcagGAGAAAATACAGGTGCTGATCAGCTTCCTCCCCCTGCTAAGTCTTATTTTGGCACAGTGTG-CCTGCCAGACCTCTTATTGGAAGCTGAGTATATGTCAGAGCTTCTTGAACCAACTCTACTCACCGCAGgtgagggtaccgatcactcttatatagtatgacctggtacttgttagtaggtcctt Alignment from Exonerate_protein2genome GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGAGAGG tgactctaaattccaaacctcaagtacacttgcttttttaaacatttcagGAGAAAATACAGGTGCTGATCAGCTTCCTCCCCCTGCTAAGTCTTATTTTGGCACAGTGTGCCTGCCAGACCTCTTATTGGAAGCTGAGTATATGTCAGAGCTTCTTGAACCAACTCTACTCACCGCA---Ggtgagggtaccgatcactcttatatagtatgacctggtacttgttagtaggtcctt Alignment from Exonerate_coding2genome GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGAGAGG tgactctaaattccaaacctcaagtacacttgcttttttaaacatttcagGAGAAAATACAGGTGCTGATCAGCTTCCTCCCCCTGCTAAGTCTTATTTTGGCACAGTGTGCCTGCCAGACCTCTTATTGGAAGCTGAGTATATGTCAGAGCTTCTTGAACCAACTCTACTCACCGCA---Ggtgagggtaccgatcactcttatatagtatgacctggtacttgttagtaggtcctt Alignment from GeneWise GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACT---GGAGAGG tgactctaaattccaaacctcaagtacacttgcttttttaaacatttcagGAGAAAATACAGGTGCTGATCAGCTTCCTCCCCCTGCTAAGTCTTATTTTGGCACAGTGTGCCTGCCAGACCTCTTATTGGAAGCTGAGTATATGTCAGAGCTTCTTGAACCAACTCTACTCACCGCAGGTGAGGgtaccgatcactcttatatagtatgacctggtacttgttagtaggtcctt #### Rnaseh2c_ID1103_2 --> 2 - 0 Original Alignment ggCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGC-GAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGACTTC cgtaggtcttgaggtccatgggtttgactctcccttgcttcacctttcaggaTTACAGGCACCATTTCATGGTTGTGGCTTGTGGGGTCGAGGAGGTAGCTGTGCCACCAGAGTTTGCAG-ATTTGTGATGGTCACAGAA------------------------------------------------------------GACGATGCCCAGGAACCATTAGAGAGAGTCTTAgtaattatttagagagagtcttagtgggcatgaagagattgtacaagtga Alignment from CESAR ggCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGC-GAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGACTTC cgtaggtcttgaggtccatgggtttgactctcccttgcttcacctttcaggaTTACAGGCACCATTTCATGGTTGTGGCTTGTGGGGTCGAGGAGGTAGCTGTGCCACCAGAGTTTGCA-GATTTGTGATGGTCACAGAA------------------------------------------------------------GACGATGCCCAGGAACCATTAGAGAGAGTCTTAgtaattatttagagagagtcttagtgggcatgaagagattgtacaagtga Alignment from Spaln_aa2Genome GGCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGACTTC cgtaggtcttgaggtccatgggtttgactctcccttgcttcacctttcagGATTACAGGCACCATTTCATGGTTGTGGCTTGTGGGGTCGAGGAGGTAGCTGTGCCACCAGAGTTTGCAGATTTGTGATGGTCACAGAA------------------------------------------------------------GACGATGCCCAGGAACCATTAGAGAGAGTCTTAgtaattatttagagagagtcttagtgggcatgaagagattgtacaagtga Alignment from Spaln_nt2Genome GGCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGG-CGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGG cgtaggtcttgaggtccatgggtttgactctcccttgcttcacctttcagGATTACAGGCACCATTTCATGGTTGTGGCTTGTGGGGTCGAGGAGGTAGCTGTGCCACCAGAGTTTGC-AGATTTGTGATGGTCACAGAAGACGATGCCCAGGAACCATTAGAGAGAGT---CTT----AGTAATTATTTAGAGAGAGTCTTAGTGG-GCATGAAGAGATTGTACAAgtg Alignment from Pairagon GGCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGG-CGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGACTTC cgtaggtcttgaggtccatgggtttgactctcccttgcttcacctttcagGATTACAGGCACCATTTCATGGTTGTGGCTTGTGGGGTCGAGGAGGTAGCTGTGCCACCAGAGTTTGC-AGATTTGTGATGGTCACAGA------------------------------------------------------------AGACGATGCCCAGGAACCATTAGAGAGAGTCTTAgtaattatttagagagagtcttagtgggcatgaagagattgtacaagtga Alignment from Exonerate_protein2genome GGCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAG cgtaggtcttgaggtccatgggtttgactctcccttgcttcacctttcagGATTACAGGCACCATTTCATGGTTGTGGCTTGTGGGGTCGAGGAGGTAGCTGTGCCACCAGAGTTTGCAGATTTGTGATGGTCACAGAAGACGATGCCCAGgaaccattagagagagtcttagtaattatttagagagagtcttagtgggcatgaagagattgtacaagtga Alignment from Exonerate_coding2genome cgtaggtcttgaggtccatgggtttgactctcccttgcttcacctttcaggattacaggcaccatttcatggttgtggcttgtggggtcgaggaggtagctgtgccaccagagtttgcagatttgtgatggtcacagaagacgatgcccaggaaccattagagagagtcttagtaattatttagagagagtcttagtgggcatgaagagattgtacaagtga Alignment from GeneWise GGCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGACTTC cgtaggtcttgaggtccatgggtttgactctcccttgcttcacctttcagGATTACAGGCACCATTTCATGGTTGTGGCTTGTGGGGTCGAGGAGGTAGCTGTGCCACCAGAGTTTGCAGATTTGTGATGGTCACAGAA------------------------------------------------------------GACGATGCCCAGGAACCATTAGAGAGAGTCTTAgtaattatttagagagagtcttagtgggcatgaagagattgtacaagtga #### Rom1_ID2497_2 --> 1 - 0 Original Alignment cCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGAT-GGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG tataactgttgttcacgagatctcattgtctctgctttggaactttctagtCAGATTCCAAGCAATATAGAAGGATTATACCTGATTGATCGGGGTTCCGTTCTCCTGCTGCAATCCCCACTCACGA------TGCTTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCACTTCTC---CCTCAGCAGCCGAATCTAAACCTGTGGTCCCAAGGATGCCACAAAGTGCTGTTGGAACGCCTGCAGGGTTTATCTGGGACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGgtgagccatcaaaattgcaagttcctcatcaagatctctaacctctatac Alignment from CESAR cCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGAT-GGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG tataactgttgttcacgagatctcattgtctctgctttggaactttctagtCAGATTCCAAGCAATATAGAAGGATTATACCTGATTGATCGGGGTTCCGTTCTCCTGCTGCAATCCCCACTCA---CGA---TGCTTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCACTTCTC---CCTCAGCAGCCGAATCTAAACCTGTGGTCCCAAGGATGCCACAAAGTGCTGTTGGAACGCCTGCAGGGTTTATCTGGGACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGgtgagccatcaaaattgcaagttcctcatcaagatctctaacctctatac Alignment from Spaln_aa2Genome CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGAT-GGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG tataactgttgttcacgagatctcattgtctctgctttggaactttctagTCAGATTCCAAGCAATATAGAAGGATTATACCTGATTGATcGGGGTTCCGTTCTCCTGCTGCAATCCCCACTCA------CGATGCTTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCACTTCTC---CCTCAGCAGCCGAATCTAAACCTGTGGTCCCAAGGATGCCACAAAGTGCTGTTGGAACGCCTGCAGGGTTTATCTGGGACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGgtgagccatcaaaattgcaagttcctcatcaagatctctaacctctatac Alignment from Spaln_nt2Genome CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGAT-GGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG tataactgttgttcacgagatctcattgtctctgctttggaactttctagTCAGATTCCAAGCAATATAGAAGGATTATACCTGATTGATCGGGGTTCCGTTCTCCTGCTGCAATCCCCACTCA------CGATGCTTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCACTTCTC---CCTCAGCAGCCGAATCTAAACCTGTGGTCCCAAGGATGCCACAAAGTGCTGTTGGAACGCCTGCAGGGTTTATCTGGGACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGgtgagccatcaaaattgcaagttcctcatcaagatctctaacctctatac Alignment from Pairagon CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGAT-GGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG tataactgttgttcacgagatctcattgtctctgctttggaactttctagTCAGATTCCAAGCAATATAGAAGGATTATACCTGATTGATCGGGGTTCCGTTCTCCTGCTGCAATCCCCACTCACGA------TGCTTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCACTTCTC---CCTCAGCAGCCGAATCTAAACCTGTGGTCCCAAGGATGCCACAAAGTGCTGTTGGAACGCCTGCAGGGTTTATCTGGGACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGgtgagccatcaaaattgcaagttcctcatcaagatctctaacctctatac Alignment from Exonerate_protein2genome CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGAT-GGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG tataactgttgttcacgagatctcattgtctctgctttggaactttctagTCAGATTCCAAGCAATATAGAAGGATTATACCTGATTGATCGGGGTTCCGTTCTCCTGCTGCAATCCCCACTCA------CGATGCTTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCACTTCTC---CCTCAGCAGCCGAATCTAAACCTGTGGTCCCAAGGATGCCACAAAGTGCTGTTGGAACGCCTGCAGGGTTTATCTGGGACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGgtgagccatcaaaattgcaagttcctcatcaagatctctaacctctatac Alignment from Exonerate_coding2genome CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGAT-GGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG tataactgttgttcacgagatctcattgtctctgctttggaactttctagTCAGATTCCAAGCAATATAGAAGGATTATACCTGATTGATCGGGGTTCCGTTCTCCTGCTGCAATCCCCACTCA------CGATGCTTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCACTTCTC---CCTCAGCAGCCGAATCTAAACCTGTGGTCCCAAGGATGCCACAAAGTGCTGTTGGAACGCCTGCAGGGTTTATCTGGGACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGgtgagccatcaaaattgcaagttcctcatcaagatctctaacctctatac Alignment from GeneWise CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGAT-GGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG tataactgttgttcacgagatctcattgtctctgctttggaactttctagTCAGATTCCAAGCAATATAGAAGGATTATACCTGATTGATCGGGGTTCCGTTCTCCTGCTGCAATCCCCACTCACGA------TGCTTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCACTTCTC---CCTCAGCAGCCGAATCTAAACCTGTGGTCCCAAGGATGCCACAAAGTGCTGTTGGAACGCCTGCAGGGTTTATCTGGGACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGgtgagccatcaaaattgcaagttcctcatcaagatctctaacctctatac #### Rps6kb2_ID368_14 --> 0 - 2 Original Alignment GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAA-GAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCag ggacggggttgtgccacctggctttactgttcgattaccttcctttccagAGTTTTATGTATGTGGCGCCTTTTGTCCTAGACAGCATCAAACGAAGGTTTTTCATTCCAGCCCAAGCTGCGTTCTCCACGAT-CCTTAACAGCAGTCCCCGCACACCCATCaggtgactggcagggcagataaatgtctagactgtgactttcaaacatgcac Alignment from CESAR GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAA-GAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCag ggacggggttgtgccacctggctttactgttcgattaccttcctttccagAGTTTTATGTATGTGGCGCCTTTTGTCCTAGACAGCATCAAACGAAGGTTTTTCATTCCAGCCCAAGCTGCGTTCTCCACGA-TCCTTAACAGCAGTCCCCGCACACCCATCaggtgactggcagggcagataaatgtctagactgtgactttcaaacatgcac Alignment from Spaln_aa2Genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAA-GAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAG ggacggggttgtgccacctggctttactgttcgattaccttcctttccagAGTTTTATGTATGTGGCGCCTTTTGTCCTAGACAGCATCAAAcGAAGGTTTTTCATTCCAGCCCAAGCTGCGTTCTCCACGATCCTT-AACAGCAGTCCCCGCACACCCATCAGgtgactggcagggcagataaatgtctagactgtgactttcaaacatgcac Alignment from Spaln_nt2Genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAA-GAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAG ggacggggttgtgccacctggctttactgttcgattaccttcctttccagAGTTTTATGTATGTGGCGCCTTTTGTCCTAGACAGCATCAAACGAAGGTTTTTCATTCCAGCCCAAGCTGCGTTCTCCACGA-TCCTTAACAGCAGTCCCCGCACACCCATCAGgtgactggcagggcagataaatgtctagactgtgactttcaaacatgcac Alignment from Pairagon GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAA-GAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAG ggacggggttgtgccacctggctttactgttcgattaccttcctttccagAGTTTTATGTATGTGGCGCCTTTTGTCCTAGACAGCATCAAACGAAGGTTTTTCATTCCAGCCCAAGCTGCGTTCTCCACGAT-CCTTAACAGCAGTCCCCGCACACCCATCAGgtgactggcagggcagataaatgtctagactgtgactttcaaacatgcac Alignment from Exonerate_protein2genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAA-GAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGA--CGCCTTAACAGCAGTCCCCGCACCCCCATCAG ggacggggttgtgccacctggctttactgttcgattaccttcctttccagAGTTTTATGTATGTGGCGCCTTTTGTCCTAGACAGCATCAAACGAAGGTTTTTCATTCCAGCCCAAGCTGCGTTCTCCACGATC---CTTAACAGCAGTCCCCGCACACCCATCAGgtgactggcagggcagataaatgtctagactgtgactttcaaacatgcac Alignment from Exonerate_coding2genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAA-GAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGA--CGCCTTAACAGCAGTCCCCGCACCCCCATCAG ggacggggttgtgccacctggctttactgttcgattaccttcctttccagAGTTTTATGTATGTGGCGCCTTTTGTCCTAGACAGCATCAAACGAAGGTTTTTCATTCCAGCCCAAGCTGCGTTCTCCACGATC---CTTAACAGCAGTCCCCGCACACCCATCAGgtgactggcagggcagataaatgtctagactgtgactttcaaacatgcac Alignment from GeneWise GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAG ggacggggttgtgccacctggctttactgttcgattaccttcctttccagAGTTTTATGTATGTGGCGCCTTTTGTCCTAGACAGCATCAAACGAAGGTTTTTCATTCCAGCCCAAGCTGCGTTCTCCACGATCCTTAACAGCAGTCCCCGCACACCCATCAGgtgactggcagggcagataaatgtctagactgtgactttcaaacatgcac #### Rps6kb2_ID369_13 --> 0 - 0 Original Alignment CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGA-TTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG tattggggttttcagtaccccagatcattcttgtctggcttctcccttagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGCCTTCATGCGACAAACTCCAGTCGGTACCC-TGATGACACACCACTGACTGAGTGCGCCAACCAAGCCTTCTTAgtaggacgctggattatgagaaaggacggggttgtgccacctggctttac Alignment from CESAR CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGA-TTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG tattggggttttcagtaccccagatcattcttgtctggcttctcccttagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGCCTTCATGCGACAAACTCCAGTCGGTA-CCCTGATGACACACCACTGACTGAGTGCGCCAACCAAGCCTTCTTAgtaggacgctggattatgagaaaggacggggttgtgccacctggctttac Alignment from Spaln_aa2Genome CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG tattggggttttcagtaccccagatcattcttgtctggcttctcccttagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGCCTTCATGCGACAAACTCCAGTCGGTACCCTGATGACACACCACTGACTGAGTGCGCCAACCAAGCCTTCTTAgtaggacgctggattatgagaaaggacggggttgtgccacctggctttac Alignment from Spaln_nt2Genome CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGA-TTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG tattggggttttcagtaccccagatcattcttgtctggcttctcccttagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGCCTTCATGCGACAAACTCCAGTCGGTA-CCCTGATGACACACCACTGACTGAGTGCGCCAACCAAGCCTTCTTAgtaggacgctggattatgagaaaggacggggttgtgccacctggctttac Alignment from Pairagon CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACG-ATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG tattggggttttcagtaccccagatcattcttgtctggcttctcccttagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGCCTTCATGCGACAAACTCCAGTCGGTA-CCCTGATGACACACCACTGACTGAGTGCGCCAACCAAGCCTTCTTAgtaggacgctggattatgagaaaggacggggttgtgccacctggctttac Alignment from Exonerate_protein2genome CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG tattggggttttcagtaccccagatcattcttgtctggcttctcccttagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGCCTTCATGCGACAAACTCCAGTCGGTACCCTGATGACACACCACTGACTGAGTGCGCCAACCAAGCCTTCTTAgtaggacgctggattatgagaaaggacggggttgtgccacctggctttac Alignment from Exonerate_coding2genome CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG tattggggttttcagtaccccagatcattcttgtctggcttctcccttagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGCCTTCATGCGACAAACTCCAGTCGGTACCCTGATGACACACCACTGACTGAGTGCGCCAACCAAGCCTTCTTAgtaggacgctggattatgagaaaggacggggttgtgccacctggctttac Alignment from GeneWise CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG tattggggttttcagtaccccagatcattcttgtctggcttctcccttagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGCCTTCATGCGACAAACTCCAGTCGGTACCCTGATGACACACCACTGACTGAGTGCGCCAACCAAGCCTTCTTAgtaggacgctggattatgagaaaggacggggttgtgccacctggctttac #### Rps6kb2_ID372_10 --> 0 - 0 Original Alignment CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAG-CTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG agggcgactgcattgagctcttccttgcacttaaatttttattcttacagCCACCTTTCACTGCTGAGAACCGGAAGAAACCAACTGATAATATGATTAAAAGTAAGCTTA---CTCCCACCGGATCTTATGCCTG-TGCTCGGGACCTTGCCAGAAAGgtgagatccactctcattcaaaaaattacaaacacctcctttagatttcc Alignment from CESAR CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG agggcgactgcattgagctcttccttgcacttaaatttttattcttacagCCACCTTTCACTGCTGAGAACCGGAAGAAACCAACTGATAATATGATTAAAAGTAAGCTT--ACTCCCACCGGATCTTATGCCT-GTGCTCGGGACCTTGCCAGAAAGgtgagatccactctcattcaaaaaattacaaacacctcctttagatttcc Alignment from Spaln_aa2Genome CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG agggcgactgcattgagctcttccttgcacttaaatttttattcttacagCCACCTTTCACTGCTGAGAACCGGAAGAAACCAACTGATAATATGATTAAAAGTAAGCTTACT---CCCACCGGATCTTATGCCTGTGCTCGGGACCTTGCCAGAAAGgtgagatccactctcattcaaaaaattacaaacacctcctttagatttcc Alignment from Spaln_nt2Genome CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG agggcgactgcattgagctcttccttgcacttaaatttttattcttacagCCACCTTTCACTGCTGAGAACCGGAAGAAACCAACTGATAATATGATTAAAAGTAAGCT--TACTCCCACCGGATCTTATGCCTG-TGCTCGGGACCTTGCCAGAAAGgtgagatccactctcattcaaaaaattacaaacacctcctttagatttcc Alignment from Pairagon CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGA-----------TGCCCGGGACCTTGCCAAAAAG agggcgactgcattgagctcttccttgcacttaaatttttattcttacagCCACCTTTCACTGCTGAGAACCGGAAGAAACCAACTGATAATATGATTAAAAGTAAGCTTA--------------CTCCCACCGGATCTTATGCCTGTGCTCGGGACCTTGCCAGAAAGgtgagatccactctcattcaaaaaattacaaacacctcctttagatttcc Alignment from Exonerate_protein2genome CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG agggcgactgcattgagctcttccttgcacttaaatttttattcttacagCCACCTTTCACTGCTGAGAACCGGAAGAAACCAACTGATAATATGATTAAAAGTAAGCTTACT---CCCACCGGATCTTATGCCTGTGCTCGGGACCTTGCCAGAAAGgtgagatccactctcattcaaaaaattacaaacacctcctttagatttcc Alignment from Exonerate_coding2genome CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG agggcgactgcattgagctcttccttgcacttaaatttttattcttacagCCACCTTTCACTGCTGAGAACCGGAAGAAACCAACTGATAATATGATTAAAAGTAAGCTTACT---CCCACCGGATCTTATGCCTGTGCTCGGGACCTTGCCAGAAAGgtgagatccactctcattcaaaaaattacaaacacctcctttagatttcc Alignment from GeneWise CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG agggcgactgcattgagctcttccttgcacttaaatttttattcttacagCCACCTTTCACTGCTGAGAACCGGAAGAAACCAACTGATAATATGATTAAAAGTAAGCTTACT---CCCACCGGATCTTATGCCTGTGCTCGGGACCTTGCCAGAAAGgtgagatccactctcattcaaaaaattacaaacacctcctttagatttcc #### Rrp12_ID8295_28 --> 1 - 1 Original Alignment cATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGG-GGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTg taagttagggcagggtagcctcatattgaaaattatctaacttttcttagcATTGAGGAAATTTCAGCTGACTCAGAGGATGAGTTTGAGGAAGAACAAAGAGGCCGACGGCAAAGAGCAA------TTGGTG------AGGAGCC-ATCATGG---AAGGATGGAGGTGGT---GCACCTCTCAATTTC------CCAAAAGTAGCACATCGTGTCCAGggtaggtaggggtaaggatgccccactttgctgatggggtcatgggatagg Alignment from CESAR cATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGG-GGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTg taagttagggcagggtagcctcatattgaaaattatctaacttttcttagcATTGAGGAAATTTCAGCTGACTCAGAGGATGAGTTTGAGGAAGAACAAAGAGGCCGACGGCAAAGAGCAA------TTGGTG------AGGAGC-CATCATGG---AAGGATGGAGGTGGT---GCACCTCTCAATTTC------CCAAAAGTAGCACATCGTGTCCAGggtaggtaggggtaaggatgccccactttgctgatggggtcatgggatagg Alignment from Spaln_aa2Genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG taagttagggcagggtagcctcatattgaaaattatctaacttttcttagCATTGAGGAAATTTCAGCTGACTCAGAGGATGAGTTTGAGGAAGAACAAAGAGGCCGACGG------CAAAGAGCAATTGGTGAGGAGCCATCA------TGG---AAGGATGGAGGTGGT---GCACCTCTCAATTTC------CCAAAAGTAGCACATCGTGTCCAGGgtaggtaggggtaaggatgccccactttgctgatggggtcatgggatagg Alignment from Spaln_nt2Genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGG-GGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG taagttagggcagggtagcctcatattgaaaattatctaacttttcttagCATTGAGGAAATTTCAGCTGACTCAGAGGATGAGTTTGAGGAAGAACAAAGAGGCCGACGGCAAAGAGC------AATTGG------TGAGGAGCC-ATCATG---GAAGGATGGAGGTGG---TGCACCTCTCAATTTC------CCAAAAGTAGCACATCGTGTCCAGGgtaggtaggggtaaggatgccccactttgctgatggggtcatgggatagg Alignment from Pairagon CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGG-GGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG taagttagggcagggtagcctcatattgaaaattatctaacttttcttagCATTGAGGAAATTTCAGCTGACTCAGAGGATGAGTTTGAGGAAGAACAAAGAGGCCGACGGCAAAGAGCAA-------------------------------------------------------------------------------------------------TTGgtgaggagccatcatggaaggatggaggtggtgcacctctcaatttcccaaaagtagcacatcgtgtccagggtaggtaggggtaaggatgccccactttgctgatggggtcatgggatagg Alignment from Exonerate_protein2genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG taagttagggcagggtagcctcatattgaaaattatctaacttttcttagCATTGAGGAAATTTCAGCTGACTCAGAGGATGAGTTTGAGGAAGAACAAAGAGGCCGA------CGGCAAAGAGCAATTGGTGAGGAGCCATCA------TGG---AAGGATGGAGGTGGT---GCACCTCTCAATTTC------CCAAAAGTAGCACATCGTGTCCAGGgtaggtaggggtaaggatgccccactttgctgatggggtcatgggatagg Alignment from Exonerate_coding2genome taagttagggcagggtagcctcatattgaaaattatctaacttttcttagcattgaggaaatttcagctgactcagaggatgagtttgaggaagaacaaagaggccgacggcaaagagcaattggtgaggagccatcatggaaggatggaggtggtgcacctctcaatttcccaaaagtagcacatcgtgtccagggtaggtaggggtaaggatgccccactttgctgatggggtcatgggatagg Alignment from GeneWise CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG taagttagggcagggtagcctcatattgaaaattatctaacttttcttagCATTGAGGAAATTTCAGCTGACTCAGAGGATGAGTTTGAGGAAGAACAAAGAGGCCGA------CGGCAAAGAGCAATTGGTGAGGAGCCATCA------TGG---AAGGATGGAGGTGGT---GCACCTCTCAATTTC------CCAAAAGTAGCACATCGTGTCCAGGgtaggtaggggtaaggatgccccactttgctgatggggtcatgggatagg #### Rrp12_ID8296_27 --> 1 - 2 Original Alignment aTTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCT-GCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACag atgccatccagacatcaacccttggtgatctcaatgtgcaccacccgcaggTATGAATCGGTCAAGGGACTGTTACCTGCAGAGTACCACAAAGTACTGATAAACATGAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTCGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAAC-GGAGCCTTTGCAAAGCAAAGGTGACaggtaagtccaattctcgtctcagcaattagtaagttagggcagggtagcct Alignment from CESAR aTTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCT-GCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACag atgccatccagacatcaacccttggtgatctcaatgtgcaccacccgcaggTATGAATCGGTCAAGGGACTGTTACCTGCAGAGTACCACAAAGTACTGATAAACATGAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTCGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAA-CGGAGCCTTTGCAAAGCAAAGGTGACaggtaagtccaattctcgtctcagcaattagtaagttagggcagggtagcct Alignment from Spaln_aa2Genome ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG atgccatccagacatcaacccttggtgatctcaatgtgcaccacccgcagGTATGAATCGGTCAAGGGACTGTTACCTGCAGAGTACCACAAAGTACTGATAAACATGAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTCGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACGGAGCCTTTGCAAAGCAAAGGTGACAGgtaagtccaattctcgtctcagcaattagtaagttagggcagggtagcct Alignment from Spaln_nt2Genome ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCT-GCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG atgccatccagacatcaacccttggtgatctcaatgtgcaccacccgcagGTATGAATCGGTCAAGGGACTGTTACCTGCAGAGTACCACAAAGTACTGATAAACATGAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTCGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAA-CGGAGCCTTTGCAAAGCAAAGGTGACAGgtaagtccaattctcgtctcagcaattagtaagttagggcagggtagcct Alignment from Pairagon ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCT-GCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG atgccatccagacatcaacccttggtgatctcaatgtgcaccacccgcagGTATGAATCGGTCAAGGGACTGTTACCTGCAGAGTACCACAAAGTACTGATAAACATGAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTCGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAA-CGGAGCCTTTGCAAAGCAAAGGTGACAGgtaagtccaattctcgtctcagcaattagtaagttagggcagggtagcct Alignment from Exonerate_protein2genome ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG atgccatccagacatcaacccttggtgatctcaatgtgcaccacccgcagGTATGAATCGGTCAAGGGACTGTTACCTGCAGAGTACCACAAAGTACTGATAAACATGAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTCGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACGGAGCCTTTGCAAAGCAAAGGTGACAGgtaagtccaattctcgtctcagcaattagtaagttagggcagggtagcct Alignment from Exonerate_coding2genome atgccatccagacatcaacccttggtgatctcaatgtgcaccacccgcaggtatgaatcggtcaagggactgttacctgcagagtaccacaaagtactgataaacatgaggaaagcagagacccgggcaaagaaatatagggccttgagtcaggctcgctgtagaggaggaagaagtggaagaagaggaacggagcctttgcaaagcaaaggtgacaggtaagtccaattctcgtctcagcaattagtaagttagggcagggtagcct Alignment from GeneWise ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG atgccatccagacatcaacccttggtgatctcaatgtgcaccacccgcagGTATGAATCGGTCAAGGGACTGTTACCTGCAGAGTACCACAAAGTACTGATAAACATGAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTCGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACGGAGCCTTTGCAAAGCAAAGGTGACAGgtaagtccaattctcgtctcagcaattagtaagttagggcagggtagcct #### Rrp12_ID8297_26 --> 0 - 2 Original Alignment ATGGAAGCCATTGGGAAGTTGTCAGAT-GACATGCGACGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTTgg taatgatggatggcctaggtggatagtgtttatatggaattatttttcagATGGAAGCTATAGGGAAACTGTCAGATCGACATGCGACGGCACTTCCGGATGAAGCTCCAGA-TCTGTTCATCAAGTTCACACGCAAGTTTgggtaagccaaaagtagagggagaatggaacatggtgtatctgcagagtcct Alignment from CESAR ATGGAAGCCATTGGGAAGTTGTCAGAT-GACATGCGACGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTTgg taatgatggatggcctaggtggatagtgtttatatggaattatttttcagATGGAAGCTATAGGGAAACTGTCAGATCGACATGCGACGGCACTTCCGGATGAAGCTCC-AGATCTGTTCATCAAGTTCACACGCAAGTTTgggtaagccaaaagtagagggagaatggaacatggtgtatctgcagagtcct Alignment from Spaln_aa2Genome ATGGAAGCCATTGGGAAGTTGTCAGATGACATGCGACGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTTGG taatgatggatggcctaggtggatagtgtttatatggaattatttttcagATGGAAGCTATAGGGAAACTGTCAGATCGACATGCGACGGCACTTCCGGATGAAGCTCCAGATCTGTTCATCAAGTTCACACGCAAGTTTGGgtaagccaaaagtagagggagaatggaacatggtgtatctgcagagtcct Alignment from Spaln_nt2Genome ATGGAAGCCATTGGGAAGTTGTCAGAT-GACATGCGACGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTTGG taatgatggatggcctaggtggatagtgtttatatggaattatttttcagATGGAAGCTATAGGGAAACTGTCAGATCGACATGCGACGGCACTTCCGGATGAAGCTCCAG-ATCTGTTCATCAAGTTCACACGCAAGTTTGGgtaagccaaaagtagagggagaatggaacatggtgtatctgcagagtcct Alignment from Pairagon ATGGAAGCCATTGGGAAGTTGTCAGAT-GACATGCGACGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTTGG taatgatggatggcctaggtggatagtgtttatatggaattatttttcagATGGAAGCTATAGGGAAACTGTCAGATCGACATGCGACGGCACTTCCGGATGAAGCTCCAG-ATCTGTTCATCAAGTTCACACGCAAGTTTGGgtaagccaaaagtagagggagaatggaacatggtgtatctgcagagtcct Alignment from Exonerate_protein2genome ATGGAAGCCATTGGGAAGTTGTCAGATGACATGCGACGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTTGG taatgatggatggcctaggtggatagtgtttatatggaattatttttcagATGGAAGCTATAGGGAAACTGTCAGATCGACATGCGACGGCACTTCCGGATGAAGCTCCAGATCTGTTCATCAAGTTCACACGCAAGTTTGGgtaagccaaaagtagagggagaatggaacatggtgtatctgcagagtcct Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATGGAAGCCATTGGGAAGTTGTCAGATGACATGCGACGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTTGG taatgatggatggcctaggtggatagtgtttatatggaattatttttcagATGGAAGCTATAGGGAAACTGTCAGATCGACATGCGACGGCACTTCCGGATGAAGCTCCAGATCTGTTCATCAAGTTCACACGCAAGTTTGGgtaagccaaaagtagagggagaatggaacatggtgtatctgcagagtcct #### Rrp12_ID8298_25 --> 2 - 0 Original Alignment ggCTGATGGGGACCAGCACAGTGGAGCAGCTCCTGGAGAACGTGTGCCTGCTGCTGGCCTCTCGAACC-CGTGATGTGGTCAAGTCCGCGCTAGGCTTCATCAAGGTTGCTGTGGTGGTCATGGACGTGGTGCACCTTGCTAAGCATGTGCAGCTAGTG actgggtactgggtcaatatgtcttattaagaatgcattttgtttttcaggcTTGATGGGGACCAGCACGGCAGAACAGCTCTTAGGGAATGTGTGCTTCCTGTTAGCGTCTAGAACCCTGGGATGTAGTAAAAGCTGCACTAGGCTTCATCAAGGTTA-TGTAGTGGTCATGGATGTAGTTCATCTTGCTAAGCATGTGCAACTAGTGgtaagtccttccagtgtacatgggggggaacaacactagtggactccaac Alignment from CESAR ggCTGATGGGGACCAGCACAGTGGAGCAGCTCCTGGAGAACGTGTGCCTGCTGCTGGCCTCTCGAACCCGT-GATGTGGTCAAGTCCGCGCTAGGCTTCATCAAGGTTGCTGTGGTGGTCATGGACGTGGTGCACCTTGCTAAGCATGTGCAGCTAGTG actgggtactgggtcaatatgtcttattaagaatgcattttgtttttcaggcTTGATGGGGACCAGCACGGCAGAACAGCTCTTAGGGAATGTGTGCTTCCTGTTAGCGTCTAGAACCCTGGGATGTAGTAAAAGCTGCACTAGGCTTCATCAAGGTT-ATGTAGTGGTCATGGATGTAGTTCATCTTGCTAAGCATGTGCAACTAGTGgtaagtccttccagtgtacatgggggggaacaacactagtggactccaac Alignment from Spaln_aa2Genome GGCTGATGGGGACCAGCACAGTGGAGCAGCTCCTGGAGAACGTGTGCCTGCTGCTGGCCTCTCGAACCCGTGATGTGGTCAAGTCCGCGCTAGGCTTCATCAAGGTTGCTGTGGTGGTCATGGACGTGGTGCACCTTGCTAAGCATGTGCAGCTAGTG actgggtactgggtcaatatgtcttattaagaatgcattttgtttttcagGCTTGATGGGGACCAGCACGGCAGAACAGCTCTTAGGGAATGTGTGCTTCCTGTTAGCGTCTAGAACCCTGGGATGTAGTAAAAGCTGCACTAGGCTTCATCAAGGTTATGTAGTGGTCATGGATGTAGTTCATCTTGCTAAGCATGTGCAACTAGTGgtaagtccttccagtgtacatgggggggaacaacactagtggactccaac Alignment from Spaln_nt2Genome GGCTGATGGGGACCAGCACAGTGGAGCAGCTCCTGGAGAACGTGTGCCTGCTGCTGGCCTCTCGAACCC-GTGATGTGGTCAAGTCCGCGCTAGGCTTCATCAAGGTTGCTGTGGTGGTCATGGACGTGGTGCACCTTGCTAAGCATGTGCAGCTAGTG actgggtactgggtcaatatgtcttattaagaatgcattttgtttttcagGCTTGATGGGGACCAGCACGGCAGAACAGCTCTTAGGGAATGTGTGCTTCCTGTTAGCGTCTAGAACCCTGGGATGTAGTAAAAGCTGCACTAGGCTTCATCAAGGTT-ATGTAGTGGTCATGGATGTAGTTCATCTTGCTAAGCATGTGCAACTAGTGgtaagtccttccagtgtacatgggggggaacaacactagtggactccaac Alignment from Pairagon GGCTGATGGGGACCAGCACAGTGGAGCAGCTCCTGGAGAACGTGTGCCTGCTGCTGGCCTCTCGAACCC-GTGATGTGGTCAAGTCCGCGCTAGGCTTCATCAAGGTTGCTGTGGTGGTCATGGACGTGGTGCACCTTGCTAAGCATGTGCAGCTAGTG actgggtactgggtcaatatgtcttattaagaatgcattttgtttttcagGCTTGATGGGGACCAGCACGGCAGAACAGCTCTTAGGGAATGTGTGCTTCCTGTTAGCGTCTAGAACCCTGGGATGTAGTAAAAGCTGCACTAGGCTTCATCAAGGTTA-TGTAGTGGTCATGGATGTAGTTCATCTTGCTAAGCATGTGCAACTAGTGgtaagtccttccagtgtacatgggggggaacaacactagtggactccaac Alignment from Exonerate_protein2genome GGCTGATGGGGACCAGCACAGTGGAGCAGCTCCTGGAGAACGTGTGCCTGCTGCTGGCCTCTCGAACCCGTGATGTGGTCAAGTCCGCGCTAGGCTTCATCAAGGTTGCTGTGGTGGTCATGGACGTGGTGCACCTTGCTAAGCATGTGCAGCTAGTG actgggtactgggtcaatatgtcttattaagaatgcattttgtttttcagGCTTGATGGGGACCAGCACGGCAGAACAGCTCTTAGGGAATGTGTGCTTCCTGTTAGCGTCTAGAACCCTGGGATGTAGTAAAAGCTGCACTAGGCTTCATCAAGGTTATGTAGTGGTCATGGATGTAGTTCATCTTGCTAAGCATGTGCAACTAGTGgtaagtccttccagtgtacatgggggggaacaacactagtggactccaac Alignment from Exonerate_coding2genome actgggtactgggtcaatatgtcttattaagaatgcattttgtttttcaggcttgatggggaccagcacggcagaacagctcttagggaatgtgtgcttcctgttagcgtctagaaccctgggatgtagtaaaagctgcactaggcttcatcaaggttatgtagtggtcatggatgtagttcatcttgctaagcatgtgcaactagtggtaagtccttccagtgtacatgggggggaacaacactagtggactccaac Alignment from GeneWise GGCTGATGGGGACCAGCACAGTGGAGCAGCTCCTGGAGAACGTGTGCCTGCTGCTGGCCTCTCGAACCCGTGATGTGGTCAAGTCCGCGCTAGGCTTCATCAAGGTTGCTGTGGTGGTCATGGACGTGGTGCACCTTGCTAAGCATGTGCAGCTAGTG actgggtactgggtcaatatgtcttattaagaatgcattttgtttttcagGCTTGATGGGGACCAGCACGGCAGAACAGCTCTTAGGGAATGTGTGCTTCCTGTTAGCGTCTAGAACCCTGGGATGTAGTAAAAGCTGCACTAGGCTTCATCAAGGTTATGTAGTGGTCATGGATGTAGTTCATCTTGCTAAGCATGTGCAACTAGTGgtaagtccttccagtgtacatgggggggaacaacactagtggactccaac #### Rrp12_ID8308_15 --> 1 - 1 Original Alignment gGAGACTCTGGATTTCCCACGG-AGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAg ccaaaacatcgactgagctaactacacccgattcctttccttaattgcaggGAAAATTTGGACTTT---CAGCAGCTGGTTGCTGTCTGTCATCCGGGATTATGTCC-GGAAACCCGGCTTGGCTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAggtgagcaggttttctttttataaaatacaggtcacagaaggaatatcagc Alignment from CESAR gGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAg ccaaaacatcgactgagctaactacacccgattcctttccttaattgcaggGAAAATTTGGACTTTCAGC--AGCTGGTTGCTGTCTGTCATCCGGGATTATGTCC-GGAAACCCGGCTTGGCTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAggtgagcaggttttctttttataaaatacaggtcacagaaggaatatcagc Alignment from Spaln_aa2Genome GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG ccaaaacatcgactgagctaactacacccgattcctttccttaattgcagGGAAAATTTGGACTTTCAGC--AGCTGGTTGCTGTCTGTCATCCGGGATTATGTCCGGAA-ACCCGGCTTGGCTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtgagcaggttttctttttataaaatacaggtcacagaaggaatatcagc Alignment from Spaln_nt2Genome GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG ccaaaacatcgactgagctaactacacccgattcctttccttaattgcagGGAAAATTTGGACTTTC--AGCAGCTGGTTGCTGTCTGTCATCCGGGATTATG-TCCGGAAACCCGGCTTGGCTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtgagcaggttttctttttataaaatacaggtcacagaaggaatatcagc Alignment from Pairagon GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG ccaaaacatcgactgagctaactacacccgattcctttccttaattgcagGGAAAATTTGGACTTTCAGC--AGCTGGTTGCTGTCTGTCATCCGGGATTATGTCC-GGAAACCCGGCTTGGCTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtgagcaggttttctttttataaaatacaggtcacagaaggaatatcagc Alignment from Exonerate_protein2genome GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG ccaaaacatcgactgagctaactacacccgattcctttccttaattgcagGGAAAATTTGGACTTT---CAGCAGCTGGTTGCTGTCTGTCATCCGGGATTATGTCCGGAAACCCGGCTTGGCTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtgagcaggttttctttttataaaatacaggtcacagaaggaatatcagc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTT---CGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG ccaaaacatcgactgagctaactacacccgattcctttccttaattgcagGGAAAATTTGGACTTTCAGCAG------CTGGTTGCTGTCTGTCATCCGGGATTATGTCCGGAAACCCGGCTTGGCTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtgagcaggttttctttttataaaatacaggtcacagaaggaatatcagc #### Sart1_ID956_19 --> 0 - 2 Original Alignment CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAG-GAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATgc ctgatatgtcaaaattggcagcactgacggaacaaacctttgattcacagCTTCGTAAGAAGATGAGCTCTAGTGATACACCCCTGGGAACAGTGGCATTGCTCCAGCGAGAAGCAGAAGGCCCAAAAGACACCTCAGATTGTACTCA-TGGCAGTGGCAAGAGCATGAATgcgtaagtgggtaggagttgtcagcttggactggtatgctgaataattataa Alignment from CESAR CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAG-GAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATgc ctgatatgtcaaaattggcagcactgacggaacaaacctttgattcacagCTTCGTAAGAAGATGAGCTCTAGTGATACACCCCTGGGAACAGTGGCATTGCTCCAGCGAGAAGCAGAAGGCCCAAAAGACACCTCAGATTGTACTC-ATGGCAGTGGCAAGAGCATGAATgcgtaagtgggtaggagttgtcagcttggactggtatgctgaataattataa Alignment from Spaln_aa2Genome CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGC ctgatatgtcaaaattggcagcactgacggaacaaacctttgattcacagCTTCGTAAGAAGATGAGCTCTAGTGATACACCCCTGGGAACAGTGGCATTGCTCCAGCGAGAAGCAGAAGGCCCAAAAGACACCTCAGATTGTACTCATGGCAGTGGCAAGAGCATGAATGCgtaagtgggtaggagttgtcagcttggactggtatgctgaataattataa Alignment from Spaln_nt2Genome CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAG-GAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGC ctgatatgtcaaaattggcagcactgacggaacaaacctttgattcacagCTTCGTAAGAAGATGAGCTCTAGTGATACACCCCTGGGAACAGTGGCATTGCTCCAGCGAGAAGCAGAAGGCCCAAAAGACACCTCAGATTGTACTCA-TGGCAGTGGCAAGAGCATGAATGCgtaagtgggtaggagttgtcagcttggactggtatgctgaataattataa Alignment from Pairagon CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAG-GAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGC ctgatatgtcaaaattggcagcactgacggaacaaacctttgattcacagCTTCGTAAGAAGATGAGCTCTAGTGATACACCCCTGGGAACAGTGGCATTGCTCCAGCGAGAAGCAGAAGGCCCAAAAGACACCTCAGATTGTACTCA-TGGCAGTGGCAAGAGCATGAATGCgtaagtgggtaggagttgtcagcttggactggtatgctgaataattataa Alignment from Exonerate_protein2genome CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGCG ctgatatgtcaaaattggcagcactgacggaacaaacctttgattcacagCTTCGTAAGAAGATGAGCTCTAGTGATACACCCCTGGGAACAGTGGCATTGCTCCAGCGAGAAGCAGAAGGCCCAAAAGACACCTCAGATTGTACTCATGGCAGTGGCAAGAGCATGAATGCGtaagtgggtaggagttgtcagcttggactggtatgctgaataattataa Alignment from Exonerate_coding2genome ctgatatgtcaaaattggcagcactgacggaacaaacctttgattcacagcttcgtaagaagatgagctctagtgatacacccctgggaacagtggcattgctccagcgagaagcagaaggcccaaaagacacctcagattgtactcatggcagtggcaagagcatgaatgcgtaagtgggtaggagttgtcagcttggactggtatgctgaataattataa Alignment from GeneWise CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGCG ctgatatgtcaaaattggcagcactgacggaacaaacctttgattcacagCTTCGTAAGAAGATGAGCTCTAGTGATACACCCCTGGGAACAGTGGCATTGCTCCAGCGAGAAGCAGAAGGCCCAAAAGACACCTCAGATTGTACTCATGGCAGTGGCAAGAGCATGAATGCGtaagtgggtaggagttgtcagcttggactggtatgctgaataattataa #### Sart1_ID961_14 --> 0 - 0 Original Alignment GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCA-GATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tgtgagatacaggtagaatctgtgcattcttggcttttcctcccccccagGACTTTGAGAGGGATGAGGAGCACTCAGCTAATGGTGGATCTGAATCACGATGGGGAAGAGAACATTGGCTGGAGCACAATCAACC-GGAT------GAACAGCCTCAGGATgtaaggcctcatgaccataggtgaagggcagtgggcatcccccgtaggtt Alignment from CESAR GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCA-GATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tgtgagatacaggtagaatctgtgcattcttggcttttcctcccccccagGACTTTGAGAGGGATGAGGAGCACTCAGCTAATGGTGGATCTGAATCACGATGGGGAAGAGAACATTGGCTGGAGCACAATCAAC-CGGATGAA------CAGCCTCAGGATgtaaggcctcatgaccataggtgaagggcagtgggcatcccccgtaggtt Alignment from Spaln_aa2Genome GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCA-GATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tgtgagatacaggtagaatctgtgcattcttggcttttcctcccccccagGACTTTGAGAGGGATGAGGAGCACTCAGCTAATGGTGGATCTGAATCAcGATGGGGAAGAGAACATTGGCTGGAGCACAATCAACCG-------GATGAACAGCCTCAGGATgtaaggcctcatgaccataggtgaagggcagtgggcatcccccgtaggtt Alignment from Spaln_nt2Genome GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCA-GATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tgtgagatacaggtagaatctgtgcattcttggcttttcctcccccccagGACTTTGAGAGGGATGAGGAGCACTCAGCTAATGGTGGATCTGAATCACGATGGGGAAGAGAACATTGGCTGGAGCACAATCAACC-GGATG------AACAGCCTCAGGATgtaaggcctcatgaccataggtgaagggcagtgggcatcccccgtaggtt Alignment from Pairagon GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCA-GATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tgtgagatacaggtagaatctgtgcattcttggcttttcctcccccccagGACTTTGAGAGGGATGAGGAGCACTCAGCTAATGGTGGATCTGAATCACGATGGGGAAGAGAACATTGGCTGGAGCACAATCAACC-------GGATGAACAGCCTCAGGATgtaaggcctcatgaccataggtgaagggcagtgggcatcccccgtaggtt Alignment from Exonerate_protein2genome GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCA-GATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAG tgtgagatacaggtagaatctgtgcattcttggcttttcctcccccccagGACTTTGAGAGGGATGAGGAGCACTCAGCTAATGGTGGATCTGAATCACGATGGGGAAGAGAACATTGGCTGGAGCACAATCAACCGGATGAACAGCctcaggatgtaaggcctcatgaccataggtgaagggcagtgggcatcccccgtaggtt Alignment from Exonerate_coding2genome tgtgagatacaggtagaatctgtgcattcttggcttttcctcccccccaggactttgagagggatgaggagcactcagctaatggtggatctgaatcacgatggggaagagaacattggctggagcacaatcaaccggatgaacagcctcaggatgtaaggcctcatgaccataggtgaagggcagtgggcatcccccgtaggtt Alignment from GeneWise GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGAT---GGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tgtgagatacaggtagaatctgtgcattcttggcttttcctcccccccagGACTTTGAGAGGGATGAGGAGCACTCAGCTAATGGTGGATCTGAATCACGATGGGGAAGAGAACAT------TGGCTGGAGCACAATCAACCGGATGAA---CAGCCTCAGGATgtaaggcctcatgaccataggtgaagggcagtgggcatcccccgtaggtt #### Sart1_ID962_13 --> 0 - 0 Original Alignment GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAG-GACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG tacttacagattccatactgcctataactcactcctggtctcttgggcagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGCGACCCAAAGAGGAGGGGAACATCAGTTTTCAATGCCACATCAG-ATTTTGCTGTATACTAGGGGAATCCCCCACATATGAGTTGGTGGGTAACCGTGAAGGGCAGGAGGAGTTGATGgtgagtcaatcaattcttagaccaatcaattcttagcttttattgtaagt Alignment from CESAR GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAG-GACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG tacttacagattccatactgcctataactcactcctggtctcttgggcagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGCGACCCAAAGAGGAGGGGAACATCAGTTTTCAATGCCACATCAG-ATTTTGCTGTATACTAGGGGAATCCCCCACATATGAGTTGGTGGGTAACCGTGAAGGGCAGGAGGAGTTGATGgtgagtcaatcaattcttagaccaatcaattcttagcttttattgtaagt Alignment from Spaln_aa2Genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG tacttacagattccatactgcctataactcactcctggtctcttgggcagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGCGACCCAAAGAGGAGGGGAACATCAGTTTTCAATGCCACATCAGATTTTGCTGTATACTAGGGGAATCCCCCACATATGAGTTGGTGGGTAACCGTGAAGGGCAGGAGGAGTTGATGgtgagtcaatcaattcttagaccaatcaattcttagcttttattgtaagt Alignment from Spaln_nt2Genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAG-GACCCTGAGAGGAAGGGGACCATC-GTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG tacttacagattccatactgcctataactcactcctggtctcttgggcagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGCGACCCAAAGAGG-AGGGGAACATCAGTTTTCAATGCCACATCAG-ATTTTGCTGTATACTAGGGGAATCCCCCACATATGAGTTGGTGGGTAACCGTGAAGGGCAGGAGGAGTTGATGgtgagtcaatcaattcttagaccaatcaattcttagcttttattgtaagt Alignment from Pairagon GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAG-GACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG tacttacagattccatactgcctataactcactcctggtctcttgggcagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGCGACCCAAAGAGGAGGGGAACATCAGTTTTCAATGCCACATCAG-ATTTTGCTGTATACTAGGGGAATCCCCCACATATGAGTTGGTGGGTAACCGTGAAGGGCAGGAGGAGTTGATGgtgagtcaatcaattcttagaccaatcaattcttagcttttattgtaagt Alignment from Exonerate_protein2genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG tacttacagattccatactgcctataactcactcctggtctcttgggcagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGCGACCCAAAGAGGAGGGGAACATCAGTTTTCAATGCCACATCAGATTTTGCTGTATACTAGGGGAATCCCCCACATATGAGTTGGTGGGTAACCGTGAAGGGCAGGAGGAGTTGATGgtgagtcaatcaattcttagaccaatcaattcttagcttttattgtaagt Alignment from Exonerate_coding2genome tacttacagattccatactgcctataactcactcctggtctcttgggcaggtgctggagattgtgaagaaactagagtcccatcagcatggttgggaggagggagagcgacccaaagaggaggggaacatcagttttcaatgccacatcagattttgctgtatactaggggaatcccccacatatgagttggtgggtaaccgtgaagggcaggaggagttgatggtgagtcaatcaattcttagaccaatcaattcttagcttttattgtaagt Alignment from GeneWise GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG tacttacagattccatactgcctataactcactcctggtctcttgggcagGTGCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGCGACCCAAAGAGGAGGGGAACATCAGTTTTCAATGCCACATCAGATTTTGCTGTATACTAGGGGAATCCCCCACATATGAGTTGGTGGGTAACCGTGAAGGGCAGGAGGAGTTGATGgtgagtcaatcaattcttagaccaatcaattcttagcttttattgtaagt #### Sart1_ID963_12 --> 2 - 0 Original Alignment agGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAG-GGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG cacatgtaagggtatcacatgggctgaaccatgcaactctgcctctccagaaGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAAAAGCAGCTAGAAAAGCGGACGTCGGCTGCGGCAACTCCAGCAGTTACAGCAGC-CAGAGATAGTGGGGAGAAAgtaactctcaccaaataacttacgatgagaggactgtgcactgttgaaac Alignment from CESAR agGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAG-GGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG cacatgtaagggtatcacatgggctgaaccatgcaactctgcctctccagaaGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAAAAGCAGCTAGAAAAGCGGACGTCGGCTGCGGCAACTCCAGCAGTTACAGCAG-CCAGAGATAGTGGGGAGAAAgtaactctcaccaaataacttacgatgagaggactgtgcactgttgaaac Alignment from Spaln_aa2Genome AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG cacatgtaagggtatcacatgggctgaaccatgcaactctgcctctccagAAGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAAAAGCAGCTAGAAAAGCGGACGTCGGCTGCGGCAACTCCAGCAGTTACAGCAGCCAGAGATAGTGGGGAGAAAgtaactctcaccaaataacttacgatgagaggactgtgcactgttgaaac Alignment from Spaln_nt2Genome AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGG-CGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG cacatgtaagggtatcacatgggctgaaccatgcaactctgcctctccagAAGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAAAAGCAGCTAGAAAAGCGGACGTCGGCTGCGGCAACTCCAGCAGTTACAGCAGC-CAGAGATAGTGGGGAGAAAgtaactctcaccaaataacttacgatgagaggactgtgcactgttgaaac Alignment from Pairagon AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAG-GGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG cacatgtaagggtatcacatgggctgaaccatgcaactctgcctctccagAAGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAAAAGCAGCTAGAAAAGCGGACGTCGGCTGCGGCAACTCCAGCAGTTACAGCAGC-CAGAGATAGTGGGGAGAAAgtaactctcaccaaataacttacgatgagaggactgtgcactgttgaaac Alignment from Exonerate_protein2genome AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG cacatgtaagggtatcacatgggctgaaccatgcaactctgcctctccagAAGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAAAAGCAGCTAGAAAAGCGGACGTCGGCTGCGGCAACTCCAGCAGTTACAGCAGCCAGAGATAGTGGGGAGAAAgtaactctcaccaaataacttacgatgagaggactgtgcactgttgaaac Alignment from Exonerate_coding2genome cacatgtaagggtatcacatgggctgaaccatgcaactctgcctctccagaagatggtggggctctcccaccaggagcaccagatggactggaggaagatgaggcagaactggaattacaaaagcagctagaaaagcggacgtcggctgcggcaactccagcagttacagcagccagagatagtggggagaaagtaactctcaccaaataacttacgatgagaggactgtgcactgttgaaac Alignment from GeneWise AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG cacatgtaagggtatcacatgggctgaaccatgcaactctgcctctccagAAGATGGTGGGGCTCTCCCACCAGGAGCACCAGATGGACTGGAGGAAGATGAGGCAGAACTGGAATTACAAAAGCAGCTAGAAAAGCGGACGTCGGCTGCGGCAACTCCAGCAGTTACAGCAGCCAGAGATAGTGGGGAGAAAgtaactctcaccaaataacttacgatgagaggactgtgcactgttgaaac #### Sart1_ID964_11 --> 1 - 1 Original Alignment gCTCCGGGGCCGGGGTCGGCGCCGA-GTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACT---------CGAGTAGAGAACATGGACATCAGTGATGAAg caagatggagaaattcaaagagcataataagtattgtgtctttgtcctagaCTTCGGGGACGGGGAAGGCACCAACGTTCCC------AAGGAGGAGACACTTG-GGATGAGGAGAAGGATCTTGTTGCCAAACCACCTCCATCAGATGACACTCGAGTCATTCGAGTC------ATGGACATCAGTGATGAAggtaagctgttgaagaataggggtccagggtaaatctgcaggcaaggctaa Alignment from CESAR gCTCCGGGGCCGGGGTCGGCGCCGA-GTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGATGAAg caagatggagaaattcaaagagcataataagtattgtgtctttgtcctagaCTTCGGGGACGGGGAAGGCACCAACGTTCCC------AAGGAGGAGACACTT-GGGATGAGGAGAAGGATCTTGTTGCCAAACCACCTCCATCAGATGACACTCGAGTCATTCGAGTCATGGACATCAGTGATGAAggtaagctgttgaagaataggggtccagggtaaatctgcaggcaaggctaa Alignment from Spaln_aa2Genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGATGAAG caagatggagaaattcaaagagcataataagtattgtgtctttgtcctagACTTCGGGGACGGGGAAGGCACCAACGTTCCCAAGGAGGAGACACTTGG------GATGAGGAGAAGGATCTTGTTGCCAAACCACCTCCATCAGATGACACTCGAGTCATTCGAGTCATGGACATCAGTGATGAAGgtaagctgttgaagaataggggtccagggtaaatctgcaggcaaggctaa Alignment from Spaln_nt2Genome GCTCCGGGGCCGGGGTCGGCGCCGA-GTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTA----GAGAACATGGACATCAGTGATGAAG caagatggagaaattcaaagagcataataagtattgtgtctttgtcctagACTTCGGGGACGGGGAAGGCACCAACGTTCC------CAAGGAGGAGACACTTG-GGATGAGGAGAAGGATCTTGTTGCCAAACCACCTCCATCAGATGACACTCGAGTCATTCGAG-TCATGGACATCAGTGATGAAGgtaagctgttgaagaataggggtccagggtaaatctgcaggcaaggctaa Alignment from Pairagon GCTCCGGGGCCGGGGTCGGCGCCGA-GTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGT------AGAGAACATGGACATCAGTGATGAAG caagatggagaaattcaaagagcataataagtattgtgtctttgtcctagACTTCGGGGACGGGGAAGGCACCAACGTTCCC------AAGGAGGAGACACTTG-GGATGAGGAGAAGGATCTTGTTGCCAAACCACCTCCATCAGATGACACTCGAGTCATTCGAG---TCATGGACATCAGTGATGAAGgtaagctgttgaagaataggggtccagggtaaatctgcaggcaaggctaa Alignment from Exonerate_protein2genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGATGAAG caagatggagaaattcaaagagcataataagtattgtgtctttgtcctagACTTCGGGGACGGGGAAGGCACCAACGTTCCCAAGGAGGAGAC------ACTTGGGATGAGGAGAAGGATCTTGTTGCCAAACCACCTCCATCAGATGACACTCGAGTCATTCGAGTCATGGACATCAGTGATGAAGgtaagctgttgaagaataggggtccagggtaaatctgcaggcaaggctaa Alignment from Exonerate_coding2genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGATGAA caagatggagaaattcaaagagcataataagtattgtgtctttgtcctagACTTCGGGGACGGGGAAGGCACCAACGTTCCCAAGGAGGAGAC------ACTTGGGATGAGGAGAAGGATCTTGTTGCCAAACCACCTCCATCAGATGACACTCGAGTCATTCGAGTCATGGACATCAGTGATGAAggtaagctgttgaagaataggggtccagggtaaatctgcaggcaaggctaa Alignment from GeneWise GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGATGAAG caagatggagaaattcaaagagcataataagtattgtgtctttgtcctagACTTCGGGGACGGGGAAGGCACCAACGTTCCCAAGGAGGAGAC------ACTTGGGATGAGGAGAAGGATCTTGTTGCCAAACCACCTCCATCAGATGACACTCGAGTCATTCGAGTCATGGACATCAGTGATGAAGgtaagctgttgaagaataggggtccagggtaaatctgcaggcaaggctaa #### Sart1_ID965_10 --> 0 - 2 Original Alignment GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCA-GATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCag atcatcacattggtgtttgggaggcttgttccttggttcatcctccacagGTGACCTTCAAAAAGTCCAAATGGAGGGTCAAAAAAACCAGGAAGAAGGAGCAGGAGGTGATAATGCAGGCTCGACGATTTACTGCCTCTGGGGGATCAGACAC-GGATGGG---TTTGGATCAaggtagcaacaagctgcagtagtaagtacaagatggagaaattcaaagagca Alignment from CESAR GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCA-GATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCag atcatcacattggtgtttgggaggcttgttccttggttcatcctccacagGTGACCTTCAAAAAGTCCAAATGGAGGGTCAAAAAAACCAGGAAGAAGGAGCAGGAGGTGATAATGCAGGCTCGACGATTTACTGCCTCTGGGGGATCAGACA-CGGATGGG---TTTGGATCAaggtagcaacaagctgcagtagtaagtacaagatggagaaattcaaagagca Alignment from Spaln_aa2Genome GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCA-GATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGG---GACTTTGGATCC---AGGCTCCG atcatcacattggtgtttgggaggcttgttccttggttcatcctccacagGTGACCTTCAAAAAGTCCAAATGGAGGGTCAAAAAAACCAGGAAGAAGGAGCAGGAGGTGATAATGCAGGCTcGACGATTTACTGCCTCTGGGGGATCAGACACGGATGGGTTTGGATCAAGGTAGCAACAAGCTGCAgtagtaagtacaagatggagaaattcaaagagca Alignment from Spaln_nt2Genome GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCA-GATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCAG atcatcacattggtgtttgggaggcttgttccttggttcatcctccacagGTGACCTTCAAAAAGTCCAAATGGAGGGTCAAAAAAACCAGGAAGAAGGAGCAGGAGGTGATAATGCAGGCTCGACGATTTACTGCCTCTGGGGGATCAGACAC-GGATGGG---TTTGGATCAAGgtagcaacaagctgcagtagtaagtacaagatggagaaattcaaagagca Alignment from Pairagon GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGC-AGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCAGG------------------------------------------------- atcatcacattggtgtttgggaggcttgttccttggttcatcctccacagGTGACCTTCAAAAAGTCCAAATGGAGGGTCAAAAAAACCAGGAAGAAGGAGCAGGAGGTGATAATGCAGGCTCGACGATTTACTGCCTCTGGGGGATCAGACAC-GGATGGG---TTTGGATCAAGGTAGCAACAAGCTGCAGTAGTAAGTACAAGATGGAGAAATTCAAAGAGCA Alignment from Exonerate_protein2genome GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCAG atcatcacattggtgtttgggaggcttgttccttggttcatcctccacagGTGACCTTCAAAAAGTCCAAATGGAGGGTCAAAAAAACCAGGAAGAAGGAGCAGGAGGTGATAATGCAGGCTCGACGATTTACTGCCTCTGGGGGATCAGACACGGATGGG---TTTGGATCAAGgtagcaacaagctgcagtagtaagtacaagatggagaaattcaaagagca Alignment from Exonerate_coding2genome GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCAG atcatcacattggtgtttgggaggcttgttccttggttcatcctccacagGTGACCTTCAAAAAGTCCAAATGGAGGGTCAAAAAAACCAGGAAGAAGGAGCAGGAGGTGATAATGCAGGCTCGACGATTTACTGCCTCTGGGGGATCAGACACGGATGGG---TTTGGATCAAGgtagcaacaagctgcagtagtaagtacaagatggagaaattcaaagagca Alignment from GeneWise GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCAG atcatcacattggtgtttgggaggcttgttccttggttcatcctccacagGTGACCTTCAAAAAGTCCAAATGGAGGGTCAAAAAAACCAGGAAGAAGGAGCAGGAGGTGATAATGCAGGCTCGACGATTTACTGCCTCTGGGGGATCAGACACGGATGGG---TTTGGATCAAGgtagcaacaagctgcagtagtaagtacaagatggagaaattcaaagagca #### Sart1_ID967_8 --> 2 - 0 Original Alignment ggGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGAC-AAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccggctaccctcctcttccctcactttaggtGTACTCCAGGATGGAGAAGATGTGCTGGTGAACGTGAATATGGTGGACAAGGAGCGCGCTGATCCGAAATGTGGAGCTTCGGAAAGAGAAGGCGG-TTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATCTAGCACAGgtaggtctagtaagtctgtgagaataagcactaaattttttcttctccag Alignment from CESAR ggGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGAC-AAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccggctaccctcctcttccctcactttaggtGTACTCCAGGATGGAGAAGATGTGCTGGTGAACGTGAATATGGTGGACAAGGAGCGCGCTGATCCGAAATGTGGAGCTTCGGAAAGAGAAG-GCGGTTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATCTAGCACAGgtaggtctagtaagtctgtgagaataagttctacccctacccttctgcag Alignment from Spaln_aa2Genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccggctaccctcctcttccctcactttagGTGTACTCCAGGATGGAGAAGATGTGCTGGTGAACGTGAATATGGTGGACAAGGAGCGCGCTGATCCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGTTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATCTAGCACAGgtaggtctagtaagtctgtgagaataagcactaaattttttcttctccag Alignment from Spaln_nt2Genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAAC-GTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccggctaccctcctcttccctcactttagGTGTACTCCAGGATGGAGAAGATGTGCTGGTGAACGTGAATATGGTGGACAAGGAGCGCGCTGATCCGAAATGTGGAGCTTCGGAAAGAGAAGGC-GGTTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATCTAGCACAGgtaggtctagtaagtctgtgagaataagcactaaattttttcttctccag Alignment from Pairagon GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAG-AACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccggctaccctcctcttccctcactttagGTGTACTCCAGGATGGAGAAGATGTGCTGGTGAACGTGAATATGGTGGACAAGGAGCGCGCTGATCCGAAATGTGGAGCTTCGGAAAGAGAAGGC-GGTTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATCTAGCACAGgtaggtctagtaagtctgtgagaataagcactaaattttttcttctccag Alignment from Exonerate_protein2genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccggctaccctcctcttccctcactttagGTGTACTCCAGGATGGAGAAGATGTGCTGGTGAACGTGAATATGGTGGACAAGGAGCGCGCTGATCCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGTTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATCTAGCACAGgtaggtctagtaagtctgtgagaataagcactaaattttttcttctccag Alignment from Exonerate_coding2genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccggctaccctcctcttccctcactttagGTGTACTCCAGGATGGAGAAGATGTGCTGGTGAACGTGAATATGGTGGACAAGGAGCGCGCTGATCCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGTTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATCTAGCACAGgtaggtctagtaagtctgtgagaataagcactaaattttttcttctccag Alignment from GeneWise GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG ggctgaagattactgggactgccggctaccctcctcttccctcactttagGTGTACTCCAGGATGGAGAAGATGTGCTGGTGAACGTGAATATGGTGGACAAGGAGCGCGCTGATCCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGTTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATCTAGCACAGgtaggtctagtaagtctgtgagaataagcactaaattttttcttctccag #### Sart1_ID970_5 --> 1 - 0 Original Alignment gAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTG-GATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG ttcatctgcccagggttcaggaagatggacatttttttttcaacctgcagtAAAGTTAAAACTCTGGGAGAAGATGACCCCTGGCTGCGACGATACAGCAGCATGGATAGAGAGGAGC------C-CCAGAAAGAGAAGGATTTGGCAAAGAAGAGGgtacgtacacatggttcttcaagagcaccatctacctgttaagttaccca Alignment from CESAR gAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTG-GATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG ttcatctgcccagggttcaggaagatggacatttttttttcaacctgcagtAAAGTTAAAACTCTGGGAGAAGATGACCCCTGGCTGCGACGATACAGCAGCATGGATAGAGAGGAGC-------CCCAGAAAGAGAAGGATTTGGCAAAGAAGAGGgtacgtacacatggttcttcaagagcaccatctacctgttaagttaccca Alignment from Spaln_aa2Genome GAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTG-GATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG ttcatctgcccagggttcaggaagatggacatttttttttcaacctgcagTAAAGTTAAAACTCTGGGAGAAGATGACCCCTGGCTGcGACGATACAGCAGCATGGATAGAGAGGAGCCC-------CAGAAAGAGAAGGATTTGGCAAAGAAGAGGgtacgtacacatggttcttcaagagcaccatctacctgttaagttaccca Alignment from Spaln_nt2Genome GAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTG-GATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG ttcatctgcccagggttcaggaagatggacatttttttttcaacctgcagTAAAGTTAAAACTCTGGGAGAAGATGACCCCTGGCTGCGACGATACAGCAGCATGGATAGAGAGGAGCC-------CCAGAAAGAGAAGGATTTGGCAAAGAAGAGGgtacgtacacatggttcttcaagagcaccatctacctgttaagttaccca Alignment from Pairagon ---------------------------------------------------AAAATAAAGACACTGGGGGAGGATGACCCCTGGCTG-GATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG TTCATCTGCCCAGGGTTCAGGAAGATGGACATTTTTTTTTCAACCTGCAGTAAAGTTAAAACTCTGGGAGAAGATGACCCCTGGCTGCGACGATACAGCAGCATGGATAGAGAGGAGCC-------CCAGAAAGAGAAGGATTTGGCAAAGAAGAGGgtacgtacacatggttcttcaagagcaccatctacctgttaagttaccca Alignment from Exonerate_protein2genome GAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG ttcatctgcccagggttcaggaagatggacatttttttttcaacctgcagTAAAGTTAAAACTCTGGGAGAAGATGACCCCTGGCTGCGACGATACAGCAGC---ATGGATAGA---GAGGAGCCCCAGAAAGAGAAGGATTTGGCAAAGAAGAGGgtacgtacacatggttcttcaagagcaccatctacctgttaagttaccca Alignment from Exonerate_coding2genome GAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG ttcatctgcccagggttcaggaagatggacatttttttttcaacctgcagTAAAGTTAAAACTCTGGGAGAAGATGACCCCTGGCTGCGACGATACAGCAGC---ATGGATAGA---GAGGAGCCCCAGAAAGAGAAGGATTTGGCAAAGAAGAGGgtacgtacacatggttcttcaagagcaccatctacctgttaagttaccca Alignment from GeneWise GAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG ttcatctgcccagggttcaggaagatggacatttttttttcaacctgcagTAAAGTTAAAACTCTGGGAGAAGATGACCCCTGGCTGCGACGATACAGCAGC---ATGGATAGA---GAGGAGCCCCAGAAAGAGAAGGATTTGGCAAAGAAGAGGgtacgtacacatggttcttcaagagcaccatctacctgttaagttaccca #### Sec31b_ID9030_22 --> 0 - 0 Original Alignment CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCC-CTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG ttatatgttgtatgatccccggtagctaatgttcatctttcctcccacagCTGCCTGAAGCATTCATGACTCCTGCACCAACTACAGCCCCACTTAGAAGCCCTGGACCAGATTCACAACAAGCCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCT-ACCCCCTCCTGGAGCCCCCAGGGAATGTAGCTTGCAAgtaagcgaaagtctgcccctgccctaatttgcatttgaggtagcctgatc Alignment from CESAR CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCC-CTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG ttatatgttgtatgatccccggtagctaatgttcatctttcctcccacagCTGCCTGAAGCATTCATGACTCCTGCACCAACTACAGCCCCACTTAGAAGCCCTGGACCAGATTCACAACAAGCCCTTGCTTCCAAAACCATTAGTCTCCAGTGCA-ATCTACCCCCTCCTGGAGCCCCCAGGGAATGTAGCTTGCAAgtaagcgaaagtctgcccctgccctaatttgcatttgaggtagcctgatc Alignment from Spaln_aa2Genome CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG ttatatgttgtatgatccccggtagctaatgttcatctttcctcccacagCTGCCTGAAGCATTCATGACTCCTGCACCAACTACAGCCCCACTTAGAAGCCCTGGACCAGATTCACAACAAGCCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTACCCCCTCCTGGAGCCCCCAGGGAATGTAGCTTGCAAgtaagcgaaagtctgcccctgccctaatttgcatttgaggtagcctgatc Alignment from Spaln_nt2Genome CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCT-GCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG ttatatgttgtatgatccccggtagctaatgttcatctttcctcccacagCTGCCTGAAGCATTCATGACTCCTGCACCAACTACAGCCCCACTTAGAAGCCCTGGACCAGATTCACAACAAGCCCTTGCTTCCAAAACCATTAGTCTCCAGTGC-AATCTACCCCCTCCTGGAGCCCCCAGGGAATGTAGCTTGCAAgtaagcgaaagtctgcccctgccctaatttgcatttgaggtagcctgatc Alignment from Pairagon CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCC-TGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG ttatatgttgtatgatccccggtagctaatgttcatctttcctcccacagCTGCCTGAAGCATTCATGACTCCTGCACCAACTACAGCCCCACTTAGAAGCCCTGGACCAGATTCACAACAAGCCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAA-TCTACCCCCTCCTGGAGCCCCCAGGGAATGTAGCTTGCAAgtaagcgaaagtctgcccctgccctaatttgcatttgaggtagcctgatc Alignment from Exonerate_protein2genome CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG ttatatgttgtatgatccccggtagctaatgttcatctttcctcccacagCTGCCTGAAGCATTCATGACTCCTGCACCAACTACAGCCCCACTTAGAAGCCCTGGACCAGATTCACAACAAGCCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTACCCCCTCCTGGAGCCCCCAGGGAATGTAGCTTGCAAgtaagcgaaagtctgcccctgccctaatttgcatttgaggtagcctgatc Alignment from Exonerate_coding2genome CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG ttatatgttgtatgatccccggtagctaatgttcatctttcctcccacagCTGCCTGAAGCATTCATGACTCCTGCACCAACTACAGCCCCACTTAGAAGCCCTGGACCAGATTCACAACAAGCCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTACCCCCTCCTGGAGCCCCCAGGGAATGTAGCTTGCAAgtaagcgaaagtctgcccctgccctaatttgcatttgaggtagcctgatc Alignment from GeneWise CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG ttatatgttgtatgatccccggtagctaatgttcatctttcctcccacagCTGCCTGAAGCATTCATGACTCCTGCACCAACTACAGCCCCACTTAGAAGCCCTGGACCAGATTCACAACAAGCCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTACCCCCTCCTGGAGCCCCCAGGGAATGTAGCTTGCAAgtaagcgaaagtctgcccctgccctaatttgcatttgaggtagcctgatc #### Sec31b_ID9037_15 --> 0 - 1 Original Alignment CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCC-TGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTg cgctcttccaatgcactagtccataggtgtttctatttctggcccccaagTTCCTAGCCTGTGTTATAAAAAAG---AGGAAGGACCTCGTGTGTGCTCTTTCGCTTG---AACTGGAGAGACACACTGGCTTTGCTACTAA-ACATTCAGGGCCCGAAAAGTTCCCAGAACTTTGTggtaggggtgagattaatatgattcattgtattgatgccaagcaaaggcaa Alignment from CESAR CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCC-TGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTg cgctcttccaatgcactagtccataggtgtttctatttctggcccccaagTTCCTAGCCTGTGTTATAAAAAAG---AGGAAGGACCTCGTGTGTGCTCTTTCGCTTG---AACTGGAGAGACACACTGGCTTTGCTACTA-AACATTCAGGGCCCGAAAAGTTCCCAGAACTTTGTggtaggggtgagattaatatgattcattgtattgatgccaagcaaaggcaa Alignment from Spaln_aa2Genome CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG cgctcttccaatgcactagtccataggtgtttctatttctggcccccaagTTCCTAGCCTGTGTTATAAAAAAG---AGGAAGGACCTCGTGTGTGCTCTTTCGCTTGAACTGGAGAGACACACT---GGCTTTGCTACTAAACATTCAGGGCCCGAAAAGTTCCCAGAACTTTGTGgtaggggtgagattaatatgattcattgtattgatgccaagcaaaggcaa Alignment from Spaln_nt2Genome CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG cgctcttccaatgcactagtccataggtgtttctatttctggcccccaagTTCCTAGCCTGTGTTATAAAAAAGA---GGAAGGACCTCGTGTGTGCTCTTTCGCT--TGAACTGGAGAGACACACTGGCTTTGCTACT-AAACATTCAGGGCCCGAAAAGTTCCCAGAACTTTGTGgtaggggtgagattaatatgattcattgtattgatgccaagcaaaggcaa Alignment from Pairagon CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGC-------CTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG cgctcttccaatgcactagtccataggtgtttctatttctggcccccaagTTCCTAGCCTGTGTTATAAAAAAGA---GGAAGGACCTCGTGTGTGCTCTTTCGCT---------TGAACTGGAGAGACACACTGGCTTTGCTACTAA-ACATTCAGGGCCCGAAAAGTTCCCAGAACTTTGTGgtaggggtgagattaatatgattcattgtattgatgccaagcaaaggcaa Alignment from Exonerate_protein2genome CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG cgctcttccaatgcactagtccataggtgtttctatttctggcccccaagTTCCTAGCCTGTGTTATAAAAAAGAGG---AAGGACCTCGTGTGTGCTCTTTCGCTTGAACTGGAGAGACACACT---GGCTTTGCTACTAAACATTCAGGGCCCGAAAAGTTCCCAGAACTTTGTGgtaggggtgagattaatatgattcattgtattgatgccaagcaaaggcaa Alignment from Exonerate_coding2genome cgctcttccaatgcactagtccataggtgtttctatttctggcccccaagttcctagcctgtgttataaaaaagaggaaggacctcgtgtgtgctctttcgcttgaactggagagacacactggctttgctactaaacattcagggcccgaaaagttcccagaactttgtggtaggggtgagattaatatgattcattgtattgatgccaagcaaaggcaa Alignment from GeneWise CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG cgctcttccaatgcactagtccataggtgtttctatttctggcccccaagTTCCTAGCCTGTGTTATAAAAAAGAGG---AAGGACCTCGTGTGTGCTCTTTCGCTTGAACTGGAGAGACACACT---GGCTTTGCTACTAAACATTCAGGGCCCGAAAAGTTCCCAGAACTTTGTGgtaggggtgagattaatatgattcattgtattgatgccaagcaaaggcaa #### Sec31b_ID9044_8 --> 0 - 0 Original Alignment GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGAT-GGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG gcttagttccactggcatgtgttctcgactattttctccattatacacagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATCGGCTGGATCAGTCTATGTTCTGTGACAGGAAGGAGCTGGGAAG-GCAGCATATGAGGTCAGCTGATGAGgtacctagtggttgtattaataagcaggggacttgcaggaaatagaactt Alignment from CESAR GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGAT-GGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG gcttagttccactggcatgtgttctcgactattttctccattatacacagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATCGGCTGGATCAGTCTATGTTCTGTGACAGGAAGGAGCTGGGAA-GGCAGCATATGAGGTCAGCTGATGAGgtacctagtggttgtattaataagcaggggacttgcaggaaatagaactt Alignment from Spaln_aa2Genome GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGAT-GGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG gcttagttccactggcatgtgttctcgactattttctccattatacacagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATcGGCTGGATCAGTCTATGTTCTGTGACAGGAAGGAGCTGGGAAGG-CAGCATATGAGGTCAGCTGATGAGgtacctagtggttgtattaataagcaggggacttgcaggaaatagaactt Alignment from Spaln_nt2Genome GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGAT-GGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG gcttagttccactggcatgtgttctcgactattttctccattatacacagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATCGGCTGGATCAGTCTATGTTCTGTGACAGGAAGGAGCTGGGAAG-GCAGCATATGAGGTCAGCTGATGAGgtacctagtggttgtattaataagcaggggacttgcaggaaatagaactt Alignment from Pairagon GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGAT-GGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG gcttagttccactggcatgtgttctcgactattttctccattatacacagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATCGGCTGGATCAGTCTATGTTCTGTGACAGGAAGGAGCTGGGAAG-GCAGCATATGAGGTCAGCTGATGAGgtacctagtggttgtattaataagcaggggacttgcaggaaatagaactt Alignment from Exonerate_protein2genome GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGAT-GGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAG gcttagttccactggcatgtgttctcgactattttctccattatacacagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATCGGCTGGATCAGTCTATGTTCTGTGACAGGAAGGAGCTGGGAAGgcagcatatgaggtcagctgatgaggtacctagtggttgtattaataagcaggggacttgcaggaaatagaactt Alignment from Exonerate_coding2genome GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGAT-GGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAG gcttagttccactggcatgtgttctcgactattttctccattatacacagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATCGGCTGGATCAGTCTATGTTCTGTGACAGGAAGGAGCTGGGAAGgcagcatatgaggtcagctgatgaggtacctagtggttgtattaataagcaggggacttgcaggaaatagaactt Alignment from GeneWise GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGAT-GGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG gcttagttccactggcatgtgttctcgactattttctccattatacacagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATCGGCTGGATCAGTCTATGTTCTGTGACAGGAAGGAGCTGGGAAGG-CAGCATATGAGGTCAGCTGATGAGgtacctagtggttgtattaataagcaggggacttgcaggaaatagaactt #### Sema4g_ID9251_9 --> 1 - 0 Original Alignment gAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGT-GCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG cataggtgcaggttgaaggtatttgaacctgagactgcttcttcttccaggAAAACACTGGAGGCTTCAGATATCTGCCGGCATGACTTGGCAGAGATTCATGCTGTTTTT---AGCCCCTTTATGGAGTACCAGGATGGTCGCCCGATGCTGGGGGTGTTATGGAGGTGGAGTACATCAAC-CCAACCTGGCTTAgtaagaactcaaagtttggaccacactaatcgggacatagagagttaccc Alignment from CESAR gAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGT-GCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG cataggtgcaggttgaaggtatttgaacctgagactgcttcttcttccaggAAAACACTGGAGGCTTCAGATATCTGCCGGCATGACTTGGCAGAGATTCATGCTGTTTTT---AGCCCCTTTATGGAGTACCAGGATGGTCGCCCGATGCTGGGGGTGTTATGGAGGTGGAGTACATCAAC-CCAACCTGGCTTAgtaagaactcaaagtttggaccacactaatcgggacatagagagttaccc Alignment from Spaln_aa2Genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG cataggtgcaggttgaaggtatttgaacctgagactgcttcttcttccagGAAAACACTGGAGGCTTCAGATATCTGCCGGCATGACTTGGCAGAGATTCATGCTGTTTTTAGC---CCCTTTATGGAGTACCAGGATGGTCGCCCGATGCTGGGGGTGTTATGGAGGTGGAGTACATCAACCCAACCTGGCTTAgtaagaactcaaagtttggaccacactaatcgggacatagagagttaccc Alignment from Spaln_nt2Genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGT-GCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG cataggtgcaggttgaaggtatttgaacctgagactgcttcttcttccagGAAAACACTGGAGGCTTCAGATATCTGCCGGCATGACTTGGCAGAGATTCATGCTGTTTTTA---GCCCCTTTATGGAGTACCAGGATGGTCGCCCGATGCTGGGGGTGTTATGGAGGTGGAGTACATCAA-CCCAACCTGGCTTAgtaagaactcaaagtttggaccacactaatcgggacatagagagttaccc Alignment from Pairagon GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGT-GCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG cataggtgcaggttgaaggtatttgaacctgagactgcttcttcttccagGAAAACACTGGAGGCTTCAGATATCTGCCGGCATGACTTGGCAGAGATTCATGCTGTTTTTA---GCCCCTTTATGGAGTACCAGGATGGTCGCCCGATGCTGGGGGTGTTATGGAGGTGGAGTACATCAA-CCCAACCTGGCTTAgtaagaactcaaagtttggaccacactaatcgggacatagagagttaccc Alignment from Exonerate_protein2genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGT-GCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTC cataggtgcaggttgaaggtatttgaacctgagactgcttcttcttccagGAAAACACTGGAGGCTTCAGATATCTGCCGGCATGACTTGGCAGAGATTCATGCTGTTTTTAGC---CCCTTTATGGAGTACCAGGATGGTCGCCCGATGCTGGGGGTGTTATGGAGGTGGAGTACATCAACCCAACCTGGCTTAgtaagaactcaaagtttggaccacactaatcgggacatagagagttaccc Alignment from Exonerate_coding2genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGT-GCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTC cataggtgcaggttgaaggtatttgaacctgagactgcttcttcttccagGAAAACACTGGAGGCTTCAGATATCTGCCGGCATGACTTGGCAGAGATTCATGCTGTTTTTAGC---CCCTTTATGGAGTACCAGGATGGTCGCCCGATGCTGGGGGTGTTATGGAGGTGGAGTACATCAACCCAACCTGGCTTAgtaagaactcaaagtttggaccacactaatcgggacatagagagttaccc Alignment from GeneWise GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG cataggtgcaggttgaaggtatttgaacctgagactgcttcttcttccagGAAAACACTGGAGGCTTCAGATATCTGCCGGCATGACTTGGCAGAGATTCATGCTGTTTTTAGC---CCCTTTATGGAGTACCAGGATGGTCGCCCGATGCTGGGGGTGTTATGGAGGTGGAGTACATCAACCCAACCTGGCTTAgtaagaactcaaagtttggaccacactaatcgggacatagagagttaccc #### Sema4g_ID9252_10 --> 0 - 1 Original Alignment TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCT-CGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAg gtcatgtggaagtatagcagcagtgtccaagcccctctgtctgcacacagTGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGATTTGCCTTCACTTGTCCTTGACTCCGTGAAGCTACATCCACCACTGATGGCACCAGCCTGTAGTGCCCACACGGGGACAGCCCC-ACTGCTGAAGCACAATGTACGCTACACACATGTCACAGGTACACATGTCAGTCCACCTGCAGGACCTACCTATGAGTTGCTGTTTCTAGGCACAggtatgttatacccaccctgcacatgcctccacctagtggggatacaatgc Alignment from CESAR TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCC---CTGATGGCT-CGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAg gtcatgtggaagtatagcagcagtgtccaagcccctctgtctgcacacagTGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGATTTGCCTTCACTTGTCCTTGACTCCGTGAAGCTACATCCACCACTGATGGCACCAGCCTGTAGTGCCCACACGGGGACAGCCC-CACTGCTGAAGCACAATGTACGCTACACACATGTCACAGGTACACATGTCAGTCCACCTGCAGGACCTACCTATGAGTTGCTGTTTCTAGGCACAggtatgttatacccaccctgcacatgcctccacctagtggggatacaatgc Alignment from Spaln_aa2Genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCT-CGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gtcatgtggaagtatagcagcagtgtccaagcccctctgtctgcacacagTGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGATTTGCCTTCACTTGTCCTTGACTCCGTGAAGCTACATCCACCACTGATGGCAcCAGCCTGTAGTGCCCACACGGGGACAGCCCCA-CTGCTGAAGCACAATGTACGCTACACACATGTCACAGGTACACATGTCAGTCCACCTGCAGGACCTACCTATGAGTTGCTGTTTCTAGGCACAGgtatgttatacccaccctgcacatgcctccacctagtggggatacaatgc Alignment from Spaln_nt2Genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCC---TGATGGCTCG-GCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gtcatgtggaagtatagcagcagtgtccaagcccctctgtctgcacacagTGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGATTTGCCTTCACTTGTCCTTGACTCCGTGAAGCTACATCCACCACTGATGGCACCAGCCTGTAGTGCCCACACGGGGACAGCCC-CACTGCTGAAGCACAATGTACGCTACACACATGTCACAGGTACACATGTCAGTCCACCTGCAGGACCTACCTATGAGTTGCTGTTTCTAGGCACAGgtatgttatacccaccctgcacatgcctccacctagtggggatacaatgc Alignment from Pairagon TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGC-TCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gtcatgtggaagtatagcagcagtgtccaagcccctctgtctgcacacagTGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGATTTGCCTTCACTTGTCCTTGACTCCGTGAAGCTACATCCACCACTGATGGCACCAGCCTGTAGTGCCCACACGGGGACAGCCC-CACTGCTGAAGCACAATGTACGCTACACACATGTCACAGGTACACATGTCAGTCCACCTGCAGGACCTACCTATGAGTTGCTGTTTCTAGGCACAGgtatgttatacccaccctgcacatgcctccacctagtggggatacaatgc Alignment from Exonerate_protein2genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gtcatgtggaagtatagcagcagtgtccaagcccctctgtctgcacacagTGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGATTTGCCTTCACTTGTCCTTGACTCCGTGAAGCTACATCCACCACTGATGGCACCAGCCTGTAGTGCCCACACGGGGACAGCCCCACTGCTGAAGCACAATGTACGCTACACACATGTCACAGGTACACATGTCAGTCCACCTGCAGGACCTACCTATGAGTTGCTGTTTCTAGGCACAGgtatgttatacccaccctgcacatgcctccacctagtggggatacaatgc Alignment from Exonerate_coding2genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gtcatgtggaagtatagcagcagtgtccaagcccctctgtctgcacacagTGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGATTTGCCTTCACTTGTCCTTGACTCCGTGAAGCTACATCCACCACTGATGGCACCAGCCTGTAGTGCCCACACGGGGACAGCCCCACTGCTGAAGCACAATGTACGCTACACACATGTCACAGGTACACATGTCAGTCCACCTGCAGGACCTACCTATGAGTTGCTGTTTCTAGGCACAGgtatgttatacccaccctgcacatgcctccacctagtggggatacaatgc Alignment from GeneWise TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCC---CTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gtcatgtggaagtatagcagcagtgtccaagcccctctgtctgcacacagTGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGATTTGCCTTCACTTGTCCTTGACTCCGTGAAGCTACATCCACCACTGATGGCACCAGCCTGTAGTGCCCACACGGGGACAGCCCCACTGCTGAAGCACAATGTACGCTACACACATGTCACAGGTACACATGTCAGTCCACCTGCAGGACCTACCTATGAGTTGCTGTTTCTAGGCACAGgtatgttatacccaccctgcacatgcctccacctagtggggatacaatgc #### Sema4g_ID9253_11 --> 2 - 0 Original Alignment ctGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAA-GTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG acgcccaaccaccacccaatgaaagagttgtctctctgttcatgctgcagcaGATGGCTGGAATCACAAAGCTGTAGTCCAGGGCTCTGGAATGCACATCATTGAGGAGATACAACGTGGTCAGAGAGCCCCAGTCAGTAGACAATC-ACTGATCTCACCAATGCAAgtatgttagtgttactatggtaagaatccccacttatttacccacaccta Alignment from CESAR ctGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAA-GTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG acgcccaaccaccacccaatgaaagagttgtctctctgttcatgctgcagcaGATGGCTGGAATCACAAAGCTGTAGTCCAGGGCTCTGGAATGCACATCATTGAGGAGATACAACGTGGTCAGAGAGCCCCAGTCAGTAGACAAT-CACTGATCTCACCAATGCAAgtatgttagtgttactatggtaagaatccccacttatttacccacaccta Alignment from Spaln_aa2Genome CTGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG acgcccaaccaccacccaatgaaagagttgtctctctgttcatgctgcagCAGATGGCTGGAATCACAAAGCTGTAGTCCAGGGCTCTGGAATGCACATCATTGAGGAGATACAACGTGGTCAGAGAGCCCCAGTCAGTAGACAATCACTGATCTCACCAATGCAAgtatgttagtgttactatggtaagaatccccacttatttacccacaccta Alignment from Spaln_nt2Genome CTGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAA-GTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG acgcccaaccaccacccaatgaaagagttgtctctctgttcatgctgcagCAGATGGCTGGAATCACAAAGCTGTAGTCCAGGGCTCTGGAATGCACATCATTGAGGAGATACAACGTGGTCAGAGAGCCCCAGTCAGTAGACAATC-ACTGATCTCACCAATGCAAgtatgttagtgttactatggtaagaatccccacttatttacccacaccta Alignment from Pairagon CTGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAA-GTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG acgcccaaccaccacccaatgaaagagttgtctctctgttcatgctgcagCAGATGGCTGGAATCACAAAGCTGTAGTCCAGGGCTCTGGAATGCACATCATTGAGGAGATACAACGTGGTCAGAGAGCCCCAGTCAGTAGACAATC-ACTGATCTCACCAATGCAAgtatgttagtgttactatggtaagaatccccacttatttacccacaccta Alignment from Exonerate_protein2genome CTGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG acgcccaaccaccacccaatgaaagagttgtctctctgttcatgctgcagCAGATGGCTGGAATCACAAAGCTGTAGTCCAGGGCTCTGGAATGCACATCATTGAGGAGATACAACGTGGTCAGAGAGCCCCAGTCAGTAGACAATCACTGATCTCACCAATGCAAgtatgttagtgttactatggtaagaatccccacttatttacccacaccta Alignment from Exonerate_coding2genome CTGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG acgcccaaccaccacccaatgaaagagttgtctctctgttcatgctgcagCAGATGGCTGGAATCACAAAGCTGTAGTCCAGGGCTCTGGAATGCACATCATTGAGGAGATACAACGTGGTCAGAGAGCCCCAGTCAGTAGACAATCACTGATCTCACCAATGCAAgtatgttagtgttactatggtaagaatccccacttatttacccacaccta Alignment from GeneWise CTGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG acgcccaaccaccacccaatgaaagagttgtctctctgttcatgctgcagCAGATGGCTGGAATCACAAAGCTGTAGTCCAGGGCTCTGGAATGCACATCATTGAGGAGATACAACGTGGTCAGAGAGCCCCAGTCAGTAGACAATCACTGATCTCACCAATGCAAgtatgttagtgttactatggtaagaatccccacttatttacccacaccta #### Sema4g_ID9254_12 --> 0 - 2 Original Alignment CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGC-ATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACag tgggatggctggaaaaacactgcccattgtatgactttttctttttacagCACAGCCTATATGTGGGGGCTGCAAGTGGAATT---CAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCCATTCTAGCACGAGACCCCTACTGTGGCTGGGATTCTA-CATCCATGTGTGCATGGTGGCCACTACAGTAGCAAACaggtaggaagacaggatataacagtgccctggtcaccaactggtagtagtat Alignment from CESAR CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGC-ATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACag tgggatggctggaaaaacactgcccattgtatgactttttctttttacagCACAGCCTATATGTGGGGGCTGCAAGTGGAATT---CAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCCATTCTAGCACGAGACCCCTACTGTGGCTGGGATTCT-ACATCCATGTGTGCATGGTGGCCACTACAGTAGCAAACaggtaggaagacaggatataacagtgccctggtcaccaactggtagtagtat Alignment from Spaln_aa2Genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGC-ATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG tgggatggctggaaaaacactgcccattgtatgactttttctttttacagCACAGCCTATATGTGGGGGCTGCAAGTGGAATT---CAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCcATTCTAGCACGAGACCCCTACTGTGGCTGGGATTCTAC-ATCCATGTGTGCATGGTGGCCACTACAGTAGCAAACAGgtaggaagacaggatataacagtgccctggtcaccaactggtagtagtat Alignment from Spaln_nt2Genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGC-ATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG tgggatggctggaaaaacactgcccattgtatgactttttctttttacagCACAGCCTATATGTGGGGGCTGCAAGTGGA---ATTCAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCCATTCTAGCACGAGACCCCTACTGTGGCTGGGATTCTA-CATCCATGTGTGCATGGTGGCCACTACAGTAGCAAACAGgtaggaagacaggatataacagtgccctggtcaccaactggtagtagtat Alignment from Pairagon CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTG-CATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG tgggatggctggaaaaacactgcccattgtatgactttttctttttacagCACAGCCTATATGTGGGGGCTGCAAGTGGAA---TTCAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCCATTCTAGCACGAGACCCCTACTGTGGCTGGGATTCTA-CATCCATGTGTGCATGGTGGCCACTACAGTAGCAAACAGgtaggaagacaggatataacagtgccctggtcaccaactggtagtagtat Alignment from Exonerate_protein2genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGC-ATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCC--AGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG tgggatggctggaaaaacactgcccattgtatgactttttctttttacagCACAGCCTATATGTGGGGGCTGCAAGTGGAATT---CAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCCATTCTAGCACGAGACCCCTACTGTGGCTGGGATTCTAC---ATCCATGTGTGCATGGTGGCCACTACAGTAGCAAACAGgtaggaagacaggatataacagtgccctggtcaccaactggtagtagtat Alignment from Exonerate_coding2genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGC-ATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCC--AGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG tgggatggctggaaaaacactgcccattgtatgactttttctttttacagCACAGCCTATATGTGGGGGCTGCAAGTGGAATT---CAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCCATTCTAGCACGAGACCCCTACTGTGGCTGGGATTCTAC---ATCCATGTGTGCATGGTGGCCACTACAGTAGCAAACAGgtaggaagacaggatataacagtgccctggtcaccaactggtagtagtat Alignment from GeneWise CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGC-ATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG tgggatggctggaaaaacactgcccattgtatgactttttctttttacagCACAGCCTATATGTGGGGGCTGCAAGTGGAATT---CAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCCATTCTAGCACGAGACCCCTACTGTGGCTGGGATTCTAC-ATCCATGTGTGCATGGTGGCCACTACAGTAGCAAACAGgtaggaagacaggatataacagtgccctggtcaccaactggtagtagtat #### Sf1_ID1666_7 --> 0 - 2 Original Alignment ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAAC-GATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATag agccaaactgccatgttttttgataaggatttctttttctttcctattagATCCGAAATATGCTAAAGCAAGGTATTGAAACCCCAGAAAGCCAGAATCGATCTACACAAGATGCAGCTTCGAGAGCTGGCTC-CCTAAATGGCACTCTACGGGAGGAA---GCCcggtgagaggaatgttgaagaaaatgcatgggcaggtataagttttaccgaa Alignment from CESAR ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAAC-GATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATag agccaaactgccatgttttttgataaggatttctttttctttcctattagATCCGAAATATGCTAAAGCAAGGTATTGAAACCCCAGAAAGCCAGAATCGATCTACACAAGATGCAGCTTCGAGAGCTGGCT-CCCTAAATGGCACTCTACGGGAG---GAAGCCcggtgagaggaatgttgaagaaaatgcatgggcaggtataagttttaccgaa Alignment from Spaln_aa2Genome ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATAG agccaaactgccatgttttttgataaggatttctttttctttcctattagATCCGAAATATGCTAAAGCAAGGTATTGAAACCCCAGAAAGCCAGAATCGATCTACACAAGATGCAGCTTCGAGAGCTGGCTCCCTAAATGGCACTCTACGGGAG---GAAGCCCGgtgagaggaatgttgaagaaaatgcatgggcaggtataagttttaccgaa Alignment from Spaln_nt2Genome ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAA-CGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATAG agccaaactgccatgttttttgataaggatttctttttctttcctattagATCCGAAATATGCTAAAGCAAGGTATTGAAACCCCAGAAAGCCAGAATCGATCTACACAAGATGCAGCTTCGAGAGCTGGCTC-CCTAAATGGCACTCTACGGGAGGAAG---CCCGgtgagaggaatgttgaagaaaatgcatgggcaggtataagttttaccgaa Alignment from Pairagon ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAA-CGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGA----------------------------------------------------- agccaaactgccatgttttttgataaggatttctttttctttcctattagATCCGAAATATGCTAAAGCAAGGTATTGAAACCCCAGAAAGCCAGAATCGATCTACACAAGATGCAGCTTCGAGAGCTGGCTC-CCTAAATGGCACTCTACGGGAGGAAGCCCGGTGAGAGGAATGTTGAAGAAAATGCATGGGCAGGTATAAGTTTTACCGAA Alignment from Exonerate_protein2genome ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAA agccaaactgccatgttttttgataaggatttctttttctttcctattagATCCGAAATATGCTAAAGCAAGGTATTGAAACCCCAGAAAGCCAGAATCGATCTACACAAGATGCAGCTTCGAGAGCTGGCTCCCTAAATGGCACTCTACGGGAGGAAGCCCGgtgagaggaatgttgaagaaaatgcatgggcaggtataagttttaccgaa Alignment from Exonerate_coding2genome ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAA agccaaactgccatgttttttgataaggatttctttttctttcctattagATCCGAAATATGCTAAAGCAAGGTATTGAAACCCCAGAAAGCCAGAATCGATCTACACAAGATGCAGCTTCGAGAGCTGGCTCCCTAAATGGCACTCTACGGGAGGAAGCCCGgtgagaggaatgttgaagaaaatgcatgggcaggtataagttttaccgaa Alignment from GeneWise ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGAT-- agccaaactgccatgttttttgataaggatttctttttctttcctattagATCCGAAATATGCTAAAGCAAGGTATTGAAACCCCAGAAAGCCAGAATCGATCTACACAAGATGCAGCTTCGAGAGCTGGCTCCCTAAATGGCACTCTACGGGAGGAAGCCCGgtgagaggaatgttgaagaaaatgcatgggcaggtataagttttaccgaa #### Sf1_ID1667_8 --> 1 - 2 Original Alignment gATCTTAAGGCCCTGGCAGAGCTCA-GAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAGag gtttaagttaccgaaggatcatggagtgctgtgatttttgtgttccgtagaATCTTGAGGCCCTGGCAAAGCTCACGAGACCCGGACTATTACCAATTCTACTGTGTGTACCA-ATGTGGAGGAGCCGGTCACATAGCCTCTGATTGCAAAGTTCAGaggtactgccaaccgagaagacctggctactacagaagttgatagcctatgt Alignment from CESAR gATCTTAAGGCCCTGGCAGAGCTCA-GAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAGag gtttaagttaccgaaggatcatggagtgctgtgatttttgtgttccgtagaATCTTGAGGCCCTGGCAAAGCTCACGAGACCCGGACTATTACCAATTCTACTGTGTGTACC-AATGTGGAGGAGCCGGTCACATAGCCTCTGATTGCAAAGTTCAGaggtactgccaaccgagaagacctggctactacagaagttgatagcctatgt Alignment from Spaln_aa2Genome GATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAGAG gtttaagttaccgaaggatcatggagtgctgtgatttttgtgttccgtagAATCTTGAGGCCCTGGCAAAGCTCACGAGACCCGGACTATTACCAATTCTACTGTGTGTACCAATGTGGAGGAGCCGGTCACATAGCCTCTGATTGCAAAGTTCAGAGgtactgccaaccgagaagacctggctactacagaagttgatagcctatgt Alignment from Spaln_nt2Genome GATCTTAAGGCCCTGGCAGAGCTCA-GAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAGAG gtttaagttaccgaaggatcatggagtgctgtgatttttgtgttccgtagAATCTTGAGGCCCTGGCAAAGCTCACGAGACCCGGACTATTACCAATTCTACTGTGTGTACCAA-TGTGGAGGAGCCGGTCACATAGCCTCTGATTGCAAAGTTCAGAGgtactgccaaccgagaagacctggctactacagaagttgatagcctatgt Alignment from Pairagon -----------------------------------------------TAGGATCTTAAGGCCCTGGCAGAGCTCA-GAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAGAG GTTTAAGTTACCGAAGGATCATGGAGTGCTGTGATTTTTGTGTTCCGTAGAATCTTGAGGCCCTGGCAAAGCTCACGAGACCCGGACTATTACCAATTCTACTGTGTGTACCAA-TGTGGAGGAGCCGGTCACATAGCCTCTGATTGCAAAGTTCAGAGgtactgccaaccgagaagacctggctactacagaagttgatagcctatgt Alignment from Exonerate_protein2genome TAGGATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAGAG gtttaagttaccgaaggatcatggagtgctgtgatttttgtgttccgTAGAATCTTGAGGCCCTGGCAAAGCTCACGAGACCCGGACTATTACCAATTCTACTGTGTGTACCAATGTGGAGGAGCCGGTCACATAGCCTCTGATTGCAAAGTTCAGAGgtactgccaaccgagaagacctggctactacagaagttgatagcctatgt Alignment from Exonerate_coding2genome TAGGATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAGAG gtttaagttaccgaaggatcatggagtgctgtgatttttgtgttccgTAGAATCTTGAGGCCCTGGCAAAGCTCACGAGACCCGGACTATTACCAATTCTACTGTGTGTACCAATGTGGAGGAGCCGGTCACATAGCCTCTGATTGCAAAGTTCAGAGgtactgccaaccgagaagacctggctactacagaagttgatagcctatgt Alignment from GeneWise -------------------AATAGGATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAGAG gtttaagttaccgaaggatcatggagTGCTGTGATTTTTGTGTTCCGTAGAATCTTGAGGCCCTGGCAAAGCTCACGAGACCCGGACTATTACCAATTCTACTGTGTGTACCAATGTGGAGGAGCCGGTCACATAGCCTCTGATTGCAAAGTTCAGAGgtactgccaaccgagaagacctggctactacagaagttgatagcctatgt #### Sf1_ID1669_10 --> 0 - 1 Original Alignment TCTCTCATGTCTACAACTCAG-AGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGg ggggtcagacttgtctatgctaaaacagtgttttgtttttgtccctttagTCTCTCATGTCTACAACTCAGCAGCCACCCACCCTGGATGAATTCTGGTCCTTCAGAGAATC-GCCCTACCATGGCATGCATGGAGGCGGTCCTGGTGGGCCTGGAGGAGGCCCCCACAGTTTTCCACACCCATTACCCAGTCTCACAGGTGGGCATGGTGGTCACCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCTCCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGCCCCTCCACCAATGggtatgcaagatgaccaagagcatttagggcttgagcaaatggcagacacc Alignment from CESAR TCTCTCATGTCTACAACTCAG-AGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGg ggggtcagacttgtctatgctaaaacagtgttttgtttttgtccctttagTCTCTCATGTCTACAACTCAGCAGCCACCCACCCTGGATGAATTCTGGTCCTTCAGAGAATC-GCCCTACCATGGCATGCATGGAGGCGGTCCTGGTGGGCCTGGAGGAGGCCCCCACAGTTTTCCACACCCATTACCCAGTCTCACAGGTGGGCATGGTGGTCACCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCTCCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGCCCCTCCACCAATGggtatgcaagatgaccaagagcatttagggcttgagcaaatggcagacacc Alignment from Spaln_aa2Genome TCTCTCATGTCTACAACTCAG-AGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGG ggggtcagacttgtctatgctaaaacagtgttttgtttttgtccctttagTCTCTCATGTCTACAACTCAGcAGCCACCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGCCC-TACCATGGCATGCATGGAGGCGGTCCTGGTGGGCCTGGAGGAGGCCCCCACAGTTTTCCACACCCATTACCCAGTCTCACAGGTGGGCATGGTGGTCACCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCTCCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGCCCCTCCACCAATGGgtatgcaagatgaccaagagcatttagggcttgagcaaatggcagacacc Alignment from Spaln_nt2Genome TCTCTCATGTCTACAACTCAG-AGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGG ggggtcagacttgtctatgctaaaacagtgttttgtttttgtccctttagTCTCTCATGTCTACAACTCAGCAGCCACCCACCCTGGATGAATTCTGGTCCTTCAGAGAATC-GCCCTACCATGGCATGCATGGAGGCGGTCCTGGTGGGCCTGGAGGAGGCCCCCACAGTTTTCCACACCCATTACCCAGTCTCACAGGTGGGCATGGTGGTCACCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCTCCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGCCCCTCCACCAATGGgtatgcaagatgaccaagagcatttagggcttgagcaaatggcagacacc Alignment from Pairagon TCTCTCATGTCTACAACTCAG-AGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGG ggggtcagacttgtctatgctaaaacagtgttttgtttttgtccctttagTCTCTCATGTCTACAACTCAGCAGCCACCCACCCTGGATGAATTCTGGTCCTTCAGAGAATC-GCCCTACCATGGCATGCATGGAGGCGGTCCTGGTGGGCCTGGAGGAGGCCCCCACAGTTTTCCACACCCATTACCCAGTCTCACAGGTGGGCATGGTGGTCACCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCTCCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGCCCCTCCACCAATGGgtatgcaagatgaccaagagcatttagggcttgagcaaatggcagacacc Alignment from Exonerate_protein2genome TCTCTCATGTCTACAACTCAG-AGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAAT--CGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGG ggggtcagacttgtctatgctaaaacagtgttttgtttttgtccctttagTCTCTCATGTCTACAACTCAGCAGCCACCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCG---CCCTACCATGGCATGCATGGAGGCGGTCCTGGTGGGCCTGGAGGAGGCCCCCACAGTTTTCCACACCCATTACCCAGTCTCACAGGTGGGCATGGTGGTCACCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCTCCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGCCCCTCCACCAATGGgtatgcaagatgaccaagagcatttagggcttgagcaaatggcagacacc Alignment from Exonerate_coding2genome TCTCTCATGTCTACAACTCAGAG---CCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGG ggggtcagacttgtctatgctaaaacagtgttttgtttttgtccctttagTCTCTCATGTCTACAACTCAG--CAGCCACCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCG-CCCTACCATGGCATGCATGGAGGCGGTCCTGGTGGGCCTGGAGGAGGCCCCCACAGTTTTCCACACCCATTACCCAGTCTCACAGGTGGGCATGGTGGTCACCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCTCCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGCCCCTCCACCAATGGgtatgcaagatgaccaagagcatttagggcttgagcaaatggcagacacc Alignment from GeneWise TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGG ggggtcagacttgtctatgctaaaacagtgttttgtttttgtccctttagTCTCTCATGTCTACAACTCAGCAGCCACCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGCCCTACCATGGCATGCATGGAGGCGGTCCTGGTGGGCCTGGAGGAGGCCCCCACAGTTTTCCACACCCATTACCCAGTCTCACAGGTGGGCATGGTGGTCACCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCTCCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGCCCCTCCACCAATGGgtatgcaagatgaccaagagcatttagggcttgagcaaatggcagacacc #### Sf3b2_ID907_11 --> 0 - 0 Original Alignment GAAAAGAAGCCG-GAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG cagagctgcctcacacaatgacacctaactatccttcctccatgacacagAAGAAGAAGCCACGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGTATGAACC-ATTTACGGTTGCAGAATTAAAGCAAgtactcagttttgggaaagtcaagccagctactccagctctggtcaacgt Alignment from CESAR GAAAAGAAGCCG-GAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG cagagctgcctcacacaatgacacctaactatccttcctccatgacacagAAGAAGAAGCCACGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGTATGAACC-ATTTACGGTTGCAGAATTAAAGCAAgtactcagttttgggaaagtcaagccagctactccagctctggtcaacgt Alignment from Spaln_aa2Genome GAAAAGAAGCCG-GAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG cagagctgcctcacacaatgacacctaactatccttcctccatgacacagAAGAAGAAGCCAcGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGTATGAACCA-TTTACGGTTGCAGAATTAAAGCAAgtactcagttttgggaaagtcaagccagctactccagctctggtcaacgt Alignment from Spaln_nt2Genome GAAAAGAAGCCG-GAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG cagagctgcctcacacaatgacacctaactatccttcctccatgacacagAAGAAGAAGCCACGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGTATGAA-CCATTTACGGTTGCAGAATTAAAGCAAgtactcagttttgggaaagtcaagccagctactccagctctggtcaacgt Alignment from Pairagon GAAAAGAAGCCG-GAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG cagagctgcctcacacaatgacacctaactatccttcctccatgacacagAAGAAGAAGCCACGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGTATGAACCA-TTTACGGTTGCAGAATTAAAGCAAgtactcagttttgggaaagtcaagccagctactccagctctggtcaacgt Alignment from Exonerate_protein2genome GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG cagagctgcctcacacaatgacacctaactatccttcctccatgacacagAAGAAGAAGCCACGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGTATGAACCATTTACGGTTGCAGAATTAAAGCAAgtactcagttttgggaaagtcaagccagctactccagctctggtcaacgt Alignment from Exonerate_coding2genome GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG cagagctgcctcacacaatgacacctaactatccttcctccatgacacagAAGAAGAAGCCACGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGTATGAACCATTTACGGTTGCAGAATTAAAGCAAgtactcagttttgggaaagtcaagccagctactccagctctggtcaacgt Alignment from GeneWise GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG cagagctgcctcacacaatgacacctaactatccttcctccatgacacagAAGAAGAAGCCACGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGTATGAACCATTTACGGTTGCAGAATTAAAGCAAgtactcagttttgggaaagtcaagccagctactccagctctggtcaacgt #### Sf3b2_ID911_7 --> 0 - 1 Original Alignment ATGGATGATCCTTCTGTG-GGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGg tttttgcaacgggataagtttcagacccctatcctatcccctgctcccagATT---GACCCCTCAGTGCGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTC-GCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAG---ggtgagtttgatacttcaacacacattagctgggggctgctgctttcacta Alignment from CESAR ATGGATGATCCTTCTGTG-GGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGg tttttgcaacgggataagtttcagacccctatcctatcccctgctcccagATT---GACCCCTCAGTGCGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTT-CGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCT---CAGggtgagtttgatacttcaacacacattagctgggggctgctgctttcacta Alignment from Spaln_aa2Genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAG- tttttgcaacgggataagtttcagacccctatcctatcccctgctcccagATT---GACCCCTCAGTGCGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTCGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAGGgtgagtttgatacttcaacacacattagctgggggctgctgctttcacta Alignment from Spaln_nt2Genome ATGGATGATCCTTCTGTG-GGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG tttttgcaacgggataagtttcagacccctatcctatcccctgctcccagAT---TGACCCCTCAGTGCGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTC-GCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCT---CAGGgtgagtttgatacttcaacacacattagctgggggctgctgctttcacta Alignment from Pairagon ATGGATGATCCTTCTGTG-GGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGGAGGAGGAGG tttttgcaacgggataagtttcagacccctatcctatcccctgctcccagAT---TGACCCCTCAGTGCGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTC-GCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTC------------AGGgtgagtttgatacttcaacacacattagctgggggctgctgctttcacta Alignment from Exonerate_protein2genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG tttttgcaacgggataagtttcagacccctatcctatcccctgctcccagATT---GACCCCTCAGTGCGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTCGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCT---CAGGgtgagtttgatacttcaacacacattagctgggggctgctgctttcacta Alignment from Exonerate_coding2genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG tttttgcaacgggataagtttcagacccctatcctatcccctgctcccagATT---GACCCCTCAGTGCGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTCGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCT---CAGGgtgagtttgatacttcaacacacattagctgggggctgctgctttcacta Alignment from GeneWise ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG tttttgcaacgggataagtttcagacccctatcctatcccctgctcccagATTGAC---CCCTCAGTGCGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTCGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCT---CAGGgtgagtttgatacttcaacacacattagctgggggctgctgctttcacta #### Sfxn3_ID9286_4 --> 1 - 0 Original Alignment gCAGTTGGGGACAGCCTATGTG-AGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG tccagcctaaacttggtagcttcctactttttttttcttttaattaataggCCGTTAGGGACAGCCTATGTGCAGTGCCACCACTGGAGCTGTGGCTACGGCTC-GGGACTAAAGTCTCTGACCAAGgtgaggtttccctccttctttctaaagttctaccttcatgaggtcaccac Alignment from CESAR gCAGTTGGGGACAGCCTATGTG-AGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG tccagcctaaacttggtagcttcctactttttttttcttttaattaataggCCGTTAGGGACAGCCTATGTGCAGTGCCACCACTGGAGCTGTGGCTACGGCT-CGGGACTAAAGTCTCTGACCAAGgtgaggtttccctccttctttctaaagttctaccttcatgaggtcaccac Alignment from Spaln_aa2Genome GCAGTTGGGGACAGCCTATGTG-AGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG tccagcctaaacttggtagcttcctactttttttttcttttaattaatagGCCGTTAGGGACAGCCTATGTGcAGTGCCACCACTGGAGCTGTGGCTACGGCTCG-GGACTAAAGTCTCTGACCAAGgtgaggtttccctccttctttctaaagttctaccttcatgaggtcaccac Alignment from Spaln_nt2Genome GCAGTTGGGGACAGCCTATGTG-AGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG tccagcctaaacttggtagcttcctactttttttttcttttaattaatagGCCGTTAGGGACAGCCTATGTGCAGTGCCACCACTGGAGCTGTGGCTACGGCTC-GGGACTAAAGTCTCTGACCAAGgtgaggtttccctccttctttctaaagttctaccttcatgaggtcaccac Alignment from Pairagon GCAGTTGGGGACAGCCTATGTG-AGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG tccagcctaaacttggtagcttcctactttttttttcttttaattaatagGCCGTTAGGGACAGCCTATGTGCAGTGCCACCACTGGAGCTGTGGCTACGGCTC-GGGACTAAAGTCTCTGACCAAGgtgaggtttccctccttctttctaaagttctaccttcatgaggtcaccac Alignment from Exonerate_protein2genome GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG tccagcctaaacttggtagcttcctactttttttttcttttaattaatagGCCGTTAGGGACAGCCTATGTGCAGTGCCACCACTGGAGCTGTGGCTACGGCTCGGGACTAAAGTCTCTGACCAAGgtgaggtttccctccttctttctaaagttctaccttcatgaggtcaccac Alignment from Exonerate_coding2genome GTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG tccagcctaaacttggtagcttcctactttttttttcttttaattaataggccgTTAGGGACAGCCTATGTGCAGTGCCACCACTGGAGCTGTGGCTACGGCTCG-GGACTAAAGTCTCTGACCAAGgtgaggtttccctccttctttctaaagttctaccttcatgaggtcaccac Alignment from GeneWise GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG tccagcctaaacttggtagcttcctactttttttttcttttaattaatagGCCGTTAGGGACAGCCTATGTGCAGTGCCACCACTGGAGCTGTGGCTACGGCTCGGGACTAAAGTCTCTGACCAAGgtgaggtttccctccttctttctaaagttctaccttcatgaggtcaccac #### Sipa1_ID1138_14 --> 1 - 0 Original Alignment gCCAGAACCCGGGAGCCTG-TCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG cttgattttctgttgggtgtggcatccttgtcctatctgttgtgtcccaggCCA---CCTGGGAGCCTACTCAGAAAAGGTCTCTCATCTAGAGTCCATGCTCT-GAAATTGCAAGAGGATTTGCAGCGAgtatgttgcatacctggaaagggtttaaagggctgccatgggacgtggga Alignment from CESAR gCCAGAACCCGGGAGCCTG-TCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG cttgattttctgttgggtgtggcatccttgtcctatctgttgtgtcccaggCCA---CCTGGGAGCCTACTCAGAAAAGGTCTCTCATCTAGAGTCCATGCTC-TGAAATTGCAAGAGGATTTGCAGCGAgtatgttgcatacctggaaagggtttaaagggctgccatgggacgtggga Alignment from Spaln_aa2Genome GCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG cttgattttctgttgggtgtggcatccttgtcctatctgttgtgtcccaggccacctgggagCCTACTCAGAAAAGGTCTCTCATCTAGAGTCCATGCTCTG-AAATTGCAAGAGGATTTGCAGCGAgtatgttgcatacctggaaagggtttaaagggctgccatgggacgtggga Alignment from Spaln_nt2Genome GCCAGAACCCGGGAGCCTG-TCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG cttgattttctgttgggtgtggcatccttgtcctatctgttgtgtcccagGCC---ACCTGGGAGCCTACTCAGAAAAGGTCTCTCATCTAGAGTCCATGCTCT-GAAATTGCAAGAGGATTTGCAGCGAgtatgttgcatacctggaaagggtttaaagggctgccatgggacgtggga Alignment from Pairagon GCCAGAACCCGGGAGCCTG-TCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG cttgattttctgttgggtgtggcatccttgtcctatctgttgtgtcccagGCC---ACCTGGGAGCCTACTCAGAAAAGGTCTCTCATCTAGAGTCCATGCTCT-GAAATTGCAAGAGGATTTGCAGCGAgtatgttgcatacctggaaagggtttaaagggctgccatgggacgtggga Alignment from Exonerate_protein2genome GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG cttgattttctgttgggtgtggcatccttgtcctatctgttgtgtcccagGCCA---CCTGGGAGCCTACTCAGAAAAGGTCTCTCATCTAGAGTCCATGCTCTGAAATTGCAAGAGGATTTGCAGCGAgtatgttgcatacctggaaagggtttaaagggctgccatgggacgtggga Alignment from Exonerate_coding2genome cttgattttctgttgggtgtggcatccttgtcctatctgttgtgtcccaggccacctgggagcctactcagaaaaggtctctcatctagagtccatgctctgaaattgcaagaggatttgcagcgagtatgttgcatacctggaaagggtttaaagggctgccatgggacgtggga Alignment from GeneWise GCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG cttgattttctgttgggtgtggcatccttgtcctatctgttgtgtcccaggccacctgggagCCTACTCAGAAAAGGTCTCTCATCTAGAGTCCATGCTCTG-AAATTGCAAGAGGATTTGCAGCGAgtatgttgcatacctggaaagggtttaaagggctgccatgggacgtggga #### Sipa1_ID1140_12 --> 2 - 1 Original Alignment ttATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATC-TCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGg aggcttgacatcattgtcttcgctcttgttttttttcactttttttttagttATGCCAGAAGCTGCCACTGAAACCTTGGAT---GAATGGCAGTCCATCCTCTGCAATTTCCTCCACTTGCAACACAATCT-GGAGTCCCTGTCTCGGGAAggtaagttccctgtctcgggaaggtgatgctgttcattggacattagccat Alignment from CESAR ttATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATC-TCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGg aggcttgacatcattgtcttcgctcttgttttttttcactttttttttagttATGCCAGAAGCTGCCACTGAAACCTTG---GATGAATGGCAGTCCATCCTCTGCAATTTCCTCCACTTGCAACACAA-TCTGGAGTCCCTGTCTCGGGAAggtaagttccctgtctcgggaaggtgatgctgttcattggacattagccat Alignment from Spaln_aa2Genome TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG aggcttgacatcattgtcttcgctcttgttttttttcactttttttttagTTATGCCAGAAGCTGCCACTGAAACCTTG---GATGAATGGCAGTCCATCCTCTGCAATTTCCTCCACTTGCAACACAATCTGGAGTCCCTGTCTCGGGAAGgtaagttccctgtctcgggaaggtgatgctgttcattggacattagccat Alignment from Spaln_nt2Genome TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATC-TCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG aggcttgacatcattgtcttcgctcttgttttttttcactttttttttagTTATGCCAGAAGCTGCCACTGAAACCTT---GGATGAATGGCAGTCCATCCTCTGCAATTTCCTCCACTTGCAACACAA-TCTGGAGTCCCTGTCTCGGGAAGgtaagttccctgtctcgggaaggtgatgctgttcattggacattagccat Alignment from Pairagon TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCAT-CTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG aggcttgacatcattgtcttcgctcttgttttttttcactttttttttagTTATGCCAGAAGCTGCCACTGAAACCTT---GGATGAATGGCAGTCCATCCTCTGCAATTTCCTCCACTTGCAACACAA-TCTGGAGTCCCTGTCTCGGGAAGgtaagttccctgtctcgggaaggtgatgctgttcattggacattagccat Alignment from Exonerate_protein2genome TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG aggcttgacatcattgtcttcgctcttgttttttttcactttttttttagTTATGCCAGAAGCTGCCACTGAAACCTTG---GATGAATGGCAGTCCATCCTCTGCAATTTCCTCCACTTGCAACACAATCTGGAGTCCCTGTCTCGGGAAGgtaagttccctgtctcgggaaggtgatgctgttcattggacattagccat Alignment from Exonerate_coding2genome TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG aggcttgacatcattgtcttcgctcttgttttttttcactttttttttagTTATGCCAGAAGCTGCCACTGAAACCTTG---GATGAATGGCAGTCCATCCTCTGCAATTTCCTCCACTTGCAACACAATCTGGAGTCCCTGTCTCGGGAAGgtaagttccctgtctcgggaaggtgatgctgttcattggacattagccat Alignment from GeneWise TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG aggcttgacatcattgtcttcgctcttgttttttttcactttttttttagTTATGCCAGAAGCTGCCACTGAAACCTTG---GATGAATGGCAGTCCATCCTCTGCAATTTCCTCCACTTGCAACACAATCTGGAGTCCCTGTCTCGGGAAGgtaagttccctgtctcgggaaggtgatgctgttcattggacattagccat #### Sipa1_ID1146_6 --> 0 - 2 Original Alignment CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACC-ATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACag ttgagcacactgaaaatcaggtatttttaatttaacaatttttctaacagCTGCTAAGGAAATGTCACATCAGTAATGACATTGTGACTCATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGA-AGTATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACaggtatgaatttggttaagctggggtcttagggatgggtcagctgtcatggt Alignment from CESAR CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACC-ATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACag ttgagcacactgaaaatcaggtatttttaatttaacaatttttctaacagCTGCTAAGGAAATGTCACATCAGTAATGACATTGTGACTCATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATG-AAGTATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACaggtatgaatttggttaagctggggtcttagggatgggtcagctgtcatggt Alignment from Spaln_aa2Genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACC-ATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG ttgagcacactgaaaatcaggtatttttaatttaacaatttttctaacagCTGCTAAGGAAATGTCACATCAGTAATGACATTGTGACTcATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGAA-GTATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACAGgtatgaatttggttaagctggggtcttagggatgggtcagctgtcatggt Alignment from Spaln_nt2Genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGAC-CATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG ttgagcacactgaaaatcaggtatttttaatttaacaatttttctaacagCTGCTAAGGAAATGTCACATCAGTAATGACATTGTGACTCATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGA-AGTATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACAGgtatgaatttggttaagctggggtcttagggatgggtcagctgtcatggt Alignment from Pairagon CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGAC-CATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG ttgagcacactgaaaatcaggtatttttaatttaacaatttttctaacagCTGCTAAGGAAATGTCACATCAGTAATGACATTGTGACTCATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGA-AGTATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACAGgtatgaatttggttaagctggggtcttagggatgggtcagctgtcatggt Alignment from Exonerate_protein2genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACC-ATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCT--ACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG ttgagcacactgaaaatcaggtatttttaatttaacaatttttctaacagCTGCTAAGGAAATGTCACATCAGTAATGACATTGTGACTCATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTAT---GAAGTATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACAGgtatgaatttggttaagctggggtcttagggatgggtcagctgtcatggt Alignment from Exonerate_coding2genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACC-ATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCT--ACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG ttgagcacactgaaaatcaggtatttttaatttaacaatttttctaacagCTGCTAAGGAAATGTCACATCAGTAATGACATTGTGACTCATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTAT---GAAGTATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACAGgtatgaatttggttaagctggggtcttagggatgggtcagctgtcatggt Alignment from GeneWise CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG ttgagcacactgaaaatcaggtatttttaatttaacaatttttctaacagCTGCTAAGGAAATGTCACATCAGTAATGACATTGTGACTCATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGAAGTATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACAGgtatgaatttggttaagctggggtcttagggatgggtcagctgtcatggt #### Slc15a3_ID3029_4 --> 0 - 0 Original Alignment ATGCAGTCCACC-TATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ttagggctctactactaggtgtactgactccagccattcctctcccacagATGCAGTCAACTCTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCT-TAGGACC---CCTAACATATCTCTCTTGCTGAGATCAGACAGCAGTAACTACAGAgtaaaatgcttgtgctaaactacatggttatatcacagtcactgaggaaa Alignment from CESAR ATGCAGTCCACC-TATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ttagggctctactactaggtgtactgactccagccattcctctcccacagATGCAGTCAACTCTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATC-TTAGGACC---CCTAACATATCTCTCTTGCTGAGATCAGACAGCAGTAACTACAGAgtaaaatgcttgtgctaaactacatggttatatcacagtcactgaggaaa Alignment from Spaln_aa2Genome ATGCAGTCCACC-TATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ttagggctctactactaggtgtactgactccagccattcctctcccacagATGCAGTCAACTcTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTTAGG----ACCCCTAACATATCTCTCTTGCTGAGATCAGACAGCAGTAACTACAGAgtaaaatgcttgtgctaaactacatggttatatcacagtcactgaggaaa Alignment from Spaln_nt2Genome ATGCAGTCCAC-CTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ttagggctctactactaggtgtactgactccagccattcctctcccacagATGCAGTCAACTCTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTT-AGGAC---CCCTAACATATCTCTCTTGCTGAGATCAGACAGCAGTAACTACAGAgtaaaatgcttgtgctaaactacatggttatatcacagtcactgaggaaa Alignment from Pairagon ATGCAGTCCAC-CTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ttagggctctactactaggtgtactgactccagccattcctctcccacagATGCAGTCAACTCTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTT-AGGAC---CCCTAACATATCTCTCTTGCTGAGATCAGACAGCAGTAACTACAGAgtaaaatgcttgtgctaaactacatggttatatcacagtcactgaggaaa Alignment from Exonerate_protein2genome ATGCAGTCCACC-TATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCT--AACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ttagggctctactactaggtgtactgactccagccattcctctcccacagATGCAGTCAACTCTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTTA------GGACCCCTAACATATCTCTCTTGCTGAGATCAGACAGCAGTAACTACAGAgtaaaatgcttgtgctaaactacatggttatatcacagtcactgaggaaa Alignment from Exonerate_coding2genome ATGCAGTCCACC---TATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ttagggctctactactaggtgtactgactccagccattcctctcccacagATGCAGTCAACTCTACAT--CCTCCAAGGTCTACACCTCCATATCCCAAACATCTTAGG----ACCCCTAACATATCTCTCTTGCTGAGATCAGACAGCAGTAACTACAGAgtaaaatgcttgtgctaaactacatggttatatcacagtcactgaggaaa Alignment from GeneWise ------------------ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ttagggctctactactaggtgtactgactccagCCATTCCTCTCCCACAGATGCAGTCAACTCTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTT-AGGACC---CCTAACATATCTCTCTTGCTGAGATCAGACAGCAGTAACTACAGAgtaaaatgcttgtgctaaactacatggttatatcacagtcactgaggaaa #### Slc18a2_ID12936_4 --> 2 - 1 Original Alignment tgTTTGCCTTCTCCAGCAGCTAT-GCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTg caggtttatgtaggggaccaggaaggcaaccactacccctctccctttagtgTTTGCATAT------GGTTATCGCCTTCCTCCTGATCGCCAAGTCCTTGCAAGGAATAGGTTCAT-TTGCTCATCTGTTGCTggtacagctataattaatgtatgaccatggactcacaggtattgaggcagg Alignment from CESAR tgTTTGCCTTCTCCAGCAGCTAT-GCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTg caggtttatgtaggggaccaggaaggcaaccactacccctctccctttagtgTTTGCATAT------GGTTATCGCCTTCCTCCTGATCGCCAAGTCCTTGCAAGGAATAGGTTCA-TTTGCTCATCTGTTGCTggtacagctataattaatgtatgaccatggactcacaggtattgaggcagg Alignment from Spaln_aa2Genome GTTATGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG caggtttatgtaggggaccaggaaggcaaccactacccctctccctttagTGTTTGCATATGGTTATC---------GCCTTCCTCCTGATCGCCAAGTCCTTGCAAGGAATAGGTTCATT-TGCTCATCTGTTGCTGgtacagctataattaatgtatgaccatggactcacaggtattgaggcagg Alignment from Spaln_nt2Genome TGTTTGCCTTCTCCAGCAGCTAT-GCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG caggtttatgtaggggaccaggaaggcaaccactacccctctccctttagTGTTTGCAT------ATGGTTATCGCCTTCCTCCTGATCGCCAAGTCCTTGCAAGGAATAGGTTCAT-TTGCTCATCTGTTGCTGgtacagctataattaatgtatgaccatggactcacaggtattgaggcagg Alignment from Pairagon TGTTTGCCTTCTCCAGCAGCTAT---------GCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG caggtttatgtaggggaccaggaaggcaaccactacccctctccctttagTGTTTGC--------------ATATGGTTATCGCCTTCCTCCTGATCGCCAAGTCCTTGCAAGGAATAGGTTCAT-TTGCTCATCTGTTGCTGgtacagctataattaatgtatgaccatggactcacaggtattgaggcagg Alignment from Exonerate_protein2genome CCTTCTCCAGCAGCTAT-GCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCC--TCTTGCTCATCTGTGGCTG caggtttatgtaggggaccaggaaggcaaccactacccctctccctttagTGTTTGCATATGGTTATCGCCTTCCTCCTGATCGCCAAGTCCTTGCAAGGAATAGGTTCATT---TGCTCATCTGTTGCTGgtacagctataattaatgtatgaccatggactcacaggtattgaggcagg Alignment from Exonerate_coding2genome caggtttatgtaggggaccaggaaggcaaccactacccctctccctttagtgtttgcatatggttatcgccttcctcctgatcgccaagtccttgcaaggaataggttcatttgctcatctgttgctggtacagctataattaatgtatgaccatggactcacaggtattgaggcagg Alignment from GeneWise caggtttatgtaggggaccaggaaggcaaccactacccctctccctttagtgtttgcatatggttatcgccttcctcctgatcgccaagtccttgcaaggaataggttcatttgctcatctgttgctggtacagctataattaatgtatgaccatggactcacaggtattgaggcagg #### Slc22a12_ID1788_9 --> 1 - 2 Original Alignment gATGACTGCAGTG-GGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCTTTGGTACGGCTGCTGGGTGTCTATGGCTCCTGGATGCCCCTGCTGGTGTATGGAGTGGTGCCAGTGTTAAGTGGCCTAGCTGCACTGCTGCTGCCTGAGACCAAGAACTTACCACTGCCTGACACCATCCAAGACATCCAGAAAca gcctaatgaatacaaaagaatattgctgctctgcttttgcgatgtttcaggATGACTGCAGTACTGTGTCTGCCATGTTGTGGCTCGAGGGGGAGCTACTT-GGGGCCTTTATTG---------------------------ATACCCTTGCTGGTTTATGGA------CCAGTTTTAAGTGGCTTTGCAGCATTGCTACTGCCTGAGACCAAAATATTACCTCTTCCTGACACCATTCAAGATATACAGAAAcagtgagtttaaacagactgtttgaatttgctgtttgattccctccatcttt Alignment from CESAR gATGACTGCAGTG-GGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCTTTGGTACGGCTGCTGGGTGTCTATGGCTCCTGGATGCCCCTGCTGGTGTATGGAGTGGTGCCAGTGTTAAGTGGCCTAGCTGCACTGCTGCTGCCTGAGACCAAGAACTTACCACTGCCTGACACCATCCAAGACATCCAGAAAca gcctaatgaatacaaaagaatattgctgctctgcttttgcgatgtttcaggATGACTGCAGTACTGTGTCTGCCATGTTGTGGCTCGAGGGGGAGCT-ACTTGGGGCCTTTATTG---------------------------ATACCCTTGCTGGTTTATGGA------CCAGTTTTAAGTGGCTTTGCAGCATTGCTACTGCCTGAGACCAAAATATTACCTCTTCCTGACACCATTCAAGATATACAGAAAcagtgagtttaaacagactgtttgaatttgctgtttgattccctccatcttt Alignment from Spaln_aa2Genome GATGACTGCAGTGGGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCTTTGGTACGGCTGCTGGGTGTCTATGGCTCCTGGATGCCCCTGCTGGTGTATGGAGTGGTGCCAGTGTTAAGTGGCCTAGCTGCACTGCTGCTGCCTGAGACCAAGAACTTACCACTGCCTGACACCATCCAAGACATCCAGAAACA gcctaatgaatacaaaagaatattgctgctctgcttttgcgatgtttcagGATGACTGCAGTACTGTGTCTGCCATGTTGTGGCTCGAGGGGGAGCTACTTGGGGCCTTTATTG---------------------------ATACCCTTGCTGGTTTATGGA------CCAGTTTTAAGTGGCTTTGCAGCATTGCTACTGCCTGAGACCAAAATATTACCTCTTCCTGACACCATTCAAGATATACAGAAACAgtgagtttaaacagactgtttgaatttgctgtttgattccctccatcttt Alignment from Spaln_nt2Genome GATGACTGCAGTGG-GCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCTTTGGTACGGCTGCTGGGTGTCTATGGCTCCTGGATGCCCCTGCTGGTGTATGGAGTGGTGCCAGTGTTAAGTGGCCTAGCTGCACTGCTGCTGCCTGAGACCAAGAACTTACCACTGCCTGACACCATCCAAGACATCCAGAAACA gcctaatgaatacaaaagaatattgctgctctgcttttgcgatgtttcagGATGACTGCAGTACTGTGTCTGCCATGTTGTGGCTCGAGGGGGAGCTA-CTTGGGGCCTTT---------------------------ATTGATACCCTTGCTGGTTTATGGA------CCAGTTTTAAGTGGCTTTGCAGCATTGCTACTGCCTGAGACCAAAATATTACCTCTTCCTGACACCATTCAAGATATACAGAAACAgtgagtttaaacagactgtttgaatttgctgtttgattccctccatcttt Alignment from Pairagon GATGACTGCA-----GTGGGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCTTTGGTACGGCTGCTGGGTGTCTATGGCTCCTGGATGCCCCTGCTGGTGTATGGAGTGGTGCCAGTGTTAAGTGGCCTAGCTGCACTGCTGCTGCCTGAGACCAAGAACTTACCACTGCCTGACACCATCCAAGACATCCAGAAACA gcctaatgaatacaaaagaatattgctgctctgcttttgcgatgtttcagGATGACTGCAGTACTGTG----TCTGCCATGTTGTGGCTCGAGGGGGAGCTAC-TTGGGGCCTTTA---------------------------TTGATACCCTTGCTGGTTTATGGA------CCAGTTTTAAGTGGCTTTGCAGCATTGCTACTGCCTGAGACCAAAATATTACCTCTTCCTGACACCATTCAAGATATACAGAAACAgtgagtttaaacagactgtttgaatttgctgtttgattccctccatcttt Alignment from Exonerate_protein2genome GATGACTGCAGTGGGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCTTTGGTACGGCTGCTGGGTGTCTATGGCTCCTGGATGCCCCTGCTGGTGTATGGAGTGGTGCCAGTGTTAAGTGGCCTAGCTGCACTGCTGCTGCCTGAGACCAAGAACTTACCACTGCCTGACACCATCCAAGACATCCAGAAACA gcctaatgaatacaaaaGAATATTGCTGCTCTGCTTTTGCGATGTTTCAGGATGACTGCAGTACTGTGTCTGCCATGTTGTGGCTCGAGGGGGAGCTACTTGGGGCCTTTATTGATACCCTTGCTGGTTTATGGACCAGTTTTAAGTGGCTTTGCAGCATTGCTACTGCCTGAGACCAAAATATTACCTCTTCCTGACACCATTCAAGATATACAGAAACAgtgagtttaaacagactgtttgaatttgctgtttgattccctccatcttt Alignment from Exonerate_coding2genome gcctaatgaatacaaaagaatattgctgctctgcttttgcgatgtttcaggatgactgcagtactgtgtctgccatgttgtggctcgagggggagctacttggggcctttattgatacccttgctggtttatggaccagttttaagtggctttgcagcattgctactgcctgagaccaaaatattacctcttcctgacaccattcaagatatacagaaacagtgagtttaaacagactgtttgaatttgctgtttgattccctccatcttt Alignment from GeneWise GATGACTGCAGTGGGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCTTTGGTACGGCTGCTGGGTGTCTATGGCTCCTGGATGCCCCTGCTGGTGTATGGAGTGGTGCCAGTGTTAAGTGGCCTAGCTGCACTGCTGCTGCCTGAGACCAAGAACTTACCACTGCCTGACACCATCCAAGACATCCAGAAACA gcctaatgaatacaaaagaatattgctgctctgcttttgcgatgtttcagGATGACTGCAGTACTGTGTCTGCCATGTTGTGGCTCGAGGGGGAGCTACTTGGGGCCTTTATTG---------------------------ATACCCTTGCTGGTTTATGGA------CCAGTTTTAAGTGGCTTTGCAGCATTGCTACTGCCTGAGACCAAAATATTACCTCTTCCTGACACCATTCAAGATATACAGAAACAgtgagtttaaacagactgtttgaatttgctgtttgattccctccatcttt #### Slc22a12_ID1789_8 --> 2 - 2 Original Alignment ggATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGC-TGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCag ctatggctggttgatacattgtgaagttctgtcctccttcgaaaacctagcaATGGGGGTCCTTCGCTCTGCTCTAGCTGTGCTAGGATTGGGCCTGCCTAGGTGGTGCCTTCACGTGTATCACCATTT-CTCTAGTGAGCTCTTTCCCACTGTTATCaggtaaacgccatgaggcccctggatcacaccaccagaccattgcacataga Alignment from CESAR ggATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGC-TGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCag ctatggctggttgatacattgtgaagttctgtcctccttcgaaaacctagcaATGGGGGTCCTTCGCTCTGCTCTAGCTGTGCTAGGATTGGGCCTGCCTAGGTGGTGCCTTCACGTGTATCACCA-TTTCTCTAGTGAGCTCTTTCCCACTGTTATCaggtaaacgccatgaggcccctggatcacaccaccagaccattgcacataga Alignment from Spaln_aa2Genome GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGC-TGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG ctatggctggttgatacattgtgaagttctgtcctccttcgaaaacctagCAATGGGGGTCCTTCGCTCTGCTCTAGCTGTGCTAGGATTGGGCcTGCCTAGGTGGTGCCTTCACGTGTATCACCAT-TTCTCTAGTGAGCTCTTTCCCACTGTTATCAGgtaaacgccatgaggcccctggatcacaccaccagaccattgcacataga Alignment from Spaln_nt2Genome GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGC-TGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG ctatggctggttgatacattgtgaagttctgtcctccttcgaaaacctagCAATGGGGGTCCTTCGCTCTGCTCTAGCTGTGCTAGGATTGGGCCTGCCTAGGTGGTGCCTTCACGTGTATCACCAT-TTCTCTAGTGAGCTCTTTCCCACTGTTATCAGgtaaacgccatgaggcccctggatcacaccaccagaccattgcacataga Alignment from Pairagon GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGG-CTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG ctatggctggttgatacattgtgaagttctgtcctccttcgaaaacctagCAATGGGGGTCCTTCGCTCTGCTCTAGCTGTGCTAGGATTGGGCCTGCCTAGGTGGTGCCTTCACGTGTATCACCAT-TTCTCTAGTGAGCTCTTTCCCACTGTTATCAGgtaaacgccatgaggcccctggatcacaccaccagaccattgcacataga Alignment from Exonerate_protein2genome GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGC-TGCCTGGGGGGCGCCTTCACCTGCATCACC--ATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG ctatggctggttgatacattgtgaagttctgtcctccttcgaaaacctagCAATGGGGGTCCTTCGCTCTGCTCTAGCTGTGCTAGGATTGGGCCTGCCTAGGTGGTGCCTTCACGTGTATCACCAT---TTCTCTAGTGAGCTCTTTCCCACTGTTATCAGgtaaacgccatgaggcccctggatcacaccaccagaccattgcacataga Alignment from Exonerate_coding2genome ctatggctggttgatacattgtgaagttctgtcctccttcgaaaacctagcaatgggggtccttcgctctgctctagctgtgctaggattgggcctgcctaggtggtgccttcacgtgtatcaccatttctctagtgagctctttcccactgttatcaggtaaacgccatgaggcccctggatcacaccaccagaccattgcacataga Alignment from GeneWise --ATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG ctatggctggttgatacattgtgaagttctgtcctccttcgaaaacctagCAATGGGGGTCCTTCGCTCTGCTCTAGCTGTGCTAGGATTGGGCCTGCCTAGGTGGTGCCTTCACGTGTATCACCATTTCTCTAGTGAGCTCTTTCCCACTGTTATCAGgtaaacgccatgaggcccctggatcacaccaccagaccattgcacataga #### Slc22a12_ID1790_7 --> 1 - 1 Original Alignment gTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTG-CTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATg tcttggcccaggccagggctatttaaagctgcccctaacatttcccccaggTTTTCCATAGGCTTTACCTTTTATGGATTAGCAATTGAC---------CTTGGAAGCAATATATTCCTCCCTCCAATCGATCATTGGGATTGTGGATTTTC-AGTAAAGACAGGTAGTTTGCTCCTGATCACACACTTGGGCCAACACCTTTGTCAGGTCAGTTTTTTGGTC---CCTGGACTATGTATACTTTCCAATGTATTGGTGCCCCATggtgtggctataatctcctactgggggatagtgttcaacagaaaagggaga Alignment from CESAR gTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTG-CTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATg tcttggcccaggccagggctatttaaagctgcccctaacatttcccccaggTTTTCCATAGGCTTTACCTTTTATGGATTAGCAATTGAC---------CTTGGAAGCAATATATTCCTCCCTCCAATCGATCATTGGGATTGTGGATTTTC-AGTAAAGACAGGTAGTTTGCTCCTGATCACACACTTGGGCCAACACCTTTGTCAGGTCAGTTTTTTGGTC---CCTGGACTATGTATACTTTCCAATGTATTGGTGCCCCATggtgtggctataatctcctactgggggatagtgttcaacagaaaagggaga Alignment from Spaln_aa2Genome GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG tcttggcccaggccagggctatttaaagctgcccctaacatttcccccagGTTTTCCATAGGCTTTACCTTTTATGGATTAGCAATTGAC---------CTTGGAAGCAATATATTCCTCCCTCCAATCGATCATTGGGATTGTGGATTTTCAGTAAAGACAGGTAGTTTGCTCCTGATCACACACTTGGGCCAACACCTTTGTCAGGTCAGTTTTTTGGTC---CCTGGACTATGTATACTTTCCAATGTATTGGTGCCCCATGgtgtggctataatctcctactgggggatagtgttcaacagaaaagggaga Alignment from Spaln_nt2Genome GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGC-TCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG tcttggcccaggccagggctatttaaagctgcccctaacatttcccccagGTTTTCCATAGGCTTTACCTTTTATGGATTAGCAATTGA---------CCTTGGAAGCAATATATTCCTCCCTCCAATCGATCATTGGGATTGTGGA-TTTTCAGTAAAGACAGGTAGTTTGCTCCTGATCACACACTTGGGCCAACACCTTTGTCAGGTCAGTTTTTTGG---TCCCTGGACTATGTATACTTTCCAATGTATTGGTGCCCCATGgtgtggctataatctcctactgggggatagtgttcaacagaaaagggaga Alignment from Pairagon GCTGGTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCT-GCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG tcttggcccaggccagggctatttaaagctgcccctaacatttcccccag----GTTTTCCATAGGCTTTACCTTTTATGGATTAGCAATTGA---------CCTTGGAAGCAATATATTCCTCCCTCCAATCGATCATTGGGATTGTGGA-TTTTCAGTAAAGACAGGTAGTTTGCTCCTGATCACACACTTGGGCCAACACCTTTGTCAGGTCAGTTTTTTGG---TCCCTGGACTATGTATACTTTCCAATGTATTGGTGCCCCATGgtgtggctataatctcctactgggggatagtgttcaacagaaaagggaga Alignment from Exonerate_protein2genome GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG tcttggcccaggccagggctatttaaagctgcccctaacatttcccccagGTTTTCCATAGGCTTTACCTTTTATGGATTAGCAATTGAC---------CTTGGAAGCAATATATTCCTCCCTCCAATCGATCATTGGGATTGTGGATTTTCAGTAAAGACAGGTAGTTTGCTCCTGATCACACACTTGGGCCAACACCTTTGTCAGGTCAGTTTTTTGGTC---CCTGGACTATGTATACTTTCCAATGTATTGGTGCCCCATGgtgtggctataatctcctactgggggatagtgttcaacagaaaagggaga Alignment from Exonerate_coding2genome tcttggcccaggccagggctatttaaagctgcccctaacatttcccccaggttttccataggctttaccttttatggattagcaattgaccttggaagcaatatattcctccctccaatcgatcattgggattgtggattttcagtaaagacaggtagtttgctcctgatcacacacttgggccaacacctttgtcaggtcagttttttggtccctggactatgtatactttccaatgtattggtgccccatggtgtggctataatctcctactgggggatagtgttcaacagaaaagggaga Alignment from GeneWise GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG tcttggcccaggccagggctatttaaagctgcccctaacatttcccccagGTTTTCCATAGGCTTTACCTTTTATGGATTAGCAATTGACCTT---------GGAAGCAATATATTCCTCCCTCCAATCGATCATTGGGATTGTGGATTTTCAGTAAAGACAGGTAGTTTGCTCCTGATCACACACTTGGGCCAACACCTTTGTCAGGTCAGTTTTTTGGTC---CCTGGACTATGTATACTTTCCAATGTATTGGTGCCCCATGgtgtggctataatctcctactgggggatagtgttcaacagaaaagggaga #### Slc22a12_ID1791_6 --> 0 - 2 Original Alignment GTGCTGCGGTCAGCTATGGAG-GAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCtg ctgggggagaaactcgaaatgaaaatgaaccactacccctctccctttagGTCCTATGGTCAGCTATGGACCAAAGAACCAAGCAGGGACCAGGCCTGCG-CAGTCTTAGCACTTTACTCCACACACCTGGACTGCGTCACCGTAGTATTATCTCTATGCTGTGTctgtatgatcatcactacaatggtttgcaagtaggagaagttccccagtcat Alignment from CESAR GTGCTGCGGTCAGCTATGGAGGAG-GAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCtg ctgggggagaaactcgaaatgaaaatgaaccactacccctctccctttagGTCCTATGGTCAGCTATGGACCAAAGAACCAAGCAGGGACCAGGCCTGCG-CAGTCTTAGCACTTTACTCCACACACCTGGACTGCGTCACCGTAGTATTATCTCTATGCTGTGTctgtatgatcatcactacaatggtttgcaagtaggagaagttccccagtcat Alignment from Spaln_aa2Genome GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTG ctgggggagaaactcgaaatgaaaatgaaccactacccctctccctttagGTCCTATGGTCAGCTATGGACCAAAGAACCAAGCAGGGACCAGGCCTGCGCAGTCTTAGCACTTTACTCCACACACCTGGACTGCGTCACCGTAGTATTATCTCTATGCTGTGTCTgtatgatcatcactacaatggtttgcaagtaggagaagttccccagtcat Alignment from Spaln_nt2Genome GTGCTGCGGTCAGCTATGGAGGAG-GAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTG ctgggggagaaactcgaaatgaaaatgaaccactacccctctccctttagGTCCTATGGTCAGCTATGGACCAAAGAACCAAGCAGGGACCAGGCCTGCG-CAGTCTTAGCACTTTACTCCACACACCTGGACTGCGTCACCGTAGTATTATCTCTATGCTGTGTCTgtatgatcatcactacaatggtttgcaagtaggagaagttccccagtcat Alignment from Pairagon GTGCTGCGGTCAGCTATGGA-GGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTG ctgggggagaaactcgaaatgaaaatgaaccactacccctctccctttagGTCCTATGGTCAGCTATGGACCAAAGAACCAAGCAGGGACCAGGCCTGCG-CAGTCTTAGCACTTTACTCCACACACCTGGACTGCGTCACCGTAGTATTATCTCTATGCTGTGTCTgtatgatcatcactacaatggtttgcaagtaggagaagttccccagtcat Alignment from Exonerate_protein2genome GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTG ctgggggagaaactcgaaatgaaaatgaaccactacccctctccctttagGTCCTATGGTCAGCTATGGACCAAAGAACCAAGCAGGGACCAGGCCTGCGCAGTCTTAGCACTTTACTCCACACACCTGGACTGCGTCACCGTAGTATTATCTCTATGCTGTGTCTgtatgatcatcactacaatggtttgcaagtaggagaagttccccagtcat Alignment from Exonerate_coding2genome ctgggggagaaactcgaaatgaaaatgaaccactacccctctccctttaggtcctatggtcagctatggaccaaagaaccaagcagggaccaggcctgcgcagtcttagcactttactccacacacctggactgcgtcaccgtagtattatctctatgctgtgtctgtatgatcatcactacaatggtttgcaagtaggagaagttccccagtcat Alignment from GeneWise GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTG ctgggggagaaactcgaaatgaaaatgaaccactacccctctccctttagGTCCTATGGTCAGCTATGGACCAAAGAACCAAGCAGGGACCAGGCCTGCGCAGTCTTAGCACTTTACTCCACACACCTGGACTGCGTCACCGTAGTATTATCTCTATGCTGTGTCTgtatgatcatcactacaatggtttgcaagtaggagaagttccccagtcat #### Slc22a12_ID1794_3 --> 1 - 1 Original Alignment gTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTG-TCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCt gttagccacagaactattactgctcctcaccatttcatcttaactttcaggTTCGGTTGCAGAAGGGTCCTGACCTGGAGCTATCTTTTGGTGTCTGTGCTCTGTCACAGGTGCTGCTTTCATGCCCACCTTTCCAC-GCATTGTCTGTTTTCTTTCCTGCTAGCCTCCTCAGTGGCTGGTATCATGATGAATACAGCCAGTCTTtgtactgcaagctgttcctggctgacaggatgaactatggcacttcactca Alignment from CESAR gTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTG-TCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCt gttagccacagaactattactgctcctcaccatttcatcttaactttcaggTTCGGTTGCAGAAGGGTCCTGACCTGGAGCTATCTTTTGGTGTCTGTGCTCTGTCACAGGTGCTGCTTTCATGCCCACCTTTCCA-CGCATTGTCTGTTTTCTTTCCTGCTAGCCTCCTCAGTGGCTGGTATCATGATGAATACAGCCAGTCTTtgtactgcaagctgttcctggctgacaggatgaactatggcacttcactca Alignment from Spaln_aa2Genome GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT gttagccacagaactattactgctcctcaccatttcatcttaactttcagGTTCGGTTGCAGAAGGGTCCTGACCTGGAGCTATCTTTTGGTGTCTGTGCTCTGTCACAGGTGCTGCTTTCATGCCCACCTTTCCACGCATTGTCTGTTTTCTTTCCTGCTAGCCTCCTCAGTGGCTGGTATCATGATGAATACAGCCAGTCTTTgtactgcaagctgttcctggctgacaggatgaactatggcacttcactca Alignment from Spaln_nt2Genome GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTG-TCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT gttagccacagaactattactgctcctcaccatttcatcttaactttcagGTTCGGTTGCAGAAGGGTCCTGACCTGGAGCTATCTTTTGGTGTCTGTGCTCTGTCACAGGTGCTGCTTTCATGCCCACCTTTCCACGC-ATTGTCTGTTTTCTTTCCTGCTAGCCTCCTCAGTGGCTGGTATCATGATGAATACAGCCAGTCTTTgtactgcaagctgttcctggctgacaggatgaactatggcacttcactca Alignment from Pairagon GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTG-TCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT gttagccacagaactattactgctcctcaccatttcatcttaactttcagGTTCGGTTGCAGAAGGGTCCTGACCTGGAGCTATCTTTTGGTGTCTGTGCTCTGTCACAGGTGCTGCTTTCATGCCCACCTTTCCACGC-ATTGTCTGTTTTCTTTCCTGCTAGCCTCCTCAGTGGCTGGTATCATGATGAATACAGCCAGTCTTTgtactgcaagctgttcctggctgacaggatgaactatggcacttcactca Alignment from Exonerate_protein2genome GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT gttagccacagaactattactgctcctcaccatttcatcttaactttcagGTTCGGTTGCAGAAGGGTCCTGACCTGGAGCTATCTTTTGGTGTCTGTGCTCTGTCACAGGTGCTGCTTTCATGCCCACCTTTCCACGCATTGTCTGTTTTCTTTCCTGCTAGCCTCCTCAGTGGCTGGTATCATGATGAATACAGCCAGTCTTTgtactgcaagctgttcctggctgacaggatgaactatggcacttcactca Alignment from Exonerate_coding2genome GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT gttagccacagaactattactgctcctcaccatttcatcttaactttcagGTTCGGTTGCAGAAGGGTCCTGACCTGGAGCTATCTTTTGGTGTCTGTGCTCTGTCACAGGTGCTGCTTTCATGCCCACCTTTCCACGCATTGTCTGTTTTCTTTCCTGCTAGCCTCCTCAGTGGCTGGTATCATGATGAATACAGCCAGTCTTTgtactgcaagctgttcctggctgacaggatgaactatggcacttcactca Alignment from GeneWise GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT gttagccacagaactattactgctcctcaccatttcatcttaactttcagGTTCGGTTGCAGAAGGGTCCTGACCTGGAGCTATCTTTTGGTGTCTGTGCTCTGTCACAGGTGCTGCTTTCATGCCCACCTTTCCACGCATTGTCTGTTTTCTTTCCTGCTAGCCTCCTCAGTGGCTGGTATCATGATGAATACAGCCAGTCTTTgtactgcaagctgttcctggctgacaggatgaactatggcacttcactca #### Slc22a20_ID1344_9 --> 1 - 2 Original Alignment gCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGC-CTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGAcg gacttaatcatctctggaccaggtcctttgcctctttctcaccatctcaggCAAATGGGTATGGAGTTTGCTTCTGTCAATGCT---CATTGGAGGTTTGGTGCCCCCATTGATCACATCAC-AGGCGAAATCAGCCCAGTACTGCCACCAGTATTCTCTGGTGCTACATCTGTTCTAGCCGGCATGGCTGTAGCTTGCTTCCTAACG---ACCCGTAATGTGCCACTAGTCGAAATTATCACTGCAATGGAGAGAcggtaagcacactcttatgatgaccggcaacaattgcctcatattgacgtac Alignment from CESAR gCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGAcg gacttaatcatctctggaccaggtcctttgcctctttctcaccatctcaggCAAATGGGTATGGAGTTTGCTTCTGTCAATGCT--CATTGGAGGTTTGGTGCCCCCATTGATCACATCA-CAGGCGAAATCAGCCCAGTACTGCCACCAGTATTCTCTGGTGCTACATCTGTTCTAGCCGGCATGGCTGTAGCTTGCTTCCTAACG---ACCCGTAATGTGCCACTAGTCGAAATTATCACTGCAATGGAGAGAcggtaagcacactcttatgatgaccggcaacaattgcctcatattgacgtac Alignment from Spaln_aa2Genome GCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGACG gacttaatcatctctggaccaggtcctttgcctctttctcaccatctcagGCAAATGGGTATGGAGTTTGCTTCTGTCAATGCTCAT---TGGAGGTTTGGTGCCCCCATTGATCACATCACAGGCGAAATCAGCCCAGTACTGCCACCAGTATTCTCTGGTGCTACATCTGTTCTAGCCGGCATGGCTGTAGCTTGCTTCCTAACG---ACCCGTAATGTGCCACTAGTCGAAATTATCACTGCAATGGAGAGACGgtaagcacactcttatgatgaccggcaacaattgcctcatattgacgtac Alignment from Spaln_nt2Genome GCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGACG gacttaatcatctctggaccaggtcctttgcctctttctcaccatctcagGCAAATGGGTATGGAGTTTGCTTCTGTCAATG--CTCATTGGAGGTTTGGTGCCCCCATTGATCACATCAC-AGGCGAAATCAGCCCAGTACTGCCACCAGTATTCTCTGGTGCTACATCTGTTCTAGCCGGCATGGCTGTAGCTTGCTTCCTAAC---GACCCGTAATGTGCCACTAGTCGAAATTATCACTGCAATGGAGAGACGgtaagcacactcttatgatgaccggcaacaattgcctcatattgacgtac Alignment from Pairagon GCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCAC--CACACTTGGCGAGATCAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGACG gacttaatcatctctggaccaggtcctttgcctctttctcaccatctcagGCAAATGGGTATGGAGTTTGCTTCTGTCAATGCTCA--TTGGAGGTTTGGTGCCCCCATTGATCACATCACA---GGCGAAATCAGCCCAGTACTGCCACCAGTATTCTCTGGTGCTACATCTGTTCTAGCCGGCATGGCTGTAGCTTGCTTCCTAAC---GACCCGTAATGTGCCACTAGTCGAAATTATCACTGCAATGGAGAGACGgtaagcacactcttatgatgaccggcaacaattgcctcatattgacgtac Alignment from Exonerate_protein2genome GATCAGGCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGACG gacttaatcatctctggaccaggtcctttgcctctttctcaccaTCTCAGGCAAATGGGTATGGAGTTTGCTTCTGTCAATGCTCAT---TGGAGGTTTGGTGCCCCCATTGATCACATCACAGGCGAAATCAGCCCAGTACTGCCACCAGTATTCTCTGGTGCTACATCTGTTCTAGCCGGCATGGCTGTAGCTTGCTTCCTAACG---ACCCGTAATGTGCCACTAGTCGAAATTATCACTGCAATGGAGAGACGgtaagcacactcttatgatgaccggcaacaattgcctcatattgacgtac Alignment from Exonerate_coding2genome gacttaatcatctctggaccaggtcctttgcctctttctcaccatctcaggcaaatgggtatggagtttgcttctgtcaatgctcattggaggtttggtgcccccattgatcacatcacaggcgaaatcagcccagtactgccaccagtattctctggtgctacatctgttctagccggcatggctgtagcttgcttcctaacgacccgtaatgtgccactagtcgaaattatcactgcaatggagagacggtaagcacactcttatgatgaccggcaacaattgcctcatattgacgtac Alignment from GeneWise GCAGATGGGGATGGGATTTGCTTCTGTCAATGCC------CGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGACG gacttaatcatctctggaccaggtcctttgcctctttctcaccatctcagGCAAATGGGTATGGAGTTTGCTTCTGTCAATGCTCATTGGAGGTTTGGT---------GCCCCCATTGATCACATCACAGGCGAAATCAGCCCAGTACTGCCACCAGTATTCTCTGGTGCTACATCTGTTCTAGCCGGCATGGCTGTAGCTTGCTTCCTAACG---ACCCGTAATGTGCCACTAGTCGAAATTATCACTGCAATGGAGAGACGgtaagcacactcttatgatgaccggcaacaattgcctcatattgacgtac #### Slc22a20_ID1345_8 --> 2 - 2 Original Alignment atCTGCAGACCTTGCGGACAGTGCAGGCAGCG-CTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCag ttaccagtacatgcaagtccagcctagacttaaaatttttttcttttcaggtCAGCAGATGTTGCGAACTGTGCCAGCTGAACCTAGGGAAGGGCTGTCTGGTGAGTTCGTTTATCT-TGTGTACCTTTTTATAGGGGGACTGTATCCA------ATCaggtgggtccaggacttaatcatctctggaccaggtcctttgtcattctttc Alignment from CESAR atCTGCAGACCTTGCGGACAGTGCAGGCAGCG-CTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCag ttaccagtacatgcaagtccagcctagacttaaaatttttttcttttcaggtCAGCAGATGTTGCGAACTGTGCCAGCTGAACCTAGGGAAGGGCTGTCTGGTGAGTTCGTTTATC-TTGTGTACCTTTTTATAGGGGGACTGTATCCA------ATCaggtgggtccaggacttaatcatctctggaccaggtcctttgcctctttctc Alignment from Spaln_aa2Genome ATCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGC---GTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCAG ttaccagtacatgcaagtccagcctagacttaaaatttttttcttttcagGTCAGCAGATGTTGCGAACTGTGCCAGCTGAACCTAGGGAAGGG---CTGTCTGGTGAGTTCGTTTATCTTGTGTACCTTTTTATAGGGGGACTGTATCCA------ATCAGgtgggtccaggacttaatcatctctggaccaggtcctttgtcattctttc Alignment from Spaln_nt2Genome ATCTGCAGACCTTGCGGACAGTGCAGGCAGCGC-TGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCAG ttaccagtacatgcaagtccagcctagacttaaaatttttttcttttcagGTCAGCAGATGTTGCGAACTGTGCCAGCTGAACCTAGGGAAGGGCTGTCTGGTGAGTTCGTTTATCT-TGTGTACCTTTTTATAGGGGGACTGTATCC------AATCAGgtgggtccaggacttaatcatctctggaccaggtcctttgtcattctttc Alignment from Pairagon ATCTGCAGACCTTGCGGACAGTGCAGGCAGC----GCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCAG ttaccagtacatgcaagtccagcctagacttaaaatttttttcttttcagGTCAGCAGATGTTGCGAACTGTGC---CAGCTGAACCTAGGGAAGGGCTGTCTGGTGAGTTCGTTTATCT-TGTGTACCTTTTTATAGGGGGACTGTATCC------AATCAGgtgggtccaggacttaatcatctctggaccaggtcctttgtcattctttc Alignment from Exonerate_protein2genome ATCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCAG ttaccagtacatgcaagtccagcctagacttaaaatttttttcttttcagGTCAGCAGATGTTGCGAACTGTGCCAGCTGAACCTAGGGAAGGGCTGTCTGGTGAGTTCGTTTATCTTGTGTACCTTTTTATAGGGGGACTGTATCCA------ATCAGgtgggtccaggacttaatcatctctggaccaggtcctttgtcattctttc Alignment from Exonerate_coding2genome ttaccagtacatgcaagtccagcctagacttaaaatttttttcttttcaggtcagcagatgttgcgaactgtgccagctgaacctagggaagggctgtctggtgagttcgtttatcttgtgtacctttttatagggggactgtatccaatcaggtgggtccaggacttaatcatctctggaccaggtcctttgtcattctttc Alignment from GeneWise GCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAG------------------------------------------------- ttaccagtacatgcaagtccagcctagacttaaaatttttttcttttcaggtcagCAGATGTTGCGAACTGTGCCAGCTGAACCTAGGGAAGGGCTGTCTGGTGAGTTCGTTTATCTT-GTGTACCTTTTTATAGGGGGACTGTATCCAATCAGGTGGGTCCAGGACTTAATCATCTCTGGACCAGGTCCTTTGTCATTCTTTC #### Slc22a26_ID2221_4 --> 2 - 2 Original Alignment tgTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAA-AACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAag acttccacagttcaaaaccccccctaaattctctttctctctcatattagtgTTAGAATGGACAAGCCCTAAAACCCAAGCATGGGTGACCACGCTGTCAACAAGCCCTCATCATTTTGGAGGCCTTATTTTGGCAGGATTGGCATTTGCGTTTCAACAACTGGCACCACCTTCAGCTT---GTATCTGTGCCTATTTTCG-TTTGCTTGTACCAACAaggtatgtcacaagaattcttatacaccattctgtccaatggtacatttgag Alignment from CESAR tgTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAA-AACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAag acttccacagttcaaaaccccccctaaattctctttctctctcatattagtgTTAGAATGGACAAGCCCTAAAACCCAAGCATGGGTGACCACGCTGTCAACAAGCCCTCATCATTTTGGAGGCCTTATTTTGGCAGGATTGGCATTTGCGTTTCAACAACTGGCACCACCTTCAGCTT---GTATCTGTGCCTATTTTCG-TTTGCTTGTACCAACAaggtatgtcacaagaattcttatacaccattctgtccaatggtacatttgag Alignment from Spaln_aa2Genome TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAAG acttccacagttcaaaaccccccctaaattctctttctctctcatattagTGTTAGAATGGACAAGCCCTAAAACCCAAGCATGGGTGACCACGCTGTCAACAAGCCCTCATCATTTTGGAGGCCTTATTTTGGCAGGATTGGCATTTGCGTTTCAACAACTGGCACCACCTTCAGCTTGTATCTGT---GCCTATTTTCGTTTGCTTGTACCAACAAGgtatgtcacaagaattcttatacaccattctgtccaatggtacatttgag Alignment from Spaln_nt2Genome TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAA-AACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAAG acttccacagttcaaaaccccccctaaattctctttctctctcatattagTGTTAGAATGGACAAGCCCTAAAACCCAAGCATGGGTGACCACGCTGTCAACAAGCCCTCATCATTTTGGAGGCCTTATTTTGGCAGGATTGGCATTTGCGTTTCAACAACTGGCACCACCTTCAGCTTG---TATCTGTGCCTATTTTCGT-TTGCTTGTACCAACAAGgtatgtcacaagaattcttatacaccattctgtccaatggtacatttgag Alignment from Pairagon TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAA-AACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAAG acttccacagttcaaaaccccccctaaattctctttctctctcatattagTGTTAGAATGGACAAGCCCTAAAACCCAAGCATGGGTGACCACGCTGTCAACAAGCCCTCATCATTTTGGAGGCCTTATTTTGGCAGGATTGGCATTTGCGTTTCAACAACTGGCACCACCTTCAGCTTG---TATCTGTGCCTATTTTCGT-TTGCTTGTACCAACAAGgtatgtcacaagaattcttatacaccattctgtccaatggtacatttgag Alignment from Exonerate_protein2genome TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAA-AACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTT--GTCTTGCTTATACCCACAAG acttccacagttcaaaaccccccctaaattctctttctctctcatattagTGTTAGAATGGACAAGCCCTAAAACCCAAGCATGGGTGACCACGCTGTCAACAAGCCCTCATCATTTTGGAGGCCTTATTTTGGCAGGATTGGCATTTGCGTTTCAACAACTGGCACCACCTTCAGCTT---GTATCTGTGCCTATTTTCGT---TTGCTTGTACCAACAAGgtatgtcacaagaattcttatacaccattctgtccaatggtacatttgag Alignment from Exonerate_coding2genome TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAA-AACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTT--GTCTTGCTTATACCCACAAG acttccacagttcaaaaccccccctaaattctctttctctctcatattagTGTTAGAATGGACAAGCCCTAAAACCCAAGCATGGGTGACCACGCTGTCAACAAGCCCTCATCATTTTGGAGGCCTTATTTTGGCAGGATTGGCATTTGCGTTTCAACAACTGGCACCACCTTCAGCTT---GTATCTGTGCCTATTTTCGT---TTGCTTGTACCAACAAGgtatgtcacaagaattcttatacaccattctgtccaatggtacatttgag Alignment from GeneWise ----------------------------------------------CTCATGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTT-CAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAAGG-- ACTTCCACAGTTCAAAACCCCCCCTAAATTCTCTTTCTCTCTCATATTAGTGTTAGAATGGACAAGCCCTAAAACCCAAGCATGGGTGACCACGCTGTCAACAAGCCCTCATCATTTTGGAGGCCTTATTTTGGCAGGATTGGCATTTGCGTTTCAACAACTGGCACCACCTTCAGCTT---GTATCTGTGCCTATTTTCGTTTGCTTGTACCAACAAGGTATgtcacaagaattcttatacaccattctgtccaatggtacatttgag #### Slc22a6_ID2284_5 --> 1 - 0 Original Alignment gTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTC-ACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaacttaataacttactatatcgatctctttttaacttttaatactacaggTTCTTCATTGAGTCAACACGGTGGTACTCATCATCCGGTAGGCTAGACTTCCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTATCA-TGCAAAACAAGAGGAAGGGCCTAAACTGTGCATTGAGgtacagtctaattactcctagacacttccggcaatcttgctctggtgcta Alignment from CESAR gTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTC-ACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaacttaataacttactatatcgatctctttttaacttttaatactacaggTTCTTCATTGAGTCAACACGGTGGTACTCATCATCCGGTAGGCTAGACTTCCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTATC-ATGCAAAACAAGAGGAAGGGCCTAAACTGTGCATTGAGgtacagtctaattactcctagacacttccggcaatcttgctctggtgcta Alignment from Spaln_aa2Genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaacttaataacttactatatcgatctctttttaacttttaatactacagGTTCTTCATTGAGTCAACACGGTGGTACTCATCATCCGGTAGGCTAGACTTCCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTATCATGCAAAACAAGAGGAAGGGCCTAAACTGTGCATTGAGgtacagtctaattactcctagacacttccggcaatcttgctctggtgcta Alignment from Spaln_nt2Genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTC-ACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaacttaataacttactatatcgatctctttttaacttttaatactacagGTTCTTCATTGAGTCAACACGGTGGTACTCATCATCCGGTAGGCTAGACTTCCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTATC-ATGCAAAACAAGAGGAAGGGCCTAAACTGTGCATTGAGgtacagtctaattactcctagacacttccggcaatcttgctctggtgcta Alignment from Pairagon GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCT-CACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaacttaataacttactatatcgatctctttttaacttttaatactacagGTTCTTCATTGAGTCAACACGGTGGTACTCATCATCCGGTAGGCTAGACTTCCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTATC-ATGCAAAACAAGAGGAAGGGCCTAAACTGTGCATTGAGgtacagtctaattactcctagacacttccggcaatcttgctctggtgcta Alignment from Exonerate_protein2genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaacttaataacttactatatcgatctctttttaacttttaatactacagGTTCTTCATTGAGTCAACACGGTGGTACTCATCATCCGGTAGGCTAGACTTCCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTATCATGCAAAACAAGAGGAAGGGCCTAAACTGTGCATTGAGgtacagtctaattactcctagacacttccggcaatcttgctctggtgcta Alignment from Exonerate_coding2genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaacttaataacttactatatcgatctctttttaacttttaatactacagGTTCTTCATTGAGTCAACACGGTGGTACTCATCATCCGGTAGGCTAGACTTCCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTATCATGCAAAACAAGAGGAAGGGCCTAAACTGTGCATTGAGgtacagtctaattactcctagacacttccggcaatcttgctctggtgcta Alignment from GeneWise GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaacttaataacttactatatcgatctctttttaacttttaatactacagGTTCTTCATTGAGTCAACACGGTGGTACTCATCATCCGGTAGGCTAGACTTCCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTATCATGCAAAACAAGAGGAAGGGCCTAAACTGTGCATTGAGgtacagtctaattactcctagacacttccggcaatcttgctctggtgcta #### Slc22a8_ID2275_8 --> 2 - 2 Original Alignment aaATGCAGCTCTTGAGAACAGCACTGGCT-GTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCag tgtcccttagcaaatttacatgcaaaggctaatccagttctgtgtttcagaaATGGAGATAGTGAGGACAGCGCTAGCTCGTGTTTGGCATGGGATGCTTATCTGGCGCCT-TAGCTGCCTCTTCTTTTACACTAGTGAGCTCTACCCCAGAGTTCTCaggtactgagtgtactttgggttaggagaccacttaaagagttgaattctca Alignment from CESAR aaATGCAGCTCTTGAGAACAGCACTGGCT-GTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCag tgtcccttagcaaatttacatgcaaaggctaatccagttctgtgtttcagaaATGGAGATAGTGAGGACAGCGCTAGCTCGTGTTTGGCATGGGATGCTTATCTGGCGCC-TTAGCTGCCTCTTCTTTTACACTAGTGAGCTCTACCCCAGAGTTCTCaggtactgagtgtactttgggttaggagaccacttaaagagttgaattctca Alignment from Spaln_aa2Genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tgtcccttagcaaatttacatgcaaaggctaatccagttctgtgtttcagAAATGGAGATAGTGAGGACAGCGCTAGCTCGTGTTTGGCATGGGATGCTTATCTGGCGCCTTAGCTGCCTCTTCTTTTACACTAGTGAGCTCTACCCCAGAGTTCTCAGgtactgagtgtactttgggttaggagaccacttaaagagttgaattctca Alignment from Spaln_nt2Genome AAATGCAGCTCTTGAGAACAGCACTGGCT-GTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tgtcccttagcaaatttacatgcaaaggctaatccagttctgtgtttcagAAATGGAGATAGTGAGGACAGCGCTAGCTCGTGTTTGGCATGGGATGCTTATCTGGCGCCTT-AGCTGCCTCTTCTTTTACACTAGTGAGCTCTACCCCAGAGTTCTCAGgtactgagtgtactttgggttaggagaccacttaaagagttgaattctca Alignment from Pairagon AAATGCAGCTCTTGAGAACAGCACTGGCT-GTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tgtcccttagcaaatttacatgcaaaggctaatccagttctgtgtttcagAAATGGAGATAGTGAGGACAGCGCTAGCTCGTGTTTGGCATGGGATGCTTATCTGGCGCCTT-AGCTGCCTCTTCTTTTACACTAGTGAGCTCTACCCCAGAGTTCTCAGgtactgagtgtactttgggttaggagaccacttaaagagttgaattctca Alignment from Exonerate_protein2genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tgtcccttagcaaatttacatgcaaaggctaatccagttctgtgtttcagAAATGGAGATAGTGAGGACAGCGCTAGCTCGTGTTTGGCATGGGATGCTTATCTGGCGCCTTAGCTGCCTCTTCTTTTACACTAGTGAGCTCTACCCCAGAGTTCTCAGgtactgagtgtactttgggttaggagaccacttaaagagttgaattctca Alignment from Exonerate_coding2genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tgtcccttagcaaatttacatgcaaaggctaatccagttctgtgtttcagAAATGGAGATAGTGAGGACAGCGCTAGCTCGTGTTTGGCATGGGATGCTTATCTGGCGCCTTAGCTGCCTCTTCTTTTACACTAGTGAGCTCTACCCCAGAGTTCTCAGgtactgagtgtactttgggttaggagaccacttaaagagttgaattctca Alignment from GeneWise ---GTGTCTTCAGAAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tgtcccttagcaaatttacatgcaaaggctaatccagTTCTGTGTTTCAGAAATGGAGATAGTGAGGACAGCGCTAGCTCGTGTTTGGCATGGGATGCTTATCTGGCGCCTTAGCTGCCTCTTCTTTTACACTAGTGAGCTCTACCCCAGAGTTCTCAGgtactgagtgtactttgggttaggagaccacttaaagagttgaattctca #### Slc25a45_ID1293_4 --> 0 - 0 Original Alignment GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCG-CTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG cattccactaccaaagttttgctaatgaggtgtctttatcccctttccagGTTCTAGGGTTCTTTAAGGGAATGAGTTTCCCAATAGCTACCGTAGCTCTGGTTAATTCTGTCTTGTTTGGAGTGTACAGCAACACACTCCTGGCACCTAACAGCCACATCCCATCAGGAGCACCAGGTCCAGCCTCCAA-CCACACAAATACCTTTATAGCAGGTTGTACCGGGGGTCTCCGGCAGgtaagtatatcatggttgcaggataattcatatacccttagtttgtagaa Alignment from CESAR GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCG-CTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG cattccactaccaaagttttgctaatgaggtgtctttatcccctttccagGTTCTAGGGTTCTTTAAGGGAATGAGTTTCCCAATAGCTACCGTAGCTCTGGTTAATTCTGTCTTGTTTGGAGTGTACAGCAACACACTCCTGGCACCTAACAGCCACATCCCATCAGGAGCACCAGGTCCAGCCTC-CAACCACACAAATACCTTTATAGCAGGTTGTACCGGGGGTCTCCGGCAGgtaagtatatcatggttgcaggataattcatatacccttagtttgtagaa Alignment from Spaln_aa2Genome GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG cattccactaccaaagttttgctaatgaggtgtctttatcccctttccagGTTCTAGGGTTCTTTAAGGGAATGAGTTTCCCAATAGCTACCGTAGCTCTGGTTAATTCTGTCTTGTTTGGAGTGTACAGCAACACACTCCTGGCACCTAACAGCCACATCCCATCAGGAGCACCAGGTCCAGCCTCCAACCACACAAATACCTTTATAGCAGGTTGTACCGGGGGTCTCCGGCAGgtaagtatatcatggttgcaggataattcatatacccttagtttgtagaa Alignment from Spaln_nt2Genome GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCG-CTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG cattccactaccaaagttttgctaatgaggtgtctttatcccctttccagGTTCTAGGGTTCTTTAAGGGAATGAGTTTCCCAATAGCTACCGTAGCTCTGGTTAATTCTGTCTTGTTTGGAGTGTACAGCAACACACTCCTGGCACCTAACAGCCACATCCCATCAGGAGCACCAGGTCCAGCC-TCCAACCACACAAATACCTTTATAGCAGGTTGTACCGGGGGTCTCCGGCAGgtaagtatatcatggttgcaggataattcatatacccttagtttgtagaa Alignment from Pairagon GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCG-CTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG cattccactaccaaagttttgctaatgaggtgtctttatcccctttccagGTTCTAGGGTTCTTTAAGGGAATGAGTTTCCCAATAGCTACCGTAGCTCTGGTTAATTCTGTCTTGTTTGGAGTGTACAGCAACACACTCCTGGCACCTAACAGCCACATCCCATCAGGAGCACCAGGTCCAGCC-TCCAACCACACAAATACCTTTATAGCAGGTTGTACCGGGGGTCTCCGGCAGgtaagtatatcatggttgcaggataattcatatacccttagtttgtagaa Alignment from Exonerate_protein2genome GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCG-CTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCC--AGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG cattccactaccaaagttttgctaatgaggtgtctttatcccctttccagGTTCTAGGGTTCTTTAAGGGAATGAGTTTCCCAATAGCTACCGTAGCTCTGGTTAATTCTGTCTTGTTTGGAGTGTACAGCAACACACTCCTGGCACCTAACAGCCACATCCCATCAGGAGCACCAGGTCCAGCCTCCAAC---CACACAAATACCTTTATAGCAGGTTGTACCGGGGGTCTCCGGCAGgtaagtatatcatggttgcaggataattcatatacccttagtttgtagaa Alignment from Exonerate_coding2genome TCAGTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCG-CTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCC--AGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG cattccactaccaaagttttgctaatgaggtgtctttatcccctttcCAGGTTCTAGGGTTCTTTAAGGGAATGAGTTTCCCAATAGCTACCGTAGCTCTGGTTAATTCTGTCTTGTTTGGAGTGTACAGCAACACACTCCTGGCACCTAACAGCCACATCCCATCAGGAGCACCAGGTCCAGCCTCCAAC---CACACAAATACCTTTATAGCAGGTTGTACCGGGGGTCTCCGGCAGgtaagtatatcatggttgcaggataattcatatacccttagtttgtagaa Alignment from GeneWise GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGC------TACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG cattccactaccaaagttttgctaatgaggtgtctttatcccctttccagGTTCTAGGGTTCTTTAAGGGAATGAGTTTCCCAATAGCTACCGTAGCTCTGGTTAATTCTGTCTTGTTTGGAGTGTACAGCAACACACTCCTGGCA------CCTAACAGCCACATCCCATCAGGAGCACCAGGTCCAGCCTCCAACCACACAAATACCTTTATAGCAGGTTGTACCGGGGGTCTCCGGCAGgtaagtatatcatggttgcaggataattcatatacccttagtttgtagaa #### Slc29a2_ID788_2 --> 1 - 0 Original Alignment cTACCACCTGGTTGGGATCAGC-TTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG tgattgatgtcctccagtagaaaaggtgtttcttttgtttgctttgatagcTACCACCTGGCTGGCATCAGCCTTTTTCATTCTGGGACTAGGCACCCTTCTCC-CTGGAATTTCTTCATTACTGCGATCCCAgtaggttagtgcattataaatgctacgaacaaattcccctatcacacctc Alignment from CESAR cTACCACCTGGTTGGGATCAGC-TTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG tgattgatgtcctccagtagaaaaggtgtttcttttgtttgctttgatagcTACCACCTGGCTGGCATCAGCCTTTTTCATTCTGGGACTAGGCACCCTTC-TCCCTGGAATTTCTTCATTACTGCGATCCCAgtaggttagtgcattataaatgctacgaacaaattcccctatcacacctc Alignment from Spaln_aa2Genome CTACCACCTGGTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG tgattgatgtcctccagtagaaaaggtgtttcttttgtttgctttgatagCTACCACCTGGCTGGCATCAGCCTTTTTCATTCTGGGACTAGGCACCCTTCTCCCTGGAATTTCTTCATTACTGCGATCCCAgtaggttagtgcattataaatgctacgaacaaattcccctatcacacctc Alignment from Spaln_nt2Genome CTACCACCTGGTTGGGATCAGC-TTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG tgattgatgtcctccagtagaaaaggtgtttcttttgtttgctttgatagCTACCACCTGGCTGGCATCAGCCTTTTTCATTCTGGGACTAGGCACCCTTCT-CCCTGGAATTTCTTCATTACTGCGATCCCAgtaggttagtgcattataaatgctacgaacaaattcccctatcacacctc Alignment from Pairagon CTACCACCTGGTTGGGATCAG-CTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG tgattgatgtcctccagtagaaaaggtgtttcttttgtttgctttgatagCTACCACCTGGCTGGCATCAGCCTTTTTCATTCTGGGACTAGGCACCCTTCT-CCCTGGAATTTCTTCATTACTGCGATCCCAgtaggttagtgcattataaatgctacgaacaaattcccctatcacacctc Alignment from Exonerate_protein2genome CTACCACCTGGTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG tgattgatgtcctccagtagaaaaggtgtttcttttgtttgctttgatagCTACCACCTGGCTGGCATCAGCCTTTTTCATTCTGGGACTAGGCACCCTTCTCCCTGGAATTTCTTCATTACTGCGATCCCAgtaggttagtgcattataaatgctacgaacaaattcccctatcacacctc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GCGCGGGGAAACGCCCCTCGGGACAGCTACCACCTGGTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG aaaggtgtttcttttgtttgcttt---------------------GATAGCTACCACCTGGCTGGCATCAGCCTTTTTCATTCTGGGACTAGGCACCCTTCTCCCTGGAATTTCTTCATTACTGCGATCCCAgtaggttagtgcattataaatgctacgaacaaattcccctatcacacctc #### Slc29a2_ID792_6 --> 2 - 0 Original Alignment gtGGCGTGGATGCCCAGACCTCTGCTCTTGGATAC-TTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacaaacaaagctggaatgggagacttaatgttttcttccttattacaggtGACGTGGATGCCCAAACCTCTGCTCTGGGATACCTTCATCACACCTTGTGTGGGCATCCTCCTCCCCATTGTATGTT-CCTCAGCTTGCCACACCTGgtgagctgcttcatagtttatgttatgctatgcactgcttgaatataaaa Alignment from CESAR gtGGCGTGGATGCCCAGACCTCTGCTCTTGGATAC-TTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacaaacaaagctggaatgggagacttaatgttttcttccttattacaggtGACGTGGATGCCCAAACCTCTGCTCTGGGATACCTTCATCACACCTTGTGTGGGCATCCTCCTCCCCATTGTAT-GTTCCTCAGCTTGCCACACCTGgtgagctgcttcatagtttatgttatgctatgcactgcttgaatataaaa Alignment from Spaln_aa2Genome GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATAC-TTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacaaacaaagctggaatgggagacttaatgttttcttccttattacagGTGACGTGGATGCCCAAACCTCTGCTCTGGGATACcTTCATCACACCTTGTGTGGGCATCCTCCTCCCCATTGTATGTTC-CTCAGCTTGCCACACCTGgtgagctgcttcatagtttatgttatgctatgcactgcttgaatataaaa Alignment from Spaln_nt2Genome GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATAC-TTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacaaacaaagctggaatgggagacttaatgttttcttccttattacagGTGACGTGGATGCCCAAACCTCTGCTCTGGGATACCTTCATCACACCTTGTGTGGGCATCCTCCTCCCCATTGTATGTT-CCTCAGCTTGCCACACCTGgtgagctgcttcatagtttatgttatgctatgcactgcttgaatataaaa Alignment from Pairagon GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATA-CTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacaaacaaagctggaatgggagacttaatgttttcttccttattacagGTGACGTGGATGCCCAAACCTCTGCTCTGGGATACCTTCATCACACCTTGTGTGGGCATCCTCCTCCCCATTGTATGTT-CCTCAGCTTGCCACACCTGgtgagctgcttcatagtttatgttatgctatgcactgcttgaatataaaa Alignment from Exonerate_protein2genome GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATAC-TTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGT--TACCTCAGCCTGCCTCATCTG gtacaaacaaagctggaatgggagacttaatgttttcttccttattacagGTGACGTGGATGCCCAAACCTCTGCTCTGGGATACCTTCATCACACCTTGTGTGGGCATCCTCCTCCCCATTGTATGTTC---CTCAGCTTGCCACACCTGgtgagctgcttcatagtttatgttatgctatgcactgcttgaatataaaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacaaacaaagctggaatgggagacttaatgttttcttccttattacagGTGACGTGGATGCCCAAACCTCTGCTCTGGGATACCTTCATCACACCTTGTGTGGGCATCCTCCTCCCCATTGTATGTTCCTCAGCTTGCCACACCTGgtgagctgcttcatagtttatgttatgctatgcactgcttgaatataaaa #### Slc29a2_ID794_8 --> 2 - 0 Original Alignment atGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGATCTTGACCCTGAGAAG-GAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatgaaaatctttaaagccataatgtccttttccctctcctttcccagatGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCCAGCCCAACTCTTGAGCTGGACCCTGAAACGCGAGCCAGAACCAGAGCAGCCACAGAAGCCAGGCAAACCCTCAG-CTTTGTGGTTTTCAGGAAAgtaagttatcatgtacagccaggggtgggagcagtgggttgtttgacatg Alignment from CESAR atGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGATCTTGACCCTGAG-AAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatgaaaatctttaaagccataatgtccttttccctctcctttcccagatGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCCAGCCCAACTCTTGAGCTGGACCCTGAAACGCGAGCCAGAACCAGAGCAGCCACAGAAGCCAGGCAAACCCTCA-GCTTTGTGGTTTTCAGGAAAgtaagttatcatgtacagccaggggtgggagcagtgggttgtttgacatg Alignment from Spaln_aa2Genome ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatgaaaatctttaaagccataatgtccttttccctctcctttcccagATGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCCAGCCCAACTCTTGAGCTGGACCCTGAAACGCGAGCCAGAACCAGAGCAGCCACAGAAGCCAGGCAAACCCTCAGCTTTGTGGTTTTCAGGAAAgtaagttatcatgtacagccaggggtgggagcagtgggttgtttgacatg Alignment from Spaln_nt2Genome ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGATCTTGACCCTGAGAAG-GAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatgaaaatctttaaagccataatgtccttttccctctcctttcccagATGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCCAGCCCAACTCTTGAGCTGGACCCTGAAACGCGAGCCAGAACCAGAGCAGCCACAGAAGCCAGGCAAACCCTCAG-CTTTGTGGTTTTCAGGAAAgtaagttatcatgtacagccaggggtgggagcagtgggttgtttgacatg Alignment from Pairagon ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGATCTTGACCCTGAGAAG-GAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatgaaaatctttaaagccataatgtccttttccctctcctttcccagATGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCCAGCCCAACTCTTGAGCTGGACCCTGAAACGCGAGCCAGAACCAGAGCAGCCACAGAAGCCAGGCAAACCCTCAG-CTTTGTGGTTTTCAGGAAAgtaagttatcatgtacagccaggggtgggagcagtgggttgtttgacatg Alignment from Exonerate_protein2genome ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGATCTTGACCCTGAG-AAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCT--TCAGTCTTTGTTGTCTTCCGGAAG ctaatgaaaatctttaaagccataatgtccttttccctctcctttcccagATGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCCAGCCCAACTCTTGAGCTGGACCCTGAAACGCGAGCCAGAACCAGAGCAGCCACAGAAGCCAGGCAAACCCTCAGC---TTTGTGGTTTTCAGGAAAgtaagttatcatgtacagccaggggtgggagcagtgggttgtttgacatg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGATCTTGACCCTGAG-AAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatgaaaatctttaaagccataatgtccttttccctctcctttcccagATGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCCAGCCCAACTCTTGAGCTGGACCCTGAAACGCGAGCCAGAACCAGAGCAGCCACAGAAGCCAGGCAAACCCTCAGC-TTTGTGGTTTTCAGGAAAgtaagttatcatgtacagccaggggtgggagcagtgggttgtttgacatg #### Slc29a2_ID795_9 --> 0 - 1 Original Alignment ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTC-TTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGg tgacatgaatacttcagtgactatccagtcccacgtctgctctaccttagATCTGGCTGACAGCGCTGTGCCTTGTGTTAGTCCTTCACAGTTACCCTATCTGTTTTTCCTG-TATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGggtaagtactggtgatagttcacagcatggaacagaggagccagaccaacc Alignment from CESAR ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTC-TTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGg tgacatgaatacttcagtgactatccagtcccacgtctgctctaccttagATCTGGCTGACAGCGCTGTGCCTTGTGTTAGTCCTTCACAGTTACCCTATCTGTTTTTCCT-GTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGggtaagtactggtgatagttcacagcatggaacagaggagccagtcttgta Alignment from Spaln_aa2Genome ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG tgacatgaatacttcagtgactatccagtcccacgtctgctctaccttagATCTGGCTGACAGCGCTGTGCCTTGTGTTAGTCCTTCACAGTTACCCTATCTGTTTTTCCTGTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtaagtactggtgatagttcacagcatggaacagaggagccagaccaacc Alignment from Spaln_nt2Genome ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTC-TTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG tgacatgaatacttcagtgactatccagtcccacgtctgctctaccttagATCTGGCTGACAGCGCTGTGCCTTGTGTTAGTCCTTCACAGTTACCCTATCTGTTTTTCCTG-TATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtaagtactggtgatagttcacagcatggaacagaggagccagaccaacc Alignment from Pairagon ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGT-CTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG tgacatgaatacttcagtgactatccagtcccacgtctgctctaccttagATCTGGCTGACAGCGCTGTGCCTTGTGTTAGTCCTTCACAGTTACCCTATCTGTTTTTCCTG-TATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtaagtactggtgatagttcacagcatggaacagaggagccagaccaacc Alignment from Exonerate_protein2genome ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG tgacatgaatacttcagtgactatccagtcccacgtctgctctaccttagATCTGGCTGACAGCGCTGTGCCTTGTGTTAGTCCTTCACAGTTACCCTATCTGTTTTTCCTGTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtaagtactggtgatagttcacagcatggaacagaggagccagaccaacc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG tgacatgaatacttcagtgactatccagtcccacgtctgctctaccttagATCTGGCTGACAGCGCTGTGCCTTGTGTTAGTCCTTCACAGTTACCCTATCTGTTTTTCCTGTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtaagtactggtgatagttcacagcatggaacagaggagccagaccaacc #### Slit1_ID8208_30 --> 2 - 2 Original Alignment gaAGGGCCTGTGAGCAGCTGGTG-GACTTCTGCTCCCCGGATATGAACCCGTGTCAGCATGAGGCCCAATGTGTTGGCACCCCGGATGGGCCCag cccaaatggtaacaataactggcttgctccactgtgatttttccccccaggaCGC---TGTGAACAGCTGGTTCGACTTCTGCTCCCCAGATATGAACCCATGTCAAC-TGAGGCTCAATGTGTTGGCACCTTAGACGGCCCCaggtgtgtgttactgccactgttgatcatcagttcacttccatgcatcttta Alignment from CESAR gaAGGGCCTGTGAGCAGCTGGTG-GACTTCTGCTCCCCGGATATGAACCCGTGTCAGCATGAGGCCCAATGTGTTGGCACCCCGGATGGGCCCag cccaaatggtaacaataactggcttgctccactgtgatttttccccccaggaCGC---TGTGAACAGCTGGTTCGACTTCTGCTCCCCAGATATGAACCCATGTCAA-CTGAGGCTCAATGTGTTGGCACCTTAGACGGCCCCaggtgtgtgttactgccactgttgatcatcagttcacttccatgcatcttta Alignment from Spaln_aa2Genome GAAGGGCCTGTGAGCAGCTGGTG-GACTTCTGCTCCCCGGATATGAACCCGTGTCAGCATGAGGCCCAATGTGTTGGCACCCCGGATGGGCCCAG cccaaatggtaacaataactggcttgctccactgtgatttttccccccagGACGC---TGTGAACAGCTGGTTcGACTTCTGCTCCCCAGATATGAACCCATGTCAACT-GAGGCTCAATGTGTTGGCACCTTAGACGGCCCCAGgtgtgtgttactgccactgttgatcatcagttcacttccatgcatcttta Alignment from Spaln_nt2Genome GAAGGGCCTGTGAGCAGCTGGTG-GACTTCTGCTCCCCGGATATGAACCCGTGTCAGCATGAGGCCCAATGTGTTGGCACCCCGGATGGGCCCAG cccaaatggtaacaataactggcttgctccactgtgatttttccccccagGACG---CTGTGAACAGCTGGTTCGACTTCTGCTCCCCAGATATGAACCCATGTCAAC-TGAGGCTCAATGTGTTGGCACCTTAGACGGCCCCAGgtgtgtgttactgccactgttgatcatcagttcacttccatgcatcttta Alignment from Pairagon GAAGGGCCTGTGAGCAGCTGG-TGGACTTCTGCTCCCCGGATATGAACCCGTGTCAGCATGAGGCCCAATGTGTTGGCACCCCGGATGGGCCCAG cccaaatggtaacaataactggcttgctccactgtgatttttccccccagGACG---CTGTGAACAGCTGGTTCGACTTCTGCTCCCCAGATATGAACCCATGTCAAC-TGAGGCTCAATGTGTTGGCACCTTAGACGGCCCCAGgtgtgtgttactgccactgttgatcatcagttcacttccatgcatcttta Alignment from Exonerate_protein2genome GAAGGGCCTGTGAGCAGCTGGTGGACTTCTGCTCCCCGGATATGAACCCGTGTCAGCATGAGGCCCAATGTGTTGGCACCCCGGATGGGCCCAG cccaaatggtaacaataactggcttgctccactgtgatttttccccccagGACGC---TGTGAACAGCTGGTTCGACTTCTGCTCCCCAGATATGAACCCATGTCAACTGAGGCTCAATGTGTTGGCACCTTAGACGGCCCCAGgtgtgtgttactgccactgttgatcatcagttcacttccatgcatcttta Alignment from Exonerate_coding2genome GAAGGGCCTGTGAGCAGCTGGTGGACTTCTGCTCCCCGGATATGAACCCGTGTCAGCATGAGGCCCAATGTGTTGGCACCCCGGATGGGCCCAG cccaaatggtaacaataactggcttgctccactgtgatttttccccccagGACGC---TGTGAACAGCTGGTTCGACTTCTGCTCCCCAGATATGAACCCATGTCAACTGAGGCTCAATGTGTTGGCACCTTAGACGGCCCCAGgtgtgtgttactgccactgttgatcatcagttcacttccatgcatcttta Alignment from GeneWise GAAGGGCCTGTGAGCAGCTGGTGGACTTCTGCTCCCCGGATATGAACCCGTGTCAGCATGAGGCCCAATGTGTTGGCACCCCGGATGGGCCCAG cccaaatggtaacaataactggcttgctccactgtgatttttccccccagGACGC---TGTGAACAGCTGGTTCGACTTCTGCTCCCCAGATATGAACCCATGTCAACTGAGGCTCAATGTGTTGGCACCTTAGACGGCCCCAGgtgtgtgttactgccactgttgatcatcagttcacttccatgcatcttta #### Slit1_ID8232_7 --> 1 - 2 Original Alignment gACCCTGAACAACAACAAC-ATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCtt tagccccttttaggcatgggtggccaggattttagtgctttgtttcttagtCCATTCAATAATAATAACCATCAGTGCTATCCCC------CGTTTCAATC-TATCCCTAAGCTCCACACTttgtcagttgtcttgactattggtgtgtcaccttgactatggataaggcaga Alignment from CESAR gACCCTGAACAACAACAAC-ATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCtt tagccccttttaggcatgggtggccaggattttagtgctttgtttcttagtCCATTCAATAATAATAACCATCAGTGCTATCCCC------CGTTTCAAT-CTATCCCTAAGCTCCACACTttgtcagttgtcttgactattggtgtgtcaccttgactatggataaggcaga Alignment from Spaln_aa2Genome GACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCTT tagccccttttaggcatgggtggccaggattttagtgctttgtttcttagTCCATTCAATAATAATAACCATCAGTGCTATCCC------CCGTTTCAATCTATCCCTAAGCTCCACACTTTgtcagttgtcttgactattggtgtgtcaccttgactatggataaggcaga Alignment from Spaln_nt2Genome GACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCTT tagccccttttaggcatgggtggccaggattttagtgctttgtttcttagTCCATTCAATAATA-----ATAACCATCAGTGCTATCCCCCGTTTCAATC-TATCCCTAAGCTCCACACTTTgtcagttgtcttgactattggtgtgtcaccttgactatggataaggcaga Alignment from Pairagon tagccccttttaggcatgggtggccaggattttagtgctttgtttcttagtccattcaataataataaccatcagtgctatcccccgtttcaatctatccctaagctccacactttgtcagttgtcttgactattggtgtgtcaccttgactatggataaggcaga Alignment from Exonerate_protein2genome tagccccttttaggcatgggtggccaggattttagtgctttgtttcttagtccattcaataataataaccatcagtgctatcccccgtttcaatctatccctaagctccacactttgtcagttgtcttgactattggtgtgtcaccttgactatggataaggcaga Alignment from Exonerate_coding2genome tagccccttttaggcatgggtggccaggattttagtgctttgtttcttagtccattcaataataataaccatcagtgctatcccccgtttcaatctatccctaagctccacactttgtcagttgtcttgactattggtgtgtcaccttgactatggataaggcaga Alignment from GeneWise tagccccttttaggcatgggtggccaggattttagtgctttgtttcttagtccattcaataataataaccatcagtgctatcccccgtttcaatctatccctaagctccacactttgtcagttgtcttgactattggtgtgtcaccttgactatggataaggcaga #### Smc3_ID11322_10 --> 0 - 0 Original Alignment CTTTCTGCTAAGCGA-GAAACGAGTGGAGAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG atttttatccaatgttcgaagtagatagcctcactggaacctgcttgcagCTTTCAGCTAAGCAGCGAAACAAGTGGAGAGAAATCAAGACAACTAAGGG-TGCACAGCAGGATACAAGAGATAAAATGGAGgtaagttgacacctaaggtcatacctgatttccaatgttacttgtactga Alignment from CESAR CTTTCTGCTAAGCGA-GAAACGAGTGGAGAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG atttttatccaatgttcgaagtagatagcctcactggaacctgcttgcagCTTTCAGCTAAGCAGCGAAACAAGTGGAGAGAAATCAAGACAACTAAGG-GTGCACAGCAGGATACAAGAGATAAAATGGAGgtaagttgacacctaaggtcatacctgatttccaatgttacttgtactga Alignment from Spaln_aa2Genome CTTTCTGCTAAGCGAGAAACGAGTGGAGAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG atttttatccaatgttcgaagtagatagcctcactggaacctgcttgcagctttcagCTAAGCAGC------GAAACAAGTGGAGAGAAATCAAGACAACTAAGGGT-GCACAGCAGGATACAAGAGATAAAATGGAGgtaagttgacacctaaggtcatacctgatttccaatgttacttgtactga Alignment from Spaln_nt2Genome CTTTCTGCTAAGC-GAGAAACGAGTGGAGAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG atttttatccaatgttcgaagtagatagcctcactggaacctgcttgcagCTTTCAGCTAAGCAGCGAAACAAGTGGAGAGAAATCAAGACAACTAAGGG-TGCACAGCAGGATACAAGAGATAAAATGGAGgtaagttgacacctaaggtcatacctgatttccaatgttacttgtactga Alignment from Pairagon CTTTCTGCTAAGC-GAGAAACGAGTGGAGAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG atttttatccaatgttcgaagtagatagcctcactggaacctgcttgcagCTTTCAGCTAAGCAGCGAAACAAGTGGAGAGAAATCAAGACAACTAAGGG-TGCACAGCAGGATACAAGAGATAAAATGGAGgtaagttgacacctaaggtcatacctgatttccaatgttacttgtactga Alignment from Exonerate_protein2genome CTTTCTGCTAAGCGAGAAACGAGTGGAGAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG atttttatccaatgttcgaagtagatagcctcactggaacctgcttgcagCTTTCAGCTAAGCAGCGAAACAAGTGGAGAGAAATCAAGACAACTAAGGGTGCACAGCAGGATACAAGAGATAAAATGGAGgtaagttgacacctaaggtcatacctgatttccaatgttacttgtactga Alignment from Exonerate_coding2genome CTTTCTGCTAAGCGAGAAACGAGTGGAGAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG atttttatccaatgttcgaagtagatagcctcactggaacctgcttgcagCTTTCAGCTAAGCAGCGAAACAAGTGGAGAGAAATCAAGACAACTAAGGGTGCACAGCAGGATACAAGAGATAAAATGGAGgtaagttgacacctaaggtcatacctgatttccaatgttacttgtactga Alignment from GeneWise CTTTCTGCTAAGCGAGAAACGAGTGGAGAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG atttttatccaatgttcgaagtagatagcctcactggaacctgcttgcagCTTTCAGCTAAGCAGCGAAACAAGTGGAGAGAAATCAAGACAACTAAGGGTGCACAGCAGGATACAAGAGATAAAATGGAGgtaagttgacacctaaggtcatacctgatttccaatgttacttgtactga #### Smc3_ID11337_25 --> 0 - 0 Original Alignment TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCA-ATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaaggtctgaaacctagaattgaggcagcttgtcttctgcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACATATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAACTAGATAGC---CATAAGTCACGTCATGGAACTGATGAATGTACTGGAACTAA-GAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagtaatagtttattctagtgtgcagtatgaatggatacacaggttgc Alignment from CESAR TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCA-ATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaaggtctgaaacctagaattgaggcagcttgtcttctgcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACATATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAACTAGAT---AGCCATAAGTCACGTCATGGAACTGATGAATGTACTGGAACTAA-GAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagtaatagtttattctagtgtgcagtatgaatggatacacaggttgc Alignment from Spaln_aa2Genome TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCA-ATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaaggtctgaaacctagaattgaggcagcttgtcttctgcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACATATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAACTAGAT---AGCCATAAGTCAcGTCATGGAACTGATGAATGTACTGGAACTAAG-AAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagtaatagtttattctagtgtgcagtatgaatggatacacaggttgc Alignment from Spaln_nt2Genome TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAA-TCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaaggtctgaaacctagaattgaggcagcttgtcttctgcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACATATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAACTAGATA---GCCATAAGTCACGTCATGGAACTGATGAATGTACTGGAACTAAG-AAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagtaatagtttattctagtgtgcagtatgaatggatacacaggttgc Alignment from Pairagon TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCA-ATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaaggtctgaaacctagaattgaggcagcttgtcttctgcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACATATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAACTAGATA---GCCATAAGTCACGTCATGGAACTGATGAATGTACTGGAACTAAG-AAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagtaatagtttattctagtgtgcagtatgaatggatacacaggttgc Alignment from Exonerate_protein2genome CCCTCCCCCAGGAAGCGTTTGAGAAGTACCAGACACTGAGCCTGAAGCAGTTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG ATTATATTAAAGGTCTGAAACCTAGAATTGAGGCAGCTTGTCTTCTGCAGGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACATATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAACTAGAT---AGCCATAAGTCACGTCATGGAACTGATGAATGTACTGGAACTAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagtaatagtttattctagtgtgcagtatgaatggatacacaggttgc Alignment from Exonerate_coding2genome CCCTCCCCCAGGAAGCGTTTGAGAAGTACCAGACACTGAGCCTGAAGCAGTTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG ATTATATTAAAGGTCTGAAACCTAGAATTGAGGCAGCTTGTCTTCTGCAGGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACATATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAACTAGATAGCCAT--AAGTCACGTCATGGAACTGATGAATGTACTGGAACT-AAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagtaatagtttattctagtgtgcagtatgaatggatacacaggttgc Alignment from GeneWise TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaaggtctgaaacctagaattgaggcagcttgtcttctgcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACATATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAACTAGAT---AGCCATAAGTCACGTCATGGAACTGATGAATGTACTGGAACTAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagtaatagtttattctagtgtgcagtatgaatggatacacaggttgc #### Smc5_ID5110_21 --> 0 - 0 Original Alignment GTGGTTGAGGAGTAC-TCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACATTTCGCAG cagtactctaattttgttttattccatatcaccgcggcactctgttccagGTGGTTGAGAAGTATCTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTG-GGAACTGCAAGGCAAAAAAGTGGAACTAGATGAATACAGGGAAAACATTCTACAGgtcggtaatagtggcataataatgatttgattaccaaactaaacaattat Alignment from CESAR GTGGTTGAGGAGTAC-TCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACATTTCGCAG cagtactctaattttgttttattccatatcaccgcggcactctgttccagGTGGTTGAGAAGTATCTCAAAGAGAGAAGTAGAGATTCAGCAATTGACT-GGGAACTGCAAGGCAAAAAAGTGGAACTAGATGAATACAGGGAAAACATTCTACAGgtcggtaatagtggcataataatgatttgattaccaaactaaacaattat Alignment from Spaln_aa2Genome GTGGTTGAGGAGTACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACATTTCGCAG cagtactctaattttgttttattccatatcaccgcggcactctgttccagGTGGTTGAGAAGTATCTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGGGAACTGCAAGGCAAAAAAGTGGAACTAGATGAATACAGGGAAAACATTCTACAGgtcggtaatagtggcataataatgatttgattaccaaactaaacaattat Alignment from Spaln_nt2Genome GTGGTTGAGGAGTA-CTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACATTTCGCAG cagtactctaattttgttttattccatatcaccgcggcactctgttccagGTGGTTGAGAAGTATCTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTG-GGAACTGCAAGGCAAAAAAGTGGAACTAGATGAATACAGGGAAAACATTCTACAGgtcggtaatagtggcataataatgatttgattaccaaactaaacaattat Alignment from Pairagon GTGGTTGAGGAGTA-CTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACATTTCGCAG cagtactctaattttgttttattccatatcaccgcggcactctgttccagGTGGTTGAGAAGTATCTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTG-GGAACTGCAAGGCAAAAAAGTGGAACTAGATGAATACAGGGAAAACATTCTACAGgtcggtaatagtggcataataatgatttgattaccaaactaaacaattat Alignment from Exonerate_protein2genome GTGGTTGAGGAGTACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACATTTCGCAG cagtactctaattttgttttattccatatcaccgcggcactctgttccagGTGGTTGAGAAGTATCTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGGGAACTGCAAGGCAAAAAAGTGGAACTAGATGAATACAGGGAAAACATTCTACAGgtcggtaatagtggcataataatgatttgattaccaaactaaacaattat Alignment from Exonerate_coding2genome GTGGTTGAGGAGTACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACATTTCGCAG cagtactctaattttgttttattccatatcaccgcggcactctgttccagGTGGTTGAGAAGTATCTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGGGAACTGCAAGGCAAAAAAGTGGAACTAGATGAATACAGGGAAAACATTCTACAGgtcggtaatagtggcataataatgatttgattaccaaactaaacaattat Alignment from GeneWise GTGGTTGAGGAGTACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACATTTCGCAG cagtactctaattttgttttattccatatcaccgcggcactctgttccagGTGGTTGAGAAGTATCTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGGGAACTGCAAGGCAAAAAAGTGGAACTAGATGAATACAGGGAAAACATTCTACAGgtcggtaatagtggcataataatgatttgattaccaaactaaacaattat #### Smc5_ID5113_20 --> 0 - 0 Original Alignment GCTTTTCAAGATCTCCCAAACACATTGGATGAAATC-GATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG catactggtatgctcatcacttactgatttctgttttctgtcttttccagGCATTTGAAGATCTCCCGAACACATTGGATGAAATTCGATGCATTATTAACTGCAGAAAGATCAAGAGCTT-ATGCTTCACAGGATTAAATCCTTCAgtatgactccatatttttgctatttaccctatttccacatgactgtattc Alignment from CESAR GCTTTTCAAGATCTCCCAAACACATTGGATGAAATC-GATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG catactggtatgctcatcacttactgatttctgttttctgtcttttccagGCATTTGAAGATCTCCCGAACACATTGGATGAAATTCGATGCATTATTAACTGCAGAAAGATCAAGAGCT-TATGCTTCACAGGATTAAATCCTTCAgtatgactccatatttttgctatttaccctatttccacatgactgtattc Alignment from Spaln_aa2Genome GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG catactggtatgctcatcacttactgatttctgttttctgtcttttccagGCATTTGAAGATCTCCCGAACACATTGGATGAAATTCGATGCATTATTAACTGCAGAAAGATCAAGAGCTTATGCTTCACAGGATTAAATCCTTCAgtatgactccatatttttgctatttaccctatttccacatgactgtattc Alignment from Spaln_nt2Genome GCTTTTCAAGATCTCCCAAACACATTGGATG-AAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG catactggtatgctcatcacttactgatttctgttttctgtcttttccagGCATTTGAAGATCTCCCGAACACATTGGATGAAATTCGATGCATTATTAACTGCAGAAAGATCAAGAGCTT-ATGCTTCACAGGATTAAATCCTTCAgtatgactccatatttttgctatttaccctatttccacatgactgtattc Alignment from Pairagon GCTTTTCAAGATCTCCCAAACACATTGGATGAAA-TCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG catactggtatgctcatcacttactgatttctgttttctgtcttttccagGCATTTGAAGATCTCCCGAACACATTGGATGAAATTCGATGCATTATTAACTGCAGAAAGATCAAGAGCTT-ATGCTTCACAGGATTAAATCCTTCAgtatgactccatatttttgctatttaccctatttccacatgactgtattc Alignment from Exonerate_protein2genome GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG catactggtatgctcatcacttactgatttctgttttctgtcttttccagGCATTTGAAGATCTCCCGAACACATTGGATGAAATTCGATGCATTATTAACTGCAGAAAGATCAAGAGCTTATGCTTCACAGGATTAAATCCTTCAgtatgactccatatttttgctatttaccctatttccacatgactgtattc Alignment from Exonerate_coding2genome GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG catactggtatgctcatcacttactgatttctgttttctgtcttttccagGCATTTGAAGATCTCCCGAACACATTGGATGAAATTCGATGCATTATTAACTGCAGAAAGATCAAGAGCTTATGCTTCACAGGATTAAATCCTTCAgtatgactccatatttttgctatttaccctatttccacatgactgtattc Alignment from GeneWise GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG catactggtatgctcatcacttactgatttctgttttctgtcttttccagGCATTTGAAGATCTCCCGAACACATTGGATGAAATTCGATGCATTATTAACTGCAGAAAGATCAAGAGCTTATGCTTCACAGGATTAAATCCTTCAgtatgactccatatttttgctatttaccctatttccacatgactgtattc #### Snx15_ID1466_6 --> 2 - 1 Original Alignment tgGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGT-ACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGg atgtttccatcccccggataagtcttggttatattttttccttcccccagtaGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGAACATCTCTTCAGCTGTGACAGTCACGGAGGAGGCCTCTGGTACTCTGGCTCGAGGTCCCC-CTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGTGggtaagtttggatggaggggcagtcattaatgccctgaagaactccattag Alignment from CESAR tgGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGT-ACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGg atgtttccatcccccggataagtcttggttatattttttccttcccccagtaGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGAACATCTCTTCAGCTGTGACAGTCACGGAGGAGGCCTCTGGTACTCTGGCTCGAGGTCCC-CCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGTGggtaagtttggatggaggggcagtcattaatgccctgaagaactccattag Alignment from Spaln_aa2Genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atgtttccatcccccggataagtcttggttatattttttccttcccccagTAGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGAACATCTCTTCAGCTGTGACAGTCACGGAGGAGGCCTCTGGTACTCTGGCTCGAGGTCCCCCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGTGGgtaagtttggatggaggggcagtcattaatgccctgaagaactccattag Alignment from Spaln_nt2Genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGT-ACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atgtttccatcccccggataagtcttggttatattttttccttcccccagTAGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGAACATCTCTTCAGCTGTGACAGTCACGGAGGAGGCCTCTGGTACTCTGGCTCGAGGTCCCC-CTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGTGGgtaagtttggatggaggggcagtcattaatgccctgaagaactccattag Alignment from Pairagon TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGT-ACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atgtttccatcccccggataagtcttggttatattttttccttcccccagTAGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGAACATCTCTTCAGCTGTGACAGTCACGGAGGAGGCCTCTGGTACTCTGGCTCGAGGTCCCC-CTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGTGGgtaagtttggatggaggggcagtcattaatgccctgaagaactccattag Alignment from Exonerate_protein2genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atgtttccatcccccggataagtcttggttatattttttccttcccccagTAGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGAACATCTCTTCAGCTGTGACAGTCACGGAGGAGGCCTCTGGTACTCTGGCTCGAGGTCCCCCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGTGGgtaagtttggatggaggggcagtcattaatgccctgaagaactccattag Alignment from Exonerate_coding2genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atgtttccatcccccggataagtcttggttatattttttccttcccccagTAGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGAACATCTCTTCAGCTGTGACAGTCACGGAGGAGGCCTCTGGTACTCTGGCTCGAGGTCCCCCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGTGGgtaagtttggatggaggggcagtcattaatgccctgaagaactccattag Alignment from GeneWise TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCC---AGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atgtttccatcccccggataagtcttggttatattttttccttcccccagTAGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGAACATCTCTTCAGCTGTGACAGTCACGGAGGAGGCCTCTGGTACTCTGGCTCGAGGTCCCCC---TCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGTGGgtaagtttggatggaggggcagtcattaatgccctgaagaactccattag #### Snx15_ID1468_4 --> 2 - 0 Original Alignment ggCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTG-CTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG caccaacactgaaacattcatgctgccaatgaaatccttcctttgctcaggaCGATTTGAAGCTTCTGTTATTGAGGAACATCAGAAAGGTGCAGATGACCTGCCTGCGCTTTACAGTGCCAATCCCAGCCCTCAACAACAGCC-TCAAGTTAAGGAATTCTTCCGAgtaggggcctgtactaacagggtccccttctagtcaaatcacctggcctt Alignment from CESAR ggCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTG-CTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG caccaacactgaaacattcatgctgccaatgaaatccttcctttgctcaggaCGATTTGAAGCTTCTGTTATTGAGGAACATCAGAAAGGTGCAGATGACCTGCCTGCGCTTTACAGTGCCAATCCCAGCCCTCAACAACA-GCCTCAAGTTAAGGAATTCTTCCGAgtaggggcctgtactaacagggtccccttctagtcaaatcacctggcctt Alignment from Spaln_aa2Genome GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTG-CTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG caccaacactgaaacattcatgctgccaatgaaatccttcctttgctcagGACGATTTGAAGCTTCTGTTATTGAGGAACATCAGAAAGGTGCAGATGACCTGcCTGCGCTTTACAGTGCCAATCCCAGCCCTCAACAACAG-CCTCAAGTTAAGGAATTCTTCCGAgtaggggcctgtactaacagggtccccttctagtcaaatcacctggcctt Alignment from Spaln_nt2Genome GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGC-TGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG caccaacactgaaacattcatgctgccaatgaaatccttcctttgctcagGACGATTTGAAGCTTCTGTTATTGAGGAACATCAGAAAGGTGCAGATGACCTGCCTGCGCTTTACAGTGCCAATCCCAGCCCTCAACAACAG-CCTCAAGTTAAGGAATTCTTCCGAgtaggggcctgtactaacagggtccccttctagtcaaatcacctggcctt Alignment from Pairagon GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTG-CTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG caccaacactgaaacattcatgctgccaatgaaatccttcctttgctcagGACGATTTGAAGCTTCTGTTATTGAGGAACATCAGAAAGGTGCAGATGACCTGCCTGCGCTTTACAGTGCCAATCCCAGCCCTCAACAACAG-CCTCAAGTTAAGGAATTCTTCCGAgtaggggcctgtactaacagggtccccttctagtcaaatcacctggcctt Alignment from Exonerate_protein2genome GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG caccaacactgaaacattcatgctgccaatgaaatccttcctttgctcagGACGATTTGAAGCTTCTGTTATTGAGGAACATCAGAAAGGTGCAGATGACCTGCCTGCGCTTTACAGTGCCAATCCCAGCCCTCAACAACAGCCTCAAGTTAAGGAATTCTTCCGAgtaggggcctgtactaacagggtccccttctagtcaaatcacctggcctt Alignment from Exonerate_coding2genome GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG caccaacactgaaacattcatgctgccaatgaaatccttcctttgctcagGACGATTTGAAGCTTCTGTTATTGAGGAACATCAGAAAGGTGCAGATGACCTGCCTGCGCTTTACAGTGCCAATCCCAGCCCTCAACAACAGCCTCAAGTTAAGGAATTCTTCCGAgtaggggcctgtactaacagggtccccttctagtcaaatcacctggcctt Alignment from GeneWise GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG caccaacactgaaacattcatgctgccaatgaaatccttcctttgctcagGACGATTTGAAGCTTCTGTTATTGAGGAACATCAGAAAGGTGCAGATGACCTGCCTGCGCTTTACAGTGCCAATCCCAGCCCTCAACAACAGCCTCAAGTTAAGGAATTCTTCCGAgtaggggcctgtactaacagggtccccttctagtcaaatcacctggcctt #### Snx15_ID1469_3 --> 0 - 1 Original Alignment GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTG-GCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTg gttttacccagctcttgctaaggtctgcgcatcatgcctctccccatcagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTACGCCTATACTCACCGGAATCTCTTCCAGGATC-CGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGTTTggtgagttttagactctgtacctctccagcttatgacatccagaatctcca Alignment from CESAR GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTG-GCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTg gttttacccagctcttgctaaggtctgcgcatcatgcctctccccatcagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTACGCCTATACTCACCGGAATCTCTTCCAG-GATCCGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGTTTggtgagttttagactctgtacctctccagcttatgacatccagaatctcca Alignment from Spaln_aa2Genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG gttttacccagctcttgctaaggtctgcgcatcatgcctctccccatcagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTACGCCTATACTCACCGGAATCTCTTCCAGGATCCGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGTTTGgtgagttttagactctgtacctctccagcttatgacatccagaatctcca Alignment from Spaln_nt2Genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTG-GCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG gttttacccagctcttgctaaggtctgcgcatcatgcctctccccatcagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTACGCCTATACTCACCGGAATCTCTTCC-AGGATCCGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGTTTGgtgagttttagactctgtacctctccagcttatgacatccagaatctcca Alignment from Pairagon GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTG-GCCTATACTCACCGAAACCTCTTCCGTCGCCTA------GAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG gttttacccagctcttgctaaggtctgcgcatcatgcctctccccatcagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTACGCCTATACTCACCGGAATCTCTTCC-------AGGATCCGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGTTTGgtgagttttagactctgtacctctccagcttatgacatccagaatctcca Alignment from Exonerate_protein2genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG gttttacccagctcttgctaaggtctgcgcatcatgcctctccccatcagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTACGCCTATACTCACCGGAATCTCTTCCAGGATCCGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGTTTGgtgagttttagactctgtacctctccagcttatgacatccagaatctcca Alignment from Exonerate_coding2genome GAGGTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG gttttacccagctcttgctaaggtctgcgcatcatgcctctccccatCAGGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTACGCCTATACTCACCGGAATCTCTTCCAGGATCCGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGTTTGgtgagttttagactctgtacctctccagcttatgacatccagaatctcca Alignment from GeneWise ---TTCATCTCAAAGAAGGACCCAGAGGATATCAAAGAGGTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG gttttacccagCTCTTGCTAAGGTCTGCGCATCATGCCTCTCCCCATCAGGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTACGCCTATACTCACCGGAATCTCTTCCAGGATCCGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGTTTGgtgagttttagactctgtacctctccagcttatgacatccagaatctcca #### Snx32_ID1072_6 --> 0 - 0 Original Alignment CTGAGTGTTCGAGAG-AAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTCAAG acaacattattaagattatccaagtctcttatttgccctgggtcccacagCTGAGTGTCCAAGAGCAAGAACAGAAAGGAGGTTTCTGGGGGGCTCC-ACGAGGT---GTTAGGTATGCAGATGAAATCATCATCACTGGTGGCATTTCAGGGCTCAAAgtacctatggcttctgttgtggtgggaggatcatgccagatagtgctgcc Alignment from CESAR CTGAGTGTTCGAGAG-AAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTCAAG acaacattattaagattatccaagtctcttatttgccctgggtcccacagCTGAGTGTCCAAGAGCAAGAACAGAAAGGAGGTTTCTGGGGGGCTC-CACGAGGT---GTTAGGTATGCAGATGAAATCATCATCACTGGTGGCATTTCAGGGCTCAAAgtacctatggcttctgttgtggtgggaggatcatgccagatagtgctgcc Alignment from Spaln_aa2Genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTCAAG acaacattattaagattatccaagtctcttatttgccctgggtcccacagCTGAGTGTCCAAGAGCAAGAACAGAAAGGAGGTTTCTGGGGGGCTCCACGAGGT---GTTAGGTATGCAGATGAAATCATCATCACTGGTGGCATTTCAGGGCTCAAAgtacctatggcttctgttgtggtgggaggatcatgccagatagtgctgcc Alignment from Spaln_nt2Genome CTGAGTGTTCGAGAG-AAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACCGG---CATATCAGGGCTCAAG acaacattattaagattatccaagtctcttatttgccctgggtcccacagCTGAGTGTCCAAGAGCAAGAACAGAAAGGAGGTTTCTGGGGGGCTCC--ACGAG--GTGTTAGGTATGCAGATGAAATCATCATCACTGGTGGCATTTCAGGGCTCAAAgtacctatggcttctgttgtggtgggaggatcatgccagatagtgctgcc Alignment from Pairagon CTGAGTGTTCGAGAG-AAGAACAGGAAGGAGGTCTTGGGAGGGCTCC-TGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCAC---CGGCATATCAGGGCTCAAG acaacattattaagattatccaagtctcttatttgccctgggtcccacagCTGAGTGTCCAAGAGCAAGAACAGAAAGGAGGTTTCTGGGGGGCTCCACGAGG-----TGTTAGGTATGCAGATGAAATCATCATCACTGGTGGCATTTCAGGGCTCAAAgtacctatggcttctgttgtggtgggaggatcatgccagatagtgctgcc Alignment from Exonerate_protein2genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTCAAG acaacattattaagattatccaagtctcttatttgccctgggtcccacagCTGAGTGTCCAAGAGCAAGAACAGAAAGGAGGTTTCTGGGGGGCTCCACGAGGT---GTTAGGTATGCAGATGAAATCATCATCACTGGTGGCATTTCAGGGCTCAAAgtacctatggcttctgttgtggtgggaggatcatgccagatagtgctgcc Alignment from Exonerate_coding2genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTCAAG acaacattattaagattatccaagtctcttatttgccctgggtcccacagCTGAGTGTCCAAGAGCAAGAACAGAAAGGAGGTTTCTGGGGGGCTCCACGAGGT---GTTAGGTATGCAGATGAAATCATCATCACTGGTGGCATTTCAGGGCTCAAAgtacctatggcttctgttgtggtgggaggatcatgccagatagtgctgcc Alignment from GeneWise CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACCGGC---ATATCAGGGCTCAAG acaacattattaagattatccaagtctcttatttgccctgggtcccacagCTGAGTGTCCAAGAGCAAGAACAGAAAGGAGGTTTCTGGGGGGCTCCACGAGGT---GTTAGGTATGCAGATGAAATCATCATCACTGGTGGCATTTCAGGGCTCAAAgtacctatggcttctgttgtggtgggaggatcatgccagatagtgctgcc #### Snx32_ID1073_5 --> 1 - 0 Original Alignment gGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTG-GCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT caagcaacatggcattccagtagaccacgcttttcctgtcaatttcccaggGAATACTTGGCCATTTTTAAGAAGACTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGCGCAGCCCATCCCACCCTGCGTCGGGACCACA-CTTCTCCATCTTCTTGGAATATAGCCAGGATgtgagtttattgaatcattacaacaaaacgagaggctgatgggcgtgtgg Alignment from CESAR gGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTG-GCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT caagcaacatggcattccagtagaccacgcttttcctgtcaatttcccaggGAATACTTGGCCATTTTTAAGAAGACTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGCGCAGCCCATCCCACCCTGCGTCGGGACC-ACACTTCTCCATCTTCTTGGAATATAGCCAGGATgtgagtttattgaatcattacaacaaaacgagaggctgatgggcgtgtgg Alignment from Spaln_aa2Genome GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT caagcaacatggcattccagtagaccacgcttttcctgtcaatttcccagGGAATACTTGGCCATTTTTAAGAAGACTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGCGCAGCCCATCCCACCCTGCGTCGGGACCACACTTCTCCATCTTCTTGGAATATAGCCAGGATgtgagtttattgaatcattacaacaaaacgagaggctgatgggcgtgtgg Alignment from Spaln_nt2Genome GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTG-GCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT caagcaacatggcattccagtagaccacgcttttcctgtcaatttcccagGGAATACTTGGCCATTTTTAAGAAGACTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGCGCAGCCCATCCCACCCTGCGTCGGGACCACA-CTTCTCCATCTTCTTGGAATATAGCCAGGATgtgagtttattgaatcattacaacaaaacgagaggctgatgggcgtgtgg Alignment from Pairagon GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTG-GCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT caagcaacatggcattccagtagaccacgcttttcctgtcaatttcccagGGAATACTTGGCCATTTTTAAGAAGACTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGCGCAGCCCATCCCACCCTGCGTCGGGACCAC-ACTTCTCCATCTTCTTGGAATATAGCCAGGATgtgagtttattgaatcattacaacaaaacgagaggctgatgggcgtgtgg Alignment from Exonerate_protein2genome GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT caagcaacatggcattccagtagaccacgcttttcctgtcaatttcccagGGAATACTTGGCCATTTTTAAGAAGACTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGCGCAGCCCATCCCACCCTGCGTCGGGACCACACTTCTCCATCTTCTTGGAATATAGCCAGGATgtgagtttattgaatcattacaacaaaacgagaggctgatgggcgtgtgg Alignment from Exonerate_coding2genome GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT caagcaacatggcattccagtagaccacgcttttcctgtcaatttcccagGGAATACTTGGCCATTTTTAAGAAGACTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGCGCAGCCCATCCCACCCTGCGTCGGGACCACACTTCTCCATCTTCTTGGAATATAGCCAGGATgtgagtttattgaatcattacaacaaaacgagaggctgatgggcgtgtgg Alignment from GeneWise GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT caagcaacatggcattccagtagaccacgcttttcctgtcaatttcccagGGAATACTTGGCCATTTTTAAGAAGACTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGCGCAGCCCATCCCACCCTGCGTCGGGACCACACTTCTCCATCTTCTTGGAATATAGCCAGGATgtgagtttattgaatcattacaacaaaacgagaggctgatgggcgtgtgg #### Sptbn2_ID610_5 --> 1 - 2 Original Alignment aTACCCCAATGTCAATGTGCAC-AACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACcg ccaaccagggttgggaatgcacacagatttttccttatatatttaaacaggTACCCCAATGTCAATGTGCATCAACTTCACCACCAGCTGGAGAGATGGGCTAGCCTTTA-TGCCATCATACATAAACACcggtaggtgtgtgaggtcctagctcctgacttatgtatttgtacggaggtat Alignment from CESAR aTACCCCAATGTCAATGTGCAC-AACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACcg ccaaccagggttgggaatgcacacagatttttccttatatatttaaacaggTACCCCAATGTCAATGTGCATCAACTTCACCACCAGCTGGAGAGATGGGCTAGCCTTT-ATGCCATCATACATAAACACcggtaggtgtgtgaggtcctagctcctgacttatgtatttgtacggaggtat Alignment from Spaln_aa2Genome ATACCCCAATGTCAATGTGCAC-AACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG ccaaccagggttgggaatgcacacagatttttccttatatatttaaacagGTACCCCAATGTCAATGTGCATcAACTTCACCACCAGCTGGAGAGATGGGCTAGCCTTTAT-GCCATCATACATAAACACCGgtaggtgtgtgaggtcctagctcctgacttatgtatttgtacggaggtat Alignment from Spaln_nt2Genome ATACCCCAATGTCAATGTGCA-CAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG ccaaccagggttgggaatgcacacagatttttccttatatatttaaacagGTACCCCAATGTCAATGTGCATCAACTTCACCACCAGCTGGAGAGATGGGCTAGCCTTT-ATGCCATCATACATAAACACCGgtaggtgtgtgaggtcctagctcctgacttatgtatttgtacggaggtat Alignment from Pairagon ATACCCCAATGTCAATGTGCA-CAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG ccaaccagggttgggaatgcacacagatttttccttatatatttaaacagGTACCCCAATGTCAATGTGCATCAACTTCACCACCAGCTGGAGAGATGGGCTAGCCTTT-ATGCCATCATACATAAACACCGgtaggtgtgtgaggtcctagctcctgacttatgtatttgtacggaggtat Alignment from Exonerate_protein2genome ccaaccagggttgggaatgcacacagatttttccttatatatttaaacaggtaccccaatgtcaatgtgcatcaacttcaccaccagctggagagatgggctagcctttatgccatcatacataaacaccggtaggtgtgtgaggtcctagctcctgacttatgtatttgtacggaggtat Alignment from Exonerate_coding2genome ccaaccagggttgggaatgcacacagatttttccttatatatttaaacaggtaccccaatgtcaatgtgcatcaacttcaccaccagctggagagatgggctagcctttatgccatcatacataaacaccggtaggtgtgtgaggtcctagctcctgacttatgtatttgtacggaggtat Alignment from GeneWise ATACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG ccaaccagggttgggaatgcacacagatttttccttatatatttaaacagGTACCCCAATGTCAATGTGCATCAACTTCACCACCAGCTGGAGAGATGGGCTAGCCTTTATGCCATCATACATAAACACCGgtaggtgtgtgaggtcctagctcctgacttatgtatttgtacggaggtat #### Sptbn2_ID612_7 --> 2 - 0 Original Alignment atGTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTAC-GTGGCCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaatttattgagttgaccgtgtctctgggcagatGTGAATGTAGATCAGCCTGATGAGCAGTCTGTCATTACCTATCGTGTCCACCTACTACCACTACTTCTCCAGGATGAAGG-TCTATCAGTGGAAGGAAAAAGAACTGGGAAGgtaaggtctccattgaacaccatctgaaagttctagtaaggaccagataa Alignment from CESAR atGTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTAC-GTGGCCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaatttattgagttgaccgtgtctctgggcagatGTGAATGTAGATCAGCCTGATGAGCAGTCTGTCATTACCTATCGTGTCCACCTACTACCACTACTTCTCCAGGATGAAGG-TCTATCAGTGGAAGGAAAAAGAACTGGGAAGgtaaggtctccattgaacaccatctgaaagttctagtaaggaccagataa Alignment from Spaln_aa2Genome ATGTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTACGTGGCCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaatttattgagttgaccgtgtctctgggcagATGTGAATGTAGATCAGCCTGATGAGCAGTCTGTCATTACCTATCGTGTCCACCTACTACCACTACTTCTCCAGGATGAAGGTCTATCAGTGGAAGGAAAAAGAACTGGGAAGgtaaggtctccattgaacaccatctgaaagttctagtaaggaccagataa Alignment from Spaln_nt2Genome ATGTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTA-CGTGGCCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaatttattgagttgaccgtgtctctgggcagATGTGAATGTAGATCAGCCTGATGAGCAGTCTGTCATTACCTATCGTGTCCACCTACTACCACTACTTCTCCAGGATGAAGG-TCTATCAGTGGAAGGAAAAAGAACTGGGAAGgtaaggtctccattgaacaccatctgaaagttctagtaaggaccagataa Alignment from Pairagon ATGTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTA-CGTGGCCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaatttattgagttgaccgtgtctctgggcagATGTGAATGTAGATCAGCCTGATGAGCAGTCTGTCATTACCTATCGTGTCCACCTACTACCACTACTTCTCCAGGATGAAGG-TCTATCAGTGGAAGGAAAAAGAACTGGGAAGgtaaggtctccattgaacaccatctgaaagttctagtaaggaccagataa Alignment from Exonerate_protein2genome agggacatggggggaacacaatttattgagttgaccgtgtctctgggcagatgtgaatgtagatcagcctgatgagcagtctgtcattacctatcgtgtccacctactaccactacttctccaggatgaaggtctatcagtggaaggaaaaagaactgggaaggtaaggtctccattgaacaccatctgaaagttctagtaaggaccagataa Alignment from Exonerate_coding2genome agggacatggggggaacacaatttattgagttgaccgtgtctctgggcagatgtgaatgtagatcagcctgatgagcagtctgtcattacctatcgtgtccacctactaccactacttctccaggatgaaggtctatcagtggaaggaaaaagaactgggaaggtaaggtctccattgaacaccatctgaaagttctagtaaggaccagataa Alignment from GeneWise ATGTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTACGTGGCCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaatttattgagttgaccgtgtctctgggcagATGTGAATGTAGATCAGCCTGATGAGCAGTCTGTCATTACCTATCGTGTCCACCTACTACCACTACTTCTCCAGGATGAAGGTCTATCAGTGGAAGGAAAAAGAACTGGGAAGgtaaggtctccattgaacaccatctgaaagttctagtaaggaccagataa #### Sptbn2_ID615_10 --> 0 - 0 Original Alignment GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAG-GCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ctaacccattctgccactacccccacttcaatttgttttcttcctaacagGCCTGGGAGCGGTTGGAGAAATCTGAACATGAGAGAGAGCTAGCATTGCGCACAGAGCTCATTCGTCAGAAAAAGCTAGAGAAATTAGCTGCTCGATTTGACCACAAGCGCTTCTATGCGGAAGACTTGGCTCAGAGAGAACCAGC-ACTTGTTTCTCAAgtagattttctccaccagcctaaaatgtgtatcttaacgaggcctgtgca Alignment from CESAR GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAG-GCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ctaacccattctgccactacccccacttcaatttgttttcttcctaacagGCCTGGGAGCGGTTGGAGAAATCTGAACATGAGAGAGAGCTAGCATTGCGCACAGAGCTCATTCGTCAGAAAAAGCTAGAGAAATTAGCTGCTCGATTTGACCACAAGCGCTTCTATGCGGAAGACTTGGCTCAGAGAGAACCAG-CACTTGTTTCTCAAgtagattttctccaccagcctaaaatgtgtatcttaacgaggcctgtgca Alignment from Spaln_aa2Genome GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ctaacccattctgccactacccccacttcaatttgttttcttcctaacagGCCTGGGAGCGGTTGGAGAAATCTGAACATGAGAGAGAGCTAGCATTGCGCACAGAGCTCATTCGTCAGAAAAAGCTAGAGAAATTAGCTGCTCGATTTGACCACAAGCGCTTCTATGCGGAAGACTTGGCTCAGAGAGAACCAGCACTTGTTTCTCAAgtagattttctccaccagcctaaaatgtgtatcttaacgaggcctgtgca Alignment from Spaln_nt2Genome GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAG-GCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ctaacccattctgccactacccccacttcaatttgttttcttcctaacagGCCTGGGAGCGGTTGGAGAAATCTGAACATGAGAGAGAGCTAGCATTGCGCACAGAGCTCATTCGTCAGAAAAAGCTAGAGAAATTAGCTGCTCGATTTGACCACAAGCGCTTCTATGCGGAAGACTTGGCTCAGAGAGAACCAGC-ACTTGTTTCTCAAgtagattttctccaccagcctaaaatgtgtatcttaacgaggcctgtgca Alignment from Pairagon GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAG-GCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ctaacccattctgccactacccccacttcaatttgttttcttcctaacagGCCTGGGAGCGGTTGGAGAAATCTGAACATGAGAGAGAGCTAGCATTGCGCACAGAGCTCATTCGTCAGAAAAAGCTAGAGAAATTAGCTGCTCGATTTGACCACAAGCGCTTCTATGCGGAAGACTTGGCTCAGAGAGAACCAGC-ACTTGTTTCTCAAgtagattttctccaccagcctaaaatgtgtatcttaacgaggcctgtgca Alignment from Exonerate_protein2genome ctaacccattctgccactacccccacttcaatttgttttcttcctaacaggcctgggagcggttggagaaatctgaacatgagagagagctagcattgcgcacagagctcattcgtcagaaaaagctagagaaattagctgctcgatttgaccacaagcgcttctatgcggaagacttggctcagagagaaccagcacttgtttctcaagtagattttctccaccagcctaaaatgtgtatcttaacgaggcctgtgca Alignment from Exonerate_coding2genome ctaacccattctgccactacccccacttcaatttgttttcttcctaacaggcctgggagcggttggagaaatctgaacatgagagagagctagcattgcgcacagagctcattcgtcagaaaaagctagagaaattagctgctcgatttgaccacaagcgcttctatgcggaagacttggctcagagagaaccagcacttgtttctcaagtagattttctccaccagcctaaaatgtgtatcttaacgaggcctgtgca Alignment from GeneWise GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ctaacccattctgccactacccccacttcaatttgttttcttcctaacagGCCTGGGAGCGGTTGGAGAAATCTGAACATGAGAGAGAGCTAGCATTGCGCACAGAGCTCATTCGTCAGAAAAAGCTAGAGAAATTAGCTGCTCGATTTGACCACAAGCGCTTCTATGCGGAAGACTTGGCTCAGAGAGAACCAGCACTTGTTTCTCAAgtagattttctccaccagcctaaaatgtgtatcttaacgaggcctgtgca #### Sptbn2_ID631_26 --> 0 - 2 Original Alignment GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAG-GGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCcg tctgtgatctaccatctcttccagtcctgagccacatttgttccctgtagGTCCAGCAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATCGGTCGTCATATGCAGGCAGTAGCTGAGGCCTGGGCCCAGCTCCAACGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTG-TACAACGGATAAATTTCGATTCTTTAAGGCTGTCCGAGAGTTAATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCcggtataccttgtggtggctggttttacccaattgctactaagttgggcagg Alignment from CESAR GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAG-GGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCcg tctgtgatctaccatctcttccagtcctgagccacatttgttccctgtagGTCCAGCAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATCGGTCGTCATATGCAGGCAGTAGCTGAGGCCTGGGCCCAGCTCCAACGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTT-GTACAACGGATAAATTTCGATTCTTTAAGGCTGTCCGAGAGTTAATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCcggtataccttgtggtggctggttttacccaattgctactaagttgggcagg Alignment from Spaln_aa2Genome GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCG tctgtgatctaccatctcttccagtcctgagccacatttgttccctgtagGTCCAGCAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATCGGTCGTCATATGCAGGCAGTAGCTGAGGCCTGGGCCCAGCTCCAACGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTGTACAACGGATAAATTTCGATTCTTTAAGGCTGTCCGAGAGTTAATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCCGgtataccttgtggtggctggttttacccaattgctactaagttgggcagg Alignment from Spaln_nt2Genome GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAG-GGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCG tctgtgatctaccatctcttccagtcctgagccacatttgttccctgtagGTCCAGCAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATCGGTCGTCATATGCAGGCAGTAGCTGAGGCCTGGGCCCAGCTCCAACGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTG-TACAACGGATAAATTTCGATTCTTTAAGGCTGTCCGAGAGTTAATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCCGgtataccttgtggtggctggttttacccaattgctactaagttgggcagg Alignment from Pairagon GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAG-GGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCGG------------------------------------------------- tctgtgatctaccatctcttccagtcctgagccacatttgttccctgtagGTCCAGCAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATCGGTCGTCATATGCAGGCAGTAGCTGAGGCCTGGGCCCAGCTCCAACGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTG-TACAACGGATAAATTTCGATTCTTTAAGGCTGTCCGAGAGTTAATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCCGGTATACCTTGTGGTGGCTGGTTTTACCCAATTGCTACTAAGTTGGGCAGG Alignment from Exonerate_protein2genome GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCG tctgtgatctaccatctcttccagtcctgagccacatttgttccctgtagGTCCAGCAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATCGGTCGTCATATGCAGGCAGTAGCTGAGGCCTGGGCCCAGCTCCAACGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTGTACAACGGATAAATTTCGATTCTTTAAGGCTGTCCGAGAGTTAATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCCGgtataccttgtggtggctggttttacccaattgctactaagttgggcagg Alignment from Exonerate_coding2genome GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCG tctgtgatctaccatctcttccagtcctgagccacatttgttccctgtagGTCCAGCAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATCGGTCGTCATATGCAGGCAGTAGCTGAGGCCTGGGCCCAGCTCCAACGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTGTACAACGGATAAATTTCGATTCTTTAAGGCTGTCCGAGAGTTAATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCCGgtataccttgtggtggctggttttacccaattgctactaagttgggcagg Alignment from GeneWise GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCG tctgtgatctaccatctcttccagtcctgagccacatttgttccctgtagGTCCAGCAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATCGGTCGTCATATGCAGGCAGTAGCTGAGGCCTGGGCCCAGCTCCAACGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTGTACAACGGATAAATTTCGATTCTTTAAGGCTGTCCGAGAGTTAATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCCGgtataccttgtggtggctggttttacccaattgctactaagttgggcagg #### Sptbn2_ID633_28 --> 0 - 1 Original Alignment ATCTCAGAGAAG-CTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTg ctgtcacaatccgtgaatggtagtcccatgcctctgcctccatcccccagATTTCAGAGAAGCCTGTCTCAGCTACAGTCCCGGCGCCAGG-GACTGCTGACAAGTGGCAGGAGAAAATGGACTGGTTACAACTTggtgggcctggttacaacttggtcagttaattgacaatattgtgggacgta Alignment from CESAR ATCTCAGAGAAG-CTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTg ctgtcacaatccgtgaatggtagtcccatgcctctgcctccatcccccagATTTCAGAGAAGCCTGTCTCAGCTACAGTCCCGGCGCCAG-GGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGTTACAACTTggtgggcctggttacaacttggtcagttaattgacaatattgtgggacgta Alignment from Spaln_aa2Genome ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG ctgtcacaatccgtgaatggtagtcccatgcctctgcctccatcccccagatttcagAGAAGC------CTGTCTCAGCTACAGTCCCGGCGCCAGGG-ACTGCTGACAAGTGGCAGGAGAAAATGGACTGGTTACAACTTGgtgggcctggttacaacttggtcagttaattgacaatattgtgggacgta Alignment from Spaln_nt2Genome ATCTCAGAGAAGC-TGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG ctgtcacaatccgtgaatggtagtcccatgcctctgcctccatcccccagATTTCAGAGAAGCCTGTCTCAGCTACAGTCCCGGCGCCAGG-GACTGCTGACAAGTGGCAGGAGAAAATGGACTGGTTACAACTTGgtgggcctggttacaacttggtcagttaattgacaatattgtgggacgta Alignment from Pairagon ATCTCAGAGAAG-CTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG ctgtcacaatccgtgaatggtagtcccatgcctctgcctccatcccccagATTTCAGAGAAGCCTGTCTCAGCTACAGTCCCGGCGCCAGG-GACTGCTGACAAGTGGCAGGAGAAAATGGACTGGTTACAACTTGgtgggcctggttacaacttggtcagttaattgacaatattgtgggacgta Alignment from Exonerate_protein2genome ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG ctgtcacaatccgtgaatggtagtcccatgcctctgcctccatcccccagATTTCAGAGAAGCCTGTCTCAGCTACAGTCCCGGCGCCAGGGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGTTACAACTTGgtgggcctggttacaacttggtcagttaattgacaatattgtgggacgta Alignment from Exonerate_coding2genome ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG ctgtcacaatccgtgaatggtagtcccatgcctctgcctccatcccccagATTTCAGAGAAGCCTGTCTCAGCTACAGTCCCGGCGCCAGGGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGTTACAACTTGgtgggcctggttacaacttggtcagttaattgacaatattgtgggacgta Alignment from GeneWise ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG ctgtcacaatccgtgaatggtagtcccatgcctctgcctccatcccccagATTTCAGAGAAGCCTGTCTCAGCTACAGTCCCGGCGCCAGGGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGTTACAACTTGgtgggcctggttacaacttggtcagttaattgacaatattgtgggacgta #### Sptbn2_ID634_29 --> 2 - 0 Original Alignment ttTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTT-CAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG aacaaacctttaaagtctctatacaaccacaagcccatgtcttcctgcagttTTAGAGGTGCTTGTATTTGGGAAAGATGCAGGGATGGCAGAGGCATGGCTGTGCAGCCAGGCACCAGTGGTGCGAAGTGCAGAATTGGGTTGTACTGTGGATGAAGTAGAGGCCCTCATGAAGCGGCATGAGGCCTATCCAGAAATCAGCTGTAGCATGGGAAGAGCGATTTGGTGCAT-AGATAAGCTCACCGCAgtaagtgctgtagaggctcacaaacctagcagtgtcattctcaagccaat Alignment from CESAR ttTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTT-CAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG aacaaacctttaaagtctctatacaaccacaagcccatgtcttcctgcagttTTAGAGGTGCTTGTATTTGGGAAAGATGCAGGGATGGCAGAGGCATGGCTGTGCAGCCAGGCACCAGTGGTGCGAAGTGCAGAATTGGGTTGTACTGTGGATGAAGTAGAGGCCCTCATGAAGCGGCATGAGGCCTATCCAGAAATCAGCTGTAGCATGGGAAGAGCGATTTGGTGCA-TAGATAAGCTCACCGCAgtaagtgctgtagaggctcacaaacctagcagtgtcattctcaagccaat Alignment from Spaln_aa2Genome TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTT-CAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG aacaaacctttaaagtctctatacaaccacaagcccatgtcttcctgcagTTTTAGAGGTGCTTGTATTTGGGAAAGATGCAGGGATGGCAGAGGCATGGCTGTGCAGCCAGGCACCAGTGGTGCGAAGTGCAGAATTGGGTTGTACTGTGGATGAAGTAGAGGCCCTCATGAAGCGGCATGAGGCCTATcCAGAAATCAGCTGTAGCATGGGAAGAGCGATTTGGTGCATA-GATAAGCTCACCGCAgtaagtgctgtagaggctcacaaacctagcagtgtcattctcaagccaat Alignment from Spaln_nt2Genome TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTC-AGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG aacaaacctttaaagtctctatacaaccacaagcccatgtcttcctgcagTTTTAGAGGTGCTTGTATTTGGGAAAGATGCAGGGATGGCAGAGGCATGGCTGTGCAGCCAGGCACCAGTGGTGCGAAGTGCAGAATTGGGTTGTACTGTGGATGAAGTAGAGGCCCTCATGAAGCGGCATGAGGCCTATCCAGAAATCAGCTGTAGCATGGGAAGAGCGATTTGGTGC-ATAGATAAGCTCACCGCAgtaagtgctgtagaggctcacaaacctagcagtgtcattctcaagccaat Alignment from Pairagon TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCT-TTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG aacaaacctttaaagtctctatacaaccacaagcccatgtcttcctgcagTTTTAGAGGTGCTTGTATTTGGGAAAGATGCAGGGATGGCAGAGGCATGGCTGTGCAGCCAGGCACCAGTGGTGCGAAGTGCAGAATTGGGTTGTACTGTGGATGAAGTAGAGGCCCTCATGAAGCGGCATGAGGCCTATCCAGAAATCAGCTGTAGCATGGGAAGAGCGATTTGGTGCA-TAGATAAGCTCACCGCAgtaagtgctgtagaggctcacaaacctagcagtgtcattctcaagccaat Alignment from Exonerate_protein2genome TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG aacaaacctttaaagtctctatacaaccacaagcccatgtcttcctgcagTTTTAGAGGTGCTTGTATTTGGGAAAGATGCAGGGATGGCAGAGGCATGGCTGTGCAGCCAGGCACCAGTGGTGCGAAGTGCAGAATTGGGTTGTACTGTGGATGAAGTAGAGGCCCTCATGAAGCGGCATGAGGCCTATCCAGAAATCAGCTGTAGCATGGGAAGAGCGATTTGGTGCATAGATAAGCTCACCGCAgtaagtgctgtagaggctcacaaacctagcagtgtcattctcaagccaat Alignment from Exonerate_coding2genome TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG aacaaacctttaaagtctctatacaaccacaagcccatgtcttcctgcagTTTTAGAGGTGCTTGTATTTGGGAAAGATGCAGGGATGGCAGAGGCATGGCTGTGCAGCCAGGCACCAGTGGTGCGAAGTGCAGAATTGGGTTGTACTGTGGATGAAGTAGAGGCCCTCATGAAGCGGCATGAGGCCTATCCAGAAATCAGCTGTAGCATGGGAAGAGCGATTTGGTGCATAGATAAGCTCACCGCAgtaagtgctgtagaggctcacaaacctagcagtgtcattctcaagccaat Alignment from GeneWise TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG aacaaacctttaaagtctctatacaaccacaagcccatgtcttcctgcagTTTTAGAGGTGCTTGTATTTGGGAAAGATGCAGGGATGGCAGAGGCATGGCTGTGCAGCCAGGCACCAGTGGTGCGAAGTGCAGAATTGGGTTGTACTGTGGATGAAGTAGAGGCCCTCATGAAGCGGCATGAGGCCTATCCAGAAATCAGCTGTAGCATGGGAAGAGCGATTTGGTGCATAGATAAGCTCACCGCAgtaagtgctgtagaggctcacaaacctagcagtgtcattctcaagccaat #### Sptbn2_ID635_30 --> 0 - 2 Original Alignment CTGGAAGAGCGGGAAAATGAGCGGAAA-AGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATgg atattctactcccattggttcccactctgattcctttctgccctttgcagCTGGAAGAGAGGGAAATTGAACGCAAACAGAAAGAGGGAGGGGGAGGAACAGAGGAGACAACCTTCCA-TTCAGAGCCCATGGCTAGTCAGTTAGAAGGGAGCCTAGTGGATGGCCAAAGAGTACTGGACACTGCTTGGGATgggtaataattgacagtaaagcaaatgatgctaatactggcaaatgacccta Alignment from CESAR CTGGAAGAGCGGGAAAATGAGCGGAAA-AGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATgg atattctactcccattggttcccactctgattcctttctgccctttgcagCTGGAAGAGAGGGAAATTGAACGCAAACAGAAAGAGGGAGGGGGAGGAACAGAGGAGACAACCTTCC-ATTCAGAGCCCATGGCTAGTCAGTTAGAAGGGAGCCTAGTGGATGGCCAAAGAGTACTGGACACTGCTTGGGATgggtaataattgacagtaaagcaaatgatgctaatactggcaaatgaccctt Alignment from Spaln_aa2Genome CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG atattctactcccattggttcccactctgattcctttctgccctttgcagCTGGAAGAGAGGGAAATTGAACGCAAACAGAAAGAGGGAGGGGGAGGAACAGAGGAGACAACCTTCCATTCAGAGCCCATGGCTAGTCAGTTAGAAGGGAGCCTAGTGGATGGCCAAAGAGTACTGGACACTGCTTGGGATGGgtaataattgacagtaaagcaaatgatgctaatactggcaaatgacccta Alignment from Spaln_nt2Genome CTGGAAGAGCGGGAAAATGAGCGGAAA-AGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG atattctactcccattggttcccactctgattcctttctgccctttgcagCTGGAAGAGAGGGAAATTGAACGCAAACAGAAAGAGGGAGGGGGAGGAACAGAGGAGACAACCTTCCA-TTCAGAGCCCATGGCTAGTCAGTTAGAAGGGAGCCTAGTGGATGGCCAAAGAGTACTGGACACTGCTTGGGATGGgtaataattgacagtaaagcaaatgatgctaatactggcaaatgacccta Alignment from Pairagon CTGGAAGAGCGGGAAAATGAGCGGAAA-AGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG atattctactcccattggttcccactctgattcctttctgccctttgcagCTGGAAGAGAGGGAAATTGAACGCAAACAGAAAGAGGGAGGGGGAGGAACAGAGGAGACAACCTTCCA-TTCAGAGCCCATGGCTAGTCAGTTAGAAGGGAGCCTAGTGGATGGCCAAAGAGTACTGGACACTGCTTGGGATGGgtaataattgacagtaaagcaaatgatgctaatactggcaaatgacccta Alignment from Exonerate_protein2genome CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG atattctactcccattggttcccactctgattcctttctgccctttgcagCTGGAAGAGAGGGAAATTGAACGCAAACAGAAAGAGGGAGGGGGAGGAACAGAGGAGACAACCTTCCATTCAGAGCCCATGGCTAGTCAGTTAGAAGGGAGCCTAGTGGATGGCCAAAGAGTACTGGACACTGCTTGGGATGGgtaataattgacagtaaagcaaatgatgctaatactggcaaatgacccta Alignment from Exonerate_coding2genome CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG atattctactcccattggttcccactctgattcctttctgccctttgcagCTGGAAGAGAGGGAAATTGAACGCAAACAGAAAGAGGGAGGGGGAGGAACAGAGGAGACAACCTTCCATTCAGAGCCCATGGCTAGTCAGTTAGAAGGGAGCCTAGTGGATGGCCAAAGAGTACTGGACACTGCTTGGGATGGgtaataattgacagtaaagcaaatgatgctaatactggcaaatgacccta Alignment from GeneWise CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG atattctactcccattggttcccactctgattcctttctgccctttgcagCTGGAAGAGAGGGAAATTGAACGCAAACAGAAAGAGGGAGGGGGAGGAACAGAGGAGACAACCTTCCATTCAGAGCCCATGGCTAGTCAGTTAGAAGGGAGCCTAGTGGATGGCCAAAGAGTACTGGACACTGCTTGGGATGGgtaataattgacagtaaagcaaatgatgctaatactggcaaatgacccta #### Sptbn2_ID638_33 --> 0 - 2 Original Alignment GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTG---CCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAG-ATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACag taaagcagaggagaataaaattagtagtaagaactgccttcctctcctagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACGCAAGGTCCGGAGCTCTCTGCACAGGAACAGCATGGAAGGGATGCTGTGCCGAGAACAAGACATGGAAG-GTTGAACAAGAAAGCTGCAAATaggtaactatcgtacatactgatgccttttcctcactccccctagcctctaa Alignment from CESAR GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAG-ATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACag taaagcagaggagaataaaattagtagtaagaactgccttcctctcctagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACGCAAGGTCCGGAGCTCTCTGCACAGGAACAGCATGGAAGGGATGCTGTGCCGAGAACAAGACATGGAA-GGTTGAACAAGAAAGCTGCAAATaggtaactatcgtacatactgatgccttttcctcactccccctagcctctaa Alignment from Spaln_aa2Genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG taaagcagaggagaataaaattagtagtaagaactgccttcctctcctagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACGCAAGGTCCGGAGCTCTCTGCACAGGAACAGCATGGAAGGGATGCTGTGCCGAGAACAAGACATGGAAGGTTGAACAAGAAAGCTGCAAATAGgtaactatcgtacatactgatgccttttcctcactccccctagcctctaa Alignment from Spaln_nt2Genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTGC---CCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAG-ATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG taaagcagaggagaataaaattagtagtaagaactgccttcctctcctagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACGCAAGGTCCGGAGCTCTCTGCACAGGAACAGCATGGAAGGGATGCTGTGCCGAGAACAAGACATGGAAG-GTTGAACAAGAAAGCTGCAAATAGgtaactatcgtacatactgatgccttttcctcactccccctagcctctaa Alignment from Pairagon GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAG-ATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG taaagcagaggagaataaaattagtagtaagaactgccttcctctcctagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACGCAAGGTCCGGAGCTCTCTGCACAGGAACAGCATGGAAGGGATGCTGTGCCGAGAACAAGACATGGAAG-GTTGAACAAGAAAGCTGCAAATAGgtaactatcgtacatactgatgccttttcctcactccccctagcctctaa Alignment from Exonerate_protein2genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG taaagcagaggagaataaaattagtagtaagaactgccttcctctcctagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACGCAAGGTCCGGAGCTCTCTGCACAGGAACAGCATGGAAGGGATGCTGTGCCGAGAACAAGACATGGAAGGTTGAACAAGAAAGCTGCAAATAGgtaactatcgtacatactgatgccttttcctcactccccctagcctctaa Alignment from Exonerate_coding2genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG taaagcagaggagaataaaattagtagtaagaactgccttcctctcctagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACGCAAGGTCCGGAGCTCTCTGCACAGGAACAGCATGGAAGGGATGCTGTGCCGAGAACAAGACATGGAAGGTTGAACAAGAAAGCTGCAAATAGgtaactatcgtacatactgatgccttttcctcactccccctagcctctaa Alignment from GeneWise GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTG---CCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG taaagcagaggagaataaaattagtagtaagaactgccttcctctcctagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACGCAAGGTCCGGAGCTCTCTGCACAGGAACAGCATGGAAGGGATGCTGTGCCGAGAACAAGACATGGAAGGTTGAACAAGAAAGCTGCAAATAGgtaactatcgtacatactgatgccttttcctcactccccctagcctctaa #### Ssh3_ID443_13 --> 1 - 0 Original Alignment cCGGCAGAGCCACGTC-TGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTG------GCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagtcgattgtcacagcacttagggttattgtatctgctgttgtccacagcCAACAGAGCCGTGTTCTGGGAGCAAAAAGTAGGTGGTGTA---CCAGAGG-ACCTCTAGCACCAGCACCTGAAGTTTCCACCCCATTGCCACCTTTTCCACCTGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGCCTGGAAGGAAGCCAAGAGATGCCAAAAGAAGATCTGGGACTGCAGCCTAGAATCAACCTTCGGGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGTAGAGAGTACTCCAGAGGCAGGGGGTCTGCCAGAGgttggttcagaccagaggtgtgtgtcaatccagtaatcaccttgtcaccc Alignment from CESAR cCGGCAGAGCCACGTC-TGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCG------CCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagtcgattgtcacagcacttagggttattgtatctgctgttgtccacagcCAACAGAGCCGTGTTCTGGGAGCAAAAAGTAGGTGGTGTA---CCAGAGG-ACCTCTAGCACCAGCACCTGAAGTTTCCACCCCATTGCCACCTTTTCCACCTGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGCCTGGAAGGAAGCCAAGAGATGCCAAAAGAAGATCTGGGACTGCAGCCTAGAATCAACCTTCGGGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGTAGAGAGTACTCCAGAGGCAGGGGGTCTGCCAGAGgttggttcagaccagaggtgtgtgtcaatccagtaatcaccttgtcaccc Alignment from Spaln_aa2Genome CCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAG---CCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagtcgattgtcacagcacttagggttattgtatctgctgttgtccacagCCAACAGAGCCGTGTTCTGGGAGCAAAAAGTAGGTGGTGTACCAGAGGACCTCTAGCACCAGCACCTGAAGTTTCCACCCCATTGCCACCTTTTCCACCTGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGCCTGGAAGGAAGCCAAGAGATGCCAAAAGAAGATCTGGGACTGCAGCCTAGAATCAACCTTCGGGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGTAGAGAGTACTCCAGAGGCAGGGGGTCTGCCAGAGgttggttcagaccagaggtgtgtgtcaatccagtaatcaccttgtcaccc Alignment from Spaln_nt2Genome CCGGCAGAGCCACGT-CTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTG-----GCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagtcgattgtcacagcacttagggttattgtatctgctgttgtccacagCCAACAGAGCCGTGTTCTGGGAGCAAAAAGTAGGTGGTGT---ACCAGAGGACCTCTAGCACCAGCACCTGAAGTTTCCACCCCATTGCCACCTTTTCCACCTGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGCCTGGAAGGAAGCCAAGAGATGCCAAAAGAAGATCTGGGACTGCAGCCTAGAATCAACCTTCGGGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGTAGAGAGTACTCCAGAGGCAGGGGGTCTGCCAGAGgttggttcagaccagaggtgtgtgtcaatccagtaatcaccttgtcaccc Alignment from Pairagon CCGGCAGAGCCACG-TCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCC-----CTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagtcgattgtcacagcacttagggttattgtatctgctgttgtccacagCCAACAGAGCCGTGTTCTGGGAGCAAAAAGTAGGTGGTGT---ACCAGAGGACCTCTAGCACCAGCACCTGAAGTTTCCACCCCATTGCCACCTTTTCCACCTGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGCCTGGAAGGAAGCCAAGAGATGCCAAAAGAAGATCTGGGACTGCAGCCTAGAATCAACCTTCGGGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGTAGAGAGTACTCCAGAGGCAGGGGGTCTGCCAGAGgttggttcagaccagaggtgtgtgtcaatccagtaatcaccttgtcaccc Alignment from Exonerate_protein2genome CCGGCAGAGCCACGTC-TGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAG--GAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagtcgattgtcacagcacttagggttattgtatctgctgttgtccacagCCAACAGAGCCGTGTTCTGGGAGCAAAAAGTAGGTGGTGTACCAGAGGACCTCTAGCACCAGCACCTGAAGTTTCCACCCCATTGCCACCTTTTCCACCTGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGCCTGGAAGGAAGCCAAGAGATGCCAAAAGAAGATCTGGGACTGCAGCCTAGAATCAACCTTCGGGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGTAGAGAGTACTCCAGAGGCAGGGGGTCTGCCAGAGgttggttcagaccagaggtgtgtgtcaatccagtaatcaccttgtcaccc Alignment from Exonerate_coding2genome CCGGCAGAGCCACGTC-TGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAG--GAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagtcgattgtcacagcacttagggttattgtatctgctgttgtccacagCCAACAGAGCCGTGTTCTGGGAGCAAAAAGTAGGTGGTGTACCAGAGGACCTCTAGCACCAGCACCTGAAGTTTCCACCCCATTGCCACCTTTTCCACCTGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGCCTGGAAGGAAGCCAAGAGATGCCAAAAGAAGATCTGGGACTGCAGCCTAGAATCAACCTTCGGGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGTAGAGAGTACTCCAGAGGCAGGGGGTCTGCCAGAGgttggttcagaccagaggtgtgtgtcaatccagtaatcaccttgtcaccc Alignment from GeneWise CCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCC------CCAGAGGAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagtcgattgtcacagcacttagggttattgtatctgctgttgtccacagCCAACAGAGCCGTGTTCTGGGAGCAAAAAGTAGGTGGTGTACCAGAGGACCTCTAGCACCA---GCACCTGAAGTTTCCACCCCATTGCCACCTTTTCCACCTGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGCCTGGAAGGAAGCCAAGAGATGCCAAAAGAAGATCTGGGACTGCAGCCTAGAATCAACCTTCGGGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGTAGAGAGTACTCCAGAGGCAGGGGGTCTGCCAGAGgttggttcagaccagaggtgtgtgtcaatccagtaatcaccttgtcaccc #### Ssh3_ID448_8 --> 1 - 0 Original Alignment gGCTTCAGAGCAGGAAAAGATGGAGCAG-GCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG cgtgtttgctgctactaactaacaggtaactcagacttttcatgttttaggGCCTCAGAGCAGGAGAAGACAGAGCAGCGCAATTCTGATAGAATTGTGGCAAGTGTTAGATA-TAGTGATCTAGAAAGTGTTACTTCCAAAGAGgtaaaaataaagcagggtagctgccaattgttcctatctgacgcccccca Alignment from CESAR gGCTTCAGAGCAGGAAAAGATGGAGCAG-GCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG cgtgtttgctgctactaactaacaggtaactcagacttttcatgttttaggGCCTCAGAGCAGGAGAAGACAGAGCAGCGCAATTCTGATAGAATTGTGGCAAGTGTTAGAT-ATAGTGATCTAGAAAGTGTTACTTCCAAAGAGgtaaaaataaagcagggtagctgccaattgttcctatctgacgcccccca Alignment from Spaln_aa2Genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG cgtgtttgctgctactaactaacaggtaactcagacttttcatgttttagGGCCTCAGAGCAGGAGAAGACAGAGCAGCGCAATTCTGATAGAATTGTGGCAAGTGTTAGATATAGTGATCTAGAAAGTGTTACTTCCAAAGAGgtaaaaataaagcagggtagctgccaattgttcctatctgacgcccccca Alignment from Spaln_nt2Genome GGCTTCAGAGCAGGAAAAGATGGAGCAG-GCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG cgtgtttgctgctactaactaacaggtaactcagacttttcatgttttagGGCCTCAGAGCAGGAGAAGACAGAGCAGCGCAATTCTGATAGAATTGTGGCAAGTGTTAGATA-TAGTGATCTAGAAAGTGTTACTTCCAAAGAGgtaaaaataaagcagggtagctgccaattgttcctatctgacgcccccca Alignment from Pairagon GGCTTCAGAGCAGGAAAAGATGGAGCAG-GCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG cgtgtttgctgctactaactaacaggtaactcagacttttcatgttttagGGCCTCAGAGCAGGAGAAGACAGAGCAGCGCAATTCTGATAGAATTGTGGCAAGTGTTAGATA-TAGTGATCTAGAAAGTGTTACTTCCAAAGAGgtaaaaataaagcagggtagctgccaattgttcctatctgacgcccccca Alignment from Exonerate_protein2genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG cgtgtttgctgctactaactaacaggtaactcagacttttcatgttttagGGCCTCAGAGCAGGAGAAGACAGAGCAGCGCAATTCTGATAGAATTGTGGCAAGTGTTAGATATAGTGATCTAGAAAGTGTTACTTCCAAAGAGgtaaaaataaagcagggtagctgccaattgttcctatctgacgcccccca Alignment from Exonerate_coding2genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG cgtgtttgctgctactaactaacaggtaactcagacttttcatgttttagGGCCTCAGAGCAGGAGAAGACAGAGCAGCGCAATTCTGATAGAATTGTGGCAAGTGTTAGATATAGTGATCTAGAAAGTGTTACTTCCAAAGAGgtaaaaataaagcagggtagctgccaattgttcctatctgacgcccccca Alignment from GeneWise GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG cgtgtttgctgctactaactaacaggtaactcagacttttcatgttttagGGCCTCAGAGCAGGAGAAGACAGAGCAGCGCAATTCTGATAGAATTGTGGCAAGTGTTAGATATAGTGATCTAGAAAGTGTTACTTCCAAAGAGgtaaaaataaagcagggtagctgccaattgttcctatctgacgcccccca #### Ssh3_ID449_7 --> 1 - 2 Original Alignment gGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTT-GTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGAca tatctggttgatcatctagggccaaggtccccatttttaccctcccataggGCCACATTGCAAGTATTGCACCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTCGTGCCTGGTGGGAGTGCTCTAGCATGGGCTA-TTACTACCAGGTGAAGCTTAACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCTGACCTGGAATCATTTCGACCACCCAATGCTGAGCCCACAcagtaattggcaggacagggcaaagcagaaaaataatgtggagcgtgtttgc Alignment from CESAR gGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTT-GTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGAca tatctggttgatcatctagggccaaggtccccatttttaccctcccataggGCCACATTGCAAGTATTGCACCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTCGTGCCTGGTGGGAGTGCTCTAGCATGGGCT-ATTACTACCAGGTGAAGCTTAACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCTGACCTGGAATCATTTCGACCACCCAATGCTGAGCCCACAcagtaattggcaggacagggcaaagcagaaaaataatgtggagcgtgtttgc Alignment from Spaln_aa2Genome GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA tatctggttgatcatctagggccaaggtccccatttttaccctcccatagGGCCACATTGCAAGTATTGCACCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTCGTGCCTGGTGGGAGTGCTCTAGCATGGGCTATTACTACCAGGTGAAGCTTAACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCTGACCTGGAATCATTTCGACCACCCAATGCTGAGCCCACACAgtaattggcaggacagggcaaagcagaaaaataatgtggagcgtgtttgc Alignment from Spaln_nt2Genome GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTT-GTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA tatctggttgatcatctagggccaaggtccccatttttaccctcccatagGGCCACATTGCAAGTATTGCACCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTCGTGCCTGGTGGGAGTGCTCTAGCATGGGCTA-TTACTACCAGGTGAAGCTTAACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCTGACCTGGAATCATTTCGACCACCCAATGCTGAGCCCACACAgtaattggcaggacagggcaaagcagaaaaataatgtggagcgtgtttgc Alignment from Pairagon GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTT-GTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA tatctggttgatcatctagggccaaggtccccatttttaccctcccatagGGCCACATTGCAAGTATTGCACCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTCGTGCCTGGTGGGAGTGCTCTAGCATGGGCTA-TTACTACCAGGTGAAGCTTAACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCTGACCTGGAATCATTTCGACCACCCAATGCTGAGCCCACACAgtaattggcaggacagggcaaagcagaaaaataatgtggagcgtgtttgc Alignment from Exonerate_protein2genome GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA tatctggttgatcatctagggccaaggtccccatttttaccctcccatagGGCCACATTGCAAGTATTGCACCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTCGTGCCTGGTGGGAGTGCTCTAGCATGGGCTATTACTACCAGGTGAAGCTTAACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCTGACCTGGAATCATTTCGACCACCCAATGCTGAGCCCACACAgtaattggcaggacagggcaaagcagaaaaataatgtggagcgtgtttgc Alignment from Exonerate_coding2genome GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA tatctggttgatcatctagggccaaggtccccatttttaccctcccatagGGCCACATTGCAAGTATTGCACCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTCGTGCCTGGTGGGAGTGCTCTAGCATGGGCTATTACTACCAGGTGAAGCTTAACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCTGACCTGGAATCATTTCGACCACCCAATGCTGAGCCCACACAgtaattggcaggacagggcaaagcagaaaaataatgtggagcgtgtttgc Alignment from GeneWise GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA tatctggttgatcatctagggccaaggtccccatttttaccctcccatagGGCCACATTGCAAGTATTGCACCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTCGTGCCTGGTGGGAGTGCTCTAGCATGGGCTATTACTACCAGGTGAAGCTTAACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCTGACCTGGAATCATTTCGACCACCCAATGCTGAGCCCACACAgtaattggcaggacagggcaaagcagaaaaataatgtggagcgtgtttgc #### Ssh3_ID450_6 --> 1 - 2 Original Alignment gGGCTTCAGTGTG-ACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGtg gcccactgatcacctgctctcaaagtctttagggttgcctttctcctcagcAGCTTAAGTGTGCACGCCTGGTGGCAAAAGCCGAATCTTCAAGC-TCTCTCTATCCAGACTATGtggtaggcggtccaaacaataaggttcccaagcatacttggttgaccatcta Alignment from CESAR gGGCTTCAGTGTG-ACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGtg gcccactgatcacctgctctcaaagtctttagggttgcctttctcctcagcAGCTTAAGTGTGCACGCCTGGTGGCAAAAGCCGAATCTTCA-AGCTCTCTCTATCCAGACTATGtggtaggcggtccaaacaataaggttcccaagcatacttggttgaccatcta Alignment from Spaln_aa2Genome GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGTG gcccactgatcacctgctctcaaagtctttagggttgcctttctcctcagCAGCTTAAGTGTGCACGCCTGGTGGCAAAAGCCGAATCTTCAAGCTCTCTCTATCCAGACTATGTGgtaggcggtccaaacaataaggttcccaagcatacttggttgaccatcta Alignment from Spaln_nt2Genome GGGCTTCAGTGTG-ACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGTG gcccactgatcacctgctctcaaagtctttagggttgcctttctcctcagCAGCTTAAGTGTGCACGCCTGGTGGCAAAAGCCGAATCTTCAAG-CTCTCTCTATCCAGACTATGTGgtaggcggtccaaacaataaggttcccaagcatacttggttgaccatcta Alignment from Pairagon GGGCTTCAGTGTG-ACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGTG gcccactgatcacctgctctcaaagtctttagggttgcctttctcctcagCAGCTTAAGTGTGCACGCCTGGTGGCAAAAGCCGAATCTTCAAG-CTCTCTCTATCCAGACTATGTGgtaggcggtccaaacaataaggttcccaagcatacttggttgaccatcta Alignment from Exonerate_protein2genome GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGTG gcccactgatcacctgctctcaaagtctttagggttgcctttctcctcagCAGCTTAAGTGTGCACGCCTGGTGGCAAAAGCCGAATCTTCAAGCTCTCTCTATCCAGACTATGTGgtaggcggtccaaacaataaggttcccaagcatacttggttgaccatcta Alignment from Exonerate_coding2genome GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGTG gcccactgatcacctgctctcaaagtctttagggttgcctttctcctcagCAGCTTAAGTGTGCACGCCTGGTGGCAAAAGCCGAATCTTCAAGCTCTCTCTATCCAGACTATGTGgtaggcggtccaaacaataaggttcccaagcatacttggttgaccatcta Alignment from GeneWise gcccactgatcacctgctctcaaagtctttagggttgcctttctcctcagcagcttaagtgtgcacgcctggtggcaaaagccgaatcttcaagctctctctatccagactatgtggtaggcggtccaaacaataaggttcccaagcatacttggttgaccatcta #### Ssh3_ID451_5 --> 1 - 2 Original Alignment tTCCCAC---------AGCTGC-ACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATgg ccattgacattatggggaaggacaaatccctggcctttgcctctacacagtTGCCATAGCTGCACAAGTTGCCACGCTTGGACTTGTCGTGCCCCTCTGGA-TGATACTCATGTATACCTATACGGAGATgggtaagtgggtctccgtcggagaaacaagatagggctgagaaaagtaggcc Alignment from CESAR tTCCCACAGC---------TGC-ACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATgg ccattgacattatggggaaggacaaatccctggcctttgcctctacacagtTGCCATAGCTGCACAAGTTGCCACGCTTGGACTTGTCGTGCCCCTCTGG-ATGATACTCATGTATACCTATACGGAGATgggtaagtgggtctccgtcggagaaacaagatagggctgagaaaagtaggcc Alignment from Spaln_aa2Genome TTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGG ccattgacattatggggaaggacaaatccctggcctttgcctctacacagttgccatagCTGCACAAGTTGCCACGCTTGGACTTGTCGTGCCCCTCTGGATGATACTCATGTATACCTATACGGAGATGGgtaagtgggtctccgtcggagaaacaagatagggctgagaaaagtaggcc Alignment from Spaln_nt2Genome TTCCCACAGCTGCACC----------CTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGG ccattgacattatggggaaggacaaatccctggcctttgcctctacacagTTGCCATAGCTGCACAAGTTGCCACGCTTGGACTTGTCGTGCCCCTCTGGA-TGATACTCATGTATACCTATACGGAGATGGgtaagtgggtctccgtcggagaaacaagatagggctgagaaaagtaggcc Alignment from Pairagon TTCCCACAGCTG----------CACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGG ccattgacattatggggaaggacaaatccctggcctttgcctctacacagTTGCCATAGCTGCACAAGTTGCCACGCTTGGACTTGTCGTGCCCCTCTGGA-TGATACTCATGTATACCTATACGGAGATGGgtaagtgggtctccgtcggagaaacaagatagggctgagaaaagtaggcc Alignment from Exonerate_protein2genome TTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGG ccattgacattatggggaaggacaaatccctggcctttgcctctacacagttgccatagCTGCACAAGTTGCCACGCTTGGACTTGTCGTGCCCCTCTGGATGATACTCATGTATACCTATACGGAGATGGgtaagtgggtctccgtcggagaaacaagatagggctgagaaaagtaggcc Alignment from Exonerate_coding2genome ccattgacattatggggaaggacaaatccctggcctttgcctctacacagttgccatagctgcacaagttgccacgcttggacttgtcgtgcccctctggatgatactcatgtatacctatacggagatgggtaagtgggtctccgtcggagaaacaagatagggctgagaaaagtaggcc Alignment from GeneWise TTCCCACAGCTGCACC------------CTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGG ccattgacattatggggaaggacaaatccctggcctttgcctctacacagTTGCCATAGCTGCACAAGTTGCCACGCTTGGACTTGTCGTGCCCCTCTG---GATGATACTCATGTATACCTATACGGAGATGGgtaagtgggtctccgtcggagaaacaagatagggctgagaaaagtaggcc #### Stip1_ID1989_12 --> 2 - 0 Original Alignment tcAAGGGTTATACACGGAAAGCAGCTGCTCTGGAA-GCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG tgagagaagtgtagtgaagacaacttgaatcacatcccaccccttcccagacAAAGGTTATACCCGACAAGCAGCTGCTTTAGAACGCCATGAAGGACTATACAAAAGCAATGCAT------CAAAAGGCATTAGACCTGGACTCCTGTTGCAAGgtgtgttagtggtagcttgtatacagatgcgtgtttatgtaacctagggt Alignment from CESAR tcAAGGGTTATACACGGAAAGCAGCTGCTCTGGAA-GCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG tgagagaagtgtagtgaagacaacttgaatcacatcccaccccttcccagacAAAGGTTATACCCGACAAGCAGCTGCTTTAGAACGCCATGAAGGACTATACAAAAGCAATG------CATCAAAAGGCATTAGACCTGGACTCCTGTTGCAAGgtgtgttagtggtagcttgtatacagatgcgtgtttatgtaacctagggt Alignment from Spaln_aa2Genome TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAA-GCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG tgagagaagtgtagtgaagacaacttgaatcacatcccaccccttcccagACAAAGGTTATACCCGACAAGCAGCTGCTTTAGAAcGCCATGAAGGACTATACAAAAGCAATG------CATCAAAAGGCATTAGACCTGGACTCCTGTTGCAAGgtgtgttagtggtagcttgtatacagatgcgtgtttatgtaacctagggt Alignment from Spaln_nt2Genome TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAA-GCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG tgagagaagtgtagtgaagacaacttgaatcacatcccaccccttcccagACAAAGGTTATACCCGACAAGCAGCTGCTTTAGAACGCCATGAAGGACTATACAAAAGCAATGCAT------CAAAAGGCATTAGACCTGGACTCCTGTTGCAAGgtgtgttagtggtagcttgtatacagatgcgtgtttatgtaacctagggt Alignment from Pairagon TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAA-GCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG tgagagaagtgtagtgaagacaacttgaatcacatcccaccccttcccagACAAAGGTTATACCCGACAAGCAGCTGCTTTAGAACGCCATGAAGGACTATACAAAAGCAATGCAT------CAAAAGGCATTAGACCTGGACTCCTGTTGCAAGgtgtgttagtggtagcttgtatacagatgcgtgtttatgtaacctagggt Alignment from Exonerate_protein2genome TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAA-GCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG tgagagaagtgtagtgaagacaacttgaatcacatcccaccccttcccagACAAAGGTTATACCCGACAAGCAGCTGCTTTAGAACGCCATGAAGGACTATACAAAAGCAATG------CATCAAAAGGCATTAGACCTGGACTCCTGTTGCAAGgtgtgttagtggtagcttgtatacagatgcgtgtttatgtaacctagggt Alignment from Exonerate_coding2genome TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAA-GCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG tgagagaagtgtagtgaagacaacttgaatcacatcccaccccttcccagACAAAGGTTATACCCGACAAGCAGCTGCTTTAGAACGCCATGAAGGACTATACAAAAGCAATG------CATCAAAAGGCATTAGACCTGGACTCCTGTTGCAAGgtgtgttagtggtagcttgtatacagatgcgtgtttatgtaacctagggt Alignment from GeneWise TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAA-GCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG tgagagaagtgtagtgaagacaacttgaatcacatcccaccccttcccagACAAAGGTTATACCCGACAAGCAGCTGCTTTAGAACGCCATGAAGGACTATACAAAAGCAATG------CATCAAAAGGCATTAGACCTGGACTCCTGTTGCAAGgtgtgttagtggtagcttgtatacagatgcgtgtttatgtaacctagggt #### Stx3_ID3300_6 --> 0 - 1 Original Alignment CACTCCGTCCTCTCCCGGAAGTTTGTGGAGGTGATGACAAAGTACAATGAGGCT-CAGGTGGACTTCCGTGAACGCAGCAAAGGGCGCATCCAACGGCAGCTTGAAATTa gactacaacaatatggtttgataggtgatatcacacttcttctctcccagCAGTCTATCCTCTCACAGAAA---GTGGAGGTGATGACTAAGTACAATGATGCCCCAGGTAGATTTTCGAGAACGGAGCAAAGGCCGCATCCAAC-TCAACTTGAAATTagtaaggtttgagtaccagtggatattgtgccatgtagctggccaccctta Alignment from CESAR CACTCCGTCCTCTCCCGGAAGTTTGTGGAGGTGATGACAAAGTACAATGAGGCT-CAGGTGGACTTCCGTGAACGCAGCAAAGGGCGCATCCAACGGCAGCTTGAAATTa gactacaacaatatggtttgataggtgatatcacacttcttctctcccagCAGTCTATCCTCTCACAGAAA---GTGGAGGTGATGACTAAGTACAATGATGCCCCAGGTAGATTTTCGAGAACGGAGCAAAGGCCGCATCCAA-CTCAACTTGAAATTagtaaggtttgagtaccagtggatattgtgccatgtagctggccaccctta Alignment from Spaln_aa2Genome CACTCCGTCCTCTCCCGGAAGTTTGTGGAGGTGATGACAAAGTACAATGAGGCT-CAGGTGGACTTCCGTGAACGCAGCAAAGGGCGCATCCAACGGCAGCTTGAAATTA gactacaacaatatggtttgataggtgatatcacacttcttctctcccagCAGTCTATCCTCTCACAGAAA---GTGGAGGTGATGACTAAGTACAATGATGCCcCAGGTAGATTTTCGAGAACGGAGCAAAGGCCGCATCCAACT-CAACTTGAAATTAgtaaggtttgagtaccagtggatattgtgccatgtagctggccaccctta Alignment from Spaln_nt2Genome CACTCCGTCCTCTCCCGGAAGTTTGTGGAGGTGATGACAAAGTACAATGAGGCTC-AGGTGGACTTCCGTGAACGCAGCAAAGGGCGCATCCAACGGCAGCTTGAAATTA gactacaacaatatggtttgataggtgatatcacacttcttctctcccagCAGTCTATCCTCTCACAGAA---AGTGGAGGTGATGACTAAGTACAATGATGCCCCAGGTAGATTTTCGAGAACGGAGCAAAGGCCGCATCCAAC-TCAACTTGAAATTAgtaaggtttgagtaccagtggatattgtgccatgtagctggccaccctta Alignment from Pairagon CACTCCGTCCTCTCCCGGAAGTTTGTGGAGGTGATGACAAAGTACAATGA-GGCTCAGGTGGACTTCCGTGAACGCAGCAAAGGGCGCATCCAACGGCAGCTTGAAATTA gactacaacaatatggtttgataggtgatatcacacttcttctctcccagCAGTCTATCCTCTCACAGAAA---GTGGAGGTGATGACTAAGTACAATGATGCCCCAGGTAGATTTTCGAGAACGGAGCAAAGGCCGCATCCAAC-TCAACTTGAAATTAgtaaggtttgagtaccagtggatattgtgccatgtagctggccaccctta Alignment from Exonerate_protein2genome CACTCCGTCCTCTCCCGGAAGTTTGTGGAGGTGATGACAAAGTACAATGAGGCT-CAGGTGGACTTCCGTGAACGCAGCAAAGGGCGCATCCAACGGCAGCTTGAAATTA gactacaacaatatggtttgataggtgatatcacacttcttctctcccagCAGTCTATCCTCTCACAGAAA---GTGGAGGTGATGACTAAGTACAATGATGCCCCAGGTAGATTTTCGAGAACGGAGCAAAGGCCGCATCCAACTCAACTTGAAATTAGtaaggtttgagtaccagtggatattgtgccatgtagctggccaccctta Alignment from Exonerate_coding2genome CACTCCGTCCTCTCCCGGAAGTTTGTGGAGGTGATGACAAAGTACAATGAGGCT-CAGGTGGACTTCCGTGAACGCAGCAAAGGGCGCATCCAACGGCAGCTTGAAATTA gactacaacaatatggtttgataggtgatatcacacttcttctctcccagCAGTCTATCCTCTCACAGAAA---GTGGAGGTGATGACTAAGTACAATGATGCCCCAGGTAGATTTTCGAGAACGGAGCAAAGGCCGCATCCAACTCAACTTGAAATTAGtaaggtttgagtaccagtggatattgtgccatgtagctggccaccctta Alignment from GeneWise CACTCCGTCCTCTCCCGGAAGTTTGTGGAGGTGATGACAAAGTACAATGAGGCTCAGGTGGACTTCCGTGAACGCAGCAAAGGGCGCATCCAACGGCAGCTTGAAATTA gactacaacaatatggtttgataggtgatatcacacttcttctctcccagCAGTCTATCCTCTCACAGAAA---GTGGAGGTGATGACTAAGTACAATGATGCCCCAGGTAGATTTTCGAGAACGGAGCAAAGGCCGCATCCAACTCAACTTGAAATTAgtaaggtttgagtaccagtggatattgtgccatgtagctggccaccctta #### Stx5a_ID2330_2 --> 0 - 2 Original Alignment AATGGAATCCAA-ACAAGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCag ggggggctcaaagatgactgactatatcgatagtctttcatctcttgcagAATGGAATCCAACACAACCAAA---CCTCTTCATGCAGCCCGTC-GTGCAGTGAACTTACCCTTATGGCTaggtaagttgtaggtgtcttgatgggtggactttttgtaatatgtagagtca Alignment from CESAR AATGGAATCCAA-ACAAGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCag ggggggctcaaagatgactgactatatcgatagtctttcatctcttgcagAATGGAATCCAACACAACCAAACCT---CTTCATGCAGCCCGT-CGTGCAGTGAACTTACCCTTATGGCTaggtaagttgtaggtgtcttgatgggtggactttttgtaatatgtagagtca Alignment from Spaln_aa2Genome AATGGAATCCAAACAAGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCAG ggggggctcaaagatgactgactatatcgatagtctttcatctcttgcagAATGGAATCCAACACAACCAAACCTCTTCATGCAGCCCGTCG---TGCAGTGAACTTACCCTTATGGCTAGgtaagttgtaggtgtcttgatgggtggactttttgtaatatgtagagtca Alignment from Spaln_nt2Genome AATGGAATCCAA-ACAAGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCAG ggggggctcaaagatgactgactatatcgatagtctttcatctcttgcagAATGGAATCCAACACAACCAAAC---CTCTTCATGCAGCCCGTC-GTGCAGTGAACTTACCCTTATGGCTAGgtaagttgtaggtgtcttgatgggtggactttttgtaatatgtagagtca Alignment from Pairagon AATGGAATCCAA-ACAAGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCAG ggggggctcaaagatgactgactatatcgatagtctttcatctcttgcagAATGGAATCCAACACAACCAAAC---CTCTTCATGCAGCCCGTC-GTGCAGTGAACTTACCCTTATGGCTAGgtaagttgtaggtgtcttgatgggtggactttttgtaatatgtagagtca Alignment from Exonerate_protein2genome AATGGAATCCAAACAAGCAAACC ggggggctcaaagatgactgactatatcgatagtctttcatctcttgcagaatggaatccaacacaaccaaacctcttcatgcagcccgtcgtgcagtgaacttacccttatggctaggtaagttgtaggtgtcttgatgggtggACTTTTTGTAATATGTAGAGTCA Alignment from Exonerate_coding2genome AATGGAATCCAAACAAGCAAACC ggggggctcaaagatgactgactatatcgatagtctttcatctcttgcagaatggaatccaacacaaccaaacctcttcatgcagcccgtcgtgcagtgaacttacccttatggctaggtaagttgtaggtgtcttgatgggtggACTTTTTGTAATATGTAGAGTCA Alignment from GeneWise ---AA ggggggctcaaagatgactgactatatcgatagtctttcatctcttgcagaatggaatccaacacaaccaaacctcttcatgcagcccgtcgtgcagtgaacttacccttatggctaggtaagttgtaggtgtcttgatgggtggactttttgtaatatgtagAGTCA #### Stx5a_ID2335_7 --> 0 - 1 Original Alignment AATCTGAAACAGCAGAGG-AACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTg ccatgcacaaatgttcacagagccttgggttttcatttcctacctcccagAATTTAAAACAGCAGAGGCAATCGA---GCCCAGCTATCCAGGGCCC-AGTGTCTGCCTTTCCATTAGCACCCAACAACCTTggtaaggttgccttatttttgtatagggggtctgatctgacctgctttcaa Alignment from CESAR AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTg ccatgcacaaatgttcacagagccttgggttttcatttcctacctcccagAATTTAAAACAGCAGAGG--CAATCGAGCCCAGCTATCCAGGG-CCCAGTGTCTGCCTTTCCATTAGCACCCAACAACCTTggtaaggttgccttatttttgtatagggggtctgatctgacctgctttcaa Alignment from Spaln_aa2Genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTG ccatgcacaaatgttcacagagccttgggttttcatttcctacctcccagAATTTAAAACAGCAGAGG---CAATCGAGCCCAGCTATCCAGGGCCCAGTGTCTGCCTTTCCATTAGCACCCAACAACCTTGgtaaggttgccttatttttgtatagggggtctgatctgacctgctttcaa Alignment from Spaln_nt2Genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTG ccatgcacaaatgttcacagagccttgggttttcatttcctacctcccagAATTTAAAACAGCAGAGG--CAATCGAGCCCAGCTATCCAGGGC-CCAGTGTCTGCCTTTCCATTAGCACCCAACAACCTTGgtaaggttgccttatttttgtatagggggtctgatctgacctgctttcaa Alignment from Pairagon AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTG ccatgcacaaatgttcacagagccttgggttttcatttcctacctcccagAATTTAAAACAGCAGAGG--CAATCGAGCCCAGCTATCCAGGGC-CCAGTGTCTGCCTTTCCATTAGCACCCAACAACCTTGgtaaggttgccttatttttgtatagggggtctgatctgacctgctttcaa Alignment from Exonerate_protein2genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTG ccatgcacaaatgttcacagagccttgggttttcatttcctacctcccagAATTTAAAACAGCAGAGGCAATCGAGCCCAGCTATC---CAGGGCCCAGTGTCTGCCTTTCCATTAGCACCCAACAACCTTGgtaaggttgccttatttttgtatagggggtctgatctgacctgctttcaa Alignment from Exonerate_coding2genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTG ccatgcacaaatgttcacagagccttgggttttcatttcctacctcccagAATTTAAAACAGCAGAGGCAATCGAGCCCAGCTATC---CAGGGCCCAGTGTCTGCCTTTCCATTAGCACCCAACAACCTTGgtaaggttgccttatttttgtatagggggtctgatctgacctgctttcaa Alignment from GeneWise AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTG ccatgcacaaatgttcacagagccttgggttttcatttcctacctcccagAATTTAAAACAGCAGAGGCAATCGAGCCCAGCTATC---CAGGGCCCAGTGTCTGCCTTTCCATTAGCACCCAACAACCTTGgtaaggttgccttatttttgtatagggggtctgatctgacctgctttcaa #### Suv420h1_ID146_8 --> 0 - 2 Original Alignment TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATT-TCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAag tatttggcctgcttaaagtcaatggttacctgttgttttaccttgtttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATA-TGAGTTCTGTGAGTGTTATACTTGTGAAaggtgagtacctaagccctatacctaacttccatggaggagtatttattgtg Alignment from CESAR TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATT-TCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAag tatttggcctgcttaaagtcaatggttacctgttgttttaccttgtttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAAT-ATGAGTTCTGTGAGTGTTATACTTGTGAAaggtgagtacctaagccctatacctaacttccatggaggagtatttattgtg Alignment from Spaln_aa2Genome TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAG tatttggcctgcttaaagtcaatggttacctgttgttttaccttgtttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATATGAGTTCTGTGAGTGTTATACTTGTGAAAGgtgagtacctaagccctatacctaacttccatggaggagtatttattgtg Alignment from Spaln_nt2Genome TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATT-TCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAG tatttggcctgcttaaagtcaatggttacctgttgttttaccttgtttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATA-TGAGTTCTGTGAGTGTTATACTTGTGAAAGgtgagtacctaagccctatacctaacttccatggaggagtatttattgtg Alignment from Pairagon TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAAT-TTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAG tatttggcctgcttaaagtcaatggttacctgttgttttaccttgtttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAAT-ATGAGTTCTGTGAGTGTTATACTTGTGAAAGgtgagtacctaagccctatacctaacttccatggaggagtatttattgtg Alignment from Exonerate_protein2genome TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATT-TCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAAT--AATGAGTTCTGCGAATGTTATACTTGTGAAAG tatttggcctgcttaaagtcaatggttacctgttgttttaccttgtttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAT---GAGTTCTGTGAGTGTTATACTTGTGAAAGgtgagtacctaagccctatacctaacttccatggaggagtatttattgtg Alignment from Exonerate_coding2genome GTAAGTTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATT-TCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAAT--AATGAGTTCTGCGAATGTTATACTTGTGAAAG tatttggcctgcttaaagtcaatggttacctgttgttttaccttgTTTAGTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAT---GAGTTCTGTGAGTGTTATACTTGTGAAAGgtgagtacctaagccctatacctaacttccatggaggagtatttattgtg Alignment from GeneWise TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATT-TCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAG tatttggcctgcttaaagtcaatggttacctgttgttttaccttgtttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAT-GAGTTCTGTGAGTGTTATACTTGTGAAAGgtgagtacctaagccctatacctaacttccatggaggagtatttattgtg #### Syvn1_ID1383_2 --> 0 - 0 Original Alignment GTCCTGTACATCCAGGCCTTTGTCCTTGTC-TTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG agacagaaattggcagtacccttaaacgtaaagtttttttccctttgcagGTCCTGTACATACAGGCCTTTGTTCTTGTCCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCT-TGGGCAGCTGAGGGCACCAGAGATGGAAgtaagaaaggtccagcagttagggcaaggcttcttaattgcaatgctggc Alignment from CESAR GTCCTGTACATCCAGGCCTTTGTCCTTGTC-TTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG agacagaaattggcagtacccttaaacgtaaagtttttttccctttgcagGTCCTGTACATACAGGCCTTTGTTCTTGTCCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTC-TTGGGCAGCTGAGGGCACCAGAGATGGAAgtaagaaaggtccagcagttagggcaaggcttcttaattgcaatgctggc Alignment from Spaln_aa2Genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG agacagaaattggcagtacccttaaacgtaaagtttttttccctttgcagGTCCTGTACATACAGGCCTTTGTTCTTGTCCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTGGGCAGCTGAGGGCACCAGAGATGGAAgtaagaaaggtccagcagttagggcaaggcttcttaattgcaatgctggc Alignment from Spaln_nt2Genome GTCCTGTACATCCAGGCCTTTGTCCTTGTC-TTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG agacagaaattggcagtacccttaaacgtaaagtttttttccctttgcagGTCCTGTACATACAGGCCTTTGTTCTTGTCCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTGGG-CAGCTGAGGGCACCAGAGATGGAAgtaagaaaggtccagcagttagggcaaggcttcttaattgcaatgctggc Alignment from Pairagon GTCCTGTACATCCAGGCCTTTGTCCTTGT-CTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG agacagaaattggcagtacccttaaacgtaaagtttttttccctttgcagGTCCTGTACATACAGGCCTTTGTTCTTGTCCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTT-GGGCAGCTGAGGGCACCAGAGATGGAAgtaagaaaggtccagcagttagggcaaggcttcttaattgcaatgctggc Alignment from Exonerate_protein2genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG agacagaaattggcagtacccttaaacgtaaagtttttttccctttgcagGTCCTGTACATACAGGCCTTTGTTCTTGTCCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTGGGCAGCTGAGGGCACCAGAGATGGAAgtaagaaaggtccagcagttagggcaaggcttcttaattgcaatgctggc Alignment from Exonerate_coding2genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG agacagaaattggcagtacccttaaacgtaaagtttttttccctttgcagGTCCTGTACATACAGGCCTTTGTTCTTGTCCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTGGGCAGCTGAGGGCACCAGAGATGGAAgtaagaaaggtccagcagttagggcaaggcttcttaattgcaatgctggc Alignment from GeneWise GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG agacagaaattggcagtacccttaaacgtaaagtttttttccctttgcagGTCCTGTACATACAGGCCTTTGTTCTTGTCCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTGGGCAGCTGAGGGCACCAGAGATGGAAgtaagaaaggtccagcagttagggcaaggcttcttaattgcaatgctggc #### Syvn1_ID1384_3 --> 0 - 0 Original Alignment CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTC-AGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT attgcaatgctggctgtttcatagcttccttgtcactctgttctccacagCACCTCCTGGAACGGTCTTGGTATGCTGTCACAGAAATCTGTTTGACCTTTACAGTTATTGGCGATGACTCACAGTCCCCAATTTGTGGCACTCTTCATGCTTCTTCTCT-CCTCAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTGGATTTTgtaagattaaatctcctgatgaatatgcaggtgtctctcaatggttctct Alignment from CESAR CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGAC-TTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT attgcaatgctggctgtttcatagcttccttgtcactctgttctccacagCACCTCCTGGAACGGTCTTGGTATGCTGTCACAGAAATCTGTTTGACCTTTACAGTTATTGGCGATGACTCACAGTCCCCAATTTGTGGCACTCTTCATGCTTCTTC-TCTCCTCAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTGGATTTTgtaagattaaatctcctgatgaatatgcaggtgtctctaactgtgtccct Alignment from Spaln_aa2Genome CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT attgcaatgctggctgtttcatagcttccttgtcactctgttctccacagCACCTCCTGGAACGGTCTTGGTATGCTGTCACAGAAATCTGTTTGACCTTTACAGTTATTGGCGATGACTCACAGTCCCCAATTTGTGGCACTCTTCATGCTTCTTCTCTCCTCAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTGGATTTTgtaagattaaatctcctgatgaatatgcaggtgtctctcaatggttctct Alignment from Spaln_nt2Genome CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTT-CAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT attgcaatgctggctgtttcatagcttccttgtcactctgttctccacagCACCTCCTGGAACGGTCTTGGTATGCTGTCACAGAAATCTGTTTGACCTTTACAGTTATTGGCGATGACTCACAGTCCCCAATTTGTGGCACTCTTCATGCTTCTTCTC-TCCTCAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTGGATTTTgtaagattaaatctcctgatgaatatgcaggtgtctctcaatggttctct Alignment from Pairagon CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTT-CAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT attgcaatgctggctgtttcatagcttccttgtcactctgttctccacagCACCTCCTGGAACGGTCTTGGTATGCTGTCACAGAAATCTGTTTGACCTTTACAGTTATTGGCGATGACTCACAGTCCCCAATTTGTGGCACTCTTCATGCTTCTTCTC-TCCTCAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTGGATTTTgtaagattaaatctcctgatgaatatgcaggtgtctctcaatggttctct Alignment from Exonerate_protein2genome CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT attgcaatgctggctgtttcatagcttccttgtcactctgttctccacagCACCTCCTGGAACGGTCTTGGTATGCTGTCACAGAAATCTGTTTGACCTTTACAGTTATTGGCGATGACTCACAGTCCCCAATTTGTGGCACTCTTCATGCTTCTTCTCTCCTCAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTGGATTTTgtaagattaaatctcctgatgaatatgcaggtgtctctcaatggttctct Alignment from Exonerate_coding2genome attgcaatgctggctgtttcatagcttccttgtcactctgttctccacagcacctcctggaacggtcttggtatgctgtcacagaaatctgtttgacctttacagttattggcgatgactcacagtccccaatttgtggcactcttcatgcttcttctctcctcaagtgcttccagtggttagctgcagatcatgtggattttgtaagattaaatctcctgatgaatatgcaggtgtctctcaatggttctct Alignment from GeneWise CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT attgcaatgctggctgtttcatagcttccttgtcactctgttctccacagCACCTCCTGGAACGGTCTTGGTATGCTGTCACAGAAATCTGTTTGACCTTTACAGTTATTGGCGATGACTCACAGTCCCCAATTTGTGGCACTCTTCATGCTTCTTCTCTCCTCAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTGGATTTTgtaagattaaatctcctgatgaatatgcaggtgtctctcaatggttctct #### Syvn1_ID1386_5 --> 2 - 0 Original Alignment ctCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGC-CACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tgtcaaacataggtcaatagaagccttgatacttctctactgtgttgcagctCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCCATGCTTATCACAGGGTCCTGACTCGTGGCGCTTCAGTGCAGT-GGTATTTGGCTTTGTAgtatgcccaagcgatgaggtaacaacccagctgttctttttgcccctcta Alignment from CESAR ctCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGC-CACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tgtcaaacataggtcaatagaagccttgatacttctctactgtgttgcagctCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCCATGCTTATCACAGGGTCCTGACTCGTGGCGCTTCAGTGC-AGTGGTATTTGGCTTTGTAgtatgcccaagcgatgaggtaacaacccagctgttctttttgcccctcta Alignment from Spaln_aa2Genome CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGC-CACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCA tgtcaaacataggtcaatagaagccttgatacttctctactgtgttgcagCTCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCcCATGCTTATCACAGGGTCCTGACTCGTGGCGCTTCAGTGCAgtggtatttggctttgtagtatgcccaagcgatgaggtaacaacccagctgttctttttgcccctcta Alignment from Spaln_nt2Genome CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAG-CCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tgtcaaacataggtcaatagaagccttgatacttctctactgtgttgcagCTCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCCATGCTTATCACAGGGTCCTGACTCGTGGCGCTTCAGTGCAG-TGGTATTTGGCTTTGTAgtatgcccaagcgatgaggtaacaacccagctgttctttttgcccctcta Alignment from Pairagon CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAG-CCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tgtcaaacataggtcaatagaagccttgatacttctctactgtgttgcagCTCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCCATGCTTATCACAGGGTCCTGACTCGTGGCGCTTCAGTGCAG-TGGTATTTGGCTTTGTAgtatgcccaagcgatgaggtaacaacccagctgttctttttgcccctcta Alignment from Exonerate_protein2genome CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGC-CACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCT tgtcaaacataggtcaatagaagccttgatacttctctactgtgttgcagCTCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCCATGCTTATCACAGGGTCCTGACTCGTGGCGCTTCAGTGCAGTGgtatttggctttgtagtatgcccaagcgatgaggtaacaacccagctgttctttttgcccctcta Alignment from Exonerate_coding2genome CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGC-CACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCT tgtcaaacataggtcaatagaagccttgatacttctctactgtgttgcagCTCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCCATGCTTATCACAGGGTCCTGACTCGTGGCGCTTCAGTGCAGTGgtatttggctttgtagtatgcccaagcgatgaggtaacaacccagctgttctttttgcccctcta Alignment from GeneWise CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTC-AGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAG-- tgtcaaacataggtcaatagaagccttgatacttctctactgtgttgcagCTCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCCATGCTTATCACAGGGTCCTGACTCGTGGCGCTTCAGTGCAGTGgtatttggctttgtagtatgcccaagcgatgaggtaacaacccagctgttctttttgcccctcta #### Syvn1_ID1387_6 --> 0 - 1 Original Alignment TACGCCATTCTG-ATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACGGAGCTGTTTACAg gcactcttggtatattatggttcagatcaacttgacaatgtcgtattcagTATGCCATTCTGCATGACCATGGCACTCACTATTTTCATCAAGTATGTGCTGC-TTCTGTTGACCTCCAGAGTAAAAATCCCTGGGATAATAAGGCTGTATACATGCTCTACACAGAGCTATTTACAggtaacaattcccagtcaatctagaggtgcttcacggttaatctgcaggtg Alignment from CESAR TACGCCATTCTG-ATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACGGAGCTGTTTACAg gcactcttggtatattatggttcagatcaacttgacaatgtcgtattcagTATGCCATTCTGCATGACCATGGCACTCACTATTTTCATCAAGTATGTGCTG-CTTCTGTTGACCTCCAGAGTAAAAATCCCTGGGATAATAAGGCTGTATACATGCTCTACACAGAGCTATTTACAggtaacaattcccagtcaatctagaggtgcttcacggttaatctgcaggtg Alignment from Spaln_aa2Genome TACGCCATTCTG-ATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACGGAGCTGTTTACAG gcactcttggtatattatggttcagatcaacttgacaatgtcgtattcagTATGCCATTCTGcATGACCATGGCACTCACTATTTTCATCAAGTATGTGCTGCT-TCTGTTGACCTCCAGAGTAAAAATCCCTGGGATAATAAGGCTGTATACATGCTCTACACAGAGCTATTTACAGgtaacaattcccagtcaatctagaggtgcttcacggttaatctgcaggtg Alignment from Spaln_nt2Genome TACGCCATTCTG-ATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACGGAGCTGTTTACAG gcactcttggtatattatggttcagatcaacttgacaatgtcgtattcagTATGCCATTCTGCATGACCATGGCACTCACTATTTTCATCAAGTATGTGCTGC-TTCTGTTGACCTCCAGAGTAAAAATCCCTGGGATAATAAGGCTGTATACATGCTCTACACAGAGCTATTTACAGgtaacaattcccagtcaatctagaggtgcttcacggttaatctgcaggtg Alignment from Pairagon TACGCCATTCTG-ATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACGGAGCTGTTTACAG gcactcttggtatattatggttcagatcaacttgacaatgtcgtattcagTATGCCATTCTGCATGACCATGGCACTCACTATTTTCATCAAGTATGTGCTGC-TTCTGTTGACCTCCAGAGTAAAAATCCCTGGGATAATAAGGCTGTATACATGCTCTACACAGAGCTATTTACAGgtaacaattcccagtcaatctagaggtgcttcacggttaatctgcaggtg Alignment from Exonerate_protein2genome TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACGGAGCTGTTTACAG gcactcttggtatattatggttcagatcaacttgacaatgtcgtattcagTATGCCATTCTGCATGACCATGGCACTCACTATTTTCATCAAGTATGTGCTGCTTCTGTTGACCTCCAGAGTAAAAATCCCTGGGATAATAAGGCTGTATACATGCTCTACACAGAGCTATTTACAGgtaacaattcccagtcaatctagaggtgcttcacggttaatctgcaggtg Alignment from Exonerate_coding2genome TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACGGAGCTGTTTACAG gcactcttggtatattatggttcagatcaacttgacaatgtcgtattcagTATGCCATTCTGCATGACCATGGCACTCACTATTTTCATCAAGTATGTGCTGCTTCTGTTGACCTCCAGAGTAAAAATCCCTGGGATAATAAGGCTGTATACATGCTCTACACAGAGCTATTTACAGgtaacaattcccagtcaatctagaggtgcttcacggttaatctgcaggtg Alignment from GeneWise TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACGGAGCTGTTTACAG gcactcttggtatattatggttcagatcaacttgacaatgtcgtattcagTATGCCATTCTGCATGACCATGGCACTCACTATTTTCATCAAGTATGTGCTGCTTCTGTTGACCTCCAGAGTAAAAATCCCTGGGATAATAAGGCTGTATACATGCTCTACACAGAGCTATTTACAGgtaacaattcccagtcaatctagaggtgcttcacggttaatctgcaggtg #### Syvn1_ID1388_7 --> 2 - 2 Original Alignment gcTTCATCAAGGTCCTGCTGTACATGGCCTTC-ATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGag ggtgcatcttccaaccttgcacttggggaaatgccacctctgttttctaggcTTCATCAAGGTGCTGCTGTATATGGCCTTCCATGACCATCATGATCAAGGTGCACACTTTTCCACTGT-TGCCATTAAGCCCATGTACCTGGCCATGaggtcagttaggcctcacatttgttagtttgtcactttgatttttgtcttcc Alignment from CESAR gcTTCATCAAGGTCCTGCTGTACATGGCCTTC-ATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGag ggtgcatcttccaaccttgcacttggggaaatgccacctctgttttctaggcTTCATCAAGGTGCTGCTGTATATGGCCTTCCATGACCATCATGATCAAGGTGCACACTTTTCCACTG-TTGCCATTAAGCCCATGTACCTGGCCATGaggtcagttaggcctcacatttgttagtttgtcactttgatttttgtcttcc Alignment from Spaln_aa2Genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ggtgcatcttccaaccttgcacttggggaaatgccacctctgttttctagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCCATGACCATCATGATCAAGGTGCACACTTTTCCACTGTTGCCATTAAGCCCATGTACCTGGCCATGAGgtcagttaggcctcacatttgttagtttgtcactttgatttttgtcttcc Alignment from Spaln_nt2Genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTC-ATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ggtgcatcttccaaccttgcacttggggaaatgccacctctgttttctagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCCATGACCATCATGATCAAGGTGCACACTTTTCCACT-GTTGCCATTAAGCCCATGTACCTGGCCATGAGgtcagttaggcctcacatttgttagtttgtcactttgatttttgtcttcc Alignment from Pairagon GCTTCATCAAGGTCCTGCTGTACATGGCCTT-CATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ggtgcatcttccaaccttgcacttggggaaatgccacctctgttttctagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCCATGACCATCATGATCAAGGTGCACACTTTTCCACTG-TTGCCATTAAGCCCATGTACCTGGCCATGAGgtcagttaggcctcacatttgttagtttgtcactttgatttttgtcttcc Alignment from Exonerate_protein2genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTC-ATGACCATCATGATCAAGGTGCACACATTCCCACTC--TTTGCCATTAGGCCCATGTACCTGGCCATGAG ggtgcatcttccaaccttgcacttggggaaatgccacctctgttttctagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCCATGACCATCATGATCAAGGTGCACACTTTTCCACTGTT---GCCATTAAGCCCATGTACCTGGCCATGAGgtcagttaggcctcacatttgttagtttgtcactttgatttttgtcttcc Alignment from Exonerate_coding2genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTC-ATGACCATCATGATCAAGGTGCACACATTCCCACTC--TTTGCCATTAGGCCCATGTACCTGGCCATGAG ggtgcatcttccaaccttgcacttggggaaatgccacctctgttttctagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCCATGACCATCATGATCAAGGTGCACACTTTTCCACTGTT---GCCATTAAGCCCATGTACCTGGCCATGAGgtcagttaggcctcacatttgttagtttgtcactttgatttttgtcttcc Alignment from GeneWise GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ggtgcatcttccaaccttgcacttggggaaatgccacctctgttttctagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCCATGACCATCATGATCAAGGTGCACACTTTTCCACTGTTGCCATTAAGCCCATGTACCTGGCCATGAGgtcagttaggcctcacatttgttagtttgtcactttgatttttgtcttcc #### Syvn1_ID1391_10 --> 1 - 1 Original Alignment cTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGG-GCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATt ggggatagtctaacaataacctactgacctgttttctatttacttcatagcTGCTTGCACTCCTGGTTCCATAGACAGCAGACCTGTCTGACATGTCATATGGATGTTTTGCGGCGCATCACTGCCAGCCCAGCTGCCACCTCCTTCCGAGC-TGCTGAGCAAGGACCCCCCCCAGCGCCTCAGCCCCAACCACTCCTGCCA---CCGCCGAATagtgagtgatgtctcatagtatagggccaatggacaagaaacttttggcta Alignment from CESAR cTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGG-GCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATt ggggatagtctaacaataacctactgacctgttttctatttacttcatagcTGCTTGCACTCCTGGTTCCATAGACAGCAGACCTGTCTGACATGTCATATGGATGTTTTGCGGCGCATCACTGCCAGCCCAGCTGCCACCTCCTTCCG-AGCTGCTGAGCAAGGACCCCCCCCAGCGCCTCAGCCCCAACCACTCCTGCCA---CCGCCGAATagtgagtgatgtctcatagtatagggccaatggacaagaaacttttggcta Alignment from Spaln_aa2Genome CTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATT ggggatagtctaacaataacctactgacctgttttctatttacttcatagCTGCTTGCACTCCTGGTTCCATAGACAGCAGACCTGTCTGACATGTCATATGGATGTTTTGCGGCGCATCACTGCCAGCCCAGCTGCCACCTCCTTCCGAGCTGCTGAGCAAGGACCCCCCCCAGCGCCTCAGCCCCAACCACTCCTGCCA---CCGCCGAATAgtgagtgatgtctcatagtatagggccaatggacaagaaacttttggcta Alignment from Spaln_nt2Genome CTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGG-GCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTA ggggatagtctaacaataacctactgacctgttttctatttacttcatagCTGCTTGCACTCCTGGTTCCATAGACAGCAGACCTGTCTGACATGTCATATGGATGTTTTGCGGCGCATCACTGCCAGCCCAGCTGCCACCTCCTTCCGAG-CTGCTGAGCAAGGACCCCCCCCAGCGCCTCAGCCCCAACCACTCCTGCCACCGCCGAATAgtgagtgatgtctcatagtatagggccaatggacaagaaacttttggcta Alignment from Pairagon CTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGG-GCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATT ggggatagtctaacaataacctactgacctgttttctatttacttcatagCTGCTTGCACTCCTGGTTCCATAGACAGCAGACCTGTCTGACATGTCATATGGATGTTTTGCGGCGCATCACTGCCAGCCCAGCTGCCACCTCCTTCCGAG-CTGCTGAGCAAGGACCCCCCCCAGCGCCTCAGCCCCAACCACTCCTGCCACCGCCG---AATAgtgagtgatgtctcatagtatagggccaatggacaagaaacttttggcta Alignment from Exonerate_protein2genome CTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATT ggggatagtctaacaataacctactgacctgttttctatttacttcatagCTGCTTGCACTCCTGGTTCCATAGACAGCAGACCTGTCTGACATGTCATATGGATGTTTTGCGGCGCATCACTGCCAGCCCAGCTGCCACCTCCTTCCGAGCTGCTGAGCAAGGACCCCCCCCAGCGCCTCAGCCCCAACCACTCCTGCCA---CCGCCGAATAgtgagtgatgtctcatagtatagggccaatggacaagaaacttttggcta Alignment from Exonerate_coding2genome CTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATT ggggatagtctaacaataacctactgacctgttttctatttacttcatagCTGCTTGCACTCCTGGTTCCATAGACAGCAGACCTGTCTGACATGTCATATGGATGTTTTGCGGCGCATCACTGCCAGCCCAGCTGCCACCTCCTTCCGAGCTGCTGAGCAAGGACCCCCCCCAGCGCCTCAGCCCCAACCACTCCTGCCA---CCGCCGAATAgtgagtgatgtctcatagtatagggccaatggacaagaaacttttggcta Alignment from GeneWise CTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATT ggggatagtctaacaataacctactgacctgttttctatttacttcatagCTGCTTGCACTCCTGGTTCCATAGACAGCAGACCTGTCTGACATGTCATATGGATGTTTTGCGGCGCATCACTGCCAGCCCAGCTGCCACCTCCTTCCGAGCTGCTGAGCAAGGACCCCCCCCAGCGCCTCAGCCCCAACCACTCCTGCCA---CCGCCGAATAgtgagtgatgtctcatagtatagggccaatggacaagaaacttttggcta #### Syvn1_ID1392_11 --> 2 - 1 Original Alignment tcCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCT-GTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAg ggttgtactgacagctgtgccttgtcctctgctttcttgttcctccgtagtcCCCCAGGGCCTCCTGTCATCTTTTCCTCCAGGCATGTTCCTGCTATGGCCCCCAATGGGTCCCTTTCCACCTCGTCCCACCTCCCCCGAGCTCTGGAAAGGCTGCTG-TGCTCCACCCACAAGTACCggtatgtgtgtgtaagccagagtgattttgagagcactggacaggcacgga Alignment from CESAR tcCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCT-GTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAg ggttgtactgacagctgtgccttgtcctctgctttcttgttcctccgtagtcCCCCAGGGCCTCCTGTCATCTTTTCCTCCAGGCATGTTCCTGCTATGGCCCCCAATGGGTCCCTTTCCACCTCGTCCCACCTCCCCCGAGCTCTGGAAAGGCTGCT-GTGCTCCACCCACAAGTACCggtatgtgtgtgtaagccagagtgattttgagagcactggacaggcacgga Alignment from Spaln_aa2Genome TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCG-CCTCCCCCAAGCTCAGGAGAGGCTGCGGCC---CCTCCACCCACCAGTACAG ggttgtactgacagctgtgccttgtcctctgctttcttgttcctccgtagTCCCCCAGGGCCTCCTGTCATCTTTTCCTCCAGGCATGTTCCTGCTATGGCCCCCAATGGGTCCCTTTCCACCTCGTCCCaCCTCCCCCGAGCTCTGGAAAGGCTGCTGTGCTCCACCCACAAGTACCGGTATgtgtgtgtaagccagagtgattttgagagcactggacaggcacgga Alignment from Spaln_nt2Genome TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCT-GTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG ggttgtactgacagctgtgccttgtcctctgctttcttgttcctccgtagTCCCCCAGGGCCTCCTGTCATCTTTTCCTCCAGGCATGTTCCTGCTATGGCCCCCAATGGGTCCCTTTCCACCTCGTCCCACCTCCCCCGAGCTCTGGAAAGGCTGCTG-TGCTCCACCCACAAGTACCGgtatgtgtgtgtaagccagagtgattttgagagcactggacaggcacgga Alignment from Pairagon TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCT-GTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG ggttgtactgacagctgtgccttgtcctctgctttcttgttcctccgtagTCCCCCAGGGCCTCCTGTCATCTTTTCCTCCAGGCATGTTCCTGCTATGGCCCCCAATGGGTCCCTTTCCACCTCGTCCCACCTCCCCCGAGCTCTGGAAAGGCTGCTG-TGCTCCACCCACAAGTACCGgtatgtgtgtgtaagccagagtgattttgagagcactggacaggcacgga Alignment from Exonerate_protein2genome TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG ggttgtactgacagctgtgccttgtcctctgctttcttgttcctccgtagTCCCCCAGGGCCTCCTGTCATCTTTTCCTCCAGGCATGTTCCTGCTATGGCCCCCAATGGGTCCCTTTCCACCTCGTCCCACCTCCCCCGAGCTCTGGAAAGGCTGCTGTGCTCCACCCACAAGTACCGgtatgtgtgtgtaagccagagtgattttgagagcactggacaggcacgga Alignment from Exonerate_coding2genome TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG ggttgtactgacagctgtgccttgtcctctgctttcttgttcctccgtagTCCCCCAGGGCCTCCTGTCATCTTTTCCTCCAGGCATGTTCCTGCTATGGCCCCCAATGGGTCCCTTTCCACCTCGTCCCACCTCCCCCGAGCTCTGGAAAGGCTGCTGTGCTCCACCCACAAGTACCGgtatgtgtgtgtaagccagagtgattttgagagcactggacaggcacgga Alignment from GeneWise TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG ggttgtactgacagctgtgccttgtcctctgctttcttgttcctccgtagTCCCCCAGGGCCTCCTGTCATCTTTTCCTCCAGGCATGTTCCTGCTATGGCCCCCAATGGGTCCCTTTCCACCTCGTCCCACCTCCCCCGAGCTCTGGAAAGGCTGCTGTGCTCCACCCACAAGTACCGgtatgtgtgtgtaagccagagtgattttgagagcactggacaggcacgga #### Syvn1_ID1393_12 --> 2 - 1 Original Alignment ccGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCC-GGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTg gaaattgactcacttccaatttaccttgcagagaaccttctgaattccagctGTCTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCTGGCCCCCGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTC-ACCTCCACCATTTggtaagctgcctgtcaccctactctctttggaatgatgcccaatactaaac Alignment from CESAR ccGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCT-GCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTg gaaattgactcacttccaatttaccttgcagagaaccttctgaattccagctGTCTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCTGGCCCCCGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCT-CACCTCCACCATTTggtaagctgcctgtcaccctactctctttggaatgatgcccaatactaaac Alignment from Spaln_aa2Genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCT-CCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG gaaattgactcacttccaatttaccttgcagagaaccttctgaattccagCTGTCTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCTGGCCCCCGATTCCCCTTTCCCCCCtCCCTGGATGGGGATGCCTCA-CCTCCACCATTTGgtaagctgcctgtcaccctactctctttggaatgatgcccaatactaaac Alignment from Spaln_nt2Genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCC-TTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG gaaattgactcacttccaatttaccttgcagagaaccttctgaattccagCTGTCTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCTGGCCCCCGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTC-ACCTCCACCATTTGgtaagctgcctgtcaccctactctctttggaatgatgcccaatactaaac Alignment from Pairagon CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCT-GCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG gaaattgactcacttccaatttaccttgcagagaaccttctgaattccagCTGTCTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCTGGCCCCCGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTC-ACCTCCACCATTTGgtaagctgcctgtcaccctactctctttggaatgatgcccaatactaaac Alignment from Exonerate_protein2genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG gaaattgactcacttccaatttaccttgcagagaaccttctgaattccagCTGTCTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCTGGCCCCCGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCACCTCCACCATTTGgtaagctgcctgtcaccctactctctttggaatgatgcccaatactaaac Alignment from Exonerate_coding2genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG gaaattgactcacttccaatttaccttgcagagaaccttctgaattccagCTGTCTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCTGGCCCCCGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCACCTCCACCATTTGgtaagctgcctgtcaccctactctctttggaatgatgcccaatactaaac Alignment from GeneWise CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG gaaattgactcacttccaatttaccttgcagagaaccttctgaattccagCTGTCTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCTGGCCCCCGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCACCTCCACCATTTGgtaagctgcctgtcaccctactctctttggaatgatgcccaatactaaac #### Syvn1_ID1394_13 --> 2 - 2 Original Alignment ccTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAAC-ATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGgg ccaatactaaactggtagctaggcctgagtctttcctgcttcatttccagccTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACACCAGAGGAGTTGTGTGCTCTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTTTGCAGAGTCTGTGCAACCATACACACACTACTGGATGCTGCGATGCTTCAAATCA-CCAATACCTCACTGTGCTGGCCTCCCTGgggtgagtatgcatgttcagctgcacacttccctgtagacagaccacctatt Alignment from CESAR ccTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAAC-ATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGgg ccaatactaaactggtagctaggcctgagtctttcctgcttcatttccagccTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACACCAGAGGAGTTGTGTGCTCTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTTTGCAGAGTCTGTGCAACCATACACACACTACTGGATGCTGCGATGCTTCAAA-TCACCAATACCTCACTGTGCTGGCCTCCCTGgggtgagtatgcatgttcagctgcacacttccctgtagacagaccacctatt Alignment from Spaln_aa2Genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG ccaatactaaactggtagctaggcctgagtctttcctgcttcatttccagCCTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACACCAGAGGAGTTGTGTGCTCTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTTTGCAGAGTCTGTGCAACCATACACACACTACTGGATGCTGCGATGCTTCAAATCACCAATACCTCACTGTGCTGGCCTCCCTGGGgtgagtatgcatgttcagctgcacacttccctgtagacagaccacctatt Alignment from Spaln_nt2Genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAAC-ATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG ccaatactaaactggtagctaggcctgagtctttcctgcttcatttccagCCTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACACCAGAGGAGTTGTGTGCTCTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTTTGCAGAGTCTGTGCAACCATACACACACTACTGGATGCTGCGATGCTTCAAATCA-CCAATACCTCACTGTGCTGGCCTCCCTGGGgtgagtatgcatgttcagctgcacacttccctgtagacagaccacctatt Alignment from Pairagon CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAA-CATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG ccaatactaaactggtagctaggcctgagtctttcctgcttcatttccagCCTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACACCAGAGGAGTTGTGTGCTCTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTTTGCAGAGTCTGTGCAACCATACACACACTACTGGATGCTGCGATGCTTCAAATC-ACCAATACCTCACTGTGCTGGCCTCCCTGGGgtgagtatgcatgttcagctgcacacttccctgtagacagaccacctatt Alignment from Exonerate_protein2genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG ccaatactaaactggtagctaggcctgagtctttcctgcttcatttccagCCTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACACCAGAGGAGTTGTGTGCTCTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTTTGCAGAGTCTGTGCAACCATACACACACTACTGGATGCTGCGATGCTTCAAATCACCAATACCTCACTGTGCTGGCCTCCCTGGGgtgagtatgcatgttcagctgcacacttccctgtagacagaccacctatt Alignment from Exonerate_coding2genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCG---CAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG ccaatactaaactggtagctaggcctgagtctttcctgcttcatttccagCCTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACACCAGAGGAGTTGTGTGCTCTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTTTGCAGAGTCTG--TGCAACCATACACACACTACTGGATGCTGCGATGCTTCAAAT-CACCAATACCTCACTGTGCTGGCCTCCCTGGGgtgagtatgcatgttcagctgcacacttccctgtagacagaccacctatt Alignment from GeneWise CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG ccaatactaaactggtagctaggcctgagtctttcctgcttcatttccagCCTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACACCAGAGGAGTTGTGTGCTCTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTTTGCAGAGTCTGTGCAACCATACACACACTACTGGATGCTGCGATGCTTCAAATCACCAATACCTCACTGTGCTGGCCTCCCTGGGgtgagtatgcatgttcagctgcacacttccctgtagacagaccacctatt #### Taf5_ID10097_5 --> 1 - 0 Original Alignment aATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTG-GACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gacacgtgattctgcacaacagactgtctttaatttgtttttttcctcagaATTCCTCTCCCGGAACTAAAGGATTCAGACAAATTACGACAAAATAATGAATATGAAAGAAACTACCA-ACGGGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTATACCTTTGTTAATGCTTACCAGgtaagcaagaaaacaggcagtgctatgtcacacaggtggccacagctgca Alignment from CESAR aATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTG-GACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gacacgtgattctgcacaacagactgtctttaatttgtttttttcctcagaATTCCTCTCCCGGAACTAAAGGATTCAGACAAATTACGACAAAATAATGAATATGAAAGAAACTACC-AACGGGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTATACCTTTGTTAATGCTTACCAGgtaagcaagaaaacaggcagtgctatgtcacacaggtggccacagctgca Alignment from Spaln_aa2Genome AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gacacgtgattctgcacaacagactgtctttaatttgtttttttcctcagAATTCCTCTCCCGGAACTAAAGGATTCAGACAAATTACGACAAAATAATGAATATGAAAGAAACTACCAACGGGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTATACCTTTGTTAATGCTTACCAGgtaagcaagaaaacaggcagtgctatgtcacacaggtggccacagctgca Alignment from Spaln_nt2Genome AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTG-GACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gacacgtgattctgcacaacagactgtctttaatttgtttttttcctcagAATTCCTCTCCCGGAACTAAAGGATTCAGACAAATTACGACAAAATAATGAATATGAAAGAAACTACCAA-CGGGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTATACCTTTGTTAATGCTTACCAGgtaagcaagaaaacaggcagtgctatgtcacacaggtggccacagctgca Alignment from Pairagon AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTG-GACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gacacgtgattctgcacaacagactgtctttaatttgtttttttcctcagAATTCCTCTCCCGGAACTAAAGGATTCAGACAAATTACGACAAAATAATGAATATGAAAGAAACTACC-AACGGGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTATACCTTTGTTAATGCTTACCAGgtaagcaagaaaacaggcagtgctatgtcacacaggtggccacagctgca Alignment from Exonerate_protein2genome AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gacacgtgattctgcacaacagactgtctttaatttgtttttttcctcagAATTCCTCTCCCGGAACTAAAGGATTCAGACAAATTACGACAAAATAATGAATATGAAAGAAACTACCAACGGGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTATACCTTTGTTAATGCTTACCAGgtaagcaagaaaacaggcagtgctatgtcacacaggtggccacagctgca Alignment from Exonerate_coding2genome AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gacacgtgattctgcacaacagactgtctttaatttgtttttttcctcagAATTCCTCTCCCGGAACTAAAGGATTCAGACAAATTACGACAAAATAATGAATATGAAAGAAACTACCAACGGGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTATACCTTTGTTAATGCTTACCAGgtaagcaagaaaacaggcagtgctatgtcacacaggtggccacagctgca Alignment from GeneWise AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gacacgtgattctgcacaacagactgtctttaatttgtttttttcctcagAATTCCTCTCCCGGAACTAAAGGATTCAGACAAATTACGACAAAATAATGAATATGAAAGAAACTACCAACGGGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTATACCTTTGTTAATGCTTACCAGgtaagcaagaaaacaggcagtgctatgtcacacaggtggccacagctgca #### Tbc1d10c_ID400_4 --> 0 - 2 Original Alignment TACCAG GAGCTGGCAGCAGCCCCC-GGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACgg TATCAGgtaagtaggccaggaaatgccctaaaattctttcttctatatagGAACTGGCATCAGCCCCTCGGGGACCCCCAGTGGATGGAAGCCACAGGCA-GGACTTACATCAACAATTTCCTTTGCACGAGATGTTTGTCCTGCCTCAAGGACATgggtactagttgaggaaatagggtattcaaacaatgatgtccgtccgttgtc Alignment from CESAR TACCAG GAGCTGGCAGCAGCCCCC-GGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACgg TATCAGgtaggaaggccaggaaatgccctaaaattctttcttctatatagGAACTGGCATCAGCCCCTCGGGGACCCCCAGTGGATGGAAGCCACAGGCA-GGACTTACATCAACAATTTCCTTTGCACGAGATGTTTGTCCTGCCTCAAGGACATgggtactagttgaggaaatagggtattcaaacaatgatgtccgtccgttgtc Alignment from Spaln_aa2Genome TACCAG GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG TATCAGgtaagtaggccaggaaatgccctaaaattctttcttctatatagGAACTGGCATCAGCCCCTCGGGGACCCCCAGTGGATGGAAGCCACAGGCAGGACTTACATCAACAATTTCCTTTGCACGAGATGTTTGTCCTGCCTCAAGGACATGGgtactagttgaggaaatagggtattcaaacaatgatgtccgtccgttgtc Alignment from Spaln_nt2Genome TACCAG GAGCTGGCAGCAGCCCC-CGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG TATCAGgtaagtaggccaggaaatgccctaaaattctttcttctatatagGAACTGGCATCAGCCCCTCGGGGACCCCCAGTGGATGGAAGCCACAGGCAG-GACTTACATCAACAATTTCCTTTGCACGAGATGTTTGTCCTGCCTCAAGGACATGGgtactagttgaggaaatagggtattcaaacaatgatgtccgtccgttgtc Alignment from Pairagon TACCAG GAGCTGGCAGCAGCCCC-CGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG TATCAGgtaagtaggccaggaaatgccctaaaattctttcttctatatagGAACTGGCATCAGCCCCTCGGGGACCCCCAGTGGATGGAAGCCACAGGCAG-GACTTACATCAACAATTTCCTTTGCACGAGATGTTTGTCCTGCCTCAAGGACATGGgtactagttgaggaaatagggtattcaaacaatgatgtccgtccgttgtc Alignment from Exonerate_protein2genome TACCAG GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG TATCAGgtaagtaggccaggaaatgccctaaaattctttcttctatatagGAACTGGCATCAGCCCCTCGGGGACCCCCAGTGGATGGAAGCCACAGGCAGGACTTACATCAACAATTTCCTTTGCACGAGATGTTTGTCCTGCCTCAAGGACATGGgtactagttgaggaaatagggtattcaaacaatgatgtccgtccgttgtc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TACCAGGAGCTGGCAGCAGCCCCC---------------------------------------------GGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG TATCAGGTAAGTAGGCCAGGAAATGCCCTAAAATTCTTTCTTCTATATAGGAACTGGCATCAGCCCCTCGGGGACCCCCAGTGGATGGAAGCCACAGGCAG-GACTTACATCAACAATTTCCTTTGCACGAGATGTTTGTCCTGCCTCAAGGACATGGgtactagttgaggaaatagggtattcaaacaatgatgtccgtccgttgtc #### Tbc1d10c_ID401_3 --> 0 - 0 Original Alignment GTAAAGATCCAGTGCCGC-AAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG gctcttttttataatgtttgtttgctggcctcttttctgttatccaatagGTAAAGATACAATGTCACCAAGGGCATTCCCACTGTCTTGTGTGCGCGGTGCT-GCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtaggaaggccaggaaatgcccttgtgtattctcttctcttcagGAACTG Alignment from CESAR GTAAAGATCCAGTGCCGC-AAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG gctcttttttataatgtttgtttgctggcctcttttctgttatccaatagGTAAAGATACAATGTCACCAAGGGCATTCCCACTGTCTTGTGTGCGCGGTGC-TGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtaggaaggccaggaaatgccctaaaattctttcttctatatagGAACTG Alignment from Spaln_aa2Genome GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG gctcttttttataatgtttgtttgctggcctcttttctgttatccaatagGTAAAGATACAATGTCACCAAGGGCATTCCCACTGTCTTGTGTGCGCGGTGCTGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtaggaaggccaggaaatgcccttgtgtattctcttctcttcagGAACTG Alignment from Spaln_nt2Genome GTAAAGATCCAGTGCCGC-AAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG gctcttttttataatgtttgtttgctggcctcttttctgttatccaatagGTAAAGATACAATGTCACCAAGGGCATTCCCACTGTCTTGTGTGCGCGGTGCT-GCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtaggaaggccaggaaatgcccttgtgtattctcttctcttcagGAACTG Alignment from Pairagon GTAAAGATCCAGTGCCG-CAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG gctcttttttataatgtttgtttgctggcctcttttctgttatccaatagGTAAAGATACAATGTCACCAAGGGCATTCCCACTGTCTTGTGTGCGCGGTGCT-GCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtaggaaggccaggaaatgcccttgtgtattctcttctcttcagGAACTG Alignment from Exonerate_protein2genome GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG gctcttttttataatgtttgtttgctggcctcttttctgttatccaatagGTAAAGATACAATGTCACCAAGGGCATTCCCACTGTCTTGTGTGCGCGGTGCTGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtaggaaggccaggaaatgcccttgtgtattctcttctcttcagGAACTG Alignment from Exonerate_coding2genome GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAGGAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAG gctcttttttataatgtttgtttgctggcctcttttctgttatccaatagGTAAAGATACAATGTCACCAAGGGCATTCCCACTGTCTTGTGTGCGCGGTGCTGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAG------GTAGGAAGGCCAGGAAATGCCCTTGTGTATTCTCTTCTCTTCAG Alignment from GeneWise GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG gctcttttttataatgtttgtttgctggcctcttttctgttatccaatagGTAAAGATACAATGTCACCAAGGGCATTCCCACTGTCTTGTGTGCGCGGTGCTGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtaggaaggccaggaaatgcccttgtgtattctcttctcttcagGAACTG #### Tcirg1_ID169_18 --> 2 - 2 Original Alignment agCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCC-ATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACtg aatgtcacaggtctacaatgctcttaggaccctagcttcttgcactttagagCTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCACATTCTGTTGGTAATGGAGGGTCTTTTAGCCTTCT-ACATGCTCTGCGGTTGCATtggtgagggtgatatctatatgacaggatgtgacagggaccataggttgatt Alignment from CESAR agCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCC-ATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACtg aatgtcacaggtctacaatgctcttaggaccctagcttcttgcactttagagCTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCACATTCTGTTGGTAATGGAGGGTCTTTTAGCCT-TCTACATGCTCTGCGGTTGCATtggtgagggtgatatctatatgacaggatgtgacagggaccataggttgatt Alignment from Spaln_aa2Genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG aatgtcacaggtctacaatgctcttaggaccctagcttcttgcactttagAGCTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCACATTCTGTTGGTAATGGAGGGTCTTTTAGCCTTCTACATGCTCTGCGGTTGCATTGgtgagggtgatatctatatgacaggatgtgacagggaccataggttgatt Alignment from Spaln_nt2Genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGC-CATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG aatgtcacaggtctacaatgctcttaggaccctagcttcttgcactttagAGCTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCACATTCTGTTGGTAATGGAGGGTCTTTTAGCCTT-CTACATGCTCTGCGGTTGCATTGgtgagggtgatatctatatgacaggatgtgacagggaccataggttgatt Alignment from Pairagon AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGC-CATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG aatgtcacaggtctacaatgctcttaggaccctagcttcttgcactttagAGCTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCACATTCTGTTGGTAATGGAGGGTCTTTTAGCCTT-CTACATGCTCTGCGGTTGCATTGgtgagggtgatatctatatgacaggatgtgacagggaccataggttgatt Alignment from Exonerate_protein2genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG aatgtcacaggtctacaatgctcttaggaccctagcttcttgcactttagAGCTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCACATTCTGTTGGTAATGGAGGGTCTTTTAGCCTTCTACATGCTCTGCGGTTGCATTGgtgagggtgatatctatatgacaggatgtgacagggaccataggttgatt Alignment from Exonerate_coding2genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTGG aatgtcacaggtctacaatgctcttaggaccctagcttcttgcactttagAGCTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCACATTCTGTTGGTAATGGAGGGTCTTTTAGCCTTCTACATGCTCTGCGGTTGCATTGGtgagggtgatatctatatgacaggatgtgacagggaccataggttgatt Alignment from GeneWise AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG aatgtcacaggtctacaatgctcttaggaccctagcttcttgcactttagAGCTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCACATTCTGTTGGTAATGGAGGGTCTTTTAGCCTTCTACATGCTCTGCGGTTGCATTGgtgagggtgatatctatatgacaggatgtgacagggaccataggttgatt #### Tcirg1_ID170_17 --> 0 - 1 Original Alignment TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTG-GGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCc gtggacagatgttcaacttgtgagcttcccctttcttcttctgcccttagTTTGTCCCCTCTGAGATCTTCATGCACCGAGCAATCCACATCATTGAGTTCTGTCTTCGGTTGCATCTCAAACACAGCATCCTACCTGC-TCTTTGGGCTTTGAGCCTGGCCCATGCAcgtaactgatgtacattgtgtaacgacataagaaattcccaatgggtagca Alignment from CESAR TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTG-GGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCc gtggacagatgttcaacttgtgagcttcccctttcttcttctgcccttagTTTGTCCCCTCTGAGATCTTCATGCACCGAGCAATCCACATCATTGAGTTCTGTCTTCGGTTGCATCTCAAACACAGCATCCTACCTG-CTCTTTGGGCTTTGAGCCTGGCCCATGCAcgtaactgatgtacattgtgtaacgacataagaaattcccaatgggtagca Alignment from Spaln_aa2Genome TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC gtggacagatgttcaacttgtgagcttcccctttcttcttctgcccttagTTTGTCCCCTCTGAGATCTTCATGCACCGAGCAATCCACATCATTGAGTTCTGTCTTCGGTTGCATCTCAAACACAGCATCCTACCTGCTCTTTGGGCTTTGAGCCTGGCCCATGCACgtaactgatgtacattgtgtaacgacataagaaattcccaatgggtagca Alignment from Spaln_nt2Genome TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTG-GGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC gtggacagatgttcaacttgtgagcttcccctttcttcttctgcccttagTTTGTCCCCTCTGAGATCTTCATGCACCGAGCAATCCACATCATTGAGTTCTGTCTTCGGTTGCATCTCAAACACAGCATCCTACCTGC-TCTTTGGGCTTTGAGCCTGGCCCATGCACgtaactgatgtacattgtgtaacgacataagaaattcccaatgggtagca Alignment from Pairagon TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTG-CCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC gtggacagatgttcaacttgtgagcttcccctttcttcttctgcccttagTTTGTCCCCTCTGAGATCTTCATGCACCGAGCAATCCACATCATTGAGTTCTGTCTTCGGTTGCATCTCAAACACAGCATCCTACCTGC-TCTTTGGGCTTTGAGCCTGGCCCATGCACgtaactgatgtacattgtgtaacgacataagaaattcccaatgggtagca Alignment from Exonerate_protein2genome TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC gtggacagatgttcaacttgtgagcttcccctttcttcttctgcccttagTTTGTCCCCTCTGAGATCTTCATGCACCGAGCAATCCACATCATTGAGTTCTGTCTTCGGTTGCATCTCAAACACAGCATCCTACCTGCTCTTTGGGCTTTGAGCCTGGCCCATGCACgtaactgatgtacattgtgtaacgacataagaaattcccaatgggtagca Alignment from Exonerate_coding2genome TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC gtggacagatgttcaacttgtgagcttcccctttcttcttctgcccttagTTTGTCCCCTCTGAGATCTTCATGCACCGAGCAATCCACATCATTGAGTTCTGTCTTCGGTTGCATCTCAAACACAGCATCCTACCTGCTCTTTGGGCTTTGAGCCTGGCCCATGCACgtaactgatgtacattgtgtaacgacataagaaattcccaatgggtagca Alignment from GeneWise TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC gtggacagatgttcaacttgtgagcttcccctttcttcttctgcccttagTTTGTCCCCTCTGAGATCTTCATGCACCGAGCAATCCACATCATTGAGTTCTGTCTTCGGTTGCATCTCAAACACAGCATCCTACCTGCTCTTTGGGCTTTGAGCCTGGCCCATGCACgtaactgatgtacattgtgtaacgacataagaaattcccaatgggtagca #### Tcirg1_ID173_14 --> 1 - 0 Original Alignment gCACTTTGGCCAGGCCCACCGGCTACTG-CTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG agtcttgcctcatcctgatgagaataatacttttgtgcttttgatttcaggCACTTTGGTGAGGCCCACAGGCTGCTGCCTTGGGACGTTGTCAGAGCTCATCTTCCTCCTGG-CCTC------TATCTGGTGCTCCTGATTCTCTACAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCC------ATTATTCACTTCATCAAT---TTCCTCTTCTCCCAGAACCCC---AATCATCTGCTGTTCCATGGGCAGgtaatgagtgtatgaccggtgattctagtgtcatatagcataatctgaca Alignment from CESAR gCACTTTGGCCAGGCCCACCGGCTACTG-CTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG agtcttgcctcatcctgatgagaataatacttttgtgcttttgatttcaggCACTTTGGTGAGGCCCACAGGCTGCTGCCTTGGGACGTTGTCAGAGCTCATCTTCCTCC-TGGCCTC------TATCTGGTGCTCCTGATTCTCTACAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCC------ATTATTCACTTCATCAAT---TTCCTCTTCTCCCAGAACCCC---AATCATCTGCTGTTCCATGGGCAGgtaatgagtgtatgaccggtgattctagtgtcatatagcataatctgaca Alignment from Spaln_aa2Genome GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG agtcttgcctcatcctgatgagaataatacttttgtgcttttgatttcagGCACTTTGGTGAGGCCCACAGGCTGCTGCCTTGGGACGTTGTCAGAGCTCATCTTCCTCCTGGCCTC------TATCTGGTGCTCCTGATTCTCTACAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCC------ATTATTCACTTCATCAAT---TTCCTCTTCTCCCAGAACCCC---AATCATCTGCTGTTCCATGGGCAGgtaatgagtgtatgaccggtgattctagtgtcatatagcataatctgaca Alignment from Spaln_nt2Genome GCACTTTGGCCAGGCCCACCGGCTACTG-CTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG agtcttgcctcatcctgatgagaataatacttttgtgcttttgatttcagGCACTTTGGTGAGGCCCACAGGCTGCTGCCTTGGGACGTTGTCAGAGCTCATCTTCCTCCTGG----CCT---CTATCTGGTGCTCCTGATTCTCTACAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCCA------TTATTCACTTCATCAAT---TTCCTCTTCTCCCAGAACC---CCAATCATCTGCTGTTCCATGGGCAGgtaatgagtgtatgaccggtgattctagtgtcatatagcataatctgaca Alignment from Pairagon GCACTTTGGCCAGGCCCACCGGCTACTG-CTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG agtcttgcctcatcctgatgagaataatacttttgtgcttttgatttcagGCACTTTGGTGAGGCCCACAGGCTGCTGCCTTGGGACGTTGTCAGAGCTCATCTTCCTCCTGGCCT-------CTATCTGGTGCTCCTGATTCTCTACAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCCA------TTATTCACTTCATCAAT---TTCCTCTTCTCCCAGAACC---CCAATCATCTGCTGTTCCATGGGCAGgtaatgagtgtatgaccggtgattctagtgtcatatagcataatctgaca Alignment from Exonerate_protein2genome GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG agtcttgcctcatcctgatgagaataatacttttgtgcttttgatttcagGCACTTTGGTGAGGCCCACAGGCTGCTGCCTTGGGACGTTGTCAGAGCTCATCTTCCTCCTGGCCTC------TATCTGGTGCTCCTGATTCTCTACAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCC------ATTATTCACTTCATCAAT---TTCCTCTTCTCCCAGAACCCC---AATCATCTGCTGTTCCATGGGCAGgtaatgagtgtatgaccggtgattctagtgtcatatagcataatctgaca Alignment from Exonerate_coding2genome agtcttgcctcatcctgatgagaataatacttttgtgcttttgatttcaggcactttggtgaggcccacaggctgctgccttgggacgttgtcagagctcatcttcctcctggcctctatctggtgctcctgattctctacaaatgggtaaacatctcagcaactagttctgcctcagcccccattattcacttcatcaatttcctcttctcccagaaccccaatcatctgctgttccatgggcaggtaatgagtgtatgaccggtgattctagtgtcatatagcataatctgaca Alignment from GeneWise GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG agtcttgcctcatcctgatgagaataatacttttgtgcttttgatttcagGCACTTTGGTGAGGCCCACAGGCTGCTGCCTTGGGACGTTGTCAGAGCTCATCTTCCTCCTGGCCTC------TATCTGGTGCTCCTGATTCTCTACAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCC------ATTATTCACTTCATCAAT---TTCCTCTTCTCCCAGAACCCC---AATCATCTGCTGTTCCATGGGCAGgtaatgagtgtatgaccggtgattctagtgtcatatagcataatctgaca #### Tcirg1_ID174_13 --> 0 - 2 Original Alignment ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATG-TCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACgt accaccaaagtgcatgttgcaaagtgttcacctttccatctgtctcctagCTCTGCAGTCTGGCCACAAACCACCTGAGCTTTCTCAACTCTTTTAAGATGAAGACACTCAGTCATCCTAGGAGTCACACACATGGCATTTG-GGTCTTCCTCAGCATCTTCAATCAGgtgtgagttatctgatttaggcatgggtagtatgtgccgagtcttgcctcat Alignment from CESAR ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATG-TCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACgt accaccaaagtgcatgttgcaaagtgttcacctttccatctgtctcctagCTCTGCAGTCTGGCCACAAACCACCTGAGCTTTCTCAACTCTTTTAAGATGAAGACACTCAGTCATCCTAGGAGTCACACACATGGCATTTG-GGTCTTCCTCAGCATCTTCAATCAGgtgtgagttatctgatttaggcatgggtagtatgtgccgagtcttgcctcat Alignment from Spaln_aa2Genome ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACGT accaccaaagtgcatgttgcaaagtgttcacctttccatctgtctcctagCTCTGCAGTCTGGCCACAAACCACCTGAGCTTTCTCAACTCTTTTAAGATGAAGACACTCAGTCATCCTAGGAGTCACACACATGGCATTTGGGTCTTCCTCAGCATCTTCAATCAGGTgtgagttatctgatttaggcatgggtagtatgtgccgagtcttgcctcat Alignment from Spaln_nt2Genome ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATG-TCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACGT accaccaaagtgcatgttgcaaagtgttcacctttccatctgtctcctagCTCTGCAGTCTGGCCACAAACCACCTGAGCTTTCTCAACTCTTTTAAGATGAAGACACTCAGTCATCCTAGGAGTCACACACATGGCA-TTTGGGTCTTCCTCAGCATCTTCAATCAGGTgtgagttatctgatttaggcatgggtagtatgtgccgagtcttgcctcat Alignment from Pairagon ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATG-TCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACGT accaccaaagtgcatgttgcaaagtgttcacctttccatctgtctcctagCTCTGCAGTCTGGCCACAAACCACCTGAGCTTTCTCAACTCTTTTAAGATGAAGACACTCAGTCATCCTAGGAGTCACACACATGGCATTT-GGGTCTTCCTCAGCATCTTCAATCAGGTgtgagttatctgatttaggcatgggtagtatgtgccgagtcttgcctcat Alignment from Exonerate_protein2genome ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATG-TCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGG--GTGTTCCTCAGCATCTTCAACCACGT accaccaaagtgcatgttgcaaagtgttcacctttccatctgtctcctagCTCTGCAGTCTGGCCACAAACCACCTGAGCTTTCTCAACTCTTTTAAGATGAAGACACTCAGTCATCCTAGGAGTCACACACATGGCATTTGGGTC---TTCCTCAGCATCTTCAATCAGGTgtgagttatctgatttaggcatgggtagtatgtgccgagtcttgcctcat Alignment from Exonerate_coding2genome ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATG-TCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGG--GTGTTCCTCAGCATCTTCAACCACGT accaccaaagtgcatgttgcaaagtgttcacctttccatctgtctcctagCTCTGCAGTCTGGCCACAAACCACCTGAGCTTTCTCAACTCTTTTAAGATGAAGACACTCAGTCATCCTAGGAGTCACACACATGGCATTTGGGTC---TTCCTCAGCATCTTCAATCAGGTgtgagttatctgatttaggcatgggtagtatgtgccgagtcttgcctcat Alignment from GeneWise ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAG---ATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACGT accaccaaagtgcatgttgcaaagtgttcacctttccatctgtctcctagCTCTGCAGTCTGGCCACAAACCACCTGAGCTTTCTCAACTCTTTTAAGATGAAGACACTCAGTCATCCTAGGAGTCACACACAT---GGCATTTGGGTCTTCCTCAGCATCTTCAATCAGGTgtgagttatctgatttaggcatgggtagtatgtgccgagtcttgcctcat #### Tcirg1_ID176_11 --> 0 - 2 Original Alignment ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAAT---GAGTGCTTCAGCCGAGCC-ACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGag cacagctcaagaccagggagccattttccagtctctggtttcctgtgcagATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCACGCTACTATTTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCA-CCAATCTGGCTGGctgtcagtctataacagcgggttcatgaacaggttctgatatgaagcagttc Alignment from CESAR ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAAT---GAGTGCTTCAGCCGAGCC-ACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGag cacagctcaagaccagggagccattttccagtctctggtttcctgtgcagATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCACGCTACTATTTTTCCATCTGGTTGGAGTGTGGCAGCTATGG-CCACCAATCTGGCTGGctgtcagtctataacagcgggttcatgaacaggttctgatatgaagcagttc Alignment from Spaln_aa2Genome ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAAT---GAGTGCTTCAGCCGAGCC-ACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCC---AACCAGTCAGGCTGGAG cacagctcaagaccagggagccattttccagtctctggtttcctgtgcagATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCAcGCTACTATTTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCACCAATCTGGCTGGCTGTCAgtctataacagcgggttcatgaacaggttctgatatgaagcagttc Alignment from Spaln_nt2Genome ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCAT--CTACAA-TGAGTGCTTCAGCCGAGC-CACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGAG cacagctcaagaccagggagccattttccagtctctggtttcctgtgcagATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCACGCTACTATTTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCC-ACCAATCTGGCTGGCTgtcagtctataacagcgggttcatgaacaggttctgatatgaagcagttc Alignment from Pairagon ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCAT------------------------------CTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGG---------------------------------------------------- cacagctcaagaccagggagccattttccagtctctggtttcctgtgcagATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCACGCT--------------------------ACTATTTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCC-ACCAATCTGGCTGGCTGTCAGTCTATAACAGCGGGTTCATGAACAGGTTCTGATATGAAGCAGTTC Alignment from Exonerate_protein2genome ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAAT---GAGTGCTTCAGCCGAGCC-ACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCC---AACCAGTCAGGCTGGAG cacagctcaagaccagggagccattttccagtctctggtttcctgtgcagATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCACGCTACTATTTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCACCAATCTGGCTGGCTGTCAgtctataacagcgggttcatgaacaggttctgatatgaagcagttc Alignment from Exonerate_coding2genome ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAAT---GAGTGCTTCAGCCGAGCC-ACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCC---AACCAGTCAGGCTGGAG cacagctcaagaccagggagccattttccagtctctggtttcctgtgcagATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCACGCTACTATTTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCACCAATCTGGCTGGCTGTCAgtctataacagcgggttcatgaacaggttctgatatgaagcagttc Alignment from GeneWise ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAAT---GAGTGCTTCAGCCGAGCC-ACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCC---AACCAGTCAGGCTGGAG cacagctcaagaccagggagccattttccagtctctggtttcctgtgcagATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTAACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGCTGAATGTTATAGTCAGGCACGCTACTATTTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCACCAATCTGGCTGGCTGTCAgtctataacagcgggttcatgaacaggttctgatatgaagcagttc #### Tcirg1_ID179_8 --> 0 - 0 Original Alignment TCAGGAA GTCCTGGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTC-TGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA CCAAGAGgtaggctgttcatcaaggatggttctttgtctttataccacagGTCCTAGGGGAGACAGATCGGTTCTTAAGTCAAGTACTTGGGCGAGTGCAGCAATTACTTCCCCCATGGCAGGTGCAGATCCATAAGATGAAGGCTGTCTACCTAACCCTCAATTCTTGCAGTGTTAACACCACACACAAGTGCCTCATTACAGAGGTGCTGGTCTGCTGCACGAGACCTACCTACAGTGCAAC-GGCCTTACAAAGTGGCTCAgtgagtgtccagggccttatagaaatacccattaagcaagagatgataca Alignment from CESAR TCAGGAA GTCCTGGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTC-TGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA CCAAGAGgtatgttgttcatcaaggatggttctttgtctttataccacagGTCCTAGGGGAGACAGATCGGTTCTTAAGTCAAGTACTTGGGCGAGTGCAGCAATTACTTCCCCCATGGCAGGTGCAGATCCATAAGATGAAGGCTGTCTACCTAACCCTCAATTCTTGCAGTGTTAACACCACACACAAGTGCCTCATTACAGAGGTGCTGGTCTGCTGCACGAGACCTACCTACAGTGCAA-CGGCCTTACAAAGTGGCTCAgtgagtgtccagggccttatagaaatacccattaagcaagagatgataca Alignment from Spaln_aa2Genome TCAGGAA GTCCTGGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTC-TGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCA CCAAGAGgtaggctgttcatcaaggatggttctttgtctttataccacagGTCCTAGGGGAGACAGATCGGTTCTTAAGTCAAGTACTTGGGCGAGTGCAGCAATTACTTCCCCCATGGCAGGTGCAGATCCATAAGATGAAGGCTGTCTACCTAACCCTCAATTCTTGCAGTGTTAACACCACACACAAGTGCCTCATTACAGAGGTGcTGGTCTGCTGCACGAGACCTACCTACAGTGCAACGgccttacaaagtggctcagtgagtgtccagggccttatagaaatacccattaagcaagagatgataca Alignment from Spaln_nt2Genome TCAGGAA GTCCTGGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGT-CTGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA CCAAGAGgtaggctgttcatcaaggatggttctttgtctttataccacagGTCCTAGGGGAGACAGATCGGTTCTTAAGTCAAGTACTTGGGCGAGTGCAGCAATTACTTCCCCCATGGCAGGTGCAGATCCATAAGATGAAGGCTGTCTACCTAACCCTCAATTCTTGCAGTGTTAACACCACACACAAGTGCCTCATTACAGAGGTGCTGGTCTGCTGCACGAGACCTACCTACAGTGCAAC-GGCCTTACAAAGTGGCTCAgtgagtgtccagggccttatagaaatacccattaagcaagagatgataca Alignment from Pairagon TCAGGAA GTCCTGGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGT-CTGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA CCAAGAGgtaggctgttcatcaaggatggttctttgtctttataccacagGTCCTAGGGGAGACAGATCGGTTCTTAAGTCAAGTACTTGGGCGAGTGCAGCAATTACTTCCCCCATGGCAGGTGCAGATCCATAAGATGAAGGCTGTCTACCTAACCCTCAATTCTTGCAGTGTTAACACCACACACAAGTGCCTCATTACAGAGGTGCTGGTCTGCTGCACGAGACCTACCTACAGTGCAAC-GGCCTTACAAAGTGGCTCAgtgagtgtccagggccttatagaaatacccattaagcaagagatgataca Alignment from Exonerate_protein2genome TCAGGAA GTCCTGGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTC-TGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCG CCAAGAGgtaggctgttcatcaaggatggttctttgtctttataccacagGTCCTAGGGGAGACAGATCGGTTCTTAAGTCAAGTACTTGGGCGAGTGCAGCAATTACTTCCCCCATGGCAGGTGCAGATCCATAAGATGAAGGCTGTCTACCTAACCCTCAATTCTTGCAGTGTTAACACCACACACAAGTGCCTCATTACAGAGGTGCTGGTCTGCTGCACGAGACCTACCTACAGTGCAACGGCCTTACAAAGTGGctcagtgagtgtccagggccttatagaaatacccattaagcaagagatgataca Alignment from Exonerate_coding2genome TCAGGAA GTCCTGGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTC-TGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCG CCAAGAGgtaggctgttcatcaaggatggttctttgtctttataccacagGTCCTAGGGGAGACAGATCGGTTCTTAAGTCAAGTACTTGGGCGAGTGCAGCAATTACTTCCCCCATGGCAGGTGCAGATCCATAAGATGAAGGCTGTCTACCTAACCCTCAATTCTTGCAGTGTTAACACCACACACAAGTGCCTCATTACAGAGGTGCTGGTCTGCTGCACGAGACCTACCTACAGTGCAACGGCCTTACAAAGTGGctcagtgagtgtccagggccttatagaaatacccattaagcaagagatgataca Alignment from GeneWise TCAGGAA GTCCTGGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTCTGG---TGTGCCGCGAGGGACCTGCCCACTGTGCAG---CAGGCGCTGCAGAGCGGCTCA CCAAGAGgtaggctgttcatcaaggatggttctttgtctttataccacagGTCCTAGGGGAGACAGATCGGTTCTTAAGTCAAGTACTTGGGCGAGTGCAGCAATTACTTCCCCCATGGCAGGTGCAGATCCATAAGATGAAGGCTGTCTACCTAACCCTCAATTCTTGCAGTGTTAACACCACACACAAGTGCCTCATTACAGAGGTGCTGGTCTGCTGCACGAGA------CCTACCTACAGTGCAACGGCCTTACAAAGTGGCTCAgtgagtgtccagggccttatagaaatacccattaagcaagagatgataca #### Tcirg1_ID183_4 --> 0 - 2 Original Alignment GTGGCAGCTGACCATACTGAAGGACCCTTCTCT-GAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCaa cacagacacaacctcacagtgtacatgctcaattacttcactgtttctagGTGGCAGCTGACCATACTGAAGGTCCTCTCTCACGAAACAACACCCCTTCTTCCAGGCACACGGGGTCCAC-TTCTGACCTGAAAGTTaagtaagatgaagcatccaagcttttttgacattctcacattcacactctgc Alignment from CESAR GTGGCAGCTGACCATACTGAAGGACCCTTCTCT-GAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCaa cacagacacaacctcacagtgtacatgctcaattacttcactgtttctagGTGGCAGCTGACCATACTGAAGGTCCTCTCTCACGAAACAACACCCCTTCTTCCAGGCACACGGGGTCCA-CTTCTGACCTGAAAGTTaagtaagatgaagcatccaagcttttttgacattctcacattcacactctgc Alignment from Spaln_aa2Genome GTGGCAGCTGACCATACTGAAGGACCCTTCTCT-GAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA cacagacacaacctcacagtgtacatgctcaattacttcactgtttctagGTGGCAGCTGACCATACTGAAGGTCCTCTCTCAcGAAACAACACCCCTTCTTCCAGGCACACGGGGTCCACT-TCTGACCTGAAAGTTAAgtaagatgaagcatccaagcttttttgacattctcacattcacactctgc Alignment from Spaln_nt2Genome GTGGCAGCTGACCATACTGAAGGACCCTTCTCT-GAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA cacagacacaacctcacagtgtacatgctcaattacttcactgtttctagGTGGCAGCTGACCATACTGAAGGTCCTCTCTCACGAAACAACACCCCTTCTTCCAGGCACACGGGGTCCAC-TTCTGACCTGAAAGTTAAgtaagatgaagcatccaagcttttttgacattctcacattcacactctgc Alignment from Pairagon GTGGCAGCTGACCATACTGAAGGACCCTTCTC-TGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA cacagacacaacctcacagtgtacatgctcaattacttcactgtttctagGTGGCAGCTGACCATACTGAAGGTCCTCTCTCACGAAACAACACCCCTTCTTCCAGGCACACGGGGTCCAC-TTCTGACCTGAAAGTTAAgtaagatgaagcatccaagcttttttgacattctcacattcacactctgc Alignment from Exonerate_protein2genome GTGGCAGCTGACCATACTGAAGGACCCTTCTCT-GAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCA--CATTCAGACCTGAAGGTCAA cacagacacaacctcacagtgtacatgctcaattacttcactgtttctagGTGGCAGCTGACCATACTGAAGGTCCTCTCTCACGAAACAACACCCCTTCTTCCAGGCACACGGGGTCCACT---TCTGACCTGAAAGTTAAgtaagatgaagcatccaagcttttttgacattctcacattcacactctgc Alignment from Exonerate_coding2genome GTGGCAGCTGACCATACTGAAGGACCCTTCTCT-GAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCA--CATTCAGACCTGAAGGTCAA cacagacacaacctcacagtgtacatgctcaattacttcactgtttctagGTGGCAGCTGACCATACTGAAGGTCCTCTCTCACGAAACAACACCCCTTCTTCCAGGCACACGGGGTCCACT---TCTGACCTGAAAGTTAAgtaagatgaagcatccaagcttttttgacattctcacattcacactctgc Alignment from GeneWise GTGGCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA cacagacacaacctcacagtgtacatgctcaattacttcactgtttctagGTGGCAGCTGACCATACTGAAGGTCCTCTCTCACGAAACAACACCCCTTCTTCCAGGCACACGGGGTCCACTTCTGACCTGAAAGTTAAgtaagatgaagcatccaagcttttttgacattctcacattcacactctgc #### Tcirg1_ID185_2 --> 0 - 1 Original Alignment CCTCGTGGAGTTCAGAGAC CTCAACGAATCC-GTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTa GCCTGTGGAGTTGAGAGATgtgagaagttactgagctgctctgcccacagTTCAATGAGTTGCGTGAGTGCATTCCAGAGACGCTTTGTAGTAGATG-GCAGCACTGTGAGGAGCTGGACAAG---ATTagtaagatgtcctcagcgtatttgagatgacagggtgtactttatttaccc Alignment from CESAR CCTCGTGGAGTTCAGAGAC CTCAACGAA-TCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTa GCCTGTGGAGTTGAGAGATgtaagtagttactgagctgctctgcccacagTTCAATGAGTTGCGTGAGTGCATTCCAGAGACGCTTTGTAGTAGAT-GGCAGCACTGTGAGGAGCTGGACAAG---ATTagtaagatgtcctcagcgtatttgagatgacagggtgtactttatttaccc Alignment from Spaln_aa2Genome CCTCGTGGAGTTCAGAGAC CTCAACGAA-TCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACG- GCCTGTGGAGTTGAGAGATgtgagaagttactgagctgctctgcccacagTTCAATGAGtTGCGTGAGTGCATTCCAGAGACGCTTTGTAGTAGATGG-CAGCACTGTGAGGAGCTGGACAAGATTAgtaagatgtcctcagcgtatttgagatgacagggtgtactttatttaccc Alignment from Spaln_nt2Genome CCTCGTGGAGTTCAGAGAC-------------------------------CTCAACGAATC-CGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTA GCCTGTGGAGTTGAGAGATGTGAGAAGTTACTGAGCTGCTCTGCCCACAGTTCAATGAGTTGCGTGAGTGCATTCCAGAGACGCTTTGTAGTAGATG-GCAGCACTGTGAGGAGCTGGACAAGA---TTAgtaagatgtcctcagcgtatttgagatgacagggtgtactttatttaccc Alignment from Pairagon CCTCGTGGAGTTCAGAGAC CTCAACGAATC-CGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTA GCCTGTGGAGTTGAGAGATgtgagaagttactgagctgctctgcccacagTTCAATGAGTTGCGTGAGTGCATTCCAGAGACGCTTTGTAGTAGATG-GCAGCACTGTGAGGAGCTGGACAAGA---TTAgtaagatgtcctcagcgtatttgagatgacagggtgtactttatttaccc Alignment from Exonerate_protein2genome CCTCGTGGAGTTCAGAGAC CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTA GCCTGTGGAGTTGAGAGATgtgagaagttactgagctgctctgcccacagTTCAATGAGTTGCGTGAGTGCATTCCAGAGACGCTTTGTAGTAGATGGCAGCACTGTGAGGAGCTGGACAAG---ATTAgtaagatgtcctcagcgtatttgagatgacagggtgtactttatttaccc Alignment from Exonerate_coding2genome CCTCGTGGAGTTCAGAGAC CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTA GCCTGTGGAGTTGAGAGATgtgagaagttactgagctgctctgcccacagTTCAATGAGTTGCGTGAGTGCATTCCAGAGACGCTTTGTAGTAGATGGCAGCACTGTGAGGAGCTGGACAAG---ATTAgtaagatgtcctcagcgtatttgagatgacagggtgtactttatttaccc Alignment from GeneWise CCTCGTGGAGTTCAGAGACCTCAACG GCCTGTGGAGTTGAGAGATGTGAGAAgttactgagctgctctgcccacagttcaatgagttgcgtgagtgcattccagagacgctttgtagtagatggcagcactgtgaggagctggacaagattagtaagatgtcctcagcgtatttgagatgacagggtgtactttatttaccc #### Tctn3_ID7992_9 --> 0 - 0 Original Alignment GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAAGTCTCTGTCAGCTTCCGA-CAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG caggtgcacatgctctctttgttaaggaggaaatgactttctgcctctagGTCGTCTATGAGATAGAGACCAATGGGACCTTTGGGATACAGAAAGTCTCTGTCAGCTTCCGACCAGACAAACCTGACAGTCAAGCCAGGGGTCT-CTTACAGCAAGACTTCATTGTTCACTTCAGAgtaagtctcctctctctgggatggaactaagctccagcacacaaaatcac Alignment from CESAR GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAAGTCTCTGTCAGCTTCCGA-CAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG caggtgcacatgctctctttgttaaggaggaaatgactttctgcctctagGTCGTCTATGAGATAGAGACCAATGGGACCTTTGGGATACAGAAAGTCTCTGTCAGCTTCCGACCAGACAAACCTGACAGTCAAGCCAGGGGTCT-CTTACAGCAAGACTTCATTGTTCACTTCAGAgtaagtctcctctctctgggatggaactaagctccagcacacaaaatcac Alignment from Spaln_aa2Genome GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAAGTCTCTGTCAGCTTCCGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG caggtgcacatgctctctttgttaaggaggaaatgactttctgcctctagGTCGTCTATGAGATAGAGACCAATGGGACCTTTGGGATACAGAAAGTCTCTGTCAGCTTCCGACCAGACAAACCTGACAGTCAAGCCAGGGGTCTCTTACAGCAAGACTTCATTGTTCACTTCAGAgtaagtctcctctctctgggatggaactaagctccagcacacaaaatcac Alignment from Spaln_nt2Genome GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAAGTCTCTGTCAGCTTCCGA-CAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG caggtgcacatgctctctttgttaaggaggaaatgactttctgcctctagGTCGTCTATGAGATAGAGACCAATGGGACCTTTGGGATACAGAAAGTCTCTGTCAGCTTCCGACCAGACAAACCTGACAGTCAAGCCAGGGGTCTCT-TACAGCAAGACTTCATTGTTCACTTCAGAgtaagtctcctctctctgggatggaactaagctccagcacacaaaatcac Alignment from Pairagon GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAAGTCTCTGTCAGCTTCCGA-CAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG caggtgcacatgctctctttgttaaggaggaaatgactttctgcctctagGTCGTCTATGAGATAGAGACCAATGGGACCTTTGGGATACAGAAAGTCTCTGTCAGCTTCCGACCAGACAAACCTGACAGTCAAGCCAGGGGTCT-CTTACAGCAAGACTTCATTGTTCACTTCAGAgtaagtctcctctctctgggatggaactaagctccagcacacaaaatcac Alignment from Exonerate_protein2genome GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAAGTCTCTGTCAGCTTCCGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG caggtgcacatgctctctttgttaaggaggaaatgactttctgcctctagGTCGTCTATGAGATAGAGACCAATGGGACCTTTGGGATACAGAAAGTCTCTGTCAGCTTCCGACCAGACAAACCTGACAGTCAAGCCAGGGGTCTCTTACAGCAAGACTTCATTGTTCACTTCAGAgtaagtctcctctctctgggatggaactaagctccagcacacaaaatcac Alignment from Exonerate_coding2genome GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAAGTCTCTGTCAGCTTCCGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG caggtgcacatgctctctttgttaaggaggaaatgactttctgcctctagGTCGTCTATGAGATAGAGACCAATGGGACCTTTGGGATACAGAAAGTCTCTGTCAGCTTCCGACCAGACAAACCTGACAGTCAAGCCAGGGGTCTCTTACAGCAAGACTTCATTGTTCACTTCAGAgtaagtctcctctctctgggatggaactaagctccagcacacaaaatcac Alignment from GeneWise GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAAGTCTCTGTCAGCTTCCGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG caggtgcacatgctctctttgttaaggaggaaatgactttctgcctctagGTCGTCTATGAGATAGAGACCAATGGGACCTTTGGGATACAGAAAGTCTCTGTCAGCTTCCGACCAGACAAACCTGACAGTCAAGCCAGGGGTCTCTTACAGCAAGACTTCATTGTTCACTTCAGAgtaagtctcctctctctgggatggaactaagctccagcacacaaaatcac #### Tctn3_ID7996_5 --> 0 - 1 Original Alignment GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGC-TTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAg gtTTCCTAGAGAGTAAAAGCA gccatttaaagataccattttttcagttgttcctacctctgtcttcacagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTAAGCCTTACTAAGACAACCTGCAGCTGTAGGAGCTG-TGGACTTTGTGCAGAGAGCAACCCAGCAggtaagttcggctgccttttggttttataggaTTTCTAGAGACTAAGAGTA Alignment from CESAR GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGC-TTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAg gtTTCCTAGAGAGTAAAAGCA gccatttaaagataccattttttcagttgttcctacctctgtcttcacagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTAAGCCTTACTAAGACAACCTGCAGCTGTAGGAGCT-GTGGACTTTGTGCAGAGAGCAACCCAGCAggtaatgttgtttggtttctatttctttaggaTTTCTAGAGACTAAGAGTA Alignment from Spaln_aa2Genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCA-----------------------------GGTTTCCTAGAGAGTAAAAGCA gccatttaaagataccattttttcagttgttcctacctctgtcttcacagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTAAGCCTTACTAAGACAACCTGCAGCTGTAGGAGCTGTGGACTTTGTGCAGAGAGCAACCCAGCAGGTAAGTTCGGCTGCCTTTTGGTTTTAtaGGATTTCTAGAGACTAAGAGTA Alignment from Spaln_nt2Genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGC-TTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCT GCAGGTTTCCTAGAGAGTAAA gccatttaaagataccattttttcagttgttcctacctctgtcttcacagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTAAGCCTTACTAAGACAACCTGCAGCTGTAGGAGCT-GTGGACTTTGTGCAGAGAGCAACCCAgcaggtaagttcggctgccttttggttttatag----GATTTCTAGAGACTAAG Alignment from Pairagon GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAG-CTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAG-----------------------------GTTTCCTAGAGAGTAAAAGCA gccatttaaagataccattttttcagttgttcctacctctgtcttcacagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTAAGCCTTACTAAGACAACCTGCAGCTGTAGGAGCT-GTGGACTTTGTGCAGAGAGCAACCCAGCAGGTAAGTTCGGCTGCCTTTTGGTTTTATAGGATTTCTAGAGACTAAGAGTA Alignment from Exonerate_protein2genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAGGTT TCCTAGAGAGTAAAAGCA gccatttaaagataccattttttcagttgttcctacctctgtcttcacagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTAAGCCTTACTAAGACAACCTGCAGCTGTAGGAGCTGTGGACTTTGTGCAGAGAGCAACCCAGCA---GgtaagttcggctgccttttggttttataggatTTCTAGAGACTAAGAGTA Alignment from Exonerate_coding2genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAGGTT TCCTAGAGAGTAAAAGCA gccatttaaagataccattttttcagttgttcctacctctgtcttcacagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTAAGCCTTACTAAGACAACCTGCAGCTGTAGGAGCTGTGGACTTTGTGCAGAGAGCAACCCAGCA---GgtaagttcggctgccttttggttttataggatTTCTAGAGACTAAGAGTA Alignment from GeneWise GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAG GTTTCCTAGAGAGTAAAAGCA gccatttaaagataccattttttcagttgttcctacctctgtcttcacagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTAAGCCTTACTAAGACAACCTGCAGCTGTAGGAGCTGTGGACTTTGTGCAGAGAGCAACCCAGCAGgtaagttcggctgccttttggttttatagGATTTCTAGAGACTAAGAGTA #### Tjp2_ID5273_14 --> 1 - 1 Original Alignment aGCCGAGCAAATGGCC-AGTGTCCAGAATGCCCAGCGAGAGAACGCCGGGGACAGAGCAGACTTCTGGCGGATGCGTGGCCAGAGATCCAGCGGCGGCGTCAAGAAGAAC---CTCCGCAAGAGCCGGGAAGACCTGGCGGCTGCTGTATCGGTTAGCACCAAGTTCCCTGCCTACGAGAAGGTTCTGCTTCGGGAAg gttctaggtgagcttgacagaatatgagtgatatgttgcctctttcctagaGCTGAGCAAATAGCACAGTGTCCAAAATGCTCAACAGGAGAATCCTGGTG-TCGAGCAGACTTCTGGCGAATGCATGGCCAGAGACCAAGCAGCTGCATTAAGAAGAACTTATTACATAAGAGCCGGGAGGATCTAGCAGCTGCGGTATCTGTTAGCACTCAGTACCCTGCCTATGAGGAAGTGCTCCTTCAAGAGggtaagataagtgcatatatatgggcactctggcacttcatagtcctgagg Alignment from CESAR aGCCGAGCAAATGGCC-AGTGTCCAGAATGCCCAGCGAGAGAACGCCGGGGACAGAGCAGACTTCTGGCGGATGCGTGGCCAGAGATCCAGCGGCGGCGTCAAGAAGAACCTC---CGCAAGAGCCGGGAAGACCTGGCGGCTGCTGTATCGGTTAGCACCAAGTTCCCTGCCTACGAGAAGGTTCTGCTTCGGGAAg gttctaggtgagcttgacagaatatgagtgatatgttgcctctttcctagaGCTGAGCAAATAGCACAGTGTCCAAAATGCTCAACAGGAGAATCCTGGT-GTCGAGCAGACTTCTGGCGAATGCATGGCCAGAGACCAAGCAGCTGCATTAAGAAGAACTTATTACATAAGAGCCGGGAGGATCTAGCAGCTGCGGTATCTGTTAGCACTCAGTACCCTGCCTATGAGGAAGTGCTCCTTCAAGAGggtaagataagtgcatatatatgggcactctggcacttcatagtcctgagg Alignment from Spaln_aa2Genome AGCCGAGCAAATGGCCAGTGTCCAGAATGCCCAGCGAGAGAACGCCGGGGACAGAGCAGACTTCTGGCGGATGCGTGGCCAGAGATCCAGCGGCGGCGTCAAGAAGAAC---CTCCGCAAGAGCCGGGAAGACCTGGCGGCTGCTGTATCGGTTAGCACCAAGTTCCCTGCCTACGAGAAGGTTCTGCTTCGGGAAG gttctaggtgagcttgacagaatatgagtgatatgttgcctctttcctagAGCTGAGCAAATAGCACAGTGTCCAAAATGCTCAACAGGAGAATCCTGGTGTCGAGCAGACTTCTGGCGAATGCATGGCCAGAGACCAAGCAGCTGCATTAAGAAGAACTTATTACATAAGAGCCGGGAGGATCTAGCAGCTGCGGTATCTGTTAGCACTCAGTACCCTGCCTATGAGGAAGTGCTCCTTCAAGAGGgtaagataagtgcatatatatgggcactctggcacttcatagtcctgagg Alignment from Spaln_nt2Genome AGCCGAGCAAATGGC-CAGTGTCCAGAATGCCCAGCGAGAGAACGCCGGGGACAGAGCAGACTTCTGGCGGATGCGTGGCCAGAGATCCAGCGGCGGCGTCAAGAAGAACCTC---CGCAAGAGCCGGGAAGACCTGGCGGCTGCTGTATCGGTTAGCACCAAGTTCCCTGCCTACGAGAAGGTTCTGCTTCGGGAAG gttctaggtgagcttgacagaatatgagtgatatgttgcctctttcctagAGCTGAGCAAATAGCACAGTGTCCAAAATGCTCAACAGGAGAATCCTGGTGTC-GAGCAGACTTCTGGCGAATGCATGGCCAGAGACCAAGCAGCTGCATTAAGAAGAACTTATTACATAAGAGCCGGGAGGATCTAGCAGCTGCGGTATCTGTTAGCACTCAGTACCCTGCCTATGAGGAAGTGCTCCTTCAAGAGGgtaagataagtgcatatatatgggcactctggcacttcatagtcctgagg Alignment from Pairagon AGCCGAGCAAATGGC-CAGTGTCCAGAATGCCCAGCGAGAGAACGCCGGGGACAGAGCAGACTTCTGGCGGATGCGTGGCCAGAGATCCAGCGGCGGCGTCAAGAAGAAC---CTCCGCAAGAGCCGGGAAGACCTGGCGGCTGCTGTATCGGTTAGCACCAAGTTCCCTGCCTACGAGAAGGTTCTGCTTCGGGAAG gttctaggtgagcttgacagaatatgagtgatatgttgcctctttcctagAGCTGAGCAAATAGCACAGTGTCCAAAATGCTCAACAGGAGAATCCTGGTGTC-GAGCAGACTTCTGGCGAATGCATGGCCAGAGACCAAGCAGCTGCATTAAGAAGAACTTATTACATAAGAGCCGGGAGGATCTAGCAGCTGCGGTATCTGTTAGCACTCAGTACCCTGCCTATGAGGAAGTGCTCCTTCAAGAGGgtaagataagtgcatatatatgggcactctggcacttcatagtcctgagg Alignment from Exonerate_protein2genome AGCCGAGCAAATGGCCAGTGTCCAGAATGCCCAGCGAGAGAACGCCGGGGACAGAGCAGACTTCTGGCGGATGCGTGGCCAGAGATCCAGCGGCGGCGTCAAGAAGAAC---CTCCGCAAGAGCCGGGAAGACCTGGCGGCTGCTGTATCGGTTAGCACCAAGTTCCCTGCCTACGAGAAGGTTCTGCTTCGGGAAG gttctaggtgagcttgacagaatatgagtgatatgttgcctctttcctagAGCTGAGCAAATAGCACAGTGTCCAAAATGCTCAACAGGAGAATCCTGGTGTCGAGCAGACTTCTGGCGAATGCATGGCCAGAGACCAAGCAGCTGCATTAAGAAGAACTTATTACATAAGAGCCGGGAGGATCTAGCAGCTGCGGTATCTGTTAGCACTCAGTACCCTGCCTATGAGGAAGTGCTCCTTCAAGAGGgtaagataagtgcatatatatgggcactctggcacttcatagtcctgagg Alignment from Exonerate_coding2genome AGCCGAGCAAATGGCCAGTGTCCAGAATGCCCAGCGAGAGAACGCCGGGGACAGAGCAGACTTCTGGCGGATGCGTGGCCAGAGATCCAGCGGCGGCGTCAAGAAGAAC---CTCCGCAAGAGCCGGGAAGACCTGGCGGCTGCTGTATCGGTTAGCACCAAGTTCCCTGCCTACGAGAAGGTTCTGCTTCGGGAAG gttctaggtgagcttgacagaatatgagtgatatgttgcctctttcctagAGCTGAGCAAATAGCACAGTGTCCAAAATGCTCAACAGGAGAATCCTGGTGTCGAGCAGACTTCTGGCGAATGCATGGCCAGAGACCAAGCAGCTGCATTAAGAAGAACTTATTACATAAGAGCCGGGAGGATCTAGCAGCTGCGGTATCTGTTAGCACTCAGTACCCTGCCTATGAGGAAGTGCTCCTTCAAGAGGgtaagataagtgcatatatatgggcactctggcacttcatagtcctgagg Alignment from GeneWise AGCCGAGCAAATGGCCAGTGTCCAGAATGCCCAGCGAGAGAACGCCGGGGACAGAGCAGACTTCTGGCGGATGCGTGGCCAGAGATCCAGCGGCGGCGTCAAGAAGAACCTC---CGCAAGAGCCGGGAAGACCTGGCGGCTGCTGTATCGGTTAGCACCAAGTTCCCTGCCTACGAGAAGGTTCTGCTTCGGGAAG gttctaggtgagcttgacagaatatgagtgatatgttgcctctttcctagAGCTGAGCAAATAGCACAGTGTCCAAAATGCTCAACAGGAGAATCCTGGTGTCGAGCAGACTTCTGGCGAATGCATGGCCAGAGACCAAGCAGCTGCATTAAGAAGAACTTATTACATAAGAGCCGGGAGGATCTAGCAGCTGCGGTATCTGTTAGCACTCAGTACCCTGCCTATGAGGAAGTGCTCCTTCAAGAGGgtaagataagtgcatatatatgggcactctggcacttcatagtcctgagg #### Tjp2_ID5278_9 --> 1 - 1 Original Alignment cTCAAGAGAGGAGACCTCAGGCAGACTATCC-AGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAg ttgttattcaataaagcattggccatattggtgggctctggaaccttcagcTCTAAAGAAGAGACATCAGGCAAACTGTCACAGAATGGGTGCCATGCCCACATCATTCAAATACACAG-TGACCTCACAGCTGCAGGAGTTATG---GCCAGTAAGGAGCCA---AATCAGCAAAAAGGCCCAggtgagttgttatgctattcttttatctatctaatacatagacaggttaga Alignment from CESAR cTCAAGAGAGGAGACCTCAGGCAGACTATCC-AGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAg ttgttattcaataaagcattggccatattggtgggctctggaaccttcagcTCTAAAGAAGAGACATCAGGCAAACTGTCACAGAATGGGTGCCATGCCCACATCATTCAAATACACA-GTGACCTCACAGCTGCAGGAGTTATG---GCCAGTAAGGAGCCAAAT---CAGCAAAAAGGCCCAggtgagttgttatgctattcttttatctatctaatacatagacaggttaga Alignment from Spaln_aa2Genome CTCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAG ttgttattcaataaagcattggccatattggtgggctctggaaccttcagCTCTAAAGAAGAGACATCAGGCAAACTGTCACAGAATGGGTGCCATGCCCACATCATTCAAATACACAGTGACCTCACAGCTGCAGGAGTTATG---GCCAGTAAGGAGCCAAAT---CAGCAAAAAGGCCCAGgtgagttgttatgctattcttttatctatctaatacatagacaggttaga Alignment from Spaln_nt2Genome CTCAAGAGAGGAGACCTCAGGCAGACTATC-CAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAG ttgttattcaataaagcattggccatattggtgggctctggaaccttcagCTCTAAAGAAGAGACATCAGGCAAACTGTCACAGAATGGGTGCCATGCCCACATCATTCAAATACAC-AGTGACCTCACAGCTGCAGGAGTTA---TGGCCAGTAAGGAGCCAA---ATCAGCAAAAAGGCCCAGgtgagttgttatgctattcttttatctatctaatacatagacaggttaga Alignment from Pairagon CTCAAGAGAGGAGACCTCAGGCAGACTATC-CAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAG ttgttattcaataaagcattggccatattggtgggctctggaaccttcagCTCTAAAGAAGAGACATCAGGCAAACTGTCACAGAATGGGTGCCATGCCCACATCATTCAAATACAC-AGTGACCTCACAGCTGCAGGAGTTAT---GGCCAGTAAGGAGCCAA---ATCAGCAAAAAGGCCCAGgtgagttgttatgctattcttttatctatctaatacatagacaggttaga Alignment from Exonerate_protein2genome CTCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAG ttgttattcaataaagcattggccatattggtgggctctggaaccttcagCTCTAAAGAAGAGACATCAGGCAAACTGTCACAGAATGGGTGCCATGCCCACATCATTCAAATACACAGTGACCTCACAGCTGCAGGAGTTATG---GCCAGTAAGGAGCCAAAT---CAGCAAAAAGGCCCAGgtgagttgttatgctattcttttatctatctaatacatagacaggttaga Alignment from Exonerate_coding2genome CTCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAG ttgttattcaataaagcattggccatattggtgggctctggaaccttcagCTCTAAAGAAGAGACATCAGGCAAACTGTCACAGAATGGGTGCCATGCCCACATCATTCAAATACACAGTGACCTCACAGCTGCAGGAGTTATG---GCCAGTAAGGAGCCAAAT---CAGCAAAAAGGCCCAGgtgagttgttatgctattcttttatctatctaatacatagacaggttaga Alignment from GeneWise CTCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAG ttgttattcaataaagcattggccatattggtgggctctggaaccttcagCTCTAAAGAAGAGACATCAGGCAAACTGTCACAGAATGGGTGCCATGCCCACATCATTCAAATACACAGTGACCTCACAGCTGCAGGAGTTATG---GCCAGTAAGGAGCCAAAT---CAGCAAAAAGGCCCAGgtgagttgttatgctattcttttatctatctaatacatagacaggttaga #### Tle4_ID3619_18 --> 0 - 1 Original Alignment ATCTTTTCATTGGGCTATTGC-CCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTg tttgcttcaagagaaggtgttgtcaaccacctcatggctttggttttcagATTTTTTCATTGGGATATTGCCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAGA-TAGCAATGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCagtaattatactcccaacatctagcttcacttactgtgaaataaacttact Alignment from CESAR ATCTTTTCATTGGGCTATTGC-CCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTg tttgcttcaagagaaggtgttgtcaaccacctcatggctttggttttcagATTTTTTCATTGGGATATTGCCCCAACTGGAAAGTGGCTTGCAGTGGGCATGG-AGATAGCAATGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCagtaattatactcccaacatctagcttcacttactgtgaaataaacttact Alignment from Spaln_aa2Genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcaagagaaggtgttgtcaaccacctcatggctttggttttcagATTTTTTCATTGGGATATTGCCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAGATAGCAATGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCAgtaattatactcccaacatctagcttcacttactgtgaaataaacttact Alignment from Spaln_nt2Genome ATCTTTTCATTGGGCTATTGCCC-AACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcaagagaaggtgttgtcaaccacctcatggctttggttttcagATTTTTTCATTGGGATATTGCCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAG-ATAGCAATGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCAgtaattatactcccaacatctagcttcacttactgtgaaataaacttact Alignment from Pairagon ATCTTTTCATTGGGCTATTG-CCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcaagagaaggtgttgtcaaccacctcatggctttggttttcagATTTTTTCATTGGGATATTGCCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAG-ATAGCAATGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCAgtaattatactcccaacatctagcttcacttactgtgaaataaacttact Alignment from Exonerate_protein2genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcaagagaaggtgttgtcaaccacctcatggctttggttttcagATTTTTTCATTGGGATATTGCCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAGATAGCAATGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCAgtaattatactcccaacatctagcttcacttactgtgaaataaacttact Alignment from Exonerate_coding2genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcaagagaaggtgttgtcaaccacctcatggctttggttttcagATTTTTTCATTGGGATATTGCCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAGATAGCAATGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCAgtaattatactcccaacatctagcttcacttactgtgaaataaacttact Alignment from GeneWise ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcaagagaaggtgttgtcaaccacctcatggctttggttttcagATTTTTTCATTGGGATATTGCCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAGATAGCAATGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCAgtaattatactcccaacatctagcttcacttactgtgaaataaacttact #### Tle4_ID3625_13 --> 2 - 0 Original Alignment caTCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATG-AGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttatctgtagctaaggcaagatgactgtcctacctctccccatactgcagctTCCAGCCTAAGGACTCCAGTAGCAGTACCTTGTCCATATCCAACACCATTTGGAATTGTGCCACATGCAGGAATGAATGGAGAGCTGACCAGCCCTGGGGCTGCTTATGGCGGGCTCCACAATGTCTCCCCCCAGATGCAGTGCTTCCACTGCTGCTGCCACAGCAGCAGCGG-TTATGGAAGATCACCTGTGgtaagtcctgcatatatataagtctgttaaagtgcaaagctaatacattt Alignment from CESAR caTCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATG-AGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttatctgtagctaaggcaagatgactgtcctacctctccccatactgcagctTCCAGCCTAAGGACTCCAGTAGCAGTACCTTGTCCATATCCAACACCATTTGGAATTGTGCCACATGCAGGAATGAATGGAGAGCTGACCAGCCCTGGGGCTGCTTATGGCGGGCTCCACAATGTCTCCCCCCAGATGCAGTGCTTCCACTGCTGCTGCCACAGCAGCAGCG-GTTATGGAAGATCACCTGTGgtaagtcctgcatatatataagtctgttaaagtgcaaagctaatacattt Alignment from Spaln_aa2Genome CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttatctgtagctaaggcaagatgactgtcctacctctccccatactgcagCTTCCAGCCTAAGGACTCCAGTAGCAGTACCTTGTCCATATCCAACACCATTTGGAATTGTGCCACATGCAGGAATGAATGGAGAGCTGACCAGCCCTGGGGCTGCTTATGGCGGGCTCCACAATGTCTCCCCCCAGATGCAGTGCTTCCACTGCTGCTGCCACAGCAGCAGCGGTTATGGAAGATCACCTGTGgtaagtcctgcatatatataagtctgttaaagtgcaaagctaatacattt Alignment from Spaln_nt2Genome CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATG-AGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttatctgtagctaaggcaagatgactgtcctacctctccccatactgcagCTTCCAGCCTAAGGACTCCAGTAGCAGTACCTTGTCCATATCCAACACCATTTGGAATTGTGCCACATGCAGGAATGAATGGAGAGCTGACCAGCCCTGGGGCTGCTTATGGCGGGCTCCACAATGTCTCCCCCCAGATGCAGTGCTTCCACTGCTGCTGCCACAGCAGCAGC-GGTTATGGAAGATCACCTGTGgtaagtcctgcatatatataagtctgttaaagtgcaaagctaatacattt Alignment from Pairagon CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATG-AGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttatctgtagctaaggcaagatgactgtcctacctctccccatactgcagCTTCCAGCCTAAGGACTCCAGTAGCAGTACCTTGTCCATATCCAACACCATTTGGAATTGTGCCACATGCAGGAATGAATGGAGAGCTGACCAGCCCTGGGGCTGCTTATGGCGGGCTCCACAATGTCTCCCCCCAGATGCAGTGCTTCCACTGCTGCTGCCACAGCAGCAGC-GGTTATGGAAGATCACCTGTGgtaagtcctgcatatatataagtctgttaaagtgcaaagctaatacattt Alignment from Exonerate_protein2genome CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttatctgtagctaaggcaagatgactgtcctacctctccccatactgcagCTTCCAGCCTAAGGACTCCAGTAGCAGTACCTTGTCCATATCCAACACCATTTGGAATTGTGCCACATGCAGGAATGAATGGAGAGCTGACCAGCCCTGGGGCTGCTTATGGCGGGCTCCACAATGTCTCCCCCCAGATGCAGTGCTTCCACTGCTGCTGCCACAGCAGCAGCGGTTATGGAAGATCACCTGTGgtaagtcctgcatatatataagtctgttaaagtgcaaagctaatacattt Alignment from Exonerate_coding2genome CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttatctgtagctaaggcaagatgactgtcctacctctccccatactgcagCTTCCAGCCTAAGGACTCCAGTAGCAGTACCTTGTCCATATCCAACACCATTTGGAATTGTGCCACATGCAGGAATGAATGGAGAGCTGACCAGCCCTGGGGCTGCTTATGGCGGGCTCCACAATGTCTCCCCCCAGATGCAGTGCTTCCACTGCTGCTGCCACAGCAGCAGCGGTTATGGAAGATCACCTGTGgtaagtcctgcatatatataagtctgttaaagtgcaaagctaatacattt Alignment from GeneWise CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttatctgtagctaaggcaagatgactgtcctacctctccccatactgcagCTTCCAGCCTAAGGACTCCAGTAGCAGTACCTTGTCCATATCCAACACCATTTGGAATTGTGCCACATGCAGGAATGAATGGAGAGCTGACCAGCCCTGGGGCTGCTTATGGCGGGCTCCACAATGTCTCCCCCCAGATGCAGTGCTTCCACTGCTGCTGCCACAGCAGCAGCGGTTATGGAAGATCACCTGTGgtaagtcctgcatatatataagtctgttaaagtgcaaagctaatacattt #### Tm7sf2_ID1411_9 --> 2 - 1 Original Alignment gtCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTT-CGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTg gttggctaggtctttgagggcttcaatcggtaaagccttcctttcttcaggtCTAGACACCATCCCCACTGCCACGGGTAGACATCTGCTTGTGTCTGGGTGGTGGGGCATGGTACCAGCATCCCAACTACCTGGGAGACCTCATCA-GGCTCTTGCATGGTCCTTGCCCTGCggtaatatgatggctacaatgtatcccaggactgagttcagtaggtggagg Alignment from CESAR gtCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTT-CGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTg gttggctaggtctttgagggcttcaatcggtaaagccttcctttcttcaggtCTAGACACCATCCCCACTGCCACGGGTAGACATCTGCTTGTGTCTGGGTGGTGGGGCATGGTACCAGCATCCCAACTACCTGGGAGACCTCATC-AGGCTCTTGCATGGTCCTTGCCCTGCggtaatatgatggctacaatgtatcccaggactgagttcagtaggtggagg Alignment from Spaln_aa2Genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG gttggctaggtctttgagggcttcaatcggtaaagccttcctttcttcagGTCTAGACACCATCCCCACTGCCACGGGTAGACATCTGCTTGTGTCTGGGTGGTGGGGCATGGTACCAGCATCCCAACTACCTGGGAGACCTCATCAGGCTCTTGCATGGTCCTTGCCCTGCGgtaatatgatggctacaatgtatcccaggactgagttcagtaggtggagg Alignment from Spaln_nt2Genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGA-CACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG gttggctaggtctttgagggcttcaatcggtaaagccttcctttcttcagGTCTAGACACCATCCCCACTGCCACGGGTAGACATCTGCTTGTGTCTGGGTGGTGGGGCATGGTACCAGCATCCCAACTACCTGGGAGACCTCATCA-GGCTCTTGCATGGTCCTTGCCCTGCGgtaatatgatggctacaatgtatcccaggactgagttcagtaggtggagg Alignment from Pairagon GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGA-CACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG gttggctaggtctttgagggcttcaatcggtaaagccttcctttcttcagGTCTAGACACCATCCCCACTGCCACGGGTAGACATCTGCTTGTGTCTGGGTGGTGGGGCATGGTACCAGCATCCCAACTACCTGGGAGACCTCATCA-GGCTCTTGCATGGTCCTTGCCCTGCGgtaatatgatggctacaatgtatcccaggactgagttcagtaggtggagg Alignment from Exonerate_protein2genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG gttggctaggtctttgagggcttcaatcggtaaagccttcctttcttcagGTCTAGACACCATCCCCACTGCCACGGGTAGACATCTGCTTGTGTCTGGGTGGTGGGGCATGGTACCAGCATCCCAACTACCTGGGAGACCTCATCAGGCTCTTGCATGGTCCTTGCCCTGCGgtaatatgatggctacaatgtatcccaggactgagttcagtaggtggagg Alignment from Exonerate_coding2genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG gttggctaggtctttgagggcttcaatcggtaaagccttcctttcttcagGTCTAGACACCATCCCCACTGCCACGGGTAGACATCTGCTTGTGTCTGGGTGGTGGGGCATGGTACCAGCATCCCAACTACCTGGGAGACCTCATCAGGCTCTTGCATGGTCCTTGCCCTGCGgtaatatgatggctacaatgtatcccaggactgagttcagtaggtggagg Alignment from GeneWise GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG gttggctaggtctttgagggcttcaatcggtaaagccttcctttcttcagGTCTAGACACCATCCCCACTGCCACGGGTAGACATCTGCTTGTGTCTGGGTGGTGGGGCATGGTACCAGCATCCCAACTACCTGGGAGACCTCATCAGGCTCTTGCATGGTCCTTGCCCTGCGgtaatatgatggctacaatgtatcccaggactgagttcagtaggtggagg #### Tm7sf2_ID1413_7 --> 0 - 1 Original Alignment GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCA-TTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGg aatgtcaagcttgctgctgtcaagggagtgttcatttttatttcctccagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTGGCTTCATGCTTGTCTTTGGAGATTTAGCTTGGATACCACCTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCACCCCC-ACCACTAGGATACCCAATGGCCTTACTCATCTGCCTGCTCCGGggtgagcattagatacccaaaatgctcaaccctgcaccaccacttatgttg Alignment from CESAR GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCA-TTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGg aatgtcaagcttgctgctgtcaagggagtgttcatttttatttcctccagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTGGCTTCATGCTTGTCTTTGGAGATTTAGCTTGGATACCACCTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCACCCCC-ACCACTAGGATACCCAATGGCCTTACTCATCTGCCTGCTCCGGggtgagcattagatacccaaaatgctcaaccctgcaccaccacttatgttg Alignment from Spaln_aa2Genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aatgtcaagcttgctgctgtcaagggagtgttcatttttatttcctccagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTGGCTTCATGCTTGTCTTTGGAGATTTAGCTTGGATACCACCTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCACCCCCACCACTAGGATACCCAATGGCCTTACTCATCTGCCTGCTCCGGGgtgagcattagatacccaaaatgctcaaccctgcaccaccacttatgttg Alignment from Spaln_nt2Genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCAT-TCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aatgtcaagcttgctgctgtcaagggagtgttcatttttatttcctccagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTGGCTTCATGCTTGTCTTTGGAGATTTAGCTTGGATACCACCTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCACCCCCA-CCACTAGGATACCCAATGGCCTTACTCATCTGCCTGCTCCGGGgtgagcattagatacccaaaatgctcaaccctgcaccaccacttatgttg Alignment from Pairagon GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCA-TTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aatgtcaagcttgctgctgtcaagggagtgttcatttttatttcctccagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTGGCTTCATGCTTGTCTTTGGAGATTTAGCTTGGATACCACCTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCACCCCCA-CCACTAGGATACCCAATGGCCTTACTCATCTGCCTGCTCCGGGgtgagcattagatacccaaaatgctcaaccctgcaccaccacttatgttg Alignment from Exonerate_protein2genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCA-TTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCAT--CCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aatgtcaagcttgctgctgtcaagggagtgttcatttttatttcctccagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTGGCTTCATGCTTGTCTTTGGAGATTTAGCTTGGATACCACCTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCACCCCCA---CCACTAGGATACCCAATGGCCTTACTCATCTGCCTGCTCCGGGgtgagcattagatacccaaaatgctcaaccctgcaccaccacttatgttg Alignment from Exonerate_coding2genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCA-TTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCAT--CCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aatgtcaagcttgctgctgtcaagggagtgttcatttttatttcctccagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTGGCTTCATGCTTGTCTTTGGAGATTTAGCTTGGATACCACCTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCACCCCCA---CCACTAGGATACCCAATGGCCTTACTCATCTGCCTGCTCCGGGgtgagcattagatacccaaaatgctcaaccctgcaccaccacttatgttg Alignment from GeneWise GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aatgtcaagcttgctgctgtcaagggagtgttcatttttatttcctccagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTGGCTTCATGCTTGTCTTTGGAGATTTAGCTTGGATACCACCTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCACCCCCACCACTAGGATACCCAATGGCCTTACTCATCTGCCTGCTCCGGGgtgagcattagatacccaaaatgctcaaccctgcaccaccacttatgttg #### Tm7sf2_ID1416_4 --> 2 - 1 Original Alignment gcTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACC-AGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAg ctttcctagtatgtgtactgcccctgagcattccttgttttctatttcaggtTACCAGGCTGTCGTTCTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGCTCCCCCTTGCGGGATTACCTGGAATGCTCCTGCCACTGGCCTTGGCAACCACTCTCACCCAGGTTTGTCTTCAGTCTACTACTCTACACAAAGGCTTTGG-AACACCTGCCTTAGCTCTGAACTCTGGGGGAAACTCAggtaagtagggtgccaaccaggtctcaacaggtgagggtatagagaatgtg Alignment from CESAR gcTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGC-TTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAg ctttcctagtatgtgtactgcccctgagcattccttgttttctatttcaggtTACCAGGCTGTCGTTCTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGCTCCCCCTTGCGGGATTACCTGGAATGCTCCTGCCACTGGCCTTGGCAACCACTCTCACCCAGGTTTGTCTTCAGTCTACTACTCTACACAAAGGCTTTG-GAACACCTGCCTTAGCTCTGAACTCTGGGGGAAACTCAggtaagtagggtgccaaccaggtctcaacaggtgagggtatagagaatgtg Alignment from Spaln_aa2Genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgcccctgagcattccttgttttctatttcagGTTACCAGGCTGTCGTTCTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGCTCCCCCTTGCGGGATTACCTGGAATGCTCCTGCCACTGGCCTTGGCAACCACTCTCACCCAGGTTTGTCTTCAGTCTACTACTCTACACAAAGGCTTTGGAACACCTGCCTTAGCTCTGAACTCTGGGGGAAACTCAGgtaagtagggtgccaaccaggtctcaacaggtgagggtatagagaatgtg Alignment from Spaln_nt2Genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACC-AGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgcccctgagcattccttgttttctatttcagGTTACCAGGCTGTCGTTCTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGCTCCCCCTTGCGGGATTACCTGGAATGCTCCTGCCACTGGCCTTGGCAACCACTCTCACCCAGGTTTGTCTTCAGTCTACTACTCTACACAAAGGCTTTGG-AACACCTGCCTTAGCTCTGAACTCTGGGGGAAACTCAGgtaagtagggtgccaaccaggtctcaacaggtgagggtatagagaatgtg Alignment from Pairagon GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCA-CCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgcccctgagcattccttgttttctatttcagGTTACCAGGCTGTCGTTCTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGCTCCCCCTTGCGGGATTACCTGGAATGCTCCTGCCACTGGCCTTGGCAACCACTCTCACCCAGGTTTGTCTTCAGTCTACTACTCTACACAAAGGCTTTGG-AACACCTGCCTTAGCTCTGAACTCTGGGGGAAACTCAGgtaagtagggtgccaaccaggtctcaacaggtgagggtatagagaatgtg Alignment from Exonerate_protein2genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgcccctgagcattccttgttttctatttcagGTTACCAGGCTGTCGTTCTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGCTCCCCCTTGCGGGATTACCTGGAATGCTCCTGCCACTGGCCTTGGCAACCACTCTCACCCAGGTTTGTCTTCAGTCTACTACTCTACACAAAGGCTTTGGAACACCTGCCTTAGCTCTGAACTCTGGGGGAAACTCAGgtaagtagggtgccaaccaggtctcaacaggtgagggtatagagaatgtg Alignment from Exonerate_coding2genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgcccctgagcattccttgttttctatttcagGTTACCAGGCTGTCGTTCTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGCTCCCCCTTGCGGGATTACCTGGAATGCTCCTGCCACTGGCCTTGGCAACCACTCTCACCCAGGTTTGTCTTCAGTCTACTACTCTACACAAAGGCTTTGGAACACCTGCCTTAGCTCTGAACTCTGGGGGAAACTCAGgtaagtagggtgccaaccaggtctcaacaggtgagggtatagagaatgtg Alignment from GeneWise GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtatgtgtactgcccctgagcattccttgttttctatttcagGTTACCAGGCTGTCGTTCTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGCTCCCCCTTGCGGGATTACCTGGAATGCTCCTGCCACTGGCCTTGGCAACCACTCTCACCCAGGTTTGTCTTCAGTCTACTACTCTACACAAAGGCTTTGGAACACCTGCCTTAGCTCTGAACTCTGGGGGAAACTCAGgtaagtagggtgccaaccaggtctcaacaggtgagggtatagagaatgtg #### Tm7sf2_ID1418_2 --> 2 - 0 Original Alignment gcGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCA-TGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG aggcattatactcatgctcccaatccaattgtgtgtctcttttgtcttaggtGTTGCAGCTTTGTTGATACTGCTGCCAGCCACCATGTCCCACTTCCTCCTTGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCAGCTTACCTACCTGGTCTGGAGGAGCTATGGAGCCCACTGGGCCCTGCTTCTCCTGTTCATCTGGCTTGGTCTGC-GGTGGCACTCTATCTGCTGCCTGCATGCAGGgtaagcgatctaccctgtgatatgacccatgtcctgtgtgcctctctgtt Alignment from CESAR gcGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCA-TGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG aggcattatactcatgctcccaatccaattgtgtgtctcttttgtcttaggtGTTGCAGCTTTGTTGATACTGCTGCCAGCCACCATGTCCCACTTCCTCCTTGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCAGCTTACCTACCTGGTCTGGAGGAGCTATGGAGCCCACTGGGCCCTGCTTCTCCTGTTCATCTGGCTTGGTCTG-CGGTGGCACTCTATCTGCTGCCTGCATGCAGGgtaagcgatctaccctgtgatatgacccatgtcctgtggtgtggttttcc Alignment from Spaln_aa2Genome GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG aggcattatactcatgctcccaatccaattgtgtgtctcttttgtcttagGTGTTGCAGCTTTGTTGATACTGCTGCCAGCCACCATGTCCCACTTCCTCCTTGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCAGCTTACCTACCTGGTCTGGAGGAGCTATGGAGCCCACTGGGCCCTGCTTCTCCTGTTCATCTGGCTTGGTCTGCGGTGGCACTCTATCTGCTGCCTGCATGCAGGgtaagcgatctaccctgtgatatgacccatgtcctgtgtgcctctctgtt Alignment from Spaln_nt2Genome GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCA-TGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG aggcattatactcatgctcccaatccaattgtgtgtctcttttgtcttagGTGTTGCAGCTTTGTTGATACTGCTGCCAGCCACCATGTCCCACTTCCTCCTTGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCAGCTTACCTACCTGGTCTGGAGGAGCTATGGAGCCCACTGGGCCCTGCTTCTCCTGTTCATCTGGCTTGGTCTGCG-GTGGCACTCTATCTGCTGCCTGCATGCAGGgtaagcgatctaccctgtgatatgacccatgtcctgtgtgcctctctgtt Alignment from Pairagon GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCA-TGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG aggcattatactcatgctcccaatccaattgtgtgtctcttttgtcttagGTGTTGCAGCTTTGTTGATACTGCTGCCAGCCACCATGTCCCACTTCCTCCTTGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCAGCTTACCTACCTGGTCTGGAGGAGCTATGGAGCCCACTGGGCCCTGCTTCTCCTGTTCATCTGGCTTGGTCTGC-GGTGGCACTCTATCTGCTGCCTGCATGCAGGgtaagcgatctaccctgtgatatgacccatgtcctgtgtgcctctctgtt Alignment from Exonerate_protein2genome GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCA-TGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTG--CAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG aggcattatactcatgctcccaatccaattgtgtgtctcttttgtcttagGTGTTGCAGCTTTGTTGATACTGCTGCCAGCCACCATGTCCCACTTCCTCCTTGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCAGCTTACCTACCTGGTCTGGAGGAGCTATGGAGCCCACTGGGCCCTGCTTCTCCTGTTCATCTGGCTTGGTCTGCG---GTGGCACTCTATCTGCTGCCTGCATGCAGGgtaagcgatctaccctgtgatatgacccatgtcctgtgtgcctctctgtt Alignment from Exonerate_coding2genome CTGCC aggcattatactcatgctcccaatccaattgtgtgtctcttttgtcttaggtgttgcagctttgttgatactgctgccagccaccatgtcccacttcctccttgctgctcactcagggccagcacgactactggccctaccagcttacctacctggtctggaggagctatggagcccactgggccctgcttctcctgttcatctggcttggtctgcggtggcactctatctgctgcctgcatgcagggtaagcgatctaccctgtgatatgacccatgtcctgtgtgcctctCTGTT Alignment from GeneWise GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGC-CCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAGGTG----------------------------------------------- aggcattatactcatgctcccaatccaattgtgtgtctcttttgtcttagGTGTTGCAGCTTTGTTGATACTGCTGCCAGCCACCATGTCCCACTTCCTCCTTGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCAGCTTACCTACCTGGTCTGGAGGAGCTATGGAGCCCACTGGGCCCTGCTTCTCCTGTTCATCTGGCTTGGTCTGCG-GTGGCACTCTATCTGCTGCCTGCATGCAGGGTAAGCGATCTACCCTGTGATATGACCCATGTCCTGTGTGCCTCTCTGTT #### Tm9sf3_ID8137_13 --> 1 - 2 Original Alignment gCAGTGGACGAGTTTC-CTGTCTGCGGCGTCGACCGCGATCTACGTTTACATGTACTCCTTTTACTACTACTTCTTCAAAACCaa agatgcccagttactttatttagcttaatctgataacttttcatctttaggCAGTGGACGAGTTTCCCTGTCTGCGGCCTCAACTGCTATCTATGTTTATATGTACT-CTTTTACTACTACTTCTTCAAAACCaagtgagtgtgcaatataagtatagagagatatccaacaaaaacagtgctag Alignment from CESAR gCAGTGGACGAGTTTC-CTGTCTGCGGCGTCGACCGCGATCTACGTTTACATGTACTCCTTTTACTACTACTTCTTCAAAACCaa agatgcccagttactttatttagcttaatctgataacttttcatctttaggCAGTGGACGAGTTTCCCTGTCTGCGGCCTCAACTGCTATCTATGTTTATATGTACTCTT-TTACTACTACTTCTTCAAAACCaagtgagtgtgcaatataagtatagagagatatccaacaaaaacagtgctag Alignment from Spaln_aa2Genome GCAGTGGACGAGTTTC-CTGTCTGCGGCGTCGACCGCGATCTACGTTTACATGTACTCCTTTTACTACTACTTCTTCAAAACCAA agatgcccagttactttatttagcttaatctgataacttttcatctttagGCAGTGGACGAGTTTCcCTGTCTGCGGCCTCAACTGCTATCTATGTTTATATGTACTC-TTTTACTACTACTTCTTCAAAACCAAgtgagtgtgcaatataagtatagagagatatccaacaaaaacagtgctag Alignment from Spaln_nt2Genome GCAGTGGACGAG-TTTCCTGTCTGCGGCGTCGACCGCGATCTACGTTTACATGTACTCCTTTTACTACTACTTCTTCAAAACCAA agatgcccagttactttatttagcttaatctgataacttttcatctttagGCAGTGGACGAGTTTCCCTGTCTGCGGCCTCAACTGCTATCTATGTTTATATGTACT-CTTTTACTACTACTTCTTCAAAACCAAgtgagtgtgcaatataagtatagagagatatccaacaaaaacagtgctag Alignment from Pairagon GCAGTGGACGAGTTT-CCTGTCTGCGGCGTCGACCGCGATCTACGTTTACATGTACTCCTTTTACTACTACTTCTTCAAAACCAA agatgcccagttactttatttagcttaatctgataacttttcatctttagGCAGTGGACGAGTTTCCCTGTCTGCGGCCTCAACTGCTATCTATGTTTATATGTACT-CTTTTACTACTACTTCTTCAAAACCAAgtgagtgtgcaatataagtatagagagatatccaacaaaaacagtgctag Alignment from Exonerate_protein2genome GCAGTGGACGAGTTTC-CTGTCTGCGGCGTCGACCGCGATCTACGTTTACATGTAC--TCCTTTTACTACTACTTCTTCAAAACCAA agatgcccagttactttatttagcttaatctgataacttttcatctttagGCAGTGGACGAGTTTCCCTGTCTGCGGCCTCAACTGCTATCTATGTTTATATGTACTC---TTTTACTACTACTTCTTCAAAACCAAgtgagtgtgcaatataagtatagagagatatccaacaaaaacagtgctag Alignment from Exonerate_coding2genome GCAGTGGACGAGTTTC-CTGTCTGCGGCGTCGACCGCGATCTACGTTTACATGTAC--TCCTTTTACTACTACTTCTTCAAAACCAA agatgcccagttactttatttagcttaatctgataacttttcatctttagGCAGTGGACGAGTTTCCCTGTCTGCGGCCTCAACTGCTATCTATGTTTATATGTACTC---TTTTACTACTACTTCTTCAAAACCAAgtgagtgtgcaatataagtatagagagatatccaacaaaaacagtgctag Alignment from GeneWise GCAGTGGACGAGTTTCCTGTCTGCGGCGTCGACCGCGATCTACGTTTACATGTACTCCTTTTACTACTACTTCTTCAAAACCAA agatgcccagttactttatttagcttaatctgataacttttcatctttagGCAGTGGACGAGTTTCCCTGTCTGCGGCCTCAACTGCTATCTATGTTTATATGTACTCTTTTACTACTACTTCTTCAAAACCAAgtgagtgtgcaatataagtatagagagatatccaacaaaaacagtgctag #### Tmem179b_ID2369_4 --> 1 - 0 Original Alignment cTGCTCTGAAGCCCAGAAAACCTCATGG-ACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ctacccttaccattcttattacacttatctgctctctctcccctctgcagcTGCTCTGAAGCACAGAAGACTGCTTGGCACACCTTCGGGAACTGCTGTGCAGCTTTACT-CAACCTACACACCGCCGAAgtgagatgcaggcgtccataaggagacatcaatacgcttggctctgtgct Alignment from CESAR cTGCTCTGAAGCCCAGAAAACCTCATGG-ACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ctacccttaccattcttattacacttatctgctctctctcccctctgcagcTGCTCTGAAGCACAGAAGACTGCTTGGCACACCTTCGGGAACTGCTGTGCAGCTTTACT-CAACCTACACACCGCCGAAgtgagatgcaggcgtccataaggagacatcaatacgcttggctctgtgct Alignment from Spaln_aa2Genome CTGCTCTGAAGCCCAGAAAACCTCATGG-ACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ctacccttaccattcttattacacttatctgctctctctcccctctgcagCTGCTCTGAAGCACAGAAGACTGCTTGGcACACCTTCGGGAACTGCTGTGCAGCTTTACTC-AACCTACACACCGCCGAAgtgagatgcaggcgtccataaggagacatcaatacgcttggctctgtgct Alignment from Spaln_nt2Genome CTGCTCTGAAGCCCAGAAAACCTCATGG-ACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ctacccttaccattcttattacacttatctgctctctctcccctctgcagCTGCTCTGAAGCACAGAAGACTGCTTGGCACACCTTCGGGAACTGCTGTGCAGCTTTACT-CAACCTACACACCGCCGAAgtgagatgcaggcgtccataaggagacatcaatacgcttggctctgtgct Alignment from Pairagon CTGCTCTGAAGCCCAGAAAACCTCATGG-ACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ctacccttaccattcttattacacttatctgctctctctcccctctgcagCTGCTCTGAAGCACAGAAGACTGCTTGGCACACCTTCGGGAACTGCTGTGCAGCTTTACT-CAACCTACACACCGCCGAAgtgagatgcaggcgtccataaggagacatcaatacgcttggctctgtgct Alignment from Exonerate_protein2genome CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ctacccttaccattcttattacacttatctgctctctctcccctctgcagCTGCTCTGAAGCACAGAAGACTGCTTGGCACACCTTCGGGAACTGCTGTGCAGCTTTACTCAACCTACACACCGCCGAAgtgagatgcaggcgtccataaggagacatcaatacgcttggctctgtgct Alignment from Exonerate_coding2genome CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ctacccttaccattcttattacacttatctgctctctctcccctctgcagCTGCTCTGAAGCACAGAAGACTGCTTGGCACACCTTCGGGAACTGCTGTGCAGCTTTACTCAACCTACACACCGCCGAAgtgagatgcaggcgtccataaggagacatcaatacgcttggctctgtgct Alignment from GeneWise CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ctacccttaccattcttattacacttatctgctctctctcccctctgcagCTGCTCTGAAGCACAGAAGACTGCTTGGCACACCTTCGGGAACTGCTGTGCAGCTTTACTCAACCTACACACCGCCGAAgtgagatgcaggcgtccataaggagacatcaatacgcttggctctgtgct #### Tmem179b_ID2370_3 --> 1 - 2 Original Alignment aGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTC-CTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTag caggttcactttgtggtaggttcttaattcccccacttccacccccacagaGGCTCTATAGGGCTCCGGATTGCTCTGGCCATCTCAGCTACAGCTATCTTCCCTAATTTTAGTATCTGCTTGCATAGTTCGATTTG-CACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTTACAATAaggtaggatgtagaataggtccactcagaggtgcaaactaaatttagttcct Alignment from CESAR aGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTC-CTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTag caggttcactttgtggtaggttcttaattcccccacttccacccccacagaGGCTCTATAGGGCTCCGGATTGCTCTGGCCATCTCAGCTACAGCTATCTTCCCTAATTTTAGTATCTGCTTGCATAGTTCGATTT-GCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTTACAATAaggtaggatgtagaataggtccactcagaggtgcaaactaaatttagttcct Alignment from Spaln_aa2Genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG caggttcactttgtggtaggttcttaattcccccacttccacccccacagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATCTCAGCTACAGCTATCTTCCCTAATTTTAGTATCTGCTTGCATAGTTCGATTTGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTTACAATAAGgtaggatgtagaataggtccactcagaggtgcaaactaaatttagttcct Alignment from Spaln_nt2Genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCC-TGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG caggttcactttgtggtaggttcttaattcccccacttccacccccacagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATCTCAGCTACAGCTATCTTCCCTAATTTTAGTATCTGCTTGCATAGTTCGATTT-GCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTTACAATAAGgtaggatgtagaataggtccactcagaggtgcaaactaaatttagttcct Alignment from Pairagon AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTT-CCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG caggttcactttgtggtaggttcttaattcccccacttccacccccacagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATCTCAGCTACAGCTATCTTCCCTAATTTTAGTATCTGCTTGCATAGTTCGATTT-GCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTTACAATAAGgtaggatgtagaataggtccactcagaggtgcaaactaaatttagttcct Alignment from Exonerate_protein2genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG caggttcactttgtggtaggttcttaattcccccacttccacccccacagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATCTCAGCTACAGCTATCTTCCCTAATTTTAGTATCTGCTTGCATAGTTCGATTTGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTTACAATAAGgtaggatgtagaataggtccactcagaggtgcaaactaaatttagttcct Alignment from Exonerate_coding2genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG caggttcactttgtggtaggttcttaattcccccacttccacccccacagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATCTCAGCTACAGCTATCTTCCCTAATTTTAGTATCTGCTTGCATAGTTCGATTTGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTTACAATAAGgtaggatgtagaataggtccactcagaggtgcaaactaaatttagttcct Alignment from GeneWise AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG caggttcactttgtggtaggttcttaattcccccacttccacccccacagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATCTCAGCTACAGCTATCTTCCCTAATTTTAGTATCTGCTTGCATAGTTCGATTTGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTTACAATAAGgtaggatgtagaataggtccactcagaggtgcaaactaaatttagttcct #### Tmem180_ID9861_3 --> 1 - 2 Original Alignment gTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTC-TGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTgg ggtacctaccttgttgtagactatccatctgccattgtcttttgtttcagaACAGGAGCGGGGCTCTCCTCAAGGGATGTAGTGCTAACCCGGGTGCGGTCACTAGGCTGGCATGGGCAACTGTGGGCATTGGCATTCCTTGCCTATCTGGGTATCTTGGGCACCTGCTGGTCTACAAT-CTTCTTGTGCCTCTGCCTCTATGATAGCTTCCTGACCCTTGCGGACCTCCACCATCACACTTTGTTAGCAGACTTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCTATTGCTCCCTTTTCAGTGCAGCTGGTTCATTATCTGTCTTCGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCGTTTTGTGTGGTGCTTGCTGCTGGATCTGGACTGGGCTTTCTCGGCACCACACAATTATTGAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTCTGGACCTAGATGGTgggtaagtcactacttcagctcaagctcctgaagccagtataaacatgatac Alignment from CESAR gTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTC-TGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTgg ggtacctaccttgttgtagactatccatctgccattgtcttttgtttcagaACAGGAGCGGGGCTCTCCTCAAGGGATGTAGTGCTAACCCGGGTGCGGTCACTAGGCTGGCATGGGCAACTGTGGGCATTGGCATTCCTTGCCTATCTGGGTATCTTGGGCACCTGCTGGTCTACAA-TCTTCTTGTGCCTCTGCCTCTATGATAGCTTCCTGACCCTTGCGGACCTCCACCATCACACTTTGTTAGCAGACTTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCTATTGCTCCCTTTTCAGTGCAGCTGGTTCATTATCTGTCTTCGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCGTTTTGTGTGGTGCTTGCTGCTGGATCTGGACTGGGCTTTCTCGGCACCACACAATTATTGAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTCTGGACCTAGATGGTgggtaagtcactacttcagctcaagctcctgaagccagtataaacatgatgt Alignment from Spaln_aa2Genome GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTGG ggtacctaccttgttgtagactatccatctgccattgtcttttgtttcagAACAGGAGCGGGGCTCTCCTCAAGGGATGTAGTGCTAACCCGGGTGCGGTCACTAGGCTGGCATGGGCAACTGTGGGCATTGGCATTCCTTGCCTATCTGGGTATCTTGGGCACCTGCTGGTCTACAATCTTCTTGTGCCTCTGCCTCTATGATAGCTTCCTGACCCTTGCGGACCTCCACCATCACACTTTGTTAGCAGACTTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCTATTGCTCCCTTTTCAGTGCAGCTGGTTCATTATCTGTCTTCGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCGTTTTGTGTGGTGCTTGCTGCTGGATCTGGACTGGGCTTTCTCGGCACCACACAATTATTGAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTCTGGACCTAGATGGTGGgtaagtcactacttcagctcaagctcctgaagccagtataaacatgatac Alignment from Spaln_nt2Genome GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCAT-TCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTGG ggtacctaccttgttgtagactatccatctgccattgtcttttgtttcagAACAGGAGCGGGGCTCTCCTCAAGGGATGTAGTGCTAACCCGGGTGCGGTCACTAGGCTGGCATGGGCAACTGTGGGCATTGGCATTCCTTGCCTATCTGGGTATCTTGGGCACCTGCTGGTCTACAA-TCTTCTTGTGCCTCTGCCTCTATGATAGCTTCCTGACCCTTGCGGACCTCCACCATCACACTTTGTTAGCAGACTTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCTATTGCTCCCTTTTCAGTGCAGCTGGTTCATTATCTGTCTTCGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCGTTTTGTGTGGTGCTTGCTGCTGGATCTGGACTGGGCTTTCTCGGCACCACACAATTATTGAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTCTGGACCTAGATGGTGGgtaagtcactacttcagctcaagctcctgaagccagtataaacatgatac Alignment from Pairagon GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCAT-TCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTGG ggtacctaccttgttgtagactatccatctgccattgtcttttgtttcagAACAGGAGCGGGGCTCTCCTCAAGGGATGTAGTGCTAACCCGGGTGCGGTCACTAGGCTGGCATGGGCAACTGTGGGCATTGGCATTCCTTGCCTATCTGGGTATCTTGGGCACCTGCTGGTCTACAA-TCTTCTTGTGCCTCTGCCTCTATGATAGCTTCCTGACCCTTGCGGACCTCCACCATCACACTTTGTTAGCAGACTTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCTATTGCTCCCTTTTCAGTGCAGCTGGTTCATTATCTGTCTTCGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCGTTTTGTGTGGTGCTTGCTGCTGGATCTGGACTGGGCTTTCTCGGCACCACACAATTATTGAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTCTGGACCTAGATGGTGGgtaagtcactacttcagctcaagctcctgaagccagtataaacatgatac Alignment from Exonerate_protein2genome GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTC-TGGGTGCCCTGGGCCCCTGCTGGCTTGCAA--TTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTGG ggtacctaccttgttgtagactatccatctgccattgtcttttgtttcagAACAGGAGCGGGGCTCTCCTCAAGGGATGTAGTGCTAACCCGGGTGCGGTCACTAGGCTGGCATGGGCAACTGTGGGCATTGGCATTCCTTGCCTATCTGGGTATCTTGGGCACCTGCTGGTCTACAATCTTC---TTGTGCCTCTGCCTCTATGATAGCTTCCTGACCCTTGCGGACCTCCACCATCACACTTTGTTAGCAGACTTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCTATTGCTCCCTTTTCAGTGCAGCTGGTTCATTATCTGTCTTCGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCGTTTTGTGTGGTGCTTGCTGCTGGATCTGGACTGGGCTTTCTCGGCACCACACAATTATTGAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTCTGGACCTAGATGGTGGgtaagtcactacttcagctcaagctcctgaagccagtataaacatgatac Alignment from Exonerate_coding2genome GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTC-TGGGTGCCCTGGGCCCCTGCTGGCTTGCAA--TTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTGG ggtacctaccttgttgtagactatccatctgccattgtcttttgtttcagAACAGGAGCGGGGCTCTCCTCAAGGGATGTAGTGCTAACCCGGGTGCGGTCACTAGGCTGGCATGGGCAACTGTGGGCATTGGCATTCCTTGCCTATCTGGGTATCTTGGGCACCTGCTGGTCTACAATCTTC---TTGTGCCTCTGCCTCTATGATAGCTTCCTGACCCTTGCGGACCTCCACCATCACACTTTGTTAGCAGACTTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCTATTGCTCCCTTTTCAGTGCAGCTGGTTCATTATCTGTCTTCGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCGTTTTGTGTGGTGCTTGCTGCTGGATCTGGACTGGGCTTTCTCGGCACCACACAATTATTGAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTCTGGACCTAGATGGTGGgtaagtcactacttcagctcaagctcctgaagccagtataaacatgatac Alignment from GeneWise GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTGG ggtacctaccttgttgtagactatccatctgccattgtcttttgtttcagAACAGGAGCGGGGCTCTCCTCAAGGGATGTAGTGCTAACCCGGGTGCGGTCACTAGGCTGGCATGGGCAACTGTGGGCATTGGCATTCCTTGCCTATCTGGGTATCTTGGGCACCTGCTGGTCTACAATCTTCTTGTGCCTCTGCCTCTATGATAGCTTCCTGACCCTTGCGGACCTCCACCATCACACTTTGTTAGCAGACTTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCTATTGCTCCCTTTTCAGTGCAGCTGGTTCATTATCTGTCTTCGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCGTTTTGTGTGGTGCTTGCTGCTGGATCTGGACTGGGCTTTCTCGGCACCACACAATTATTGAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTCTGGACCTAGATGGTGGgtaagtcactacttcagctcaagctcctgaagccagtataaacatgatac #### Trpt1_ID1981_4 --> 0 - 1 Original Alignment GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCA---CAA------GCCCTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCAC-TGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCg gaatgttagaggggaacttctctgctgctcttgttttattacgaacccagGTCCCTGAGTTGGAGCTTACACCCCTGGACACACCACAACAAGCCCTGCCCCTGCCCCTAGCACTAGTCCATGGCACATTCTGGACAAATCACCTGGCCATCCATTTTGCTCAAGGGG---TCACATCAAG-AAGGACATGCAATCATCTCGCTTCAGGATTGCCA---GACCCAGGCACCATCAGTggtaagatctaattaccctatcatgatgcatggatagacagagcctcattt Alignment from CESAR GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAA---GCCCTGCCCTTG------ACACTAGTCCATGGTACATTCTGG---AAGCAC-TGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCg gaatgttagaggggaacttctctgctgctcttgttttattacgaacccagGTCCCTGAGTTGGAGCTTACACCCCTGGACACACCACAACAAGCCCTGCCCCTGCCCCTAGCACTAGTCCATGGCACATTCTGGACAAATCACCTGGCCATCCATTTTGCTCAAGGGG---TCACATCAAG-AAGGACATGCAATCATCTCGCTTCAGGATTGCCA---GACCCAGGCACCATCAGTggtaagatctaattaccctatcatgatgcatggatagacagagcctcattt Alignment from Spaln_aa2Genome GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAA---------GCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gaatgttagaggggaacttctctgctgctcttgttttattacgaacccagGTCCCTGAGTTGGAGCTTACACCCCTGGACACACCACAACAAGCCCTGCCCCTGCCCCTAGCACTAGTCCATGGCACATTCTGGACAAATCACCTGGCCATCCATTTTGCTCAAGGGGTCACATCAAGAAGGACATGCAATCATCTCGCTTCAGGATTGCCA---GACCCAGGCACCATCAGTGgtaagatctaattaccctatcatgatgcatggatagacagagcctcattt Alignment from Spaln_nt2Genome GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAA---GCCCTGCCCTTGAC------ACTAGTCCATGGTACATTCTGGA---AGCAC-TGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gaatgttagaggggaacttctctgctgctcttgttttattacgaacccagGTCCCTGAGTTGGAGCTTACACCCCTGGACACACCACAACAAGCCCTGCCCCTGCCCCTAGCACTAGTCCATGGCACATTCTGGACAAATCACCTGGCCATCCATTTTGCTCAAGGG---GTCACATCAA-GAAGGACATGCAATCATCTCGCTTCAGGATTGCC---AGACCCAGGCACCATCAGTGgtaagatctaattaccctatcatgatgcatggatagacagagcctcattt Alignment from Pairagon GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAA---------GCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCA----CTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gaatgttagaggggaacttctctgctgctcttgttttattacgaacccagGTCCCTGAGTTGGAGCTTACACCCCTGGACACACCACAACAAGCCCTGCCCCTGCCCCTAGCACTAGTCCATGGCACATTCTGGACAAATCACCTGGCCATCCATTTTGCTCAAGGG---GTCACATCAA-GAAGGACATGCAATCATCTCGCTTCAGGATTGCC---AGACCCAGGCACCATCAGTGgtaagatctaattaccctatcatgatgcatggatagacagagcctcattt Alignment from Exonerate_protein2genome GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAA---------GCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gaatgttagaggggaacttctctgctgctcttgttttattacgaacccagGTCCCTGAGTTGGAGCTTACACCCCTGGACACACCACAACAAGCCCTGCCCCTGCCCCTAGCACTAGTCCATGGCACATTCTGGACAAATCACCTGGCCATCCATTTTGCTCAAGGGGTCACATCAAGAAGGACATGCAATCATCTCGCTTCAGGATTGCCA---GACCCAGGCACCATCAGTGgtaagatctaattaccctatcatgatgcatggatagacagagcctcattt Alignment from Exonerate_coding2genome GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAA---------GCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCGGC gaatgttagaggggaacttctctgctgctcttgttttattacgaacccagGTCCCTGAGTTGGAGCTTACACCCCTGGACACACCACAACAAGCCCTGCCCCTGCCCCTAGCACTAGTCCATGGCACATTCTGGACAAATCACCTGGCCATCCATTTTGCTCAAGGGGTCACATCAAGAAGGACATGCAATCATCTCGCTTCAGGATTGCCA---GACCCAGGCACCATCAGTGGTaagatctaattaccctatcatgatgcatggatagacagagcctcattt Alignment from GeneWise GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAAGCC---------CTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gaatgttagaggggaacttctctgctgctcttgttttattacgaacccagGTCCCTGAGTTGGAGCTTACACCCCTGGACACACCACAACAAGCCCTGCCCCTGCCCCTAGCACTAGTCCATGGCACATTCTGGACAAATCACCTGGCCATCCATTTTGCTCAAGGGGTCACATCAAGA---AGGACATGCAATCATCTCGCTTCAGGATTGCCA---GACCCAGGCACCATCAGTGgtaagatctaattaccctatcatgatgcatggatagacagagcctcattt #### Tsga10ip_ID978_2 --> 0 - 2 Original Alignment ACCAACGCCAGA-CTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACag atttaaaacaaggacagatcttacttcactgagcctggccccgcctccagACTAATGCCTGTCCTTACAGGAAATTGGCGGTTCTCCCAGGTTTTAT-TGGACTAGGTGTAGATGATGATCAGCTACTAGCTGAGGCAGGCATTGCTGAAAGCACTCCCCAGAAGCACaggtgggtgatgtaaggcactggtctactatatcaagtcacatgtcctgccc Alignment from CESAR ACCAACGCCAGA-CTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACag atttaaaacaaggacagatcttacttcactgagcctggccccgcctccagACTAATGCCTGTCCTTACAGGAAATTGGCGGTTCTCCCAGGTTTTA-TTGGACTAGGTGTAGATGATGATCAGCTACTAGCTGAGGCAGGCATTGCTGAAAGCACTCCCCAGAAGCACaggtgggtgatgtaaggcactggtctactatatcaagtcacatgtcctgccc Alignment from Spaln_aa2Genome CAGACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG atttaaaacaaggacagatcttacttcactgagcctggccccgcctccagactaATGCCTGTC------CTTACAGGAAATTGGCGGTTCTCCCAGGTTTTATT-GGACTAGGTGTAGATGATGATCAGCTACTAGCTGAGGCAGGCATTGCTGAAAGCACTCCCCAGAAGCACAGgtgggtgatgtaaggcactggtctactatatcaagtcacatgtcctgccc Alignment from Spaln_nt2Genome ACCAACGCCAGAC-TCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG atttaaaacaaggacagatcttacttcactgagcctggccccgcctccagACTAATGCCTGTCCTTACAGGAAATTGGCGGTTCTCCCAGGTTTTAT-TGGACTAGGTGTAGATGATGATCAGCTACTAGCTGAGGCAGGCATTGCTGAAAGCACTCCCCAGAAGCACAGgtgggtgatgtaaggcactggtctactatatcaagtcacatgtcctgccc Alignment from Pairagon CAGACCAACGCCAG-ACTCACTGCAAATCGGCGCTTCTCCCAGGT-------GCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG atttaaaacaaggacagatcttacttcactgagcctggccccgcctcCAGACTAATGCCTGTCCTTACAGGAAATTGGCGGTTCTCCCAGGTTTTATTGG--------ACTAGGTGTAGATGATGATCAGCTACTAGCTGAGGCAGGCATTGCTGAAAGCACTCCCCAGAAGCACAGgtgggtgatgtaaggcactggtctactatatcaagtcacatgtcctgccc Alignment from Exonerate_protein2genome GCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG atttaaaacaaggacagatcttacttcactgagcctggccccgcctccagactaatgcctgtccttacaggaaattggcggttctcccaggttttattGGACTAGGTGTAGATGATGATCAGCTACTAGCTGAGGCAGGCATTGCTGAAAGCACTCCCCAGAAGCACAGgtgggtgatgtaaggcactggtctactatatcaagtcacatgtcctgccc Alignment from Exonerate_coding2genome GCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG atttaaaacaaggacagatcttacttcactgagcctggccccgcctccagactaatgcctgtccttacaggaaattggcggttctcccaggttttattGGACTAGGTGTAGATGATGATCAGCTACTAGCTGAGGCAGGCATTGCTGAAAGCACTCCCCAGAAGCACAGgtgggtgatgtaaggcactggtctactatatcaagtcacatgtcctgccc Alignment from GeneWise CAGACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG atttaaaacaaggacagatcttacttcactgagcctggccccgcctcCAGACTAATGCCTGTCCTTACAGGAAATTGGCGGTTCTCCCAGGTTTTATTGGACTAGGTGTAGATGATGATCAGCTACTAGCTGAGGCAGGCATTGCTGAAAGCACTCCCCAGAAGCACAGgtgggtgatgtaaggcactggtctactatatcaagtcacatgtcctgccc #### Uhrf2_ID6376_7 --> 1 - 0 Original Alignment gTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCTGGA-GAGAGACTCAAGCTGAGTAAGAAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG ctcattttcttaccagttttaatgaagtcattttttttttttaattttaggTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTAGTAAAGGCTGGACGAGAGGCTCAAGCTGACCAAGAAAAAATTGA-GATGCCTTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaggtgaatccttacactattatcaccactttgtcagcagttgaaaaag Alignment from CESAR gTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCTGGA-GAGAGACTCAAGCTGAGTAAGAAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG ctcattttcttaccagttttaatgaagtcattttttttttttaattttaggTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTAGTAAAGGCTGGACGAGAGGCTCAAGCTGACCAAGAAAAAA-TTGAGATGCCTTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaggtgaatccttacactattatcaccactttgtcagcagttgaaaaag Alignment from Spaln_aa2Genome GTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCTGGAGAGAGACTCAAGCTGAGTAAGAAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG ctcattttcttaccagttttaatgaagtcattttttttttttaattttagGTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTAGTAAAGGCTGGACGAGAGGCTCAAGCTGACCAAGAAAAAATTGAGATGCCTTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaggtgaatccttacactattatcaccactttgtcagcagttgaaaaag Alignment from Spaln_nt2Genome GTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCTGGA-GAGAGACTCAAGCTGAGTAAGAAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG ctcattttcttaccagttttaatgaagtcattttttttttttaattttagGTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTAGTAAAGGCTGGACGAGAGGCTCAAGCTGACCAAGAAAAAATTG-AGATGCCTTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaggtgaatccttacactattatcaccactttgtcagcagttgaaaaag Alignment from Pairagon GTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCTGGA-GAGAGACTCAAGCTGAGTAAGAAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG ctcattttcttaccagttttaatgaagtcattttttttttttaattttagGTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTAGTAAAGGCTGGACGAGAGGCTCAAGCTGACCAAGAAAAAATTG-AGATGCCTTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaggtgaatccttacactattatcaccactttgtcagcagttgaaaaag Alignment from Exonerate_protein2genome GTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCTGGAGAGAGACTCAAGCTGAGTAAGAAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG ctcattttcttaccagttttaatgaagtcattttttttttttaattttagGTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTAGTAAAGGCTGGACGAGAGGCTCAAGCTGACCAAGAAAAAATTGAGATGCCTTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaggtgaatccttacactattatcaccactttgtcagcagttgaaaaag Alignment from Exonerate_coding2genome GTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCTGGAGAGAGACTCAAGCTGAGTAAGAAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG ctcattttcttaccagttttaatgaagtcattttttttttttaattttagGTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTAGTAAAGGCTGGACGAGAGGCTCAAGCTGACCAAGAAAAAATTGAGATGCCTTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaggtgaatccttacactattatcaccactttgtcagcagttgaaaaag Alignment from GeneWise GTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCTGGAGAGAGACTCAAGCTGAGTAAGAAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG ctcattttcttaccagttttaatgaagtcattttttttttttaattttagGTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTAGTAAAGGCTGGACGAGAGGCTCAAGCTGACCAAGAAAAAATTGAGATGCCTTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaggtgaatccttacactattatcaccactttgtcagcagttgaaaaag #### Unc93b1_ID214_5 --> 1 - 0 Original Alignment gATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAG-CGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC gaggaaaaaactgtcatagtgagcagcttctatctctgtttcctccacaggATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACCGCCCACCACATGGACTACACACACCTTTTCTGCTGGTCT-CCATACTAACTTTTACAGTTTCTTGCATgtaagagtgcttcaggaagcccttgtagtgggtgggcataagaaactggg Alignment from CESAR gATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAG-CGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC gaggaaaaaactgtcatagtgagcagcttctatctctgtttcctccacaggATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACCGCCCACCACATGGACTACACACACCTTTTCTGCTGG-TCTCCATACTAACTTTTACAGTTTCTTGCATgtaagagtgcttcaggaagcccttgtagtgggtgggcataagaaactggg Alignment from Spaln_aa2Genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCACTTGAGCTTCGCGTGTGCCCAGCTGCCC gaggaaaaaactgtcatagtgagcagcttctatctctgtttcctccacagGATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACCGCCCACCACATGGACTACACACACCTTTTCTGCTGGTCTCCATACTAACTTTTACAGTTTCTTGCATGTAAGAGTGCTTCAGGAAGCCCTTGTAgtgggtgggcataagaaactggg Alignment from Spaln_nt2Genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGC-GCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC gaggaaaaaactgtcatagtgagcagcttctatctctgtttcctccacagGATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACCGCCCACCACATGGACTACACACACCTTTTCTGCTGG-TCTCCATACTAACTTTTACAGTTTCTTGCATgtaagagtgcttcaggaagcccttgtagtgggtgggcataagaaactggg Alignment from Pairagon GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAG-CGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC gaggaaaaaactgtcatagtgagcagcttctatctctgtttcctccacagGATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACCGCCCACCACATGGACTACACACACCTTTTCTGCTGG-TCTCCATACTAACTTTTACAGTTTCTTGCATgtaagagtgcttcaggaagcccttgtagtgggtgggcataagaaactggg Alignment from Exonerate_protein2genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCACTTGAGCTTCGCGTGTGCCCAGCTGCCC gaggaaaaaactgtcatagtgagcagcttctatctctgtttcctccacagGATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACCGCCCACCACATGGACTACACACACCTTTTCTGCTGGTCTCCATACTAACTTTTACAGTTTCTTGCATGTAAGAGTGCTTCAGGAAGCCCTTGTAgtgggtgggcataagaaactggg Alignment from Exonerate_coding2genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCACTTGAGCTTCGCGTGTGCCCAGCTGCCC gaggaaaaaactgtcatagtgagcagcttctatctctgtttcctccacagGATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACCGCCCACCACATGGACTACACACACCTTTTCTGCTGGTCTCCATACTAACTTTTACAGTTTCTTGCATGTAAGAGTGCTTCAGGAAGCCCTTGTAgtgggtgggcataagaaactggg Alignment from GeneWise GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC gaggaaaaaactgtcatagtgagcagcttctatctctgtttcctccacagGATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACCGCCCACCACATGGACTACACACACCTTTTCTGCTGGTCTCCATACTAACTTTTACAGTTTCTTGCATgtaagagtgcttcaggaagcccttgtagtgggtgggcataagaaactggg #### Unc93b1_ID215_6 --> 0 - 1 Original Alignment TTGAGCTTCGCG-TGTGCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCg cctgctgcaatgacagacctctctaataatttgttcgtttctctctccagTTGAGCTTC---CTTTGCTCAG------ATGATTTACTTCCTCAACAATTATTTGT-TGACCTAAACCATACACTTATCAATGTACAGATATGTggtaggtttgtgataacctagtaagttagtctttgttccatattcagtcca Alignment from CESAR TTGAGCTTCGCGTGTGCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCg cctgctgcaatgacagacctctctaataatttgttcgtttctctctccagTTGAGCTTCCTTT--GCTCAG------ATGATTTACTTCCTCAACAATTATTTG-TTGACCTAAACCATACACTTATCAATGTACAGATATGTggtaggtttgtgataacctagtaagttagtctttgttccatattcagtcca Alignment from Spaln_aa2Genome ATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG cctgctgcaatgacagacctctctaataatttgttcgtttctctctccagttgagcttcctttgctcagATGATTTACTTCCTCAACAATTATTTGTT-GACCTAAACCATACACTTATCAATGTACAGATATGTGgtaggtttgtgataacctagtaagttagtctttgttccatattcagtcca Alignment from Spaln_nt2Genome TTGAGCTTCGCGTGTGCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG cctgctgcaatgacagacctctctaataatttgttcgtttctctctccagTTGAGCTT--CCTTTGCTCAG------ATGATTTACTTCCTCAACAATTATTTGT-TGACCTAAACCATACACTTATCAATGTACAGATATGTGgtaggtttgtgataacctagtaagttagtctttgttccatattcagtcca Alignment from Pairagon TTGAGCTTCGCGTGTGCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG cctgctgcaatgacagacctctctaataatttgttcgtttctctctccagTTGAGCTT--CCTTTGCTCAG------ATGATTTACTTCCTCAACAATTATTTGT-TGACCTAAACCATACACTTATCAATGTACAGATATGTGgtaggtttgtgataacctagtaagttagtctttgttccatattcagtcca Alignment from Exonerate_protein2genome ATGATTTACTTCCTCAACAACTACCTG--TATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG cctgctgcaatgacagacctctctaataatttgttcgtttctctctccagttgagcttcctttgctcagATGATTTACTTCCTCAACAATTATTTGTT---GACCTAAACCATACACTTATCAATGTACAGATATGTGgtaggtttgtgataacctagtaagttagtctttgttccatattcagtcca Alignment from Exonerate_coding2genome ATGATTTACTTCCTCAACAACTACCTG--TATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG cctgctgcaatgacagacctctctaataatttgttcgtttctctctccagttgagcttcctttgctcagATGATTTACTTCCTCAACAATTATTTGTT---GACCTAAACCATACACTTATCAATGTACAGATATGTGgtaggtttgtgataacctagtaagttagtctttgttccatattcagtcca Alignment from GeneWise ATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG cctgctgcaatgacagacctctctaataatttgttcgtttctctctccagttgagcttcctttgctcagATGATTTACTTCCTCAACAATTATTTGTT-GACCTAAACCATACACTTATCAATGTACAGATATGTGgtaggtttgtgataacctagtaagttagtctttgttccatattcagtcca #### Vegfb_ID1956_4 --> 0 - 2 Original Alignment ATCCTCATGATCCAGTACCCG-AGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCag aagtttatctcttagcttcttagaaacataatattttaaaaatttttcagATCCTCATGATCCAGTACCCACAGCAGTCAGCTGGGGGAGATGTCCCTGGAAG-ACACAGCCAATGTGAATGCaggtgagagacagtctcagtacccatggtctggcatgtgttagggccatttg Alignment from CESAR ATCCTCATGATCCAGTACCCG-AGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCag aagtttatctcttagcttcttagaaacataatattttaaaaatttttcagATCCTCATGATCCAGTACCCACAGCAGTCAGCTGGGGGAGATGTCCCTGGAAG-ACACAGCCAATGTGAATGCaggtgagagacagtctcagtacccatggtctggcatgtgttagggccatttg Alignment from Spaln_aa2Genome ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG aagtttatctcttagcttcttagaaacataatattttaaaaatttttcagATCCTCATGATCCAGTACCCACAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGACACAGCCAATGTGAATGCAGgtgagagacagtctcagtacccatggtctggcatgtgttagggccatttg Alignment from Spaln_nt2Genome ATCCTCATGATCCAGTA-CCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG aagtttatctcttagcttcttagaaacataatattttaaaaatttttcagATCCTCATGATCCAGTACCCACAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGA-CACAGCCAATGTGAATGCAGgtgagagacagtctcagtacccatggtctggcatgtgttagggccatttg Alignment from Pairagon ATCCTCATGATCCAGTACCCG-AGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG aagtttatctcttagcttcttagaaacataatattttaaaaatttttcagATCCTCATGATCCAGTACCCACAGCAGTCAGCTGGGGGAGATGTCCCTGGAAG-ACACAGCCAATGTGAATGCAGgtgagagacagtctcagtacccatggtctggcatgtgttagggccatttg Alignment from Exonerate_protein2genome ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG aagtttatctcttagcttcttagaaacataatattttaaaaatttttcagATCCTCATGATCCAGTACCCACAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGACACAGCCAATGTGAATGCAGgtgagagacagtctcagtacccatggtctggcatgtgttagggccatttg Alignment from Exonerate_coding2genome ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG aagtttatctcttagcttcttagaaacataatattttaaaaatttttcagATCCTCATGATCCAGTACCCACAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGACACAGCCAATGTGAATGCAGgtgagagacagtctcagtacccatggtctggcatgtgttagggccatttg Alignment from GeneWise ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG aagtttatctcttagcttcttagaaacataatattttaaaaatttttcagATCCTCATGATCCAGTACCCACAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGACACAGCCAATGTGAATGCAGgtgagagacagtctcagtacccatggtctggcatgtgttagggccatttg #### Vldlr_ID5817_16 --> 2 - 1 Original Alignment gtACTTCAACTCCTGTGACTTACAGTGAGACA-AAAGATATCAACACAACAGACATTCTACGAACTAGTGGACTGGTTCCTGGAg ttcagattgtgcattttaatctgacatactgtgttccattttctccacaggtACTCTAACTCCCGTGACCTATAGTGAAACACAAAGACATCAACACAGCAGTCATTCTTCAAA-TAGTGGACTCGTCCCTGGAggtaagtcatagaaaactttattgtgtagctaggccatacatgagtcctca Alignment from CESAR gtACTTCAACTCCTGTGACTTACAGTGAGACA-AAAGATATCAACACAACAGACATTCTACGAACTAGTGGACTGGTTCCTGGAg ttcagattgtgcattttaatctgacatactgtgttccattttctccacaggtACTCTAACTCCCGTGACCTATAGTGAAACACAAAGACATCAACACAGCAGTCATTCTTC-AAATAGTGGACTCGTCCCTGGAggtaagtcatagaaaactttattgtgtagctaggccatacatgagtcctca Alignment from Spaln_aa2Genome GTACTTCAACTCCTGTGACTTACAGTGAGACAAAAGATATCAACACAACAGACATTCTACGAACTAGTGGACTGGTTCCTGGAG ttcagattgtgcattttaatctgacatactgtgttccattttctccacagGTACTCTAACTCCCGTGACCTATAGTGAAACACAAAGACATCAACACAGCAGTCATTCTTCAAATAGTGGACTCGTCCCTGGAGgtaagtcatagaaaactttattgtgtagctaggccatacatgagtcctca Alignment from Spaln_nt2Genome GTACTTCAACTCCTGTGACTTACAGTGAGACA-AAAGATATCAACACAACAGACATTCTACGAACTAGTGGACTGGTTCCTGGAG ttcagattgtgcattttaatctgacatactgtgttccattttctccacagGTACTCTAACTCCCGTGACCTATAGTGAAACACAAAGACATCAACACAGCAGTCATTCTTC-AAATAGTGGACTCGTCCCTGGAGgtaagtcatagaaaactttattgtgtagctaggccatacatgagtcctca Alignment from Pairagon GTACTTCAACTCCTGTGACTTACAGTGAGACA-AAAGATATCAACACAACAGACATTCTACGAACTAGTGGACTGGTTCCTGGAG ttcagattgtgcattttaatctgacatactgtgttccattttctccacagGTACTCTAACTCCCGTGACCTATAGTGAAACACAAAGACATCAACACAGCAGTCATTCTTCAAA-TAGTGGACTCGTCCCTGGAGgtaagtcatagaaaactttattgtgtagctaggccatacatgagtcctca Alignment from Exonerate_protein2genome GTACTTCAACTCCTGTGACTTACAGTGAGACAAAAGATATCAACACAACAGACATTCTACGAACTAGTGGACTGGTTCCTGGAG ttcagattgtgcattttaatctgacatactgtgttccattttctccacagGTACTCTAACTCCCGTGACCTATAGTGAAACACAAAGACATCAACACAGCAGTCATTCTTCAAATAGTGGACTCGTCCCTGGAGgtaagtcatagaaaactttattgtgtagctaggccatacatgagtcctca Alignment from Exonerate_coding2genome ttcagattgtgcattttaatctgacatactgtgttccattttctccacaggtactctaactcccgtgacctatagtgaaacacaaagacatcaacacagcagtcattcttcaaatagtggactcgtccctggaggtaagtcatagaaaactttattgtgtagctaggccatacatgagtcctca Alignment from GeneWise GTACTTCAACTCCTGTGACTTACAGTGAGACAAAAGATATCAACACAACAGACATTCTACGAACTAGTGGACTGGTTCCTGGAG ttcagattgtgcattttaatctgacatactgtgttccattttctccacagGTACTCTAACTCCCGTGACCTATAGTGAAACACAAAGACATCAACACAGCAGTCATTCTTCAAATAGTGGACTCGTCCCTGGAGgtaagtcatagaaaactttattgtgtagctaggccatacatgagtcctca #### Vps13a_ID4067_56 --> 0 - 0 Original Alignment GTT---------CGTTTAACACCTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAA-GTAGAATATAACACATCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG tcacaaaaacacacaacaaccaaatcgctttcttgttaatattcctacagGTTCATGTAACACGTCTAACCCCTAGTGGCAATGATATGAGGATTTTGCAAACTCGCCTTATACCTGTGCGTAGAAACTATCTTCCAGCGCTAAAGCATAGCATACAATACAATAGTACATCAGTGGACATTTCGGA-TCAGATTTACAGGATTCAGgtaaagttgagaatggaatgaggacaagaatgacaccatgagtccttatc Alignment from CESAR GTT---------CGTTTAACACCTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAA-GTAGAATATAACACATCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG tcacaaaaacacacaacaaccaaatcgctttcttgttaatattcctacagGTTCATGTAACACGTCTAACCCCTAGTGGCAATGATATGAGGATTTTGCAAACTCGCCTTATACCTGTGCGTAGAAACTATCTTCCAGCGCTAAAGCATAGCATACAATACAATAGTACATCAGTGGACATTTCGGA-TCAGATTTACAGGATTCAGgtaaagttgagaatggaatgaggacaagaatgacaccatgagtccttatc Alignment from Spaln_aa2Genome GTTCGTTTAACACCT---------AGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAAGTAGAATATAACACATCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG tcacaaaaacacacaacaaccaaatcgctttcttgttaatattcctacagGTTCATGTAACACGTCTAACCCCTAGTGGCAATGATATGAGGATTTTGCAAACTCGCCTTATACCTGTGCGTAGAAACTATCTTCCAGCGCTAAAGCATAGCATACAATACAATAGTACATCAGTGGACATTTCGGATCAGATTTACAGGATTCAGgtaaagttgagaatggaatgaggacaagaatgacaccatgagtccttatc Alignment from Spaln_nt2Genome GTTCGTTTAACAC---------CTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAAG-TAGAATATAACACATCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG tcacaaaaacacacaacaaccaaatcgctttcttgttaatattcctacagGTTCATGTAACACGTCTAACCCCTAGTGGCAATGATATGAGGATTTTGCAAACTCGCCTTATACCTGTGCGTAGAAACTATCTTCCAGCGCTAAAGCATAGCATACAATACAATAGTACATCAGTGGACATTTCGGA-TCAGATTTACAGGATTCAGgtaaagttgagaatggaatgaggacaagaatgacaccatgagtccttatc Alignment from Pairagon GTT---------CGTTTAACACCTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAA-GTAGAATATAACACATCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG tcacaaaaacacacaacaaccaaatcgctttcttgttaatattcctacagGTTCATGTAACACGTCTAACCCCTAGTGGCAATGATATGAGGATTTTGCAAACTCGCCTTATACCTGTGCGTAGAAACTATCTTCCAGCGCTAAAGCATAGCATACAATACAATAGTACATCAGTGGACATTTCGGA-TCAGATTTACAGGATTCAGgtaaagttgagaatggaatgaggacaagaatgacaccatgagtccttatc Alignment from Exonerate_protein2genome GTT---CGTTTAACACCTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAAGTAGAATATAACACATCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG tcacaaaaacacacaacaaccaaatcgctttcttgttaatattcctacaggttcatGTAACACGTCTAACCCCTAGTGGCAATGATATGAGGATTTTGCAAACTCGCCTTATACCTGTGCGTAGAAACTATCTTCCAGCGCTAAAGCATAGCATACAATACAATAGTACATCAGTGGACATTTCGGATCAGATTTACAGGATTCAGgtaaagttgagaatggaatgaggacaagaatgacaccatgagtccttatc Alignment from Exonerate_coding2genome GTT---CGTTTAACACCTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAAGTAGAATATAACACATCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG tcacaaaaacacacaacaaccaaatcgctttcttgttaatattcctacaggttcatGTAACACGTCTAACCCCTAGTGGCAATGATATGAGGATTTTGCAAACTCGCCTTATACCTGTGCGTAGAAACTATCTTCCAGCGCTAAAGCATAGCATACAATACAATAGTACATCAGTGGACATTTCGGATCAGATTTACAGGATTCAGgtaaagttgagaatggaatgaggacaagaatgacaccatgagtccttatc Alignment from GeneWise ---------GTTCGTTTAACACCTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAA------GTAGAATATAACACATCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG tcacaaaaacacacaacaaccaaatcgctttcttgttaatattcctacagGTTCATGTAACACGTCTAACCCCTAGTGGCAATGATATGAGGATTTTGCAAACTCGCCTTATACCTGTGCGTAGAAACTATCTTCCAGCGCTAAAGCATAGCATACAATACAATAGTACATCAGTGGACATTTCGGAT------CAGATTTACAGGATTCAGgtaaagttgagaatggaatgaggacaagaatgacaccatgagtccttatc #### Vps13a_ID4093_30 --> 2 - 1 Original Alignment ctTTAAAGCTACCCACGAATGAA-GATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAg gtcatctgttagtaaatcttctggtaccaacaccttctctttgcttttagctTTAAAGGTACCTATAAATGAACGACATTATTACATTGCAGCTTGTGGCAGAACTATCATGTT-AAAAATTCTCATCCAGGATCAGAAACAGAATGTATCAGAAATTAAAATCGAAggtaagcatatctatttcctgttaaaagataaacaaaattcaaaaggcagc Alignment from CESAR ctTTAAAGCTACCCACGAATGAA-GATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAg gtcatctgttagtaaatcttctggtaccaacaccttctctttgcttttagctTTAAAGGTACCTATAAATGAACGACATTATTACATTGCAGCTTGTGGCAGAACTATCAT-GTTAAAAATTCTCATCCAGGATCAGAAACAGAATGTATCAGAAATTAAAATCGAAggtaagcatatctatttcctgttaaaagataaacaaaattcaaaaggcagc Alignment from Spaln_aa2Genome CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG gtcatctgttagtaaatcttctggtaccaacaccttctctttgcttttagCTTTAAAGGTACCTATAAATGAACGACATTATTACATTGCAGCTTGTGGCAGAACTATCATGTTAAAAATTCTCATCCAGGATCAGAAACAGAATGTATCAGAAATTAAAATCGAAGgtaagcatatctatttcctgttaaaagataaacaaaattcaaaaggcagc Alignment from Spaln_nt2Genome CTTTAAAGCTACCCACGAATGAA-GATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG gtcatctgttagtaaatcttctggtaccaacaccttctctttgcttttagCTTTAAAGGTACCTATAAATGAACGACATTATTACATTGCAGCTTGTGGCAGAACTATCATGT-TAAAAATTCTCATCCAGGATCAGAAACAGAATGTATCAGAAATTAAAATCGAAGgtaagcatatctatttcctgttaaaagataaacaaaattcaaaaggcagc Alignment from Pairagon CTTTAAAGCTACCCACGAATGAA-GATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG gtcatctgttagtaaatcttctggtaccaacaccttctctttgcttttagCTTTAAAGGTACCTATAAATGAACGACATTATTACATTGCAGCTTGTGGCAGAACTATCATGT-TAAAAATTCTCATCCAGGATCAGAAACAGAATGTATCAGAAATTAAAATCGAAGgtaagcatatctatttcctgttaaaagataaacaaaattcaaaaggcagc Alignment from Exonerate_protein2genome CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG gtcatctgttagtaaatcttctggtaccaacaccttctctttgcttttagCTTTAAAGGTACCTATAAATGAACGACATTATTACATTGCAGCTTGTGGCAGAACTATCATGTTAAAAATTCTCATCCAGGATCAGAAACAGAATGTATCAGAAATTAAAATCGAAGgtaagcatatctatttcctgttaaaagataaacaaaattcaaaaggcagc Alignment from Exonerate_coding2genome CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG gtcatctgttagtaaatcttctggtaccaacaccttctctttgcttttagCTTTAAAGGTACCTATAAATGAACGACATTATTACATTGCAGCTTGTGGCAGAACTATCATGTTAAAAATTCTCATCCAGGATCAGAAACAGAATGTATCAGAAATTAAAATCGAAGgtaagcatatctatttcctgttaaaagataaacaaaattcaaaaggcagc Alignment from GeneWise CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG gtcatctgttagtaaatcttctggtaccaacaccttctctttgcttttagCTTTAAAGGTACCTATAAATGAACGACATTATTACATTGCAGCTTGTGGCAGAACTATCATGTTAAAAATTCTCATCCAGGATCAGAAACAGAATGTATCAGAAATTAAAATCGAAGgtaagcatatctatttcctgttaaaagataaacaaaattcaaaaggcagc #### Vps13a_ID4119_4 --> 2 - 1 Original Alignment gtAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTAT-ACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTa ctggcgagtcctcattccataaaaacccttttctacctttttcaaaacaggtAGCCTTAGACTTAAAATCCCATGGAAAAACCTTTATCACTCAACCTGTTGGAGCAGTTCTGGAAGAAATCTTTTTAC-CATAGTACCTTCTTCTagtgagtcacttaaagtaggtcatacagcttttgctttttcccgggtataa Alignment from CESAR gtAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTAT-ACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTa ctggcgagtcctcattccataaaaacccttttctacctttttcaaaacaggtAGCCTTAGACTTAAAATCCCATGGAAAAACCTTTATCACTCAACCTGTTGGAGCAGTTCTGGAAGAAATCTTTTTA-CCATAGTACCTTCTTCTagtgagtcacttaaagtaggtcatacagcttttgctttttcccgggtataa Alignment from Spaln_aa2Genome GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTAT-ACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA ctggcgagtcctcattccataaaaacccttttctacctttttcaaaacagGTAGCCTTAGACTTAAAATCCCATGGAAAAACCTTTATcACTCAACCTGTTGGAGCAGTTCTGGAAGAAATCTTTTTACC-ATAGTACCTTCTTCTAgtgagtcacttaaagtaggtcatacagcttttgctttttcccgggtataa Alignment from Spaln_nt2Genome GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTAT-ACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA ctggcgagtcctcattccataaaaacccttttctacctttttcaaaacagGTAGCCTTAGACTTAAAATCCCATGGAAAAACCTTTATCACTCAACCTGTTGGAGCAGTTCTGGAAGAAATCTTTTTAC-CATAGTACCTTCTTCTAgtgagtcacttaaagtaggtcatacagcttttgctttttcccgggtataa Alignment from Pairagon GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTAT-ACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA ctggcgagtcctcattccataaaaacccttttctacctttttcaaaacagGTAGCCTTAGACTTAAAATCCCATGGAAAAACCTTTATCACTCAACCTGTTGGAGCAGTTCTGGAAGAAATCTTTTTAC-CATAGTACCTTCTTCTAgtgagtcacttaaagtaggtcatacagcttttgctttttcccgggtataa Alignment from Exonerate_protein2genome GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA ctggcgagtcctcattccataaaaacccttttctacctttttcaaaacagGTAGCCTTAGACTTAAAATCCCATGGAAAAACCTTTATCACTCAACCTGTTGGAGCAGTTCTGGAAGAAATCTTTTTACCATAGTACCTTCTTCTAgtgagtcacttaaagtaggtcatacagcttttgctttttcccgggtataa Alignment from Exonerate_coding2genome ctggcgagtcctcattccataaaaacccttttctacctttttcaaaacaggtagccttagacttaaaatcccatggaaaaacctttatcactcaacctgttggagcagttctggaagaaatctttttaccatagtaccttcttctagtgagtcacttaaagtaggtcatacagcttttgctttttcccgggtataa Alignment from GeneWise GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA ctggcgagtcctcattccataaaaacccttttctacctttttcaaaacagGTAGCCTTAGACTTAAAATCCCATGGAAAAACCTTTATCACTCAACCTGTTGGAGCAGTTCTGGAAGAAATCTTTTTACCATAGTACCTTCTTCTAgtgagtcacttaaagtaggtcatacagcttttgctttttcccgggtataa #### Wdr74_ID2312_2 --> 2 - 0 Original Alignment ggGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCG-TCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttggtgtattcagccacctcagtatgagctgactcctgtctccacagggGTGAACCTTCAGCGTAAACACACAGCCAATTTTGCTCCACTTGGGACAACCACGGAGGGAGCAGGCTGTGAATGCTCTGT-CTGGGGTACCGGCAGTGAGACCCAAgtacggaggccatatctctgtaaaaggcgcaagagctgtagaatttccga Alignment from CESAR ggGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCG-TCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttggtgtattcagccacctcagtatgagctgactcctgtctccacagggGTGAACCTTCAGCGTAAACACACAGCCAATTTTGCTCCACTTGGGACAACCACGGAGGGAGCAGGCTGTGAATGCTCTG-TCTGGGGTACCGGCAGTGAGACCCAAgtacggaggccatatctctgtaaaaggcgcaagagctgtagaatttccga Alignment from Spaln_aa2Genome GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttggtgtattcagccacctcagtatgagctgactcctgtctccacagGGGTGAACCTTCAGCGTAAACACACAGCCAATTTTGCTCCACTTGGGACAACCACGGAGGGAGCAGGCTGTGAATGCTCTGTCTGGGGTACCGGCAGTGAGACCCAAgtacggaggccatatctctgtaaaaggcgcaagagctgtagaatttccga Alignment from Spaln_nt2Genome GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCG-TCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttggtgtattcagccacctcagtatgagctgactcctgtctccacagGGGTGAACCTTCAGCGTAAACACACAGCCAATTTTGCTCCACTTGGGACAACCACGGAGGGAGCAGGCTGTGAATGCTCTGT-CTGGGGTACCGGCAGTGAGACCCAAgtacggaggccatatctctgtaaaaggcgcaagagctgtagaatttccga Alignment from Pairagon GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCC-----GGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttggtgtattcagccacctcagtatgagctgactcctgtctccacagGGGTGAACCTTCAGCGTAAACACACAGCCAATTTTGC----TCCACTTGGGACAACCACGGAGGGAGCAGGCTGTGAATGCTCTGT-CTGGGGTACCGGCAGTGAGACCCAAgtacggaggccatatctctgtaaaaggcgcaagagctgtagaatttccga Alignment from Exonerate_protein2genome GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttggtgtattcagccacctcagtatgagctgactcctgtctccacagGGGTGAACCTTCAGCGTAAACACACAGCCAATTTTGCTCCACTTGGGACAACCACGGAGGGAGCAGGCTGTGAATGCTCTGTCTGGGGTACCGGCAGTGAGACCCAAgtacggaggccatatctctgtaaaaggcgcaagagctgtagaatttccga Alignment from Exonerate_coding2genome GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttggtgtattcagccacctcagtatgagctgactcctgtctccacagGGGTGAACCTTCAGCGTAAACACACAGCCAATTTTGCTCCACTTGGGACAACCACGGAGGGAGCAGGCTGTGAATGCTCTGTCTGGGGTACCGGCAGTGAGACCCAAgtacggaggccatatctctgtaaaaggcgcaagagctgtagaatttccga Alignment from GeneWise ----------------------------------------------------GTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA AAGTTGGTGTATTCAGCCACCTCAGTATGAGCTGACTCCTGTCTCCACAGGGGTGAACCTTCAGCGTAAACACACAGCCAATTTTGCTCCACTTGGGACAACCACGGAGGGAGCAGGCTGTGAATGCTCTGTCTGGGGTACCGGCAGTGAGACCCAAgtacggaggccatatctctgtaaaaggcgcaagagctgtagaatttccga #### Wdr74_ID2313_3 --> 0 - 2 Original Alignment ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTT-AATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGATgg tacattcttctctcaccctactcagctccactgctcgctccctccctcagGTACTAGTGGGCTGTGCAGACAGAACTGTAAGGTATTTTCAATGCAAAGGAAGGCACATTCCTAAGAC-GAGATACTGCCCAGGTGGGGAAGGGACATTCCGAGGTCTCACCCAAGTGGATgggtacctgtcactgatagtcttgcctggaatgtctaaagtgtggtgtactc Alignment from CESAR ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTT-AATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGATgg tacattcttctctcaccctactcagctccactgctcgctccctccctcagGTACTAGTGGGCTGTGCAGACAGAACTGTAAGGTATTTTCAATGCAAAGGAAGGCACATTCCTAAGA-CGAGATACTGCCCAGGTGGGGAAGGGACATTCCGAGGTCTCACCCAAGTGGATgggtacctgtcactgatagtcttgcctggaatgtctaaagtgtggtgtactc Alignment from Spaln_aa2Genome ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGATGG tacattcttctctcaccctactcagctccactgctcgctccctccctcagGTACTAGTGGGCTGTGCAGACAGAACTGTAAGGTATTTTCAATGCAAAGGAAGGCACATTCCTAAGACGAGATACTGCCCAGGTGGGGAAGGGACATTCCGAGGTCTCACCCAAGTGGATGGgtacctgtcactgatagtcttgcctggaatgtctaaagtgtggtgtactc Alignment from Spaln_nt2Genome ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTAC-TTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGATGG tacattcttctctcaccctactcagctccactgctcgctccctccctcagGTACTAGTGGGCTGTGCAGACAGAACTGTAAGGTATTTTCAATGCAAAGGAAGGCACATTCCTAAGAC-GAGATACTGCCCAGGTGGGGAAGGGACATTCCGAGGTCTCACCCAAGTGGATGGgtacctgtcactgatagtcttgcctggaatgtctaaagtgtggtgtactc Alignment from Pairagon ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTT-AATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGATGG tacattcttctctcaccctactcagctccactgctcgctccctccctcagGTACTAGTGGGCTGTGCAGACAGAACTGTAAGGTATTTTCAATGCAAAGGAAGGCACATTCCTAAGAC-GAGATACTGCCCAGGTGGGGAAGGGACATTCCGAGGTCTCACCCAAGTGGATGGgtacctgtcactgatagtcttgcctggaatgtctaaagtgtggtgtactc Alignment from Exonerate_protein2genome ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGATGG tacattcttctctcaccctactcagctccactgctcgctccctccctcagGTACTAGTGGGCTGTGCAGACAGAACTGTAAGGTATTTTCAATGCAAAGGAAGGCACATTCCTAAGACGAGATACTGCCCAGGTGGGGAAGGGACATTCCGAGGTCTCACCCAAGTGGATGGgtacctgtcactgatagtcttgcctggaatgtctaaagtgtggtgtactc Alignment from Exonerate_coding2genome ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGATGG tacattcttctctcaccctactcagctccactgctcgctccctccctcagGTACTAGTGGGCTGTGCAGACAGAACTGTAAGGTATTTTCAATGCAAAGGAAGGCACATTCCTAAGACGAGATACTGCCCAGGTGGGGAAGGGACATTCCGAGGTCTCACCCAAGTGGATGGgtacctgtcactgatagtcttgcctggaatgtctaaagtgtggtgtactc Alignment from GeneWise ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGATGG tacattcttctctcaccctactcagctccactgctcgctccctccctcagGTACTAGTGGGCTGTGCAGACAGAACTGTAAGGTATTTTCAATGCAAAGGAAGGCACATTCCTAAGACGAGATACTGCCCAGGTGGGGAAGGGACATTCCGAGGTCTCACCCAAGTGGATGGgtacctgtcactgatagtcttgcctggaatgtctaaagtgtggtgtactc #### Wdr74_ID2319_9 --> 2 - 0 Original Alignment ggCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCA-TGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtattccgccaaacactggttttgtttgttcttaggcAGGCTAGTCGGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGTTGCATTGCCATCCTTCAAAGCCCCTATTGGCTTCACTGTGGCCTGGACAGAATACTGAGGATGCACA-GATACGCAACCCTTGCGGTGTGGAGCACAAGgtgacttcgagcaaacgttacttagtagttctagtagtagggctatgaca Alignment from CESAR ggCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCA-TGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtattccgccaaacactggttttgtttgttcttaggcAGGCTAGTCGGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGTTGCATTGCCATCCTTCAAAGCCCCTATTGGCTTCACTGTGGCCTGGACAGAATACTGAGGATGCACA-GATACGCAACCCTTGCGGTGTGGAGCACAAGgtgacttcgagcaaacgttacttagtagttctagtagtagggctatgaca Alignment from Spaln_aa2Genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtattccgccaaacactggttttgtttgttcttagGCAGGCTAGTCGGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGTTGCATTGCCATCCTTCAAAGCCCCTATTGGCTTCACTGTGGCCTGGACAGAATACTGAGGATGCACAGATACGCAACCCTTGCGGTGTGGAGCACAAGgtgacttcgagcaaacgttacttagtagttctagtagtagggctatgaca Alignment from Spaln_nt2Genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCA-TGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtattccgccaaacactggttttgtttgttcttagGCAGGCTAGTCGGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGTTGCATTGCCATCCTTCAAAGCCCCTATTGGCTTCACTGTGGCCTGGACAGAATACTGAGGATGCACA-GATACGCAACCCTTGCGGTGTGGAGCACAAGgtgacttcgagcaaacgttacttagtagttctagtagtagggctatgaca Alignment from Pairagon GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCA-TGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtattccgccaaacactggttttgtttgttcttagGCAGGCTAGTCGGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGTTGCATTGCCATCCTTCAAAGCCCCTATTGGCTTCACTGTGGCCTGGACAGAATACTGAGGATGCACA-GATACGCAACCCTTGCGGTGTGGAGCACAAGgtgacttcgagcaaacgttacttagtagttctagtagtagggctatgaca Alignment from Exonerate_protein2genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtattccgccaaacactggttttgtttgttcttagGCAGGCTAGTCGGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGTTGCATTGCCATCCTTCAAAGCCCCTATTGGCTTCACTGTGGCCTGGACAGAATACTGAGGATGCACAGATACGCAACCCTTGCGGTGTGGAGCACAAGgtgacttcgagcaaacgttacttagtagttctagtagtagggctatgaca Alignment from Exonerate_coding2genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtattccgccaaacactggttttgtttgttcttagGCAGGCTAGTCGGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGTTGCATTGCCATCCTTCAAAGCCCCTATTGGCTTCACTGTGGCCTGGACAGAATACTGAGGATGCACAGATACGCAACCCTTGCGGTGTGGAGCACAAGgtgacttcgagcaaacgttacttagtagttctagtagtagggctatgaca Alignment from GeneWise TCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtattccgccaaacactggttttgtttgttcttaggcagGCTAGTCGGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGTTGCATTGCCATCCTTCAAAGCCCCTATTGGCTTCACTGTGGCCTGGACAGAATACTGAGGATGCACAGATACGCAACCCTTGCGGTGTGGAGCACAAGgtgacttcgagcaaacgttacttagtagttctagtagtagggctatgaca #### Wnt8b_ID9022_5 --> 2 - 0 Original Alignment ggGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTG-GGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggattcccatggcttatatacaacattgctgactgctttccagggGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCACGGCTTTGGAGAGGCAATTTCCAAGCAAT-TGTTGATGTTCTCAAGTCAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCACAAGgtatggccaataatggttgatggcatgcatcatgagacctgttaatgtag Alignment from CESAR ggGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTG-GGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggattcccatggcttatatacaacattgctgactgctttccagggGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCACGGCTTTGGAGAGGCAATTTCCAAGCAA-TTGTTGATGTTCTCAAGTCAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCACAAGgtatggccaataatggttgatggcatgcatcatgagacctgttaatgtag Alignment from Spaln_aa2Genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggattcccatggcttatatacaacattgctgactgctttccagGGGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCACGGCTTTGGAGAGGCAATTTCCAAGCAATTGTTGATGTTCTCAAGTCAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCACAAGgtatggccaataatggttgatggcatgcatcatgagacctgttaatgtag Alignment from Spaln_nt2Genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTG-GGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggattcccatggcttatatacaacattgctgactgctttccagGGGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCACGGCTTTGGAGAGGCAATTTCCAAGCA-ATTGTTGATGTTCTCAAGTCAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCACAAGgtatggccaataatggttgatggcatgcatcatgagacctgttaatgtag Alignment from Pairagon GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTG-GGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggattcccatggcttatatacaacattgctgactgctttccagGGGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCACGGCTTTGGAGAGGCAATTTCCAAGCAA-TTGTTGATGTTCTCAAGTCAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCACAAGgtatggccaataatggttgatggcatgcatcatgagacctgttaatgtag Alignment from Exonerate_protein2genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggattcccatggcttatatacaacattgctgactgctttccagGGGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCACGGCTTTGGAGAGGCAATTTCCAAGCAATTGTTGATGTTCTCAAGTCAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCACAAGgtatggccaataatggttgatggcatgcatcatgagacctgttaatgtag Alignment from Exonerate_coding2genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggattcccatggcttatatacaacattgctgactgctttccagGGGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCACGGCTTTGGAGAGGCAATTTCCAAGCAATTGTTGATGTTCTCAAGTCAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCACAAGgtatggccaataatggttgatggcatgcatcatgagacctgttaatgtag Alignment from GeneWise GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggattcccatggcttatatacaacattgctgactgctttccagGGGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCACGGCTTTGGAGAGGCAATTTCCAAGCAATTGTTGATGTTCTCAAGTCAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCACAAGgtatggccaataatggttgatggcatgcatcatgagacctgttaatgtag #### Yif1a_ID830_2 --> 2 - 0 Original Alignment gtTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGT-GGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG CTGCACCGTTTTGTGTCCGT gacactgcagacactgaatttttaattgggctttcttctcttatccctaggcTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTTTTTGATGACACAAGTGGTCGGGTATTCCAGCCAACTGGGAGGGTACCCAGCACCAG-AGCTGATGTGGCTTTCAGTGTCAATAACCTACTTGGAGACCCATTGGCTAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAGGGGAAGGACATTGTGCACAAAGAGgtgagttgtccagtcctccttccctgacagCTACACCGTTTTGTGTCTGT Alignment from CESAR gtTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGT-GGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG CTGCACCGTTTTGTGTCCGT gacactgcagacactgaatttttaattgggctttcttctcttatccctaggcTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTTTTTGATGACACAAGTGGTCGGGTATTCCAGCCAACTGGGAGGGTACCCAGCACCA-GAGCTGATGTGGCTTTCAGTGTCAATAACCTACTTGGAGACCCATTGGCTAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAGGGGAAGGACATTGTGCACAAAGAGgtgagctgtctcaccatctcccgtccacagCTACACCGTTTTGTGTCTGT Alignment from Spaln_aa2Genome GTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG------------------------------CTGCACCGTTTTGTGTCCGT gacactgcagacactgaatttttaattgggctttcttctcttatccctagGCTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTTTTTGATGACACAAGTGGTCGGGTATTCCAGCCAACTGGGAGGGTACCCAGCACCAGAGCTGATGTGGCTTTCAGTGTCAATAACCTACTTGGAGACCCATTGGCTAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAGGGGAAGGACATTGTGCACAAAGAGGTGAGTTGTCCAGTCCTCCTTCCCTGACAGCTACACCGTTTTGTGTCTGT Alignment from Spaln_nt2Genome GTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGT-GGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAG------------------------------AGCTGCACCGTTTTGTGTCCGT gacactgcagacactgaatttttaattgggctttcttctcttatccctagGCTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTTTTTGATGACACAAGTGGTCGGGTATTCCAGCCAACTGGGAGGGTACCCAGCACCA-GAGCTGATGTGGCTTTCAGTGTCAATAACCTACTTGGAGACCCATTGGCTAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAGGGGAAGGACATTGTGCACAAAGAGGTGAGTTGTCCAGTCCTCCTTCCCTGACAGCTACACCGTTTTGTGTCTGT Alignment from Pairagon GTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGT-GGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG CTGCACCGTTTTGTGTCCGT gacactgcagacactgaatttttaattgggctttcttctcttatccctagGCTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTTTTTGATGACACAAGTGGTCGGGTATTCCAGCCAACTGGGAGGGTACCCAGCACCA-GAGCTGATGTGGCTTTCAGTGTCAATAACCTACTTGGAGACCCATTGGCTAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAGGGGAAGGACATTGTGCACAAAGAGgtgagttgtccagtcctccttccctgacagCTACACCGTTTTGTGTCTGT Alignment from Exonerate_protein2genome GTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG CTGCACCGTTTTGTGTCCGT gacactgcagacactgaatttttaattgggctttcttctcttatccctagGCTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTTTTTGATGACACAAGTGGTCGGGTATTCCAGCCAACTGGGAGGGTACCCAGCACCAGAGCTGATGTGGCTTTCAGTGTCAATAACCTACTTGGAGACCCATTGGCTAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAGGGGAAGGACATTGTGCACAAAGAGgtgagttgtccagtcctccttccctgacagCTACACCGTTTTGTGTCTGT Alignment from Exonerate_coding2genome GTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG CTGCACCGTTTTGTGTCCGT gacactgcagacactgaatttttaattgggctttcttctcttatccctagGCTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTTTTTGATGACACAAGTGGTCGGGTATTCCAGCCAACTGGGAGGGTACCCAGCACCAGAGCTGATGTGGCTTTCAGTGTCAATAACCTACTTGGAGACCCATTGGCTAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAGGGGAAGGACATTGTGCACAAAGAGgtgagttgtccagtcctccttccctgacagCTACACCGTTTTGTGTCTGT Alignment from GeneWise GGTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG CTGCACCGTTTTGTGTCCGT gacactgcagacactgaatttttaattgggctttcttctcttatccctaGGCTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTTTTTGATGACACAAGTGGTCGGGTATTCCAGCCAACTGGGAGGGTACCCAGCACCAGAGCTGATGTGGCTTTCAGTGTCAATAACCTACTTGGAGACCCATTGGCTAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAGGGGAAGGACATTGTGCACAAAGAGgtgagttgtccagtcctccttccctgacagCTACACCGTTTTGTGTCTGT #### Yif1a_ID832_4 --> 0 - 1 Original Alignment AACTGGAAAATGCAATACAGCCAT-GATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCa gaggcaagttattttattgctcatgttgctagttttggtcatctgtgcagAACTGGAAAATGCAGTATAGCCACCGATGTGCCTCTACCTCCTCGAAAAGATCTGAATA-CCCTGACCTTTATATCCCAagtcagtgtttaccaggccagggggaatggctctccgtgccagtgatgatg Alignment from CESAR AACTGGAAAATGCAATACAGCCAT-GATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCa gaggcaagttattttattgctcatgttgctagttttggtcatctgtgcagAACTGGAAAATGCAGTATAGCCACCGATGTGCCTCTACCTCCTCGAAAAGATCTGAATA-CCCTGACCTTTATATCCCAagtcagtgtttaccaggccagggggaatggctctccgtgccagtgatgatg Alignment from Spaln_aa2Genome AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA gaggcaagttattttattgctcatgttgctagttttggtcatctgtgcagAACTGGAAAATGCAGTATAGCCACCGATGTGCCTCTACCTCCTCGAAAAGATCTGAATACCCTGACCTTTATATCCCAAgtcagtgtttaccaggccagggggaatggctctccgtgccagtgatgatg Alignment from Spaln_nt2Genome AACTGGAAAATGCAATACAGCCAT-GATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA gaggcaagttattttattgctcatgttgctagttttggtcatctgtgcagAACTGGAAAATGCAGTATAGCCACCGATGTGCCTCTACCTCCTCGAAAAGATCTGAAT-ACCCTGACCTTTATATCCCAAgtcagtgtttaccaggccagggggaatggctctccgtgccagtgatgatg Alignment from Pairagon AACTGGAAAATGCAATACAGCCA-TGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA gaggcaagttattttattgctcatgttgctagttttggtcatctgtgcagAACTGGAAAATGCAGTATAGCCACCGATGTGCCTCTACCTCCTCGAAAAGATCTGAATA-CCCTGACCTTTATATCCCAAgtcagtgtttaccaggccagggggaatggctctccgtgccagtgatgatg Alignment from Exonerate_protein2genome AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA gaggcaagttattttattgctcatgttgctagttttggtcatctgtgcagAACTGGAAAATGCAGTATAGCCACCGATGTGCCTCTACCTCCTCGAAAAGATCTGAATACCCTGACCTTTATATCCCAAgtcagtgtttaccaggccagggggaatggctctccgtgccagtgatgatg Alignment from Exonerate_coding2genome AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA gaggcaagttattttattgctcatgttgctagttttggtcatctgtgcagAACTGGAAAATGCAGTATAGCCACCGATGTGCCTCTACCTCCTCGAAAAGATCTGAATACCCTGACCTTTATATCCCAAgtcagtgtttaccaggccagggggaatggctctccgtgccagtgatgatg Alignment from GeneWise AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA gaggcaagttattttattgctcatgttgctagttttggtcatctgtgcagAACTGGAAAATGCAGTATAGCCACCGATGTGCCTCTACCTCCTCGAAAAGATCTGAATACCCTGACCTTTATATCCCAAgtcagtgtttaccaggccagggggaatggctctccgtgccagtgatgatg #### Zdhhc16_ID8345_2 --> 0 - 0 Original Alignment GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTG-TGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatatacctactctgacaactgtccaaacactggctgatttttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTACTGTGTTCTGCCACTCCTCCTTCGAACTT-CTCAGTACCCCAACTCTGCTGGCATTTTCTTTATAGTCACTGGAATCTCATTCTCATTGTCTCCCACTATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaagaactccacagtgcaagtttcaatagagacaatgctttcttgctgt Alignment from CESAR GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTG-TGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatatacctactctgacaactgtccaaacactggctgatttttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTACTGTGTTCTGCCACTCCTCCTTCGAA-CTTCTCAGTACCCCAACTCTGCTGGCATTTTCTTTATAGTCACTGGAATCTCATTCTCATTGTCTCCCACTATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaagaactccacagtgcaagtttcaatagagacaatgctttcttgctgt Alignment from Spaln_aa2Genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatatacctactctgacaactgtccaaacactggctgatttttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTACTGTGTTCTGCCACTCCTCCTTCGAACTTCTCAGTACCCCAACTCTGCTGGCATTTTCTTTATAGTCACTGGAATCTCATTCTCATTGTCTCCCACTATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaagaactccacagtgcaagtttcaatagagacaatgctttcttgctgt Alignment from Spaln_nt2Genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTG-TGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatatacctactctgacaactgtccaaacactggctgatttttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTACTGTGTTCTGCCACTCCTCCTTCGAA-CTTCTCAGTACCCCAACTCTGCTGGCATTTTCTTTATAGTCACTGGAATCTCATTCTCATTGTCTCCCACTATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaagaactccacagtgcaagtttcaatagagacaatgctttcttgctgt Alignment from Pairagon GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTG-TGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatatacctactctgacaactgtccaaacactggctgatttttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTACTGTGTTCTGCCACTCCTCCTTCGAACTT-CTCAGTACCCCAACTCTGCTGGCATTTTCTTTATAGTCACTGGAATCTCATTCTCATTGTCTCCCACTATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaagaactccacagtgcaagtttcaatagagacaatgctttcttgctgt Alignment from Exonerate_protein2genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatatacctactctgacaactgtccaaacactggctgatttttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTACTGTGTTCTGCCACTCCTCCTTCGAACTTCTCAGTACCCCAACTCTGCTGGCATTTTCTTTATAGTCACTGGAATCTCATTCTCATTGTCTCCCACTATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaagaactccacagtgcaagtttcaatagagacaatgctttcttgctgt Alignment from Exonerate_coding2genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatatacctactctgacaactgtccaaacactggctgatttttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTACTGTGTTCTGCCACTCCTCCTTCGAACTTCTCAGTACCCCAACTCTGCTGGCATTTTCTTTATAGTCACTGGAATCTCATTCTCATTGTCTCCCACTATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaagaactccacagtgcaagtttcaatagagacaatgctttcttgctgt Alignment from GeneWise GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatatacctactctgacaactgtccaaacactggctgatttttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTACTGTGTTCTGCCACTCCTCCTTCGAACTTCTCAGTACCCCAACTCTGCTGGCATTTTCTTTATAGTCACTGGAATCTCATTCTCATTGTCTCCCACTATTATCAAGCCATTGCTACTCCCCACAAATATCCACCTCAGgtaagaactccacagtgcaagtttcaatagagacaatgctttcttgctgt #### Zdhhc16_ID8350_7 --> 1 - 0 Original Alignment tTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATC-GAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG ccgagccccagcccaggagtttctggcttgtggttttgtttctattttagtTCTGTGGCCCTGGCTCTGGGCGCCCTTACCATGTGGCATGCTTTCCTGATTAGTCGGGGCAGGACTAGCATCCGAAAGGCATATCAACAAGAAGGAGAGGCGCC-GTTACAGGCCAAGGGCAGGgtaagtggccagctgggttacccagcactcatgaattcaggaaggggggg Alignment from CESAR tTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATC-GAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG ccgagccccagcccaggagtttctggcttgtggttttgtttctattttagtTCTGTGGCCCTGGCTCTGGGCGCCCTTACCATGTGGCATGCTTTCCTGATTAGTCGGGGCAGGACTAGCATCCGAAAGGCATATCAACAAGAAGGAGAGGCGCC-GTTACAGGCCAAGGGCAGGgtaagtggccagctgggttacccagcactcatgaattcaggaaggggggg Alignment from Spaln_aa2Genome TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG ccgagccccagcccaggagtttctggcttgtggttttgtttctattttagTTCTGTGGCCCTGGCTCTGGGCGCCCTTACCATGTGGCATGCTTTCCTGATTAGTCGGGGCAGGACTAGCATCCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGTTACAGGCCAAGGGCAGGgtaagtggccagctgggttacccagcactcatgaattcaggaaggggggg Alignment from Spaln_nt2Genome TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATC-GAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG ccgagccccagcccaggagtttctggcttgtggttttgtttctattttagTTCTGTGGCCCTGGCTCTGGGCGCCCTTACCATGTGGCATGCTTTCCTGATTAGTCGGGGCAGGACTAGCATCCGAAAGGCATATCAACAAGAAGGAGAGGCGCCG-TTACAGGCCAAGGGCAGGgtaagtggccagctgggttacccagcactcatgaattcaggaaggggggg Alignment from Pairagon TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCAT-CGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG ccgagccccagcccaggagtttctggcttgtggttttgtttctattttagTTCTGTGGCCCTGGCTCTGGGCGCCCTTACCATGTGGCATGCTTTCCTGATTAGTCGGGGCAGGACTAGCATCCGAAAGGCATATCAACAAGAAGGAGAGGCGCC-GTTACAGGCCAAGGGCAGGgtaagtggccagctgggttacccagcactcatgaattcaggaaggggggg Alignment from Exonerate_protein2genome TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG ccgagccccagcccaggagtttctggcttgtggttttgtttctattttagTTCTGTGGCCCTGGCTCTGGGCGCCCTTACCATGTGGCATGCTTTCCTGATTAGTCGGGGCAGGACTAGCATCCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGTTACAGGCCAAGGGCAGGgtaagtggccagctgggttacccagcactcatgaattcaggaaggggggg Alignment from Exonerate_coding2genome TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG ccgagccccagcccaggagtttctggcttgtggttttgtttctattttagTTCTGTGGCCCTGGCTCTGGGCGCCCTTACCATGTGGCATGCTTTCCTGATTAGTCGGGGCAGGACTAGCATCCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGTTACAGGCCAAGGGCAGGgtaagtggccagctgggttacccagcactcatgaattcaggaaggggggg Alignment from GeneWise TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG ccgagccccagcccaggagtttctggcttgtggttttgtttctattttagTTCTGTGGCCCTGGCTCTGGGCGCCCTTACCATGTGGCATGCTTTCCTGATTAGTCGGGGCAGGACTAGCATCCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGTTACAGGCCAAGGGCAGGgtaagtggccagctgggttacccagcactcatgaattcaggaaggggggg #### Zdhhc6_ID11621_8 --> 0 - 2 Original Alignment GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGTGAGA-ACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGcg tggggtgtcaaaggggtccaccatggtgagaacaccttatttcactgcagGTTCACTATAAGTTTATAGATGACTACAATGGTGCTAGCTGCCCATTGAATAGAGGAGTGAGACACCTTCTTTACAAGCCCCTGTACA---GAGCCCC-AGTCCGGCTACAGCAAGGTGAATTCATACTAGCAATGAGGGGGTTGaggtacgaggagggggttctttatcaagaaactgaaaatcctgtgcttttgc Alignment from CESAR GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGTGAGA-ACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGcg tggggtgtcaaaggggtccaccatggtgagaacaccttatttcactgcagGTTCACTATAAGTTTATAGATGACTACAATGGTGCTAGCTGCCCATTGAATAGAGGAGTGAGACACCTTCTTTACAAGCCCCTGTACA---GAGCCCC-AGTCCGGCTACAGCAAGGTGAATTCATACTAGCAATGAGGGGGTTGaggtacgaggagggggttctttatcaagaaactgaaactttgtgcttttgtt Alignment from Spaln_aa2Genome GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGCG tggggtgtcaaaggggtccaccatggtgagaacaccttatttcactgcagGTTCACTATAAGTTTATAGATGACTACAATGGTGCTAGCTGCCCATTGAATAGAGGAGTGAGACACCTTCTTTACAAGCCCCTGTACAGAGCCCCA---GTCCGGCTACAGCAAGGTGAATTCATACTAGCAATGAGGGGGTTGAGgtacgaggagggggttctttatcaagaaactgaaaatcctgtgcttttgc Alignment from Spaln_nt2Genome GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGTGAGA-ACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGCG tggggtgtcaaaggggtccaccatggtgagaacaccttatttcactgcagGTTCACTATAAGTTTATAGATGACTACAATGGTGCTAGCTGCCCATTGAATAGAGGAGTGAGACACCTTCTTTACAAGCCCCTGTAC---AGAGCCCCAG-TCCGGCTACAGCAAGGTGAATTCATACTAGCAATGAGGGGGTTGAGgtacgaggagggggttctttatcaagaaactgaaaatcctgtgcttttgc Alignment from Pairagon GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGTGAGA-ACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGCG tggggtgtcaaaggggtccaccatggtgagaacaccttatttcactgcagGTTCACTATAAGTTTATAGATGACTACAATGGTGCTAGCTGCCCATTGAATAGAGGAGTGAGACACCTTCTTTACAAGCCCCTGTACAGAG----CCCCAGTCCGGCTACAGCAAGGTGAATTCATACTAGCAATGAGGGGGTTGAGgtacgaggagggggttctttatcaagaaactgaaaatcctgtgcttttgc Alignment from Exonerate_protein2genome GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGCG tggggtgtcaaaggggtccaccatggtgagaacaccttatttcactgcagGTTCACTATAAGTTTATAGATGACTACAATGGTGCTAGCTGCCCATTGAATAGAGGAGTGAGACACCTTCTTTACAAGCCCCTGTACAGAGCCCCA---GTCCGGCTACAGCAAGGTGAATTCATACTAGCAATGAGGGGGTTGAGgtacgaggagggggttctttatcaagaaactgaaaatcctgtgcttttgc Alignment from Exonerate_coding2genome tggggtgtcaaaggggtccaccatggtgagaacaccttatttcactgcaggttcactataagtttatagatgactacaatggtgctagctgcccattgaatagaggagtgagacaccttctttacaagcccctgtacagagccccagtccggctacagcaaggtgaattcatactagcaatgagggggttgaggtacgaggagggggttctttatcaagaaactgaaaatcctgtgcttttgc Alignment from GeneWise GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTG---------------------------------------------------- tggggtgtcaaaggggtccaccatggtgagaacaccttatttcactgcagGTTCACTATAAGTTTATAGATGACTACAATGGTGCTAGCTGCCCATTGAATAGAGGAGTGAGACACCTTCTTTACAAGCCCCTGTACAGAGCCCCA---GTCCGGCTACAGCAAGGTGAATTCATACTAGCAATGAGGGGGTTGAGGTACGAGGAGGGGGTTCTTTATCAAGAAACTGAAAATCCTGTGCTTTTGC #### Zp1_ID3061_11 --> 2 - 1 Original Alignment ggCGTCGACGATCCTCTGGTCACCACAACATC-ACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAg attttgatgccctccatgggccttgttaactggtatcttctgtttaacagagCGTCGACGGTTCCCAGGGCATCACAACATCCACTCTCCGAGCCCTGGAAATTGTAAGCTCCC-AGGCACAGTGGACTTTGAGGATGCAGCCACACTTAAGCCTTTAggtgagtatgtgtcagtgttctttatgggggagagctcaggtcaaccagga Alignment from CESAR ggCGTCGACGATCCTCTGGTCACCACAACATC-ACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAg attttgatgccctccatgggccttgttaactggtatcttctgtttaacagagCGTCGACGGTTCCCAGGGCATCACAACATCCACTCTCCGAGCCCTGGAAATTGTAAGCT-CCCAGGCACAGTGGACTTTGAGGATGCAGCCACACTTAAGCCTTTAggtgagtatgtgtcagtgttctttatgggggagagctcaggtcaaccagga Alignment from Spaln_aa2Genome GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG attttgatgccctccatgggccttgttaactggtatcttctgtttaacagAGCGTCGACGGTTCCCAGGGCATCACAACATCCACTCTCCGAGCCCTGGAAATTGTAAGCTCCCAGGCACAGTGGACTTTGAGGATGCAGCCACACTTAAGCCTTTAGgtgagtatgtgtcagtgttctttatgggggagagctcaggtcaaccagga Alignment from Spaln_nt2Genome GGCGTCGACGATCCTCTGGTCACCACAACATC-ACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG attttgatgccctccatgggccttgttaactggtatcttctgtttaacagAGCGTCGACGGTTCCCAGGGCATCACAACATCCACTCTCCGAGCCCTGGAAATTGTAAGCTC-CCAGGCACAGTGGACTTTGAGGATGCAGCCACACTTAAGCCTTTAGgtgagtatgtgtcagtgttctttatgggggagagctcaggtcaaccagga Alignment from Pairagon GGCGTCGACGATCCTCTGGTCACCACAACAT-CACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG attttgatgccctccatgggccttgttaactggtatcttctgtttaacagAGCGTCGACGGTTCCCAGGGCATCACAACATCCACTCTCCGAGCCCTGGAAATTGTAAGCTC-CCAGGCACAGTGGACTTTGAGGATGCAGCCACACTTAAGCCTTTAGgtgagtatgtgtcagtgttctttatgggggagagctcaggtcaaccagga Alignment from Exonerate_protein2genome GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG attttgatgccctccatgggccttgttaactggtatcttctgtttaacagAGCGTCGACGGTTCCCAGGGCATCACAACATCCACTCTCCGAGCCCTGGAAATTGTAAGCTCCCAGGCACAGTGGACTTTGAGGATGCAGCCACACTTAAGCCTTTAGgtgagtatgtgtcagtgttctttatgggggagagctcaggtcaaccagga Alignment from Exonerate_coding2genome GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG attttgatgccctccatgggccttgttaactggtatcttctgtttaacagAGCGTCGACGGTTCCCAGGGCATCACAACATCCACTCTCCGAGCCCTGGAAATTGTAAGCTCCCAGGCACAGTGGACTTTGAGGATGCAGCCACACTTAAGCCTTTAGgtgagtatgtgtcagtgttctttatgggggagagctcaggtcaaccagga Alignment from GeneWise GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG attttgatgccctccatgggccttgttaactggtatcttctgtttaacagAGCGTCGACGGTTCCCAGGGCATCACAACATCCACTCTCCGAGCCCTGGAAATTGTAAGCTCCCAGGCACAGTGGACTTTGAGGATGCAGCCACACTTAAGCCTTTAGgtgagtatgtgtcagtgttctttatgggggagagctcaggtcaaccagga #### Zp1_ID3063_9 --> 1 - 0 Original Alignment gTGTCCTTTCAAGGGTGACAACTACAGAACACAAGTAGTGGCCGCAGACAGGGAGGCGCTTCCC-TTCTGGTCCCACTATCAGCGCTTCACCATCACCACCTTCATGCTCCTTGACTCCAGCTCCCAGAATGCCCTTAGGGGACAG acgacactgggcagcctgtgaaagggctccctcccccgtgtggctgccagaTGTCCTTTCAAGGGTGTTAATTATAGAACACAAGTAGTGGCTGCTGATCGGGAAGCAATTCCCCTTCTGGTCCCATTCTCAGCATTTCACAATTACCACCT-CATGCTTTTTGATGCCAGCTCCCAGAATGCTCTCAGGGGTCAAgtgagtaactacctacctatgtgccatcgaagatcagcattgagatctct Alignment from CESAR gTGTCCTTTCAAGGGTGACAACTACAGAACACAAGTAGTGGCCGCAGACAGGGAGGCGCTTCCC-TTCTGGTCCCACTATCAGCGCTTCACCATCACCACCTTCATGCTCCTTGACTCCAGCTCCCAGAATGCCCTTAGGGGACAG acgacactgggcagcctgtgaaagggctccctcccccgtgtggctgccagaTGTCCTTTCAAGGGTGTTAATTATAGAACACAAGTAGTGGCTGCTGATCGGGAAGCAATTCCCCTTCTGGTCCCATTCTCAGCATTTCACAATTACCA-CCTCATGCTTTTTGATGCCAGCTCCCAGAATGCTCTCAGGGGTCAAgtgagtaactacctacctatgtgccatcgaagatcagcattgagatctct Alignment from Spaln_aa2Genome GTGTCCTTTCAAGGGTGACAACTACAGAACACAAGTAGTGGCCGCAGACAGGGAGGCGCTTCCCTTCTGGTCCCACTATCAGCGCTTCACCATCACCACCTTCATGCTCCTTGACTCCAGCTCCCAGAATGCCCTTAGGGGACAG acgacactgggcagcctgtgaaagggctccctcccccgtgtggctgccagATGTCCTTTCAAGGGTGTTAATTATAGAACACAAGTAGTGGCTGCTGATCGGGAAGCAATTCCCCTTCTGGTCCCATTCTCAGCATTTCACAATTACCACCTCATGCTTTTTGATGCCAGCTCCCAGAATGCTCTCAGGGGTCAAgtgagtaactacctacctatgtgccatcgaagatcagcattgagatctct Alignment from Spaln_nt2Genome GTGTCCTTTCAAGGGTGACAACTACAGAACACAAGTAGTGGCCGCAGACAGGGAGGCGCTTCCC-TTCTGGTCCCACTATCAGCGCTTCACCATCACCACCTTCATGCTCCTTGACTCCAGCTCCCAGAATGCCCTTAGGGGACAG acgacactgggcagcctgtgaaagggctccctcccccgtgtggctgccagATGTCCTTTCAAGGGTGTTAATTATAGAACACAAGTAGTGGCTGCTGATCGGGAAGCAATTCCCCTTCTGGTCCCATTCTCAGCATTTCACAATTACCACC-TCATGCTTTTTGATGCCAGCTCCCAGAATGCTCTCAGGGGTCAAgtgagtaactacctacctatgtgccatcgaagatcagcattgagatctct Alignment from Pairagon GTGTCCTTTCAAGGGTGACAACTACAGAACACAAGTAGTGGCCGCAGACAGGGAGGCGCTT-CCCTTCTGGTCCCACTATCAGCGCTTCACCATCACCACCTTCATGCTCCTTGACTCCAGCTCCCAGAATGCCCTTAGGGGACAG acgacactgggcagcctgtgaaagggctccctcccccgtgtggctgccagATGTCCTTTCAAGGGTGTTAATTATAGAACACAAGTAGTGGCTGCTGATCGGGAAGCAATTCCCCTTCTGGTCCCATTCTCAGCATTTCACAATTACCACC-TCATGCTTTTTGATGCCAGCTCCCAGAATGCTCTCAGGGGTCAAgtgagtaactacctacctatgtgccatcgaagatcagcattgagatctct Alignment from Exonerate_protein2genome GTGTCCTTTCAAGGGTGACAACTACAGAACACAAGTAGTGGCCGCAGACAGGGAGGCGCTTCCCTTCTGGTCCCACTATCAGCGCTTCACCATCACCACCTTCATGCTCCTTGACTCCAGCTCCCAGAATGCCCTTAGGGGACAG acgacactgggcagcctgtgaaagggctccctcccccgtgtggctgccagATGTCCTTTCAAGGGTGTTAATTATAGAACACAAGTAGTGGCTGCTGATCGGGAAGCAATTCCCCTTCTGGTCCCATTCTCAGCATTTCACAATTACCACCTCATGCTTTTTGATGCCAGCTCCCAGAATGCTCTCAGGGGTCAAgtgagtaactacctacctatgtgccatcgaagatcagcattgagatctct Alignment from Exonerate_coding2genome GTGTCCTTTCAAGGGTGACAACTACAGAACACAAGTAGTGGCCGCAGACAGGGAGGCGCTTCCCTTCTGGTCCCACTATCAGCGCTTCACCATCACCACCTTCATGCTCCTTGACTCCAGCTCCCAGAATGCCCTTAGGGGACAG acgacactgggcagcctgtgaaagggctccctcccccgtgtggctgccagATGTCCTTTCAAGGGTGTTAATTATAGAACACAAGTAGTGGCTGCTGATCGGGAAGCAATTCCCCTTCTGGTCCCATTCTCAGCATTTCACAATTACCACCTCATGCTTTTTGATGCCAGCTCCCAGAATGCTCTCAGGGGTCAAgtgagtaactacctacctatgtgccatcgaagatcagcattgagatctct Alignment from GeneWise GTGTCCTTTCAAGGGTGACAACTACAGAACACAAGTAGTGGCCGCAGACAGGGAGGCGCTTCCCTTCTGGTCCCACTATCAGCGCTTCACCATCACCACCTTCATGCTCCTTGACTCCAGCTCCCAGAATGCCCTTAGGGGACAG acgacactgggcagcctgtgaaagggctccctcccccgtgtggctgccagATGTCCTTTCAAGGGTGTTAATTATAGAACACAAGTAGTGGCTGCTGATCGGGAAGCAATTCCCCTTCTGGTCCCATTCTCAGCATTTCACAATTACCACCTCATGCTTTTTGATGCCAGCTCCCAGAATGCTCTCAGGGGTCAAgtgagtaactacctacctatgtgccatcgaagatcagcattgagatctct #### Zp1_ID3064_8 --> 2 - 2 Original Alignment atAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCA-GTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATgg gccgcttgaaatgcagcctggcattagacatcgcccctcctccctccaagatAAAACTTTCAGCTCCTTCTATCAAGGAGGCGAATACCCCCTCTTAAGACTGCTGCAGAAACCACGCCTATGTGCAGGTGCGGCTCCTGCAGAAAACT---GCTG-TCTAGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAGC---TTAGATCAGCCTCAATGGCCAATTCTGTCAGATgcgtaagtcgtaaacggagaatgtcccacatacagggtttgcatgctttgta Alignment from CESAR atAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCA-GTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATgg gccgcttgaaatgcagcctggcattagacatcgcccctcctccctccaagatAAAACTTTCAGCTCCTTCTATCAAGGAGGCGAATACCCCCTCTTAAGACTGCTGCAGAAACCACGCCTATGTGCAGGTGCGGCTCCTGCAGAAAACT---GCT-GTCTAGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAGC---TTAGATCAGCCTCAATGGCCAATTCTGTCAGATgcgtaagtcgtaaacggagaatgtcccacatacagggtttgcatgctttgta Alignment from Spaln_aa2Genome ATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCA-GTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG gccgcttgaaatgcagcctggcattagacatcgcccctcctccctccaagATAAAACTTTCAGCTCCTTCTATCAAGGAGGCGAATACCCCCTCTTAAGACTGCTGCAGAAACCAcGCCTATGTGCAGGTGCGGCTCCTGCAGAAAACTGC----TGTCTAGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAGC---TTAGATCAGCCTCAATGGCCAATTCTGTCAGATGCgtaagtcgtaaacggagaatgtcccacatacagggtttgcatgctttgta Alignment from Spaln_nt2Genome ATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCA-GTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG gccgcttgaaatgcagcctggcattagacatcgcccctcctccctccaagATAAAACTTTCAGCTCCTTCTATCAAGGAGGCGAATACCCCCTCTTAAGACTGCTGCAGAAACCACGCCTATGTGCAGGTGCGGCTCCTGCAGAAAACTG----CTGTCTAGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAG---CTTAGATCAGCCTCAATGGCCAATTCTGTCAGATGCgtaagtcgtaaacggagaatgtcccacatacagggtttgcatgctttgta Alignment from Pairagon ATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCA-GTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG gccgcttgaaatgcagcctggcattagacatcgcccctcctccctccaagATAAAACTTTCAGCTCCTTCTATCAAGGAGGCGAATACCCCCTCTTAAGACTGCTGCAGAAACCACGCCTATGTGCAGGTGCGGCTCCTGCAGAAAACTGCT----GTCTAGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAG---CTTAGATCAGCCTCAATGGCCAATTCTGTCAGATGCgtaagtcgtaaacggagaatgtcccacatacagggtttgcatgctttgta Alignment from Exonerate_protein2genome ATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG gccgcttgaaatgcagcctggcattagacatcgcccctcctccctccaagATAAAACTTTCAGCTCCTTCTATCAAGGAGGCGAATACCCCCTCTTAAGACTGCTGCAGAAACCA---CGCCTATGTGCAGGTGCGGCTCCTGCAGAAAACTGCTGTCTAGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAGC---TTAGATCAGCCTCAATGGCCAATTCTGTCAGATGCgtaagtcgtaaacggagaatgtcccacatacagggtttgcatgctttgta Alignment from Exonerate_coding2genome ATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG gccgcttgaaatgcagcctggcattagacatcgcccctcctccctccaagATAAAACTTTCAGCTCCTTCTATCAAGGAGGCGAATACCCCCTCTTAAGACTGCTGCAGAAACCA---CGCCTATGTGCAGGTGCGGCTCCTGCAGAAAACTGCTGTCTAGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAGC---TTAGATCAGCCTCAATGGCCAATTCTGTCAGATGCgtaagtcgtaaacggagaatgtcccacatacagggtttgcatgctttgta Alignment from GeneWise -------------------------------------------------GATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGT------------CTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG GCCGCTTGAAATGCAGCCTGGCATTAGACATCGCCCCTCCTCCCTCCAAGATAAAACTTTCAGCTCCTTCTATCAAGGAGGCGAATACCCCCTCTTAAGACTGCTGCAGAAACCA---------------CGCCTATGTGCAGGTGCGGCTCCTGCAGAAAACTGCTGTCTAGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAGC---TTAGATCAGCCTCAATGGCCAATTCTGTCAGATGCgtaagtcgtaaacggagaatgtcccacatacagggtttgcatgctttgta #### Zp1_ID3067_5 --> 2 - 0 Original Alignment tcACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGAC-AATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG acaccctaaggcagggagacttgattaaccctgtccccacactgccctagtcACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACTCAAGGTGTCCTGTTAGACCAAT------GTGGCCTATATACCCAACACCTGCC-ACCTACCCAAGAGACAAGTGCTTTTGTCGCTTTCCATGTCCCTCTTGCCCTTTGTGGGACAGCAATCCAGgtacagatgtcctcttgttagtgtacagcattaccaaggtcctaagactt Alignment from CESAR tcACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGAC-AATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG acaccctaaggcagggagacttgattaaccctgtccccacactgccctagtcACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACTCAAGGTGTCCTGTTAGACCAATGTG------GCCTATATACCCAACACCT-GCCACCTACCCAAGAGACAAGTGCTTTTGTCGCTTTCCATGTCCCTCTTGCCCTTTGTGGGACAGCAATCCAGgtacagatgtcctcttgttagtgtacagcattaccaaggtcctaagactt Alignment from Spaln_aa2Genome TCACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG acaccctaaggcagggagacttgattaaccctgtccccacactgccctagTCACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACTCAAGGTGTCCTGTTAGACCAATGTGGCCTA---TATACCCAACAC---CTGCCACCTACCCAAGAGACAAGTGCTTTTGTCGCTTTCCATGTCCCTCTTGCCCTTTGTGGGACAGCAATCCAGgtacagatgtcctcttgttagtgtacagcattaccaaggtcctaagactt Alignment from Spaln_nt2Genome TCACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG acaccctaaggcagggagacttgattaaccctgtccccacactgccctagTCACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACTCAAGGTGTCCTGTTAGAC-----CAATGTGGCCTATATACCCAACACCTG-CCACCTACCCAAGAGACAAGTGCTTTTGTCGCTTTCCATGTCCCTCTTGCCCTTTGTGGGACAGCAATCCAGgtacagatgtcctcttgttagtgtacagcattaccaaggtcctaagactt Alignment from Pairagon TCACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGA-CAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG acaccctaaggcagggagacttgattaaccctgtccccacactgccctagTCACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACTCAAGGTGTCCTGTTAGACCAATG------TGGCCTATATACCCAACACCTG-CCACCTACCCAAGAGACAAGTGCTTTTGTCGCTTTCCATGTCCCTCTTGCCCTTTGTGGGACAGCAATCCAGgtacagatgtcctcttgttagtgtacagcattaccaaggtcctaagactt Alignment from Exonerate_protein2genome TCACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG acaccctaaggcagggagacttgattaaccctgtccccacactgccctagTCACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACTCAAGGTGTCCTGTTAGACCAATGTGGCCTA---TATACCCAACAC---CTGCCACCTACCCAAGAGACAAGTGCTTTTGTCGCTTTCCATGTCCCTCTTGCCCTTTGTGGGACAGCAATCCAGgtacagatgtcctcttgttagtgtacagcattaccaaggtcctaagactt Alignment from Exonerate_coding2genome TCACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG acaccctaaggcagggagacttgattaaccctgtccccacactgccctagTCACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACTCAAGGTGTCCTGTTAGACCAATGTGGCCTA---TATACCCAACAC---CTGCCACCTACCCAAGAGACAAGTGCTTTTGTCGCTTTCCATGTCCCTCTTGCCCTTTGTGGGACAGCAATCCAGgtacagatgtcctcttgttagtgtacagcattaccaaggtcctaagactt Alignment from GeneWise TCACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG acaccctaaggcagggagacttgattaaccctgtccccacactgccctagTCACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACTCAAGGTGTCCTGTTAGACCAATGTGGCCTA---TATACCCAACAC---CTGCCACCTACCCAAGAGACAAGTGCTTTTGTCGCTTTCCATGTCCCTCTTGCCCTTTGTGGGACAGCAATCCAGgtacagatgtcctcttgttagtgtacagcattaccaaggtcctaagactt #### Zp1_ID3069_3 --> 0 - 1 Original Alignment GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTAC-CCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAg ctcagcagaagcattatccagtagatcacctcttcctcttttgttataagGATGGACGTTTCCACCTGAGGGTTTTTGTACAAGCTGTCTTGACAAATAGCCCTGTAGACATCGCACAAGATGTTACACTGATCTGCCCCAAACCAGATCACACCGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTTCACCCTATCCCTGAG---------GCTGGGGCTGGACAT------ATTACTATGTTGTACCCCAGAACAAAGCTTCAAGCATCAAACTCCTGCACCACCCTCAC-AGGACTTGGGCCTACAGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGCGGACTGAGTTAGACTCTGTGggtgaggcagtctaaaattttgtgtaaactgagttttatggccctgtgatc Alignment from CESAR GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTAC-CCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAg ctcagcagaagcattatccagtagatcacctcttcctcttttgttataagGATGGACGTTTCCACCTGAGGGTTTTTGTACAAGCTGTCTTGACAAATAGCCCTGTAGACATCGCACAAGATGTTACACTGATCTGCCCCAAACCAGATCACACCGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTTCACCCTATCCCTGAG---------GCTGGGGCTGGACAT------ATTACTATGTTGTACCCCAGAACAAAGCTTCAAGCATCAAACTCCTGCACCACCCTCA-CAGGACTTGGGCCTACAGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGCGGACTGAGTTAGACTCTGTGggtgaggcagtctaaaattttgtgtaaactgagttttatggccctgtgatc Alignment from Spaln_aa2Genome GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTAC-CCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG ctcagcagaagcattatccagtagatcacctcttcctcttttgttataagGATGGACGTTTCCACCTGAGGGTTTTTGTACAAGCTGTCTTGACAAATAGCCCTGTAGACATCGCACAAGATGTTACACTGATCTGCCCCAAACCAGATCACACCGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTTCACCCTATCCCTGAG---------GCTGGGGCTGGACAT------ATTACTATGTTGTACcCCAGAACAAAGCTTCAAGCATCAAACTCCTGCACCACCCTCACA-GGACTTGGGCCTACAGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGCGGACTGAGTTAGACTCTGTGGgtgaggcagtctaaaattttgtgtaaactgagttttatggccctgtgatc Alignment from Spaln_nt2Genome GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCC-AGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG ctcagcagaagcattatccagtagatcacctcttcctcttttgttataagGATGGACGTTTCCACCTGAGGGTTTTTGTACAAGCTGTCTTGACAAATAGCCCTGTAGACATCGCACAAGATGTTACACTGATCTGCCCCAAACCAGATCACACCGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTTCACCCTATCCCTGA---------GGCTGGGGCTGGACA------TATTACTATGTTGTACCCCAGAACAAAGCTTCAAGCATCAAACTCCTGCACCACCCTCAC-AGGACTTGGGCCTACAGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGCGGACTGAGTTAGACTCTGTGGgtgaggcagtctaaaattttgtgtaaactgagttttatggccctgtgatc Alignment from Pairagon GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTA-CCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG ctcagcagaagcattatccagtagatcacctcttcctcttttgttataagGATGGACGTTTCCACCTGAGGGTTTTTGTACAAGCTGTCTTGACAAATAGCCCTGTAGACATCGCACAAGATGTTACACTGATCTGCCCCAAACCAGATCACACCGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTTCACCCTATCCCTGA---------GGCTGGGGCTGGACATA------TTACTATGTTGTACCCCAGAACAAAGCTTCAAGCATCAAACTCCTGCACCACCCTCAC-AGGACTTGGGCCTACAGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGCGGACTGAGTTAGACTCTGTGGgtgaggcagtctaaaattttgtgtaaactgagttttatggccctgtgatc Alignment from Exonerate_protein2genome GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG ctcagcagaagcattatccagtagatcacctcttcctcttttgttataagGATGGACGTTTCCACCTGAGGGTTTTTGTACAAGCTGTCTTGACAAATAGCCCTGTAGACATCGCACAAGATGTTACACTGATCTGCCCCAAACCAGATCACACCGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTTCACCCTATCCCTGAG---------GCTGGGGCTGGACAT------ATTACTATGTTGTACCCCAGAACAAAGCTTCAAGCATCAAACTCCTGCACCACCCTCACAGGACTTGGGCCTACAGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGCGGACTGAGTTAGACTCTGTGGgtgaggcagtctaaaattttgtgtaaactgagttttatggccctgtgatc Alignment from Exonerate_coding2genome GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG ctcagcagaagcattatccagtagatcacctcttcctcttttgttataagGATGGACGTTTCCACCTGAGGGTTTTTGTACAAGCTGTCTTGACAAATAGCCCTGTAGACATCGCACAAGATGTTACACTGATCTGCCCCAAACCAGATCACACCGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTTCACCCTATCCCTGAG---------GCTGGGGCTGGACATATTACTATG-----TTGTACCCCAGAACAAAGCTTCAAGCATCAAACTCCTGCACCACCCTC-ACAGGACTTGGGCCTACAGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGCGGACTGAGTTAGACTCTGTGGgtgaggcagtctaaaattttgtgtaaactgagttttatggccctgtgatc Alignment from GeneWise GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG ctcagcagaagcattatccagtagatcacctcttcctcttttgttataagGATGGACGTTTCCACCTGAGGGTTTTTGTACAAGCTGTCTTGACAAATAGCCCTGTAGACATCGCACAAGATGTTACACTGATCTGCCCCAAACCAGATCACACCGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTTCACCCTATCCCTGAG---------GCTGGGGCTGGACAT------ATTACTATGTTGTACCCCAGAACAAAGCTTCAAGCATCAAACTCCTGCACCACCCTCACAGGACTTGGGCCTACAGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGCGGACTGAGTTAGACTCTGTGGgtgaggcagtctaaaattttgtgtaaactgagttttatggccctgtgatc ####